Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 82 of 125
Found at i:16447113 original size:13 final size:13
Alignment explanation
Indices: 16447095--16447120 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16447085 ACTTAAAAGG
16447095 ATTTTTTATTATT
1 ATTTTTTATTATT
16447108 ATTTTTTATTATT
1 ATTTTTTATTATT
16447121 TTGAAAACTT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
ATTTTTTATTATT
Found at i:16447298 original size:20 final size:20
Alignment explanation
Indices: 16447251--16447306 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
16447241 TTTCCCAAAC
*
16447251 CCAAAAATAACCCAAAAAAAT
1 CCAAAAA-AACTCAAAAAAAT
***
16447272 ATGAAAAAACTCAAAAAAAT
1 CCAAAAAAACTCAAAAAAAT
*
16447292 CCAAAAAACCTCAAA
1 CCAAAAAAACTCAAA
16447307 CCTTCCCAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.66, C:0.21, G:0.02, T:0.11
Consensus pattern (20 bp):
CCAAAAAAACTCAAAAAAAT
Found at i:16447735 original size:15 final size:15
Alignment explanation
Indices: 16447712--16447742 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16447702 ACAATTGAGC
16447712 AAAAGAAAAATAAGA
1 AAAAGAAAAATAAGA
*
16447727 AAAATAAAAATAAGA
1 AAAAGAAAAATAAGA
16447742 A
1 A
16447743 TAAAAATGAT
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:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (15 bp):
AAAAGAAAAATAAGA
Found at i:16447759 original size:3 final size:3
Alignment explanation
Indices: 16447729--16447920 Score: 112
Period size: 3 Copynumber: 63.3 Consensus size: 3
16447719 AAATAAGAAA
* * * *
16447729 AAT AAA AAT AAG AAT AAA AAT GAT 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
* *
16447777 AAT AAT AAT AAT AGT AAT -AT AAT AA- AAGT AAT -AT GAT ATAT ACAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT A-AT A-AT
* ***
16447822 AAT -AT GACAT ACT -AT AAT ATAT AAT AAT GGC AAT AAAT ATAT AAT
1 AAT AAT -A-AT AAT AAT AAT A-AT AAT AAT AAT AAT -AAT A-AT AAT
* * * *
16447867 AAT AAT -AT AAT ATCT AAT AAA AAT AAA AAT -AT AAT -AT ATAT TAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
16447911 AAT AAT AAT A
1 AAT AAT AAT A
16447921 TCTAATATAT
Statistics
Matches: 144, Mismatches: 28, Indels: 34
0.70 0.14 0.17
Matches are distributed among these distances:
2 15 0.10
3 105 0.73
4 22 0.15
5 2 0.01
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16448385 original size:2 final size:2
Alignment explanation
Indices: 16448378--16448407 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16448368 TCAAAATCTA
16448378 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16448408 GTAAAGCTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16450607 original size:21 final size:20
Alignment explanation
Indices: 16450569--16450607 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16450559 TGTTAAAAAT
*
16450569 ATGAAAAAAATATTTTTCAA
1 ATGAAAAAAATATCTTTCAA
*
16450589 ATGAAAAACATAGTCTTTC
1 ATGAAAAAAATA-TCTTTC
16450608 TTGAGAGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (20 bp):
ATGAAAAAAATATCTTTCAA
Found at i:16453550 original size:3 final size:3
Alignment explanation
Indices: 16453544--16453573 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
16453534 TAAAAAAAAG
*
16453544 GAT GAT GAT GAT GAT GAT AAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
16453574 CATAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:16453568 original size:15 final size:15
Alignment explanation
Indices: 16453548--16453579 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16453538 AAAAAGGATG
*
16453548 ATGATGATGATGATA
1 ATGATGATGATCATA
16453563 ATGATGATGATCATA
1 ATGATGATGATCATA
16453578 AT
1 AT
16453580 AATAATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (15 bp):
ATGATGATGATCATA
Found at i:16453581 original size:3 final size:3
Alignment explanation
Indices: 16453575--16453601 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
16453565 GATGATGATC
16453575 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
16453602 TTATTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:16454608 original size:22 final size:23
Alignment explanation
Indices: 16454583--16454625 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
16454573 ACCGCCAAGG
*
16454583 ATAG-GATTTTTAAAAATTTCGA
1 ATAGTGATTCTTAAAAATTTCGA
16454605 ATAGTGATTCTTAAAAATTTC
1 ATAGTGATTCTTAAAAATTTC
16454626 TTAGATCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.42
Consensus pattern (23 bp):
ATAGTGATTCTTAAAAATTTCGA
Found at i:16461354 original size:145 final size:145
Alignment explanation
Indices: 16461085--16461359 Score: 408
Period size: 145 Copynumber: 1.9 Consensus size: 145
16461075 TGCTTACCTG
* * * * * *
16461085 AATTTTCTTGTTATCACTATTGTTGAACTTTGAATAGTATCAAAATATCTTACTGAGAGTGTTGA
1 AATTTCCTTGTCATCACTATTGTTAAACTTTGAACAGCATCAAAATATCATACTGAGAGTGTTGA
* *
16461150 ATCAAGCATATATGGATCGTAACATCTCTGTTGATAATGTTAACCATATTGTAAAGAGTATTATG
66 ATCAAGCATATATGGACCGTAACATCTCTGTTGAGAATGTTAACCATATTGTAAAGAGTATTATG
16461215 TTGAACTCTGAATCA
131 TTGAACTCTGAATCA
* *
16461230 AATTTCCTTGTCATCACTGTTGTTAAACTTTGAACCA-CATCAAAATATCATATTGAGAGTGTTG
1 AATTTCCTTGTCATCACTATTGTTAAACTTTGAA-CAGCATCAAAATATCATACTGAGAGTGTTG
* * **
16461294 AATCAAGCATATATGGACCGTAACATCTCTGTTGAGAATGTTGACTATATTGTAGGGAGTATTAT
65 AATCAAGCATATATGGACCGTAACATCTCTGTTGAGAATGTTAACCATATTGTAAAGAGTATTAT
16461359 G
130 G
16461360 GCTTTAAATT
Statistics
Matches: 115, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
145 114 0.99
146 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.37
Consensus pattern (145 bp):
AATTTCCTTGTCATCACTATTGTTAAACTTTGAACAGCATCAAAATATCATACTGAGAGTGTTGA
ATCAAGCATATATGGACCGTAACATCTCTGTTGAGAATGTTAACCATATTGTAAAGAGTATTATG
TTGAACTCTGAATCA
Found at i:16466118 original size:7 final size:7
Alignment explanation
Indices: 16466106--16466181 Score: 59
Period size: 7 Copynumber: 10.7 Consensus size: 7
16466096 AAAGAAAGAG
16466106 AAAAATA
1 AAAAATA
16466113 AAAAATA
1 AAAAATA
*
16466120 ACAAA-A
1 AAAAATA
**
16466126 AATTA-A
1 AAAAATA
16466132 AAAAATA
1 AAAAATA
16466139 AAATGAA-A
1 AAA--AATA
*
16466147 AAAACATG
1 AAAA-ATA
16466155 AAAAATA
1 AAAAATA
16466162 AAAAATA
1 AAAAATA
16466169 AAAAATGA
1 AAAAAT-A
16466177 AAAAA
1 AAAAA
16466182 GATCATAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
6 8 0.15
7 31 0.56
8 14 0.25
9 2 0.04
ACGTcount: A:0.80, C:0.03, G:0.04, T:0.13
Consensus pattern (7 bp):
AAAAATA
Found at i:16466133 original size:23 final size:24
Alignment explanation
Indices: 16466107--16466173 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
16466097 AAGAAAGAGA
*
16466107 AAAATAAAAAATAACAAAAA-ATTA
1 AAAATAAAAAATAA-AAAAACATGA
16466131 AAAA-AATAAAATGAAAAAAACATGA
1 AAAATAA-AAAAT-AAAAAAACATGA
16466156 AAAATAAAAAATAAAAAA
1 AAAATAAAAAATAAAAAA
16466174 TGAAAAAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
23 2 0.05
24 20 0.53
25 14 0.37
26 2 0.05
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.13
Consensus pattern (24 bp):
AAAATAAAAAATAAAAAAACATGA
Found at i:16466147 original size:14 final size:15
Alignment explanation
Indices: 16466114--16466181 Score: 50
Period size: 15 Copynumber: 4.4 Consensus size: 15
16466104 AGAAAAATAA
* *
16466114 AAAATAACAAAAAATT
1 AAAA-AACATAAAATG
16466130 AAAAAA-ATAAAATG
1 AAAAAACATAAAATG
16466144 AAAAAAACATGAAAAAT-
1 -AAAAAACAT--AAAATG
* *
16466161 AAAAAATAAAAAATG
1 AAAAAACATAAAATG
16466176 AAAAAA
1 AAAAAA
16466182 GATCATAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
14 11 0.26
15 14 0.33
16 13 0.30
18 5 0.12
ACGTcount: A:0.79, C:0.03, G:0.04, T:0.13
Consensus pattern (15 bp):
AAAAAACATAAAATG
Found at i:16466159 original size:32 final size:30
Alignment explanation
Indices: 16466106--16466181 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 30
16466096 AAAGAAAGAG
*
16466106 AAAAATAAAAAATAACAAAAAATTAAAAAA-A
1 AAAAATGAAAAA-AACAAAAAA-TAAAAAATA
*
16466137 TAAAATGAAAAAAACATGAAAAATAAAAAATA
1 AAAAATGAAAAAAACA--AAAAATAAAAAATA
16466169 AAAAATGAAAAAA
1 AAAAATGAAAAAA
16466182 GATCATAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
30 4 0.10
31 17 0.44
32 18 0.46
ACGTcount: A:0.80, C:0.03, G:0.04, T:0.13
Consensus pattern (30 bp):
AAAAATGAAAAAAACAAAAAATAAAAAATA
Found at i:16467313 original size:49 final size:51
Alignment explanation
Indices: 16467253--16467365 Score: 176
Period size: 49 Copynumber: 2.3 Consensus size: 51
16467243 AAAATTTTTA
*
16467253 ATTTTTAAAGTTTCAAAGCCTTTATT-GGGGATGAGCCATTTTCAGACAAG
1 ATTTTTAAAGTTTCAAAGCCTTTATTCGGGGATGAGCCATTTTCAAACAAG
* * *
16467303 A-TTTTAAAGTTTCAAAGCCTTTGTTCGGGGTTGAGCCATTTTTAAACAAG
1 ATTTTTAAAGTTTCAAAGCCTTTATTCGGGGATGAGCCATTTTCAAACAAG
16467353 ATTTTTAAAGTTT
1 ATTTTTAAAGTTT
16467366 TAAAACCTCT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
49 23 0.40
50 23 0.40
51 11 0.19
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (51 bp):
ATTTTTAAAGTTTCAAAGCCTTTATTCGGGGATGAGCCATTTTCAAACAAG
Found at i:16470372 original size:3 final size:3
Alignment explanation
Indices: 16470366--16470402 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
16470356 GTAGTAGTAG
16470366 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
16470403 GATATTTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:16472037 original size:14 final size:14
Alignment explanation
Indices: 16472018--16472047 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16472008 TCACATTTCC
*
16472018 TTTTAATATTATTT
1 TTTTAAAATTATTT
16472032 TTTTAAAATTATTT
1 TTTTAAAATTATTT
16472046 TT
1 TT
16472048 ATTTATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTAAAATTATTT
Found at i:16472475 original size:23 final size:23
Alignment explanation
Indices: 16472449--16472505 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
16472439 GTTTAAATAA
*
16472449 ATTTTAT-ATTAAATTATTTAATT
1 ATTTTATAATT-AATTAGTTAATT
* *
16472472 ATTTTTTAATTTATTAGTTAATT
1 ATTTTATAATTAATTAGTTAATT
*
16472495 ATTTAATAATT
1 ATTTTATAATT
16472506 TTTATAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 25 0.89
24 3 0.11
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
ATTTTATAATTAATTAGTTAATT
Found at i:16472506 original size:23 final size:23
Alignment explanation
Indices: 16472461--16472506 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
16472451 TTTATATTAA
* **
16472461 ATTATTTAATTATTTTTTAATTT
1 ATTAGTTAATTATTTAATAATTT
16472484 ATTAGTTAATTATTTAATAATTT
1 ATTAGTTAATTATTTAATAATTT
16472507 TTATAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
ATTAGTTAATTATTTAATAATTT
Found at i:16473040 original size:5 final size:5
Alignment explanation
Indices: 16473030--16473069 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
16473020 TATAATTATG
*
16473030 AATAA AATAA AATAA TATAA AATTATA AATAA AATAA AAT
1 AATAA AATAA AATAA AATAA AA-TA-A AATAA AATAA AAT
16473070 TAGATAATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 24 0.77
6 4 0.13
7 3 0.10
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (5 bp):
AATAA
Found at i:16473055 original size:27 final size:27
Alignment explanation
Indices: 16473018--16473069 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
16473008 ATATATTTAG
* *
16473018 TATATAATTATGAATAAAATAAAATAA
1 TATAAAATTATAAATAAAATAAAATAA
16473045 TATAAAATTATAAATAAAATAAAAT
1 TATAAAATTATAAATAAAATAAAAT
16473070 TAGATAATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (27 bp):
TATAAAATTATAAATAAAATAAAATAA
Found at i:16473061 original size:17 final size:16
Alignment explanation
Indices: 16473030--16473071 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
16473020 TATAATTATG
16473030 AATAAAA-TAAAATAA
1 AATAAAATTAAAATAA
*
16473045 TATAAAATTATAAATAA
1 AATAAAATTA-AAATAA
16473062 AATAAAATTA
1 AATAAAATTA
16473072 GATAATACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 2 0.09
17 15 0.65
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAAAATTAAAATAA
Found at i:16473076 original size:27 final size:27
Alignment explanation
Indices: 16473014--16473076 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
16473004 CAATATATAT
* *
16473014 TTAGTATATAATTATGAATAAAATAAAA
1 TTAG-ATAAAATTATAAATAAAATAAAA
* *
16473042 TAATATAAAATTATAAATAAAATAAAA
1 TTAGATAAAATTATAAATAAAATAAAA
16473069 TTAGATAA
1 TTAGATAA
16473077 TACCATCTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (27 bp):
TTAGATAAAATTATAAATAAAATAAAA
Found at i:16473414 original size:27 final size:26
Alignment explanation
Indices: 16473362--16473417 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 26
16473352 TTAAAAAAAA
16473362 TTAAATTATTTTTCAAAAGTTAATTT
1 TTAAATTATTTTTCAAAAGTTAATTT
*
16473388 TTAAATTTAGTTTTATCAAAA-TTATTTT
1 TTAAA-TTA-TTTT-TCAAAAGTTAATTT
16473416 TT
1 TT
16473418 TGCTATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 5 0.19
27 3 0.12
28 12 0.46
29 6 0.23
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (26 bp):
TTAAATTATTTTTCAAAAGTTAATTT
Found at i:16473687 original size:16 final size:16
Alignment explanation
Indices: 16473668--16473704 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
16473658 AGAAAAAAAG
*
16473668 AAAAGGAAAAAAATTA
1 AAAAGGAAAAAAAATA
*
16473684 AAAATGAAAAAAAATA
1 AAAAGGAAAAAAAATA
16473700 AAAAG
1 AAAAG
16473705 ATAACTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (16 bp):
AAAAGGAAAAAAAATA
Found at i:16473839 original size:15 final size:15
Alignment explanation
Indices: 16473802--16473840 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
16473792 CTTATTTTTT
*
16473802 AAAATTAATTTTAAAA
1 AAAATT-ATTTCAAAA
16473818 AATAATTATTTCAAAA
1 AA-AATTATTTCAAAA
16473834 AAAATTA
1 AAAATTA
16473841 AATTTTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 12 0.57
17 4 0.19
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAATTATTTCAAAA
Found at i:16473974 original size:25 final size:25
Alignment explanation
Indices: 16473946--16473994 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
16473936 AGAAAAGGAG
*
16473946 AGAAAA-AAGGAAAAGTAATAAAAAA
1 AGAAAATAAGGAAAAGGAA-AAAAAA
*
16473971 AGAAAATAGGGAAAAGGAAAAAAA
1 AGAAAATAAGGAAAAGGAAAAAAA
16473995 GAAAAAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.06
Consensus pattern (25 bp):
AGAAAATAAGGAAAAGGAAAAAAAA
Found at i:16476823 original size:21 final size:21
Alignment explanation
Indices: 16476790--16476847 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
16476780 TTTCTATTAA
16476790 TCTTTAT-GCTCATTATGTTG
1 TCTTTATAGCTCATTATGTTG
16476810 TCTTTATAGCTCATTATGTTG
1 TCTTTATAGCTCATTATGTTG
* *
16476831 TCTTTGTAGATCATTAT
1 TCTTTATAGCTCATTAT
16476848 TCCAAATACT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 7 0.20
21 28 0.80
ACGTcount: A:0.19, C:0.14, G:0.14, T:0.53
Consensus pattern (21 bp):
TCTTTATAGCTCATTATGTTG
Found at i:16494456 original size:19 final size:19
Alignment explanation
Indices: 16494432--16494470 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
16494422 TATTCTTTTC
16494432 TCTTTTCTCTAT-CATTCTT
1 TCTTTT-TCTATACATTCTT
*
16494451 TCTTTTTCTTTACATTCTT
1 TCTTTTTCTATACATTCTT
16494470 T
1 T
16494471 ATCTTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.10, C:0.23, G:0.00, T:0.67
Consensus pattern (19 bp):
TCTTTTTCTATACATTCTT
Found at i:16494477 original size:19 final size:19
Alignment explanation
Indices: 16494444--16494480 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16494434 TTTTCTCTAT
* *
16494444 CATTCTTTCTTTTTCTTTA
1 CATTCTTTATCTTTCTTTA
16494463 CATTCTTTATCTTTCTTT
1 CATTCTTTATCTTTCTTT
16494481 CTCTCTGACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.22, G:0.00, T:0.68
Consensus pattern (19 bp):
CATTCTTTATCTTTCTTTA
Found at i:16499448 original size:29 final size:30
Alignment explanation
Indices: 16499406--16499467 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
16499396 AACAATATTC
*
16499406 TCTTTATTTTTCTCT-C-TTTTATGTCTCTT
1 TCTTTATTATTCTCTACATTTTATGT-TCTT
* *
16499435 TCTTTCTTATTCTCTACATTTTTTGTTCTT
1 TCTTTATTATTCTCTACATTTTATGTTCTT
16499465 TCT
1 TCT
16499468 CTCTAACTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 13 0.46
30 8 0.29
31 7 0.25
ACGTcount: A:0.08, C:0.21, G:0.03, T:0.68
Consensus pattern (30 bp):
TCTTTATTATTCTCTACATTTTATGTTCTT
Found at i:16499888 original size:10 final size:11
Alignment explanation
Indices: 16499863--16499913 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
16499853 TCAATCAATT
16499863 TTTTTTGTTTA
1 TTTTTTGTTTA
16499874 TTTTTTGTTTA
1 TTTTTTGTTTA
* *
16499885 TTTTTTATTTT
1 TTTTTTGTTTA
*
16499896 TTTATTTTTTTA
1 TTT-TTTGTTTA
16499908 TTTTTT
1 TTTTTT
16499914 TATTTTGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
11 26 0.74
12 9 0.26
ACGTcount: A:0.10, C:0.00, G:0.04, T:0.86
Consensus pattern (11 bp):
TTTTTTGTTTA
Found at i:16499898 original size:8 final size:8
Alignment explanation
Indices: 16499861--16499919 Score: 75
Period size: 8 Copynumber: 7.2 Consensus size: 8
16499851 AATCAATCAA
16499861 TTTTT-TT
1 TTTTTATT
*
16499868 TGTTTATT
1 TTTTTATT
*
16499876 TTTTGTTTAT
1 TTTT-TAT-T
16499886 TTTTTATT
1 TTTTTATT
16499894 TTTTTATT
1 TTTTTATT
16499902 TTTTTATT
1 TTTTTATT
16499910 TTTTTATT
1 TTTTTATT
16499918 TT
1 TT
16499920 GTTTGTACTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
7 4 0.09
8 32 0.71
9 4 0.09
10 5 0.11
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.86
Consensus pattern (8 bp):
TTTTTATT
Found at i:16499898 original size:31 final size:31
Alignment explanation
Indices: 16499862--16499919 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
16499852 ATCAATCAAT
* *
16499862 TTTTTTTGTTTATTT-TTTGTTTATTTTTTA
1 TTTTTTTATTTTTTTATTTGTTTATTTTTTA
*
16499892 TTTTTTTATTTTTTTATTTTTTTATTTT
1 TTTTTTTATTTTTTTATTTGTTTATTTT
16499920 GTTTGTACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.86
Consensus pattern (31 bp):
TTTTTTTATTTTTTTATTTGTTTATTTTTTA
Found at i:16500393 original size:36 final size:36
Alignment explanation
Indices: 16500352--16500424 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
16500342 TGAAATTAAA
16500352 ATAAATTACAAATGATAACCATTTTAATTAAGACTT
1 ATAAATTACAAATGATAACCATTTTAATTAAGACTT
*
16500388 ATAAATTACAAATGATAACCATTTTAATTGAGACTT
1 ATAAATTACAAATGATAACCATTTTAATTAAGACTT
16500424 A
1 A
16500425 GGTAGGATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.36
Consensus pattern (36 bp):
ATAAATTACAAATGATAACCATTTTAATTAAGACTT
Found at i:16505643 original size:21 final size:23
Alignment explanation
Indices: 16505608--16505666 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 23
16505598 AATTTATCTA
*
16505608 TTAATAAATAGA-TTTA-TTAAT
1 TTAATAAATAAATTTTATTTAAT
*
16505629 TTAATAATTAAATTTTATTTAAT
1 TTAATAAATAAATTTTATTTAAT
16505652 TATGAAGTAAATAAA
1 T-T-AA-TAAATAAA
16505667 ATATTACTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 10 0.33
22 4 0.13
23 6 0.20
24 1 0.03
25 2 0.07
26 7 0.23
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (23 bp):
TTAATAAATAAATTTTATTTAAT
Found at i:16505890 original size:17 final size:17
Alignment explanation
Indices: 16505868--16505904 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
16505858 TAGTGAGTGG
16505868 TAAGATGACCTTAATGA
1 TAAGATGACCTTAATGA
*
16505885 TAAGATGACCTTAGTGA
1 TAAGATGACCTTAATGA
16505902 TAA
1 TAA
16505905 AATCACTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.30
Consensus pattern (17 bp):
TAAGATGACCTTAATGA
Found at i:16507058 original size:26 final size:25
Alignment explanation
Indices: 16507029--16507080 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
16507019 AACCCTAAAA
*
16507029 TATACAAGGATTATTTAAGGCATTTT
1 TATA-AAGGATTATTTAAAGCATTTT
*
16507055 TATAAATGATTATTTAAAGCATTTT
1 TATAAAGGATTATTTAAAGCATTTT
16507080 T
1 T
16507081 TGTATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.46
Consensus pattern (25 bp):
TATAAAGGATTATTTAAAGCATTTT
Found at i:16509402 original size:87 final size:87
Alignment explanation
Indices: 16509293--16509467 Score: 287
Period size: 87 Copynumber: 2.0 Consensus size: 87
16509283 AAAAATTTTA
* *
16509293 TATTGTGTAAAATAGACTTCCACTAAACACTCTCTCCCTGTATATATTGGTCAGAAATTATTTAA
1 TATTGTGTAAAATAGACCTCCACTAAACACTCTCTCCCTATATATATTGGTCAGAAATTATTTAA
16509358 TAGGAATTCAATGCCTAATCTC
66 TAGGAATTCAATGCCTAATCTC
* * * *
16509380 TATTGTGTAAAGTAGTCCTCCACTATACACTCTCTCCCTATATATATTGGTTAGAAATTATTTAA
1 TATTGTGTAAAATAGACCTCCACTAAACACTCTCTCCCTATATATATTGGTCAGAAATTATTTAA
*
16509445 TAGGGATTCAATGCCTAATCTC
66 TAGGAATTCAATGCCTAATCTC
16509467 T
1 T
16509468 CTATAAATAG
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (87 bp):
TATTGTGTAAAATAGACCTCCACTAAACACTCTCTCCCTATATATATTGGTCAGAAATTATTTAA
TAGGAATTCAATGCCTAATCTC
Found at i:16510303 original size:2 final size:2
Alignment explanation
Indices: 16510290--16510326 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
16510280 GATGATGCAG
*
16510290 TC TC TC TA TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
16510327 ATATGAACCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.03, C:0.46, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:16511421 original size:7 final size:7
Alignment explanation
Indices: 16511409--16511494 Score: 56
Period size: 7 Copynumber: 12.6 Consensus size: 7
16511399 TATGGTAATC
16511409 ATTTTTT
1 ATTTTTT
16511416 ATTTTTT
1 ATTTTTT
*
16511423 ATTTTGGT
1 ATTTT-TT
16511431 A-TTTTT
1 ATTTTTT
16511437 A-TTTTT
1 ATTTTTT
*
16511443 -CTTTTT
1 ATTTTTT
*
16511449 A-GTTTT
1 ATTTTTT
16511455 ATTTATTT
1 ATTT-TTT
16511463 ATTTTCTT
1 ATTTT-TT
**
16511471 ATTAATT
1 ATTTTTT
*
16511478 A-ATTTT
1 ATTTTTT
16511484 ATTTTTT
1 ATTTTTT
16511491 ATTT
1 ATTT
16511495 ACATACATAT
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
6 20 0.32
7 28 0.45
8 14 0.23
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76
Consensus pattern (7 bp):
ATTTTTT
Found at i:16511427 original size:6 final size:6
Alignment explanation
Indices: 16511411--16511458 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
16511401 TGGTAATCAT
* *
16511411 TTTTTA TTTTTTA TTTTGGTA TTTTTA TTTTTC TTTTTA GTTTTA TTT
1 TTTTTA -TTTTTA TTTT--TA TTTTTA TTTTTA TTTTTA TTTTTA TTT
16511459 ATTTATTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
6 23 0.66
7 6 0.17
8 6 0.17
ACGTcount: A:0.12, C:0.02, G:0.06, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:16511435 original size:21 final size:19
Alignment explanation
Indices: 16511411--16511467 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
16511401 TGGTAATCAT
16511411 TTTTTATTTTTTATTTTGGTA
1 TTTTTATTTTTTATTTT--TA
*
16511432 TTTTTA-TTTTTCTTTTTA
1 TTTTTATTTTTTATTTTTA
*
16511450 GTTTTATTTATTTATTTT
1 TTTTTATTT-TTTATTTT
16511468 CTTATTAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 7 0.23
19 2 0.06
20 16 0.52
21 6 0.19
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (19 bp):
TTTTTATTTTTTATTTTTA
Found at i:16516042 original size:119 final size:119
Alignment explanation
Indices: 16515940--16516248 Score: 348
Period size: 119 Copynumber: 2.6 Consensus size: 119
16515930 TCCAAAAACT
* **
16515940 ATGTTTCTAC-AAAAAACTTAGTCTTTGTATGTTTTTTTTTTTTTTTTTC-ATTAAAGATCATGT
1 ATGTTTCCACTAAAAAACTTAGTCTTTGTATG-TTTTTTTTTTTTTTTTCAATTAAAGATCACAT
* * *
16516003 TTCCACTTTA-AAAAATAAAATCTTTGTATATTTAATTTTTCTTTCAATTAAAGACC
65 TTCCACTTAAGAAAAACAAAATCTTTGTATATTTAATTTTTC--TCAATCAAAGACC
* **
16516059 ATGTTTCCACTTAAAGAAA-TGTAGTCTTTATATG--TTTAATTTTTTTTTCAATTAAAGATCAC
1 ATGTTTCCAC-TAAA-AAACT-TAGTCTTTGTATGTTTTTTTTTTTTTTTTCAATTAAAGATCAC
* * *
16516121 ATTTCCACTTAAGAAAAACATAATCTTTGTATGTTTATTTTTTCTCAATCAAAGACC
63 ATTTCCACTTAAGAAAAACAAAATCTTTGTATATTTAATTTTTCTCAATCAAAGACC
* *
16516178 ACGTTTCCACATACAAAAACTTAGTCTTTGTATG--TGTTTTTTTTTTTT-AATTAAAGATCACA
1 ATGTTTCCAC-TA-AAAAACTTAGTCTTTGTATGTTTTTTTTTTTTTTTTCAATTAAAGATCACA
*
16516240 TTTCTACTT
64 TTTCCACTT
16516249 TATAAAACGT
Statistics
Matches: 163, Mismatches: 19, Indels: 17
0.82 0.10 0.09
Matches are distributed among these distances:
118 22 0.13
119 71 0.44
120 24 0.15
121 31 0.19
122 15 0.09
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (119 bp):
ATGTTTCCACTAAAAAACTTAGTCTTTGTATGTTTTTTTTTTTTTTTTCAATTAAAGATCACATT
TCCACTTAAGAAAAACAAAATCTTTGTATATTTAATTTTTCTCAATCAAAGACC
Found at i:16516064 original size:60 final size:60
Alignment explanation
Indices: 16515979--16516319 Score: 281
Period size: 60 Copynumber: 5.7 Consensus size: 60
16515969 TGTTTTTTTT
* * * *
16515979 TTTTTTTTTC-ATTAAAGATCATGTTTCCACTTTAAAAAATAAAATCTTTGTATATTTAA
1 TTTTTTTTTCAATTAAAGACCACGTTTCCACTTTAAAAAATATAATCTTTGTATGTTTAA
* * * * *
16516038 TTTTTCTTTCAATTAAAGACCATGTTTCCAC-TTAAAGAAATGTAGTCTTTATATGTTTAA
1 TTTTTTTTTCAATTAAAGACCACGTTTCCACTTTAAA-AAATATAATCTTTGTATGTTTAA
* * * *
16516098 TTTTTTTTTCAATTAAAGATCACATTTCCACTTAAGAAAAACATAATCTTTGTATGTTT-A
1 TTTTTTTTTCAATTAAAGACCACGTTTCCACTTTA-AAAAATATAATCTTTGTATGTTTAA
* * * *
16516158 -TTTTTTCTCAATCAAAGACCACGTTTCCAC-ATACAAAAACT-TAGTCTTTGTATGTGTT--
1 TTTTTTTTTCAATTAAAGACCACGTTTCCACTTTA-AAAAA-TATAATCTTTGTATGT-TTAA
* * * * * ** ***
16516216 TTTTTTTTTTAATTAAAGATCACATTTCTACTTTATAAAACGTAAT-TTT-TATACAATAA
1 TTTTTTTTTCAATTAAAGACCACGTTTCCACTTTAAAAAATATAATCTTTGTAT-GTTTAA
*
16516275 TTTTTTTTTTCAATTAAAGACCACATATT-CACTTTAAAAAATATA
1 -TTTTTTTTTCAATTAAAGACCACGT-TTCCACTTTAAAAAATATA
16516320 GTTTTCGAAA
Statistics
Matches: 224, Mismatches: 44, Indels: 27
0.76 0.15 0.09
Matches are distributed among these distances:
57 4 0.02
58 22 0.10
59 73 0.33
60 102 0.46
61 21 0.09
62 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.45
Consensus pattern (60 bp):
TTTTTTTTTCAATTAAAGACCACGTTTCCACTTTAAAAAATATAATCTTTGTATGTTTAA
Found at i:16516315 original size:119 final size:115
Alignment explanation
Indices: 16515950--16516315 Score: 337
Period size: 119 Copynumber: 3.1 Consensus size: 115
16515940 ATGTTTCTAC
* **
16515950 AAAAAACTTAGTCTTTGTATGTTTTTTTTTTTTTTTTTCATTAAAGATCATGTTTCCACTTTAAA
1 AAAAAACTTAGTCTTTGTATG----TTTTTTTTTTTTTAATTAAAGATCACATTTCCACTTTAAA
* * * * *
16516015 AAATAAAATCTTTGTATATTTAA-TTTTTCTTTCAATTAAAGACCATGTTTCCACTT
62 AAACATAAT-TTT-TATA-ATAATTTTTTTTTTCAATTAAAGACCACGTTTCCACTT
* * *
16516071 AAAGAAA-TGTAGTCTTTATATGTTTAATTTTTTTTTCAATTAAAGATCACATTTCCACTTAAGA
1 AAA-AAACT-TAGTCTTTGTATGTTT--TTTTTTTTTTAATTAAAGATCACATTTCCACTTTA-A
* * * * *
16516135 AAAACATAATCTTTGT-AT-GTTTATTTTTTCTCAATCAAAGACCACGTTTCCACAT
61 AAAACATAATTTTTATAATAATTT-TTTTTT-TCAATTAAAGACCACGTTTCCACTT
* *
16516190 ACAAAAACTTAGTCTTTGTATGTGTTTTTTTTTTTTAATTAAAGATCACATTTCTACTTTATAAA
1 A-AAAAACTTAGTCTTTGTATGT-TTTTTTTTTTTTAATTAAAGATCACATTTCCACTTTAAAAA
* *
16516255 ACGTAATTTTTATACAATAATTTTTTTTTTCAATTAAAGACCACATATT-CACTTT
64 ACATAATTTTTAT--AATAATTTTTTTTTTCAATTAAAGACCACGT-TTCCAC-TT
16516310 AAAAAA
1 AAAAAA
16516316 TATAGTTTTC
Statistics
Matches: 200, Mismatches: 28, Indels: 36
0.76 0.11 0.14
Matches are distributed among these distances:
117 16 0.08
118 40 0.20
119 64 0.32
120 49 0.25
121 16 0.08
122 15 0.08
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (115 bp):
AAAAAACTTAGTCTTTGTATGTTTTTTTTTTTTTAATTAAAGATCACATTTCCACTTTAAAAAAC
ATAATTTTTATAATAATTTTTTTTTTCAATTAAAGACCACGTTTCCACTT
Found at i:16518105 original size:15 final size:15
Alignment explanation
Indices: 16518027--16518170 Score: 80
Period size: 16 Copynumber: 9.5 Consensus size: 15
16518017 CATTTTTTAA
*
16518027 AAAAACCAAAACCCT
1 AAAATCCAAAACCCT
* * *
16518042 AGGATTCTAAAACCCAT
1 A-AAATCCAAAACCC-T
16518059 AAAATCCAAAATCCCT
1 AAAATCCAAAA-CCCT
* **
16518075 TAAATCCAACCCCCCT
1 AAAATCCAA-AACCCT
16518091 AAAATCCAAAACCCT
1 AAAATCCAAAACCCT
* *
16518106 AAAATCTC--AGCCTT
1 AAAATC-CAAAACCCT
** *
16518120 TCAATCC-AAACCCC
1 AAAATCCAAAACCCT
*
16518134 AAAATTCAAAACCCCT
1 AAAATCCAAAA-CCCT
*
16518150 AAAAT-CAAAACCTT
1 AAAATCCAAAACCCT
16518164 AAAATCC
1 AAAATCC
16518171 GAATCTTCAA
Statistics
Matches: 95, Mismatches: 25, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
13 1 0.01
14 23 0.24
15 20 0.21
16 46 0.48
17 5 0.05
ACGTcount: A:0.47, C:0.33, G:0.02, T:0.18
Consensus pattern (15 bp):
AAAATCCAAAACCCT
Found at i:16526590 original size:21 final size:21
Alignment explanation
Indices: 16526527--16526590 Score: 83
Period size: 22 Copynumber: 3.0 Consensus size: 21
16526517 GATTTGTAAA
* *
16526527 ACCTCCGGACATAATCTCTAAG
1 ACCTCCGGGCATAATTTC-AAG
16526549 ACCTCCGGGCATAACTTTCAAG
1 ACCTCCGGGCATAA-TTTCAAG
*
16526571 ACTTCCGGGCATAATTTCAA
1 ACCTCCGGGCATAATTTCAA
16526591 TTCGTGGTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.16
22 29 0.76
23 3 0.08
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.25
Consensus pattern (21 bp):
ACCTCCGGGCATAATTTCAAG
Found at i:16526695 original size:23 final size:23
Alignment explanation
Indices: 16526648--16526707 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
16526638 TATCCCAATC
* *
16526648 GATTCTGTAAGACCTCCGGGTAT
1 GATTCTGTAAGACCTCCAGGCAT
* *
16526671 GATTCTGTAAGACTTTCAGGCAT
1 GATTCTGTAAGACCTCCAGGCAT
*
16526694 GATT-TTTAAGACCT
1 GATTCTGTAAGACCT
16526708 TCGAACATAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
22 8 0.26
23 23 0.74
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (23 bp):
GATTCTGTAAGACCTCCAGGCAT
Found at i:16526816 original size:23 final size:23
Alignment explanation
Indices: 16526781--16526829 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
16526771 ATCCCAATCA
*
16526781 ATTCTGTAAGACCTCCGAGCATG
1 ATTCTATAAGACCTCCGAGCATG
* *
16526804 ATTCTATATGACCTCCGAGTATG
1 ATTCTATAAGACCTCCGAGCATG
16526827 ATT
1 ATT
16526830 TTTAAGATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (23 bp):
ATTCTATAAGACCTCCGAGCATG
Found at i:16526828 original size:132 final size:133
Alignment explanation
Indices: 16526608--16527061 Score: 506
Period size: 133 Copynumber: 3.4 Consensus size: 133
16526598 TATTATCCTA
* * *
16526608 ATCGATTCCTTATCTTTTGACTTGCGATATTATCCCAATCGATTCTGTAAGACCTCCGGGTATGA
1 ATCGATTCCTTATCTTTTGACTTACGATATTATCCCAATCGATTCTGTAAGACCTCCGAGCATGA
* * *
16526673 TTCTGTAAGACTTTC-AGGCATGATTTTTAAGACCTTCGAACATAATTTTGATTCGCGATATTAT
66 TTCTGTAAGACTTCCGA-GCATGATTTTTAAGACCTTCGAATATAATTTTGATTCGCGATGTTAT
16526737 CTCG
130 CTCG
* *
16526741 ATCGATTTCTTATCTTTTGAC-TACGATATTATCCCAATCAATTCTGTAAGACCTCCGAGCATGA
1 ATCGATTCCTTATCTTTTGACTTACGATATTATCCCAATCGATTCTGTAAGACCTCCGAGCATGA
* * * * *
16526805 TTCTATATGACCTCCGAGTATGATTTTTAAGATCTTC-AAGTATAATTTTGATTCGCGATGTTAT
66 TTCTGTAAGACTTCCGAGCATGATTTTTAAGACCTTCGAA-TATAATTTTGATTCGCGATGTTAT
*
16526869 CTCA
130 CTCG
* * * * * * *
16526873 ATCAATTCCTTAGCTTTCGACTAACGATGTTATCCCAATCGATTCTGTAAGACTTTC-ATGCATG
1 ATCGATTCCTTATCTTTTGACTTACGATATTATCCCAATCGATTCTGTAAGACCTCCGA-GCATG
* * * * * * * **
16526937 ATTCTGTAAAACTTCCGAACATGATTTCTAAAACCTCCGAGTATAAATTTGATTC-ATAGTGTTA
65 ATTCTGTAAGACTTCCGAGCATGATTTTTAAGACCTTCGAATATAATTTTGATTCGCGA-TGTTA
* *
16527001 ACCCG
129 TCTCG
* * *
16527006 ATTGATT-CTTGATTTTTTGACTTACGATGTTATCCCAATCGATTCTGTAAGACCTC
1 ATCGATTCCTT-ATCTTTTGACTTACGATATTATCCCAATCGATTCTGTAAGACCTC
16527062 TGGATATAAT
Statistics
Matches: 266, Mismatches: 48, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
131 2 0.01
132 115 0.43
133 148 0.56
134 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (133 bp):
ATCGATTCCTTATCTTTTGACTTACGATATTATCCCAATCGATTCTGTAAGACCTCCGAGCATGA
TTCTGTAAGACTTCCGAGCATGATTTTTAAGACCTTCGAATATAATTTTGATTCGCGATGTTATC
TCG
Found at i:16526975 original size:22 final size:23
Alignment explanation
Indices: 16526933--16526976 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
16526923 GACTTTCATG
* *
16526933 CATGATTCTGTAAAACTTCCGAA
1 CATGATTCTCTAAAACCTCCGAA
16526956 CATGATT-TCTAAAACCTCCGA
1 CATGATTCTCTAAAACCTCCGA
16526977 GTATAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (23 bp):
CATGATTCTCTAAAACCTCCGAA
Found at i:16527182 original size:22 final size:22
Alignment explanation
Indices: 16527140--16527182 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
16527130 GTCGATTCTA
*
16527140 TAAGACCTCCGGACATGATTTC
1 TAAGACCTCCGGACATAATTTC
* *
16527162 TAAGACCTCTGGGCATAATTT
1 TAAGACCTCCGGACATAATTT
16527183 TGATTCGCGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (22 bp):
TAAGACCTCCGGACATAATTTC
Found at i:16527244 original size:109 final size:109
Alignment explanation
Indices: 16527053--16527259 Score: 319
Period size: 109 Copynumber: 1.9 Consensus size: 109
16527043 ATCGATTCTG
* * *
16527053 TAAGACCTCTGGATATAATTTTGATTCGCGGTATTATCCTGATCGATTTCTTATCTTTCGATTGC
1 TAAGACCTCTGGACATAATTTTGATTCGCGGTATTATCCTGATCGATTTCTTATCTTTCGACTAC
16527118 GATGTTATCCCAGTCGATTCTATAAGACCTCCGGACATGATTTC
66 GATGTTATCCCAGTCGATTCTATAAGACCTCCGGACATGATTTC
* * *
16527162 TAAGACCTCTGGGCATAATTTTGATTCGCGGTGTTAT-CTCGATCGATTTTTTATCTTTCGACTA
1 TAAGACCTCTGGACATAATTTTGATTCGCGGTATTATCCT-GATCGATTTCTTATCTTTCGACTA
*
16527226 C-AGTGTTATCCCAGTCGATTCTGTAAGACCTCCG
65 CGA-TGTTATCCCAGTCGATTCTATAAGACCTCCG
16527260 AGCATAATTT
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
108 3 0.03
109 86 0.97
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (109 bp):
TAAGACCTCTGGACATAATTTTGATTCGCGGTATTATCCTGATCGATTTCTTATCTTTCGACTAC
GATGTTATCCCAGTCGATTCTATAAGACCTCCGGACATGATTTC
Found at i:16527267 original size:87 final size:87
Alignment explanation
Indices: 16527162--16527341 Score: 261
Period size: 87 Copynumber: 2.1 Consensus size: 87
16527152 ACATGATTTC
* * * * * * **
16527162 TAAGACCTCTGGGCATAATTTTGATTCGCGGTGTTATCTCGATCGATTTTTTATCTTTCGACTAC
1 TAAGACCTCCGAGCATAATTTTGATTCACGGTGTTATCCCAATCAATTCCTTATCTTTCGACTAC
16527227 AGTGTTATCCCAGTCGATTCTG
66 AGTGTTATCCCAGTCGATTCTG
16527249 TAAGACCTCCGAGCATAATTTTGATTCACGGTGTTATCCCAATCAATTCCTTATCTTTCGACTAC
1 TAAGACCTCCGAGCATAATTTTGATTCACGGTGTTATCCCAATCAATTCCTTATCTTTCGACTAC
* * *
16527314 GGTGTTATTCTAGTCGATTCTG
66 AGTGTTATCCCAGTCGATTCTG
16527336 TAAGAC
1 TAAGAC
16527342 TTCTAAGCAT
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 82 1.00
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (87 bp):
TAAGACCTCCGAGCATAATTTTGATTCACGGTGTTATCCCAATCAATTCCTTATCTTTCGACTAC
AGTGTTATCCCAGTCGATTCTG
Found at i:16527304 original size:196 final size:196
Alignment explanation
Indices: 16526936--16527420 Score: 532
Period size: 196 Copynumber: 2.5 Consensus size: 196
16526926 TTTCATGCAT
* * * * * * * ***
16526936 GATTCTGTAAAACTTCCGAA-CATGATTTCTAAAACCTCCGAGTATAAATTTGATTCATAGTGTT
1 GATTCTATAAGAC-TCCGAAGCATGATTTCTAAGACCTTCGGGCATAATTTTGATTCGCGGTGTT
* ** * * *
16527000 AACCCGATTGA-TTCTTGATTTTTTGACTTAC-GATGTTATCCCAATCGATTCTGTAAGACCTCT
65 ATCCCGATCAATTTCTT-ATCTTTCGAC-TACAG-TGTTATCCCAATCGATTCTGTAAGACCTCC
* * ** * * * *
16527063 GGATATAATTTTGATTCGCGGTATTATCCTGATCGATTTCTTATCTTTCGATTGCGATGTTATCC
127 GGACATAATTTTGATTCACGGTATTATCCCAATCAATTCCTTATCTTTCGACTACGATGTTATCC
16527128 CAGTC
192 CAGTC
*
16527133 GATTCTATAAGACCTCCGGA-CATGATTTCTAAGACC-TCTGGGCATAATTTTGATTCGCGGTGT
1 GATTCTATAAGA-CTCCGAAGCATGATTTCTAAGACCTTC-GGGCATAATTTTGATTCGCGGTGT
* * * *
16527196 TATCTCGATCGATTTTTTATCTTTCGACTACAGTGTTATCCCAGTCGATTCTGTAAGACCTCC-G
64 TATCCCGATCAATTTCTTATCTTTCGACTACAGTGTTATCCCAATCGATTCTGTAAGACCTCCGG
* * * *
16527260 AGCATAATTTTGATTCACGGTGTTATCCCAATCAATTCCTTATCTTTCGACTACGGTGTTATTCT
129 A-CATAATTTTGATTCACGGTATTATCCCAATCAATTCCTTATCTTTCGACTACGATGTTATCCC
16527325 AGTC
193 AGTC
* * * *
16527329 GATTCTGTAAGACTTCTAAGCATGATTTCTAAGACCTTCGGGTATAATTTTGATTCGCGGTGTTA
1 GATTCTATAAGACTCCGAAGCATGATTTCTAAGACCTTCGGGCATAATTTTGATTCGCGGTGTTA
16527394 TCCCGATCAATTTCTTATCTTTCGACT
66 TCCCGATCAATTTCTTATCTTTCGACT
16527421 TGTGGTGTCA
Statistics
Matches: 242, Mismatches: 39, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
195 6 0.02
196 163 0.67
197 68 0.28
198 5 0.02
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.39
Consensus pattern (196 bp):
GATTCTATAAGACTCCGAAGCATGATTTCTAAGACCTTCGGGCATAATTTTGATTCGCGGTGTTA
TCCCGATCAATTTCTTATCTTTCGACTACAGTGTTATCCCAATCGATTCTGTAAGACCTCCGGAC
ATAATTTTGATTCACGGTATTATCCCAATCAATTCCTTATCTTTCGACTACGATGTTATCCCAGT
C
Found at i:16527491 original size:22 final size:22
Alignment explanation
Indices: 16527463--16527505 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16527453 TTTGGACATC
*
16527463 ATTTTTAAAACCTCCGGGCATG
1 ATTTTTAAAACCTCCGAGCATG
*
16527485 ATTTTTAAGACCTCCGAGCAT
1 ATTTTTAAAACCTCCGAGCAT
16527506 AAATTTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (22 bp):
ATTTTTAAAACCTCCGAGCATG
Found at i:16528132 original size:15 final size:14
Alignment explanation
Indices: 16528090--16528133 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
16528080 CCAGACCACA
*
16528090 AAAAAAAAACAAAC
1 AAAAAAATACAAAC
* *
16528104 AGAAAAATAGAAAC
1 AAAAAAATACAAAC
16528118 AAAAAAATGACAAAC
1 AAAAAAAT-ACAAAC
16528133 A
1 A
16528134 TAGTCATCCC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.77, C:0.11, G:0.07, T:0.05
Consensus pattern (14 bp):
AAAAAAATACAAAC
Found at i:16529194 original size:16 final size:15
Alignment explanation
Indices: 16529152--16529326 Score: 76
Period size: 16 Copynumber: 11.5 Consensus size: 15
16529142 CTTTTTTTTA
*
16529152 AAAAGCCAAAACCCT
1 AAAATCCAAAACCCT
* *
16529167 AAGATTCTAAAACCCCT
1 AA-AATCCAAAA-CCCT
*
16529184 AAAATCCAAAATTCCT
1 AAAATCCAAAA-CCCT
*
16529200 TAAATCC-AAACTCTCT
1 AAAATCCAAAAC-C-CT
*
16529216 AAAATCCGAAACCCT
1 AAAATCCAAAACCCT
*
16529231 AAAA-CCTTTAAACTCCT
1 AAAATCC--AAAAC-CCT
16529248 -AAATCCAAAACCCT
1 AAAATCCAAAACCCT
**
16529262 AAAATTCC--AACATT
1 AAAA-TCCAAAACCCT
* * *
16529276 TAAATCC-AGACCCC
1 AAAATCCAAAACCCT
*
16529290 AAAATTCAAAACCACT
1 AAAATCCAAAACC-CT
* *
16529306 AAAAT-CAAAATCTT
1 AAAATCCAAAACCCT
16529320 AAAATCC
1 AAAATCC
16529327 GAATCTTCAA
Statistics
Matches: 120, Mismatches: 25, Indels: 30
0.69 0.14 0.17
Matches are distributed among these distances:
13 3 0.03
14 25 0.21
15 30 0.25
16 47 0.39
17 15 0.12
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAATCCAAAACCCT
Found at i:16530641 original size:29 final size:30
Alignment explanation
Indices: 16530596--16530656 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
16530586 GAGCAAGTTA
16530596 TATTTTTGATCACTT-AACTTTGCAAAAACTT
1 TATTTTTGATCACTTAAACTTTG-AAAAA-TT
16530627 TATTTTTG-TCA-TTAAACTTTGAAAAATT
1 TATTTTTGATCACTTAAACTTTGAAAAATT
16530655 TA
1 TA
16530657 CAATTTGTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
28 4 0.14
29 7 0.24
30 10 0.34
31 8 0.28
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (30 bp):
TATTTTTGATCACTTAAACTTTGAAAAATT
Found at i:16531779 original size:28 final size:26
Alignment explanation
Indices: 16531730--16531783 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
16531720 TACTTTTTAT
16531730 AAAATCATATTTTAAATTTTTTTAAAAA
1 AAAATCATATTTTAAA--TTTTTAAAAA
16531758 AAAATCAATATTTTGAAA-TTTTAAAA
1 AAAATC-ATATTTT-AAATTTTTAAAA
16531784 TATTATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 8 0.33
28 6 0.25
29 7 0.29
30 3 0.12
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (26 bp):
AAAATCATATTTTAAATTTTTAAAAA
Found at i:16531793 original size:22 final size:20
Alignment explanation
Indices: 16531774--16531835 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 20
16531764 AATATTTTGA
16531774 AATTTTAAAATATTATTTTTCT
1 AATTTTAAAATATTA-TTTT-T
* *
16531796 TATTTTAAAATATTAAATTTT
1 AATTTTAAAATATT-ATTTTT
* *
16531817 ATTTTTAAAAAATTATTTT
1 AATTTTAAAATATTATTTT
16531836 AAGTTTTTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 4 0.12
21 12 0.36
22 16 0.48
23 1 0.03
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
AATTTTAAAATATTATTTTT
Found at i:16531821 original size:29 final size:30
Alignment explanation
Indices: 16531766--16531822 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
16531756 AAAAAATCAA
* *
16531766 TATTTTGAAATTTTAAAATATTATTTTTCT
1 TATTTTAAAATATTAAAATATTATTTTTCT
*
16531796 TATTTTAAAATATT-AAATTTTATTTTT
1 TATTTTAAAATATTAAAATATTATTTTT
16531823 AAAAAATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (30 bp):
TATTTTAAAATATTAAAATATTATTTTTCT
Found at i:16532429 original size:25 final size:24
Alignment explanation
Indices: 16532386--16532433 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
16532376 ATTCCAAAAA
16532386 ATTAAAAAAAAAATGAAATATTTTG
1 ATTAAAAAAAAAATGAAAT-TTTTG
* * *
16532411 ATTAAATAAAAAGTTAAATTTTT
1 ATTAAAAAAAAAATGAAATTTTT
16532434 AAAAAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (24 bp):
ATTAAAAAAAAAATGAAATTTTTG
Found at i:16532612 original size:23 final size:23
Alignment explanation
Indices: 16532550--16532614 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
16532540 TAATATTAAA
*
16532550 TTTTT-AAAAATATAAAATCTGAC
1 TTTTTAAAAAAT-TAAAATATGAC
* *
16532573 TTTATAAAATAA-AAAAATATGAC
1 TTTTTAAAA-AATTAAAATATGAC
16532596 TTTTTAAAAAATTAAAATA
1 TTTTTAAAAAATTAAAATA
16532615 GTTAAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
22 2 0.06
23 27 0.79
24 3 0.09
25 2 0.06
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (23 bp):
TTTTTAAAAAATTAAAATATGAC
Found at i:16533210 original size:22 final size:23
Alignment explanation
Indices: 16533185--16533228 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
16533175 TTTAATTTAA
16533185 TAATTAATAAAAAT-AAAAGATT
1 TAATTAATAAAAATGAAAAGATT
* *
16533207 TAATTTATACAAATGAAAAGAT
1 TAATTAATAAAAATGAAAAGAT
16533229 AGATACTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (23 bp):
TAATTAATAAAAATGAAAAGATT
Found at i:16533346 original size:8 final size:8
Alignment explanation
Indices: 16533324--16533410 Score: 52
Period size: 8 Copynumber: 10.2 Consensus size: 8
16533314 TTTTTTAATC
*
16533324 TTATAATT
1 TTATATTT
16533332 TTA-ATTT
1 TTATATTT
16533339 TTATATTT
1 TTATATTT
16533347 TTATGAATTT
1 TTAT--ATTT
* *
16533357 TAAATATAT
1 T-TATATTT
16533366 TTATATTT
1 TTATATTT
16533374 TATATATTT
1 T-TATATTT
* *
16533383 TAAAATTT
1 TTATATTT
16533391 TT-TAATTTT
1 TTAT-A-TTT
16533400 TTATAATTT
1 TTAT-ATTT
16533409 TT
1 TT
16533411 TAAAAATATT
Statistics
Matches: 62, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
7 6 0.10
8 24 0.39
9 22 0.35
10 8 0.13
11 2 0.03
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (8 bp):
TTATATTT
Found at i:16533381 original size:9 final size:9
Alignment explanation
Indices: 16533324--16533384 Score: 53
Period size: 9 Copynumber: 7.3 Consensus size: 9
16533314 TTTTTTAATC
16533324 TTATA-ATT
1 TTATATATT
16533332 TTA-AT-TT
1 TTATATATT
16533339 TTATAT-TT
1 TTATATATT
16533347 TTATGA-ATT
1 TTAT-ATATT
* *
16533356 TTAAATATA
1 TTATATATT
16533365 TT-TATATT
1 TTATATATT
16533373 TTATATATT
1 TTATATATT
16533382 TTA
1 TTA
16533385 AAATTTTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
7 6 0.14
8 18 0.42
9 19 0.44
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (9 bp):
TTATATATT
Found at i:16533388 original size:27 final size:27
Alignment explanation
Indices: 16533338--16533421 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
16533328 AATTTTAATT
16533338 TTTATATTTT-TATGAATTTT-AAATATA
1 TTTATATTTTATAT--ATTTTAAAATATA
*
16533365 TTTATATTTTATATATTTTAAAAT-TT
1 TTTATATTTTATATATTTTAAAATATA
* *
16533391 TTTAATTTTTTATAATTTTTTAAAA-ATA
1 TTT-ATATTTTAT-ATATTTTAAAATATA
16533419 TTT
1 TTT
16533422 CAAAATTTTG
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
26 9 0.19
27 22 0.46
28 17 0.35
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (27 bp):
TTTATATTTTATATATTTTAAAATATA
Found at i:16533390 original size:17 final size:16
Alignment explanation
Indices: 16533324--16533391 Score: 59
Period size: 17 Copynumber: 4.1 Consensus size: 16
16533314 TTTTTTAATC
*
16533324 TTATA-ATTTTAATTT
1 TTATATATTTTAAATT
16533339 TTATAT-TTTTATGAATT
1 TTATATATTTTA--AATT
* *
16533356 TTAAATATATTTATATT
1 TTATATAT-TTTAAATT
16533373 TTATATATTTTAAAATT
1 TTATATATTTT-AAATT
16533390 TT
1 TT
16533392 TTAATTTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
15 10 0.24
16 3 0.07
17 24 0.57
18 1 0.02
19 4 0.10
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (16 bp):
TTATATATTTTAAATT
Found at i:16533395 original size:10 final size:10
Alignment explanation
Indices: 16533380--16533430 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
16533370 ATTTTATATA
16533380 TTTTAAAATT
1 TTTTAAAATT
16533390 TTTT--AATT
1 TTTTAAAATT
*
16533398 TTTTATAATT
1 TTTTAAAATT
*
16533408 TTTTAAAAATA
1 TTTT-AAAATT
*
16533419 TTTCAAAATT
1 TTTTAAAATT
16533429 TT
1 TT
16533431 GAAACTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 8 0.24
10 19 0.56
11 7 0.21
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:16533456 original size:10 final size:9
Alignment explanation
Indices: 16533380--16533465 Score: 50
Period size: 9 Copynumber: 9.4 Consensus size: 9
16533370 ATTTTATATA
16533380 TTTTAAAAT
1 TTTTAAAAT
* *
16533389 TTTTTAATT
1 TTTTAAAAT
*
16533398 TTTTATAATT
1 TTTTA-AAAT
16533408 TTTTAAAAAT
1 TTTT-AAAAT
*
16533418 ATTTCAAAAT
1 -TTTTAAAAT
* *
16533428 TTTGAAACT
1 TTTTAAAAT
*
16533437 TTTT--TAT
1 TTTTAAAAT
*
16533444 TTTCAAAAT
1 TTTTAAAAT
*
16533453 TTTTAAAGT
1 TTTTAAAAT
16533462 TTTT
1 TTTT
16533466 GTGAATCTTT
Statistics
Matches: 58, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
7 4 0.07
9 34 0.59
10 16 0.28
11 4 0.07
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.59
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:16533613 original size:38 final size:37
Alignment explanation
Indices: 16533571--16533642 Score: 108
Period size: 38 Copynumber: 1.9 Consensus size: 37
16533561 TTAAGTTTTC
* *
16533571 ATTTTTTGAATTTTTATAATTTCTAAAAATATTTCAAA
1 ATTTTTTAAAATTTTATAATTT-TAAAAATATTTCAAA
*
16533609 ATTTTTTAAAATTTTATAATTTTTAAAATATTTC
1 ATTTTTTAAAATTTTATAATTTTAAAAATATTTC
16533643 TTTTTTCTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 11 0.35
38 20 0.65
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.56
Consensus pattern (37 bp):
ATTTTTTAAAATTTTATAATTTTAAAAATATTTCAAA
Found at i:16534271 original size:14 final size:14
Alignment explanation
Indices: 16534261--16534290 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16534251 TTAAAAAATT
16534261 AATTTTCAAAAAAAA
1 AATTTTC-AAAAAAA
16534276 AATTTTCAAAAAAA
1 AATTTTCAAAAAAA
16534290 A
1 A
16534291 TTTATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (14 bp):
AATTTTCAAAAAAA
Found at i:16534273 original size:15 final size:15
Alignment explanation
Indices: 16534261--16534290 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16534251 TTAAAAAATT
16534261 AATTTTCAAAAAAAA
1 AATTTTCAAAAAAAA
16534276 AATTTTCAAAAAAAA
1 AATTTTCAAAAAAAA
16534291 TTTATATTTT
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:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (15 bp):
AATTTTCAAAAAAAA
Found at i:16534447 original size:27 final size:27
Alignment explanation
Indices: 16534410--16534477 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
16534400 TTAATATAAC
16534410 TATT-AAA-ATATTAAAAATTATTTAT
1 TATTAAAATATATTAAAAATTATTTAT
* *
16534435 TATTAAAATATATTAAAATTTTTTTAT
1 TATTAAAATATATTAAAAATTATTTAT
* * *
16534462 TAATATATTATATTAA
1 TATTAAAATATATTAA
16534478 TAGTATATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
25 4 0.11
26 3 0.08
27 29 0.81
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
TATTAAAATATATTAAAAATTATTTAT
Found at i:16534469 original size:24 final size:26
Alignment explanation
Indices: 16534410--16534471 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
16534400 TTAATATAAC
16534410 TATTAAA-ATATTAAAAATTATTTAT
1 TATTAAATATATTAAAAATTATTTAT
16534435 TATTAAAATATATT-AAAATT-TTT-T
1 TATT-AAATATATTAAAAATTATTTAT
16534459 TATT-AATATATTA
1 TATTAAATATATTA
16534472 TATTAATAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
22 8 0.24
24 5 0.15
25 7 0.21
26 9 0.26
27 5 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TATTAAATATATTAAAAATTATTTAT
Found at i:16534493 original size:18 final size:17
Alignment explanation
Indices: 16534464--16534577 Score: 98
Period size: 18 Copynumber: 6.8 Consensus size: 17
16534454 TTTTTTATTA
16534464 ATATATTA--TATTAAT
1 ATATATTATTTATTAAT
*
16534479 AGTATATTATTTATTCAT
1 A-TATATTATTTATTAAT
16534497 ATAATATTATTTATTAAT
1 AT-ATATTATTTATTAAT
*
16534515 ATAT-TGTA-ATA-TAAT
1 ATATAT-TATTTATTAAT
*
16534530 AT-TTTTATTTATATAAT
1 ATATATTATTTAT-TAAT
16534547 AT-TATGTATTTATTAAT
1 ATATAT-TATTTATTAAT
16534564 ATAATATTATTTAT
1 AT-ATATTATTTAT
16534578 AAGTAAAATT
Statistics
Matches: 82, Mismatches: 5, Indels: 21
0.76 0.05 0.19
Matches are distributed among these distances:
14 3 0.04
15 10 0.12
16 10 0.12
17 19 0.23
18 37 0.45
19 3 0.04
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (17 bp):
ATATATTATTTATTAAT
Found at i:16534504 original size:15 final size:15
Alignment explanation
Indices: 16534481--16534549 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
16534471 ATATTAATAG
* *
16534481 TATATTATTTATTCA
1 TATAATATTTATTTA
16534496 TATAATA-TTATTTA
1 TATAATATTTATTTA
16534510 T-TAATA--TATTGTAA
1 TATAATATTTATT-T-A
16534524 TATAATATTTTTATTTA
1 TATAATA--TTTATTTA
16534541 TATAATATT
1 TATAATATT
16534550 ATGTATTTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
12 4 0.09
13 6 0.13
14 9 0.20
15 13 0.29
17 8 0.18
18 1 0.02
19 4 0.09
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (15 bp):
TATAATATTTATTTA
Found at i:16534510 original size:76 final size:67
Alignment explanation
Indices: 16534469--16534596 Score: 143
Period size: 67 Copynumber: 1.9 Consensus size: 67
16534459 TATTAATATA
* * * * * *
16534469 TTATATTAATAGTATAT-TATTTATTCATATAATATTATTTATTAATATATTGTAATATAATATT
1 TTATA-TAATA-T-TATGTATTTATTAATATAATATTATTTATTAATAAAATATATTAAAATATT
16534533 TTTAT
63 TTTAT
16534538 TTATATAATATTATGTATTTATTAATATAATATTATTTA-TAAGTAAAATTATATTAAAA
1 TTATATAATATTATGTATTTATTAATATAATATTATTTATTAA-TAAAA-TATATTAAAA
16534597 AATATTAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
66 6 0.12
67 27 0.54
68 12 0.24
69 5 0.10
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (67 bp):
TTATATAATATTATGTATTTATTAATATAATATTATTTATTAATAAAATATATTAAAATATTTTT
AT
Found at i:16534544 original size:45 final size:48
Alignment explanation
Indices: 16534457--16534569 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 48
16534447 TTAAAATTTT
*
16534457 TTTATTAATATATTATATTAATAGTATATTATTTATTCATATAATATTA
1 TTTATTAATATATTATAATAATAG-ATATTATTTATTCATATAATATTA
* *
16534506 TTTATTAATATATTGTAAT-ATA-ATATT-TTTATTTATATAATATTA
1 TTTATTAATATATTATAATAATAGATATTATTTATTCATATAATATTA
* * *
16534551 TGTATTTAT-TAATATAATA
1 TTTATTAATATATTATAATA
16534570 TTATTTATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
44 7 0.12
45 24 0.43
46 5 0.09
48 3 0.05
49 17 0.30
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.56
Consensus pattern (48 bp):
TTTATTAATATATTATAATAATAGATATTATTTATTCATATAATATTA
Found at i:16534545 original size:17 final size:18
Alignment explanation
Indices: 16534523--16534578 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
16534513 ATATATTGTA
*
16534523 ATATAATATT-TTTATTT
1 ATATAATATTATGTATTT
16534540 ATATAATATTATGTATTT
1 ATATAATATTATGTATTT
16534558 AT-TAATATAATAT-TATTT
1 ATATAATAT--TATGTATTT
16534576 ATA
1 ATA
16534579 AGTAAAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
17 16 0.47
18 15 0.44
19 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
ATATAATATTATGTATTT
Found at i:16534558 original size:22 final size:21
Alignment explanation
Indices: 16534469--16534574 Score: 88
Period size: 22 Copynumber: 4.7 Consensus size: 21
16534459 TATTAATATA
16534469 TTATATTAATAGTATATTATTTAT
1 TTATA-TAATA-T-TATTATTTAT
* *
16534493 TCATATAATATTATTTATTAAT
1 TTATATAATATTA-TTATTTAT
* *
16534515 ATATTGTAATATAATATT-TTTAT
1 TTA-TATAATAT--TATTATTTAT
16534538 TTATATAATATTATGTATTTAT
1 TTATATAATATTAT-TATTTAT
*
16534560 TAATATAATATTATT
1 TTATATAATATTATT
16534575 TATAAGTAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
20 3 0.04
21 4 0.06
22 34 0.51
23 18 0.27
24 6 0.09
25 2 0.03
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.57
Consensus pattern (21 bp):
TTATATAATATTATTATTTAT
Found at i:16536337 original size:22 final size:22
Alignment explanation
Indices: 16536312--16536365 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 22
16536302 TTATTATTAT
* *
16536312 TAAATATGAAATATAAAAAATA
1 TAAATATAAAATACAAAAAATA
16536334 TAAATATAAAATAC-AAAAA-A
1 TAAATATAAAATACAAAAAATA
16536354 -AAATATAAAATA
1 TAAATATAAAATA
16536366 TTAACAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 12 0.40
20 1 0.03
21 5 0.17
22 12 0.40
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (22 bp):
TAAATATAAAATACAAAAAATA
Found at i:16536340 original size:15 final size:16
Alignment explanation
Indices: 16536313--16536344 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
16536303 TATTATTATT
16536313 AAATATGAAATATAAA
1 AAATATGAAATATAAA
16536329 AAATAT-AAATATAAA
1 AAATATGAAATATAAA
16536344 A
1 A
16536345 TACAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (16 bp):
AAATATGAAATATAAA
Found at i:16536351 original size:7 final size:7
Alignment explanation
Indices: 16536313--16536366 Score: 58
Period size: 7 Copynumber: 7.9 Consensus size: 7
16536303 TATTATTATT
*
16536313 AAATATG
1 AAATATA
16536320 AAATATA
1 AAATATA
*
16536327 AAAAATA
1 AAATATA
16536334 TAAATATA
1 -AAATATA
*
16536342 AAATACA
1 AAATATA
16536349 AAA-A-A
1 AAATATA
16536354 AAATATA
1 AAATATA
16536361 AAATAT
1 AAATAT
16536367 TAACAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 4 0.10
6 2 0.05
7 28 0.70
8 6 0.15
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (7 bp):
AAATATA
Found at i:16536381 original size:25 final size:25
Alignment explanation
Indices: 16536326--16536379 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
16536316 TATGAAATAT
16536326 AAAAAATATAAATATAAAATACAAA
1 AAAAAATATAAATATAAAATACAAA
**
16536351 AAAAAATATAAA-ATATTA-ACAAA
1 AAAAAATATAAATATAAAATACAAA
16536374 AAAAAA
1 AAAAAA
16536380 AACAAACAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 11 0.41
24 4 0.15
25 12 0.44
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.19
Consensus pattern (25 bp):
AAAAAATATAAATATAAAATACAAA
Found at i:16537484 original size:9 final size:10
Alignment explanation
Indices: 16537453--16537486 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
16537443 TAAATCTTTT
*
16537453 AAAACAATAA
1 AAAATAATAA
16537463 AAAATAATAA
1 AAAATAATAA
*
16537473 AAAATAAGAA
1 AAAATAATAA
16537483 AAAA
1 AAAA
16537487 AAAATTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (10 bp):
AAAATAATAA
Found at i:16537669 original size:18 final size:18
Alignment explanation
Indices: 16537625--16537672 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
16537615 AAAATTTTTT
16537625 TTAAGTAATAAATAAAAA
1 TTAAGTAATAAATAAAAA
* *
16537643 TTGATTAATAAATTAAAAA
1 TTAAGTAATAAA-TAAAAA
16537662 -TAAGTAATAAA
1 TTAAGTAATAAA
16537673 ATGAAAAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (18 bp):
TTAAGTAATAAATAAAAA
Found at i:16537679 original size:18 final size:19
Alignment explanation
Indices: 16537625--16537679 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
16537615 AAAATTTTTT
16537625 TTAAGTAAT-AAATAAAAA
1 TTAAGTAATAAAATAAAAA
* * *
16537643 TTGATTAATAAATTAAAAA
1 TTAAGTAATAAAATAAAAA
16537662 -TAAGTAATAAAATGAAAA
1 TTAAGTAATAAAAT-AAAA
16537680 GAAAAGAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 17 0.59
19 12 0.41
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (19 bp):
TTAAGTAATAAAATAAAAA
Found at i:16537863 original size:14 final size:15
Alignment explanation
Indices: 16537833--16537864 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
16537823 CTTTTTCTTC
16537833 AAAATTTCAATTAAA
1 AAAATTTCAATTAAA
16537848 AAAATTTCAATTAAA
1 AAAATTTCAATTAAA
16537863 AA
1 AA
16537865 TAAAAATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATTTCAATTAAA
Found at i:16545357 original size:14 final size:15
Alignment explanation
Indices: 16545328--16545381 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 15
16545318 TATTTTCATC
*
16545328 TTCATTTTGCTTTCCA
1 TTCATTTT-TTTTCCA
16545344 TTC-TTTTTTTTCCA
1 TTCATTTTTTTTCCA
*
16545358 -TCATTTTTTTACCA
1 TTCATTTTTTTTCCA
16545372 TTCCATTTTT
1 TT-CATTTTT
16545382 ATGTGCCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 2 0.06
14 16 0.48
15 5 0.15
16 10 0.30
ACGTcount: A:0.13, C:0.22, G:0.02, T:0.63
Consensus pattern (15 bp):
TTCATTTTTTTTCCA
Found at i:16549262 original size:18 final size:18
Alignment explanation
Indices: 16549239--16549292 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
16549229 TATTATTATT
*
16549239 AAATACGAAATACAAAAA
1 AAATACAAAATACAAAAA
*
16549257 AAATACAAAATATAAAATA
1 AAATACAAAATACAAAA-A
* * *
16549276 TAAGAAAAAATACAAAA
1 AAATACAAAATACAAAA
16549293 TACCAAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (18 bp):
AAATACAAAATACAAAAA
Found at i:16549290 original size:26 final size:25
Alignment explanation
Indices: 16549246--16549294 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
16549236 ATTAAATACG
16549246 AAATACAAAAAAAATACAAAATATA
1 AAATACAAAAAAAATACAAAATATA
*
16549271 AAATATAAGAAAAAATACAAAATA
1 AAATACAA-AAAAAATACAAAATA
16549295 CCAAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (25 bp):
AAATACAAAAAAAATACAAAATATA
Found at i:16550671 original size:18 final size:18
Alignment explanation
Indices: 16550629--16550674 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
16550619 ATTTTTTTTA
16550629 AAGTAATAAATAAAAATT
1 AAGTAATAAATAAAAATT
* *
16550647 GATTAATAAATTAAAAA-T
1 AAGTAATAAA-TAAAAATT
16550665 AAGTAATAAA
1 AAGTAATAAA
16550675 AATGAGAAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (18 bp):
AAGTAATAAATAAAAATT
Found at i:16550861 original size:15 final size:16
Alignment explanation
Indices: 16550843--16550873 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16550833 TCAAAATTTC
16550843 AATTAAA-AAAATAAT
1 AATTAAATAAAATAAT
16550858 AATTAAATAAAATAAT
1 AATTAAATAAAATAAT
16550874 TAATAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AATTAAATAAAATAAT
Found at i:16559403 original size:42 final size:41
Alignment explanation
Indices: 16559356--16559775 Score: 242
Period size: 42 Copynumber: 10.7 Consensus size: 41
16559346 AAAAAATCAT
* *
16559356 TTACATTTTCTTGGTGGTGATATCCGAGTGTCAAGGTTTGGA
1 TTACATTTTCTCGGTGGTGATATCCGAGTGTCAA-GTTTGAA
* * * *
16559398 TTACATCTTATCAGTGGTGATATCTGAGTGTCAAGGTTTGAA
1 TTACATTTTCTCGGTGGTGATATCCGAGTGTCAA-GTTTGAA
* * * *
16559440 TTACATCTTCTTGGTGGTGATATCCAAATGTCAAAGTTTGAA
1 TTACATTTTCTCGGTGGTGATATCCGAGTGTC-AAGTTTGAA
* * * *
16559482 TTACATTTTCTCAGTGGTGATGTTCGA-AGTC-A-TTTG--
1 TTACATTTTCTCGGTGGTGATATCCGAGTGTCAAGTTTGAA
* * *
16559518 ---CATTTTTTCGGTGGTGATATCTGAGTGTCAAGGTTCGAA
1 TTACATTTTCTCGGTGGTGATATCCGAGTGTCAA-GTTTGAA
* * * *
16559557 TTGCATTTTCTCGATGGCGATATCCGA-----AA--TTG-T
1 TTACATTTTCTCGGTGGTGATATCCGAGTGTCAAGTTTGAA
* * *
16559590 TTGCCTTTTCTCGATGGTGATATCCGAGTGTCCAAGTTTGAA
1 TTACATTTTCTCGGTGGTGATATCCGAGTGT-CAAGTTTGAA
* **** * *
16559632 TTATATTTTCTCGGTAACAATATCCGA-AGTC-A-TTTGCA
1 TTACATTTTCTCGGTGGTGATATCCGAGTGTCAAGTTTGAA
**
16559670 -T--A-TTT-TCGGTGGTGATATCTAAGTGTCAAAGTTTGAA
1 TTACATTTTCTCGGTGGTGATATCCGAGTGTC-AAGTTTGAA
* * *
16559707 TTGCATATTT-TTGGTGGTGATATCCGAGTGTCGAGGTTTGAA
1 TTACAT-TTTCTCGGTGGTGATATCCGAGTGTC-AAGTTTGAA
* **
16559749 TTACATTTTATCAATGGTGATATCCGA
1 TTACATTTTCTCGGTGGTGATATCCGA
16559776 AGTCATTTGC
Statistics
Matches: 287, Mismatches: 62, Indels: 58
0.71 0.15 0.14
Matches are distributed among these distances:
33 55 0.19
34 11 0.04
35 2 0.01
36 1 0.00
37 11 0.04
38 10 0.03
39 4 0.01
40 2 0.01
41 11 0.04
42 178 0.62
43 2 0.01
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.40
Consensus pattern (41 bp):
TTACATTTTCTCGGTGGTGATATCCGAGTGTCAAGTTTGAA
Found at i:16559730 original size:75 final size:74
Alignment explanation
Indices: 16559452--16559733 Score: 287
Period size: 75 Copynumber: 3.8 Consensus size: 74
16559442 ACATCTTCTT
* * * * * *
16559452 GGTGGTGATATCCAAATGTCAAAGTTTGAATTACATTTTCTCAGTGGTGATGTTCGAAGTCATTT
1 GGTGGTGATATCCAAGTGTCAAAGTTTGAATTGCATTTTCTCGGTGGCGATATCCGAAGTCATTT
16559517 GCATTTTTTC
66 GCA-TTTTTC
** * * * * **
16559527 GGTGGTGATATCTGAGTGTCAAGGTTCGAATTGCATTTTCTCGATGGCGATATCCGAAATTGTTT
1 GGTGGTGATATCCAAGTGTCAAAGTTTGAATTGCATTTTCTCGGTGGCGATATCCGAAGTCATTT
*
16559592 GCCTTTTCTC
66 GCATTTT-TC
* * * ** ** *
16559602 GATGGTGATATCCGAGTGTCCAAGTTTGAATTATATTTTCTCGGTAACAATATCCGAAGTCATTT
1 GGTGGTGATATCCAAGTGTCAAAGTTTGAATTGCATTTTCTCGGTGGCGATATCCGAAGTCATTT
16559667 GCATATTTTC
66 GCAT-TTTTC
* * *
16559677 GGTGGTGATATCTAAGTGTCAAAGTTTGAATTGCATATTT-TTGGTGGTGATATCCGA
1 GGTGGTGATATCCAAGTGTCAAAGTTTGAATTGCAT-TTTCTCGGTGGCGATATCCGA
16559734 GTGTCGAGGT
Statistics
Matches: 163, Mismatches: 41, Indels: 6
0.78 0.20 0.03
Matches are distributed among these distances:
74 4 0.02
75 153 0.94
76 6 0.04
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.39
Consensus pattern (74 bp):
GGTGGTGATATCCAAGTGTCAAAGTTTGAATTGCATTTTCTCGGTGGCGATATCCGAAGTCATTT
GCATTTTTC
Found at i:16559731 original size:117 final size:117
Alignment explanation
Indices: 16559604--16559825 Score: 309
Period size: 117 Copynumber: 1.9 Consensus size: 117
16559594 CTTTTCTCGA
* * **
16559604 TGGTGATATCCGAGTGTCCAAGTTTGAATTATATTTTCTCGGTAACAATATCCGAAGTCATTTGC
1 TGGTGATATCCGAGTGTCCAAGTTTGAATTACATTTTATCAATAACAATATCCGAAGTCATTTGC
* *
16559669 ATATTTTCGGTGGTGATATCTAAGTGTCAAAGTTTGAATTGCATATTTTTGG
66 ATATTCTCGGTGGTGATATCTAAGTGTCAAAGCTTGAATTGCATATTTTTGG
* * ****
16559721 TGGTGATATCCGAGTGTCGAGGTTTGAATTACATTTTATCAATGGTGATATCCGAAGTCATTTGC
1 TGGTGATATCCGAGTGTCCAAGTTTGAATTACATTTTATCAATAACAATATCCGAAGTCATTTGC
* * *
16559786 ATATTCTCTGTGGTGATATCTATGTGTTAAAGCTTGAATT
66 ATATTCTCGGTGGTGATATCTAAGTGTCAAAGCTTGAATT
16559826 ACATTTTCTC
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
117 90 1.00
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.40
Consensus pattern (117 bp):
TGGTGATATCCGAGTGTCCAAGTTTGAATTACATTTTATCAATAACAATATCCGAAGTCATTTGC
ATATTCTCGGTGGTGATATCTAAGTGTCAAAGCTTGAATTGCATATTTTTGG
Found at i:16560154 original size:48 final size:47
Alignment explanation
Indices: 16560031--16560300 Score: 297
Period size: 50 Copynumber: 5.5 Consensus size: 47
16560021 TTAATAGTTT
* *
16560031 AATTTTAAAGTTGTTGAGCCTTTACTTAGAGGAGCTTTTCAAAGTTAATG
1 AATTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTTTAAAG---ATG
* *
16560081 AATTTTAAAGTTGTTGAGCCTTTGCTTAGAAGAGCTTTTTTAAGATG
1 AATTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTTTAAAGATG
* * *
16560128 AATTTTTAAAGTTGTTGAGCCGTTGCTTAGAGGAGCTCTTTCAAGATG
1 AA-TTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTTTAAAGATG
* * * *
16560176 AATTTTTAAAGTTGTTAAGCCTCTGCTTAGAGGAGCTCTTTCAAGATG
1 AA-TTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTTTAAAGATG
* * * *
16560224 TTAAATTTTAAAGTTGTTAAACATCTGCTTAGAGGAGCTTTCTTAAAATGATG
1 ---AATTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTT-TT-AAA-GATG
*
16560277 AATTTTAAAGTTGTTGAGTCTTTG
1 AATTTTAAAGTTGTTGAGCCTTTG
16560301 ACTAGATAAA
Statistics
Matches: 193, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
47 5 0.03
48 86 0.45
50 92 0.48
51 4 0.02
52 2 0.01
53 4 0.02
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (47 bp):
AATTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTTTAAAGATG
Found at i:16560235 original size:98 final size:95
Alignment explanation
Indices: 16560031--16560291 Score: 292
Period size: 98 Copynumber: 2.7 Consensus size: 95
16560021 TTAATAGTTT
* *
16560031 AATTTTAAAGTTGTTGAGCCTTTACTTAGAGGAGCT-TTTCAAAGTTAATGAATTTTAAAGTTGT
1 AATTTTAAAGTTGTTGAGCCATTGCTTAGAGGAGCTCTTTC-AAG---ATGAATTTTAAAGTTGT
* * * *
16560095 TGAGCCTTTGCTTAGAAGAGCTTTTTTAAGATGA
62 TAAGCCTCTGCTTAGAAGAGCTCTTTCAAGATGA
* *
16560129 ATTTTTAAAGTTGTTGAGCCGTTGCTTAGAGGAGCTCTTTCAAGATGAATTTTTAAAGTTGTTAA
1 AATTTTAAAGTTGTTGAGCCATTGCTTAGAGGAGCTCTTTCAAGATGAA-TTTTAAAGTTGTTAA
*
16560194 GCCTCTGCTTAGAGGAGCTCTTTCAAGATGTTA
65 GCCTCTGCTTAGAAGAGCTCTTTCAAGATG--A
** **
16560227 AATTTTAAAGTTGTT-AAACATCTGCTTAGAGGAGCTTTCTTAAAATGATGAATTTTAAAGTTGT
1 AATTTTAAAGTTGTTGAGCCAT-TGCTTAGAGGAGC--TCTTTCAA-GATGAATTTTAAAGTTGT
16560291 T
62 T
16560292 GAGTCTTTGA
Statistics
Matches: 141, Mismatches: 14, Indels: 14
0.83 0.08 0.08
Matches are distributed among these distances:
95 5 0.04
96 40 0.28
97 3 0.02
98 64 0.45
99 4 0.03
100 19 0.13
101 6 0.04
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.40
Consensus pattern (95 bp):
AATTTTAAAGTTGTTGAGCCATTGCTTAGAGGAGCTCTTTCAAGATGAATTTTAAAGTTGTTAAG
CCTCTGCTTAGAAGAGCTCTTTCAAGATGA
Found at i:16560517 original size:11 final size:10
Alignment explanation
Indices: 16560498--16560533 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
16560488 TTTATCTTTC
16560498 TTTTCTTTTT
1 TTTTCTTTTT
16560508 TTTCTCTTTTT
1 TTT-TCTTTTT
16560519 TTTTCTTTCTT
1 TTTTCTTT-TT
16560530 TTTT
1 TTTT
16560534 TGGCAGCGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:16560517 original size:16 final size:16
Alignment explanation
Indices: 16560492--16560534 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
16560482 TATTTATTTA
*
16560492 TCTTTCT-TTTCTTTT
1 TCTTTCTCTTTTTTTT
16560507 T-TTTCTCTTTTTTTT
1 TCTTTCTCTTTTTTTT
16560522 TCTTTCT-TTTTTT
1 TCTTTCTCTTTTTT
16560535 GGCAGCGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 5 0.20
15 15 0.60
16 5 0.20
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TCTTTCTCTTTTTTTT
Found at i:16560520 original size:14 final size:14
Alignment explanation
Indices: 16560494--16560534 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
16560484 TTTATTTATC
16560494 TTTCT-TTTCTTTTT
1 TTTCTCTTT-TTTTT
16560508 TTTCTCTTTTTTTT
1 TTTCTCTTTTTTTT
16560522 TCTT-TCTTTTTTT
1 T-TTCTCTTTTTTT
16560535 GGCAGCGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 20 0.80
15 5 0.20
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTCTCTTTTTTTT
Found at i:16563013 original size:31 final size:31
Alignment explanation
Indices: 16562978--16563044 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
16562968 TTTGTAAATT
* *
16562978 GGGTTTCGATTTTTATTAGCTTGCTTCATAA
1 GGGTTTCAATTTTTATTAGCTTGCTTCAAAA
16563009 GGGTTTCAATTTTTATTAGCTTGCTTCAAAA
1 GGGTTTCAATTTTTATTAGCTTGCTTCAAAA
16563040 GGGTT
1 GGGTT
16563045 CTAAAAGCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.46
Consensus pattern (31 bp):
GGGTTTCAATTTTTATTAGCTTGCTTCAAAA
Found at i:16566540 original size:21 final size:21
Alignment explanation
Indices: 16566492--16566534 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
16566482 AACCTCCTAT
*
16566492 TACTTAAGTTGGTGATATTGA
1 TACTCAAGTTGGTGATATTGA
*
16566513 TACTCAAGTTGGTGATCTTGA
1 TACTCAAGTTGGTGATATTGA
16566534 T
1 T
16566535 GTTCAAAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.42
Consensus pattern (21 bp):
TACTCAAGTTGGTGATATTGA
Found at i:16570923 original size:14 final size:14
Alignment explanation
Indices: 16570904--16570934 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
16570894 TTGCATTCTC
16570904 AAATGCAAAATTAA
1 AAATGCAAAATTAA
16570918 AAATGCAAAATTAA
1 AAATGCAAAATTAA
16570932 AAA
1 AAA
16570935 AAAATTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.19
Consensus pattern (14 bp):
AAATGCAAAATTAA
Found at i:16572237 original size:23 final size:23
Alignment explanation
Indices: 16572207--16572253 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
16572197 TTGTCCTAAA
16572207 GGACTAGCAAATCAAGGTTGGAT
1 GGACTAGCAAATCAAGGTTGGAT
16572230 GGACTAGCAAATCAAGGTTGGAT
1 GGACTAGCAAATCAAGGTTGGAT
16572253 G
1 G
16572254 AAATTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (23 bp):
GGACTAGCAAATCAAGGTTGGAT
Found at i:16576470 original size:2 final size:2
Alignment explanation
Indices: 16576463--16576488 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16576453 AGTGGTAAAG
16576463 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
16576489 GATGGAGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16576615 original size:2 final size:2
Alignment explanation
Indices: 16576608--16576639 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
16576598 TAATGGTAAG
16576608 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16576640 CAACAAGTTA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16576635 original size:147 final size:148
Alignment explanation
Indices: 16576349--16576633 Score: 389
Period size: 147 Copynumber: 1.9 Consensus size: 148
16576339 AAAAAGTCGA
** * * ** *
16576349 TTAAACCTCAAATTGATGAAATTTTCTCTGACAAATATTACAATGTTTTTCCAGTTTCGGTCTCT
1 TTAAACCTCAAATTGA-GAAAAATTCTCTGACAAATATTACAATGTTTTCCCAATTTCACTCTCC
* * *
16576414 GAAAATTTGCTCCCAGGAAAAAAGAATTTTTAAGCCTATAGTGGTAAAGATATATATATATATAT
65 GAAAATTTGCTCCCAAGAAAAAAGAATTTTGAAGCCTATAATGGTAAAGATATATATATATATAT
16576479 ATATATATATGATGGAGGG
130 ATATATATATGATGGAGGG
*
16576498 TTAAACCTTAAATTGA-AAAAATTCTCTGACAAATATTA-ATATGTTTTCCCAATTTCACTCTCC
1 TTAAACCTCAAATTGAGAAAAATTCTCTGACAAATATTACA-ATGTTTTCCCAATTTCACTCTCC
* ** *
16576561 GAAAATTTTCTTGCAAGAAAGAAGAA-TTTGAAGCCTATAATGGT-AAGATATATATATATATAT
65 GAAAATTTGCTCCCAAGAAAAAAGAATTTTGAAGCCTATAATGGTAAAGATATATATATATATAT
16576624 ATATATATAT
130 ATATATATAT
16576634 ATATATCAAC
Statistics
Matches: 120, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
145 29 0.24
146 17 0.14
147 59 0.49
149 15 0.12
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (148 bp):
TTAAACCTCAAATTGAGAAAAATTCTCTGACAAATATTACAATGTTTTCCCAATTTCACTCTCCG
AAAATTTGCTCCCAAGAAAAAAGAATTTTGAAGCCTATAATGGTAAAGATATATATATATATATA
TATATATATGATGGAGGG
Found at i:16576847 original size:2 final size:2
Alignment explanation
Indices: 16576842--16576871 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16576832 TTTCACAAAA
16576842 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16576872 GATGGAAGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16578598 original size:30 final size:31
Alignment explanation
Indices: 16578562--16578629 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
16578552 TAAGGCTTGA
*
16578562 ATTTTAGGA-TATGGA-AGGTTTAGGGTTTTG
1 ATTTTAGGAGTATGGAGA-GTTTAGGGTTTGG
* *
16578592 ATTTTA-GAGTTTGGAGATTTTAGGGTTTGG
1 ATTTTAGGAGTATGGAGAGTTTAGGGTTTGG
16578622 ATTTTAGG
1 ATTTTAGG
16578630 GATTTTGGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 2 0.06
30 28 0.88
31 2 0.06
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (31 bp):
ATTTTAGGAGTATGGAGAGTTTAGGGTTTGG
Found at i:16578612 original size:16 final size:16
Alignment explanation
Indices: 16578591--16578622 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16578581 TTAGGGTTTT
16578591 GATTTTAGAGTTTGGA
1 GATTTTAGAGTTTGGA
*
16578607 GATTTTAGGGTTTGGA
1 GATTTTAGAGTTTGGA
16578623 TTTTAGGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (16 bp):
GATTTTAGAGTTTGGA
Found at i:16578641 original size:30 final size:29
Alignment explanation
Indices: 16578580--16578881 Score: 184
Period size: 30 Copynumber: 9.9 Consensus size: 29
16578570 ATATGGAAGG
* * *
16578580 TTTAGGGTTTTGATTTTAGAGTTTGGAGAT
1 TTTAGGGTTTAGATTTTAGGGTTTTG-GAT
*
16578610 TTTAGGGTTTGGATTTTAGGGATTTTGGAT
1 TTTAGGGTTTAGATTTTAGGG-TTTTGGAT
* * **
16578640 TTT-GAAGTTTGGATTTTAAGGGTTTCAGAT
1 TTTAG-GGTTTAGATTTT-AGGGTTTTGGAT
* * *
16578670 TTTAGGGATTTTGATTTT-GGGGTTTGGGT
1 TTTAGGG-TTTAGATTTTAGGGTTTTGGAT
16578699 TTTAGGGATTTTAGATTTT-GAGG-TTTGGAT
1 TTTAGGG--TTTAGATTTTAG-GGTTTTGGAT
*
16578729 TTCAGGAGTTTCAGATTTTAGGGATTTT-GAT
1 TTTAGG-GTTT-AGATTTTAGGG-TTTTGGAT
* * * *
16578760 TTTGGGGTTTGGATTGTAGGGGTTTTGAAT
1 TTTAGGGTTTAGATTTTA-GGGTTTTGGAT
* *
16578790 TTTAGGGGTTT-GAATTTAGGAGATTTTAGAT
1 TTTA-GGGTTTAGATTTTAGG-G-TTTTGGAT
* *
16578821 CTTAGGGGTTTCAGATTTTAGGATTTTGGAT
1 TTTA-GGGTTT-AGATTTTAGGGTTTTGGAT
16578852 TTTAAGGAGATTTTAGATTTTAGGGGTTTT
1 TTT-AGG-G--TTTAGATTTTA-GGGTTTT
16578882 CAGAAACCTA
Statistics
Matches: 216, Mismatches: 32, Indels: 44
0.74 0.11 0.15
Matches are distributed among these distances:
29 30 0.14
30 94 0.44
31 62 0.29
32 5 0.02
33 16 0.07
34 9 0.04
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.48
Consensus pattern (29 bp):
TTTAGGGTTTAGATTTTAGGGTTTTGGAT
Found at i:16578664 original size:45 final size:45
Alignment explanation
Indices: 16578580--16578717 Score: 151
Period size: 45 Copynumber: 3.1 Consensus size: 45
16578570 ATATGGAAGG
*
16578580 TTTAGGG-TTTTGATTTT-AGAGTTTGGAGATTTT-AGGGTTT-GGAT
1 TTTAGGGATTTTGATTTTGA-AGTTT-G-GATTTTAAGGGTTTCAGAT
16578624 TTTAGGGATTTTGGATTTTGAAGTTTGGATTTTAAGGGTTTCAGAT
1 TTTAGGGATTTT-GATTTTGAAGTTTGGATTTTAAGGGTTTCAGAT
** * *
16578670 TTTAGGGATTTTGATTTTGGGGTTTGGGTTTT-AGGGATTTTAGAT
1 TTTAGGGATTTTGATTTTGAAGTTTGGATTTTAAGGG-TTTCAGAT
16578715 TTT
1 TTT
16578718 GAGGTTTGGA
Statistics
Matches: 83, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
44 17 0.20
45 39 0.47
46 26 0.31
47 1 0.01
ACGTcount: A:0.18, C:0.01, G:0.30, T:0.51
Consensus pattern (45 bp):
TTTAGGGATTTTGATTTTGAAGTTTGGATTTTAAGGGTTTCAGAT
Found at i:16578687 original size:75 final size:74
Alignment explanation
Indices: 16578607--16578872 Score: 302
Period size: 75 Copynumber: 3.5 Consensus size: 74
16578597 AGAGTTTGGA
* *
16578607 GATTTTAGGGTTTGGATTTTAGGGATTTTGGATTTTGAAGTTTGGATTTTAAGG-GTTTCAGATT
1 GATTTTAGGGTTTGGATTTTAGGGATTTTAGATTTTGAGGTTTGGA-TTT-AGGAGTTTCAGATT
16578671 TTAGGGATTTT
64 TTAGGGATTTT
* *
16578682 GATTTTGGGGTTTGGGTTTTAGGGATTTTAGATTTTGAGGTTTGGATTTCAGGAGTTTCAGATTT
1 GATTTTAGGGTTTGGATTTTAGGGATTTTAGATTTTGAGGTTTGGATTT-AGGAGTTTCAGATTT
16578747 TAGGGATTTT
65 TAGGGATTTT
* * * * * *
16578757 GATTTTGGGGTTTGGATTGTAGGGGTTTT-GAATTTTAGGGGTTTGAATTTAGGAGATTTTAGAT
1 GATTTTAGGGTTTGGATTTTAGGGATTTTAG-ATTTT-GAGGTTTGGATTTAGGAG-TTTCAGAT
* * *
16578821 CTTAGGGGTTTCA
63 TTTAGGGATTT-T
*
16578834 GATTTTAGGATTTTGGATTTTAAGGAGATTTTAGATTTT
1 GATTTTAGG-GTTTGGATTTT-AGG-GATTTTAGATTTT
16578873 AGGGGTTTTC
Statistics
Matches: 164, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
74 7 0.04
75 99 0.60
76 27 0.16
77 8 0.05
78 9 0.05
79 3 0.02
80 10 0.06
81 1 0.01
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (74 bp):
GATTTTAGGGTTTGGATTTTAGGGATTTTAGATTTTGAGGTTTGGATTTAGGAGTTTCAGATTTT
AGGGATTTT
Found at i:16579330 original size:38 final size:35
Alignment explanation
Indices: 16579260--16579332 Score: 85
Period size: 36 Copynumber: 2.0 Consensus size: 35
16579250 CTTATCATGC
* *
16579260 ATAAATATATAAAAATACTTAAAATAACAAAAATA
1 ATAAATATATAAAAATAATTAAAATAAAAAAAATA
16579295 ATAATATATATAAAAA-AATTAGAAAATTAAAAAAAATA
1 ATAA-ATATATAAAAATAATT--AAAA-TAAAAAAAATA
16579333 TTTTTTACCT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
35 7 0.22
36 11 0.34
37 4 0.12
38 10 0.31
ACGTcount: A:0.70, C:0.03, G:0.01, T:0.26
Consensus pattern (35 bp):
ATAAATATATAAAAATAATTAAAATAAAAAAAATA
Found at i:16579997 original size:14 final size:13
Alignment explanation
Indices: 16579965--16580004 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
16579955 GGGAGGATTA
*
16579965 TTTGTCTTTGTTT
1 TTTGTTTTTGTTT
16579978 TTTGTTTTTGTTT
1 TTTGTTTTTGTTT
*
16579991 TTATGTTTCTGTTT
1 TT-TGTTTTTGTTT
16580005 GGGTATGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.03, C:0.05, G:0.15, T:0.78
Consensus pattern (13 bp):
TTTGTTTTTGTTT
Done.