Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold436
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: 700632
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 5 of 5
Found at i:591384 original size:34 final size:35
Alignment explanation
Indices: 591318--591385 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
591308 GTCAGAGCAA
*
591318 CCCTTTTTCAAAAGCCCACACAAGTTGATGGCACC
1 CCCTTTTTCAAAAGCCCACACAACTTGATGGCACC
** *
591353 CCCTTTTTTTAAAG-CCACACAACTTGGTGGCAC
1 CCCTTTTTCAAAAGCCCACACAACTTGATGGCAC
591386 TTCTTTCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.26
Consensus pattern (35 bp):
CCCTTTTTCAAAAGCCCACACAACTTGATGGCACC
Found at i:591493 original size:40 final size:42
Alignment explanation
Indices: 591443--591528 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 42
591433 TTTCATTGTA
*
591443 AAGCCTACACAAGCTAGTGGCA-TTTT-TTTTTTCTCTTTTT
1 AAGCCCACACAAGCTAGTGGCACTTTTCTTTTTTCTCTTTTT
* * *
591483 AAGCCCACACAAGTTGGTGGCACCCTTTTCTTTTTTTTCTTTTT
1 AAGCCCACACAAGCTAGTGGCA--CTTTTCTTTTTTCTCTTTTT
591527 AA
1 AA
591529 AGCCTATACA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
40 19 0.50
43 4 0.11
44 15 0.39
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.45
Consensus pattern (42 bp):
AAGCCCACACAAGCTAGTGGCACTTTTCTTTTTTCTCTTTTT
Found at i:591527 original size:44 final size:47
Alignment explanation
Indices: 591468--591564 Score: 137
Period size: 45 Copynumber: 2.1 Consensus size: 47
591458 AGTGGCATTT
**
591468 TTTTTTTCTCTTTTT-AAGCCCACACAAGTTGGTGGCACCC-TTTTC
1 TTTTTTTCTCTTTTTAAAGCCCACACAAGTTGACGGCACCCTTTTTC
* *
591513 TTTTTTT-TCTTTTTAAAGCCTATACAAGTTGACGGCACCCTTTTTC
1 TTTTTTTCTCTTTTTAAAGCCCACACAAGTTGACGGCACCCTTTTTC
591559 TTTTTT
1 TTTTTT
591565 AAGCCCACAC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
44 7 0.15
45 28 0.61
46 11 0.24
ACGTcount: A:0.16, C:0.23, G:0.11, T:0.49
Consensus pattern (47 bp):
TTTTTTTCTCTTTTTAAAGCCCACACAAGTTGACGGCACCCTTTTTC
Found at i:591610 original size:35 final size:37
Alignment explanation
Indices: 591518--591617 Score: 123
Period size: 37 Copynumber: 2.8 Consensus size: 37
591508 TTTTCTTTTT
* ** * *
591518 TTTCTTTTTAAAGCCTATACAAGTTGACGGCACCCTT
1 TTTCTTTTTAAAGCCTACACAAGTTGGTGACACCCTC
* *
591555 TTTCTTTTTTAAGCCCACACAAGTTGGTGACACCC-C
1 TTTCTTTTTAAAGCCTACACAAGTTGGTGACACCCTC
591591 TTT-TTTTTAAAGCCTACACAAGTTGGT
1 TTTCTTTTTAAAGCCTACACAAGTTGGT
591618 CGCAACCCTT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
35 22 0.41
36 3 0.06
37 29 0.54
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (37 bp):
TTTCTTTTTAAAGCCTACACAAGTTGGTGACACCCTC
Found at i:591627 original size:35 final size:35
Alignment explanation
Indices: 591522--591629 Score: 105
Period size: 35 Copynumber: 3.0 Consensus size: 35
591512 CTTTTTTTTC
* *
591522 TTTTTAAAGCCTATACAAGTT-GACGGC-ACCCTTTTT
1 TTTTTAAAGCCTACACAAGTTGGTC-GCAACCC--TTT
* * *
591558 CTTTTTTAAGCCCACACAAGTTGGT-GACACCCCTTT
1 -TTTTTAAAGCCTACACAAGTTGGTCG-CAACCCTTT
591594 TTTTTAAAGCCTACACAAGTTGGTCGCAACCCTTT
1 TTTTTAAAGCCTACACAAGTTGGTCGCAACCCTTT
591629 T
1 T
591630 CAAAAGCCCA
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
35 31 0.53
36 5 0.08
37 19 0.32
38 4 0.07
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (35 bp):
TTTTTAAAGCCTACACAAGTTGGTCGCAACCCTTT
Found at i:591643 original size:33 final size:34
Alignment explanation
Indices: 591565--591646 Score: 96
Period size: 35 Copynumber: 2.4 Consensus size: 34
591555 TTTCTTTTTT
* **
591565 AAGCCCACACAAGTTGGTGACACCCCTTTTTTTTA
1 AAGCCCACACAAGTTGGTGACAACCC-TTTTTCAA
*
591600 AAGCCTACACAAGTTGGTCG-CAACCC-TTTTCAA
1 AAGCCCACACAAGTTGGT-GACAACCCTTTTTCAA
591633 AAGCCCACACAAGT
1 AAGCCCACACAAGT
591647 CAGTGCCACC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
33 18 0.44
35 22 0.54
36 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (34 bp):
AAGCCCACACAAGTTGGTGACAACCCTTTTTCAA
Found at i:591698 original size:68 final size:66
Alignment explanation
Indices: 591565--591696 Score: 149
Period size: 68 Copynumber: 2.0 Consensus size: 66
591555 TTTCTTTTTT
** * * *
591565 AAGCCCACACAAGTTGGTGACACCCCTTTTTTTTAAAGCCTACACAAGTTGGTCGCAACCCTTTT
1 AAGCCCACACAAGTCAGTGACACCCCTTTTTTTAAAAGCCTACACAA--TGCTAGCAACCCTTTT
591630 CAA
64 CAA
* * *
591633 AAGCCCACACAAGTCAGTGCCACCTCTTTCTTTTAAAAGCCTAGACAA-GCTAGCAACACCTTTT
1 AAGCCCACACAAGTCAGTGACACCCCTTT-TTTTAAAAGCCTACACAATGCTAGCAAC-CCTTTT
591697 TCTCTTTTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
66 7 0.13
67 6 0.11
68 25 0.46
69 16 0.30
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.27
Consensus pattern (66 bp):
AAGCCCACACAAGTCAGTGACACCCCTTTTTTTAAAAGCCTACACAATGCTAGCAACCCTTTTCA
A
Found at i:591848 original size:52 final size:52
Alignment explanation
Indices: 591764--591914 Score: 171
Period size: 52 Copynumber: 2.9 Consensus size: 52
591754 AGCTGGTGGC
* *
591764 ATCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCA-CTATT
1 ATCATCTTTAAGTTCAATGTCGCTAGCTTTGAATCAGCACATTGGCACCT-TT
* * * * *
591816 ATCATCTTCAAGTTCAATGTCGTTGGCTTTGAATCAACACGTTGGCACCTTT
1 ATCATCTTTAAGTTCAATGTCGCTAGCTTTGAATCAGCACATTGGCACCTTT
* * * *
591868 GTCATCTTTAATTTCAATGTTGCTACCTTTGAAGT-AGCACATTGGCA
1 ATCATCTTTAAGTTCAATGTCGCTAGCTTTGAA-TCAGCACATTGGCA
591915 TTATATCTTC
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
52 78 0.96
53 3 0.04
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.36
Consensus pattern (52 bp):
ATCATCTTTAAGTTCAATGTCGCTAGCTTTGAATCAGCACATTGGCACCTTT
Found at i:592589 original size:20 final size:20
Alignment explanation
Indices: 592548--592589 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
592538 TATCGATAAA
*
592548 ATAAGAGAATGCATAGATAC
1 ATAAGAGAATGCATAGACAC
* *
592568 ATAAGTGAATGCATCGACAC
1 ATAAGAGAATGCATAGACAC
592588 AT
1 AT
592590 TTTTGAAATT
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:0.45, C:0.14, G:0.19, T:0.21
Consensus pattern (20 bp):
ATAAGAGAATGCATAGACAC
Found at i:592784 original size:52 final size:52
Alignment explanation
Indices: 592646--592785 Score: 190
Period size: 52 Copynumber: 2.7 Consensus size: 52
592636 TCTAAAAAGA
* *
592646 AAATGTATCGATACATTTTTCATTGTATCGACACATTCTAGGTTTCTGACCC
1 AAATGTATCGATACATTTTTCATTGTATCGATACATTCTAGGTTTCTAACCC
* * * *
592698 AAATGTATCGATACATTATTCATTGTATTGATACATTCTGGGTTTTTAACCC
1 AAATGTATCGATACATTTTTCATTGTATCGATACATTCTAGGTTTCTAACCC
* * * *
592750 AAATATATTGATACATTTTTCAATGTATCAATACAT
1 AAATGTATCGATACATTTTTCATTGTATCGATACAT
592786 GTAGGTTATT
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.41
Consensus pattern (52 bp):
AAATGTATCGATACATTTTTCATTGTATCGATACATTCTAGGTTTCTAACCC
Found at i:604502 original size:20 final size:20
Alignment explanation
Indices: 604477--604515 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
604467 CATTTGAGAC
604477 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTT
*
604497 ATGTATTGATACATTCACT
1 ATGTATCGATACATTCACT
604516 AATTACAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:605294 original size:61 final size:61
Alignment explanation
Indices: 605197--605350 Score: 188
Period size: 61 Copynumber: 2.5 Consensus size: 61
605187 TAGTATGCTA
* * *
605197 ATTCAAGGCCAGCGATAT-TGGCTTAAAGAT-ACGAAGAATGATAAAGGTATCAATATACTG
1 ATTCAAGACCAGCGATATAGGGCTT-AAGATGACGAAGAATGATAAAGGTACCAATATACTG
* * * *
605257 ATTCATGACCAGTGATATAGGGCTTGAAGATGA-GAAGAATGATAAAGGTGCCAATATGCTG
1 ATTCAAGACCAGCGATATAGGGCTT-AAGATGACGAAGAATGATAAAGGTACCAATATACTG
* *
605318 ATTCAAGGCCAGCGATATTGGGCTTAAGATGAC
1 ATTCAAGACCAGCGATATAGGGCTTAAGATGAC
605351 AAAGGTGCCA
Statistics
Matches: 79, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
60 22 0.28
61 56 0.71
62 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (61 bp):
ATTCAAGACCAGCGATATAGGGCTTAAGATGACGAAGAATGATAAAGGTACCAATATACTG
Found at i:605395 original size:51 final size:51
Alignment explanation
Indices: 605295--605395 Score: 112
Period size: 51 Copynumber: 2.0 Consensus size: 51
605285 GATGAGAAGA
* * * * * *
605295 ATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAG
1 ATGACAAAGGTGCCAATACGCTAATTCAAGGCCAACGACATTGGACTTAAG
* * * *
605346 ATGACAAAGGTGCCAATGCGCTAATTCAAGGCTAATGACATTTGACTTAA
1 ATGACAAAGGTGCCAATACGCTAATTCAAGGCCAACGACATTGGACTTAA
605396 AAATGAGAAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.26
Consensus pattern (51 bp):
ATGACAAAGGTGCCAATACGCTAATTCAAGGCCAACGACATTGGACTTAAG
Found at i:605597 original size:52 final size:52
Alignment explanation
Indices: 605484--605611 Score: 193
Period size: 52 Copynumber: 2.5 Consensus size: 52
605474 AAGGTGTCGA
* * * *
605484 TCAAGGCCAACGATATTAGACTTAAAGATAACAAAGGTGCCAATGTGCTGAT
1 TCAAGGCCAGCGATATTGGACTTAAAGATAACAAAAGTGCCAATGCGCTGAT
*
605536 TCAAGGCCAGCGATATTGGACTTAAAGATGACAAAAGTGCCAATGCGCTGAT
1 TCAAGGCCAGCGATATTGGACTTAAAGATAACAAAAGTGCCAATGCGCTGAT
* *
605588 TCAAGGCCAGCAACATTGGACTTA
1 TCAAGGCCAGCGATATTGGACTTA
605612 GAAAGAAATG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.22
Consensus pattern (52 bp):
TCAAGGCCAGCGATATTGGACTTAAAGATAACAAAAGTGCCAATGCGCTGAT
Found at i:605808 original size:31 final size:31
Alignment explanation
Indices: 605668--606424 Score: 642
Period size: 32 Copynumber: 23.7 Consensus size: 31
605658 GGCATTAGGC
* ** *
605668 TTAGAAGGAGATGCCACTAACTTGTGTAGGCT
1 TTAGAAGG-GTTGCCACCGACTTGTGTGGGCT
* * * *
605700 TTTGAGAGGGCTGCCACCGACTTGTATAGGCT
1 TTAGA-AGGGTTGCCACCGACTTGTGTGGGCT
* * * * *
605732 TTTGAAGGGGTTTGCTACCGACGTATGT-GGAT
1 TTAGAA-GGG-TTGCCACCGACTTGTGTGGGCT
*
605764 TTGGAGAAGGGTTGCCACCGACTTGTGTGTGCT
1 TT--AGAAGGGTTGCCACCGACTTGTGTGGGCT
*
605797 TTA-AAGGGGTTGCCACTGACTTGTGTGGGCT
1 TTAGAA-GGGTTGCCACCGACTTGTGTGGGCT
* *
605828 TTGGAGAAGGGTTGCCATCGACTTGTGTGGGTT
1 TT--AGAAGGGTTGCCACCGACTTGTGTGGGCT
* ** *
605861 TTCGAAGGGTTGCCATTGACTTGTGTGAGCT
1 TTAGAAGGGTTGCCACCGACTTGTGTGGGCT
* *
605892 TTAGAATTGGTTGCCACCAACTTGTGTGGGCT
1 TTAGAA-GGGTTGCCACCGACTTGTGTGGGCT
* *
605924 TTCA-AAGGGTTGCCACCAACTTGTGTTGGCT
1 TT-AGAAGGGTTGCCACCGACTTGTGTGGGCT
* * * *
605955 TAAAAAAAGGGGTTGCCATCGACTTGTGTGGGTT
1 T--TAGAA-GGGTTGCCACCGACTTGTGTGGGCT
* * * **
605989 TTAGAAGAGTTGCCACTGACTTATGTTCGCT
1 TTAGAAGGGTTGCCACCGACTTGTGTGGGCT
* * * *
606020 TTGAGAAAGGG-TGCCACCAATTTGTGTGAGCA
1 TT-AG-AAGGGTTGCCACCGACTTGTGTGGGCT
** *
606052 TTAGAAGAATTGCCATCGACTTGTGTGGGCT
1 TTAGAAGGGTTGCCACCGACTTGTGTGGGCT
*
606083 TTAGAAGGGGTGCCACCGACTTGTGTGGGCT
1 TTAGAAGGGTTGCCACCGACTTGTGTGGGCT
* *
606114 TTAGAAAGGGTTGCCACTGACTTGTGTAGGCT
1 TTAG-AAGGGTTGCCACCGACTTGTGTGGGCT
* * *
606146 TTTGAAGGGTTGCCACTGACTTGTGTGGGAT
1 TTAGAAGGGTTGCCACCGACTTGTGTGGGCT
* *
606177 TTGAAAAGGGTTGCCACCGACTTGTTTGGGCT
1 TT-AGAAGGGTTGCCACCGACTTGTGTGGGCT
* * *
606209 TTAGAAGAGGTTGCCACCAAGTTGTGTAGGCT
1 TTAGAAG-GGTTGCCACCGACTTGTGTGGGCT
* *
606241 TTAGAGAAGGGTTGACACCGACTTATGTGGGCT
1 TT--AGAAGGGTTGCCACCGACTTGTGTGGGCT
*
606274 TTAGAGAAGGTTGCCACCGACTTGTGTGGGCT
1 TTAGA-AGGGTTGCCACCGACTTGTGTGGGCT
* *
606306 TTGAGAAGGGTTACCATCGACTTGTGTGGGCT
1 TT-AGAAGGGTTGCCACCGACTTGTGTGGGCT
* * * *
606338 TTGAAAAGGGTTGCCACAGACTTGTATGGGAT
1 TT-AGAAGGGTTGCCACCGACTTGTGTGGGCT
* * *
606370 TTGAGAAGGTTTGCCACCAACTTGTGTAGGC-
1 TT-AGAAGGGTTGCCACCGACTTGTGTGGGCT
* *
606401 TTCGAAGGAGGTTGCCACCAACTT
1 TTAGAA-G-GGTTGCCACCGACTT
606425 TTTGATCTCC
Statistics
Matches: 588, Mismatches: 109, Indels: 56
0.78 0.14 0.07
Matches are distributed among these distances:
30 8 0.01
31 187 0.32
32 283 0.48
33 78 0.13
34 32 0.05
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.31
Consensus pattern (31 bp):
TTAGAAGGGTTGCCACCGACTTGTGTGGGCT
Found at i:606414 original size:64 final size:64
Alignment explanation
Indices: 605768--606418 Score: 550
Period size: 63 Copynumber: 10.2 Consensus size: 64
605758 GTGGATTTGG
* * *
605768 AGAAG-GGTTGCCACCGACTTGTGTGTGCTTT-A-AAGGGGTTGCCACTGACTTGTGTGGGCTTT
1 AGAAGAGGTTGCCACAGACTTGTGTGGGCTTTGAGAA-GGGTTGCCACCGACTTGTGTGGGCTTT
** ** *
605830 GGAGAAG-GGTTGCCATC-GACTTGTGTGGG-TTTTCGAAGGGTTGCCATTGACTTGTGTGAGCT
1 --AGAAGAGGTTGCCA-CAGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCT
605892 TT
63 TT
** * * *
605894 AGAATTGGTTGCCACCA-ACTTGTGTGGGCTTTCA-AAGGGTTGCCACCAACTTGTGTTGGCTTA
1 AGAAGAGGTTGCCA-CAGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTT-
*
605957 AA
64 -T
* * * * * * **
605959 AAAAGGGGTTGCCATC-GACTTGTGTGGG-TTTTAGAAGAGTTGCCACTGACTTATGTTCGCTTT
1 AGAAGAGGTTGCCA-CAGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTT
* * * * ** *
606022 GAGAA-AGGGTGCCACCA-ATTTGTGTGAGCATT-AGAAGAATTGCCATCGACTTGTGTGGGCTT
1 -AGAAGAGGTTGCCA-CAGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTT
606084 T
64 T
* * * *
606085 AGAAG-GGGTGCCACCGACTTGTGTGGGCTTT-AGAAAGGGTTGCCACTGACTTGTGTAGGCTTT
1 AGAAGAGGTTGCCACAGACTTGTGTGGGCTTTGAG-AAGGGTTGCCACCGACTTGTGTGGGCTTT
* * * * *
606148 TGAAG-GGTTGCCACTGACTTGTGTGGGATTTGAAAAGGGTTGCCACCGACTTGTTTGGGCTTT
1 AGAAGAGGTTGCCACAGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTT
* * * *
606211 AGAAGAGGTTGCCACCA-AGTTGTGTAGGCTTTAGAGAAGGGTTGACACCGACTTATGTGGGCTT
1 AGAAGAGGTTGCCA-CAGACTTGTGTGGGCTTT-GAGAAGGGTTGCCACCGACTTGTGTGGGCTT
606275 T
64 T
* * *
606276 AG-AGAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTACCATCGACTTGTGTGGGCTTT
1 AGAAG-AGGTTGCCACAGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTT
* * * * * *
606340 -GAAAAGGGTTGCCACAGACTTGTATGGGATTTGAGAAGGTTTGCCACCAACTTGTGTAGGC-TT
1 AGAAGA-GGTTGCCACAGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTT
*
606403 CGAAGGAGGTTGCCAC
1 AGAA-GAGGTTGCCAC
606419 CAACTTTTTG
Statistics
Matches: 480, Mismatches: 81, Indels: 52
0.78 0.13 0.08
Matches are distributed among these distances:
61 1 0.00
62 30 0.06
63 173 0.36
64 173 0.36
65 103 0.21
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (64 bp):
AGAAGAGGTTGCCACAGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTT
Found at i:607643 original size:33 final size:33
Alignment explanation
Indices: 607572--607767 Score: 180
Period size: 33 Copynumber: 6.2 Consensus size: 33
607562 CCTGTGATAC
*
607572 TCTTTTTCCTTTTAAGTCTACAACTCCGTGGCA
1 TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
607605 -C-----CCTTTTAAGTCCACAACTCCGTGGCA
1 TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
* **
607632 TCTTTTTCCTTTTAAGTCCATAACTTTGTGGCA
1 TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
* *
607665 CCTTGTT-CTTTCTAAGTCCACAACTCCGTGGCA
1 TCTTTTTCCTTT-TAAGTCCACAACTCCGTGGCA
* * *
607698 -C-CTTTCCTTTTAAG-CCTACACCTCCATGGCA
1 TCTTTTTCCTTTTAAGTCC-ACAACTCCGTGGCA
*
607729 TCCCTTTTTCC-TGTAAGTCCACAACTCCGTGGCA
1 T--CTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
*
607763 CCTTT
1 TCTTT
607768 AAGTCCAATA
Statistics
Matches: 131, Mismatches: 18, Indels: 29
0.74 0.10 0.16
Matches are distributed among these distances:
27 25 0.19
28 1 0.01
30 2 0.02
31 18 0.14
32 14 0.11
33 46 0.35
34 18 0.14
35 7 0.05
ACGTcount: A:0.18, C:0.32, G:0.13, T:0.37
Consensus pattern (33 bp):
TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
Found at i:607836 original size:49 final size:48
Alignment explanation
Indices: 607764--608621 Score: 627
Period size: 49 Copynumber: 18.0 Consensus size: 48
607754 TCCGTGGCAC
* **
607764 CTTTAAGTCCAATATCGCTGGCCTTGATTCAATATATTGGCACCTTTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
* * *
607812 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C----
1 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
* * *
607856 CTTTAAGTCTAATATCGCTGGCCTTGAATCAACAGATTGGCACCTTTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
* * *
607904 CCATCTTGAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACGTTTA
1 -C-T-TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
* * *
607955 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C----
1 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
* *
607999 CTTTAAGTCTAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
* *
608047 CCATATTGAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGT-
1 -C-T-TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TA
* * * * *
608098 CTTTAAGACTAATGTCGCTGGCCTTAAATCAGCACATTGGCA----TA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
*
608142 ---T--GCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TA
* * *
608186 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG---C---A
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
* * *
608228 ---TAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTAACCA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT---TA
* * * * *
608276 TCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
* *
608325 TCTTTAAGTCTAACATCGCTGGCCTTGAATCAGCATATTGGCA-C----
1 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
* * ** * *
608369 CTTTAAG-CCTAATGTTGCTGGCCTTGAATCAGCGCATCGGCACCTTCA
1 CTTTAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
* * *
608417 TCTTTAAGTCCAATATCACTGGCCTTGAATTAGCATATTGGCTCCTTCATCA
1 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT--T-A
** *
608469 TCTTTAAACCCAATATCGCTGGCCTTGAATCAGCATATTGGCATTCTTCTCA
1 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTT-T-A
* ** * * * * * **
608521 TCTTCAAGTATAATGTCGCTGACCATGAATCAGCACATTGACATTTTTTACA
1 -CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTT--A
* * *
608573 TCTTTAAGCCCAATATCACTAGTCC-TGAATCAGCATATTGGCACCTTTA
1 -CTTTAAGTCCAATATCGCT-GGCCTTGAATCAGCATATTGGCACCTTTA
608622 TCACTCTTTT
Statistics
Matches: 646, Mismatches: 108, Indels: 110
0.75 0.12 0.13
Matches are distributed among these distances:
39 64 0.10
41 1 0.00
42 3 0.00
43 108 0.17
44 5 0.01
46 1 0.00
47 1 0.00
48 36 0.06
49 180 0.28
50 6 0.01
51 85 0.13
52 150 0.23
53 6 0.01
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (48 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
Found at i:608027 original size:143 final size:141
Alignment explanation
Indices: 607766--608560 Score: 756
Period size: 143 Copynumber: 5.6 Consensus size: 141
607756 CGTGGCACCT
* **
607766 TTAAGTCCAATATCGCTGGCCTTGATTCAATATATTGGCACCTTTATCTTTAAGACCAATGTCGC
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTATCTTTAAGACCAATGTCGC
* * *
607831 TGGCCTTGAATCAGCACATTGGCACCTTTAAGTCTAATATCGCTGGCCTTGAATCAACAGATTGG
65 TGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
607896 CACCTTTACCATC
130 CACCTTTA-CATC
* *
607909 TTGAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACGTTTATCTTTAAGACCAATGTCGC
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC-TTTATCTTTAAGACCAATGTCGC
* *
607974 TGGCCTTGAATCAGCACATTGGCACCTTTAAGTCTAATATCGCTGGCCTTGAATTAGCATATTGG
65 TGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
*
608039 CACCTTTACCATA
130 CACCTTTA-CATC
* * * * *
608052 TTGAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACTAATGTCGCT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGACCAATGTCGCT
* * *
608117 GGCCTTAAATCAGCACATTGGCA----TATGCCCAATATCGCTGGCCTTGAATCAGCATATTGGC
66 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
608178 ACCTTGTAC-T-
131 ACCTT-TACATC
* * * * *
608188 TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG--C---A----TAAGCCCAATATCGCT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGACCAATGTCGCT
* * * * *
608244 GGCCTTGAATCAACATATTGGCACCTTAACCATCTTTAAGACCAATGTTGCTGGCCTTGAATCAG
66 GGCCTTGAATCAGCACATTGG---C---A-C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAG
*
608309 CACATTGGCACC-TT-CATC
122 CATATTGGCACCTTTACATC
* * *
608327 TTTAAGTCTAACATCGCTGGCCTTGAATCAGCATATTGGCAC-----CTTTAAG-CCTAATGTTG
1 -TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGACC-AATGTCG
* * * *
608386 CTGGCCTTGAATCAGCGCATCGGCACCTTCATCTTTAAGTCCAATATCACTGGCCTTGAATTAGC
64 CTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
* *
608451 ATATTGGCTCCTTCATCATC
123 ATATTGGCACCTTTA-CATC
** * *
608471 TTTAAACCCAATATCGCTGGCCTTGAATCAGCATATTGGCATTCTTCTCATCTTCAAGTA-TAAT
1 -TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--CTT-T-ATCTTTAAG-ACCAAT
* *
608535 GTCGCTGACCATGAATCAGCACATTG
60 GTCGCTGGCCTTGAATCAGCACATTG
608561 ACATTTTTTA
Statistics
Matches: 544, Mismatches: 67, Indels: 72
0.80 0.10 0.11
Matches are distributed among these distances:
127 31 0.06
130 1 0.00
133 1 0.00
134 1 0.00
136 33 0.06
137 2 0.00
138 43 0.08
139 3 0.01
140 69 0.13
141 41 0.08
142 46 0.08
143 173 0.32
144 69 0.13
146 1 0.00
153 30 0.06
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (141 bp):
TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGACCAATGTCGCT
GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
ACCTTTACATC
Found at i:608167 original size:39 final size:39
Alignment explanation
Indices: 608112--608266 Score: 157
Period size: 39 Copynumber: 3.7 Consensus size: 39
608102 AAGACTAATG
*
608112 TCGCTGGCCTTAAATCAGCACATTGGCATATGCCCAATA
1 TCGCTGGCCTTGAATCAGCACATTGGCATATGCCCAATA
* * *
608151 TCGCTGGCCTTGAATCAGCATATTGGCACCTTGTACTTTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCA-----TA---T--GCCCAATA
*
608200 TCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATA
1 TCGCTGGCCTTGAATCAGCACATTGGCATATGCCCAATA
* *
608239 TCGCTGGCCTTGAATCAACATATTGGCA
1 TCGCTGGCCTTGAATCAGCACATTGGCA
608267 CCTTAACCAT
Statistics
Matches: 96, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
39 58 0.60
44 4 0.04
47 1 0.01
49 33 0.34
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (39 bp):
TCGCTGGCCTTGAATCAGCACATTGGCATATGCCCAATA
Found at i:608226 original size:88 final size:88
Alignment explanation
Indices: 608058--608318 Score: 416
Period size: 88 Copynumber: 2.9 Consensus size: 88
608048 CATATTGAGT
* *
608058 CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGT-CTTTAAGACTAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTACTTTAAGACCAATGTCGCTGGCCT
* *
608122 TAAATCAGCACATTGGCATATGC
66 TGAATCAGCACATTGGCATAAGC
608145 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTACTTTAAGACCAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTACTTTAAGACCAATGTCGCTGGCCT
608210 TGAATCAGCACATTGGCATAAGC
66 TGAATCAGCACATTGGCATAAGC
* ** *
608233 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTAACCATCTTTAAGACCAATGTTGCTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT--GTA-CTTTAAGACCAATGTCGCTGG
608298 CCTTGAATCAGCACATTGGCA
63 CCTTGAATCAGCACATTGGCA
608319 CCTTCATCTT
Statistics
Matches: 162, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
87 39 0.24
88 81 0.50
90 1 0.01
91 41 0.25
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (88 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTACTTTAAGACCAATGTCGCTGGCCT
TGAATCAGCACATTGGCATAAGC
Found at i:608316 original size:52 final size:50
Alignment explanation
Indices: 608228--608619 Score: 306
Period size: 52 Copynumber: 7.9 Consensus size: 50
608218 CACATTGGCA
* *
608228 TAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTAACCATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-A-CATCTT
* * *
608280 TAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTT-CATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTACATCTT
* * *
608329 TAAGTCTAACATCGCTGGCCTTGAATCAGCATATTGG---C--AC--CTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTACATCTT
* * ** *
608372 TAAG-CCTAATGTTGCTGGCCTTGAATCAGCGCATCGGCACCTT-CATCTT
1 TAAGACC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTACATCTT
* * * *
608421 TAAGTCCAATATCACTGGCCTTGAATTAGCATATTGGCTCCTTCATCATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-A-CATCTT
* *
608473 TAA-ACCCAATATCGCTGGCCTTGAATCAGCATATTGGCATTCTTCTCATCTT
1 TAAGA-CCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTT-ACATCTT
* * * * * * * **
608525 CAAGTA-TAATGTCGCTGACCATGAATCAGCACATTGACATTTTTTACATCTT
1 TAAG-ACCAATATCGCTGGCCTTGAATCAGCATATTGGCA--CCTTACATCTT
* * *
608577 TAAGCCCAATATCACTAGTCC-TGAATCAGCATATTGGCACCTT
1 TAAGACCAATATCGCT-GGCCTTGAATCAGCATATTGGCACCTT
608620 TATCACTCTT
Statistics
Matches: 269, Mismatches: 51, Indels: 42
0.74 0.14 0.12
Matches are distributed among these distances:
42 1 0.00
43 31 0.12
45 1 0.00
46 2 0.01
47 1 0.00
49 72 0.27
50 4 0.01
52 145 0.54
53 11 0.04
54 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (50 bp):
TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTACATCTT
Found at i:608397 original size:92 final size:92
Alignment explanation
Indices: 608277--608463 Score: 295
Period size: 92 Copynumber: 2.0 Consensus size: 92
608267 CCTTAACCAT
* *
608277 CTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAACATC
1 CTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATCGGCACCTTCATCTTTAAGTCCAACATC
*
608342 GCTGGCCTTGAATCAGCATATTGGCAC
66 ACTGGCCTTGAATCAGCATATTGGCAC
* *
608369 CTTTAAG-CCTAATGTTGCTGGCCTTGAATCAGCGCATCGGCACCTTCATCTTTAAGTCCAATAT
1 CTTTAAGACC-AATGTTGCTGGCCTTGAATCAGCACATCGGCACCTTCATCTTTAAGTCCAACAT
* *
608433 CACTGGCCTTGAATTAGCATATTGGCTC
65 CACTGGCCTTGAATCAGCATATTGGCAC
608461 CTT
1 CTT
608464 CATCATCTTT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
91 2 0.02
92 85 0.98
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATCGGCACCTTCATCTTTAAGTCCAACATC
ACTGGCCTTGAATCAGCATATTGGCAC
Found at i:611785 original size:48 final size:50
Alignment explanation
Indices: 611714--611811 Score: 155
Period size: 48 Copynumber: 2.0 Consensus size: 50
611704 CGAAATATGA
*
611714 AAATTTGCCTGCATGTATCGATACA-T-TGATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTATAATGTATCGATACATCTGGGC
611762 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGG
1 AAATTTGCCTGCATGTATCGATACA--TTATAATGTATCGATACATCTGG
611812 CAATTGCTGC
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
48 25 0.56
51 1 0.02
52 19 0.42
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (50 bp):
AAATTTGCCTGCATGTATCGATACATTATAATGTATCGATACATCTGGGC
Found at i:611868 original size:28 final size:29
Alignment explanation
Indices: 611793--611868 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 29
611783 TACATTTTAT
611793 AATGTATCGATACATCTGGCAATTGCTGC
1 AATGTATCGATACATCTGGCAATTGCTGC
611822 ATAATTATGTATCGATACATCTGGCAATTGCTGC
1 ---A--ATGTATCGATACATCTGGCAATTGCTGC
611856 -ATGTATCGATACA
1 AATGTATCGATACA
611869 AAGATCAGTG
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
28 13 0.31
32 1 0.02
34 28 0.67
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (29 bp):
AATGTATCGATACATCTGGCAATTGCTGC
Found at i:611895 original size:13 final size:13
Alignment explanation
Indices: 611877--611901 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
611867 CAAAGATCAG
611877 TGTATCGATACAA
1 TGTATCGATACAA
611890 TGTATCGATACA
1 TGTATCGATACA
611902 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:611982 original size:13 final size:13
Alignment explanation
Indices: 611964--611988 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
611954 CAAAAAAATA
611964 TGTATCGATACAT
1 TGTATCGATACAT
611977 TGTATCGATACA
1 TGTATCGATACA
611989 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:613037 original size:21 final size:21
Alignment explanation
Indices: 612970--613037 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
612960 AAAGATGGAA
*
612970 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* ** *
612991 AA-G-GCCAGCTGTATTGGACTTA
1 AAGGTGCCA-ATGTGCT-GA-TTC
613013 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
613034 AAGG
1 AAGG
613038 CCAGCTACAT
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 10 0.30
22 6 0.18
23 5 0.15
24 4 0.12
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:613085 original size:49 final size:47
Alignment explanation
Indices: 612925--613288 Score: 383
Period size: 43 Copynumber: 7.8 Consensus size: 47
612915 AACAGGATGT
* *
612925 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTT-AAGA--G--AAGGTGC
**
612977 CAATATGCTGATTCAAGGCCAGCTGTATTGGACTT---A-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAGAGAAGGTGC
* *
613020 CAATGTGCTGATTCAAGGCCAGCTACATTGGTCTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTT-AAGA-GAAGGTGC
* * *
613069 CAATATGCTGATTCAAGGCTAGCGATATTGGACTT---A-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAGAGAAGGTGC
*
613112 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTT-AAGA-GAAGGTGC
* *
613161 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT---A-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAGAGAAGGTGC
* * *
613204 CAATGTGCTGATTCAAGACCAGCTACATTGGACTTAACGAAGAAGCTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAA-G-AGAAGGTGC
* * *
613253 CAAGATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
613289 GAAGGGTTGC
Statistics
Matches: 264, Mismatches: 30, Indels: 39
0.79 0.09 0.12
Matches are distributed among these distances:
43 114 0.43
45 2 0.01
47 2 0.01
48 2 0.01
49 113 0.43
52 31 0.12
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (47 bp):
CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAGAGAAGGTGC
Found at i:613107 original size:92 final size:92
Alignment explanation
Indices: 612925--613293 Score: 596
Period size: 92 Copynumber: 4.0 Consensus size: 92
612915 AACAGGATGT
*
612925 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATATGCTGATT
612990 CAAGGCCAGCTG-TATTGGACTTAAAGGTGC
63 CAAGGCCAGC-GATATTGGACTTAAAGGTGC
*
613020 CAATGTGCTGATTCAAGGCCAGCTACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
*
613085 GGCTAGCGATATTGGACTTAAAGGTGC
66 GGCCAGCGATATTGGACTTAAAGGTGC
613112 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
613177 GGCCAGCGATATTGGACTTAAAGGTGC
66 GGCCAGCGATATTGGACTTAAAGGTGC
* * * * *
613204 CAATGTGCTGATTCAAGACCAGCTACATTGGACTTAACGAAGAAGCTGCCAAGATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* *
613269 GGCCAGCTATATTGGGCTTAGAAGG
66 GGCCAGCGATATTGGACTTA-AAGG
613294 GTTGCCACCG
Statistics
Matches: 260, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
91 1 0.00
92 215 0.83
93 4 0.02
94 1 0.00
95 39 0.15
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
GGCCAGCGATATTGGACTTAAAGGTGC
Found at i:613129 original size:21 final size:20
Alignment explanation
Indices: 613062--613129 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
613052 CTTAAAGATG
613062 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
* *
613083 AAGGCTAGCGATATTG--GACTTA
1 AAGG-T-GCCA-ATTGCTGA-TTC
613105 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
613126 AAGG
1 AAGG
613130 CCAGCTACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (20 bp):
AAGGTGCCAATTGCTGATTC
Found at i:613332 original size:33 final size:33
Alignment explanation
Indices: 613288--613384 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 33
613278 TATTGGGCTT
613288 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
613321 AGAATGGTTGCCACCAACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
613353 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTA
613385 AAAAGAAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
32 30 0.51
33 29 0.49
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.29
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:613477 original size:35 final size:34
Alignment explanation
Indices: 613374--613528 Score: 238
Period size: 34 Copynumber: 4.5 Consensus size: 34
613364 CACCGACTTG
613374 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
* *
613408 AGTGGGCTTTAAAGAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
*
613442 TGTGGGCTTTAAAAAGAAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTAAAAAGAAAAA-GGTGCCACGGAGT
* *
613477 TGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
*
613511 TGTGGACTTTGAAAAAGA
1 TGTGGGCTTT-AAAAAGA
613529 TGCCACTGAC
Statistics
Matches: 109, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
34 72 0.66
35 37 0.34
ACGTcount: A:0.35, C:0.11, G:0.34, T:0.21
Consensus pattern (34 bp):
TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
Found at i:613501 original size:69 final size:68
Alignment explanation
Indices: 613374--613528 Score: 240
Period size: 69 Copynumber: 2.2 Consensus size: 68
613364 CACCGACTTG
*
613374 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTAGTGGGCTTTAAAGAGAAAAAGGTGCCACGG
1 TGTGGGCTTTAAAAAGAAAAAGGTGCCACAGAGTAGTGGGCTTTAAAGAGAAAAAGGTGCCACGG
613439 AGT
66 AGT
* *
613442 TGTGGGCTTTAAAAAGAAAAAGGGTGCCACAGAGTTGTGGGCTTTGAAA-AGAAGAAGGTGCCAC
1 TGTGGGCTTTAAAAAGAAAAA-GGTGCCACAGAGTAGTGGGCTTT-AAAGAGAAAAAGGTGCCAC
613506 GGAGT
64 GGAGT
*
613511 TGTGGACTTTGAAAAAGA
1 TGTGGGCTTT-AAAAAGA
613529 TGCCACTGAC
Statistics
Matches: 80, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
68 21 0.26
69 49 0.61
70 10 0.12
ACGTcount: A:0.35, C:0.11, G:0.34, T:0.21
Consensus pattern (68 bp):
TGTGGGCTTTAAAAAGAAAAAGGTGCCACAGAGTAGTGGGCTTTAAAGAGAAAAAGGTGCCACGG
AGT
Found at i:613542 original size:29 final size:29
Alignment explanation
Indices: 613457--613578 Score: 127
Period size: 29 Copynumber: 4.0 Consensus size: 29
613447 GCTTTAAAAA
* * *
613457 GAAAAAGGGTGCCACAGAGTTGTGGGCTTT
1 GAAAAA-GATGCCACTGACTTGTGGGCTTT
* * *
613487 GAAAAGAAGAAGGTGCCACGGAGTTGTGGACTTT
1 G-AAA-AAG-A--TGCCACTGACTTGTGGGCTTT
613521 GAAAAAGATGCCACTGACTTGTGGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
*
613550 GAAAAAGATGCCATTGACTTGTGGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
613579 TGAAGGATAA
Statistics
Matches: 80, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
29 46 0.57
30 1 0.01
31 5 0.06
32 5 0.06
33 3 0.04
34 20 0.25
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.25
Consensus pattern (29 bp):
GAAAAAGATGCCACTGACTTGTGGGCTTT
Found at i:614628 original size:13 final size:13
Alignment explanation
Indices: 614610--614635 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
614600 CAATTTTTTG
614610 TGTATCGATACAT
1 TGTATCGATACAT
614623 TGTATCGATACAT
1 TGTATCGATACAT
614636 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:614650 original size:32 final size:33
Alignment explanation
Indices: 614590--614653 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
614580 TACAAGCCAA
** *
614590 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
614623 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
614654 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:619303 original size:15 final size:15
Alignment explanation
Indices: 619267--619304 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
619257 TTCATCAATT
* *
619267 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
619282 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
619297 TCATTTTG
1 TCATTTTG
619305 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:623344 original size:13 final size:13
Alignment explanation
Indices: 623326--623351 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
623316 CAATTTTTTG
623326 TGTATCGATACAT
1 TGTATCGATACAT
623339 TGTATCGATACAT
1 TGTATCGATACAT
623352 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:623366 original size:32 final size:33
Alignment explanation
Indices: 623306--623369 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
623296 TACAAGCCAA
** *
623306 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
623339 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
623370 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:624899 original size:1 final size:1
Alignment explanation
Indices: 624893--624969 Score: 64
Period size: 1 Copynumber: 77.0 Consensus size: 1
624883 CATTCGGACC
** * * * * * * *
624893 TTTTTTTTTTTTGCTTTGTTTTTTTTTTTGTTTTTGTTTTGTTTTTGTTTTGTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
624958 CTTTTTTTTTTT
1 TTTTTTTTTTTT
624970 GTGGAGGACG
Statistics
Matches: 57, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (1 bp):
T
Found at i:624914 original size:16 final size:16
Alignment explanation
Indices: 624895--624971 Score: 86
Period size: 17 Copynumber: 4.8 Consensus size: 16
624885 TTCGGACCTT
*
624895 TTTTTTTTTTGCTTTG
1 TTTTTTTTTTGTTTTG
624911 TTTTTTTTTTTGTTTTTG
1 -TTTTTTTTTTG-TTTTG
*
624929 TTTTGTTTTTGTTTTG
1 TTTTTTTTTTGTTTTG
*
624945 TTTTGTTTTTT-TTCT-
1 TTTT-TTTTTTGTTTTG
624960 TTTTTTTTTTGT
1 TTTTTTTTTTGT
624972 GGAGGACGCC
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
14 6 0.11
15 5 0.09
16 12 0.23
17 26 0.49
18 4 0.08
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.86
Consensus pattern (16 bp):
TTTTTTTTTTGTTTTG
Found at i:624926 original size:11 final size:11
Alignment explanation
Indices: 624895--624971 Score: 79
Period size: 10 Copynumber: 7.1 Consensus size: 11
624885 TTCGGACCTT
624895 TTTTTTTTTTG
1 TTTTTTTTTTG
624906 CTTTGTTTTTTT-
1 -TTT-TTTTTTTG
*
624918 TTTTGTTTTTG
1 TTTTTTTTTTG
*
624929 TTTTGTTTTTG
1 TTTTTTTTTTG
*
624940 -TTTTGTTTTG
1 TTTTTTTTTTG
*
624950 TTTTTTTTCT-
1 TTTTTTTTTTG
624960 TTTTTTTTTTG
1 TTTTTTTTTTG
624971 T
1 T
624972 GGAGGACGCC
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
10 23 0.42
11 22 0.40
12 3 0.05
13 7 0.13
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:626591 original size:173 final size:173
Alignment explanation
Indices: 626253--626590 Score: 617
Period size: 173 Copynumber: 2.0 Consensus size: 173
626243 GGTCATTTTC
*
626253 TTGAAATTTTGGATATCCGAGATTTCATAATTGACCGAATATTCATTTTTATCGGATAAGAGTAA
1 TTGAAATTTTGGATATCCGAGATTTCATAACTGACCGAATATTCATTTTTATCGGATAAGAGTAA
*
626318 ATTGCATCAGTCGATGTTTTTTTTCAAGCTTTTCTCGGAGGTCCGGAGAAGTCGCAATTAATCGA
66 ATTGCATCAGTCAATGTTTTTTTTCAAGCTTTTCTCGGAGGTCCGGAGAAGTCGCAATTAATCGA
* *
626383 GTTAATTTTCGGTTTGAAAATCAAGGAATAAAAAAATGAAGGT
131 GTTAATTTTCGGTTTAAAAATCAAGAAATAAAAAAATGAAGGT
626426 TTGAAATTTTGGATATCCGAGATTTCATAACTGACCGAATATTCATTTTTATCGGATAAGAGTAA
1 TTGAAATTTTGGATATCCGAGATTTCATAACTGACCGAATATTCATTTTTATCGGATAAGAGTAA
626491 ATTGCATCAGTCAATGTTTTTTTT-AAGCTTTTCTCGGAGG-CTCGGAGAAGTCGCAATTAATCG
66 ATTGCATCAGTCAATGTTTTTTTTCAAGCTTTTCTCGGAGGTC-CGGAGAAGTCGCAATTAATCG
626554 AGTTAATTTTCGGTTTAAAAATCAAGAAATAAAAAAA
130 AGTTAATTTTCGGTTTAAAAATCAAGAAATAAAAAAA
626591 ACACGGGATG
Statistics
Matches: 160, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
171 1 0.01
172 72 0.45
173 87 0.54
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (173 bp):
TTGAAATTTTGGATATCCGAGATTTCATAACTGACCGAATATTCATTTTTATCGGATAAGAGTAA
ATTGCATCAGTCAATGTTTTTTTTCAAGCTTTTCTCGGAGGTCCGGAGAAGTCGCAATTAATCGA
GTTAATTTTCGGTTTAAAAATCAAGAAATAAAAAAATGAAGGT
Found at i:626671 original size:26 final size:27
Alignment explanation
Indices: 626601--626711 Score: 197
Period size: 27 Copynumber: 4.1 Consensus size: 27
626591 ACACGGGATG
626601 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
*
626628 GTGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
626655 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
*
626682 ATGGGCATGGAAT-AAGAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
626708 ATGG
1 ATGG
626712 AATGATGGAA
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
26 16 0.20
27 65 0.80
ACGTcount: A:0.45, C:0.07, G:0.32, T:0.15
Consensus pattern (27 bp):
ATGGGCATGGAATAAAAAAATGAAGGC
Found at i:628042 original size:79 final size:79
Alignment explanation
Indices: 627911--628102 Score: 348
Period size: 79 Copynumber: 2.4 Consensus size: 79
627901 GTTAAGTTTC
* *
627911 TCAATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGGCT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCT
627976 TTATTTCTAAAACA
66 TTATTTCTAAAACA
*
627990 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCT
628055 TTATTTCTAAAACA
66 TTATTTCTAAAACA
*
628069 TCAATTTTTCATAATCGGGGATACTCTAACCCCG
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCG
628103 ATTTTATTTT
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 109 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.31
Consensus pattern (79 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCT
TTATTTCTAAAACA
Found at i:628110 original size:51 final size:52
Alignment explanation
Indices: 628034--628154 Score: 156
Period size: 52 Copynumber: 2.3 Consensus size: 52
628024 TTATTTCCGA
* *
628034 GGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACATCAATTTTT-CATAATC
1 GGGGATACTCTAACCCCGATTTTATTTTCTAAAACA-CAATTTTTCCATAATC
* * **
628085 GGGGATACTCTAACCCCGATTTTATTTTTTAGAACACTGTTTTTCCATAATC
1 GGGGATACTCTAACCCCGATTTTATTTTCTAAAACACAATTTTTCCATAATC
*
628137 GAGGATACTCTAACCCCG
1 GGGGATACTCTAACCCCG
628155 TTATTATCTC
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
51 28 0.46
52 33 0.54
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (52 bp):
GGGGATACTCTAACCCCGATTTTATTTTCTAAAACACAATTTTTCCATAATC
Found at i:634305 original size:61 final size:60
Alignment explanation
Indices: 634235--634866 Score: 886
Period size: 61 Copynumber: 10.5 Consensus size: 60
634225 TAGCCCTTCA
* * * * *
634235 AGTCCTCAAAGAGCAAGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCATTCTTC
1 AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA-CCTTT
* * *
634296 AGTCCTCAAAGAGCAGG--A-C---GCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCT
1 AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCAC-CTT-T
* * * *
634352 AGTCCTCAAATAGCAGGACAACTTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGAC-ACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
*
634413 AGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
* *
634473 AGCCCTCAAAGAGCAGGACAACTTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACACCTT-TTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
*
634534 AGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
*
634594 AGTCCTCAAAGAGCAGGACAACTTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACACCTT-TTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
* *
634655 AGTCCTCAAAGAGCATGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
* *
634715 AGTCCTCAAAGAGCAGGACAACTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGAC-ACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
* * *
634776 AGTCCTCAAAGCGCAGGACACCTCTT-CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCT
1 AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTT--T
*
634836 AGTCCTCAAAGAGCAGGA-AACTTTCTCCTTT
1 AGTCCTCAAAGAGCAGGACACCTTT-TCCTTT
634867 CACCCTTTAG
Statistics
Matches: 516, Mismatches: 39, Indels: 32
0.88 0.07 0.05
Matches are distributed among these distances:
55 30 0.06
56 16 0.03
58 4 0.01
59 32 0.06
60 194 0.38
61 209 0.41
62 2 0.00
63 29 0.06
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (60 bp):
AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
Found at i:634506 original size:121 final size:120
Alignment explanation
Indices: 634235--634866 Score: 958
Period size: 121 Copynumber: 5.3 Consensus size: 120
634225 TAGCCCTTCA
* * * * * *
634235 AGTCCTCAAAGAGCAAGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCATTCTTCAGTC
1 AGTCCTCAAAGAGCAGGACAACTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA-CCTTTAGTC
* * *
634300 CTCAAAGAGCAGG--A---C-GCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCT
65 CTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCAC-CTT-T
* * *
634352 AGTCCTCAAATAGCAGGACAACTTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCACCTTTAGTC
1 AGTCCTCAAAGAGCAGGACAAC-TTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTC
634417 CTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
65 CTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
*
634473 AGCCCTCAAAGAGCAGGACAACTTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTC
1 AGTCCTCAAAGAGCAGGACAACTT-TTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTC
634538 CTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
65 CTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
634594 AGTCCTCAAAGAGCAGGACAACTTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTC
1 AGTCCTCAAAGAGCAGGACAACTT-TTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTC
*
634659 CTCAAAGAGCATGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
65 CTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
*
634715 AGTCCTCAAAGAGCAGGACAACTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTC
1 AGTCCTCAAAGAGCAGGACAAC-TTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTC
* *
634780 CTCAAAGCGCAGGACACCTCTT-CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCT
65 CTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTT--T
634836 AGTCCTCAAAGAGCAGGA-AACTTTCTCCTTT
1 AGTCCTCAAAGAGCAGGACAACTTT-TCCTTT
634867 CACCCTTTAG
Statistics
Matches: 482, Mismatches: 21, Indels: 21
0.92 0.04 0.04
Matches are distributed among these distances:
117 39 0.08
118 31 0.06
119 7 0.01
120 37 0.08
121 334 0.69
122 5 0.01
123 29 0.06
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (120 bp):
AGTCCTCAAAGAGCAGGACAACTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTAGTCC
TCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
Found at i:634942 original size:99 final size:101
Alignment explanation
Indices: 634771--634961 Score: 289
Period size: 99 Copynumber: 1.9 Consensus size: 101
634761 GTTGGTGGCA
* *
634771 CCTTTAGTCCTCAAAGCGCAGGACACCTCTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
1 CCTTTAGTCCTCAAAGAGCAGGACACCTCTTCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCT
634836 AGTCCTCAAAGAGCAGGA-A-ACTTTCTCCTTTCAC
66 AGTCCTCAAAGAGCAGGACACACTTTCTCCTTTCAC
** * * *
634870 CCTTTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTCAAAGCCCACACAGGTTGGTGGCACCTTCC
1 CCTTTAGTCCTCAAAGAGCAGGACACCTCTTCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTCC
634935 -AGTCCTCAAAGAGCAGGACACACTTTC
65 TAGTCCTCAAAGAGCAGGACACACTTTC
634962 CTTTTAAAGC
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
99 70 0.85
100 6 0.07
101 6 0.07
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (101 bp):
CCTTTAGTCCTCAAAGAGCAGGACACCTCTTCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCT
AGTCCTCAAAGAGCAGGACACACTTTCTCCTTTCAC
Found at i:635316 original size:60 final size:60
Alignment explanation
Indices: 634870--635328 Score: 671
Period size: 60 Copynumber: 7.6 Consensus size: 60
634860 CTCCTTTCAC
** * * *
634870 CCTTTAGTCCTCAAAGAGCAGGA-TGCTTTTTCTTTCAAAGCCCACAC-AGGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGA-GTTGGTGGCA
* *
634929 CCTTCCAGTCCTCAAAGAGCAGGACACACT-TTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTT-TAGTCCTCAAAGAGCAGGACAC-CTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
* * *
634990 CTTCTCTAGTCCTCAAAGAGCAGGACGCCT-TCGCCTTTTAAAGCCCACACGAGTTGGTGGCA
1 C--CTTTAGTCCTCAAAGAGCAGGACACCTCT-TCCTTTTAAAGCCCACACGAGTTGGTGGCA
635052 CCTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
635112 CCTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
*
635172 CCTTTAGTCCTCAAAGAGCAGGACAACATCTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGAC-ACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
*
635233 CCTTTAGTCCTCAAAGAGCAGGACACCTCTT-CTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
635292 -CTTCCTAGTCCTCAAAGAGCAGGACA-CTCTCTCCTTT
1 CCTT--TAGTCCTCAAAGAGCAGGACACCTCT-TCCTTT
635329 CACCTTTTAG
Statistics
Matches: 371, Mismatches: 16, Indels: 24
0.90 0.04 0.06
Matches are distributed among these distances:
58 3 0.01
59 35 0.09
60 184 0.50
61 95 0.26
62 52 0.14
63 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (60 bp):
CCTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
Found at i:635409 original size:61 final size:60
Alignment explanation
Indices: 635329--635841 Score: 642
Period size: 60 Copynumber: 8.4 Consensus size: 60
635319 TCTCTCCTTT
* ** *
635329 CACCTTTTAGTCCTTAAAGAGCAGGA-TGCTTTTTCTTTTCAAAGCCCACATAG-GTTGGTGG
1 CACC-TTTAGTCCTCAAAGAGCAGGACAACTTTTCCTTTT-AAAGCCCACA-AGAGTTGGTGG
* * *
635390 CACCTTCCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACA-AGCTGGTGG
1 CACCTT-TAGTCCTCAAAGAGCAGGACAACTTTTCCTTTTAAAGCCCACA-AGAGTTGGTGG
* ** ** *
635451 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTCGCCTTTTAAAGCCCACATGAGTTGGTGG
1 CAC-CTT-TAGTCCTCAAAGAGCAGGACAACTTTTCCTTTTAAAGCCCACAAGAGTTGGTGG
* * * *
635513 CACCTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACATGATTTGGTGG
1 CACCTTTAGTCCTCAAAGAGCAGGACAACTTTTCCTTTTAAAGCCCACAAGAGTTGGTGG
*
635573 CACCTTTAGTCCTCAAAGAGCAGGACAACTTCTTCCTTTTAAAGCCCACACGAGTTGGTGG
1 CACCTTTAGTCCTCAAAGAGCAGGACAACTT-TTCCTTTTAAAGCCCACAAGAGTTGGTGG
* * * *
635634 CACTTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGG
1 CACCTTTAGTCCTCAAAGAGCAGGACAACTTTTCCTTTTAAAGCCCACAAGAGTTGGTGG
* *
635694 CACCTTTAGTCCTCAAAGAGCAGGACAACATCTTCCTTTTAAAGCCCACACGAGTTGGTGG
1 CACCTTTAGTCCTCAAAGAGCAGGACAAC-TTTTCCTTTTAAAGCCCACAAGAGTTGGTGG
* *
635755 CACCTTTAGTCCTCAAAGAGCAGGACACCTCTT-CTTTTAAAGCCCACACA-AGTTGGTGG
1 CACCTTTAGTCCTCAAAGAGCAGGACAACTTTTCCTTTTAAAGCCCACA-AGAGTTGGTGG
635814 CA-CTTCCTAGTCCTCAAAGAGCAGGACA
1 CACCTT--TAGTCCTCAAAGAGCAGGACA
635842 CTCTCTCCTT
Statistics
Matches: 411, Mismatches: 31, Indels: 21
0.89 0.07 0.05
Matches are distributed among these distances:
58 3 0.01
59 26 0.06
60 161 0.39
61 158 0.38
62 63 0.15
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (60 bp):
CACCTTTAGTCCTCAAAGAGCAGGACAACTTTTCCTTTTAAAGCCCACAAGAGTTGGTGG
Found at i:635428 original size:100 final size:98
Alignment explanation
Indices: 635231--635418 Score: 279
Period size: 100 Copynumber: 1.9 Consensus size: 98
635221 GAGTTGGTGG
635231 CACCTTTAGTCCTCAAAGAGCAGGACACCTCTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
1 CACCTTTAGTCCTCAAAGAGCAGGACACCTCTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
635296 CTAGTCCTCAAAGAGCAGGACACTCTCTCCTTT
66 CTAGTCCTCAAAGAGCAGGACACTCTCTCCTTT
* ** * * * *
635329 CACCTTTTAGTCCTTAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACATAGGTTGGTGGCACC
1 CACC-TTTAGTCCTCAAAGAGCAGGACACCTCTTCTTTT-AAAGCCCACACAAGTTGGTGGCA-C
635394 TTCC-AGTCCTCAAAGAGCAGGACAC
63 TTCCTAGTCCTCAAAGAGCAGGACAC
635419 CTTTTCCTTT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
98 4 0.05
99 29 0.36
100 42 0.52
101 5 0.06
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (98 bp):
CACCTTTAGTCCTCAAAGAGCAGGACACCTCTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
CTAGTCCTCAAAGAGCAGGACACTCTCTCCTTT
Found at i:635550 original size:60 final size:60
Alignment explanation
Indices: 635329--635852 Score: 718
Period size: 61 Copynumber: 8.6 Consensus size: 60
635319 TCTCTCCTTT
* ** * * *
635329 CACCTTTTAGTCCTTAAAGAGCAGGA-TGCTTTTTCTTTTCAAAGCCCACA-TAGGTTGGTGG
1 CACC-TTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTT-AAAGCCCACACGA-GTTGGTGG
* * * *
635390 CACCTTCCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGCTGGTGG
1 CACCTT-TAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGG
* * * *
635451 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCT-TCGCCTTTTAAAGCCCACATGAGTTGGTGG
1 CAC-CTT-TAGTCCTCAAAGAGCAGGACACCTCT-TCCTTTTAAAGCCCACACGAGTTGGTGG
* *
635513 CACCTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACATGATTTGGTGG
1 CACCTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGG
*
635573 CACCTTTAGTCCTCAAAGAGCAGGACAACTTCTTCCTTTTAAAGCCCACACGAGTTGGTGG
1 CACCTTTAGTCCTCAAAGAGCAGGAC-ACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGG
*
635634 CACTTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGG
1 CACCTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGG
*
635694 CACCTTTAGTCCTCAAAGAGCAGGACAACATCTTCCTTTTAAAGCCCACACGAGTTGGTGG
1 CACCTTTAGTCCTCAAAGAGCAGGAC-ACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGG
*
635755 CACCTTTAGTCCTCAAAGAGCAGGACACCTCTT-CTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGG
635814 CA-CTTCCTAGTCCTCAAAGAGCAGGACA-CTCTCTCCTTT
1 CACCTT--TAGTCCTCAAAGAGCAGGACACCTCT-TCCTTT
635853 CACCTTTTAG
Statistics
Matches: 424, Mismatches: 27, Indels: 24
0.89 0.06 0.05
Matches are distributed among these distances:
58 3 0.01
59 31 0.07
60 163 0.38
61 164 0.39
62 63 0.15
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (60 bp):
CACCTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGG
Found at i:635658 original size:121 final size:121
Alignment explanation
Indices: 635329--635841 Score: 741
Period size: 121 Copynumber: 4.2 Consensus size: 121
635319 TCTCTCCTTT
* ** * *
635329 CACCTTTTAGTCCTTAAAGAGCAGGA-TGCTT-TTTCTTTTCAAAGCCCACA-TAGGTTGGTGGC
1 CACC-TTTAGTCCTCAAAGAGCAGGACAACTTCTTCCTTTT-AAAGCCCACACGA-GTTGGTGGC
* * *
635391 ACCTTCCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGCTGGTGG
63 ACCTT-TAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACAAGTTGGTGG
* ** * *
635451 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTC-GCCTTTTAAAGCCCACATGAGTTGGTGGCA
1 CAC-CTT-TAGTCCTCAAAGAGCAGGACAACTTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
** *
635515 CCTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACATGATTTGGTGG
64 CCTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACAAGTTGGTGG
*
635573 CACCTTTAGTCCTCAAAGAGCAGGACAACTTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACT
1 CACCTTTAGTCCTCAAAGAGCAGGACAACTTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACC
*
635638 TTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGG
66 TTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACAAGTTGGTGG
*
635694 CACCTTTAGTCCTCAAAGAGCAGGACAACATCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACC
1 CACCTTTAGTCCTCAAAGAGCAGGACAACTTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACC
635759 TTTAGTCCTCAAAGAGCAGGACACCTCTT-CTTTTAAAGCCCACACAAGTTGGTGG
66 TTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACAAGTTGGTGG
635814 CA-CTTCCTAGTCCTCAAAGAGCAGGACA
1 CACCTT--TAGTCCTCAAAGAGCAGGACA
635842 CTCTCTCCTT
Statistics
Matches: 359, Mismatches: 24, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
119 3 0.01
120 51 0.14
121 198 0.55
122 56 0.16
123 42 0.12
124 9 0.03
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (121 bp):
CACCTTTAGTCCTCAAAGAGCAGGACAACTTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACC
TTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:635875 original size:160 final size:161
Alignment explanation
Indices: 635694--636002 Score: 466
Period size: 160 Copynumber: 1.9 Consensus size: 161
635684 GAGTTGGTGG
635694 CACCTTTAGTCCTCAAAGAGCAGGACAACATCTTCCTTTT-AAAGCCCACAC-GAGTTGGTGGCA
1 CACCTTTAGTCCTCAAAGAGCAGGA-AAC-TCTTCCTTTTCAAAGCCCACACAG-GTTGGTGGCA
*
635757 CCTT-TAGTCCTCAAAGAGCAGGACACCTCTT-CTTTTAAAGCCCACACAAGTTGGTGGCAC-TT
63 CCTTCCAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
635819 CCTAGTCCTCAAAGAGCAGGACACTCTCTCCTTT
128 CCTAGTCCTCAAAGAGCAGGACACTCTCTCCTTT
* ** * *
635853 CACCTTTTAGTCCTTAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAGGTTGGTGGCACC
1 CACC-TTTAGTCCTCAAAGAGCAGGAAACTCTTCCTTTTCAAAGCCCACACAGGTTGGTGGCACC
* * *
635918 TTCCAGTCCTCAGAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
65 TTCCAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCC
635983 TAGTCCTCAAAGAGCAGGAC
130 TAGTCCTCAAAGAGCAGGAC
636003 GCCTTCGCCT
Statistics
Matches: 135, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
158 8 0.06
159 30 0.22
160 45 0.33
161 29 0.21
162 23 0.17
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.27
Consensus pattern (161 bp):
CACCTTTAGTCCTCAAAGAGCAGGAAACTCTTCCTTTTCAAAGCCCACACAGGTTGGTGGCACCT
TCCAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCT
AGTCCTCAAAGAGCAGGACACTCTCTCCTTT
Found at i:635935 original size:61 final size:59
Alignment explanation
Indices: 635861--636787 Score: 949
Period size: 60 Copynumber: 15.5 Consensus size: 59
635851 TTCACCTTTT
* * * *
635861 AGTCCTTAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAGGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGACGCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTT-C
* * *
635922 AGTCCTCAGAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGGAC-GCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTC
**
635983 TAGTCCTCAAAGAGCAGGACGCCTTCGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 -AGTCCTCAAAGAGCAGGACG-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
* * *
636045 AGTCTTCAAAGAGCAGGACG-----CCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * ** *
636099 AGTCCTCAAAGAGCAGGACACATCTTCCTTTTAAAGCCCACATGAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
636159 AGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGAC-GCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* **
636219 AGTCCTCAAAGAGCAGGACAACTTTTTCCTTTTAAAGCCCACACAAACTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGAC-GC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
* * **
636281 AGTCCTCAAAGAGCAGGACGC-CTTCC----AAAGCCCACACAAGTTAGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTC
* * * * *
636336 AGTCCTCAAAGAGCAGGACACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGC---TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
636398 AGTCCTCAAAGAGCAGGACGCCTTTCCCATTTCAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACG-CTTTTCC-TTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
636459 AGTCCTCAAAGAGCAGGATG-TTTT--TTTTCCAAAGCCCACACAAGCTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCTTTTCCTTTT--AAAGCCCACACAAGTTGGTGGCACC-TTC
* * ** **
636518 AGTCCTCAAAGAGCAGGACGC-CTTCC----AAAGCCCATACAAGTTAATGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
* * * * *
636573 AGTCCTCAAAGAGCAGGACACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGC---TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
636635 AGTCCTCAAAGAGCAGGACACATCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
636695 AGTCCTCAAAGAGCAGAATGC-TTTCTTTTTGTAAAGCCCACACAAGTTGGTGGCA-CTTCC
1 AGTCCTCAAAGAGCAGGACGCTTTTC-CTTT-TAAAGCCCACACAAGTTGGTGGCACCTT-C
* *
636755 TAGTCCTCAAAGAGCAAGACGTTCTTTCCTTTT
1 -AGTCCTCAAAGAGCAGGACGCT-TTTCCTTTT
636788 CTTCCTTTCC
Statistics
Matches: 736, Mismatches: 84, Indels: 92
0.81 0.09 0.10
Matches are distributed among these distances:
54 22 0.03
55 113 0.15
56 3 0.00
58 27 0.04
59 43 0.06
60 189 0.26
61 158 0.21
62 132 0.18
63 49 0.07
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (59 bp):
AGTCCTCAAAGAGCAGGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:635952 original size:100 final size:98
Alignment explanation
Indices: 635755--635942 Score: 279
Period size: 100 Copynumber: 1.9 Consensus size: 98
635745 GAGTTGGTGG
635755 CACCTTTAGTCCTCAAAGAGCAGGACACCTCTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
1 CACCTTTAGTCCTCAAAGAGCAGGACACCTCTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
635820 CTAGTCCTCAAAGAGCAGGACACTCTCTCCTTT
66 CTAGTCCTCAAAGAGCAGGACACTCTCTCCTTT
* ** * * *
635853 CACCTTTTAGTCCTTAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAGGTTGGTGGCACC
1 CACC-TTTAGTCCTCAAAGAGCAGGACACCTCTTCTTTT-AAAGCCCACACAAGTTGGTGGCA-C
*
635918 TTCC-AGTCCTCAGAGAGCAGGACAC
63 TTCCTAGTCCTCAAAGAGCAGGACAC
635943 CTTTTCCTTT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
98 4 0.05
99 29 0.36
100 42 0.52
101 5 0.06
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (98 bp):
CACCTTTAGTCCTCAAAGAGCAGGACACCTCTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
CTAGTCCTCAAAGAGCAGGACACTCTCTCCTTT
Found at i:636348 original size:237 final size:235
Alignment explanation
Indices: 635857--636775 Score: 1228
Period size: 237 Copynumber: 3.9 Consensus size: 235
635847 TCCTTTCACC
* ** *
635857 TTTTAGTCCTTAAAGAGCAGGATGC-TTTTT-CTTTTCAAAGCCCACAC-AGGTTGGTGGCACCT
1 TTTTAGTCCTCAAAGAGCAGGACACTTTTTTCCTTTT-AAAGCCCACACGA-GTTAGTGGCACCT
* * * *
635919 TCCAGTCCTCAGAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCT
64 T-TAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTC-
* *** *
635984 AGTCCTCAAAGAGCAGGACGCCTTCGCCTTT-TAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
126 AGTCCTCAAAGAGCAGGAAG-CTT-TTTTTTCTAAAGCCCACACAAGCTGGTGGCACCTTTCAGT
* ** * * *
636048 CTTCAAAGAGCAGGACGCCTTTTAAAGCCCACACGAGTTGGTGGCAC
189 CCTCAAAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGTGGCAT
* * * * *
636095 CTTTAGTCCTCAAAGAGCAGGACAC-ATCTTCCTTTTAAAGCCCACATGAGTTGGTGGCACCTTT
1 TTTTAGTCCTCAAAGAGCAGGACACTTTTTTCCTTTTAAAGCCCACACGAGTTAGTGGCACCTTT
*
636159 AGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCC
66 AGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
* *
636224 TCAAAGAGCAGGACAACTTTTTCCTTT-TAAAGCCCACACAAACTGGTGGCACCTTTCAGTCCTC
131 TCAAAGAGCAGGA-AGCTTTTT--TTTCTAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTC
636288 AAAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGTGGCAT
193 AAAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGTGGCAT
*
636331 TTTTCAGTCCTCAAAGAGCAGGACACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCT
1 TTTT-AGTCCTCAAAGAGCAGGACAC-TTTTTTCCTTTTAAAGCCCACACGAGTTAGTGGCACCT
* *
636396 TTAGTCCTCAAAGAGCAGGACGCCT-TTCCCATTTCAAAGCCCACACAAGTTGGTGGCACCTTCA
64 TTAGTCCTCAAAGAGCAGGACACCTCTT-CC-TTTTAAAGCCCACACAAGTTGGTGGCACCTTCA
* *
636460 GTCCTCAAAGAGCAGGATG-TTTTTTTTCCAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCT
127 GTCCTCAAAGAGCAGGAAGCTTTTTTTTCTAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCT
* *
636524 CAAAGAGCAGGACGCCTTCCAAAGCCCATACAAGTTAATGGCAT
192 CAAAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGTGGCAT
* *
636568 TTTCCAGTCCTCAAAGAGCAGGACACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCT
1 TTT-TAGTCCTCAAAGAGCAGGACAC-TTTTTTCCTTTTAAAGCCCACACGAGTTAGTGGCACCT
*
636633 TTAGTCCTCAAAGAGCAGGACACATCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
64 TTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* * *
636698 CCTCAAAGAGCA-GAATGCTTTCTTTTTGTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCC
129 CCTCAAAGAGCAGGAA-GCTTT-TTTTTCTAAAGCCCACACAAGCTGGTGGCACCTTTC-AGTCC
*
636761 TCAAAGAGCAAGACG
191 TCAAAGAGCAGGACG
636776 TTCTTTCCTT
Statistics
Matches: 614, Mismatches: 50, Indels: 34
0.88 0.07 0.05
Matches are distributed among these distances:
235 23 0.04
236 130 0.21
237 246 0.40
238 103 0.17
239 64 0.10
240 48 0.08
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (235 bp):
TTTTAGTCCTCAAAGAGCAGGACACTTTTTTCCTTTTAAAGCCCACACGAGTTAGTGGCACCTTT
AGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
TCAAAGAGCAGGAAGCTTTTTTTTCTAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAA
GAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGTGGCAT
Found at i:636698 original size:414 final size:410
Alignment explanation
Indices: 635892--636770 Score: 1121
Period size: 414 Copynumber: 2.1 Consensus size: 410
635882 TTTTTCTTTT
* * *
635892 CAAAGCCCACACAGGTTGGTGGCACCTTCCAGTCCTCAGAGAGCAGGACACCTTTTCCTTTTAAA
1 CAAAGCCCACACAAGTTAGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAA
* * *
635957 GCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTCGCCTTTTAAAGCC
66 GCCCACACAAGTTAGTGGCACTCTTCTAGTCCTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCC
* * *
636022 CACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACGCCTTTTAAAGCCCACACGAGTT
131 CACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGCT
** **
636087 GGTGGCACCTTTAGTCCTCAAAGAGCAGGACACATCTTCCTTTTAAAGCCCACATGAGTTGGTGG
196 GGTGGCACCTTTAGTCCTCAAAGAGCAGGACACA-CTTCC---TAAAGCCCACACAAGTTAATGG
*
636152 CACCTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
257 CACCTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACAAGTTAGTGGCACCT
* *
636217 TTAGTCCTCAAAGAGCAGGACAACTTTTTCCTTTTAAAGCCCACACAAACTGGTGGCACCTTTCA
322 TTAGTCCTCAAAGAGCAGGACAACATCTTCCTTTTAAAGCCCACACAAACTGGTGGCACCTTTCA
636282 GTCCTCAAAGAGCAGGACGCCTTC
387 GTCCTCAAAGAGCAGGACGCCTTC
** * * *
636306 CAAAGCCCACACAAGTTAGTGGCATTTTTCAGTCCTCAAAGAGCAGGACACTTTTTTTCTTTTTA
1 CAAAGCCCACACAAGTTAGTGGCACCTTCCAGTCCTCAAAGAGCAGGACAC--CTTTTCCTTTTA
*
636371 AAGCCCACACGAGTTAGTGGCAC-CTT-TAGTCCTCAAAGAGCAGGACGCCTTTC-CCATTTCAA
64 AAGCCCACACAAGTTAGTGGCACTCTTCTAGTCCTCAAAGAGCAGGACGCC-TTCGCC-TTTCAA
* **
636433 AGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGATGTTTTTTTTCCAAAGCCCA
127 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG--CCTTTT--AAAGCCCA
* *
636497 CACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC-CTTCC-AAAGCCCATACAAGTT
188 CACAAGCTGGTGGCACCTTT-AGTCCTCAAAGAGCAGGACACACTTCCTAAAGCCCACACAAGTT
* * * * *
636560 AATGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACTTTTTTTCTTTTTAAAGCCCACACGAGTTA
252 AATGGCACCTTT--AGTCCTCAAAGAGCAGGACAC--CTCTTCCTTTTAAAGCCCACACAAGTTA
**
636624 GTGGCACCTTTAGTCCTCAAAGAGCAGGAC-ACATCTTCCTTTTAAAGCCCACACAAGTTGGTGG
313 GTGGCACCTTTAGTCCTCAAAGAGCAGGACAACATCTTCCTTTTAAAGCCCACACAAACTGGTGG
* * *
636688 CACC-TTCAGTCCTCAAAGAGCAGAATGCTTTCTTTTTG
378 CACCTTTCAGTCCTCAAAGAGCAGGACGC---C---TTC
* *
636726 TAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCA
1 CAAAGCCCACACAAGTTAGTGGCACCTTCC-AGTCCTCAAAGAGCA
636771 AGACGTTCTT
Statistics
Matches: 404, Mismatches: 41, Indels: 34
0.84 0.09 0.07
Matches are distributed among these distances:
412 3 0.01
413 18 0.04
414 134 0.33
415 67 0.17
416 88 0.22
417 6 0.01
418 26 0.06
419 23 0.06
420 39 0.10
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (410 bp):
CAAAGCCCACACAAGTTAGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAA
GCCCACACAAGTTAGTGGCACTCTTCTAGTCCTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCC
CACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGCT
GGTGGCACCTTTAGTCCTCAAAGAGCAGGACACACTTCCTAAAGCCCACACAAGTTAATGGCACC
TTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTAG
TCCTCAAAGAGCAGGACAACATCTTCCTTTTAAAGCCCACACAAACTGGTGGCACCTTTCAGTCC
TCAAAGAGCAGGACGCCTTC
Found at i:636873 original size:103 final size:98
Alignment explanation
Indices: 636692--636967 Score: 346
Period size: 103 Copynumber: 2.8 Consensus size: 98
636682 TGGTGGCACC
* * *
636692 TTCAGTCCTCAAAGAGCAGAATGCTTTCTTTTTGTAAAGCCCACACAAGTTGGTGGCACTTCCTA
1 TTCAGTCCTCAAAGAGCAGGACGCTTTC-TTTT-CAAAGCCCACACAAGTTGGTGGCACTTCCTA
* * *
636757 GTCCTCAAAGAGCAAGACGTTCTTTCCTTTTCTTCCT
64 GTCCTCAAAGAGCAAGACATTCTCTCC-TTTC-GCCT
636794 TTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCT
1 TT-CAGTCCTCAAAGAGCAGGACG-C-TTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCT
*
636859 AGTCCTCAAAGAGCAGGACATTCTCTCCTTTCGCCT
63 AGTCCTCAAAGAGCAAGACATTCTCTCCTTTCGCCT
** * *
636895 TTTTGTCCTCAAAGAGCAGGACAC---C-TTTCAAAGCCCACACAAGTTGGTGGCACTT-TTCAG
1 TTCAGTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCT-AG
636955 TCCTCAAAGAGCA
65 TCCTCAAAGAGCA
636968 GGATGCTTTC
Statistics
Matches: 159, Mismatches: 11, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
93 1 0.01
94 45 0.28
95 1 0.01
99 1 0.01
100 18 0.11
101 5 0.03
102 6 0.04
103 73 0.46
104 5 0.03
105 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (98 bp):
TTCAGTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGT
CCTCAAAGAGCAAGACATTCTCTCCTTTCGCCT
Found at i:637023 original size:61 final size:62
Alignment explanation
Indices: 636920--637089 Score: 226
Period size: 61 Copynumber: 2.8 Consensus size: 62
636910 GCAGGACACC
*
636920 TTTCAAAG-CCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATG-C-TTTCTT
1 TTTCAAAGACCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTC-T
* * *
636980 TTTGAAA-ATCCCACACTAGTTGGTGGCA-TCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCT
1 TTTCAAAGA-CCCACACAAGTTGGTGGCACT-TTTCAGTCCTCAAAGAGCAGGACGCCTTTTCT
*
637042 TTTCAAAGA-CCACACGAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCA
1 TTTCAAAGACCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCA
637090 TGACACACTT
Statistics
Matches: 96, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
60 7 0.07
61 75 0.78
62 9 0.09
63 5 0.05
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (62 bp):
TTTCAAAGACCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCT
Found at i:637123 original size:42 final size:41
Alignment explanation
Indices: 637076--637208 Score: 132
Period size: 42 Copynumber: 3.2 Consensus size: 41
637066 GCACTTTTCA
* *
637076 GTCCTCAAAGAGCATGACACACTTCTTTCTCTTTTTCACTTT
1 GTCCTCAAAGAGCAGGACACATTTCTTTCTCTTTTTC-CTTT
637118 GTCCTC-AAGAAGCAGGACAC-TTTCCTTT-TCTTCTTTTCCTTT
1 GTCCTCAAAG-AGCAGGACACATTT-CTTTCTC-T-TTTTCCTTT
* **
637160 GTCCTCAAGGAGCAGGAC-CTATTTCACTCTCTTTTT-CTTT
1 GTCCTCAAAGAGCAGGACAC-ATTTCTTTCTCTTTTTCCTTT
637200 GTCCTCAAA
1 GTCCTCAAA
637209 AAAAAAAAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
40 12 0.16
41 12 0.16
42 41 0.53
43 12 0.16
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.40
Consensus pattern (41 bp):
GTCCTCAAAGAGCAGGACACATTTCTTTCTCTTTTTCCTTT
Found at i:638009 original size:173 final size:173
Alignment explanation
Indices: 637671--638008 Score: 617
Period size: 173 Copynumber: 2.0 Consensus size: 173
637661 GGTCATTTTC
*
637671 TTGAAATTTTGGATATCCGAGATTTCATAATTGACCGAATATTCATTTTTATTGGATAAGAGTAA
1 TTGAAATTTTGGATATCCGAGATTTCATAACTGACCGAATATTCATTTTTATTGGATAAGAGTAA
*
637736 ATTGCATCAGTCGATGTTTTTTTTCAAGCTTTTCTCGGAGGTCGGGAGAAGTCGCAATTAATCGA
66 ATTGCATCAGTCAATGTTTTTTTTCAAGCTTTTCTCGGAGGTCGGGAGAAGTCGCAATTAATCGA
* *
637801 GTTAATTTTCGGTTTGAAAATCAAGGAATAAAAAAATGAAGGT
131 GTTAATTTTCGGTTTAAAAATCAAGAAATAAAAAAATGAAGGT
637844 TTGAAATTTTGGATATCCGAGATTTCATAACTGACCGAATATTCATTTTTATTGGATAAGAGTAA
1 TTGAAATTTTGGATATCCGAGATTTCATAACTGACCGAATATTCATTTTTATTGGATAAGAGTAA
637909 ATTGCATCAGTCAATGTTTTTTTT-AAGCTTTTCTCGGAGGCTC-GGAGAAGTCGCAATTAATCG
66 ATTGCATCAGTCAATGTTTTTTTTCAAGCTTTTCTCGGAGG-TCGGGAGAAGTCGCAATTAATCG
637972 AGTTAATTTTCGGTTTAAAAATCAAGAAATAAAAAAA
130 AGTTAATTTTCGGTTTAAAAATCAAGAAATAAAAAAA
638009 ACACGGGATG
Statistics
Matches: 160, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
172 71 0.44
173 89 0.56
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (173 bp):
TTGAAATTTTGGATATCCGAGATTTCATAACTGACCGAATATTCATTTTTATTGGATAAGAGTAA
ATTGCATCAGTCAATGTTTTTTTTCAAGCTTTTCTCGGAGGTCGGGAGAAGTCGCAATTAATCGA
GTTAATTTTCGGTTTAAAAATCAAGAAATAAAAAAATGAAGGT
Found at i:638049 original size:27 final size:27
Alignment explanation
Indices: 638019--638104 Score: 163
Period size: 27 Copynumber: 3.2 Consensus size: 27
638009 ACACGGGATG
638019 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
638046 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
*
638073 ATGGGCATGGAATAAAAAATTGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
638100 ATGGG
1 ATGGG
638105 ATAATGGGCA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.45, C:0.07, G:0.31, T:0.16
Consensus pattern (27 bp):
ATGGGCATGGAATAAAAAAATGAAGGC
Found at i:639488 original size:79 final size:79
Alignment explanation
Indices: 639357--639545 Score: 324
Period size: 79 Copynumber: 2.4 Consensus size: 79
639347 GTTAAGTTTC
*
639357 TCAATTTTTCACAATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGGCT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGGCT
639422 TTATTTCTAAAACA
66 TTATTTCTAAAACA
** * *
639436 TCAATTTTTCATAATCGGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGGCT
639501 TTATTTCTAAAACA
66 TTATTTCTAAAACA
*
639515 TCAATTTTTCATAATCGGGGATACTCTAACC
1 TCAATTTTTCATAATCGGGGATACTCCAACC
639546 TCGATTTTAT
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 104 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (79 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGGCT
TTATTTCTAAAACA
Found at i:639554 original size:51 final size:52
Alignment explanation
Indices: 639480--639600 Score: 156
Period size: 52 Copynumber: 2.3 Consensus size: 52
639470 TTATTTTCGA
* *
639480 GGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACATCAATTTTT-CATAATC
1 GGGGATACTCTAACCCCGATTTTATTTTCTAAAACA-CAATTTTTCCATAATC
* * * *
639531 GGGGATACTCTAACCTCGATTTTATTTTTTAGAACACTATTTTTCCATAATC
1 GGGGATACTCTAACCCCGATTTTATTTTCTAAAACACAATTTTTCCATAATC
*
639583 GAGGATACTCTAACCCCG
1 GGGGATACTCTAACCCCG
639601 TTATTATCTC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
51 28 0.47
52 32 0.53
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (52 bp):
GGGGATACTCTAACCCCGATTTTATTTTCTAAAACACAATTTTTCCATAATC
Found at i:653254 original size:52 final size:52
Alignment explanation
Indices: 653176--653324 Score: 239
Period size: 52 Copynumber: 2.9 Consensus size: 52
653166 CGAAATATGA
653176 AAATTTGCCTGCATGTATCGATACATTAAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTAAATAGTGTATCGATACATCTGGGC
** *
653228 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTAAATAGTGTATCGATACATCTGGGC
653280 AAATTTGCCTGCATGTATCGATACA--AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTAA-AT-AGTGTATCGATACA
653325 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 87 0.98
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTAAATAGTGTATCGATACATCTGGGC
Found at i:653331 original size:13 final size:13
Alignment explanation
Indices: 653313--653337 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
653303 CAAAGATCAG
653313 TGTATCGATACAA
1 TGTATCGATACAA
653326 TGTATCGATACA
1 TGTATCGATACA
653338 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:653405 original size:20 final size:20
Alignment explanation
Indices: 653376--653433 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
653366 GCAGTAGCTT
653376 AAAT-TGTATCGATACAAAA
1 AAATATGTATCGATACAAAA
*
653395 AAATATGTATCGATACAACA
1 AAATATGTATCGATACAAAA
***
653415 CTTTATGTATCGATACAAA
1 AAATATGTATCGATACAAA
653434 TCGTTGAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (20 bp):
AAATATGTATCGATACAAAA
Found at i:662568 original size:30 final size:30
Alignment explanation
Indices: 662527--663190 Score: 580
Period size: 30 Copynumber: 21.2 Consensus size: 30
662517 TTCAAACCTT
* *
662527 TCTTCTCAAAGTCCACAACTCAGTGGCATC
1 TCTTTTCAAAGTCCACGACTCAGTGGCATC
** *
662557 TCTTTTCAAAGTCCATAACTCAATGGCATC
1 TCTTTTCAAAGTCCACGACTCAGTGGCATC
*
662587 TCTTTTCTCAAAGTCCACAACTCAGTGGCATC
1 TC-TTT-TCAAAGTCCACGACTCAGTGGCATC
* *
662619 TTTTTTTCTTCAAAGTCCACGACTCAATGGCATC
1 ---TCTT-TTCAAAGTCCACGACTCAGTGGCATC
*
662653 TATTTTCTCAAAGTCCACGACTCAGTGGCATC
1 T-CTTT-TCAAAGTCCACGACTCAGTGGCATC
* *
662685 TTTTTTTCTTCAAAGTCCACGACTCAATGGCATC
1 ---TCTT-TTCAAAGTCCACGACTCAGTGGCATC
*
662719 TATTTTCTCAAAGTCCACGACTCAGTGGCATC
1 T-CTTT-TCAAAGTCCACGACTCAGTGGCATC
**
662751 T-TGTCCCAAAGTCCACGACTCAGTGGCATC
1 TCT-TTTCAAAGTCCACGACTCAGTGGCATC
* **
662781 TCTTCTCAAAGTCCATAACTCAGTGGCATC
1 TCTTTTCAAAGTCCACGACTCAGTGGCATC
* *
662811 TCTTTTCTCAAAGTCCACGACCCAATGGCATC
1 TC-TTT-TCAAAGTCCACGACTCAGTGGCATC
* * **
662843 TTTTTTCTTCAAAGTCCATGACTCAGTAGTAATC
1 --TCTT-TTCAAAGTCCACGACTCAGT-GGCATC
* * *
662877 TCTTCTCAAAGTCCATGACTCAGCGGCATC
1 TCTTTTCAAAGTCCACGACTCAGTGGCATC
** * *
662907 T-TGTCCCAAAGTCCATGACTTAGTGGCATC
1 TCT-TTTCAAAGTCCACGACTCAGTGGCATC
* *
662937 TTTTTTTCAAAGTCCACGACTCAATGGCATC
1 -TCTTTTCAAAGTCCACGACTCAGTGGCATC
* *
662968 TCTTTTCTAAGTCCACGACTCAATGGCATC
1 TCTTTTCAAAGTCCACGACTCAGTGGCATC
* *
662998 -CTTTCTTCCAAGTCCATGACTCAGTGGCATC
1 TC-TT-TTCAAAGTCCACGACTCAGTGGCATC
* *
663029 TTTTCTTCTTCAAAGTCCACGACTCAATGCCATC
1 ---TCTT-TTCAAAGTCCACGACTCAGTGGCATC
* *
663063 TCTTTCCAAAGTCCATGACTCAGTGGCATC
1 TCTTTTCAAAGTCCACGACTCAGTGGCATC
* *
663093 TTTTCTTCAAAGTCCACGACTTAGTGGCAATC
1 TCTT-TTCAAAGTCCACGACTCAGTGGC-ATC
* *
663125 TCTTCTCAAAGTCCATGACTCAGTGGCATC
1 TCTTTTCAAAGTCCACGACTCAGTGGCATC
* * * * *
663155 CCTTTTCAAAGCCCACAACTCCGTGGTA-C
1 TCTTTTCAAAGTCCACGACTCAGTGGCATC
663184 TCTTTTC
1 TCTTTTC
663191 CCTTTTGAGT
Statistics
Matches: 532, Mismatches: 69, Indels: 67
0.80 0.10 0.10
Matches are distributed among these distances:
29 9 0.02
30 189 0.36
31 119 0.22
32 109 0.20
33 18 0.03
34 83 0.16
35 5 0.01
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (30 bp):
TCTTTTCAAAGTCCACGACTCAGTGGCATC
Found at i:662887 original size:126 final size:124
Alignment explanation
Indices: 662527--663190 Score: 724
Period size: 126 Copynumber: 5.3 Consensus size: 124
662517 TTCAAACCTT
**
662527 TCTTCTCAAAGTCCACAACTCAGTGGCATCTC-TTT-TCAAAGTCCATAACTCAATGGCATCTCT
1 TCTTCTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTCAAAGTCCACGACTCAATGGCATCTCT
* * * *
662590 TTTCTCAAAGTCCACAACTCAGTGGCATCTTTTTTTCTTCAAAGTCCACGACTCAATGGCATC
66 TTTCTCAAAGTCCACGACTCAGTGGCATC---TCTTC-TCAAAGTCCATGACTCAGTGGCATC
* * *
662653 TATTTTCTCAAAGTCCACGACTCAGTGGCATCTTTTTTTCTTCAAAGTCCACGACTCAATGGCAT
1 --TCTTCTCAAAGTCCACAACTCAGTGGCATC-TCTTTTC-TCAAAGTCCACGACTCAATGGCAT
* * *
662718 CTATTTTCTCAAAGTCCACGACTCAGTGGCATCT-TGTCCCAAAGTCCACGACTCAGTGGCATC
62 CTCTTTTCTCAAAGTCCACGACTCAGTGGCATCTCT-TCTCAAAGTCCATGACTCAGTGGCATC
* * *
662781 TCTTCTCAAAGTCCATAACTCAGTGGCATCTCTTTTCTCAAAGTCCACGACCCAATGGCATCTTT
1 TCTTCTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTCAAAGTCCACGACTCAATGGCATCTCT
* ** *
662846 TTTCTTCAAAGTCCATGACTCAGTAGTAATCTCTTCTCAAAGTCCATGACTCAGCGGCATC
66 TTTC-TCAAAGTCCACGACTCAGT-GGCATCTCTTCTCAAAGTCCATGACTCAGTGGCATC
* ** * *
662907 T-TGTCCCAAAGTCCATGACTTAGTGGCATCT-TTTTTTCAAAGTCCACGACTCAATGGCATCTC
1 TCT-TCTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTCAAAGTCCACGACTCAATGGCATCTC
* *
662970 TTTTCT--AAGTCCACGACTCAATGGCATC-CTTTCTTCCAAGTCCATGACTCAGTGGCATC
65 TTTTCTCAAAGTCCACGACTCAGTGGCATCTC-TTC-TCAAAGTCCATGACTCAGTGGCATC
* * * * *
663029 TTTTCTTCTTCAAAGTCCACGACTCAATGCCATCTC-TTTC-CAAAGTCCATGACTCAGTGGCA-
1 ---TCTTC-TCAAAGTCCACAACTCAGTGGCATCTCTTTTCTCAAAGTCCACGACTCAATGGCAT
*
663091 -TCTTTTCTTCAAAGTCCACGACTTAGTGGCAATCTCTTCTCAAAGTCCATGACTCAGTGGCATC
62 CTCTTTTC-TCAAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGTCCATGACTCAGTGGCATC
* * * * *
663155 CCTTTTCAAAGCCCACAACTCCGTGGTA-CTCTTTTC
1 TCTTCTCAAAGTCCACAACTCAGTGGCATCTCTTTTC
663191 CCTTTTGAGT
Statistics
Matches: 461, Mismatches: 52, Indels: 52
0.82 0.09 0.09
Matches are distributed among these distances:
120 1 0.00
121 10 0.02
122 58 0.13
123 10 0.02
124 32 0.07
125 82 0.18
126 148 0.32
127 7 0.02
128 53 0.11
129 4 0.01
130 3 0.01
132 53 0.11
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (124 bp):
TCTTCTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTCAAAGTCCACGACTCAATGGCATCTCT
TTTCTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCATGACTCAGTGGCATC
Found at i:662932 original size:156 final size:158
Alignment explanation
Indices: 662524--663154 Score: 732
Period size: 156 Copynumber: 4.0 Consensus size: 158
662514 TTCTTCAAAC
* * * **
662524 CTTTCTTC-TCAAAGTCCACAACTCAGTGGCATC-TCTTTTCAAAGTCCATAACTCAATGGCATC
1 CTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTCTTCTCAAAGTCCACGACTCAATGGCA--
* * *
662587 TCTTTTCTCAAAGTCCACAACTCAGTGGCATCTTTTTTTCTTCAAAGTCCACGACTCAATGGCAT
64 TCTTGTCCCAAAGTCCACGACTCAGTGGCATC--TTTTTCTTCAAAGTCCACGACTCAATGGCAT
* *
662652 CTATTTTCTCAAAGTCCACGACTCAGTGGCAT
127 CTCTTTTCTCAAAGTCCACGACTCAATGGCAT
* * *
662684 CTTTTTTTCTTCAAAGTCCACGACTCAATGGCATCTATTTTCTCAAAGTCCACGACTCAGTGGCA
1 C-TTTTTTCTTCAAAGTCCACGACTCAGTGGCATCT-TCTTCTCAAAGTCCACGACTCAATGGCA
* ** *
662749 TCTTGTCCCAAAGTCCACGACTCAGTGGCATC-TCTTC-TCAAAGTCCATAACTCAGTGGCATCT
64 TCTTGTCCCAAAGTCCACGACTCAGTGGCATCTTTTTCTTCAAAGTCCACGACTCAATGGCATCT
*
662812 CTTTTCTCAAAGTCCACGACCCAATGGCAT
129 CTTTTCTCAAAGTCCACGACTCAATGGCAT
* ** * **
662842 CTTTTTTCTTCAAAGTCCATGACTCAGTAGTAATC-TCTTCTCAAAGTCCATGACTCAGCGGCAT
1 CTTTTTTCTTCAAAGTCCACGACTCAGT-GGCATCTTCTTCTCAAAGTCCACGACTCAATGGCAT
* *
662906 CTTGTCCCAAAGTCCATGACTTAGTGGCATCTTTTT-TTCAAAGTCCACGACTCAATGGCATCTC
65 CTTGTCCCAAAGTCCACGACTCAGTGGCATCTTTTTCTTCAAAGTCCACGACTCAATGGCATCTC
662970 TTTTCT--AAGTCCACGACTCAATGGCAT
130 TTTTCTCAAAGTCCACGACTCAATGGCAT
* * * *
662997 C--CTTTCTTCCAAGTCCATGACTCAGTGGCATCTTTTCTTCTTCAAAGTCCACGACTCAATGCC
1 CTTTTTTCTTCAAAGTCCACGACTCAGTGGCATC--TTCTTC-TCAAAGTCCACGACTCAATGGC
* * * *
663060 ATCTCT-TTCCAAAGTCCATGACTCAGTGGCATC-TTTTCTTCAAAGTCCACGACTTAGTGGCAA
63 ATCT-TGTCCCAAAGTCCACGACTCAGTGGCATCTTTTTCTTCAAAGTCCACGACTCAATGGC-A
* *
663123 TCTC--TTCTCAAAGTCCATGACTCAGTGGCAT
126 TCTCTTTTCTCAAAGTCCACGACTCAATGGCAT
663154 C
1 C
663155 CCTTTTCAAA
Statistics
Matches: 409, Mismatches: 46, Indels: 35
0.83 0.09 0.07
Matches are distributed among these distances:
152 4 0.01
153 23 0.06
155 34 0.08
156 123 0.30
157 84 0.21
158 55 0.13
159 4 0.01
160 1 0.00
161 6 0.01
162 52 0.13
164 23 0.06
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.32
Consensus pattern (158 bp):
CTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTTCTTCTCAAAGTCCACGACTCAATGGCATC
TTGTCCCAAAGTCCACGACTCAGTGGCATCTTTTTCTTCAAAGTCCACGACTCAATGGCATCTCT
TTTCTCAAAGTCCACGACTCAATGGCAT
Found at i:663263 original size:33 final size:32
Alignment explanation
Indices: 663167--663335 Score: 167
Period size: 33 Copynumber: 5.0 Consensus size: 32
663157 TTTTCAAAGC
* *
663167 CCACAACTCCGTGGTACTCTTTTCCCTTTTGAGT
1 CCACAACTCCGTGGCAC-CTTTT-CCTTTTAAGT
*
663201 CCACAACTCCGTGGTTGGCATCTTTTTCCTTTTAAGT
1 CCACAACTCC---G-TGGCA-CCTTTTCCTTTTAAGT
663238 CCACAACTCCGTGGCACCTTGTTCCTTTTAAGT
1 CCACAACTCCGTGGCACCTT-TTCCTTTTAAGT
* * *
663271 CCACAACTTCGTGACACCTTTTCTTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTCCTTTTAAGT
** *
663303 CCATGACTCCATGGCACCCTTTTCCCTTTTAAG
1 CCACAACTCCGTGGCA-CCTTTT-CCTTTTAAG
663336 CCCCCACTTC
Statistics
Matches: 114, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
32 25 0.22
33 41 0.36
34 19 0.17
37 20 0.18
38 8 0.07
39 1 0.01
ACGTcount: A:0.18, C:0.31, G:0.14, T:0.37
Consensus pattern (32 bp):
CCACAACTCCGTGGCACCTTTTCCTTTTAAGT
Found at i:663502 original size:43 final size:44
Alignment explanation
Indices: 663382--664022 Score: 410
Period size: 49 Copynumber: 13.9 Consensus size: 44
663372 AACAACTCCC
* *
663382 TGGCAC-CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATAT
1 TGGCACTCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATAT
* ** *
663425 TGGCACCTTTATCTTTAAGACCAATGTCAATGGCCTTGAATCAGCACAT
1 TGGCA-C----TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATAT
*
663474 TGGCAC-CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCACTCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATAT
663517 TGGCAC-CTTTACCATCTTGAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCACTCTTTA--A----GA--CCAATATCGCTGGCCTTGAATCAGCATAT
* * *
663568 TGGCACCTTGTCTTTAAGACCAATGTCGCCGGCCTTGAATCAGCACAT
1 TGGCA-C---TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATAT
*
663616 TGGCA-----TAA-ACCCAATATCGCTGTCCTTGAATCAGCATAT
1 TGGCACTCTTTAAGA-CCAATATCGCTGGCCTTGAATCAGCATAT
* *
663655 TGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGCA-C---TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATAT
* *
663703 TGGCA-----TAAGCCCAATATCGCTGGCCTTGAATCAGCACAT
1 TGGCACTCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATAT
*
663742 TGGCA-----TAAGCCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCACTCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATAT
* * ** * *
663781 TGGCGCCTTAACCATCTTTAAGACTAATGTTACTGGCCTTGAATTAGCACAT
1 T-G-G-C---A-C-TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATAT
* * *
663833 TGGCACATTTATCTTTAA-ATCCAACATTGCTGGCCTTGAAGCAGCATAT
1 TGGCAC-----TCTTTAAGA-CCAATATCGCTGGCCTTGAATCAGCATAT
* *
663882 TGGCAC-CTTTAAG-CCTAATTTTGCTGGCCTTGAATCAGCATAT
1 TGGCACTCTTTAAGACC-AATATCGCTGGCCTTGAATCAGCATAT
*
663925 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCA----C-TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATAT
663974 TGGTGCCTTCATCATCTTTAA-ACCCAATATCGCTGGCCTTGAATCAGCA
1 T-G-G----CA-C-TCTTTAAGA-CCAATATCGCTGGCCTTGAATCAGCA
664023 CACTGGCATT
Statistics
Matches: 490, Mismatches: 44, Indels: 119
0.75 0.07 0.18
Matches are distributed among these distances:
38 1 0.00
39 104 0.21
40 1 0.00
41 1 0.00
42 3 0.01
43 83 0.17
44 1 0.00
45 3 0.01
46 1 0.00
47 1 0.00
48 67 0.14
49 109 0.22
50 6 0.01
51 36 0.07
52 65 0.13
54 1 0.00
55 2 0.00
56 5 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (44 bp):
TGGCACTCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATAT
Found at i:663643 original size:39 final size:39
Alignment explanation
Indices: 663587--663784 Score: 227
Period size: 39 Copynumber: 4.8 Consensus size: 39
663577 GTCTTTAAGA
* *
663587 CCAATGTCGCCGGCCTTGAATCAGCACATTGGCATAAAC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAAC
* *
663626 CCAATATCGCTGTCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA-
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCA---------TAA-AC
* *
663674 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAAC
*
663713 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAAC
*
663752 CCAATATCGCTGGCCTTGAATCAGCATATTGGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGC
663785 GCCTTAACCA
Statistics
Matches: 138, Mismatches: 10, Indels: 22
0.81 0.06 0.13
Matches are distributed among these distances:
39 103 0.75
48 34 0.25
49 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (39 bp):
CCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAAC
Found at i:663689 original size:87 final size:87
Alignment explanation
Indices: 663539--663746 Score: 380
Period size: 87 Copynumber: 2.4 Consensus size: 87
663529 CATCTTGAGT
663539 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCCGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCCGGCCTT
663604 GAATCAGCACATTGGCATAAAC
66 GAATCAGCACATTGGCATAAAC
* *
663626 CCAATATCGCTGTCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCCGGCCTT
*
663691 GAATCAGCACATTGGCATAAGC
66 GAATCAGCACATTGGCATAAAC
*
663713 CCAATATCGCTGGCCTTGAATCAGCACATTGGCA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA
663747 TAAGCCCAAT
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 116 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCCGGCCTT
GAATCAGCACATTGGCATAAAC
Found at i:663915 original size:92 final size:92
Alignment explanation
Indices: 663796--663976 Score: 263
Period size: 92 Copynumber: 2.0 Consensus size: 92
663786 CCTTAACCAT
* * *
663796 CTTTAAGACTAATGTTACTGGCCTTGAATTAGCACATTGGCACATTTATCTTTAAATCCAACATT
1 CTTTAAGACTAATGTTACTGGCCTTGAATCAGCACATTGGCACATTCATCTTTAAATCCAACATC
663861 GCTGGCCTTGAAGCAGCATATTGGCAC
66 GCTGGCCTTGAAGCAGCATATTGGCAC
* * * * * * *
663888 CTTTAAGCCTAATTTTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATC
1 CTTTAAGACTAATGTTACTGGCCTTGAATCAGCACATTGGCACATTCATCTTTAAATCCAACATC
*
663953 GCTGGCCTTGAATCAGCATATTGG
66 GCTGGCCTTGAAGCAGCATATTGG
663977 TGCCTTCATC
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 78 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (92 bp):
CTTTAAGACTAATGTTACTGGCCTTGAATCAGCACATTGGCACATTCATCTTTAAATCCAACATC
GCTGGCCTTGAAGCAGCATATTGGCAC
Found at i:664041 original size:52 final size:51
Alignment explanation
Indices: 663904--664099 Score: 200
Period size: 52 Copynumber: 3.8 Consensus size: 51
663894 GCCTAATTTT
* *
663904 GCTGGCCTTGAATCAGCATATTGGCA--CCTTCATCTTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCACATTGGCATTCTTTCATCTTTAAGTCCAATATC
* * * **
663953 GCTGGCCTTGAATCAGCATATTGGTGCCTTC-ATCATCTTTAAACCCAATATC
1 GCTGGCCTTGAATCAGCACATT-G-GCATTCTTTCATCTTTAAGTCCAATATC
* * * *
664005 GCTGGCCTTGAATCAGCACACTGGCATTCTTCTCATCTTCAAGTCTAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCATTCTT-TCATCTTTAAGTCCAATATC
* * **
664057 GCTGACCGTGAATCAGCACATTAACATTCTTTACATCTTTAAG
1 GCTGGCCTTGAATCAGCACATTGGCATTCTTT-CATCTTTAAG
664100 CGTAATATCA
Statistics
Matches: 121, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
49 22 0.18
50 6 0.05
51 4 0.03
52 88 0.73
53 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.33
Consensus pattern (51 bp):
GCTGGCCTTGAATCAGCACATTGGCATTCTTTCATCTTTAAGTCCAATATC
Found at i:664878 original size:13 final size:13
Alignment explanation
Indices: 664860--664887 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
664850 TATTATTCAA
664860 TGTATCGATACAT
1 TGTATCGATACAT
664873 TGTATCGATACAT
1 TGTATCGATACAT
664886 TG
1 TG
664888 ATCTTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:670803 original size:23 final size:22
Alignment explanation
Indices: 670760--670803 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
670750 AACGAAAAAT
**
670760 AAAATAACGAACAAATTTACAA
1 AAAATAACGAACAAAAATACAA
*
670782 AAAATAAACGCACAAAAATACA
1 AAAAT-AACGAACAAAAATACA
670804 TAAGAAAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.66, C:0.16, G:0.05, T:0.14
Consensus pattern (22 bp):
AAAATAACGAACAAAAATACAA
Found at i:671383 original size:79 final size:79
Alignment explanation
Indices: 671103--671545 Score: 382
Period size: 79 Copynumber: 5.6 Consensus size: 79
671093 GTAAACGTTA
* * * * ** *
671103 GGGTTGGAGTATCCCCGAGATGAAAAAATTTAATATTTT-AGAAGTGAAAATGGGGTTGGAGTAT
1 GGGTTGGAGTATCCCCAAGATG-AAAATTTTAATATTTTGA-AAATAAAAACAGGGTTAGAGTAT
*** *
671167 CC-CTTGGAAATGATG
64 CCTCTCAAAAATAATG
* * * * * * * ** *
671182 GGATTGAAGTATCCCCGATGGTGAAAA-ATTGATATTTT-AGAGATAAAAATGGGGTTAAAGTAT
1 GGGTTGGAGTATCCCC-AAGATGAAAATTTTAATATTTTGA-AAATAAAAACAGGGTTAGAGTAT
671245 CC-CTTCAAAAATAAT-
64 CCTC-TCAAAAATAATG
* * * * *
671260 TGGTTGAAATATCCTCAAGATGAAAATTTTAATATTTTGAAAATAAAAACAGGGTTTA-AGTAGC
1 GGGTTGGAGTATCCCCAAGATGAAAATTTTAATATTTTGAAAATAAAAACAGGG-TTAGAGTATC
*
671324 CTCTCAGAAATAATG
65 CTCTCAAAAATAATG
* * * * * *
671339 GGGTTGGAGTATCCTCGAGATGAAAATTTTAATAGTTTGGAAATAAAAACAAGGATAGAGTATCC
1 GGGTTGGAGTATCCCCAAGATGAAAATTTTAATATTTTGAAAATAAAAACAGGGTTAGAGTATCC
671404 TCTCAAAAATAATG
66 TCTCAAAAATAATG
** * * *
671418 GAATTGGAGTATCCCCAAGATGAAAATTTTAATATTTTGGAAATAAAAGC-GAGGTTAGAATATC
1 GGGTTGGAGTATCCCCAAGATGAAAATTTTAATATTTTGAAAATAAAAACAG-GGTTAGAGTATC
*
671482 CTTTCAAAAATAATG
65 CTCTCAAAAATAATG
* *
671497 GGGTTGGAGTATCCCCGA-ATGAAAAAATTTAATATTTTGAAAATAAAAA
1 GGGTTGGAGTATCCCCAAGATG-AAAATTTTAATATTTTGAAAATAAAAA
671546 TGGAAATAGA
Statistics
Matches: 299, Mismatches: 55, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
77 8 0.03
78 85 0.28
79 203 0.68
80 3 0.01
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.30
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCAAGATGAAAATTTTAATATTTTGAAAATAAAAACAGGGTTAGAGTATCC
TCTCAAAAATAATG
Found at i:671555 original size:158 final size:156
Alignment explanation
Indices: 671104--671565 Score: 433
Period size: 158 Copynumber: 2.9 Consensus size: 156
671094 TAAACGTTAG
* * * * *
671104 GGTTGGAGTATCCCCGAGATGAAAAAATTTAATATTTTAGAAGTGAAAATG-G-GGTTGGAGTAT
1 GGTTGGAGTATCCCCAAGATG-AAAATTTTAATATTTTGGAAAT-AAAA-GCGAGGTTAGAGTAT
* * * * * * * *
671167 CCCTT-GGAAATGATGGGATTGAAGTATCCCCGATGGTGAAAAA-TTGATATTTT-AGAGATAAA
63 CCTTTCAGAAATAATGGGGTTGGAGTATCCCCGA--ATGAAAAATTTAATATTTTGA-AAATAAA
*** *
671229 AATGGGGTTAAAGTATCC-CTTCAAAAATAATT
125 AATGGAAATAGAGTATCCTC-TCAAAAATAATT
* * * * * *
671261 GGTTGAAATATCCTCAAGATGAAAATTTTAATATTTTGAAAATAAAAAC-AGGGTTTA-AGTAGC
1 GGTTGGAGTATCCCCAAGATGAAAATTTTAATATTTTGGAAATAAAAGCGA-GG-TTAGAGTATC
* * * * *
671324 CTCTCAGAAATAATGGGGTTGGAGTATCCTCGAGATGAAAATTTTAATAGTTTGGAAATAAAAA-
64 CTTTCAGAAATAATGGGGTTGGAGTATCCCCGA-ATGAAAAATTTAATATTTTGAAAATAAAAAT
*
671388 -CAAGGATAGAGTATCCTCTCAAAAATAA-T
128 GGAA--ATAGAGTATCCTCTCAAAAATAATT
*
671417 GGAATTGGAGTATCCCCAAGATGAAAATTTTAATATTTTGGAAATAAAAGCGAGGTTAGAATATC
1 GG--TTGGAGTATCCCCAAGATGAAAATTTTAATATTTTGGAAATAAAAGCGAGGTTAGAGTATC
*
671482 CTTTCAAAAATAATGGGGTTGGAGTATCCCCGAATGAAAAAATTTAATATTTTGAAAATAAAAAT
64 CTTTCAGAAATAATGGGGTTGGAGTATCCCCGAATG-AAAAATTTAATATTTTGAAAATAAAAAT
671547 GGAAATAGAGTATCCTCTC
128 GGAAATAGAGTATCCTCTC
671566 TTGATGTTTT
Statistics
Matches: 245, Mismatches: 43, Indels: 33
0.76 0.13 0.10
Matches are distributed among these distances:
155 4 0.02
156 37 0.15
157 83 0.34
158 118 0.48
159 1 0.00
160 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.30
Consensus pattern (156 bp):
GGTTGGAGTATCCCCAAGATGAAAATTTTAATATTTTGGAAATAAAAGCGAGGTTAGAGTATCCT
TTCAGAAATAATGGGGTTGGAGTATCCCCGAATGAAAAATTTAATATTTTGAAAATAAAAATGGA
AATAGAGTATCCTCTCAAAAATAATT
Found at i:673933 original size:51 final size:51
Alignment explanation
Indices: 673841--673957 Score: 146
Period size: 51 Copynumber: 2.3 Consensus size: 51
673831 ATAGCCTACT
* * *
673841 TGTATCGATACCTTTGGGTCAAAAACCCATAATGTATCGATACAAAGAAGAA
1 TGTATCGATACATTTGGGTCAAAAACCCAAAATATATCGATACAAAGAA-AA
* * * *
673893 TGTATCGATGCATTTGGGT-TAAAACCCAAAATATATCGATATAATGAAAA
1 TGTATCGATACATTTGGGTCAAAAACCCAAAATATATCGATACAAAGAAAA
*
673943 TGTATCGACACATTT
1 TGTATCGATACATTT
673958 TCTTTCCAGA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 15 0.27
51 24 0.43
52 17 0.30
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.29
Consensus pattern (51 bp):
TGTATCGATACATTTGGGTCAAAAACCCAAAATATATCGATACAAAGAAAA
Found at i:678453 original size:52 final size:52
Alignment explanation
Indices: 678256--678445 Score: 222
Period size: 52 Copynumber: 3.7 Consensus size: 52
678246 AGATGATAAG
* *
678256 GATGAGAAGAGTGCTAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAA
1 GATGAGAAGAGTGCCAATGTGCTGATTCAAGGCCAACGACATTAGACTTAAA
* * * * *
678308 GATGATAAG-GTGCCAATATGCTGATTCTAGGCCAACAATATTAGACTTAAA
1 GATGAGAAGAGTGCCAATGTGCTGATTCAAGGCCAACGACATTAGACTTAAA
* * * * *
678359 GATGACAA-AGGTGCTAATGTGCTAATTCATGGCCAACGACATTTGACTTAAA
1 GATGAGAAGA-GTGCCAATGTGCTGATTCAAGGCCAACGACATTAGACTTAAA
* * *
678411 GATGAGAAGATTACCAATGTGCCGATTCAAGGCCA
1 GATGAGAAGAGTGCCAATGTGCTGATTCAAGGCCA
678446 GCTACATTGG
Statistics
Matches: 112, Mismatches: 23, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
51 43 0.38
52 68 0.61
53 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (52 bp):
GATGAGAAGAGTGCCAATGTGCTGATTCAAGGCCAACGACATTAGACTTAAA
Found at i:678568 original size:32 final size:32
Alignment explanation
Indices: 678530--678652 Score: 108
Period size: 32 Copynumber: 3.8 Consensus size: 32
678520 CTCTAGAAAA
*
678530 GGGTTGCCA-CTGACTTTTGTGGGCTTTTGAGG
1 GGGTTGCCATC-GACTTGTGTGGGCTTTTGAGG
* *
678562 GGGTTGCCATCGACTTGTGTGGGTTTTTG-GAA
1 GGGTTGCCATCGACTTGTGTGGGCTTTTGAG-G
* * * * *
678594 GGGTTACTACCGACTTGTGTAGGCTTTTG-GAA
1 GGGTTGCCATCGACTTGTGTGGGCTTTTGAG-G
* *
678626 GGGTTACCATCGACTTATGTGGGCTTT
1 GGGTTGCCATCGACTTGTGTGGGCTTT
678653 AAAAGTGGTT
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
31 1 0.01
32 75 0.97
33 1 0.01
ACGTcount: A:0.14, C:0.15, G:0.34, T:0.37
Consensus pattern (32 bp):
GGGTTGCCATCGACTTGTGTGGGCTTTTGAGG
Found at i:678719 original size:27 final size:27
Alignment explanation
Indices: 678678--679210 Score: 471
Period size: 28 Copynumber: 19.2 Consensus size: 27
678668 GGGGTGCTAT
* * *
678678 TAACTTATGGGCTTTCTAAAGATGCCAC
1 TAACTTGTGGGCTTT-AAAAGGTGCCAC
*
678706 TAACTTGT-GGCTTTGAAAAGGTGCCAT
1 TAACTTGTGGGCTTT-AAAAGGTGCCAC
* **
678733 TGACTTGTTAGCTTTGAAAA-GTGCCAC
1 TAACTTGTGGGCTTT-AAAAGGTGCCAC
* * *
678760 TGACTTGTTGGCTTTAAAAGGGTGCCGC
1 TAACTTGTGGGCTTTAAAA-GGTGCCAC
* *
678788 TAACTTATGGACTTTAAAAGGGTGCCAC
1 TAACTTGTGGGCTTTAAAA-GGTGCCAC
* * *
678816 TGACTTATGGCCTTTAAAAGGGTGCCAC
1 TAACTTGTGGGCTTTAAAA-GGTGCCAC
*
678844 TAACTTTTGGGCTTTGAAAAGGTGCCAC
1 TAACTTGTGGGCTTT-AAAAGGTGCCAC
* *
678872 TAACTTGTAGGCTTTAGAAGGTGCCAC
1 TAACTTGTGGGCTTTAAAAGGTGCCAC
*
678899 TAACTTGTGGGCTTTAGAAGGTGCCAC
1 TAACTTGTGGGCTTTAAAAGGTGCCAC
* *
678926 TAACTTGTGGGCTATAGAAGGGTGCCAC
1 TAACTTGTGGGCTTTA-AAAGGTGCCAC
*
678954 TAACTTGTGGGCTTTAGAAGGGTGCCAC
1 TAACTTGTGGGCTTTA-AAAGGTGCCAC
* * *
678982 TCATTTGT-GGCTTTGAAAAGTTGCCAC
1 TAACTTGTGGGCTTT-AAAAGGTGCCAC
* * *
679009 TGATTTAG-GGGCTTTAGAAGGGTGCCAC
1 TAACTT-GTGGGCTTTA-AAAGGTGCCAC
* * * *
679037 TAATTTATGTGCTTTAGAAGGGTGCCAC
1 TAACTTGTGGGCTTTA-AAAGGTGCCAC
* * *
679065 TAACTTATGGGCTTTAGAAGGGTTCCAC
1 TAACTTGTGGGCTTTA-AAAGGTGCCAC
*
679093 TAACTTGTGGGATTTAAAAAGGTGCCAC
1 TAACTTGTGGGCTTT-AAAAGGTGCCAC
* ** *
679121 TGACTTGTGAACTTTGAAAGGGTGCCAC
1 TAACTTGTGGGCTTT-AAAAGGTGCCAC
*
679149 TAACTTATGGGCTTTGAAAAGGTGCCAC
1 TAACTTGTGGGCTTT-AAAAGGTGCCAC
* * *
679177 TGACTTGTAGGCTTTAGAAGGGTGCCAC
1 TAACTTGTGGGCTTTA-AAAGGTGCCAC
*
679205 TGACTT
1 TAACTT
679211 TATGGACTTA
Statistics
Matches: 433, Mismatches: 60, Indels: 24
0.84 0.12 0.05
Matches are distributed among these distances:
26 4 0.01
27 116 0.27
28 308 0.71
29 5 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (27 bp):
TAACTTGTGGGCTTTAAAAGGTGCCAC
Found at i:678959 original size:166 final size:165
Alignment explanation
Indices: 678678--679210 Score: 576
Period size: 166 Copynumber: 3.2 Consensus size: 165
678668 GGGGTGCTAT
* ** * * * * *
678678 TAACTTATGGGCTTTCTAAAGATGCCACTAACTTGT-GGCTTTGAAAAGGTGCCATTGACTTGTT
1 TAACTTTTGGGCTTTAGAAAGGTGCCACTAACTTGTAGGCTTT-AGAAGGTGCCACTAACTTGTG
* * * * * *
678742 AGCTTT-GAAAAGTGCCACTGACTTGTTGGCTTTAAAAGGGTGCCGCTAACTTATGGACTTTAAA
65 GGCTTTAG-AAGGTGCCACTAACTTGTGGGCTTTAAAAGGGTGCCACTAACTTGTGGACTTTAAA
*
678806 AGGGTGCCACTGACTTATGGCCTTT-AAAAGGGTGCCAC
129 AGGGTGCCACTAACTTATGG-CTTTGAAAA-GGTGCCAC
678844 TAACTTTTGGGCTTT-GAAAAGGTGCCACTAACTTGTAGGCTTTAGAAGGTGCCACTAACTTGTG
1 TAACTTTTGGGCTTTAG-AAAGGTGCCACTAACTTGTAGGCTTTAGAAGGTGCCACTAACTTGTG
* * * *
678908 GGCTTTAGAAGGTGCCACTAACTTGTGGGCTATAGAAGGGTGCCACTAACTTGTGGGCTTTAGAA
65 GGCTTTAGAAGGTGCCACTAACTTGTGGGCTTTAAAAGGGTGCCACTAACTTGTGGACTTTAAAA
* * * *
678973 GGGTGCCACTCATTTGTGGCTTTGAAAAGTTGCCAC
130 GGGTGCCACTAACTTATGGCTTTGAAAAGGTGCCAC
* * *
679009 TGA-TTTAGGGGCTTTAGAAGGGTGCCACTAA-TT-TATGTGCTTTAGAAGGGTGCCACTAACTT
1 TAACTTT-TGGGCTTTAGAAAGGTGCCACTAACTTGTA-G-GCTTTAGAA-GGTGCCACTAACTT
* * * * * *
679071 ATGGGCTTTAGAAGGGTTCCACTAACTTGTGGGATTTAAAAAGGTGCCACTGACTTGTGAACTTT
62 GTGGGCTTTAGAA-GGTGCCACTAACTTGTGGGCTTTAAAAGGGTGCCACTAACTTGTGGACTTT
*
679136 GAAAGGGTGCCACTAACTTATGGGCTTTGAAAAGGTGCCAC
126 AAAAGGGTGCCACTAACTTAT-GGCTTTGAAAAGGTGCCAC
* * * * *
679177 TGACTTGTAGGCTTTAGAAGGGTGCCACTGACTT
1 TAACTTTTGGGCTTTAGAAAGGTGCCACTAACTT
679211 TATGGACTTA
Statistics
Matches: 311, Mismatches: 43, Indels: 23
0.82 0.11 0.06
Matches are distributed among these distances:
163 2 0.01
164 6 0.02
165 42 0.14
166 149 0.48
167 66 0.21
168 42 0.14
169 4 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (165 bp):
TAACTTTTGGGCTTTAGAAAGGTGCCACTAACTTGTAGGCTTTAGAAGGTGCCACTAACTTGTGG
GCTTTAGAAGGTGCCACTAACTTGTGGGCTTTAAAAGGGTGCCACTAACTTGTGGACTTTAAAAG
GGTGCCACTAACTTATGGCTTTGAAAAGGTGCCAC
Found at i:679283 original size:31 final size:31
Alignment explanation
Indices: 679232--679381 Score: 157
Period size: 31 Copynumber: 5.0 Consensus size: 31
679222 AAAAAATAAC
* *
679232 GATGCCATGGAGT-TTGGACTTTGAAGAAGG
1 GATGCCATTGAGTCATGGACTTTGAAGAAGG
* *
679262 GGTGCCATTGAGTCATGGACTTTG-AGAA-C
1 GATGCCATTGAGTCATGGACTTTGAAGAAGG
* * *
679291 GATACCACTGAGTCATGGACTTTGAAAAAGG
1 GATGCCATTGAGTCATGGACTTTGAAGAAGG
* * *
679322 GATGCCATTGACTCGTGGACTTTAAAGAAGG
1 GATGCCATTGAGTCATGGACTTTGAAGAAGG
* *
679353 GATGCCA-CGAGTCGTGGACTTTGAA-AAGG
1 GATGCCATTGAGTCATGGACTTTGAAGAAGG
679382 TGCCACAGAG
Statistics
Matches: 99, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
29 25 0.25
30 33 0.33
31 41 0.41
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (31 bp):
GATGCCATTGAGTCATGGACTTTGAAGAAGG
Found at i:679322 original size:60 final size:61
Alignment explanation
Indices: 679246--679379 Score: 173
Period size: 60 Copynumber: 2.2 Consensus size: 61
679236 CCATGGAGTT
* * * *
679246 TGGACTTTGAAGAAGGGGTGCCATTGAGTCATGGACTTT-GAGAA-CGATACCACTGAGTCA
1 TGGACTTTGAAAAAGGGATGCCATTGACTCATGGACTTTAAAGAAGCGATACCAC-GAGTCA
* * * *
679306 TGGACTTTGAAAAAGGGATGCCATTGACTCGTGGACTTTAAAGAAGGGATGCCACGAGTCG
1 TGGACTTTGAAAAAGGGATGCCATTGACTCATGGACTTTAAAGAAGCGATACCACGAGTCA
679367 TGGACTTTGAAAA
1 TGGACTTTGAAAA
679380 GGTGCCACAG
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
60 35 0.55
61 22 0.34
62 7 0.11
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (61 bp):
TGGACTTTGAAAAAGGGATGCCATTGACTCATGGACTTTAAAGAAGCGATACCACGAGTCA
Found at i:679411 original size:28 final size:29
Alignment explanation
Indices: 679336--679744 Score: 381
Period size: 28 Copynumber: 14.3 Consensus size: 29
679326 CCATTGACTC
* *
679336 GTGGACTTTAAAGAAGGGATGCCAC-GAGTC
1 GTGGACTTTTAA-AAGGG-TGCCACAGAGTT
*
679366 GTGGACTTTGAAAA-GGTGCCACAGAGTT
1 GTGGACTTTTAAAAGGGTGCCACAGAGTT
*
679394 GTGGA-TTTTAAAAGGGTGCCAAAGAGTT
1 GTGGACTTTTAAAAGGGTGCCACAGAGTT
*
679422 GTGGACTTTGAAAA-GGTGCCAC-GAAGTT
1 GTGGACTTTTAAAAGGGTGCCACAG-AGTT
** * **
679450 ACGGACTTTAAAAAGGGTGCCATGGAGTT
1 GTGGACTTTTAAAAGGGTGCCACAGAGTT
* *
679479 GTGGACTTTGAAAA-GGTGCCATAGAGTT
1 GTGGACTTTTAAAAGGGTGCCACAGAGTT
* *
679507 GTGGACTTTAAAAAGGGTGTCACAGAGTT
1 GTGGACTTTTAAAAGGGTGCCACAGAGTT
* * *
679536 GTAGAC-TTTAAAAAGGTGCCACGGAGTT
1 GTGGACTTTTAAAAGGGTGCCACAGAGTT
* ** *
679564 GTGGAC-TTTAAAATGGTGCCATGGAATT
1 GTGGACTTTTAAAAGGGTGCCACAGAGTT
679592 GTGGA-TTTTAAAAAGGGTGCCACAGAGTT
1 GTGGACTTTT-AAAAGGGTGCCACAGAGTT
* *
679621 GTGGAC-TTTGAAAGGGTGCCACGGAGTT
1 GTGGACTTTTAAAAGGGTGCCACAGAGTT
* * *
679649 TTGGAC-TTTGAAAGGGTGCCACGGAGTT
1 GTGGACTTTTAAAAGGGTGCCACAGAGTT
* *
679677 GTGGACTTTAAAAAGAGGTGCCACAAAGTT
1 GTGGACTTTTAAAAG-GGTGCCACAGAGTT
* ** * *
679707 ATGGACTTAAAAAAGAGATGCCCCAGAGTT
1 GTGGACTTTTAAAAG-GGTGCCACAGAGTT
*
679737 ATGGACTT
1 GTGGACTT
679745 CAAGAAAAAA
Statistics
Matches: 324, Mismatches: 43, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
27 14 0.04
28 176 0.54
29 77 0.24
30 57 0.18
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.26
Consensus pattern (29 bp):
GTGGACTTTTAAAAGGGTGCCACAGAGTT
Found at i:679480 original size:85 final size:86
Alignment explanation
Indices: 679234--679744 Score: 471
Period size: 85 Copynumber: 5.9 Consensus size: 86
679224 AAAATAACGA
* * ** * * * * * *
679234 TGCCATGGAGTT-TGGACTTTGAAGAAGGGGTGCCATTGAGTCATGGACTTTGAGAACGATACCA
1 TGCCATAGAGTTGTGGACTTT-AA-AAAGGGTGCCACAGAGTTATGGACTTTAAAAAGGGTGCCA
* **
679298 CTGAGTCATGGACTTTGAAAAAGGG
64 CGGAGTTGTGGACTTT--AAAAGGG
* * * ** *
679323 ATGCCATTGACTCGTGGACTTTAAAGAAGGGATGCCAC-GAGTCGTGGACTTTGAAAA-GGTGCC
1 -TGCCATAGAGTTGTGGACTTTAAA-AAGGG-TGCCACAGAGTTATGGACTTTAAAAAGGGTGCC
* *
679386 ACAGAGTTGTGGATTTTAAAAGGG
63 ACGGAGTTGTGGACTTTAAAAGGG
* * * *
679410 TGCCAAAGAGTTGTGGACTTTGAAAA-GGTGCCAC-GAAGTTACGGACTTTAAAAAGGGTGCCAT
1 TGCCATAGAGTTGTGGACTTTAAAAAGGGTGCCACAG-AGTTATGGACTTTAAAAAGGGTGCCAC
679473 GGAGTTGTGGACTTTGAAAA-GG
65 GGAGTTGTGGACTTT-AAAAGGG
* * *
679495 TGCCATAGAGTTGTGGACTTTAAAAAGGGTGTCACAGAGTTGTAGACTTTAAAAA-GGTGCCACG
1 TGCCATAGAGTTGTGGACTTTAAAAAGGGTGCCACAGAGTTATGGACTTTAAAAAGGGTGCCACG
*
679559 GAGTTGTGGACTTTAAAATGG
66 GAGTTGTGGACTTTAAAAGGG
* * * * *
679580 TGCCATGGAATTGTGGATTTTAAAAAGGGTGCCACAGAGTTGTGGACTTT-GAAAGGGTGCCACG
1 TGCCATAGAGTTGTGGACTTTAAAAAGGGTGCCACAGAGTTATGGACTTTAAAAAGGGTGCCACG
* *
679644 GAGTTTTGGACTTTGAAAGGG
66 GAGTTGTGGACTTTAAAAGGG
** * * * *
679665 TGCCACGGAGTTGTGGACTTTAAAAAGAGGTGCCACAAAGTTATGGACTTAAAAAAGAGATGCCC
1 TGCCATAGAGTTGTGGACTTTAAAAAG-GGTGCCACAGAGTTATGGACTTTAAAAAG-GGTGCCA
* *
679730 CAGAGTTATGGACTT
64 CGGAGTTGTGGACTT
679745 CAAGAAAAAA
Statistics
Matches: 356, Mismatches: 52, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
83 7 0.02
84 23 0.06
85 168 0.47
86 65 0.18
87 12 0.03
88 18 0.05
89 18 0.05
90 32 0.09
91 13 0.04
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.26
Consensus pattern (86 bp):
TGCCATAGAGTTGTGGACTTTAAAAAGGGTGCCACAGAGTTATGGACTTTAAAAAGGGTGCCACG
GAGTTGTGGACTTTAAAAGGG
Found at i:679490 original size:57 final size:58
Alignment explanation
Indices: 679336--679714 Score: 445
Period size: 57 Copynumber: 6.6 Consensus size: 58
679326 CCATTGACTC
*
679336 GTGGACTTTAAAGAAGGGATGCCAC-GAGTCGTGGACTTTGAAAAGGTGCCAC-AGAGTT
1 GTGGACTTTAAA-AAGGG-TGCCACGGAGTTGTGGACTTTGAAAAGGTGCCACGAGAGTT
* **
679394 GTGGA-TTTTAAAAGGGTGCCAAAGAGTTGTGGACTTTGAAAAGGTGCCACGA-AGTT
1 GTGGACTTTAAAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAGGTGCCACGAGAGTT
** * *
679450 ACGGACTTTAAAAAGGGTGCCATGGAGTTGTGGACTTTGAAAAGGTGCCA-TAGAGTT
1 GTGGACTTTAAAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAGGTGCCACGAGAGTT
* * * *
679507 GTGGACTTTAAAAAGGGTGTCACAGAGTTGTAGACTTTAAAAAGGTGCCACG-GAGTT
1 GTGGACTTTAAAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAGGTGCCACGAGAGTT
* * * * *
679564 GTGGACTTT-AAAATGGTGCCATGGAATTGTGGATTTTAAAAAGGGTGCCAC-AGAGTT
1 GTGGACTTTAAAAAGGGTGCCACGGAGTTGTGGACTTTGAAAA-GGTGCCACGAGAGTT
* * *
679621 GTGGACTTT-GAAAGGGTGCCACGGAGTTTTGGACTTTGAAAGGGTGCCACG-GAGTT
1 GTGGACTTTAAAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAGGTGCCACGAGAGTT
** *
679677 GTGGACTTTAAAAAGAGGTGCCACAAAGTTATGGACTT
1 GTGGACTTTAAAAAG-GGTGCCACGGAGTTGTGGACTT
679715 AAAAAAGAGA
Statistics
Matches: 275, Mismatches: 36, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
55 5 0.02
56 87 0.32
57 159 0.58
58 24 0.09
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (58 bp):
GTGGACTTTAAAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAGGTGCCACGAGAGTT
Found at i:679774 original size:32 final size:30
Alignment explanation
Indices: 679673--679842 Score: 133
Period size: 30 Copynumber: 5.6 Consensus size: 30
679663 GGTGCCACGG
* * *
679673 AGTTGTGGACTTTAAAAAGAGGTGCCACAA
1 AGTTATGGACTTAAAAAAGAGATGCCACAA
* *
679703 AGTTATGGACTTAAAAAAGAGATGCCCCAG
1 AGTTATGGACTTAAAAAAGAGATGCCACAA
* *
679733 AGTTATGGACTTCAAGAAAAAAGATGCCACAT
1 AGTTATGGACTT-AA-AAAAGAGATGCCACAA
* * * * * **
679765 AGTTGTGGACTTTAAGAAGAGTTACCATTA
1 AGTTATGGACTTAAAAAAGAGATGCCACAA
* ** * **
679795 AGTTGTGGACTTTGAGAAGAGATGCCACTG
1 AGTTATGGACTTAAAAAAGAGATGCCACAA
*
679825 AGTCATGGACTTAAAAAA
1 AGTTATGGACTTAAAAAA
679843 AAAGGTGCCA
Statistics
Matches: 111, Mismatches: 27, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
30 84 0.76
31 3 0.03
32 24 0.22
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.25
Consensus pattern (30 bp):
AGTTATGGACTTAAAAAAGAGATGCCACAA
Found at i:679774 original size:92 final size:91
Alignment explanation
Indices: 679410--679882 Score: 262
Period size: 85 Copynumber: 5.4 Consensus size: 91
679400 TTTAAAAGGG
* * * * * *
679410 TGCCAAAGAGTTGTGGACTTT-GAAA-AGGTGCCACGAAGTTACGGACTTTAAAAAG-GGTGCCA
1 TGCCACAGAGTTGTGGACTTTAAAAAGAGGTGCCACAAAGTTATGGACTTAAAAAAGAGATGCCA
** ** ** *
679472 TGGAGTTGTGGACTT---TGAAAAGG
66 CAGAGTCATGGACTTAAAAAAAAAGA
* * * * * *
679495 TGCCATAGAGTTGTGGACTTTAAAAAG-GGTGTCACAGAGTTGTAGACTTTAAAAAG-G-TGCCA
1 TGCCACAGAGTTGTGGACTTTAAAAAGAGGTGCCACAAAGTTATGGACTTAAAAAAGAGATGCCA
* ** * * *
679557 CGGAGTTGTGGACTT---TAAAATGG
66 CAGAGTCATGGACTTAAAAAAAAAGA
** * * * * ** *
679580 TGCCATGGAATTGTGGATTTTAAAAAG-GGTGCCACAGAGTTGTGGACTT-TGAAAG-GGTGCCA
1 TGCCACAGAGTTGTGGACTTTAAAAAGAGGTGCCACAAAGTTATGGACTTAAAAAAGAGATGCCA
* ** ** * *
679642 CGGAGTTTTGGACTT---TGAAAGGG
66 CAGAGTCATGGACTTAAAAAAAAAGA
* *
679665 TGCCACGGAGTTGTGGACTTTAAAAAGAGGTGCCACAAAGTTATGGACTTAAAAAAGAGATGCCC
1 TGCCACAGAGTTGTGGACTTTAAAAAGAGGTGCCACAAAGTTATGGACTTAAAAAAGAGATGCCA
* *
679730 CAGAGTTATGGACTTCAAGAAAAAAGA
66 CAGAGTCATGGACTT-AAAAAAAAAGA
* * * * ** * ** *
679757 TGCCACATAGTTGTGGACTTTAAGAAGAGTTACCATTAAGTTGTGGACTTTGAGAAGAGATGCCA
1 TGCCACAGAGTTGTGGACTTTAAAAAGAGGTGCCACAAAGTTATGGACTTAAAAAAGAGATGCCA
* *
679822 CTGAGTCATGGACTTAAAAAAAAAGG
66 CAGAGTCATGGACTTAAAAAAAAAGA
* * * *
679848 TGCCACAGAGTTGTAGACTTGAGAAAGGGGTGCCA
1 TGCCACAGAGTTGTGGACTTTAAAAAGAGGTGCCA
679883 TGGAGCCGTG
Statistics
Matches: 318, Mismatches: 60, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
84 5 0.02
85 138 0.43
86 47 0.15
87 4 0.01
88 18 0.06
91 36 0.11
92 70 0.22
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.25
Consensus pattern (91 bp):
TGCCACAGAGTTGTGGACTTTAAAAAGAGGTGCCACAAAGTTATGGACTTAAAAAAGAGATGCCA
CAGAGTCATGGACTTAAAAAAAAAGA
Found at i:679894 original size:91 final size:92
Alignment explanation
Indices: 679719--679898 Score: 202
Period size: 91 Copynumber: 2.0 Consensus size: 92
679709 GGACTTAAAA
* * * * * *
679719 AAGAGATGCCCCAGAGTTATGGACTTCAAGAAAAAAGATGCCACATAGTTGTGGACTTTAAGAAG
1 AAGAGATGCCACAGAGTCATGGACTTCAAAAAAAAAGATGCCACAGAGTTGTAGACTTGAAGAAG
* * **
679784 AGTTACCATTAAGTTGTGGACTTTGAG
66 AGGTACCATGAAGCCGTGGACTTTGAG
* *
679811 AAGAGATGCCACTGAGTCATGGACTT-AAAAAAAAAGGTGCCACAGAGTTGTAGACTTG-AGAAA
1 AAGAGATGCCACAGAGTCATGGACTTCAAAAAAAAAGATGCCACAGAGTTGTAGACTTGAAG-AA
* * *
679874 GGGGTGCCATGGAGCCGTGGACTTT
65 GAGGTACCATGAAGCCGTGGACTTT
679899 AAAAGTTAAT
Statistics
Matches: 72, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
90 2 0.03
91 47 0.65
92 23 0.32
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (92 bp):
AAGAGATGCCACAGAGTCATGGACTTCAAAAAAAAAGATGCCACAGAGTTGTAGACTTGAAGAAG
AGGTACCATGAAGCCGTGGACTTTGAG
Found at i:686320 original size:20 final size:19
Alignment explanation
Indices: 686291--686342 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
686281 ACCAGTTTCT
**
686291 TGTATCGATACAATTGTGCA
1 TGTATCGATACAA-TGAACA
* *
686311 TGTATTGATATAATGAACA
1 TGTATCGATACAATGAACA
686330 TGTATCGATACAA
1 TGTATCGATACAA
686343 ACCATAATGT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAATGAACA
Found at i:687990 original size:13 final size:13
Alignment explanation
Indices: 687972--687998 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
687962 ATAGTAACCC
687972 ATGTATCGATACA
1 ATGTATCGATACA
687985 ATGTATCGATACA
1 ATGTATCGATACA
687998 A
1 A
687999 AGAACATTGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:694259 original size:20 final size:20
Alignment explanation
Indices: 694236--694290 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
694226 CTGCCAGTTT
**
694236 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
*
694256 CATGTATCGAGACAA-TGAA
1 CATGTATCGATACAATTGAA
694275 CATGTATCGATACAAT
1 CATGTATCGATACAAT
694291 ATATCAAGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.29
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:695652 original size:20 final size:20
Alignment explanation
Indices: 695627--695705 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
695617 ACTACCAAGA
695627 AAATGTATCGATACATTATT
1 AAATGTATCGATACATTATT
* * **
695647 AAATGTATCTACACATGCTT
1 AAATGTATCGATACATTATT
695667 ACAATTGTATCGATACATTATT
1 A-AA-TGTATCGATACATTATT
*
695689 CAATGTATCGATACATT
1 AAATGTATCGATACATT
695706 TTTGGTTTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
20 31 0.65
21 4 0.08
22 13 0.27
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (20 bp):
AAATGTATCGATACATTATT
Done.