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 268 of 320
Found at i:86847016 original size:20 final size:20
Alignment explanation
Indices: 86846987--86847036 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
86846977 CTTCTTCTTT
86846987 CCTTTCTTTTTCTTTCCTTC
1 CCTTTCTTTTTCTTTCCTTC
* *
86847007 CCTTTTTTTTTCTTTCTTTC
1 CCTTTCTTTTTCTTTCCTTC
86847027 CTCTTTCTTT
1 C-CTTTCTTT
86847037 CCCTTTCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (20 bp):
CCTTTCTTTTTCTTTCCTTC
Found at i:86847358 original size:3 final size:3
Alignment explanation
Indices: 86847336--86847418 Score: 51
Period size: 3 Copynumber: 26.7 Consensus size: 3
86847326 ATTTATTTAT
* * * * *
86847336 TTA TTA TTCT TTA TTT TTA TTA TTA CTA TTA CTA TTCA TTA -TA TTTG
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA -TTA
* * *
86847383 TTA TTAA GTA TTA TTA TTA TAA TTA TGA TTA TTA TT
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
86847419 CCTTTATTAC
Statistics
Matches: 59, Mismatches: 16, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
2 2 0.03
3 49 0.83
4 8 0.14
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:86850045 original size:10 final size:11
Alignment explanation
Indices: 86850032--86850072 Score: 52
Period size: 10 Copynumber: 3.9 Consensus size: 11
86850022 TCTTATTCTT
86850032 AAAA-AAAATG
1 AAAAGAAAATG
86850042 AAAAAGAAAA-G
1 -AAAAGAAAATG
86850053 AAAAGAAAA-G
1 AAAAGAAAATG
86850063 AAAAGAAAAT
1 AAAAGAAAAT
86850073 ATTTATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 19 0.68
11 5 0.18
12 4 0.14
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (11 bp):
AAAAGAAAATG
Found at i:86850053 original size:5 final size:5
Alignment explanation
Indices: 86850043--86850071 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
86850033 AAAAAAATGA
86850043 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
86850072 TATTTATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:86850957 original size:30 final size:30
Alignment explanation
Indices: 86850917--86850974 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
86850907 TAGGCACTTC
* * *
86850917 CACACAGGTAATCCACATGCCCGTGTGTGA
1 CACACAGGTAAACCACACGCCCATGTGTGA
*
86850947 CACACGGGTAAACCACACGCCCATGTGT
1 CACACAGGTAAACCACACGCCCATGTGT
86850975 CATGGCTGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.33, G:0.22, T:0.17
Consensus pattern (30 bp):
CACACAGGTAAACCACACGCCCATGTGTGA
Found at i:86855673 original size:39 final size:39
Alignment explanation
Indices: 86855629--86856000 Score: 485
Period size: 39 Copynumber: 9.8 Consensus size: 39
86855619 TATCAGCATA
* * *
86855629 AAGCCTGTGGGACTTTAACCCGGATACATTTCCAGTACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
* *
86855668 AAGCCTGCGGGACTTTGGCCCGGATACATTTCCATCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
* *
86855707 -A---------ACTTTGGCCTGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
*
86855736 AAGCCTGCGGGACTTTAGTCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
* * * * * *
86855775 AAGCCTGCAGGATTTTGGCCCAGATATATTTTCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
*
86855814 AAGCCTGCGGGACTTTAGCCCGGATATATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
*
86855853 AAGCCTGCGGGACTTTAGTCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
* * *
86855892 AAGCCTGCGAGACTTTGGCCCGGATATATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
*
86855931 AAGCCTGCGGGACTTTAGCCCGGATATATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
*
86855970 AAGCCTGCGGGACTTTAGCCCAGATACATTT
1 AAGCCTGCGGGACTTTAGCCCGGATACATTT
86856001 TCAGTGTCTT
Statistics
Matches: 291, Mismatches: 32, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
29 26 0.09
30 1 0.00
38 1 0.00
39 263 0.90
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (39 bp):
AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
Found at i:86855721 original size:29 final size:29
Alignment explanation
Indices: 86855679--86855737 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
86855669 AGCCTGCGGG
*
86855679 ACTTTGGCCCGGATACATTTCCATCACGA
1 ACTTTGGCCCGGATACATTTCCAGCACGA
*
86855708 ACTTTGGCCTGGATACATTTCCAGCACGA
1 ACTTTGGCCCGGATACATTTCCAGCACGA
86855737 A
1 A
86855738 GCCTGCGGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (29 bp):
ACTTTGGCCCGGATACATTTCCAGCACGA
Found at i:86877688 original size:20 final size:20
Alignment explanation
Indices: 86877656--86877693 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
86877646 TGTTTCACAT
86877656 TCATATAACTAATATTTATA
1 TCATATAACTAATATTTATA
*
86877676 TCAT-TAACATAATTTTTA
1 TCATATAAC-TAATATTTA
86877694 ACTTAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (20 bp):
TCATATAACTAATATTTATA
Found at i:86878204 original size:18 final size:18
Alignment explanation
Indices: 86878181--86878221 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
86878171 TACTTTTCTC
86878181 TTTCTA-TCACAATTCCAA
1 TTTCTATTCACAATT-CAA
*
86878199 TTTCTATTCATAATTCAA
1 TTTCTATTCACAATTCAA
86878217 TTTCT
1 TTTCT
86878222 CTTTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTCTATTCACAATTCAA
Found at i:86878606 original size:24 final size:25
Alignment explanation
Indices: 86878553--86878606 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
86878543 AGGGTATTCA
* *
86878553 ATTCACTTTCTCAATTCTATATCAC
1 ATTCACTTTCACAATTCTAAATCAC
*
86878578 TTTCAC-TTCACAATTC-AAATCACC
1 ATTCACTTTCACAATTCTAAATCA-C
86878602 ATTCA
1 ATTCA
86878607 TTTTTCAATC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
23 5 0.21
24 14 0.58
25 5 0.21
ACGTcount: A:0.31, C:0.30, G:0.00, T:0.39
Consensus pattern (25 bp):
ATTCACTTTCACAATTCTAAATCAC
Found at i:86879382 original size:12 final size:12
Alignment explanation
Indices: 86879367--86879397 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
86879357 TTCTCTTTTA
86879367 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
86879379 TTTTTCTTTCTC
1 TTTTTCTTTCCC
86879391 TTTTTCT
1 TTTTTCT
86879398 CCCCTGCTTC
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:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:86882469 original size:42 final size:40
Alignment explanation
Indices: 86882423--86882513 Score: 121
Period size: 39 Copynumber: 2.2 Consensus size: 40
86882413 TTAAAAGTAT
* * *
86882423 TTATATTAAAAAAATACTACCATAAAGATAATAAATGTTTTA
1 TTATATTAAAAAAACAC-A-AATAAAGATAATAAATATTTTA
*
86882465 TTATATT-AAAAAACACAAATAAATATAATAAATATTTTA
1 TTATATTAAAAAAACACAAATAAAGATAATAAATATTTTA
86882504 TTATATTAAA
1 TTATATTAAA
86882514 TATAAATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
39 26 0.59
40 3 0.07
41 8 0.18
42 7 0.16
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.37
Consensus pattern (40 bp):
TTATATTAAAAAAACACAAATAAAGATAATAAATATTTTA
Found at i:86889555 original size:22 final size:21
Alignment explanation
Indices: 86889514--86889555 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
86889504 GCTTTCCTTA
*
86889514 TTTTTAATTAGGATTGAATTT
1 TTTTTAATTAGGATTAAATTT
*
86889535 TTTTTAATTTGGATTCAAATT
1 TTTTTAATTAGGATT-AAATT
86889556 CAAACATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (21 bp):
TTTTTAATTAGGATTAAATTT
Found at i:86890750 original size:4 final size:4
Alignment explanation
Indices: 86890741--86890775 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
86890731 TGATCATTTT
86890741 CATA CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CAT
86890776 GCATGCATGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:86892885 original size:24 final size:24
Alignment explanation
Indices: 86892853--86892899 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
86892843 TATCAAATCT
*
86892853 TTATTTCATAAACGCTGTTAGAAG
1 TTATTTCATAAACACTGTTAGAAG
86892877 TTATTTCATAAACACTGTTAGAA
1 TTATTTCATAAACACTGTTAGAA
86892900 TAGCATTCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (24 bp):
TTATTTCATAAACACTGTTAGAAG
Found at i:86895773 original size:15 final size:15
Alignment explanation
Indices: 86895748--86895784 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
86895738 TAAATGCTTC
86895748 TCTTTTT-TTCTTTT
1 TCTTTTTCTTCTTTT
86895762 TCTTTTTCTTCTTTT
1 TCTTTTTCTTCTTTT
*
86895777 TTTTTTTC
1 TCTTTTTC
86895785 AAAAAGTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TCTTTTTCTTCTTTT
Found at i:86902634 original size:23 final size:23
Alignment explanation
Indices: 86902604--86902652 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
86902594 GATTAATCAT
*
86902604 TTATAATTGAATTTTGTTAACCA
1 TTATAATTGAATTTTGTTAACAA
86902627 TTATAATTGAATTTTGTTAACAA
1 TTATAATTGAATTTTGTTAACAA
86902650 TTA
1 TTA
86902653 CCTATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.49
Consensus pattern (23 bp):
TTATAATTGAATTTTGTTAACAA
Found at i:86905480 original size:23 final size:20
Alignment explanation
Indices: 86905454--86905494 Score: 55
Period size: 23 Copynumber: 1.9 Consensus size: 20
86905444 CCCAAACGTT
86905454 ATAAAGTAGTTTAAAGTGATAGA
1 ATAAAGT-G-TTAAA-TGATAGA
86905477 ATAAAGTGTTAAATGATA
1 ATAAAGTGTTAAATGATA
86905495 AAAGGAACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 5 0.28
22 1 0.06
23 7 0.39
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.32
Consensus pattern (20 bp):
ATAAAGTGTTAAATGATAGA
Found at i:86913464 original size:15 final size:16
Alignment explanation
Indices: 86913439--86913468 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
86913429 TATCTATCGA
86913439 GAAAAATTCAAAACAC
1 GAAAAATTCAAAACAC
86913455 GAAAAA-TCAAAACA
1 GAAAAATTCAAAACA
86913469 TTATGCAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.67, C:0.17, G:0.07, T:0.10
Consensus pattern (16 bp):
GAAAAATTCAAAACAC
Found at i:86916199 original size:40 final size:40
Alignment explanation
Indices: 86916155--86916251 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
86916145 ATAATACCTC
* *
86916155 AAAGTGGATAGGATTTGTTCCTGATTCACTACGGTAATTT
1 AAAGTGGATAGGATTTGTCCCTGATTCACTACGGTAACTT
* *
86916195 AAAGTGAATAGGATTTATCCCTGATTCACTACGGTAACTT
1 AAAGTGGATAGGATTTGTCCCTGATTCACTACGGTAACTT
* * *
86916235 AAGGCGGATAAGATTTG
1 AAAGTGGATAGGATTTG
86916252 ACTTGAAAAG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (40 bp):
AAAGTGGATAGGATTTGTCCCTGATTCACTACGGTAACTT
Found at i:86916745 original size:30 final size:29
Alignment explanation
Indices: 86916670--86916742 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
86916660 ACCCATCTCA
*
86916670 TCAAAATTATTTCTTCAGAATCCATCCCC
1 TCAAAATTATTTTTTCAGAATCCATCCCC
* **
86916699 TCAAAACTATTTTTTCAGAATCCATCCTG
1 TCAAAATTATTTTTTCAGAATCCATCCCC
86916728 T-ACAAATTATTTTTT
1 TCA-AAATTATTTTTT
86916743 TCATACCTCC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
28 1 0.03
29 37 0.97
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.41
Consensus pattern (29 bp):
TCAAAATTATTTTTTCAGAATCCATCCCC
Found at i:86917409 original size:20 final size:21
Alignment explanation
Indices: 86917371--86917421 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
86917361 ATAACAATAG
* **
86917371 TATTTTATTTTTATGATAT-A
1 TATTTTATTTATAAAATATGA
86917391 TATTTTATTTATAAAATATGA
1 TATTTTATTTATAAAATATGA
*
86917412 TATGTTATTT
1 TATTTTATTT
86917422 TACTAATTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (21 bp):
TATTTTATTTATAAAATATGA
Found at i:86918759 original size:15 final size:15
Alignment explanation
Indices: 86918735--86918769 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
86918725 TGACTTCTAG
86918735 TATT-TAATTATATT
1 TATTATAATTATATT
*
86918749 TGTTATAATTATATT
1 TATTATAATTATATT
86918764 TATTAT
1 TATTAT
86918770 TTATTAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTATAATTATATT
Found at i:86923870 original size:15 final size:15
Alignment explanation
Indices: 86923847--86923884 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
86923837 TCTTGAGAAA
*
86923847 GTTCAATGCTTGGTT
1 GTTCCATGCTTGGTT
86923862 GTTCCATGCTTGGTT
1 GTTCCATGCTTGGTT
86923877 GTTCCATG
1 GTTCCATG
86923885 TGCCATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.11, C:0.18, G:0.26, T:0.45
Consensus pattern (15 bp):
GTTCCATGCTTGGTT
Found at i:86926866 original size:19 final size:19
Alignment explanation
Indices: 86926842--86926879 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
86926832 TTAATGTGCG
* *
86926842 AATATATGTATATGTGTGT
1 AATATATATATATATGTGT
86926861 AATATATATATATATGTGT
1 AATATATATATATATGTGT
86926880 GGATCGAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (19 bp):
AATATATATATATATGTGT
Found at i:86927154 original size:41 final size:41
Alignment explanation
Indices: 86927092--86927267 Score: 280
Period size: 41 Copynumber: 4.3 Consensus size: 41
86927082 GTTTGGAATT
* *
86927092 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
86927133 GGTGATCTAAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
86927174 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
86927215 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
86927256 GGTGATCCGAAT
1 GGTGATCTGAAT
86927268 ATGATGAATT
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 123 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:86927229 original size:82 final size:82
Alignment explanation
Indices: 86927092--86927261 Score: 331
Period size: 82 Copynumber: 2.1 Consensus size: 82
86927082 GTTTGGAATT
86927092 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
86927157 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
*
86927174 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
86927239 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
86927256 GGTGAT
1 GGTGAT
86927262 CCGAATATGA
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 87 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:86930858 original size:17 final size:18
Alignment explanation
Indices: 86930836--86930879 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
86930826 ATATTTTCAA
*
86930836 TTACATTAAA-TATTATT
1 TTACATTAAATTAATATT
*
86930853 TTACATCAAATTAATATT
1 TTACATTAAATTAATATT
86930871 TTAACATTA
1 TT-ACATTA
86930880 CTGTTTTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 9 0.41
18 8 0.36
19 5 0.23
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (18 bp):
TTACATTAAATTAATATT
Found at i:86945644 original size:16 final size:17
Alignment explanation
Indices: 86945594--86945642 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 17
86945584 AATAGTGATG
*
86945594 ATAATGATAGGAAAAAT
1 ATAACGATAGGAAAAAT
86945611 ATAACGATAGGAAAAAT
1 ATAACGATAGGAAAAAT
*
86945628 ATAACGATAGTAAAA
1 ATAACGATAGGAAAA
86945643 TACGATATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.59, C:0.04, G:0.16, T:0.20
Consensus pattern (17 bp):
ATAACGATAGGAAAAAT
Found at i:86946081 original size:17 final size:16
Alignment explanation
Indices: 86946055--86946086 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
86946045 ATACAAAAAA
86946055 AATATAATAATAATAC
1 AATATAATAATAATAC
86946071 AATAGTAATAATAATA
1 AATA-TAATAATAATA
86946087 AAAAAGGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (16 bp):
AATATAATAATAATAC
Found at i:86946239 original size:24 final size:24
Alignment explanation
Indices: 86946206--86946269 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
86946196 AATATATGTT
*
86946206 AATAACAATAATAACAT-ATAAAA
1 AATAATAATAATAACATGATAAAA
* *
86946229 AATAGGA-AATAATAATATGGTAAAA
1 AATA--ATAATAATAACATGATAAAA
86946254 AATAATAATAATAACA
1 AATAATAATAATAACA
86946270 AAAAAAGAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 5 0.15
24 19 0.56
25 10 0.29
ACGTcount: A:0.66, C:0.05, G:0.06, T:0.23
Consensus pattern (24 bp):
AATAATAATAATAACATGATAAAA
Found at i:86946643 original size:43 final size:43
Alignment explanation
Indices: 86946594--86946682 Score: 160
Period size: 43 Copynumber: 2.1 Consensus size: 43
86946584 AGAAAAGGAC
* *
86946594 TAAATTGCGTGTGCAAATACCCAGGAGGGACTAAAATGGACAA
1 TAAATTGCATGCGCAAATACCCAGGAGGGACTAAAATGGACAA
86946637 TAAATTGCATGCGCAAATACCCAGGAGGGACTAAAATGGACAA
1 TAAATTGCATGCGCAAATACCCAGGAGGGACTAAAATGGACAA
86946680 TAA
1 TAA
86946683 CCCCTCCCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.18
Consensus pattern (43 bp):
TAAATTGCATGCGCAAATACCCAGGAGGGACTAAAATGGACAA
Found at i:86948226 original size:44 final size:43
Alignment explanation
Indices: 86948178--86948651 Score: 122
Period size: 44 Copynumber: 10.9 Consensus size: 43
86948168 GGCTTACCGT
* *
86948178 CTTCGATTTGCTCCTCTACTGCTTAAGGGGTTAAGATCCATTAC
1 CTTCGATCTG-TCCTCTACTGCTTAAGGGGTTAAGATCCATCAC
** * * * *
86948222 CTTCGATCTGTTTTCCTACTACTTAGGGGGTTAAAATCTATCAC
1 CTTCGATCTGTCCT-CTACTGCTTAAGGGGTTAAGATCCATCAC
** *
86948266 CTTCGATCTGTTTCCT-TACTGCTT-AGAGGGTTAAGATCTGT-AA
1 CTTCGATCTG--TCCTCTACTGCTTAAG-GGGTTAAGATCCATCAC
* * * ** *
86948309 ATTC-AGCCTGTTACCT-TACTACTT-AGGGGTTTAAGGCCCATTAC
1 CTTCGA-TCTG-T-CCTCTACTGCTTAAGGGG-TTAAGATCCATCAC
* * * *** *
86948353 CTTTGATCTGTTTCCT-TACTGTTTAGGGGGTTAAGATTTGT-AA
1 CTTCGATCTG--TCCTCTACTGCTTAAGGGGTTAAGATCCATCAC
* * **
86948396 ATTC-AGCCTGTTACC-CTACTGCTT-AGGGGTTTAAGGCCCATCAC
1 CTTCGA-TCTG-T-CCTCTACTGCTTAAGGGG-TTAAGATCCATCAC
* ** * * *** *
86948440 CTTCGATCTATTTTCCTGCTGCTTAGGGGGTTAAGATTTGT-AA
1 CTTCGATCTGTCCT-CTACTGCTTAAGGGGTTAAGATCCATCAC
* * ** * *
86948483 ATTC-AGCCTGTTACC-CTACTGCTT-AGGGGTTTAAGGCCCATAAA
1 CTTCGA-TCTG-T-CCTCTACTGCTTAAGGGG-TTAAGATCCATCAC
* * * **
86948527 CTTCAATCTATTTCC-CTACTGCTTAGGGGGTTAAGATCTGTCAC
1 CTTCGATC--TGTCCTCTACTGCTTAAGGGGTTAAGATCCATCAC
* * *
86948571 ATTCGATCTGTTTCC-CTACTGCTTAGGGGGTTAAGATCTATCAC
1 CTTCGATCTG--TCCTCTACTGCTTAAGGGGTTAAGATCCATCAC
86948615 CTTCGATCTGTTTCC-CTACTGCTT-AGGGGTTAAGATC
1 CTTCGATCTG--TCCTCTACTGCTTAAGGGGTTAAGATC
86948652 TGTAAATTCA
Statistics
Matches: 312, Mismatches: 87, Indels: 63
0.68 0.19 0.14
Matches are distributed among these distances:
42 19 0.06
43 83 0.27
44 189 0.61
45 18 0.06
46 3 0.01
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (43 bp):
CTTCGATCTGTCCTCTACTGCTTAAGGGGTTAAGATCCATCAC
Found at i:86948361 original size:87 final size:87
Alignment explanation
Indices: 86948137--86948694 Score: 604
Period size: 87 Copynumber: 6.4 Consensus size: 87
86948127 TTGTAATTCC
* * ** * ** * *
86948137 CAGCCTGTTACCCTGCTGCTTAGGGGGTTAAGGCTTACCGTCTTCGATTTG-CTCCTCTACTGCT
1 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCC-CTACTGCT
* **
86948201 TAAGGGGTTAAGATCCAT-TACCTT
65 TAGGGGGTTAAGAT-C-TGTAAATT
* ** * * *** * *
86948225 C-GATCTGTTTTCCTACTACTTAGGGGGTTAAAATCTATCACCTTCGATCTGTTTCCTTACTGCT
1 CAG-CCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCT
*
86948289 TAGAGGGTTAAGATCTGTAAATT
65 TAGGGGGTTAAGATCTGTAAATT
* * * * * *
86948312 CAGCCTGTTACCTTACTACTTAGGGGTTTAAGGCCCATTACCTTTGATCTGTTTCCTTACTGTTT
1 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTT
*
86948377 AGGGGGTTAAGATTTGTAAATT
66 AGGGGGTTAAGATCTGTAAATT
* * *
86948399 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTATTTTCCTGCTGCTT
1 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTT
*
86948464 AGGGGGTTAAGATTTGTAAATT
66 AGGGGGTTAAGATCTGTAAATT
* * * *
86948486 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATAAACTTCAATCTATTTCCCTACTGCTT
1 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTT
*
86948551 AGGGGGTTAAGATCTGTCACATT
66 AGGGGGTTAAGATCTGT-AAATT
* * * ** *
86948574 C-GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATCACCTTCGATCTGTTTCCCTACTGCT
1 CAG-CCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCT
86948638 TA-GGGGTTAAGATCTGTAAATT
65 TAGGGGGTTAAGATCTGTAAATT
* *
86948660 CAGCCTGTTACCGTACTGCTTTGGGGTTTAAGGCC
1 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCC
86948695 TGTGGATTCA
Statistics
Matches: 396, Mismatches: 67, Indels: 16
0.83 0.14 0.03
Matches are distributed among these distances:
86 31 0.08
87 248 0.63
88 114 0.29
89 3 0.01
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (87 bp):
CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTT
AGGGGGTTAAGATCTGTAAATT
Found at i:86948865 original size:64 final size:64
Alignment explanation
Indices: 86948764--86948891 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
86948754 TCATGTATAT
*
86948764 ATGCTTATGCCAAATAATTAGGATGCAATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGCAATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
* * *
86948828 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCAATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
86948892 TTATTATTGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCAATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
Found at i:86957082 original size:26 final size:26
Alignment explanation
Indices: 86957053--86957105 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
86957043 TGAAACATGC
86957053 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
86957079 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
86957105 A
1 A
86957106 AAACTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:86958627 original size:26 final size:26
Alignment explanation
Indices: 86958585--86958642 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
86958575 CATGAAATTC
86958585 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
86958611 TTATCATGGAACTTTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
86958637 TTATCA
1 TTATCA
86958643 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.36
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:86964394 original size:26 final size:26
Alignment explanation
Indices: 86964356--86964439 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
86964346 CATGAAATTC
*
86964356 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
86964382 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
86964408 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
86964434 TTATCA
1 TTATCA
86964440 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:86965073 original size:17 final size:18
Alignment explanation
Indices: 86965048--86965081 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
86965038 TAACTAAGTA
*
86965048 ATGAGAAAATA-AATAAG
1 ATGAAAAAATATAATAAG
86965065 ATGAAAAAATATAATAA
1 ATGAAAAAATATAATAA
86965082 CAATACAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.21
Consensus pattern (18 bp):
ATGAAAAAATATAATAAG
Found at i:86965352 original size:3 final size:3
Alignment explanation
Indices: 86965346--86965777 Score: 116
Period size: 3 Copynumber: 145.3 Consensus size: 3
86965336 AAAAGAAAAT
* * * *
86965346 ATA ATA ATA ATA GTA ATA AT- ACA ATA GTA ATA ATA ATA AAA AGGT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA
* * * *
86965391 ATA ATA AT- ATA TTA GATA GTA A-A AAA ATA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
86965435 GTG ATA TTA GTA ATA ATA ATA ATA GGA-A ATA ATA GTA CATTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA -A-TA ATA ATA
* * * *
86965483 ATA ATA TATG TTA ATA ACA ATA ATA ACA TATA A-A A-A ATA GGA-A ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA --ATA ATA
* * * * * * *
86965529 ATA AT- ATG GTA A-A A-A ACA ATA ATA ATA ACA A-A AAA AGA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
86965573 ATA GTA GTA AAA AAA AT- ATA AAA ATA ATA ATA ATA ATA CA-A A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* * * * * * *
86965616 ATG ACA ATA A-A ATA A-G ATG ATA ATA ATG ATA ATA A-A AAA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
86965661 ATA GTA ATA ATGG A-A ATA ATA ATA ATA CCATA ATA A-A AAA AT- GTA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA
* * * * *
86965706 ATA ATA ACA TGTAA ATA ATA ATA ACA ATA ATA ACA ATA AT- ATA TTTA
1 ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * *
86965753 ATA AAA ATA ATA GTA AAA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
86965778 AATTAACTAA
Statistics
Matches: 311, Mismatches: 81, Indels: 74
0.67 0.17 0.16
Matches are distributed among these distances:
2 36 0.12
3 252 0.81
4 15 0.05
5 8 0.03
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:86965371 original size:20 final size:20
Alignment explanation
Indices: 86965343--86965384 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
86965333 AAAAAAAGAA
* *
86965343 AATATAATAATAATAGTAAT
1 AATACAATAATAATAATAAT
*
86965363 AATACAATAGTAATAATAAT
1 AATACAATAATAATAATAAT
86965383 AA
1 AA
86965385 AAAGGTATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (20 bp):
AATACAATAATAATAATAAT
Found at i:86965373 original size:14 final size:13
Alignment explanation
Indices: 86965342--86965381 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
86965332 AAAAAAAAGA
86965342 AAATA-TAATAAT
1 AAATAGTAATAAT
86965354 -AATAGTAATAAT
1 AAATAGTAATAAT
86965366 ACAATAGTAATAAT
1 A-AATAGTAATAAT
86965380 AA
1 AA
86965382 TAAAAAGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 4 0.16
12 7 0.28
13 1 0.04
14 13 0.52
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (13 bp):
AAATAGTAATAAT
Found at i:86965429 original size:20 final size:22
Alignment explanation
Indices: 86965346--86965432 Score: 61
Period size: 23 Copynumber: 3.7 Consensus size: 22
86965336 AAAAGAAAAT
*
86965346 ATAATAATAATAGTAATAATACA
1 ATAATAATAATAGTAA-AAGACA
* * *
86965369 ATAGTAATAATAATAAAAAGGTATA
1 ATAATAATAATAGT-AAAA-G-ACA
86965394 ATAATATATTAGATAGTAAAA-A-A
1 ATAATA-A-TA-ATAGTAAAAGACA
86965417 ATAATAATAATAGTAA
1 ATAATAATAATAGTAA
86965433 TAGTGATATT
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
20 7 0.13
21 2 0.04
22 1 0.02
23 21 0.40
24 3 0.06
25 7 0.13
26 1 0.02
27 6 0.12
28 4 0.08
ACGTcount: A:0.61, C:0.01, G:0.08, T:0.30
Consensus pattern (22 bp):
ATAATAATAATAGTAAAAGACA
Found at i:86965679 original size:38 final size:39
Alignment explanation
Indices: 86965637--86965710 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 39
86965627 ATAAGATGAT
* *
86965637 AATAATGATAATAAAAAAATAAAAATA-GTAATAATGGA
1 AATAATAATAATAAAAAAATAAAAAAATGTAATAATGGA
** *
86965675 AATAATAATAATACCATAATAAAAAAATGTAATAAT
1 AATAATAATAATAAAAAAATAAAAAAATGTAATAAT
86965711 AACATGTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
38 22 0.73
39 8 0.27
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.26
Consensus pattern (39 bp):
AATAATAATAATAAAAAAATAAAAAAATGTAATAATGGA
Found at i:86965935 original size:43 final size:43
Alignment explanation
Indices: 86965886--86965974 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
86965876 AGAAAAGGAC
86965886 TAAATTGCATGCGCAAATACCCAGGAGGGACTAAAATGGACAA
1 TAAATTGCATGCGCAAATACCCAGGAGGGACTAAAATGGACAA
86965929 TAAATTGCATGCGCAAATACCCAGGAGGGACTAAAATGGACAA
1 TAAATTGCATGCGCAAATACCCAGGAGGGACTAAAATGGACAA
86965972 TAA
1 TAA
86965975 CCCCTCCCTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (43 bp):
TAAATTGCATGCGCAAATACCCAGGAGGGACTAAAATGGACAA
Found at i:86967303 original size:24 final size:24
Alignment explanation
Indices: 86967276--86967325 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
86967266 TATAGGTGAA
86967276 TATTAAAATTTGCCATTATATTTT
1 TATTAAAATTTGCCATTATATTTT
* *
86967300 TATTGATATTTGCCATTATATTTT
1 TATTAAAATTTGCCATTATATTTT
86967324 TA
1 TA
86967326 AACTATGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.56
Consensus pattern (24 bp):
TATTAAAATTTGCCATTATATTTT
Found at i:86975293 original size:4 final size:4
Alignment explanation
Indices: 86975284--86975312 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
86975274 TAGAGGAAAG
86975284 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
86975313 AAGGGAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:86981855 original size:27 final size:27
Alignment explanation
Indices: 86981825--86981915 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
86981815 ATTACCAAAG
*
86981825 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
86981852 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
86981879 TACCCTCGATTTACAAAATTACCG-TT
1 TACCCTCGATTTACAGAATTACTGTTT
86981905 TACCCTCGATT
1 TACCCTCGATT
86981916 GTGAAATTAC
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
26 13 0.23
27 44 0.77
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:86982050 original size:27 final size:27
Alignment explanation
Indices: 86981914--86982083 Score: 116
Period size: 27 Copynumber: 6.3 Consensus size: 27
86981904 TTACCCTCGA
* *
86981914 TTGTGAAATTACTAAAATACCCCT-AT
1 TTGTAAAATTACCAAAATACCCCTGAT
** *
86981940 AGGGTAGAATTACCAAAATACCCCT-AGT
1 -TTGTAAAATTACCAAAATACCCCTGA-T
* * * *
86981968 TTGTAGAACTACCAAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCTGAT
* ** *
86981995 TTGTGAAATTACTGAAATA-CCCTCAAT
1 TTGTAAAATTACCAAAATACCCCT-GAT
86982022 TTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCCTGAT
* *
86982049 TT-AAAAATTA-CAGAAATACCCTTGACT
1 TTGTAAAATTACCA-AAATACCCCTGA-T
*
86982076 TTCTAAAA
1 TTGTAAAA
86982084 ATTATAGAAA
Statistics
Matches: 111, Mismatches: 25, Indels: 13
0.74 0.17 0.09
Matches are distributed among these distances:
25 2 0.02
26 21 0.19
27 79 0.71
28 9 0.08
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGAT
Found at i:86982065 original size:26 final size:26
Alignment explanation
Indices: 86982000--86982125 Score: 85
Period size: 27 Copynumber: 4.7 Consensus size: 26
86981990 CTGGTTTGTG
* * *
86982000 AAATTACTGAAATA-CCCTCAATTTGTA
1 AAATTACAGAAATACCCCT-GATTT-AA
86982027 AAATTACCA-AAATACCCCTGATTTAA
1 AAATTA-CAGAAATACCCCTGATTTAA
*
86982053 AAATTACAGAAATACCCTTGACTTTCTAA
1 AAATTACAGAAATACCCCTGA--TT-TAA
* *** *
86982082 AAATTATAGAAATACTATTGGTTTACA
1 AAATTACAGAAATACCCCTGATTTA-A
*
86982109 AAATTACTGAAATACCC
1 AAATTACAGAAATACCC
86982126 TTGGTTTGTA
Statistics
Matches: 80, Mismatches: 12, Indels: 14
0.75 0.11 0.13
Matches are distributed among these distances:
25 2 0.03
26 20 0.25
27 31 0.39
28 7 0.09
29 20 0.25
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (26 bp):
AAATTACAGAAATACCCCTGATTTAA
Found at i:86982120 original size:27 final size:27
Alignment explanation
Indices: 86982081--86982132 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
86982071 TGACTTTCTA
*
86982081 AAAATTATAGAAATACTATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
86982108 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
86982133 GTAGATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:86982248 original size:26 final size:26
Alignment explanation
Indices: 86982186--86982248 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
86982176 ACCCCTAATA
* *
86982186 GGTAAAAAGACCGTAAGCCCCTGTAG
1 GGTAAAATGACCGTAAACCCCTGTAG
* *
86982212 GGTAAAGTGACCGTAAACCCCTGTAT
1 GGTAAAATGACCGTAAACCCCTGTAG
86982238 GGTAAAATGAC
1 GGTAAAATGAC
86982249 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (26 bp):
GGTAAAATGACCGTAAACCCCTGTAG
Found at i:86983134 original size:24 final size:25
Alignment explanation
Indices: 86983058--86983127 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
86983048 AGGAGGTGCT
* * *
86983058 AAAAGGGCTATGCCCTAGTTTA-CTG
1 AAAAGGGCTTTGCCCCAGTTTATC-A
*
86983083 GAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
86983108 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
86983128 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 38 0.97
26 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:86983140 original size:24 final size:24
Alignment explanation
Indices: 86983084--86983154 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 24
86983074 AGTTTACTGG
86983084 AAAG-GGCTTTGCCCCAGTTTATCA
1 AAAGAGGCTTTGCCCCAG-TTATCA
*
86983108 AAA-AGGGCTTTGCCCCAGTTATTA
1 AAAGA-GGCTTTGCCCCAGTTATCA
**
86983132 AAAGAGGCTAGGCCTCCAGTTAT
1 AAAGAGGCTTTGCC-CCAGTTAT
86983155 ATGATAAAGC
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 18 0.45
25 22 0.55
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAGAGGCTTTGCCCCAGTTATCA
Found at i:86988533 original size:18 final size:19
Alignment explanation
Indices: 86988501--86988553 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
86988491 TTGAGTCCGA
* *
86988501 TTATTTTTATGTTTAT-AT
1 TTATCTTTATTTTTATCAT
* *
86988519 TTGTCTTTATTTTTATCTT
1 TTATCTTTATTTTTATCAT
*
86988538 TTATTTTTATTTTTAT
1 TTATCTTTATTTTTAT
86988554 TCTTCTTGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 13 0.46
19 15 0.54
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (19 bp):
TTATCTTTATTTTTATCAT
Found at i:86988550 original size:5 final size:6
Alignment explanation
Indices: 86988501--86988554 Score: 63
Period size: 6 Copynumber: 8.8 Consensus size: 6
86988491 TTGAGTCCGA
* * * *
86988501 TTATTT TTATGT TTATAT TTGTCT TTATTT TTATCTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTAT-TT TTATTT TTATTT
86988550 TTATT
1 TTATT
86988555 CTTCTTGTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
6 35 0.85
7 6 0.15
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.76
Consensus pattern (6 bp):
TTATTT
Found at i:86989701 original size:32 final size:32
Alignment explanation
Indices: 86989665--86989727 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
86989655 TTTTCTAGTT
*
86989665 AGGTAATTTATCAAATCGATCTCGATTCTAAC
1 AGGTAATTTATCAAATAGATCTCGATTCTAAC
86989697 AGGTAATTTATCAAATAGATCTCGATTCTAA
1 AGGTAATTTATCAAATAGATCTCGATTCTAA
86989728 TCTGCTTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
AGGTAATTTATCAAATAGATCTCGATTCTAAC
Found at i:86992573 original size:16 final size:17
Alignment explanation
Indices: 86992544--86992581 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
86992534 ATATTTAAGT
86992544 AAAAATATTATAATTCA
1 AAAAATATTATAATTCA
* *
86992561 AAAAAT-TTCTAATTTA
1 AAAAATATTATAATTCA
86992577 AAAAA
1 AAAAA
86992582 AGTATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAAATATTATAATTCA
Found at i:86993318 original size:20 final size:20
Alignment explanation
Indices: 86993293--86993356 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
86993283 TTTCTAAGAT
86993293 TTTAATTATAATTTATAATA
1 TTTAATTATAATTTATAATA
*
86993313 TTTAATGAT-ATTTA-AATA
1 TTTAATTATAATTTATAATA
**
86993331 TTTTTTTTATAATTT-TAATAA
1 -TTTAATTATAATTTATAAT-A
86993352 TTTAA
1 TTTAA
86993357 AAAAAATCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
18 4 0.12
19 11 0.32
20 18 0.53
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTAATTATAATTTATAATA
Found at i:86993399 original size:32 final size:32
Alignment explanation
Indices: 86993356--86993440 Score: 113
Period size: 32 Copynumber: 2.7 Consensus size: 32
86993346 TAATAATTTA
*
86993356 AAAAAAATCAATTAAGCCCTTA-TAAAGTAAT
1 AAAAAAATCAATTAAGCCCTTAGTAAAATAAT
86993387 AAAAAAAGTCAATTAAG--CTATAGTAAAATAAT
1 AAAAAAA-TCAATTAAGCCCT-TAGTAAAATAAT
*
86993419 AGAAAAATCAATTAAGCCCTTA
1 AAAAAAATCAATTAAGCCCTTA
86993441 CTGTCAACAT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
30 2 0.04
31 18 0.38
32 25 0.53
33 2 0.04
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.25
Consensus pattern (32 bp):
AAAAAAATCAATTAAGCCCTTAGTAAAATAAT
Found at i:86996887 original size:26 final size:24
Alignment explanation
Indices: 86996831--86996899 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 24
86996821 CGCAACACCT
*
86996831 TTTTTTATATTAAAATATTTTTTG
1 TTTTTTATAATAAAATATTTTTTG
*
86996855 TTTTTTA-AATAAAATATTATTATTT
1 TTTTTTATAATAAAATATT-TT-TTG
*
86996880 TATTTTTATTA-AAAATATTT
1 T-TTTTTATAATAAAATATTT
86996900 AAATTTATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.26
24 9 0.24
25 4 0.11
26 14 0.37
27 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (24 bp):
TTTTTTATAATAAAATATTTTTTG
Found at i:87001125 original size:47 final size:49
Alignment explanation
Indices: 87001073--87001164 Score: 152
Period size: 47 Copynumber: 1.9 Consensus size: 49
87001063 AGACATGTTT
87001073 TTTTAGTTCTTTTAAATATTTATATA-TA-TTTTTATAAATTTATGAAA
1 TTTTAGTTCTTTTAAATATTTATATATTATTTTTTATAAATTTATGAAA
* *
87001120 TTTTAGTTCTTTTATATATTTATATATTATTTTTTATTAATTTAT
1 TTTTAGTTCTTTTAAATATTTATATATTATTTTTTATAAATTTAT
87001165 ATATATTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
47 25 0.61
48 2 0.05
49 14 0.34
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (49 bp):
TTTTAGTTCTTTTAAATATTTATATATTATTTTTTATAAATTTATGAAA
Found at i:87003388 original size:14 final size:16
Alignment explanation
Indices: 87003346--87003382 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
87003336 CGCTCAATCG
*
87003346 TGCTTTCCCTCTCTCT
1 TGCTTTCCTTCTCTCT
87003362 TGCTTTCCTTCTCTCT
1 TGCTTTCCTTCTCTCT
87003378 TGCTT
1 TGCTT
87003383 CTTCTCAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.00, C:0.38, G:0.08, T:0.54
Consensus pattern (16 bp):
TGCTTTCCTTCTCTCT
Found at i:87014438 original size:17 final size:18
Alignment explanation
Indices: 87014394--87014450 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 18
87014384 ATTATAGTAA
*
87014394 TATTATATATTTTTATAG
1 TATTATAAATTTTTATAG
87014412 -ATT-T-AATTTTTAT-G
1 TATTATAAATTTTTATAG
*
87014426 TATTATAAA-TTTTATAA
1 TATTATAAATTTTTATAG
87014443 TA-TATAAA
1 TATTATAAA
87014451 AATAAAATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 1 0.03
15 11 0.33
16 14 0.42
17 7 0.21
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (18 bp):
TATTATAAATTTTTATAG
Found at i:87015722 original size:13 final size:12
Alignment explanation
Indices: 87015700--87015737 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
87015690 TTATATGTAC
87015700 TTTA-TTTTATT
1 TTTATTTTTATT
87015711 TTGTATTTTTATAT
1 TT-TATTTTTAT-T
87015725 TTTATTTTTATT
1 TTTATTTTTATT
87015737 T
1 T
87015738 GCCTATTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.08
12 4 0.17
13 15 0.62
14 3 0.12
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (12 bp):
TTTATTTTTATT
Found at i:87015735 original size:6 final size:6
Alignment explanation
Indices: 87015700--87015737 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
87015690 TTATATGTAC
87015700 TTTA-T TTTATT TTGTATT TTTATAT TTTATT TTTATT T
1 TTTATT TTTATT TT-TATT TTTAT-T TTTATT TTTATT T
87015738 GCCTATTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 4 0.13
6 14 0.47
7 12 0.40
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:87015744 original size:19 final size:20
Alignment explanation
Indices: 87015702--87015745 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
87015692 ATATGTACTT
**
87015702 TATTTTATTTTGTATTTTTA
1 TATTTTATTTTGTATTTGCA
*
87015722 TATTTTATTTT-TATTTGCC
1 TATTTTATTTTGTATTTGCA
87015741 TATTT
1 TATTT
87015746 AGGTACTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.73
Consensus pattern (20 bp):
TATTTTATTTTGTATTTGCA
Found at i:87015876 original size:21 final size:21
Alignment explanation
Indices: 87015794--87015880 Score: 63
Period size: 21 Copynumber: 4.0 Consensus size: 21
87015784 ACATTGTCTT
* *
87015794 TATTTTTAATTTTTTTCTTATCA
1 TATTTTT-ATTTATTTCTT-TTA
*
87015817 TA-TTTT-TTTACTTTTTTTATA
1 TATTTTTATTTA-TTTCTTT-TA
**
87015838 TATATTTTATTT-CCTCTTTTA
1 TAT-TTTTATTTATTTCTTTTA
87015859 TATTTTTATTTATTTCTTTTA
1 TATTTTTATTTATTTCTTTTA
87015880 T
1 T
87015881 CGTTGTTATT
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
20 12 0.24
21 21 0.42
22 8 0.16
23 6 0.12
24 3 0.06
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (21 bp):
TATTTTTATTTATTTCTTTTA
Found at i:87016597 original size:127 final size:131
Alignment explanation
Indices: 87016465--87016780 Score: 417
Period size: 131 Copynumber: 2.4 Consensus size: 131
87016455 CCTAGCACAG
** * * * ** *
87016465 TAGGGCACGATTCCTTGAATTTCTAGACATTGAACATTGGCTT-GTTTT-AGAATTTAGAAA-AC
1 TAGGGCACGATTCCCCGAATTGCCAAACATCAAACATTGCCTTCGTTTTAAGAATTTAGAAAGAC
*
87016527 GTGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGAAAATTGCAACCCAGCACGA
66 ATGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGAAAATTGCAACCCAGCACGA
87016592 -
131 T
* * **
87016592 TAGGGCATGATTCCCCGAATTGCCAAACATCAAACATTTCCTTCGTTTTAAAGAATTTTTAAAGA
1 TAGGGCACGATTCCCCGAATTGCCAAACATCAAACATTGCCTTCGTTTT-AAGAATTTAGAAAGA
* *
87016657 CATGAGTGAAATTCCAAAGGAATATTCTATTATTTTGAACAAACGGAAAATTGCAACCCAGCACG
65 CATGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGAAAATTGCAACCCAGCACG
87016722 AT
130 AT
* * *
87016724 TA-GGCACGATTCCCCAAATTGCCAAGCATCGAACATTGCCTTCGTTTTAAAGAATTT
1 TAGGGCACGATTCCCCGAATTGCCAAACATCAAACATTGCCTTCGTTTT-AAGAATTT
87016781 TTAAATGAAT
Statistics
Matches: 164, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
127 33 0.20
128 5 0.03
130 10 0.06
131 114 0.70
132 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (131 bp):
TAGGGCACGATTCCCCGAATTGCCAAACATCAAACATTGCCTTCGTTTTAAGAATTTAGAAAGAC
ATGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGAAAATTGCAACCCAGCACGA
T
Found at i:87016694 original size:131 final size:131
Alignment explanation
Indices: 87016528--87016785 Score: 437
Period size: 131 Copynumber: 2.0 Consensus size: 131
87016518 TTAGAAAACG
87016528 TGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGAAAATTGCAACCCAGCACGA-
1 TGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGAAAATTGCAACCCAGCACGAT
* * *
87016592 TAGGGCATGATTCCCCGAATTGCCAAACATCAAACATTTCCTTCGTTTTAAAGAATTTTTAAAGA
66 TA-GGCACGATTCCCCAAATTGCCAAACATCAAACATTGCCTTCGTTTTAAAGAATTTTTAAAGA
87016657 CA
130 CA
* *
87016659 TGAGTGAAATTCCAAAGGAATATTCTATTATTTTGAACAAACGGAAAATTGCAACCCAGCACGAT
1 TGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGAAAATTGCAACCCAGCACGAT
* *
87016724 TAGGCACGATTCCCCAAATTGCCAAGCATCGAACATTGCCTTCGTTTTAAAGAATTTTTAAA
66 TAGGCACGATTCCCCAAATTGCCAAACATCAAACATTGCCTTCGTTTTAAAGAATTTTTAAA
87016786 TGAATAATTA
Statistics
Matches: 119, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
131 117 0.98
132 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (131 bp):
TGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGAAAATTGCAACCCAGCACGAT
TAGGCACGATTCCCCAAATTGCCAAACATCAAACATTGCCTTCGTTTTAAAGAATTTTTAAAGAC
A
Found at i:87019466 original size:44 final size:46
Alignment explanation
Indices: 87019410--87019527 Score: 145
Period size: 45 Copynumber: 2.6 Consensus size: 46
87019400 TATTTTCATC
* * *
87019410 CTGCTCTACTGTAACTTCAGAGAGATAAGGAT-TG-TGACTTCGA-T
1 CTGCTCCACTGTAACTTCAGGGAGATAAGGATCTGCTAACTT-GAGT
*
87019454 CTGCTCCACTGTAACTTCAGGGAGATAA-GATCTGCTAACTTTAGT
1 CTGCTCCACTGTAACTTCAGGGAGATAAGGATCTGCTAACTTGAGT
* *
87019499 CTGCTCCACTGCAACCTCAGGGAGATAAG
1 CTGCTCCACTGTAACTTCAGGGAGATAAG
87019528 ACTTGTAATT
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
43 3 0.05
44 29 0.45
45 32 0.50
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (46 bp):
CTGCTCCACTGTAACTTCAGGGAGATAAGGATCTGCTAACTTGAGT
Found at i:87019671 original size:44 final size:44
Alignment explanation
Indices: 87019623--87019760 Score: 104
Period size: 44 Copynumber: 3.1 Consensus size: 44
87019613 AGATTTACAA
87019623 TCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTT
1 TCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTT
* * * * ** ** * **
87019667 TCTTC-G-AT-TTGATCCACTGCAACTCTAGGGAGACAA-AATCTCCAA
1 TCTTCAGCCTGTT-A-CC-CTACTACT-TAGGGGGTTAAGGCT-TGCTT
87019712 TCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTT
1 TCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTT
87019756 TCTTC
1 TCTTC
87019761 GATTTGCTCC
Statistics
Matches: 63, Mismatches: 22, Indels: 18
0.61 0.21 0.17
Matches are distributed among these distances:
41 2 0.03
42 2 0.03
43 3 0.05
44 27 0.43
45 22 0.35
46 3 0.05
47 2 0.03
48 2 0.03
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (44 bp):
TCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTT
Found at i:87019984 original size:89 final size:89
Alignment explanation
Indices: 87019498--87019983 Score: 559
Period size: 89 Copynumber: 5.5 Consensus size: 89
87019488 CTAACTTTAG
* * * *
87019498 TCTGCTCCACTGCAACCTCAGGGAGATAAGA-CTTGTAAT-TTACAGCCTGTTACCCTACTGCTT
1 TCTGCTCCACTGCAACTTCAGGGAGACAAGATC-TGCAATCTT-CAGCCTGTTACCCTACTACTT
* *
87019561 AGGGGGTTAAGGCTTAC-TTCTCCGA
64 AGGGGGTTAAGGCTTGCTTTCTTCGA
* * ** * * *
87019586 TTTGCTCCACTAC-TGTTTAGGGAGACAAGATTTACAATCTTCAGCCTGTTACCCTACTACTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAG
87019650 GGGGTTAAGGCTTGCTTTCTTCGA
66 GGGGTTAAGGCTTGCTTTCTTCGA
* * * *
87019674 TTTGATCCACTGCAAC-TCTAGGGAGACAAAATCTCCAATCTTCAGCCTGTTACCCTACTACTTA
1 TCTGCTCCACTGCAACTTC-AGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTA
87019738 GGGGGTTAAGGCTTGCTTTCTTCGA
65 GGGGGTTAAGGCTTGCTTTCTTCGA
* * * * * ** * *
87019763 TTTGCTCCACTGCAAATACAGGGAGACAAAATCTTCAATCTTTGGCGTGTTACCCTACTACTGAG
1 TCTGCTCCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAG
** **
87019828 GGGGTTAAGGCTCACCGTCTTCGA
66 GGGGTTAAGGCTTGCTTTCTTCGA
** * * * * *
87019852 TCTATTCCACTGTAACTTCAGGAAGACAAGATCTGCAATCTTCGGCCTGTTACCCTACTATTTTG
1 TCTGCTCCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAG
87019917 GGGGTTAAGGCTTGCTTTCTTCGA
66 GGGGTTAAGGCTTGCTTTCTTCGA
**
87019941 TCTGCTCTGCTGCAACTTCAGGGAGACAAGATCTGCAATCTTC
1 TCTGCTCCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTC
87019984 GCCAATATCG
Statistics
Matches: 335, Mismatches: 57, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
87 52 0.16
88 32 0.10
89 250 0.75
90 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (89 bp):
TCTGCTCCACTGCAACTTCAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAG
GGGGTTAAGGCTTGCTTTCTTCGA
Found at i:87025134 original size:19 final size:19
Alignment explanation
Indices: 87025110--87025147 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
87025100 GAAATGAATA
87025110 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
87025129 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
87025148 GCAATCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:87026361 original size:9 final size:9
Alignment explanation
Indices: 87026331--87026373 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
87026321 AGAGGTTAGG
87026331 TTTTTTTCT
1 TTTTTTTCT
* *
87026340 TTTTCTTCA
1 TTTTTTTCT
87026349 TTTTTTTCT
1 TTTTTTTCT
87026358 TTTTTTT-T
1 TTTTTTTCT
87026366 TTTATTTT
1 TTT-TTTT
87026374 TTATTTTGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
8 4 0.14
9 25 0.86
ACGTcount: A:0.05, C:0.09, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:87034873 original size:18 final size:18
Alignment explanation
Indices: 87034850--87034885 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
87034840 CGGACGGCTG
87034850 CATTATCCTCAACTTTGT
1 CATTATCCTCAACTTTGT
87034868 CATTATCCTCAACTTTGT
1 CATTATCCTCAACTTTGT
87034886 TAAGAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.06, T:0.44
Consensus pattern (18 bp):
CATTATCCTCAACTTTGT
Found at i:87036276 original size:131 final size:129
Alignment explanation
Indices: 87036023--87036353 Score: 431
Period size: 131 Copynumber: 2.6 Consensus size: 129
87036013 AAAATCGAAG
* * * **
87036023 CCCAGCAC-AGTAGGGCACGATTCCTCGAATTTCTAGACATTGAACATTTCCTT-GTTTT--AGA
1 CCCAGCACGA-TAGGGCACGATTCCT-GAATTGCCAAACATCAAACATTTCCTTCGTTTTAAAGA
** *
87036084 ATTTAGAAAAAGTGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAAGGGAAAATTGTA
64 ATTTTTAAAAAGTGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAAGGGAAAATTGCA
87036149 A
129 A
87036150 CCCAGCACGATAGGGCACGATTCTCTGAATTGCCAAACATCAAACATTTCCTTCGTTTTAAAGAA
1 CCCAGCACGATAGGGCACGATTC-CTGAATTGCCAAACATCAAACATTTCCTTCGTTTTAAAGAA
* *
87036215 TTTTTAAAGACA-TGAGTGAAATTCCAAAGGAATATTCTATTATTTTGAACAAACGGG-AAATTG
65 TTTTTAAA-A-AGTGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAA-GGGAAAATTG
87036278 CAA
127 CAA
* * * *
87036281 CCCAGCACGATTGGGCACGATTCCCCGAATTGCCAAGCATCAAACATTGCCTTCGTTTTAAAGAA
1 CCCAGCACGATAGGGCACGATT-CCTGAATTGCCAAACATCAAACATTTCCTTCGTTTTAAAGAA
87036346 TTTTTAAA
65 TTTTTAAA
87036354 TGAATAATTA
Statistics
Matches: 181, Mismatches: 14, Indels: 14
0.87 0.07 0.07
Matches are distributed among these distances:
127 43 0.24
128 8 0.04
130 10 0.06
131 115 0.64
132 5 0.03
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (129 bp):
CCCAGCACGATAGGGCACGATTCCTGAATTGCCAAACATCAAACATTTCCTTCGTTTTAAAGAAT
TTTTAAAAAGTGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAAGGGAAAATTGCAA
Found at i:87040906 original size:18 final size:18
Alignment explanation
Indices: 87040883--87040925 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
87040873 TTGATTGGTG
87040883 TAGGGTTAAGGTTTAGTT
1 TAGGGTTAAGGTTTAGTT
*
87040901 TAGGGTTAATGTTTAGTT
1 TAGGGTTAAGGTTTAGTT
*
87040919 TATGGTT
1 TAGGGTT
87040926 TTTAGGGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (18 bp):
TAGGGTTAAGGTTTAGTT
Found at i:87041007 original size:12 final size:13
Alignment explanation
Indices: 87040983--87041011 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
87040973 GGGTTAAGGG
87040983 TTAATTAATTAAA
1 TTAATTAATTAAA
87040996 TTAATT-ATTAAA
1 TTAATTAATTAAA
87041008 TTAA
1 TTAA
87041012 AAAAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAATTAATTAAA
Found at i:87041011 original size:17 final size:17
Alignment explanation
Indices: 87040989--87041067 Score: 52
Period size: 17 Copynumber: 4.4 Consensus size: 17
87040979 AGGGTTAATT
87040989 AATTAAATTAATTATTA
1 AATTAAATTAATTATTA
** *
87041006 AATTAAAAAAATAATTA
1 AATTAAATTAATTATTA
* *
87041023 AATTAGGATTGAGGGTTAATT-
1 AATTA-AATT-A--ATT-ATTA
*
87041044 AATTAAATTAACTATTA
1 AATTAAATTAATTATTA
87041061 AATTAAA
1 AATTAAA
87041068 AAATCAATTA
Statistics
Matches: 45, Mismatches: 11, Indels: 12
0.66 0.16 0.18
Matches are distributed among these distances:
16 3 0.07
17 27 0.60
18 1 0.02
19 2 0.04
20 3 0.07
21 6 0.13
22 3 0.07
ACGTcount: A:0.53, C:0.01, G:0.08, T:0.38
Consensus pattern (17 bp):
AATTAAATTAATTATTA
Found at i:87041020 original size:55 final size:54
Alignment explanation
Indices: 87040955--87041094 Score: 219
Period size: 55 Copynumber: 2.5 Consensus size: 54
87040945 ATGTTTAAGG
*
87040955 AAAAAAATAATTAAATTAGGGTTAAGGGTTAATTAATTAAATTAATTATTAAATT
1 AAAAAAATAATTAAATTAGGGTT-AGGGTTAATTAATTAAATTAACTATTAAATT
*
87041010 AAAAAAATAATTAAATTAGGATTGAGGGTTAATTAATTAAATTAACTATTAAATT
1 AAAAAAATAATTAAATTAGGGTT-AGGGTTAATTAATTAAATTAACTATTAAATT
87041065 -AAAAAATCAATTAAATTAGGGCTTAGGGTT
1 AAAAAAAT-AATTAAATTAGGG-TTAGGGTT
87041095 TTTAGGGTTT
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
54 7 0.09
55 70 0.89
56 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (54 bp):
AAAAAAATAATTAAATTAGGGTTAGGGTTAATTAATTAAATTAACTATTAAATT
Found at i:87044034 original size:275 final size:273
Alignment explanation
Indices: 87043231--87044047 Score: 1221
Period size: 273 Copynumber: 3.0 Consensus size: 273
87043221 GCAGTAAGAG
* *
87043231 AATCATTGC-AATTGCGTTTGTAATAACACC-GGCAGAGTCAGCTGATGACTAGGATTTCTTTCT
1 AATCATT-CTAATTGCATTTGCAATAACACCAGG--GAGTCAGCTGATGACTAGGATTTCTTTCT
87043294 TTCTAGGTTAAGGAGGCATGTCTGCCCCCAACCTGATATATGCGTTATAT-AGAATGGGGTACTG
63 TTCTAGGTTAAGGAGGCATGTCTGCCCCCAACCTGATATATGCGTTATATCAG-ATGGGGTACTG
* *
87043358 GAATACTAGCCACAATTGAATGACAATGGAGCCAATGGCATCGCACACACCATCGGTATTG-CTA
127 GAATACTAGCCGCAATTGAATGACAATGAAGCCAATGGCATCGCACACACCATCGGTATTGCCTA
* * * * *
87043422 AGGCAAGTTGCGTCCAACTACTACAGACAATATCAATCTACAACTGAACGATGGCAAGTGAACAA
192 AGGCACGTTGCGTCCAACTACTACGGGCAATATCGATCTACAACTGAACGATGGCAAGTGACCAA
*
87043487 CATGGGTATTTAAGGAG
257 CATGGGTATTTAAGGAA
* *
87043504 AATCATTCTAATTGCATTTGCAATAACACCGGGGAGACAGCTGATGACTAGGATTTCTTTCTTTC
1 AATCATTCTAATTGCATTTGCAATAACACCAGGGAGTCAGCTGATGACTAGGATTTCTTTCTTTC
* * * *
87043569 TAGGTTAAGGAGGCATGTTTGCCCCTAACCTCATATATGCGTTATATCGGATAGGGGTACTGGAA
66 TAGGTTAAGGAGGCATGTCTGCCCCCAACCTGATATATGCGTTATATCAGAT-GGGGTACTGGAA
*
87043634 TACTAGCCG-AATTGAATGACAATGAAGCCAATGACATCGCACACACCATCGGTATTGCCTAAGG
130 TACTAGCCGCAATTGAATGACAATGAAGCCAATGGCATCGCACACACCATCGGTATTGCCTAAGG
* *
87043698 CACATTGCGTCCAACTACTACGGGCAATATCGATCTACAACTGAACGATGACAAGTGACCAACAT
195 CACGTTGCGTCCAACTACTACGGGCAATATCGATCTACAACTGAACGATGGCAAGTGACCAACAT
* *
87043763 AGTTATTTAAGGAA
260 GGGTATTTAAGGAA
*
87043777 AATCATTCTAATTGCATTTGCAATAACACCAATGGAGTCAGCTGATGACTAGGATTTCTTTCTTT
1 AATCATTCTAATTGCATTTGCAATAACACC-AGGGAGTCAGCTGATGACTAGGATTTCTTTCTTT
* *
87043842 CTAGGTTAAGGAGGTATGTCTGCCCCCAACCTGATATATGCGTTATATCAGATCGGGGTACTGCA
65 CTAGGTTAAGGAGGCATGTCTGCCCCCAACCTGATATATGCGTTATATCAGAT-GGGGTACTGGA
* * * *
87043907 ATACTAGCTGCAATTGAATGTCATTGAAGCCAATGGCATCACACACACCATCGGTATTGCCTAAG
129 ATACTAGCCGCAATTGAATGACAATGAAGCCAATGGCATCGCACACACCATCGGTATTGCCTAAG
* * * * * * *
87043972 ACACGTTGCATCTAACTACAATGGGCAATATCGATCTACAACTGAACGACGGCAAATGACCAACA
194 GCACGTTGCGTCCAACTACTACGGGCAATATCGATCTACAACTGAACGATGGCAAGTGACCAACA
87044037 TGGGTATTTAA
259 TGGGTATTTAA
87044048 TCTTTATTAA
Statistics
Matches: 491, Mismatches: 46, Indels: 12
0.89 0.08 0.02
Matches are distributed among these distances:
272 124 0.25
273 152 0.31
274 100 0.20
275 115 0.23
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (273 bp):
AATCATTCTAATTGCATTTGCAATAACACCAGGGAGTCAGCTGATGACTAGGATTTCTTTCTTTC
TAGGTTAAGGAGGCATGTCTGCCCCCAACCTGATATATGCGTTATATCAGATGGGGTACTGGAAT
ACTAGCCGCAATTGAATGACAATGAAGCCAATGGCATCGCACACACCATCGGTATTGCCTAAGGC
ACGTTGCGTCCAACTACTACGGGCAATATCGATCTACAACTGAACGATGGCAAGTGACCAACATG
GGTATTTAAGGAA
Found at i:87045215 original size:129 final size:129
Alignment explanation
Indices: 87045049--87045425 Score: 589
Period size: 129 Copynumber: 2.9 Consensus size: 129
87045039 ACATTTATTT
* * *
87045049 TAATAAAAATTATTGGTTAATTTAAAAGAACATTTATTGTATTAAAATTTAAAAAAGTAAAGTAC
1 TAATAAAAA-TATT-GCTAATTTAAAAGAACATTTATTTTAATAAAATTTAAAAAAGTAAAGTAC
87045114 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTAAAACTATATAAAAAA-TAAATATAAAA
64 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTAAAACTATATAAAAAATTAAATATAAAA
87045178 A
129 A
* * *
87045179 TAATAAAAATATTAGCTAATTAAAAAGAACATTTATTTTAATAAAGTTAAAAAAAGTAAAGTACA
1 TAATAAAAATATT-GCTAATTTAAAAGAACATTTATTTTAATAAAATTTAAAAAAGTAAAGTACA
* *
87045244 ATTAAAATATTAAAAACAACTTTTATTTTACTAATTGAAACTATATAAAAAATTAAATATAAAAA
65 ATTAAAATATTAAAAACAACTTTTATTTTATTAATTAAAACTATATAAAAAATTAAATATAAAAA
*
87045309 TAATAAAAAATATTGCCTAATTTAAAAGAATATTTATTTTAATAAAA-TTAAAAAAGTAAAGTAC
1 TAAT-AAAAATATTG-CTAATTTAAAAGAACATTTATTTTAATAAAATTTAAAAAAGTAAAGTAC
*
87045373 AATTAAAATATTAAAAATAACTTTTATTTTATT-ATATAAAACTATATAAAAAA
64 AATTAAAATATTAAAAACAACTTTTATTTTATTAAT-TAAAACTATATAAAAAA
87045426 AGTTTCTACA
Statistics
Matches: 227, Mismatches: 16, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
129 101 0.44
130 89 0.39
131 37 0.16
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (129 bp):
TAATAAAAATATTGCTAATTTAAAAGAACATTTATTTTAATAAAATTTAAAAAAGTAAAGTACAA
TTAAAATATTAAAAACAACTTTTATTTTATTAATTAAAACTATATAAAAAATTAAATATAAAAA
Found at i:87045585 original size:22 final size:22
Alignment explanation
Indices: 87045527--87045590 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
87045517 CCTTAGTTCA
*
87045527 GCTTCCGGCGGGGGTTGTGGTT
1 GCTTCCGGCGGGGATTGTGGTT
*
87045549 GC-TCCGGTGGGGATTGTGGTT
1 GCTTCCGGCGGGGATTGTGGTT
87045570 -CTTCCGGCAGGGGATT-TGGTT
1 GCTTCCGGC-GGGGATTGTGGTT
87045591 ATGGGTGTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.03
21 27 0.73
22 9 0.24
ACGTcount: A:0.05, C:0.17, G:0.45, T:0.33
Consensus pattern (22 bp):
GCTTCCGGCGGGGATTGTGGTT
Found at i:87045861 original size:18 final size:18
Alignment explanation
Indices: 87045835--87045877 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
87045825 GACTAGGAAA
* *
87045835 AGGAAACATAAAAGGGTT
1 AGGATACATAAAAGGGCT
*
87045853 AGGATACATATAAGGGCT
1 AGGATACATAAAAGGGCT
87045871 AGGATAC
1 AGGATAC
87045878 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:87049816 original size:7 final size:7
Alignment explanation
Indices: 87049806--87049849 Score: 61
Period size: 7 Copynumber: 6.0 Consensus size: 7
87049796 TTATATACGT
87049806 AATACTA
1 AATACTA
87049813 AATACTA
1 AATACTA
87049820 AATACTAA
1 AATACT-A
87049828 AATACTA
1 AATACTA
*
87049835 AATACGA
1 AATACTA
87049842 AATGACTA
1 AAT-ACTA
87049850 TTTTATTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
7 23 0.70
8 10 0.30
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.25
Consensus pattern (7 bp):
AATACTA
Found at i:87049832 original size:15 final size:14
Alignment explanation
Indices: 87049806--87049849 Score: 61
Period size: 15 Copynumber: 3.0 Consensus size: 14
87049796 TTATATACGT
87049806 AATACTAAATACTA
1 AATACTAAATACTA
87049820 AATACTAAAATACTA
1 AATACT-AAATACTA
*
87049835 AATACGAAATGACTA
1 AATACTAAAT-ACTA
87049850 TTTTATTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.25
Consensus pattern (14 bp):
AATACTAAATACTA
Found at i:87049832 original size:22 final size:23
Alignment explanation
Indices: 87049806--87049849 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
87049796 TTATATACGT
*
87049806 AATACTAAATACTAAAT-ACTAA
1 AATACTAAATACGAAATGACTAA
87049828 AATACTAAATACGAAATGACTA
1 AATACTAAATACGAAATGACTA
87049850 TTTTATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.25
Consensus pattern (23 bp):
AATACTAAATACGAAATGACTAA
Found at i:87051063 original size:22 final size:21
Alignment explanation
Indices: 87051014--87051064 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 21
87051004 TTTGAAAAAA
*
87051014 TTGAGAGAATTTGGAGAGAAT
1 TTGAGAGAATTTAGAGAGAAT
87051035 TTGGAGAGAATTTAGAGAGAAT
1 TT-GAGAGAATTTAGAGAGAAT
87051057 TGTGAGAG
1 T-TGAGAG
87051065 GACTATTGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 2 0.07
22 24 0.89
23 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.35, T:0.27
Consensus pattern (21 bp):
TTGAGAGAATTTAGAGAGAAT
Found at i:87051064 original size:11 final size:11
Alignment explanation
Indices: 87051016--87051057 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
87051006 TGAAAAAATT
87051016 GAGAGAATTTG
1 GAGAGAATTTG
87051027 GAGAGAATTTG
1 GAGAGAATTTG
*
87051038 GAGAGAATTTA
1 GAGAGAATTTG
87051049 GAGAGAATT
1 GAGAGAATT
87051058 GTGAGAGGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.26
Consensus pattern (11 bp):
GAGAGAATTTG
Found at i:87055013 original size:26 final size:26
Alignment explanation
Indices: 87054984--87055039 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
87054974 TATATGTGAA
*
87054984 TTTAATATATATTATATTAAAATAAG
1 TTTAATATATATTATACTAAAATAAG
* *
87055010 TTTACTTTATATTATACTAAAATAAG
1 TTTAATATATATTATACTAAAATAAG
87055036 TTTA
1 TTTA
87055040 CTTAATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (26 bp):
TTTAATATATATTATACTAAAATAAG
Found at i:87055040 original size:26 final size:26
Alignment explanation
Indices: 87054991--87055047 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
87054981 GAATTTAATA
*
87054991 TATATTATATTAAAATAAGTTTACTT
1 TATATTATACTAAAATAAGTTTACTT
87055017 TATATTATACTAAAATAAGTTTACTT
1 TATATTATACTAAAATAAGTTTACTT
*
87055043 AATAT
1 TATAT
87055048 ATAAGTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (26 bp):
TATATTATACTAAAATAAGTTTACTT
Found at i:87060641 original size:85 final size:85
Alignment explanation
Indices: 87060535--87060701 Score: 246
Period size: 85 Copynumber: 2.0 Consensus size: 85
87060525 GCATAAAATA
** *
87060535 TGGTTTAATCACGAACCAAGTGTTAGTTTGTTTAATCT-ACAAATATGTTGTGCACCTACAACAA
1 TGGTTTAATCACGAACCAAGTGGCAGTTTGTTTAATCTGA-AAATATGTTGTGCACCCACAACAA
*
87060599 GTAGTAGTAACTGCAAATATG
65 GTAGTAGTAACTACAAATATG
* * *
87060620 TGGTTTGATTACGAACCAAGTGGCAGTTTGTTTAATTTGAAAATATGTTGTGCACCCACAACAAG
1 TGGTTTAATCACGAACCAAGTGGCAGTTTGTTTAATCTGAAAATATGTTGTGCACCCACAACAAG
*
87060685 TGGTAGTAACTACAAAT
66 TAGTAGTAACTACAAAT
87060702 TTGTTGTAAT
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
85 72 0.99
86 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (85 bp):
TGGTTTAATCACGAACCAAGTGGCAGTTTGTTTAATCTGAAAATATGTTGTGCACCCACAACAAG
TAGTAGTAACTACAAATATG
Found at i:87062359 original size:12 final size:11
Alignment explanation
Indices: 87062336--87062390 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
87062326 TTAAATTAAT
*
87062336 AAATACTATTA
1 AAATAATATTA
87062347 AAATAAGTATTA
1 AAATAA-TATTA
*
87062359 AATTTAATATT-
1 AA-ATAATATTA
*
87062370 AAA-ACTATTA
1 AAATAATATTA
87062380 AAATAATATTA
1 AAATAATATTA
87062391 TTTTTGGAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
9 5 0.14
10 3 0.09
11 13 0.37
12 11 0.31
13 3 0.09
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (11 bp):
AAATAATATTA
Found at i:87062381 original size:33 final size:29
Alignment explanation
Indices: 87062321--87062390 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 29
87062311 TTAATCACTT
*
87062321 TAATATTAAATTAATAAATACTATTAAAA
1 TAATATTAAATTAATAAAAACTATTAAAA
87062350 TAAGTATTAAATTTAATATTAAAACTATTAAAA
1 TAA-TATTAAA-TTAATA--AAAACTATTAAAA
87062383 TAATATTA
1 TAATATTA
87062391 TTTTTGGAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
29 3 0.08
30 7 0.19
31 6 0.17
32 5 0.14
33 15 0.42
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (29 bp):
TAATATTAAATTAATAAAAACTATTAAAA
Found at i:87065816 original size:3 final size:3
Alignment explanation
Indices: 87065808--87065834 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
87065798 TTAATTGTTC
87065808 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
87065835 TTTTTTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:87079995 original size:33 final size:33
Alignment explanation
Indices: 87079968--87080161 Score: 184
Period size: 33 Copynumber: 5.9 Consensus size: 33
87079958 CCTTTCCAAG
*
87079968 TGGTACACAAAAAGTATACCTTTCCTTTAT-ATA
1 TGGTACACACAAAGTATACCTTTCCTTT-TCATA
* ** *
87080001 TAGTATGCACAAAGTGTACCTTTCCTTTTCATA
1 TGGTACACACAAAGTATACCTTTCCTTTTCATA
*
87080034 TGGTATACACAAAGTATACCTTTCCTTTTCATA
1 TGGTACACACAAAGTATACCTTTCCTTTTCATA
* *
87080067 TGGTATACACAAAGTATACATTTCCTTTTCA-A
1 TGGTACACACAAAGTATACCTTTCCTTTTCATA
* * **
87080099 -GTGTACACACAAAGTGTACATAACCTTTTCA-A
1 TG-GTACACACAAAGTATACCTTTCCTTTTCATA
* *
87080131 -GTGTACACATATAA-TGTACCTTTCCTTTTCA
1 TG-GTACACACA-AAGTATACCTTTCCTTTTCA
87080162 AATTGTACCA
Statistics
Matches: 141, Mismatches: 17, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
31 1 0.01
32 52 0.37
33 88 0.62
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (33 bp):
TGGTACACACAAAGTATACCTTTCCTTTTCATA
Found at i:87080048 original size:66 final size:65
Alignment explanation
Indices: 87079952--87080113 Score: 204
Period size: 66 Copynumber: 2.5 Consensus size: 65
87079942 ACTTGAGGTG
* * *
87079952 TACA-TTCCTTTCCAAGTGGTACACAAAAAGTATACCTTTCCTTTAT-ATATAGTATGCACAAAG
1 TACATTTCCTTTTCAA-TGGTACACACAAAGTATACCTTTCCTTT-TCATATAGTATACACAAAG
*
87080015 TG
64 TA
* * *
87080017 TACCTTTCCTTTTCATATGGTATACACAAAGTATACCTTTCCTTTTCATATGGTATACACAAAGT
1 TACATTTCCTTTTCA-ATGGTACACACAAAGTATACCTTTCCTTTTCATATAGTATACACAAAGT
87080082 A
65 A
87080083 TACATTTCCTTTTCAA-GTGTACACACAAAGT
1 TACATTTCCTTTTCAATG-GTACACACAAAGT
87080114 GTACATAACC
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
64 1 0.01
65 17 0.20
66 65 0.77
67 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.36
Consensus pattern (65 bp):
TACATTTCCTTTTCAATGGTACACACAAAGTATACCTTTCCTTTTCATATAGTATACACAAAGTA
Found at i:87080169 original size:65 final size:65
Alignment explanation
Indices: 87080003--87080169 Score: 160
Period size: 65 Copynumber: 2.6 Consensus size: 65
87079993 TTTATATATA
* * * * * * **
87080003 GTATGCACAAAGTGTACCTTTCCTTTTCATATGGTATACACAAAGTATACCTTTCCTTTTCATAT
1 GTATACACAAAATGTACCTTTCCTTTTCAAATTGTACACACAAAGTATACATAACCTTTTCATA-
87080068 G
65 G
* * * * *
87080069 GTATACACAAAGTATACATTTCCTTTTC-AAGTGTACACACAAAGTGTACATAACCTTTTCA-A-
1 GTATACACAAAATGTACCTTTCCTTTTCAAATTGTACACACAAAGTATACATAACCTTTTCATAG
*
87080131 GTGTACACATATAATGTACCTTTCCTTTTCAAATTGTAC
1 GTATACACA-A-AATGTACCTTTCCTTTTCAAATTGTAC
87080170 CATTTGGGTA
Statistics
Matches: 82, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
62 8 0.10
63 1 0.01
64 16 0.20
65 32 0.39
66 25 0.30
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (65 bp):
GTATACACAAAATGTACCTTTCCTTTTCAAATTGTACACACAAAGTATACATAACCTTTTCATAG
Found at i:87092237 original size:21 final size:21
Alignment explanation
Indices: 87092195--87092245 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
87092185 GTTTATAACA
* *
87092195 TATTCAATTCTCATTTCTTGC
1 TATTCAAATCTCATTACTTGC
*
87092216 TGTTTCAAATCTCA-TACTTGC
1 T-ATTCAAATCTCATTACTTGC
87092237 TATTCAAAT
1 TATTCAAAT
87092246 AGCTTTTCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 7 0.28
21 8 0.32
22 10 0.40
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (21 bp):
TATTCAAATCTCATTACTTGC
Found at i:87093478 original size:14 final size:14
Alignment explanation
Indices: 87093440--87093487 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 14
87093430 TTTTCTTTTC
*
87093440 TTTATT-TATTTCA
1 TTTATTATATTTAA
* *
87093453 TTTACT-TATTTAT
1 TTTATTATATTTAA
87093466 TTTATTATATTTAA
1 TTTATTATATTTAA
87093480 TTTATTAT
1 TTTATTAT
87093488 TAAATATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 15 0.52
14 14 0.48
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATTATATTTAA
Found at i:87095999 original size:15 final size:15
Alignment explanation
Indices: 87095979--87096013 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
87095969 TCAGACTGAT
*
87095979 ACACAGACCCAACTA
1 ACACAGAACCAACTA
87095994 ACACAGAACCAACTA
1 ACACAGAACCAACTA
87096009 ACACA
1 ACACA
87096014 CCAATTTGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.51, C:0.37, G:0.06, T:0.06
Consensus pattern (15 bp):
ACACAGAACCAACTA
Found at i:87097560 original size:11 final size:11
Alignment explanation
Indices: 87097546--87097576 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
87097536 GAAATTTTCG
87097546 CAAAATTCTAT
1 CAAAATTCTAT
87097557 CAAAATTCTAT
1 CAAAATTCTAT
87097568 CAAAATTCT
1 CAAAATTCT
87097577 TTGTTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.35
Consensus pattern (11 bp):
CAAAATTCTAT
Found at i:87097783 original size:50 final size:50
Alignment explanation
Indices: 87097709--87097850 Score: 166
Period size: 50 Copynumber: 2.8 Consensus size: 50
87097699 AGTGATAACT
* *
87097709 TTAAATTTTTAATACTATTCGATATTTTTTTTAATTTATGCAAAATT-TAA
1 TTAAA-TTTCAATACTATTTGATATTTTTTTTAATTTATGCAAAATTATAA
* *
87097759 TTAAATTTGCAATACTATTTGATA-TTTTATTCATTTATGC--AATTATAA
1 TTAAATTT-CAATACTATTTGATATTTTTTTTAATTTATGCAAAATTATAA
* *
87097807 TTACAATTTCAATACTACTTGATTTTTTTTATTAATTTATGCAA
1 TTA-AATTTCAATACTATTTGATATTTTTT-TTAATTTATGCAA
87097851 TTATATTTTA
Statistics
Matches: 77, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
47 4 0.05
48 19 0.25
49 26 0.34
50 28 0.36
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (50 bp):
TTAAATTTCAATACTATTTGATATTTTTTTTAATTTATGCAAAATTATAA
Found at i:87099110 original size:12 final size:12
Alignment explanation
Indices: 87099093--87099123 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
87099083 GAAGCAGGGG
87099093 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
87099105 AGAAAAAGGGAA
1 AGAAAAAGAGAA
87099117 AGAAAAA
1 AGAAAAA
87099124 TAAAAGAGAA
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:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:87115910 original size:23 final size:23
Alignment explanation
Indices: 87115883--87115927 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
87115873 CAACCCTAAC
*
87115883 TTAAAAAACCCTAATCCTAAATT
1 TTAAAAAACCCTAACCCTAAATT
*
87115906 TTAAAAAACCTTAACCCTAAAT
1 TTAAAAAACCCTAACCCTAAAT
87115928 CAATTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (23 bp):
TTAAAAAACCCTAACCCTAAATT
Found at i:87120803 original size:35 final size:35
Alignment explanation
Indices: 87120762--87120829 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
87120752 AATAATGGAA
87120762 AATAATGATAA-AATAATAATAAACTAAATAATAAT
1 AATAATGATAACAATAAT-ATAAACTAAATAATAAT
* **
87120797 AATAATGCTAACAATAATATAATGTAAATAATA
1 AATAATGATAACAATAATATAAACTAAATAATA
87120830 TGACAAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 23 0.79
36 6 0.21
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (35 bp):
AATAATGATAACAATAATATAAACTAAATAATAAT
Found at i:87120812 original size:18 final size:17
Alignment explanation
Indices: 87120762--87120829 Score: 63
Period size: 18 Copynumber: 4.1 Consensus size: 17
87120752 AATAATGGAA
*
87120762 AATAATGATAAAATAAT
1 AATAATGCTAAAATAAT
*
87120779 AATAA-ACTAAATAATAAT
1 AATAATGCT-AA-AATAAT
87120797 AATAATGCTAACAATAAT
1 AATAATGCTAA-AATAAT
87120815 -ATAATG-T-AAATAAT
1 AATAATGCTAAAATAAT
87120829 A
1 A
87120830 TGACAAAAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 6 0.14
15 1 0.02
16 2 0.05
17 13 0.30
18 19 0.44
19 2 0.05
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (17 bp):
AATAATGCTAAAATAAT
Found at i:87122663 original size:99 final size:99
Alignment explanation
Indices: 87122492--87122674 Score: 240
Period size: 99 Copynumber: 1.8 Consensus size: 99
87122482 CGTAACTTCA
* ** * * * *
87122492 ACCTGCCCCACTGCAACTTCAGGGGGATAAGGTTTGTGACTTCAATCTGCTTCGCTGCAACTTTA
1 ACCTGCCCCACTACAACTTCAGGGAAATAAGGTTAGTGACTTCAATCTACTTCACTGCAACTTCA
87122557 GGAAGATAAGATTCACCATGGTATACTTGGCCCG
66 GGAAGATAAGATTCACCATGGTATACTTGGCCCG
* * * *
87122591 ACCTGCTCCACTATAACTTCAGGGAAATAAGGTTAGTGGCTTCGATCTACTTCACTGCAACTTCA
1 ACCTGCCCCACTACAACTTCAGGGAAATAAGGTTAGTGACTTCAATCTACTTCACTGCAACTTCA
* * *
87122656 GGGAGATAGGATTCGCCAT
66 GGAAGATAAGATTCACCAT
87122675 AGTAGATTTG
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
99 70 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (99 bp):
ACCTGCCCCACTACAACTTCAGGGAAATAAGGTTAGTGACTTCAATCTACTTCACTGCAACTTCA
GGAAGATAAGATTCACCATGGTATACTTGGCCCG
Found at i:87122693 original size:99 final size:99
Alignment explanation
Indices: 87122492--87122696 Score: 230
Period size: 99 Copynumber: 2.1 Consensus size: 99
87122482 CGTAACTTCA
* * ** * * * *
87122492 ACCTGCCCCACTGCAACTTCAGGGGGATAAGGTTTGTGACTTCAATCTGCTTCGCTGCAACTTTA
1 ACCTGCTCCACTACAACTTCAGGGAAATAAGGTTAGTGACTTCAATCTACTTCACTGCAACTTCA
* * *
87122557 GGAAGATAAGATTCACCATGGTATACTTGGCCCG
66 GGAAGATAAGATTCACCATAGTAGACTTGACCCG
* * *
87122591 ACCTGCTCCACTATAACTTCAGGGAAATAAGGTTAGTGGCTTCGATCTACTTCACTGCAACTTCA
1 ACCTGCTCCACTACAACTTCAGGGAAATAAGGTTAGTGACTTCAATCTACTTCACTGCAACTTCA
* * * * * *
87122656 GGGAGATAGGATTCGCCATAGTAGATTTGATCTG
66 GGAAGATAAGATTCACCATAGTAGACTTGACCCG
87122690 ACCTGCT
1 ACCTGCT
87122697 ACAACTTCAG
Statistics
Matches: 86, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
99 86 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.28
Consensus pattern (99 bp):
ACCTGCTCCACTACAACTTCAGGGAAATAAGGTTAGTGACTTCAATCTACTTCACTGCAACTTCA
GGAAGATAAGATTCACCATAGTAGACTTGACCCG
Found at i:87125608 original size:12 final size:12
Alignment explanation
Indices: 87125591--87125622 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
87125581 TCTAAGGAGG
87125591 ATCCTCTTGAGA
1 ATCCTCTTGAGA
87125603 ATCCTCTTGAGA
1 ATCCTCTTGAGA
*
87125615 ATCTTCTT
1 ATCCTCTT
87125623 CAGTGGTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (12 bp):
ATCCTCTTGAGA
Found at i:87141699 original size:20 final size:19
Alignment explanation
Indices: 87141660--87141701 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
87141650 ATTAATAATT
87141660 TAATATATTTATAAATATA
1 TAATATATTTATAAATATA
87141679 TAAT-TATTATATAACATATA
1 TAATATATT-TATAA-ATATA
87141699 TAA
1 TAA
87141702 CTAATATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.19
19 9 0.43
20 8 0.38
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
TAATATATTTATAAATATA
Found at i:87141709 original size:20 final size:19
Alignment explanation
Indices: 87141669--87141709 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
87141659 TTAATATATT
* *
87141669 TATAAATATATAATTATTA
1 TATAAATATATAACTAATA
87141688 TATAACATATATAACTAATA
1 TATAA-ATATATAACTAATA
87141708 TA
1 TA
87141710 ATATTCTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
TATAAATATATAACTAATA
Found at i:87143705 original size:9 final size:9
Alignment explanation
Indices: 87143691--87143715 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
87143681 AACCCAAAAT
87143691 AAAAAATTA
1 AAAAAATTA
87143700 AAAAAATTA
1 AAAAAATTA
87143709 AAAAAAT
1 AAAAAAT
87143716 GAAGAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAAAATTA
Found at i:87145021 original size:6 final size:7
Alignment explanation
Indices: 87145003--87145028 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
87144993 CACTCCCTTT
87145003 TAAAAAA
1 TAAAAAA
87145010 TAAAAAA
1 TAAAAAA
87145017 TAAAAAA
1 TAAAAAA
87145024 TAAAA
1 TAAAA
87145029 TTTCAAAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:87147095 original size:19 final size:19
Alignment explanation
Indices: 87147047--87147095 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
87147037 TCATCCCATG
*
87147047 CATTTGCATTGCATTGCAT
1 CATTTGCATTACATTGCAT
*
87147066 CATGTGCATTACATTGCAT
1 CATTTGCATTACATTGCAT
*
87147085 CATTTGTATTA
1 CATTTGCATTA
87147096 GATTTTCCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.43
Consensus pattern (19 bp):
CATTTGCATTACATTGCAT
Found at i:87151217 original size:88 final size:88
Alignment explanation
Indices: 87151067--87151268 Score: 325
Period size: 88 Copynumber: 2.3 Consensus size: 88
87151057 AGCTGAAGAT
* * * *
87151067 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGTAGATCGAAGACATAGCTATTTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGCCAGGGAGCAGATCGAAGACATAGCTATTTTGGAT
*
87151132 TTCACGTGTTTACGTTAAAGCAG
66 TTCACGTGTTTACGTTAAAGCAA
*
87151155 ATCCAAGATGATTTGGCATCTCTGTATCAGCCAGGGAGCAGATCGAAGATATAGCTGA-TTTGGA
1 ATCCAAGATGATTTGGCATCTCTGTATCAGCCAGGGAGCAGATCGAAGACATAGCT-ATTTTGGA
*
87151219 TTTCACGTGTTTACGTTAAAGTAA
65 TTTCACGTGTTTACGTTAAAGCAA
87151243 ATCCAAGATGATTTGGCATCTCTGTA
1 ATCCAAGATGATTTGGCATCTCTGTA
87151269 GCGGTGAAGA
Statistics
Matches: 106, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
88 105 0.99
89 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (88 bp):
ATCCAAGATGATTTGGCATCTCTGTATCAGCCAGGGAGCAGATCGAAGACATAGCTATTTTGGAT
TTCACGTGTTTACGTTAAAGCAA
Found at i:87151309 original size:44 final size:44
Alignment explanation
Indices: 87151252--87151925 Score: 935
Period size: 44 Copynumber: 15.4 Consensus size: 44
87151242 AATCCAAGAT
* * *
87151252 GATTTGGCATCTCTGTAGCGGTGAAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
87151296 GATTTGGCGTCTCTGTAGCGGCGGGGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
87151340 AATTTTGCGTCTCTGTAGCAGC-GAGGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGA-GAGCAGATCGAAGATAACA
**
87151384 GATTTGGCGTCTCTGTAGCGGTAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
87151428 GATTTAGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAAATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
87151472 GATTTGGCATCTCTGTAGCGACGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * **
87151516 GATTTGGCGTCTTTGTAGCGGCGGAAAGCAGATCGAAGATAGTA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
87151560 GATTTGGCGTCTCTTTAGCAGAGGAGAGCAGATTGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
87151604 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
87151648 GATTTGGCGTCTCTGTAGCGGCAGAGAACAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
87151692 GATTTGGCGTCTCTATAGCGGCGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
87151732 GATTTGGCATCTCTGTAGAGGCGGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGC-GGAGAGCAGATCGAAGATAACA
* * * *
87151777 GATTTGGCGTCTCTGTAGCGGCAGAGAACATATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
87151821 GATTTGGCGTCTCTATAGCGGCGGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
87151865 GATTTGGCGTCTCTGTAGCGGCAGAGAGTAGATCGAAGATAACG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
87151909 GATTTGGCATCTCTGTA
1 GATTTGGCGTCTCTGTA
87151926 TTAGACGGGA
Statistics
Matches: 555, Mismatches: 68, Indels: 14
0.87 0.11 0.02
Matches are distributed among these distances:
40 19 0.03
41 18 0.03
43 1 0.00
44 495 0.89
45 22 0.04
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:87152243 original size:9 final size:10
Alignment explanation
Indices: 87152222--87152262 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
87152212 ACCCAAAATA
87152222 AAAAAT-AA-
1 AAAAATGAAG
87152230 AAAAATGAAG
1 AAAAATGAAG
87152240 AAAAATGAAG
1 AAAAATGAAG
87152250 AAAAA-GAA-
1 AAAAATGAAG
87152258 AAAAA
1 AAAAA
87152263 CCTAACCTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 11 0.35
9 5 0.16
10 15 0.48
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (10 bp):
AAAAATGAAG
Found at i:87153533 original size:6 final size:7
Alignment explanation
Indices: 87153515--87153540 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
87153505 CACTCCCTTT
87153515 TAAAAAA
1 TAAAAAA
87153522 TAAAAAA
1 TAAAAAA
87153529 TAAAAAA
1 TAAAAAA
87153536 TAAAA
1 TAAAA
87153541 TTTCAAAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Done.