Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 90 of 343
Found at i:29857033 original size:25 final size:25
Alignment explanation
Indices: 29857005--29857083 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
29856995 CTAATGGCCG
29857005 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ***
29857030 ATGTGAT-AAGGCCTAA-TGGCCA-
1 ATGTGATGAATGTGAAAGTGTATAT
*
29857052 ATGCGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
29857077 ATGTGAT
1 ATGTGAT
29857084 AGGGCCGAGT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 6 0.17
23 8 0.23
24 8 0.23
25 13 0.37
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:29862277 original size:12 final size:12
Alignment explanation
Indices: 29862260--29862284 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29862250 CCCCACACGC
29862260 CTGTGTGCTAGG
1 CTGTGTGCTAGG
29862272 CTGTGTGCTAGG
1 CTGTGTGCTAGG
29862284 C
1 C
29862285 CATGTAACTT
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:0.08, C:0.20, G:0.40, T:0.32
Consensus pattern (12 bp):
CTGTGTGCTAGG
Found at i:29872910 original size:47 final size:47
Alignment explanation
Indices: 29872849--29873117 Score: 232
Period size: 46 Copynumber: 5.7 Consensus size: 47
29872839 TTAGAACCAA
*
29872849 TGTAAGACCATGTCTGGGACATGACATCGGCATTGAGACGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATG-CATCGGCATTGAGATGAGAGCTAG
* * * *
29872897 TGTAAGA-CATGTCTGGGACATGCATCGGCCTTGAGATGTA-ATCCAC
1 TGTAAGACCATGTCTGGGACATGCATCGGCATTGAGATG-AGAGCTAG
** * *
29872943 TGTAAGA-CATGTCTGGGACATGCATCGGC-TACAAGATGTG-TC-AG
1 TGTAAGACCATGTCTGGGACATGCATCGGCAT-TGAGATGAGAGCTAG
* ** *
29872987 TGTAAGACCATATCTGGGACATGGCATCGGCACGGATATGTGAGAGCTAG
1 TGTAAGACCATGTCTGGGACAT-GCATCGGCATTGAGA--TGAGAGCTAG
* * *
29873037 TGTAAGACCATGTTTGGGACATAGCATCGAC-TT--GATGGATGAGCCAG
1 TGTAAGACCATGTCTGGGACAT-GCATCGGCATTGAGAT-GA-GAGCTAG
*
29873084 TGTAAGACCATGTCTGGGACATGGCATCGACATT
1 TGTAAGACCATGTCTGGGACAT-GCATCGGCATT
29873118 ATACCCTATG
Statistics
Matches: 182, Mismatches: 26, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
44 8 0.04
45 17 0.09
46 63 0.35
47 52 0.29
48 12 0.07
49 1 0.01
50 29 0.16
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGCATCGGCATTGAGATGAGAGCTAG
Found at i:29875410 original size:12 final size:12
Alignment explanation
Indices: 29875393--29875417 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29875383 GAAATATCAT
29875393 ATATATATTCAG
1 ATATATATTCAG
29875405 ATATATATTCAG
1 ATATATATTCAG
29875417 A
1 A
29875418 CTCATGTCCT
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:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
ATATATATTCAG
Found at i:29877586 original size:34 final size:34
Alignment explanation
Indices: 29877519--29877591 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
29877509 AACAGTGCAT
* **
29877519 GCAGTAACAGTCTGGGCCTGAGCCCTATTCAGTA
1 GCAGTAACAGTCTGAGCCTGAGCCCTAAACAGTA
* *
29877553 TCAGT-ACAGTCTGAGCCTTAGCCCCTAAACAGTA
1 GCAGTAACAGTCTGAGCCTGAG-CCCTAAACAGTA
29877587 GCAGT
1 GCAGT
29877592 GTGGGCCTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
33 14 0.44
34 18 0.56
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (34 bp):
GCAGTAACAGTCTGAGCCTGAGCCCTAAACAGTA
Found at i:29884203 original size:21 final size:20
Alignment explanation
Indices: 29884179--29884250 Score: 72
Period size: 21 Copynumber: 3.5 Consensus size: 20
29884169 TCTGATGAGC
29884179 TTCAGTTTAACCTTTCTGGGT
1 TTCAGTTTAACCTTT-TGGGT
* * * *
29884200 TTCATTTTAGCTCTTTTGAGC
1 TTCAGTTTAAC-CTTTTGGGT
29884221 TTCAGTTTAACCTTTTTGGGT
1 TTCAGTTTAACC-TTTTGGGT
*
29884242 TTCCGTTTA
1 TTCAGTTTA
29884251 GCTCCTATGA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 1 0.03
21 35 0.88
22 4 0.10
ACGTcount: A:0.14, C:0.18, G:0.17, T:0.51
Consensus pattern (20 bp):
TTCAGTTTAACCTTTTGGGT
Found at i:29884222 original size:42 final size:42
Alignment explanation
Indices: 29884157--29884299 Score: 162
Period size: 42 Copynumber: 3.4 Consensus size: 42
29884147 TTGCTTTTAC
* *
29884157 TTTCCGTTTAGCTCTGATGAGCTTCAGTTTAACCTTTCTGGG
1 TTTCAGTTTAGCTCTTATGAGCTTCAGTTTAACCTTTCTGGG
* * *
29884199 TTTCATTTTAGCTCTTTTGAGCTTCAGTTTAACCTTTTTGGG
1 TTTCAGTTTAGCTCTTATGAGCTTCAGTTTAACCTTTCTGGG
* * * * *
29884241 TTTCCGTTTAGCTCCTATGAGCTTCCGTTCAACCCTTAC-GGG
1 TTTCAGTTTAGCTCTTATGAGCTTCAGTTTAA-CCTTTCTGGG
* *
29884283 TTTCCGTTTAGCACTTA
1 TTTCAGTTTAGCTCTTA
29884300 AGTGCTTTTG
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 81 0.95
43 4 0.05
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (42 bp):
TTTCAGTTTAGCTCTTATGAGCTTCAGTTTAACCTTTCTGGG
Found at i:29884299 original size:21 final size:21
Alignment explanation
Indices: 29884238--29884299 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 21
29884228 TAACCTTTTT
* * *
29884238 GGGTTTCCGTTTAGCTCCTAT
1 GGGTTTCCGTTTAGCACTTAC
* * * * *
29884259 GAGCTTCCGTTCAACCCTTAC
1 GGGTTTCCGTTTAGCACTTAC
29884280 GGGTTTCCGTTTAGCACTTA
1 GGGTTTCCGTTTAGCACTTA
29884300 AGTGCTTTTG
Statistics
Matches: 29, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.37
Consensus pattern (21 bp):
GGGTTTCCGTTTAGCACTTAC
Found at i:29886537 original size:49 final size:47
Alignment explanation
Indices: 29886363--29886865 Score: 808
Period size: 47 Copynumber: 10.6 Consensus size: 47
29886353 CCCTTCGGGA
* * * * * * *
29886363 CTTATCACATTTATACACTTTCACATCCATCACGTTGACCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29886410 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29886457 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29886504 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29886553 CTTATCACATATATATACACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29886602 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29886651 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29886698 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29886745 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29886792 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29886839 CTTATCACATATATATACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
29886866 ACAATTATCC
Statistics
Matches: 434, Mismatches: 20, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 293 0.68
49 141 0.32
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29892522 original size:40 final size:40
Alignment explanation
Indices: 29892421--29892565 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
29892411 TACTCGAATG
* *
29892421 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCAACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
29892462 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
29892502 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
29892542 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
29892566 CTTGTGTGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:29899697 original size:40 final size:40
Alignment explanation
Indices: 29899603--29899747 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
29899593 TACTCGAATG
*
29899603 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
29899644 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
29899684 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
29899724 ATATCCGGGTTAAGACCCAAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
29899748 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:29901913 original size:27 final size:27
Alignment explanation
Indices: 29901883--29902060 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
29901873 ATATTGAGTC
* * *
29901883 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
29901910 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
29901937 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAA-T
** ** *
29901965 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
29901992 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
29902019 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
29902046 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29902061 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 109 0.83
28 23 0.17
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:29902022 original size:82 final size:81
Alignment explanation
Indices: 29901904--29902059 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
29901894 TGCTATATAA
*
29901904 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAATCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAATCAAA-TCGCA
29901969 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
29901986 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAATCAAATCGCA
29902050 CACTTAGTGC
65 CACTTAGTGC
29902060 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAATCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:29971264 original size:29 final size:29
Alignment explanation
Indices: 29971229--29971302 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
29971219 GTTGTGAGAT
* *
29971229 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
29971258 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
29971287 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
29971303 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:29971743 original size:38 final size:38
Alignment explanation
Indices: 29971610--29971796 Score: 155
Period size: 40 Copynumber: 4.7 Consensus size: 38
29971600 TCGAATGATG
* * * *
29971610 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGC-GAGT-ACTAAA
* *
29971650 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCA-TTGTGCGAG-TACTAAA
*
29971690 TCCGGGCTAAG-CCCGAAGGCATGGTGCGAGTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTACTAAA
* * **
29971727 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTA
1 TCCGGGCTAAGTCCCGAAG-GCATT-GTGCGAGT-ACTAAA
*
29971767 TCCGGGCTAAGTTCCGAAGAGCATTCGTGC
1 TCCGGGCTAAGTCCCGAAG-GCATT-GTGC
29971797 TGGTGTTATA
Statistics
Matches: 123, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
37 17 0.14
38 15 0.12
39 13 0.11
40 69 0.56
41 9 0.07
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (38 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTACTAAA
Found at i:29971825 original size:39 final size:40
Alignment explanation
Indices: 29971726--29971841 Score: 162
Period size: 40 Copynumber: 2.9 Consensus size: 40
29971716 CGAGTACTAA
* *
29971726 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGATAT
* * *
29971766 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGATAT
* *
29971806 ATCC-GGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGA
29971842 CGTGTATTCG
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 27 0.41
40 39 0.59
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGATAT
Found at i:29975809 original size:70 final size:71
Alignment explanation
Indices: 29975684--29975820 Score: 240
Period size: 70 Copynumber: 1.9 Consensus size: 71
29975674 CCTAATGGCC
* *
29975684 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGA
1 GATGTGATGAATGTGAAAGTG-ATATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
29975749 AAGTGGG
65 AAGTGGG
29975756 GATGTGATGAATGTGAAAGTG-TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 GATGTGATGAATGTGAAAGTGATATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
29975820 A
66 A
29975821 TCGTATATAT
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
70 42 0.67
72 21 0.33
ACGTcount: A:0.32, C:0.07, G:0.33, T:0.28
Consensus pattern (71 bp):
GATGTGATGAATGTGAAAGTGATATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGGG
Found at i:29975810 original size:47 final size:47
Alignment explanation
Indices: 29975756--29976030 Score: 399
Period size: 47 Copynumber: 5.8 Consensus size: 47
29975746 TGAAAGTGGG
*
29975756 GATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
*
29975803 GATGTGATGAATGTGAAA-TCGTATATATGAGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGT-GTATATATGTGATAAGGCCTAATGGCC
*
29975850 GATGTGATGAATGTGAAAGTGTATATATATATGTGATAGGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCC
29975901 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* * * *
29975948 GATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* * * *
29975995 AACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAG
29976031 TCCCGAAGGG
Statistics
Matches: 207, Mismatches: 15, Indels: 12
0.88 0.06 0.05
Matches are distributed among these distances:
46 1 0.00
47 160 0.77
48 1 0.00
51 45 0.22
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
Found at i:29975925 original size:98 final size:94
Alignment explanation
Indices: 29975756--29976030 Score: 408
Period size: 98 Copynumber: 2.9 Consensus size: 94
29975746 TGAAAGTGGG
* *
29975756 GATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAA
*
29975821 -TCGTATATATGAGATAAGGCCTAATGGCC
66 GT-GTATATATGTGATAAGGCCTAATGGCC
29975850 GATGTGATGAATGTGAAAGTGTATATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
1 GATGTGATGAATGTGAAAGTG----TATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGT
29975915 GAAAGTGTATATATGTGATAAGGCCTAATGGCC
62 GAAAGTGTATATATGTGATAAGGCCTAATGGCC
* * * * * *
29975948 GATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAA
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAA
*
29976013 GTGTATAAATGTGATAAG
66 GTGTATATATGTGATAAG
29976031 TCCCGAAGGG
Statistics
Matches: 166, Mismatches: 10, Indels: 10
0.89 0.05 0.05
Matches are distributed among these distances:
94 76 0.46
98 89 0.54
99 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (94 bp):
GATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAA
GTGTATATATGTGATAAGGCCTAATGGCC
Found at i:29976019 original size:145 final size:145
Alignment explanation
Indices: 29975756--29976019 Score: 431
Period size: 145 Copynumber: 1.8 Consensus size: 145
29975746 TGAAAGTGGG
29975756 GATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * * *
29975821 TCGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
66 TCGTATATATGAGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATATATATATGTGA
29975886 TAGGGCCTAATGGCC
131 TAGGGCCTAATGGCC
*
29975901 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * * *
29975966 GT-GTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
66 -TCGTATATATGAGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATA
29976020 AATGTGATAA
Statistics
Matches: 109, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
145 108 0.99
146 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (145 bp):
GATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
TCGTATATATGAGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATATATATATGTGA
TAGGGCCTAATGGCC
Found at i:29976206 original size:37 final size:37
Alignment explanation
Indices: 29976149--29976227 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
29976139 CCAAGCTCTA
* * *
29976149 AAGACCCGATGACTATGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTATGTGTGGAGATTATGTCCGGGT
29976186 AAGACCCGATAACT-TCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTAT-GTGTGGAGATTATGTCCGGGT
29976223 AAGAC
1 AAGAC
29976228 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 1 0.03
37 37 0.97
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTATGTGTGGAGATTATGTCCGGGT
Found at i:29990717 original size:43 final size:43
Alignment explanation
Indices: 29990641--29990746 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
29990631 GTTTATTTAA
* * * *
29990641 AAAAACACCGCTAAAGGTCATGATCTTTAGCGGCGCTTTTACC-
1 AAAAACGCCGCTAAAGGTCAAGACCTTTAGCGGCACTTTT-CCT
* *
29990684 ACAAACGCCGCTAAAGGTCAAGACCTTTGGCGGCACTTTTCCT
1 AAAAACGCCGCTAAAGGTCAAGACCTTTAGCGGCACTTTTCCT
* *
29990727 AAAAATGCCACTAAAGGTCA
1 AAAAACGCCGCTAAAGGTCA
29990747 TGAAATTTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 2 0.04
43 51 0.96
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGGTCAAGACCTTTAGCGGCACTTTTCCT
Found at i:29991056 original size:19 final size:19
Alignment explanation
Indices: 29991011--29991057 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
29991001 TAAATATTAA
*
29991011 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
29991030 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
29991049 AATAAAAAT
1 AATAAAAAT
29991058 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:29991550 original size:23 final size:24
Alignment explanation
Indices: 29991461--29991557 Score: 117
Period size: 23 Copynumber: 4.1 Consensus size: 24
29991451 TTCCAGCAAC
* **
29991461 TAAACACTTCAATTTGCATTACTT
1 TAAACACTTCAATTTACAGCACTT
* *
29991485 AAAACACTTCAATTTACAACA-TT
1 TAAACACTTCAATTTACAGCACTT
*
29991508 TAAGCACTTCAATTTACAGCA-TT
1 TAAACACTTCAATTTACAGCACTT
*
29991531 TAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTACAGCACTT
29991555 TAA
1 TAA
29991558 TTTAGTAGGG
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 41 0.65
24 22 0.35
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (24 bp):
TAAACACTTCAATTTACAGCACTT
Found at i:29995507 original size:6 final size:7
Alignment explanation
Indices: 29995490--29995523 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
29995480 ATTTTAAGTT
*
29995490 TTTTTAT
1 TTTTTAA
29995497 TTTTTAA
1 TTTTTAA
29995504 TTTTTAA
1 TTTTTAA
29995511 TTTTTAAA
1 TTTTT-AA
29995519 TTTTT
1 TTTTT
29995524 TTGAAGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTAA
Found at i:29995507 original size:15 final size:15
Alignment explanation
Indices: 29995489--29995524 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
29995479 AATTTTAAGT
*
29995489 TTTTTTATTTTTTAA
1 TTTTTTATTTTTAAA
*
29995504 TTTTTAATTTTTAAA
1 TTTTTTATTTTTAAA
29995519 TTTTTT
1 TTTTTT
29995525 TGAAGATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTATTTTTAAA
Found at i:29995549 original size:8 final size:8
Alignment explanation
Indices: 29995468--29995549 Score: 60
Period size: 8 Copynumber: 9.9 Consensus size: 8
29995458 GACTAAAATA
29995468 TTAAA-TT
1 TTAAATTT
*
29995475 TTAAAATT
1 TTAAATTT
*
29995483 TTAAGTTT
1 TTAAATTT
**
29995491 TTTTATTT
1 TTAAATTT
*
29995499 TTTAATTT
1 TTAAATTT
29995507 TT-AATTT
1 TTAAATTT
29995514 TTAAATTTTT
1 TTAAA--TTT
29995524 TTGAAGATTT
1 TT-AA-ATTT
29995534 TTATAATTT
1 TTA-AATTT
29995543 TTAAATT
1 TTAAATT
29995550 ATCATATAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
7 12 0.19
8 28 0.45
9 8 0.13
10 11 0.18
11 2 0.03
12 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.65
Consensus pattern (8 bp):
TTAAATTT
Found at i:29996141 original size:15 final size:15
Alignment explanation
Indices: 29996109--29996151 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
29996099 TTATCTCTTA
29996109 CATAA-CCATAAA-C
1 CATAATCCATAAACC
*
29996122 CATAATCCCTAAACC
1 CATAATCCATAAACC
29996137 CATAATCCATAAACC
1 CATAATCCATAAACC
29996152 TTAAAATAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 5 0.19
14 6 0.23
15 15 0.58
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.19
Consensus pattern (15 bp):
CATAATCCATAAACC
Found at i:29996156 original size:22 final size:22
Alignment explanation
Indices: 29996114--29996214 Score: 59
Period size: 22 Copynumber: 4.7 Consensus size: 22
29996104 TCTTACATAA
*
29996114 CCATAAACCATAATCCCTAAAC
1 CCATAAACCATAAACCCTAAAC
* *
29996136 CCATAATCCATAAACCTTAAA-
1 CCATAAACCATAAACCCTAAAC
* **
29996157 --ATAGTAACTCATACACTTTAAAC
1 CCATA--AAC-CATAAACCCTAAAC
*
29996180 CC-TAAACCATATACCCTAAA-
1 CCATAAACCATAAACCCTAAAC
* *
29996200 CTATAAACCCTAAAC
1 CCATAAACCATAAAC
29996215 TATAATGATA
Statistics
Matches: 60, Mismatches: 12, Indels: 15
0.69 0.14 0.17
Matches are distributed among these distances:
19 3 0.05
20 1 0.02
21 22 0.37
22 32 0.53
24 2 0.03
ACGTcount: A:0.46, C:0.31, G:0.01, T:0.23
Consensus pattern (22 bp):
CCATAAACCATAAACCCTAAAC
Found at i:29996197 original size:14 final size:14
Alignment explanation
Indices: 29996175--29996219 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
29996165 TCATACACTT
29996175 TAAACCCTAAACCA
1 TAAACCCTAAACCA
* *
29996189 TATACCCTAAACTA
1 TAAACCCTAAACCA
*
29996203 TAAACCCTAAACTA
1 TAAACCCTAAACCA
29996217 TAA
1 TAA
29996220 TGATAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:29997084 original size:17 final size:17
Alignment explanation
Indices: 29997058--29997142 Score: 66
Period size: 17 Copynumber: 4.8 Consensus size: 17
29997048 AGGGTTATAG
*
29997058 TTTAGTGTTTAGGGTTC
1 TTTAGGGTTTAGGGTTC
*
29997075 TTTAGGGTTTAGGG--G
1 TTTAGGGTTTAGGGTTC
* *
29997090 TTTAGTGTTTTAAGGGTTA
1 TTTAG-GGTTT-AGGGTTC
*
29997109 TAGATTAGTGTTTAGGGTTC
1 T---TTAGGGTTTAGGGTTC
29997129 TTTAGGGTTTAGGG
1 TTTAGGGTTTAGGG
29997143 GTTTAGTGTT
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
15 5 0.09
16 4 0.08
17 29 0.55
19 1 0.02
20 7 0.13
21 3 0.06
22 4 0.08
ACGTcount: A:0.16, C:0.02, G:0.34, T:0.47
Consensus pattern (17 bp):
TTTAGGGTTTAGGGTTC
Found at i:29997133 original size:47 final size:49
Alignment explanation
Indices: 29997081--29997211 Score: 144
Period size: 54 Copynumber: 2.6 Consensus size: 49
29997071 GTTCTTTAGG
*
29997081 GTTTAGGGGTTTAGTGTTTTAAGGGTTATAGATTAGTGTTTA-GGGTTC
1 GTTTAGGGGTTTAGTGTTTTAAGGGTTATAGATTAGTGTTTATGAGTTC
*
29997129 TTTAGGGTTTAGGGGTTTAGTGTTTTAAGGGTTATAGATTAGTGTTTATGA-TTT
1 ------GTTTAGGGGTTTAGTGTTTTAAGGGTTATAGATTAGTGTTTATGAGTTC
*
29997183 TTTTA-GGGTTTAAG-GTTTTAAGGGTTATA
1 GTTTAGGGGTTT-AGTGTTTTAAGGGTTATA
29997212 TGAATTTTAG
Statistics
Matches: 72, Mismatches: 3, Indels: 11
0.84 0.03 0.13
Matches are distributed among these distances:
47 21 0.29
48 6 0.08
54 44 0.61
55 1 0.01
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.48
Consensus pattern (49 bp):
GTTTAGGGGTTTAGTGTTTTAAGGGTTATAGATTAGTGTTTATGAGTTC
Found at i:29997200 original size:54 final size:54
Alignment explanation
Indices: 29997032--29997194 Score: 272
Period size: 54 Copynumber: 3.0 Consensus size: 54
29997022 TGATTTTTGG
* *
29997032 GGGGTTTAGGGTTTTAAGGGTTATAGTTTAGTGTTTAGGGTTCTTTAGGGTTTA
1 GGGGTTTAGTGTTTTAAGGGTTATAGATTAGTGTTTAGGGTTCTTTAGGGTTTA
29997086 GGGGTTTAGTGTTTTAAGGGTTATAGATTAGTGTTTAGGGTTCTTTAGGGTTTA
1 GGGGTTTAGTGTTTTAAGGGTTATAGATTAGTGTTTAGGGTTCTTTAGGGTTTA
** *
29997140 GGGGTTTAGTGTTTTAAGGGTTATAGATTAGTGTTTATGATTTTTTTAGGGTTTA
1 GGGGTTTAGTGTTTTAAGGGTTATAGATTAGTGTTTA-GGGTTCTTTAGGGTTTA
29997195 AGGTTTTAAG
Statistics
Matches: 103, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
54 89 0.86
55 14 0.14
ACGTcount: A:0.18, C:0.01, G:0.33, T:0.48
Consensus pattern (54 bp):
GGGGTTTAGTGTTTTAAGGGTTATAGATTAGTGTTTAGGGTTCTTTAGGGTTTA
Found at i:29997331 original size:41 final size:41
Alignment explanation
Indices: 29997256--29997385 Score: 208
Period size: 41 Copynumber: 3.2 Consensus size: 41
29997246 AATACTCTGG
* *
29997256 TTTTAGCGGC-TTTTTACCAAAAACGCCACTATTGCTTTGT
1 TTTTAGCGGCGTTTTAACAAAAAACGCCACTATTGCTTTGT
29997296 TTTTAGCGGCGTTTTAACAAAAAACGCCACTATTGCTTTGT
1 TTTTAGCGGCGTTTTAACAAAAAACGCCACTATTGCTTTGT
* * *
29997337 TTTTAGCGGTGTTTTAACAAAAAAAGCCGCTATTGCTTTGT
1 TTTTAGCGGCGTTTTAACAAAAAACGCCACTATTGCTTTGT
29997378 TTTTAGCG
1 TTTTAGCG
29997386 TTTTACAATT
Statistics
Matches: 84, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
40 10 0.12
41 74 0.88
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTAACAAAAAACGCCACTATTGCTTTGT
Found at i:29998744 original size:20 final size:21
Alignment explanation
Indices: 29998719--29998765 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
29998709 TTAATTAAGG
*
29998719 TTAAAATTGTAAT-TTAATAA
1 TTAAAATTATAATCTTAATAA
29998739 TTAAAA-TATAATCTTAATAA
1 TTAAAATTATAATCTTAATAA
*
29998759 TAAAAAT
1 TTAAAAT
29998766 AACATGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
TTAAAATTATAATCTTAATAA
Found at i:29999261 original size:13 final size:13
Alignment explanation
Indices: 29999243--29999267 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29999233 CTTATGATAT
29999243 GTGTGAAAATTTC
1 GTGTGAAAATTTC
29999256 GTGTGAAAATTT
1 GTGTGAAAATTT
29999268 GATCATTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:30000407 original size:44 final size:42
Alignment explanation
Indices: 30000357--30000507 Score: 146
Period size: 44 Copynumber: 3.5 Consensus size: 42
30000347 TATATGTTAT
*
30000357 CGTGTAAGACCACATCTGGGACATTGACATCGACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGACATCGA-TT-TGATTTA
* * *
30000401 CGTGTAAGGCCATGTCTGGGACGTTGACATCGTATTTGATTT-
1 CGTGTAAGACCACGTCTGGGACATTGACATCG-ATTTGATTTA
* * * *
30000443 TGTATAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGA-TTA
1 CGTGTAAGACCAC-GTCTGGGACATTGACATCG--ATTTGATTTA
*
30000486 CATGTAAGACCACGTCTGGGAC
1 CGTGTAAGACCACGTCTGGGAC
30000508 GTTGGCATTG
Statistics
Matches: 88, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
42 26 0.30
43 30 0.34
44 31 0.35
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACATTGACATCGATTTGATTTA
Found at i:30000515 original size:43 final size:43
Alignment explanation
Indices: 30000357--30000511 Score: 156
Period size: 43 Copynumber: 3.6 Consensus size: 43
30000347 TATATGTTAT
* * *
30000357 CGTGTAAGACCACATCTGGGACATTGACATCGACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGACATCGA-TATTTGA-TTA
* * *
30000401 CGTGTAAGGCCATGTCTGGGACGTTGACATCG-TATTTGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGACATCGATATTTGATTA
* * *
30000443 TGTATAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGACATCGATATTTGATTA
*
30000486 CATGTAAGACCACGTCTGGGACGTTG
1 CGTGTAAGACCACGTCTGGGACGTTG
30000512 GCATTGTACG
Statistics
Matches: 90, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
42 28 0.31
43 33 0.37
44 29 0.32
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGACATCGATATTTGATTA
Found at i:30003995 original size:140 final size:140
Alignment explanation
Indices: 30003742--30003997 Score: 331
Period size: 138 Copynumber: 1.8 Consensus size: 140
30003732 GTGCCGATGC
* ** *
30003742 CATGTCCCAGACATGGTCTTACATAAGCTCTAGCATATCTGTGCTGATGCCGTGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACATAAGCACTA-CATATCAATGCTGATGCCATGTCCCAGACATG
* *
30003807 GTCTTACATTGACACATCTGGTAGCCGATGCATGTCCTAGACATGTCTTACCCTGATTTACGTCT
65 GTCTTACACTGACACATCTGGTAGCCGATGCATGTCCCAGACATGTCTTACCCTGATTTACGTCT
30003872 CGAGGCCAATG
130 CGAGGCCAATG
*
30003883 CATGTCCCAGACAT-GTCTTACACT-AGCACT-CATCTCAATGCTGATGCCATGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACA-TAAGCACTACATATCAATGCTGATGCCATGTCCCAGACATG
* * * * *
30003945 GTCTTACACTGGCTC-TCATAATGTGGTCGATGCATGTCCCAGACATGTCTTAC
65 GTCTTACACTGACACATC-T--GGTAGCCGATGCATGTCCCAGACATGTCTTAC
30003998 ACTAGCTCAC
Statistics
Matches: 99, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
137 2 0.02
138 41 0.41
140 41 0.41
141 15 0.15
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACATAAGCACTACATATCAATGCTGATGCCATGTCCCAGACATGG
TCTTACACTGACACATCTGGTAGCCGATGCATGTCCCAGACATGTCTTACCCTGATTTACGTCTC
GAGGCCAATG
Found at i:30013316 original size:47 final size:47
Alignment explanation
Indices: 30013211--30013540 Score: 558
Period size: 47 Copynumber: 7.1 Consensus size: 47
30013201 GAAATGATAG
30013211 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30013256 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30013303 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30013350 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30013397 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30013444 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
** * * * * * * *
30013491 -CGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30013537 TAAG
1 TAAG
30013541 TCCCGAAGGG
Statistics
Matches: 271, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
45 36 0.13
46 37 0.14
47 198 0.73
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:30013714 original size:36 final size:37
Alignment explanation
Indices: 30013659--30013736 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
30013649 CCGAGCTCTA
* *
30013659 AAGACCCGATGACTACGTGTGG-GATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
30013695 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
30013732 AAGAC
1 AAGAC
30013737 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:30015632 original size:43 final size:43
Alignment explanation
Indices: 30015584--30015686 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
30015574 TTGGTTTTCA
30015584 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
30015627 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
30015670 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
30015687 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:30015703 original size:29 final size:29
Alignment explanation
Indices: 30015668--30015741 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
30015658 GTTGTGAGAT
* *
30015668 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
30015697 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
30015726 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
30015742 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:30016187 original size:40 final size:40
Alignment explanation
Indices: 30016052--30016246 Score: 173
Period size: 40 Copynumber: 4.9 Consensus size: 40
30016042 TCGAATGATG
* ** *
30016052 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTTCCGAAGAGCATTCATGCT-AGTGA-TATA
* * ** * * *
30016092 TCCGGACTAAGATCCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGA-TATA
*
30016132 TCCGGGCTAAG-TCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATATA
*
30016171 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATATA
* * * * *
30016211 TCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGA
30016247 CGTGTATTCG
Statistics
Matches: 129, Mismatches: 23, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
39 20 0.16
40 103 0.80
41 6 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATATA
Found at i:30016187 original size:79 final size:80
Alignment explanation
Indices: 30016090--30016246 Score: 201
Period size: 80 Copynumber: 2.0 Consensus size: 80
30016080 TAAGTGACCA
* * *
30016090 TATCCGGACTAAGATCCGAAG-GCATTGGTGCGAGTTACTAAATCCGGGCTAAGT-CCGAAGAGC
1 TATCCGGACTAAGATCCGAAGAGCATTCGTGCGAGTGA-TAAATCCGGGCTAAATCCCGAAGAGC
*
30016153 ATTCATGCTAGTGATG
65 AATCATGCTAGTGATG
* * * * *
30016169 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAATCCCGAAGAGCA
1 TATCCGGACTAAGATCCGAAGAGCATTCGTGCGAGTGATAAATCCGGGCTAAATCCCGAAGAGCA
*
30016234 ATCATGCTGGTGA
66 ATCATGCTAGTGA
30016247 CGTGTATTCG
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
79 32 0.48
80 34 0.52
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
TATCCGGACTAAGATCCGAAGAGCATTCGTGCGAGTGATAAATCCGGGCTAAATCCCGAAGAGCA
ATCATGCTAGTGATG
Found at i:30019693 original size:25 final size:25
Alignment explanation
Indices: 30019665--30019743 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
30019655 CTAATGGCCG
30019665 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
30019690 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
30019712 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
30019737 ATGTGAT
1 ATGTGAT
30019744 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:30019715 original size:47 final size:47
Alignment explanation
Indices: 30019649--30020025 Score: 652
Period size: 47 Copynumber: 8.1 Consensus size: 47
30019639 GAAATGATAG
30019649 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30019696 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30019743 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30019788 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30019835 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30019882 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30019929 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
** * * * * * * *
30019976 -CGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30020022 TAAG
1 TAAG
30020026 TCCCGAAGGG
Statistics
Matches: 316, Mismatches: 11, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
45 45 0.14
46 37 0.12
47 234 0.74
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:30019765 original size:22 final size:22
Alignment explanation
Indices: 30019737--30019810 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
30019727 AAGTGTATAT
30019737 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* * ***
30019759 ATGTGATGAATG--TGAAAGTGTAT
1 ATGTGAT-AAGGCCT-AATG-GCCG
30019782 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
30019804 ATGTGAT
1 ATGTGAT
30019811 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
21 1 0.03
22 21 0.57
23 14 0.38
24 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.31, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:30019899 original size:139 final size:140
Alignment explanation
Indices: 30019649--30020025 Score: 650
Period size: 139 Copynumber: 2.7 Consensus size: 140
30019639 GAAATGATAG
30019649 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
30019714 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
30019779 -TATATGTGA
131 ATATATGTGA
30019788 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
30019853 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
30019918 TATATATGTGA
131 -ATATATGTGA
** * * * *
30019929 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA-CGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * *
30019993 GTGATGGATGTGAAAGTGCATAAATGTGATAAG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAG
30020026 TCCCGAAGGG
Statistics
Matches: 227, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
139 130 0.57
140 41 0.18
141 56 0.25
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (140 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
ATATATGTGA
Found at i:30020199 original size:36 final size:37
Alignment explanation
Indices: 30020144--30020221 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
30020134 CCGAGCTCTA
* *
30020144 AAGACCCGATGACTACGTGTGG-GATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
30020180 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
30020217 AAGAC
1 AAGAC
30020222 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:30026391 original size:41 final size:41
Alignment explanation
Indices: 30026338--30026483 Score: 179
Period size: 41 Copynumber: 3.6 Consensus size: 41
30026328 CGCTGACTCA
* *
30026338 AAAAGCCCTTCGAGACCAAGCTCGAATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGAATTATGACACTGGCTC
* * * * * * * *
30026379 GAAGGCCCTTCGAAACTAGGTTCG-GTTATGACACTGGCTT
1 AAAAGCCCTTCGAGACCAAGCTCGAATTATGACACTGGCTC
30026419 AAAAGCCCTTCGAGACCAAGCTC-AGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGA-ATTATGACACTGGCTC
30026460 AAAAGCCCTTCGAGACCAAGCTCG
1 AAAAGCCCTTCGAGACCAAGCTCG
30026484 GATTTAAACC
Statistics
Matches: 84, Mismatches: 18, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
40 29 0.35
41 55 0.65
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGAATTATGACACTGGCTC
Found at i:30029417 original size:27 final size:27
Alignment explanation
Indices: 30029387--30029818 Score: 296
Period size: 27 Copynumber: 16.0 Consensus size: 27
30029377 TGTAAGGTAG
* **
30029387 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * **
30029414 AATTACT-AAATACCTTTGGTTTAAAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * ***
30029440 AATTACTAAAACACCCTCGATTAACAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * * *
30029467 AATTACCAAATTACCATTGATTTATAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * * *
30029494 AATTACCAAAATACCCTTAAATTGTGA
1 AATTACTAAAATACCCTTGATTTGTAA
* * ** * *
30029521 AATTATTGAAATACCCTCAACTTGTGA
1 AATTACTAAAATACCCTTGATTTGTAA
* * *
30029548 AATTACTGAAATACCCTCGACTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
* **
30029575 AATTACTGAAATACCCTTGACCTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
** *
30029602 AATTA-TCAAAATACCCTCAACTTGTAA
1 AATTACT-AAAATACCCTTGATTTGTAA
**
30029629 AATTACCGAAATACCCTTGATTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * * *
30029656 AATTACCAAAATACCCCTAATTTGGAA
1 AATTACTAAAATACCCTTGATTTGTAA
** *
30029683 AATTACCGAAATACCCTTGATTTGGAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * * **
30029710 AATTACAAAAATACCCCTAATTTACAA
1 AATTACTAAAATACCCTTGATTTGTAA
**
30029737 AATTA-TAGAAATACCCTTGACTTTAAAAA
1 AATTACTA-AAATACCCTTGA-TTT-GTAA
* * *
30029766 AATTAC-AGAAATACCATTGGTTTGCAA
1 AATTACTA-AAATACCCTTGATTTGTAA
*
30029793 AATTACTAAAATACCCTTGGTTTGTA
1 AATTACTAAAATACCCTTGATTTGTA
30029819 GATTTACCAA
Statistics
Matches: 334, Mismatches: 63, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
26 26 0.08
27 281 0.84
28 7 0.02
29 20 0.06
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACTAAAATACCCTTGATTTGTAA
Found at i:30029449 original size:53 final size:54
Alignment explanation
Indices: 30029387--30029511 Score: 162
Period size: 53 Copynumber: 2.3 Consensus size: 54
30029377 TGTAAGGTAG
* * * * *
30029387 AATTACTAAAATACCCTTGGTTTACAAAATTACTAAA-TACCTTTGGTTTAAAA
1 AATTACTAAAATACCCTTGATTAACAAAATTACCAAATTACCATTGATTTAAAA
* * *
30029440 AATTACTAAAACACCCTCGATTAACAAAATTACCAAATTACCATTGATTTATAA
1 AATTACTAAAATACCCTTGATTAACAAAATTACCAAATTACCATTGATTTAAAA
*
30029494 AATTACCAAAATACCCTT
1 AATTACTAAAATACCCTT
30029512 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
53 32 0.53
54 28 0.47
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGATTAACAAAATTACCAAATTACCATTGATTTAAAA
Found at i:30030351 original size:22 final size:22
Alignment explanation
Indices: 30030299--30030363 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
30030289 GCCAATTATT
* *
30030299 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
30030321 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
30030343 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
30030364 ACGTATTTAC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:30052597 original size:52 final size:50
Alignment explanation
Indices: 30052501--30052632 Score: 147
Period size: 52 Copynumber: 2.6 Consensus size: 50
30052491 GTTGTGAGAA
* ** **
30052501 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACAAAATGG--TTAGGT
* * *
30052553 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACAAAATGGTTAGGT
* * *
30052603 CGCATGAGTAGTACTAAGTGCAAGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
30052633 TGTGTACCCG
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
50 32 0.47
52 36 0.53
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACAAAATGGTTAGGT
Found at i:30052639 original size:50 final size:51
Alignment explanation
Indices: 30052501--30052689 Score: 182
Period size: 50 Copynumber: 3.7 Consensus size: 51
30052491 GTTGTGAGAA
* ***
30052501 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATGG-TTTAGGT
* ** *
30052553 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATGGTTTAGGT
* * * ** * * * *
30052603 CGCATGAGTAGTACTAAGTGCAAGCTACTATGTGTACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATGGTTTAGGT
* * *
30052654 CATATGTGTGGTACTAAGTGCAGGCCACTATGTGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA
30052690 AAAGATAGCT
Statistics
Matches: 112, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
50 42 0.38
51 34 0.30
52 36 0.32
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATGGTTTAGGT
Found at i:30052684 original size:51 final size:51
Alignment explanation
Indices: 30052613--30052783 Score: 157
Period size: 51 Copynumber: 3.4 Consensus size: 51
30052603 CGCATGAGTA
* * *** * *
30052613 GTACTAAGTGCAAGCTACTATGTGTACCCGATAGCTTCGATCATATGTGTG
1 GTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTCGATCACAAGTGTG
* *
30052664 GTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGTCACAAGTGTG
1 GTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTCGATCACAAGTGTG
* * * * * * *
30052715 GTACTATGTGAAGGCCACTTTTTG-AAGAAGGTAGCTTTGA-CTACAAGGGTG
1 GTACTAAGTGCAGGCCACTATGTGTAA-AAGATAGCTTCGATC-ACAAGTGTG
*
30052766 GTACTATGTGCAGGCCAC
1 GTACTAAGTGCAGGCCAC
30052784 CGGGAATCCG
Statistics
Matches: 101, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
50 3 0.03
51 98 0.97
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (51 bp):
GTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTCGATCACAAGTGTG
Found at i:30068745 original size:13 final size:13
Alignment explanation
Indices: 30068727--30068761 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
30068717 GTGTAGACTT
30068727 CACACGCCCAGGG
1 CACACGCCCAGGG
*
30068740 CACACGCCTAGGG
1 CACACGCCCAGGG
*
30068753 CACATGCCC
1 CACACGCCC
30068762 GTGCCTGAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.23, C:0.46, G:0.26, T:0.06
Consensus pattern (13 bp):
CACACGCCCAGGG
Found at i:30069807 original size:42 final size:41
Alignment explanation
Indices: 30069739--30069884 Score: 143
Period size: 42 Copynumber: 3.5 Consensus size: 41
30069729 TACCATACCA
*
30069739 ATGCCATATCCTAGATATGGTTTTACATGTAATCTCATATCG
1 ATGCCATATCCTAGATATGGTCTTACATG-AATCTCATATCG
* * ** *
30069781 ATGCCAATAGCCTAGCTAT-GTCTTACACAAAATCTCACATCG
1 ATGCC-ATATCCTAGATATGGTCTTACA-TGAATCTCATATCG
* * *
30069823 ATGCCATATCCCAGATATGGTCTTACTTGAAGTCTCATATTG
1 ATGCCATATCCTAGATATGGTCTTACATGAA-TCTCATATCG
*
30069865 ATGTCATATTCC-AGATATGG
1 ATGCCATA-TCCTAGATATGG
30069885 CTTTACACAT
Statistics
Matches: 84, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
41 12 0.14
42 58 0.69
43 14 0.17
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (41 bp):
ATGCCATATCCTAGATATGGTCTTACATGAATCTCATATCG
Found at i:30069901 original size:84 final size:84
Alignment explanation
Indices: 30069739--30069893 Score: 190
Period size: 84 Copynumber: 1.8 Consensus size: 84
30069729 TACCATACCA
* * * *
30069739 ATGCCATATCCTAGATATGGTTTTACATGTAATCTCATATCGATGCCAATAGCCTAGCTATGTCT
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCCAATAGCCTAGATATGGCT
30069804 TACACAAAATCTCACATCG
66 TACACAAAATCTCACATCG
* * * *
30069823 ATGCCATATCCCAGATATGGTCTTACTTG-AAGTCTCATATTGATGTC-ATATTCC-AGATATGG
1 ATGCCATATCCCAGATATGGTCTTACATGTAA-TCTCATATCGATGCCAATA-GCCTAGATATGG
30069885 CTTTACACA
64 C-TTACACA
30069894 TAGTCTCAGT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
83 12 0.20
84 48 0.80
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.34
Consensus pattern (84 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCCAATAGCCTAGATATGGCT
TACACAAAATCTCACATCG
Found at i:30077237 original size:30 final size:30
Alignment explanation
Indices: 30077201--30077257 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
30077191 GAAATCTCAC
30077201 ATTGATGCCAT-CTCCTAGATATGGTCTCGT
1 ATTGATGCCATACTCC-AGATATGGTCTCGT
*
30077231 ATTGATGCCATATTCCAGATATGGTCT
1 ATTGATGCCATACTCCAGATATGGTCT
30077258 TACACATAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (30 bp):
ATTGATGCCATACTCCAGATATGGTCTCGT
Found at i:30079384 original size:27 final size:28
Alignment explanation
Indices: 30079361--30079446 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 28
30079351 CCCAAATATT
30079361 CTCGATTTGTAAAATTATC-GAAATACC
1 CTCGATTTGTAAAATTATCTGAAATACC
*
30079388 CTC-AGTTTGCAAAATTA-CTGAAATACC
1 CTCGA-TTTGTAAAATTATCTGAAATACC
**
30079415 CTCGACATGTAAAATTATC--AAAGTACC
1 CTCGATTTGTAAAATTATCTGAAA-TACC
30079442 CTCGA
1 CTCGA
30079447 ATTAAAAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
26 5 0.10
27 43 0.86
28 2 0.04
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (28 bp):
CTCGATTTGTAAAATTATCTGAAATACC
Found at i:30079456 original size:54 final size:53
Alignment explanation
Indices: 30079292--30079461 Score: 139
Period size: 54 Copynumber: 3.2 Consensus size: 53
30079282 TTAGTTTACC
* * * * * *
30079292 AAATTACTGAAATACCC-CCAATTATAAAATTACCAAAGCACCCTCGGTTTATA
1 AAATTACTGAAATACCCTCGAA-TGTAAAATTATCAAAGTACCCTCGATTTAAA
* ** ** * **
30079345 AAAGTACCCAAATATTCTCGATTTGTAAAATTATCGAAA-TACCCTC-AGTTTGCA
1 AAATTACTGAAATACCCTCGA-ATGTAAAATTATC-AAAGTACCCTCGA-TTTAAA
*
30079399 AAATTACTGAAATACCCTCGACATGTAAAATTATCAAAGTACCCTCGAATTAAA
1 AAATTACTGAAATACCCTCGA-ATGTAAAATTATCAAAGTACCCTCGATTTAAA
30079453 AAATTACTG
1 AAATTACTG
30079462 TTTTACCCTC
Statistics
Matches: 88, Mismatches: 23, Indels: 11
0.72 0.19 0.09
Matches are distributed among these distances:
53 15 0.17
54 69 0.78
55 4 0.05
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.28
Consensus pattern (53 bp):
AAATTACTGAAATACCCTCGAATGTAAAATTATCAAAGTACCCTCGATTTAAA
Found at i:30079468 original size:27 final size:27
Alignment explanation
Indices: 30079438--30079929 Score: 596
Period size: 27 Copynumber: 18.2 Consensus size: 27
30079428 ATTATCAAAG
* *
30079438 TACCCTCGAATTAAAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
30079465 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
30079492 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
30079519 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
30079546 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * * *
30079573 TACCCT-TATTTTACAGAGTTACTATTT
1 TACCCTCGA-TTTACAAAATTACTGTTT
*
30079600 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
30079627 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * * *
30079654 TACCCTCGATTGATAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
30079681 TACCCTTGATTTACAAAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
30079708 TACCCTCTATTTA-AAGAATTACTGTTT
1 TACCCTCGATTTACAA-AATTACTGTTT
* *
30079735 TACCCTTGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
30079762 TACTCTCGATTTATAAAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* * * *
30079789 TACCCTCTATTGATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
30079816 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
30079843 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
30079870 TACCCTCAATTTACAAAATTATCT-TTT
1 TACCCTCGATTTACAAAATTA-CTGTTT
* ** *
30079897 TACCCTCAATTTATGAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
30079924 TACCCT
1 TACCCT
30079930 TAGGGTGTTA
Statistics
Matches: 408, Mismatches: 49, Indels: 16
0.86 0.10 0.03
Matches are distributed among these distances:
26 5 0.01
27 397 0.97
28 6 0.01
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:30080468 original size:31 final size:31
Alignment explanation
Indices: 30080433--30080542 Score: 118
Period size: 31 Copynumber: 3.5 Consensus size: 31
30080423 TTGCATTCAC
*
30080433 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * * * *
30080464 ATTCTGATTCTAATTCTATCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
30080495 ATTCTGATTCTGATTCTGGTT--CTG-TCACCTG
1 ATTCTGATTCTGATTCT-GTTACCTGAT-A-CTG
30080526 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
30080543 CATTTTGATT
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
29 1 0.02
30 2 0.03
31 61 0.94
32 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:30080472 original size:6 final size:6
Alignment explanation
Indices: 30080433--30080563 Score: 90
Period size: 6 Copynumber: 21.3 Consensus size: 6
30080423 TTGCATTCAC
* * *
30080433 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
30080481 ATCACCTA ATTCTG ATTCTG ATTCTG ATTCTG GTTCTG -TCACCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
30080532 ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
30080564 AATGTTTCTT
Statistics
Matches: 99, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
5 6 0.06
6 80 0.81
7 9 0.09
8 4 0.04
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:30080496 original size:37 final size:37
Alignment explanation
Indices: 30080455--30080542 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
30080445 ATTCTGTTAC
*
30080455 CTGATACTGATTCTGATTCTAATTCTATCACCTAATT
1 CTGATTCTGATTCTGATTCTAATTCTATCACCTAATT
** * *
30080492 CTGATTCTGATTCTGATTCTGGTTCTGTCACCTGATT
1 CTGATTCTGATTCTGATTCTAATTCTATCACCTAATT
30080529 CTGATTCTGATTCT
1 CTGATTCTGATTCT
30080543 CATTTTGATT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTAATTCTATCACCTAATT
Found at i:30082647 original size:27 final size:27
Alignment explanation
Indices: 30082543--30082668 Score: 98
Period size: 27 Copynumber: 4.7 Consensus size: 27
30082533 TTAGTTTACT
*
30082543 AAATTACTGAAATAACCC-CAG-TTGTA
1 AAATTACCGAAAT-ACCCTCAGTTTGTA
* * *
30082569 AAATTACC-AAAGTACCCCCGGTTTATA
1 AAATTACCGAAA-TACCCTCAGTTTGTA
* ** *
30082596 AAATTACCCAAATATTCT-TGATTTGTA
1 AAATTACCGAAATACCCTCAG-TTTGTA
*
30082623 AAATTACCGAAATACCCTCAGTTTGCA
1 AAATTACCGAAATACCCTCAGTTTGTA
**
30082650 AAATTACTAAAATACCCTC
1 AAATTACCGAAATACCCTC
30082669 GACATGTAAA
Statistics
Matches: 79, Mismatches: 15, Indels: 11
0.75 0.14 0.10
Matches are distributed among these distances:
25 7 0.09
26 11 0.14
27 57 0.72
28 4 0.05
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCAGTTTGTA
Found at i:30082723 original size:27 final size:27
Alignment explanation
Indices: 30082705--30083099 Score: 430
Period size: 27 Copynumber: 14.6 Consensus size: 27
30082695 CGAATCACAA
*
30082705 AATTATTATTTTACCCTCGATTTACAG
1 AATTATTGTTTTACCCTCGATTTACAG
* * * *
30082732 AATTACTGTTTTACCCTTGATTTAAAA
1 AATTATTGTTTTACCCTCGATTTACAG
* *
30082759 AATTATCGTTTTACCCTCGATTTACAA
1 AATTATTGTTTTACCCTCGATTTACAG
* *
30082786 AATTATCGTTTTACCCTTGATTTACAG
1 AATTATTGTTTTACCCTCGATTTACAG
*
30082813 AATTATTATTTTACCCTCGATTTACAG
1 AATTATTGTTTTACCCTCGATTTACAG
* * * *
30082840 AGTTACTATTTTACCCTCGATTTACAA
1 AATTATTGTTTTACCCTCGATTTACAG
* * * *
30082867 AATTACTATTTTACTCTCGATTTATAG
1 AATTATTGTTTTACCCTCGATTTACAG
** * *
30082894 AATTATCATTTTACCCTCGATTCATAG
1 AATTATTGTTTTACCCTCGATTTACAG
* *
30082921 AATTACTGTTTTACCCTCGATTTATAG
1 AATTATTGTTTTACCCTCGATTTACAG
* * * * *
30082948 AACTACTATTTTACCCTTGATTTACAT
1 AATTATTGTTTTACCCTCGATTTACAG
* *
30082975 AATTACTGTTTTACCCTCGATTTACAT
1 AATTATTGTTTTACCCTCGATTTACAG
* *
30083002 AATTATTGTTTTACCCTTGATTTATAG
1 AATTATTGTTTTACCCTCGATTTACAG
*** *
30083029 AATTACCATTTTACCCTCGATTTACAA
1 AATTATTGTTTTACCCTCGATTTACAG
* * *
30083056 AATTATCGTTTTACCCTCGATTTATAA
1 AATTATTGTTTTACCCTCGATTTACAG
30083083 AATTATTGTTTTACCCT
1 AATTATTGTTTTACCCT
30083100 TAGGGTGTTA
Statistics
Matches: 317, Mismatches: 51, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 317 1.00
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.44
Consensus pattern (27 bp):
AATTATTGTTTTACCCTCGATTTACAG
Found at i:30082747 original size:81 final size:81
Alignment explanation
Indices: 30082662--30082832 Score: 189
Period size: 81 Copynumber: 2.1 Consensus size: 81
30082652 ATTACTAAAA
** *
30082662 TACCCTCGACATGTAAAATTATCAAAGTACACTCGAATCACAAAATTATTATTTTACCCTCGATT
1 TACCCTCGACATAAAAAATTATCAAAGTACACTCGAATCACAAAATTATCATTTTACCCTCGATT
*
30082727 TACAGAATTACTGTTT
66 TACAGAATTACTATTT
* ** **** * * * * *
30082743 TACCCTTGATTTAAAAAATTATCGTTTTACCCTCGATTTACAAAATTATCGTTTTACCCTTGATT
1 TACCCTCGACATAAAAAATTATCAAAGTACACTCGAATCACAAAATTATCATTTTACCCTCGATT
*
30082808 TACAGAATTATTATTT
66 TACAGAATTACTATTT
30082824 TACCCTCGA
1 TACCCTCGA
30082833 TTTACAGAGT
Statistics
Matches: 72, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (81 bp):
TACCCTCGACATAAAAAATTATCAAAGTACACTCGAATCACAAAATTATCATTTTACCCTCGATT
TACAGAATTACTATTT
Found at i:30083638 original size:31 final size:31
Alignment explanation
Indices: 30083603--30083706 Score: 163
Period size: 31 Copynumber: 3.4 Consensus size: 31
30083593 TTGCATTCAC
* * *
30083603 ATTCTGATTTTGATTCTATTACCTGATACTG
1 ATTCTGATTCTGATTCTATCACCTGATTCTG
*
30083634 ATTCTGATTCTAATTCTATCACCTGATTCTG
1 ATTCTGATTCTGATTCTATCACCTGATTCTG
*
30083665 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTATCACCTGATTCTG
30083696 ATTCTGATTCT
1 ATTCTGATTCT
30083707 CATTTTGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 67 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTATCACCTGATTCTG
Found at i:30083642 original size:6 final size:6
Alignment explanation
Indices: 30083603--30083727 Score: 96
Period size: 6 Copynumber: 20.3 Consensus size: 6
30083593 TTGCATTCAC
* * *
30083603 ATTCTG ATTTTG ATTCT- ATTACCTG ATACTG ATTCTG ATTCTA ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
30083651 ATCACCTG ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
30083702 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
30083728 AATGTTTCTT
Statistics
Matches: 95, Mismatches: 13, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
5 7 0.07
6 75 0.79
7 8 0.08
8 5 0.05
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:30090108 original size:40 final size:40
Alignment explanation
Indices: 30090025--30090287 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
30090015 TTGAATGCTG
* * * * * *
30090025 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
30090065 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
30090105 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
30090145 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
30090185 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30090225 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30090264 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
30090288 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:30090307 original size:79 final size:80
Alignment explanation
Indices: 30090064--30090322 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
30090054 AAGTGAATAT
* * * * * * *
30090064 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
30090128 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
30090144 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
30090209 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
30090224 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
30090288 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
30090303 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
30090323 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:30097457 original size:39 final size:40
Alignment explanation
Indices: 30097310--30097571 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
30097300 TTGAATGCTG
* * * * * *
30097310 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
30097350 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
30097390 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
30097430 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
30097469 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30097509 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30097548 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
30097572 TGAACGAGGA
Statistics
Matches: 197, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 74 0.38
40 115 0.58
41 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:30097475 original size:79 final size:78
Alignment explanation
Indices: 30097310--30097571 Score: 319
Period size: 79 Copynumber: 3.3 Consensus size: 78
30097300 TTGAATGCTG
* * * * * * *
30097310 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCGAAGG-CAT
*
30097374 TGTGCGAGATACTAAA
63 TGTGCGAGTTACTAAA
*
30097390 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCATTCG
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCATT-G
*
30097455 TGCGAGTTATTAAA
65 TGCGAGTTACTAAA
* * * *
30097469 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGT-CCGAAGGCATTG
*
30097534 TGTGAGTTACTAAA
65 TGCGAGTTACTAAA
* *
30097548 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
30097572 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
78 3 0.02
79 103 0.64
80 48 0.30
81 6 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCATTGT
GCGAGTTACTAAA
Found at i:30097591 original size:79 final size:80
Alignment explanation
Indices: 30097349--30097606 Score: 229
Period size: 79 Copynumber: 3.3 Consensus size: 80
30097339 AAGTGAATAT
* * * * * * *
30097349 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
30097413 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
30097429 ATCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
30097493 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
30097508 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
30097572 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
30097587 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
30097607 TACGTGATTT
Statistics
Matches: 153, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 15 0.10
79 116 0.76
80 22 0.14
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:30106603 original size:27 final size:27
Alignment explanation
Indices: 30106572--30106668 Score: 122
Period size: 27 Copynumber: 3.5 Consensus size: 27
30106562 ATATTAAGTC
* *
30106572 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAAAT
30106599 CGCACACTTAGTGCTATATAATCAAAT
1 CGCACACTTAGTGCTATATAATCAAAT
* * * *
30106626 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAA-T
30106655 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30106669 CAATCTCATG
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
27 44 0.71
28 4 0.06
29 14 0.23
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAAAT
Found at i:30112402 original size:3 final size:3
Alignment explanation
Indices: 30112394--30112424 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
30112384 ATATTTCTAG
30112394 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
30112425 ACACAAGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:30115823 original size:43 final size:43
Alignment explanation
Indices: 30115655--30115823 Score: 141
Period size: 43 Copynumber: 4.0 Consensus size: 43
30115645 ATATCATACA
* ** *
30115655 ATGCCAACATCCCAGACGTGGTCTTACATGCTATCTCATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCACATATCG
* *
30115698 ATGCC-ACTGTCCCAGACAG-GGTCTTACA-CAAATCAGATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATCACATATCG
* * * * * * * *
30115739 GTGCCGATGTCCTAGACATGGTCTTAC-TCGTAACCATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACAT-GAAATCACATATCG
*
30115782 ATGCCAACGTCCCAGACGTGGTCTTACATGAAAACACATATC
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCACATATC
30115824 AAAATCCTAT
Statistics
Matches: 96, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
41 22 0.23
42 16 0.17
43 56 0.58
44 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCACATATCG
Found at i:30122233 original size:52 final size:52
Alignment explanation
Indices: 30122168--30122273 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
30122158 TGGAATATTG
* *
30122168 AAACTTTTTAGAAGGTTGTGGAACTTTGAGGCTCACTGGTATCCTTGTGTTC
1 AAACTTTTCAGAAGGTTGTGGAACTTTGAGGCTCACTAGTATCCTTGTGTTC
30122220 AAACTTTTCAGAAGGTTGTGGAACTTTGAGGCTCACTAGTATCCTTGTGTTC
1 AAACTTTTCAGAAGGTTGTGGAACTTTGAGGCTCACTAGTATCCTTGTGTTC
30122272 AA
1 AA
30122274 TCAAGCCTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.37
Consensus pattern (52 bp):
AAACTTTTCAGAAGGTTGTGGAACTTTGAGGCTCACTAGTATCCTTGTGTTC
Found at i:30124843 original size:20 final size:19
Alignment explanation
Indices: 30124807--30124857 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
30124797 AAGGACTATT
*
30124807 TTGTAAA-GTGGTAAAATAA
1 TTGTAAATGT-GTGAAATAA
30124826 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
30124846 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
30124858 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 15 0.52
21 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:30125749 original size:49 final size:49
Alignment explanation
Indices: 30125691--30125813 Score: 140
Period size: 49 Copynumber: 2.5 Consensus size: 49
30125681 TGTTGTGTGT
* *
30125691 CAGTGTAAGACCTGTTTAGGACATGGCATCGACAC-CAATAGATGAGAGC
1 CAGTGTAAGACCTGTCTAGGACATGGCATCGAC-CTCAATAGATGAAAGC
* * * * * * *
30125740 CAGTGTAAGACTTGTCTGGGACACGGCATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTAGGACATGGCATCGACCTCAATAGATGAAAGC
*
30125789 CAGTGTAAGACCTATCTAGGACATG
1 CAGTGTAAGACCTGTCTAGGACATG
30125814 CCATTGACTT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
48 1 0.02
49 59 0.98
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTAGGACATGGCATCGACCTCAATAGATGAAAGC
Found at i:30131778 original size:48 final size:48
Alignment explanation
Indices: 30131711--30131929 Score: 288
Period size: 48 Copynumber: 4.6 Consensus size: 48
30131701 TATTCCTGCT
* * * * * *
30131711 GATGCCATGTCCTAGACATGGTCTTACACTAACACCTTTATACGTGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTGACACCTCTATACGCGCC
*
30131759 GATGCTATGTCCCAAACATGGTCTTACACTGACACCTCTATACGCGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGACACCTCTATACGCGCC
*
30131807 GATGCCATGTCCTAAACATGGTCTTACACTGACACCTCTATACGCGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGACACCTCTATACGCGCC
*
30131855 GATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCT-TA---GCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGACAC--CTCTATACGCGCC
*
30131901 GATG-CATGTCCCAGACAT-GTCTTACACTG
1 GATGCCATGTCCCAAACATGGTCTTACACTG
30131930 GCTTACATCT
Statistics
Matches: 158, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
44 11 0.07
45 14 0.09
46 7 0.04
48 120 0.76
49 2 0.01
50 4 0.03
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGACACCTCTATACGCGCC
Found at i:30131938 original size:46 final size:46
Alignment explanation
Indices: 30131758--30132020 Score: 197
Period size: 48 Copynumber: 5.6 Consensus size: 46
30131748 TTATACGTGT
* *
30131758 CGATGCTATGTCCCAAACATGGTCTTACACT-G--ACACCTCTATACGCGC
1 CGATGC-ATGTCCCAGACAT-GTCTTACACTGGCTACATCTCT-TA-G-GC
* * *
30131806 CGATGCCATGTCCTAAACATGGTCTTACACT-G--ACACCTCTATACGCGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTACATCTCT-TA-G-GC
*
30131854 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATCTCTTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTACATCTCTTAGGC
*
30131900 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTC-GAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC-TACATCTCTTAGGC
* * * * * *
30131946 CAATGCATGTCCTAGACATGTTTTACACTAGCT-C-TCGTCTTAATGT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTACATC-TCTT-AGGC
30131992 CGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
30132021 AGCATACAAA
Statistics
Matches: 189, Mismatches: 17, Indels: 20
0.84 0.08 0.09
Matches are distributed among these distances:
43 2 0.01
44 15 0.08
45 16 0.08
46 72 0.38
48 74 0.39
49 3 0.02
50 7 0.04
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTACATCTCTTAGGC
Found at i:30132021 original size:46 final size:43
Alignment explanation
Indices: 30131852--30132023 Score: 168
Period size: 46 Copynumber: 3.8 Consensus size: 43
30131842 CTCTATACGC
*
30131852 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GACACATCTCTTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTC-TCTCTTA
* *
30131898 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-C-TCT-TA
* * *
30131943 GGCCAATGCATGTCCTAGACATGTTTTACACTAGCTCTCGTCTTAA
1 -GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTC-TCTT-A
*
30131989 TGTCGATGCATGTCCCAGACATGTCTTACACTAGC
1 -GCCGATGCATGTCCCAGACATGTCTTACACTAGC
30132024 ATACAAATAA
Statistics
Matches: 106, Mismatches: 13, Indels: 14
0.80 0.10 0.11
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 14 0.13
45 16 0.15
46 73 0.69
47 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (43 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCTCTTA
Found at i:30133388 original size:17 final size:17
Alignment explanation
Indices: 30133368--30133406 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
30133358 CTTTAACAAG
30133368 TGCAATACTCTTATTCC
1 TGCAATACTCTTATTCC
30133385 TGCAATACTCTTATTCC
1 TGCAATACTCTTATTCC
30133402 T-CAAT
1 TGCAAT
30133407 TGTTTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.26, C:0.28, G:0.05, T:0.41
Consensus pattern (17 bp):
TGCAATACTCTTATTCC
Found at i:30139540 original size:48 final size:48
Alignment explanation
Indices: 30139338--30139700 Score: 280
Period size: 48 Copynumber: 7.6 Consensus size: 48
30139328 ATAATGCCAA
* * * * * *
30139338 ATGCCATGTCCCAGACATGTTCTTACACTGGCTCATCCATCAAGT--CG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTAT-ACGTGCCG
* * * * *
30139385 ATGCCATGTCCCAAACATGGTCTTACATTGACTA--TCAAAATCGAGACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGAC-ACCTCTATA-CGTG-CCG
* * * * * * * **
30139434 ACGCCATGTCCCAGGCATGATCGTACACT-AGCTCTCACATATCCGTGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CAC-CTC-TATACGTGCCG
* * * * *
30139484 ATGTCATGTCTCAGACATGGTCTTACGCTAACACCTATATACGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGTGCCG
* * *
30139532 ATGCCATGTCCCATACATGGTCTTACACTGACACCTCTATACGTGTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGTGCCG
*
30139580 ATGCCATGTCCCAGAC-TCGGTCTTACTCTGACACCTCTATACGTGCCG
1 ATGCCATGTCCCAGACAT-GGTCTTACACTGACACCTCTATACGTGCCG
*
30139628 ATGCCATGTCCCAGACATGGTCTTACACTGACACATCT-T--GTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGT-GCCG
* *
30139674 ATG-CATATCCCAGACAT-GTTTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
30139701 AGCTCTCGTC
Statistics
Matches: 250, Mismatches: 52, Indels: 31
0.75 0.16 0.09
Matches are distributed among these distances:
44 9 0.04
45 16 0.06
46 11 0.04
47 30 0.12
48 125 0.50
49 28 0.11
50 25 0.10
51 5 0.02
52 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGTGCCG
Found at i:30145737 original size:63 final size:63
Alignment explanation
Indices: 30145638--30145762 Score: 232
Period size: 63 Copynumber: 2.0 Consensus size: 63
30145628 TCTAATACAC
* *
30145638 GATTTCAAAAGCTTATTTTAATCAAGATGACATAATTGTGATAGATTAATTACATTTCTTAAT
1 GATTTCAAAAGCTGACTTTAATCAAGATGACATAATTGTGATAGATTAATTACATTTCTTAAT
30145701 GATTTCAAAAGCTGACTTTAATCAAGATGACATAATTGTGATAGATTAATTACATTTCTTAA
1 GATTTCAAAAGCTGACTTTAATCAAGATGACATAATTGTGATAGATTAATTACATTTCTTAA
30145763 CTTATAATTA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.39
Consensus pattern (63 bp):
GATTTCAAAAGCTGACTTTAATCAAGATGACATAATTGTGATAGATTAATTACATTTCTTAAT
Found at i:30147239 original size:22 final size:22
Alignment explanation
Indices: 30147213--30147256 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
30147203 GAAAATAATC
*
30147213 AAAATTAATCAAAATTTATTAT
1 AAAATCAATCAAAATTTATTAT
*
30147235 AAAATCAATTAAAATTTATTAT
1 AAAATCAATCAAAATTTATTAT
30147257 GTTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATCAATCAAAATTTATTAT
Found at i:30150619 original size:28 final size:28
Alignment explanation
Indices: 30150586--30150644 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
30150576 TTTCTCTTTT
*
30150586 CCTTGAGCTACAATATGCTTATCTTCAA
1 CCTTGAGCTACAAAATGCTTATCTTCAA
30150614 CCTTGAGCTACAAAATGCTTATCTTCAA
1 CCTTGAGCTACAAAATGCTTATCTTCAA
30150642 CCT
1 CCT
30150645 CGACAGCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (28 bp):
CCTTGAGCTACAAAATGCTTATCTTCAA
Found at i:30152910 original size:13 final size:13
Alignment explanation
Indices: 30152892--30152916 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30152882 CACGCCGGTG
30152892 TGGCTAGACCGTA
1 TGGCTAGACCGTA
30152905 TGGCTAGACCGT
1 TGGCTAGACCGT
30152917 GTGGTCAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (13 bp):
TGGCTAGACCGTA
Found at i:30156119 original size:40 final size:40
Alignment explanation
Indices: 30156064--30156274 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
30156054 ATTTGAATGA
*
30156064 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
30156104 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * *
30156144 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * *
30156184 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * * *
30156224 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
30156264 TATCC-GGCTAA
1 TATCCGGGCTAA
30156275 ATTCTGAAGA
Statistics
Matches: 156, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 7 0.04
40 146 0.94
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:30160893 original size:22 final size:22
Alignment explanation
Indices: 30160865--30160906 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
30160855 GGACTTATTT
30160865 GTAAAGTGTTGAA-AAATGTATG
1 GTAAAGTG-TGAATAAATGTATG
30160887 GTAAAGTGTGAATAAATGTA
1 GTAAAGTGTGAATAAATGTA
30160907 AAATGTAGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.43, C:0.00, G:0.26, T:0.31
Consensus pattern (22 bp):
GTAAAGTGTGAATAAATGTATG
Found at i:30165892 original size:47 final size:47
Alignment explanation
Indices: 30165814--30166354 Score: 875
Period size: 47 Copynumber: 11.5 Consensus size: 47
30165804 CCCTTCGGGA
* * * * * * *
30165814 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30165861 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30165908 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30165955 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30166002 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30166049 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30166096 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30166143 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30166190 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
30166239 CTTATCATATATATATACTTTCACATCCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30166286 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30166333 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
30166355 TTGGCTGAAT
Statistics
Matches: 465, Mismatches: 27, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 420 0.90
49 45 0.10
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30168916 original size:17 final size:19
Alignment explanation
Indices: 30168890--30168926 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
30168880 TGTAAAACCC
30168890 ATGAGTATGAACT-TTGGT
1 ATGAGTATGAACTCTTGGT
30168908 ATGAG-ATGAACTCTTGGT
1 ATGAGTATGAACTCTTGGT
30168926 A
1 A
30168927 AGAATGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (19 bp):
ATGAGTATGAACTCTTGGT
Found at i:30172999 original size:14 final size:14
Alignment explanation
Indices: 30172982--30173011 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
30172972 TGATGATTTC
30172982 TACAAAAAGATTGT
1 TACAAAAAGATTGT
30172996 TACAAAAAGATTGT
1 TACAAAAAGATTGT
30173010 TA
1 TA
30173012 AACCTATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (14 bp):
TACAAAAAGATTGT
Found at i:30183517 original size:39 final size:39
Alignment explanation
Indices: 30183474--30183599 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
30183464 GGACTTTCGC
* * * * *
30183474 CCGGACATATTTCTAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
30183513 CCGGATATAATTCCAGCACATAGCCTGCGAACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
30183552 CCGAATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
30183591 CCGGATATA
1 CCGGATATA
30183600 CATCACTGAA
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:30185244 original size:20 final size:20
Alignment explanation
Indices: 30185219--30185256 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30185209 TATACATGAC
30185219 AAAAATCTT-CTAAGTTCTGT
1 AAAAAT-TTCCTAAGTTCTGT
30185239 AAAAATTTCCTAAGTTCT
1 AAAAATTTCCTAAGTTCT
30185257 CTGTTTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (20 bp):
AAAAATTTCCTAAGTTCTGT
Found at i:30185735 original size:22 final size:22
Alignment explanation
Indices: 30185709--30185752 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
30185699 GAAAATAATC
*
30185709 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTCATTAT
*
30185731 AAAATTAATTAAAATTCATTAT
1 AAAATTAATCAAAATTCATTAT
30185753 GCTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTAATCAAAATTCATTAT
Found at i:30187806 original size:20 final size:18
Alignment explanation
Indices: 30187761--30187799 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
30187751 AAATTATAGT
**
30187761 ATATGTACTTCAAAGAGC
1 ATATGTACTTCAAAGAAA
30187779 ATATGTACTTCAAAGAAA
1 ATATGTACTTCAAAGAAA
30187797 ATA
1 ATA
30187800 GATGTACAAA
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:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (18 bp):
ATATGTACTTCAAAGAAA
Found at i:30188451 original size:19 final size:19
Alignment explanation
Indices: 30188410--30188451 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
30188400 ATTCTTGTTG
*
30188410 AAAA-AATTTAATTATTAT
1 AAAATAATTTAATTATAAT
*
30188428 AAAATAATTTAATTGTAAT
1 AAAATAATTTAATTATAAT
*
30188447 TAAAT
1 AAAAT
30188452 TATTAACATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
AAAATAATTTAATTATAAT
Found at i:30188665 original size:6 final size:6
Alignment explanation
Indices: 30188654--30188682 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
30188644 CATAATATAA
30188654 TTAATT TTAATT TTAATT TTAATT TTAAT
1 TTAATT TTAATT TTAATT TTAATT TTAAT
30188683 CCAATTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTAATT
Found at i:30189121 original size:25 final size:25
Alignment explanation
Indices: 30189071--30189121 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
30189061 ACTCTTCTCA
*
30189071 TCTCTTCACTTCTCTCTCATTTTTC
1 TCTCTTCACTTCTCTCTCATTATTC
* * *
30189096 TCTCTTCATTTCTCTTTTATTATTC
1 TCTCTTCACTTCTCTCTCATTATTC
30189121 T
1 T
30189122 TCATTCCCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.10, C:0.29, G:0.00, T:0.61
Consensus pattern (25 bp):
TCTCTTCACTTCTCTCTCATTATTC
Found at i:30192009 original size:29 final size:28
Alignment explanation
Indices: 30191977--30192036 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
30191967 ATAGTCATTT
*
30191977 TTATTTATCTCAAATTATAT-TTTAGTCAC
1 TTATTT-T-TCAAATTATATGTTTACTCAC
* *
30192006 TTATTTTTGAAATTTTATGTTTACTCAC
1 TTATTTTTCAAATTATATGTTTACTCAC
30192034 TTA
1 TTA
30192037 CGTTATCGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 9 0.33
28 12 0.44
29 6 0.22
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.55
Consensus pattern (28 bp):
TTATTTTTCAAATTATATGTTTACTCAC
Found at i:30193606 original size:25 final size:24
Alignment explanation
Indices: 30193560--30193606 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
30193550 AACTATTCAC
* *
30193560 AAAAATAATAGTATATAAAATTTT
1 AAAAATAATAATAAATAAAATTTT
*
30193584 AAAAATATATAATAAATATAATT
1 AAAAATA-ATAATAAATAAAATT
30193607 ATATTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
AAAAATAATAATAAATAAAATTTT
Found at i:30194042 original size:6 final size:6
Alignment explanation
Indices: 30194033--30194060 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
30194023 TTTTTATTTT
30194033 ATATTA ATATTA ATATTA ATATTA ATAT
1 ATATTA ATATTA ATATTA ATATTA ATAT
30194061 AAAATTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATATTA
Found at i:30195394 original size:21 final size:22
Alignment explanation
Indices: 30195338--30195394 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 22
30195328 TTACACCACG
30195338 TTGTGGATAAAACCACT-CATCA
1 TTGTGGAT-AAACCACTACATCA
*
30195360 TTGTGGAT-GA--ACTAC-TCA
1 TTGTGGATAAACCACTACATCA
30195378 TTGTGGATAAACCACTA
1 TTGTGGATAAACCACTA
30195395 GTAATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
18 14 0.48
19 2 0.07
20 1 0.03
21 4 0.14
22 8 0.28
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (22 bp):
TTGTGGATAAACCACTACATCA
Found at i:30195596 original size:35 final size:35
Alignment explanation
Indices: 30195564--30195635 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
30195554 TCAAACAGGT
*
30195564 CAATACGGTAGCATTTAATTATGATTTTAACAGAA
1 CAATACGATAGCATTTAATTATGATTTTAACAGAA
*
30195599 CAATACGATAGCATTTAATTATGCTTTTAACAGAA
1 CAATACGATAGCATTTAATTATGATTTTAACAGAA
30195634 CA
1 CA
30195636 GTACAGTAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (35 bp):
CAATACGATAGCATTTAATTATGATTTTAACAGAA
Found at i:30195646 original size:35 final size:34
Alignment explanation
Indices: 30195564--30195646 Score: 121
Period size: 35 Copynumber: 2.4 Consensus size: 34
30195554 TCAAACAGGT
30195564 CAATACGGTAGCATTTAATTATGATTTTAACAGAA
1 CAATAC-GTAGCATTTAATTATGATTTTAACAGAA
*
30195599 CAATACGATAGCATTTAATTATGCTTTTAACAGAA
1 CAATACG-TAGCATTTAATTATGATTTTAACAGAA
*
30195634 CAGTACAGTAGCA
1 CAATAC-GTAGCA
30195647 ATCAATATGC
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
34 1 0.02
35 42 0.95
36 1 0.02
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (34 bp):
CAATACGTAGCATTTAATTATGATTTTAACAGAA
Found at i:30195675 original size:34 final size:35
Alignment explanation
Indices: 30195618--30195713 Score: 101
Period size: 34 Copynumber: 2.8 Consensus size: 35
30195608 AGCATTTAAT
* * *
30195618 TATGCTTTTAACAGAAC-AGTACAGTAGC-AATCAA
1 TATGCTTATAACAGATCAACTACAGTAGCAAAT-AA
* *
30195652 TATGCTTATAATAGTTCAA-TACAGTAGCAAATAA
1 TATGCTTATAACAGATCAACTACAGTAGCAAATAA
*
30195686 TATGTTTATAACAGATCAACT-CAGTAGC
1 TATGCTTATAACAGATCAACTACAGTAGC
30195714 CAAAAGTCAT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
34 47 0.90
35 5 0.10
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (35 bp):
TATGCTTATAACAGATCAACTACAGTAGCAAATAA
Found at i:30196027 original size:28 final size:28
Alignment explanation
Indices: 30195962--30196066 Score: 119
Period size: 28 Copynumber: 3.8 Consensus size: 28
30195952 AATTTTAAGT
*
30195962 AAAACTATAAAATCTAAAAACA-A-GGG-
1 AAAATTATAAAATCTAAAAA-ATAGGGGC
* *
30195988 AAATTTGTAAAATCTAAAAAATAGGGGC
1 AAAATTATAAAATCTAAAAAATAGGGGC
*
30196016 AAAATTATAAAATATAAAAAATAGGGGC
1 AAAATTATAAAATCTAAAAAATAGGGGC
*
30196044 AAAA-CAGTAAAATCTAAAAAATA
1 AAAATTA-TAAAATCTAAAAAATA
30196067 AGGAACACAC
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.01
26 18 0.27
27 4 0.06
28 44 0.66
ACGTcount: A:0.60, C:0.08, G:0.12, T:0.20
Consensus pattern (28 bp):
AAAATTATAAAATCTAAAAAATAGGGGC
Found at i:30207412 original size:44 final size:44
Alignment explanation
Indices: 30207354--30207440 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
30207344 TGAAATAAAA
* *
30207354 TAGAAGTTGTGATAATTA-TACATTTAAAAA-AAATTATAATTTAG
1 TAGAAGTTATGATAATTACGA-ATTTAAAAATAAA-TATAATTTAG
30207398 TAGAAGTTATGATAATTACGAATTTAAAAATAAATATAATTTA
1 TAGAAGTTATGATAATTACGAATTTAAAAATAAATATAATTTA
30207441 AATTACAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 35 0.90
45 4 0.10
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.38
Consensus pattern (44 bp):
TAGAAGTTATGATAATTACGAATTTAAAAATAAATATAATTTAG
Found at i:30212549 original size:18 final size:18
Alignment explanation
Indices: 30212526--30212584 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 18
30212516 ATTTATTTAG
30212526 ATATGTTATTGTGTCTGA
1 ATATGTTATTGTGTCTGA
* *
30212544 ATATGTTATACTCCATTATCTGA
1 ATATGTTAT--T---GTGTCTGA
30212567 ATATGTTATTGTGTCTGA
1 ATATGTTATTGTGTCTGA
30212585 TATTGAATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
18 15 0.47
20 1 0.03
21 1 0.03
23 15 0.47
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.47
Consensus pattern (18 bp):
ATATGTTATTGTGTCTGA
Found at i:30222863 original size:19 final size:18
Alignment explanation
Indices: 30222839--30222896 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 18
30222829 TATACGGGTT
30222839 TATGCACTTTGTGTGCTAG
1 TATGCAC-TTGTGTGCTAG
*
30222858 TATGCAC-TGTGTGTTAG
1 TATGCACTTGTGTGCTAG
* *
30222875 TATGTACTATATGTGCTAG
1 TATGCACT-TGTGTGCTAG
30222894 TAT
1 TAT
30222897 ATTTGCTTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 15 0.45
19 18 0.55
ACGTcount: A:0.21, C:0.12, G:0.24, T:0.43
Consensus pattern (18 bp):
TATGCACTTGTGTGCTAG
Found at i:30223795 original size:27 final size:26
Alignment explanation
Indices: 30223735--30223796 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
30223725 ATAAGACTCC
30223735 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
30223761 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
30223789 ATTTTATT
1 ATTTTATT
30223797 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:30223811 original size:10 final size:10
Alignment explanation
Indices: 30223792--30223823 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
30223782 TTTTAGGATT
30223792 TTAT-TTTAA
1 TTATCTTTAA
30223801 TTATCTTTAA
1 TTATCTTTAA
30223811 TTATCTTTAA
1 TTATCTTTAA
30223821 TTA
1 TTA
30223824 ATTGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:30227511 original size:5 final size:5
Alignment explanation
Indices: 30227501--30227555 Score: 71
Period size: 5 Copynumber: 11.4 Consensus size: 5
30227491 CAATTTATAT
*
30227501 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT- TATTTA TTTTA TCTTA --TTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA
30227549 TTTTA TT
1 TTTTA TT
30227556 ATTTATTATT
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
3 3 0.07
4 1 0.02
5 40 0.89
6 1 0.02
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:30227560 original size:20 final size:20
Alignment explanation
Indices: 30227508--30227561 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
30227498 TATTTTTATT
*
30227508 TTATTTTA-T-TTTATTTTA
1 TTATTTTATTATTTATCTTA
30227526 -T-TTTTATTTATTTTATCTTA
1 TTATTTTA-TTA-TTTATCTTA
30227546 TTATTTTATTATTTAT
1 TTATTTTATTATTTAT
30227562 TATTTTCAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
16 5 0.17
17 1 0.03
18 1 0.03
20 13 0.45
21 4 0.14
22 5 0.17
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (20 bp):
TTATTTTATTATTTATCTTA
Found at i:30227563 original size:15 final size:14
Alignment explanation
Indices: 30227494--30227567 Score: 80
Period size: 15 Copynumber: 5.2 Consensus size: 14
30227484 GGCAACCCAA
*
30227494 TTTATATTT-TTAT
1 TTTATTTTTATTAT
*
30227507 TTTATTTTATTTTAT
1 TTTATTTT-TATTAT
30227522 TTTATTTTTATTTAT
1 TTTATTTTTA-TTAT
*
30227537 TTTA-TCTTATTAT
1 TTTATTTTTATTAT
30227550 TTTATTATTTATTAT
1 TTTATT-TTTATTAT
30227565 TTT
1 TTT
30227568 CAGATATTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
13 15 0.29
14 7 0.13
15 30 0.58
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTTTTATTAT
Done.