Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 138 of 195
Found at i:23216484 original size:11 final size:12
Alignment explanation
Indices: 23216463--23216495 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
23216453 ATACCATAAT
23216463 TAAAAATAATTA
1 TAAAAATAATTA
23216475 TAAAAA-AATTA
1 TAAAAATAATTA
*
23216486 TAAAATTAAT
1 TAAAAATAAT
23216496 AAAAAATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TAAAAATAATTA
Found at i:23216844 original size:2 final size:2
Alignment explanation
Indices: 23216839--23216868 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23216829 ACGTGTGTAT
23216839 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
23216869 TTATGATAAT
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:23224131 original size:44 final size:44
Alignment explanation
Indices: 23224083--23224218 Score: 168
Period size: 44 Copynumber: 3.1 Consensus size: 44
23224073 AGGTCTTGAG
* *
23224083 AATTATGTTTGAAGATCTTGAAAATTATGCCCAAAAGCCTTACA
1 AATTATGTTCGAAGATCTTGAAAATTATGCCTAAAAGCCTTACA
* * * * *
23224127 AATTATGTTCGAAGGTCTTGAGAATTATGCGTAGAGGCCTTACA
1 AATTATGTTCGAAGATCTTGAAAATTATGCCTAAAAGCCTTACA
* *
23224171 AATTATGCTCGAA-AGTCTTGAAAATTATACCTAAAAG-CTTACA
1 AATTATGTTCGAAGA-TCTTGAAAATTATGCCTAAAAGCCTTACA
23224214 AATTA
1 AATTA
23224219 CATCCAGAGA
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
43 11 0.14
44 66 0.86
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.32
Consensus pattern (44 bp):
AATTATGTTCGAAGATCTTGAAAATTATGCCTAAAAGCCTTACA
Found at i:23224152 original size:22 final size:22
Alignment explanation
Indices: 23224072--23224198 Score: 82
Period size: 22 Copynumber: 5.8 Consensus size: 22
23224062 ATCATATCTA
* *
23224072 AAGGTCTTGAGAATTATGTTTG
1 AAGGTCTTGAAAATTATGTTCG
* ** *
23224094 AAGATCTTGAAAATTATGCCCA
1 AAGGTCTTGAAAATTATGTTCG
* *
23224116 AAAGCCTT-ACAAATTATGTTCG
1 AAGGTCTTGA-AAATTATGTTCG
*
23224138 AAGGTCTTGAGAATTATG--CG
1 AAGGTCTTGAAAATTATGTTCG
* *
23224158 TAGAGGCCTT-ACAAATTATGCTCG
1 -A-AGGTCTTGA-AAATTATGTTCG
*
23224182 AAAGTCTTGAAAATTAT
1 AAGGTCTTGAAAATTAT
23224199 ACCTAAAAGC
Statistics
Matches: 78, Mismatches: 19, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
20 2 0.03
21 3 0.04
22 68 0.87
23 3 0.04
24 2 0.03
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (22 bp):
AAGGTCTTGAAAATTATGTTCG
Found at i:23224175 original size:88 final size:87
Alignment explanation
Indices: 23224011--23224218 Score: 212
Period size: 88 Copynumber: 2.4 Consensus size: 87
23224001 ACACGGAGGC
* *
23224011 CTTGAAAATTATGCCCAAAAACTTTACAAATTATGCACAGAGGTCTTGCAAATCATATCTAAAGG
1 CTTGAAAATTATGCCCAAAAGCCTTACAAATTATGCACAGAGGTCTTGCAAAT-ATATCTAAAGG
* * * *
23224076 TCTTGAGAATTATGTTTG-AAGAT
65 CCTTGAAAATTATGCTCGAAAG-T
** *
23224099 CTTGAAAATTATGCCCAAAAGCCTTACAAATTATGTTC-GAAGGTCTTG-AGAAT-TATGCGTAG
1 CTTGAAAATTATGCCCAAAAGCCTTACAAATTATGCACAG-AGGTCTTGCA-AATATAT-C-TAA
23224161 AGGCCTT-ACAAATTATGCTCGAAAGT
62 AGGCCTTGA-AAATTATGCTCGAAAGT
* *
23224187 CTTGAAAATTATACCTAAAAG-CTTACAAATTA
1 CTTGAAAATTATGCCCAAAAGCCTTACAAATTA
23224219 CATCCAGAGA
Statistics
Matches: 103, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
86 3 0.03
87 15 0.15
88 82 0.80
89 3 0.03
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (87 bp):
CTTGAAAATTATGCCCAAAAGCCTTACAAATTATGCACAGAGGTCTTGCAAATATATCTAAAGGC
CTTGAAAATTATGCTCGAAAGT
Found at i:23224282 original size:22 final size:22
Alignment explanation
Indices: 23224257--23224304 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
23224247 GAGGTCCTGA
* *
23224257 AAATTATCCTCGGAGGCCTTAC
1 AAATTATCCTCGAAGACCTTAC
* *
23224279 AAATTATGCTCGAAGATCTTAC
1 AAATTATCCTCGAAGACCTTAC
23224301 AAAT
1 AAAT
23224305 CATTTCTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (22 bp):
AAATTATCCTCGAAGACCTTAC
Found at i:23229182 original size:22 final size:22
Alignment explanation
Indices: 23229129--23229183 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
23229119 ATGTAAATGG
23229129 AAAATAAAATACTTAAAACTTGA
1 AAAAT-AAATACTTAAAACTTGA
*
23229152 AAAAGAAATA-TTAAAAGCTT-A
1 AAAATAAATACTTAAAA-CTTGA
23229173 ACAAATAAATA
1 A-AAATAAATA
23229184 AATAAATCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 8 0.29
22 16 0.57
23 4 0.14
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.24
Consensus pattern (22 bp):
AAAATAAATACTTAAAACTTGA
Found at i:23231693 original size:29 final size:29
Alignment explanation
Indices: 23231660--23231720 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
23231650 TTTAAGGTTC
* * *
23231660 ATTTATATTTATTTGTTTAGGGTTTGTTT
1 ATTTAAATTTATTTGGTTAGGATTTGTTT
*
23231689 ATTTAAATTTATTTGGTTATGATTTGTTT
1 ATTTAAATTTATTTGGTTAGGATTTGTTT
23231718 ATT
1 ATT
23231721 GTTTATGAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.64
Consensus pattern (29 bp):
ATTTAAATTTATTTGGTTAGGATTTGTTT
Found at i:23236144 original size:24 final size:23
Alignment explanation
Indices: 23236096--23236144 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
23236086 ATATTGACAT
* * *
23236096 AAATATTAACATATTTGTTATTA
1 AAATATTAAAATATTTATTACTA
23236119 AAATATTGAAAATATTTATTACTA
1 AAATATT-AAAATATTTATTACTA
23236143 AA
1 AA
23236145 TTAGTAACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (23 bp):
AAATATTAAAATATTTATTACTA
Found at i:23236347 original size:29 final size:31
Alignment explanation
Indices: 23236315--23236377 Score: 85
Period size: 32 Copynumber: 2.1 Consensus size: 31
23236305 TATTATAATT
**
23236315 ATTAAAAT-AT-TATTTTTATTATATAAAAA
1 ATTAAAATAATATATTTTTAAAATATAAAAA
23236344 ATTAAAATAATAATATTTTTAAAATATAAAAA
1 ATTAAAATAAT-ATATTTTTAAAATATAAAAA
23236376 AT
1 AT
23236378 AATACTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 8 0.28
30 2 0.07
32 19 0.66
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (31 bp):
ATTAAAATAATATATTTTTAAAATATAAAAA
Found at i:23236360 original size:26 final size:23
Alignment explanation
Indices: 23236331--23236390 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
23236321 ATATTATTTT
23236331 TATTATATAAAAAATTAAAATAATAA
1 TATTAT-TAAAAAA-TAAAA-AATAA
* *
23236357 TATTTTTAAAATATAAAAAATAA
1 TATTATTAAAAAATAAAAAATAA
*
23236380 TACTATTAAAA
1 TATTATTAAAA
23236391 TTATAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 14 0.47
24 5 0.17
25 6 0.20
26 5 0.17
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
TATTATTAAAAAATAAAAAATAA
Found at i:23236367 original size:23 final size:23
Alignment explanation
Indices: 23236341--23236398 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
23236331 TATTATATAA
* *
23236341 AAAATTAAAATAATAATATTTTT
1 AAAATTAAAATAATAATACTATT
23236364 AAAATATAAAA-AATAATACTATT
1 AAAAT-TAAAATAATAATACTATT
*
23236387 AAAATTATAATA
1 AAAATTAAAATA
23236399 TTTTTATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 4 0.13
23 21 0.70
24 5 0.17
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
AAAATTAAAATAATAATACTATT
Found at i:23236950 original size:13 final size:13
Alignment explanation
Indices: 23236932--23236962 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
23236922 AGTTATCCAA
23236932 AACCAAAAAAATT
1 AACCAAAAAAATT
*
23236945 AACCAAGAAAATT
1 AACCAAAAAAATT
23236958 AACCA
1 AACCA
23236963 TTAAGCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.65, C:0.19, G:0.03, T:0.13
Consensus pattern (13 bp):
AACCAAAAAAATT
Found at i:23238186 original size:50 final size:51
Alignment explanation
Indices: 23238131--23238229 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 51
23238121 TTGTAAAAAT
*
23238131 TTATGTAAACCTTT-GATTGTCTAACTTTTATGTTC-TAACTTTTAATTTCC
1 TTATGTAAACCTTTGGA-TGTCTAACATTTATGTTCTTAACTTTTAATTTCC
** * *
23238181 TTATGTAAATTTTTGGATGTTTAACATTTATGTTCTTAACTTTTGATTT
1 TTATGTAAACCTTTGGATGTCTAACATTTATGTTCTTAACTTTTAATTT
23238230 TTTTTGCTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
50 28 0.67
51 14 0.33
ACGTcount: A:0.24, C:0.11, G:0.10, T:0.55
Consensus pattern (51 bp):
TTATGTAAACCTTTGGATGTCTAACATTTATGTTCTTAACTTTTAATTTCC
Found at i:23238758 original size:18 final size:17
Alignment explanation
Indices: 23238735--23238773 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
23238725 TTTTTATTAT
23238735 TTTTATTTCTTTGATTCA
1 TTTTATTTCTTTGA-TCA
* *
23238753 TTTTATTTTTTTTATCA
1 TTTTATTTCTTTGATCA
23238770 TTTT
1 TTTT
23238774 GTAAAGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTATTTCTTTGATCA
Found at i:23250759 original size:7 final size:8
Alignment explanation
Indices: 23250741--23250770 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
23250731 AGATAGTAAA
*
23250741 TTTTATAT
1 TTTTTTAT
23250749 TTTTTTAT
1 TTTTTTAT
23250757 TTTTTTAT
1 TTTTTTAT
23250765 TTTTTT
1 TTTTTT
23250771 TCTGAAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTAT
Found at i:23250909 original size:20 final size:20
Alignment explanation
Indices: 23250872--23250909 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23250862 AATATGGGTA
* *
23250872 AAAATAAATAAATTAAAATC
1 AAAATAAAAAAATAAAAATC
23250892 AAAATAAAAAAATAAAAA
1 AAAATAAAAAAATAAAAA
23250910 AAAAACTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (20 bp):
AAAATAAAAAAATAAAAATC
Found at i:23251762 original size:3 final size:3
Alignment explanation
Indices: 23251747--23251831 Score: 136
Period size: 3 Copynumber: 28.7 Consensus size: 3
23251737 AAAGGAAAAA
* *
23251747 AAT AAA AAT -AT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
23251794 AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
23251832 ATCTAATTGG
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
2 2 0.03
3 73 0.97
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:23252305 original size:118 final size:117
Alignment explanation
Indices: 23252104--23252887 Score: 715
Period size: 118 Copynumber: 6.7 Consensus size: 117
23252094 GATTGGGATT
* * * ** * * * *
23252104 AAACCACGAGTTAAATGAAGTAACTAGGATAAAGTCGAGGTTAAAATAGATGATCGGGATGAAAC
1 AAACCACGAGTCAAATGAAGTGACCAGGATCGAGTCAAGGTCAAAATAAATGATCGGGATGGAAC
* *
23252169 CATGAAT--TAAGAAGAATGATCTGGACTTAGCCAAGATCAGGTGATCGAGACG
66 CACGAATCATAAG-A-AATGATCTGGACTGAGCCAAGATCAGGTGATCGAGACG
* * *
23252221 AAACCATGAGTCAAATGAAGTGACCAGGACCAAGTCAAGGTCACAAATAAATGATCGGGATGGAA
1 AAACCACGAGTCAAATGAAGTGACCAGGATCGAGTCAAGGTCA-AAATAAATGATCGGGATGGAA
* * * * * *
23252286 CCATGAATCATAAGAAATGATCTGAACTGAGCCAAAATCAAGTGACCAAGACG
65 CCACGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAGGTGATCGAGACG
* * * * ** * * *
23252339 AAACCATGAGTCAAAATAAAGCGATCAAAATCGAGTTAAGGTCAAAATAGATGATCGAGATGGAA
1 AAACCACGAGTC-AAATGAAGTGACCAGGATCGAGTCAAGGTCAAAATAAATGATCGGGATGGAA
* * * * *
23252404 CCATGAATCAAGAAG-AATGATCTGGACTGAGCCAAGATCAGGTGATAGGGATG
65 CCACGAATC-ATAAGAAATGATCTGGACTGAGCCAAGATCAGGTGATCGAGACG
* * * **
23252457 AAACCACGAGTCACATGAAGTGACCAGGACCGAGTCAAGGTCACAAATAAATGATCGAGACAGAA
1 AAACCACGAGTCAAATGAAGTGACCAGGATCGAGTCAAGGTCA-AAATAAATGATCGGGATGGAA
* * * * **
23252522 CCAC-AGATCA-AAAAGAATGATCTGGACTAAGCCAAGATCAAGTGA-CTAGGATA
65 CCACGA-ATCATAAGA-AATGATCTGGACTGAGCCAAGATCAGGTGATCGA-GACG
*
23252575 AAACCATGAGTCAAATGAAGTGACCAGGA-CTGAGTCAAGGTCACAAATAAATGATCGGGATGGA
1 AAACCACGAGTCAAATGAAGTGACCAGGATC-GAGTCAAGGTCA-AAATAAATGATCGGGATGGA
* * * * * * *
23252639 ACCACGAATCATAAAAAATGATTTGAACTAAACCAAGATCAGGTGATCGGGA-T
64 ACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAGGTGATCGAGACG
* * * * * * * * * * *
23252692 TAACCACAAGTCAAAATAAAGCGACCAAGATCGAGTCGAGGTTAAAATAGATGGTCAGGATGGAT
1 AAACCACGAGTC-AAATGAAGTGACCAGGATCGAGTCAAGGTCAAAATAAATGATCGGGATGGAA
* * *
23252757 CCACGAATCAGGAAG-AATGATCTGGACTGAGCCAAGATCAGGTGA-CTAGGACA
65 CCACGAATCA-TAAGAAATGATCTGGACTGAGCCAAGATCAGGTGATCGA-GACG
* * * * *
23252810 AAACCACAAGTCAAATGAAATGACCAGGATTGAGTCAAGGTCATAAATAAATAATCGGGATGAAA
1 AAACCACGAGTCAAATGAAGTGACCAGGATCGAGTCAAGGTCA-AAATAAATGATCGGGATGGAA
23252875 CCACGAATCATAA
65 CCACGAATCATAA
23252888 AAAAAAATAA
Statistics
Matches: 544, Mismatches: 103, Indels: 40
0.79 0.15 0.06
Matches are distributed among these distances:
116 3 0.01
117 151 0.28
118 351 0.65
119 35 0.06
120 4 0.01
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.18
Consensus pattern (117 bp):
AAACCACGAGTCAAATGAAGTGACCAGGATCGAGTCAAGGTCAAAATAAATGATCGGGATGGAAC
CACGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAGGTGATCGAGACG
Found at i:23252564 original size:236 final size:235
Alignment explanation
Indices: 23252136--23252922 Score: 789
Period size: 236 Copynumber: 3.3 Consensus size: 235
23252126 ACTAGGATAA
* * * * *
23252136 AGTCGAGGTTAAAATAGATGATCGGGATGAAACCATGAATTAAGAAGAATGATCTGGACTTAGCC
1 AGTCAAGGTCAAAATAGATGATCGGGATGGAACCATGAATCAAGAAGAATGATCTGGACTAAGCC
* * * *
23252201 AAGATCAGGTGATCGAGACGAAACCATGAGTCAAATGAAGTGACCAGGACCAAGTCAAGGTCACA
66 AAGATCAGGTGATCGGGATGAAACCACGAGTCAAATGAAGTGACCAGGACCGAGTCAAGGTCACA
* * * * *
23252266 AATAAATGATCGGGATGGAACCATGAATC-ATAAGAAATGATCTGAACTGAGCCAAAATCAAGTG
131 AATAAATGATCGAGATGGAACCACGAATCAAAAAG-AATGATCTGGACTGAGCCAAGATCAAGTG
* *
23252330 ACCAAGACGAAACCATGAGTCAAAATAAAGCGATCAAAA-TCG
195 ACCAAGACAAAACCATGAGTC-AAATAAAGCGACCAAAACT-G
* * *
23252372 AGTTAAGGTCAAAATAGATGATCGAGATGGAACCATGAATCAAGAAGAATGATCTGGACTGAGCC
1 AGTCAAGGTCAAAATAGATGATCGGGATGGAACCATGAATCAAGAAGAATGATCTGGACTAAGCC
* *
23252437 AAGATCAGGTGATAGGGATGAAACCACGAGTCACATGAAGTGACCAGGACCGAGTCAAGGTCACA
66 AAGATCAGGTGATCGGGATGAAACCACGAGTCAAATGAAGTGACCAGGACCGAGTCAAGGTCACA
** *
23252502 AATAAATGATCGAGACAGAACCAC-AGATCAAAAAGAATGATCTGGACTAAGCCAAGATCAAGTG
131 AATAAATGATCGAGATGGAACCACGA-ATCAAAAAGAATGATCTGGACTGAGCCAAGATCAAGTG
* * * * * **
23252566 ACTAGGATAAAACCATGAGTCAAATGAAGTGACCAGGACTG
195 ACCAAGACAAAACCATGAGTCAAATAAAGCGACCAAAACTG
* * * * * *
23252607 AGTCAAGGTCACAAATAAATGATCGGGATGGAACCACGAATCATA-AAAAATGATTTGAACTAAA
1 AGTCAAGGTCA-AAATAGATGATCGGGATGGAACCATGAATCA-AGAAGAATGATCTGGACTAAG
* * * * * * * *
23252671 CCAAGATCAGGTGATCGGGAT-TAACCACAAGTCAAAATAAAGCGACCAAGATCGAGTCGAGGTT
64 CCAAGATCAGGTGATCGGGATGAAACCACGAGTC-AAATGAAGTGACCAGGACCGAGTCAAGGTC
* * * ** *
23252735 A-AAATAGATGGTC-AGGATGGATCCACGAATCAGGAAGAATGATCTGGACTGAGCCAAGATCAG
128 ACAAATAAATGATCGA-GATGGAACCACGAATCAAAAAGAATGATCTGGACTGAGCCAAGATCAA
* * ** * ** *
23252798 GTGACTAGGACAAAACCACAAGTCAAATGAAA-TGACCAGGATTG
192 GTGACCAAGACAAAACCATGAGTCAAAT-AAAGCGACCAAAACTG
* * * * * * *
23252842 AGTCAAGGTCATAAATAAATAATCGGGATGAAACCACGAATCATAAAAAAAAATAATCTGGACTA
1 AGTCAAGGTCA-AAATAGATGATCGGGATGGAACCATGAATC---AAGAAGAATGATCTGGACTA
* *
23252907 AGCTAAGATCAAGTGA
62 AGCCAAGATCAGGTGA
23252923 GTGAGATGAT
Statistics
Matches: 466, Mismatches: 72, Indels: 24
0.83 0.13 0.04
Matches are distributed among these distances:
234 1 0.00
235 158 0.34
236 273 0.59
237 6 0.01
238 28 0.06
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.18
Consensus pattern (235 bp):
AGTCAAGGTCAAAATAGATGATCGGGATGGAACCATGAATCAAGAAGAATGATCTGGACTAAGCC
AAGATCAGGTGATCGGGATGAAACCACGAGTCAAATGAAGTGACCAGGACCGAGTCAAGGTCACA
AATAAATGATCGAGATGGAACCACGAATCAAAAAGAATGATCTGGACTGAGCCAAGATCAAGTGA
CCAAGACAAAACCATGAGTCAAATAAAGCGACCAAAACTG
Found at i:23264928 original size:3 final size:3
Alignment explanation
Indices: 23264920--23265032 Score: 87
Period size: 3 Copynumber: 38.7 Consensus size: 3
23264910 GAAATGAAAA
*
23264920 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- ATAT GAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * * * *
23264964 AAT -AT AAT GA- AAC AAA AAA AAGT AA- AA- AAG AAGT AA- AGAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AA-T AAT A-AT AAT
23265007 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
23265033 ATCTAATTGG
Statistics
Matches: 94, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
2 11 0.12
3 78 0.83
4 5 0.05
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:23267173 original size:20 final size:20
Alignment explanation
Indices: 23267148--23267215 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
23267138 ACAAACACTA
23267148 ATATTTTTCCTTCAATAAAT
1 ATATTTTTCCTTCAATAAAT
* * *
23267168 ATATTTTTCGTGTCACTAATT
1 ATATTTTTCCT-TCAATAAAT
*
23267189 CATA-TTTTCCATCAATAAAT
1 -ATATTTTTCCTTCAATAAAT
23267209 AT-TTTTT
1 ATATTTTT
23267216 TATTATTTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
19 6 0.16
20 17 0.45
21 12 0.32
22 3 0.08
ACGTcount: A:0.31, C:0.15, G:0.03, T:0.51
Consensus pattern (20 bp):
ATATTTTTCCTTCAATAAAT
Found at i:23284628 original size:20 final size:19
Alignment explanation
Indices: 23284605--23284652 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
23284595 AAGGAGAAAG
* *
23284605 AAAAAGGAAGAGATAGAAGA
1 AAAAAGGAACAGAGAG-AGA
*
23284625 AAAAGGGAACAGAGAGAGA
1 AAAAAGGAACAGAGAGAGA
*
23284644 AAGAAGGAA
1 AAAAAGGAA
23284653 ATGACATTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.62, C:0.02, G:0.33, T:0.02
Consensus pattern (19 bp):
AAAAAGGAACAGAGAGAGA
Found at i:23284644 original size:22 final size:19
Alignment explanation
Indices: 23284598--23284652 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
23284588 TGAGTCAAAG
23284598 GAGA-AAGAAAAAGGAAGA
1 GAGAGAAGAAAAAGGAAGA
* *
23284616 GATAGAAGAAAAAGGGAACA
1 GAGAGAAGAAAAA-GGAAGA
23284636 GAGAG-AGAAAGAAGGAA
1 GAGAGAAGAAA-AAGGAA
23284653 ATGACATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 3 0.10
19 17 0.55
20 11 0.35
ACGTcount: A:0.62, C:0.02, G:0.35, T:0.02
Consensus pattern (19 bp):
GAGAGAAGAAAAAGGAAGA
Found at i:23287323 original size:6 final size:7
Alignment explanation
Indices: 23287307--23287345 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
23287297 AAATTATTCG
*
23287307 TTTTCAT
1 TTTTTAT
23287314 TTTTTA-
1 TTTTTAT
23287320 TTTTTAT
1 TTTTTAT
23287327 TTTTTAT
1 TTTTTAT
23287334 TTTTTAT
1 TTTTTAT
23287341 TTTTT
1 TTTTT
23287346 GAATATTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTAT
Found at i:23287330 original size:14 final size:14
Alignment explanation
Indices: 23287307--23287345 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
23287297 AAATTATTCG
*
23287307 TTTTCATTTTTTA-
1 TTTTTATTTTTTAT
23287320 TTTTTATTTTTTAT
1 TTTTTATTTTTTAT
23287334 TTTTTATTTTTT
1 TTTTTATTTTTT
23287346 GAATATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTATTTTTTAT
Found at i:23287335 original size:20 final size:20
Alignment explanation
Indices: 23287307--23287344 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23287297 AAATTATTCG
23287307 TTTTCATTTTTTATTTTTAT
1 TTTTCATTTTTTATTTTTAT
*
23287327 TTTTTATTTTTTATTTTT
1 TTTTCATTTTTTATTTTT
23287345 TGAATATTAA
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:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTCATTTTTTATTTTTAT
Found at i:23288618 original size:18 final size:19
Alignment explanation
Indices: 23288597--23288639 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
23288587 AATATAAAGC
* *
23288597 AAAAAATCATAAAAAAAT-
1 AAAAAATAACAAAAAAATG
23288615 AAAAAATAACAAAAAAATG
1 AAAAAATAACAAAAAAATG
23288634 AAAAAA
1 AAAAAA
23288640 AAACTCATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.81, C:0.05, G:0.02, T:0.12
Consensus pattern (19 bp):
AAAAAATAACAAAAAAATG
Found at i:23288641 original size:30 final size:30
Alignment explanation
Indices: 23288577--23288642 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
23288567 TATATTTAAT
* *
23288577 AAAAAATAAAAATATAAAGCAAAAAATCATA
1 AAAAAATAAAAATATAAA-CAAAAAATAAAA
*
23288608 AAAAAATAAAAA-AT-AACAAAAAAATGAAA
1 AAAAAATAAAAATATAAAC-AAAAAATAAAA
23288637 AAAAAA
1 AAAAAA
23288643 CTCATAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 1 0.03
29 17 0.53
30 2 0.06
31 12 0.38
ACGTcount: A:0.80, C:0.05, G:0.03, T:0.12
Consensus pattern (30 bp):
AAAAAATAAAAATATAAACAAAAAATAAAA
Found at i:23288996 original size:17 final size:16
Alignment explanation
Indices: 23288949--23288996 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
23288939 TTGACCACCC
*
23288949 AAAAAAAAATTTTTTT
1 AAAAAAAAATTTTATT
* *
23288965 AATAAAACAAGTTTATT
1 AA-AAAAAAATTTTATT
23288982 AAAAAAATAATTTTA
1 AAAAAAA-AATTTTA
23288997 ATTTACGACA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (16 bp):
AAAAAAAAATTTTATT
Found at i:23289460 original size:3 final size:3
Alignment explanation
Indices: 23289452--23289490 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
23289442 AGTAAAAAAT
23289452 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
23289491 TTGAGCATCC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:23290002 original size:12 final size:12
Alignment explanation
Indices: 23289985--23290019 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
23289975 TACAATATCA
23289985 ATTTAGGGTTTC
1 ATTTAGGGTTTC
*
23289997 ATTTAGGGTCTC
1 ATTTAGGGTTTC
*
23290009 ACTTAGGGTTT
1 ATTTAGGGTTT
23290020 TATGGTTTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.17, C:0.11, G:0.26, T:0.46
Consensus pattern (12 bp):
ATTTAGGGTTTC
Found at i:23290337 original size:9 final size:9
Alignment explanation
Indices: 23290323--23290348 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
23290313 TAACAAAAGT
23290323 AATAATAAA
1 AATAATAAA
23290332 AATAATAAA
1 AATAATAAA
23290341 AATAATAA
1 AATAATAA
23290349 TGTAAAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AATAATAAA
Found at i:23290605 original size:23 final size:23
Alignment explanation
Indices: 23290579--23290631 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
23290569 AGGGATTTAA
23290579 ATTTTTCATTATTA-TTTT-TTATT
1 ATTTTT-ATT-TTACTTTTATTATT
23290602 ATTTTTATTTTACTTTTATTATT
1 ATTTTTATTTTACTTTTATTATT
23290625 ATTTTTA
1 ATTTTTA
23290632 AGAAGCATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 3 0.11
22 7 0.25
23 18 0.64
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (23 bp):
ATTTTTATTTTACTTTTATTATT
Found at i:23290618 original size:11 final size:12
Alignment explanation
Indices: 23290581--23290631 Score: 54
Period size: 11 Copynumber: 4.4 Consensus size: 12
23290571 GGATTTAAAT
23290581 TTTTCATTATTA-
1 TTTT-ATTATTAC
*
23290593 TTTT-TTATTAT
1 TTTTATTATTAC
23290604 TTTTATT-TTAC
1 TTTTATTATTAC
*
23290615 TTTTATTATTAT
1 TTTTATTATTAC
23290627 TTTTA
1 TTTTA
23290632 AGAAGCATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 6 0.18
11 14 0.41
12 14 0.41
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTATTATTAC
Found at i:23298305 original size:17 final size:17
Alignment explanation
Indices: 23298276--23298320 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
23298266 TTAAATTAAG
*
23298276 ATATAAA-ATAATAACT
1 ATATAAATATAATAAAT
* *
23298292 TTATTAATATAATAAAT
1 ATATAAATATAATAAAT
23298309 ATATAAATATAA
1 ATATAAATATAA
23298321 AATTAAATTG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
ATATAAATATAATAAAT
Found at i:23300867 original size:16 final size:16
Alignment explanation
Indices: 23300848--23300883 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
23300838 GAAAATCTGG
*
23300848 AAAAACTAAAAAAACT
1 AAAAACTAAAAAAAAT
*
23300864 AAAAATTAAAAAAAAT
1 AAAAACTAAAAAAAAT
23300880 AAAA
1 AAAA
23300884 GAAAAAGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.14
Consensus pattern (16 bp):
AAAAACTAAAAAAAAT
Found at i:23301024 original size:16 final size:17
Alignment explanation
Indices: 23300978--23301024 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
23300968 TTATTAATAC
*
23300978 AATATATATATGTATAAA
1 AATATATAAAT-TATAAA
*
23300996 AATAAATAAATTAT-AA
1 AATATATAAATTATAAA
*
23301012 AATATATACATTA
1 AATATATAAATTA
23301025 ATATATACCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 13 0.52
17 3 0.12
18 9 0.36
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (17 bp):
AATATATAAATTATAAA
Found at i:23301044 original size:18 final size:18
Alignment explanation
Indices: 23301021--23301059 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
23301011 AAATATATAC
23301021 ATTAATATATACCTCAAA
1 ATTAATATATACCTCAAA
23301039 ATTAATATATACCTCAAA
1 ATTAATATATACCTCAAA
23301057 ATT
1 ATT
23301060 GTCTCAACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTAATATATACCTCAAA
Found at i:23302093 original size:9 final size:8
Alignment explanation
Indices: 23302055--23302108 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 8
23302045 CAAAAACTTT
23302055 AAAAAAGTA
1 AAAAAAG-A
23302064 AAAAAA-A
1 AAAAAAGA
23302071 AAAAAA-A
1 AAAAAAGA
*
23302078 AGAAAAGA
1 AAAAAAGA
*
23302086 AGAAAAAGC
1 A-AAAAAGA
23302095 AAAAAA-A
1 AAAAAAGA
23302102 AAAAAAG
1 AAAAAAG
23302109 GGTGAAAGTC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
7 19 0.50
8 7 0.18
9 12 0.32
ACGTcount: A:0.85, C:0.02, G:0.11, T:0.02
Consensus pattern (8 bp):
AAAAAAGA
Found at i:23302200 original size:21 final size:21
Alignment explanation
Indices: 23302176--23302219 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
23302166 ATATTATGGA
*
23302176 TTAATAT-CTTTTGTTTTTATT
1 TTAATATACTTTT-TCTTTATT
*
23302197 TTAATTTACTTTTTCTTTATT
1 TTAATATACTTTTTCTTTATT
23302218 TT
1 TT
23302220 TTTTCTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (21 bp):
TTAATATACTTTTTCTTTATT
Found at i:23305979 original size:161 final size:161
Alignment explanation
Indices: 23305700--23307640 Score: 1403
Period size: 160 Copynumber: 12.0 Consensus size: 161
23305690 ATTAACAGAC
* * * *
23305700 AACTTTTCCACACATATCAAACATGAAAACCAAATTCAATCATTCAGACAAGTTTAATATCATGT
1 AACTTTTTCACACATATCAACCATGAAAACCAAGTTCAATCATTTAGACAAGTTTAATATCATGT
* ** * *
23305765 ATTTAAAG-TATCTAAACTGTTGAAACCA-AA-ATATAACTACAAAATTATATTTTTGCCTTTTA
66 A-TTGAAGCTATCTAAACTGTT-AAAATAGAACA-ATAACTATAAATTTATATTTTTGCCTTTTA
** *
23305827 ATAGCACATAATA-TCCTAAACAGACATAAACGAT
128 ACGGCACA-AAAAGTCCTAAACAGACATAAACGAT
** ** * * *
23305861 AACTTTTTCACACATATCAACCATGAAAAAGAACATCAATCATTTGGACGAGTTTAATATCATAT
1 AACTTTTTCACACATATCAACCATGAAAACCAAGTTCAATCATTTAGACAAGTTTAATATCATGT
* * * * * *
23305926 ATTGAAGGTATAC-AAACTCTTAAAATAGAATAATAACTGTAAATTTGTATTTTTACCTTTTAAC
66 ATTGAAGCTAT-CTAAACTGTTAAAATAGAACAATAACTATAAATTTATATTTTTGCCTTTTAAC
* * * *
23305990 AGTACAAAAATTCCTAAACA-AGCATACACGAT
130 GGCACAAAAAGTCCTAAACAGA-CATAAACGAT
* * * * * * * *
23306022 AACTTTTTCATACATATCAATCGT-AGAAATCAAGTTCAATTATTTAGACAAATTTAGTATTATG
1 AACTTTTTCACACATATCAACCATGA-AAACCAAGTTCAATCATTTAGACAAGTTTAATATCATG
* * *
23306086 TATTTAAGCTATCTAAACTGTTGAAGCTATCTA-AACTGTTAAAAAC-ATAAATATAACTATAAA
65 TATTGAAGCTATCTAAACTGTT-AA---A-ATAGAAC----AATAACTATAAAT-T---TAT---
* * * * * * *
23306149 ATTGCCTTTCTTCCCTTTAACGGTA-AAAATGTCCTAAACAAACATAAATGGT
114 ATT---T-T-TGCCTTTTAACGGCACAAAAAGTCCTAAACAGACATAAACGAT
* ** * * * *
23306201 AACTTTTTCACACATATAAACTGTGGAAACCAAATTCAATAATTCAGACAAGTTTAATATCATGT
1 AACTTTTTCACACATATCAACCATGAAAACCAAGTTCAATCATTTAGACAAGTTTAATATCATGT
* * * * * * **
23306266 ATTTAAGCCATATAAATTGTTAAAATAGAA-ATATAACTACAAAATTACCTTTTTGCGC--TTAA
66 ATTGAAGCTATCTAAACTGTTAAAATAGAACA-ATAACTATAAATTTATATTTTTGC-CTTTTAA
* * *
23306328 CGGCATAAAAAGTCCTAAATAGACATAAA-GGT
129 CGGCACAAAAAGTCCTAAACAGACATAAACGAT
*** * * * *
23306360 AACTTTTTCACACATA--AATTGTGGAAACCAAATTCAATCA-TTCGAACAAATTTAATATCATG
1 AACTTTTTCACACATATCAACCATGAAAACCAAGTTCAATCATTTAG-ACAAGTTTAATATCATG
* * * * * *
23306422 TATTAAAGCTATCTAAACTGTTAAAACAAAACAATAACTGTAAACTTATATTTTTGCCTTTCAAC
65 TATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTATAAATTTATATTTTTGCCTTTTAAC
* * * *
23306487 GGCACAAAAAGTCCTAAATAAACATAAACCAC
130 GGCACAAAAAGTCCTAAACAGACATAAACGAT
* * *
23306519 AACTTTTTTCACACATATCAACCATGAAAACCAAGTTCAATCATTCAGATAAGTTTAATACCATG
1 AAC-TTTTTCACACATATCAACCATGAAAACCAAGTTCAATCATTTAGACAAGTTTAATATCATG
* * * * * * * *
23306584 TGTTCAAGCTATCTAAACTATTAAAATTA-ATCAATAATTGCAT-AA-TTACAATTTTACCTTTT
65 TATTGAAGCTATCTAAACTGTTAAAA-TAGAACAATAACT--ATAAATTTATATTTTTGCCTTTT
* * * * * * *
23306646 AACGACACGAAAAGTCCAAAACATATATAAACAAC
127 AACGGCACAAAAAGTCCTAAACAGACATAAACGAT
** * * * ** * * * *
23306681 AACTTTTTCACACATATCAA-TGTGGAAGCCAATTTTTATCATTCAAAAAAGTTTAATATAATGT
1 AACTTTTTCACACATATCAACCATGAAAACCAAGTTCAATCATTTAGACAAGTTTAATATCATGT
* * * * * * *** *
23306745 AATAAAGCTATCTAAATTGTTAAAATAGAACAATAATTGTAAACTGGCATTTTTG-CTTTTCAAT
66 ATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTATAAATTTATATTTTTGCCTTTT-AAC
* *
23306809 GGCACAAAAAGTCTTAAACAAACATAAACCG-T
130 GGCACAAAAAGTCCTAAACAGACATAAA-CGAT
* * * * *
23306841 AAATTTTTTTCACATATATCAACCATGAAAATCATGCTCAATCATTT-GAACAAGTTTAATATCA
1 -AA-CTTTTTCACACATATCAACCATGAAAACCAAGTTCAATCATTTAG-ACAAGTTTAATATCA
* * * * *
23306905 TGTATTTAAGCTATCTAAATTGTTAAAATAGAACAACAACTGTATAA-TTATAATTTTG-CTTTC
63 TGTATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTATA-AATTTATATTTTTGCCTTT-
** *
23306968 TAATTGCATAAAAAGT-CTGAAACAGACATAAACCG-T
126 TAACGGCACAAAAAGTCCT-AAACAGACATAAA-CGAT
* * * * *
23307004 AACTTTTTCACAC--ATCAATCA-GAAAAGCCAAGTTTAATCATTGAAATAAGTTTAATATCATG
1 AACTTTTTCACACATATCAACCATGAAAA-CCAAGTTCAATCATTTAGACAAGTTTAATATCATG
* * * * * * * ** * *
23307066 TATTGAAGTTATCTAAATTGTTAAAATAAAAAAATAATTGTAAACTTGCAGTTTTGCTTTTTAAC
65 TATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTATAAATTTATATTTTTGCCTTTTAAC
*
23307131 GGCACAAAAAGTCCTAAACAGACACAAATC-AT
130 GGCACAAAAAGTCCTAAACAGACATAAA-CGAT
* *
23307163 AACTTTTTCACACATATCAACCAT-AGAAACCAAGCTCAATCATTT-GAAAAGTTTAATATCATG
1 AACTTTTTCACACATATCAACCATGA-AAACCAAGTTCAATCATTTAGACAAGTTTAATATCATG
* * ** *
23307226 TATTGAAGCTATCTAAATTGTTAAAATAGAACAATAACTACAAATTTGCATTTTTACCTTTTAAC
65 TATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTATAAATTTATATTTTTGCCTTTTAAC
* * * *
23307291 AGTATAAAAAGTCCTAAACAGATATAAATC-AT
130 GGCACAAAAAGTCCTAAACAGACATAAA-CGAT
* * * *
23307323 AACTTTTTCACACATATCAATCATGAAAACCAAGTTCAATCATTTGGATAAGTTTAATATCATAT
1 AACTTTTTCACACATATCAACCATGAAAACCAAGTTCAATCATTTAGACAAGTTTAATATCATGT
* * * * *
23307388 ATTGAATCTATCTAAACT-TCTAAAACCA-AACAATAACTACAAATTTGTATTTTTACCTTTTAA
66 ATTGAAGCTATCTAAACTGT-TAAAA-TAGAACAATAACTATAAATTTATATTTTTGCCTTTTAA
* * * *
23307451 TGGTAC-AAAAGTCCTAAACAAACTTAAATC-ACT
129 CGGCACAAAAAGTCCTAAACAGACATAAA-CGA-T
* *
23307484 -ACTTTTTCATACATATCAA-CAGTGAAAACTAAGTTCAATCA-TTAGAGCAAGTTTAATATCAT
1 AACTTTTTCACACATATCAACCA-TGAAAACCAAGTTCAATCATTTAGA-CAAGTTTAATATCAT
* * * *
23307546 ATATTGAAGCTATCTAAACTGTTAAAATAGAATAATAAATATAAATTTGTATTTTTGCCTTTTAA
64 GTATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTATAAATTTATATTTTTGCCTTTTAA
* * *
23307611 CAAG-ATAAAAAAATCCTAAACAGACATAAA
129 C-GGCA-CAAAAAGTCCTAAACAGACATAAA
23307641 TTGCAAGTTA
Statistics
Matches: 1434, Mismatches: 264, Indels: 163
0.77 0.14 0.09
Matches are distributed among these distances:
156 3 0.00
157 82 0.06
158 39 0.03
159 164 0.11
160 416 0.29
161 313 0.22
162 155 0.11
163 111 0.08
164 4 0.00
165 5 0.00
166 2 0.00
168 7 0.00
169 6 0.00
170 1 0.00
171 5 0.00
172 6 0.00
174 2 0.00
175 6 0.00
178 3 0.00
179 91 0.06
180 13 0.01
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (161 bp):
AACTTTTTCACACATATCAACCATGAAAACCAAGTTCAATCATTTAGACAAGTTTAATATCATGT
ATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTATAAATTTATATTTTTGCCTTTTAACG
GCACAAAAAGTCCTAAACAGACATAAACGAT
Found at i:23306114 original size:18 final size:18
Alignment explanation
Indices: 23306091--23306125 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
23306081 TTATGTATTT
23306091 AAGCTATCTAAACTGTTG
1 AAGCTATCTAAACTGTTG
23306109 AAGCTATCTAAACTGTT
1 AAGCTATCTAAACTGTT
23306126 AAAAACATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (18 bp):
AAGCTATCTAAACTGTTG
Found at i:23306779 original size:322 final size:317
Alignment explanation
Indices: 23306109--23307583 Score: 1314
Period size: 322 Copynumber: 4.6 Consensus size: 317
23306099 TAAACTGTTG
* * * * * *
23306109 AAGCTATCTAAACTGTTAAAAACATAAA-TATAACTATAAAATTGCCTTTCTTCCCTTT-AACGG
1 AAGCTATCTAAATTGTT-AAAACA-AAACAATAACTGTAAACTTGCATTT-TTGCCTTTCAACGG
* * **** * ** * **
23306172 TA-AAAATGTCCTAAACAAACATAAATGGTAACTTTTTCACACATATAAACTGTGGAAACCAAAT
63 CACAAAAAGTCCTAAACAAACATAAACCACAACTTTTTCACACATATCAACCATGAAAACCAAGC
* * * * *
23306236 TCAATAATTCAGACAAGTTTAATATCATGTATTTAAGCCATATAAATTGTTAAAATAGAA-ATAT
128 TCAATCATT-AGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAACA-AT
* * ** * * * * * **
23306300 AACTACAAAATTACCTTTTTGCGC--TTAACGGCATAAAAAGTCCTAAATAGACATAAAGGTAAC
191 AACTGCATAATTACAATTTTAC-CTTTTAAC-G-ACAAAAAGTCCAAAACAGATATAAACATAAC
* * *
23306363 TTTTTCACACATA--AATTGTGGAAACCAAATTCAATCATTCGAACAAA-TTTAATATCATGTAT
253 TTTTTCACACATATCAA-TGTGAAAACCAAGTTCAATCATTC-AAAAAAGTTTAATATCATGTAT
23306425 TA
316 TA
* **
23306427 AAGCTATCTAAACTGTTAAAACAAAACAATAACTGTAAACTTATATTTTTGCCTTTCAACGGCAC
1 AAGCTATCTAAATTGTTAAAACAAAACAATAACTGTAAACTTGCATTTTTGCCTTTCAACGGCAC
* *
23306492 AAAAAGTCCTAAATAAACATAAACCACAACTTTTTTCACACATATCAACCATGAAAACCAAGTTC
66 AAAAAGTCCTAAACAAACATAAACCACAAC-TTTTTCACACATATCAACCATGAAAACCAAGCTC
* * * * * *
23306557 AATCATTCAGATAAGTTTAATACCATGTGTTCAAGCTATCTAAACTATTAAAATTA-ATCAATAA
130 AATCATT-AGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAA-TAGAACAATAA
* * *
23306621 TTGCATAATTACAATTTTACCTTTTAACGACACGAAAAGTCCAAAACATATATAAACAACAACTT
193 CTGCATAATTACAATTTTACCTTTTAACGACA--AAAAGTCCAAAACAGATATAAAC-ATAACTT
* * * ** * *
23306686 TTTCACACATATCAATGTGGAAGCCAATTTTTATCATTCAAAAAAGTTTAATATAATGTAATA
255 TTTCACACATATCAATGTGAAAACCAAGTTCAATCATTCAAAAAAGTTTAATATCATGTATTA
* * * * * *
23306749 AAGCTATCTAAATTGTTAAAATAGAACAATAATTGTAAACTGGCATTTTTGCTTTTCAATGGCAC
1 AAGCTATCTAAATTGTTAAAACAAAACAATAACTGTAAACTTGCATTTTTGCCTTTCAACGGCAC
* * * * *
23306814 AAAAAGTCTTAAACAAACATAAACCGTA-AATTTTTTTCACATATATCAACCATGAAAATCATGC
66 AAAAAGTCCTAAACAAACATAAACC--ACAA-CTTTTTCACACATATCAACCATGAAAACCAAGC
* * * *
23306878 TCAATCATTTGAACAAGTTTAATATCATGTATTTAAGCTATCTAAATTGTTAAAATAGAACAACA
128 TCAATCATTAG-ACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAACAATA
* * * * * ** * *
23306943 ACTGTATAATTATAATTTT-GCTTTCTAATTGCATAAAAAGTCTGAAACAGACATAAACCGTAAC
192 ACTGCATAATTACAATTTTACCTTT-TAA-CG-ACAAAAAGTCCAAAACAGATATAAA-CATAAC
** * * *
23307007 TTTTTCACAC--ATCAATCAGAAAAGCCAAGTTTAATCATTGAAATAAGTTTAATATCATGTATT
253 TTTTTCACACATATCAATGTGAAAA-CCAAGTTCAATCATTCAAAAAAGTTTAATATCATGTATT
*
23307070 G
317 A
* * * * * * *
23307071 AAGTTATCTAAATTGTTAAAATAAAAAAATAATTGTAAACTTGCAGTTTTGCTTTTTAACGGCAC
1 AAGCTATCTAAATTGTTAAAACAAAACAATAACTGTAAACTTGCATTTTTGCCTTTCAACGGCAC
* * * *
23307136 AAAAAGTCCTAAACAGACACAAATCATAACTTTTTCACACATATCAACCAT-AGAAACCAAGCTC
66 AAAAAGTCCTAAACAAACATAAACCACAACTTTTTCACACATATCAACCATGA-AAACCAAGCTC
* * *
23307200 AATCATTTGAAAAGTTTAATATCATGTATTGAAGCTATCTAAATTGTTAAAATAGAACAATAACT
130 AATCATTAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACT
* * * * *
23307265 ACA-AATTTGCATTTTTACCTTTTAACAGTATAAAAAGTCCTAAACAGATATAAATCATAACTTT
195 GCATAA-TTACAATTTTACCTTTTAAC-G-ACAAAAAGTCCAAAACAGATATAAA-CATAACTTT
* *** * * *
23307329 TTCACACATATCAATCATGAAAACCAAGTTCAATCATTTGGATAAGTTTAATATCATATATTG
256 TTCACACATATCAAT-GTGAAAACCAAGTTCAATCATTCAAAAAAGTTTAATATCATGTATTA
* * * ** * * * * * *
23307392 AATCTATCTAAACTT-CTAAAACCAAACAATAACTACAAATTTGTATTTTTACCTTTTAATGGTA
1 AAGCTATCTAAA-TTGTTAAAACAAAACAATAACTGTAAACTTGCATTTTTGCCTTTCAACGGCA
* * * * * *
23307456 C-AAAAGTCCTAAACAAACTTAAATCACTACTTTTTCATACATATCAA-CAGTGAAAACTAAGTT
65 CAAAAAGTCCTAAACAAACATAAACCACAACTTTTTCACACATATCAACCA-TGAAAACCAAGCT
* *
23307519 CAATCATTAGAGCAAGTTTAATATCATATATTGAAGCTATCTAAACTGTTAAAATAGAATAATAA
129 CAATCATTAGA-CAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAACAATAA
23307584 ATATAAATTT
Statistics
Matches: 956, Mismatches: 165, Indels: 69
0.80 0.14 0.06
Matches are distributed among these distances:
316 10 0.01
317 27 0.03
318 46 0.05
319 198 0.21
320 128 0.13
321 169 0.18
322 240 0.25
323 133 0.14
324 3 0.00
325 2 0.00
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (317 bp):
AAGCTATCTAAATTGTTAAAACAAAACAATAACTGTAAACTTGCATTTTTGCCTTTCAACGGCAC
AAAAAGTCCTAAACAAACATAAACCACAACTTTTTCACACATATCAACCATGAAAACCAAGCTCA
ATCATTAGACAAGTTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTG
CATAATTACAATTTTACCTTTTAACGACAAAAAGTCCAAAACAGATATAAACATAACTTTTTCAC
ACATATCAATGTGAAAACCAAGTTCAATCATTCAAAAAAGTTTAATATCATGTATTA
Found at i:23307174 original size:482 final size:482
Alignment explanation
Indices: 23306201--23307583 Score: 1251
Period size: 482 Copynumber: 2.9 Consensus size: 482
23306191 CATAAATGGT
* ** * ** * * * *
23306201 AACTTTTTCACACATATAAACTGTGGAAACCAAATTCAATAATTCAGACAAGTTTAATATCATGT
1 AACTTTTTCACACATATCAACCATAGAAACCAAGCTCAATCATT-AAAAAAGTTTAATATAATGT
* * * * * ** * *
23306266 ATTTAAGCCATATAAATTGTTAAAATAGAA-ATATAACTACAAAATTACCTTTTTGCGC--TTAA
65 AATAAAGCTATCTAAATTGTTAAAATAGAACA-ATAACTACAAACTGGCATTTTTAC-CTTTTAA
* * * * ** *** *
23306328 CGGCATAAAAAGTCCTAAATAGACATAAA-GGTAACTTTTTCACACATA--AATTGTGGAAACCA
128 CAGCACAAAAAGTCCTAAACAAACATAAACCATAACTTTTTCACACATATCAACCATGAAAACCA
** * *
23306390 AATTCAATCATTCGAACAAATTTAATATCATGTATTAAAGCTATCTAAACTGTTAAAACAAAACA
193 AGCTCAATCATTTGAACAAGTTTAATATCATGTATTAAAGCTATCTAAACTGTTAAAACAAAACA
* * *
23306455 ATAACTGTAAACTTATATTTTTGCCTTTCAACGGCACAAAAAGTCCTAAATAAACATAAACCACA
258 ACAACTGTAAACTTATAATTTTGCCTTTCAACGGCACAAAAAGTCCTAAACAAACATAAACCACA
*
23306520 ACTTTTTTCACACATATCAACCATGAAAACCAAGTTCAATCATTCAGATAAGTTTAATACCATGT
323 ACTTTTTTCACACA-ATCAACCATGAAAACCAAGTTCAATCATTCAAATAAGTTTAATACCATGT
* * **
23306585 GTTCAAGCTATCTAAACTATTAAAATTAATCAATAATTGCATAATTACAATTTTACCTTTTAACG
387 ATTCAAGCTATCTAAACTATTAAAATAAAAAAATAATTGCATAATTACAATTTTACCTTTTAACG
* * * *
23306650 ACACGAAAAGTCCAAAACATATATAAACAAC
452 ACACAAAAAGTCCAAAACAGACACAAACAAC
** * * ** **
23306681 AACTTTTTCACACATATCAA-TGTGGAAGCCAATTTTTATCATTCAAAAAAGTTTAATATAATGT
1 AACTTTTTCACACATATCAACCATAGAAACCAAGCTCAATCATT-AAAAAAGTTTAATATAATGT
* ** * *
23306745 AATAAAGCTATCTAAATTGTTAAAATAGAACAATAATTGTAAACTGGCATTTTT-GCTTTTCAAT
65 AATAAAGCTATCTAAATTGTTAAAATAGAACAATAACTACAAACTGGCATTTTTACCTTTT-AAC
* * * * * *
23306809 GGCACAAAAAGTCTTAAACAAACATAAACCGTAAATTTTTTTCACATATATCAACCATGAAAATC
129 AGCACAAAAAGTCCTAAACAAACATAAACCAT-AA-CTTTTTCACACATATCAACCATGAAAACC
* * * * *
23306874 ATGCTCAATCATTTGAACAAGTTTAATATCATGTATTTAAGCTATCTAAATTGTTAAAATAGAAC
192 AAGCTCAATCATTTGAACAAGTTTAATATCATGTATTAAAGCTATCTAAACTGTTAAAACAAAAC
** * *
23306939 AACAACTGTATAA-TTATAATTTTG-CTTTCTAATTGCATAAAAAGT-CTGAAACAGACATAAAC
257 AACAACTGTA-AACTTATAATTTTGCCTTTC-AACGGCACAAAAAGTCCT-AAACAAACATAAAC
** * * * *
23307001 CGTAAC-TTTTTCACAC-ATCAATCA-GAAAAGCCAAGTTTAATCATTGAAATAAGTTTAATATC
319 CACAACTTTTTTCACACAATCAACCATGAAAA-CCAAGTTCAATCATTCAAATAAGTTTAATACC
* * * * * * * * *
23307063 ATGTATTGAAGTTATCTAAATTGTTAAAATAAAAAAATAATTGTA-AACTTGCAGTTTTGCTTTT
383 ATGTATTCAAGCTATCTAAACTATTAAAATAAAAAAATAATTGCATAA-TTACAATTTTACCTTT
* * *
23307127 TAACGGCACAAAAAGTCCTAAACAGACACAAATC-AT
447 TAACGACACAAAAAGTCCAAAACAGACACAAA-CAAC
** *
23307163 AACTTTTTCACACATATCAACCATAGAAACCAAGCTCAATCATTTGAAAAGTTTAATATCATGTA
1 AACTTTTTCACACATATCAACCATAGAAACCAAGCTCAATCATTAAAAAAGTTTAATATAATGTA
* * * *
23307228 TTGAAGCTATCTAAATTGTTAAAATAGAACAATAACTACAAATTTGCATTTTTACCTTTTAACAG
66 ATAAAGCTATCTAAATTGTTAAAATAGAACAATAACTACAAACTGGCATTTTTACCTTTTAACAG
* * * * * * *
23307293 TATAAAAAGTCCTAAACAGATATAAATCATAACTTTTTCACACATATCAATCATGAAAACCAAGT
131 CACAAAAAGTCCTAAACAAACATAAACCATAACTTTTTCACACATATCAACCATGAAAACCAAGC
* * * * * * *
23307358 TCAATCATTTGGATAAGTTTAATATCATATATTGAATCTATCTAAACT-TCTAAAACCAAACAAT
196 TCAATCATTTGAACAAGTTTAATATCATGTATTAAAGCTATCTAAACTGT-TAAAACAAAACAAC
** * * * * * * * * * *
23307422 AACTACAAATTTGTATTTTTACCTTTTAATGGTAC-AAAAGTCCTAAACAAACTTAAATCACTAC
260 AACTGTAAACTTATAATTTTGCCTTTCAACGGCACAAAAAGTCCTAAACAAACATAAACCACAAC
* * ** * *
23307486 -TTTTTCATACATATCAA-CAGTGAAAACTAAGTTCAATCATT-AGAGCAAGTTTAATATCATAT
325 TTTTTTCACACA-ATCAACCA-TGAAAACCAAGTTCAATCATTCA-AATAAGTTTAATACCATGT
* * * *
23307548 ATTGAAGCTATCTAAACTGTTAAAATAGAATAATAA
387 ATTCAAGCTATCTAAACTATTAAAATAAAAAAATAA
23307584 ATATAAATTT
Statistics
Matches: 731, Mismatches: 146, Indels: 51
0.79 0.16 0.05
Matches are distributed among these distances:
477 1 0.00
479 111 0.15
480 148 0.20
481 81 0.11
482 227 0.31
483 33 0.05
484 17 0.02
485 111 0.15
486 2 0.00
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (482 bp):
AACTTTTTCACACATATCAACCATAGAAACCAAGCTCAATCATTAAAAAAGTTTAATATAATGTA
ATAAAGCTATCTAAATTGTTAAAATAGAACAATAACTACAAACTGGCATTTTTACCTTTTAACAG
CACAAAAAGTCCTAAACAAACATAAACCATAACTTTTTCACACATATCAACCATGAAAACCAAGC
TCAATCATTTGAACAAGTTTAATATCATGTATTAAAGCTATCTAAACTGTTAAAACAAAACAACA
ACTGTAAACTTATAATTTTGCCTTTCAACGGCACAAAAAGTCCTAAACAAACATAAACCACAACT
TTTTTCACACAATCAACCATGAAAACCAAGTTCAATCATTCAAATAAGTTTAATACCATGTATTC
AAGCTATCTAAACTATTAAAATAAAAAAATAATTGCATAATTACAATTTTACCTTTTAACGACAC
AAAAAGTCCAAAACAGACACAAACAAC
Found at i:23320825 original size:14 final size:14
Alignment explanation
Indices: 23320808--23320858 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
23320798 ATTGGACTTT
23320808 ATTATTATTATTCA
1 ATTATTATTATTCA
*
23320822 ATTA-TATT-TTGATA
1 ATTATTATTATT--CA
*
23320836 ATCATTATTATTCA
1 ATTATTATTATTCA
23320850 ATTATTATT
1 ATTATTATT
23320859 TTATTATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
12 2 0.07
13 4 0.14
14 17 0.59
15 4 0.14
16 2 0.07
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (14 bp):
ATTATTATTATTCA
Found at i:23321002 original size:23 final size:22
Alignment explanation
Indices: 23320976--23321036 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
23320966 TTTTGGATGT
23320976 TTTAAAATTATATTTTTTTAATA
1 TTTAAAATTATATTTTTTT-ATA
*
23320999 TTTAAAATT-TGTATTTTTTATA
1 TTTAAAATTATAT-TTTTTTATA
*
23321021 TTTGAAA--ATATTTTTT
1 TTTAAAATTATATTTTTT
23321037 ATGATTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 5 0.15
21 2 0.06
22 11 0.33
23 15 0.45
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (22 bp):
TTTAAAATTATATTTTTTTATA
Found at i:23321304 original size:3 final size:3
Alignment explanation
Indices: 23321296--23321320 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
23321286 TTCTTCATAA
23321296 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
23321321 AACAACAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:23321410 original size:23 final size:23
Alignment explanation
Indices: 23321384--23321429 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
23321374 ATGTTAACTA
23321384 CAAATAAAAGGTAATGAAAAAAT
1 CAAATAAAAGGTAATGAAAAAAT
23321407 CAAATAAAAGGTAATGAAAAAAT
1 CAAATAAAAGGTAATGAAAAAAT
23321430 TAACTACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.65, C:0.04, G:0.13, T:0.17
Consensus pattern (23 bp):
CAAATAAAAGGTAATGAAAAAAT
Found at i:23322255 original size:16 final size:18
Alignment explanation
Indices: 23322221--23322255 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
23322211 AGAAGTTCTC
*
23322221 AAGTGTAATTTTATAAAA
1 AAGTGTAATTTAATAAAA
23322239 AAGT-TAATTTAATAAAA
1 AAGTGTAATTTAATAAAA
23322256 TGTTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTGTAATTTAATAAAA
Found at i:23325359 original size:20 final size:20
Alignment explanation
Indices: 23325334--23325376 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
23325324 ATATTAAAAG
23325334 AAAATTTTATAAAAAT-TAAA
1 AAAATTTTA-AAAAATCTAAA
23325354 AAAATTTTAAAAAATCTAAA
1 AAAATTTTAAAAAATCTAAA
23325374 AAA
1 AAA
23325377 GAAAATCTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAATTTTAAAAAATCTAAA
Found at i:23325389 original size:22 final size:22
Alignment explanation
Indices: 23325364--23325411 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
23325354 AAAATTTTAA
23325364 AAAATCTAAAAA-AGAAAATCTG
1 AAAATCTAAAAACA-AAAATCTG
* *
23325386 AAAATGTAAAAACAAAAATCTT
1 AAAATCTAAAAACAAAAATCTG
23325408 AAAA
1 AAAA
23325412 ACTATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.67, C:0.08, G:0.06, T:0.19
Consensus pattern (22 bp):
AAAATCTAAAAACAAAAATCTG
Found at i:23325434 original size:23 final size:24
Alignment explanation
Indices: 23325407--23325453 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
23325397 ACAAAAATCT
*
23325407 TAAAAACTAT-AT-AATTAAAAAA
1 TAAAAAATATGATAAATTAAAAAA
*
23325429 TAAAAAATTTGATAAATTAAAAAA
1 TAAAAAATATGATAAATTAAAAAA
23325453 T
1 T
23325454 CCAAGCAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 2 0.10
24 11 0.52
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
TAAAAAATATGATAAATTAAAAAA
Found at i:23325827 original size:25 final size:28
Alignment explanation
Indices: 23325799--23325859 Score: 74
Period size: 25 Copynumber: 2.3 Consensus size: 28
23325789 ACATTATTTA
* *
23325799 TAATTTTTAGAAATA-TTT-AAT-TTTT
1 TAATTTTTAAAAACATTTTCAATCTTTT
*
23325824 TAATTTTTAAAAACATTTTCCATCTTTT
1 TAATTTTTAAAAACATTTTCAATCTTTT
23325852 TAATTTTT
1 TAATTTTT
23325860 TTTATATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 13 0.43
26 3 0.10
27 2 0.07
28 12 0.40
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.59
Consensus pattern (28 bp):
TAATTTTTAAAAACATTTTCAATCTTTT
Found at i:23332358 original size:34 final size:34
Alignment explanation
Indices: 23332315--23332391 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 34
23332305 AATATGAGAA
* *
23332315 TTTAAAGTTA-TAGAGCCTTTGCTTAGAGGAATTT
1 TTTAAAGTTATTA-AGCCTATGCTTAGAGGAACTT
* *
23332349 TTTTAAGTTATTAAGCCTATGCTTATAGGAACTT
1 TTTAAAGTTATTAAGCCTATGCTTAGAGGAACTT
23332383 TTTAAAGTT
1 TTTAAAGTT
23332392 GTTGTGCCTC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 35 0.95
35 2 0.05
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (34 bp):
TTTAAAGTTATTAAGCCTATGCTTAGAGGAACTT
Found at i:23332651 original size:41 final size:42
Alignment explanation
Indices: 23332565--23332666 Score: 145
Period size: 42 Copynumber: 2.5 Consensus size: 42
23332555 AGCAGAATAT
* *
23332565 TTTAATTTTTC-AAAGTTTTCAAGCCTCTGCTTAGAAGAGTAC
1 TTTAA-TTTTCAAAAGTTGTCAAGCCTCTGCTTAGAACAGTAC
* *
23332607 TTTAATTTTCAAAAGTTGTCAAGTCTCTGCTTAGATCAGT-C
1 TTTAATTTTCAAAAGTTGTCAAGCCTCTGCTTAGAACAGTAC
23332648 TTTAATTTTCAAAAGTTGT
1 TTTAATTTTCAAAAGTTGT
23332667 TGACCTTTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
41 25 0.45
42 30 0.55
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (42 bp):
TTTAATTTTCAAAAGTTGTCAAGCCTCTGCTTAGAACAGTAC
Found at i:23332933 original size:13 final size:13
Alignment explanation
Indices: 23332915--23332939 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23332905 TTATAGTTTC
23332915 ATTATTATTTTTT
1 ATTATTATTTTTT
23332928 ATTATTATTTTT
1 ATTATTATTTTT
23332940 CTTTCTTTCT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTATTATTTTTT
Found at i:23336299 original size:44 final size:44
Alignment explanation
Indices: 23336222--23336411 Score: 188
Period size: 44 Copynumber: 4.3 Consensus size: 44
23336212 TACTCATCAA
** * **
23336222 TTAGTAGTAAATCA-ACTATAATTTTCTAATAAATCATCAATAAC
1 TTAGTAGTAAATCATAC-ATAATTTAATAGTAAATCATTTATAAC
*
23336266 TTAGTAGTAAATCAT-CAATAATTTAATAGTAAATCATTTATAAT
1 TTAGTAGTAAATCATAC-ATAATTTAATAGTAAATCATTTATAAC
* * * * * *
23336310 TTAATGGTAAATTATACATAATCTAATGGTAAATCATTTATAAA
1 TTAGTAGTAAATCATACATAATTTAATAGTAAATCATTTATAAC
* * *
23336354 TTAGTAGTAAATCATAGATAATTTATTAGTAAA-CTATTGATAAC
1 TTAGTAGTAAATCATACATAATTTAATAGTAAATC-ATTTATAAC
*
23336398 TTAGTAGCAAATCA
1 TTAGTAGTAAATCA
23336412 CGGGCAATAT
Statistics
Matches: 120, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
43 1 0.01
44 118 0.98
45 1 0.01
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (44 bp):
TTAGTAGTAAATCATACATAATTTAATAGTAAATCATTTATAAC
Found at i:23336313 original size:22 final size:22
Alignment explanation
Indices: 23336226--23336386 Score: 135
Period size: 22 Copynumber: 7.3 Consensus size: 22
23336216 CATCAATTAG
* **
23336226 TAGTAAATCAACTATAATTTTC
1 TAGTAAATCATCTATAATTTAA
* * * *
23336248 TAATAAATCATCAATAACTTAG
1 TAGTAAATCATCTATAATTTAA
*
23336270 TAGTAAATCATCAATAATTTAA
1 TAGTAAATCATCTATAATTTAA
*
23336292 TAGTAAATCATTTATAATTTAA
1 TAGTAAATCATCTATAATTTAA
* * *
23336314 TGGTAAATTATAC-ATAATCTAA
1 TAGTAAATCAT-CTATAATTTAA
* * * *
23336336 TGGTAAATCATTTATAAATTAG
1 TAGTAAATCATCTATAATTTAA
** *
23336358 TAGTAAATCATAGATAATTTAT
1 TAGTAAATCATCTATAATTTAA
23336380 TAGTAAA
1 TAGTAAA
23336387 CTATTGATAA
Statistics
Matches: 112, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
22 112 1.00
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (22 bp):
TAGTAAATCATCTATAATTTAA
Found at i:23336321 original size:66 final size:65
Alignment explanation
Indices: 23336220--23336411 Score: 147
Period size: 66 Copynumber: 2.9 Consensus size: 65
23336210 AGTACTCATC
* * ** *
23336220 AATTAGTAGTAAATCA-ACTATAATTTTCTAATAAATCATCAATAACTTAGTAGTAAATCATCAA
1 AATTAATAGTAAATCATA-GATAATTTAATAGTAAATCAT-AATAACTTAGTAGTAAATCATCAA
23336284 TA
64 TA
* ** * * * * **
23336286 ATTTAATAGTAAATCATTTATAATTTAATGGTAAATTATACATAA-TCTAATGGTAAATCATTTA
1 AATTAATAGTAAATCATAGATAATTTAATAGTAAATCATA-ATAACT-TAGTAGTAAATCATCAA
23336350 TA
64 TA
* * * *
23336352 AATTAGTAGTAAATCATAGATAATTTATTAGTAAA-CTATTGATAACTTAGTAGCAAATCA
1 AATTAATAGTAAATCATAGATAATTTAATAGTAAATC-A-TAATAACTTAGTAGTAAATCA
23336412 CGGGCAATAT
Statistics
Matches: 97, Mismatches: 23, Indels: 12
0.73 0.17 0.09
Matches are distributed among these distances:
65 2 0.02
66 93 0.96
67 2 0.02
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (65 bp):
AATTAATAGTAAATCATAGATAATTTAATAGTAAATCATAATAACTTAGTAGTAAATCATCAATA
Found at i:23336395 original size:22 final size:22
Alignment explanation
Indices: 23336251--23336465 Score: 128
Period size: 22 Copynumber: 9.8 Consensus size: 22
23336241 AATTTTCTAA
** * *
23336251 TAAATCATCAATAACTTAGTAG
1 TAAATCATTGATAATTTAATAG
**
23336273 TAAATCATCAATAATTTAATAG
1 TAAATCATTGATAATTTAATAG
* *
23336295 TAAATCATTTATAATTTAATGG
1 TAAATCATTGATAATTTAATAG
* ** * *
23336317 TAAATTATACATAATCTAATGG
1 TAAATCATTGATAATTTAATAG
* * *
23336339 TAAATCATTTATAAATTAGTAG
1 TAAATCATTGATAATTTAATAG
* *
23336361 TAAATCATAGATAATTTATTAG
1 TAAATCATTGATAATTTAATAG
* *
23336383 TAAA-CTATTGATAACTTAGTAG
1 TAAATC-ATTGATAATTTAATAG
* ** ** *
23336405 CAAATCACGGGCAATATAATAG
1 TAAATCATTGATAATTTAATAG
* * *
23336427 TAAATCAATAATAAATTAATTA-
1 TAAATCATTGATAATTTAA-TAG
*
23336449 TTAATCATTGATAATTT
1 TAAATCATTGATAATTT
23336466 TTTGATACTT
Statistics
Matches: 147, Mismatches: 43, Indels: 6
0.75 0.22 0.03
Matches are distributed among these distances:
21 1 0.01
22 143 0.97
23 3 0.02
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.37
Consensus pattern (22 bp):
TAAATCATTGATAATTTAATAG
Found at i:23336857 original size:22 final size:22
Alignment explanation
Indices: 23336830--23336997 Score: 100
Period size: 22 Copynumber: 7.8 Consensus size: 22
23336820 TTAATTGGCA
23336830 AACTTAATAGTAAATCATAAAT
1 AACTTAATAGTAAATCATAAAT
* *
23336852 AACTTAGTAGTAAATCA-ATGAT
1 AACTTAATAGTAAATCATA-AAT
* * *
23336874 AATTTAATAGTTAAGT-ATTGAA-
1 AACTTAATAG-TAAATCA-TAAAT
*
23336896 AACTTAAAAGTAAAT--TAATAT
1 AACTTAATAGTAAATCATAA-AT
* **
23336917 AACTTAATAGTAAATTATCGAT
1 AACTTAATAGTAAATCATAAAT
* * *
23336939 AACTTAATAATTAATTAGT-AAT
1 AACTTAATAGTAAATCA-TAAAT
* *
23336961 AACTTAATAGT-AATTATAGAT
1 AACTTAATAGTAAATCATAAAT
*
23336982 AATTTAATA-TAAATCA
1 AACTTAATAGTAAATCA
23336998 GTGATAAGTA
Statistics
Matches: 114, Mismatches: 21, Indels: 23
0.72 0.13 0.15
Matches are distributed among these distances:
19 2 0.02
20 3 0.03
21 38 0.33
22 64 0.56
23 7 0.06
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (22 bp):
AACTTAATAGTAAATCATAAAT
Found at i:23336880 original size:67 final size:65
Alignment explanation
Indices: 23336773--23337004 Score: 174
Period size: 65 Copynumber: 3.5 Consensus size: 65
23336763 AACTTACTAA
* * * * *
23336773 TAAATCAATGATAACTTAATAGTAAATCAGT-TTCAGTTTAATAATAATTAATTGGCAAACTTAA
1 TAAATTAAT-ATAACTTAATAGTAAATCAATGAT-AATTTAATAATAATTAATT-GAAAACTTAA
*
23336837 TAG
63 AAG
* * *
23336840 TAAATCATAA-ATAACTTAGTAGTAAATCAATGATAATTTAATAGTTAAGT-ATTGAAAACTTAA
1 TAAAT--TAATATAACTTAATAGTAAATCAATGATAATTTAATA-ATAATTAATTGAAAACTTAA
23336903 AAG
63 AAG
* * *
23336906 TAAATTAATATAACTTAATAGTAAAT-TATCGATAACTTAATAATTAATT-AGT-AATAACTTAA
1 TAAATTAATATAACTTAATAGTAAATCAAT-GATAATTTAATAA-TAATTAATTGAA-AACTTAA
*
23336968 TAG
63 AAG
* * *
23336971 T-AATTATAGATAATTTAATA-TAAATCAGTGATAA
1 TAAATTA-ATATAACTTAATAGTAAATCAATGATAA
23337005 GTAGGTAGTG
Statistics
Matches: 135, Mismatches: 20, Indels: 23
0.76 0.11 0.13
Matches are distributed among these distances:
64 22 0.16
65 55 0.41
66 16 0.12
67 35 0.26
68 5 0.04
69 2 0.01
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (65 bp):
TAAATTAATATAACTTAATAGTAAATCAATGATAATTTAATAATAATTAATTGAAAACTTAAAAG
Found at i:23336940 original size:65 final size:63
Alignment explanation
Indices: 23336829--23337004 Score: 178
Period size: 65 Copynumber: 2.7 Consensus size: 63
23336819 ATTAATTGGC
* * * *
23336829 AAACTTAATAGTAAATCATAAATAACTTAGTAGTAAATCAATGATAATTTAATAGTTAAGTATTG
1 AAACTTAATAGTAAAT--TAAATAACTTAATAGTAAATCAATGATAACTTAATAATTAAGTAGT-
23336894 A
63 A
* * *
23336895 AAACTTAAAAGTAAATTAATATAACTTAATAGTAAAT-TATCGATAACTTAATAATTAATTAGTA
1 AAACTTAATAGTAAATTAA-ATAACTTAATAGTAAATCAAT-GATAACTTAATAATTAAGTAGTA
* *
23336959 ATAACTTAATAGT-AATTATAGATAATTTAATA-TAAATCAGTGATAA
1 A-AACTTAATAGTAAATTA-A-ATAACTTAATAGTAAATCAATGATAA
23337005 GTAGGTAGTG
Statistics
Matches: 93, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
64 22 0.24
65 56 0.60
66 15 0.16
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.36
Consensus pattern (63 bp):
AAACTTAATAGTAAATTAAATAACTTAATAGTAAATCAATGATAACTTAATAATTAAGTAGTA
Found at i:23336989 original size:43 final size:44
Alignment explanation
Indices: 23336830--23337038 Score: 142
Period size: 43 Copynumber: 4.8 Consensus size: 44
23336820 TTAATTGGCA
* * * * * * *
23336830 AACTTAATAGTAAATCATAAATAACTTAGTAGTAAATCAATGAT
1 AACTTAATAGTAAATTATAGATAATTTAATAATAAATCAGTAAT
* * * * * * * *
23336874 AATTTAATAGTTAAGTATTGAAAACTTAA-AAGTAAATTAAT-AT
1 AACTTAATAGTAAATTATAGATAATTTAATAA-TAAATCAGTAAT
* * * *
23336917 AACTTAATAGTAAATTATCGATAACTTAATAATTAATTAGTAAT
1 AACTTAATAGTAAATTATAGATAATTTAATAATAAATCAGTAAT
*
23336961 AACTTAATAGT-AATTATAGATAATTTAAT-ATAAATCAGTGAT
1 AACTTAATAGTAAATTATAGATAATTTAATAATAAATCAGTAAT
* * * *
23337003 AA-GTAGGTAGTGAATTATGGATAATTTAAT-ATAAAT
1 AACTTA-ATAGTAAATTATAGATAATTTAATAATAAAT
23337039 ATGTGATAAT
Statistics
Matches: 135, Mismatches: 25, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.01
42 16 0.12
43 73 0.54
44 44 0.33
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (44 bp):
AACTTAATAGTAAATTATAGATAATTTAATAATAAATCAGTAAT
Found at i:23337047 original size:21 final size:21
Alignment explanation
Indices: 23336979--23337050 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 21
23336969 AGTAATTATA
23336979 GATAATTTAATATAAATCA-GT
1 GATAATTTAATATAAAT-ATGT
* * *
23337000 GATAA-GTAGGTAGTGAATTATG-
1 GATAATTTA-ATA-T-AAATATGT
23337022 GATAATTTAATATAAATATGT
1 GATAATTTAATATAAATATGT
23337043 GATAATTT
1 GATAATTT
23337051 TATAACAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
20 8 0.21
21 16 0.41
22 9 0.23
23 6 0.15
ACGTcount: A:0.43, C:0.01, G:0.17, T:0.39
Consensus pattern (21 bp):
GATAATTTAATATAAATATGT
Found at i:23337060 original size:22 final size:20
Alignment explanation
Indices: 23337018--23337061 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
23337008 GGTAGTGAAT
*
23337018 TATGGATAATTTAATATAAA
1 TATGGATAATTTAATACAAA
*
23337038 TATGTGATAATTTTATAACAAA
1 TATG-GATAATTTAAT-ACAAA
23337060 TA
1 TA
23337062 ATTGAAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 10 0.50
22 6 0.30
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (20 bp):
TATGGATAATTTAATACAAA
Found at i:23337335 original size:22 final size:22
Alignment explanation
Indices: 23337305--23337420 Score: 103
Period size: 22 Copynumber: 5.4 Consensus size: 22
23337295 TAATTTAATA
*
23337305 GATAGTTTAGTAGTAAATCATT
1 GATAATTTAGTAGTAAATCATT
23337327 GATAATTTAGTAGT--ATCATT
1 GATAATTTAGTAGTAAATCATT
** *
23337347 GATAGCTTAGTAGTAAATTATT
1 GATAATTTAGTAGTAAATCATT
** * * *
23337369 GATAACATAATAGTAAATAAAT
1 GATAATTTAGTAGTAAATCATT
* *
23337391 GATAATTTAATTA-TCAATCATT
1 GATAATTT-AGTAGTAAATCATT
23337413 GATAATTT
1 GATAATTT
23337421 TTTTATATTT
Statistics
Matches: 76, Mismatches: 15, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
20 18 0.24
22 55 0.72
23 3 0.04
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (22 bp):
GATAATTTAGTAGTAAATCATT
Found at i:23337346 original size:20 final size:20
Alignment explanation
Indices: 23337305--23337361 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
23337295 TAATTTAATA
23337305 GATAGTTTAGTAGTAAATCATT
1 GATAGTTTAGTAGT--ATCATT
*
23337327 GATAATTTAGTAGTATCATT
1 GATAGTTTAGTAGTATCATT
*
23337347 GATAGCTTAGTAGTA
1 GATAGTTTAGTAGTA
23337362 AATTATTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 19 0.59
22 13 0.41
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.40
Consensus pattern (20 bp):
GATAGTTTAGTAGTATCATT
Found at i:23341235 original size:17 final size:17
Alignment explanation
Indices: 23341223--23341275 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
23341213 TTAATAACTA
23341223 AACTAAAGAAATAAAAG
1 AACTAAAGAAATAAAAG
*
23341240 AACTAAAGAACT--AAG
1 AACTAAAGAAATAAAAG
*
23341255 AACTAAAAAGAAAAAAAAG
1 AACT--AAAGAAATAAAAG
23341274 AA
1 AA
23341276 GTGAGGAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 7 0.24
17 17 0.59
19 5 0.17
ACGTcount: A:0.72, C:0.08, G:0.11, T:0.09
Consensus pattern (17 bp):
AACTAAAGAAATAAAAG
Found at i:23341247 original size:8 final size:8
Alignment explanation
Indices: 23341223--23341261 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
23341213 TTAATAACTA
23341223 AACTAAAG
1 AACTAAAG
*
23341231 AAATAAAAG
1 AACT-AAAG
23341240 AACTAAAG
1 AACTAAAG
23341248 AACT-AAG
1 AACTAAAG
23341255 AACTAAA
1 AACTAAA
23341262 AAGAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 7 0.26
8 13 0.48
9 7 0.26
ACGTcount: A:0.67, C:0.10, G:0.10, T:0.13
Consensus pattern (8 bp):
AACTAAAG
Found at i:23353768 original size:21 final size:21
Alignment explanation
Indices: 23353725--23353778 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
23353715 ATTATATTAT
*
23353725 AAATTATCAAACTAATATAAA
1 AAATTATCAAAATAATATAAA
** *
23353746 AAATTATCAAAATTGTATCAA
1 AAATTATCAAAATAATATAAA
*
23353767 AAGTTATCAAAA
1 AAATTATCAAAA
23353779 AATTATCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (21 bp):
AAATTATCAAAATAATATAAA
Found at i:23353785 original size:21 final size:21
Alignment explanation
Indices: 23353744--23353798 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
23353734 AACTAATATA
*
23353744 AAAAATTATCAAAATTGTATC
1 AAAAATTATCAAAAATGTATC
*
23353765 AAAAGTTATCAAAAAAT-TATC
1 AAAAATTATC-AAAAATGTATC
*
23353786 AAAGATTAT-AAAA
1 AAAAATTATCAAAA
23353799 CTTTTAACTG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 4 0.14
21 20 0.69
22 5 0.17
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.29
Consensus pattern (21 bp):
AAAAATTATCAAAAATGTATC
Found at i:23353851 original size:26 final size:25
Alignment explanation
Indices: 23353817--23353866 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
23353807 TGAAGTTACC
*
23353817 AAAATATATC-AAAGGTTATTAAATA
1 AAAATATATCGAAA-GTTATCAAATA
23353842 AAAATTATATCGAAAGTTATCAAAT
1 AAAA-TATATCGAAAGTTATCAAAT
23353867 TTTACTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 4 0.18
26 15 0.68
27 3 0.14
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.32
Consensus pattern (25 bp):
AAAATATATCGAAAGTTATCAAATA
Found at i:23353942 original size:3 final size:3
Alignment explanation
Indices: 23353928--23353995 Score: 111
Period size: 3 Copynumber: 23.0 Consensus size: 3
23353918 TTGTTAACAT
* *
23353928 TTA TTA TGA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23353976 TTA -TA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
23353996 CAAAAGTAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
2 2 0.03
3 58 0.97
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:23355725 original size:21 final size:22
Alignment explanation
Indices: 23355686--23355727 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
23355676 AAATACTTAA
* *
23355686 ATAAAGTTTTTTTATTAAATAC
1 ATAAAGTTTTTCTAATAAATAC
23355708 ATAAAG-TTTTCTAATAAATA
1 ATAAAGTTTTTCTAATAAATA
23355728 TGATTAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (22 bp):
ATAAAGTTTTTCTAATAAATAC
Found at i:23355746 original size:11 final size:12
Alignment explanation
Indices: 23355730--23355758 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23355720 AATAAATATG
23355730 ATTAAA-TAAAA
1 ATTAAATTAAAA
23355741 ATTAAATTAAAA
1 ATTAAATTAAAA
23355753 ATTAAA
1 ATTAAA
23355759 ATTGATAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
ATTAAATTAAAA
Found at i:23355986 original size:12 final size:12
Alignment explanation
Indices: 23355969--23356007 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
23355959 TTATAAATTT
23355969 AAATTTTTATTA
1 AAATTTTTATTA
23355981 AAATTTTTATT-
1 AAATTTTTATTA
*
23355992 AAATTATTTTTTA
1 AAATT-TTTATTA
23356005 AAA
1 AAA
23356008 AATTTTACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 5 0.21
12 16 0.67
13 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AAATTTTTATTA
Found at i:23360633 original size:461 final size:462
Alignment explanation
Indices: 23359771--23360690 Score: 1752
Period size: 461 Copynumber: 2.0 Consensus size: 462
23359761 ATTGAGTAAA
23359771 AAATTTCTGATTGAAAATAACAAAGCCTAATATGCATCTAGAAAAATAAAGATTCAACTGAAAGC
1 AAATTTCTGATTGAAAATAACAAAGCCTAATATGCATCTAGAAAAATAAAGATTCAACTGAAAGC
23359836 GCCTTCCTTTTTCTTCTTCTTCACTGTAAAGAAAGAAAAATAGTGGCACTAAATAAGCTTCCAGT
66 GCCTTCCTTTTTCTTCTTCTTCACTGTAAAGAAAGAAAAATAGTGGCACTAAATAAGCTTCCAGT
*
23359901 TCATGCTTACTTCATTTTGAAGGGCTGAAGAAGCAGAGTCACGAAATGGAGGATCTAAAGCAAGA
131 TCATGCTTACTTCATTTTGAAGGACTGAAGAAGCAGAGTCACGAAATGGAGGATCTAAAGCAAGA
23359966 AGAGCGATCAAAAGCCCTAGATTGGGTGAAGTTCCCGAAAGCATCTACTAGACTAGGTTCGCATG
196 AGAGCGATCAAAAGCCCTAGATTGGGTGAAGTTCCCGAAAGCATCTACTAGACTAGGTTCGCATG
23360031 ATTGTGGAGGTCGAAGGTTGTAGACAGCCTCAATTTTTGCCAATATTCCTCTGATGGCGTGCCAC
261 ATTGTGGAGGTCGAAGGTTGTAGACAGCCTCAATTTTTGCCAATATTCCTCTGATGGCGTGCCAC
23360096 ACAACTTGAAAATCTTGTGAAGTTGCTCAACCTGGATTGACAAAAATTCTTAGTCTGTGAAACTA
326 ACAACTTGAAAATCTTGTGAAGTTGCTCAACCTGGATTGACAAAAATTCTTAGTCTGTGAAACTA
*
23360161 CTAAAAGCAACATCAACTCCCG-CCCCCCCCCCCCCCCCGGCCTTCCTCTCTTAACACACACCTT
391 CTAAAAGCAACATCAACACCCGCCCCCCCCCCCCCCCCCGGCCTTCCTCTCTTAACACACACCTT
23360225 CTTATTG
456 CTTATTG
23360232 AAATTTCTGATTGAAAATAACAAAGCCTAATATGCATCTAGAAAAATAAAGATTCAACTGAAAGC
1 AAATTTCTGATTGAAAATAACAAAGCCTAATATGCATCTAGAAAAATAAAGATTCAACTGAAAGC
23360297 GCCTTCCTTTTTCTTCTTCTTCACTGTAAAGAAAGAAAAATAGTGGCACTAAATAAGCTTCCAGT
66 GCCTTCCTTTTTCTTCTTCTTCACTGTAAAGAAAGAAAAATAGTGGCACTAAATAAGCTTCCAGT
23360362 TCATGCTTACTTCATTTTGAAGGACTGAAGAAGCAGAGTCACGAAATGGAGGATCTAAAGCAAGA
131 TCATGCTTACTTCATTTTGAAGGACTGAAGAAGCAGAGTCACGAAATGGAGGATCTAAAGCAAGA
23360427 AGAGCGATCAAAAGCCCTAGATTGGGTGAAGTTCCCGAAAGCATCTACTAGACTAGGTTCGCATG
196 AGAGCGATCAAAAGCCCTAGATTGGGTGAAGTTCCCGAAAGCATCTACTAGACTAGGTTCGCATG
*
23360492 ATTGTGGAGGTCGAAGGTTGTAGACAGCCTCAATTTTTTCCAATATTCCTCTGATGGCGTGCCAC
261 ATTGTGGAGGTCGAAGGTTGTAGACAGCCTCAATTTTTGCCAATATTCCTCTGATGGCGTGCCAC
23360557 ACAACTTGAAAATCTTGTGAAGTTGCTCAACCTGGATTGACAAAAATTCTTAGTCTGTGAAACTA
326 ACAACTTGAAAATCTTGTGAAGTTGCTCAACCTGGATTGACAAAAATTCTTAGTCTGTGAAACTA
23360622 CTAAAAGCAACATCAACACCCGCCCCCACCCCCCCCCCCCCCCCCGGCCTTCCTCTCTTAACACA
391 CTAAAAGCAACATCAACACCCG------CCCCCCCCCCCCCCCCCGGCCTTCCTCTCTTAACACA
23360687 CACC
450 CACC
23360691 AAAAATTTCT
Statistics
Matches: 449, Mismatches: 3, Indels: 7
0.98 0.01 0.02
Matches are distributed among these distances:
461 409 0.91
468 40 0.09
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (462 bp):
AAATTTCTGATTGAAAATAACAAAGCCTAATATGCATCTAGAAAAATAAAGATTCAACTGAAAGC
GCCTTCCTTTTTCTTCTTCTTCACTGTAAAGAAAGAAAAATAGTGGCACTAAATAAGCTTCCAGT
TCATGCTTACTTCATTTTGAAGGACTGAAGAAGCAGAGTCACGAAATGGAGGATCTAAAGCAAGA
AGAGCGATCAAAAGCCCTAGATTGGGTGAAGTTCCCGAAAGCATCTACTAGACTAGGTTCGCATG
ATTGTGGAGGTCGAAGGTTGTAGACAGCCTCAATTTTTGCCAATATTCCTCTGATGGCGTGCCAC
ACAACTTGAAAATCTTGTGAAGTTGCTCAACCTGGATTGACAAAAATTCTTAGTCTGTGAAACTA
CTAAAAGCAACATCAACACCCGCCCCCCCCCCCCCCCCCGGCCTTCCTCTCTTAACACACACCTT
CTTATTG
Found at i:23361652 original size:16 final size:16
Alignment explanation
Indices: 23361631--23361663 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
23361621 AAAATCATCG
*
23361631 TAAATCATTATTATCA
1 TAAATCATCATTATCA
23361647 TAAATCATCATTATCA
1 TAAATCATCATTATCA
23361663 T
1 T
23361664 TCAAATCGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATCATCATTATCA
Found at i:23364387 original size:28 final size:28
Alignment explanation
Indices: 23364353--23364433 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
23364343 ACAAAATCAT
* * *
23364353 CACTTGTAAAATTTCAACCAATCTTTTT
1 CACTTGTAAAATTTCAAACAATCATTTG
* *
23364381 CCCTTGTAAAA-TTCAAATAATCATTTG
1 CACTTGTAAAATTTCAAACAATCATTTG
*
23364408 CACTTGTAAGATTTCAAACAATCATT
1 CACTTGTAAAATTTCAAACAATCATT
23364434 CTTAGCCAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 21 0.48
28 23 0.52
ACGTcount: A:0.36, C:0.20, G:0.06, T:0.38
Consensus pattern (28 bp):
CACTTGTAAAATTTCAAACAATCATTTG
Found at i:23366330 original size:17 final size:17
Alignment explanation
Indices: 23366308--23366340 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
23366298 AAATCATCGT
23366308 AAATCATCATTATCATA
1 AAATCATCATTATCATA
23366325 AAATCATCATTATCAT
1 AAATCATCATTATCAT
23366341 TCAAATCGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATCATCATTATCATA
Found at i:23375279 original size:21 final size:22
Alignment explanation
Indices: 23375255--23375301 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
23375245 CTCAAAATTA
23375255 ATAAAATATTATATTTT-AAAT
1 ATAAAATATTATATTTTAAAAT
*
23375276 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATATTTTAAAAT
23375298 ATAA
1 ATAA
23375302 TTATATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAAAATATTATATTTTAAAAT
Found at i:23375309 original size:8 final size:8
Alignment explanation
Indices: 23375296--23375338 Score: 52
Period size: 8 Copynumber: 5.1 Consensus size: 8
23375286 ATTTTTTAAA
23375296 ATATAATT
1 ATATAATT
23375304 ATATAATT
1 ATATAATT
23375312 ATATAAATAT
1 ATAT-AAT-T
23375322 ATATAAATT
1 ATAT-AATT
23375331 A-ATAATT
1 ATATAATT
23375338 A
1 A
23375339 AAAAATAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 5 0.15
8 14 0.42
9 5 0.15
10 9 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
ATATAATT
Found at i:23376587 original size:5 final size:5
Alignment explanation
Indices: 23376577--23376603 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
23376567 TTGAACAGTT
23376577 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
23376604 GAAAACAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:23382012 original size:6 final size:6
Alignment explanation
Indices: 23381985--23382041 Score: 60
Period size: 6 Copynumber: 9.5 Consensus size: 6
23381975 TCAAGATAAC
* * * * *
23381985 AACAAT AATAAT AGCAAC AACAAT AACAAC AACAAT AACAAT AATAAT
1 AACAAT AACAAT AACAAT AACAAT AACAAT AACAAT AACAAT AACAAT
*
23382033 AATAAT AAC
1 AACAAT AAC
23382042 TTACACAACA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.65, C:0.16, G:0.02, T:0.18
Consensus pattern (6 bp):
AACAAT
Found at i:23385714 original size:25 final size:25
Alignment explanation
Indices: 23385675--23385728 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
23385665 TCCCCACAAT
* *
23385675 ATTCATAAAGTTATTTAATTTAGGC
1 ATTCATAAAGGTATTTAATTAAGGC
*
23385700 ATTCATAAGGGTATTTAATTAAGGC
1 ATTCATAAAGGTATTTAATTAAGGC
23385725 ATTC
1 ATTC
23385729 TTATTTAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (25 bp):
ATTCATAAAGGTATTTAATTAAGGC
Found at i:23386129 original size:17 final size:17
Alignment explanation
Indices: 23386104--23386138 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
23386094 TACATTGAAG
23386104 GATCAGGTTCTGTTCAA
1 GATCAGGTTCTGTTCAA
*
23386121 GATCGGGTTCTGTTCAA
1 GATCAGGTTCTGTTCAA
23386138 G
1 G
23386139 CTACTGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.34
Consensus pattern (17 bp):
GATCAGGTTCTGTTCAA
Found at i:23386200 original size:103 final size:103
Alignment explanation
Indices: 23386046--23386297 Score: 425
Period size: 103 Copynumber: 2.4 Consensus size: 103
23386036 CGAAAGAATT
*
23386046 CATCGAAGGGGTGGAACGAGCTTACCTTTTAGAGAGAGGAGAAAGGGCTACATTGAA-GGATCAG
1 CATCGAATGGGTGGAACGAGCTTACCTTTTAGAGAGAGGAGAAAGGGCTACATT-AAGGGATCAG
* *
23386110 GTTCTGTTCAAGATCGGGTTCTGTTCAAGCTACTGCAAA
65 GTTCTATTCAAGATCGGGTTCTATTCAAGCTACTGCAAA
*
23386149 CATCGAATGGGTGGAACGAGCTTACCTTTTAGAGAGAGGAGAAAGGGCTACATTAAGGGATCGGG
1 CATCGAATGGGTGGAACGAGCTTACCTTTTAGAGAGAGGAGAAAGGGCTACATTAAGGGATCAGG
23386214 TTCTATTCAAGATCGGGTTCTATTCAAGCTACTGCAAA
66 TTCTATTCAAGATCGGGTTCTATTCAAGCTACTGCAAA
* * *
23386252 CGTCAAATGGGTTGAACGAGCTTACCTTTTAGAGAGAGGAGAAAGG
1 CATCGAATGGGTGGAACGAGCTTACCTTTTAGAGAGAGGAGAAAGG
23386298 ACTTTCGAAA
Statistics
Matches: 141, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
102 2 0.01
103 139 0.99
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (103 bp):
CATCGAATGGGTGGAACGAGCTTACCTTTTAGAGAGAGGAGAAAGGGCTACATTAAGGGATCAGG
TTCTATTCAAGATCGGGTTCTATTCAAGCTACTGCAAA
Found at i:23386229 original size:17 final size:17
Alignment explanation
Indices: 23386207--23386241 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
23386197 TACATTAAGG
23386207 GATCGGGTTCTATTCAA
1 GATCGGGTTCTATTCAA
23386224 GATCGGGTTCTATTCAA
1 GATCGGGTTCTATTCAA
23386241 G
1 G
23386242 CTACTGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (17 bp):
GATCGGGTTCTATTCAA
Found at i:23386670 original size:11 final size:11
Alignment explanation
Indices: 23386654--23386680 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
23386644 TTCCAACTCT
23386654 GATTTGTCTTG
1 GATTTGTCTTG
23386665 GATTTGTCTTG
1 GATTTGTCTTG
23386676 GATTT
1 GATTT
23386681 AAGTTGGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.11, C:0.07, G:0.26, T:0.56
Consensus pattern (11 bp):
GATTTGTCTTG
Found at i:23388672 original size:18 final size:19
Alignment explanation
Indices: 23388649--23388697 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
23388639 TTTCAAACCT
23388649 TATTTTTTTGTTT-TCTTA
1 TATTTTTTTGTTTCTCTTA
* *
23388667 TATTTTTTATCTTTCTCTTT
1 TATTTTTT-TGTTTCTCTTA
*
23388687 TTTTTTTTTGT
1 TATTTTTTTGT
23388698 ATACTGCCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 8 0.32
19 6 0.24
20 11 0.44
ACGTcount: A:0.08, C:0.08, G:0.04, T:0.80
Consensus pattern (19 bp):
TATTTTTTTGTTTCTCTTA
Found at i:23388978 original size:518 final size:520
Alignment explanation
Indices: 23387948--23388993 Score: 1769
Period size: 518 Copynumber: 2.0 Consensus size: 520
23387938 TATCTTTTAA
* * *
23387948 AAAAAAAAGGCTATCTTAGCTTTTTCACGAAAAGATTTTTTCTTTTTAAAGATTAACTCCTTTTA
1 AAAAAAAAGGCTATCTTAGCTTTTTCACAAAAACATTTTTTCTTTTTAAAGAGTAACTCCTTTTA
*
23388013 TACGCATTTTCCATCATTTAAAGCTAGATAGCAAGAATAAAAAGAGTCCTAAACCCCCCATGAAT
66 TACGCATTTTCCATCATTTAAAGCTAGATAACAAGAATAAAAAGAGTCCTAAACCCCCCATGAAT
*
23388078 AGCCCTTTTATTAGGCTTTCTAGGAAAAAAATTTTCCTTCTCTTTCAAAACCTTATTTTTTGTTT
131 AGCCCTTTTATTAGGCTTTCTAAGAAAAAAATTTTCCTTCTCTTTCAAAACCTTATTTTTTGTTT
* * * *
23388143 TTTTATATTTTTTATCTTTCCCCCTTTTTTTTTTGTATGCTGCCAACCCCCTTTTTTTCTACCTT
196 TCTTATATTTTTTATCTTTCCCCCTTTTTTTTTTGTATACTGCCAACCCCATCTTTTTCTACCTT
* *
23388208 AGACCTCTTGTTTTCATCTTTTAAACTAACAAACACTAATGAAAAATGGAGCTTGAAGCTTCTAT
261 AGACCTCTTATTTTCATCTTTTAAACCAACAAACACTAATGAAAAATGGAGCTTGAAGCTTCTAT
*
23388273 GAACAACCAAAAAGAAAATAAATGAAACTACATTTAAAAGGCACATTTATAAGCTTAAAAAAACC
326 GAACAACCAAAAAGAAAATAAATGAAACTACATCTAAAAGGCACATTTATAAGCTTAAAAAAACC
23388338 TCTAAGGAAAATCCTACTCTATGCTTTCAAAAGTTTTCAATTTTAACACGAAATCATCAAAATAA
391 TCTAAGGAAAATCCTACTCTATGCTTTCAAAAGTTTTCAATTTTAACACGAAATCATCAAAATAA
*
23388403 AGAAGGAAAAAAATGTTTTAAAACCTTATAAATGAAAGCATCAAAGAAAAAATGAACAAGATAAT
456 AGAAGGAAAAAAAGGTTTTAAAACCTTATAAATGAAAGCATCAAAGAAAAAATGAACAAGATAAT
*
23388468 AAAAAAAAGGCTATCTTAGCTTTTTCACAAAAACATTTTTTCTTTTTATAGAGTAACT-CTCTTT
1 AAAAAAAAGGCTATCTTAGCTTTTTCACAAAAACATTTTTTCTTTTTAAAGAGTAACTCCT-TTT
* *
23388532 ATACGCATTTTCCTTCATTTAAAGCTAGATAACAAGAATAAAAAGAGTCCTAAA-CCCCCATGCA
65 ATACGCATTTTCCATCATTTAAAGCTAGATAACAAGAATAAAAAGAGTCCTAAACCCCCCATGAA
* **
23388596 TAGCCTTTTTATTAGGCTTTCTAAGAAAAATTTTTTCCTTCTCTTTC-AAACCTTATTTTTTTGT
130 TAGCCCTTTTATTAGGCTTTCTAAGAAAAAAATTTTCCTTCTCTTTCAAAACCTTA-TTTTTTGT
* ** *
23388660 TTTCTTATATTTTTTATCTTTCTCTTTTTTTTTTTTGTATACTGCCAA-CCTATCTTTTTCTACC
194 TTTCTTATATTTTTTATCTTTCCCCCTTTTTTTTTTGTATACTGCCAACCCCATCTTTTTCTACC
*
23388724 TTAGACCTCTTATTTTCATCTTTTAAACCAACAAACACTAATGAAAAATGGAGCTTGAAGCTTTT
259 TTAGACCTCTTATTTTCATCTTTTAAACCAACAAACACTAATGAAAAATGGAGCTTGAAGCTTCT
23388789 ATGAACAACCAAAAAGAAAATAAATGAAACTACATCTAAAAGGCACATTTATAAGCTTAAAAAAA
324 ATGAACAACCAAAAAGAAAATAAATGAAACTACATCTAAAAGGCACATTTATAAGCTTAAAAAAA
* *
23388854 CCTTTAAGG-AAATCCTACTCTATGCTTTCAAAAGTTTTCAATTTTAACATGAAATCATCAAAAT
389 CCTCTAAGGAAAATCCTACTCTATGCTTTCAAAAGTTTTCAATTTTAACACGAAATCATCAAAAT
* *
23388918 AAAGAAGGAAACAAAGGTTTTAAAACCTTATACATGAAAGCATCAAAGAAAAAGATGAACAAGAT
454 AAAGAAGGAAAAAAAGGTTTTAAAACCTTATAAATGAAAGCATCAAAGAAAAA-ATGAACAAGAT
*
23388983 CAT
518 AAT
23388986 AAAAAAAA
1 AAAAAAAA
23388994 AAAACTACAT
Statistics
Matches: 494, Mismatches: 29, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
517 104 0.21
518 176 0.36
519 105 0.21
520 109 0.22
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.35
Consensus pattern (520 bp):
AAAAAAAAGGCTATCTTAGCTTTTTCACAAAAACATTTTTTCTTTTTAAAGAGTAACTCCTTTTA
TACGCATTTTCCATCATTTAAAGCTAGATAACAAGAATAAAAAGAGTCCTAAACCCCCCATGAAT
AGCCCTTTTATTAGGCTTTCTAAGAAAAAAATTTTCCTTCTCTTTCAAAACCTTATTTTTTGTTT
TCTTATATTTTTTATCTTTCCCCCTTTTTTTTTTGTATACTGCCAACCCCATCTTTTTCTACCTT
AGACCTCTTATTTTCATCTTTTAAACCAACAAACACTAATGAAAAATGGAGCTTGAAGCTTCTAT
GAACAACCAAAAAGAAAATAAATGAAACTACATCTAAAAGGCACATTTATAAGCTTAAAAAAACC
TCTAAGGAAAATCCTACTCTATGCTTTCAAAAGTTTTCAATTTTAACACGAAATCATCAAAATAA
AGAAGGAAAAAAAGGTTTTAAAACCTTATAAATGAAAGCATCAAAGAAAAAATGAACAAGATAAT
Found at i:23392410 original size:145 final size:145
Alignment explanation
Indices: 23392176--23392438 Score: 334
Period size: 145 Copynumber: 1.8 Consensus size: 145
23392166 ATTTTTTGTG
* * * * *
23392176 AAAACTTTCAAATCATGTTTGAAGATTATTTGATGATTTTTGGGGTATTAAAAATCTTATTCTAC
1 AAAACTTTCAAATCATGTTTGAAGATCATTTGATGACTTTTGAGGTATTAAAAACCTTAATCTAC
* * * * *
23392241 CTTAAAATGTGTGAAATTACTAAAATGCCTTTTAGGAGTATTTTCGTAATTTGGCCTTCTCATGT
66 CTGAAAATGTGTAAAAATACTAAAATGCCATTTAGGAGTATTTTCATAATTTGGCCTTCTCATGT
23392306 TCAATTTTTCAAAAA
131 TCAATTTTTCAAAAA
* * * *
23392321 AAAACTTTC-AATCATGATTTG-ATATCATTTTATGACTTTTGATGTATTAAAGACCTTAATCAT
1 AAAACTTTCAAATCATG-TTTGAAGATCATTTGATGACTTTTGAGGTATTAAAAACCTTAATC-T
* *
23392384 ACCTCGAAAA-GTGTAAAAATACTAAAATGCCATTTAGGGGTATTTTTATAATTTG
64 ACCT-GAAAATGTGTAAAAATACTAAAATGCCATTTAGGAGTATTTTCATAATTTG
23392439 ATTTTCCTAT
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
144 38 0.38
145 57 0.58
146 4 0.04
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (145 bp):
AAAACTTTCAAATCATGTTTGAAGATCATTTGATGACTTTTGAGGTATTAAAAACCTTAATCTAC
CTGAAAATGTGTAAAAATACTAAAATGCCATTTAGGAGTATTTTCATAATTTGGCCTTCTCATGT
TCAATTTTTCAAAAA
Found at i:23394132 original size:7 final size:7
Alignment explanation
Indices: 23394090--23394217 Score: 58
Period size: 7 Copynumber: 19.1 Consensus size: 7
23394080 ACCCTAAAGT
23394090 TTAAACC
1 TTAAACC
*
23394097 CTAAACC
1 TTAAACC
23394104 --AAA-C
1 TTAAACC
23394108 TTCAAACC
1 TT-AAACC
*
23394116 TTAAAAC
1 TTAAACC
23394123 TTAAACC
1 TTAAACC
23394130 TTAAACC
1 TTAAACC
23394137 --AAAGCC
1 TTAAA-CC
*
23394143 CTAAACC
1 TTAAACC
* *
23394150 -TAGACT
1 TTAAACC
23394156 TTAAACC
1 TTAAACC
** *
23394163 CAAAAAC
1 TTAAACC
* *
23394170 -AAAACT
1 TTAAACC
23394176 TTAAACC
1 TTAAACC
*
23394183 CTAAACC
1 TTAAACC
*
23394190 CTAAACC
1 TTAAACC
23394197 -TAAATCC
1 TTAAA-CC
23394204 -TAAACC
1 TTAAACC
23394210 TTAAACC
1 TTAAACC
23394217 T
1 T
23394218 AATCCTAAAC
Statistics
Matches: 95, Mismatches: 15, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
4 1 0.01
5 6 0.06
6 16 0.17
7 66 0.69
8 6 0.06
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (7 bp):
TTAAACC
Found at i:23394160 original size:33 final size:33
Alignment explanation
Indices: 23394057--23394255 Score: 106
Period size: 33 Copynumber: 6.0 Consensus size: 33
23394047 AAACTCTAAA
* * * *
23394057 TTAAACCCCAAACCTAAGCCCTAACCCTAAAGT
1 TTAAACCCTAAACCAAAGCCCTAAACCTAAACT
*
23394090 TTAAACCCTAAACCAAA--CTTCAAACCTTAAAAC-
1 TTAAACCCTAAACCAAAGCCCT-AAACC-T-AAACT
* *
23394123 TTAAACCTTAAACCAAAGCCCTAAACCTAGACT
1 TTAAACCCTAAACCAAAGCCCTAAACCTAAACT
* * * ** *
23394156 TTAAACCCAAAAACAAAACTTTAAACCCTAAACC
1 TTAAACCCTAAACCAAAGCCCTAAA-CCTAAACT
* * *
23394190 CTAAA-CCTAAATCCTAAA-CCTTAAACCTAATC-
1 TTAAACCCTAAA-CC-AAAGCCCTAAACCTAAACT
* * **
23394222 CTAAACCCCAAA-CAAAAACCTAAACCCTAAACT
1 TTAAACCCTAAACCAAAGCCCTAAA-CCTAAACT
23394255 T
1 T
23394256 AATCTTAAAC
Statistics
Matches: 127, Mismatches: 26, Indels: 26
0.71 0.15 0.15
Matches are distributed among these distances:
30 3 0.02
31 8 0.06
32 18 0.14
33 68 0.54
34 25 0.20
35 5 0.04
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.20
Consensus pattern (33 bp):
TTAAACCCTAAACCAAAGCCCTAAACCTAAACT
Found at i:23394169 original size:47 final size:47
Alignment explanation
Indices: 23394091--23394200 Score: 127
Period size: 47 Copynumber: 2.4 Consensus size: 47
23394081 CCCTAAAGTT
** *
23394091 TAAACCCTAAACC-AAACTTCAAACCTTAAAACTTAAACCTTAAA-CC
1 TAAACCCTAAACCTAAACTTCAAACCCAAAAAC-AAAACCTTAAACCC
* * *
23394137 -AAAGCCCTAAACCTAGACTTTAAACCCAAAAACAAAACTTTAAACCC
1 TAAA-CCCTAAACCTAAACTTCAAACCCAAAAACAAAACCTTAAACCC
23394184 TAAACCCTAAACCTAAA
1 TAAACCCTAAACCTAAA
23394201 TCCTAAACCT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
45 3 0.06
46 18 0.34
47 29 0.55
48 3 0.06
ACGTcount: A:0.49, C:0.30, G:0.02, T:0.19
Consensus pattern (47 bp):
TAAACCCTAAACCTAAACTTCAAACCCAAAAACAAAACCTTAAACCC
Found at i:23394200 original size:13 final size:13
Alignment explanation
Indices: 23394177--23394307 Score: 76
Period size: 13 Copynumber: 10.3 Consensus size: 13
23394167 AACAAAACTT
23394177 TAAACCCTAAACCC
1 TAAA-CCTAAACCC
*
23394191 TAAACCTAAATCC
1 TAAACCTAAACCC
23394204 TAAACCTTAAA-CC
1 TAAACC-TAAACCC
*
23394217 TAATCCTAAACCC
1 TAAACCTAAACCC
* * *
23394230 CAAA-CAAAAACC
1 TAAACCTAAACCC
*
23394242 TAAACCCTAAA-CT
1 TAAA-CCTAAACCC
* *
23394255 TAATCTTAAACCC
1 TAAACCTAAACCC
*
23394268 TAAACC-AAACTC
1 TAAACCTAAACCC
* * * *
23394280 -AACCCCATACCT
1 TAAACCTAAACCC
23394292 TAAA-CTAAACCC
1 TAAACCTAAACCC
23394304 TAAA
1 TAAA
23394308 TCATAACCCA
Statistics
Matches: 87, Mismatches: 23, Indels: 16
0.69 0.18 0.13
Matches are distributed among these distances:
11 4 0.05
12 35 0.40
13 36 0.41
14 12 0.14
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (13 bp):
TAAACCTAAACCC
Found at i:23394223 original size:19 final size:19
Alignment explanation
Indices: 23394182--23394273 Score: 112
Period size: 19 Copynumber: 4.8 Consensus size: 19
23394172 AACTTTAAAC
23394182 CCTAAACCCTAAACCTAAAT
1 CCTAAACCCTAAACCT-AAT
*
23394202 CCTAAACCTTAAACCTAAT
1 CCTAAACCCTAAACCTAAT
* ** *
23394221 CCTAAACCCCAAACAAAAA
1 CCTAAACCCTAAACCTAAT
*
23394240 CCTAAACCCTAAACTTAAT
1 CCTAAACCCTAAACCTAAT
*
23394259 CTTAAACCCTAAACC
1 CCTAAACCCTAAACC
23394274 AAACTCAACC
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
19 45 0.75
20 15 0.25
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.20
Consensus pattern (19 bp):
CCTAAACCCTAAACCTAAT
Found at i:23394273 original size:7 final size:7
Alignment explanation
Indices: 23394177--23394253 Score: 65
Period size: 7 Copynumber: 11.7 Consensus size: 7
23394167 AACAAAACTT
23394177 TAAACCC
1 TAAACCC
23394184 TAAACCC
1 TAAACCC
23394191 TAAA-CC
1 TAAACCC
*
23394197 TAAATCC
1 TAAACCC
*
23394204 TAAACCT
1 TAAACCC
23394211 TAAA-CC
1 TAAACCC
*
23394217 T-AATCC
1 TAAACCC
23394223 TAAACCC
1 TAAACCC
*
23394230 CAAA--C
1 TAAACCC
* *
23394235 AAAAACC
1 TAAACCC
23394242 TAAACCC
1 TAAACCC
23394249 TAAAC
1 TAAAC
23394254 TTAATCTTAA
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
5 6 0.11
6 11 0.19
7 40 0.70
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:23395884 original size:21 final size:21
Alignment explanation
Indices: 23395859--23395902 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
23395849 AATTTATTAA
23395859 TAAAGTATCATATTCTTAATT
1 TAAAGTATCATATTCTTAATT
23395880 TAAAGTATCATATTCTTAATT
1 TAAAGTATCATATTCTTAATT
23395901 TA
1 TA
23395903 GAGATTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.48
Consensus pattern (21 bp):
TAAAGTATCATATTCTTAATT
Found at i:23396675 original size:12 final size:12
Alignment explanation
Indices: 23396660--23396718 Score: 57
Period size: 12 Copynumber: 4.9 Consensus size: 12
23396650 TTCATATATA
*
23396660 TAAATATAAAAT
1 TAAATATATAAT
23396672 TAAATATATAAT
1 TAAATATATAAT
*
23396684 GAAATATATAAT
1 TAAATATATAAT
**
23396696 TTCATATAT-AT
1 TAAATATATAAT
*
23396707 ATATATATATAA
1 -TAAATATATAA
23396719 GGATGAATAA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
11 2 0.05
12 35 0.92
13 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (12 bp):
TAAATATATAAT
Found at i:23396716 original size:24 final size:23
Alignment explanation
Indices: 23396641--23396718 Score: 74
Period size: 24 Copynumber: 3.4 Consensus size: 23
23396631 ATAATTTCAT
23396641 TAATATAT-A-TTCATATATATA
1 TAATATATAATTTCATATATATA
* **
23396662 -AATATAAAATTAAATATATA-A
1 TAATATATAATTTCATATATATA
23396683 TGAAATATATAATTTCATATATATA
1 T--AATATATAATTTCATATATATA
23396708 TATATATATAA
1 TA-ATATATAA
23396719 GGATGAATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
20 6 0.14
21 2 0.05
22 8 0.18
23 1 0.02
24 25 0.57
25 2 0.05
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (23 bp):
TAATATATAATTTCATATATATA
Found at i:23397399 original size:19 final size:18
Alignment explanation
Indices: 23397375--23397417 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
23397365 TAAAAATTTT
* *
23397375 AAATTATTTAATATTTATA
1 AAATTATTAAATAATTA-A
23397394 AAATTATTAAATAATTAA
1 AAATTATTAAATAATTAA
23397412 AAATTA
1 AAATTA
23397418 AAAAGATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATTATTAAATAATTAA
Found at i:23401947 original size:2 final size:2
Alignment explanation
Indices: 23401940--23401968 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23401930 ATTGCATATG
23401940 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
23401969 TACAAGGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:23405460 original size:15 final size:17
Alignment explanation
Indices: 23405363--23405551 Score: 98
Period size: 18 Copynumber: 11.2 Consensus size: 17
23405353 AATTTTACTT
*
23405363 ATAAATAATATTATATTC
1 ATAAATAATA-TATATTA
23405381 ATAAATAA-ATAATATTA
1 ATAAATAATAT-ATATTA
*
23405398 TATTAATAA-ATA-A-TA
1 -ATAAATAATATATATTA
* * **
23405413 CTATATTACCATATATTA
1 ATA-AATAATATATATTA
23405431 ATAAATAATATTATATTA
1 ATAAATAATA-TATATTA
*
23405449 ATAAA-GA-ATATATTA
1 ATAAATAATATATATTA
*
23405464 ATAAATATTATAATAATCT-
1 ATAAATAATAT-AT-AT-TA
*
23405483 ATGAATAAATATATTATTA
1 ATAAAT-AATATA-TATTA
23405502 ATAAATAATATACTATTA
1 ATAAATAATATA-TATTA
23405520 AT--AT-A-ATATATTA
1 ATAAATAATATATATTA
*
23405533 ATAAAT-ATAT-TATAA
1 ATAAATAATATATATTA
23405548 ATAA
1 ATAA
23405552 TATGAAGAAT
Statistics
Matches: 135, Mismatches: 18, Indels: 39
0.70 0.09 0.20
Matches are distributed among these distances:
13 7 0.05
14 4 0.03
15 29 0.21
16 10 0.07
17 15 0.11
18 49 0.36
19 15 0.11
20 6 0.04
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (17 bp):
ATAAATAATATATATTA
Found at i:23405478 original size:38 final size:38
Alignment explanation
Indices: 23405430--23405554 Score: 105
Period size: 38 Copynumber: 3.2 Consensus size: 38
23405420 ACCATATATT
23405430 AATAA-ATAATATTATATTAATAAAGAATA-TATTAATA
1 AATAATATAATATTATATTAATAAA-AATATTATTAATA
* * * * *
23405467 AATATTATAATAATCTATGAATAAATATATTATTAATA
1 AATAATATAATATTATATTAATAAAAATATTATTAATA
*
23405505 AATAATATACTATTAATATAATATATTAATAAATA-TATT-ATA
1 AATAATATAATATT-ATAT--TA-A-TAA-AAATATTATTAATA
23405547 AATAATAT
1 AATAATAT
23405555 GAAGAATAGT
Statistics
Matches: 69, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
37 7 0.10
38 35 0.51
39 3 0.04
41 1 0.01
42 12 0.17
43 7 0.10
44 4 0.06
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (38 bp):
AATAATATAATATTATATTAATAAAAATATTATTAATA
Found at i:23405495 original size:68 final size:74
Alignment explanation
Indices: 23405363--23405553 Score: 201
Period size: 71 Copynumber: 2.7 Consensus size: 74
23405353 AATTTTACTT
* * * * *
23405363 ATAAATAATATTATATTCATAAATAA-ATAAT-AT-TATATTAATAAATAATACTAT-ATTAC-C
1 ATAAATAATATTATATTAATAAATAATATATTAATAAATATTAATAAATAATACTATAATAACAT
23405423 ATA-TATTA
66 ATATTATTA
*
23405431 ATAAATAATATTATATTAATAAAGAATATATTAATAAATATT-AT-AATAAT-CTATGAATAA-A
1 ATAAATAATATTATATTAATAAATAATATATTAATAAATATTAATAAATAATACTAT-AATAACA
23405492 TATATTATTA
65 TATATTATTA
*
23405502 ATAAATAATA-TACTATTAAT--ATAATATATTAATAAATATATTATAAATAATA
1 ATAAATAATATTA-TATTAATAAATAATATATTAATAAATAT-TAATAAATAATA
23405554 TGAAGAATAG
Statistics
Matches: 104, Mismatches: 7, Indels: 19
0.80 0.05 0.15
Matches are distributed among these distances:
68 28 0.27
69 28 0.27
70 13 0.12
71 29 0.28
72 6 0.06
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (74 bp):
ATAAATAATATTATATTAATAAATAATATATTAATAAATATTAATAAATAATACTATAATAACAT
ATATTATTA
Found at i:23405553 original size:31 final size:28
Alignment explanation
Indices: 23405434--23405554 Score: 76
Period size: 31 Copynumber: 4.3 Consensus size: 28
23405424 TATATTAATA
* *
23405434 AATAATAT-TATATTAATAAAGAATATATT
1 AATAATATAT-TATTAATAAATAATATA-C
* *
23405463 AATAA-ATATTA-TAAT-AAT-CTAT-G
1 AATAATATATTATTAATAAATAATATAC
23405486 AATAAATATATTATTAATAAATAATATAC
1 AAT-AATATATTATTAATAAATAATATAC
*
23405515 TATTAATATAATATATTAATAAATATATTATA-
1 -AATAATAT-AT-TATTAATAAATA-A-TATAC
23405547 AATAATAT
1 AATAATAT
23405555 GAAGAATAGT
Statistics
Matches: 73, Mismatches: 7, Indels: 22
0.72 0.07 0.22
Matches are distributed among these distances:
23 3 0.04
24 2 0.03
25 9 0.12
26 6 0.08
27 7 0.10
28 7 0.10
29 11 0.15
30 4 0.05
31 19 0.26
32 1 0.01
33 4 0.05
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (28 bp):
AATAATATATTATTAATAAATAATATAC
Found at i:23405613 original size:19 final size:18
Alignment explanation
Indices: 23405586--23405681 Score: 53
Period size: 19 Copynumber: 5.5 Consensus size: 18
23405576 TGTTAAGTAT
*
23405586 TTTTTATATTAACATAATA
1 TTTTAATATTAA-ATAATA
*
23405605 TTTTAATATTAAATATTA
1 TTTTAATATTAAATAATA
* *
23405623 TTATTAA-AATATAATTAT-
1 TT-TTAATATTA-AATAATA
*
23405641 TTTTGGATATT-AAT-A-A
1 TTTT-AATATTAAATAATA
*
23405657 TTTTAATAATAAAT-A-A
1 TTTTAATATTAAATAATA
23405673 TTTTAATAT
1 TTTTAATAT
23405682 ATTTTAATAA
Statistics
Matches: 61, Mismatches: 10, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
15 4 0.07
16 18 0.30
17 5 0.08
18 13 0.21
19 21 0.34
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTTAATATTAAATAATA
Found at i:23405671 original size:16 final size:16
Alignment explanation
Indices: 23405652--23405706 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
23405642 TTTGGATATT
23405652 AATAATTTTAATAATA
1 AATAATTTTAATAATA
23405668 AATAA-TTT--TAAT-
1 AATAATTTTAATAATA
23405680 -AT-ATTTTAATAATA
1 AATAATTTTAATAATA
23405694 AATAATTTTAATA
1 AATAATTTTAATA
23405707 TTTTAATAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
10 1 0.03
11 5 0.15
13 8 0.24
15 5 0.15
16 14 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATAATTTTAATAATA
Found at i:23405685 original size:10 final size:9
Alignment explanation
Indices: 23405650--23405714 Score: 68
Period size: 9 Copynumber: 7.7 Consensus size: 9
23405640 TTTTTGGATA
23405650 TTAATAATT
1 TTAATAATT
23405659 TTAATAA--
1 TTAATAATT
*
23405666 TAAATAATT
1 TTAATAATT
23405675 TTAATATATT
1 TTAATA-ATT
23405685 TTAATAA--
1 TTAATAATT
*
23405692 TAAATAATT
1 TTAATAATT
23405701 TTAAT-ATT
1 TTAATAATT
23405709 TTAATA
1 TTAATA
23405715 GTAATATTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
7 12 0.26
8 8 0.17
9 17 0.37
10 9 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
TTAATAATT
Found at i:23405685 original size:26 final size:26
Alignment explanation
Indices: 23405650--23405714 Score: 109
Period size: 26 Copynumber: 2.6 Consensus size: 26
23405640 TTTTTGGATA
23405650 TTAATA-ATTTTAATAATAAATAATT
1 TTAATATATTTTAATAATAAATAATT
23405675 TTAATATATTTTAATAATAAATAATT
1 TTAATATATTTTAATAATAAATAATT
23405701 TT-A-ATATTTTAATA
1 TTAATATATTTTAATA
23405715 GTAATATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
24 11 0.28
25 7 0.18
26 21 0.54
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
TTAATATATTTTAATAATAAATAATT
Found at i:23406617 original size:20 final size:20
Alignment explanation
Indices: 23406580--23406617 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23406570 AAGAAAACAC
* *
23406580 AAAAGAAAAGAAATAAAACG
1 AAAAAAAAAGAAAAAAAACG
23406600 AAAAAAAAAGAAAAAAAA
1 AAAAAAAAAGAAAAAAAA
23406618 TGATTCAGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.84, C:0.03, G:0.11, T:0.03
Consensus pattern (20 bp):
AAAAAAAAAGAAAAAAAACG
Found at i:23406761 original size:6 final size:6
Alignment explanation
Indices: 23406746--23406816 Score: 105
Period size: 6 Copynumber: 12.5 Consensus size: 6
23406736 TAAAGAAAAT
*
23406746 AAAT-A AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AGATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
23406793 AAAT-A AAAT-A AAAT-A AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
23406817 ATATTAAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
5 19 0.31
6 43 0.69
ACGTcount: A:0.82, C:0.00, G:0.01, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:23406853 original size:3 final size:3
Alignment explanation
Indices: 23406845--23406886 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
23406835 CTAATCAATA
* *
23406845 AAT AAT AAT AAT AAT AAT AAC AAC AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23406887 GAAAAAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:23406906 original size:6 final size:6
Alignment explanation
Indices: 23406747--23406886 Score: 80
Period size: 6 Copynumber: 24.0 Consensus size: 6
23406737 AAAGAAAATA
* * * * * *
23406747 AATAA- AATAAA AATAAA AATAAA AATAAA AATAAA AATAA- AGATAAA
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT A-ATAAT
* ** *
23406794 AATAA- AATAA- AATAA- AATAA- AA-AAT ATTAAAT AATTTT AAT-CT
1 AATAAT AATAAT AATAAT AATAAT AATAAT AAT-AAT AATAAT AATAAT
* *
23406837 AATCAAT AAATAAT AATAAT AATAAT AACAAC AATAAT AATAAT AATAAT
1 AAT-AAT -AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
23406887 GAAAAAAATA
Statistics
Matches: 116, Mismatches: 10, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
4 2 0.02
5 28 0.24
6 73 0.63
7 10 0.09
8 3 0.03
ACGTcount: A:0.71, C:0.03, G:0.01, T:0.26
Consensus pattern (6 bp):
AATAAT
Found at i:23407750 original size:16 final size:17
Alignment explanation
Indices: 23407729--23407861 Score: 91
Period size: 16 Copynumber: 8.1 Consensus size: 17
23407719 TAAAGATAAT
23407729 ATATTAATAGATAAA-A
1 ATATTAATAGATAAATA
23407745 ATATTAATAGATAAATA
1 ATATTAATAGATAAATA
*
23407762 ATAATAATAATGATAAATA
1 ATATTAAT-A-GATAAATA
* *
23407781 ATAATAA-AG-TATAT-
1 ATATTAATAGATAAATA
* *
23407795 ATATCAACAGAT-AATA
1 ATATTAATAGATAAATA
* *
23407811 A-ATAAATAAATAAATA
1 ATATTAATAGATAAATA
*
23407827 ATATATATTA-ATAAATA
1 ATAT-TAATAGATAAATA
* * *
23407844 GTAATAATAAATAAATA
1 ATATTAATAGATAAATA
23407861 A
1 A
23407862 ATAAGATACA
Statistics
Matches: 93, Mismatches: 14, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
14 5 0.05
15 15 0.16
16 27 0.29
17 27 0.29
18 4 0.04
19 15 0.16
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (17 bp):
ATATTAATAGATAAATA
Found at i:23407814 original size:4 final size:4
Alignment explanation
Indices: 23407807--23407886 Score: 74
Period size: 4 Copynumber: 19.5 Consensus size: 4
23407797 ATCAACAGAT
* *
23407807 AATA AATA AATA AATA AATA ATATA TATT AATA AATA GTAAT- AATA AATA
1 AATA AATA AATA AATA AATA A-ATA AATA AATA AATA --AATA AATA AATA
* *
23407857 AATA AATA AGATA CA-A AATA AAAA AATA AA
1 AATA AATA A-ATA AATA AATA AATA AATA AA
23407887 ATGGGCCTAC
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
3 5 0.08
4 48 0.77
5 6 0.10
6 3 0.05
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:23407854 original size:66 final size:65
Alignment explanation
Indices: 23407717--23407850 Score: 159
Period size: 66 Copynumber: 2.1 Consensus size: 65
23407707 AAGAAAAAAA
* * *
23407717 AATAAAGATAATATATTAATAGATAAAAATATTAATAGATAAATAATAATAATAATGATAAATAA
1 AATAAAGATAATATATCAACAGATAAAAATA-TAATAAATAAATAATAATAATAATGATAAATAA
23407782 T
65 T
* *
23407783 AATAAAG-TATATATATCAACAGATAATAAATA-AATAAATAAATAAT-AT-ATATTAATAAATA
1 AATAAAGATA-ATATATCAACAGATAA-AAATATAATAAATAAATAATAATAATAATGATAAATA
*
23407844 GT
64 AT
23407846 AATAA
1 AATAA
23407851 TAAATAAATA
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
63 17 0.28
64 2 0.03
65 15 0.25
66 21 0.35
67 5 0.08
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.31
Consensus pattern (65 bp):
AATAAAGATAATATATCAACAGATAAAAATATAATAAATAAATAATAATAATAATGATAAATAAT
Done.