Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 43 of 121
Found at i:7549182 original size:22 final size:22
Alignment explanation
Indices: 7549157--7549220 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
7549147 CATTTCATTT
7549157 TTTTCTTTCTTTCACTTTTTCC
1 TTTTCTTTCTTTCACTTTTTCC
* *
7549179 TTTT-TTTCTCTTCACCTTTTCT
1 TTTTCTTTCT-TTCACTTTTTCC
* * *
7549201 TTTTCATTCCTTCAATTTTT
1 TTTTCTTTCTTTCACTTTTT
7549221 TTTCTTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 5 0.15
22 26 0.76
23 3 0.09
ACGTcount: A:0.08, C:0.25, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTCTTTCTTTCACTTTTTCC
Found at i:7552357 original size:3 final size:3
Alignment explanation
Indices: 7552351--7552401 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
7552341 AATGATGATG
*
7552351 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7552399 ATA
1 ATA
7552402 TTATTATTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7554265 original size:12 final size:11
Alignment explanation
Indices: 7554233--7554271 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 11
7554223 GGGGTTTCAA
7554233 TTTTACTTTAGG
1 TTTTAC-TTAGG
7554245 TTTTACTTAGGG
1 TTTTACTTA-GG
7554257 TTTTACTTATGG
1 TTTTACTTA-GG
7554269 TTT
1 TTT
7554272 CACAAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 3 0.12
12 22 0.88
ACGTcount: A:0.15, C:0.08, G:0.18, T:0.59
Consensus pattern (11 bp):
TTTTACTTAGG
Found at i:7559048 original size:12 final size:13
Alignment explanation
Indices: 7559028--7559076 Score: 59
Period size: 12 Copynumber: 4.0 Consensus size: 13
7559018 AATTAGCTCG
7559028 AAGAGGATGAAGA
1 AAGAGGATGAAGA
7559041 AA-AGGATG-AGA
1 AAGAGGATGAAGA
* *
7559052 AAGAAGA-AAAGA
1 AAGAGGATGAAGA
7559064 AAGAGGATGAAGA
1 AAGAGGATGAAGA
7559077 TCAAGCCCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
11 5 0.17
12 18 0.62
13 6 0.21
ACGTcount: A:0.59, C:0.00, G:0.35, T:0.06
Consensus pattern (13 bp):
AAGAGGATGAAGA
Found at i:7559075 original size:18 final size:18
Alignment explanation
Indices: 7559028--7559076 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
7559018 AATTAGCTCG
*
7559028 AAGAGGATGAAGAAAAGG
1 AAGAGGATGAAGAAAAGA
* * *
7559046 ATGAGAAAGAAGAAAAGA
1 AAGAGGATGAAGAAAAGA
7559064 AAGAGGATGAAGA
1 AAGAGGATGAAGA
7559077 TCAAGCCCTA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.35, T:0.06
Consensus pattern (18 bp):
AAGAGGATGAAGAAAAGA
Found at i:7565997 original size:21 final size:19
Alignment explanation
Indices: 7565971--7566016 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
7565961 AACCTCACCT
7565971 TTTTTTTATTATTTTTTTACC
1 TTTTTTTA-TATTTTTTT-CC
*
7565992 TTTTTTTATGTTTTTTT-C
1 TTTTTTTATATTTTTTTCC
7566010 TTTTTTT
1 TTTTTTT
7566017 TTTTTGCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 8 0.33
20 8 0.33
21 8 0.33
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTTTTATATTTTTTTCC
Found at i:7566017 original size:10 final size:10
Alignment explanation
Indices: 7565970--7566018 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
7565960 CAACCTCACC
7565970 TTTTTTTTAT
1 TTTTTTTTAT
*
7565980 TATTTTTTTAC
1 T-TTTTTTTAT
*
7565991 CTTTTTTTAT
1 TTTTTTTTAT
* *
7566001 GTTTTTTTCT
1 TTTTTTTTAT
7566011 TTTTTTTT
1 TTTTTTTT
7566019 TTTGCTTATA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
10 24 0.75
11 8 0.25
ACGTcount: A:0.08, C:0.06, G:0.02, T:0.84
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:7574455 original size:17 final size:17
Alignment explanation
Indices: 7574395--7574455 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
7574385 TAAGATGAAT
*
7574395 TGTAATAAAAAATAATA
1 TGTAATAAAAAATTATA
* *
7574412 AGTATTAAAAATATTAT-
1 TGTAATAAAAA-ATTATA
**
7574429 TAAAAT-AAAAATTATA
1 TGTAATAAAAAATTATA
7574445 TGTAATAAAAA
1 TGTAATAAAAA
7574456 TTTTAAATGA
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
15 5 0.16
16 8 0.25
17 15 0.47
18 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (17 bp):
TGTAATAAAAAATTATA
Found at i:7574497 original size:11 final size:11
Alignment explanation
Indices: 7574481--7574505 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7574471 TGTTTATAAA
7574481 ATTATTAAATT
1 ATTATTAAATT
7574492 ATTATTAAATT
1 ATTATTAAATT
7574503 ATT
1 ATT
7574506 TTCAATAATA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTATTAAATT
Found at i:7575463 original size:25 final size:25
Alignment explanation
Indices: 7575435--7575483 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
7575425 TATGTAAGAG
*
7575435 ATTTTTATATTTTATAAAAATTTAA
1 ATTTTGATATTTTATAAAAATTTAA
* * *
7575460 ATTTTGATTTTTTATTATAATTTA
1 ATTTTGATATTTTATAAAAATTTA
7575484 TATAAATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
ATTTTGATATTTTATAAAAATTTAA
Found at i:7576081 original size:21 final size:21
Alignment explanation
Indices: 7576055--7576096 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7576045 AAAATCTATC
*
7576055 ACAAATTTGTCAATATATAAT
1 ACAAATGTGTCAATATATAAT
* *
7576076 ACAAATGTGTCATTATCTAAT
1 ACAAATGTGTCAATATATAAT
7576097 TTTAATTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (21 bp):
ACAAATGTGTCAATATATAAT
Found at i:7576121 original size:17 final size:17
Alignment explanation
Indices: 7576095--7576129 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7576085 TCATTATCTA
7576095 ATTTTAATTAAATTATT
1 ATTTTAATTAAATTATT
* *
7576112 ATTTTTATTAATTTATT
1 ATTTTAATTAAATTATT
7576129 A
1 A
7576130 AATGAATTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTTTAATTAAATTATT
Found at i:7577343 original size:12 final size:13
Alignment explanation
Indices: 7577315--7577344 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
7577305 AAATTACAAC
7577315 AATATTTTGTCAT
1 AATATTTTGTCAT
7577328 AATATTTTGT-AT
1 AATATTTTGTCAT
7577340 AATAT
1 AATAT
7577345 AAAAAAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (13 bp):
AATATTTTGTCAT
Found at i:7577608 original size:21 final size:21
Alignment explanation
Indices: 7577582--7577624 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7577572 AAAAGCCTAT
*
7577582 TACAAATTTGTCAATATATAA
1 TACAAATGTGTCAATATATAA
* *
7577603 TACAAATGTGTCACTATTTAA
1 TACAAATGTGTCAATATATAA
7577624 T
1 T
7577625 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.40
Consensus pattern (21 bp):
TACAAATGTGTCAATATATAA
Found at i:7578220 original size:16 final size:14
Alignment explanation
Indices: 7578185--7578267 Score: 64
Period size: 14 Copynumber: 5.9 Consensus size: 14
7578175 AATTTTGATA
7578185 TATTAAT-TTAAAT
1 TATTAATATTAAAT
7578198 TATTAATATTATAAT
1 TATTAATATTA-AAT
7578213 TGATTAATA-TAAAT
1 T-ATTAATATTAAAT
* **
7578227 GA-TAATAACAATAT
1 TATTAATATTAA-AT
* *
7578241 TATTAATATGATAT
1 TATTAATATTAAAT
7578255 TATTAATAATTAA
1 TATTAAT-ATTAA
7578268 TTACATATAA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
12 5 0.09
13 10 0.18
14 18 0.33
15 15 0.27
16 7 0.13
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (14 bp):
TATTAATATTAAAT
Found at i:7579081 original size:13 final size:13
Alignment explanation
Indices: 7579059--7579090 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7579049 TAGATATTTC
7579059 ATTTTCACTAATT
1 ATTTTCACTAATT
*
7579072 ATTTTTACTAATT
1 ATTTTCACTAATT
7579085 ATTTTC
1 ATTTTC
7579091 GATTATGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTCACTAATT
Found at i:7584689 original size:36 final size:36
Alignment explanation
Indices: 7584648--7584732 Score: 134
Period size: 36 Copynumber: 2.4 Consensus size: 36
7584638 ATGTACTTGA
* *
7584648 TTATGAAGGCATAATGGAAGTGTTTTTACAAAAGAG
1 TTATGAAAGCATAACGGAAGTGTTTTTACAAAAGAG
*
7584684 TTATGAAAGTATAACGGAAGTGTTTTTACAAAAGAG
1 TTATGAAAGCATAACGGAAGTGTTTTTACAAAAGAG
*
7584720 TTACGAAAGCATA
1 TTATGAAAGCATA
7584733 TCCGACTTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.29
Consensus pattern (36 bp):
TTATGAAAGCATAACGGAAGTGTTTTTACAAAAGAG
Found at i:7594361 original size:86 final size:86
Alignment explanation
Indices: 7594216--7594391 Score: 343
Period size: 86 Copynumber: 2.0 Consensus size: 86
7594206 AAAAATAGTA
7594216 TAATTCATGATGGGAAGGAACTACTTGGTCGTGTACCGAGCTTGGGATTAGGCCCTACATAAGGA
1 TAATTCATGATGGGAAGGAACTACTTGGTCGTGTACCGAGCTTGGGATTAGGCCCTACATAAGGA
7594281 CCTTAATTTCCAGGACTTGGT
66 CCTTAATTTCCAGGACTTGGT
*
7594302 TAATTCATGATGGGAAGGAACTACTTGGTCGTGTACCGAGCTTGGGATTAGGCCCTACATGAGGA
1 TAATTCATGATGGGAAGGAACTACTTGGTCGTGTACCGAGCTTGGGATTAGGCCCTACATAAGGA
7594367 CCTTAATTTCCAGGACTTGGT
66 CCTTAATTTCCAGGACTTGGT
7594388 TAAT
1 TAAT
7594392 GATGAATTAT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 89 1.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (86 bp):
TAATTCATGATGGGAAGGAACTACTTGGTCGTGTACCGAGCTTGGGATTAGGCCCTACATAAGGA
CCTTAATTTCCAGGACTTGGT
Found at i:7594596 original size:17 final size:17
Alignment explanation
Indices: 7594576--7594608 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7594566 TAAAAAATTT
7594576 TAAGAAA-ATAGAAATAA
1 TAAGAAAGA-AGAAATAA
7594593 TAAGAAAGAAGAAATA
1 TAAGAAAGAAGAAATA
7594609 TAACTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (17 bp):
TAAGAAAGAAGAAATAA
Found at i:7594945 original size:13 final size:13
Alignment explanation
Indices: 7594927--7594951 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7594917 CGAAATGAAA
7594927 AAATAAAAAATAT
1 AAATAAAAAATAT
7594940 AAATAAAAAATA
1 AAATAAAAAATA
7594952 AATCTATTTA
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAAAAATAT
Found at i:7599864 original size:13 final size:13
Alignment explanation
Indices: 7599846--7599881 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
7599836 TTTGTACACT
7599846 TTTGATCAAGTAG
1 TTTGATCAAGTAG
7599859 TTTGATCAAGTAG
1 TTTGATCAAGTAG
7599872 TTTGATCAAG
1 TTTGATCAAG
7599882 GTTAATTCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (13 bp):
TTTGATCAAGTAG
Found at i:7605132 original size:22 final size:23
Alignment explanation
Indices: 7605100--7605152 Score: 81
Period size: 22 Copynumber: 2.3 Consensus size: 23
7605090 TAATATTACG
*
7605100 TTATTTTTATATTTTTA-ATATT
1 TTATTTATATATTTTTAGATATT
7605122 TTATTTATATATTTTTAGATATT
1 TTATTTATATATTTTTAGATATT
*
7605145 TTAATTAT
1 TTATTTAT
7605153 TTAATATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 16 0.57
23 12 0.43
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (23 bp):
TTATTTATATATTTTTAGATATT
Found at i:7607210 original size:15 final size:15
Alignment explanation
Indices: 7607190--7607218 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7607180 TTTATATATG
7607190 ATAATTAAATCAATA
1 ATAATTAAATCAATA
7607205 ATAATTAAATCAAT
1 ATAATTAAATCAAT
7607219 GTACTTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAATTAAATCAATA
Found at i:7616512 original size:19 final size:18
Alignment explanation
Indices: 7616481--7616516 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
7616471 GAGTTTTAGT
7616481 GAAGGATGAAGAGATTAA
1 GAAGGATGAAGAGATTAA
*
7616499 GAAGAGATGGAGAGATTA
1 GAAG-GATGAAGAGATTA
7616517 TTTTGATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.36, T:0.17
Consensus pattern (18 bp):
GAAGGATGAAGAGATTAA
Found at i:7618134 original size:21 final size:21
Alignment explanation
Indices: 7618110--7618172 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
7618100 TGCGGATGCA
7618110 AGTAATAAAAAATGATATGAT
1 AGTAATAAAAAATGATATGAT
** * *
7618131 AGTACGAAAGACATG-GATGCA-
1 AGTAATAAA-AAATGATATG-AT
7618152 AGTAATAAAAAATGATATGAT
1 AGTAATAAAAAATGATATGAT
7618173 GGTTAAGGAA
Statistics
Matches: 30, Mismatches: 8, Indels: 8
0.65 0.17 0.17
Matches are distributed among these distances:
20 5 0.17
21 20 0.67
22 5 0.17
ACGTcount: A:0.52, C:0.05, G:0.19, T:0.24
Consensus pattern (21 bp):
AGTAATAAAAAATGATATGAT
Found at i:7620850 original size:2 final size:2
Alignment explanation
Indices: 7620843--7620874 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7620833 TTAATTTCTT
7620843 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
7620875 CATTTTACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:7627069 original size:16 final size:19
Alignment explanation
Indices: 7627043--7627081 Score: 57
Period size: 16 Copynumber: 2.2 Consensus size: 19
7627033 TCGTATCTTT
7627043 TATTCGTATCATT-T-TCA
1 TATTCGTATCATTGTATCA
7627060 TATT-GTATCATTGTATCA
1 TATTCGTATCATTGTATCA
7627078 TATT
1 TATT
7627082 TCAAATTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 8 0.40
17 5 0.25
18 7 0.35
ACGTcount: A:0.26, C:0.13, G:0.08, T:0.54
Consensus pattern (19 bp):
TATTCGTATCATTGTATCA
Found at i:7631758 original size:17 final size:18
Alignment explanation
Indices: 7631736--7631773 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
7631726 AATTTTTAAC
*
7631736 TATTTAAATTTTAAAT-T
1 TATTTAAAATTTAAATAT
7631753 TATTTAAAATTTAAATAT
1 TATTTAAAATTTAAATAT
7631771 TAT
1 TAT
7631774 ACATATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTTAAAATTTAAATAT
Found at i:7638037 original size:21 final size:22
Alignment explanation
Indices: 7638000--7638059 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 22
7637990 AGATTAAAAT
* *
7638000 AAAATAAAAT-TTTAAATCAAG
1 AAAATAAAATAATAAAATCAAG
* *
7638021 AAAA-AAAATCATAAAAT-AGG
1 AAAATAAAATAATAAAATCAAG
*
7638041 AAAATAAAATAATATAATC
1 AAAATAAAATAATAAAATC
7638060 TTACTTAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 11 0.35
21 20 0.65
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (22 bp):
AAAATAAAATAATAAAATCAAG
Found at i:7646491 original size:33 final size:32
Alignment explanation
Indices: 7646449--7646511 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
7646439 TTAATTTTGA
* * *
7646449 TAATCTTGAAACCTTGGATAATTGATTGGATGG
1 TAATCTTGAAACATT-AAAAATTGATTGGATGG
*
7646482 TAATTTTGAAACATTAAAAATTGATTGGAT
1 TAATCTTGAAACATTAAAAATTGATTGGAT
7646512 AGGATTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (32 bp):
TAATCTTGAAACATTAAAAATTGATTGGATGG
Found at i:7648420 original size:29 final size:26
Alignment explanation
Indices: 7648386--7648439 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
7648376 AGTTTTCTTT
*
7648386 ATTATTGTTAATCTCATCAAATTTCC
1 ATTATTATTAATCTCATCAAATTTCC
7648412 ATTATTATTAATCTCATCAAATTTCC
1 ATTATTATTAATCTCATCAAATTTCC
7648438 AT
1 AT
7648440 CAAAGATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.46
Consensus pattern (26 bp):
ATTATTATTAATCTCATCAAATTTCC
Found at i:7652442 original size:14 final size:13
Alignment explanation
Indices: 7652416--7652457 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
7652406 ACCTTTCAGG
7652416 TTTTTTTT--TTT
1 TTTTTTTTAATTT
*
7652427 TTTTTATTAATTT
1 TTTTTTTTAATTT
7652440 TTTTTTTTAATTT
1 TTTTTTTTAATTT
7652453 TTTTT
1 TTTTT
7652458 AATACAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 7 0.26
13 20 0.74
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTAATTT
Found at i:7652446 original size:23 final size:23
Alignment explanation
Indices: 7652416--7652460 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
7652406 ACCTTTCAGG
*
7652416 TTTTTTTTTTT--TTTTTATTAA
1 TTTTTTTTTTTAATTTTTTTTAA
7652437 TTTTTTTTTTTAATTTTTTTTAA
1 TTTTTTTTTTTAATTTTTTTTAA
7652460 T
1 T
7652461 ACAAAATGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.52
23 10 0.48
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTTTTTTTTAATTTTTTTTAA
Found at i:7656287 original size:16 final size:17
Alignment explanation
Indices: 7656268--7656299 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7656258 GAAAATGAGT
7656268 AAAAAATT-AAGAAAGA
1 AAAAAATTGAAGAAAGA
7656284 AAAAAATTGAAGAAAG
1 AAAAAATTGAAGAAAG
7656300 CTTGGAGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (17 bp):
AAAAAATTGAAGAAAGA
Found at i:7657285 original size:19 final size:19
Alignment explanation
Indices: 7657257--7657308 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 19
7657247 CTCAAACCTT
* * *
7657257 AAACCCTAAACCACTTTCT
1 AAACCTTAAACCACCTTCC
* *
7657276 AAACTTTAAAACACCTTCC
1 AAACCTTAAACCACCTTCC
7657295 AAACCTT-AACCACC
1 AAACCTTAAACCACC
7657309 GTAAAAAGCC
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 6 0.23
19 20 0.77
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (19 bp):
AAACCTTAAACCACCTTCC
Found at i:7659597 original size:28 final size:28
Alignment explanation
Indices: 7659580--7659633 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
7659570 GAAGTAAAAC
7659580 AAGAA-AAAAAAGTGAAAGAAAGAAGAA
1 AAGAACAAAAAAGTGAAAGAAAGAAGAA
*
7659607 AAGAACAAAAAAGAG-AAGAAA-AAGAA
1 AAGAACAAAAAAGTGAAAGAAAGAAGAA
7659633 A
1 A
7659634 GTAAAAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 6 0.24
27 11 0.44
28 8 0.32
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (28 bp):
AAGAACAAAAAAGTGAAAGAAAGAAGAA
Found at i:7659600 original size:15 final size:15
Alignment explanation
Indices: 7659580--7659648 Score: 56
Period size: 15 Copynumber: 4.7 Consensus size: 15
7659570 GAAGTAAAAC
*
7659580 AAGAAAAAAAAGTGA
1 AAGAAAAAAAAGTAA
*
7659595 AAG--AAAGAAG-AA
1 AAGAAAAAAAAGTAA
*
7659607 AAGAACAAAAAAG-AG
1 AAGAA-AAAAAAGTAA
7659622 AAGAAAAAGAAAGTAAA
1 AAGAAAAA-AAAGT-AA
7659639 AAGAAAAAAA
1 AAGAAAAAAA
7659649 TAAAATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
12 4 0.09
13 6 0.14
14 3 0.07
15 19 0.44
16 2 0.05
17 9 0.21
ACGTcount: A:0.77, C:0.01, G:0.19, T:0.03
Consensus pattern (15 bp):
AAGAAAAAAAAGTAA
Found at i:7659607 original size:11 final size:10
Alignment explanation
Indices: 7659560--7659648 Score: 60
Period size: 10 Copynumber: 8.8 Consensus size: 10
7659550 GAATGCATTT
7659560 AAAGAAAAAG
1 AAAGAAAAAG
* *
7659570 GAAGTAAAA-
1 AAAGAAAAAG
*
7659579 CAAGAAAAA-
1 AAAGAAAAAG
**
7659588 AAAGTGAAAG
1 AAAGAAAAAG
7659598 AAAGAAGAAAAG
1 AAAG-A-AAAAG
7659610 AACA-AAAAAG
1 AA-AGAAAAAG
7659620 AGAAGAAAAAG
1 A-AAGAAAAAG
7659631 AAAGTAAAAAG
1 AAAG-AAAAAG
7659642 AAA-AAAA
1 AAAGAAAA
7659649 TAAAATAATT
Statistics
Matches: 63, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
9 17 0.27
10 21 0.33
11 18 0.29
12 6 0.10
13 1 0.02
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.03
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:7659639 original size:10 final size:11
Alignment explanation
Indices: 7659594--7659648 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
7659584 AAAAAAAGTG
7659594 AAAGAAAGAAGA
1 AAAGAAAGAA-A
*
7659606 AAAG-AACAAA
1 AAAGAAAGAAA
7659616 AAAGAGAAG-AA
1 AAAGA-AAGAAA
*
7659627 AAAGAAAGTAA
1 AAAGAAAGAAA
7659638 AAAGAAA-AAA
1 AAAGAAAGAAA
7659648 A
1 A
7659649 TAAAATAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 11 0.30
11 20 0.54
12 6 0.16
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (11 bp):
AAAGAAAGAAA
Found at i:7659639 original size:22 final size:22
Alignment explanation
Indices: 7659580--7659642 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
7659570 GAAGTAAAAC
7659580 AAGAAAAA-AAAGTGAAAGAA-AG
1 AAGAAAAAGAAAGT-AAA-AAGAG
7659602 AAG-AAAAGAACA--AAAAAGAG
1 AAGAAAAAGAA-AGTAAAAAGAG
7659622 AAGAAAAAGAAAGTAAAAAGA
1 AAGAAAAAGAAAGTAAAAAGA
7659643 AAAAAATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
19 2 0.06
20 9 0.26
21 11 0.31
22 12 0.34
23 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.21, T:0.03
Consensus pattern (22 bp):
AAGAAAAAGAAAGTAAAAAGAG
Found at i:7662777 original size:14 final size:15
Alignment explanation
Indices: 7662748--7662780 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7662738 CCTCTTTTCT
*
7662748 AAAATGGAAATGAAA
1 AAAATGGAAATAAAA
7662763 AAAATGGAAA-AAAA
1 AAAATGGAAATAAAA
7662777 AAAA
1 AAAA
7662781 GTGGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (15 bp):
AAAATGGAAATAAAA
Found at i:7666313 original size:20 final size:20
Alignment explanation
Indices: 7666258--7666323 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
7666248 GTTTTTATAT
*
7666258 CAAAAACATAGTCTTTAACAA
1 CAAAAACATAGT-TTTAAAAA
*
7666279 CAAAAATCACA-TTTTAAAAA
1 CAAAAA-CATAGTTTTAAAAA
* *
7666299 TAAAAACATAGTTTTTAATAA
1 CAAAAACATAG-TTTTAAAAA
7666320 CAAA
1 CAAA
7666324 GATCATTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
19 3 0.08
20 12 0.33
21 18 0.50
22 3 0.08
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.27
Consensus pattern (20 bp):
CAAAAACATAGTTTTAAAAA
Found at i:7667081 original size:17 final size:17
Alignment explanation
Indices: 7667059--7667094 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7667049 GTCTTTATAT
*
7667059 CAAAGACTGCATTTGTA
1 CAAAGACTACATTTGTA
*
7667076 CAAAGACTACGTTTGTA
1 CAAAGACTACATTTGTA
7667093 CA
1 CA
7667095 TTTATAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (17 bp):
CAAAGACTACATTTGTA
Found at i:7668110 original size:127 final size:126
Alignment explanation
Indices: 7667807--7668604 Score: 761
Period size: 128 Copynumber: 6.2 Consensus size: 126
7667797 TTATATTCGT
* * * *
7667807 AACGATAAAAAA--AGTTATTGCGAAAACTTGTTTTATTTGTAACAATTTTTCAATGTCATTGCT
1 AACGATAAAAAATTA-TTGTTGCAAAAACTTATTTTATTTGTAACAATTTTTCAATGTCGTTGCT
* * * * *
7667870 TAATTTTTTAAAATAATTTATATAA-CATAAATAAAATTATTATGAAAATTTTTATCATATTTGC
65 TAATTTTTT-TAATATTTTATACAATGACAAA-AAAATTATTAT-AAAATTTTTATCATATTTGC
* * ** * *
7667934 AACGATAAAAAATTATTGCTACAAAAACTTATTTTATTTGTAATGATTTTTCAGTGTCATTGCTT
1 AACGATAAAAAATTATTGTTGCAAAAACTTATTTTATTTGTAACAATTTTTCAATGTCGTTGCTT
* * * *
7667999 AATTTTTTTAATATTTTATACAATGACAAAACAGTTGTCATAAAATTTTTTATCATATTTGC
66 AATTTTTTTAATATTTTATACAATGACAAAAAAATTATTATAAAA-TTTTTATCATATTTGC
* *
7668061 AACGATAAAAAATTATCGTTGC-GAAACTTATTTTATTTGTAACAAATTTTT-AATGTCGTTGCT
1 AACGATAAAAAATTATTGTTGCAAAAACTTATTTTATTTGTAAC-AATTTTTCAATGTCGTTGCT
* * * *
7668124 TAATTTTGTTAATATTTTATATAATGACAAAAAAGTTATTACAAAAATTTTTATCATATTT-C
65 TAATTTTTTTAATATTTTATACAATGACAAAAAAATTATTA-TAAAATTTTTATCATATTTGC
* ** * ** * *
7668186 TAACAATAAAAAATTATTACTGTAAAAACTTATTTTATTTGTAACAAACTTTCAATATTGTTGCT
1 -AACGATAAAAAATTATTGTTGCAAAAACTTATTTTATTTGTAACAATTTTTCAATGTCGTTGCT
** * * * *
7668251 TACTTTATTTTTTTAATA-TTTATACAAAAATAAAAAAATTATTACGAAAATTTTTATCACAGTT
65 TA----ATTTTTTTAATATTTTATACAATGACAAAAAAATTATTA-TAAAATTTTTATCATATTT
*
7668315 GT
125 GC
* * * ** *
7668317 AACGATAAAAACTTATTGTCGCAAAAAC-T-TTTTATTTGCAATGATTTTTCAATGTTGTTGCTT
1 AACGATAAAAAATTATTGTTGCAAAAACTTATTTTATTTGTAACAATTTTTCAATGTCGTTGCTT
* * *
7668380 AATCTATTTTCTTAATATTTTATACAATGACAAAAAAATTATTACAAAATTTTTATCGTATTTGT
66 AA--T-TTTT-TTAATATTTTATACAATGACAAAAAAATTATTATAAAATTTTTATCATATTTGC
* * * *
7668445 AA-TACTAAAAAATTATTATTGCAAAAACTTATTTTATTTGTAACAATTTTTCAATATTGTTGCT
1 AACGA-TAAAAAATTATTGTTGCAAAAACTTATTTTATTTGTAACAATTTTTCAATGTCGTTGCT
* * *
7668509 TAATTTATTTTTTTAAATATTTTATATAACGACAAAAAAAAATTGTTATGAAAATTTTTATCATA
65 T-A---ATTTTTTT-AATATTTTATACAATGAC--AAAAAAATTATTAT-AAAATTTTTATCATA
*
7668574 TTTGT
122 TTTGC
**
7668579 AATAATAAAAAATTATTGTTGCAAAA
1 AACGATAAAAAATTATTGTTGCAAAA
7668605 TGATATAACA
Statistics
Matches: 555, Mismatches: 85, Indels: 55
0.80 0.12 0.08
Matches are distributed among these distances:
124 1 0.00
125 1 0.00
126 106 0.19
127 113 0.20
128 128 0.23
129 26 0.05
130 92 0.17
131 32 0.06
132 1 0.00
133 12 0.02
134 42 0.08
135 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.44
Consensus pattern (126 bp):
AACGATAAAAAATTATTGTTGCAAAAACTTATTTTATTTGTAACAATTTTTCAATGTCGTTGCTT
AATTTTTTTAATATTTTATACAATGACAAAAAAATTATTATAAAATTTTTATCATATTTGC
Found at i:7668477 original size:258 final size:262
Alignment explanation
Indices: 7667902--7668604 Score: 735
Period size: 258 Copynumber: 2.7 Consensus size: 262
7667892 TAACATAAAT
** * * *
7667902 AAAATTATTATGAAAATTTTTATCATATTTGC-AACGATAAAAAATTATTGCTACAAAAACTTAT
1 AAAATTATTACAAAAATTTTTATCATATTT-CTAACAATAAAAAATTATTACTGCAAAAACTTAT
** ** * * ** *
7667966 TTTATTTGTAATGATTTTTCAGTGTCATTGCTT-A---ATTTTTTT-AATATTTTATACAATGAC
65 TTTATTTGTAACAAACTTTCAATATTGTTGCTTAATTTATTTTTTTAAATATTTTATACAA-CAC
* * * * * * * * * * * *
7668026 --AAAACAGTTGTCA-TAAAATTTTTTATCATATTTGCAACGATAAAAAATTATCGTTGC-GAAA
129 AAAAAAAAATTATTACGAAAA-TTTTTATCACAGTTGTAACAATAAAAAATTATTGTCGCAAAAA
* ** * * *
7668087 CTTATTTTATTTGTAACAAATTTTT-AATGTCGTTGCTT-A---ATTTTGTTAATATTTTATATA
193 C-T-TTTTATTTGCAA-TGATTTTTCAATGTTGTTGCTTAATCTATTTTCTTAATATTTTATACA
7668147 ATGACAAA
255 ATGACAAA
* *
7668155 AAAGTTATTACAAAAATTTTTATCATATTTCTAACAATAAAAAATTATTACTGTAAAAACTTATT
1 AAAATTATTACAAAAATTTTTATCATATTTCTAACAATAAAAAATTATTACTGCAAAAACTTATT
*
7668220 TTATTTGTAACAAACTTTCAATATTGTTGCTTACTTTATTTTTTT-AATA-TTTATACAA-A-AA
66 TTATTTGTAACAAACTTTCAATATTGTTGCTTAATTTATTTTTTTAAATATTTTATACAACACAA
* *
7668281 TAAAAAAATTATTACGAAAATTTTTATCACAGTTGTAACGATAAAAACTTATTGTCGCAAAAACT
131 -AAAAAAATTATTACGAAAATTTTTATCACAGTTGTAACAATAAAAAATTATTGTCGCAAAAACT
7668346 TTTTATTTGCAATGATTTTTCAATGTTGTTGCTTAATCTATTTTCTTAATATTTTATACAATGAC
195 TTTTATTTGCAATGATTTTTCAATGTTGTTGCTTAATCTATTTTCTTAATATTTTATACAATGAC
7668411 AAA
260 AAA
* * * * *
7668414 AAAATTATTAC-AAAATTTTTATCGTATTTGTAATACTAAAAAATTATTATTGCAAAAACTTATT
1 AAAATTATTACAAAAATTTTTATCATATTTCTAACAATAAAAAATTATTACTGCAAAAACTTATT
** *
7668478 TTATTTGTAACAATTTTTCAATATTGTTGCTTAATTTATTTTTTTAAATATTTTATATAACGACA
66 TTATTTGTAACAAACTTTCAATATTGTTGCTTAATTTATTTTTTTAAATATTTTATACAAC-ACA
* * * * * *
7668543 AAAAAAAATTGTTATGAAAATTTTTATCATATTTGTAATAATAAAAAATTATTGTTGCAAAA
130 AAAAAAAATTATTACGAAAATTTTTATCACAGTTGTAACAATAAAAAATTATTGTCGCAAAA
7668605 TGATATAACA
Statistics
Matches: 377, Mismatches: 53, Indels: 31
0.82 0.11 0.07
Matches are distributed among these distances:
252 1 0.00
253 80 0.21
254 7 0.02
255 23 0.06
256 52 0.14
257 20 0.05
258 89 0.24
259 41 0.11
260 8 0.02
262 54 0.14
263 2 0.01
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.44
Consensus pattern (262 bp):
AAAATTATTACAAAAATTTTTATCATATTTCTAACAATAAAAAATTATTACTGCAAAAACTTATT
TTATTTGTAACAAACTTTCAATATTGTTGCTTAATTTATTTTTTTAAATATTTTATACAACACAA
AAAAAAATTATTACGAAAATTTTTATCACAGTTGTAACAATAAAAAATTATTGTCGCAAAAACTT
TTTATTTGCAATGATTTTTCAATGTTGTTGCTTAATCTATTTTCTTAATATTTTATACAATGACA
AA
Found at i:7672413 original size:35 final size:36
Alignment explanation
Indices: 7672344--7672418 Score: 91
Period size: 35 Copynumber: 2.1 Consensus size: 36
7672334 CCAAAATTTA
*
7672344 TTGTTGCTAAAATGAAGTTTATACAACTTTATTTTG
1 TTGTTGCTAAAATGAAGTTTATACAACTTAATTTTG
** *
7672380 TTGTTGC-AAAATGATTTTTA-ACAACTATAATTTTT
1 TTGTTGCTAAAATGAAGTTTATACAACT-TAATTTTG
7672415 TTGT
1 TTGT
7672419 AATGTAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
34 6 0.18
35 21 0.62
36 7 0.21
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (36 bp):
TTGTTGCTAAAATGAAGTTTATACAACTTAATTTTG
Found at i:7674157 original size:15 final size:16
Alignment explanation
Indices: 7674126--7674158 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
7674116 TTGTTATTAC
*
7674126 TTATTATTGATGCTAT
1 TTATTATTGAGGCTAT
7674142 TTATTATT-AGGCTAT
1 TTATTATTGAGGCTAT
7674157 TT
1 TT
7674159 TTCATAGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.58
Consensus pattern (16 bp):
TTATTATTGAGGCTAT
Found at i:7679076 original size:17 final size:17
Alignment explanation
Indices: 7679056--7679088 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7679046 TTTTTTCACA
7679056 CTCTTTGTTTT-TTTTTT
1 CTCTTT-TTTTATTTTTT
7679073 CTCTTTTTTTATTTTT
1 CTCTTTTTTTATTTTT
7679089 ATTTTTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (17 bp):
CTCTTTTTTTATTTTTT
Found at i:7682094 original size:16 final size:17
Alignment explanation
Indices: 7682065--7682097 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
7682055 TTCCCTGGTT
7682065 TTCTTTGAATTATCTCA
1 TTCTTTGAATTATCTCA
7682082 TTCTTTG-ATTATCTCA
1 TTCTTTGAATTATCTCA
7682098 AATTAGGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.21, C:0.18, G:0.06, T:0.55
Consensus pattern (17 bp):
TTCTTTGAATTATCTCA
Found at i:7688236 original size:19 final size:18
Alignment explanation
Indices: 7688211--7688263 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 18
7688201 GCATATTATT
7688211 AAAAAATTAAATTAATAA
1 AAAAAATTAAATTAATAA
*
7688229 ACAAAAATT-AATTTATAA
1 A-AAAAATTAAATTAATAA
7688247 AAATAAATTAAAATTAA
1 AAA-AAATT-AAATTAA
7688264 AATTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 2 0.07
18 15 0.52
19 7 0.24
20 5 0.17
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAAATTAAATTAATAA
Found at i:7693864 original size:3 final size:3
Alignment explanation
Indices: 7693856--7693888 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
7693846 TTAAAAAAGA
7693856 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7693889 ATGAGGTGTG
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):
TAT
Found at i:7700073 original size:28 final size:28
Alignment explanation
Indices: 7700033--7700089 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
7700023 ATTATTTATT
*
7700033 AATTTAATAATATA-AAATATTTACTATA
1 AATTTAATAATATAGAAAT-TTTAATATA
* *
7700061 AATTTCATTATATAGAAATTTTAATATA
1 AATTTAATAATATAGAAATTTTAATATA
7700089 A
1 A
7700090 TTTTTTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (28 bp):
AATTTAATAATATAGAAATTTTAATATA
Found at i:7705001 original size:12 final size:12
Alignment explanation
Indices: 7704984--7705012 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
7704974 TTAGAAATGA
7704984 TTTAATAAAAAT
1 TTTAATAAAAAT
7704996 TTTAATAAAAAT
1 TTTAATAAAAAT
7705008 TTTAA
1 TTTAA
7705013 ATCGATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TTTAATAAAAAT
Found at i:7705195 original size:16 final size:17
Alignment explanation
Indices: 7705176--7705208 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7705166 AAATCTTATT
7705176 TTTTAAAATTTT-ATAA
1 TTTTAAAATTTTGATAA
*
7705192 TTTTATAATTTTGATAA
1 TTTTAAAATTTTGATAA
7705209 AAATGATGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TTTTAAAATTTTGATAA
Found at i:7705479 original size:13 final size:13
Alignment explanation
Indices: 7705461--7705486 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7705451 CAATTTATCG
7705461 ATTTTAATTTTTA
1 ATTTTAATTTTTA
7705474 ATTTTAATTTTTA
1 ATTTTAATTTTTA
7705487 TTTAATCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTTAATTTTTA
Found at i:7712439 original size:20 final size:20
Alignment explanation
Indices: 7712416--7712454 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7712406 TTGACACGAC
7712416 GTTGACTTCAATGACGTGGT
1 GTTGACTTCAATGACGTGGT
* *
7712436 GTTGACTTTAATGATGTGG
1 GTTGACTTCAATGACGTGG
7712455 CATTAAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.10, G:0.31, T:0.38
Consensus pattern (20 bp):
GTTGACTTCAATGACGTGGT
Found at i:7713621 original size:13 final size:13
Alignment explanation
Indices: 7713603--7713636 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
7713593 ATTATGACTA
*
7713603 AATATTGTGATAG
1 AATATTGTGAGAG
*
7713616 AATATTATGAGAG
1 AATATTGTGAGAG
7713629 AATATTGT
1 AATATTGT
7713637 AGCATTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (13 bp):
AATATTGTGAGAG
Found at i:7713852 original size:20 final size:20
Alignment explanation
Indices: 7713829--7713880 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
7713819 TCACATTAGC
7713829 AAGTCAATGCCATATCATTG
1 AAGTCAATGCCATATCATTG
** * *
7713849 AAGTCAACACTATGTCATTG
1 AAGTCAATGCCATATCATTG
7713869 AAGTCAATGCCA
1 AAGTCAATGCCA
7713881 CATTAGCATG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (20 bp):
AAGTCAATGCCATATCATTG
Found at i:7714607 original size:31 final size:30
Alignment explanation
Indices: 7714553--7714612 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
7714543 CTTAAACCAA
* *
7714553 AATAATAAATTAAAGTAAATTAAATAGTAAC
1 AATAAAAAATTAAAGGAAATTAAAT-GTAAC
**
7714584 AATAAAAAATTAAAGGACTTTAAATGTAA
1 AATAAAAAATTAAAGGAAATTAAATGTAA
7714613 ATTGAATCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.28
Consensus pattern (30 bp):
AATAAAAAATTAAAGGAAATTAAATGTAAC
Found at i:7714655 original size:21 final size:19
Alignment explanation
Indices: 7714603--7714703 Score: 67
Period size: 22 Copynumber: 4.9 Consensus size: 19
7714593 TTAAAGGACT
7714603 TTAAATGTAAATTGAATCAAAA
1 TTAAAT-TAAATTGAA--AAAA
**
7714625 CAAAATTTAAATTGCAAAAAA
1 TTAAA-TTAAATTG-AAAAAA
**
7714646 CTTAAATTAAACTTGTAAAATT
1 -TTAAATTAAA-TTG-AAAAAA
*
7714668 TTAAATTAACTTGAAAAAA
1 TTAAATTAAATTGAAAAAA
* *
7714687 TTGAATTGAATTGAAAA
1 TTAAATTAAATTGAAAA
7714704 TTTAAGAAAA
Statistics
Matches: 62, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
19 18 0.29
20 3 0.05
21 18 0.29
22 20 0.32
23 3 0.05
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (19 bp):
TTAAATTAAATTGAAAAAA
Found at i:7714678 original size:20 final size:20
Alignment explanation
Indices: 7714647--7714706 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
7714637 TGCAAAAAAC
7714647 TTAAATTAAACTTGTAAAATT
1 TTAAATTAAACTTG-AAAATT
**
7714668 TTAAATT-AACTTGAAAAAA
1 TTAAATTAAACTTGAAAATT
* *
7714687 TTGAATTGAA-TTGAAAATT
1 TTAAATTAAACTTGAAAATT
7714706 T
1 T
7714707 AAGAAAACAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 18 0.55
20 8 0.24
21 7 0.21
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.40
Consensus pattern (20 bp):
TTAAATTAAACTTGAAAATT
Found at i:7716212 original size:99 final size:99
Alignment explanation
Indices: 7716093--7716394 Score: 489
Period size: 99 Copynumber: 3.1 Consensus size: 99
7716083 ACAAATATAA
* *
7716093 TTATTTTATTAAGAATAAAGTAAAATTAACTCATTTAAACAT-TGAAAATAACTTTATTTTATAG
1 TTATTTTATTAAGAACAAAGTAAAATTAACTCATTTAAAC-TCTGAAAATAAATTTATTTTATAG
*
7716157 AGTTATCACCACAGATCTTACAATATGTTACCATG
65 AGTTATCACCACAGATCTTACAATATGTTAGCATG
* * * *
7716192 TTATTTTATTAAAAACAAAGTAAAATTAACTCATTTAGATTCTGAAAATAATTTTATTTTATAGA
1 TTATTTTATTAAGAACAAAGTAAAATTAACTCATTTAAACTCTGAAAATAAATTTATTTTATAGA
* * *
7716257 GTTATCACCACAAATCTTAAAATATGTTAGCATA
66 GTTATCACCACAGATCTTACAATATGTTAGCATG
*
7716291 TTATTTTATTAAGAACAAAGTAAAATTAACTCATTTAAACTCTAAAAATAAATTTATTTTATAGA
1 TTATTTTATTAAGAACAAAGTAAAATTAACTCATTTAAACTCTGAAAATAAATTTATTTTATAGA
7716356 GTTATCACCACAGATCTTACAATATGTTAGCATG
66 GTTATCACCACAGATCTTACAATATGTTAGCATG
7716390 TTATT
1 TTATT
7716395 GATTTAATGG
Statistics
Matches: 185, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
98 1 0.01
99 184 0.99
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (99 bp):
TTATTTTATTAAGAACAAAGTAAAATTAACTCATTTAAACTCTGAAAATAAATTTATTTTATAGA
GTTATCACCACAGATCTTACAATATGTTAGCATG
Found at i:7717002 original size:181 final size:182
Alignment explanation
Indices: 7716677--7717025 Score: 657
Period size: 181 Copynumber: 1.9 Consensus size: 182
7716667 TAATTTAATG
7716677 CATTGAACTATATAATAATAAGTCCATGGATGTTTTGCTACATGACGAAGTAAACAATAGAAAAT
1 CATTGAACTATATAATAATAAGTCCATGGATGTTTTGCTACATGACGAAGTAAACAATAGAAAAT
7716742 GCCAAATATAAGAAAATAAAAATATCATTCTATAAAATAAATACAATAAAAATTTATTAAAAATA
66 GCCAAATATAAGAAAATAAAAATATCATTCTATAAAATAAATACAATAAAAATTTATTAAAAATA
*
7716807 AATTATTTAACAAATTAAATACAGTTAATGTGTATTATCAGTTAATGTAACA
131 AATTATTCAACAAATTAAATACAGTTAATGTGTATTATCAGTTAATGTAACA
7716859 CATTGAACTATATAATAATAAGTCCATGGATGTTTTGCTACATGACAGAAGTAAACAATAGAAAA
1 CATTGAACTATATAATAATAAGTCCATGGATGTTTTGCTACATGAC-GAAGTAAACAATAGAAAA
7716924 TGCCAAATATAA-AAAAT-AAAATATCATTCTATAAAATAAATACAATAAAAATTTATTAAAAAT
65 TGCCAAATATAAGAAAATAAAAATATCATTCTATAAAATAAATACAATAAAAATTTATTAAAAAT
*
7716987 AAATTATTCAACAAATTAAATACTGTTAATGTGTATTAT
130 AAATTATTCAACAAATTAAATACAGTTAATGTGTATTAT
7717026 TAGTGCAACA
Statistics
Matches: 164, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
181 83 0.51
182 51 0.31
183 30 0.18
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (182 bp):
CATTGAACTATATAATAATAAGTCCATGGATGTTTTGCTACATGACGAAGTAAACAATAGAAAAT
GCCAAATATAAGAAAATAAAAATATCATTCTATAAAATAAATACAATAAAAATTTATTAAAAATA
AATTATTCAACAAATTAAATACAGTTAATGTGTATTATCAGTTAATGTAACA
Found at i:7717977 original size:19 final size:20
Alignment explanation
Indices: 7717936--7717977 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
7717926 TTTAGAGAAT
7717936 AAAATTATTTTGTTTATTTG
1 AAAATTATTTTGTTTATTTG
7717956 AAAATATATTTT-TTTA-TTG
1 AAAAT-TATTTTGTTTATTTG
7717975 AAA
1 AAA
7717978 GGTTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
20 9 0.43
21 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
AAAATTATTTTGTTTATTTG
Found at i:7718161 original size:6 final size:5
Alignment explanation
Indices: 7718106--7718186 Score: 54
Period size: 5 Copynumber: 14.8 Consensus size: 5
7718096 TTTTTTTAAT
* * ***
7718106 AAATA AAATA AAAAA ATAATA AAAGA AAATA GGTTA AAACTA AAATA AAATCA
1 AAATA AAATA AAATA A-AATA AAATA AAATA AAATA AAA-TA AAATA AAAT-A
7718159 AAATA AAATCAA AAAGTA AAAGTA AAAT
1 AAATA AAAT--A AAA-TA AAA-TA AAAT
7718187 GGAAAAAAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
5 31 0.52
6 24 0.40
7 4 0.07
8 1 0.02
ACGTcount: A:0.72, C:0.04, G:0.06, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:7718161 original size:11 final size:11
Alignment explanation
Indices: 7718147--7718172 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7718137 GGTTAAAACT
7718147 AAAATAAAATC
1 AAAATAAAATC
7718158 AAAATAAAATC
1 AAAATAAAATC
7718169 AAAA
1 AAAA
7718173 AGTAAAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATAAAATC
Found at i:7718594 original size:10 final size:10
Alignment explanation
Indices: 7718579--7718616 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
7718569 CCAAGACTTA
7718579 AAAAAAATTC
1 AAAAAAATTC
7718589 AAAAAAA-TC
1 AAAAAAATTC
*
7718598 TAAAAAAATCC
1 -AAAAAAATTC
7718609 AAAAAAAT
1 AAAAAAAT
7718617 ACCCAGATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 22 0.88
11 1 0.04
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:7718604 original size:20 final size:20
Alignment explanation
Indices: 7718579--7718616 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7718569 CCAAGACTTA
*
7718579 AAAAAAATTCAAAAAAATCT
1 AAAAAAATCCAAAAAAATCT
7718599 AAAAAAATCCAAAAAAAT
1 AAAAAAATCCAAAAAAAT
7718617 ACCCAGATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.16
Consensus pattern (20 bp):
AAAAAAATCCAAAAAAATCT
Found at i:7719030 original size:21 final size:22
Alignment explanation
Indices: 7719006--7719050 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
7718996 AAAGAGAAAA
7719006 AATAAAATAAAAATAA-ATAAT
1 AATAAAATAAAAATAAGATAAT
*
7719027 AATAAAATAATAATAAGATAAT
1 AATAAAATAAAAATAAGATAAT
7719049 AA
1 AA
7719051 CTTATTGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (22 bp):
AATAAAATAAAAATAAGATAAT
Found at i:7719048 original size:11 final size:11
Alignment explanation
Indices: 7719006--7719050 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
7718996 AAAGAGAAAA
*
7719006 AATAAAATAAA
1 AATAAAATAAT
7719017 AAT-AAATAAT
1 AATAAAATAAT
7719027 AATAAAATAAT
1 AATAAAATAAT
*
7719038 AATAAGATAAT
1 AATAAAATAAT
7719049 AA
1 AA
7719051 CTTATTGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 9 0.29
11 22 0.71
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:7719710 original size:18 final size:18
Alignment explanation
Indices: 7719677--7719712 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7719667 CATACTGGTC
* *
7719677 CTTAGCCTCTTTAATGAA
1 CTTAGCCTCCTCAATGAA
7719695 CTTAGCCTCCTCAATGAA
1 CTTAGCCTCCTCAATGAA
7719713 GTTTAGCAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (18 bp):
CTTAGCCTCCTCAATGAA
Found at i:7722791 original size:20 final size:20
Alignment explanation
Indices: 7722766--7722819 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
7722756 GCTTAGAGGA
7722766 TAAAAATTATTTTTTTTATT
1 TAAAAATTATTTTTTTTATT
*
7722786 TAAAAA-TATATCTTTTTATT
1 TAAAAATTAT-TTTTTTTATT
*
7722806 GAAAGAATT-TTTTT
1 TAAA-AATTATTTTT
7722820 ATCACCTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 3 0.11
20 21 0.75
21 3 0.11
22 1 0.04
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (20 bp):
TAAAAATTATTTTTTTTATT
Found at i:7722986 original size:18 final size:19
Alignment explanation
Indices: 7722963--7723003 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
7722953 GGTTAAAAAT
*
7722963 AAAAT-AAAATCAAATCAA
1 AAAATAAAAATAAAATCAA
*
7722981 AAAATAAAAATAAAATGAA
1 AAAATAAAAATAAAATCAA
7723000 AAAA
1 AAAA
7723004 AGAAAACCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.78, C:0.05, G:0.02, T:0.15
Consensus pattern (19 bp):
AAAATAAAAATAAAATCAA
Found at i:7723402 original size:19 final size:19
Alignment explanation
Indices: 7723391--7723432 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
7723381 AAACTCAGAG
7723391 AAACCCAAAAAAATCAAAA
1 AAACCCAAAAAAATCAAAA
*
7723410 AAATCCAAAAAAATCTAAAA
1 AAACCCAAAAAAATC-AAAA
7723430 AAA
1 AAA
7723433 TTTCTAGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.74, C:0.17, G:0.00, T:0.10
Consensus pattern (19 bp):
AAACCCAAAAAAATCAAAA
Found at i:7723410 original size:10 final size:9
Alignment explanation
Indices: 7723396--7723433 Score: 58
Period size: 10 Copynumber: 4.0 Consensus size: 9
7723386 CAGAGAAACC
7723396 CAAAAAAAT
1 CAAAAAAAT
7723405 CAAAAAAAT
1 CAAAAAAAT
7723414 CCAAAAAAAT
1 -CAAAAAAAT
7723424 CTAAAAAAAT
1 C-AAAAAAAT
7723434 TTCTAGATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 10 0.37
10 17 0.63
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (9 bp):
CAAAAAAAT
Found at i:7723866 original size:6 final size:6
Alignment explanation
Indices: 7723855--7723904 Score: 64
Period size: 6 Copynumber: 7.8 Consensus size: 6
7723845 AAAGAAGAGA
*
7723855 AAAAAT AAAAAT AAAAAAT AAAAAT AATAATT AAAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT -AAAAAT AAAAAT AA-AAAT -AAAAAT AAAAAT AAAAA
7723905 CAATATGATA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
6 25 0.64
7 12 0.31
8 2 0.05
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:7723872 original size:13 final size:13
Alignment explanation
Indices: 7723854--7723904 Score: 68
Period size: 13 Copynumber: 3.9 Consensus size: 13
7723844 CAAAGAAGAG
7723854 AAAAAATAAAAAT
1 AAAAAATAAAAAT
7723867 AAAAAATAAAAAT
1 AAAAAATAAAAAT
* *
7723880 AATAATTAAAAA-
1 AAAAAATAAAAAT
7723892 ATAAAAATAAAAA
1 A-AAAAATAAAAA
7723905 CAATATGATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
12 1 0.03
13 32 0.97
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:7723889 original size:20 final size:19
Alignment explanation
Indices: 7723855--7723904 Score: 82
Period size: 20 Copynumber: 2.6 Consensus size: 19
7723845 AAAGAAGAGA
7723855 AAAAATAAAAATAAAAAAT
1 AAAAATAAAAATAAAAAAT
*
7723874 AAAAATAATAATTAAAAAAT
1 AAAAATAA-AAATAAAAAAT
7723894 AAAAATAAAAA
1 AAAAATAAAAA
7723905 CAATATGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAAATAAAAATAAAAAAT
Found at i:7723981 original size:25 final size:26
Alignment explanation
Indices: 7723953--7724010 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
7723943 AAAAACTATT
* *
7723953 TAATTGGACCTAGACATC-ATGGGCC
1 TAATTGGACCCAAACATCAATGGGCC
* * *
7723978 TAATCGGGCCCAAACGTCAATGGGCC
1 TAATTGGACCCAAACATCAATGGGCC
7724004 TAATTGG
1 TAATTGG
7724011 GCCCGAAGAC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (26 bp):
TAATTGGACCCAAACATCAATGGGCC
Found at i:7725726 original size:42 final size:43
Alignment explanation
Indices: 7725658--7725738 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
7725648 TTAACAAATA
**
7725658 CAATATTTTTTAAAATTAAAATTGTGATCTTTATTGATAAAAG
1 CAATATTTTTTAAAATTAAAATTGTGATCAATATTGATAAAAG
*
7725701 CAATATTTTTTAAATTTAAAA-TGTGATCAATATTGATA
1 CAATATTTTTTAAAATTAAAATTGTGATCAATATTGATA
7725739 TTATATTATG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 15 0.43
43 20 0.57
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (43 bp):
CAATATTTTTTAAAATTAAAATTGTGATCAATATTGATAAAAG
Found at i:7726400 original size:41 final size:41
Alignment explanation
Indices: 7726318--7726438 Score: 145
Period size: 41 Copynumber: 2.9 Consensus size: 41
7726308 ATTTAAATTA
** *
7726318 ATAATAGATGATGTTTATTGAACTTAAATA-TTATTTTTTATG
1 ATAATAGATGATGTTTATT-TTCTTAAA-AGTTATTTATTATG
*
7726360 ATAATAGATGATGTTTATTTTCTTAAAAGTTACTTATTATG
1 ATAATAGATGATGTTTATTTTCTTAAAAGTTATTTATTATG
* * * *
7726401 GTAATAAATTATGTTTATTTTCTTAAACGTTATTTATT
1 ATAATAGATGATGTTTATTTTCTTAAAAGTTATTTATT
7726439 TTTTAATTAA
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
40 1 0.01
41 49 0.71
42 19 0.28
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (41 bp):
ATAATAGATGATGTTTATTTTCTTAAAAGTTATTTATTATG
Found at i:7726623 original size:17 final size:17
Alignment explanation
Indices: 7726581--7726615 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
7726571 TCAAATGGTT
7726581 AAAAAATATATAAAAAAAG
1 AAAAAA-AT-TAAAAAAAG
7726600 AAAAAAATTAAAAAAA
1 AAAAAAATTAAAAAAA
7726616 TAATAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (17 bp):
AAAAAAATTAAAAAAAG
Found at i:7728847 original size:26 final size:26
Alignment explanation
Indices: 7728818--7728871 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
7728808 GGAGCGAGGT
7728818 AATTTAAAAGCAATTAACCATGGGGC
1 AATTTAAAAGCAATTAACCATGGGGC
7728844 AATTTAAAAGCAATTAACCATGGGGC
1 AATTTAAAAGCAATTAACCATGGGGC
7728870 AA
1 AA
7728872 AGTTATAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (26 bp):
AATTTAAAAGCAATTAACCATGGGGC
Found at i:7729569 original size:17 final size:17
Alignment explanation
Indices: 7729531--7729570 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
7729521 TAGTTAGATG
* *
7729531 ATTTGTAGATTAGTTGT
1 ATTTGTAAATTAGTTAT
7729548 ATTTGTAAATTAGTTAT
1 ATTTGTAAATTAGTTAT
*
7729565 GTTTGT
1 ATTTGT
7729571 TTATTTGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.55
Consensus pattern (17 bp):
ATTTGTAAATTAGTTAT
Found at i:7737993 original size:127 final size:127
Alignment explanation
Indices: 7737731--7737991 Score: 289
Period size: 123 Copynumber: 2.1 Consensus size: 127
7737721 TTTTGTAATG
* * * * * * *
7737731 ATTTTTTTTGTCGTTATGAATTTGGTAAATATATTGTAATAATTTTTTTGTTGTTATATAAATTA
1 ATTTTTTTTGTCATTATGAATATGGTAAAGATATCGTAAT-ATGTTTTTGTTGCTATATAAAATA
** * * * * *
7737796 TTTAAAGAGTTAATTAGGCAATAACAATAAAAATCGTTACAAATATAACAATATTTCATAATA
65 TTTAAAGAACTAATTAGGCAACAACAATAAAAATCGTCACAAACATAACAAGATTTCATAACA
* *
7737859 A-CTTTTTTGTCATTATGAATATGGTAGAGATATCGTAAT-TGTTTTT-TT-CTATATAAAATAT
1 ATTTTTTTTGTCATTATGAATATGGTAAAGATATCGTAATATGTTTTTGTTGCTATATAAAATAT
* * *
7737920 TTAAA-AACTAATTAGGCAACAACAATGAAAAGTTGTCACAAACATAATAAGATTTTCATAACA
66 TTAAAGAACTAATTAGGCAACAACAAT-AAAAATCGTCACAAACATAACAAGA-TTTCATAACA
7737983 ATTTTTTTT
1 ATTTTTTTT
7737992 TTATCGTTAC
Statistics
Matches: 110, Mismatches: 20, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
122 18 0.16
123 35 0.32
124 12 0.11
125 12 0.11
127 32 0.29
128 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (127 bp):
ATTTTTTTTGTCATTATGAATATGGTAAAGATATCGTAATATGTTTTTGTTGCTATATAAAATAT
TTAAAGAACTAATTAGGCAACAACAATAAAAATCGTCACAAACATAACAAGATTTCATAACA
Found at i:7750290 original size:34 final size:34
Alignment explanation
Indices: 7750243--7750318 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 34
7750233 AAATAACGAC
* *
7750243 ATTTGTATATGAAAAATATTGCTATTTTAGTAGT
1 ATTTGTATATGAAAAATATTGCTAATTTAGTAAT
* * *
7750277 GTTTGTATTTGAAAAATGTTGCTAATTTAGTAAT
1 ATTTGTATATGAAAAATATTGCTAATTTAGTAAT
7750311 ATTTGTAT
1 ATTTGTAT
7750319 CAAAAAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.49
Consensus pattern (34 bp):
ATTTGTATATGAAAAATATTGCTAATTTAGTAAT
Found at i:7750326 original size:34 final size:34
Alignment explanation
Indices: 7750254--7750328 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
7750244 TTTGTATATG
* * * ***
7750254 AAAAATATTGCTATTTTAGTAGTGTTTGTATTTG
1 AAAAATATTGCTAATTTAGTAATATTTGTATCAA
*
7750288 AAAAATGTTGCTAATTTAGTAATATTTGTATCAA
1 AAAAATATTGCTAATTTAGTAATATTTGTATCAA
7750322 AAAAATA
1 AAAAATA
7750329 CCGTTAATAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.43
Consensus pattern (34 bp):
AAAAATATTGCTAATTTAGTAATATTTGTATCAA
Found at i:7758690 original size:367 final size:365
Alignment explanation
Indices: 7757983--7758928 Score: 1293
Period size: 367 Copynumber: 2.6 Consensus size: 365
7757973 GTTTTATGCT
* *
7757983 AGAAAAACGCCTTCACTAATTCT-CTCTAATTTTTTGAAGGTATTTATTGAAGGCATTTTTTACA
1 AGAAAAACGCCTTCACTAATT-TGCTCTAATTTTTTGAAGGAATTTATTAAAGGCATTTTTTACA
* * *
7758047 TAATACGCCTTCAATAACTCCTTTCATTTTTATCAGTGAATATCAGTGAAGGCGGTTTTCTACTA
65 TAATACGCCTTCAATAATTTCTTTCATTTTTATCAGTGAATATCAGTGAAGGCAGTTTTCTACTA
** * * * * * *
7758112 AAAATGCCTTCAATAATTCACTCCAAATTTTAAGAGAAATTTATTGAAGGTATTTTTTTGCATTA
130 AAAACACTTTTAATAATTCACTCCAATTTTTAAGAGAAAATTATTGAAGGCA-TTTTTTGCATCA
* * * * ** *
7758177 TACGCCTTCAATAATTTTTATACAGAATTAGTGAAGGCATTTTTTGAGGAAAAATGCCTTCAATA
194 TACGCCTTTAATAATTTTTATACAAAATTAGTGAAGGCAGTTTTTGAGAAAAAACACATTCAATA
*
7758242 ATTTTTTTTAAAAATTGTTTGAGATTATTAAAGGCATATTTTAATAGAAAACGCCTTCAATATTC
259 ATTTTTTTTAAAAATTGTTTGAGATTATTAAAGGCATATTTTAATAGAAAACGCCTTCAATATTA
* **
7758307 TACCAATAAAATTTTAAGGGCGTTATTGAAGATGTTTATTCC
324 TACCAATAAAATTTTAAGGGCGTTATTAAAGACATTTATTCC
* * * **
7758349 AGAAAAATGCCTTCACTAATTTGCTCTAATATTTTGAAGGAATTTATTAAAGACATTTTTTGTAT
1 AGAAAAACGCCTTCACTAATTTGCTCTAATTTTTTGAAGGAATTTATTAAAGGCATTTTTTACAT
** *
7758414 AATACGCCTTCAATAATTTCTTTCATTTTTATCAGGTGAATATCAGTGAAGATAGTTTTTTACTA
66 AATACGCCTTCAATAATTTCTTTCATTTTTATCA-GTGAATATCAGTGAAGGCAGTTTTCTACTA
7758479 AAAACACTTTTAATAATTCACTCCAATTTTTAAGAGAAAATTATTGAAGGCATTTTTTGCATCAT
130 AAAACACTTTTAATAATTCACTCCAATTTTTAAGAGAAAATTATTGAAGGCATTTTTTGCATCAT
* * * * *
7758544 ATGTCTTTAATAATTTTTGTACAAAATTATTGAAGGCAGTTTTTGAGAAAAAACACATTTAATAA
195 ACGCCTTTAATAATTTTTATACAAAATTAGTGAAGGCAGTTTTTGAGAAAAAACACATTCAATAA
* * * * *
7758609 TTTTCTTTTAAAAATTGTTTGGGATTATTAAAGGCTTCTTTTAGTAGAAAACGCTTTCAATATTA
260 TTTT-TTTTAAAAATTGTTTGAGATTATTAAAGGCATATTTTAATAGAAAACGCCTTCAATATTA
* * *
7758674 TACTAATAAAATTTTAAGGGTGTTATTAAAGGCATTTATTCC
324 TACCAATAAAATTTTAAGGGCGTTATTAAAGACATTTATTCC
* * * * *
7758716 AGAAAAGCGGCTTCACTAATTCGCTCTAATTTTTTGAAAGAATTTATTAAAGGCATTTTCTACAT
1 AGAAAAACGCCTTCACTAATTTGCTCTAATTTTTTGAAGGAATTTATTAAAGGCATTTTTTACAT
* * * * *
7758781 AATATGCCTTCAATAATTTCTTTCATGTTTATCAAGTGAATATCAATGAAGGGAGTTTTCTACCA
66 AATACGCCTTCAATAATTTCTTTCATTTTTATC-AGTGAATATCAGTGAAGGCAGTTTTCTACTA
* * * *
7758846 AAAACA-TCTTTAATAATTCACTCTAATTTTTAAGAGAAAACTATTGAAGGCGTTTTTTGTATCA
130 AAAACACT-TTTAATAATTCACTCCAATTTTTAAGAGAAAATTATTGAAGGCATTTTTTGCATCA
7758910 TACGCCTTTAATAATTTTT
194 TACGCCTTTAATAATTTTT
7758929 TTAAAACAAT
Statistics
Matches: 507, Mismatches: 68, Indels: 9
0.87 0.12 0.02
Matches are distributed among these distances:
365 1 0.00
366 158 0.31
367 347 0.68
368 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (365 bp):
AGAAAAACGCCTTCACTAATTTGCTCTAATTTTTTGAAGGAATTTATTAAAGGCATTTTTTACAT
AATACGCCTTCAATAATTTCTTTCATTTTTATCAGTGAATATCAGTGAAGGCAGTTTTCTACTAA
AAACACTTTTAATAATTCACTCCAATTTTTAAGAGAAAATTATTGAAGGCATTTTTTGCATCATA
CGCCTTTAATAATTTTTATACAAAATTAGTGAAGGCAGTTTTTGAGAAAAAACACATTCAATAAT
TTTTTTTAAAAATTGTTTGAGATTATTAAAGGCATATTTTAATAGAAAACGCCTTCAATATTATA
CCAATAAAATTTTAAGGGCGTTATTAAAGACATTTATTCC
Found at i:7760417 original size:13 final size:13
Alignment explanation
Indices: 7760399--7760438 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
7760389 TGGTTTGCTA
7760399 AATGGTGTTTTTG
1 AATGGTGTTTTTG
*
7760412 AATGGT-TTGTTG
1 AATGGTGTTTTTG
*
7760424 AATGGTGTTTCTG
1 AATGGTGTTTTTG
7760437 AA
1 AA
7760439 CACATTGTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.20, C:0.03, G:0.30, T:0.47
Consensus pattern (13 bp):
AATGGTGTTTTTG
Found at i:7760427 original size:25 final size:25
Alignment explanation
Indices: 7760388--7760438 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
7760378 TTTAAATATT
*
7760388 ATGGTTTGCTAAATGGTGTTTTTGA
1 ATGGTTTGCTAAATGGTGTTTCTGA
* *
7760413 ATGGTTTGTTGAATGGTGTTTCTGA
1 ATGGTTTGCTAAATGGTGTTTCTGA
7760438 A
1 A
7760439 CACATTGTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.20, C:0.04, G:0.29, T:0.47
Consensus pattern (25 bp):
ATGGTTTGCTAAATGGTGTTTCTGA
Found at i:7764009 original size:126 final size:126
Alignment explanation
Indices: 7763771--7764002 Score: 299
Period size: 126 Copynumber: 1.8 Consensus size: 126
7763761 AAAAAACGCC
* *** * *
7763771 TTCAATAATCCCACCTAAAAATTTATTGTGTGGATTATTAAAGGTGTTTTGGGCCAAAAATGCTT
1 TTCAATAATCCCACCTAAAAATTTATTGTGTGGATTATTAAAAGCACTTTCGGCAAAAAATGCTT
*
7763836 TCAAGAATCCGTTCTAACTTTTTTGTATGGATTATTGAAGGCATTTTTAACTAAAACTATA
66 TCAAGAATCCGTTCTAACTTTTTTGTATGGATTATTAAAGGCATTTTTAACTAAAACTATA
* * *
7763897 TTCAATAATCCCTCGTGAAAATTTATTGAT-TGGATTATTAAAAGCACTTTCGGCAAAAAATGCT
1 TTCAATAATCCCACCTAAAAATTTATTG-TGTGGATTATTAAAAGCACTTTCGGCAAAAAATGCT
* * *
7763961 TTTAAGAATCTGTT-TCATA-TTTTTTTTATGGATTATTAAAGG
65 TTCAAGAATCCGTTCT-A-ACTTTTTTGTATGGATTATTAAAGG
7764003 TGTTTTTCTG
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
125 1 0.01
126 87 0.97
127 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (126 bp):
TTCAATAATCCCACCTAAAAATTTATTGTGTGGATTATTAAAAGCACTTTCGGCAAAAAATGCTT
TCAAGAATCCGTTCTAACTTTTTTGTATGGATTATTAAAGGCATTTTTAACTAAAACTATA
Found at i:7764027 original size:126 final size:125
Alignment explanation
Indices: 7763763--7764036 Score: 275
Period size: 126 Copynumber: 2.2 Consensus size: 125
7763753 TTTTTGGTAA
* * * *** * *
7763763 AAAACGCCTTCAATAATCCCACCTAAAAATTTATTGTGTGGATTATTAAAGGTGTTTTGGGCCAA
1 AAAATGCCTTCAATAATCCCTCCTAAAAATTTATTGTGTGGATTATTAAAAGCACTTTCGGCAAA
* *
7763828 AAATGCTTTCAAGAATCCGTTCTAACTTTTTTGTATGGATTATTGAAGGCATTTTTAACT
66 AAATGCTTTCAAGAATCCGTTCTAACTTTTTTGTATGGATTATTAAAGGCATTTTTAACG
*** * *
7763888 AAAACTATATTCAATAATCCCTCGTGAAAATTTATTGAT-TGGATTATTAAAAGCACTTTCGGCA
1 AAAA-TGCCTTCAATAATCCCTCCTAAAAATTTATTG-TGTGGATTATTAAAAGCACTTTCGGCA
* * * ** **
7763952 AAAAATGCTTTTAAGAATCTGTT-TCATA-TTTTTTTTATGGATTATTAAAGGTGTTTTTCTGCG
64 AAAAATGCTTTCAAGAATCCGTTCT-A-ACTTTTTTGTATGGATTATTAAAGGCATTTTT-AACG
*
7764015 AAAATGCCTTCAATATTCCCTC
1 AAAATGCCTTCAATAATCCCTC
7764037 TCCAAAATTT
Statistics
Matches: 118, Mismatches: 26, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
125 5 0.04
126 106 0.90
127 7 0.06
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (125 bp):
AAAATGCCTTCAATAATCCCTCCTAAAAATTTATTGTGTGGATTATTAAAAGCACTTTCGGCAAA
AAATGCTTTCAAGAATCCGTTCTAACTTTTTTGTATGGATTATTAAAGGCATTTTTAACG
Found at i:7767209 original size:26 final size:25
Alignment explanation
Indices: 7767180--7767247 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 25
7767170 TTTTTAACAT
*
7767180 TTTTATTTTTGAGACTTTTTATT-TTA
1 TTTTATTTTT--GACTTATTATTATTA
*
7767206 TTTTATTTTTTACTTATTATTATTA
1 TTTTATTTTTGACTTATTATTATTA
7767231 TTATTA-TTTT-ACTTATT
1 TT-TTATTTTTGACTTATT
7767248 TTAAATTAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
24 16 0.42
25 9 0.24
26 13 0.34
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.71
Consensus pattern (25 bp):
TTTTATTTTTGACTTATTATTATTA
Found at i:7767241 original size:24 final size:21
Alignment explanation
Indices: 7767198--7767250 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 21
7767188 TTGAGACTTT
7767198 TTATTTTATTTTATTTTTTAC
1 TTATTTTATTTTATTTTTTAC
7767219 TTATTATTATTATTATTATTTTAC
1 TTATT-TTATT-TTATT-TTTTAC
7767243 TTATTTTA
1 TTATTTTA
7767251 AATTAGACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.17
22 5 0.17
23 8 0.28
24 11 0.38
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.72
Consensus pattern (21 bp):
TTATTTTATTTTATTTTTTAC
Found at i:7768623 original size:21 final size:21
Alignment explanation
Indices: 7768598--7768639 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
7768588 AACCCTTTAC
*
7768598 ATTATTTTTTGTATATATTAT
1 ATTATTCTTTGTATATATTAT
7768619 ATTATTCTTTGTATATATTAT
1 ATTATTCTTTGTATATATTAT
7768640 GTTTACTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (21 bp):
ATTATTCTTTGTATATATTAT
Found at i:7772624 original size:14 final size:14
Alignment explanation
Indices: 7772605--7772631 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7772595 GTGCATTTTT
7772605 AAAATTTTTGAATG
1 AAAATTTTTGAATG
7772619 AAAATTTTTGAAT
1 AAAATTTTTGAAT
7772632 TTTGGAGATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (14 bp):
AAAATTTTTGAATG
Found at i:7773875 original size:3 final size:3
Alignment explanation
Indices: 7773862--7773899 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
7773852 TTTTGTTGTC
*
7773862 TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7773900 TTCTTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:7774684 original size:17 final size:20
Alignment explanation
Indices: 7774662--7774699 Score: 55
Period size: 17 Copynumber: 2.0 Consensus size: 20
7774652 TTTTATAGAC
7774662 TTTTTA-TT-TTATT-TTAT
1 TTTTTACTTATTATTATTAT
7774679 TTTTTACTTATTATTATTAT
1 TTTTTACTTATTATTATTAT
7774699 T
1 T
7774700 GTTGTTGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.33
18 2 0.11
19 5 0.28
20 5 0.28
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTACTTATTATTATTAT
Found at i:7783424 original size:35 final size:34
Alignment explanation
Indices: 7783349--7783424 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 34
7783339 TTTTTATATA
* *
7783349 TTTTTTTCAAACCAAAGTTTATAATTTTATAATT
1 TTTTTTTCAAACCAAAATTTATAATTTTACAATT
7783383 TATTTTTTCAAACCAAAATTTATAAGTATTT-CAATT
1 T-TTTTTTCAAACCAAAATTTATAA-T-TTTACAATT
7783419 TTTTTT
1 TTTTTT
7783425 CAAGAAAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
34 1 0.03
35 27 0.73
36 6 0.16
37 3 0.08
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (34 bp):
TTTTTTTCAAACCAAAATTTATAATTTTACAATT
Found at i:7786783 original size:20 final size:21
Alignment explanation
Indices: 7786748--7786786 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
7786738 GTTTTTTACT
*
7786748 TTTCTTTATTAATTCTTGCAA
1 TTTCTTTATCAATTCTTGCAA
7786769 TTTCTTT-TCAATTCTTGC
1 TTTCTTTATCAATTCTTGC
7786787 TTTTTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.18, C:0.18, G:0.05, T:0.59
Consensus pattern (21 bp):
TTTCTTTATCAATTCTTGCAA
Found at i:7790171 original size:3 final size:3
Alignment explanation
Indices: 7790163--7790195 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
7790153 CATCAACAAT
7790163 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7790196 AATTTATCCT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7791957 original size:18 final size:18
Alignment explanation
Indices: 7791934--7791998 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 18
7791924 AATTTTACTT
7791934 ATAAATTATATTATATTA
1 ATAAATTATATTATATTA
7791952 ATAAATAATATTATAGTATATTA
1 ATAAAT--TA-TAT--TATATTA
*
7791975 ATAAATAATA-TACTATTA
1 ATAAATTATATTA-TATTA
7791993 ATAAAT
1 ATAAAT
7791999 GTATTAATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
17 2 0.05
18 17 0.43
20 4 0.10
21 4 0.10
23 13 0.32
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
ATAAATTATATTATATTA
Found at i:7791964 original size:23 final size:22
Alignment explanation
Indices: 7791940--7792052 Score: 97
Period size: 23 Copynumber: 5.1 Consensus size: 22
7791930 ACTTATAAAT
7791940 TATATTATATTAATAAATAATA
1 TATATTATATTAATAAATAATA
*
7791962 TTATAGTATATTAATAAATAATA
1 -TATATTATATTAATAAATAATA
* * *
7791985 TACTATTA-ATAAATGTATTAATA
1 TA-TATTATATTAAT-AAATAATA
* *
7792008 AATATTCTA--AATAAATAATA
1 TATATTATATTAATAAATAATA
* *
7792028 TATTAATATATTTATAAATAATA
1 TA-TATTATATTAATAAATAATA
7792051 TA
1 TA
7792053 AAGAATAAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
20 7 0.10
21 8 0.11
22 11 0.15
23 45 0.63
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TATATTATATTAATAAATAATA
Found at i:7792032 original size:40 final size:40
Alignment explanation
Indices: 7791934--7792035 Score: 102
Period size: 41 Copynumber: 2.5 Consensus size: 40
7791924 AATTTTACTT
* *
7791934 ATAAATTATATTATATTAATAAATAATATTATAGTATATTA
1 ATAAATAATA-TATATTAATAAATAATATTATAGAATATTA
*
7791975 ATAAATAATATACTATTAATAAAT-GTATTAATA-AATATT-
1 ATAAATAATATA-TATTAATAAATAATATT-ATAGAATATTA
*
7792014 CTAAATAAATAATATATTAATA
1 ATAAAT-AAT-ATATATTAATA
7792036 TATTTATAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
39 5 0.09
40 22 0.42
41 26 0.49
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (40 bp):
ATAAATAATATATATTAATAAATAATATTATAGAATATTA
Found at i:7792171 original size:17 final size:17
Alignment explanation
Indices: 7792133--7792175 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
7792123 AAATATAGTT
*
7792133 ATTTTTGAAT-ATTAATA
1 ATTTTT-AATAATAAATA
7792150 A-TTTTAATAATAAATA
1 ATTTTTAATAATAAATA
7792166 ATTTTTAATA
1 ATTTTTAATA
7792176 TTTTAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 3 0.13
16 11 0.48
17 9 0.39
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
ATTTTTAATAATAAATA
Found at i:7792202 original size:32 final size:31
Alignment explanation
Indices: 7792110--7792205 Score: 81
Period size: 32 Copynumber: 3.1 Consensus size: 31
7792100 TTTAATATTA
* * *
7792110 AATATTACT-ATTAAAAT-ATAGTTATTTTT
1 AATATTAATAATTATAATAATAATTATTTTT
* *
7792139 GAATATTAATAATTTTAATAATAAATAATTTTT
1 -AATATTAATAATTATAATAAT-AATTATTTTT
*
7792172 AATATTTTAATAATTATATTAAT-ATTATTTTT
1 AATA--TTAATAATTATAATAATAATTATTTTT
7792204 AA
1 AA
7792206 AAAATAATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
30 8 0.15
31 6 0.11
32 16 0.30
33 8 0.15
34 15 0.28
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (31 bp):
AATATTAATAATTATAATAATAATTATTTTT
Found at i:7792336 original size:15 final size:15
Alignment explanation
Indices: 7792302--7792343 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
7792292 AAAATATAAA
7792302 TATTTTT-TAAAAAT
1 TATTTTTCTAAAAAT
*
7792316 TA-TTTTCTGAAAAT
1 TATTTTTCTAAAAAT
7792330 TATTTTTCGTAAAA
1 TATTTTTC-TAAAA
7792344 CAGAGTCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 4 0.17
14 10 0.43
15 5 0.22
16 4 0.17
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (15 bp):
TATTTTTCTAAAAAT
Found at i:7796331 original size:3 final size:3
Alignment explanation
Indices: 7796325--7796392 Score: 79
Period size: 3 Copynumber: 22.7 Consensus size: 3
7796315 TTTTGCACTC
*
7796325 TTA TTA TTTA CTA TTTA TTA TTA -TA TCTA TTA -TA TT- TTA TTA TTA
1 TTA TTA -TTA TTA -TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
7796370 TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
7796393 TTTCAAGTAG
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
2 6 0.11
3 43 0.75
4 8 0.14
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:7798426 original size:94 final size:96
Alignment explanation
Indices: 7798205--7798473 Score: 280
Period size: 94 Copynumber: 2.8 Consensus size: 96
7798195 TTTTGTGTAT
* * * * * *
7798205 TTCTTTCGTTAGAGGCTTGATAACTTTAAAAATCAAATAATGAAAGGCTACTCTCATTAGATGTT
1 TTCTTTCATTAAAGGCTTGATAACTTTAAAAATTAAAT-AGGAAAGGCTACTCTCATTAGAAGCT
7798270 TGACAACTTTAAAAATAAAAAAAATGAAAGGC
65 TGACAACTTTAAAAATAAAAAAAATGAAAGGC
* * * *
7798302 TT-TTCTCATCAAATGCTCGATAACTTTAAAAATTAAACT-GGAAA-GCTTCTCTCATT-GAAAG
1 TTCTT-TCATTAAAGGCTTGATAACTTTAAAAATTAAA-TAGGAAAGGCTACTCTCATTAG-AAG
* *
7798363 CTTGACAACTTTAAAAAT-CAAATAATGAAAGGC
63 CTTGACAACTTTAAAAATAAAAAAAATGAAAGGC
* * * * * * *
7798396 TTCTTTCATTAAAGGGTTGATAACTTTAAAAATTAAAT-TGAAAGACTCCTCTTATTAGAGGCTC
1 TTCTTTCATTAAAGGCTTGATAACTTTAAAAATTAAATAGGAAAGGCTACTCTCATTAGAAGCTT
*
7798460 AACAACTTTAAAAA
66 GACAACTTTAAAAA
7798474 ATCTAACTAG
Statistics
Matches: 143, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
93 5 0.03
94 70 0.49
95 33 0.23
96 6 0.04
97 28 0.20
98 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (96 bp):
TTCTTTCATTAAAGGCTTGATAACTTTAAAAATTAAATAGGAAAGGCTACTCTCATTAGAAGCTT
GACAACTTTAAAAATAAAAAAAATGAAAGGC
Found at i:7798487 original size:94 final size:92
Alignment explanation
Indices: 7798205--7798506 Score: 279
Period size: 94 Copynumber: 3.2 Consensus size: 92
7798195 TTTTGTGTAT
* * * * *
7798205 TTCTTTCGTTAGAGGCTTGATAACTTTAAAAATCAAATAATGAAAGGCTACTCTCATTAGATGTT
1 TTCTTTCATTAAAGGCTTGATAACTTTAAAAATTAAAT--TGAAA-GCTACTCTCATTAGAAGCT
* *
7798270 TGACAACTTTAAAAATAAAAAAAATGAAAGGC
63 TGACAACTTTAAAAAT--CAAATATGAAAGGC
* * * * *
7798302 TT-TTCTCATCAAATGCTCGATAACTTTAAAAATTAAACTGGAAAGCTTCTCTCATT-GAAAGCT
1 TTCTT-TCATTAAAGGCTTGATAACTTTAAAAATTAAA-TTGAAAGCTACTCTCATTAG-AAGCT
7798365 TGACAACTTTAAAAATCAAATAATGAAAGGC
63 TGACAACTTTAAAAATCAAAT-ATGAAAGGC
* * * * **
7798396 TTCTTTCATTAAAGGGTTGATAACTTTAAAAATTAAATTGAAAGACTCCTCTTATTAGAGGCTCA
1 TTCTTTCATTAAAGGCTTGATAACTTTAAAAATTAAATTGAAAG-CTACTCTCATTAGAAGCTTG
*
7798461 ACAACTTTAAAAAATCTAACTA-GAAA-GC
65 ACAACTTT-AAAAATC-AAATATGAAAGGC
* *
7798489 TCCTTTCATTAGAGGCTT
1 TTCTTTCATTAAAGGCTT
7798507 AACAACTAAA
Statistics
Matches: 170, Mismatches: 26, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
93 26 0.15
94 65 0.38
95 41 0.24
96 9 0.05
97 28 0.16
98 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (92 bp):
TTCTTTCATTAAAGGCTTGATAACTTTAAAAATTAAATTGAAAGCTACTCTCATTAGAAGCTTGA
CAACTTTAAAAATCAAATATGAAAGGC
Found at i:7798492 original size:47 final size:48
Alignment explanation
Indices: 7798367--7798527 Score: 136
Period size: 48 Copynumber: 3.4 Consensus size: 48
7798357 TGAAAGCTTG
* * * * **
7798367 ACAACTTT-AAAAATC-AAATAATGAAAGGCTTCTTTCATTAAAGGGTTG
1 ACAACTTTAAAAAATCTAAAT-A-GAAAGACTCCTTTCATTAGAGGCTCA
* *
7798415 ATAACTTT-AAAAAT-TAAATTGAAAGACTCCTCTT-ATTAGAGGCTCA
1 ACAACTTTAAAAAATCTAAATAGAAAGACTCCT-TTCATTAGAGGCTCA
* *
7798461 ACAACTTTAAAAAATCTAACTAGAAAG-CTCCTTTCATTAGAGGCTTA
1 ACAACTTTAAAAAATCTAAATAGAAAGACTCCTTTCATTAGAGGCTCA
**
7798508 ACAACTAAAAAAAAATCTAA
1 ACAACT-TTAAAAAATCTAA
7798528 TTGAAATAGA
Statistics
Matches: 93, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
46 26 0.28
47 30 0.32
48 37 0.40
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (48 bp):
ACAACTTTAAAAAATCTAAATAGAAAGACTCCTTTCATTAGAGGCTCA
Found at i:7798525 original size:48 final size:48
Alignment explanation
Indices: 7798435--7798527 Score: 127
Period size: 47 Copynumber: 1.9 Consensus size: 48
7798425 AAATTAAATT
**
7798435 GAAAGACTCCTCTTATTAGAGGCTCAACAACTTTAAAAAATCTAACTA
1 GAAAGACTCCTCTTATTAGAGGCTCAACAACTAAAAAAAATCTAACTA
*
7798483 GAAAG-CTCCT-TTCATTAGAGGCTTAACAACTAAAAAAAAATCTAA
1 GAAAGACTCCTCTT-ATTAGAGGCTCAACAACT-AAAAAAAATCTAA
7798528 TTGAAATAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
46 2 0.05
47 22 0.55
48 16 0.40
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (48 bp):
GAAAGACTCCTCTTATTAGAGGCTCAACAACTAAAAAAAATCTAACTA
Found at i:7798955 original size:15 final size:17
Alignment explanation
Indices: 7798915--7798956 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
7798905 TGGAGTATTA
*
7798915 GTTCTTTTCTCAATTTT
1 GTTCTATTCTCAATTTT
*
7798932 TTTCTATTCTC-ATTTT
1 GTTCTATTCTCAATTTT
7798948 GTTC-ATTCT
1 GTTCTATTCT
7798957 TTCATGTTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 5 0.23
16 8 0.36
17 9 0.41
ACGTcount: A:0.12, C:0.19, G:0.05, T:0.64
Consensus pattern (17 bp):
GTTCTATTCTCAATTTT
Found at i:7803776 original size:19 final size:21
Alignment explanation
Indices: 7803728--7803784 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 21
7803718 TTTTTAATCT
7803728 TAAATTGAATAATATTATATTA
1 TAAATT-AATAATATTATATTA
7803750 TAAA--AATAATATT-TATTA
1 TAAATTAATAATATTATATTA
*
7803768 -AAATTAATAATAATATA
1 TAAATTAATAATATTATA
7803785 ACCAAGATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
17 3 0.10
18 5 0.16
19 17 0.55
20 2 0.06
22 4 0.13
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
TAAATTAATAATATTATATTA
Found at i:7804277 original size:19 final size:19
Alignment explanation
Indices: 7804228--7804277 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
7804218 ATTTCTTGGT
7804228 TTATTCTGTAATTTTTATCA
1 TTATT-TGTAATTTTTATCA
*
7804248 TT-TTTGCAATTTTTCAT-A
1 TTATTTGTAATTTTT-ATCA
7804266 TTATTTGTAATT
1 TTATTTGTAATT
7804278 ATTGGATTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 12 0.46
19 12 0.46
20 2 0.08
ACGTcount: A:0.24, C:0.08, G:0.06, T:0.62
Consensus pattern (19 bp):
TTATTTGTAATTTTTATCA
Found at i:7810242 original size:186 final size:184
Alignment explanation
Indices: 7809788--7810718 Score: 1104
Period size: 186 Copynumber: 5.0 Consensus size: 184
7809778 TAGACAACCA
* * * ** *
7809788 CCTTGAATAATTATGTATGTAAATTAGAAGAAATTAGTGAAGATATTTTTCTAGAATAAACGCAT
1 CCTTCAATAATTATGCACGTAAATTAGAAG-AATTAGTGAAGGCATTTTTCTAGAATAAACGCCT
* * * * * *
7809853 TCACTAACCGTTTCAAAATTTGATTTGTGAAATATTTAAGGTGTTTTTCATTGGAAGATGCTTTT
65 TCACTAACCATTTCAAAATTTGAGTTGTGGAATATTAAAGGTGTTTTTCATTGGAAGACGCCTTT
*
7809918 AATAATCTCAAAAATTTTAAGAG--AATTATTGAAGGCTTTTGTTGTCAAAAAATG
130 AATAATC-CAAAAATTTTAAGAGAAAATTATTGAAGGCGTTTGTTGTCAAAAAATG
* * *
7809972 CCTTCAAT-ATTATGTACGTAAATTAAAAGGAATTAGTGAAGGCATTTTTTTAGAATAAACGCCT
1 CCTTCAATAATTATGCACGTAAATTAGAA-GAATTAGTGAAGGCATTTTTCTAGAATAAACGCCT
* * ** *
7810036 TCACTAACCGTCTT-AAAATTTGAGTTATGGAATATTAAAGGCATTTTTCATTGGAAGACACCTT
65 TCACTAACCAT-TTCAAAATTTGAGTTGTGGAATATTAAAGGTGTTTTTCATTGGAAGACGCCTT
*
7810100 TAATAATCTCAAAAATTTTAAGAGAAAATTATTGAAGGCGTTTGTTGTCATAAAATG
129 TAATAATC-CAAAAATTTTAAGAGAAAATTATTGAAGGCGTTTGTTGTCAAAAAATG
* * *
7810157 CCTTTAATAATTATGCACATAAATTAGAACGAATTAGTGAAGGCATTTTTCTAGAATAAATGCCT
1 CCTTCAATAATTATGCACGTAAATTAGAA-GAATTAGTGAAGGCATTTTTCTAGAATAAACGCCT
* * * * *
7810222 TTACTAACCATTTCAAAATTTGAGTTGTGGAATATTGAAGGTGTTTTTCATTGGAAAACACTTTT
65 TCACTAACCATTTCAAAATTTGAGTTGTGGAATATTAAAGGTGTTTTTCATTGGAAGACGCCTTT
* *
7810287 AATAATCCTAAAAATTTTAAGAGAAAATTATTGAAAGCGTTTGTTGTCAAAAAATA
130 AATAATCC-AAAAATTTTAAGAGAAAATTATTGAAGGCGTTTGTTGTCAAAAAATG
* * * * *
7810343 CCTTCAATAATTATGCAAGTAAATTAGTAAGAATTAGTGAAAGCTTTTTTTTAGCATAAACGCCT
1 CCTTCAATAATTATGCACGTAAATTAG-AAGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCT
** * * *
7810408 TCACTAACCATCTT-AAAATTTGAGTTGTGGAATATTAAAGGCATTTTTCACTGGAAGATGTCTT
65 TCACTAACCAT-TTCAAAATTTGAGTTGTGGAATATTAAAGGTGTTTTTCATTGGAAGACGCCTT
* * * * * **
7810472 TAATAATCCCAAAAGTTTTAAGAGAAAATTATTAAAGGTGTTTGTTCTAAAAAAACA
129 TAATAAT-CCAAAAATTTTAAGAGAAAATTATTGAAGGCGTTTGTTGTCAAAAAATG
* *
7810529 CCTTCAATAATTATGCACGTAAATTAGAAGAAATTAGTGAAGGTATTTTTCTTA-AATAAACACC
1 CCTTCAATAATTATGCACGTAAATTAGAAG-AATTAGTGAAGGCATTTTTC-TAGAATAAACGCC
* * ** * * * *
7810593 -TCAACTAACTC-TCTCAATATTTGAGTTGTAAAATATTTAAGGTGTTTTTCACTGGAAAACGTC
64 TTC-ACTAAC-CATTTCAAAATTTGAGTTGTGGAATATTAAAGGTGTTTTTCATTGGAAGACGCC
* * * *
7810656 TTTAATAATCCTAAAAATTTTGAGAGAAAATTATTGAAGGCATTTGTTCTCAAGAAATG
127 TTTAATAATCC-AAAAATTTTAAGAGAAAATTATTGAAGGCGTTTGTTGTCAAAAAATG
7810715 CCTT
1 CCTT
7810719 TACTAACTGT
Statistics
Matches: 645, Mismatches: 86, Indels: 30
0.85 0.11 0.04
Matches are distributed among these distances:
183 124 0.19
184 10 0.02
185 47 0.07
186 455 0.71
187 9 0.01
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (184 bp):
CCTTCAATAATTATGCACGTAAATTAGAAGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTT
CACTAACCATTTCAAAATTTGAGTTGTGGAATATTAAAGGTGTTTTTCATTGGAAGACGCCTTTA
ATAATCCAAAAATTTTAAGAGAAAATTATTGAAGGCGTTTGTTGTCAAAAAATG
Found at i:7810517 original size:372 final size:369
Alignment explanation
Indices: 7809755--7810718 Score: 1269
Period size: 372 Copynumber: 2.6 Consensus size: 369
7809745 AATCTGAAAA
* * * * * *
7809755 AAAATTATTAAAGGCG-TT-TTCAGTAGACAACCACCTTGAATAATTATGTATGTAAATTAGAAG
1 AAAATTATTAAAGGCGTTTGTTC--TAAAAAAACACCTTCAATAATTATGCACGTAAATTAGAAG
* * * *
7809818 AAATTAGTGAAGATATTTTTCTAGAATAAACGCATTCACTAACCGTTTCAAAATTTGATTTGTGA
64 AAATTAGTGAAGGTATTTTTCTAGAATAAACGCCTTAACTAACC-TTTCAAAATTTGAGTTGTGA
**
7809883 AATATTTAAGGTGTTTTTCATTGGAAGATGCTTTTAATAAT-CTCAAAAATTTTAAGAG--AATT
128 AATATTTAAGGTGTTTTTCATTGGAA-AACCTTTTAATAATCCT-AAAAATTTTAAGAGAAAATT
* * *
7809945 ATTGAAGGCTTTTGTTGTCAAAAAATGCCTTCAATATTATGTACGTAAATTAAAAGGAATTAGTG
191 ATTGAAGGCATTTGTTGTCAAAAAATGCCTTCAATATTATGCAAGTAAATTAAAAGGAATTAGTG
* *
7810010 AAGGCATTTTTTTAGAATAAACGCCTTCACTAACCGTCTTAAAATTTGAGTTATGGAATATTAAA
256 AAAGCATTTTTTTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTTATGGAATATTAAA
* *
7810075 GGCATTTTTCATTGGAAGACACCTTTAATAATCTCAAAAATTTTAAGAG
321 GGCATTTTTCACTGGAAGACACCTTTAATAATCCCAAAAATTTTAAGAG
* * * * ** * *
7810124 AAAATTATTGAAGGCGTTTGTTGTCATAAAATGCCTTTAATAATTATGCACATAAATTAGAACG-
1 AAAATTATTAAAGGCGTTTGTTCTAAAAAAACACCTTCAATAATTATGCACGTAAATTAGAA-GA
* * * *
7810188 AATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTTACTAACCATTTCAAAATTTGAGTTGTGGA
65 AATTAGTGAAGGTATTTTTCTAGAATAAACGCCTTAACTAACC-TTTCAAAATTTGAGTTGTGAA
*
7810253 ATATTGAAGGTGTTTTTCATTGGAAAACACTTTTAATAATCCTAAAAATTTTAAGAGAAAATTAT
129 ATATTTAAGGTGTTTTTCATTGGAAAAC-CTTTTAATAATCCTAAAAATTTTAAGAGAAAATTAT
* * * *
7810318 TGAAAGCGTTTGTTGTCAAAAAATACCTTCAATAATTATGCAAGTAAATTAGTAA-GAATTAGTG
193 TGAAGGCATTTGTTGTCAAAAAATGCCTTCAAT-ATTATGCAAGTAAATTA-AAAGGAATTAGTG
* * *
7810382 AAAGCTTTTTTTTAGCATAAACGCCTTCACTAACCATCTTAAAATTTGAGTTGTGGAATATTAAA
256 AAAGCATTTTTTTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTTATGGAATATTAAA
*** *
7810447 GGCATTTTTCACTGGAAGATGTCTTTAATAATCCCAAAAGTTTTAAGAG
321 GGCATTTTTCACTGGAAGACACCTTTAATAATCCCAAAAATTTTAAGAG
*
7810496 AAAATTATTAAAGGTGTTTGTTCTAAAAAAACACCTTCAATAATTATGCACGTAAATTAGAAGAA
1 AAAATTATTAAAGGCGTTTGTTCTAAAAAAACACCTTCAATAATTATGCACGTAAATTAGAAGAA
* * * * *
7810561 ATTAGTGAAGGTATTTTTCTTA-AATAAACACCTCAACTAACTCTCTCAATATTTGAGTTGTAAA
66 ATTAGTGAAGGTATTTTTC-TAGAATAAACGCCTTAACTAAC-CTTTCAAAATTTGAGTTGTGAA
* * *
7810625 ATATTTAAGGTGTTTTTCACTGGAAAACGTCTTTAATAATCCTAAAAATTTTGAGAGAAAATTAT
129 ATATTTAAGGTGTTTTTCATTGGAAAACCT-TTTAATAATCCTAAAAATTTTAAGAGAAAATTAT
* *
7810690 TGAAGGCATTTGTTCTCAAGAAATGCCTT
193 TGAAGGCATTTGTTGTCAAAAAATGCCTT
7810719 TACTAACTGT
Statistics
Matches: 514, Mismatches: 68, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
368 1 0.00
369 149 0.29
370 5 0.01
371 40 0.08
372 314 0.61
373 5 0.01
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.36
Consensus pattern (369 bp):
AAAATTATTAAAGGCGTTTGTTCTAAAAAAACACCTTCAATAATTATGCACGTAAATTAGAAGAA
ATTAGTGAAGGTATTTTTCTAGAATAAACGCCTTAACTAACCTTTCAAAATTTGAGTTGTGAAAT
ATTTAAGGTGTTTTTCATTGGAAAACCTTTTAATAATCCTAAAAATTTTAAGAGAAAATTATTGA
AGGCATTTGTTGTCAAAAAATGCCTTCAATATTATGCAAGTAAATTAAAAGGAATTAGTGAAAGC
ATTTTTTTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGTTATGGAATATTAAAGGCAT
TTTTCACTGGAAGACACCTTTAATAATCCCAAAAATTTTAAGAG
Found at i:7810861 original size:558 final size:555
Alignment explanation
Indices: 7809787--7810882 Score: 1145
Period size: 558 Copynumber: 2.0 Consensus size: 555
7809777 GTAGACAACC
* * *
7809787 ACCTTGAATAATTATGTATGTAAATTAGAAGAAATTAGTGAAGATATTTTTCTAGAATAAACGCA
1 ACCTTCAATAATTATGCAAGTAAATTAGAAGAAATTAGTGAAGATATTTTTCTAGAATAAACGCA
* * * ** *
7809852 TTCACTAACCGTTTCAAAATTTGATTTGTGAAATATTTAAGGTGTTTTTCATTGGAAGATGCTTT
66 TTCACTAACCATTTCAAAATTTGAGTTGTGAAATATTAAAGGCATTTTTCACTGGAAGATGCTTT
* * * * **
7809917 TAATAATCTCAAAAATTTTAAGAGAATTATTGAAGGCTTTTGTTGTCAAAAAATGCCTTCAATAT
131 TAATAATCCCAAAAATTTTAAGAGAATTATTAAAGGCTTTTGTTCTAAAAAAACACCTTCAATAT
* * *
7809982 TATGTACGTAAATTAAAAGGAATTAGTGAAGGCATTTTTTTAGAATAAACGCCTTCACTAACCGT
196 TATGCACGTAAATTAAAAGAAATTAGTGAAGGCATTTTTTTAGAATAAACACCTTCACTAACCGT
* ** * *
7810047 CTTAAAATTTGAGTTATGGAATATTAAAGGCATTTTTCATTGGAAGACACCTTTAATAATCTCAA
261 CTCAAAATTTGAGTTATAAAATATTAAAGGCATTTTTCACTGGAAAACACCTTTAATAATCTCAA
* * *
7810112 AAATTTTAAGAGAAAATTATTGAAGGCGTTTGTTGTCATAAAATGCCTTTAATAATTATGCACAT
326 AAATTTTAAGAGAAAATTATTGAAGGCATTTGTTCTCATAAAATGCCTTTAATAACTATGCACAT
* * * * *
7810177 AAATTAGAACGAATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTTACTAACCATTTCAAAATT
391 AAATTAGAACGAATCAGTGAAGGCATTTTTCTAGAATAAA-GCCTTCAATAA-CATTCCAAAATA
** **** * * ** * * * * *
7810242 TGAGTTGTGGAATATTGAAGGTGTTTTTCATTGGAAAACACTTTTAATAATCCTAAAAATTTT-A
454 AAAAAAATGCAATATCGAAGGCATTTTTCATAGAAAAACACCTTCAATAACCCTAAAAATTTTAA
7810306 AGAG-AAAATTATTGAAAGCGTTTGTTGTCAAAAAAT
519 AGAGTAAAATTATTGAAAGCGTTTGTTGTCAAAAAAT
* * *
7810342 ACCTTCAATAATTATGCAAGTAAATTAGTAAG-AATTAGTGAAAGCT-TTTTTTTAGCATAAACG
1 ACCTTCAATAATTATGCAAGTAAATTAG-AAGAAATTAGTG-AAGATATTTTTCTAGAATAAACG
* *
7810405 CCTTCACTAACCATCTT-AAAATTTGAGTTGTGGAATATTAAAGGCATTTTTCACTGGAAGATG-
64 CATTCACTAACCAT-TTCAAAATTTGAGTTGTGAAATATTAAAGGCATTTTTCACTGGAAGATGC
*
7810468 TCTTTAATAATCCCAAAAGTTTTAAGAGAAAATTATTAAAGG-TGTTTGTTCTAAAAAAACACCT
128 T-TTTAATAATCCCAAAAATTTTAAGAG--AATTATTAAAGGCT-TTTGTTCTAAAAAAACACCT
* *
7810532 TCAATAATTATGCACGTAAATTAGAAGAAATTAGTGAAGGTATTTTTCTTA-AATAAACACC-TC
189 TCAAT-ATTATGCACGTAAATTAAAAGAAATTAGTGAAGGCATTTTT-TTAGAATAAACACCTTC
* * * ** **
7810595 AACTAACTC-TCTCAATATTTGAGTTGTAAAATATTTAAGGTGTTTTTCACTGGAAAACGTCTTT
252 -ACTAAC-CGTCTCAAAATTTGAGTTATAAAATATTAAAGGCATTTTTCACTGGAAAACACCTTT
* *
7810659 AATAATC-CTAAAAATTTTGAGAGAAAATTATTGAAGGCATTTGTTCTCA-AGAAATGCCTTTAC
315 AATAATCTC-AAAAATTTTAAGAGAAAATTATTGAAGGCATTTGTTCTCATA-AAATGCCTTTAA
* * * *
7810722 TAACTGT-C-C-TAAAGTTGAGTAGCGGAA-CATTGAATGCATTTTTCACTAGAA-AACA-CCTT
378 TAACTATGCACATAAA-TT-AG-AAC-GAATCAGTGAAGGCATTTTT--CTAGAATAA-AGCCTT
** *
7810781 CAATAA-ATTCCTTCAATAAAAAAAATGCATTA-CGCAAGGCATTTTTC-TAGAATAAACACCTT
436 CAATAACATTCC-AAAATAAAAAAAATGCAATATCG-AAGGCATTTTTCATAGAA-AAACACCTT
* * *
7810843 CAATGACCACTTAAAATTTTAAAAGTGTAAAATTATTGAA
498 CAATAACC-CTAAAAATTTT-AAAGAGTAAAATTATTGAA
7810883 TGTATTTTTA
Statistics
Matches: 441, Mismatches: 73, Indels: 48
0.78 0.13 0.09
Matches are distributed among these distances:
554 1 0.00
555 128 0.29
556 21 0.05
557 71 0.16
558 188 0.43
559 9 0.02
560 11 0.02
561 12 0.03
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (555 bp):
ACCTTCAATAATTATGCAAGTAAATTAGAAGAAATTAGTGAAGATATTTTTCTAGAATAAACGCA
TTCACTAACCATTTCAAAATTTGAGTTGTGAAATATTAAAGGCATTTTTCACTGGAAGATGCTTT
TAATAATCCCAAAAATTTTAAGAGAATTATTAAAGGCTTTTGTTCTAAAAAAACACCTTCAATAT
TATGCACGTAAATTAAAAGAAATTAGTGAAGGCATTTTTTTAGAATAAACACCTTCACTAACCGT
CTCAAAATTTGAGTTATAAAATATTAAAGGCATTTTTCACTGGAAAACACCTTTAATAATCTCAA
AAATTTTAAGAGAAAATTATTGAAGGCATTTGTTCTCATAAAATGCCTTTAATAACTATGCACAT
AAATTAGAACGAATCAGTGAAGGCATTTTTCTAGAATAAAGCCTTCAATAACATTCCAAAATAAA
AAAAATGCAATATCGAAGGCATTTTTCATAGAAAAACACCTTCAATAACCCTAAAAATTTTAAAG
AGTAAAATTATTGAAAGCGTTTGTTGTCAAAAAAT
Found at i:7813437 original size:21 final size:21
Alignment explanation
Indices: 7813412--7813468 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
7813402 TATTACGCAA
* *
7813412 GTTGGTGATATTGATACTGAT
1 GTTGGTGATATTGATACTAAC
* *
7813433 GTTGGTAATATTAATACTAAC
1 GTTGGTGATATTGATACTAAC
* *
7813454 GTTGATGATCTTGAT
1 GTTGGTGATATTGAT
7813469 GTTCAAAGTG
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (21 bp):
GTTGGTGATATTGATACTAAC
Found at i:7820841 original size:34 final size:34
Alignment explanation
Indices: 7820733--7820847 Score: 90
Period size: 35 Copynumber: 3.3 Consensus size: 34
7820723 TCCTTCTGTT
* *
7820733 ATATAACTATTATAAACAAATGTTTC-TATTCAA
1 ATATAATTATTTTAAACAAATGTTTCTTATTCAA
* * * * ***
7820766 ATATAATTATTTATTTAATAATTGTAACTCTT-TTGTT
1 ATATAATTA-TT-TTAAACAAATGT--TTCTTATTCAA
*
7820803 ATATAAGTATTTTAAACAAATGTTTCTTATTCAA
1 ATATAATTATTTTAAACAAATGTTTCTTATTCAA
7820837 ATATAATTATT
1 ATATAATTATT
7820848 CAAACAATAA
Statistics
Matches: 58, Mismatches: 18, Indels: 11
0.67 0.21 0.13
Matches are distributed among these distances:
33 12 0.21
34 14 0.24
35 17 0.29
36 2 0.03
37 12 0.21
38 1 0.02
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (34 bp):
ATATAATTATTTTAAACAAATGTTTCTTATTCAA
Done.