Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 10 of 103
Found at i:3897676 original size:78 final size:77
Alignment explanation
Indices: 3897518--3897684 Score: 183
Period size: 78 Copynumber: 2.2 Consensus size: 77
3897508 TTTGAGAGAG
* * * ** * *
3897518 ACATCTTGTGTTTTAGATTTGCTTTTCCCCAGTTACCCCACTGAGTTTGCTTCATTGTATTGGTC
1 ACATCTTGTGTTTTAGATTTGCTTTCCCCCAATCACAACACTCAGTTTGCTTCATTGTATTAGTC
*
3897583 ACAACTGCTGTA
66 ACAACTGCTGCA
* * *
3897595 ACATCTTGTGTTTTAGATTTGCTTGTCCCCCAATCACAATAGTCATTTTGCTTCATTGT-TCTAG
1 ACATCTTGTGTTTTAGATTTGCTT-TCCCCCAATCACAACACTCAGTTTGCTTCATTGTAT-TAG
* *
3897659 TCACAGCTTCTGCA
64 TCACAACTGCTGCA
*
3897673 ACATCATGTGTT
1 ACATCTTGTGTT
3897685 GCAAATATGA
Statistics
Matches: 74, Mismatches: 14, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
77 25 0.34
78 49 0.66
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (77 bp):
ACATCTTGTGTTTTAGATTTGCTTTCCCCCAATCACAACACTCAGTTTGCTTCATTGTATTAGTC
ACAACTGCTGCA
Found at i:3901232 original size:118 final size:117
Alignment explanation
Indices: 3900970--3901331 Score: 470
Period size: 117 Copynumber: 3.1 Consensus size: 117
3900960 AACAAGAGGC
* * * * *
3900970 GAATTGCACAAGTCACGCTCCACCACTCTCGTAATACATAACAGTAGGTCACGCAATATATAAAA
1 GAATTGCACAAGTCACGCGCCACCACTCTTGCAATACATAACAATAGGTCAC-TAATATATAAAA
* * *
3901035 ACCAGTCACGCAAG-CTTAAAAACTACTAAACAAAAGCCTCAAAACAACACAT
65 ACCAGTCATGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACAT
* *
3901087 GAATTGCACAAGTCACGCGCCAACACTCTTGCAATACATAACAACAGGTCACATAATATATAAAA
1 GAATTGCACAAGTCACGCGCCACCACTCTTGCAATACATAACAATAGGTCAC-TAATATATAAAA
* *
3901152 ACCAGTCATGCAAGCCTAAAAAACTACTGAACAAAAACCTCTAAACAACACAT
65 ACCAGTCATGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACAT
*
3901205 GAATTGCACAAGTCACGCGCCACCACTC-T-C---AC-T-ACAATAGGTAACTCAATATATAAAA
1 GAATTGCACAAGTCACGCGCCACCACTCTTGCAATACATAACAATAGGTCACT-AATATATAAAA
* * * *
3901263 ACCAGTCATGCACTGCCTAAAAAACTATTGAACAAAAGCTTCAAAATAACACAT
65 ACCAGTCATGCA-AGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACAT
*
3901317 GAATTACACAAGTCA
1 GAATTGCACAAGTCA
3901332 GTCACGCACC
Statistics
Matches: 219, Mismatches: 23, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
110 1 0.00
111 33 0.15
112 50 0.23
113 2 0.01
116 1 0.00
117 71 0.32
118 61 0.28
ACGTcount: A:0.44, C:0.26, G:0.11, T:0.19
Consensus pattern (117 bp):
GAATTGCACAAGTCACGCGCCACCACTCTTGCAATACATAACAATAGGTCACTAATATATAAAAA
CCAGTCATGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACAT
Found at i:3902718 original size:40 final size:40
Alignment explanation
Indices: 3902674--3902785 Score: 152
Period size: 40 Copynumber: 2.8 Consensus size: 40
3902664 GGTAGCTAAA
*
3902674 GTCACGCAATGCTCAACAAATATTCAGTCTCGCTATGCCT
1 GTCACGCAATGCTCAACAAATATTCAGTCACGCTATGCCT
* * *
3902714 GTCACGCACTGCTCAACAAATATTTAGTCACGTTATGCCT
1 GTCACGCAATGCTCAACAAATATTCAGTCACGCTATGCCT
* ** *
3902754 GTCACGTAACACTCAATAAATATTCAGTCACG
1 GTCACGCAATGCTCAACAAATATTCAGTCACG
3902786 TAATGCTATA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (40 bp):
GTCACGCAATGCTCAACAAATATTCAGTCACGCTATGCCT
Found at i:3902967 original size:118 final size:117
Alignment explanation
Indices: 3902732--3902969 Score: 334
Period size: 117 Copynumber: 2.0 Consensus size: 117
3902722 CTGCTCAACA
* * * * * *
3902732 AATATTTAGTCACGTTATGCCTGTCACGTAACACTCAATAAATATTCAGTCACGTAATGCTATAA
1 AATATTCAATCACGTAATGCCTGTCACGCAACACTCAACAAATATTCAGTAACGTAATGCTATAA
* * *
3902797 AGAACTCATGCAATGTTCAACAAATATTTAGTCACGTAATATTCAAGCACCT
66 AGAACTCACGCAATGCTCAACAAATATTCAGTCACGTAATATTCAAGCACCT
* * *
3902849 AATATTCAATCACGTAATGTCTGTCACGCAACGCTCAACAAATATTCAGTAATGTAATGCCTATA
1 AATATTCAATCACGTAATGCCTGTCACGCAACACTCAACAAATATTCAGTAACGTAATG-CTATA
*
3902914 AAGAACTCACGCAATGCTCAA-AAAGTATTCAGTCACGTAATATTCAGGCACCT
65 AAGAACTCACGCAATGCTCAACAAA-TATTCAGTCACGTAATATTCAAGCACCT
3902967 AAT
1 AAT
3902970 GTCAAATAAA
Statistics
Matches: 106, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
117 53 0.50
118 53 0.50
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (117 bp):
AATATTCAATCACGTAATGCCTGTCACGCAACACTCAACAAATATTCAGTAACGTAATGCTATAA
AGAACTCACGCAATGCTCAACAAATATTCAGTCACGTAATATTCAAGCACCT
Found at i:3906196 original size:33 final size:33
Alignment explanation
Indices: 3906158--3906234 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
3906148 TTTGTAATGT
3906158 TACAAT-TAA-AATAAAAACTATTAAAATAAAATA
1 TACAATATAAGAATAAAAA--ATTAAAATAAAATA
* *
3906191 TACAATATAAGAATCAGAAATTAAAATAAAATA
1 TACAATATAAGAATAAAAAATTAAAATAAAATA
3906224 -A-AATATAAGAA
1 TACAATATAAGAA
3906235 ATTAAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
31 10 0.25
32 1 0.03
33 20 0.50
34 3 0.08
35 6 0.15
ACGTcount: A:0.66, C:0.05, G:0.04, T:0.25
Consensus pattern (33 bp):
TACAATATAAGAATAAAAAATTAAAATAAAATA
Found at i:3906313 original size:26 final size:29
Alignment explanation
Indices: 3906284--3906353 Score: 74
Period size: 33 Copynumber: 2.4 Consensus size: 29
3906274 AATATATAAT
3906284 ATAAAAAATATAT-T-A-AAGAAATGAAA
1 ATAAAAAATATATATAATAAGAAATGAAA
3906310 ATAAAATATATAATATCATAATAAGAAATGAAA
1 ATAAAA-A-AT-ATAT-ATAATAAGAAATGAAA
*
3906343 ATAAAATATAT
1 ATAAAAAATAT
3906354 GACATTAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
26 6 0.17
27 1 0.03
28 2 0.06
29 4 0.11
30 2 0.06
31 3 0.08
32 1 0.03
33 17 0.47
ACGTcount: A:0.66, C:0.01, G:0.06, T:0.27
Consensus pattern (29 bp):
ATAAAAAATATATATAATAAGAAATGAAA
Found at i:3906317 original size:40 final size:39
Alignment explanation
Indices: 3906257--3906370 Score: 116
Period size: 40 Copynumber: 3.0 Consensus size: 39
3906247 ATAATATAGG
* * *
3906257 TAAAAAAATTAAAACAAAATATATAATATAAAAAATATAT
1 TAAAGAAATGAAAATAAAATATATAATAT-AAAAATATAT
*
3906297 TAAAGAAATGAAAATAAAATATATAATAT---CATA-A-
1 TAAAGAAATGAAAATAAAATATATAATATAAAAATATAT
3906331 T-AAGAAATGAAAATAAAATATATGACAT-TAAAAATATAT
1 TAAAGAAATGAAAATAAAATATAT-A-ATATAAAAATATAT
3906370 T
1 T
3906371 TAAAAGATGA
Statistics
Matches: 62, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
33 22 0.35
34 3 0.05
35 3 0.05
36 3 0.05
37 3 0.05
38 1 0.02
39 1 0.02
40 26 0.42
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (39 bp):
TAAAGAAATGAAAATAAAATATATAATATAAAAATATAT
Found at i:3906596 original size:15 final size:15
Alignment explanation
Indices: 3906576--3906606 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3906566 TCCTGTAGTC
*
3906576 ACATTACTTATAATT
1 ACATTACCTATAATT
3906591 ACATTACCTATAATT
1 ACATTACCTATAATT
3906606 A
1 A
3906607 AATTGTATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (15 bp):
ACATTACCTATAATT
Found at i:3907422 original size:23 final size:24
Alignment explanation
Indices: 3907396--3907450 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
3907386 AAAAGGTTTA
*
3907396 ATTATTTTCTAATAAAAA-ATATT
1 ATTATTTTATAATAAAAATATATT
** *
3907419 ATTAAATTATAATAAAAATATGTT
1 ATTATTTTATAATAAAAATATATT
*
3907443 AGTATTTT
1 ATTATTTT
3907451 GGTGAAAATA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (24 bp):
ATTATTTTATAATAAAAATATATT
Found at i:3918629 original size:28 final size:28
Alignment explanation
Indices: 3918589--3918643 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
3918579 CAAGAGAAAA
*
3918589 ATAAAACACTCATCACTATGTTTGGCTG
1 ATAAAACACTCATCACTATGTCTGGCTG
3918617 ATAAAACACTCATCACTATGTCTGGCT
1 ATAAAACACTCATCACTATGTCTGGCT
3918644 TAAACAAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.31
Consensus pattern (28 bp):
ATAAAACACTCATCACTATGTCTGGCTG
Found at i:3919541 original size:40 final size:40
Alignment explanation
Indices: 3919486--3919564 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
3919476 TTGGCTATTT
* *
3919486 TTCACCTTAGTGGGGTTTTCAACCTTGTCAAGATTGGTGA
1 TTCACCTTAGTGGGGTTTTCAACCTCGCCAAGATTGGTGA
*
3919526 TTCACCTTAGTGGGGTTTTCAACCTCGCCACGATTGGTG
1 TTCACCTTAGTGGGGTTTTCAACCTCGCCAAGATTGGTG
3919565 TCTTTTATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (40 bp):
TTCACCTTAGTGGGGTTTTCAACCTCGCCAAGATTGGTGA
Found at i:3920664 original size:52 final size:52
Alignment explanation
Indices: 3920602--3920717 Score: 169
Period size: 52 Copynumber: 2.2 Consensus size: 52
3920592 CAAAAACATA
* * * * *
3920602 TTACACATCATGGTTAGATTGTTACACGTCATGTTGCACAAGAATATTGTTG
1 TTACACATCATGGTTAGATTGTTACACGTCATATTGAAAAAAAATACTGTTG
*
3920654 TTACACATCATGGTTAGGTTGTTACACGTCATATTGAAAAAAAATACTGTTG
1 TTACACATCATGGTTAGATTGTTACACGTCATATTGAAAAAAAATACTGTTG
*
3920706 TTACACGTCATG
1 TTACACATCATG
3920718 TTGAAAAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (52 bp):
TTACACATCATGGTTAGATTGTTACACGTCATATTGAAAAAAAATACTGTTG
Found at i:3920739 original size:32 final size:31
Alignment explanation
Indices: 3920672--3920750 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
3920662 CATGGTTAGG
* * *
3920672 TTGTTACACGTCATATTGAAAAAAAATACTG
1 TTGTTACACGTCATGTTGAAAAAAAAAACTA
*
3920703 TTGTTACACGTCATGTTGAAAAAAAAAATTTA
1 TTGTTACACGTCATGTTGAAAAAAAAAA-CTA
3920735 TTGTTACACGTCATGT
1 TTGTTACACGTCATGT
3920751 ATAAAAACAT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
31 26 0.60
32 17 0.40
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (31 bp):
TTGTTACACGTCATGTTGAAAAAAAAAACTA
Found at i:3920757 original size:31 final size:31
Alignment explanation
Indices: 3920672--3920757 Score: 102
Period size: 32 Copynumber: 2.7 Consensus size: 31
3920662 CATGGTTAGG
* * *
3920672 TTGTTACACGTCATATTGAAAAAAAATACTG
1 TTGTTACACGTCATGTTAAAAAAAAATACTA
*
3920703 TTGTTACACGTCATGTTGAAAAAAAAA-ATTTA
1 TTGTTACACGTCATGTT-AAAAAAAAATA-CTA
3920735 TTGTTACACGTCATGTATAAAAA
1 TTGTTACACGTCATGT-TAAAAA
3920758 CATATTACAC
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
31 17 0.35
32 30 0.62
33 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.34
Consensus pattern (31 bp):
TTGTTACACGTCATGTTAAAAAAAAATACTA
Found at i:3920867 original size:29 final size:28
Alignment explanation
Indices: 3920806--3920881 Score: 73
Period size: 29 Copynumber: 2.7 Consensus size: 28
3920796 CAATGTTGAA
* * * *
3920806 AAAAAATATTATTGTTATACGTCATGTTG
1 AAAAAATATT-TTGTTACACGACATATTC
*
3920835 AAAAAATATTGTTGTTACATGACATATTC
1 AAAAAATATT-TTGTTACACGACATATTC
*
3920864 -AAAAAGATTTTGTTACAC
1 AAAAAATATTTTGTTACAC
3920882 CTTAATGCTT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 8 0.21
28 8 0.21
29 23 0.59
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (28 bp):
AAAAAATATTTTGTTACACGACATATTC
Found at i:3930535 original size:2 final size:2
Alignment explanation
Indices: 3930528--3930552 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3930518 TATAACTTCT
3930528 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3930553 TAATGAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3932491 original size:18 final size:18
Alignment explanation
Indices: 3932458--3932492 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3932448 CACATGAAGC
*
3932458 TTATAATTTATCATAAAA
1 TTATAATTAATCATAAAA
*
3932476 TTATAATTAATTATAAA
1 TTATAATTAATCATAAA
3932493 TAAAGAATGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
TTATAATTAATCATAAAA
Found at i:3933985 original size:19 final size:22
Alignment explanation
Indices: 3933961--3934005 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
3933951 CTTATTTTCC
3933961 TTAATTA-CTT-TTTTA-TATT
1 TTAATTATCTTATTTTATTATT
*
3933980 TTAATTATTTTATTTTATTATT
1 TTAATTATCTTATTTTATTATT
3934002 TTAA
1 TTAA
3934006 AACAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
20 2 0.09
21 5 0.23
22 8 0.36
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (22 bp):
TTAATTATCTTATTTTATTATT
Found at i:3934001 original size:13 final size:14
Alignment explanation
Indices: 3933976--3934004 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
3933966 TACTTTTTTA
3933976 TATTTTAATTATTT
1 TATTTTAATTATTT
3933990 TATTTT-ATTATTT
1 TATTTTAATTATTT
3934003 TA
1 TA
3934005 AAACAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TATTTTAATTATTT
Found at i:3934926 original size:15 final size:15
Alignment explanation
Indices: 3934906--3934934 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3934896 TCCGAAGGAA
3934906 AATTCCGTTGGAAAC
1 AATTCCGTTGGAAAC
3934921 AATTCCGTTGGAAA
1 AATTCCGTTGGAAA
3934935 TTGGTTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (15 bp):
AATTCCGTTGGAAAC
Found at i:3935586 original size:23 final size:23
Alignment explanation
Indices: 3935552--3935597 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
3935542 AAGCAGCTGT
*
3935552 AATCAAAGGCAGCAATAACGAGA
1 AATCAAAAGCAGCAATAACGAGA
*
3935575 AATCAAAAGCAGCAGTAACGAGA
1 AATCAAAAGCAGCAATAACGAGA
3935598 TTATGCATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.52, C:0.17, G:0.22, T:0.09
Consensus pattern (23 bp):
AATCAAAAGCAGCAATAACGAGA
Found at i:3935851 original size:22 final size:23
Alignment explanation
Indices: 3935826--3935871 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
3935816 TAGGCTCAGC
* *
3935826 AACAAG-ACTCTACGGTTGGCAA
1 AACAAGAACTCTACGCTCGGCAA
3935848 AACAAGAACTCTACGCTCGGCAA
1 AACAAGAACTCTACGCTCGGCAA
3935871 A
1 A
3935872 TAGGCTCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.39, C:0.26, G:0.20, T:0.15
Consensus pattern (23 bp):
AACAAGAACTCTACGCTCGGCAA
Found at i:3936086 original size:13 final size:13
Alignment explanation
Indices: 3936070--3936139 Score: 58
Period size: 13 Copynumber: 5.6 Consensus size: 13
3936060 ATAACAAAAT
*
3936070 AAATAAAATAATC
1 AAATAAAATAATA
*
3936083 AAATAATATAATAA
1 AAATAAAATAAT-A
*
3936097 AAATAAAA-AATT
1 AAATAAAATAATA
3936109 AAA-AAAAT--TA
1 AAATAAAATAATA
**
3936119 ATTTAAAATAATA
1 AAATAAAATAATA
3936132 AAATAAAA
1 AAATAAAA
3936140 GAGGGAACAG
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
10 2 0.05
11 9 0.21
12 3 0.07
13 22 0.51
14 7 0.16
ACGTcount: A:0.73, C:0.01, G:0.00, T:0.26
Consensus pattern (13 bp):
AAATAAAATAATA
Found at i:3936099 original size:22 final size:22
Alignment explanation
Indices: 3936045--3936102 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
3936035 AATTATATAT
3936045 ATATAATAAAAATTAATAACAAA
1 ATATAATAAAAA-TAATAACAAA
*
3936068 ATA-AAT-AAAATAATCAA-ATA
1 ATATAATAAAAATAAT-AACAAA
3936088 ATATAATAAAAATAA
1 ATATAATAAAAATAA
3936103 AAAATTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 9 0.29
21 9 0.29
22 10 0.32
23 3 0.10
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (22 bp):
ATATAATAAAAATAATAACAAA
Found at i:3938244 original size:84 final size:84
Alignment explanation
Indices: 3938155--3938358 Score: 266
Period size: 84 Copynumber: 2.4 Consensus size: 84
3938145 TAACTTTTTG
* * * * *
3938155 ACGGATTTCTAACGGAAATTTCGTTGGAAATTTCGTCTGAAATTGTGGTCTCTTGTCTTTTTTTG
1 ACGGATTTCCAACGGAAATTTCGTTGGAAATTTCATCGGAAATAGTGGTCTCCTGTCTTTTTTTG
3938220 CTTC-CCAAAAATTTTTCCA
66 C-TCACCAAAAATTTTTCCA
* * * *
3938239 ACGGATTTCCAACAGAAATTCCATTGGAAATTCCATCGGAAATAGTGGTCTCCTGTCTTTTTTTG
1 ACGGATTTCCAACGGAAATTTCGTTGGAAATTTCATCGGAAATAGTGGTCTCCTGTCTTTTTTTG
*
3938304 CTCACCAAAAATTTTTTCA
66 CTCACCAAAAATTTTTCCA
*
3938323 ACGGATTTCCAACGAAAATTTTTCGGTTGGAAATTT
1 ACGGATTTCCAACGGAAA--TTTC-GTTGGAAATTT
3938359 TGTCAGAATT
Statistics
Matches: 101, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
83 2 0.02
84 87 0.86
86 3 0.03
87 9 0.09
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (84 bp):
ACGGATTTCCAACGGAAATTTCGTTGGAAATTTCATCGGAAATAGTGGTCTCCTGTCTTTTTTTG
CTCACCAAAAATTTTTCCA
Found at i:3944412 original size:2 final size:2
Alignment explanation
Indices: 3944405--3944464 Score: 90
Period size: 2 Copynumber: 31.5 Consensus size: 2
3944395 TTTTCTTTAT
3944405 TA TA TA TA TA TA TA TA -A TA TA TA -A TA TA TA TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
3944444 TA TA TA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
3944465 CTAATTAGCT
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
1 3 0.06
2 50 0.94
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:3944426 original size:13 final size:13
Alignment explanation
Indices: 3944408--3944464 Score: 82
Period size: 13 Copynumber: 4.5 Consensus size: 13
3944398 TCTTTATTAT
3944408 ATATATATATATA
1 ATATATATATATA
3944421 ATATATA-ATAT-
1 ATATATATATATA
*
3944432 ATATATATATATT
1 ATATATATATATA
3944445 ATATATATATATA
1 ATATATATATATA
3944458 CATATAT
1 -ATATAT
3944465 CTAATTAGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
11 7 0.17
12 8 0.20
13 19 0.47
14 6 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATATATATATA
Found at i:3954887 original size:4 final size:4
Alignment explanation
Indices: 3954880--3954931 Score: 54
Period size: 4 Copynumber: 12.8 Consensus size: 4
3954870 ATTAATGTAG
*
3954880 AAAT AAAT AAAT AAA- ATAA- AAAT AACT GAAAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT A-AAT AAAT AAAT --AAAT AAAT AAAT AAAT AAAT
3954929 AAA
1 AAA
3954932 ATGGTTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 3 0.07
4 36 0.86
6 3 0.07
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:3955307 original size:11 final size:11
Alignment explanation
Indices: 3955276--3955336 Score: 63
Period size: 11 Copynumber: 5.6 Consensus size: 11
3955266 AAAAAAAATG
3955276 AATTTTTTTT-
1 AATTTTTTTTA
*
3955286 -ACTTTTTTTA
1 AATTTTTTTTA
*
3955296 ATTTTTTTTTA
1 AATTTTTTTTA
*
3955307 AATTTTTTTCA
1 AATTTTTTTTA
*
3955318 AATTTTTTTGA
1 AATTTTTTTTA
3955329 ATATTTTT
1 A-ATTTTT
3955337 AAAAAAATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
9 8 0.19
11 28 0.67
12 6 0.14
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (11 bp):
AATTTTTTTTA
Found at i:3955334 original size:12 final size:10
Alignment explanation
Indices: 3955276--3955339 Score: 65
Period size: 10 Copynumber: 6.2 Consensus size: 10
3955266 AAAAAAAATG
*
3955276 AATTTTTTTT
1 AATTTTTTTA
*
3955286 ACTTTTTTTA
1 AATTTTTTTA
*
3955296 ATTTTTTTTTA
1 A-ATTTTTTTA
3955307 AATTTTTTTCA
1 AATTTTTTT-A
*
3955318 AATTTTTTTG
1 AATTTTTTTA
*
3955328 AATATTTTTA
1 AATTTTTTTA
3955338 AA
1 AA
3955340 AAAATTTTCA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
10 26 0.58
11 19 0.42
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.69
Consensus pattern (10 bp):
AATTTTTTTA
Found at i:3967269 original size:30 final size:29
Alignment explanation
Indices: 3967216--3967311 Score: 104
Period size: 29 Copynumber: 3.2 Consensus size: 29
3967206 TTATAATGGC
3967216 TTATTTGACTCAAAATAAAAAATACAAAAAT
1 TTATTTGA-TCAAAAT-AAAAATACAAAAAT
*
3967247 TTATTTGGATCAAAATAAAAATACAAAGACT
1 TTATTT-GATCAAAATAAAAATACAAA-AAT
* * * *
3967278 TTA-TTGAACACAATAAAAATATAAAAAC
1 TTATTTGATCAAAATAAAAATACAAAAAT
3967306 TTATTT
1 TTATTT
3967312 AAATTTTCTT
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
28 4 0.07
29 19 0.34
30 13 0.23
31 18 0.32
32 2 0.04
ACGTcount: A:0.54, C:0.09, G:0.05, T:0.31
Consensus pattern (29 bp):
TTATTTGATCAAAATAAAAATACAAAAAT
Found at i:3969250 original size:21 final size:21
Alignment explanation
Indices: 3969226--3969271 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
3969216 CGCCGCCCTC
*
3969226 GATGGTGATGGTGGTGGTGAT
1 GATGATGATGGTGGTGGTGAT
*
3969247 GATGATGATGGTGGTGGTGGT
1 GATGATGATGGTGGTGGTGAT
3969268 GATG
1 GATG
3969272 TCTAGACACC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.15, C:0.00, G:0.52, T:0.33
Consensus pattern (21 bp):
GATGATGATGGTGGTGGTGAT
Found at i:3969252 original size:18 final size:18
Alignment explanation
Indices: 3969226--3969262 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3969216 CGCCGCCCTC
* *
3969226 GATGGTGATGGTGGTGGT
1 GATGATGATGATGGTGGT
3969244 GATGATGATGATGGTGGT
1 GATGATGATGATGGTGGT
3969262 G
1 G
3969263 GTGGTGATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.51, T:0.32
Consensus pattern (18 bp):
GATGATGATGATGGTGGT
Found at i:3979774 original size:33 final size:33
Alignment explanation
Indices: 3979708--3979775 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
3979698 CTAGTTTTCA
* * *
3979708 TGTTGAGATTTTTTTCTTTTTTTGTTTTTTAAT
1 TGTTGAGATTTTCTTCTTGTTTTGTTTTGTAAT
3979741 TGTTGAGATTTTCTT-TTGTTTTGTTTTCGTAAT
1 TGTTGAGATTTTCTTCTTGTTTTGTTTT-GTAAT
3979774 TG
1 TG
3979776 AATAATAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 11 0.35
33 20 0.65
ACGTcount: A:0.12, C:0.04, G:0.16, T:0.68
Consensus pattern (33 bp):
TGTTGAGATTTTCTTCTTGTTTTGTTTTGTAAT
Found at i:3983036 original size:52 final size:52
Alignment explanation
Indices: 3982980--3983082 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
3982970 TAAAGTTATC
*
3982980 AATAACATACATAAACATTAAGCAATTGGGTCTTACCCATCATAACATACAT
1 AATAACATACATAAACATTAAGCAATTAGGTCTTACCCATCATAACATACAT
*
3983032 AATAACATACATAAACATTAAGCAATTAGGTTTTACCCATCATAACATACA
1 AATAACATACATAAACATTAAGCAATTAGGTCTTACCCATCATAACATACA
3983083 CAACATTGCA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.27
Consensus pattern (52 bp):
AATAACATACATAAACATTAAGCAATTAGGTCTTACCCATCATAACATACAT
Found at i:3983038 original size:12 final size:12
Alignment explanation
Indices: 3983021--3983045 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3983011 CTTACCCATC
3983021 ATAACATACATA
1 ATAACATACATA
3983033 ATAACATACATA
1 ATAACATACATA
3983045 A
1 A
3983046 ACATTAAGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAACATACATA
Found at i:3984515 original size:31 final size:31
Alignment explanation
Indices: 3984477--3984554 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
3984467 ATATATTTTT
*
3984477 TTTTCAATTTGGTCCTCCAAACTTTTCATTA
1 TTTTCAATTTGGTCCTCCAAACTTGTCATTA
* *
3984508 TTTTCAATTTGGTCTTCTAAACTTGTCATTA
1 TTTTCAATTTGGTCCTCCAAACTTGTCATTA
* *
3984539 TTTTAAATTTTGTCCT
1 TTTTCAATTTGGTCCT
3984555 TAGACATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.22, C:0.18, G:0.08, T:0.53
Consensus pattern (31 bp):
TTTTCAATTTGGTCCTCCAAACTTGTCATTA
Found at i:3984794 original size:44 final size:44
Alignment explanation
Indices: 3984745--3984854 Score: 141
Period size: 44 Copynumber: 2.5 Consensus size: 44
3984735 GACTTTATTG
* * *
3984745 ATTATCCTTGGTAACTTAACATCACAATT-CCAAGGGTTTTACTT
1 ATTATCCTTGGTAACTTAACATCACAATTACC-AGGATTCTACTC
* * *
3984789 ATTATCCTTGATAACTTAACATCACAGTTATCAGGATTCTACTC
1 ATTATCCTTGGTAACTTAACATCACAATTACCAGGATTCTACTC
*
3984833 ATTATCCTTGGAAACTTAACAT
1 ATTATCCTTGGTAACTTAACAT
3984855 TATAAACTCA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 56 0.98
45 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (44 bp):
ATTATCCTTGGTAACTTAACATCACAATTACCAGGATTCTACTC
Found at i:4006630 original size:662 final size:655
Alignment explanation
Indices: 4005278--4007223 Score: 2574
Period size: 662 Copynumber: 3.0 Consensus size: 655
4005268 CAATAAGTTG
4005278 AACATTAATTCCATCATAATAAAAAATTAAAGAACA-CATACAATGTATTAACCACACAGTTCAA
1 AACATTAATTCCATCATAATAAAAAATTAAAGAA-AGCATACAATGTATTAACCACACAGTTCAA
* *
4005342 ACCTACAGAATATAGCAATAAATATTTGAAAATTAATAGAAAAAAAAAC-AAAAAAAA-GAAAAA
65 ACCTACAGAATATAGCAATAAATATTTGAAAATTAACAGAAAAAAAATCAAAAAAAAAGGAAAAA
* * * * * * *
4005405 ATTCAAACACTTCATATTTAACTATGTTATAATGAAAAC-GAATGACAATCATAATGATATTAAA
130 ATTGAAACACTTCATATTTAAGTATCTTATAATGAAAACTG-ATGAAAATCAAAATCATATCAAA
* *
4005469 TAATCAAAAGAATAAACTACTAAATAAAAAAGAGGTATCGTTATTAGTTAAAAGACAATGAAAGC
194 TAACCAAAAGAATAAACTACTAAAGAAAAAAGAGGTATCGTTATTAGTTAAAAGACAATGAAAGC
* *
4005534 ATGACAGAAAAAC-T--T-AAAGAAAATAAACAATTTGTGCAGCTTATATGTATGGTCAAACTAA
259 AT-AAAGAAAAACTTACTCAAAGAAAATAAACAATTTATGCAGCTTATATGTATGGTCAAACTAA
* * * * * *
4005595 ATGTTATATCCATACAGAAGCAACAACACATAGAAAAAGATCATACTATTGAAACAAACAAATTA
323 ATGTTATATCCACAGAAAAGCAACAAAACATAGAAAAAGATCATACTATTCAAA-GAACAAATTA
* *
4005660 ATGAATTATGATC-AATAAAAAAAAAGAGTAATAACGAAAAACATAGAATGTTCTCAAACTGATG
387 ATGAATTATGATCAAAAAAAAAAAAAGAGTAATAAC-AAAAACATAGAATGTTATCAAACTGATG
** * * *
4005724 GAAAACAGAAAAACCAAACAGCAAAATTTCCAGAAAGAAAAAACAGCAAATAGTATTGGAAAAGG
451 GAAAGTAGAAAAACCAAACAGCACAATTTACAGAAAG-AAAAACAGCAAATAGTATTGAAAAAGG
* * * *
4005789 TAAAAGTCTCTCTTACAAATAAAAAGAATCAACTATAATATCAAAAC--AGAAAAAACAAACCAT
515 TAAAAGTCTCTCTTACAAATAAAAACAATTAACTAAAATATCAAAACAAAAAAAAAACAAACCAT
* * *
4005852 CATAATCAAGCAAGCCATAAAAACAATAATAAACAAAAAATAAAACCTTTCGAGAGTGATGAAAT
580 CATAATCAACCAAGCCATAAAAACAATAATAAACAAAAAATAAAACCTTTCAACAGTGATGAAAT
*
4005917 AGAAAAACATC
645 AGAAAAACACC
4005928 AACATTAATTCCATCATAATAAAAAATTAAAGAAAGCATACAATGTATTAACCACACAGTTCAAA
1 AACATTAATTCCATCATAATAAAAAATTAAAGAAAGCATACAATGTATTAACCACACAGTTCAAA
*
4005993 CCTACAGAATATA-CTAATCAATATTTGAAAATTAACA-AAAAAAAATGCAAAAAAAAAGGGAAA
66 CCTACAGAATATAGC-AATAAATATTTGAAAATTAACAGAAAAAAAAT-CAAAAAAAAA-GGAAA
* *
4006056 AAACTGAAACACTTTATATTTAAGTATCTTATAATGAAAACTGATGAAAATCAAAATCATATCAA
128 AAATTGAAACACTTCATATTTAAGTATCTTATAATGAAAACTGATGAAAATCAAAATCATATCAA
* *
4006121 ATAACCAAAAGAATAAACTACTAAAGAAAAAACAGGTATCGTTATTAGTTAAAAGACAATGAAGG
193 ATAACCAAAAGAATAAACTACTAAAGAAAAAAGAGGTATCGTTATTAGTTAAAAGACAATGAAAG
* * *
4006186 CATCAAAGAAAAACTTACTCAAAGAAAATAAACAATTTCTCCAGCTGATATGTATGGTCAAACTA
258 CAT-AAAGAAAAACTTACTCAAAGAAAATAAACAATTTATGCAGCTTATATGTATGGTCAAACTA
* * *
4006251 AATGTTATATCCACAGAAAAGCAACAAAAGATAGGAGAAA-ATTATACTATTCAATAGAACAAAT
322 AATGTTATATCCACAGAAAAGCAACAAAACATA-GAAAAAGATCATACTATTCAA-AGAACAAAT
* * * *
4006315 TAATGAATCATGATCAAACAAAAAAACAAAGAGCAATAACAAAAAACATAGAATCTTTTCAAACT
385 TAATGAATTATGATCAAA-AAAAAAA-AAAGAGTAATAAC-AAAAACATAGAATGTTATCAAACT
* *
4006380 GATGGAAAGTAGAAAAACCAAACAGCACAATTTACAGAAATGAAAAGCAGGAAATAGTATTGAAA
447 GATGGAAAGTAGAAAAACCAAACAGCACAATTTACAGAAA-GAAAAACAGCAAATAGTATTGAAA
4006445 AAGGTAAAAGTCTCTCTTACAAATAAAAACAATTAACTAAAATATCAAAACAAAAAAAAAACAAA
511 AAGGTAAAAGTCTCTCTTACAAATAAAAACAATTAACTAAAATATCAAAACAAAAAAAAAACAAA
** ** * *
4006510 CCATCATAATCAACCAAGGGA-AATAAACAATAATTTA-TAAAAATGAAGACCTTTCAACAGTGA
576 CCATCATAATCAACCAAGCCATAA-AAACAATAATAAACAAAAAAT-AAAACCTTTCAACAGTGA
*
4006573 TGGAATAGAAAAACACC
639 TGAAATAGAAAAACACC
** * *
4006590 AACATTAATTCCATCATAATAAAAAATTAAAGAAAGCATACCCTGTATTAATCACACAGTTTAAA
1 AACATTAATTCCATCATAATAAAAAATTAAAGAAAGCATACAATGTATTAACCACACAGTTCAAA
* * *
4006655 CCTACAGACTATAGCAATAAATATTTCAAAATTAACAGAATAGAAAAAT-ATGAAAAAAAGGAAA
66 CCTACAGAATATAGCAATAAATATTTGAAAATTAACAGAA-A-AAAAATCA-AAAAAAAAGGAAA
* *
4006719 AAATTGAAACACTTCATATTTAAGTTTCTTAT-ATAGAAAACTGATGAAAATCAAAATCATATGA
128 AAATTGAAACACTTCATATTTAAGTATCTTATAAT-GAAAACTGATGAAAATCAAAATCATATCA
* * *
4006783 AATAAGCAAAAGAATAAACTGCTAAAGAAAAAAGAGGTATCGTTATTACTT-AAAGCACAATGAA
192 AATAACCAAAAGAATAAACTACTAAAGAAAAAAGAGGTATCGTTATTAGTTAAAAG-ACAATGAA
* * *
4006847 AGCATAACAGAAAAACTAACTCAAA-AAAACAAAAAATTTATGCAGCTTATATGTATGGTCAAAC
256 AGCATAA-AGAAAAACTTACTCAAAGAAAATAAACAATTTATGCAGCTTATATGTATGGTCAAAC
*
4006911 TAAATGTTATATGCACACAG-AAA-CAACAAAACATAGAAAAAGATCATACCATTCAAGAGAACA
320 TAAATGTTATAT-C-CACAGAAAAGCAACAAAACATAGAAAAAGATCATACTATTCAA-AGAACA
* *
4006974 AATTAATGAATTATAATCAATAAAAACACAAAAAGAGTAATAACTAAAACATAGAATGTTATCAA
382 AATTAATGAATTATGATCAA-AAAAA-A-AAAAAGAGTAATAACAAAAACATAGAATGTTATCAA
* * * * * *
4007039 ATTGATGGAAAGTACAAAAACCAAATAAC-CTAATTTACAGAAAAAAAAACAGCAAAGAGTATTG
444 ACTGATGGAAAGTAGAAAAACCAAACAGCAC-AATTTACAGAAAGAAAAACAGCAAATAGTATTG
* * * * *
4007103 CAAAAGGTAAAAGTCTTTCTTACAAATAAAAACAATTAACTACAATATGAAAAC--AAAAAAAAT
508 AAAAAGGTAAAAGTCTCTCTTACAAATAAAAACAATTAACTAAAATATCAAAACAAAAAAAAAAC
* * * * * * * *
4007166 GAACCATCGATAATTAATCAAGGCAAAAAAACAATTATAAACAAAAATTAACACCTTT
573 AAACCATC-ATAATCAACCAAGCCATAAAAACAATAATAAACAAAAAATAAAACCTTT
4007224 TGAAAGTGAT
Statistics
Matches: 1142, Mismatches: 115, Indels: 68
0.86 0.09 0.05
Matches are distributed among these distances:
649 10 0.01
650 97 0.08
651 8 0.01
653 131 0.11
654 2 0.00
656 1 0.00
657 103 0.09
658 8 0.01
659 21 0.02
660 169 0.15
661 89 0.08
662 323 0.28
663 159 0.14
664 15 0.01
665 6 0.01
ACGTcount: A:0.54, C:0.14, G:0.10, T:0.22
Consensus pattern (655 bp):
AACATTAATTCCATCATAATAAAAAATTAAAGAAAGCATACAATGTATTAACCACACAGTTCAAA
CCTACAGAATATAGCAATAAATATTTGAAAATTAACAGAAAAAAAATCAAAAAAAAAGGAAAAAA
TTGAAACACTTCATATTTAAGTATCTTATAATGAAAACTGATGAAAATCAAAATCATATCAAATA
ACCAAAAGAATAAACTACTAAAGAAAAAAGAGGTATCGTTATTAGTTAAAAGACAATGAAAGCAT
AAAGAAAAACTTACTCAAAGAAAATAAACAATTTATGCAGCTTATATGTATGGTCAAACTAAATG
TTATATCCACAGAAAAGCAACAAAACATAGAAAAAGATCATACTATTCAAAGAACAAATTAATGA
ATTATGATCAAAAAAAAAAAAAGAGTAATAACAAAAACATAGAATGTTATCAAACTGATGGAAAG
TAGAAAAACCAAACAGCACAATTTACAGAAAGAAAAACAGCAAATAGTATTGAAAAAGGTAAAAG
TCTCTCTTACAAATAAAAACAATTAACTAAAATATCAAAACAAAAAAAAAACAAACCATCATAAT
CAACCAAGCCATAAAAACAATAATAAACAAAAAATAAAACCTTTCAACAGTGATGAAATAGAAAA
ACACC
Found at i:4009297 original size:13 final size:14
Alignment explanation
Indices: 4009273--4009301 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4009263 AGATTTTTTT
4009273 TAAAATTAAAAAAA
1 TAAAATTAAAAAAA
4009287 TAAAA-TAAAAAAA
1 TAAAATTAAAAAAA
4009300 TA
1 TA
4009302 GTTGAGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAAATTAAAAAAA
Found at i:4011800 original size:14 final size:15
Alignment explanation
Indices: 4011776--4011805 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4011766 TTTTAATTTT
4011776 TTTTTTCTTTCTTGG
1 TTTTTTCTTTCTTGG
4011791 TTTTTT-TTTCTTGG
1 TTTTTTCTTTCTTGG
4011805 T
1 T
4011806 CATAAGGGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.00, C:0.10, G:0.13, T:0.77
Consensus pattern (15 bp):
TTTTTTCTTTCTTGG
Found at i:4013369 original size:26 final size:28
Alignment explanation
Indices: 4013315--4013371 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 28
4013305 GGGAAAAAAT
4013315 GGAAAAAGAAAATTGCTTCAAATTAGAAGG
1 GGAAAAAG-AAATTGCTT-AAATTAGAAGG
*
4013345 GGAAAAAG-AATTGCTT-AATTGGAAGG
1 GGAAAAAGAAATTGCTTAAATTAGAAGG
4013371 G
1 G
4013372 TCTGAGAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 10 0.38
28 8 0.31
30 8 0.31
ACGTcount: A:0.46, C:0.05, G:0.28, T:0.21
Consensus pattern (28 bp):
GGAAAAAGAAATTGCTTAAATTAGAAGG
Found at i:4017850 original size:2 final size:2
Alignment explanation
Indices: 4017843--4017878 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
4017833 TTTAAACTAC
*
4017843 AT AT AT AT AT AT AT AT AT AT AT AT AN AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4017879 TAAAAGTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4022896 original size:2 final size:2
Alignment explanation
Indices: 4022883--4022953 Score: 100
Period size: 2 Copynumber: 38.5 Consensus size: 2
4022873 GTTTCATTGA
4022883 AT AT AT -T A- AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4022922 AT -T AT AT AT A- AT AT AT AT AT AT -T AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4022954 ATNAAATCCA
Statistics
Matches: 63, Mismatches: 0, Indels: 12
0.84 0.00 0.16
Matches are distributed among these distances:
1 6 0.10
2 57 0.90
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:4032130 original size:32 final size:32
Alignment explanation
Indices: 4032094--4032159 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
4032084 TATGCCATGT
4032094 AATAACAATAATTTTTCAACATGACGTGTAAC
1 AATAACAATAATTTTTCAACATGACGTGTAAC
* * **
4032126 AATAATATTTTTTTTTCAACATGACGTGTAAC
1 AATAACAATAATTTTTCAACATGACGTGTAAC
4032158 AA
1 AA
4032160 CCTTTTATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (32 bp):
AATAACAATAATTTTTCAACATGACGTGTAAC
Found at i:4032318 original size:45 final size:45
Alignment explanation
Indices: 4032282--4032393 Score: 170
Period size: 45 Copynumber: 2.5 Consensus size: 45
4032272 TTCAACATAA
*
4032282 CATATAACAACCTAATCATGGCTTGTCACATGTTTTTGTACATGG
1 CATATAACAACCTAATCATGGCTTGTCACATATTTTTGTACATGG
* * * * *
4032327 CGTGTAACAACCTAACCATGACTTGTCACATATTTTTGTATATGG
1 CATATAACAACCTAATCATGGCTTGTCACATATTTTTGTACATGG
4032372 CATATAACAACCTAATCATGGC
1 CATATAACAACCTAATCATGGC
4032394 GTGTAACAAC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.33
Consensus pattern (45 bp):
CATATAACAACCTAATCATGGCTTGTCACATATTTTTGTACATGG
Found at i:4032446 original size:66 final size:66
Alignment explanation
Indices: 4032322--4032452 Score: 217
Period size: 66 Copynumber: 2.0 Consensus size: 66
4032312 TGTTTTTGTA
*
4032322 CATGGCGTGTAACAACCTAACCATGACTTGTCACATATTTTTGTATATGGCATATAACAACCTAA
1 CATGGCGTGTAACAACCTAACCATGACTTGTCACATATTTTTGTATATGACATATAACAACCTAA
4032387 T
66 T
* * * *
4032388 CATGGCGTGTAACAACCTAACCATGGCTTGTCACATATTTTTGTATATGACGTGTAACAATCTAA
1 CATGGCGTGTAACAACCTAACCATGACTTGTCACATATTTTTGTATATGACATATAACAACCTAA
4032453 CCGTAGCGTG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (66 bp):
CATGGCGTGTAACAACCTAACCATGACTTGTCACATATTTTTGTATATGACATATAACAACCTAA
T
Found at i:4043751 original size:35 final size:34
Alignment explanation
Indices: 4043681--4043930 Score: 209
Period size: 35 Copynumber: 7.2 Consensus size: 34
4043671 CACTTGATTA
* *
4043681 AAATTGTTTAATTAAG---TTGTGCCTAATTAACT
1 AAATTATTTAATTAAGTCATTG-GCCTAATTAATT
* *
4043713 AAATTGTTTAATTAAATCATTAGGCCTAATTAATT
1 AAATTATTTAATTAAGTCATT-GGCCTAATTAATT
*
4043748 AAATTATTTAATTTAGTCATTGGGCCTAATTAATT
1 AAATTATTTAATTAAGTCATT-GGCCTAATTAATT
*** * *
4043783 AAATTAAACAATTAAGTTATTGAGCCTAATTGATT
1 AAATTATTTAATTAAGTCATTG-GCCTAATTAATT
* * * *
4043818 AAATTTGTTTAATTAAGTCATTGGGCCTAGTTGACTA
1 AAA-TTATTTAATTAAGTCATT-GGCCTAATT-AATT
* ** *
4043855 AAATTATTTAATTAAATTGTTGAGCTTAATTAATT
1 AAATTATTTAATTAAGTCATTG-GCCTAATTAATT
* * *
4043890 ATATTATTTAATTAAGTTATTGGACCTAATTGATT
1 AAATTATTTAATTAAGTCATTGG-CCTAATTAATT
4043925 AAATTA
1 AAATTA
4043931 AACAATTAAG
Statistics
Matches: 173, Mismatches: 35, Indels: 17
0.77 0.16 0.08
Matches are distributed among these distances:
32 15 0.09
34 2 0.01
35 110 0.64
36 41 0.24
37 5 0.03
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.44
Consensus pattern (34 bp):
AAATTATTTAATTAAGTCATTGGCCTAATTAATT
Found at i:4043890 original size:107 final size:105
Alignment explanation
Indices: 4043701--4043929 Score: 271
Period size: 107 Copynumber: 2.2 Consensus size: 105
4043691 ATTAAGTTGT
* * * * *
4043701 GCCTAATTAACTAAA-TTGTTTAATTAAATCATTAGGCCTAATTAATTAAATTATTTAATTTAGT
1 GCCTAATTGATTAAATTTGTTTAATTAAATCATTAGGCCTAATTAATAAAATTATTTAATTAAAT
*
4043765 CATTGGGCCTAATTAATTAAATTAAACAATTAAGTTATTG
66 CATTGAGCCTAATTAATTAAATTAAACAATTAAGTTATTG
* * * *
4043805 AGCCTAATTGATTAAATTTGTTTAATTAAGTCATTGGGCCTAGTTGACTAAAATTATTTAATTAA
1 -GCCTAATTGATTAAATTTGTTTAATTAAATCATTAGGCCTAATT-AATAAAATTATTTAATTAA
** * * ***
4043870 ATTGTTGAGCTTAATTAATTATATTATTTAATTAAGTTATTG
64 ATCATTGAGCCTAATTAATTAAATTAAACAATTAAGTTATTG
4043912 GACCTAATTGATTAAATT
1 G-CCTAATTGATTAAATT
4043930 AAACAATTAA
Statistics
Matches: 104, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
105 13 0.12
106 26 0.25
107 65 0.62
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.43
Consensus pattern (105 bp):
GCCTAATTGATTAAATTTGTTTAATTAAATCATTAGGCCTAATTAATAAAATTATTTAATTAAAT
CATTGAGCCTAATTAATTAAATTAAACAATTAAGTTATTG
Found at i:4043912 original size:142 final size:138
Alignment explanation
Indices: 4043674--4043943 Score: 371
Period size: 142 Copynumber: 1.9 Consensus size: 138
4043664 TCTCAAGCAC
* *
4043674 TTGATTAAAATTGTTTAATTAAGTTGTGCCTAATTAACTAAATTGTTTAATTAAATCATTAGGCC
1 TTGATTAAAATTGTTTAATTAAGTTGGGCCTAATTAACTAAATTATTTAATTAAATCATTAGGCC
* *
4043739 TAATTAATTAAATTATTTAATTTAGTCATTGGGCCTAATTAATTAAATTAAACAATTAAGTTATT
66 TAATTAATTAAATTATTTAATTAAGTCATTGGACCTAATTAATTAAATTAAACAATTAAGTTATT
4043804 GAGCCTAA
131 GAGCCTAA
* * * **
4043812 TTGATTAAATTTGTTTAATTAAGTCATTGGGCCTAGTTGACTAAAATTATTTAATTAAATTGTT-
1 TTGATTAAAATTGTTTAATTAAG---TTGGGCCTAATTAACT-AAATTATTTAATTAAATCATTA
* * * *
4043876 GAGCTTAATTAATTATATTATTTAATTAAGTTATTGGACCTAATTGATTAAATTAAACAATTAAG
62 G-GCCTAATTAATTAAATTATTTAATTAAGTCATTGGACCTAATTAATTAAATTAAACAATTAAG
4043941 TTA
126 TTA
4043944 ATTGGGCTTT
Statistics
Matches: 114, Mismatches: 13, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
138 22 0.19
141 14 0.12
142 78 0.68
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.43
Consensus pattern (138 bp):
TTGATTAAAATTGTTTAATTAAGTTGGGCCTAATTAACTAAATTATTTAATTAAATCATTAGGCC
TAATTAATTAAATTATTTAATTAAGTCATTGGACCTAATTAATTAAATTAAACAATTAAGTTATT
GAGCCTAA
Found at i:4060515 original size:30 final size:32
Alignment explanation
Indices: 4060481--4060551 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 32
4060471 CTTTGAAGGA
4060481 TTTATTAAAATTTAAATAA-ATTTTTAT-ATT
1 TTTATTAAAATTTAAATAAGATTTTTATAATT
* * *
4060511 TTTATT-ACATTTAATTAAGTTTTTTATAATT
1 TTTATTAAAATTTAAATAAGATTTTTATAATT
*
4060542 TTTTTTAAAA
1 TTTATTAAAA
4060552 AAATTAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
29 10 0.30
30 13 0.39
31 8 0.24
32 2 0.06
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (32 bp):
TTTATTAAAATTTAAATAAGATTTTTATAATT
Found at i:4060855 original size:25 final size:24
Alignment explanation
Indices: 4060827--4060879 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
4060817 ATAAAAATTT
* *
4060827 ATTTAATTTAAAATAATAATATAAA
1 ATTTAATTGAAAATAATAA-AAAAA
* *
4060852 ATTTGATTGAATATAATAAAAAAA
1 ATTTAATTGAAAATAATAAAAAAA
4060876 ATTT
1 ATTT
4060880 TAAGTCAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.40
Consensus pattern (24 bp):
ATTTAATTGAAAATAATAAAAAAA
Found at i:4061819 original size:3 final size:3
Alignment explanation
Indices: 4061804--4061846 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
4061794 TGTTGTATGT
*
4061804 TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4061847 GGTATTGAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:4068707 original size:2 final size:2
Alignment explanation
Indices: 4068702--4068776 Score: 71
Period size: 2 Copynumber: 38.0 Consensus size: 2
4068692 ACACACACAC
* * * * *
4068702 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT GT NT -T AT AC AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
4068743 AC AC AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4068777 GTGTGCCTAG
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
1 1 0.01
2 67 0.99
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:4068760 original size:47 final size:46
Alignment explanation
Indices: 4068691--4068780 Score: 171
Period size: 47 Copynumber: 1.9 Consensus size: 46
4068681 CTTGTAATAT
4068691 TACACACACACATATATATATATATATATATATATATATGTGTNTTA
1 TACACACACACATATATATATATATATATATATATATATGTGT-TTA
4068738 TACACACACACATATATATATATATATATATATATATATGTGT
1 TACACACACACATATATATATATATATATATATATATATGTGT
4068781 GCCTAGTTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.40
Consensus pattern (46 bp):
TACACACACACATATATATATATATATATATATATATATGTGTTTA
Found at i:4091327 original size:63 final size:63
Alignment explanation
Indices: 4091248--4091370 Score: 176
Period size: 63 Copynumber: 2.0 Consensus size: 63
4091238 GGTCATCTTT
* * *
4091248 CTCTCTCAACTCTCTGAACTGTCTCAGCTTTGGAAAGTCTCTGTTGAGCACCATCGTCATCAG
1 CTCTCTCAACTCTCTGAACTGTATCAGCTCTGGAAACTCTCTGTTGAGCACCATCGTCATCAG
* **
4091311 CTCTCTCAGA-TCTCTGAACTGTATGAGCTCTGTCAACTCTCTGTTGAGCACCATCGTCAT
1 CTCTCTCA-ACTCTCTGAACTGTATCAGCTCTGGAAACTCTCTGTTGAGCACCATCGTCAT
4091371 TGGGTTATGG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 52 0.98
64 1 0.02
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.33
Consensus pattern (63 bp):
CTCTCTCAACTCTCTGAACTGTATCAGCTCTGGAAACTCTCTGTTGAGCACCATCGTCATCAG
Found at i:4091753 original size:20 final size:21
Alignment explanation
Indices: 4091728--4091796 Score: 68
Period size: 23 Copynumber: 3.1 Consensus size: 21
4091718 GTCAGTAATT
4091728 ACAGTGAT-TGACGTGTCACG
1 ACAGTGATATGACGTGTCACG
4091748 ACAGTGATGCATGACGTGTCACG
1 ACAGTGAT--ATGACGTGTCACG
* * *
4091771 ACAATGATGCACGACGTGTCATG
1 ACAGTGAT--ATGACGTGTCACG
4091794 ACA
1 ACA
4091797 TTTGACCTGA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
20 8 0.19
23 35 0.81
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.22
Consensus pattern (21 bp):
ACAGTGATATGACGTGTCACG
Found at i:4091766 original size:23 final size:23
Alignment explanation
Indices: 4091736--4091796 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
4091726 TTACAGTGAT
*
4091736 TGACGTGTCACGACAGTGATGCA
1 TGACGTGTCACGACAATGATGCA
4091759 TGACGTGTCACGACAATGATGCA
1 TGACGTGTCACGACAATGATGCA
* *
4091782 CGACGTGTCATGACA
1 TGACGTGTCACGACA
4091797 TTTGACCTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (23 bp):
TGACGTGTCACGACAATGATGCA
Found at i:4091820 original size:31 final size:31
Alignment explanation
Indices: 4091785--4091859 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
4091775 TGATGCACGA
**
4091785 CGTGTCATGACATTTGACCTGATATGCATGG
1 CGTGTCACAACATTTGACCTGATATGCATGG
* * * *
4091816 CGTGTTACAACATTTTACGTTATATGCATGG
1 CGTGTCACAACATTTGACCTGATATGCATGG
*
4091847 CGTGTAACAACAT
1 CGTGTCACAACAT
4091860 GACTGACAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (31 bp):
CGTGTCACAACATTTGACCTGATATGCATGG
Found at i:4095994 original size:16 final size:16
Alignment explanation
Indices: 4095975--4096110 Score: 66
Period size: 16 Copynumber: 8.2 Consensus size: 16
4095965 AAATTCTTCA
4095975 TATAAAATTAATTCTG
1 TATAAAATTAATTCTG
** *
4095991 TATAGGAAAAAAATTATG
1 TATA--AAATTAATTCTG
*
4096009 TATAAAA-TATATTATG
1 TATAAAATTA-ATTCTG
4096025 TATACAAAAAAAATTAATTCTG
1 TAT-----AAAA-TTAATTCTG
* **
4096047 TATACAATGGA-T-TG
1 TATAAAATTAATTCTG
* *
4096061 TATAAAATAAATTGTG
1 TATAAAATTAATTCTG
4096077 TATAAAATTAA-T-TG
1 TATAAAATTAATTCTG
*
4096091 TATAAAAATAATTCTG
1 TATAAAATTAATTCTG
4096107 TATA
1 TATA
4096111 CAAAAAAATG
Statistics
Matches: 93, Mismatches: 13, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
14 22 0.24
15 5 0.05
16 36 0.39
17 3 0.03
18 13 0.14
21 4 0.04
22 8 0.09
23 2 0.02
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.38
Consensus pattern (16 bp):
TATAAAATTAATTCTG
Found at i:4096013 original size:34 final size:34
Alignment explanation
Indices: 4095975--4096040 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
4095965 AAATTCTTCA
* **
4095975 TATAAAAT-TAATTCTGTATAGGAAAAAAATTATG
1 TATAAAATAT-ATTATGTATACAAAAAAAATTATG
4096009 TATAAAATATATTATGTATACAAAAAAAATTA
1 TATAAAATATATTATGTATACAAAAAAAATTA
4096041 ATTCTGTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 27 0.96
35 1 0.04
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.35
Consensus pattern (34 bp):
TATAAAATATATTATGTATACAAAAAAAATTATG
Found at i:4096079 original size:30 final size:30
Alignment explanation
Indices: 4096034--4096113 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
4096024 GTATACAAAA
* *
4096034 AAAATTAATTCTGTATACAATGGATTGTAT
1 AAAATAAATTCTGTATACAATGAATTGTAT
* * *
4096064 AAAATAAATTGTGTATAAAATTAATTGTAT
1 AAAATAAATTCTGTATACAATGAATTGTAT
4096094 AAAA-ATAATTCTGTATACAA
1 AAAATA-AATTCTGTATACAA
4096114 AAAAATGTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 1 0.02
30 41 0.98
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (30 bp):
AAAATAAATTCTGTATACAATGAATTGTAT
Found at i:4096102 original size:14 final size:14
Alignment explanation
Indices: 4096057--4096103 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
4096047 TATACAATGG
4096057 ATTGTAT-AAAATAA
1 ATTGTATAAAAAT-A
*
4096071 ATTGTGTATAAAATTA
1 A-T-TGTATAAAAATA
4096087 ATTGTATAAAAATA
1 ATTGTATAAAAATA
4096101 ATT
1 ATT
4096104 CTGTATACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 15 0.54
15 2 0.07
16 7 0.25
17 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (14 bp):
ATTGTATAAAAATA
Found at i:4097680 original size:31 final size:31
Alignment explanation
Indices: 4097645--4097840 Score: 232
Period size: 31 Copynumber: 6.3 Consensus size: 31
4097635 TACCACAAAC
* * *
4097645 CATAACAAGTAAAATGTTATGACACACCATG
1 CATAACAAGCAAAATGTTCTGACACGCCATG
*
4097676 CATAACAAGCAAAATGTTGTGACACGCCATG
1 CATAACAAGCAAAATGTTCTGACACGCCATG
* *
4097707 GATAACAAACAAAATGTTCTGACACGCCATG
1 CATAACAAGCAAAATGTTCTGACACGCCATG
** *
4097738 CATAACAAGTTAAATGTTGTGACACGCCATG
1 CATAACAAGCAAAATGTTCTGACACGCCATG
*
4097769 CA-ACACAAGCAAAATGTTCTGACACACCATG
1 CATA-ACAAGCAAAATGTTCTGACACGCCATG
** * * *
4097800 CATAACCACCCAAAATGTTCTGACATGTCATC
1 CATAA-CAAGCAAAATGTTCTGACACGCCATG
4097832 CATAACAAG
1 CATAACAAG
4097841 TTAAACGTAA
Statistics
Matches: 139, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
30 1 0.01
31 112 0.81
32 26 0.19
ACGTcount: A:0.40, C:0.24, G:0.15, T:0.21
Consensus pattern (31 bp):
CATAACAAGCAAAATGTTCTGACACGCCATG
Found at i:4097805 original size:93 final size:94
Alignment explanation
Indices: 4097644--4097845 Score: 282
Period size: 93 Copynumber: 2.2 Consensus size: 94
4097634 ATACCACAAA
* * * *
4097644 CCATAACAAGTAAAATGTTATGACACACCATGCATAACAAGCAAAATGTTGTGACACGCCATGGA
1 CCATAACAAGTTAAATGTTATGACACACCATGCATAACAAGCAAAATGTTCTGACACACCATGCA
4097709 TAA-CAAACAAAATGTTCTGACACGCCAT
66 TAACCAAACAAAATGTTCTGACACGCCAT
* * *
4097737 GCATAACAAGTTAAATGTTGTGACACGCCATGCA-ACACAAGCAAAATGTTCTGACACACCATGC
1 CCATAACAAGTTAAATGTTATGACACACCATGCATA-ACAAGCAAAATGTTCTGACACACCATGC
** * *
4097801 ATAACCACCCAAAATGTTCTGACATGTCAT
65 ATAACCAAACAAAATGTTCTGACACGCCAT
4097831 CCATAACAAGTTAAA
1 CCATAACAAGTTAAA
4097846 CGTAAACCAC
Statistics
Matches: 95, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
92 1 0.01
93 59 0.62
94 35 0.37
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.21
Consensus pattern (94 bp):
CCATAACAAGTTAAATGTTATGACACACCATGCATAACAAGCAAAATGTTCTGACACACCATGCA
TAACCAAACAAAATGTTCTGACACGCCAT
Found at i:4099930 original size:31 final size:31
Alignment explanation
Indices: 4099895--4100213 Score: 296
Period size: 31 Copynumber: 10.5 Consensus size: 31
4099885 AATAAGGAAT
* * * *
4099895 AAATGTTATGAAACGCCATGCATTACAAGCA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
4099926 AAATGTTGTGACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* *
4099957 AAATATTGTGACACGCCATGCATAATAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
4099988 AAATGTTGTGACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * * * *
4100019 AAATCTTGTAACATGCCATGCATATCGAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* *
4100050 AAATATTGTGACACGCCATGCA-AACCAAGTC
1 AAATGTTGTGACACGCCATGCATAA-CAAGTA
* * *
4100081 AAATGTTGT-------CATGAATATCAAGTC
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* *
4100105 AAATGTTGTGACACGCCATGCATATCAAGTC
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * * * * *
4100136 AAATGTTGTCAAATGCCATGCATATCGAGTC
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * *
4100167 AAATGTTGTCACACTCCATGCATATA-AAGTT
1 AAATGTTGTGACACGCCATGCATA-ACAAGTA
* *
4100198 AAATGTTTTCACACGC
1 AAATGTTGTGACACGC
4100214 TAACAATGCC
Statistics
Matches: 243, Mismatches: 35, Indels: 20
0.82 0.12 0.07
Matches are distributed among these distances:
24 20 0.08
25 1 0.00
30 1 0.00
31 221 0.91
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (31 bp):
AAATGTTGTGACACGCCATGCATAACAAGTA
Found at i:4100124 original size:55 final size:55
Alignment explanation
Indices: 4100035--4100146 Score: 170
Period size: 55 Copynumber: 2.0 Consensus size: 55
4100025 TGTAACATGC
* *
4100035 CATGCATATCGAGTAAAATATTGTGACACGCCATGCAAACCAAGTCAAATGTTGT
1 CATGAATATCAAGTAAAATATTGTGACACGCCATGCAAACCAAGTCAAATGTTGT
* * * *
4100090 CATGAATATCAAGTCAAATGTTGTGACACGCCATGCATATCAAGTCAAATGTTGT
1 CATGAATATCAAGTAAAATATTGTGACACGCCATGCAAACCAAGTCAAATGTTGT
4100145 CA
1 CA
4100147 AATGCCATGC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (55 bp):
CATGAATATCAAGTAAAATATTGTGACACGCCATGCAAACCAAGTCAAATGTTGT
Found at i:4100167 original size:86 final size:86
Alignment explanation
Indices: 4100004--4100177 Score: 213
Period size: 86 Copynumber: 2.0 Consensus size: 86
4099994 TGTGACACGC
* * * * *
4100004 CATGCATAACAAGTAAAATCTTGTAACATGCCATGCATATCGAGTAAAATATTGTGACACGCCAT
1 CATGAATAACAAGTAAAATCTTGTAACACGCCATGCATATCAAGTAAAATATTGTCAAACGCCAT
4100069 GCAAACCAAGTCAAATGTTGT
66 GCAAACCAAGTCAAATGTTGT
* * * * * * *
4100090 CATGAATATCAAGTCAAATGTTGTGACACGCCATGCATATCAAGTCAAATGTTGTCAAATGCCAT
1 CATGAATAACAAGTAAAATCTTGTAACACGCCATGCATATCAAGTAAAATATTGTCAAACGCCAT
* * *
4100155 GCATATCGAGTCAAATGTTGT
66 GCAAACCAAGTCAAATGTTGT
4100176 CA
1 CA
4100178 CACTCCATGC
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
86 73 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (86 bp):
CATGAATAACAAGTAAAATCTTGTAACACGCCATGCATATCAAGTAAAATATTGTCAAACGCCAT
GCAAACCAAGTCAAATGTTGT
Found at i:4100202 original size:117 final size:117
Alignment explanation
Indices: 4099983--4100204 Score: 320
Period size: 117 Copynumber: 1.9 Consensus size: 117
4099973 CATGCATAAT
4099983 AAGTAAAATGTTGTGACACGCCATGCATAACAAGTAAAATCTTGTAACATGCCATGCATATCGAG
1 AAGTAAAATGTTGTGACACGCCATGCATAACAAGTAAAATCTTGTAACATGCCATGCATATCGAG
* *
4100048 TAAAATATTGTGACACGCCATGCAAACCAAGTCAAATGTTGTCATGAATATC
66 TAAAATATTGTCACACGCCATGCAAACAAAGTCAAATGTTGTCATGAATATC
* * * *
4100100 AAGTCAAATGTTGTGACACGCCATGCATATCAAGTCAAATGTTGTCAA-ATGCCATGCATATCGA
1 AAGTAAAATGTTGTGACACGCCATGCATAACAAGTAAAATCTTGT-AACATGCCATGCATATCGA
* * * * * *
4100164 GTCAAATGTTGTCACACTCCATGCATATAAAGTTAAATGTT
65 GTAAAATATTGTCACACGCCATGCAAACAAAGTCAAATGTT
4100205 TTCACACGCT
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
117 90 0.98
118 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (117 bp):
AAGTAAAATGTTGTGACACGCCATGCATAACAAGTAAAATCTTGTAACATGCCATGCATATCGAG
TAAAATATTGTCACACGCCATGCAAACAAAGTCAAATGTTGTCATGAATATC
Found at i:4100717 original size:29 final size:29
Alignment explanation
Indices: 4100680--4100739 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
4100670 GTCAGCCGTT
4100680 CAAGAAATGCCATGTCACACACTCTAAAC
1 CAAGAAATGCCATGTCACACACTCTAAAC
* **
4100709 CAAGCAATGTTATGTCACACACTCTAAAC
1 CAAGAAATGCCATGTCACACACTCTAAAC
4100738 CA
1 CA
4100740 TGGAGTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.30, G:0.10, T:0.20
Consensus pattern (29 bp):
CAAGAAATGCCATGTCACACACTCTAAAC
Found at i:4100906 original size:47 final size:47
Alignment explanation
Indices: 4100807--4101170 Score: 278
Period size: 47 Copynumber: 7.7 Consensus size: 47
4100797 CAACTCTAGC
* * * **
4100807 GTGTCACAGATTCCCTCCATGCCGTCTCACCAACTCTGAACGTTGGC
1 GTGTCACAGATTCCCTCCATGCCGTGTCACCAACTCTAAACTTTGAT
* * * * * *
4100854 ATGTCACAAATTCCCTCTATGTCGTGTCACTAACTTTAAACTTTGAT
1 GTGTCACAGATTCCCTCCATGCCGTGTCACCAACTCTAAACTTTGAT
** * * * **
4100901 GTGTCACAGATTCCCTCCATGGGGTCTCACCAACTCTGAACGTTGGC
1 GTGTCACAGATTCCCTCCATGCCGTGTCACCAACTCTAAACTTTGAT
4100948 GTGTCACAGATTCCCTCCATGCCGTGTCACCAACTCTAAACTTTGAT
1 GTGTCACAGATTCCCTCCATGCCGTGTCACCAACTCTAAACTTTGAT
* ** * * * * * ** **
4100995 GTGTCATAGATTCCCTTTATGGCGTCTCAGCAACTTTGAACACTGGC
1 GTGTCACAGATTCCCTCCATGCCGTGTCACCAACTCTAAACTTTGAT
* * * * ** *
4101042 GTGTCACAAATTTCCTCCATGCCGTATCACCAACTCTGAACTCCGAC
1 GTGTCACAGATTCCCTCCATGCCGTGTCACCAACTCTAAACTTTGAT
* * * * * * * *
4101089 ATGTCACAGATTTCTTCCATGGCGTCTCACCAACTCTGAACTCTGGT
1 GTGTCACAGATTCCCTCCATGCCGTGTCACCAACTCTAAACTTTGAT
* * * * *
4101136 GTCTCACGGATTCCCACCATGCCATGTCACTAACT
1 GTGTCACAGATTCCCTCCATGCCGTGTCACCAACT
4101171 TTTTACAGTG
Statistics
Matches: 245, Mismatches: 72, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
47 245 1.00
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (47 bp):
GTGTCACAGATTCCCTCCATGCCGTGTCACCAACTCTAAACTTTGAT
Found at i:4100928 original size:94 final size:94
Alignment explanation
Indices: 4100806--4101238 Score: 481
Period size: 94 Copynumber: 4.6 Consensus size: 94
4100796 CCAACTCTAG
* * *
4100806 CGTGTCACAGATTCCCTCCATGCCGTCTCACCAACTCTGAACGTTGGCATGTCACAAATTCCCTC
1 CGTGTCACAGATTCCCTCCATGGCGTCTCACCAACTCTGAACATTGGCGTGTCACAAATTCCCTC
* * * *
4100871 TATGTCGTGTCACTAACTTTAAACTTTGA
66 CATGCCGTGTCACCAACTCTAAACTTTGA
* * * *
4100900 TGTGTCACAGATTCCCTCCATGGGGTCTCACCAACTCTGAACGTTGGCGTGTCACAGATTCCCTC
1 CGTGTCACAGATTCCCTCCATGGCGTCTCACCAACTCTGAACATTGGCGTGTCACAAATTCCCTC
4100965 CATGCCGTGTCACCAACTCTAAACTTTGA
66 CATGCCGTGTCACCAACTCTAAACTTTGA
* * ** * * * *
4100994 TGTGTCATAGATTCCCTTTATGGCGTCTCAGCAACTTTGAACACTGGCGTGTCACAAATTTCCTC
1 CGTGTCACAGATTCCCTCCATGGCGTCTCACCAACTCTGAACATTGGCGTGTCACAAATTCCCTC
* * **
4101059 CATGCCGTATCACCAACTCTGAACTCCGA
66 CATGCCGTGTCACCAACTCTAAACTTTGA
* * * * * ** *
4101088 CATGTCACAGATTTCTTCCATGGCGTCTCACCAACTCTGAAC-TCTGGTGTCTCACGGATTCCCA
1 CGTGTCACAGATTCCCTCCATGGCGTCTCACCAACTCTGAACAT-TGGCGTGTCACAAATTCCCT
* * * ** **
4101152 CCATGCCATGTCACTAACTTTTTACAGTGA
65 CCATGCCGTGTCACCAACTCTAAACTTTGA
* * *
4101182 CGTGTCACAAATTCTCTCTATGGCGTCTCACCAACTCTGAACATTGGCGTGTCACAA
1 CGTGTCACAGATTCCCTCCATGGCGTCTCACCAACTCTGAACATTGGCGTGTCACAA
4101239 CCGTGTCACA
Statistics
Matches: 279, Mismatches: 58, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
94 278 1.00
95 1 0.00
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.30
Consensus pattern (94 bp):
CGTGTCACAGATTCCCTCCATGGCGTCTCACCAACTCTGAACATTGGCGTGTCACAAATTCCCTC
CATGCCGTGTCACCAACTCTAAACTTTGA
Found at i:4100972 original size:141 final size:139
Alignment explanation
Indices: 4100805--4101237 Score: 463
Period size: 141 Copynumber: 3.1 Consensus size: 139
4100795 ACCAACTCTA
** *
4100805 GCGTGTCACAGATTCCCTCCATGCCGTCTCACCAACTCTGAACGTTGGCATGTCACAAATTCCCT
1 GCGTGTCACAGATTCCCTCCATGCCGTCTCACCAACTCTGAAC-TTGGTGTGTCACAGATTCCCT
* ** * * *
4100870 CTATGTCGTGTCACTAACTTTAAACTTTGATGTGTCACAGATTCCCTCCATGGGGTCTCACCAAC
65 CTATGCCGTGTCACTAACTTTAAACACTGACGTGTCACAAATTCCCTCCATGGCGTCTCACCAAC
4100935 TCTGAACGTTG
130 TCTGAAC-TTG
* * * *
4100946 GCGTGTCACAGATTCCCTCCATGCCGTGTCACCAACTCTAAACTTTGATGTGTCATAGATTCCCT
1 GCGTGTCACAGATTCCCTCCATGCCGTCTCACCAACTCTGAAC-TTGGTGTGTCACAGATTCCCT
* * * * * * * *
4101011 TTATGGCGTCTCAGC-AACTTTGAACACTGGCGTGTCACAAATTTCCTCCATGCCGTATCACCAA
65 CTATGCCGTGTCA-CTAACTTTAAACACTGACGTGTCACAAATTCCCTCCATGGCGTCTCACCAA
*
4101075 CTCTGAACTCCG
129 CTCTGAACT-TG
* * * * * * * *
4101087 ACATGTCACAGATTTCTTCCATGGCGTCTCACCAACTCTGAACTCTGGTGTCTCACGGATTCCCA
1 GCGTGTCACAGATTCCCTCCATGCCGTCTCACCAACTCTGAACT-TGGTGTGTCACAGATTCCCT
* * ** * * *
4101152 CCATGCCATGTCACTAACTTTTTACAGTGACGTGTCACAAATTCTCTCTATGGCGTCTCACCAAC
65 CTATGCCGTGTCACTAACTTTAAACACTGACGTGTCACAAATTCCCTCCATGGCGTCTCACCAAC
4101217 TCTGAACATTG
130 TCTGAAC-TTG
4101228 GCGTGTCACA
1 GCGTGTCACA
4101238 ACCGTGTCAC
Statistics
Matches: 236, Mismatches: 51, Indels: 10
0.79 0.17 0.03
Matches are distributed among these distances:
140 3 0.01
141 231 0.98
142 2 0.01
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.30
Consensus pattern (139 bp):
GCGTGTCACAGATTCCCTCCATGCCGTCTCACCAACTCTGAACTTGGTGTGTCACAGATTCCCTC
TATGCCGTGTCACTAACTTTAAACACTGACGTGTCACAAATTCCCTCCATGGCGTCTCACCAACT
CTGAACTTG
Found at i:4101318 original size:56 final size:56
Alignment explanation
Indices: 4101247--4101363 Score: 198
Period size: 56 Copynumber: 2.1 Consensus size: 56
4101237 AACCGTGTCA
* * *
4101247 CACATTCCCAACATGACGTTTCACGAACTCTAAATCCTGCCCTGCCACAGCCGTGT
1 CACATTCCCAACATGACGTTTCAAGAACTCTAAACCCTGCCCTGCCACAGCCGTCT
*
4101303 CACATTCCCAACATGACGTTTCAAGAACTCTAAACCCTGCCCTGCCACAGCCTTCT
1 CACATTCCCAACATGACGTTTCAAGAACTCTAAACCCTGCCCTGCCACAGCCGTCT
4101359 CACAT
1 CACAT
4101364 ATGGCTTGTT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.26, C:0.38, G:0.12, T:0.23
Consensus pattern (56 bp):
CACATTCCCAACATGACGTTTCAAGAACTCTAAACCCTGCCCTGCCACAGCCGTCT
Found at i:4104128 original size:27 final size:27
Alignment explanation
Indices: 4104073--4104314 Score: 243
Period size: 27 Copynumber: 8.8 Consensus size: 27
4104063 CACCATTATA
* * *
4104073 TGTAACAATTAAATTTTTCAATATAACG
1 TGTAACAACTAAA-TTTTCAACATGACG
* *
4104101 TGTAATAACTAAATCTTCAACATGACG
1 TGTAACAACTAAATTTTCAACATGACG
* * *
4104128 TGTAACAATTACATTTTTCAACAT-AGTG
1 TGTAACAACTA-AATTTTCAACATGA-CG
* ***
4104156 TGTAACAACTAAATTTTTAACATGGTA
1 TGTAACAACTAAATTTTCAACATGACG
* * * *
4104183 TGTAGCAACTATATTTTTCAATATGTCG
1 TGTAACAACTA-AATTTTCAACATGACG
**
4104211 TGTAACAACTAAATTTTCAACATGATA
1 TGTAACAACTAAATTTTCAACATGACG
* *
4104238 TGTAACAACTAAATTTTCAACATGGCA
1 TGTAACAACTAAATTTTCAACATGACG
*
4104265 TGTAACAACTACATTTTTCAACATGACG
1 TGTAACAACTA-AATTTTCAACATGACG
4104293 TGTAACAACTAAATTTTCAACA
1 TGTAACAACTAAATTTTCAACA
4104315 ACTAAATTTT
Statistics
Matches: 175, Mismatches: 34, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
27 99 0.57
28 76 0.43
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (27 bp):
TGTAACAACTAAATTTTCAACATGACG
Found at i:4104137 original size:55 final size:55
Alignment explanation
Indices: 4104073--4104529 Score: 320
Period size: 55 Copynumber: 8.1 Consensus size: 55
4104063 CACCATTATA
* * * * *
4104073 TGTAACAATTAAATTTTTCAATATAACGTGTAATAACTAAATCTTCAACATGACG
1 TGTAACAACTAAATTTTTCAACATGACGTGTAACAACTAAATTTTCAACATGACG
* * * * ***
4104128 TGTAACAATTACATTTTTCAACAT-AGTGTGTAACAACTAAATTTTTAACATGGTA
1 TGTAACAACTAAATTTTTCAACATGA-CGTGTAACAACTAAATTTTCAACATGACG
* * * * **
4104183 TGTAGCAACTATATTTTTCAATATGTCGTGTAACAACTAAATTTTCAACATGATA
1 TGTAACAACTAAATTTTTCAACATGACGTGTAACAACTAAATTTTCAACATGACG
* * *
4104238 TGTAACAACTAAA-TTTTCAACATGGCATGTAACAACTACATTTTTCAACATGACG
1 TGTAACAACTAAATTTTTCAACATGACGTGTAACAACTA-AATTTTCAACATGACG
* * *
4104293 TGTAACAACTAAATTTTCAACAACTAAATTTTTTAACATAGTGTGTAACAACTAAATATTCAACA
1 TGTAACAACTAAATTTT--TCAAC---A-----TGAC-----GTGTAACAACTAAATTTTCAACA
*
4104358 TGACA
51 TGACG
* * *
4104363 TGTAACAACTATATTTTTCAACATGGCGTGTAACAACTAAATTTTCAACATGAGG
1 TGTAACAACTAAATTTTTCAACATGACGTGTAACAACTAAATTTTCAACATGACG
* * * * * * *
4104418 TGTAATAACTAAA--TTTCAACATGGCGTGTAGCAATTACATTTTTAACATGATG
1 TGTAACAACTAAATTTTTCAACATGACGTGTAACAACTAAATTTTCAACATGACG
* * * * * *
4104471 TGTAATAA-T-TA-TTTTCAACATGATGTGTAAC-ACTACATTTTTTAACATGGCG
1 TGTAACAACTAAATTTTTCAACATGACGTGTAACAACTA-AATTTTCAACATGACG
4104523 T-TAACAA
1 TGTAACAA
4104530 TATTTTTTCC
Statistics
Matches: 325, Mismatches: 56, Indels: 46
0.76 0.13 0.11
Matches are distributed among these distances:
51 9 0.03
52 30 0.09
53 43 0.13
54 23 0.07
55 163 0.50
56 3 0.01
58 4 0.01
60 2 0.01
61 1 0.00
65 1 0.00
66 2 0.01
68 4 0.01
70 29 0.09
71 11 0.03
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (55 bp):
TGTAACAACTAAATTTTTCAACATGACGTGTAACAACTAAATTTTCAACATGACG
Found at i:4104251 original size:82 final size:82
Alignment explanation
Indices: 4104071--4104529 Score: 344
Period size: 82 Copynumber: 5.5 Consensus size: 82
4104061 TTCACCATTA
* * ** * * * *
4104071 TATGTAACAATTAAATTTTTCAATATAACGTGTAATAACTA-AATCTTCAACATGACGTGTAACA
1 TATGTAACAACTAAA-TTTTCAACATGGCATGTAACAACTACATTTTTCAACATGACGTGTAACA
* *
4104135 ATTACATTTTTCAACATAG
65 ACTA-AATTTTCAACATAG
* * * * * * *
4104154 TGTGTAACAACTAAATTTTTAACATGGTATGTAGCAACTATATTTTTCAATATGTCGTGTAACAA
1 TATGTAACAACTAAATTTTCAACATGGCATGTAACAACTACATTTTTCAACATGACGTGTAACAA
4104219 CTAAATTTTCAACAT-G
66 CTAAATTTTCAACATAG
4104235 ATATGTAACAACTAAATTTTCAACATGGCATGTAACAACTACATTTTTCAACATGACGTGTAACA
1 -TATGTAACAACTAAATTTTCAACATGGCATGTAACAACTACATTTTTCAACATGACGTGTAACA
*
4104300 ACTAAATTTTCAACAACTAAATTTTTTAAC
65 ACTAAATTTT---CAAC---A-----T-AG
* * * *
4104330 ATAGTGTGTAACAACTAAATATTCAACATGACATGTAACAACTATATTTTTCAACATGGCGTGTA
1 -TA---TGTAACAACTAAATTTTCAACATGGCATGTAACAACTACATTTTTCAACATGACGTGTA
4104395 ACAACTAAATTTTCAACATGAG
62 ACAACTAAATTTTCAACAT-AG
* * * * * * *
4104417 -GTGTAATAACTAAA-TTTCAACATGGCGTGTAGCAATTACATTTTT-AACATGATGTGTAATAA
1 TATGTAACAACTAAATTTTCAACATGGCATGTAACAACTACATTTTTCAACATGACGTGTAACAA
*
4104479 -T-TATTTTCAACAT-G
66 CTAAATTTTCAACATAG
* * * *
4104493 ATGTGTAAC-ACTACATTTTTTAACATGGCGT-TAACAA
1 -TATGTAACAACTA-AATTTTCAACATGGCATGTAACAA
4104530 TATTTTTTCC
Statistics
Matches: 308, Mismatches: 46, Indels: 49
0.76 0.11 0.12
Matches are distributed among these distances:
76 1 0.00
77 4 0.01
78 23 0.07
79 14 0.05
80 14 0.05
81 26 0.08
82 107 0.35
83 35 0.11
85 4 0.01
87 2 0.01
88 1 0.00
92 1 0.00
93 1 0.00
95 7 0.02
98 68 0.22
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (82 bp):
TATGTAACAACTAAATTTTCAACATGGCATGTAACAACTACATTTTTCAACATGACGTGTAACAA
CTAAATTTTCAACATAG
Found at i:4104314 original size:15 final size:15
Alignment explanation
Indices: 4104296--4104324 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4104286 CATGACGTGT
4104296 AACAACTAAATTTTC
1 AACAACTAAATTTTC
4104311 AACAACTAAATTTT
1 AACAACTAAATTTT
4104325 TTAACATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.34
Consensus pattern (15 bp):
AACAACTAAATTTTC
Found at i:4104330 original size:16 final size:15
Alignment explanation
Indices: 4104295--4104330 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
4104285 ACATGACGTG
4104295 TAACAACTAAATTTT
1 TAACAACTAAATTTT
*
4104310 CAACAACTAAATTTTT
1 TAACAACTAAA-TTTT
4104326 TAACA
1 TAACA
4104331 TAGTGTGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (15 bp):
TAACAACTAAATTTT
Found at i:4104331 original size:43 final size:43
Alignment explanation
Indices: 4104268--4104357 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 43
4104258 CATGGCATGT
* *
4104268 AACAACTACATTTTTCAACAT-GACGTGTAACAACTAAATTTTC
1 AACAACTAAATTTTTCAACATAG-CGTGTAACAACTAAATATTC
* *
4104311 AACAACTAAATTTTTTAACATAGTGTGTAACAACTAAATATTC
1 AACAACTAAATTTTTCAACATAGCGTGTAACAACTAAATATTC
4104354 AACA
1 AACA
4104358 TGACATGTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 41 0.98
44 1 0.02
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (43 bp):
AACAACTAAATTTTTCAACATAGCGTGTAACAACTAAATATTC
Found at i:4104366 original size:27 final size:27
Alignment explanation
Indices: 4104311--4104529 Score: 180
Period size: 27 Copynumber: 8.2 Consensus size: 27
4104301 CTAAATTTTC
* *
4104311 AACAACTAAATTTTTTAACAT-AGTGTGT
1 AACAACTAAA-TTTTCAACATGA-CGTGT
* *
4104339 AACAACTAAATATTCAACATGACATGT
1 AACAACTAAATTTTCAACATGACGTGT
* *
4104366 AACAACTATATTTTTCAACATGGCGTGT
1 AACAACTA-AATTTTCAACATGACGTGT
*
4104394 AACAACTAAATTTTCAACATGAGGTGT
1 AACAACTAAATTTTCAACATGACGTGT
* *
4104421 AATAACTAAA-TTTCAACATGGCGTGT
1 AACAACTAAATTTTCAACATGACGTGT
* * * * *
4104447 AGCAATTACATTTTTAACATGATGTGT
1 AACAACTAAATTTTCAACATGACGTGT
* * *
4104474 AATAA-T-TATTTTCAACATGATGTGT
1 AACAACTAAATTTTCAACATGACGTGT
* * *
4104499 AAC-ACTACATTTTTTAACATGGCGT-T
1 AACAACTA-AATTTTCAACATGACGTGT
4104525 AACAA
1 AACAA
4104530 TATTTTTTCC
Statistics
Matches: 153, Mismatches: 31, Indels: 15
0.77 0.16 0.08
Matches are distributed among these distances:
24 1 0.01
25 20 0.13
26 25 0.16
27 73 0.48
28 34 0.22
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (27 bp):
AACAACTAAATTTTCAACATGACGTGT
Found at i:4104382 original size:98 final size:97
Alignment explanation
Indices: 4104214--4104412 Score: 319
Period size: 98 Copynumber: 2.0 Consensus size: 97
4104204 TATGTCGTGT
* *
4104214 AACAACTAAATTTTCAACATGATATGTAACAACTAAATTTTCAACATGGCATGTAACAACTACAT
1 AACAACTAAATTTTCAACATGATATGTAACAACTAAATATTCAACATGACATGTAACAACTACAT
4104279 TTTTCAACATGACGTGTAACAACTAAATTTTC
66 TTTTCAACATGACGTGTAACAACTAAATTTTC
* * *
4104311 AACAACTAAATTTTTTAACAT-AGTGTGTAACAACTAAATATTCAACATGACATGTAACAACTAT
1 AACAACTAAA-TTTTCAACATGA-TATGTAACAACTAAATATTCAACATGACATGTAACAACTAC
*
4104375 ATTTTTCAACATGGCGTGTAACAACTAAATTTTC
64 ATTTTTCAACATGACGTGTAACAACTAAATTTTC
4104409 AACA
1 AACA
4104413 TGAGGTGTAA
Statistics
Matches: 94, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
97 11 0.12
98 83 0.88
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.32
Consensus pattern (97 bp):
AACAACTAAATTTTCAACATGATATGTAACAACTAAATATTCAACATGACATGTAACAACTACAT
TTTTCAACATGACGTGTAACAACTAAATTTTC
Found at i:4104460 original size:53 final size:53
Alignment explanation
Indices: 4104335--4104511 Score: 196
Period size: 53 Copynumber: 3.3 Consensus size: 53
4104325 TTAACATAGT
* * *
4104335 GTGTAACAACTAAATATTCAACATGACATGTAACAACTATATTTTTCAACATGGC
1 GTGTAACAACTAAATTTTCAACATGACGTGTAATAACTA-A-TTTTCAACATGGC
* *
4104390 GTGTAACAACTAAATTTTCAACATGAGGTGTAATAACTAAATTTCAACATGGC
1 GTGTAACAACTAAATTTTCAACATGACGTGTAATAACTAATTTTCAACATGGC
* * * * * * **
4104443 GTGTAGCAATTACATTTTTAACATGATGTGTAATAA-TTATTTTCAACATGAT
1 GTGTAACAACTAAATTTTCAACATGACGTGTAATAACTAATTTTCAACATGGC
*
4104495 GTGTAAC-ACTACATTTT
1 GTGTAACAACTAAATTTT
4104512 TTAACATGGC
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
51 9 0.08
52 18 0.17
53 43 0.41
54 1 0.01
55 35 0.33
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (53 bp):
GTGTAACAACTAAATTTTCAACATGACGTGTAATAACTAATTTTCAACATGGC
Found at i:4110795 original size:35 final size:35
Alignment explanation
Indices: 4110722--4110812 Score: 92
Period size: 35 Copynumber: 2.5 Consensus size: 35
4110712 TAGTATTTCG
* * * * * *
4110722 CTTATTTTAATTATTTTGCATGAAGTAGCGTTTTA
1 CTTATTTTAATTATTTTACATAAAATAACGCTTCA
*
4110757 CTTATTTTAATTATTTTACATAAAATAATGCTTCA
1 CTTATTTTAATTATTTTACATAAAATAACGCTTCA
*
4110792 CTTATTATTAGTTATTCTTAC
1 CTTATT-TTAATTATT-TTAC
4110813 GTGAAGTAGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
35 34 0.74
36 8 0.17
37 4 0.09
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.52
Consensus pattern (35 bp):
CTTATTTTAATTATTTTACATAAAATAACGCTTCA
Found at i:4132435 original size:18 final size:18
Alignment explanation
Indices: 4132412--4132450 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
4132402 ACACGATTAA
*
4132412 TAACACGTATAATACGAT
1 TAACACGTATAACACGAT
*
4132430 TAACACGTTTAACACGAT
1 TAACACGTATAACACGAT
4132448 TAA
1 TAA
4132451 AAAAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (18 bp):
TAACACGTATAACACGAT
Found at i:4132628 original size:13 final size:13
Alignment explanation
Indices: 4132610--4132642 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
4132600 CATTTATAAA
4132610 ATTAAAAAAAATT
1 ATTAAAAAAAATT
4132623 ATT-AAAAAAATT
1 ATTAAAAAAAATT
4132635 ATTTAAAA
1 A-TTAAAA
4132643 TTATTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 10 0.56
13 5 0.28
14 3 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATTAAAAAAAATT
Found at i:4132631 original size:12 final size:13
Alignment explanation
Indices: 4132614--4132642 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
4132604 TATAAAATTA
4132614 AAAAAAATTA-TT
1 AAAAAAATTATTT
4132626 AAAAAAATTATTT
1 AAAAAAATTATTT
4132639 AAAA
1 AAAA
4132643 TTATTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAAAATTATTT
Found at i:4139158 original size:17 final size:17
Alignment explanation
Indices: 4139136--4139173 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
4139126 ATAAGCTCAC
4139136 TGCTGCAT-GCCTTGCAA
1 TGCTGCATGGCC-TGCAA
4139153 TGCTGCATGGCCTGCAA
1 TGCTGCATGGCCTGCAA
4139170 TGCT
1 TGCT
4139174 ATGGACTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.16, C:0.29, G:0.26, T:0.29
Consensus pattern (17 bp):
TGCTGCATGGCCTGCAA
Found at i:4145744 original size:2 final size:2
Alignment explanation
Indices: 4145739--4145766 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4145729 TATCTGTGTG
4145739 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4145767 AATTAGCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4158837 original size:36 final size:36
Alignment explanation
Indices: 4158745--4158838 Score: 163
Period size: 36 Copynumber: 2.6 Consensus size: 36
4158735 TAATGTAATT
*
4158745 TCAAAAACTTAAAATTCAAGCTTAAATCATGTGACC
1 TCAAAAACTTAAAATTCAAGTTTAAATCATGTGACC
4158781 TCAAAAACTTAAAATTCAAGTTTAAATCATGTGACC
1 TCAAAAACTTAAAATTCAAGTTTAAATCATGTGACC
4158817 TCAAAAAC-TAAAATTTCAAGTT
1 TCAAAAACTTAAAA-TTCAAGTT
4158839 ACTAACAGTG
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
35 5 0.09
36 51 0.91
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (36 bp):
TCAAAAACTTAAAATTCAAGTTTAAATCATGTGACC
Found at i:4170925 original size:12 final size:12
Alignment explanation
Indices: 4170904--4170941 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
4170894 AATAGAATTG
4170904 AAAAAA-AAATA
1 AAAAAATAAATA
4170915 AAAAAATAAATA
1 AAAAAATAAATA
4170927 AAAATAAT-AATA
1 AAAA-AATAAATA
4170939 AAA
1 AAA
4170942 TAAAAACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 6 0.24
12 16 0.64
13 3 0.12
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAAATAAATA
Found at i:4170935 original size:21 final size:21
Alignment explanation
Indices: 4170905--4170945 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4170895 ATAGAATTGA
4170905 AAAAAAAATAAAAAAATAAAT
1 AAAAAAAATAAAAAAATAAAT
* *
4170926 AAAAATAATAATAAAATAAA
1 AAAAAAAATAAAAAAATAAA
4170946 AACTTTAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAAAAAATAAAAAAATAAAT
Found at i:4190311 original size:33 final size:33
Alignment explanation
Indices: 4190257--4190436 Score: 142
Period size: 33 Copynumber: 5.6 Consensus size: 33
4190247 ATACTAATTA
* * *
4190257 TGCCGCCCAGAACGCAGAGGAGACGAAAGACTC
1 TGCCGCCCAGAAGGAAAAGGAGACGAAAGACTC
* *
4190290 TGCGGCCCAGAAGAAAAAGGAGACGAAAGACTC
1 TGCCGCCCAGAAGGAAAAGGAGACGAAAGACTC
* *** * *
4190323 -G--G--TA-ACAGGTAAAA-CTTAC-ACAGAATC
1 TGCCGCCCAGA-AGG-AAAAGGAGACGAAAGACTC
* *
4190350 TGCCGCCCAGAAGGCAAAGGAGACAAAAGACTC
1 TGCCGCCCAGAAGGAAAAGGAGACGAAAGACTC
* *
4190383 TGCCGCCCAGAAGGCAAAGGAGACGAAAGATTC
1 TGCCGCCCAGAAGGAAAAGGAGACGAAAGACTC
*
4190416 TGCTGCCCAGAAGGAAAAGGA
1 TGCCGCCCAGAAGGAAAAGGA
4190437 AACAAAGGAC
Statistics
Matches: 114, Mismatches: 23, Indels: 20
0.73 0.15 0.13
Matches are distributed among these distances:
27 7 0.06
28 6 0.05
29 4 0.04
30 2 0.02
31 3 0.03
32 7 0.06
33 85 0.75
ACGTcount: A:0.39, C:0.24, G:0.28, T:0.09
Consensus pattern (33 bp):
TGCCGCCCAGAAGGAAAAGGAGACGAAAGACTC
Found at i:4193542 original size:144 final size:144
Alignment explanation
Indices: 4193282--4193570 Score: 479
Period size: 144 Copynumber: 2.0 Consensus size: 144
4193272 CATTTGATAT
* * **
4193282 TCCAGTCATTAAAGTACTTACTTGTGTCTAGATATTGGCACACACAAGGTTTTCGTCTCAAGACA
1 TCCAGTCATCAAAGTACTTACTTGTGTCTAGATACTGGCACACACAAGGTTTTCACCTCAAGACA
*
4193347 TGTTTTGTTTGATGAAATACAGTTTCCCTCTCCACAAATCTCAAATTCAATTAATAAATCTCCTA
66 TGTTTTGTTTGATAAAATACAGTTTCCCTCTCCACAAATCTCAAATTCAATTAATAAATCTCCTA
4193412 TTTCATCCTCAGAA
131 TTTCATCCTCAGAA
* * *
4193426 TCCAGTCATCAAAGTGCTTACTTGTGTCTAGATACTGGCACACATAGGGTTTTCACCTCAAGACA
1 TCCAGTCATCAAAGTACTTACTTGTGTCTAGATACTGGCACACACAAGGTTTTCACCTCAAGACA
* *
4193491 TGTTTTGTTTGATAAAATACAGTTTCCTTTTCCACAAATCTCAAATTCAATTAATAAATCTCCTA
66 TGTTTTGTTTGATAAAATACAGTTTCCCTCTCCACAAATCTCAAATTCAATTAATAAATCTCCTA
*
4193556 TTTCATCCTCTGAA
131 TTTCATCCTCAGAA
4193570 T
1 T
4193571 GGCTAACCAA
Statistics
Matches: 134, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
144 134 1.00
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (144 bp):
TCCAGTCATCAAAGTACTTACTTGTGTCTAGATACTGGCACACACAAGGTTTTCACCTCAAGACA
TGTTTTGTTTGATAAAATACAGTTTCCCTCTCCACAAATCTCAAATTCAATTAATAAATCTCCTA
TTTCATCCTCAGAA
Found at i:4195742 original size:144 final size:144
Alignment explanation
Indices: 4195550--4195836 Score: 495
Period size: 144 Copynumber: 2.0 Consensus size: 144
4195540 TTCTTCTCCA
* *
4195550 TAGTACGAGCATTGTTTTCATGTCATAGATCGTTATATCCATCATATTAATTGAGGTTAAGTTAC
1 TAGTACGAGCATTGTTTTCATGTCATAGATCGTTAGATCCATCATATTAATTGAAGTTAAGTTAC
*
4195615 TCGAACATAACAACTCAAGCTTAAAATATAACATTTTCATATTTTCATATTTACACATTTACACA
66 TCGAACATAACAACTCAAGCTTAAAATATAACAATTTCATATTTTCATATTTACACATTTACACA
4195680 ACAC-AAGCACATTG
131 ACACTAA-CACATTG
* * *
4195694 TAGTACGAGCATTGTTTTCATTTCATTGATTGTTAGATCCATCATATTAATTGAAGTTAAGTTAC
1 TAGTACGAGCATTGTTTTCATGTCATAGATCGTTAGATCCATCATATTAATTGAAGTTAAGTTAC
*
4195759 TCGAACTTAACAACTCAAGCTTAAAATATAACAATTTCATATTTTCATATTTACACATTTACACA
66 TCGAACATAACAACTCAAGCTTAAAATATAACAATTTCATATTTTCATATTTACACATTTACACA
4195824 ACACTAACACATT
131 ACACTAACACATT
4195837 TACACATTAC
Statistics
Matches: 135, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
144 133 0.99
145 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (144 bp):
TAGTACGAGCATTGTTTTCATGTCATAGATCGTTAGATCCATCATATTAATTGAAGTTAAGTTAC
TCGAACATAACAACTCAAGCTTAAAATATAACAATTTCATATTTTCATATTTACACATTTACACA
ACACTAACACATTG
Found at i:4196007 original size:121 final size:124
Alignment explanation
Indices: 4195838--4196075 Score: 310
Period size: 121 Copynumber: 1.9 Consensus size: 124
4195828 TAACACATTT
*
4195838 ACACATTACAATTACAACACAATAACAATAACAATTTATATAAAAAATT-AAAAA-TAAAAATT-
1 ACACATTACAATTACAACACAATAAAAATAACAATTTATATAAAAAATTAAAAAATTAAAAATTA
* * * *
4195900 TATAAAT-TA-A-ATAT-ATAATATAAATTATGCAAAATTTACACATTTAACACAACAA
66 AAAAAATATATATATATAAAAACATAAATTATGCAAAATTTACACATTTAACACAACAA
*
4195955 ACACATTCACACATTTACAATCACAATAAAAATTACAATTTATATAAAAAATTAAAAAAATTAAA
1 ACACATT-ACA-A-TTACAA-CACAATAAAAATAACAATTTATATAAAAAATT-AAAAAATTAAA
*
4196020 AATTAAAAAAATATATATATATAAAAAACATAAATTATGTAAAATTTACACATTTA
61 AATTAAAAAAATATATATATAT-AAAAACATAAATTATGCAAAATTTACACATTTA
4196076 GCCTTTTAAA
Statistics
Matches: 101, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
117 7 0.07
118 3 0.03
119 1 0.01
120 6 0.06
121 30 0.30
123 5 0.05
124 8 0.08
125 5 0.05
126 2 0.02
127 1 0.01
128 4 0.04
130 29 0.29
ACGTcount: A:0.58, C:0.11, G:0.01, T:0.30
Consensus pattern (124 bp):
ACACATTACAATTACAACACAATAAAAATAACAATTTATATAAAAAATTAAAAAATTAAAAATTA
AAAAAATATATATATATAAAAACATAAATTATGCAAAATTTACACATTTAACACAACAA
Found at i:4196014 original size:9 final size:9
Alignment explanation
Indices: 4196000--4196031 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
4195990 CAATTTATAT
4196000 AAAAAATTA
1 AAAAAATTA
4196009 AAAAAATT-
1 AAAAAATTA
4196017 -AAAAATTA
1 AAAAAATTA
4196025 AAAAAAT
1 AAAAAAT
4196032 ATATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.33
9 14 0.67
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAAAAATTA
Found at i:4196022 original size:16 final size:16
Alignment explanation
Indices: 4196001--4196031 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4195991 AATTTATATA
4196001 AAAAATTAAAAAAATT
1 AAAAATTAAAAAAATT
4196017 AAAAATTAAAAAAAT
1 AAAAATTAAAAAAAT
4196032 ATATATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAATTAAAAAAATT
Found at i:4196062 original size:18 final size:18
Alignment explanation
Indices: 4196007--4196063 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
4195997 TATAAAAAAT
4196007 TAAAAAAATTAAA-A-AT-
1 TAAAAAAA-TAAATATATA
*
4196023 TAAAAAAATATATATATA
1 TAAAAAAATAAATATATA
*
4196041 TAAAAAACATAAAT-TATG
1 TAAAAAA-ATAAATATATA
4196059 TAAAA
1 TAAAA
4196064 TTTACACATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 3 0.09
16 9 0.26
17 2 0.06
18 15 0.44
19 5 0.15
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (18 bp):
TAAAAAAATAAATATATA
Found at i:4203610 original size:23 final size:23
Alignment explanation
Indices: 4203584--4203629 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
4203574 ATACAATAAC
*
4203584 CTTATCCTAATATAATTAGGAAT
1 CTTATCCTAATAGAATTAGGAAT
*
4203607 CTTATCCTAATAGAATTATGAAT
1 CTTATCCTAATAGAATTAGGAAT
4203630 TGTTATTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (23 bp):
CTTATCCTAATAGAATTAGGAAT
Found at i:4210435 original size:23 final size:23
Alignment explanation
Indices: 4210409--4210454 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
4210399 ATAAAATAAC
*
4210409 CTTATCCTAATATAATTAGGAAT
1 CTTATCCTAATAAAATTAGGAAT
4210432 CTTATCCTAATAAAATTAGGAAT
1 CTTATCCTAATAAAATTAGGAAT
4210455 TGTTATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (23 bp):
CTTATCCTAATAAAATTAGGAAT
Found at i:4210666 original size:2 final size:2
Alignment explanation
Indices: 4210659--4210703 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
4210649 GCTCAAGAAT
4210659 TA TA TA TA T- TA T- TA T- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4210698 TA TA TA
1 TA TA TA
4210704 GTTTTTACAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
1 3 0.08
2 37 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4215484 original size:33 final size:33
Alignment explanation
Indices: 4215442--4215507 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
4215432 ATACTGATTA
* *
4215442 TGCCACCCAGAAGGCAAAGGAGACGAATGACTC
1 TGCCGCCCAGAAGGCAAAGGAGACGAAAGACTC
* ** *
4215475 TGCGGCCCAGAAGAAAAAGGGGACGAAAGACTC
1 TGCCGCCCAGAAGGCAAAGGAGACGAAAGACTC
4215508 GGTAACAGGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.38, C:0.24, G:0.30, T:0.08
Consensus pattern (33 bp):
TGCCGCCCAGAAGGCAAAGGAGACGAAAGACTC
Found at i:4215570 original size:33 final size:33
Alignment explanation
Indices: 4215533--4215627 Score: 127
Period size: 33 Copynumber: 2.9 Consensus size: 33
4215523 TTAGACAGAT
4215533 TCTGCCGCCCAGAAGGCAAAGGAGACAAAAGAC
1 TCTGCCGCCCAGAAGGCAAAGGAGACAAAAGAC
* * *
4215566 TCTGCCGCGCAGAAGGCAAAGGAGACGAAAGAT
1 TCTGCCGCCCAGAAGGCAAAGGAGACAAAAGAC
* * * *
4215599 TCTGCTGCCTAGAAGGCGAAGGAAACAAA
1 TCTGCCGCCCAGAAGGCAAAGGAGACAAA
4215628 GGACACCGTA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.38, C:0.23, G:0.29, T:0.09
Consensus pattern (33 bp):
TCTGCCGCCCAGAAGGCAAAGGAGACAAAAGAC
Found at i:4216594 original size:18 final size:18
Alignment explanation
Indices: 4216562--4216607 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
4216552 CAAACAAATT
*
4216562 AATAAGAAATAAAT-AAA
1 AATAAAAAATAAATAAAA
*
4216579 AATAATAAAATCAATAAAA
1 AATAA-AAAATAAATAAAA
4216598 AATAAAAAAT
1 AATAAAAAAT
4216608 GATGAATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.20
18 12 0.48
19 8 0.32
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (18 bp):
AATAAAAAATAAATAAAA
Found at i:4217788 original size:13 final size:12
Alignment explanation
Indices: 4217764--4217793 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
4217754 TTTTAATCAA
4217764 AATAAAAAAAAT
1 AATAAAAAAAAT
4217776 AATAAAAATAAAT
1 AATAAAAA-AAAT
4217789 AATAA
1 AATAA
4217794 CTCATGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (12 bp):
AATAAAAAAAAT
Found at i:4230212 original size:62 final size:62
Alignment explanation
Indices: 4230091--4230501 Score: 546
Period size: 62 Copynumber: 6.6 Consensus size: 62
4230081 CAATTGTGAA
* * *
4230091 TTAAATCGAACCTG-TTTGTGAGATAGGTCGAGCCTATGTCATGTTTAGAAATTTCAATTTTT
1 TTAAATCGAACCTGTTTTGTGAGATAGGTCGAGCCTAGGTCAAGTCTAGAAATTTCAA-TTTT
*
4230153 TTAAATCGAACCTGTTTTTTGAGATAGGTCGAGCCTAGGTCAAGTCTAGAAATTT-AA-TTT
1 TTAAATCGAACCTGTTTTGTGAGATAGGTCGAGCCTAGGTCAAGTCTAGAAATTTCAATTTT
* * * *
4230213 TTAAATCGAACCTGTTTTCTGAGATAGGTCAAGCCT-GGACCAAGTCTCGAAATTTCAATTTT
1 TTAAATCGAACCTGTTTTGTGAGATAGGTCGAGCCTAGG-TCAAGTCTAGAAATTTCAATTTT
*
4230275 TTAAATCTAACCTGTTTTGTGAGATAGGTCGAGCCTAGGTCAAGTCTA-AGAATTTCAATTTT
1 TTAAATCGAACCTGTTTTGTGAGATAGGTCGAGCCTAGGTCAAGTCTAGA-AATTTCAATTTT
*
4230337 TTAAATCGAACCTGTTTTCG-GAGATAGGTCGAGCCTAGGTCAAGTCTAGGAATTTCAATTTT
1 TTAAATCGAACCTGTTTT-GTGAGATAGGTCGAGCCTAGGTCAAGTCTAGAAATTTCAATTTT
* * * * * * *
4230399 TTAAATCGAACCTGTTTTGTAAGATAGGTCCAACCTAGGACAAGTTTAGCAATTTTAATTTTTT
1 TTAAATCGAACCTGTTTTGTGAGATAGGTCGAGCCTAGGTCAAGTCTAGAAATTTCAA--TTTT
* * *
4230463 TTAAATTGAACTTGTTTTGTGAGATGGGTCGAGCCTAGG
1 TTAAATCGAACCTGTTTTGTGAGATAGGTCGAGCCTAGG
4230502 AATTTCAATG
Statistics
Matches: 310, Mismatches: 28, Indels: 20
0.87 0.08 0.06
Matches are distributed among these distances:
59 2 0.01
60 51 0.16
61 4 0.01
62 177 0.57
63 39 0.13
64 37 0.12
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (62 bp):
TTAAATCGAACCTGTTTTGTGAGATAGGTCGAGCCTAGGTCAAGTCTAGAAATTTCAATTTT
Found at i:4230565 original size:11 final size:11
Alignment explanation
Indices: 4230539--4230611 Score: 52
Period size: 11 Copynumber: 6.9 Consensus size: 11
4230529 TATTTCAAAA
4230539 AATAAAA-AA-
1 AATAAAATAAT
4230548 AAT-AAATAAT
1 AATAAAATAAT
4230558 AATAAAAT-AT
1 AATAAAATAAT
4230568 AATTAAAA-AAGCT
1 AA-TAAAATAA--T
4230581 AA-AAAATTAAT
1 AATAAAA-TAAT
4230592 AA-AAAATAAT
1 AATAAAATAAT
*
4230602 AAAAAAATAA
1 AATAAAATAA
4230612 AAAATGATGA
Statistics
Matches: 54, Mismatches: 0, Indels: 18
0.75 0.00 0.25
Matches are distributed among these distances:
8 3 0.06
9 5 0.09
10 13 0.24
11 28 0.52
13 5 0.09
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.22
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:4230592 original size:31 final size:29
Alignment explanation
Indices: 4230535--4230616 Score: 98
Period size: 29 Copynumber: 2.9 Consensus size: 29
4230525 AACCTATTTC
*
4230535 AAAAAAT-A-AAAAAAATAAATAA-TAAT
1 AAAAAATAATAAAAAAATAAAAAATTAAT
* *
4230561 AAAATATAATTAAAAAAGCTAAAAAATTAAT
1 AAAAAATAA-TAAAAAA-ATAAAAAATTAAT
4230592 AAAAAATAATAAAAAAATAAAAAAT
1 AAAAAATAATAAAAAAATAAAAAAT
4230617 GATGAATGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
26 6 0.13
27 1 0.02
29 14 0.30
30 13 0.28
31 12 0.26
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.21
Consensus pattern (29 bp):
AAAAAATAATAAAAAAATAAAAAATTAAT
Found at i:4233374 original size:29 final size:29
Alignment explanation
Indices: 4233325--4233385 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
4233315 ATATTATCCC
* * *
4233325 ATTTTAATTTTCTTTAGTTAAATTTTTTA
1 ATTTTAATTTTCATTAGTTAAAATATTTA
*
4233354 ATTTTAA-TTTCAATTATTTAAAATATTTA
1 ATTTTAATTTTC-ATTAGTTAAAATATTTA
4233383 ATT
1 ATT
4233386 AAATTAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (29 bp):
ATTTTAATTTTCATTAGTTAAAATATTTA
Found at i:4237214 original size:9 final size:10
Alignment explanation
Indices: 4237193--4237221 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
4237183 CTAAGGTAGT
4237193 TTTTATGAAA
1 TTTTATGAAA
4237203 TTTTAT-AAA
1 TTTTATGAAA
4237212 TTTTATGAAA
1 TTTTATGAAA
4237222 AATGGATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (10 bp):
TTTTATGAAA
Found at i:4240522 original size:21 final size:21
Alignment explanation
Indices: 4240482--4240520 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4240472 ATATATATAT
4240482 ATATAAATATATGTACTTTAA
1 ATATAAATATATGTACTTTAA
4240503 ATATAAATATAT-TACTTT
1 ATATAAATATATGTACTTT
4240521 TATTTTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (21 bp):
ATATAAATATATGTACTTTAA
Found at i:4240814 original size:25 final size:25
Alignment explanation
Indices: 4240786--4240845 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
4240776 ATTCAGCTAG
*
4240786 TTAATAGGGTTAAGGTTGTTAATTT
1 TTAATAGGGTTAAGGTAGTTAATTT
4240811 TTAATAGGGTTAAGGTAGTTAATTT
1 TTAATAGGGTTAAGGTAGTTAATTT
4240836 TTAATAGGGT
1 TTAATAGGGT
4240846 ACCCGACCTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (25 bp):
TTAATAGGGTTAAGGTAGTTAATTT
Found at i:4241202 original size:121 final size:111
Alignment explanation
Indices: 4241006--4241258 Score: 305
Period size: 110 Copynumber: 2.2 Consensus size: 111
4240996 ATATTTTCAT
*
4241006 ATTTACACATTTAGACAACACAAACACATTTACACATTACAATAACAACACAATAACAATAACAA
1 ATTTACACATTTAGACAACACAAACACATTCACACATTACAAT----ACACAATAACAATAACAA
4241071 TTTATATAAAAAATTAAAAATAAAAATTTATAAATTAAATATATAATATAAATTATGTAAA
62 TTTATATAAAAAA-TAAAAA-AAAAA--TAT--A-T-AA-A-A-AATATAAATTATGTAAA
*
4241132 ATTTACACATTTA-AC-ACAACAAACACATTCACACATTTACAAT-CACAATAACAATTACAATT
1 ATTTACACATTTAGACAAC-ACAAACACATTCACACA-TTACAATACACAATAACAATAACAATT
*
4241194 TATATAAAAAATAAAAAACAAATATATAAAAAATATAAATTATGTAAA
64 TATATAAAAAATAAAAAAAAAATATATAAAAAATATAAATTATGTAAA
4241242 ATTTACACATTTAGACA
1 ATTTACACATTTAGACA
4241259 TTTAAACAAA
Statistics
Matches: 120, Mismatches: 3, Indels: 22
0.83 0.02 0.15
Matches are distributed among these distances:
110 30 0.25
111 3 0.03
112 1 0.01
113 2 0.02
114 1 0.01
115 1 0.01
117 3 0.03
119 4 0.03
120 6 0.05
121 29 0.24
124 2 0.02
125 18 0.15
126 20 0.17
ACGTcount: A:0.56, C:0.13, G:0.02, T:0.29
Consensus pattern (111 bp):
ATTTACACATTTAGACAACACAAACACATTCACACATTACAATACACAATAACAATAACAATTTA
TATAAAAAATAAAAAAAAAATATATAAAAAATATAAATTATGTAAA
Found at i:4241293 original size:94 final size:94
Alignment explanation
Indices: 4241154--4241340 Score: 279
Period size: 94 Copynumber: 2.0 Consensus size: 94
4241144 AACACAACAA
* * *
4241154 ACACATTCACACATTTACAATCACAATAACAATTACAATTTATATAAAAAATAAAAAACAAATAT
1 ACACATTCACACATTTACAAACACAATAACAATAACAATTCATATAAAAAATAAAAAACAAATAT
4241219 ATA-A-AAAATATAAATTATGTAAAATTT
66 ATATATAAAATATAAATTATGTAAAATTT
* * *
4241246 ACACATTTAGACATTTAAACAAACACAATAACAATAACAATTCATATAAAAAATTAAAAACAAAT
1 ACACATTCACACATTT--ACAAACACAATAACAATAACAATTCATATAAAAAATAAAAAACAAAT
*
4241311 ATATATATAAACTATAAATTATGTAAAATT
64 ATATATATAAAATATAAATTATGTAAAATT
4241341 ATTTTTTTTA
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
92 14 0.17
94 48 0.57
95 1 0.01
96 21 0.25
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.29
Consensus pattern (94 bp):
ACACATTCACACATTTACAAACACAATAACAATAACAATTCATATAAAAAATAAAAAACAAATAT
ATATATAAAATATAAATTATGTAAAATTT
Found at i:4245602 original size:31 final size:35
Alignment explanation
Indices: 4245534--4245603 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 35
4245524 AATTTTACCA
* *
4245534 TTTATTAATTTTAGAATTATTATTATTATATATTT
1 TTTATTAATTTTAAAATTACTATTATTATATATTT
4245569 TTTATTAA-TTTAAAATTACTATTATTATAT-TTT
1 TTTATTAATTTTAAAATTACTATTATTATATATTT
4245602 TT
1 TT
4245604 AAAAAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 5 0.15
34 20 0.61
35 8 0.24
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (35 bp):
TTTATTAATTTTAAAATTACTATTATTATATATTT
Found at i:4245617 original size:34 final size:34
Alignment explanation
Indices: 4245548--4245617 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 34
4245538 TTAATTTTAG
* * ** *
4245548 AATTATTATTATTATATATTTTTTATTAATTTAA
1 AATTACTATTATTATATATTTTTAAAAAATATAA
4245582 AATTACTATTATTATAT-TTTTTAAAAAAATATAA
1 AATTACTATTATTATATATTTTT-AAAAAATATAA
4245616 AA
1 AA
4245618 AATAGAGAGC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 5 0.17
34 25 0.83
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (34 bp):
AATTACTATTATTATATATTTTTAAAAAATATAA
Found at i:4247202 original size:6 final size:6
Alignment explanation
Indices: 4247191--4247220 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
4247181 TTTAAGATGT
4247191 AGCCAC AGCCAC AGCCAC AGCCAC AGCCAC
1 AGCCAC AGCCAC AGCCAC AGCCAC AGCCAC
4247221 GGCTTGATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.50, G:0.17, T:0.00
Consensus pattern (6 bp):
AGCCAC
Found at i:4262384 original size:6 final size:6
Alignment explanation
Indices: 4262346--4262377 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
4262336 AATTTGGGGC
4262346 TTCCTT TTCCTT TTCCTT TTCCTT TTCCTT TT
1 TTCCTT TTCCTT TTCCTT TTCCTT TTCCTT TT
4262378 TCATTTTTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
TTCCTT
Found at i:4276166 original size:42 final size:42
Alignment explanation
Indices: 4276119--4276216 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 42
4276109 AGTTTGCACT
*
4276119 ATCTAACCTAGAGTCTGCCATGAAAGATATAAATGCAAGTAA
1 ATCTAACCTAGAGTCTGCCATAAAAGATATAAATGCAAGTAA
4276161 ATCTAACCTAGAGTCTGCCATAAAAGATATAAATGCAAGTAA
1 ATCTAACCTAGAGTCTGCCATAAAAGATATAAATGCAAGTAA
4276203 ATTCTAACACTAGA
1 A-TCTAAC-CTAGA
4276217 AAAGAAAAAG
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
42 42 0.79
43 6 0.11
44 5 0.09
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.24
Consensus pattern (42 bp):
ATCTAACCTAGAGTCTGCCATAAAAGATATAAATGCAAGTAA
Done.