Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, whole genome shotgun sequence
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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 53 of 129
Found at i:7490590 original size:2 final size:2
Alignment explanation
Indices: 7490573--7490606 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
7490563 TGACTTTTAC
* *
7490573 AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7490607 GAATTTCTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:7492968 original size:6 final size:6
Alignment explanation
Indices: 7492957--7492986 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
7492947 TGATGAAAGC
7492957 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
7492987 TACAAATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:7500113 original size:42 final size:42
Alignment explanation
Indices: 7500065--7500150 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
7500055 AAACACACAA
*
7500065 AAGGATAAAAGCATACCTGTCTTAAACAAAATAAAAACAAAT
1 AAGGATAAAAGCATACCTGTCCTAAACAAAATAAAAACAAAT
* *
7500107 AAGGATAAAAGCATATCTGTCCTAAACGAAATAAAAACAAAT
1 AAGGATAAAAGCATACCTGTCCTAAACAAAATAAAAACAAAT
7500149 AA
1 AA
7500151 CAAAGGAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.57, C:0.14, G:0.10, T:0.19
Consensus pattern (42 bp):
AAGGATAAAAGCATACCTGTCCTAAACAAAATAAAAACAAAT
Found at i:7506986 original size:30 final size:30
Alignment explanation
Indices: 7506944--7507000 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
7506934 AACCTAATGA
*
7506944 AGCAATTCAAGAAGAAA-TAGTTCAAGAAAG
1 AGCAATTCAAGAA-AAAGTAGATCAAGAAAG
7506974 AGCAAGTT-AAGAAAAAGTAGATCAAGA
1 AGCAA-TTCAAGAAAAAGTAGATCAAGA
7507001 GGAGAAAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 3 0.12
30 19 0.79
31 2 0.08
ACGTcount: A:0.54, C:0.09, G:0.21, T:0.16
Consensus pattern (30 bp):
AGCAATTCAAGAAAAAGTAGATCAAGAAAG
Found at i:7509923 original size:10 final size:11
Alignment explanation
Indices: 7509847--7509934 Score: 56
Period size: 14 Copynumber: 7.4 Consensus size: 11
7509837 AAAAATCAGT
7509847 AAAATAAAATA
1 AAAATAAAATA
*
7509858 AATAATGAAGATGA
1 AA-AAT-AAAAT-A
7509872 AATAA-AAAACTTA
1 AA-AATAAAA--TA
7509885 AAACATAAAATGA
1 AAA-ATAAAAT-A
7509898 TAAAATAAAGATA
1 -AAAATAAA-ATA
7509911 AAAAT-AAAT-
1 AAAATAAAATA
7509920 AAAATAAAATA
1 AAAATAAAATA
7509931 AAAA
1 AAAA
7509935 ACCTACGATT
Statistics
Matches: 63, Mismatches: 2, Indels: 24
0.71 0.02 0.27
Matches are distributed among these distances:
9 5 0.08
10 6 0.10
11 8 0.13
12 13 0.21
13 15 0.24
14 16 0.25
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.19
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:7510899 original size:3 final size:3
Alignment explanation
Indices: 7510893--7511000 Score: 146
Period size: 3 Copynumber: 35.7 Consensus size: 3
7510883 TATTTTTTTA
** * * *
7510893 AAT AAT AAT AAT AAT AAT AAT AAT GCT AAT AAT CTAT GTAC AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT
7510939 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7510987 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
7511001 CGATACTAAT
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.02
3 88 0.94
4 4 0.04
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7517912 original size:21 final size:19
Alignment explanation
Indices: 7517888--7517933 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 19
7517878 ATTTAATACA
7517888 ATAAATAAAATTTATAATTAT
1 ATAAATAAAA--TATAATTAT
7517909 AT-AATAAAATATAATTAT
1 ATAAATAAAATATAATTAT
7517927 -TAAATAA
1 ATAAATAA
7517934 TTAAAAATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 1 0.04
18 14 0.58
20 7 0.29
21 2 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATAAATAAAATATAATTAT
Found at i:7517934 original size:21 final size:20
Alignment explanation
Indices: 7517891--7517939 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
7517881 TAATACAATA
* *
7517891 AATAAAATTTATAATTATAT
1 AATAAAATTAATAATTAAAT
*
7517911 AATAAAATATAATTATTAAAT
1 AATAAAAT-TAATAATTAAAT
7517932 AATTAAAA
1 AA-TAAAA
7517940 ATAGAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.33
21 11 0.46
22 5 0.21
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AATAAAATTAATAATTAAAT
Found at i:7518610 original size:24 final size:24
Alignment explanation
Indices: 7518574--7518619 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
7518564 GATCTCATAG
*
7518574 TCATCGCCACCAAATATTCACCCC
1 TCATCCCCACCAAATATTCACCCC
*
7518598 TCATCCCCGCCAAATATTCACC
1 TCATCCCCACCAAATATTCACC
7518620 GCTTCGTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.46, G:0.04, T:0.22
Consensus pattern (24 bp):
TCATCCCCACCAAATATTCACCCC
Found at i:7522028 original size:22 final size:22
Alignment explanation
Indices: 7521986--7522029 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
7521976 ATTATATATT
*
7521986 TTTTAATTAATTTTTATATAAA
1 TTTTAATTAATTTTTAAATAAA
*
7522008 TTTTAATT-TTTTATTAAATAAA
1 TTTTAATTAATTT-TTAAATAAA
7522030 AATAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTTAATTAATTTTTAAATAAA
Found at i:7522703 original size:10 final size:10
Alignment explanation
Indices: 7522685--7522725 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
7522675 ATAGCATGTT
*
7522685 TTCTCGTGTA
1 TTCTTGTGTA
7522695 TTCTTGTGTA
1 TTCTTGTGTA
*
7522705 TTCTTGTATA
1 TTCTTGTGTA
*
7522715 TCCTTGTGTA
1 TTCTTGTGTA
7522725 T
1 T
7522726 CATTGTGTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.12, C:0.15, G:0.17, T:0.56
Consensus pattern (10 bp):
TTCTTGTGTA
Found at i:7522726 original size:10 final size:10
Alignment explanation
Indices: 7522690--7522733 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
7522680 ATGTTTTCTC
*
7522690 GTGTATTCTT
1 GTGTATCCTT
*
7522700 GTGTATTCTT
1 GTGTATCCTT
*
7522710 GTATATCCTT
1 GTGTATCCTT
*
7522720 GTGTATCATT
1 GTGTATCCTT
7522730 GTGT
1 GTGT
7522734 TGTAATCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.14, C:0.11, G:0.20, T:0.55
Consensus pattern (10 bp):
GTGTATCCTT
Found at i:7533204 original size:48 final size:48
Alignment explanation
Indices: 7533133--7533227 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
7533123 TTTAGGCCAG
*
7533133 TTTTAGACCATTTAAGCCTTTTAAATGCCACCTATGAACAAAACATTT
1 TTTTAGACCATTTAAGCCTTTTAAAGGCCACCTATGAACAAAACATTT
* *
7533181 TTTTAGACTATTTAAGCCTTTTAAAGGCCACCTATGAAGAAAACATT
1 TTTTAGACCATTTAAGCCTTTTAAAGGCCACCTATGAACAAAACATT
7533228 ATTAGTACCT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (48 bp):
TTTTAGACCATTTAAGCCTTTTAAAGGCCACCTATGAACAAAACATTT
Found at i:7534436 original size:197 final size:197
Alignment explanation
Indices: 7534094--7534492 Score: 602
Period size: 197 Copynumber: 2.0 Consensus size: 197
7534084 ACCTTGTGTG
*
7534094 ATTAAGAGAGTATCTCAATTAGTCTTGATTGAATTAACTAAAAAAATATTTGGCCAAGGTGAAAT
1 ATTAAGAGAGTATCTCAATTAGTCTTGATTGAATTAACTAAAAAAATATTTGGCCAAAGTGAAAT
* *
7534159 AAGAATTTAGAATTGTTCTAAAGCTTATTTATGAGTTATTGTCAAGAACAAGACTTAACATGATT
66 AAGAATTTAGAATTGTTCTAAAACTTATTTATGAGTTAATGTCAAGAACAAGACTTAACATGATT
* * * *
7534224 GAATAAGATTTAGTAGACA-TGAAACCATACTTAATGTTTAAGCTAAGATACTAAATGATGAAAA
131 GAAAAAGACTTAGTAGAAACT-AAACCATACTTAATGTTCAAGCTAAGATACTAAATGATGAAAA
7534288 GAT
195 GAT
* * * * * *
7534291 ATTAAGAGAGTATCTCAATTAGTTTTGATTTAATTAACTCAAAATATCTTTTGCCAAAGTGAAAT
1 ATTAAGAGAGTATCTCAATTAGTCTTGATTGAATTAACTAAAAAAATATTTGGCCAAAGTGAAAT
* * *
7534356 AAGAGTTTAGAATTGTTCTAAAACTTATTTATGAGTTAATGTCAAGTACATGACTTAACATGATT
66 AAGAATTTAGAATTGTTCTAAAACTTATTTATGAGTTAATGTCAAGAACAAGACTTAACATGATT
** * *
7534421 GAAAAAGACTTAGTAGAAACTAAACTGTACTTAATGTTCAAGCTGAGATACTAAATGATGAAAGG
131 GAAAAAGACTTAGTAGAAACTAAACCATACTTAATGTTCAAGCTAAGATACTAAATGATGAAAAG
7534486 AT
196 AT
7534488 ATTAA
1 ATTAA
7534493 TTATACATCA
Statistics
Matches: 181, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
197 180 0.99
198 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (197 bp):
ATTAAGAGAGTATCTCAATTAGTCTTGATTGAATTAACTAAAAAAATATTTGGCCAAAGTGAAAT
AAGAATTTAGAATTGTTCTAAAACTTATTTATGAGTTAATGTCAAGAACAAGACTTAACATGATT
GAAAAAGACTTAGTAGAAACTAAACCATACTTAATGTTCAAGCTAAGATACTAAATGATGAAAAG
AT
Found at i:7543757 original size:108 final size:107
Alignment explanation
Indices: 7543641--7543846 Score: 256
Period size: 108 Copynumber: 1.9 Consensus size: 107
7543631 TTGTAGGTTG
* *
7543641 AAAAAACAAATATGACCGGGACAACA-TCACAAG-TCAAAAAATAAAGATAAC-TGAGATAACAT
1 AAAAAACAAATATGACCGGGACAACACT-A-AAGCTCAAAAAATAAAGATAACAAG-GACAACAT
*
7543703 CGCAGGTCAAAAAAAATAAAGATGACTAGGACAACACTATAAATCA
63 CGCAGGT-AAAAAAAATAAAGATGACCAGGACAACACTATAAATCA
** * * * * *
7543749 AAAAAACAAATATGATTGGGACAACACTATAGCTCAGAAAATAATGATGACAAGGACAACATCGT
1 AAAAAACAAATATGACCGGGACAACACTAAAGCTCAAAAAATAAAGATAACAAGGACAACATCGC
*
7543814 AGGTAAAAAAAATAAAGATGACCATGACAACAC
66 AGGTAAAAAAAATAAAGATGACCAGGACAACAC
7543847 CAATGGTCAG
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
107 29 0.35
108 53 0.63
109 2 0.02
ACGTcount: A:0.53, C:0.16, G:0.15, T:0.16
Consensus pattern (107 bp):
AAAAAACAAATATGACCGGGACAACACTAAAGCTCAAAAAATAAAGATAACAAGGACAACATCGC
AGGTAAAAAAAATAAAGATGACCAGGACAACACTATAAATCA
Found at i:7543878 original size:35 final size:35
Alignment explanation
Indices: 7543839--7544026 Score: 173
Period size: 35 Copynumber: 5.3 Consensus size: 35
7543829 AGATGACCAT
*
7543839 GACAACACCAATGGTCAGAAGGTAAAAATGACTAA
1 GACAACACCAATGGTCAGAAGGTAAAAATGACTGA
*
7543874 GACAACACCAATGGTCAGAAGGTAAAAATGACTGG
1 GACAACACCAATGGTCAGAAGGTAAAAATGACTGA
* * * * ** *
7543909 GATAATACCCACGGTCAAGAA-GTAAAGGTGATTGA
1 GACAACACCAATGGTC-AGAAGGTAAAAATGACTGA
* * *
7543944 GACAACACCAATAGTCAGAAAGATAAAAATGACCGA
1 GACAACACCAATGGTCAG-AAGGTAAAAATGACTGA
** * * * *
7543980 GACAACATTAATGGTCGAGAAGAT-AAGATGATTGG
1 GACAACACCAATGGTC-AGAAGGTAAAAATGACTGA
7544015 GACAACACCAAT
1 GACAACACCAAT
7544027 AGTTGAAAAG
Statistics
Matches: 120, Mismatches: 29, Indels: 8
0.76 0.18 0.05
Matches are distributed among these distances:
34 2 0.02
35 85 0.71
36 31 0.26
37 2 0.02
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.16
Consensus pattern (35 bp):
GACAACACCAATGGTCAGAAGGTAAAAATGACTGA
Found at i:7544038 original size:35 final size:35
Alignment explanation
Indices: 7543937--7544042 Score: 97
Period size: 35 Copynumber: 3.0 Consensus size: 35
7543927 GAAGTAAAGG
*
7543937 TGATTGAGACAACACCAATAG-TCAGAAAGATAAAAA
1 TGATTGAGACAACACCAATAGTTGA-AAAGAT-AAAA
** ** * * * *
7543973 TGACCGAGACAACATTAATGGTCGAGAAGATAAGA
1 TGATTGAGACAACACCAATAGTTGAAAAGATAAAA
*
7544008 TGATTGGGACAACACCAATAGTTGAAAAGATAAAA
1 TGATTGAGACAACACCAATAGTTGAAAAGATAAAA
7544043 ATGAACGGTT
Statistics
Matches: 51, Mismatches: 18, Indels: 3
0.71 0.25 0.04
Matches are distributed among these distances:
35 29 0.57
36 21 0.41
37 1 0.02
ACGTcount: A:0.48, C:0.13, G:0.21, T:0.18
Consensus pattern (35 bp):
TGATTGAGACAACACCAATAGTTGAAAAGATAAAA
Found at i:7544220 original size:35 final size:36
Alignment explanation
Indices: 7544124--7544222 Score: 94
Period size: 35 Copynumber: 2.8 Consensus size: 36
7544114 TTTCAAGTTA
* * *
7544124 AAAAAACAAATATGACCAAGACAATA-TATCAAGTC
1 AAAAAATAAATATGACCAAGACAACACCATCAAGTC
* ** * * * *
7544159 AGAAAATAAGGATGATCGAGATAACACCAT-AGGTC
1 AAAAAATAAATATGACCAAGACAACACCATCAAGTC
7544194 AAAAAATAAATATGACCAAGACAACACCA
1 AAAAAATAAATATGACCAAGACAACACCA
7544223 ACGATTGGGA
Statistics
Matches: 47, Mismatches: 16, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
35 45 0.96
36 2 0.04
ACGTcount: A:0.55, C:0.17, G:0.13, T:0.15
Consensus pattern (36 bp):
AAAAAATAAATATGACCAAGACAACACCATCAAGTC
Found at i:7544255 original size:70 final size:69
Alignment explanation
Indices: 7544070--7544257 Score: 157
Period size: 70 Copynumber: 2.7 Consensus size: 69
7544060 TAAGATGATT
* * * *
7544070 AAGACAACACCAACGATTGGGAAGAT-AAGATGACTAGGACAACATTTCAAGTTAAAAAAACAAA
1 AAGACAACACCAACGATTGGG-AGATAAAGATGATTGGGACAACA--CCAAGGTAAAAAAACAAA
7544134 TATGACC
63 TATGACC
* * ** * * * * * * * *
7544141 AAGACAATATATCAA-G-TCAGAAAATAAGGATGATCGAGATAACACCATAGGTCAAAAAATAAA
1 AAGAC-A-ACACCAACGATTGGGAGATAAAGATGATTGGGACAACACCA-AGGTAAAAAAACAAA
7544204 TATGACC
63 TATGACC
7544211 AAGACAACACCAACGATTGGGAGATAAAGATGATTGGGACAACACCA
1 AAGACAACACCAACGATTGGGAGATAAAGATGATTGGGACAACACCA
7544258 GTGGTTAGAA
Statistics
Matches: 85, Mismatches: 26, Indels: 13
0.69 0.21 0.10
Matches are distributed among these distances:
68 5 0.06
69 4 0.05
70 50 0.59
71 19 0.22
72 2 0.02
73 5 0.06
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.16
Consensus pattern (69 bp):
AAGACAACACCAACGATTGGGAGATAAAGATGATTGGGACAACACCAAGGTAAAAAAACAAATAT
GACC
Found at i:7544522 original size:35 final size:35
Alignment explanation
Indices: 7544337--7544556 Score: 140
Period size: 35 Copynumber: 6.2 Consensus size: 35
7544327 TAGCTACTAT
* * *
7544337 AAAGATAAAATGAC-GAGGATAACACCAACGGTCAA
1 AAAGATAAGATGACTGA-GACAACACCAACGATCAA
* * *
7544372 AAAGATAAAGATGACTGAGACAACATCATCGATCAG
1 AAAGAT-AAGATGACTGAGACAACACCAACGATCAA
* * * ** *
7544408 GAAGATAAAGATGATTGGGACAACATTAA-TAGTCAA
1 AAAGAT-AAGATGACTGAGACAACACCAACGA-TCAA
* * * ***
7544444 AAAAATAAGATAACCT-AGACAACACCAACTATTGG
1 AAAGATAAGATGA-CTGAGACAACACCAACGATCAA
* * *
7544479 GAATATAAGATGACTAAGACAACACCAACGATCAA
1 AAAGATAAGATGACTGAGACAACACCAACGATCAA
* * * *
7544514 AAAGATAAGATGACCGGGACAATACTAACGATCAA
1 AAAGATAAGATGACTGAGACAACACCAACGATCAA
*
7544549 GAAGATAA
1 AAAGATAA
7544557 AACAACACCA
Statistics
Matches: 141, Mismatches: 38, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
34 2 0.01
35 83 0.59
36 54 0.38
37 2 0.01
ACGTcount: A:0.50, C:0.16, G:0.18, T:0.16
Consensus pattern (35 bp):
AAAGATAAGATGACTGAGACAACACCAACGATCAA
Found at i:7544715 original size:36 final size:36
Alignment explanation
Indices: 7544673--7544909 Score: 157
Period size: 36 Copynumber: 6.7 Consensus size: 36
7544663 GATGGCTAGA
* *
7544673 ACAATACCAATGATCAGAAAGATAAAAATGATTGTG
1 ACAACACCAATGATCAGAAAGATAAAAATGATTGAG
* * ** * *
7544709 ACAATACCAATAATGGGAAAGAT-AAGATGATCGAG
1 ACAACACCAATGATCAGAAAGATAAAAATGATTGAG
* * * *
7544744 ACAACACCAAGGGTCAAAAAG-TGAAAAATGATTGGG
1 ACAACACCAATGATCAGAAAGAT-AAAAATGATTGAG
* * * ** * **
7544780 ATAACACCATTAATCCTAAAGATAAAGATGACCGAG
1 ACAACACCAATGATCAGAAAGATAAAAATGATTGAG
* * * *
7544816 ACAACACCAATGGTTTA-AAA-AT-AAGATGATTAAG
1 ACAACACCAAT-GATCAGAAAGATAAAAATGATTGAG
*
7544850 ACAACACCAATGATC-GAGAAGAT-AAAATGATTAAG
1 ACAACACCAATGATCAGA-AAGATAAAAATGATTGAG
7544885 ACAACACCAATGATC-GAAAAGATAA
1 ACAACACCAATGATCAG-AAAGATAA
7544910 GTTGACTTAG
Statistics
Matches: 153, Mismatches: 39, Indels: 18
0.73 0.19 0.09
Matches are distributed among these distances:
33 3 0.02
34 23 0.15
35 59 0.39
36 66 0.43
37 2 0.01
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (36 bp):
ACAACACCAATGATCAGAAAGATAAAAATGATTGAG
Found at i:7544747 original size:35 final size:35
Alignment explanation
Indices: 7544656--7544753 Score: 90
Period size: 36 Copynumber: 2.8 Consensus size: 35
7544646 AATTATCGAG
* * *
7544656 AAGATAAGATG-GCTAGAACAATACCAATGATCAGA
1 AAGATAAGATGATCGAG-ACAATACCAATAATCAGA
* * * **
7544691 AAGATAAAAATGATTGTGACAATACCAATAATGGGA
1 AAGAT-AAGATGATCGAGACAATACCAATAATCAGA
*
7544727 AAGATAAGATGATCGAGACAACACCAA
1 AAGATAAGATGATCGAGACAATACCAA
7544754 GGGTCAAAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
35 23 0.47
36 25 0.51
37 1 0.02
ACGTcount: A:0.50, C:0.13, G:0.19, T:0.17
Consensus pattern (35 bp):
AAGATAAGATGATCGAGACAATACCAATAATCAGA
Found at i:7544753 original size:71 final size:70
Alignment explanation
Indices: 7544629--7544959 Score: 205
Period size: 71 Copynumber: 4.7 Consensus size: 70
7544619 GATGATCGAG
* * * * * * *
7544629 ATGATTGGGATAACACTAATTATCGAGAAGATAAGATG-GCTAGAACAATACCAATGATCAGAAA
1 ATGATTGAGACAACACCAATAATCGA-AAGATAAGATGATCGAG-ACAACACCAATGATCAGAAA
7544693 GATAAAA
64 GATAAAA
* * * * * *
7544700 ATGATTGTGACAATACCAATAATGGGAAAGATAAGATGATCGAGACAACACCAAGGGTCAAAAAG
1 ATGATTGAGACAACACCAATAAT-CGAAAGATAAGATGATCGAGACAACACCAATGATCAGAAAG
7544765 -TGAAAA
65 AT-AAAA
* * * * * * *
7544771 ATGATTGGGATAACACCATTAATCCTAAAGATAAAGATGACCGAGACAACACCAATGGTTTA-AA
1 ATGATTGAGACAACACCAATAAT-CGAAAGAT-AAGATGATCGAGACAACACCAAT-GATCAGAA
*
7544835 A-AT-AAG
63 AGATAAAA
* * * **
7544841 ATGATTAAGACAACACCAATGATCGAGAAGATAAAATGATTAAGACAACACCAATGATC-GAAAA
1 ATGATTGAGACAACACCAATAATCGA-AAGATAAGATGATCGAGACAACACCAATGATCAG-AAA
*
7544905 GAT-AAG
64 GATAAAA
* * * *
7544911 TTGACTT-AGAC-A-ACCAATAGTCGAAAAGATAAAGATGACCTAGACAACA
1 ATGA-TTGAGACAACACCAATAATCG-AAAGAT-AAGATGATCGAGACAACA
7544960 TTATCGGTTG
Statistics
Matches: 204, Mismatches: 43, Indels: 28
0.74 0.16 0.10
Matches are distributed among these distances:
68 16 0.08
69 40 0.20
70 38 0.19
71 77 0.38
72 30 0.15
73 3 0.01
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (70 bp):
ATGATTGAGACAACACCAATAATCGAAAGATAAGATGATCGAGACAACACCAATGATCAGAAAGA
TAAAA
Found at i:7544898 original size:18 final size:18
Alignment explanation
Indices: 7544841--7544898 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
7544831 TAAAAATAAG
7544841 ATGATTAAGACAACACCA
1 ATGATTAAGACAACACCA
** * *
7544859 ATGATCGAGA-AGATA-AA
1 ATGATTAAGACA-ACACCA
7544876 ATGATTAAGACAACACCA
1 ATGATTAAGACAACACCA
7544894 ATGAT
1 ATGAT
7544899 CGAAAAGATA
Statistics
Matches: 29, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
17 12 0.41
18 17 0.59
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.19
Consensus pattern (18 bp):
ATGATTAAGACAACACCA
Found at i:7544922 original size:35 final size:35
Alignment explanation
Indices: 7544640--7544948 Score: 166
Period size: 35 Copynumber: 8.8 Consensus size: 35
7544630 TGATTGGGAT
* * * **
7544640 AACACTAATTATCGAGAAGATAAGATGGCT-AGAAC
1 AACACCAATGATCGAAAAGATAAGATGATTAAG-AC
* * **
7544675 AATACCAATGATC-AGAAAGATAAAAATGATTGTGAC
1 AACACCAATGATCGA-AAAGAT-AAGATGATTAAGAC
* * * * **
7544711 AATACCAATAATGGGAAAGATAAGATGATCGAGAC
1 AACACCAATGATCGAAAAGATAAGATGATTAAGAC
* * * * ** *
7544746 AACACCAAGGGTCAAAAAG-TGAAAAATGATTGGGAT
1 AACACCAATGATCGAAAAGAT--AAGATGATTAAGAC
* * ** ***
7544782 AACACCATTAATCCTAAAGATAAAGATGACCGAGAC
1 AACACCAATGATCGAAAAGAT-AAGATGATTAAGAC
* **
7544818 AACACCAATGGTTTAAAA-ATAAGATGATTAAGAC
1 AACACCAATGATCGAAAAGATAAGATGATTAAGAC
* *
7544852 AACACCAATGATCGAGAAGATAAAATGATTAAGAC
1 AACACCAATGATCGAAAAGATAAGATGATTAAGAC
*
7544887 AACACCAATGATCGAAAAGATAAGTTGACTT-AGAC
1 AACACCAATGATCGAAAAGATAAGATGA-TTAAGAC
7544922 -A-ACCAAT-AGTCGAAAAGATAAAGATGA
1 AACACCAATGA-TCGAAAAGAT-AAGATGA
7544949 CCTAGACAAC
Statistics
Matches: 209, Mismatches: 54, Indels: 23
0.73 0.19 0.08
Matches are distributed among these distances:
32 1 0.00
33 16 0.08
34 34 0.16
35 84 0.40
36 72 0.34
37 2 0.01
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (35 bp):
AACACCAATGATCGAAAAGATAAGATGATTAAGAC
Found at i:7544935 original size:33 final size:34
Alignment explanation
Indices: 7544797--7544958 Score: 113
Period size: 34 Copynumber: 4.7 Consensus size: 34
7544787 CATTAATCCT
* * **
7544797 AAAGATAAAGATGACCGAGACAACACCAATGGTTTA
1 AAAGATAAAGATGACCTAGAC-A-ACCAATGATCGA
*
7544833 AAA-AT-AAGATGA-TTAAGACAACACCAATGATCGA
1 AAAGATAAAGATGACCT-AGAC-A-ACCAATGATCGA
* *
7544867 GAAGATAAA-ATGA-TTAAGACAACACCAATGATCGA
1 AAAGATAAAGATGACCT-AGAC-A-ACCAATGATCGA
* *
7544902 AAAGAT-AAGTTGACTTAGACAACCAAT-AGTCGA
1 AAAGATAAAGATGACCTAGACAACCAATGA-TCGA
7544935 AAAGATAAAGATGACCTAGACAAC
1 AAAGATAAAGATGACCTAGACAAC
7544959 ATTATCGGTT
Statistics
Matches: 109, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
32 1 0.01
33 16 0.15
34 43 0.39
35 42 0.39
36 7 0.06
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.17
Consensus pattern (34 bp):
AAAGATAAAGATGACCTAGACAACCAATGATCGA
Found at i:7545086 original size:36 final size:36
Alignment explanation
Indices: 7544690--7545105 Score: 193
Period size: 35 Copynumber: 11.8 Consensus size: 36
7544680 CAATGATCAG
* * * * * * *
7544690 AAAGATAAAAATGATTGTGACAATACCAATAATGGG
1 AAAGATAAAGATGATCGAGACAACACCAATAGTCGA
** *
7544726 AAAGAT-AAGATGATCGAGACAACACCAAGGGTCAA
1 AAAGATAAAGATGATCGAGACAACACCAATAGTCGA
* * * * * * **
7544761 AAAG-TGAAAAATGATTGGGATAACACCATTAATCCT
1 AAAGAT-AAAGATGATCGAGACAACACCAATAGTCGA
* * **
7544797 AAAGATAAAGATGACCGAGACAACACCAATGGTTTA
1 AAAGATAAAGATGATCGAGACAACACCAATAGTCGA
**
7544833 AAA-AT-AAGATGATTAAGACAACACCAAT-GATCGA
1 AAAGATAAAGATGATCGAGACAACACCAATAG-TCGA
* **
7544867 GAAGATAAA-ATGATTAAGACAACACCAAT-GATCGA
1 AAAGATAAAGATGATCGAGACAACACCAATAG-TCGA
* *
7544902 AAAGAT-AAGTTGA-CTTAGAC-A-ACCAATAGTCGA
1 AAAGATAAAGATGATC-GAGACAACACCAATAGTCGA
* * ** * *
7544935 AAAGATAAAGATGACCTAGACAACA-TTATCGGTTGA
1 AAAGATAAAGATGATCGAGACAACACCAAT-AGTCGA
* * * * *
7544971 GAAGAT-AAGATGATCAAGACAACACTAA-CGT-TA
1 AAAGATAAAGATGATCGAGACAACACCAATAGTCGA
* * * *
7545004 GAAAGATTAAA-ATGATCGAAAACAACACCAATGGTAGG
1 -AAAGA-TAAAGATGATCG-AGACAACACCAATAGTCGA
* * *
7545042 GAAG-TAAAGATGATCGGGACAACACTAATAGTCGA
1 AAAGATAAAGATGATCGAGACAACACCAATAGTCGA
*
7545077 AAAGATAAAGATGATC-AGGATAACACCAA
1 AAAGATAAAGATGATCGA-GACAACACCAA
7545106 CAGTTAGAAA
Statistics
Matches: 286, Mismatches: 70, Indels: 48
0.71 0.17 0.12
Matches are distributed among these distances:
33 18 0.06
34 46 0.16
35 112 0.39
36 104 0.36
37 6 0.02
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.18
Consensus pattern (36 bp):
AAAGATAAAGATGATCGAGACAACACCAATAGTCGA
Found at i:7546233 original size:24 final size:24
Alignment explanation
Indices: 7546203--7546280 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
7546193 ATTTTTTTCC
*
7546203 TTTTTATTTCTTTTGA-TTGATTTT
1 TTTTTATTT-TTTTAATTTGATTTT
7546227 TTTTTATTTTTTTAATTTGATTTT
1 TTTTTATTTTTTTAATTTGATTTT
** *
7546251 TCATTATTTTTTATTATTTTGATTTT
1 TTTTTA-TTTTT-TTAATTTGATTTT
7546277 TTTT
1 TTTT
7546281 AACTAAGGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
23 5 0.11
24 21 0.47
25 5 0.11
26 14 0.31
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (24 bp):
TTTTTATTTTTTTAATTTGATTTT
Found at i:7558081 original size:16 final size:16
Alignment explanation
Indices: 7558062--7558092 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7558052 TAAACACACA
*
7558062 TGGAAATAAACTTTAT
1 TGGAAACAAACTTTAT
7558078 TGGAAACAAACTTTA
1 TGGAAACAAACTTTA
7558093 AGCTATATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (16 bp):
TGGAAACAAACTTTAT
Found at i:7563623 original size:20 final size:20
Alignment explanation
Indices: 7563599--7563638 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7563589 AAAAAGAATA
*
7563599 AAAAAATAAAGAAAAAAAGAG
1 AAAAACTAAA-AAAAAAAGAG
*
7563620 AAAAACTATAAAAAAAAGA
1 AAAAACTAAAAAAAAAAGA
7563639 AAAGAGAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.80, C:0.03, G:0.10, T:0.07
Consensus pattern (20 bp):
AAAAACTAAAAAAAAAAGAG
Found at i:7563624 original size:23 final size:24
Alignment explanation
Indices: 7563589--7563651 Score: 58
Period size: 23 Copynumber: 2.6 Consensus size: 24
7563579 TGAAGCTTGG
*
7563589 AAAAAGA-ATAAAAAAAT-AAAGAA
1 AAAAAGAGA-AAAAAAATAAAAAAA
**
7563612 AAAAAGAGAAAAACTATAAAAAAA
1 AAAAAGAGAAAAAAAATAAAAAAA
*
7563636 AGAAAAGAGAATAAAA
1 A-AAAAGAGAAAAAAA
7563652 GTTGAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
23 13 0.42
24 7 0.23
25 11 0.35
ACGTcount: A:0.79, C:0.02, G:0.11, T:0.08
Consensus pattern (24 bp):
AAAAAGAGAAAAAAAATAAAAAAA
Found at i:7563686 original size:27 final size:26
Alignment explanation
Indices: 7563598--7563697 Score: 74
Period size: 29 Copynumber: 3.6 Consensus size: 26
7563588 GAAAAAGAAT
* *
7563598 AAAAAAATAAAGAAAAAAAGAGAAAAAC
1 AAAAAAA-AAAGAAAAGAA-AGAAAAGC
* * *
7563626 TATAAAAAAAAGAAAAGAGAATAAAAGTTG
1 -AAAAAAAAAAGAAAAGA-AAGAAAAG--C
*
7563656 AAAAAAAAAGGAAAAGAAAGAAAAGC
1 AAAAAAAAAAGAAAAGAAAGAAAAGC
*
7563682 AAAAACAAAAACAAAA
1 AAAAA-AAAAAGAAAA
7563698 ATAATAAAGT
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
26 5 0.09
27 8 0.14
28 21 0.38
29 22 0.39
ACGTcount: A:0.77, C:0.04, G:0.13, T:0.06
Consensus pattern (26 bp):
AAAAAAAAAAGAAAAGAAAGAAAAGC
Found at i:7563739 original size:12 final size:13
Alignment explanation
Indices: 7563712--7563742 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
7563702 TAAAGTGGTG
*
7563712 AAAAAGCAAAGAA
1 AAAAAGAAAAGAA
7563725 AAAAAGAAAAGAA
1 AAAAAGAAAAGAA
7563738 AAAAA
1 AAAAA
7563743 AATAGGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAGAA
Found at i:7566421 original size:234 final size:234
Alignment explanation
Indices: 7565591--7566484 Score: 940
Period size: 234 Copynumber: 3.8 Consensus size: 234
7565581 ATCTTGCCGT
* * * * * *
7565591 CAAATTTTACCGCCAAATTTGTTTGGTGGGAAATATTTTTGTGACATTTTTTTATTTTAGGTGAC
1 CAAACTTTACCGCCAAATTTATTTGATGGAAAATCTTTTTATGACA-TTTTTTATTTTAGGTGAC
* * ** *
7565656 ATTATAATTTTGTCACCAATTTAAAATTTTATCTATGACAAATTTTTTTGATAGATTTTAGGTGA
65 GTTATAATTTTGTCACCAATTTAAAATTTTATCTGTGATGAATTTTTTTTATAGATTTTAGGTGA
* * * * * *
7565721 CGCTCTTAAATTTTGTCATAAATTGAACACTTTAGTTAACTATTAATGACATCACATTTTTGTCA
130 CGTTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTATTAATGACATTACAATTTTGTCA
* * * * **
7565786 TGTCAATGTATGATGGTATATGATGATAA-TATAAATGTCA
195 TGTAAATATATGGTGTTATATGACAATAACT-TAAATGTCA
* * ** * * * *
7565826 CAAACTTTTACTGCTAAA-TTATTTG-TTCAAAATTTTTTTTTGACATTTTTTATTTCAGGTGAT
1 CAAAC-TTTACCGCCAAATTTATTTGATGGAAAATCTTTTTATGACATTTTTTATTTTAGGTGAC
* * * *
7565889 GTT-TAAATTTTATCACTAA-TTATAAATTTTATCTGTGATGAATTTTTTCTAATAGATTTTAAG
65 GTTAT-AATTTTGTCACCAATTTA-AAATTTTATCTGTGATGAATTTTTT-TTATAGATTTTAGG
* * * * *
7565952 TGACATTATCAATTTTTGTCAAAAATGGAACACTTTGGTTAACTATTAATGACATTACAATTTTG
127 TGACGTTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTATTAATGACATTACAATTTTG
* * * * * * *
7566017 TCACCT-TTATTTTTTGGTATTATATAACAATAACATAAATGTCA
192 TCA--TGTAAATATATGGTGTTATATGACAATAACTTAAATGTCA
* *** * * * * * **
7566061 CAAATTTTTACTATCAATTTTATTTGATGAAAAATTCTTTTTATGATATTTTGTATATTAATTGA
1 CAAA-CTTTACCGCCAAATTTATTTGATGGAAAA-TCTTTTTATGACATTTTTTATTTTAGGTGA
* * ** * *
7566126 TGTTATAATTATGTCACTGATTTAAAATTTTATTTGTGAT-AATTTTTTCTAGTAGATTTTAGGT
64 CGTTATAATTTTGTCACCAATTTAAAATTTTATCTGTGATGAATTTTTTTTA-TAGATTTTAGGT
* * * * * **
7566190 GATGTTATTAGTTTTTGTCACAAATTGAATACTTTAGTTAACTATTAATGACCTTGCAATTTCAT
128 GACGTTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTATTAATGACATTACAATTTTGT
7566255 CATGTAAATATATGGTGTTATATGACAATAACTTAAATGTCA
193 CATGTAAATATATGGTGTTATATGACAATAACTTAAATGTCA
*
7566297 CAAACTTTACCGCCAAATTTATTTGATGGGAAAA-CTTTTTATGACATTTTTTATTTTATGTGAC
1 CAAACTTTACCGCCAAATTTATTTGAT-GGAAAATCTTTTTATGACATTTTTTATTTTAGGTGAC
* * *
7566361 GTTATAATTTTGTCACCAATTTAAAATTTTATTTGCGATGAATTTTTTTTATACATTTTAGGTGA
65 GTTATAATTTTGTCACCAATTTAAAATTTTATCTGTGATGAATTTTTTTTATAGATTTTAGGTGA
*
7566426 TGTTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTATTAATGACATTACAATT
130 CGTTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTATTAATGACATTACAATT
7566485 GTCACATTTG
Statistics
Matches: 539, Mismatches: 103, Indels: 35
0.80 0.15 0.05
Matches are distributed among these distances:
232 4 0.01
233 52 0.10
234 212 0.39
235 77 0.14
236 59 0.11
237 79 0.15
238 52 0.10
239 4 0.01
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (234 bp):
CAAACTTTACCGCCAAATTTATTTGATGGAAAATCTTTTTATGACATTTTTTATTTTAGGTGACG
TTATAATTTTGTCACCAATTTAAAATTTTATCTGTGATGAATTTTTTTTATAGATTTTAGGTGAC
GTTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTATTAATGACATTACAATTTTGTCAT
GTAAATATATGGTGTTATATGACAATAACTTAAATGTCA
Found at i:7566836 original size:17 final size:15
Alignment explanation
Indices: 7566814--7566852 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
7566804 ATTTTAAAAG
7566814 AAATTTTAAAAGTTAAA
1 AAATTTT-AAAGTT-AA
*
7566831 AAATTTTTAAGTTAA
1 AAATTTTAAAGTTAA
7566846 AAATTTT
1 AAATTTT
7566853 GTTAGAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
AAATTTTAAAGTTAA
Found at i:7566849 original size:15 final size:16
Alignment explanation
Indices: 7566823--7566852 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7566813 GAAATTTTAA
7566823 AAGTTAAAAAATTTTT
1 AAGTTAAAAAATTTTT
7566839 AAGTT-AAAAATTTT
1 AAGTTAAAAAATTTT
7566853 GTTAGAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (16 bp):
AAGTTAAAAAATTTTT
Found at i:7569619 original size:31 final size:31
Alignment explanation
Indices: 7569576--7569639 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
7569566 TATTGCAAGC
*
7569576 ACTAATAGCGTATTGGACATTAACATAATGT
1 ACTAATAACGTATTGGACATTAACATAATGT
7569607 ACTAATAACGTATTGGACATTAACATAATGT
1 ACTAATAACGTATTGGACATTAACATAATGT
7569638 AC
1 AC
7569640 AAGCCACCCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (31 bp):
ACTAATAACGTATTGGACATTAACATAATGT
Found at i:7571495 original size:20 final size:21
Alignment explanation
Indices: 7571449--7571522 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 21
7571439 AGCCTTACCC
* *
7571449 GATCAATCCCTTGCTTGAGGG
1 GATCGATCCCTTGCCTGAGGG
*
7571470 GATCGATCCCTTGCCTG-GGT
1 GATCGATCCCTTGCCTGAGGG
*** *
7571490 GATCGATCCCTTATGTGGGGG
1 GATCGATCCCTTGCCTGAGGG
7571511 GATCGATCCCTT
1 GATCGATCCCTT
7571523 TTCTGGATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.15, C:0.26, G:0.30, T:0.30
Consensus pattern (21 bp):
GATCGATCCCTTGCCTGAGGG
Found at i:7577034 original size:201 final size:201
Alignment explanation
Indices: 7576598--7577337 Score: 546
Period size: 201 Copynumber: 3.7 Consensus size: 201
7576588 TCTTTCATCG
* * * ** * * ** * *
7576598 CTAATATATCAAATTTAATCATTTATTTTGTGATGATTATAGCCTTTAATGACATTTT--ATCAT
1 CTAATATATTAGATTTTATCATTTATTTTGTGACAATTATAACCTTCAATGATGTTTTGCTTTAT
* * * * ** * *
7576661 AAATAGCTAACGAAAACTAATGTCATAAAAAAATAAA-GCATAATGTTACATTTAATTTTGTTGT
66 AAATAGCTAACGAAAACT-ACGTC--ACAAAAATAAATGCATAAGGTGATGTTTGATTTTATTGT
* * * ** * * * * *
7576725 CATATTTGACGTTATCTTACAA-CTATTTGTGACGATAATTATGTTACCAATAAT-ATGACAATT
128 CATAGTAGACATTATCTTACAATC-ATTCATGATGATAATTGTGTCACCAATATTGA-GACGATT
* **
7576788 TACCTTTCATCA
191 TA-TTTTTGTCA
*
7576800 TTAATATATTAGATTTTATCATTTATTTTGTGACAATTATAACCTTCAATGATGTTATT-CTTTA
1 CTAATATATTAGATTTTATCATTTATTTTGTGACAATTATAACCTTCAATGATGTT-TTGCTTTA
* * * *
7576864 TAAATAGCTAATGAAAATTAACGTCATATAAAA-AAATGCATAGGGTGATGTTTGATTTTATTGT
65 TAAATAGCTAACGAAAACT-ACGTCACA-AAAATAAATGCATAAGGTGATGTTTGATTTTATTGT
* * * *
7576928 CA-CGTTTGATATTATCTTATAATCATTCATGATGATAATTGTGTCACCAATATTGAGACGATTT
128 CATAG-TAGACATTATCTTACAATCATTCATGATGATAATTGTGTCACCAATATTGAGACGATTT
7576992 ATTTTTGTCA
192 ATTTTTGTCA
* * * * *
7577002 CTAATATA-TATATTTTATCATTTATTTTGTGACGATTATAGCCTTTAATGATGTTTTGGTTTAT
1 CTAATATATTAGATTTTATCATTTATTTTGTGACAATTATAACCTTCAATGATGTTTTGCTTTAT
* *
7577066 AAATAGTTAACGAAAACTACGTCACAAAAATTAATGCATAAGGTGATGTTTGATTTTATTGTCAT
66 AAATAGCTAACGAAAACTACGTCACAAAAATAAATGCATAAGGTGATGTTTGATTTTATTGTCAT
** * * * *
7577131 AGTAGACATTATCTTACAATCATTGGTGATGATAATTATG-CTACTAATATT-ATAATGATTTAC
131 AGTAGACATTATCTTACAATCATTCATGATGATAATTGTGTC-ACCAATATTGA-GACGATTTA-
* *
7577194 CCTTTGGTCCA
193 -TTTTTGT-CA
* * * * * *
7577205 CTAATATATCAAATTTTTTGCCTTTTTTTTGTGACGAA-TATAGCCTTC-ATGACT-TTTT--TT
1 CTAATATATTAGATTTTAT-CATTTATTTTGTGAC-AATTATAACCTTCAATGA-TGTTTTGCTT
* * * * * *
7577265 CAT-AATAGTTGATGAAAACTAACGTCACAAAAA-AACA-ACATAAGGTGATGTTTTATTTTATT
63 TATAAATAGCTAACGAAAACT-ACGTCACAAAAATAA-ATGCATAAGGTGATGTTTGATTTTATT
*
7577327 GTCATGGTAGA
126 GTCATAGTAGA
7577338 TTCACAATAG
Statistics
Matches: 441, Mismatches: 76, Indels: 43
0.79 0.14 0.08
Matches are distributed among these distances:
199 6 0.01
200 87 0.20
201 113 0.26
202 86 0.20
203 84 0.19
204 41 0.09
205 23 0.05
206 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (201 bp):
CTAATATATTAGATTTTATCATTTATTTTGTGACAATTATAACCTTCAATGATGTTTTGCTTTAT
AAATAGCTAACGAAAACTACGTCACAAAAATAAATGCATAAGGTGATGTTTGATTTTATTGTCAT
AGTAGACATTATCTTACAATCATTCATGATGATAATTGTGTCACCAATATTGAGACGATTTATTT
TTGTCA
Found at i:7577163 original size:200 final size:200
Alignment explanation
Indices: 7576558--7577337 Score: 711
Period size: 202 Copynumber: 3.9 Consensus size: 200
7576548 TTAATAATGT
* * * * * * *
7576558 TAATTATGTCACCAGTACTATGATGATTTATCTTTCATCGCTAATATATCAAATTTAATCATTTA
1 TAATTATGTCACCAATATTATGACGATTTACCTTTCGTCACTAATATATCAAATTTTATCATTTA
* ** * *
7576623 TTTTGTGATGATTATAGCCTTTAATGACATTTTATCATAAATAGCTAACGAAAACTAATGTCATA
66 TTTTGTGACGATTATAGCCTTTAATGATGTTTTTTCATAAATAGCTAACGAAAACTAACGTC--A
* * * ** * * * * *
7576688 AAAAAATAAAGCATAATGTTACATTTAATTTTGTTGTCATATTTGACGTTATCTTACAA-CTATT
129 CAAAAATAAAGCATAAGGTGATGTTTGATTTTATTGTCATAGTAGACATTATCTTACAATC-ATT
* *
7576752 TGTGACGA
193 CGTGATGA
* * * * * * *
7576760 TAATTATGTTACCAATAATATGACAATTTACCTTTCATCATTAATATATTAGATTTTATCATTTA
1 TAATTATGTCACCAATATTATGACGATTTACCTTTCGTCACTAATATATCAAATTTTATCATTTA
* * * * * *
7576825 TTTTGTGACAATTATAACCTTCAATGATGTTATTCTTTATAAATAGCTAATGAAAATTAACGTCA
66 TTTTGTGACGATTATAGCCTTTAATGATGTT-TT-TTCATAAATAGCTAACGAAAACTAACGTCA
* * * * * *
7576890 TATAAAA-AAATGCATAGGGTGATGTTTGATTTTATTGTCA-CGTTTGATATTATCTTATAATCA
129 CA-AAAATAAA-GCATAAGGTGATGTTTGATTTTATTGTCATAG-TAGACATTATCTTACAATCA
*
7576953 TTCATGATGA
191 TTCGTGATGA
* * * *
7576963 TAATTGTGTCACCAATATTGA-GACGATTTA-TTTTTGTCACTAATATAT-ATATTTTATCATTT
1 TAATTATGTCACCAATATT-ATGACGATTTACCTTTCGTCACTAATATATCAAATTTTATCATTT
* *
7577025 ATTTTGTGACGATTATAGCCTTTAATGATGTTTTGGTTTATAAATAGTTAACGAAAACT-ACGTC
65 ATTTTGTGACGATTATAGCCTTTAATGATGTTTT--TTCATAAATAGCTAACGAAAACTAACGTC
*
7577089 ACAAAAATTAATGCATAAGGTGATGTTTGATTTTATTGTCATAGTAGACATTATCTTACAATCAT
128 ACAAAAA-TAAAGCATAAGGTGATGTTTGATTTTATTGTCATAGTAGACATTATCTTACAATCAT
*
7577154 TGGTGATGA
192 TCGTGATGA
* * * * * *
7577163 TAATTATG-CTACTAATATTATAATGATTTACCCTTTGGTCCACTAATATATCAAATTTTTTGCC
1 TAATTATGTC-ACCAATATTATGACGATTTA-CCTTTCGT-CACTAATATATCAAATTTTAT-CA
* * * * * *
7577227 TTTTTTTTGTGACGAATATAGCC-TTCATGACT-TTTTTTCAT-AATAGTTGATGAAAACTAACG
62 TTTATTTTGTGACGATTATAGCCTTTAATGA-TGTTTTTTCATAAATAGCTAACGAAAACTAACG
* * *
7577289 TCACAAAAA-AACAACATAAGGTGATGTTTTATTTTATTGTCATGGTAGA
126 TCACAAAAATAA-AGCATAAGGTGATGTTTGATTTTATTGTCATAGTAGA
7577338 TTCACAATAG
Statistics
Matches: 475, Mismatches: 82, Indels: 43
0.79 0.14 0.07
Matches are distributed among these distances:
199 6 0.01
200 86 0.18
201 113 0.24
202 119 0.25
203 85 0.18
204 43 0.09
205 23 0.05
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (200 bp):
TAATTATGTCACCAATATTATGACGATTTACCTTTCGTCACTAATATATCAAATTTTATCATTTA
TTTTGTGACGATTATAGCCTTTAATGATGTTTTTTCATAAATAGCTAACGAAAACTAACGTCACA
AAAATAAAGCATAAGGTGATGTTTGATTTTATTGTCATAGTAGACATTATCTTACAATCATTCGT
GATGA
Found at i:7578508 original size:17 final size:17
Alignment explanation
Indices: 7578488--7578522 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
7578478 TATTTAGTTT
7578488 AGGAACCTCTTTAGCTA
1 AGGAACCTCTTTAGCTA
7578505 AGGAACCTCTTTAGCTA
1 AGGAACCTCTTTAGCTA
7578522 A
1 A
7578523 TTCCCATAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (17 bp):
AGGAACCTCTTTAGCTA
Found at i:7584655 original size:22 final size:24
Alignment explanation
Indices: 7584620--7584663 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
7584610 ATAATACTAT
7584620 TAATAATCTAC-AAAATAAATATG
1 TAATAATCTACAAAAATAAATATG
*
7584643 TAAT-ATCTTCAAAAATAAATA
1 TAATAATCTACAAAAATAAATA
7584664 AATAAGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (24 bp):
TAATAATCTACAAAAATAAATATG
Found at i:7599063 original size:185 final size:183
Alignment explanation
Indices: 7598752--7599108 Score: 543
Period size: 185 Copynumber: 1.9 Consensus size: 183
7598742 AGCATTATGG
* * **
7598752 CACCATTCTTAGAGATTCAAAAAGGACCAATTAGAGTTGTTGAGCTGGCTATGTGAAGGCTGCCT
1 CACCATTCTTAGAGATCCAAAAAGAACCAATTAGAGTTGTTGAGCTAACTATGTGAAGGCTGCCT
* * * *
7598817 TGGTTATAATGTTAACTTCTTGGAGGTTAATAGCTTATGAGAAGAAGGCTTGAAGGAAAGTGGAG
66 TGGCTATAATGTTAACTTCTTGGAGGTTAATAGCTCATGAGAAAAAGGCTTGAAAGAAAGTGGAG
* * *
7598882 TTAAAAGAACCAAACAAGCAAGCTAAGGATTCAAGGAATAGAGAAAAAAAGAC
131 TCAAAAGAACCAAACAAGCAAGATAAAGATTCAAGGAATAGAGAAAAAAAGAC
* * * *
7598935 CACCATTCTTGGAGATCCATAAAGAACCAATTGGAGTTGTTGAGCTAACTATGTGAAGGCTTCCT
1 CACCATTCTTAGAGATCCAAAAAGAACCAATTAGAGTTGTTGAGCTAACTATGTGAAGGCTGCC-
*
7599000 ATTGGCTATAATGTTGACTTCTTGGAGGTTAATAGCTCATGAGAAAAAGGCTTGAAAGAAAGTGG
65 -TTGGCTATAATGTTAACTTCTTGGAGGTTAATAGCTCATGAGAAAAAGGCTTGAAAGAAAGTGG
*
7599065 AGTCAAAGGAACCAAACAAGCAAGATAAAGATTCAAGGAATAGA
129 AGTCAAAAGAACCAAACAAGCAAGATAAAGATTCAAGGAATAGA
7599109 AGAAGAAGGA
Statistics
Matches: 155, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
183 56 0.36
185 99 0.64
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.24
Consensus pattern (183 bp):
CACCATTCTTAGAGATCCAAAAAGAACCAATTAGAGTTGTTGAGCTAACTATGTGAAGGCTGCCT
TGGCTATAATGTTAACTTCTTGGAGGTTAATAGCTCATGAGAAAAAGGCTTGAAAGAAAGTGGAG
TCAAAAGAACCAAACAAGCAAGATAAAGATTCAAGGAATAGAGAAAAAAAGAC
Found at i:7602216 original size:15 final size:15
Alignment explanation
Indices: 7602196--7602226 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7602186 TAAGTATAAA
*
7602196 AATGATTCATACACT
1 AATGATTCATAAACT
7602211 AATGATTCATAAACT
1 AATGATTCATAAACT
7602226 A
1 A
7602227 TACACTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.32
Consensus pattern (15 bp):
AATGATTCATAAACT
Found at i:7602508 original size:21 final size:20
Alignment explanation
Indices: 7602465--7602537 Score: 71
Period size: 19 Copynumber: 3.7 Consensus size: 20
7602455 TCTTAAAAAT
* *
7602465 TTTTTAAAAAATT-TAAAATA
1 TTTTT-AAAAATTATGAAAGA
7602485 TTTTTAAAAATTATGAAAGGA
1 TTTTTAAAAATTATGAAA-GA
* *
7602506 TTTTTAAAAATGA-GAAATA
1 TTTTTAAAAATTATGAAAGA
7602525 TTTTT-AAAATTAT
1 TTTTTAAAAATTAT
7602538 AAAAACAAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
18 6 0.13
19 13 0.29
20 13 0.29
21 13 0.29
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (20 bp):
TTTTTAAAAATTATGAAAGA
Found at i:7602722 original size:11 final size:11
Alignment explanation
Indices: 7602708--7602732 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7602698 AGAAAGAAAT
7602708 AAAAAATTTTA
1 AAAAAATTTTA
7602719 AAAAAATTTTA
1 AAAAAATTTTA
7602730 AAA
1 AAA
7602733 TTTATAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAAAATTTTA
Found at i:7602770 original size:29 final size:29
Alignment explanation
Indices: 7602738--7602794 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
7602728 TAAAATTTAT
7602738 AAAAATT-AAAAATTAAAA-ATTTTCAAAA
1 AAAAATTCAAAAATTAAAATA-TTTCAAAA
*
7602766 AAAAATTCAAAAATTTAAATATTTCAAAA
1 AAAAATTCAAAAATTAAAATATTTCAAAA
7602795 TTTTGAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 7 0.27
29 18 0.69
30 1 0.04
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (29 bp):
AAAAATTCAAAAATTAAAATATTTCAAAA
Found at i:7602780 original size:46 final size:44
Alignment explanation
Indices: 7602704--7602852 Score: 122
Period size: 45 Copynumber: 3.3 Consensus size: 44
7602694 AATAAGAAAG
* * *
7602704 AAATAAAAAATTTT-AAAAAAATTTTAAAATTTATAAAAATT-AA
1 AAATTAAAAATTTTAAAAAAAAATTAAAAATTTA-AAAAATTCAA
* *
7602747 AAATTAAAAATTTTCAAAAAAAAATTCAAAAATTTAAATATTTCAA
1 AAATTAAAAATTTT-AAAAAAAAATT-AAAAATTTAAAAAATTCAA
* ** * * *
7602793 AATTTTGAAATATTAAAAAAATTATTAAAAATTTAAAAAAATATTGAA
1 AAATTAAAAATTTTAAAAAAA-AATTAAAAATTT--AAAAA-ATTCAA
7602841 AAATTAAAAATT
1 AAATTAAAAATT
7602853 AAAAAATTAC
Statistics
Matches: 81, Mismatches: 17, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
43 13 0.16
45 29 0.36
46 23 0.28
47 4 0.05
48 12 0.15
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.34
Consensus pattern (44 bp):
AAATTAAAAATTTTAAAAAAAAATTAAAAATTTAAAAAATTCAA
Found at i:7602815 original size:19 final size:19
Alignment explanation
Indices: 7602791--7602850 Score: 77
Period size: 19 Copynumber: 3.1 Consensus size: 19
7602781 TAAATATTTC
*
7602791 AAAATTTTGAAATATTAAA
1 AAAATTTTGAAAAATTAAA
7602810 AAAATTATT-AAAAATTTAAA
1 AAAATT-TTGAAAAA-TTAAA
*
7602830 AAAATATTGAAAAATTAAA
1 AAAATTTTGAAAAATTAAA
7602849 AA
1 AA
7602851 TTAAAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
19 19 0.53
20 17 0.47
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
AAAATTTTGAAAAATTAAA
Found at i:7602830 original size:8 final size:8
Alignment explanation
Indices: 7602720--7602860 Score: 67
Period size: 8 Copynumber: 16.9 Consensus size: 8
7602710 AAAATTTTAA
7602720 AAAAATTT
1 AAAAATTT
*
7602728 TAAAATTT
1 AAAAATTT
*
7602736 ATAAAAATT
1 A-AAAATTT
7602745 AAAAA-TT
1 AAAAATTT
7602752 AAAAATTTT
1 AAAAA-TTT
*
7602761 CAAAA---
1 AAAAATTT
*
7602766 AAAAATTC
1 AAAAATTT
7602774 AAAAATTT
1 AAAAATTT
*
7602782 AAATATTT
1 AAAAATTT
*
7602790 CAAAATTTT
1 -AAAAATTT
* *
7602799 GAAATATTAA
1 -AAAAATT-T
7602809 AAAAATTATT
1 AAAAA-T-TT
7602819 AAAAATTT
1 AAAAATTT
7602827 AAAAAAATATT
1 --AAAAAT-TT
7602838 GAAAAA-TT
1 -AAAAATTT
*
7602846 AAAAATTA
1 AAAAATTT
7602854 AAAAATT
1 AAAAATT
7602861 ACAATTTTAA
Statistics
Matches: 102, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
5 4 0.04
7 12 0.12
8 37 0.36
9 29 0.28
10 17 0.17
11 3 0.03
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.34
Consensus pattern (8 bp):
AAAAATTT
Found at i:7602850 original size:20 final size:20
Alignment explanation
Indices: 7602791--7602850 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
7602781 TAAATATTTC
* *
7602791 AAAATTTTGAAATATTAAAA
1 AAAATATTGAAAAATTAAAA
* *
7602811 AAATTATT-AAAAATTTAAA
1 AAAATATTGAAAAATTAAAA
7602830 AAAATATTGAAAAATTAAAA
1 AAAATATTGAAAAATTAAAA
7602850 A
1 A
7602851 TTAAAAAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (20 bp):
AAAATATTGAAAAATTAAAA
Found at i:7602856 original size:46 final size:44
Alignment explanation
Indices: 7602716--7602858 Score: 118
Period size: 46 Copynumber: 3.2 Consensus size: 44
7602706 ATAAAAAATT
*
7602716 TTAAAAAAATT-TT-AAAATTTATAAAA-ATTAAAAATTAAAAA
1 TTAAAAAAATTATTAAAAATTTAAAAAATATTAAAAATTAAAAA
* * * *
7602757 TTTTCAAAAAAA-AATTCAAAAATTT-AAATAT-TTCAAAATTTTGAAATA
1 --TT-AAAAAAATTATT-AAAAATTTAAAAAATATT-AAAA-ATT-AAAAA
7602805 TTAAAAAAATTATTAAAAATTTAAAAAAATATTGAAAAATTAAAAA
1 TTAAAAAAATTATTAAAAATTT-AAAAAATATT-AAAAATTAAAAA
7602851 TTAAAAAA
1 TTAAAAAA
7602859 TTACAATTTT
Statistics
Matches: 78, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
43 2 0.03
44 9 0.12
45 20 0.26
46 28 0.36
47 9 0.12
48 10 0.13
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (44 bp):
TTAAAAAAATTATTAAAAATTTAAAAAATATTAAAAATTAAAAA
Found at i:7603194 original size:9 final size:9
Alignment explanation
Indices: 7603180--7603258 Score: 52
Period size: 9 Copynumber: 8.3 Consensus size: 9
7603170 AATATTTTAG
7603180 TTTTAAATT
1 TTTTAAATT
7603189 TTTTAATAATT
1 TTTT-A-AATT
* *
7603200 TTTGAAAAT
1 TTTTAAATT
* *
7603209 ATTTAATTT
1 TTTTAAATT
*
7603218 TTTTGAATT
1 TTTTAAATT
*
7603227 TCTTTGAATT
1 T-TTTAAATT
7603237 TTTTGAAA-T
1 TTTT-AAATT
7603246 TTTTAGAATT
1 TTTTA-AATT
7603256 TTT
1 TTT
7603259 AAGAAATTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
8 1 0.02
9 29 0.54
10 17 0.31
11 7 0.13
ACGTcount: A:0.30, C:0.01, G:0.06, T:0.62
Consensus pattern (9 bp):
TTTTAAATT
Found at i:7603202 original size:19 final size:18
Alignment explanation
Indices: 7603180--7603268 Score: 65
Period size: 19 Copynumber: 4.7 Consensus size: 18
7603170 AATATTTTAG
7603180 TTTT-AAATTTTTTAATAAT
1 TTTTGAAATTTTTTAAT--T
* *
7603199 TTTTGAAAATATTTAATTT
1 TTTTGAAATTTTTTAA-TT
7603218 TTTTG-AATTTCTTTGAATT
1 TTTTGAAATTT-TTT-AATT
*
7603237 TTTTGAAATTTTTAGAATT
1 TTTTGAAATTTTT-TAATT
*
7603256 TTTAAGAAATTTT
1 TTT-TGAAATTTT
7603269 ATTGTAATGT
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
18 3 0.05
19 29 0.51
20 24 0.42
21 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.07, T:0.60
Consensus pattern (18 bp):
TTTTGAAATTTTTTAATT
Found at i:7603232 original size:10 final size:9
Alignment explanation
Indices: 7603216--7603258 Score: 59
Period size: 10 Copynumber: 4.6 Consensus size: 9
7603206 AATATTTAAT
7603216 TTTTTTGAA
1 TTTTTTGAA
7603225 TTTCTTTGAA
1 TTT-TTTGAA
7603235 TTTTTTGAAA
1 TTTTTTG-AA
*
7603245 TTTTTAGAA
1 TTTTTTGAA
7603254 TTTTT
1 TTTTT
7603259 AAGAAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 14 0.45
10 17 0.55
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.65
Consensus pattern (9 bp):
TTTTTTGAA
Found at i:7603907 original size:2 final size:2
Alignment explanation
Indices: 7603900--7603924 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7603890 TGTTGCAAGA
7603900 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7603925 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7603929 original size:2 final size:2
Alignment explanation
Indices: 7603924--7603970 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
7603914 ATATATATAT
* *
7603924 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AT AA AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7603966 AG AG A
1 AG AG A
7603971 AAAATCCATT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.53, C:0.00, G:0.45, T:0.02
Consensus pattern (2 bp):
AG
Found at i:7605015 original size:14 final size:14
Alignment explanation
Indices: 7604998--7605026 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7604988 TTATACATAC
7604998 ATACATATATATAT
1 ATACATATATATAT
7605012 ATACATATATATAT
1 ATACATATATATAT
7605026 A
1 A
7605027 CATACTAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
ATACATATATATAT
Found at i:7605021 original size:12 final size:12
Alignment explanation
Indices: 7605004--7605030 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7604994 ATACATACAT
7605004 ATATATATATAC
1 ATATATATATAC
7605016 ATATATATATAC
1 ATATATATATAC
7605028 ATA
1 ATA
7605031 CTAGCTTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:7605526 original size:36 final size:36
Alignment explanation
Indices: 7605484--7605577 Score: 111
Period size: 36 Copynumber: 2.6 Consensus size: 36
7605474 TATGAATCAG
*
7605484 AGATTTATTATATATGTTTGAGAA-A-AAAAGAACCAA
1 AGATTTATTATATATGTGTGA-AAGAGAAAA-AACCAA
* *
7605520 AGATTTACTATAAATGTGTGAAAGAGAAAAAACCAA
1 AGATTTATTATATATGTGTGAAAGAGAAAAAACCAA
* *
7605556 ATATTTATTATATATGTATGAA
1 AGATTTATTATATATGTGTGAA
7605578 CTTTAAATTG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
35 2 0.04
36 43 0.88
37 4 0.08
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.32
Consensus pattern (36 bp):
AGATTTATTATATATGTGTGAAAGAGAAAAAACCAA
Found at i:7606747 original size:14 final size:14
Alignment explanation
Indices: 7606725--7606763 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
7606715 ATATTAAAGA
* *
7606725 TTAAGTTTGTAATT
1 TTAATTTTGAAATT
7606739 TTAATTTTGAAATT
1 TTAATTTTGAAATT
7606753 TTAATTGTTGA
1 TTAATT-TTGA
7606764 TTATAAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (14 bp):
TTAATTTTGAAATT
Found at i:7606877 original size:4 final size:4
Alignment explanation
Indices: 7606868--7606892 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
7606858 ATCCTTTATG
7606868 TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA T
7606893 ATATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:7609946 original size:6 final size:6
Alignment explanation
Indices: 7609935--7609964 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
7609925 TGATGAAAGC
7609935 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
7609965 TACAAATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:7617101 original size:42 final size:42
Alignment explanation
Indices: 7617053--7617138 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
7617043 AAACACACAA
*
7617053 AAGGATAAAAGCATACCTGTCTTAAACAAAATAAAAACAAAT
1 AAGGATAAAAGCATACCTGTCCTAAACAAAATAAAAACAAAT
* *
7617095 AAGGATAAAAGCATATCTGTCCTAAACGAAATAAAAACAAAT
1 AAGGATAAAAGCATACCTGTCCTAAACAAAATAAAAACAAAT
7617137 AA
1 AA
7617139 CAAAGGAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.57, C:0.14, G:0.10, T:0.19
Consensus pattern (42 bp):
AAGGATAAAAGCATACCTGTCCTAAACAAAATAAAAACAAAT
Found at i:7623775 original size:45 final size:44
Alignment explanation
Indices: 7623688--7623781 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 44
7623678 AGAATGGACC
7623688 CTAATCGATATTTTTAGAAATAGGTACAACCAAGAGGGAATAACA
1 CTAATCGATATTTTTAGAAATAGGTACAACC-AGAGGGAATAACA
*
7623733 CTAATC-AGTATTTTTAGAAATAGGTACAATC-GATGGGTAATAACA
1 CTAATCGA-TATTTTTAGAAATAGGTACAACCAGA-GGG-AATAACA
7623778 CTAA
1 CTAA
7623782 AAGGAGACTA
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
43 2 0.04
44 4 0.09
45 39 0.87
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.28
Consensus pattern (44 bp):
CTAATCGATATTTTTAGAAATAGGTACAACCAGAGGGAATAACA
Found at i:7628058 original size:23 final size:25
Alignment explanation
Indices: 7628009--7628058 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
7627999 ATTAATTAAA
7628009 ATTAATATATTTTATTGAAAAATAT
1 ATTAATATATTTTATTGAAAAATAT
*
7628034 ATTAATATATATTTA-TAAAAAATAT
1 ATTAATATAT-TTTATTGAAAAATAT
7628059 CTAAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
ATTAATATATTTTATTGAAAAATAT
Found at i:7628065 original size:25 final size:25
Alignment explanation
Indices: 7628012--7628065 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
7628002 AATTAAAATT
* *
7628012 AATATATTTTATTGAAAAATATATT
1 AATATATTTTATTAAAAAATATATA
*
7628037 AATATATATTTA-TAAAAAATATCTA
1 AATATAT-TTTATTAAAAAATATATA
7628062 AATA
1 AATA
7628066 AAAAGATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
AATATATTTTATTAAAAAATATATA
Found at i:7628619 original size:19 final size:19
Alignment explanation
Indices: 7628583--7628620 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
7628573 CTGAATTTTG
7628583 AATTATATTGAAACAAATA
1 AATTATATTGAAACAAATA
*
7628602 AATTGATATTTAAA-AAATA
1 AATT-ATATTGAAACAAATA
7628621 TATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (19 bp):
AATTATATTGAAACAAATA
Found at i:7634090 original size:3 final size:3
Alignment explanation
Indices: 7634082--7634114 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
7634072 TTTTTTAAAA
7634082 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7634115 CAAGAAATGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:7635915 original size:19 final size:20
Alignment explanation
Indices: 7635891--7635936 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
7635881 TTATATTTTA
7635891 TTTTTATATAT-GTTCTTAT
1 TTTTTATATATAGTTCTTAT
*
7635910 TTTTTATATATATTTCTTAT
1 TTTTTATATATAGTTCTTAT
*
7635930 ATTTTAT
1 TTTTTAT
7635937 TTATCATAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTTATATATAGTTCTTAT
Found at i:7637391 original size:27 final size:27
Alignment explanation
Indices: 7637359--7637413 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
7637349 TCTATTACAT
7637359 ACCTTAAATCCCCAAACCACCATCCAA
1 ACCTTAAATCCCCAAACCACCATCCAA
* *
7637386 ACCTTAAATCCCTAAACCACCATGCAA
1 ACCTTAAATCCCCAAACCACCATCCAA
7637413 A
1 A
7637414 TGATAATTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.42, C:0.40, G:0.02, T:0.16
Consensus pattern (27 bp):
ACCTTAAATCCCCAAACCACCATCCAA
Found at i:7639934 original size:10 final size:10
Alignment explanation
Indices: 7639892--7639927 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
7639882 GTAACCAAAT
*
7639892 TAACTAACTA
1 TAACTAACTC
*
7639902 TAACTAACTT
1 TAACTAACTC
7639912 TAACTAACTC
1 TAACTAACTC
7639922 TAACTA
1 TAACTA
7639928 CTACTAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (10 bp):
TAACTAACTC
Found at i:7642443 original size:51 final size:51
Alignment explanation
Indices: 7642367--7642471 Score: 183
Period size: 51 Copynumber: 2.1 Consensus size: 51
7642357 ATGTCTATTT
*
7642367 TAAGGTGGTAAAACAATTTTTACAGATTCCTTAGGTAAGGTCGCATTTGCA
1 TAAGGTGGTAAAACAATTTTTACAGATTCCTTAGGTAAGGTCACATTTGCA
* *
7642418 TAAGGTGGTAAAATAGTTTTTACAGATTCCTTAGGTAAGGTCACATTTGCA
1 TAAGGTGGTAAAACAATTTTTACAGATTCCTTAGGTAAGGTCACATTTGCA
7642469 TAA
1 TAA
7642472 CATTTTAGAC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.34
Consensus pattern (51 bp):
TAAGGTGGTAAAACAATTTTTACAGATTCCTTAGGTAAGGTCACATTTGCA
Found at i:7643677 original size:21 final size:20
Alignment explanation
Indices: 7643624--7643679 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 20
7643614 ACTAAAAACA
7643624 CTAAACCT-AACCCTAAATC
1 CTAAACCTAAACCCTAAATC
*
7643643 ATGCAAACCCTAAACCCTAAATC
1 CT--AAA-CCTAAACCCTAAATC
7643666 CTAAATCCTAAACC
1 CTAAA-CCTAAACC
7643680 ATGCAAACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 1 0.03
21 14 0.47
22 3 0.10
23 12 0.40
ACGTcount: A:0.43, C:0.36, G:0.02, T:0.20
Consensus pattern (20 bp):
CTAAACCTAAACCCTAAATC
Found at i:7643714 original size:7 final size:7
Alignment explanation
Indices: 7643647--7643715 Score: 59
Period size: 7 Copynumber: 9.6 Consensus size: 7
7643637 TAAATCATGC
7643647 AAACCCT
1 AAACCCT
7643654 AAACCCT
1 AAACCCT
*
7643661 AAATCCT
1 AAACCCT
*
7643668 AAATCCT
1 AAACCCT
*
7643675 AAACCAT
1 AAACCCT
7643682 GCAAACCCT
1 --AAACCCT
*
7643691 TAACGCC-
1 AAAC-CCT
*
7643698 AAATCCT
1 AAACCCT
7643705 AAACCCT
1 AAACCCT
7643712 AAAC
1 AAAC
7643716 ATGGATTGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
6 2 0.04
7 40 0.80
8 2 0.04
9 6 0.12
ACGTcount: A:0.43, C:0.36, G:0.03, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:7646668 original size:84 final size:82
Alignment explanation
Indices: 7646568--7646860 Score: 289
Period size: 84 Copynumber: 3.5 Consensus size: 82
7646558 AATCTTGCCC
** * * *
7646568 AGAGGACTTGAAGATTACATCTGGAGGTTTTACAAATCGAGAATCTAAAATAGATTTAACTTGGA
1 AGAGGACTTGGTGATTACATCTGGAGGTCTTACAAATC-A-AATCTAAAATAGATTTAGCTTGAA
* * *
7646633 AGATTTACAAATATTACCG
64 AGACTTACAAATTTTACTG
* * * *
7646652 AGAGGACTTGGTGATTACATTTGGAGATCTTACAAATCTCAACTTTAAAATAGATTTAGCTTGAA
1 AGAGGACTTGGTGATTACATCTGGAGGTCTTACAAA--TCAAATCTAAAATAGATTTAGCTTGAA
* ** *
7646717 AGACTTACGAATTTTGTTT
64 AGACTTACAAATTTTACTG
* ** * * *
7646736 AGAGGACTCGGTGATTATGTCAGGAGGTCTTACAAATCAAATTTCAAAAATAGATTCAGCTTGAA
1 AGAGGACTTGGTGATTACATCTGGAGGTCTTACAAATCAAA--TCTAAAATAGATTTAGCTTGAA
7646801 AGACTTACAAATTTTACTG
64 AGACTTACAAATTTTACTG
* * ***
7646820 AAAGGACTTGGTGATTATATCCAAAGGTCTTACAAATCAAA
1 AGAGGACTTGGTGATTACATCTGGAGGTCTTACAAATCAAA
7646861 CTTTGAAAAA
Statistics
Matches: 169, Mismatches: 36, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
82 4 0.02
84 162 0.96
85 1 0.01
86 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.31
Consensus pattern (82 bp):
AGAGGACTTGGTGATTACATCTGGAGGTCTTACAAATCAAATCTAAAATAGATTTAGCTTGAAAG
ACTTACAAATTTTACTG
Found at i:7647207 original size:23 final size:23
Alignment explanation
Indices: 7647164--7647209 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
7647154 TATGAAATGG
* *
7647164 ATGTAATGCATACAATGCATGAA
1 ATGTAATGAATACAATACATGAA
7647187 ATGTAATGAATGA-AATACATGAA
1 ATGTAATGAAT-ACAATACATGAA
7647210 TTCCATACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.26
Consensus pattern (23 bp):
ATGTAATGAATACAATACATGAA
Found at i:7650989 original size:20 final size:21
Alignment explanation
Indices: 7650961--7650999 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
7650951 GACATGAATG
*
7650961 AAATGTATG-AAACTAATGAA
1 AAATATATGCAAACTAATGAA
*
7650981 AAATATATGCAACCTAATG
1 AAATATATGCAAACTAATG
7651000 CTATCCTGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.51, C:0.10, G:0.13, T:0.26
Consensus pattern (21 bp):
AAATATATGCAAACTAATGAA
Found at i:7652474 original size:13 final size:14
Alignment explanation
Indices: 7652448--7652477 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
7652438 AAACAAAAAT
7652448 TATCATGCAAATAA
1 TATCATGCAAATAA
7652462 TATCATG-AAATAA
1 TATCATGCAAATAA
7652475 TAT
1 TAT
7652478 AAATACCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (14 bp):
TATCATGCAAATAA
Found at i:7652580 original size:3 final size:3
Alignment explanation
Indices: 7652557--7652605 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
7652547 TAAATTTAAT
* *
7652557 TAA TAA TTAA AAA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7652603 TAA
1 TAA
7652606 CATAATCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:7652642 original size:9 final size:9
Alignment explanation
Indices: 7652558--7652657 Score: 51
Period size: 9 Copynumber: 10.8 Consensus size: 9
7652548 AAATTTAATT
7652558 AATAATTAAA
1 AATAA-TAAA
* *
7652568 AATAACAAT
1 AATAATAAA
*
7652577 AATAATAAT
1 AATAATAAA
*
7652586 AATAATAAT
1 AATAATAAA
7652595 AATAATAATA
1 AATAATAA-A
*
7652605 ACATAATCAA
1 A-ATAATAAA
* *
7652615 AA-ACTCAA
1 AATAATAAA
*
7652623 AA-AATGGAA
1 AATAAT-AAA
7652632 AATAATAAAA
1 AATAAT-AAA
*
7652642 AAAAATAAA
1 AATAATAAA
*
7652651 AAAAATA
1 AATAATA
7652658 GCAAAAGAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
8 9 0.12
9 42 0.56
10 18 0.24
11 6 0.08
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (9 bp):
AATAATAAA
Found at i:7653112 original size:18 final size:18
Alignment explanation
Indices: 7653091--7653128 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
7653081 AAAACAAACC
7653091 AAAACC-AGAAATTCCTAA
1 AAAACCAAGAAATTCC-AA
*
7653109 AAAACCAAGCAATTCCAA
1 AAAACCAAGAAATTCCAA
7653127 AA
1 AA
7653129 GATTAGAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.58, C:0.24, G:0.05, T:0.13
Consensus pattern (18 bp):
AAAACCAAGAAATTCCAA
Found at i:7655233 original size:22 final size:21
Alignment explanation
Indices: 7655195--7655239 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
7655185 TTTTTCTCTC
*
7655195 TTTTAGTTTTTAGTTTAGTTA
1 TTTTAGTTTTTACTTTAGTTA
*
7655216 TTTTATTTCTTTACTTTAGTTA
1 TTTTAGTT-TTTACTTTAGTTA
7655238 TT
1 TT
7655240 GGCTTAGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.18, C:0.04, G:0.09, T:0.69
Consensus pattern (21 bp):
TTTTAGTTTTTACTTTAGTTA
Found at i:7658399 original size:12 final size:12
Alignment explanation
Indices: 7658384--7658431 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
7658374 CTAAGTTTGC
7658384 TTTAGGGTTTAG
1 TTTAGGGTTTAG
7658396 TTTAGGGTTTAGG
1 TTTAGGGTTTA-G
* *
7658409 ATTAGGGTTTGG
1 TTTAGGGTTTAG
*
7658421 GTTA-GGTTTAG
1 TTTAGGGTTTAG
7658432 GATTTGATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
11 6 0.19
12 15 0.48
13 10 0.32
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.46
Consensus pattern (12 bp):
TTTAGGGTTTAG
Found at i:7658467 original size:26 final size:26
Alignment explanation
Indices: 7658424--7658487 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 26
7658414 GGTTTGGGTT
* ** *
7658424 AGGTTTAGGATTTGATTTAGGGTTTA
1 AGGTTTAGGGTTAAATTTAAGGTTTA
*
7658450 AGGTTTAGGGTTAAATTTAATGTTTA
1 AGGTTTAGGGTTAAATTTAAGGTTTA
* *
7658476 GGGTTTAAGGTT
1 AGGTTTAGGGTT
7658488 TCAATTTGTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (26 bp):
AGGTTTAGGGTTAAATTTAAGGTTTA
Found at i:7658481 original size:7 final size:7
Alignment explanation
Indices: 7658384--7658461 Score: 64
Period size: 7 Copynumber: 12.3 Consensus size: 7
7658374 CTAAGTTTGC
7658384 TTTAGGG
1 TTTAGGG
7658391 TTTA--G
1 TTTAGGG
7658396 TTTAGGG
1 TTTAGGG
7658403 TTTA-GG
1 TTTAGGG
*
7658409 ATTAGGG
1 TTTAGGG
7658416 TTT-GGG
1 TTTAGGG
7658422 -TTA-GG
1 TTTAGGG
*
7658427 TTTAGGA
1 TTTAGGG
*
7658434 TTT--GA
1 TTTAGGG
7658439 TTTAGGG
1 TTTAGGG
*
7658446 TTTAAGG
1 TTTAGGG
7658453 TTTAGGG
1 TTTAGGG
7658460 TT
1 TT
7658462 AAATTTAATG
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
5 14 0.25
6 11 0.19
7 32 0.56
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:7658561 original size:18 final size:19
Alignment explanation
Indices: 7658524--7658564 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
7658514 TTTAATTTAG
*
7658524 GGTTTAAAGTTTAGAGTTT
1 GGTTTAAAGTTTACAGTTT
*
7658543 GGTTTAAGGTTT-CAGTTT
1 GGTTTAAAGTTTACAGTTT
7658561 GGTT
1 GGTT
7658565 ATTTAGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.20, C:0.02, G:0.29, T:0.49
Consensus pattern (19 bp):
GGTTTAAAGTTTACAGTTT
Found at i:7658645 original size:26 final size:26
Alignment explanation
Indices: 7658572--7658646 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
7658562 GTTATTTAGT
* * *
7658572 TTTAGGGTTTGGGGTTTGCATAGTGG
1 TTTAGGGTTTAGAGTTTGCATGGTGG
* *
7658598 TTTATGATTTA-AGGTTTGCATGGTGG
1 TTTAGGGTTTAGA-GTTTGCATGGTGG
7658624 TTTAGGGTTTAGAGTTTGCATGG
1 TTTAGGGTTTAGAGTTTGCATGG
7658647 GGAAAAACAT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
26 39 0.98
27 1 0.03
ACGTcount: A:0.16, C:0.04, G:0.36, T:0.44
Consensus pattern (26 bp):
TTTAGGGTTTAGAGTTTGCATGGTGG
Found at i:7661695 original size:18 final size:18
Alignment explanation
Indices: 7661629--7661696 Score: 61
Period size: 19 Copynumber: 3.8 Consensus size: 18
7661619 GACTTTTTAG
*
7661629 AAAAAATTTGAAAAT--T
1 AAAAAATTTAAAAATCCT
*
7661645 AAAAAAAATTAAAAA-CTCT
1 -AAAAAATTTAAAAATC-CT
*
7661664 AAACAATTTCAAAAATCCT
1 AAAAAATTT-AAAAATCCT
7661683 AAAAAATTTAAAAA
1 AAAAAATTTAAAAA
7661697 AATTACTACT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
17 12 0.29
18 12 0.29
19 16 0.39
20 1 0.02
ACGTcount: A:0.65, C:0.09, G:0.01, T:0.25
Consensus pattern (18 bp):
AAAAAATTTAAAAATCCT
Found at i:7661697 original size:19 final size:18
Alignment explanation
Indices: 7661629--7661697 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
7661619 GACTTTTTAG
*
7661629 AAAAAATTT-GAAAAT-T
1 AAAAAATTTAAAAAATCT
* *
7661645 AAAAAAAATTAAAAACTCT
1 -AAAAAATTTAAAAAATCT
* *
7661664 AAACAATTTCAAAAATCCT
1 AAAAAATTTAAAAAAT-CT
7661683 AAAAAATTTAAAAAA
1 AAAAAATTTAAAAAA
7661698 ATTACTACTT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
17 8 0.20
18 16 0.40
19 16 0.40
ACGTcount: A:0.65, C:0.09, G:0.01, T:0.25
Consensus pattern (18 bp):
AAAAAATTTAAAAAATCT
Found at i:7662449 original size:34 final size:34
Alignment explanation
Indices: 7662411--7662477 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
7662401 AAATAATTAT
* * *
7662411 ATTCAATATTTTTAAAAC-TTAAAATTTCTAAAAA
1 ATTCAAAAATTTTAAAACTTTAAAACTT-TAAAAA
7662445 ATTCAAAAATTTTAAAACTTTAAAACTTTAAAA
1 ATTCAAAAATTTTAAAACTTTAAAACTTTAAAA
7662478 TAAAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 21 0.72
35 8 0.28
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (34 bp):
ATTCAAAAATTTTAAAACTTTAAAACTTTAAAAA
Found at i:7663815 original size:8 final size:7
Alignment explanation
Indices: 7663806--7663862 Score: 53
Period size: 7 Copynumber: 8.0 Consensus size: 7
7663796 AAACATAATA
7663806 ATAAAAT
1 ATAAAAT
7663813 AATAAAAT
1 -ATAAAAT
*
7663821 TTAAAAT
1 ATAAAAT
*
7663828 TTAAAAT
1 ATAAAAT
7663835 ATAAAAT
1 ATAAAAT
7663842 A-AAAAT
1 ATAAAAT
*
7663848 AATATAAT
1 -ATAAAAT
*
7663856 TTAAAAT
1 ATAAAAT
7663863 TTTGATAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
6 5 0.12
7 26 0.62
8 11 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (7 bp):
ATAAAAT
Found at i:7663849 original size:40 final size:41
Alignment explanation
Indices: 7663785--7663864 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 41
7663775 TAGATTTGAT
* *
7663785 AATTTTAAATTAAACATAATAATAAAATAA-TAAAATTTAA
1 AATTTAAAATTAAACATAAAAATAAAATAATTAAAATTTAA
*
7663825 AATTTAAAATATAAA-ATAAAAATAATATAATTTAAAATTT
1 AATTTAAAAT-TAAACATAAAAATAAAATAA-TTAAAATTT
7663865 TGATAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 22 0.65
41 4 0.12
42 8 0.24
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (41 bp):
AATTTAAAATTAAACATAAAAATAAAATAATTAAAATTTAA
Found at i:7663857 original size:35 final size:34
Alignment explanation
Indices: 7663783--7663864 Score: 105
Period size: 35 Copynumber: 2.4 Consensus size: 34
7663773 ATTAGATTTG
* *
7663783 ATAATTTTAAA-TTAAACATAATAATAAAATAAT
1 ATAATTTAAAATTTAAACATAAAAATAAAATAAT
*
7663816 AAAATTTAAAATTTAAA-ATATAAAATAAAAATAAT
1 ATAATTTAAAATTTAAACATA-AAAAT-AAAATAAT
7663851 ATAATTTAAAATTT
1 ATAATTTAAAATTT
7663865 TGATAAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
33 12 0.29
34 9 0.21
35 21 0.50
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (34 bp):
ATAATTTAAAATTTAAACATAAAAATAAAATAAT
Found at i:7666671 original size:26 final size:26
Alignment explanation
Indices: 7666643--7666691 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
7666633 TAAAAAATAA
*
7666643 AAAATATAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
7666668 AAAATATAAGTTTGAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
7666692 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:7668680 original size:15 final size:15
Alignment explanation
Indices: 7668662--7668691 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7668652 TATTATTATA
7668662 ATATAATTTATAATT
1 ATATAATTTATAATT
7668677 ATATAATTTATAATT
1 ATATAATTTATAATT
7668692 GAAATTAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATAATTTATAATT
Found at i:7669245 original size:12 final size:12
Alignment explanation
Indices: 7669228--7669266 Score: 78
Period size: 12 Copynumber: 3.2 Consensus size: 12
7669218 TTGATACTTT
7669228 CTTGATTATAAA
1 CTTGATTATAAA
7669240 CTTGATTATAAA
1 CTTGATTATAAA
7669252 CTTGATTATAAA
1 CTTGATTATAAA
7669264 CTT
1 CTT
7669267 CCGGAGGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (12 bp):
CTTGATTATAAA
Found at i:7670635 original size:14 final size:14
Alignment explanation
Indices: 7670616--7670643 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7670606 ATACTATGTA
7670616 CATTACATATATTT
1 CATTACATATATTT
7670630 CATTACATATATTT
1 CATTACATATATTT
7670644 AATTGATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (14 bp):
CATTACATATATTT
Found at i:7671926 original size:13 final size:12
Alignment explanation
Indices: 7671908--7671940 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
7671898 GAATTTATGG
7671908 GAACAAATAAATA
1 GAACAAATAAA-A
7671921 GAACAAATAAAA
1 GAACAAATAAAA
7671933 -AACAAATA
1 GAACAAATA
7671941 GCGGTAGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.40
12 1 0.05
13 11 0.55
ACGTcount: A:0.73, C:0.09, G:0.06, T:0.12
Consensus pattern (12 bp):
GAACAAATAAAA
Found at i:7672480 original size:17 final size:17
Alignment explanation
Indices: 7672458--7672494 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
7672448 ACTCTATTCT
7672458 ATATAGAAATAAATTAG
1 ATATAGAAATAAATTAG
7672475 ATATAGAAATAAATTAG
1 ATATAGAAATAAATTAG
7672492 ATA
1 ATA
7672495 AATTCAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (17 bp):
ATATAGAAATAAATTAG
Found at i:7672656 original size:22 final size:22
Alignment explanation
Indices: 7672628--7672672 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
7672618 GGGAGTTAAA
7672628 CTTCATTTCTTCCACTTTCATT
1 CTTCATTTCTTCCACTTTCATT
7672650 CTTCATTTCTTCCACTTTCATT
1 CTTCATTTCTTCCACTTTCATT
7672672 C
1 C
7672673 ATTGATTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.33, G:0.00, T:0.53
Consensus pattern (22 bp):
CTTCATTTCTTCCACTTTCATT
Found at i:7673408 original size:15 final size:16
Alignment explanation
Indices: 7673388--7673430 Score: 70
Period size: 15 Copynumber: 2.8 Consensus size: 16
7673378 ATAATTTAAC
7673388 TCTAATAAGTTATTA-
1 TCTAATAAGTTATTAT
7673403 TCTAATAAGTTATTAT
1 TCTAATAAGTTATTAT
*
7673419 TCTAATGAGTTA
1 TCTAATAAGTTA
7673431 GAGTAGAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 15 0.58
16 11 0.42
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (16 bp):
TCTAATAAGTTATTAT
Found at i:7673907 original size:27 final size:27
Alignment explanation
Indices: 7673877--7673930 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
7673867 TGTTTAACCA
*
7673877 ACTTTCCCT-TCTCTTTTTTCTCTCTCT
1 ACTTTCCCTAGCT-TTTTTTCTCTCTCT
* *
7673904 ACTTTTCCTAGCTTTTTTTCTTTCTCT
1 ACTTTCCCTAGCTTTTTTTCTCTCTCT
7673931 GCTTGGTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.06, C:0.31, G:0.02, T:0.61
Consensus pattern (27 bp):
ACTTTCCCTAGCTTTTTTTCTCTCTCT
Found at i:7678949 original size:6 final size:6
Alignment explanation
Indices: 7678938--7678966 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
7678928 CTATTCTGAT
7678938 ATTATA ATTATA ATTATA ATTATA ATTAT
1 ATTATA ATTATA ATTATA ATTATA ATTAT
7678967 TACATTTTAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTATA
Found at i:7685828 original size:24 final size:26
Alignment explanation
Indices: 7685780--7685832 Score: 83
Period size: 24 Copynumber: 2.1 Consensus size: 26
7685770 AACTGATTAA
*
7685780 ATATAATTTTTGTAATTTTTATGGTC
1 ATATAATTTTTATAATTTTTATGGTC
7685806 ATATAA-TTTTATAA-TTTTATGGTC
1 ATATAATTTTTATAATTTTTATGGTC
7685830 ATA
1 ATA
7685833 CTATACATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 13 0.50
25 7 0.27
26 6 0.23
ACGTcount: A:0.32, C:0.04, G:0.09, T:0.55
Consensus pattern (26 bp):
ATATAATTTTTATAATTTTTATGGTC
Found at i:7686327 original size:213 final size:212
Alignment explanation
Indices: 7685935--7686359 Score: 654
Period size: 213 Copynumber: 2.0 Consensus size: 212
7685925 CTCAAAGTAA
* *
7685935 TTTGGGTACCAAAAATTAAACAGAATGTTTCTTGCGGGTGTACTAGAGCAAGGAGTTACATTGTG
1 TTTGGGTACCAAAAATCAAACAGAATGTTTCTTGCAGGTGTACTAGAGCAAGGAGTTACATTGTG
* *
7686000 ATTTTGAAGATTGAATACTCTAAACATACAATGGAGATGGGTAACCTCTAAACATTTATGAATTT
66 ATTTTGAAAATTGAATACTCTAAACACACAATGGAGATGGGTAACCTCTAAACATTTATGAATTT
* * *
7686065 GAATTTGGTTACCTATTGTTGATGAATTTTGAGTGCTCAATTGTTGTATGCTTTATTGATATATC
131 GAATTTGGTTACCTATTATTGATGAATTTTGAATGCTAAATTGTTGTATGCTTTATTGATATATC
*
7686130 TTGATTGATTTTAAATT
196 TTGATTGATTCTAAATT
* * * * *
7686147 TTTGGGTACCAAAAATCAAATGAGAATGTTTCTTGTAGGTGTGCTAGAGTAAGGATTTACATTGT
1 TTTGGGTACCAAAAATCAAA-CAGAATGTTTCTTGCAGGTGTACTAGAGCAAGGAGTTACATTGT
* * * *
7686212 GATTTTGAAAATTGAATACTTTATACACATAATGGAGATGGGTAACCTCTAAACTTTTATGAATT
65 GATTTTGAAAATTGAATACTCTAAACACACAATGGAGATGGGTAACCTCTAAACATTTATGAATT
* *
7686277 TGAATTCT-GTTACCTATTATTGATGAATTTTGAATGTTAAATTTTTGTATGCTTTATTGATATA
130 TGAATT-TGGTTACCTATTATTGATGAATTTTGAATGCTAAATTGTTGTATGCTTTATTGATATA
7686341 TCTTGATTGATTCTAAATT
194 TCTTGATTGATTCTAAATT
7686360 GTTTTGAAGG
Statistics
Matches: 192, Mismatches: 19, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
212 19 0.10
213 172 0.90
214 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.41
Consensus pattern (212 bp):
TTTGGGTACCAAAAATCAAACAGAATGTTTCTTGCAGGTGTACTAGAGCAAGGAGTTACATTGTG
ATTTTGAAAATTGAATACTCTAAACACACAATGGAGATGGGTAACCTCTAAACATTTATGAATTT
GAATTTGGTTACCTATTATTGATGAATTTTGAATGCTAAATTGTTGTATGCTTTATTGATATATC
TTGATTGATTCTAAATT
Found at i:7690300 original size:16 final size:16
Alignment explanation
Indices: 7690281--7690315 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
7690271 CTTGATAACA
7690281 TATCTTTAACAATTGG
1 TATCTTTAACAATTGG
*
7690297 TATCTTTAACATTTGG
1 TATCTTTAACAATTGG
7690313 TAT
1 TAT
7690316 GAACTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (16 bp):
TATCTTTAACAATTGG
Found at i:7691449 original size:19 final size:19
Alignment explanation
Indices: 7691427--7691463 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7691417 TTTATAAAAG
7691427 TATTATCTAAGGCATTTTC
1 TATTATCTAAGGCATTTTC
*
7691446 TATTATTTAAGGCATTTT
1 TATTATCTAAGGCATTTT
7691464 TTATATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.51
Consensus pattern (19 bp):
TATTATCTAAGGCATTTTC
Found at i:7692978 original size:21 final size:21
Alignment explanation
Indices: 7692952--7693002 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
7692942 GTTTAACCTT
7692952 ATTGATCCCCTAAATGACAGG
1 ATTGATCCCCTAAATGACAGG
** *
7692973 ATTGATCCCCTACTTGATAGG
1 ATTGATCCCCTAAATGACAGG
7692994 ATTGATCCC
1 ATTGATCCC
7693003 ATCTTGTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (21 bp):
ATTGATCCCCTAAATGACAGG
Found at i:7693013 original size:21 final size:21
Alignment explanation
Indices: 7692952--7693016 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
7692942 GTTTAACCTT
* ** *
7692952 ATTGATCCCCTAAATGACAGG
1 ATTGATCCCATACTTGATAGG
*
7692973 ATTGATCCCCTACTTGATAGG
1 ATTGATCCCATACTTGATAGG
7692994 ATTGATCCCAT-CTTGTATAGG
1 ATTGATCCCATACTTG-ATAGG
7693015 AT
1 AT
7693017 CAATTGTGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.10
21 35 0.90
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (21 bp):
ATTGATCCCATACTTGATAGG
Found at i:7698109 original size:16 final size:16
Alignment explanation
Indices: 7698085--7698119 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
7698075 CTTGATGACA
*
7698085 TATCTTTAACAATTGG
1 TATCCTTAACAATTGG
7698101 TATCCTTAACAATTGG
1 TATCCTTAACAATTGG
7698117 TAT
1 TAT
7698120 GAGCTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (16 bp):
TATCCTTAACAATTGG
Found at i:7698788 original size:38 final size:38
Alignment explanation
Indices: 7698737--7698813 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 38
7698727 TTAAGTTGTG
7698737 TTGGATTAGGATGCATC-AATTGAGGAAGAGTTTTGCCA
1 TTGGATTAGGATGCA-CAAATTGAGGAAGAGTTTTGCCA
**
7698775 TTGGATTAGGATGCACAAATTGAGGGGGAGTTTTGCCA
1 TTGGATTAGGATGCACAAATTGAGGAAGAGTTTTGCCA
7698813 T
1 T
7698814 GCATTGTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 1 0.03
38 35 0.97
ACGTcount: A:0.27, C:0.10, G:0.31, T:0.31
Consensus pattern (38 bp):
TTGGATTAGGATGCACAAATTGAGGAAGAGTTTTGCCA
Found at i:7699800 original size:30 final size:30
Alignment explanation
Indices: 7699756--7699832 Score: 129
Period size: 30 Copynumber: 2.6 Consensus size: 30
7699746 TTCTGGGCAG
7699756 AAACACTT-CAACGGCTATTTTATTCTCCC
1 AAACACTTCCAACGGCTATTTTATTCTCCC
*
7699785 AAACACTTCCAACGGCTATTTTCTTCTCCC
1 AAACACTTCCAACGGCTATTTTATTCTCCC
*
7699815 AAACACTTCCAATGGCTA
1 AAACACTTCCAACGGCTA
7699833 CCTCTTTAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 8 0.18
30 37 0.82
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.31
Consensus pattern (30 bp):
AAACACTTCCAACGGCTATTTTATTCTCCC
Found at i:7701193 original size:35 final size:34
Alignment explanation
Indices: 7701101--7701193 Score: 93
Period size: 36 Copynumber: 2.6 Consensus size: 34
7701091 ACTATTTTAC
7701101 CTAAAAAGC-TAACAATATTAAAAATATAAAAATTTT
1 CTAAAAA-CATAA-AAT-TTAAAAATATAAAAATTTT
*
7701137 CTAAAAACATAAAA-TTAAAAAAATAGAAAATTTT
1 CTAAAAACATAAAATTTAAAAATATA-AAAATTTT
*
7701171 CTAAAATTCCA-AAAATTTAAAAA
1 CTAAAA--ACATAAAATTTAAAAA
7701194 GAAAATATTC
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
33 10 0.20
34 14 0.28
35 7 0.14
36 19 0.38
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.28
Consensus pattern (34 bp):
CTAAAAACATAAAATTTAAAAATATAAAAATTTT
Found at i:7701365 original size:44 final size:40
Alignment explanation
Indices: 7701293--7701407 Score: 124
Period size: 44 Copynumber: 2.7 Consensus size: 40
7701283 GTACATTTAA
* *
7701293 TATTTTAAAAAACTAGAAAATTTTTAAAAATTC-AAAATAT
1 TATTTTAAAAAATTA-AATATTTTTAAAAATTCAAAAATAT
* *
7701333 TAAATTTTTAAAAGTTAAAATATGATTTTAAAAAATTCAAAAATAT
1 T--ATTTTAAAAAATT-AAATAT--TTTT-AAAAATTCAAAAATAT
7701379 TATTTTAAAAAATTAAATATTTTTAAAAA
1 TATTTTAAAAAATTAAATATTTTTAAAAA
7701408 ATAAATTAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
40 6 0.10
41 4 0.06
42 14 0.23
43 7 0.11
44 15 0.24
45 8 0.13
46 8 0.13
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (40 bp):
TATTTTAAAAAATTAAATATTTTTAAAAATTCAAAAATAT
Found at i:7701383 original size:23 final size:22
Alignment explanation
Indices: 7701312--7701409 Score: 98
Period size: 23 Copynumber: 4.5 Consensus size: 22
7701302 AAACTAGAAA
*
7701312 ATTTTTAAAAATTCAAAATATT
1 ATTTTAAAAAATTCAAAATATT
* * *
7701334 AAATTTTTAAAAGTT-AAAATATG
1 --ATTTTAAAAAATTCAAAATATT
7701357 ATTTTAAAAAATTCAAAAATATT
1 ATTTTAAAAAATTC-AAAATATT
7701380 ATTTTAAAAAATT--AAATA-T
1 ATTTTAAAAAATTCAAAATATT
7701399 -TTTTAAAAAAT
1 ATTTTAAAAAAT
7701410 AAATTAATAT
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
18 11 0.16
19 1 0.01
20 5 0.07
21 11 0.16
23 27 0.40
24 12 0.18
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
ATTTTAAAAAATTCAAAATATT
Found at i:7701729 original size:20 final size:21
Alignment explanation
Indices: 7701656--7701742 Score: 67
Period size: 20 Copynumber: 4.3 Consensus size: 21
7701646 TTTCAAATTG
7701656 CTACATCAGT-AAATCAAT-A
1 CTACATCAGTCAAATCAATAA
* * * *
7701675 TTTCATTAG-CAAAGTCAATAG
1 CTACATCAGTCAAA-TCAATAA
* *
7701696 C-ACATCAGTAAAATCAATAC
1 CTACATCAGTCAAATCAATAA
*
7701716 CTACATCA-TCAAATAAATAA
1 CTACATCAGTCAAATCAATAA
7701736 CTACATC
1 CTACATC
7701743 TATATTTTTA
Statistics
Matches: 51, Mismatches: 12, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
19 9 0.18
20 33 0.65
21 9 0.18
ACGTcount: A:0.46, C:0.22, G:0.06, T:0.26
Consensus pattern (21 bp):
CTACATCAGTCAAATCAATAA
Found at i:7705611 original size:23 final size:24
Alignment explanation
Indices: 7705585--7705633 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
7705575 GGATTTGTAC
*
7705585 TTTTTTTATT-TTATTTATAATTA
1 TTTTTTTATTATAATTTATAATTA
7705608 -TTTTTTATTATAATTTATAATTA
1 TTTTTTTATTATAATTTATAATTA
7705631 TTT
1 TTT
7705634 AATTATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 9 0.39
23 12 0.52
24 2 0.09
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTTTTTATTATAATTTATAATTA
Found at i:7706854 original size:8 final size:8
Alignment explanation
Indices: 7706838--7706874 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
7706828 TTTTAAAAAA
7706838 ATATAAAT
1 ATATAAAT
*
7706846 ATTTAAAT
1 ATATAAAT
*
7706854 ATATAATT
1 ATATAAAT
7706862 ATATAAAT
1 ATATAAAT
7706870 ATATA
1 ATATA
7706875 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
ATATAAAT
Found at i:7707075 original size:3 final size:3
Alignment explanation
Indices: 7707067--7707107 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
7707057 AGATTAAAAC
7707067 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
7707108 TTCCCATCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Done.