Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 267 of 320
Found at i:86573782 original size:12 final size:11
Alignment explanation
Indices: 86573761--86573821 Score: 58
Period size: 12 Copynumber: 5.6 Consensus size: 11
86573751 TCAAAGGAAA
86573761 AATA-AATAAT
1 AATATAATAAT
86573771 AATGATAATAAT
1 AAT-ATAATAAT
86573783 AATACTAATAAT
1 AATA-TAATAAT
*
86573795 -A-ATAATAAC
1 AATATAATAAT
86573804 AATGATAATAA-
1 AAT-ATAATAAT
86573815 AATATAA
1 AATATAA
86573822 AAGTACATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
9 6 0.14
10 9 0.20
11 6 0.14
12 23 0.52
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (11 bp):
AATATAATAAT
Found at i:86573909 original size:12 final size:12
Alignment explanation
Indices: 86573878--86573915 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
86573868 AAGCTTGAAG
86573878 AAATAATAAAT-
1 AAATAATAAATA
*
86573889 AGATAAATAAATA
1 AAAT-AATAAATA
86573902 AAATAATAAATA
1 AAATAATAAATA
86573914 AA
1 AA
86573916 CCAGTTTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 3 0.13
12 17 0.74
13 3 0.13
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (12 bp):
AAATAATAAATA
Found at i:86575594 original size:45 final size:44
Alignment explanation
Indices: 86575519--86575656 Score: 143
Period size: 45 Copynumber: 3.1 Consensus size: 44
86575509 AAGATTTGTA
* * * *
86575519 ATTTGTAGCTTTAATCTGTTCTACTATAACTTTTAGGGAAATAAG
1 ATTTCTAGTTTTAATCTGTTCTACTGTAAC-TTTAGGGAGATAAG
**
86575564 ATTTCTAGTTTTAATCTGTTCTACTGTAACTTTAAAGAGATAAG
1 ATTTCTAGTTTTAATCTGTTCTACTGTAACTTTAGGGAGATAAG
* * * * *
86575608 ATTTGCTA-TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 ATTT-CTAGT-TTTAATCTGTTCTACTGTAACTTTAGGGAGATAAG
86575653 ATTT
1 ATTT
86575657 GTGACTTCAA
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
44 16 0.21
45 62 0.79
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (44 bp):
ATTTCTAGTTTTAATCTGTTCTACTGTAACTTTAGGGAGATAAG
Found at i:86575657 original size:45 final size:46
Alignment explanation
Indices: 86575559--86575699 Score: 123
Period size: 44 Copynumber: 3.2 Consensus size: 46
86575549 TTTTAGGGAA
* * * * * *
86575559 ATAAGATTTCTAGTT-TT-AATCTGTTCTACTGTAACTTTAAAGAG
1 ATAAGATTTGTAATTCTTCAATCTGCTCCACTGTAACTTCAAGGAG
* *
86575603 ATAAGATTTGCT-A-TCTTCAATCTGCTCCACTGCAACTTCAGGGAG
1 ATAAGATTTG-TAATTCTTCAATCTGCTCCACTGTAACTTCAAGGAG
* * * *
86575648 ATAAGATTTGTGA--CTTCAATCTACTCCACTGTGACTTCAAGAAG
1 ATAAGATTTGTAATTCTTCAATCTGCTCCACTGTAACTTCAAGGAG
86575692 ATAAGATT
1 ATAAGATT
86575700 CACCACAGTG
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
43 1 0.01
44 46 0.57
45 33 0.41
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (46 bp):
ATAAGATTTGTAATTCTTCAATCTGCTCCACTGTAACTTCAAGGAG
Found at i:86575685 original size:44 final size:45
Alignment explanation
Indices: 86575586--86575699 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 45
86575576 AATCTGTTCT
* * * *
86575586 ACTGTAACTTTAAAGAGATAAGATTTGCTATCTTCAATCTGCTCC
1 ACTGCAACTTCAAGGAGATAAGATTTGCTATCTTCAATCTACTCC
*
86575631 ACTGCAACTTCAGGGAGATAAGATTTG-TGA-CTTCAATCTACTCC
1 ACTGCAACTTCAAGGAGATAAGATTTGCT-ATCTTCAATCTACTCC
** *
86575675 ACTGTGACTTCAAGAAGATAAGATT
1 ACTGCAACTTCAAGGAGATAAGATT
86575700 CACCACAGTG
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
44 35 0.59
45 24 0.41
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (45 bp):
ACTGCAACTTCAAGGAGATAAGATTTGCTATCTTCAATCTACTCC
Found at i:86582770 original size:19 final size:19
Alignment explanation
Indices: 86582746--86582786 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
86582736 GCTTTTAGAG
86582746 TGTTTATGAAAAGCATTGT
1 TGTTTATGAAAAGCATTGT
86582765 TGTTTATGAAAAGCATTGT
1 TGTTTATGAAAAGCATTGT
86582784 TGT
1 TGT
86582787 CTCCTTCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.05, G:0.22, T:0.44
Consensus pattern (19 bp):
TGTTTATGAAAAGCATTGT
Found at i:86587664 original size:3 final size:3
Alignment explanation
Indices: 86587658--86587708 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
86587648 AGGAAAAATA
* * * *
86587658 AAT AAT AAT GAT AAT AAT AAT ACT AAT AAT AAT AAC AAT GAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
86587705 AAT A
1 AAT A
86587709 TAAAAGTACA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:86587827 original size:27 final size:29
Alignment explanation
Indices: 86587795--86587848 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 29
86587785 TCGTTTAAAA
*
86587795 AAATTGAAGTTA-AAT-AAATCAAGGATC
1 AAATTGAAATTAGAATGAAATCAAGGATC
*
86587822 AAATTGAAATTAGAATGAAATTAAGGA
1 AAATTGAAATTAGAATGAAATCAAGGA
86587849 GTATAAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 11 0.48
28 3 0.13
29 9 0.39
ACGTcount: A:0.54, C:0.04, G:0.17, T:0.26
Consensus pattern (29 bp):
AAATTGAAATTAGAATGAAATCAAGGATC
Found at i:86589396 original size:24 final size:24
Alignment explanation
Indices: 86589369--86589418 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
86589359 TAAACTACAT
86589369 AGCATTAATATACAAGATCCAAAG
1 AGCATTAATATACAAGATCCAAAG
86589393 AGCATTAATATACAAGATCCAAAG
1 AGCATTAATATACAAGATCCAAAG
86589417 AG
1 AG
86589419 AAGCTCAGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.20
Consensus pattern (24 bp):
AGCATTAATATACAAGATCCAAAG
Found at i:86592308 original size:3 final size:3
Alignment explanation
Indices: 86592294--86592324 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
86592284 GTGAGAATAG
*
86592294 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
86592325 GTTGATGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:86601407 original size:18 final size:18
Alignment explanation
Indices: 86601370--86601405 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
86601360 TTTTCTTTTC
*
86601370 TAATTTAAAATTTTAAAA
1 TAATTTAAAATTCTAAAA
86601388 TAATTTAAAATATCTAAA
1 TAATTTAAAAT-TCTAAA
86601406 TAGTAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATTTAAAATTCTAAAA
Found at i:86601516 original size:10 final size:11
Alignment explanation
Indices: 86601496--86601520 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
86601486 TAAGTGAGTC
86601496 TTTGTTTTTTT
1 TTTGTTTTTTT
86601507 TTTGTTTTTTT
1 TTTGTTTTTTT
86601518 TTT
1 TTT
86601521 ACTTTCTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTGTTTTTTT
Found at i:86612071 original size:28 final size:28
Alignment explanation
Indices: 86612008--86612064 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
86611998 TCCCTGTGAC
*
86612008 ATGATTCTGTTCGCGTATTCATAACACT
1 ATGATTCTGTTCGCATATTCATAACACT
*
86612036 ATGATTCTGTTTGCATATTCATAACACT
1 ATGATTCTGTTCGCATATTCATAACACT
86612064 A
1 A
86612065 CTTTTCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.40
Consensus pattern (28 bp):
ATGATTCTGTTCGCATATTCATAACACT
Found at i:86612813 original size:33 final size:33
Alignment explanation
Indices: 86612775--86612842 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
86612765 ATGGAAAAGA
86612775 ATGTATATGGCTAAACCTCAATGCTCAAAAACC
1 ATGTATATGGCTAAACCTCAATGCTCAAAAACC
86612808 ATGTATATGGCTAAACCTCAATGCTCAAAAACC
1 ATGTATATGGCTAAACCTCAATGCTCAAAAACC
86612841 AT
1 AT
86612843 CTTGGCATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.25
Consensus pattern (33 bp):
ATGTATATGGCTAAACCTCAATGCTCAAAAACC
Found at i:86622453 original size:4 final size:4
Alignment explanation
Indices: 86622444--86622471 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
86622434 ACATTATTAA
86622444 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
86622472 TCAGACCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:86626463 original size:11 final size:11
Alignment explanation
Indices: 86626447--86626485 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
86626437 CTATAAGATA
*
86626447 AATATTAATTT
1 AATATTAAATT
86626458 AATATTAAACTT
1 AATATTAAA-TT
86626470 AATATTAAATT
1 AATATTAAATT
86626481 AATAT
1 AATAT
86626486 AATGCTATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (11 bp):
AATATTAAATT
Found at i:86628094 original size:20 final size:19
Alignment explanation
Indices: 86628071--86628112 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
86628061 AGATTATATA
86628071 TATTAT-ATTATATAATTGAT
1 TATTATAATTAT-TAATTG-T
86628091 TATTATAATTATTAATTGT
1 TATTATAATTATTAATTGT
86628110 TAT
1 TAT
86628113 GGTTTTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 12 0.57
21 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TATTATAATTATTAATTGT
Found at i:86628674 original size:17 final size:16
Alignment explanation
Indices: 86628648--86628681 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
86628638 GAAGAAAAAT
86628648 AGAAAGAAAAAGGAAA
1 AGAAAGAAAAAGGAAA
86628664 AGAACAGAAAAAGGAAA
1 AGAA-AGAAAAAGGAAA
86628681 A
1 A
86628682 ACTAGAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.74, C:0.03, G:0.24, T:0.00
Consensus pattern (16 bp):
AGAAAGAAAAAGGAAA
Found at i:86629746 original size:45 final size:45
Alignment explanation
Indices: 86629669--86629781 Score: 145
Period size: 45 Copynumber: 2.5 Consensus size: 45
86629659 CGGCTACTAT
* * **
86629669 TACTGTTACCGTTACTGTTACCGATTTGACACTTTGTGTGTCAAA
1 TACTGTTACTGTTACTGTTACTGATTAAACACTTTGTGTGTCAAA
* * **
86629714 TACTATTACTGTTACCGTTACTGATTAAACACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACTGATTAAACACTTTGTGTGTCAAA
*
86629759 TACTGTTACTATTACTGTTACTG
1 TACTGTTACTGTTACTGTTACTG
86629782 CTACCGTTAC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACTGATTAAACACTTTGTGTGTCAAA
Found at i:86629773 original size:6 final size:6
Alignment explanation
Indices: 86629759--86629802 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
86629749 GTGTGTTGAA
* * *
86629759 TACTGT TACTAT TACTGT TACTGC TACCGT TACTGAT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT T
86629803 TAGGTACTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:86631519 original size:90 final size:92
Alignment explanation
Indices: 86631364--86631544 Score: 253
Period size: 90 Copynumber: 2.0 Consensus size: 92
86631354 TTTCTAAAAC
* * *
86631364 CCCAGGATAATTTTTCAAACATCCTGAGAATCTCAAGATAATTTTAGATTCGTCTGTTACATC-T
1 CCCAGGATAATTTTTCAAACATCCTGAGAATCCCAAGATAATTTCAGATTCGTCAGTTACATCTT
*
86631428 TTTTTTTTT-AATTCTTGCCCACCCAT
66 TTTTTTTTTCAATTATTGCCCACCCAT
* * *
86631454 CCCAGGATAAGTTTTT-AGACAT-CTCGAGAATCCCGAGATAATTTCAGATTCGTCAGTTACCTC
1 CCCAGGATAA-TTTTTCAAACATCCT-GAGAATCCCAAGATAATTTCAGATTCGTCAGTTACATC
86631517 TTTTTTTTTTTCAATTATTGCCCACCCA
64 TTTTTTTTTTTCAATTATTGCCCACCCA
86631545 ATTGCCTATA
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
89 2 0.03
90 48 0.60
91 15 0.19
92 15 0.19
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (92 bp):
CCCAGGATAATTTTTCAAACATCCTGAGAATCCCAAGATAATTTCAGATTCGTCAGTTACATCTT
TTTTTTTTTCAATTATTGCCCACCCAT
Found at i:86633111 original size:44 final size:43
Alignment explanation
Indices: 86632923--86633208 Score: 210
Period size: 43 Copynumber: 6.7 Consensus size: 43
86632913 TGGGTTTTCG
* * * *
86632923 TGTAAAACCATGTCTGGGATGTTGGCTTCGACTTATGATTTATA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGA-TTATGATTTACA
* * * * *
86632967 TGTAAGATCATGTCTGAGACATCGGCATCGTATT-TGATTT-CG
1 TGTAAGACCATGTCTGGGACGTTGGCATCG-ATTATGATTTACA
* * *
86633009 TGTAAGACCCTGTCTGGGATAG-TGGCATCGATATTTGA-TTACA
1 TGTAAGACCATGTCTGGGA-CGTTGGCATCGAT-TATGATTTACA
* * *
86633052 TGTAAGACCACGTCTGGGACGTTGGCTTCGACTTATGATTTATA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGA-TTATGATTTACA
* * * * * *
86633096 TGTAAGATCATGTCTGAGACATCGGCATC-ATATTTGATTT-CG
1 TGTAAGACCATGTCTGGGACGTTGGCATCGAT-TATGATTTACA
* * *
86633138 TGTAAGACCCTGTCTGGGATAG-TGGCATCGATATTTGA-TTACA
1 TGTAAGACCATGTCTGGGA-CGTTGGCATCGAT-TATGATTTACA
* *
86633181 TGTAAGACCATGTCTAGGATGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
86633209 TGTACAATCC
Statistics
Matches: 188, Mismatches: 41, Indels: 27
0.73 0.16 0.11
Matches are distributed among these distances:
41 2 0.01
42 53 0.28
43 79 0.42
44 53 0.28
45 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGATTATGATTTACA
Found at i:86633139 original size:129 final size:129
Alignment explanation
Indices: 86632923--86633206 Score: 523
Period size: 129 Copynumber: 2.2 Consensus size: 129
86632913 TGGGTTTTCG
*
86632923 TGTAAAACCATGTCTGGGATGTTGGCTTCGACTTATGATTTATATGTAAGATCATGTCTGAGACA
1 TGTAAGACCATGTCTGGGATGTTGGCTTCGACTTATGATTTATATGTAAGATCATGTCTGAGACA
*
86632988 TCGGCATCGTATTTGATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATTTGATTACA
66 TCGGCATCATATTTGATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATTTGATTACA
* *
86633052 TGTAAGACCACGTCTGGGACGTTGGCTTCGACTTATGATTTATATGTAAGATCATGTCTGAGACA
1 TGTAAGACCATGTCTGGGATGTTGGCTTCGACTTATGATTTATATGTAAGATCATGTCTGAGACA
86633117 TCGGCATCATATTTGATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATTTGATTACA
66 TCGGCATCATATTTGATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATTTGATTACA
*
86633181 TGTAAGACCATGTCTAGGATGTTGGC
1 TGTAAGACCATGTCTGGGATGTTGGC
86633207 ATTGTACAAT
Statistics
Matches: 148, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 148 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (129 bp):
TGTAAGACCATGTCTGGGATGTTGGCTTCGACTTATGATTTATATGTAAGATCATGTCTGAGACA
TCGGCATCATATTTGATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATTTGATTACA
Found at i:86635988 original size:310 final size:311
Alignment explanation
Indices: 86635419--86636010 Score: 725
Period size: 311 Copynumber: 1.9 Consensus size: 311
86635409 AGACAAAGGG
* * *
86635419 CTTCATTAGAAATTTCACATAAATGATTGTAAAAATAAAAAAAAAGTTTATTCTTCATTCATTCT
1 CTTCAATAGAAATTTCACATAAATGATTGTAAAAATAAAAAAAAAGTTTATTCTTAACTCATTCT
* * * * * * *
86635484 TAAAAATTCAAACTTGGAAGTAAGGATGTGAAGTTTGGACATGTAGACTGATGTATTCCTTTAGT
66 TAAAAATTCAAACTTGAAAGTAAAGATCTGAAGTTTAGACATATAGACTGATGCATTCCTTCAGT
* *
86635549 GTTGATTTTAAAGAATTGTCCGACATCTTTAGTGAATTCACACATAGAAAAGATTTTGAATTATT
131 GTTGATTTTAAAGAATTGTCCAACATCTTTAGTGAATTCACACATAGAAAAGATTTCGAATTATT
86635614 CAATGACAACATAACTGCATATTACATTAAGAGCTTTTCAATTCCAAATTGGCAACCCTTTCTTC
196 CAATGACAACATAACTGCATATTACATTAAGAGCTTTTCAATTCCAAATTGGCAACCCTTTCTTC
86635679 CACAATATCGTAGTTG-TTTTTCTGTCTTAGAACTCACAATGTTGTAGCTA
261 CACAATATCGTAGTTGCTTTTTCTGTCTTAGAACTCACAATGTTGTAGCTA
** * *
86635729 CTTCAATAGAAATTTCACATAAATGAACTT-T-AAAA-CCAAAAATAGTTTCTTCTTAACTCATT
1 CTTCAATAGAAATTTCACATAAATG-A-TTGTAAAAATAAAAAAAAAGTTTATTCTTAACTCATT
** * *
86635791 CTTAAATTTTCAAATTTGAAAGTAAAGATCT-AGAGTTTAGACATATAGATTGATTGCATTCCCT
64 CTTAAAAATTCAAACTTGAAAGTAAAGATCTGA-AGTTTAGACATATAGACTGA-TGCATT-CCT
* * * * * * *
86635855 TCA-TGTTGATTTTAGAGATTTGTCCAAATATCTTT-GATGGATTCACATATGGAAATGATTTCG
126 TCAGTGTTGATTTTAAAGAATTGTCC-AACATCTTTAG-TGAATTCACACATAGAAAAGATTTCG
* * * * * * *
86635918 AATTGTTCAATGTCAACATCATTGCATATTGCATTAAGAGCTTTTGAA-TCC-AATTTGCAACCC
189 AATTATTCAATGACAACATAACTGCATATTACATTAAGAGCTTTTCAATTCCAAATTGGCAACCC
* *
86635981 TTTTCTTCCTCAATATTGTAGTTGCTTTTT
254 -TTTCTTCCACAATATCGTAGTTGCTTTTT
86636011 TTTTCTTGTC
Statistics
Matches: 237, Mismatches: 36, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
308 1 0.00
309 74 0.31
310 78 0.33
311 82 0.35
312 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (311 bp):
CTTCAATAGAAATTTCACATAAATGATTGTAAAAATAAAAAAAAAGTTTATTCTTAACTCATTCT
TAAAAATTCAAACTTGAAAGTAAAGATCTGAAGTTTAGACATATAGACTGATGCATTCCTTCAGT
GTTGATTTTAAAGAATTGTCCAACATCTTTAGTGAATTCACACATAGAAAAGATTTCGAATTATT
CAATGACAACATAACTGCATATTACATTAAGAGCTTTTCAATTCCAAATTGGCAACCCTTTCTTC
CACAATATCGTAGTTGCTTTTTCTGTCTTAGAACTCACAATGTTGTAGCTA
Found at i:86639513 original size:17 final size:17
Alignment explanation
Indices: 86639491--86639525 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
86639481 AAAACATCAA
86639491 ACGAAAAGTATTGAGAG
1 ACGAAAAGTATTGAGAG
86639508 ACGAAAAGTATTGAGAG
1 ACGAAAAGTATTGAGAG
86639525 A
1 A
86639526 TAAATCGTAA
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:0.49, C:0.06, G:0.29, T:0.17
Consensus pattern (17 bp):
ACGAAAAGTATTGAGAG
Found at i:86641687 original size:46 final size:46
Alignment explanation
Indices: 86641635--86641728 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
86641625 CGTTACCTAA
86641635 AGTAAAACTGAAAAATATTGCCTAAGATAAGAAAAAAGAAAAACCC
1 AGTAAAACTGAAAAATATTGCCTAAGATAAGAAAAAAGAAAAACCC
86641681 AGTAAAACTGAAAAATATTGCCTAAGATAAGAAAAAAGAAAAACCC
1 AGTAAAACTGAAAAATATTGCCTAAGATAAGAAAAAAGAAAAACCC
86641727 AG
1 AG
86641729 CCTTATGAGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.59, C:0.13, G:0.14, T:0.15
Consensus pattern (46 bp):
AGTAAAACTGAAAAATATTGCCTAAGATAAGAAAAAAGAAAAACCC
Found at i:86648861 original size:22 final size:22
Alignment explanation
Indices: 86648836--86648879 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
86648826 TAGTCATATA
86648836 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
86648858 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
86648880 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:86648915 original size:13 final size:14
Alignment explanation
Indices: 86648899--86648940 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
86648889 TTTCAATTTT
86648899 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
86648912 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
86648927 ATTTTAAATAATAT
1 ATTTT-AATAATAT
86648941 TATTAACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:86648925 original size:16 final size:16
Alignment explanation
Indices: 86648903--86648939 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
86648893 AATTTTATTT
86648903 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
86648920 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
86648935 TAATA
1 TAATA
86648940 TTATTAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:86648992 original size:15 final size:15
Alignment explanation
Indices: 86648958--86649028 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
86648948 ATATTATTGA
86648958 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
86648971 CAATATTTTAATAAT
1 AAATATTTTAATAAT
*
86648986 AAATATTTATTACAATTAT
1 AAATA-TT-TT--AATAAT
*
86649005 AAATATATTAATAAT
1 AAATATTTTAATAAT
*
86649020 AAATGTTTT
1 AAATATTTT
86649029 GTAATATAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
13 4 0.09
14 6 0.13
15 18 0.40
16 2 0.04
17 4 0.09
18 1 0.02
19 10 0.22
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:86661197 original size:20 final size:20
Alignment explanation
Indices: 86661174--86661211 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
86661164 ACTTTTAAAT
*
86661174 AATTTAATAATTATTTTATA
1 AATTTAATAATGATTTTATA
*
86661194 AATTTACTAATGATTTTA
1 AATTTAATAATGATTTTA
86661212 CTCCTAAAAT
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:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (20 bp):
AATTTAATAATGATTTTATA
Found at i:86665771 original size:24 final size:24
Alignment explanation
Indices: 86665711--86665758 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
86665701 ATACAAACCG
86665711 AGTGTTGAATTTGTAAGATACCTC
1 AGTGTTGAATTTGTAAGATACCTC
86665735 AGTGTTGAATTTGTAAGATACCTC
1 AGTGTTGAATTTGTAAGATACCTC
86665759 TTTTTGAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (24 bp):
AGTGTTGAATTTGTAAGATACCTC
Found at i:86680427 original size:27 final size:26
Alignment explanation
Indices: 86680390--86680443 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 26
86680380 TGAATCATTA
86680390 TTTTTAAATTTTAATTTA-TTTTATT
1 TTTTTAAATTTTAATTTATTTTTATT
*
86680415 TTTTTGAATATTTTATTTTATTTTTATT
1 TTTTT-AA-ATTTTAATTTATTTTTATT
86680443 T
1 T
86680444 AATCACTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 5 0.20
26 2 0.08
27 10 0.40
28 8 0.32
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (26 bp):
TTTTTAAATTTTAATTTATTTTTATT
Found at i:86681280 original size:31 final size:33
Alignment explanation
Indices: 86681222--86681282 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
86681212 AATTAAACTT
* *
86681222 TTATATAATTAAGTTTAATACACATTTTATCCC
1 TTATAAAATTAAGTTTAATACAAATTTTATCCC
*
86681255 TTATAAAATTAGGTTT-ATA-AAATTTTAT
1 TTATAAAATTAAGTTTAATACAAATTTTAT
86681283 AAAACTAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 8 0.32
32 3 0.12
33 14 0.56
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (33 bp):
TTATAAAATTAAGTTTAATACAAATTTTATCCC
Found at i:86681453 original size:18 final size:19
Alignment explanation
Indices: 86681451--86681502 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
86681441 ATAAAATTAA
*
86681451 AAAATTAAAAAATAATA-T
1 AAAATTAAAAAAAAATACT
* * *
86681469 AAAAATATAAAAAATTACT
1 AAAATTAAAAAAAAATACT
86681488 AAAATTAAAAAAAAA
1 AAAATTAAAAAAAAA
86681503 ACACACATTT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAATTAAAAAAAAATACT
Found at i:86681454 original size:8 final size:8
Alignment explanation
Indices: 86681433--86681499 Score: 62
Period size: 8 Copynumber: 7.8 Consensus size: 8
86681423 ATAAATTATA
*
86681433 AAAAAAAT
1 AAAAAATT
*
86681441 ATAAAATT
1 AAAAAATT
86681449 AAAAAATT
1 AAAAAATT
86681457 AAAAAATAAT
1 AAAAAAT--T
86681467 ATAAAAATAT
1 A-AAAAAT-T
86681477 AAAAAATT
1 AAAAAATT
*
86681485 ACTAAAATT
1 A-AAAAATT
86681494 AAAAAA
1 AAAAAA
86681500 AAAACACACA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
8 26 0.52
9 13 0.26
10 5 0.10
11 6 0.12
ACGTcount: A:0.75, C:0.01, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAAAATT
Found at i:86681470 original size:37 final size:37
Alignment explanation
Indices: 86681415--86681499 Score: 102
Period size: 37 Copynumber: 2.3 Consensus size: 37
86681405 AAATGAAAAG
* *
86681415 AAATTACAATAAATTATA-AAAAAAATATAAAATTA-AA
1 AAATTA-AA-AAATAATATAAAAAAATAAAAAATTACAA
* *
86681452 AAATTAAAAAATAATATAAAAATATAAAAAATTACTA
1 AAATTAAAAAATAATATAAAAAAATAAAAAATTACAA
86681489 AAATTAAAAAA
1 AAATTAAAAAA
86681500 AAAACACACA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
35 7 0.17
36 17 0.40
37 18 0.43
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (37 bp):
AAATTAAAAAATAATATAAAAAAATAAAAAATTACAA
Found at i:86681472 original size:19 final size:18
Alignment explanation
Indices: 86681450--86681499 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
86681440 TATAAAATTA
86681450 AAAAATTAAAAAATAATA-T
1 AAAAATTAAAAAAT--TACT
86681469 AAAAATATAAAAAATTACT
1 AAAAAT-TAAAAAATTACT
86681488 -AAAATTAAAAAA
1 AAAAATTAAAAAA
86681500 AAAACACACA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 7 0.24
18 7 0.24
19 7 0.24
20 8 0.28
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAATTAAAAAATTACT
Found at i:86681500 original size:28 final size:27
Alignment explanation
Indices: 86681410--86681503 Score: 73
Period size: 30 Copynumber: 3.3 Consensus size: 27
86681400 CTTTAAAATG
*
86681410 AAAAGAAATTACAATAAATTATAAAAAAAAT
1 AAAA-AAATTA-AA-AAATTA-AAAAATAAT
*
86681441 -ATAAAATTAAAAAATTAAAAAATAAT
1 AAAAAAATTAAAAAATTAAAAAATAAT
* * *
86681467 ATAAAAATATAAAAAATTACTAAAATTAAA
1 AAAAAAAT-TAAAAAATTA--AAAAATAAT
86681497 AAAAAAA
1 AAAAAAA
86681504 CACACATTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
26 8 0.15
27 11 0.21
28 12 0.23
29 6 0.12
30 15 0.29
ACGTcount: A:0.73, C:0.02, G:0.01, T:0.23
Consensus pattern (27 bp):
AAAAAAATTAAAAAATTAAAAAATAAT
Found at i:86681735 original size:20 final size:19
Alignment explanation
Indices: 86681693--86681732 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
86681683 TCAAATCAAT
* *
86681693 AATATTTTTAATTATTTCA
1 AATATTTTTAACTATTTAA
*
86681712 AATATTTTTTACTATTTAA
1 AATATTTTTAACTATTTAA
86681731 AA
1 AA
86681733 ATAAATTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (19 bp):
AATATTTTTAACTATTTAA
Found at i:86682167 original size:39 final size:40
Alignment explanation
Indices: 86682107--86682211 Score: 117
Period size: 39 Copynumber: 2.7 Consensus size: 40
86682097 AAATTTTTAA
* * * * *
86682107 ATAATTATTTATAATATTTTACGATTTCTAAT-CGTTTTT
1 ATAATTTTTTACAATAGTTTACAATTTCTAATACCTTTTT
86682146 ATAATTTTTTACAATAGTTTACAATTTCTAATACCTTTTT
1 ATAATTTTTTACAATAGTTTACAATTTCTAATACCTTTTT
* *
86682186 A-AATTTATTTATAAT-TTTTACAATTT
1 ATAATTT-TTTACAATAGTTTACAATTT
86682212 TTAAAAAATG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 43 0.75
40 14 0.25
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (40 bp):
ATAATTTTTTACAATAGTTTACAATTTCTAATACCTTTTT
Found at i:86684858 original size:18 final size:16
Alignment explanation
Indices: 86684827--86684866 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
86684817 TTTTATGTGT
86684827 TATAAAATACATAATA
1 TATAAAATACATAATA
86684843 TATACAAATAACATAATA
1 TATA-AAAT-ACATAATA
86684861 TA-AAAA
1 TATAAAA
86684867 CTTTAAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.32
17 5 0.23
18 10 0.45
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (16 bp):
TATAAAATACATAATA
Found at i:86685475 original size:28 final size:28
Alignment explanation
Indices: 86685385--86685476 Score: 66
Period size: 28 Copynumber: 3.3 Consensus size: 28
86685375 AACTAACAAA
* **
86685385 TTGGTACATAAATTATATTTTTT-T-ATT
1 TTGGTACCTAAATTAT-TTTTTTCTCAAG
* * *
86685412 TTGGTACTTAAACTT-TTTTTAGTCACAAG
1 TTGGTACCTAAA-TTATTTTT-TTCTCAAG
*
86685441 -TGATACCTAAATTATTTTTTTCTCAAG
1 TTGGTACCTAAATTATTTTTTTCTCAAG
86685468 TTGGTACCT
1 TTGGTACCT
86685477 CTGTTAGTTC
Statistics
Matches: 49, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
26 4 0.08
27 21 0.43
28 23 0.47
29 1 0.02
ACGTcount: A:0.27, C:0.12, G:0.11, T:0.50
Consensus pattern (28 bp):
TTGGTACCTAAATTATTTTTTTCTCAAG
Found at i:86685967 original size:20 final size:19
Alignment explanation
Indices: 86685934--86685972 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
86685924 AAAAAATAAT
*
86685934 TTTTAAATTCTTTTATTTTC
1 TTTTAAATTATTTT-TTTTC
*
86685954 TTTTACATTATTTTTTTTC
1 TTTTAAATTATTTTTTTTC
86685973 ACAAACCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTAAATTATTTTTTTTC
Found at i:86686228 original size:17 final size:17
Alignment explanation
Indices: 86686206--86686238 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
86686196 ATTGGTTCTC
86686206 TATTTTA-AAATATTTTT
1 TATTTTATAAA-ATTTTT
86686223 TATTTTATAAAATTTT
1 TATTTTATAAAATTTT
86686239 AATAATTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTTTATAAAATTTTT
Found at i:86687659 original size:21 final size:23
Alignment explanation
Indices: 86687612--86687665 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
86687602 CATTCAAGAT
**
86687612 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
86687635 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
86687656 AAAAT-ATATA
1 AAAATAATATA
86687666 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:86691372 original size:25 final size:24
Alignment explanation
Indices: 86691344--86691453 Score: 73
Period size: 24 Copynumber: 4.5 Consensus size: 24
86691334 TAAAAAAAGT
86691344 TTAAAATAAATAATATATGAAAATA
1 TTAAAATAAATAATATAT-AAAATA
* *
86691369 TTAAAGTAAATAATGTATAAAA-A
1 TTAAAATAAATAATATATAAAATA
* * **
86691392 TTTGAAATGAATGTTATATAAAA-A
1 -TTAAAATAAATAATATATAAAATA
* * *
86691416 CTTAAAATAGATAATA-ACAAAAAA
1 -TTAAAATAAATAATATATAAAATA
*
86691440 TGTAAAAAAAATAA
1 T-TAAAATAAATAA
86691454 AAAAATAGAA
Statistics
Matches: 65, Mismatches: 17, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
23 7 0.11
24 42 0.65
25 16 0.25
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (24 bp):
TTAAAATAAATAATATATAAAATA
Found at i:86691558 original size:15 final size:15
Alignment explanation
Indices: 86691534--86691565 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
86691524 ATATAAATAC
*
86691534 AAATATAAATATAAT
1 AAATAAAAATATAAT
86691549 AAATAAAAATATAAT
1 AAATAAAAATATAAT
86691564 AA
1 AA
86691566 TAGTTGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAATAAAAATATAAT
Found at i:86692200 original size:6 final size:6
Alignment explanation
Indices: 86692179--86692231 Score: 60
Period size: 6 Copynumber: 9.5 Consensus size: 6
86692169 ATTTAATAAT
* *
86692179 AAAAT- AAAAT- AAAATA AAAAT- -AATTA AAAACA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
86692223 AAAATA AAA
1 AAAATA AAA
86692232 TCTTCCTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
4 3 0.07
5 10 0.24
6 28 0.68
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:86695200 original size:18 final size:18
Alignment explanation
Indices: 86695173--86695265 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
86695163 TACGACCGTT
86695173 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
86695191 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
86695209 TATGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
86695227 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
86695245 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
86695263 TAC
1 TAC
86695266 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:86695223 original size:36 final size:36
Alignment explanation
Indices: 86695173--86695265 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
86695163 TACGACCGTT
86695173 TACGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
86695209 TATGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
86695245 TACGGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
86695266 AGTAGTTGGG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGCACTATTCACGTA
Found at i:86702655 original size:22 final size:21
Alignment explanation
Indices: 86702617--86702657 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
86702607 AAAAGAAATG
86702617 GAGAAGGGAGGAAAATAGAGA
1 GAGAAGGGAGGAAAATAGAGA
*
86702638 GAGAAGGAGAGGAGAATAGA
1 GAGAAGG-GAGGAAAATAGA
86702658 AAATAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.51, C:0.00, G:0.44, T:0.05
Consensus pattern (21 bp):
GAGAAGGGAGGAAAATAGAGA
Found at i:86705597 original size:43 final size:43
Alignment explanation
Indices: 86705528--86705672 Score: 159
Period size: 43 Copynumber: 3.4 Consensus size: 43
86705518 CGGCGTTTTT
* * *
86705528 ACAAGCGCCGCTAAAGAGCATGACCTTTAGTGGCTCTTTAGCC
1 ACAAACGCCGCTAAAGAACATGACCTTTAGTGGCTCTTTACCC
* ** * *
86705571 ACAAACGCCGCTAAAGAACATAACCTTTAACGG-TATTTCTCCC
1 ACAAACGCCGCTAAAGAACATGACCTTTAGTGGCTCTTT-ACCC
* *
86705614 ACAAACGCCGCTAAAGAACATGGCCTTTAGTGGCGCTTT-CTCC
1 ACAAACGCCGCTAAAGAACATGACCTTTAGTGGCTCTTTAC-CC
*
86705657 ACAAACGTCGCTAAAG
1 ACAAACGCCGCTAAAG
86705673 GTCATGAAAT
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
42 5 0.06
43 76 0.90
44 3 0.04
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAACATGACCTTTAGTGGCTCTTTACCC
Found at i:86707064 original size:23 final size:22
Alignment explanation
Indices: 86707029--86707080 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
86707019 ATTCGAATAT
*
86707029 CATAAATCACAAC-TTTCAGACAC
1 CATAAATTACAACATTT-A-ACAC
*
86707052 CATAAATTGCAACATTTAACAC
1 CATAAATTACAACATTTAACAC
86707074 C-TAAATT
1 CATAAATT
86707081 TTCAGCTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 6 0.23
22 5 0.19
23 12 0.46
24 3 0.12
ACGTcount: A:0.44, C:0.25, G:0.04, T:0.27
Consensus pattern (22 bp):
CATAAATTACAACATTTAACAC
Found at i:86710043 original size:17 final size:18
Alignment explanation
Indices: 86710010--86710043 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
86710000 TATCTCTTAA
86710010 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
86710028 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
86710044 AAAATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:86710228 original size:7 final size:7
Alignment explanation
Indices: 86710218--86710269 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
86710208 TTTCTAACAA
86710218 TAAACCC
1 TAAACCC
**
86710225 TAAACTT
1 TAAACCC
86710232 TAAACCC
1 TAAACCC
* *
86710239 CAAACCA
1 TAAACCC
86710246 TAAA-CC
1 TAAACCC
*
86710252 TACACCC
1 TAAACCC
86710259 TAAACCC
1 TAAACCC
86710266 TAAA
1 TAAA
86710270 TATATATTAC
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
6 4 0.12
7 30 0.88
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:86710452 original size:14 final size:14
Alignment explanation
Indices: 86710435--86710486 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
86710425 ATAAAACAAA
*
86710435 AAACCACAAACTCT
1 AAACCAAAAACTCT
* *
86710449 AAACCATAAACCCT
1 AAACCAAAAACTCT
**
86710463 AAATTAAAAACTCT
1 AAACCAAAAACTCT
86710477 AAACCTAAAA
1 AAACC-AAAA
86710487 TAATAAACAT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 25 0.86
15 4 0.14
ACGTcount: A:0.56, C:0.27, G:0.00, T:0.17
Consensus pattern (14 bp):
AAACCAAAAACTCT
Found at i:86710473 original size:21 final size:21
Alignment explanation
Indices: 86710455--86710494 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
86710445 CTCTAAACCA
*
86710455 TAAACCCTAAATTAA-AAACTC
1 TAAA-CCTAAAATAATAAACTC
86710476 TAAACCTAAAATAATAAAC
1 TAAACCTAAAATAATAAAC
86710495 ATTATACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACCTAAAATAATAAACTC
Found at i:86710563 original size:28 final size:28
Alignment explanation
Indices: 86710504--86710572 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
86710494 CATTATACCA
*
86710504 TAAACCTTAAACTCTTAAAACATAGACAT
1 TAAACCTTAAA-TCTTAAAACATAAACAT
** *
86710533 TAAACCTTAAATCTTAAATTATAAACCT
1 TAAACCTTAAATCTTAAAACATAAACAT
*
86710561 TAAACCCTAAAT
1 TAAACCTTAAAT
86710573 AATCCCTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 24 0.69
29 11 0.31
ACGTcount: A:0.48, C:0.20, G:0.01, T:0.30
Consensus pattern (28 bp):
TAAACCTTAAATCTTAAAACATAAACAT
Found at i:86710571 original size:21 final size:21
Alignment explanation
Indices: 86710448--86710572 Score: 62
Period size: 21 Copynumber: 5.9 Consensus size: 21
86710438 CCACAAACTC
*
86710448 TAAACCATAAACCCTAAATTA
1 TAAACCTTAAACCCTAAATTA
* *
86710469 -AAAACTCTAAA-CCTAAAATAA
1 TAAACCT-TAAACCCT-AAATTA
* * * *
86710490 TAAACATTATACCATAAACCT-
1 TAAACCTTAAACCCTAAA-TTA
* *
86710511 TAAACTCTTAAAACATAGACA-T-
1 TAAAC-CTTAAACCCTA-A-ATTA
* *
86710533 TAAACCTTAAATCTTAAATTA
1 TAAACCTTAAACCCTAAATTA
86710554 TAAACCTTAAACCCTAAAT
1 TAAACCTTAAACCCTAAAT
86710573 AATCCCTTAA
Statistics
Matches: 78, Mismatches: 16, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
19 1 0.01
20 9 0.12
21 46 0.59
22 20 0.26
23 1 0.01
24 1 0.01
ACGTcount: A:0.51, C:0.21, G:0.01, T:0.27
Consensus pattern (21 bp):
TAAACCTTAAACCCTAAATTA
Found at i:86711096 original size:7 final size:7
Alignment explanation
Indices: 86711070--86711116 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
86711060 CACCATATTC
86711070 ACCCTTAA
1 ACCC-TAA
86711078 ACCCCTAA
1 A-CCCTAA
*
86711086 ACCCCAA
1 ACCCTAA
86711093 ACCCTAA
1 ACCCTAA
*
86711100 ACACTAA
1 ACCCTAA
86711107 ACCCTAA
1 ACCCTAA
86711114 ACC
1 ACC
86711117 ATAAGGCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
7 26 0.76
8 5 0.15
9 3 0.09
ACGTcount: A:0.43, C:0.45, G:0.00, T:0.13
Consensus pattern (7 bp):
ACCCTAA
Found at i:86713048 original size:39 final size:39
Alignment explanation
Indices: 86712989--86713089 Score: 139
Period size: 39 Copynumber: 2.6 Consensus size: 39
86712979 ATCGTGATCT
* * * *
86712989 GAAGCCCCAAGTCTAGCTGAAGCACACAAGTGTTAAAAG
1 GAAGCCCGAAGGCTAGCTGAAGCAAACAAGTGCTAAAAG
* * *
86713028 GAAGCCCGAAGGCTAACTGAAACAAACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAGCTGAAGCAAACAAGTGCTAAAAG
86713067 GAAGCCCGAAGGCTAGCTGAAGC
1 GAAGCCCGAAGGCTAGCTGAAGC
86713090 TCATCAGAGC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.39, C:0.24, G:0.26, T:0.12
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAGCTGAAGCAAACAAGTGCTAAAAG
Found at i:86714508 original size:40 final size:40
Alignment explanation
Indices: 86714453--86714620 Score: 129
Period size: 40 Copynumber: 4.2 Consensus size: 40
86714443 TTTTTTCGTT
* * * * *
86714453 GCGTTTTTTAGAAAGCGCTATTAATGGTCAACCTATAGCG
1 GCGTTTTTCAAAAAGCGCCACTAATGCTCAACCTATAGCG
* * * *
86714493 GCGTTTTTCAAAAAGCACCGCTAATGCTCGATCTATAGCG
1 GCGTTTTTCAAAAAGCGCCACTAATGCTCAACCTATAGCG
* * ** ** *
86714533 GCGTTTTTCAAAAAGCGCCGCTGATGCTTGATTTATAACG
1 GCGTTTTTCAAAAAGCGCCACTAATGCTCAACCTATAGCG
* ** * * * *
86714573 GCATTTTTCAAAAAATGCCGCTAATGCTTAATCTATAGTG
1 GCGTTTTTCAAAAAGCGCCACTAATGCTCAACCTATAGCG
86714613 GCGTTTTT
1 GCGTTTTT
86714621 GGTCCTAGCG
Statistics
Matches: 105, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (40 bp):
GCGTTTTTCAAAAAGCGCCACTAATGCTCAACCTATAGCG
Found at i:86715545 original size:53 final size:53
Alignment explanation
Indices: 86715483--86715588 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
86715473 CGTGTTTCCA
86715483 ATTGCATTAATTATTTCGGACTTGGACTTTTCATTCATATAGAAGCATTAACT
1 ATTGCATTAATTATTTCGGACTTGGACTTTTCATTCATATAGAAGCATTAACT
86715536 ATTGCATTAATTATTTCGGACTTGGACTTTTCATTCATATAGAAGCATTAACT
1 ATTGCATTAATTATTTCGGACTTGGACTTTTCATTCATATAGAAGCATTAACT
86715589 TATTCTTTCC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (53 bp):
ATTGCATTAATTATTTCGGACTTGGACTTTTCATTCATATAGAAGCATTAACT
Found at i:86716121 original size:42 final size:43
Alignment explanation
Indices: 86716074--86716165 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 43
86716064 TTATTATGTG
86716074 ATATTATCT-TCTAAAAATTTGATT-TCTAAT-GGATATTAAATA
1 ATATTATCTCT-TAAAAATTTGATTCT-TAATAGGATATTAAATA
** * *
86716116 ATATTATCTCTTAGCAATTTGATTCTTAATAGGATATTATATG
1 ATATTATCTCTTAAAAATTTGATTCTTAATAGGATATTAAATA
86716159 ATATTAT
1 ATATTAT
86716166 TATGGAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
42 24 0.56
43 19 0.44
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.47
Consensus pattern (43 bp):
ATATTATCTCTTAAAAATTTGATTCTTAATAGGATATTAAATA
Found at i:86722282 original size:30 final size:30
Alignment explanation
Indices: 86722246--86722308 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
86722236 GATTTTTACT
86722246 TATTTTTAAATTACTTTGAGGGGATTAGGA
1 TATTTTTAAATTACTTTGAGGGGATTAGGA
*
86722276 TATTTTTAAATTACTTTGAGGGGTTTAGGA
1 TATTTTTAAATTACTTTGAGGGGATTAGGA
86722306 TAT
1 TAT
86722309 GCATTTAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.46
Consensus pattern (30 bp):
TATTTTTAAATTACTTTGAGGGGATTAGGA
Found at i:86729423 original size:66 final size:66
Alignment explanation
Indices: 86729346--86729475 Score: 251
Period size: 66 Copynumber: 2.0 Consensus size: 66
86729336 AACGAATGGA
86729346 ATTTGATGATTTATAAAGCATATTGACCAACATATTTTAATGCTTGAAACAGCCATATTAAATTC
1 ATTTGATGATTTATAAAGCATATTGACCAACATATTTTAATGCTTGAAACAGCCATATTAAATTC
86729411 C
66 C
*
86729412 ATTTGATGATTTATGAAGCATATTGACCAACATATTTTAATGCTTGAAACAGCCATATTAAATT
1 ATTTGATGATTTATAAAGCATATTGACCAACATATTTTAATGCTTGAAACAGCCATATTAAATT
86729476 GTGTTGATTA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.37
Consensus pattern (66 bp):
ATTTGATGATTTATAAAGCATATTGACCAACATATTTTAATGCTTGAAACAGCCATATTAAATTC
C
Found at i:86740311 original size:14 final size:14
Alignment explanation
Indices: 86740281--86740322 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
86740271 ACTACCTTCT
86740281 AAAT-AATCA-TG-
1 AAATAAATCACTGA
86740292 AAATAAATCACTGA
1 AAATAAATCACTGA
*
86740306 AAATAAACCACTGA
1 AAATAAATCACTGA
86740320 AAA
1 AAA
86740323 AGTATCAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 4 0.15
12 5 0.19
13 2 0.07
14 16 0.59
ACGTcount: A:0.60, C:0.14, G:0.07, T:0.19
Consensus pattern (14 bp):
AAATAAATCACTGA
Found at i:86742115 original size:7 final size:7
Alignment explanation
Indices: 86742103--86742127 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
86742093 AATAAAAATT
86742103 ATTTTAA
1 ATTTTAA
86742110 ATTTTAA
1 ATTTTAA
86742117 ATTTTAA
1 ATTTTAA
86742124 ATTT
1 ATTT
86742128 AATTAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTTAA
Found at i:86743894 original size:20 final size:22
Alignment explanation
Indices: 86743857--86743898 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
86743847 GTTGTATTTT
86743857 TATTTTTATATTGAAATTTTGTA
1 TATTTTTATATT-AAATTTTGTA
86743880 TATTTTTA-ATT-AATTTTGT
1 TATTTTTATATTAAATTTTGT
86743899 TGAGTTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
22 3 0.16
23 8 0.42
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (22 bp):
TATTTTTATATTAAATTTTGTA
Found at i:86746331 original size:24 final size:24
Alignment explanation
Indices: 86746304--86746352 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
86746294 GGCTTGAAAG
86746304 TATGAACATGAGATGTTTCTGCCA
1 TATGAACATGAGATGTTTCTGCCA
86746328 TATGAACATGAGATGTTTCTGCCA
1 TATGAACATGAGATGTTTCTGCCA
86746352 T
1 T
86746353 TTCTAATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (24 bp):
TATGAACATGAGATGTTTCTGCCA
Found at i:86766458 original size:17 final size:18
Alignment explanation
Indices: 86766423--86766460 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
86766413 ATTTATAATA
86766423 TTTTTATAATATTAGTTT
1 TTTTTATAATATTAGTTT
*
86766441 TTTTTA-AATTTTA-TTT
1 TTTTTATAATATTAGTTT
86766457 TTTT
1 TTTT
86766461 AAATCATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 6 0.32
18 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTTATAATATTAGTTT
Found at i:86771929 original size:17 final size:17
Alignment explanation
Indices: 86771909--86771941 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
86771899 ATTAAGAATG
86771909 TTATTAAATTATATTTT
1 TTATTAAATTATATTTT
86771926 TTATTAAATTATATTT
1 TTATTAAATTATATTT
86771942 AATAATAATT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:86772210 original size:16 final size:16
Alignment explanation
Indices: 86772189--86772225 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
86772179 TGAATTACTT
86772189 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
* *
86772205 ATTACAGCTCTATTCT
1 ATTACAACTCTATTCC
86772221 ATTAC
1 ATTAC
86772226 TATAACGACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.30, C:0.27, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:86772988 original size:21 final size:21
Alignment explanation
Indices: 86772947--86772988 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
86772937 CACTACAATA
* *
86772947 TTTCCTATCACTTCCTTTTAT
1 TTTCCTATCACTTCATATTAT
86772968 TTTCCT-TCACTATCATATTAT
1 TTTCCTATCACT-TCATATTAT
86772989 GTACATAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTCCTATCACTTCATATTAT
Found at i:86773855 original size:40 final size:39
Alignment explanation
Indices: 86773811--86773921 Score: 134
Period size: 40 Copynumber: 2.8 Consensus size: 39
86773801 TGAGTTACCA
*
86773811 TAGTGAATCAGGAACAAATCCTATCAACTTTATATAT-TTC
1 TAGTGAATCAGGAATAAATCCTATC-ACTTTA-ATATCTTC
* * *
86773851 TAGTGAATCAGGAATAAATCCTATTCATTTTAATTTCTTT
1 TAGTGAATCAGGAATAAATCCTA-TCACTTTAATATCTTC
*
86773891 TAATGAATCAGGAATAAATCCTATTCACTTT
1 TAGTGAATCAGGAATAAATCCTA-TCACTTT
86773922 TAATTCTCGA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
39 3 0.05
40 58 0.92
41 2 0.03
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (39 bp):
TAGTGAATCAGGAATAAATCCTATCACTTTAATATCTTC
Found at i:86780207 original size:16 final size:16
Alignment explanation
Indices: 86780186--86780228 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
86780176 TAGGTTGTTA
*
86780186 CAATTACAGCTCTATT
1 CAATTACAGCCCTATT
*
86780202 CAATTACAACCCTATT
1 CAATTACAGCCCTATT
*
86780218 CCATTACAGCC
1 CAATTACAGCC
86780229 AACCAAACGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.33, C:0.33, G:0.05, T:0.30
Consensus pattern (16 bp):
CAATTACAGCCCTATT
Found at i:86780410 original size:16 final size:16
Alignment explanation
Indices: 86780386--86780453 Score: 64
Period size: 16 Copynumber: 4.2 Consensus size: 16
86780376 TGGTTCACTG
*
86780386 TAATAGAATAGGGCTA
1 TAATAGAATAGAGCTA
* *
86780402 TAATTGAATAGAGCTG
1 TAATAGAATAGAGCTA
* * *
86780418 TAATGGAATAGAGTTG
1 TAATAGAATAGAGCTA
* *
86780434 TAATGGAATAGAGCTG
1 TAATAGAATAGAGCTA
86780450 TAAT
1 TAAT
86780454 CAGTAATTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.40, C:0.04, G:0.26, T:0.29
Consensus pattern (16 bp):
TAATAGAATAGAGCTA
Found at i:86780419 original size:32 final size:32
Alignment explanation
Indices: 86780383--86780453 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
86780373 GTTTGGTTCA
* *
86780383 CTGTAATAGAATAGGGCTATAATTGAATAGAG
1 CTGTAATAGAATAGAGCTATAATGGAATAGAG
* * *
86780415 CTGTAATGGAATAGAGTTGTAATGGAATAGAG
1 CTGTAATAGAATAGAGCTATAATGGAATAGAG
86780447 CTGTAAT
1 CTGTAAT
86780454 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.06, G:0.27, T:0.30
Consensus pattern (32 bp):
CTGTAATAGAATAGAGCTATAATGGAATAGAG
Found at i:86781241 original size:16 final size:16
Alignment explanation
Indices: 86781220--86781276 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
86781210 ATGGAATTAT
86781220 AAATTAATATATGATA
1 AAATTAATATATGATA
*
86781236 AAATTACAT-TTTGATCTCA
1 AAATTA-ATATATGA--T-A
*
86781255 AAATTAATATATGGTA
1 AAATTAATATATGATA
86781271 AAATTA
1 AAATTA
86781277 CATCTATTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
16 17 0.52
17 3 0.09
18 3 0.09
19 10 0.30
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (16 bp):
AAATTAATATATGATA
Found at i:86786909 original size:16 final size:16
Alignment explanation
Indices: 86786888--86787006 Score: 78
Period size: 16 Copynumber: 6.7 Consensus size: 16
86786878 AATTACACCA
86786888 GCACAAAGCCTACTAG
1 GCACAAAGCCTACTAG
86786904 GCACAAAGCCCGAATA-TCACTG
1 GCACAAAG-CC---TACT-A--G
*
86786926 GCACAAAGCCTGCTAG
1 GCACAAAGCCTACTAG
*
86786942 GCACAAAGCCTGAATATCATTG
1 GCACAAAGCC----TA-C-TAG
*
86786964 GCACAAAGCTTACTAG
1 GCACAAAGCCTACTAG
*
86786980 GCACAAAGCCTGCTAG
1 GCACAAAGCCTACTAG
86786996 GCACAAAGCCT
1 GCACAAAGCCT
86787007 GAATATCACT
Statistics
Matches: 82, Mismatches: 7, Indels: 28
0.70 0.06 0.24
Matches are distributed among these distances:
16 46 0.56
17 3 0.04
18 4 0.05
19 2 0.02
20 4 0.05
21 3 0.04
22 20 0.24
ACGTcount: A:0.35, C:0.29, G:0.20, T:0.15
Consensus pattern (16 bp):
GCACAAAGCCTACTAG
Found at i:86786969 original size:22 final size:22
Alignment explanation
Indices: 86786903--86786972 Score: 71
Period size: 22 Copynumber: 3.5 Consensus size: 22
86786893 AAGCCTACTA
* *
86786903 GGCACAAAGCCCGAATATCACT
1 GGCACAAAGCCTGAATATCATT
*
86786925 GGCACAAAGCCTG-----C-TA
1 GGCACAAAGCCTGAATATCATT
86786941 GGCACAAAGCCTGAATATCATT
1 GGCACAAAGCCTGAATATCATT
86786963 GGCACAAAGC
1 GGCACAAAGC
86786973 TTACTAGGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
16 13 0.34
17 1 0.03
21 1 0.03
22 23 0.61
ACGTcount: A:0.36, C:0.29, G:0.21, T:0.14
Consensus pattern (22 bp):
GGCACAAAGCCTGAATATCATT
Found at i:86786990 original size:38 final size:38
Alignment explanation
Indices: 86786888--86786991 Score: 172
Period size: 38 Copynumber: 2.7 Consensus size: 38
86786878 AATTACACCA
*
86786888 GCACAAAGCCTACTAGGCACAAAGCCCGAATATCACTG
1 GCACAAAGCCTACTAGGCACAAAGCCTGAATATCACTG
* *
86786926 GCACAAAGCCTGCTAGGCACAAAGCCTGAATATCATTG
1 GCACAAAGCCTACTAGGCACAAAGCCTGAATATCACTG
*
86786964 GCACAAAGCTTACTAGGCACAAAGCCTG
1 GCACAAAGCCTACTAGGCACAAAGCCTG
86786992 CTAGGCACAA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.36, C:0.29, G:0.20, T:0.15
Consensus pattern (38 bp):
GCACAAAGCCTACTAGGCACAAAGCCTGAATATCACTG
Found at i:86787007 original size:16 final size:16
Alignment explanation
Indices: 86786925--86787007 Score: 85
Period size: 16 Copynumber: 4.8 Consensus size: 16
86786915 GAATATCACT
86786925 GGCACAAAGCCTGCTA
1 GGCACAAAGCCTGCTA
*
86786941 GGCACAAAGCCTGAATATCATT
1 GGCACAAAGCCTG-----C-TA
* *
86786963 GGCACAAAGCTTACTA
1 GGCACAAAGCCTGCTA
86786979 GGCACAAAGCCTGCTA
1 GGCACAAAGCCTGCTA
86786995 GGCACAAAGCCTG
1 GGCACAAAGCCTG
86787008 AATATCACTA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
16 41 0.75
17 1 0.02
21 1 0.02
22 12 0.22
ACGTcount: A:0.34, C:0.28, G:0.23, T:0.16
Consensus pattern (16 bp):
GGCACAAAGCCTGCTA
Found at i:86788599 original size:16 final size:16
Alignment explanation
Indices: 86788570--86788610 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
86788560 AGAATTAGTT
* *
86788570 ATATTAATATTATTTA
1 ATATTAAAAATATTTA
*
86788586 ATTTTAAAAATATTTA
1 ATATTAAAAATATTTA
86788602 ATATTAAAA
1 ATATTAAAA
86788611 TAATACAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATTAAAAATATTTA
Found at i:86789537 original size:13 final size:13
Alignment explanation
Indices: 86789519--86789545 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
86789509 AGAGTAATCG
86789519 CACACGGGTGTGT
1 CACACGGGTGTGT
86789532 CACACGGGTGTGT
1 CACACGGGTGTGT
86789545 C
1 C
86789546 CCTGTTGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.26, G:0.37, T:0.22
Consensus pattern (13 bp):
CACACGGGTGTGT
Found at i:86792579 original size:51 final size:51
Alignment explanation
Indices: 86792503--86792633 Score: 208
Period size: 51 Copynumber: 2.6 Consensus size: 51
86792493 CGGATCACAT
* *
86792503 TTATCACTTATTACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
86792554 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAGGCTACCAC
1 TTATCACTTGTCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
86792605 TTTTCACTTGTCATTTGTCATTGATCAGA
1 TTATCACTTGTCACTTGTCATTGATCAGA
86792634 AGTATTCAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 73 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:86795281 original size:36 final size:36
Alignment explanation
Indices: 86795241--86795324 Score: 123
Period size: 36 Copynumber: 2.3 Consensus size: 36
86795231 AGTAACGATA
86795241 AATTATTCAGTAACAGACAATTATTCAGTAGCAGTC
1 AATTATTCAGTAACAGACAATTATTCAGTAGCAGTC
* * * *
86795277 AATTATCCAGTAACAGTCAGTTTTTCAGTAGCAGTC
1 AATTATTCAGTAACAGACAATTATTCAGTAGCAGTC
*
86795313 AGTTATTCAGTA
1 AATTATTCAGTA
86795325 CCTTTATTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (36 bp):
AATTATTCAGTAACAGACAATTATTCAGTAGCAGTC
Found at i:86795293 original size:18 final size:18
Alignment explanation
Indices: 86795219--86795324 Score: 106
Period size: 18 Copynumber: 5.9 Consensus size: 18
86795209 ACTCTTTAAT
* *
86795219 AGTCAGTTATTTAGTAAC
1 AGTCAATTATTCAGTAAC
*
86795237 -GATAAATTATTCAGTAAC
1 AG-TCAATTATTCAGTAAC
* *
86795255 AGACAATTATTCAGTAGC
1 AGTCAATTATTCAGTAAC
*
86795273 AGTCAATTATCCAGTAAC
1 AGTCAATTATTCAGTAAC
* * *
86795291 AGTCAGTTTTTCAGTAGC
1 AGTCAATTATTCAGTAAC
*
86795309 AGTCAGTTATTCAGTA
1 AGTCAATTATTCAGTA
86795325 CCTTTATTTA
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
17 1 0.01
18 70 0.97
19 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (18 bp):
AGTCAATTATTCAGTAAC
Found at i:86796598 original size:19 final size:19
Alignment explanation
Indices: 86796576--86796625 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
86796566 CAAATCCTAA
86796576 TTCTCCCTT-TTTCTTTTCT
1 TTCTCCCTTCTTTC-TTTCT
*
86796595 TTCTCCTTTCTTTCTTTCT
1 TTCTCCCTTCTTTCTTTCT
*
86796614 TTC-CCCTGCTTT
1 TTCTCCCTTCTTT
86796626 TCGTTTGCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 7 0.26
19 16 0.59
20 4 0.15
ACGTcount: A:0.00, C:0.34, G:0.02, T:0.64
Consensus pattern (19 bp):
TTCTCCCTTCTTTCTTTCT
Found at i:86796680 original size:18 final size:17
Alignment explanation
Indices: 86796640--86796680 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
86796630 TTGCCTATTC
*
86796640 TATTTCTTTTCTTTGTT
1 TATTTCTTTTCTTTCTT
86796657 TCATTTCTTTTTCTTTCTT
1 T-ATTTC-TTTTCTTTCTT
86796676 TATTT
1 TATTT
86796681 ACTATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 9 0.43
19 11 0.52
ACGTcount: A:0.07, C:0.15, G:0.02, T:0.76
Consensus pattern (17 bp):
TATTTCTTTTCTTTCTT
Found at i:86796859 original size:16 final size:16
Alignment explanation
Indices: 86796835--86796866 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
86796825 TTTAACTTAT
*
86796835 TTATCATATAAATATA
1 TTATAATATAAATATA
86796851 TTATAATATAAATATA
1 TTATAATATAAATATA
86796867 ATAAATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
TTATAATATAAATATA
Found at i:86798040 original size:90 final size:90
Alignment explanation
Indices: 86797881--86798057 Score: 259
Period size: 90 Copynumber: 2.0 Consensus size: 90
86797871 CGTGTGCTAA
* * *
86797881 GCCGTGTGGTTAATTAAAATTTTCAAAATTAGGTGCAGGTTTCACATGGCCAAGACACACGCCCT
1 GCCGTATGGTTAATTAAAATTTTCAAAATTAGGTGCAGCTTTCACAAGGCCAAGACACACGCCCT
86797946 TGTTCCA-TGTAGTGTAGCACACTAG
66 TGTTCCAGT-TAGTGTAGCACACTAG
* * * *
86797971 GCCGTATGGTTAATTGAATTTTTCGAAATTAGGTGCAGCTTTCACAAGGCCAAGACACATG-CCT
1 GCCGTATGGTTAATTAAAATTTTCAAAATTAGGTGCAGCTTTCACAAGGCCAAGACACACGCCCT
86798035 GTGTTCCAGTTAGTGTAGCACAC
66 -TGTTCCAGTTAGTGTAGCACAC
86798058 ACGGCTGAGA
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
89 3 0.04
90 74 0.95
91 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (90 bp):
GCCGTATGGTTAATTAAAATTTTCAAAATTAGGTGCAGCTTTCACAAGGCCAAGACACACGCCCT
TGTTCCAGTTAGTGTAGCACACTAG
Found at i:86799217 original size:58 final size:58
Alignment explanation
Indices: 86799072--86799217 Score: 206
Period size: 57 Copynumber: 2.5 Consensus size: 58
86799062 CCTCATAACA
* ** * *
86799072 TATAATAGGATTACCAGTCCAGGCTAAATCCTTTTTGTAATATATGCTCAGAAGAGCT
1 TATATTAGGATTACCAGTCCAGGCTAAATCCTAATTGTAACATATGCTCAGAAGAGAT
* *
86799130 CA-ATTAGGATTACCAGTCCAGGCTAAATCCTAATTGTAACATATGCTCTAG-AGGGAT
1 TATATTAGGATTACCAGTCCAGGCTAAATCCTAATTGTAACATATGCTC-AGAAGAGAT
86799187 TATATTAGGATTACCAGTCCAGGCTAAATCC
1 TATATTAGGATTACCAGTCCAGGCTAAATCC
86799218 CGTCAGCAAC
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
57 47 0.60
58 31 0.40
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (58 bp):
TATATTAGGATTACCAGTCCAGGCTAAATCCTAATTGTAACATATGCTCAGAAGAGAT
Found at i:86800886 original size:12 final size:12
Alignment explanation
Indices: 86800869--86800899 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
86800859 TGGAAGAAAA
86800869 TAAGCCATTTTC
1 TAAGCCATTTTC
86800881 TAAGCCATTTTC
1 TAAGCCATTTTC
*
86800893 CAAGCCA
1 TAAGCCA
86800900 CATTTCTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (12 bp):
TAAGCCATTTTC
Found at i:86801722 original size:21 final size:21
Alignment explanation
Indices: 86801674--86801828 Score: 152
Period size: 21 Copynumber: 7.3 Consensus size: 21
86801664 CGAATACGCC
*
86801674 AACAGAAGCTCG-AA-AGTTG
1 AACAGAAGCTCGTAAGAGCTG
* *
86801693 AACAAAAGCTCGTAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTG
* *
86801714 AACAGAAGCTCGTAAAAGCTA
1 AACAGAAGCTCGTAAGAGCTG
* * * *
86801735 AACAAAAACTCATAATAAGAGTTG
1 AACAGAAGCTC---GTAAGAGCTG
*
86801759 AACAGAAGCTCGTAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTG
*
86801780 AACAAAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
* *
86801801 AACAGAAGCTCGTAAAAGCTA
1 AACAGAAGCTCGTAAGAGCTG
86801822 AACAGAA
1 AACAGAA
86801829 AGTAAAACAC
Statistics
Matches: 112, Mismatches: 19, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
19 11 0.10
20 2 0.02
21 84 0.75
24 15 0.13
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:86806250 original size:16 final size:16
Alignment explanation
Indices: 86806229--86806259 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
86806219 TTTATTATTT
86806229 TATTAACATAATATAA
1 TATTAACATAATATAA
*
86806245 TATTAATATAATATA
1 TATTAACATAATATA
86806260 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:86809039 original size:22 final size:24
Alignment explanation
Indices: 86809003--86809060 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
86808993 TTTTAATTTT
86809003 AATAATATATTAAAAG-AATATAA
1 AATAATATATTAAAAGAAATATAA
*
86809026 AATAAT-TTTTAAAAGATAATATAA
1 AATAATATATTAAAAGA-AATATAA
* *
86809050 ATTTATATATT
1 AATAATATATT
86809061 TTCATTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 8 0.29
23 6 0.21
24 11 0.39
25 3 0.11
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (24 bp):
AATAATATATTAAAAGAAATATAA
Found at i:86813155 original size:20 final size:20
Alignment explanation
Indices: 86813093--86813165 Score: 91
Period size: 20 Copynumber: 3.8 Consensus size: 20
86813083 GTTTAGGGTA
86813093 TTAGGGTTAATTGATTAAA-
1 TTAGGGTTAATTGATTAAAT
*
86813112 TTAGGG---ATTGATTTAGAGT
1 TTAGGGTTAATTGA-TTA-AAT
86813131 TTAGGGTTAATTGATTAAAT
1 TTAGGGTTAATTGATTAAAT
86813151 TTAGGGTTAATTGAT
1 TTAGGGTTAATTGAT
86813166 ACATAATGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
16 5 0.11
17 3 0.07
18 1 0.02
19 12 0.26
20 17 0.37
21 3 0.07
22 5 0.11
ACGTcount: A:0.32, C:0.00, G:0.25, T:0.44
Consensus pattern (20 bp):
TTAGGGTTAATTGATTAAAT
Found at i:86813935 original size:126 final size:126
Alignment explanation
Indices: 86813705--86814086 Score: 523
Period size: 126 Copynumber: 3.0 Consensus size: 126
86813695 TTTCTGCAAG
* * * * *
86813705 AATAATTCTGAGCAGACGTTTTTGAACAAATAGTATCCAAAAACGCTTCAAGTAGGATGCACTGT
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGT-CAAAAACGCTTCAAGCAGGATGCATTGT
* * * * * *
86813770 CAGCAAAATTTTTGGAAAAATCTCCCACATAGACGCTCTTTTACTACAGTAGTTCGTAGAAA
65 CAGCAAAATTTCTGGAAAAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * **
86813832 AATAATTCTAAGTAGACATTTCTGAACAAATAGTGTTGAAAACGCTTCAAGCAGGATGCATTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTC
* * *
86813897 AACAAAATTTCTGGAAAAAGCTTCCACGTGGACACTCTTTTGCTATAGTAGTTCGTAGAAA
66 AGCAAAATTTCTGGAAAAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* *
86813958 AATAATTCTGAGTAGACGTTTCTGAATAAATAGTGTCAAAAATGCTTCAAGCAGGATGCATTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTC
* * * *
86814023 AGCAAAATTTCAGAAAAAAGC-TCTCACGTGGACGCTCTTTTGCTACAGTAGTTTGTAGTAA
66 AGCAAAATTTCTGGAAAAAGCTTC-CACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
86814084 AAT
1 AAT
86814087 GAGGCTATAA
Statistics
Matches: 223, Mismatches: 31, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
125 2 0.01
126 190 0.85
127 31 0.14
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTC
AGCAAAATTTCTGGAAAAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:86816322 original size:43 final size:43
Alignment explanation
Indices: 86816273--86816354 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
86816263 TAATGACCGT
*
86816273 TTTCATGAGATGTTGGCAGTTTTGCGTTTGGTTAACGAACAAG
1 TTTCATGAGATGTTGGCAGTTTTGCGTTCGGTTAACGAACAAG
* *
86816316 TTTCATGAGATGTTGGCGGTTTTGCGTTCGGTTGACGAA
1 TTTCATGAGATGTTGGCAGTTTTGCGTTCGGTTAACGAA
86816355 GAAGGTGCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.20, C:0.12, G:0.30, T:0.38
Consensus pattern (43 bp):
TTTCATGAGATGTTGGCAGTTTTGCGTTCGGTTAACGAACAAG
Found at i:86817380 original size:21 final size:21
Alignment explanation
Indices: 86817342--86817381 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
86817332 TCGATCAGCT
* * *
86817342 TCTGGCGGGGGTTGTGGTTCA
1 TCTGGCAGGGGATCTGGTTCA
86817363 TCTGGCAGGGGATCTGGTT
1 TCTGGCAGGGGATCTGGTT
86817382 GTGGGTGTTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.07, C:0.15, G:0.45, T:0.33
Consensus pattern (21 bp):
TCTGGCAGGGGATCTGGTTCA
Found at i:86817649 original size:18 final size:18
Alignment explanation
Indices: 86817623--86817664 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
86817613 GACTAGGAAA
* *
86817623 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
86817641 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
86817659 AGGATA
1 AGGATA
86817665 TGCACCTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.43, C:0.07, G:0.29, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:86819335 original size:48 final size:46
Alignment explanation
Indices: 86819260--86819392 Score: 153
Period size: 48 Copynumber: 2.8 Consensus size: 46
86819250 ATGCAAACAT
** *
86819260 CATAAATGAAAAAA-ATCAAGCAATATTGAAATTGTAATTATAA-TTG
1 CATAAATGAAAAAATATCAAATAGTATTGAAATT-TAATTA-AATTTG
86819306 CATAAATGAATAAAATATCAAATAGTATTGAAAATTTAATTAAATTTG
1 CATAAATGAA-AAAATATCAAATAGTATTG-AAATTTAATTAAATTTG
* *
86819354 CATAAATTAAAAAAATATCGAATAGTATTGAAAATTTAA
1 CATAAA-TGAAAAAATATCAAATAGTATTG-AAATTTAA
86819393 AATTATCACT
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
46 10 0.13
47 6 0.08
48 53 0.69
49 8 0.10
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.32
Consensus pattern (46 bp):
CATAAATGAAAAAATATCAAATAGTATTGAAATTTAATTAAATTTG
Found at i:86819539 original size:11 final size:11
Alignment explanation
Indices: 86819525--86819567 Score: 77
Period size: 11 Copynumber: 3.9 Consensus size: 11
86819515 ATTTAAACAA
86819525 AGAAATTTGAT
1 AGAAATTTGAT
*
86819536 AGAATTTTGAT
1 AGAAATTTGAT
86819547 AGAAATTTGAT
1 AGAAATTTGAT
86819558 AGAAATTTGA
1 AGAAATTTGA
86819568 GAAATTTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.37
Consensus pattern (11 bp):
AGAAATTTGAT
Found at i:86819553 original size:22 final size:20
Alignment explanation
Indices: 86819525--86819574 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 20
86819515 ATTTAAACAA
*
86819525 AGAAATTTGATAGAATTTTG
1 AGAAATTTGATAGAAATTTG
86819545 ATAGAAATTTGATAGAAATTTG
1 --AGAAATTTGATAGAAATTTG
86819567 AGAAATTT
1 AGAAATTT
86819575 TCAATGAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 8 0.30
22 19 0.70
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (20 bp):
AGAAATTTGATAGAAATTTG
Found at i:86819572 original size:9 final size:10
Alignment explanation
Indices: 86819524--86819588 Score: 60
Period size: 11 Copynumber: 6.1 Consensus size: 10
86819514 AATTTAAACA
86819524 AAGAAATTTG
1 AAGAAATTTG
*
86819534 ATAGAATTTTG
1 A-AGAAATTTG
86819545 ATAGAAATTTG
1 A-AGAAATTTG
86819556 ATAGAAATTTG
1 A-AGAAATTTG
*
86819567 -AGAAATTTTC
1 AAGAAA-TTTG
86819577 AATGAAATTTG
1 AA-GAAATTTG
86819588 A
1 A
86819589 TATATTTTTG
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
9 5 0.11
10 4 0.09
11 34 0.72
12 4 0.09
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.37
Consensus pattern (10 bp):
AAGAAATTTG
Found at i:86819584 original size:32 final size:33
Alignment explanation
Indices: 86819525--86819590 Score: 91
Period size: 32 Copynumber: 2.0 Consensus size: 33
86819515 ATTTAAACAA
* *
86819525 AGAAATTTGATAGAATTTTGATAGAAATTTGAT
1 AGAAATTTGAGAGAATTTTAATAGAAATTTGAT
86819558 AGAAATTTGAGA-AATTTTCAAT-GAAATTTGAT
1 AGAAATTTGAGAGAATTTT-AATAGAAATTTGAT
86819590 A
1 A
86819591 TATTTTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.38
Consensus pattern (33 bp):
AGAAATTTGAGAGAATTTTAATAGAAATTTGAT
Found at i:86821636 original size:18 final size:18
Alignment explanation
Indices: 86821613--86821656 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
86821603 CATCAAGCAT
86821613 ATTAAAACCATTTTACAC
1 ATTAAAACCATTTTACAC
*
86821631 ATTAAAACCATTTTACAT
1 ATTAAAACCATTTTACAC
86821649 ATTAAAAC
1 ATTAAAAC
86821657 ATACCATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (18 bp):
ATTAAAACCATTTTACAC
Found at i:86822615 original size:24 final size:24
Alignment explanation
Indices: 86822579--86822624 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
86822569 AAGAACCATG
86822579 TATCGGAAAGCTCAAGAGAGCTTA
1 TATCGGAAAGCTCAAGAGAGCTTA
* * *
86822603 TATCGGGATGCTCAAGTGAGCT
1 TATCGGAAAGCTCAAGAGAGCT
86822625 ATAACAGGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (24 bp):
TATCGGAAAGCTCAAGAGAGCTTA
Found at i:86827018 original size:16 final size:17
Alignment explanation
Indices: 86826984--86827018 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
86826974 AGTTTAATCA
*
86826984 AATTTGTTAAAAAAGAT
1 AATTTGATAAAAAAGAT
86827001 AATTTGATAAAAAA-AT
1 AATTTGATAAAAAAGAT
86827017 AA
1 AA
86827019 AGATTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (17 bp):
AATTTGATAAAAAAGAT
Found at i:86830508 original size:16 final size:16
Alignment explanation
Indices: 86830487--86830520 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
86830477 TCTTCTGAGT
86830487 TGGGCTTGACACTATG
1 TGGGCTTGACACTATG
86830503 TGGGCTTGACACTATG
1 TGGGCTTGACACTATG
86830519 TG
1 TG
86830521 TACATTCTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (16 bp):
TGGGCTTGACACTATG
Found at i:86836187 original size:3 final size:3
Alignment explanation
Indices: 86836181--86836209 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
86836171 ACCACTCCAT
86836181 CCG CCG CCG CCG CCG CCG CCG CCG CCG CC
1 CCG CCG CCG CCG CCG CCG CCG CCG CCG CC
86836210 ATCCAACGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.69, G:0.31, T:0.00
Consensus pattern (3 bp):
CCG
Found at i:86838896 original size:14 final size:13
Alignment explanation
Indices: 86838871--86838906 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
86838861 TTTTTATGGA
86838871 TATTTTAATTATT
1 TATTTTAATTATT
86838884 TATTTTAAATTATT
1 TATTTT-AATTATT
*
86838898 TATTATAAT
1 TATTTTAAT
86838907 AAATTACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTTAATTATT
Found at i:86838912 original size:17 final size:14
Alignment explanation
Indices: 86838871--86838901 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
86838861 TTTTTATGGA
86838871 TATTTT-AATTATT
1 TATTTTAAATTATT
86838884 TATTTTAAATTATT
1 TATTTTAAATTATT
86838898 TATT
1 TATT
86838902 ATAATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTTTAAATTATT
Found at i:86844826 original size:39 final size:42
Alignment explanation
Indices: 86844783--86844867 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
86844773 ATAAGAATAA
86844783 CTTTG-TAACAGTG-AT-ATATCAAGCTTATTGCCTAGCAGG
1 CTTTGATAACAGTGTATGATATCAAGCTTATTGCCTAGCAGG
** *
86844822 CTTTGATGCCGGTGTATGATATCAAGCTTATTGCCTAGCAGG
1 CTTTGATAACAGTGTATGATATCAAGCTTATTGCCTAGCAGG
86844864 CTTT
1 CTTT
86844868 ATGCCGATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
39 5 0.12
40 5 0.12
41 2 0.05
42 28 0.70
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (42 bp):
CTTTGATAACAGTGTATGATATCAAGCTTATTGCCTAGCAGG
Found at i:86844845 original size:42 final size:43
Alignment explanation
Indices: 86844798--86844918 Score: 160
Period size: 41 Copynumber: 2.9 Consensus size: 43
86844788 TAACAGTGAT
86844798 ATATCAAGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTA-TG
1 ATATCAAGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATTG
*
86844840 ATATCAAGCTTATTGCCTAGCAGGCTTT-ATGCCGATGTATTG
1 ATATCAAGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATTG
* * * * *
86844882 A-ATCAGGTTTATTACCTAGCACGCTCTG-TGCCGGTGT
1 ATATCAAGCTTATTGCCTAGCAGGCTTTGATGCCGGTGT
86844919 TTTATACAAG
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
41 39 0.56
42 31 0.44
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (43 bp):
ATATCAAGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATTG
Found at i:86844894 original size:41 final size:42
Alignment explanation
Indices: 86844798--86844902 Score: 151
Period size: 42 Copynumber: 2.5 Consensus size: 42
86844788 TAACAGTGAT
*
86844798 ATATCAAGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
1 ATATCAAGCTTATTGCCTAGCAGGCTTTGATGCCGATGTATG
86844840 ATATCAAGCTTATTGCCTAGCAGGCTTT-ATGCCGATGTATTG
1 ATATCAAGCTTATTGCCTAGCAGGCTTTGATGCCGATGTA-TG
* * *
86844882 A-ATCAGGTTTATTACCTAGCA
1 ATATCAAGCTTATTGCCTAGCA
86844903 CGCTCTGTGC
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
41 27 0.47
42 31 0.53
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (42 bp):
ATATCAAGCTTATTGCCTAGCAGGCTTTGATGCCGATGTATG
Found at i:86846994 original size:15 final size:15
Alignment explanation
Indices: 86846976--86847005 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
86846966 GCTCTCCCTC
86846976 TCTTCTTCTTTCCTT
1 TCTTCTTCTTTCCTT
*
86846991 TCTTTTTCTTTCCTT
1 TCTTCTTCTTTCCTT
86847006 CCCTTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (15 bp):
TCTTCTTCTTTCCTT
Found at i:86847009 original size:35 final size:36
Alignment explanation
Indices: 86846961--86847038 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 36
86846951 CTAGCTTCTC
* *
86846961 TCTTTGCTCTCCCTCTCTTCTTCTTTCCTTT-CTTTT
1 TCTTTCCTCTCCCTCTCTTCTTCTTT-CTTTCCTCTT
* * *
86846997 TCTTTCCT-TCCCTTTTTTTTTCTTTCTTTCCTCTT
1 TCTTTCCTCTCCCTCTCTTCTTCTTTCTTTCCTCTT
86847032 TCTTTCC
1 TCTTTCC
86847039 CTTTCTCCCC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
34 4 0.11
35 25 0.69
36 7 0.19
ACGTcount: A:0.00, C:0.35, G:0.01, T:0.64
Consensus pattern (36 bp):
TCTTTCCTCTCCCTCTCTTCTTCTTTCTTTCCTCTT
Done.