Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 89 of 170
Found at i:27811199 original size:47 final size:48
Alignment explanation
Indices: 27811121--27811215 Score: 156
Period size: 47 Copynumber: 2.0 Consensus size: 48
27811111 TCAGCTGCAA
* * *
27811121 CAAAGACAAGTTTAATGACTAGATTCGGCTGGACAAATTAAATAGCAG
1 CAAAGACAAGATTAATGACTAAATTCAGCTGGACAAATTAAATAGCAG
27811169 CAAAGACAA-ATTAATGACTAAATTCAGCTGGACAAATTAAATAGCAG
1 CAAAGACAAGATTAATGACTAAATTCAGCTGGACAAATTAAATAGCAG
27811216 TAGCTAATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
47 35 0.80
48 9 0.20
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.22
Consensus pattern (48 bp):
CAAAGACAAGATTAATGACTAAATTCAGCTGGACAAATTAAATAGCAG
Found at i:27817843 original size:50 final size:52
Alignment explanation
Indices: 27817740--27817858 Score: 163
Period size: 50 Copynumber: 2.3 Consensus size: 52
27817730 AATAAATGAT
* * * *
27817740 TTACTTAATGCATGACTAAATTTAATGATGCAGATTTAAACTAACATGGGAG
1 TTACATAATGCATGACTAAATTTAATGATGCAAACTTAAACTAACATGAGAG
*
27817792 TTACATAATGCATGTC-ATAATTT-ATGATGCAAACTT-AACTAACATGAGAG
1 TTACATAATGCATGACTA-AATTTAATGATGCAAACTTAAACTAACATGAGAG
27817842 TTACATAATGCATGACT
1 TTACATAATGCATGACT
27817859 TTATTAAATG
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
50 28 0.47
51 12 0.20
52 19 0.32
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (52 bp):
TTACATAATGCATGACTAAATTTAATGATGCAAACTTAAACTAACATGAGAG
Found at i:27821108 original size:17 final size:18
Alignment explanation
Indices: 27821075--27821109 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27821065 AAAAAGAGAG
*
27821075 TGAGATTGTATAAAGAAA
1 TGAGAGTGTATAAAGAAA
27821093 TGAGAGTGTA-AAAGAAA
1 TGAGAGTGTATAAAGAAA
27821110 CGAGTGTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.51, C:0.00, G:0.26, T:0.23
Consensus pattern (18 bp):
TGAGAGTGTATAAAGAAA
Found at i:27831358 original size:20 final size:20
Alignment explanation
Indices: 27831301--27831367 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
27831291 GCACGTTAAG
*
27831301 ATGAGCTGAAGTTGAGCTGA
1 ATGAGCTAAAGTTGAGCTGA
* * *** *
27831321 ATAAGCTAAGGACAAGCTCA
1 ATGAGCTAAAGTTGAGCTGA
27831341 ATGAGCTAAAGTTGAGCTGA
1 ATGAGCTAAAGTTGAGCTGA
27831361 ATGAGCT
1 ATGAGCT
27831368 TGAAGTAGAG
Statistics
Matches: 34, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.22
Consensus pattern (20 bp):
ATGAGCTAAAGTTGAGCTGA
Found at i:27833827 original size:32 final size:31
Alignment explanation
Indices: 27833783--27833844 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 31
27833773 AGTTAGCTTC
*
27833783 TAAATTGAGCAATTATTTTCATATTAGGGTT
1 TAAATTGAGCAATTATTTTCACATTAGGGTT
* * *
27833814 TAAACTTGGGCAATTGTTTTTACATTAGGGT
1 TAAA-TTGAGCAATTATTTTCACATTAGGGT
27833845 ATAATTTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 4 0.15
32 22 0.85
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (31 bp):
TAAATTGAGCAATTATTTTCACATTAGGGTT
Found at i:27834390 original size:8 final size:9
Alignment explanation
Indices: 27834368--27834440 Score: 51
Period size: 9 Copynumber: 7.9 Consensus size: 9
27834358 TTTAAAAAAT
27834368 TATTA-AAA
1 TATTATAAA
27834376 TATTATAAA
1 TATTATAAA
27834385 TATATATGAAAA
1 TAT-TAT--AAA
27834397 TATTA-AAA
1 TATTATAAA
* *
27834405 CATCATAAAA
1 TATTAT-AAA
*
27834415 TATTATAGA
1 TATTATAAA
* *
27834424 TAATACAAA
1 TATTATAAA
27834433 TATTATAA
1 TATTATAA
27834441 TAATGTTAGG
Statistics
Matches: 49, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
8 11 0.22
9 20 0.41
10 10 0.20
11 2 0.04
12 6 0.12
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.36
Consensus pattern (9 bp):
TATTATAAA
Found at i:27835135 original size:18 final size:20
Alignment explanation
Indices: 27835096--27835137 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
27835086 TATTATGGGA
*
27835096 AATTACGAGTTTTAGGCTTT
1 AATTACGAGTTTAAGGCTTT
27835116 AATT-CGAGTTTAAGGC-TT
1 AATTACGAGTTTAAGGCTTT
27835134 AATT
1 AATT
27835138 TTGTTTATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 11 0.52
20 4 0.19
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.43
Consensus pattern (20 bp):
AATTACGAGTTTAAGGCTTT
Found at i:27836621 original size:9 final size:9
Alignment explanation
Indices: 27836597--27836709 Score: 50
Period size: 11 Copynumber: 11.2 Consensus size: 9
27836587 TTATGCTTTC
27836597 ATAATTTTTAT
1 ATAA-TTTT-T
27836608 ATAATTTTT
1 ATAATTTTT
27836617 ATAATTTTCT
1 ATAATTTT-T
* *
27836627 ATTAGTTTTA
1 A-TAATTTTT
27836637 ATAAGTTTTTT
1 ATAA--TTTTT
*
27836648 AAGGAATTTTT
1 -A-TAATTTTT
27836659 AATAAGTTTTTTTT
1 -ATAA---TT-TTT
27836673 ATAA-TTTT
1 ATAATTTTT
*
27836681 GTAA-TTTT
1 ATAATTTTT
27836689 ATAATTTTTT
1 ATAA-TTTTT
27836699 ATAATTTTT
1 ATAATTTTT
27836708 AT
1 AT
27836710 TTTTTGAATA
Statistics
Matches: 82, Mismatches: 8, Indels: 26
0.71 0.07 0.22
Matches are distributed among these distances:
8 13 0.16
9 19 0.23
10 17 0.21
11 21 0.26
12 1 0.01
13 8 0.10
14 3 0.04
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:27836680 original size:10 final size:10
Alignment explanation
Indices: 27836597--27836707 Score: 61
Period size: 10 Copynumber: 10.9 Consensus size: 10
27836587 TTATGCTTTC
27836597 ATAATTTTTAT
1 ATAATTTTT-T
27836608 ATAA-TTTTT
1 ATAATTTTTT
*
27836617 ATAATTTTCT
1 ATAATTTTTT
* * *
27836627 ATTAGTTTTA
1 ATAATTTTTT
27836637 ATAAGTTTTTT
1 ATAA-TTTTTT
* *
27836648 AAGGAATTTTTA
1 -A-TAATTTTTT
27836660 ATAAGTTTTTTTT
1 ATAA---TTTTTT
27836673 ATAA--TTTT
1 ATAATTTTTT
*
27836681 GTAA--TTTT
1 ATAATTTTTT
27836689 ATAATTTTTT
1 ATAATTTTTT
27836699 ATAATTTTT
1 ATAATTTTT
27836708 ATTTTTTGAA
Statistics
Matches: 77, Mismatches: 14, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
8 14 0.18
9 5 0.06
10 32 0.42
11 9 0.12
12 6 0.08
13 11 0.14
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:27840048 original size:75 final size:75
Alignment explanation
Indices: 27839957--27840103 Score: 240
Period size: 75 Copynumber: 2.0 Consensus size: 75
27839947 GAAAACCAAA
* * * * *
27839957 ATTATTCCCTTCTTAATAGATAAGGCAAATGGAAAGTTAGAAAAATGAAATATATTCTTTTCGAA
1 ATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAATGAAATATATTCTTTCCAAA
27840022 AGAATATAGG
66 AGAATATAGG
*
27840032 ATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAATGAATTATATTCTTTCCAAA
1 ATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAATGAAATATATTCTTTCCAAA
27840097 AGAATAT
66 AGAATAT
27840104 TAATTTCCAT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 66 1.00
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (75 bp):
ATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAAAATGAAATATATTCTTTCCAAA
AGAATATAGG
Found at i:27840234 original size:30 final size:30
Alignment explanation
Indices: 27840176--27840234 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
27840166 GAACAAACCT
* **
27840176 TTGTTCATGTTCGTTTGTTTATTTTTAAGC
1 TTGTTCATGTTCGTTTGTGTATCGTTAAGC
27840206 TTGTTCATGTTCAGTTTGTGT-TCGTTAAG
1 TTGTTCATGTTC-GTTTGTGTATCGTTAAG
27840235 AATTTCAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.14, C:0.10, G:0.20, T:0.56
Consensus pattern (30 bp):
TTGTTCATGTTCGTTTGTGTATCGTTAAGC
Found at i:27840319 original size:23 final size:23
Alignment explanation
Indices: 27840293--27840362 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
27840283 TTCATTTAAC
*
27840293 TTAATCGAACATGTTTACGAACA
1 TTAATCGAACATGTTCACGAACA
* * *
27840316 TTAAACAAACATGTTCATGAACAA
1 TTAATCGAACATGTTCACGAAC-A
* * *
27840340 ATAATTGAACATATTCACGAACA
1 TTAATCGAACATGTTCACGAACA
27840363 ATGTTAATAA
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
23 19 0.53
24 17 0.47
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (23 bp):
TTAATCGAACATGTTCACGAACA
Found at i:27840377 original size:4 final size:4
Alignment explanation
Indices: 27840368--27840405 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
27840358 GAACAATGTT
*
27840368 AATA AATA AATA AATA AA-A TAATA AATA AATA CATA AA
1 AATA AATA AATA AATA AATA -AATA AATA AATA AATA AA
27840406 AACACATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 1 0.03
4 28 0.93
5 1 0.03
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:27840392 original size:20 final size:20
Alignment explanation
Indices: 27840367--27840406 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
27840357 CGAACAATGT
27840367 TAATAAATAAATAAATAAAA
1 TAATAAATAAATAAATAAAA
*
27840387 TAATAAATAAATACATAAAA
1 TAATAAATAAATAAATAAAA
27840407 ACACATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (20 bp):
TAATAAATAAATAAATAAAA
Found at i:27840567 original size:12 final size:12
Alignment explanation
Indices: 27840541--27840601 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 12
27840531 TCATTAATAA
*
27840541 ATAAACGAG-TT
1 ATAAATGAGCTT
*
27840552 ATAAACGAGCTT
1 ATAAATGAGCTT
**
27840564 ATAAATGAGCCA
1 ATAAATGAGCTT
27840576 ATAAATGAGCTT
1 ATAAATGAGCTT
* *
27840588 TTTAATGAGCTT
1 ATAAATGAGCTT
27840600 AT
1 AT
27840602 TCATGAACAT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
11 9 0.22
12 32 0.78
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.31
Consensus pattern (12 bp):
ATAAATGAGCTT
Found at i:27848190 original size:44 final size:44
Alignment explanation
Indices: 27848124--27848388 Score: 187
Period size: 44 Copynumber: 5.8 Consensus size: 44
27848114 GGAAATGGTG
27848124 AATCTTATCTCCCTGATG-TTACAATGGAGCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGA-GATTACAATGGAGCAGATTGAAGCCAGA
* * ** *
27848168 AATCTTATCTCCCTGAGATTACAACGGAGCAGATTAAAGGTAGT
1 AATCTTATCTCCCTGAGATTACAATGGAGCAGATTGAAGCCAGA
* * * * *
27848212 AATCCTATCTCCATGAGATTACAGTGGAGCAGATT-AAACTA-A
1 AATCTTATCTCCCTGAGATTACAATGGAGCAGATTGAAGCCAGA
* * *
27848254 AGGATCTTATCTCTCT-AAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 A--ATCTTATCTCCCTGAGA-TTAC---A-A-T-G---G-AGCAGATTGAAGCCAGA
** *
27848310 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGT
1 AATCTTATCTCCCTGAGATTACAATGGAGCAGATTGAAGCCAGA
* * * * *
27848354 AATCCTATTTCCTTGAGATTACAGTGGAGCGGATT
1 AATCTTATCTCCCTGAGATTACAATGGAGCAGATT
27848389 AAAATAAAGG
Statistics
Matches: 173, Mismatches: 31, Indels: 34
0.73 0.13 0.14
Matches are distributed among these distances:
42 1 0.01
43 7 0.04
44 127 0.73
45 1 0.01
47 1 0.01
48 1 0.01
49 1 0.01
50 1 0.01
51 1 0.01
53 1 0.01
54 23 0.13
55 6 0.03
56 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAATGGAGCAGATTGAAGCCAGA
Found at i:27848319 original size:142 final size:142
Alignment explanation
Indices: 27848153--27848439 Score: 493
Period size: 142 Copynumber: 2.0 Consensus size: 142
27848143 TACAATGGAG
**
27848153 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAACGGAGCAGATTAAAGGTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAACGGAGCAGATTAAAGCCAGTAATCCT
*
27848218 ATCTCCATGAGATTACAGTGGAGCAGATTAAACTAAAGGATCTTATCTCTCTAAAGTTACAGTAG
66 ATCTCCATGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAG
27848283 AGTAGATCGCAT
131 AGTAGATCGCAT
* *
27848295 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAACGGAGCAGATTAAAGCCAGTAATCCT
* * * *
27848360 ATTTCCTTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTATAGTAG
66 ATCTCCATGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAG
27848425 AGTAGATCGCAT
131 AGTAGATCGCAT
27848437 CAG
1 CAG
27848440 GTCTTATCTC
Statistics
Matches: 136, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 136 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAACGGAGCAGATTAAAGCCAGTAATCCT
ATCTCCATGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAG
AGTAGATCGCAT
Found at i:27848673 original size:100 final size:100
Alignment explanation
Indices: 27848495--27848773 Score: 396
Period size: 100 Copynumber: 2.8 Consensus size: 100
27848485 GATCTTAGTT
* * **
27848495 TCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCTTAACATTGCAG
1 TCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAATGGTGAATCTTGCTTCCCCAACATTGCAG
*
27848560 TTAAAAAGATTAAAGCTACAACAGCGAATCTTACC
66 TTAAAAAGATTAAAGCCACAACAGCGAATCTTACC
* * * *
27848595 TCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATTGGTGAATGTTGCTTCCCCGACATTGCAG
1 TCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAATGGTGAATCTTGCTTCCCCAACATTGCAG
*
27848660 TTAAAAAGATTAAAGCCACAACAGCGAATCTTACT
66 TTAAAAAGATTAAAGCCACAACAGCGAATCTTACC
* * * * **
27848695 TCCCTGGCGATGCAGTGGAACGGATTAAATCTACAATGGTGAATCTTGCTTCCCCAACATCACAG
1 TCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAATGGTGAATCTTGCTTCCCCAACATTGCAG
**
27848760 TTAAGTAGATTAAA
66 TTAAAAAGATTAAA
27848774 ATTACGAGTT
Statistics
Matches: 157, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 157 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (100 bp):
TCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAATGGTGAATCTTGCTTCCCCAACATTGCAG
TTAAAAAGATTAAAGCCACAACAGCGAATCTTACC
Found at i:27848739 original size:50 final size:50
Alignment explanation
Indices: 27848494--27848748 Score: 208
Period size: 50 Copynumber: 5.1 Consensus size: 50
27848484 AGATCTTAGT
*
27848494 TTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC
1 TTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC
* * ** ** * * * * *
27848544 CTCCTTAAC-ATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTAC
1 TTCCCTGGCGA-TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC
* * * ** *
27848594 CTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATTGGTGAATGTTGC
1 TTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC
* * ** * * * *
27848644 TTCCCCGAC-ATTGCAGTTAAAAAGATTAAAGCCACAACAGCGAATCTTAC
1 TTCCCTGGCGA-TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC
* * * *
27848694 TTCCCTGGCGATGCAGTGGAACGGATTAAATCTACAATGGTGAATCTTGC
1 TTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC
27848744 TTCCC
1 TTCCC
27848749 CAACATCACA
Statistics
Matches: 149, Mismatches: 52, Indels: 8
0.71 0.25 0.04
Matches are distributed among these distances:
50 148 0.99
51 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (50 bp):
TTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC
Found at i:27856670 original size:138 final size:138
Alignment explanation
Indices: 27856417--27856901 Score: 740
Period size: 138 Copynumber: 3.5 Consensus size: 138
27856407 GGGTGTTACA
* *
27856417 GTTTATATTAATAAATTCG-GTAAAATATATCCAATTAATATTTTATATAAATCAAATTCATATA
1 GTTTATATTAATAAATT-GAGTAAAATATATACAATTAATATTTTATATGAATCAAATTCATATA
* * * *
27856481 CTAATTATATTCTTTCCAAAAGAATATTAATTTCCTTGTTTTTTATATTTTGACCAAAATTAATT
65 TTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATT
27856546 AATATAATT
130 AATATAATT
* * * *
27856555 GTTTGTATTAATAAATTCGA-TAAAATATATACTATTAATATTTTGTATGAATCAAATTCATAAA
1 GTTTATATTAATAAATT-GAGTAAAATATATACAATTAATATTTTATATGAATCAAATTCATATA
* *
27856619 TTAATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATTTTTTGACCGAAATTAATT
65 TTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATT
27856684 AATATAATT
130 AATATAATT
*
27856693 GTTTATATTAATAAATTTAGTAAAATATATACAATTAATATTTTATATGAATCAAATTCATATAT
1 GTTTATATTAATAAATTGAGTAAAATATATACAATTAATATTTTATATGAATCAAATTCATATAT
* **
27856758 TAATTATATTCTTTTCAAAAGAATATTAATTTTTATGTCTTTTATATTTTGACCGAAATTAATTA
66 TAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTA
**
27856823 ATATAACA
131 ATATAATT
* * *
27856831 ATTTATATTAATAAATTAAGTAAAATATATACAATTAATATTTTTGTATGAATCAAATTCATATA
1 GTTTATATTAATAAATTGAGTAAAATATATACAATTAATA-TTTTATATGAATCAAATTCATATA
27856896 TTAATT
65 TTAATT
27856902 TTATCTATGT
Statistics
Matches: 317, Mismatches: 27, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
137 1 0.00
138 287 0.91
139 29 0.09
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (138 bp):
GTTTATATTAATAAATTGAGTAAAATATATACAATTAATATTTTATATGAATCAAATTCATATAT
TAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTA
ATATAATT
Found at i:27860514 original size:28 final size:27
Alignment explanation
Indices: 27860469--27860582 Score: 183
Period size: 28 Copynumber: 4.1 Consensus size: 27
27860459 CTATTCAGTG
*
27860469 ACAGTATAGTATGGGCCTTAGCCCAAT
1 ACAGTATAGTGTGGGCCTTAGCCCAAT
27860496 ACAGTATCAGTGTGGGCCTTAGCCCAAT
1 ACAGTAT-AGTGTGGGCCTTAGCCCAAT
27860524 ACAGTATCAGTGTGGGCCTTAGCCCAAT
1 ACAGTAT-AGTGTGGGCCTTAGCCCAAT
*
27860552 ACAGTAATAGTGTGGGGCTTAGCCCAAT
1 ACAGT-ATAGTGTGGGCCTTAGCCCAAT
27860580 ACA
1 ACA
27860583 ATAACAATGC
Statistics
Matches: 83, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
27 7 0.08
28 74 0.89
29 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (27 bp):
ACAGTATAGTGTGGGCCTTAGCCCAAT
Found at i:27860973 original size:27 final size:26
Alignment explanation
Indices: 27860954--27861237 Score: 300
Period size: 27 Copynumber: 10.6 Consensus size: 26
27860944 GGGTATAATA
*
27860954 GTCATTTTACCCTATGGGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTA-TTTC
* *
27860981 GTCATTTTACCCTATAGAGGTATTTC
1 GTCATTTTACCCTATGGGGGTATTTC
* *
27861007 GATCATTTTACCCTATAGGGGTATTCTG
1 G-TCATTTTACCCTATGGGGGTATT-TC
* *
27861035 GTCATTTTACCCTATAGGGGTATTCTG
1 GTCATTTTACCCTATGGGGGTATT-TC
*
27861062 GTCATTTTACCCTATGGGGGTAATTC
1 GTCATTTTACCCTATGGGGGTATTTC
*
27861088 GGTCATTCTACCCTATGGGGGTATTTC
1 -GTCATTTTACCCTATGGGGGTATTTC
* * *
27861115 GATTATCTTACCCTATGAGGGTATTTC
1 G-TCATTTTACCCTATGGGGGTATTTC
* *
27861142 GATCATTTTATCCTATGGGCGTATTTC
1 G-TCATTTTACCCTATGGGGGTATTTC
**
27861169 GGTCATTTTACCCTACAGGGGTATTTC
1 -GTCATTTTACCCTATGGGGGTATTTC
**
27861196 GATCATTTTACCCTAT-GGTATATTTC
1 G-TCATTTTACCCTATGGGGGTATTTC
*
27861222 GGTCATTTAACCCTAT
1 -GTCATTTTACCCTAT
27861238 TTTGGGGTCT
Statistics
Matches: 223, Mismatches: 27, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
26 28 0.13
27 192 0.86
28 3 0.01
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGGTATTTC
Found at i:27861066 original size:81 final size:79
Alignment explanation
Indices: 27860955--27861237 Score: 336
Period size: 81 Copynumber: 3.5 Consensus size: 79
27860945 GGTATAATAG
** * *
27860955 TCATTTTACCCTATGGGGGTATTTTAGTCATTTTACCCTATAGAGGTATTTCGATCATTTTACCC
1 TCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCC
*
27861020 TATAGGGGTA-TTCTGG
64 TATAGGGGTATTTC-GA
* *
27861036 TCATTTTACCCTATAGGGGTA-TTCTGGTCATTTTACCCTATGGGGGTAATTCGGTCATTCTACC
1 TCATTTTACCCTAT-GGGGTATTTC-GGTCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACC
*
27861100 CTATGGGGGTATTTCGA
63 CTATAGGGGTATTTCGA
* * * *
27861117 TTATCTTACCCTATGAGGGTATTTCGATCATTTTATCCTATGGGCGTATTTCGGTCATTTTACCC
1 TCATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTATGGG-GTATTTCGGTCATTTTACCC
*
27861182 TACAGGGGTATTTCGA
64 TATAGGGGTATTTCGA
** *
27861198 TCATTTTACCCTATGGTATATTTCGGTCATTTAACCCTAT
1 TCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTAT
27861238 TTTGGGGTCT
Statistics
Matches: 172, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
80 26 0.15
81 140 0.81
82 6 0.03
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.41
Consensus pattern (79 bp):
TCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTA
TAGGGGTATTTCGA
Found at i:27866003 original size:14 final size:14
Alignment explanation
Indices: 27865986--27866013 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27865976 TTATATTTAA
27865986 TTTTTGATATGTTT
1 TTTTTGATATGTTT
27866000 TTTTTGATATGTTT
1 TTTTTGATATGTTT
27866014 CATTTAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (14 bp):
TTTTTGATATGTTT
Found at i:27866699 original size:21 final size:21
Alignment explanation
Indices: 27866660--27866700 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
27866650 TAAAGTAGAC
*
27866660 TATATATTATTTTTATAGTAT
1 TATATATTATATTTATAGTAT
27866681 TATATATTATGATTT-TAGTA
1 TATATATTAT-ATTTATAGTA
27866701 AATTCATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (21 bp):
TATATATTATATTTATAGTAT
Found at i:27866968 original size:48 final size:49
Alignment explanation
Indices: 27866907--27867003 Score: 137
Period size: 48 Copynumber: 2.0 Consensus size: 49
27866897 ATTATAATAT
*
27866907 CATTCCATTCAACCAAACACA-AGAA-TAC-TATTACAGTTCTATTTCATC
1 CATTCCATTCAACCAAACA-ATA-AATTACTTATTACAGCTCTATTTCATC
27866955 CATTCCATTCAACCAAACAATTAAATTACTTATTACAGCTCTATTTCAT
1 CATTCCATTCAACCAAACAA-TAAATTACTTATTACAGCTCTATTTCAT
27867004 TATAGGCCTA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
47 1 0.02
48 21 0.48
49 4 0.09
50 18 0.41
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (49 bp):
CATTCCATTCAACCAAACAATAAATTACTTATTACAGCTCTATTTCATC
Found at i:27867054 original size:16 final size:16
Alignment explanation
Indices: 27866986--27867056 Score: 74
Period size: 16 Copynumber: 4.4 Consensus size: 16
27866976 TAAATTACTT
27866986 ATTACAGCTCTATTTC-
1 ATTACAGCTCTA-TTCA
*
27867002 ATTATAGGC-CTATTCA
1 ATTACA-GCTCTATTCA
* *
27867018 ATTATAGCGCTATTCA
1 ATTACAGCTCTATTCA
*
27867034 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCA
27867050 ATTACAG
1 ATTACAG
27867057 TGAACCAAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.10
16 41 0.85
17 2 0.04
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:27878927 original size:47 final size:49
Alignment explanation
Indices: 27878876--27878979 Score: 122
Period size: 51 Copynumber: 2.1 Consensus size: 49
27878866 TTAGGATTTT
* * *
27878876 ATGTGATGGATGTGAA-C-ATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACCGATACATATGTGTGATAAGGCCGAATGGCCA
* * *
27878923 ATGTGTTGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAA-CCG-ATACATATGTGTGATAAGGCCGAATGGCCA
27878974 ATGTGA
1 ATGTGA
27878980 AATATATGTG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
47 14 0.30
49 1 0.02
51 31 0.67
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.29
Consensus pattern (49 bp):
ATGTGATGAATGTGAACCGATACATATGTGTGATAAGGCCGAATGGCCA
Found at i:27879025 original size:48 final size:48
Alignment explanation
Indices: 27878947--27879123 Score: 264
Period size: 48 Copynumber: 3.6 Consensus size: 48
27878937 AACCCGTATA
*
27878947 TATATGTGTGATAAGGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTG-G-TAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
* * * *
27878997 TATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
* *
27879045 TATATGTGGTAAAGCTGAATCGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
*
27879093 TATATGTGGTAAAGCCGAATGGCCAATGTGA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGA
27879124 TAAATGTGAG
Statistics
Matches: 113, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
48 104 0.92
49 1 0.01
50 8 0.07
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.32
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
Found at i:27879081 original size:96 final size:98
Alignment explanation
Indices: 27878947--27879169 Score: 305
Period size: 96 Copynumber: 2.3 Consensus size: 98
27878937 AACCCGTATA
* *
27878947 TATATGTGTGATAAGGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGC
1 TATATGTGTGATAAAGCCGAATCGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGC
*
27879012 CGAATGGCGAATGTGAAATATGTATGAGATATG
66 CGAATGGCCAATGTGAAATATGTATGAGATATG
*
27879045 TATATGTG-G-TAAAGCTGAATCGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGC
1 TATATGTGTGATAAAGCCGAATCGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGC
*
27879108 CGAATGGCCAATGTGATAA-ATG--TGAG-CATG
66 CGAATGGCCAATGTGA-AATATGTATGAGATATG
* * * * *
27879138 CATATATGTGATAAGGCCGAATGGCCAATGTG
1 TATATGTGTGATAAAGCCGAATCGCTAATGTG
27879170 GTGAATATGA
Statistics
Matches: 111, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
93 9 0.08
94 5 0.05
95 17 0.15
96 69 0.62
97 3 0.03
98 8 0.07
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (98 bp):
TATATGTGTGATAAAGCCGAATCGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGC
CGAATGGCCAATGTGAAATATGTATGAGATATG
Found at i:27879422 original size:37 final size:37
Alignment explanation
Indices: 27879372--27879523 Score: 250
Period size: 37 Copynumber: 4.1 Consensus size: 37
27879362 GGAAATATAT
*
27879372 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
27879409 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
27879446 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
27879483 TCCGGGTAAGATCCGATAACTTCGTGTGGAGATTACG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
27879520 TCCG
1 TCCG
27879524 AGCTAAAGGT
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 108 1.00
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:27880690 original size:12 final size:13
Alignment explanation
Indices: 27880665--27880693 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
27880655 TAGGTTTCCA
27880665 AAAATGGAAAATG
1 AAAATGGAAAATG
27880678 AAAATGG-AAATG
1 AAAATGGAAAATG
27880690 AAAA
1 AAAA
27880694 CTTGCAATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.21, T:0.14
Consensus pattern (13 bp):
AAAATGGAAAATG
Found at i:27888447 original size:17 final size:19
Alignment explanation
Indices: 27888414--27888448 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
27888404 AATTCTAATG
27888414 TGAATTCGAATATGAGTTC
1 TGAATTCGAATATGAGTTC
27888433 TGAA-TCGAA-ATGAGTT
1 TGAATTCGAATATGAGTT
27888449 ATGATGGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 5 0.31
19 4 0.25
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (19 bp):
TGAATTCGAATATGAGTTC
Found at i:27888712 original size:18 final size:19
Alignment explanation
Indices: 27888679--27888714 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
27888669 CTTGAAAAGG
27888679 TATTTGATATAGCGATTTT
1 TATTTGATATAGCGATTTT
*
27888698 TATTTTATA-AGCGATTT
1 TATTTGATATAGCGATTT
27888715 ATTAAGTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.53
Consensus pattern (19 bp):
TATTTGATATAGCGATTTT
Found at i:27891024 original size:18 final size:19
Alignment explanation
Indices: 27890991--27891026 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
27890981 CTTGAAAAGG
27890991 TATTTGATATAGCGATTTT
1 TATTTGATATAGCGATTTT
*
27891010 TATTTTATA-AGCGATTT
1 TATTTGATATAGCGATTT
27891027 ATTAAGTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.53
Consensus pattern (19 bp):
TATTTGATATAGCGATTTT
Found at i:27897315 original size:12 final size:12
Alignment explanation
Indices: 27897298--27897322 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27897288 CAGAGGCTAT
27897298 TAACAATATTTA
1 TAACAATATTTA
27897310 TAACAATATTTA
1 TAACAATATTTA
27897322 T
1 T
27897323 GTTATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:27900002 original size:15 final size:15
Alignment explanation
Indices: 27899982--27900018 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
27899972 GATTTGGTTG
27899982 TGTTTATTTTATTAT
1 TGTTTATTTTATTAT
27899997 TGTTTATTTTATTAT
1 TGTTTATTTTATTAT
*
27900012 TATTTAT
1 TGTTTAT
27900019 CATTTAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (15 bp):
TGTTTATTTTATTAT
Found at i:27900055 original size:24 final size:24
Alignment explanation
Indices: 27900022--27900080 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
27900012 TATTTATCAT
27900022 TTAATATATAATAAAATATAATAAA
1 TTAA-ATATAATAAAATATAATAAA
* * *
27900047 TTAAATATATTAATATATTATAAA
1 TTAAATATAATAAAATATAATAAA
27900071 -TAAATA-AATA
1 TTAAATATAATA
27900081 TTAATAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 3 0.10
23 6 0.20
24 17 0.57
25 4 0.13
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
TTAAATATAATAAAATATAATAAA
Found at i:27900100 original size:25 final size:25
Alignment explanation
Indices: 27900053--27900101 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
27900043 TAAATTAAAT
* *
27900053 ATATTAATATATTATAAATAAATAA
1 ATATTAATATATTAGAAAAAAATAA
27900078 ATATTAATA-ATATAGAAAAAAATA
1 ATATTAATATAT-TAGAAAAAAATA
27900102 TGCGTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (25 bp):
ATATTAATATATTAGAAAAAAATAA
Found at i:27900102 original size:21 final size:25
Alignment explanation
Indices: 27900037--27900086 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
27900027 ATATAATAAA
*
27900037 ATATAATAAATTAAAT--ATATTAAT
1 ATATTATAAA-TAAATAAATATTAAT
27900061 ATATTATAAATAAATAAATATTAAT
1 ATATTATAAATAAATAAATATTAAT
27900086 A
1 A
27900087 ATATAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 5 0.22
24 9 0.39
25 9 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
ATATTATAAATAAATAAATATTAAT
Found at i:27900526 original size:12 final size:12
Alignment explanation
Indices: 27900509--27900533 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27900499 CAGAGGCTAT
27900509 TAACAATATTTA
1 TAACAATATTTA
27900521 TAACAATATTTA
1 TAACAATATTTA
27900533 T
1 T
27900534 GTTATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:27903059 original size:21 final size:20
Alignment explanation
Indices: 27903030--27903068 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
27903020 ACGCCTACGA
27903030 AAAGATCGCTTGGATTTAAG
1 AAAGATCGCTTGGATTTAAG
27903050 AAAGAGTCGCTTGGATTTA
1 AAAGA-TCGCTTGGATTTA
27903069 TCCATGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (20 bp):
AAAGATCGCTTGGATTTAAG
Found at i:27903246 original size:15 final size:15
Alignment explanation
Indices: 27903226--27903274 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
27903216 TCATTTAAAT
*
27903226 TATAATTTAAATATA
1 TATAATTAAAATATA
27903241 TATAATTAAAATATA
1 TATAATTAAAATATA
*
27903256 T-TAA-TAATATATA
1 TATAATTAAAATATA
*
27903269 AATAAT
1 TATAAT
27903275 ATTTTATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 8 0.28
14 6 0.21
15 15 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TATAATTAAAATATA
Found at i:27903254 original size:11 final size:12
Alignment explanation
Indices: 27903235--27903299 Score: 59
Period size: 11 Copynumber: 5.8 Consensus size: 12
27903225 TTATAATTTA
27903235 AATATATATAATT
1 AATA-ATATAATT
27903248 AA-AATAT-ATT
1 AATAATATAATT
*
27903258 AATAATAT-ATA
1 AATAATATAATT
27903269 AATAATAT--TT
1 AATAATATAATT
* *
27903279 TATAATATTATT
1 AATAATATAATT
27903291 AATAATATA
1 AATAATATA
27903300 GAAAGAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
10 13 0.30
11 19 0.43
12 10 0.23
13 2 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
AATAATATAATT
Found at i:27903275 original size:22 final size:23
Alignment explanation
Indices: 27903250--27903299 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
27903240 ATATAATTAA
27903250 AATATATTAATAATA-TATAAAT
1 AATATATTAATAATATTATAAAT
* *
27903272 AATAT-TTTATAATATTATTAAT
1 AATATATTAATAATATTATAAAT
27903294 AATATA
1 AATATA
27903300 GAAAGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
AATATATTAATAATATTATAAAT
Found at i:27903360 original size:16 final size:14
Alignment explanation
Indices: 27903318--27903356 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
27903308 ATATGCGTTA
27903318 TATATACTAATTAT
1 TATATACTAATTAT
27903332 TACTTATACTAATATAT
1 TA--TATACTAAT-TAT
27903349 TATATACT
1 TATATACT
27903357 TAATGTCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 2 0.09
15 6 0.27
16 9 0.41
17 5 0.23
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (14 bp):
TATATACTAATTAT
Found at i:27905087 original size:22 final size:23
Alignment explanation
Indices: 27905048--27905090 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
27905038 GGGGTCAGTC
27905048 AAAAAGGTATGTTAATTAATCCA
1 AAAAAGGTATGTTAATTAATCCA
27905071 AAAAAGGTATGTT-ATTAATC
1 AAAAAGGTATGTTAATTAATC
27905091 AAAGGTCCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.33
Consensus pattern (23 bp):
AAAAAGGTATGTTAATTAATCCA
Found at i:27909485 original size:20 final size:20
Alignment explanation
Indices: 27909460--27909499 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
27909450 TATTTAACTT
27909460 TAACTTAAATTAAATAATAA
1 TAACTTAAATTAAATAATAA
27909480 TAACTTAAATTAAATAATAA
1 TAACTTAAATTAAATAATAA
27909500 AAAATTCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (20 bp):
TAACTTAAATTAAATAATAA
Found at i:27909536 original size:17 final size:17
Alignment explanation
Indices: 27909475--27909538 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 17
27909465 TAAATTAAAT
27909475 AATAATAACTTAAAT-TA
1 AATAATAAC-TAAATATA
* *
27909492 AATAATAA-AAAATTCTA
1 AATAATAACTAAA-TATA
*
27909509 AAT-A-GACTAAATATA
1 AATAATAACTAAATATA
27909524 AATAATAACTAAATA
1 AATAATAACTAAATA
27909539 ATAACTAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
15 10 0.27
16 6 0.16
17 21 0.57
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (17 bp):
AATAATAACTAAATATA
Found at i:27909538 original size:11 final size:11
Alignment explanation
Indices: 27909522--27909549 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
27909512 AGACTAAATA
27909522 TAAATAATAAC
1 TAAATAATAAC
27909533 TAAATAATAAC
1 TAAATAATAAC
27909544 TAAATA
1 TAAATA
27909550 GAAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAATAATAAC
Found at i:27909541 original size:3 final size:3
Alignment explanation
Indices: 27909524--27909644 Score: 76
Period size: 3 Copynumber: 39.3 Consensus size: 3
27909514 ACTAAATATA
27909524 AAT AAT AACT AAAT AAT AACT AAAT AGA- AAT AAT AAT -AT ATAT AAT
1 AAT AAT AA-T -AAT AAT AA-T -AAT A-AT AAT AAT AAT AAT A-AT AAT
* *
27909570 AAT -AT TAT AAG AAT AAT -AT AAT AAT AGAT AAT AAT AGAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT A-AT AAT AAT
*
27909614 AAT AAT AGAT -AG AAT AAT AA- AAT AAAT AAT A
1 AAT AAT A-AT AAT AAT AAT AAT AAT -AAT AAT A
27909645 TAGAAATATA
Statistics
Matches: 96, Mismatches: 5, Indels: 34
0.71 0.04 0.25
Matches are distributed among these distances:
2 12 0.12
3 61 0.64
4 19 0.20
5 4 0.04
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:27909584 original size:11 final size:11
Alignment explanation
Indices: 27909553--27909620 Score: 64
Period size: 11 Copynumber: 5.8 Consensus size: 11
27909543 CTAAATAGAA
27909553 ATAATAATATAT
1 ATAATAATAT-T
27909565 ATAATAATATT
1 ATAATAATATT
* *
27909576 ATAAGAATAAT
1 ATAATAATATT
*
27909587 ATAATAATAGATA
1 ATAATAAT--ATT
*
27909600 ATAATAGATAAT
1 ATAATA-ATATT
27909612 ATAATAATA
1 ATAATAATA
27909621 GATAGAATAA
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
11 20 0.43
12 17 0.37
13 7 0.15
14 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (11 bp):
ATAATAATATT
Found at i:27909592 original size:8 final size:8
Alignment explanation
Indices: 27909556--27909697 Score: 59
Period size: 8 Copynumber: 17.5 Consensus size: 8
27909546 AATAGAAATA
27909556 ATAATATAT
1 ATAATA-AT
27909565 ATAATAAT
1 ATAATAAT
*
27909573 ATTAT-A-
1 ATAATAAT
*
27909579 AGAATAAT
1 ATAATAAT
27909587 ATAATAAT
1 ATAATAAT
27909595 AGATAATAAT
1 --ATAATAAT
*
27909605 A-GATAAT
1 ATAATAAT
27909612 ATAATAAT
1 ATAATAAT
*
27909620 A-GATAGA-
1 ATAATA-AT
*
27909627 ATAATAAA
1 ATAATAAT
27909635 ATAAATAAT
1 AT-AATAAT
27909644 ATAGA-AAT
1 ATA-ATAAT
*
27909652 ATAGAT-TT
1 ATA-ATAAT
27909660 ATAAATCGAAAT
1 AT-AAT---AAT
*
27909672 ATATTAAT
1 ATAATAAT
27909680 AT-A-AAT
1 ATAATAAT
27909686 ATAATAAT
1 ATAATAAT
27909694 ATAA
1 ATAA
27909698 ATATTATTAA
Statistics
Matches: 102, Mismatches: 13, Indels: 37
0.67 0.09 0.24
Matches are distributed among these distances:
6 8 0.08
7 14 0.14
8 52 0.51
9 15 0.15
10 8 0.08
11 2 0.02
12 3 0.03
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.34
Consensus pattern (8 bp):
ATAATAAT
Found at i:27909615 original size:15 final size:14
Alignment explanation
Indices: 27909524--27909644 Score: 77
Period size: 14 Copynumber: 9.1 Consensus size: 14
27909514 ACTAAATATA
27909524 AATAATAACTA-AAT
1 AATAATAA-TATAAT
27909538 AATAACTAA-ATAGA-
1 AATAA-TAATATA-AT
27909552 AATAATAATAT-AT
1 AATAATAATATAAT
*
27909565 -ATAATAATATTAT
1 AATAATAATATAAT
*
27909578 AAGAATAATATAAT
1 AATAATAATATAAT
27909592 AATAGAT-A-ATAAT
1 AATA-ATAATATAAT
*
27909605 -A-GATAATATAAT
1 AATAATAATATAAT
27909617 AATAGATAGA-ATAAT
1 AATA-ATA-ATATAAT
27909632 AA-AATAA-ATAAT
1 AATAATAATATAAT
27909644 A
1 A
27909645 TAGAAATATA
Statistics
Matches: 88, Mismatches: 5, Indels: 30
0.72 0.04 0.24
Matches are distributed among these distances:
10 2 0.02
11 1 0.01
12 24 0.27
13 15 0.17
14 29 0.33
15 16 0.18
16 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (14 bp):
AATAATAATATAAT
Found at i:27909687 original size:14 final size:14
Alignment explanation
Indices: 27909668--27909708 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
27909658 TTATAAATCG
27909668 AAATATATTAATAT
1 AAATATATTAATAT
*
27909682 AAATATAATAATAT
1 AAATATATTAATAT
27909696 AAATATTATTAAT
1 AAATA-TATTAAT
27909709 TACTTAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATATATTAATAT
Found at i:27914848 original size:14 final size:14
Alignment explanation
Indices: 27914829--27914856 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27914819 TATATTAGTA
27914829 TTTTCTATTCTATT
1 TTTTCTATTCTATT
27914843 TTTTCTATTCTATT
1 TTTTCTATTCTATT
27914857 AGTATTAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:27914868 original size:5 final size:6
Alignment explanation
Indices: 27914853--27914923 Score: 50
Period size: 5 Copynumber: 13.2 Consensus size: 6
27914843 TTTTCTATTC
* * * *
27914853 TATTAG TATTAG -ATTAT TATT-C TATT-C TATCAG TATTAG -ATTAG
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
27914897 TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG T
27914924 TAGTGATCCT
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.07
5 26 0.47
6 25 0.45
ACGTcount: A:0.32, C:0.04, G:0.14, T:0.49
Consensus pattern (6 bp):
TATTAG
Found at i:27914875 original size:27 final size:27
Alignment explanation
Indices: 27914845--27914900 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
27914835 ATTCTATTTT
* *
27914845 TTCTATTCTATTAGTATTAGATTATTA
1 TTCTATTCTATCAGTATTAGATTAGTA
27914872 TTCTATTCTATCAGTATTAGATTAGTA
1 TTCTATTCTATCAGTATTAGATTAGTA
27914899 TT
1 TT
27914901 AGTTAGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.54
Consensus pattern (27 bp):
TTCTATTCTATCAGTATTAGATTAGTA
Found at i:27914890 original size:22 final size:22
Alignment explanation
Indices: 27914848--27914890 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
27914838 CTATTTTTTC
* *
27914848 TATTCTATTAGTATTAGATTAT
1 TATTCTATTACTATCAGATTAT
27914870 TATTCTATT-CTATCAGTATTA
1 TATTCTATTACTATCAG-ATTA
27914891 GATTAGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.53
Consensus pattern (22 bp):
TATTCTATTACTATCAGATTAT
Found at i:27914912 original size:20 final size:20
Alignment explanation
Indices: 27914887--27914926 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
27914877 TTCTATCAGT
27914887 ATTAGATTAGTATTAGTTAG
1 ATTAGATTAGTATTAGTTAG
27914907 ATTAGATTAGTATTAGTTAG
1 ATTAGATTAGTATTAGTTAG
27914927 TGATCCTGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (20 bp):
ATTAGATTAGTATTAGTTAG
Found at i:27924016 original size:15 final size:15
Alignment explanation
Indices: 27923998--27924028 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
27923988 ATAACTAAAG
27923998 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
27924013 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
27924028 A
1 A
27924029 GATGAGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (15 bp):
AAAAAATAGATAGAT
Found at i:27925737 original size:15 final size:15
Alignment explanation
Indices: 27925717--27925750 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
27925707 AGTTATGTCT
27925717 ATGTATGGAATTAGA
1 ATGTATGGAATTAGA
27925732 ATGTATGGAATTAGA
1 ATGTATGGAATTAGA
27925747 ATGT
1 ATGT
27925751 CAAAAAGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.35
Consensus pattern (15 bp):
ATGTATGGAATTAGA
Found at i:27926771 original size:19 final size:19
Alignment explanation
Indices: 27926749--27926792 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
27926739 TTAAACTTTT
* *
27926749 ATTATACTTTTCTATTCTA
1 ATTAAACTTTTCGATTCTA
27926768 ATTAAACTTTTCGATTCTA
1 ATTAAACTTTTCGATTCTA
27926787 ATTAAA
1 ATTAAA
27926793 AAAATAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.02, T:0.50
Consensus pattern (19 bp):
ATTAAACTTTTCGATTCTA
Found at i:27928497 original size:14 final size:14
Alignment explanation
Indices: 27928478--27928506 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
27928468 TTTTTTACTT
27928478 TGTTATATAGATTA
1 TGTTATATAGATTA
27928492 TGTTATATAGATTA
1 TGTTATATAGATTA
27928506 T
1 T
27928507 TATTTATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (14 bp):
TGTTATATAGATTA
Found at i:27928539 original size:19 final size:19
Alignment explanation
Indices: 27928494--27928552 Score: 91
Period size: 19 Copynumber: 3.1 Consensus size: 19
27928484 ATAGATTATG
* *
27928494 TTATATAGATTATTATTTA
1 TTATATAGAGTATTATTAA
27928513 TCTATATAGAGTATTATTAA
1 T-TATATAGAGTATTATTAA
27928533 TTATATAGAGTATTATTAA
1 TTATATAGAGTATTATTAA
27928552 T
1 T
27928553 CCATTGATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 20 0.54
20 17 0.46
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (19 bp):
TTATATAGAGTATTATTAA
Found at i:27928623 original size:21 final size:21
Alignment explanation
Indices: 27928599--27928639 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27928589 AGATTGATTA
* *
27928599 TATAGATATATCCAACTTTTC
1 TATAGAGATATACAACTTTTC
*
27928620 TATAGAGATATAGAACTTTT
1 TATAGAGATATACAACTTTT
27928640 ATCAGTAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (21 bp):
TATAGAGATATACAACTTTTC
Found at i:27929273 original size:11 final size:11
Alignment explanation
Indices: 27929257--27929281 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27929247 GGGTCCCTTT
27929257 ATATACAATAA
1 ATATACAATAA
27929268 ATATACAATAA
1 ATATACAATAA
27929279 ATA
1 ATA
27929282 CAATAATCGC
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:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
ATATACAATAA
Found at i:27931537 original size:21 final size:21
Alignment explanation
Indices: 27931507--27931595 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
27931497 CTCACAAAGA
* *
27931507 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
27931527 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
27931548 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
27931569 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTAACTTAGAC
27931593 AAA
1 AAA
27931596 TCTTTTTTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.10
21 36 0.62
23 1 0.02
24 15 0.26
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:27931588 original size:24 final size:21
Alignment explanation
Indices: 27931507--27931575 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
27931497 CTCACAAAGA
* * *
27931507 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
27931527 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
27931548 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
27931569 AAAAAGA
1 AAAAAGA
27931576 AACGAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.55, C:0.09, G:0.25, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:27935752 original size:14 final size:14
Alignment explanation
Indices: 27935733--27935761 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
27935723 TACAATATAT
27935733 ATAAGAATTATACG
1 ATAAGAATTATACG
27935747 ATAAGAATTATACG
1 ATAAGAATTATACG
27935761 A
1 A
27935762 ATCCATCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:27949326 original size:30 final size:30
Alignment explanation
Indices: 27949290--27949349 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
27949280 ATTCCAAAAG
27949290 AAAAAATAAGATGCATAGAATTGGTCAAGT
1 AAAAAATAAGATGCATAGAATTGGTCAAGT
27949320 AAAAAATAAGATGCATAGAATTGGTCAAGT
1 AAAAAATAAGATGCATAGAATTGGTCAAGT
27949350 CGATGATGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.50, C:0.07, G:0.20, T:0.23
Consensus pattern (30 bp):
AAAAAATAAGATGCATAGAATTGGTCAAGT
Found at i:27962225 original size:24 final size:24
Alignment explanation
Indices: 27962180--27962225 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
27962170 GCAAAAAAAT
* *
27962180 GAAAAGAATAAAGAAAAGAATGTA
1 GAAAAGAAGAAAGAAAAAAATGTA
27962204 GAAAAGAAGAAA-ATAAAAAATG
1 GAAAAGAAGAAAGA-AAAAAATG
27962226 AGTGATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.05
24 18 0.95
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.11
Consensus pattern (24 bp):
GAAAAGAAGAAAGAAAAAAATGTA
Found at i:27974192 original size:24 final size:24
Alignment explanation
Indices: 27974115--27974192 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
27974105 ATAAGCCAAC
27974115 AAAGTCTTTGGACGAAATTGGAGAA
1 AAAGTCTTTGGACGAAATTGGA-AA
* * * ** *
27974140 GAAAATCTCTAG-CTTAA-TGTAAA
1 -AAAGTCTTTGGACGAAATTGGAAA
27974163 AAAGTCTTTGGACGAAATTGGAAA
1 AAAGTCTTTGGACGAAATTGGAAA
27974187 AAAGTC
1 AAAGTC
27974193 CTTTTACAAT
Statistics
Matches: 38, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
22 8 0.21
23 5 0.13
24 14 0.37
25 3 0.08
26 8 0.21
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAGTCTTTGGACGAAATTGGAAA
Found at i:27975622 original size:37 final size:37
Alignment explanation
Indices: 27975572--27975650 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
27975562 TTATTACGAA
* * * *
27975572 GTCTTACCTGGACATAATCTCCACACG-ATGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTA-GTCATCGG
27975609 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
27975646 GTCTT
1 GTCTT
27975651 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
Found at i:27975919 original size:22 final size:22
Alignment explanation
Indices: 27975891--27975966 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
27975881 TTTCACATTC
27975891 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
**** ** *
27975913 ATCACATATATACACTTTCGCATT
1 ATCACAT-CGGCCA-TTAGGCCTT
27975937 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
27975960 ATCACAT
1 ATCACAT
27975967 ATATACACTT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:27976308 original size:47 final size:47
Alignment explanation
Indices: 27975769--27976300 Score: 983
Period size: 47 Copynumber: 11.3 Consensus size: 47
27975759 CCCTTCGAGA
* * * * * *
27975769 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27975816 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27975863 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27975910 CTTATCACATATATACACTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27975957 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27976004 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27976051 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27976098 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27976145 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27976192 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27976239 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27976286 CTTATCACATATATA
1 CTTATCACATATATA
27976301 GATTTTCATG
Statistics
Matches: 473, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 473 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27981315 original size:18 final size:20
Alignment explanation
Indices: 27981271--27981318 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
27981261 TCAATCTCAA
27981271 TCTCTTTTTTCTCTTTTTCAT
1 TCTC-TTTTTCTCTTTTTCAT
*
27981292 TCTCTTTTTCT-TTTTTGAT
1 TCTCTTTTTCTCTTTTTCAT
27981311 T-TCTTTTT
1 TCTCTTTTT
27981319 TTGTCTTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 7 0.27
19 8 0.31
20 7 0.27
21 4 0.15
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (20 bp):
TCTCTTTTTCTCTTTTTCAT
Found at i:27981319 original size:20 final size:20
Alignment explanation
Indices: 27981275--27981325 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
27981265 TCTCAATCTC
27981275 TTTTTTCTCTTTTTCATTCT
1 TTTTTTCTCTTTTTCATTCT
* *
27981295 CTTTTTCT-TTTTTGATTTCT
1 TTTTTTCTCTTTTTCA-TTCT
*
27981315 TTTTTTGTCTT
1 TTTTTTCTCTT
27981326 CCTTTCATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 6 0.24
20 17 0.68
21 2 0.08
ACGTcount: A:0.04, C:0.16, G:0.04, T:0.76
Consensus pattern (20 bp):
TTTTTTCTCTTTTTCATTCT
Found at i:27989369 original size:16 final size:17
Alignment explanation
Indices: 27989348--27989382 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
27989338 ATAATTCAGT
27989348 TTTTTA-CTCACTTTTC
1 TTTTTATCTCACTTTTC
*
27989364 TTTTTATCTCTCTTTTC
1 TTTTTATCTCACTTTTC
27989381 TT
1 TT
27989383 ACTTTCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.09, C:0.23, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTATCTCACTTTTC
Found at i:27989439 original size:26 final size:28
Alignment explanation
Indices: 27989410--27989478 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 28
27989400 TTTTTTCAAG
27989410 TTCTCTTTCTTTTTCTCA-T-TTTTCTT
1 TTCTCTTTCTTTTTCTCACTCTTTTCTT
* *
27989436 TTCT-TTTATATTT-TCACTCTTTTCTT
1 TTCTCTTTCTTTTTCTCACTCTTTTCTT
27989462 TT-TCTTTCATTTGTTCT
1 TTCTCTTTC-TTT-TTCT
27989479 ACAGATTTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
24 3 0.09
25 9 0.27
26 16 0.48
27 2 0.06
28 2 0.06
29 1 0.03
ACGTcount: A:0.07, C:0.20, G:0.01, T:0.71
Consensus pattern (28 bp):
TTCTCTTTCTTTTTCTCACTCTTTTCTT
Found at i:27994781 original size:28 final size:28
Alignment explanation
Indices: 27994725--27994778 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
27994715 ATAAATGTTT
*
27994725 TTTATTACATGTTATTAATGTGTCTAAG
1 TTTATTACATGCTATTAATGTGTCTAAG
*
27994753 TTTATTACATGCT-TTATTGTGTCTAA
1 TTTATTACATGCTATTAATGTGTCTAA
27994779 AGTCCAGCCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.26, C:0.09, G:0.13, T:0.52
Consensus pattern (28 bp):
TTTATTACATGCTATTAATGTGTCTAAG
Found at i:28002974 original size:19 final size:20
Alignment explanation
Indices: 28002950--28002989 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
28002940 TGAGCTGGTT
*
28002950 GGAGCTGGAA-TAAGCTAAA
1 GGAGCTGAAATTAAGCTAAA
*
28002969 GGAGCTGAAATTGAGCTAAA
1 GGAGCTGAAATTAAGCTAAA
28002989 G
1 G
28002990 TCGGCTTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.40, C:0.10, G:0.33, T:0.17
Consensus pattern (20 bp):
GGAGCTGAAATTAAGCTAAA
Found at i:28009276 original size:33 final size:34
Alignment explanation
Indices: 28009225--28009299 Score: 125
Period size: 33 Copynumber: 2.2 Consensus size: 34
28009215 AGATTTAAAC
28009225 AAATTAATTACTAACACTTATTTAAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
28009259 AAATTAATT-CTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
28009292 AATTTAAT
1 AAATTAAT
28009300 AAACACACTC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 30 0.77
34 9 0.23
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACTA
Found at i:28009308 original size:33 final size:33
Alignment explanation
Indices: 28009225--28009315 Score: 103
Period size: 33 Copynumber: 2.7 Consensus size: 33
28009215 AGATTTAAAC
*
28009225 AAATTAATTACTAACACTTATTTAAGCTGAACTA
1 AAATTAATTA-AAACACTTATTTAAGCTGAACTA
** *
28009259 AAATTAATTCTAACACTTATTTGAGCTGAACTA
1 AAATTAATTAAAACACTTATTTAAGCTGAACTA
* *
28009292 AATTTAA-TAAACACACTCATTTAA
1 AAATTAATTAAA-ACACTTATTTAA
28009316 TTTAATCCAG
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
32 2 0.04
33 38 0.78
34 9 0.18
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.35
Consensus pattern (33 bp):
AAATTAATTAAAACACTTATTTAAGCTGAACTA
Found at i:28017782 original size:113 final size:113
Alignment explanation
Indices: 28017584--28017813 Score: 451
Period size: 113 Copynumber: 2.0 Consensus size: 113
28017574 TCAATGTATT
28017584 ATTCAAGTGTTTTCACAAGGTGGCCGGCCAAGCCTATTAATAGGCCTTCTTACTATTTTCCTAAT
1 ATTCAAGTGTTTTCACAAGGTGGCCGGCCAAGCCTATTAATAGGCCTTCTTACTATTTTCCTAAT
28017649 CTTATTAGAAAACTAAAAAAAACCTAATTATTAAATTTAGAGGGAAAA
66 CTTATTAGAAAACTAAAAAAAACCTAATTATTAAATTTAGAGGGAAAA
*
28017697 ATTCAAGTGTTTTCACAAGGTGGCCGGCCAAGCCTATTAATAGGCCTTCTTTCTATTTTCCTAAT
1 ATTCAAGTGTTTTCACAAGGTGGCCGGCCAAGCCTATTAATAGGCCTTCTTACTATTTTCCTAAT
28017762 CTTATTAGAAAACTAAAAAAAACCTAATTATTAAATTTAGAGGGAAAA
66 CTTATTAGAAAACTAAAAAAAACCTAATTATTAAATTTAGAGGGAAAA
28017810 ATTC
1 ATTC
28017814 GGCCAAGGCA
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
113 116 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.33
Consensus pattern (113 bp):
ATTCAAGTGTTTTCACAAGGTGGCCGGCCAAGCCTATTAATAGGCCTTCTTACTATTTTCCTAAT
CTTATTAGAAAACTAAAAAAAACCTAATTATTAAATTTAGAGGGAAAA
Found at i:28024441 original size:109 final size:109
Alignment explanation
Indices: 28024308--28024528 Score: 442
Period size: 109 Copynumber: 2.0 Consensus size: 109
28024298 ATTCGGCCAA
28024308 GGCATTTAATGGGCTGAATTTTTTACATAGGCATTAATCATAAAGTCTAAAAATTAAACTAGGTA
1 GGCATTTAATGGGCTGAATTTTTTACATAGGCATTAATCATAAAGTCTAAAAATTAAACTAGGTA
28024373 TTTAAAGAATTAAAATTTTACAAATTGGGCCACTTTGTCAATTT
66 TTTAAAGAATTAAAATTTTACAAATTGGGCCACTTTGTCAATTT
28024417 GGCATTTAATGGGCTGAATTTTTTACATAGGCATTAATCATAAAGTCTAAAAATTAAACTAGGTA
1 GGCATTTAATGGGCTGAATTTTTTACATAGGCATTAATCATAAAGTCTAAAAATTAAACTAGGTA
28024482 TTTAAAGAATTAAAATTTTACAAATTGGGCCACTTTGTCAATTT
66 TTTAAAGAATTAAAATTTTACAAATTGGGCCACTTTGTCAATTT
28024526 GGC
1 GGC
28024529 CTGTTTTTCA
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 112 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (109 bp):
GGCATTTAATGGGCTGAATTTTTTACATAGGCATTAATCATAAAGTCTAAAAATTAAACTAGGTA
TTTAAAGAATTAAAATTTTACAAATTGGGCCACTTTGTCAATTT
Found at i:28025114 original size:12 final size:12
Alignment explanation
Indices: 28025097--28025126 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
28025087 CCAATCATAA
28025097 GCTAATTTACTT
1 GCTAATTTACTT
28025109 GCTAATTTACTT
1 GCTAATTTACTT
28025121 GCTAAT
1 GCTAAT
28025127 GCCTCGTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.47
Consensus pattern (12 bp):
GCTAATTTACTT
Found at i:28026475 original size:18 final size:17
Alignment explanation
Indices: 28026452--28026490 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
28026442 CTCCTTTTGC
28026452 TCTTTTTCATTCTCTTTT
1 TCTTTTTCATT-TCTTTT
*
28026470 TCTTTTTTGATTTCTTTT
1 TC-TTTTTCATTTCTTTT
28026488 TCT
1 TCT
28026491 GTCTTCCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 1 0.05
18 10 0.53
19 8 0.42
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.74
Consensus pattern (17 bp):
TCTTTTTCATTTCTTTT
Found at i:28029342 original size:17 final size:18
Alignment explanation
Indices: 28029309--28029344 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
28029299 GATTTTTTTA
*
28029309 TTTCACTTTTCTTTTCTT
1 TTTCACTTTTCTCTTCTT
28029327 TTTCA-TTTTCTCTTCTT
1 TTTCACTTTTCTCTTCTT
28029344 T
1 T
28029345 GTTTTTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTCACTTTTCTCTTCTT
Found at i:28029370 original size:19 final size:18
Alignment explanation
Indices: 28029318--28029372 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
28029308 ATTTCACTTT
28029318 TCTTTTCTTTTTCATTT--
1 TCTTTTCTTTTTC-TTTCA
*
28029335 TCTCTTCTTTGTT-TTTCAA
1 TCTTTTCTTT-TTCTTTC-A
28029354 TCTTTTCTTTTTCTTTCA
1 TCTTTTCTTTTTCTTTCA
28029372 T
1 T
28029373 TTGGGTTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
16 3 0.10
17 9 0.29
18 6 0.19
19 13 0.42
ACGTcount: A:0.07, C:0.20, G:0.02, T:0.71
Consensus pattern (18 bp):
TCTTTTCTTTTTCTTTCA
Found at i:28032838 original size:20 final size:19
Alignment explanation
Indices: 28032802--28032852 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
28032792 ACATGTATTA
28032802 AATTAAGACAAACTTAATT
1 AATTAAGACAAACTTAATT
* *
28032821 AATTCAAGACATATTTAATTT
1 AATT-AAGACAAACTTAA-TT
*
28032842 AACTAAGACAA
1 AATTAAGACAA
28032853 GACAAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.15
20 17 0.65
21 5 0.19
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.31
Consensus pattern (19 bp):
AATTAAGACAAACTTAATT
Found at i:28035196 original size:19 final size:20
Alignment explanation
Indices: 28035163--28035201 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
28035153 GCAAGCTGAT
28035163 TTTAGCTCGGTTTTAGCTCC
1 TTTAGCTCGGTTTTAGCTCC
28035183 TTTAGCTC-GTTTTAGCTCC
1 TTTAGCTCGGTTTTAGCTCC
28035202 AACCAGCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.10, C:0.26, G:0.18, T:0.46
Consensus pattern (20 bp):
TTTAGCTCGGTTTTAGCTCC
Found at i:28035228 original size:20 final size:20
Alignment explanation
Indices: 28035205--28035244 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
28035195 TAGCTCCAAC
**
28035205 CAGCTCATTTGAGCTCAATT
1 CAGCTCATTCAAGCTCAATT
28035225 CAGCTCATTCAAGCTCAATT
1 CAGCTCATTCAAGCTCAATT
28035245 TAGTTTCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.33
Consensus pattern (20 bp):
CAGCTCATTCAAGCTCAATT
Found at i:28036713 original size:12 final size:12
Alignment explanation
Indices: 28036696--28036720 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
28036686 CCTTATACAC
28036696 ATTACACATTGA
1 ATTACACATTGA
28036708 ATTACACATTGA
1 ATTACACATTGA
28036720 A
1 A
28036721 ATCAGATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
ATTACACATTGA
Found at i:28041903 original size:40 final size:40
Alignment explanation
Indices: 28041820--28042082 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
28041810 TTGAATGCTG
* * * * * *
28041820 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
28041860 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
28041900 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
28041940 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
28041980 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
28042020 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
28042059 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
28042083 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:28042102 original size:79 final size:80
Alignment explanation
Indices: 28041859--28042117 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
28041849 AAGTGAATAT
* * * * * * *
28041859 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
28041923 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
28041939 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
28042004 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
28042019 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
28042083 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
28042098 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
28042118 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:28059372 original size:27 final size:27
Alignment explanation
Indices: 28059342--28059519 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
28059332 ATATTGAGCC
* * *
28059342 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
28059369 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
28059396 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
28059424 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
28059451 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
28059478 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
28059505 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
28059520 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:28059435 original size:55 final size:55
Alignment explanation
Indices: 28059342--28059519 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
28059332 ATATTGAGCC
* * *
28059342 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
28059396 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
28059451 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
28059505 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
28059520 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:28059481 original size:82 final size:81
Alignment explanation
Indices: 28059363--28059518 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
28059353 TGCTATACAA
* * *
28059363 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
28059428 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
28059445 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
28059509 CACTTAGTGC
65 CACTTAGTGC
28059519 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:28074034 original size:29 final size:29
Alignment explanation
Indices: 28074001--28074073 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
28073991 TTAGATATTA
*
28074001 TTAAATATGTCCTAATTAGTTTAAGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
28074030 TTAAATATGTCCTAATTAGTTCAAGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
28074059 TTAAATATGTCCTAA
1 TTAAATATGTCCTAA
28074074 ACTAATACAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (29 bp):
TTAAATATGTCCTAATTAGTTCAAGTGTT
Found at i:28079816 original size:13 final size:13
Alignment explanation
Indices: 28079798--28079824 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
28079788 AAATTTCTAT
28079798 GTAAAAGAATTCA
1 GTAAAAGAATTCA
28079811 GTAAAAGAATTCA
1 GTAAAAGAATTCA
28079824 G
1 G
28079825 CCCAAGAAGC
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:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (13 bp):
GTAAAAGAATTCA
Found at i:28084990 original size:20 final size:20
Alignment explanation
Indices: 28084957--28085001 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
28084947 TAAATTCACA
28084957 TAATTAAAACAAGACAC-AAT
1 TAATTAAAACAAGAC-CTAAT
**
28084977 TAATTAAATTAAGACCTAAT
1 TAATTAAAACAAGACCTAAT
28084997 TAATT
1 TAATT
28085002 TAGTTAGGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.31
Consensus pattern (20 bp):
TAATTAAAACAAGACCTAAT
Found at i:28090725 original size:19 final size:20
Alignment explanation
Indices: 28090690--28090739 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
28090680 AAAGAAAGAC
*
28090690 AGAAAATGA-AATCAAAA-A
1 AGAAAAAGAGAATCAAAATA
*
28090708 AGAAAAAGAGAATGAAAATA
1 AGAAAAAGAGAATCAAAATA
28090728 AGCAAAAAGAGA
1 AG-AAAAAGAGA
28090740 TTGAGAGTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 8 0.30
19 7 0.26
20 3 0.11
21 9 0.33
ACGTcount: A:0.70, C:0.04, G:0.18, T:0.08
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAATA
Found at i:28098624 original size:17 final size:16
Alignment explanation
Indices: 28098602--28098633 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
28098592 TTGCAGGTAT
28098602 AAAAAAAGGAAAAGAAC
1 AAAAAAA-GAAAAGAAC
28098619 AAAAAAAGAAAAGAA
1 AAAAAAAGAAAAGAA
28098634 AATGATAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAAAAGAAC
Found at i:28117596 original size:17 final size:17
Alignment explanation
Indices: 28117571--28117612 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
28117561 TACTTGGGTG
28117571 GCAAGAAATCAACACAA
1 GCAAGAAATCAACACAA
*
28117588 GCAATAAATCAACACAA
1 GCAAGAAATCAACACAA
28117605 GC-AGAAAT
1 GCAAGAAAT
28117613 TCATAAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.10
Consensus pattern (17 bp):
GCAAGAAATCAACACAA
Found at i:28119445 original size:6 final size:6
Alignment explanation
Indices: 28119422--28119470 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
28119412 CTCTTTTTGC
* * **
28119422 TCTTTT TCATTC TCTTTT TCTTTT TCGATT TCTTTT TCTGTTT TCTTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCT-TTT TCTTTT
28119471 CATTACAAGA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.04, C:0.18, G:0.04, T:0.73
Consensus pattern (6 bp):
TCTTTT
Found at i:28119471 original size:18 final size:18
Alignment explanation
Indices: 28119422--28119466 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 18
28119412 CTCTTTTTGC
28119422 TCTTTTTC-ATTCTCTTTT
1 TCTTTTTCGATT-TCTTTT
28119440 TCTTTTTCGATTTCTTTT
1 TCTTTTTCGATTTCTTTT
28119458 TCTGTTTTC
1 TCT-TTTTC
28119467 TTTTCATTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.04, C:0.20, G:0.04, T:0.71
Consensus pattern (18 bp):
TCTTTTTCGATTTCTTTT
Found at i:28124579 original size:27 final size:27
Alignment explanation
Indices: 28124545--28124695 Score: 178
Period size: 27 Copynumber: 5.6 Consensus size: 27
28124535 TAAATTGTAC
* *
28124545 AGCACTAAGTGTGCGATTTGGCTATG-
1 AGCACTAAGTGTGCGAGTTGACTATGT
* * *
28124571 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAGTTGACTATGT
*
28124599 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
28124626 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* * *
28124654 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
28124681 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
28124696 GACTTAATAT
Statistics
Matches: 109, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 83 0.76
28 25 0.23
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:28124673 original size:55 final size:54
Alignment explanation
Indices: 28124546--28124695 Score: 194
Period size: 55 Copynumber: 2.8 Consensus size: 54
28124536 AAATTGTACA
* *
28124546 GCACTAAGTGTGCGATTTGGCTATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGAATTGACCATGCG
* ** *
28124600 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-ATTGACCATGCG
* * *
28124655 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
28124696 GACTTAATAT
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
54 38 0.45
55 47 0.55
ACGTcount: A:0.24, C:0.15, G:0.31, T:0.30
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:28124686 original size:82 final size:81
Alignment explanation
Indices: 28124545--28124695 Score: 196
Period size: 82 Copynumber: 1.9 Consensus size: 81
28124535 TAAATTGTAC
* * *
28124545 AGCACTAAGTGTGCGATTTGGCTATGATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGATGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
28124610 TGCGAGTTGACTATGT
66 TGCGAGTTGACTATGT
* * ** * *
28124626 AGCACTAAGTGTGCGAGTTTGATTATG-TGGCACTAAGTGTGCGAGTTGATTATATAGCACTGAG
1 AGCACTAAGTGTGCGA-TTTGACTATGAT-GCACTAAGTGTGCGAATTGACCATACAGCACTAAG
28124690 TGTGCG
64 TGTGCG
28124696 GACTTAATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 17 0.29
82 42 0.71
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (81 bp):
AGCACTAAGTGTGCGATTTGACTATGATGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
TGCGAGTTGACTATGT
Found at i:28132684 original size:27 final size:27
Alignment explanation
Indices: 28132647--28132851 Score: 223
Period size: 27 Copynumber: 7.6 Consensus size: 27
28132637 TAAATTGTAC
*
28132647 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
28132674 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
28132701 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
28132727 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
28132755 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
28132782 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
28132810 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
28132837 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
28132852 GACTTAATAT
Statistics
Matches: 152, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
27 128 0.84
28 24 0.16
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:28132708 original size:54 final size:54
Alignment explanation
Indices: 28132648--28132851 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
28132638 AAATTGTACA
* * *
28132648 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
** ** * *
28132702 GCACTAAGTGTGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTG
**
28132756 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTG
* * *
28132811 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
28132852 GACTTAATAT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
Found at i:28136924 original size:28 final size:29
Alignment explanation
Indices: 28136892--28136990 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
28136882 ATAATAAGCC
*
28136892 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
28136920 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
28136948 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
28136977 CGCACACTTAGTGC
1 CGCACACTTAGTGC
28136991 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:28140178 original size:55 final size:56
Alignment explanation
Indices: 28140094--28140212 Score: 231
Period size: 55 Copynumber: 2.1 Consensus size: 56
28140084 ACAAGGGATG
28140094 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAA-AATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
28140149 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
28140205 ATGGGCAA
1 ATGGGCAA
28140213 TAAACTAATA
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 40 0.63
56 23 0.37
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:28141578 original size:40 final size:40
Alignment explanation
Indices: 28141340--28141564 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
28141330 TCGAATGATG
* * * *
28141340 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
28141380 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
28141420 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
28141459 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
28141499 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
28141540 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
28141565 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:28141586 original size:119 final size:119
Alignment explanation
Indices: 28141340--28141597 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
28141330 TCGAATGATG
* *
28141340 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
28141405 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
28141459 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
28141522 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
28141579 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
28141598 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:28154035 original size:20 final size:20
Alignment explanation
Indices: 28154007--28154054 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
28153997 GCTGAAAGTC
* * *
28154007 AGCTAATTTGAGCTTAAATG
1 AGCTGATTTAAGCTCAAATG
*
28154027 AGCTGATTTAAGCTCAAGTG
1 AGCTGATTTAAGCTCAAATG
*
28154047 AACTGATT
1 AGCTGATT
28154055 GGAGTTGAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
AGCTGATTTAAGCTCAAATG
Found at i:28157300 original size:18 final size:17
Alignment explanation
Indices: 28157277--28157314 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
28157267 CTCTTTTTGC
28157277 TCTTTTTCATTCTCTTTT
1 TCTTTTTCATT-TCTTTT
*
28157295 TCTTTTTGATTTCTTTT
1 TCTTTTTCATTTCTTTT
28157312 TCT
1 TCT
28157315 ATCTTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.74
Consensus pattern (17 bp):
TCTTTTTCATTTCTTTT
Found at i:28182733 original size:24 final size:24
Alignment explanation
Indices: 28182706--28182751 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
28182696 GGACATGATT
28182706 TTGTTAAATGAAATAATAAAAAAA
1 TTGTTAAATGAAATAATAAAAAAA
28182730 TTGTTAAATGAAATAATAAAAA
1 TTGTTAAATGAAATAATAAAAA
28182752 TTGAGCTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (24 bp):
TTGTTAAATGAAATAATAAAAAAA
Found at i:28183063 original size:19 final size:21
Alignment explanation
Indices: 28183035--28183079 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
28183025 ATAACATAAT
* *
28183035 AAAAATTAAT-GATATAACCC
1 AAAAATTAATAAAAATAACCC
28183055 AAAAA-TAATAAAAATAACCC
1 AAAAATTAATAAAAATAACCC
28183075 AAAAA
1 AAAAA
28183080 ATAGATGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.67, C:0.13, G:0.02, T:0.18
Consensus pattern (21 bp):
AAAAATTAATAAAAATAACCC
Done.