Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 30 of 198
Found at i:8715640 original size:20 final size:20
Alignment explanation
Indices: 8715515--8715642 Score: 88
Period size: 20 Copynumber: 6.5 Consensus size: 20
8715505 TGATACGATA
8715515 ATTTTTATAATTTTTTTACG
1 ATTTTTATAATTTTTTTACG
* *
8715535 AATTTTAT-ATTTCTTTAC-
1 ATTTTTATAATTTTTTTACG
*
8715553 ATTTTTTATAATTTTCTTACG
1 A-TTTTTATAATTTTTTTACG
* * *
8715574 A-CTTTATAAAATTTTATA--
1 ATTTTTAT-AATTTTTTTACG
* * * *
8715592 ATTTTTTTCAATATTTCTA-T
1 ATTTTTAT-AATTTTTTTACG
8715612 ATATTTTATAATTTTTTTACG
1 AT-TTTTATAATTTTTTTACG
8715633 ATTTTTATAA
1 ATTTTTATAA
8715643 AATTTTACAA
Statistics
Matches: 81, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
18 2 0.02
19 31 0.38
20 40 0.49
21 8 0.10
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTTTTATAATTTTTTTACG
Found at i:8715648 original size:20 final size:19
Alignment explanation
Indices: 8715576--8715657 Score: 58
Period size: 20 Copynumber: 4.2 Consensus size: 19
8715566 TTCTTACGAC
*
8715576 TTTATAAAATTTTATAATT
1 TTTATAAAATTTTACAATT
* * *
8715595 TTTTTCAATATTTCTA-TATAT
1 TTTAT-AAAATTT-TACAAT-T
** *
8715616 TTTATAATTTTTTTACGATT
1 TTTATAA-AATTTTACAATT
8715636 TTTATAAAATTTTACAATT
1 TTTATAAAATTTTACAATT
8715655 TTT
1 TTT
8715658 TTATGATTTC
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
19 16 0.33
20 20 0.41
21 13 0.27
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (19 bp):
TTTATAAAATTTTACAATT
Found at i:8715743 original size:67 final size:66
Alignment explanation
Indices: 8715622--8715761 Score: 149
Period size: 67 Copynumber: 2.1 Consensus size: 66
8715612 ATATTTTATA
* * * *
8715622 ATTTTTTTACGATTTTTATAAAATTTTACAATTTTTTTATGATTTCTATAATTTTTCTATTTTTA
1 ATTTTTTTACGATTTTTATAAAATTTAACAA-TTTTTTATAACTTCTATAATTTTTAT-TTTTTA
8715687 AT-
64 ATC
* * * * *
8715689 ATTTTTTTTCTATTTTTATCAAAATTTAATAA-TTTTTATAACTTCTATTGATTTTTATTTTTTT
1 ATTTTTTTACGATTTTTAT-AAAATTTAACAATTTTTTATAACTTCTA-TAATTTTTATTTTTTA
8715753 ATC
64 ATC
8715756 ATTTTT
1 ATTTTT
8715762 CCCACATGTT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
66 20 0.33
67 31 0.51
68 10 0.16
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.64
Consensus pattern (66 bp):
ATTTTTTTACGATTTTTATAAAATTTAACAATTTTTTATAACTTCTATAATTTTTATTTTTTAAT
C
Found at i:8716021 original size:89 final size:89
Alignment explanation
Indices: 8715858--8716130 Score: 326
Period size: 89 Copynumber: 3.1 Consensus size: 89
8715848 TAACGGTCAA
* ** * *
8715858 AGGGCCGTTTTGATGCATTTTGGCAGTTCAAGTACCCAATTGGGTGCAAAAAAA-AAGGTGCTTA
1 AGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAGAAGGGGCTTA
* *** *
8715922 ATTGCTTTTTTTTTTTTAAATTTTG
66 ATTGC-TTTTTCTTGAAAAAGTTTG
* * *
8715947 AGGGCCTTTTTGATGCATTTTGAAAGTTTAAGTACCTAATTGAGTGCAAAAAAAGCAGGGGGCTT
1 AGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAG-AAGGGGCTT
*
8716012 AGTTG-TTTTTCTTGAAAAAGTTTG
65 AATTGCTTTTTCTTGAAAAAGTTTG
*
8716036 AGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGC--AAAAA-AAGGGGCCTA
1 AGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAGAAGGGGCTTA
* *
8716098 ATTGCATTTT-TTGAAAAATTTTG
66 ATTGCTTTTTCTTGAAAAAGTTTG
8716121 AGGG-CTTTTT
1 AGGGCCTTTTT
8716131 ACACCATTAA
Statistics
Matches: 160, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
84 6 0.04
85 27 0.17
86 4 0.03
87 5 0.03
89 107 0.67
91 11 0.07
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (89 bp):
AGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAGAAGGGGCTTA
ATTGCTTTTTCTTGAAAAAGTTTG
Found at i:8736573 original size:37 final size:37
Alignment explanation
Indices: 8736480--8736575 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
8736470 TAAATTCATA
* *
8736480 TAATAATAATTATATTAAGAATTTTATTAAATTATATT
1 TAATAATAATTATATTAA-AATATGATTAAATTATATT
* * *
8736518 TAATAATAATTATGTTAAAATATGGTTAAATTATTTT
1 TAATAATAATTATATTAAAATATGATTAAATTATATT
8736555 TAATAATAATCT-TATTAAAAT
1 TAATAATAAT-TATATTAAAAT
8736576 TTAATAACAA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
37 33 0.65
38 18 0.35
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (37 bp):
TAATAATAATTATATTAAAATATGATTAAATTATATT
Found at i:8736719 original size:16 final size:16
Alignment explanation
Indices: 8736698--8736751 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
8736688 TTGAATTACT
8736698 ATTACAGTTCTATTCC
1 ATTACAGTTCTATTCC
*
8736714 ATTACAGTTCTATTCA
1 ATTACAGTTCTATTCC
*
8736730 ATTACAGCTCTATTCC
1 ATTACAGTTCTATTCC
8736746 ATTACA
1 ATTACA
8736752 ACGAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.41
Consensus pattern (16 bp):
ATTACAGTTCTATTCC
Found at i:8747506 original size:49 final size:49
Alignment explanation
Indices: 8747411--8747507 Score: 113
Period size: 49 Copynumber: 2.0 Consensus size: 49
8747401 CAATGCGGAC
* ** * * * *
8747411 AAATATTGAAAGTTATCATTGCTAGGCAACCCGGGATGATAGAATAAAT
1 AAATATTAAAAGACATCATTGCTAGGCAACCCAGAATGACAAAATAAAT
* *
8747460 AAATATTAAAAGACATCGTTGCTAGGCAACCTAGAATGACAAAATAAA
1 AAATATTAAAAGACATCATTGCTAGGCAACCCAGAATGACAAAATAAA
8747508 GTATTCCTAG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (49 bp):
AAATATTAAAAGACATCATTGCTAGGCAACCCAGAATGACAAAATAAAT
Found at i:8747744 original size:2 final size:2
Alignment explanation
Indices: 8747737--8747788 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
8747727 NNNNNNNNNN
8747737 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8747779 TA TA TA TA TA
1 TA TA TA TA TA
8747789 CTCGCTTTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8750930 original size:24 final size:25
Alignment explanation
Indices: 8750871--8750934 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
8750861 TACATATGTT
*
8750871 TCTTACGAGCTTCCCAATTATTGGC
1 TCTTATGAGCTTCCCAATTATTGGC
* * *
8750896 TCTCT-TAAGCTTCCTATTTA-TGGC
1 TCT-TATGAGCTTCCCAATTATTGGC
8750920 TCTTATGAGCTTCCC
1 TCTTATGAGCTTCCC
8750935 GTTATACTGC
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
23 1 0.03
24 15 0.48
25 14 0.45
26 1 0.03
ACGTcount: A:0.17, C:0.28, G:0.14, T:0.41
Consensus pattern (25 bp):
TCTTATGAGCTTCCCAATTATTGGC
Found at i:8751025 original size:25 final size:25
Alignment explanation
Indices: 8750914--8751044 Score: 90
Period size: 25 Copynumber: 5.3 Consensus size: 25
8750904 GCTTCCTATT
**
8750914 TATGGCTCTTATGAGCTTCCCGTTA
1 TATGGCTCACATGAGCTTCCCGTTA
** * *
8750939 TACT-GCTCGGATAAGCTTCCCGATA
1 TA-TGGCTCACATGAGCTTCCCGTTA
* * *
8750964 T-TGGCTCACTTGAACTTCCTGATTA
1 TATGGCTCACATGAGCTTCCCG-TTA
* **
8750989 CA--GCTCTTATGAGCTTCCCGTTA
1 TATGGCTCACATGAGCTTCCCGTTA
* *
8751012 TATGGCTCACATGAGCTTTCCATTA
1 TATGGCTCACATGAGCTTCCCGTTA
8751037 TATGGCTC
1 TATGGCTC
8751045 GAAAGAGCTT
Statistics
Matches: 78, Mismatches: 22, Indels: 12
0.70 0.20 0.11
Matches are distributed among these distances:
23 5 0.06
24 25 0.32
25 47 0.60
26 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (25 bp):
TATGGCTCACATGAGCTTCCCGTTA
Found at i:8751029 original size:73 final size:74
Alignment explanation
Indices: 8750877--8751044 Score: 193
Period size: 73 Copynumber: 2.3 Consensus size: 74
8750867 TGTTTCTTAC
* **
8750877 GAGCTTCCCAATTATTGGCTCTCTTAAGCTTCCTATTTATGGCTCTTATGAGCTTCCCGTTATAC
1 GAGCTTCCCAATTATTGGCTCACTTAAGCTTCCTATTTACAGCTCTTATGAGCTTCCCGTTATAC
**
8750942 TGCTCGGAT
66 TGCTCACAT
* *
8750951 AAGCTTCCCGA-TATTGGCTCACTTGAA-CTTCCTGA-TTACAGCTCTTATGAGCTTCCCGTTAT
1 GAGCTTCCCAATTATTGGCTCACTT-AAGCTTCCT-ATTTACAGCTCTTATGAGCTTCCCGTTAT
8751013 A-TGGCTCACAT
64 ACT-GCTCACAT
*
8751024 GAGCTTTCC-ATTATATGGCTC
1 GAGCTTCCCAATTAT-TGGCTC
8751045 GAAAGAGCTT
Statistics
Matches: 80, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
72 2 0.03
73 60 0.75
74 18 0.22
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (74 bp):
GAGCTTCCCAATTATTGGCTCACTTAAGCTTCCTATTTACAGCTCTTATGAGCTTCCCGTTATAC
TGCTCACAT
Found at i:8751052 original size:25 final size:25
Alignment explanation
Indices: 8750999--8751056 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
8750989 CAGCTCTTAT
* *
8750999 GAGCTTCCCGTTATATGGCTCACAT
1 GAGCTTCCCATTATATGGCTCACAA
*
8751024 GAGCTTTCCATTATATGGCTCGA-AA
1 GAGCTTCCCATTATATGGCTC-ACAA
8751049 GAGCTTCC
1 GAGCTTCC
8751057 TGTTTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 27 0.96
26 1 0.04
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (25 bp):
GAGCTTCCCATTATATGGCTCACAA
Found at i:8753024 original size:26 final size:26
Alignment explanation
Indices: 8752995--8753052 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
8752985 CCCGTTATGT
*
8752995 GGCTCTTCGTGAGCTT-CTCGATTAAA
1 GGCTCTTCGTAAGCTTCCT-GATTAAA
* *
8753021 GGCTCTTTGTAAGCTTCCTGATTAAT
1 GGCTCTTCGTAAGCTTCCTGATTAAA
8753047 GGCTCT
1 GGCTCT
8753053 CTAGAGCTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 26 0.93
27 2 0.07
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
GGCTCTTCGTAAGCTTCCTGATTAAA
Found at i:8753243 original size:25 final size:25
Alignment explanation
Indices: 8753128--8753247 Score: 75
Period size: 25 Copynumber: 4.9 Consensus size: 25
8753118 TGGTTTTTCG
* *
8753128 GAGCTACCCATTGT-TGGCTCGCAT
1 GAGCTTCCCATTATATGGCTCGCAT
* **
8753152 GAGCTTCCCGA-T-TATGTCTCTTAT
1 GAGCTTCCC-ATTATATGGCTCGCAT
** ** *
8753176 GAGCTTCCTGTTATACAGCTCGGAT
1 GAGCTTCCCATTATATGGCTCGCAT
* * * * *
8753201 AAGCTTCCCGTCAAATGGCTCACAT
1 GAGCTTCCCATTATATGGCTCGCAT
8753226 GAGCTTCCCATTATATGGCTCG
1 GAGCTTCCCATTATATGGCTCG
8753248 AGAGAGTGCT
Statistics
Matches: 68, Mismatches: 24, Indels: 7
0.69 0.24 0.07
Matches are distributed among these distances:
23 1 0.01
24 25 0.37
25 42 0.62
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCATTATATGGCTCGCAT
Found at i:8757602 original size:25 final size:25
Alignment explanation
Indices: 8757574--8757677 Score: 90
Period size: 24 Copynumber: 4.2 Consensus size: 25
8757564 GGCTCTTACA
8757574 AGCTTCCCGATTATTGGCTCTCTTG
1 AGCTTCCCGATTATTGGCTCTCTTG
*
8757599 AGCTTCCCGTTTA-TGGCTCT-TATG
1 AGCTTCCCGATTATTGGCTCTCT-TG
* * **
8757623 AACTTCCTGATT-TATGGCTCTCCGG
1 AGCTTCCCGATTAT-TGGCTCTCTTG
* *
8757648 AGCTTCCCGA-TATTAGCTCACTTG
1 AGCTTCCCGATTATTGGCTCTCTTG
*
8757672 AACTTC
1 AGCTTC
8757678 TTGATTACAG
Statistics
Matches: 61, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
23 1 0.02
24 31 0.51
25 29 0.48
ACGTcount: A:0.16, C:0.28, G:0.18, T:0.38
Consensus pattern (25 bp):
AGCTTCCCGATTATTGGCTCTCTTG
Found at i:8757641 original size:49 final size:50
Alignment explanation
Indices: 8757535--8757656 Score: 133
Period size: 49 Copynumber: 2.4 Consensus size: 50
8757525 GTCTCGATAT
*
8757535 TTGGCTCTCATGATCTTCCCGTTACATATGGCTCTTACAAGCTTCCCGATTA
1 TTGGCTCTCATGAGCTTCCCGTT--ATATGGCTCTTACAAGCTTCCCGATTA
* * *
8757587 TTGGCTCTCTTGAGCTTCCCGTT-TATGGCTCTTATGAA-CTTCCTGATT-
1 TTGGCTCTCATGAGCTTCCCGTTATATGGCTCTTA-CAAGCTTCCCGATTA
**
8757635 TATGGCTCTCCGGAGCTTCCCG
1 T-TGGCTCTCATGAGCTTCCCG
8757657 ATATTAGCTC
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
48 1 0.02
49 38 0.61
50 2 0.03
52 21 0.34
ACGTcount: A:0.15, C:0.29, G:0.19, T:0.38
Consensus pattern (50 bp):
TTGGCTCTCATGAGCTTCCCGTTATATGGCTCTTACAAGCTTCCCGATTA
Found at i:8757721 original size:25 final size:25
Alignment explanation
Indices: 8757693--8757753 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
8757683 TACAGCTCTT
*
8757693 ATGAGCTTCTCGTTACATGGCTCAC
1 ATGAGCTTCCCGTTACATGGCTCAC
*
8757718 ATGAGCTTCCCGTTATATGGCTCGA-
1 ATGAGCTTCCCGTTACATGGCTC-AC
*
8757743 AAGAGCTTCCC
1 ATGAGCTTCCC
8757754 ATTTATGTGC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
25 31 0.97
26 1 0.03
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (25 bp):
ATGAGCTTCCCGTTACATGGCTCAC
Found at i:8757773 original size:25 final size:25
Alignment explanation
Indices: 8757693--8757773 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
8757683 TACAGCTCTT
* * *
8757693 ATGAGCTTCTCGTTACATGGCTC-A
1 ATGAGCTTCCCATTATATGGCTCGA
*
8757717 CATGAGCTTCCCGTTATATGGCTCGA
1 -ATGAGCTTCCCATTATATGGCTCGA
* *
8757743 AAGAGCTTCCCATT-TATGTGCTCGT
1 ATGAGCTTCCCATTATATG-GCTCGA
8757768 ATGAGC
1 ATGAGC
8757774 ATTTCCAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
24 4 0.08
25 43 0.90
26 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (25 bp):
ATGAGCTTCCCATTATATGGCTCGA
Found at i:8759785 original size:28 final size:28
Alignment explanation
Indices: 8759739--8759795 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
8759729 CCAACCTATC
* *
8759739 TAAAACAAGTCTATTTATAATAAGAAAA
1 TAAAACAAGTCCATCTATAATAAGAAAA
8759767 TAAAACAAGTCCATCTATAATAAGAAAA
1 TAAAACAAGTCCATCTATAATAAGAAAA
8759795 T
1 T
8759796 GGAGGAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.56, C:0.11, G:0.07, T:0.26
Consensus pattern (28 bp):
TAAAACAAGTCCATCTATAATAAGAAAA
Found at i:8761819 original size:3 final size:3
Alignment explanation
Indices: 8761811--8761848 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
8761801 ATCAAGGCAC
8761811 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T-A TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
8761849 AGCTTCATAG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:8764029 original size:23 final size:22
Alignment explanation
Indices: 8763990--8764035 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
8763980 AGTAATTATA
8763990 AAATAATTAGCTAAATAAACAAT
1 AAATAATTAGCTAAATAAA-AAT
*
8764013 AAATAATTA-CATCAATAAAAAT
1 AAATAATTAGC-TAAATAAAAAT
8764035 A
1 A
8764036 TTTAAAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (22 bp):
AAATAATTAGCTAAATAAAAAT
Found at i:8768520 original size:18 final size:17
Alignment explanation
Indices: 8768488--8768522 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
8768478 AAGGAAATAC
*
8768488 AAATGAAAAAGAGAAAT
1 AAATAAAAAAGAGAAAT
8768505 AAATAAAAAGAGAGAAAT
1 AAATAAAAA-AGAGAAAT
8768523 TATCATTCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.11
Consensus pattern (17 bp):
AAATAAAAAAGAGAAAT
Found at i:8768669 original size:2 final size:2
Alignment explanation
Indices: 8768662--8768689 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8768652 TATACACATA
8768662 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8768690 TAAGTGGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8783176 original size:44 final size:44
Alignment explanation
Indices: 8783126--8783350 Score: 138
Period size: 44 Copynumber: 5.1 Consensus size: 44
8783116 GATAGTAGAT
* * *
8783126 CTTGCCTTCCTATACTGACAGAGAAGCAGATCGAAGACATCAGC
1 CTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGC
* *** * * * * * * *
8783170 CTTGCCTCCCTGGGTTTACAGCGGAGTAGA-CTGAAAATAGCAGAT
1 CTTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGACACCAG-C
8783215 CTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGC
* * * * * *
8783259 CTTGCC-TCCTTGGGT-TTG-CAACGGAGCAGA-CTGAAGATAGCAGAT
1 CTTGCCTTCC-T--GTACTGACAGCGAAGCAGATC-GAAGACACCAG-C
* * *
8783304 CTTGCTTTCCT-TACTGACAGCGAAGGAGATCGAAGGCACCAGC
1 CTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGC
8783347 CTTG
1 CTTG
8783351 TCTCCCTGGG
Statistics
Matches: 130, Mismatches: 39, Indels: 25
0.67 0.20 0.13
Matches are distributed among these distances:
42 1 0.01
43 11 0.08
44 72 0.55
45 40 0.31
46 6 0.05
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (44 bp):
CTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGC
Found at i:8783361 original size:88 final size:89
Alignment explanation
Indices: 8783112--8783362 Score: 378
Period size: 89 Copynumber: 2.8 Consensus size: 89
8783102 AATAGATCAG
* * *
8783112 TGAAGATAGTAGATCTTGCCTTCCTATACTGACAGAGAAGCAGATCGAAGACATCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
8783177 CCCTGGGTTTACAGCGGAGTAGAC
66 CCCTGGGTTTACAACGGAGCAGAC
* *
8783201 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
8783266 CCTTGGGTTTGCAACGGAGCAGAC
66 CCCTGGGTTTACAACGGAGCAGAC
* * * *
8783290 TGAAGATAGCAGATCTTGCTTTCCT-TACTGACAGCGAAGGAGATCGAAGGCACCAGCCTTGTCT
1 TGAAGATAGCAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
8783354 CCCTGGGTT
66 CCCTGGGTT
8783363 CGCAGTGGAG
Statistics
Matches: 147, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
88 44 0.30
89 103 0.70
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (89 bp):
TGAAGATAGCAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTGGGTTTACAACGGAGCAGAC
Found at i:8785304 original size:21 final size:21
Alignment explanation
Indices: 8785278--8785318 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
8785268 GAACTTTTTT
8785278 TATTATCATTGTAATTATTAA
1 TATTATCATTGTAATTATTAA
*
8785299 TATTATTATTGTAATTATTA
1 TATTATCATTGTAATTATTA
8785319 CTTATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (21 bp):
TATTATCATTGTAATTATTAA
Found at i:8796649 original size:6 final size:6
Alignment explanation
Indices: 8796640--8796670 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
8796630 TTGCGGTCGA
8796640 GGACGT GGACGT GGACGT GGACGT GGACGT G
1 GGACGT GGACGT GGACGT GGACGT GGACGT G
8796671 ACGAGGTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.52, T:0.16
Consensus pattern (6 bp):
GGACGT
Found at i:8800905 original size:18 final size:18
Alignment explanation
Indices: 8800861--8800905 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
8800851 TCAACTTTAA
8800861 CCTTA-AACCTTTCATCT
1 CCTTATAACCTTTCATCT
*
8800878 TCTT-TAAACCTTTCATCT
1 CCTTAT-AACCTTTCATCT
8800896 CCTTATAACC
1 CCTTATAACC
8800906 CCTTTTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
17 3 0.13
18 19 0.83
19 1 0.04
ACGTcount: A:0.24, C:0.33, G:0.00, T:0.42
Consensus pattern (18 bp):
CCTTATAACCTTTCATCT
Found at i:8805113 original size:32 final size:32
Alignment explanation
Indices: 8805077--8805188 Score: 147
Period size: 32 Copynumber: 3.5 Consensus size: 32
8805067 CGCGTGGTTC
*
8805077 TGTGAAATGATAACAAATATCAGCTTTCATTT
1 TGTGAAATGATAACAAATATCAACTTTCATTT
*
8805109 TGTGAAATGGTAACAAAT-TACAAC-TTCAATTT
1 TGTGAAATGATAACAAATAT-CAACTTTC-ATTT
* *
8805141 TGTGAAATAATAACAAATATCAACTTTAATTT
1 TGTGAAATGATAACAAATATCAACTTTCATTT
*
8805173 TGTTAAATGATAACAA
1 TGTGAAATGATAACAA
8805189 TATTCCTCTA
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
31 4 0.06
32 62 0.90
33 3 0.04
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (32 bp):
TGTGAAATGATAACAAATATCAACTTTCATTT
Found at i:8805342 original size:33 final size:33
Alignment explanation
Indices: 8805295--8805363 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
8805285 GCCACATCGA
* *
8805295 GGTGGTTGACGGTTGCGTGCTAGATTCCTTCTT
1 GGTGCTTGACGGTTGCGCGCTAGATTCCTTCTT
8805328 GGTGCTTGACGGTTGCGCGCTAGATTCCTTCTT
1 GGTGCTTGACGGTTGCGCGCTAGATTCCTTCTT
8805361 GGT
1 GGT
8805364 TCAACCCTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.09, C:0.20, G:0.33, T:0.38
Consensus pattern (33 bp):
GGTGCTTGACGGTTGCGCGCTAGATTCCTTCTT
Found at i:8807360 original size:23 final size:23
Alignment explanation
Indices: 8807334--8807455 Score: 156
Period size: 23 Copynumber: 5.3 Consensus size: 23
8807324 ATAAGTGCCA
8807334 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
8807357 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* **
8807380 CACTGAAATGTAGTTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
8807403 CACTGACATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
8807426 CACTGA-ATTGTAGCCGAAGTTAC
1 CACTGATA-TGTAGCCGAAGCTAC
*
8807449 CTCTGAT
1 CACTGAT
8807456 CAATAACCCT
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
22 1 0.01
23 84 0.99
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:8807401 original size:46 final size:46
Alignment explanation
Indices: 8807334--8807454 Score: 179
Period size: 46 Copynumber: 2.6 Consensus size: 46
8807324 ATAAGTGCCA
* *
8807334 CACTGATATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGACATGTAGCCGTAGCTAC
**
8807380 CACTGAAATGTAGTTGAAGCTACCACTGACATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGACATGTAGCCGTAGCTAC
* * *
8807426 CACTGAATTGTAGCCGAAGTTACCTCTGA
1 CACTGAAATGTAGCCGAAGCTACCACTGA
8807455 TCAATAACCC
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 66 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGACATGTAGCCGTAGCTAC
Found at i:8807705 original size:18 final size:17
Alignment explanation
Indices: 8807679--8807717 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
8807669 ATTTTCCTTC
8807679 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
8807696 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
8807714 CACA
1 CACA
8807718 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:8810145 original size:12 final size:13
Alignment explanation
Indices: 8810128--8810161 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
8810118 AAATATTTTC
8810128 AGAAAATATTAAT
1 AGAAAATATTAAT
*
8810141 AAAAAAT-TTAAT
1 AGAAAATATTAAT
8810153 AGAAAATAT
1 AGAAAATAT
8810162 AATTTAGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (13 bp):
AGAAAATATTAAT
Found at i:8810482 original size:30 final size:31
Alignment explanation
Indices: 8810446--8810503 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
8810436 TAAATATTTC
*
8810446 AAAAATCGGC-TTATTCTAGTAATTTAAAAA
1 AAAAATCAGCATTATTCTAGTAATTTAAAAA
* *
8810476 AAAAATCAGCATTTTTTTAGTAATTTAA
1 AAAAATCAGCATTATTCTAGTAATTTAA
8810504 TCAGAAGTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 9 0.38
31 15 0.62
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (31 bp):
AAAAATCAGCATTATTCTAGTAATTTAAAAA
Found at i:8814303 original size:18 final size:18
Alignment explanation
Indices: 8814277--8814311 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8814267 AGTGTAAAAG
*
8814277 TTGTTGAGTAAAATTAAT
1 TTGTGGAGTAAAATTAAT
*
8814295 TTGTGGAGTAGAATTAA
1 TTGTGGAGTAAAATTAA
8814312 CAATGAACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (18 bp):
TTGTGGAGTAAAATTAAT
Found at i:8823022 original size:20 final size:20
Alignment explanation
Indices: 8822997--8823047 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
8822987 ATTAATTGTT
*
8822997 TATAAAATTTAATTCAAATA
1 TATAAAATATAATTCAAATA
* *
8823017 TATAAAATATATTTTAAATA
1 TATAAAATATAATTCAAATA
8823037 T-TAAAATATAA
1 TATAAAATATAA
8823048 CCAATAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TATAAAATATAATTCAAATA
Found at i:8826435 original size:37 final size:37
Alignment explanation
Indices: 8826386--8826528 Score: 123
Period size: 37 Copynumber: 3.9 Consensus size: 37
8826376 CTTGGAAGAC
* *
8826386 AAAAGATAGAGATAAATAGAAGTAATTCTCTACAAAG
1 AAAAGACAGAGATGAATAGAAGTAATTCTCTACAAAG
* * **
8826423 AAAAGACGGAGATGAATAGTAA--AGATCCTCTATGAAG
1 AAAAGACAGAGATGAATAG-AAGTA-ATTCTCTACAAAG
* * *
8826460 AAAA-ATAGAGATGAACAGAAGTGATTCTCTACAAAG
1 AAAAGACAGAGATGAATAGAAGTAATTCTCTACAAAG
* * *
8826496 AAAAGAAAGAGATGAACAAGAA-CAATTCTCTAC
1 AAAAGACAGAGATGAA-TAGAAGTAATTCTCTAC
8826529 CCTCCAAAAA
Statistics
Matches: 83, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
35 2 0.02
36 26 0.31
37 49 0.59
38 6 0.07
ACGTcount: A:0.51, C:0.11, G:0.19, T:0.19
Consensus pattern (37 bp):
AAAAGACAGAGATGAATAGAAGTAATTCTCTACAAAG
Found at i:8826490 original size:36 final size:37
Alignment explanation
Indices: 8826386--8826513 Score: 134
Period size: 37 Copynumber: 3.5 Consensus size: 37
8826376 CTTGGAAGAC
* * *
8826386 AAAAGATAGAGATAAATAGAAGTAATTCTCTACAAAG
1 AAAAGATAGAGATGAACAGAAGTGATTCTCTACAAAG
** * * * **
8826423 AAAAGACGGAGATGAATAGTAA-AGATCCTCTATGAAG
1 AAAAGATAGAGATGAACAG-AAGTGATTCTCTACAAAG
8826460 AAAA-ATAGAGATGAACAGAAGTGATTCTCTACAAAG
1 AAAAGATAGAGATGAACAGAAGTGATTCTCTACAAAG
*
8826496 AAAAGAAAGAGATGAACA
1 AAAAGATAGAGATGAACA
8826514 AGAACAATTC
Statistics
Matches: 72, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
35 2 0.03
36 26 0.36
37 42 0.58
38 2 0.03
ACGTcount: A:0.52, C:0.09, G:0.20, T:0.18
Consensus pattern (37 bp):
AAAAGATAGAGATGAACAGAAGTGATTCTCTACAAAG
Found at i:8832430 original size:37 final size:35
Alignment explanation
Indices: 8832384--8832461 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
8832374 AATTATTCTT
*
8832384 TGCAAAGAAAATACAAAGATGAATAGTAAAGATCCTC
1 TGCAAAGAAAA-A-AAAGATGAACAGTAAAGATCCTC
* * *
8832421 TGCATAGAAAAAAAAGATGAACAGTAACGATTCTC
1 TGCAAAGAAAAAAAAGATGAACAGTAAAGATCCTC
*
8832456 TTCAAA
1 TGCAAA
8832462 AATTCTCTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 24 0.69
36 1 0.03
37 10 0.29
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.21
Consensus pattern (35 bp):
TGCAAAGAAAAAAAAGATGAACAGTAAAGATCCTC
Found at i:8832441 original size:35 final size:37
Alignment explanation
Indices: 8832344--8832461 Score: 98
Period size: 37 Copynumber: 3.2 Consensus size: 37
8832334 AAGGGTGATT
* * * ** *
8832344 CTCTACAAAGAAAAGACAAAGATGGACA-TGAATTATT
1 CTCTGCAAAGAAAATACAAAGATGAACAGT-AAAGATC
* *
8832381 CTTTGCAAAGAAAATACAAAGATGAATAGTAAAGATC
1 CTCTGCAAAGAAAATACAAAGATGAACAGTAAAGATC
* * *
8832418 CTCTGCATAGAAAA-A-AAAGATGAACAGTAACGATT
1 CTCTGCAAAGAAAATACAAAGATGAACAGTAAAGATC
*
8832453 CTCTTCAAA
1 CTCTGCAAA
8832462 AATTCTCTCA
Statistics
Matches: 65, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
35 24 0.37
36 1 0.02
37 39 0.60
38 1 0.02
ACGTcount: A:0.48, C:0.14, G:0.15, T:0.22
Consensus pattern (37 bp):
CTCTGCAAAGAAAATACAAAGATGAACAGTAAAGATC
Found at i:8835209 original size:2 final size:2
Alignment explanation
Indices: 8835204--8835243 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
8835194 TTTATATATA
8835204 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
8835244 ATGGTCGAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:8835441 original size:43 final size:44
Alignment explanation
Indices: 8835325--8835453 Score: 160
Period size: 43 Copynumber: 3.0 Consensus size: 44
8835315 ATAGGATTCC
* *
8835325 ATTATGTG-TTATCGTGTAAGACCACGTCTGGGACGTTGGCATCG
1 ATTATGTGATTA-CATGTAAGACCACGTCTGGGATGTTGGCATCG
*
8835369 ACT-TGTGACTTACATGTAAGACC-CTGTCTGGGATAG-TGGCATCG
1 ATTATGTGA-TTACATGTAAGACCAC-GTCTGGGAT-GTTGGCATCG
8835413 -TTATGTGATTACATGTAAGACCACGTCTGGGATGTTGGCAT
1 ATTATGTGATTACATGTAAGACCACGTCTGGGATGTTGGCAT
8835454 TGTACGAAAT
Statistics
Matches: 74, Mismatches: 4, Indels: 15
0.80 0.04 0.16
Matches are distributed among these distances:
42 1 0.01
43 35 0.47
44 34 0.46
45 4 0.05
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (44 bp):
ATTATGTGATTACATGTAAGACCACGTCTGGGATGTTGGCATCG
Found at i:8835588 original size:23 final size:23
Alignment explanation
Indices: 8835558--8835603 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
8835548 AATGCTCAGG
8835558 TATGTACTCATACTAAGTTATGA
1 TATGTACTCATACTAAGTTATGA
8835581 TATGTACTCATACTAAGTTATGA
1 TATGTACTCATACTAAGTTATGA
8835604 AATTAAGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (23 bp):
TATGTACTCATACTAAGTTATGA
Found at i:8838137 original size:37 final size:36
Alignment explanation
Indices: 8838088--8838206 Score: 116
Period size: 37 Copynumber: 3.2 Consensus size: 36
8838078 TTGAAAGACT
8838088 AAAGACCAAGATGAACA-AAAGTGATTCTCTGAAAAGA
1 AAAGA-CAAGATGAACATAAA-TGATTCTCTGAAAAGA
* *
8838125 AAAGACAGAGATGAACATGAATGATTCTCTGTAAAGA
1 AAAGACA-AGATGAACATAAATGATTCTCTGAAAAGA
* * * *
8838162 AAAGACAAAGATGGATAGTAAA-GATTATCTGCAAAGA
1 AAAGAC-AAGATGAACA-TAAATGATTCTCTGAAAAGA
*
8838199 AAAAACAA
1 AAAGACAA
8838207 AGGTTAACAG
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
36 4 0.06
37 60 0.86
38 6 0.09
ACGTcount: A:0.52, C:0.11, G:0.19, T:0.18
Consensus pattern (36 bp):
AAAGACAAGATGAACATAAATGATTCTCTGAAAAGA
Found at i:8845241 original size:15 final size:15
Alignment explanation
Indices: 8845221--8845250 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8845211 AAAAACAACA
8845221 TAACTCTTAACCTTT
1 TAACTCTTAACCTTT
*
8845236 TAACTCTTGACCTTT
1 TAACTCTTAACCTTT
8845251 CACTTACATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.27, G:0.03, T:0.47
Consensus pattern (15 bp):
TAACTCTTAACCTTT
Found at i:8846454 original size:5 final size:6
Alignment explanation
Indices: 8846435--8846464 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
8846425 GGCATTATCA
8846435 TTTATT TTTATT TTTATT TTTA-T TTTATT T
1 TTTATT TTTATT TTTATT TTTATT TTTATT T
8846465 GCCTTCGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:8852919 original size:29 final size:29
Alignment explanation
Indices: 8852875--8852930 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
8852865 AAATATAAAC
*
8852875 TATATTTTTTTATTTTAAAATATACTACA
1 TATATTTTTTTATTTTAAAATACACTACA
8852904 TATATTTTTTCT-TTTTAAAATACACTA
1 TATATTTTTT-TATTTTAAAATACACTA
8852931 TATTTAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (29 bp):
TATATTTTTTTATTTTAAAATACACTACA
Found at i:8854539 original size:27 final size:27
Alignment explanation
Indices: 8854509--8854563 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
8854499 CTTCCATTTC
8854509 TGTTGCCCTTTCCAATTTAGTTATTAT
1 TGTTGCCCTTTCCAATTTAGTTATTAT
** *
8854536 TGTTGTTCTTTTCAATTTAGTTATTAT
1 TGTTGCCCTTTCCAATTTAGTTATTAT
8854563 T
1 T
8854564 TTATATATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (27 bp):
TGTTGCCCTTTCCAATTTAGTTATTAT
Found at i:8860550 original size:21 final size:21
Alignment explanation
Indices: 8860526--8860576 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
8860516 AACCGATATA
* *
8860526 AAAATTATCAAAAAATAAATT
1 AAAATTATCAAAAAAGAAAGT
* * *
8860547 AAAATCATAAAAAAAGAGAGT
1 AAAATTATCAAAAAAGAAAGT
8860568 AAAATTATC
1 AAAATTATC
8860577 GCAAATCTCA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (21 bp):
AAAATTATCAAAAAAGAAAGT
Found at i:8861361 original size:19 final size:17
Alignment explanation
Indices: 8861337--8861379 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
8861327 AAATTATAAA
*
8861337 ATAAATTATAGTAGTATCC
1 ATAAATTATA-AAGTAT-C
8861356 ATAAATTTATAAAGTATC
1 ATAAA-TTATAAAGTATC
8861374 ATAAAT
1 ATAAAT
8861380 CAAAATTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 6 0.27
19 10 0.45
20 5 0.23
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (17 bp):
ATAAATTATAAAGTATC
Found at i:8867463 original size:15 final size:15
Alignment explanation
Indices: 8867445--8867479 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
8867435 TACAAATGCT
8867445 ACAATAATAAATACA
1 ACAATAATAAATACA
8867460 ACAATAATAAATACA
1 ACAATAATAAATACA
*
8867475 TCAAT
1 ACAAT
8867480 GGCATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.63, C:0.14, G:0.00, T:0.23
Consensus pattern (15 bp):
ACAATAATAAATACA
Found at i:8867901 original size:29 final size:29
Alignment explanation
Indices: 8867869--8867925 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
8867859 GTATAAATAC
*
8867869 AAAAATATTTATTAAAAAATA-AAATATAG
1 AAAAATATTCA-TAAAAAATATAAATATAG
8867898 AAAAATATTCATAAAAAATATAAATATA
1 AAAAATATTCATAAAAAATATAAATATA
8867926 TATATGTAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (29 bp):
AAAAATATTCATAAAAAATATAAATATAG
Found at i:8876118 original size:27 final size:23
Alignment explanation
Indices: 8876075--8876143 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 23
8876065 TTAAATTATA
8876075 AAAAAT-TATT-TTT-AAAAATT
1 AAAAATATATTATTTAAAAAATT
8876095 AAAGACATCATATTATTTAAAAAATAT
1 AAA-A-AT-ATATTATTTAAAAAAT-T
8876122 AAAAATATATT-TTTAAAAAATT
1 AAAAATATATTATTTAAAAAATT
8876144 TAAATTTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.07
21 1 0.02
22 3 0.07
23 10 0.24
24 9 0.21
25 5 0.12
26 7 0.17
27 4 0.10
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (23 bp):
AAAAATATATTATTTAAAAAATT
Found at i:8881649 original size:21 final size:21
Alignment explanation
Indices: 8881625--8881674 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
8881615 ATAGGTATTG
**
8881625 ATAATTTTAAAAGGGGTATCA
1 ATAATTTTAAAACAGGTATCA
**
8881646 ATAATTTTTCAACAGGTATCA
1 ATAATTTTAAAACAGGTATCA
8881667 ATAATTTT
1 ATAATTTT
8881675 TTATGGTATC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (21 bp):
ATAATTTTAAAACAGGTATCA
Found at i:8887378 original size:37 final size:38
Alignment explanation
Indices: 8887321--8887392 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 38
8887311 CCGAATATAA
*
8887321 TAAATATATATTTTTAA-TTTTTAATTTTAAAATACTT
1 TAAAAATATATTTTTAATTTTTTAATTTTAAAATACTT
* * *
8887358 TAAAAATATTTTTTTTATTTTTTATTTTTAAAATA
1 TAAAAATATATTTTTAATTTTTTAATTTTAAAATA
8887393 TTTTTTTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 14 0.47
38 16 0.53
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (38 bp):
TAAAAATATATTTTTAATTTTTTAATTTTAAAATACTT
Found at i:8891974 original size:14 final size:15
Alignment explanation
Indices: 8891955--8891983 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8891945 TCATCACCAC
8891955 ATATCATAC-CAAAT
1 ATATCATACTCAAAT
8891969 ATATCATACTCAAAT
1 ATATCATACTCAAAT
8891984 GGTACTGGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
ATATCATACTCAAAT
Found at i:8892899 original size:16 final size:16
Alignment explanation
Indices: 8892878--8892908 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8892868 CGTCGATACA
8892878 TAGAGTTCGCCAGATT
1 TAGAGTTCGCCAGATT
8892894 TAGAGTTCGCCAGAT
1 TAGAGTTCGCCAGAT
8892909 GACTAATCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (16 bp):
TAGAGTTCGCCAGATT
Found at i:8896224 original size:18 final size:18
Alignment explanation
Indices: 8896189--8896226 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
8896179 TAAATGATGA
8896189 ATTTTAAGTATTAGTTGTT
1 ATTTTAAGTATTA-TTGTT
8896208 ATTTATAAGTATT-TTGTT
1 ATTT-TAAGTATTATTGTT
8896226 A
1 A
8896227 AGTCATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (18 bp):
ATTTTAAGTATTATTGTT
Found at i:8896765 original size:46 final size:46
Alignment explanation
Indices: 8896697--8896808 Score: 206
Period size: 46 Copynumber: 2.4 Consensus size: 46
8896687 AATTATTAAA
*
8896697 ACCATAGTTGAAAGACATTATGGCACTATACCGGAGAATAAATAAG
1 ACCATAGTTGAAAGACACTATGGCACTATACCGGAGAATAAATAAG
*
8896743 ACCATAGTTGAAAGACACTATGGCACTATATCGGAGAATAAATAAG
1 ACCATAGTTGAAAGACACTATGGCACTATACCGGAGAATAAATAAG
8896789 ACCATAGTTGAAAGACACTA
1 ACCATAGTTGAAAGACACTA
8896809 CGACAACATA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 64 1.00
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (46 bp):
ACCATAGTTGAAAGACACTATGGCACTATACCGGAGAATAAATAAG
Found at i:8896876 original size:45 final size:45
Alignment explanation
Indices: 8896827--8896997 Score: 220
Period size: 45 Copynumber: 3.8 Consensus size: 45
8896817 TACCATAAAC
* ** *
8896827 GAGTAAGACCATGAATGAAAGACGTTATGAAATCACGATTTTAAT
1 GAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAAT
* *
8896872 GAGTAAAACCATGACTGAAAGACGTTATGGCATCACGATTCTATT
1 GAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAAT
*
8896917 GAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCT-AT
1 GAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAAT
* * *
8896961 TATGTAAGACCAT-AGTTGAAAGACGCTATGGCATCAC
1 GA-GTAAGACCATGA-CTGAAAGACGTTATGGCATCAC
8896998 AAATCAAACA
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
44 3 0.03
45 108 0.97
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (45 bp):
GAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAAT
Found at i:8897014 original size:45 final size:45
Alignment explanation
Indices: 8896965--8897084 Score: 152
Period size: 46 Copynumber: 2.6 Consensus size: 45
8896955 TTCTATTATG
* * *
8896965 TAAGACCATAGTTGAAAGACGCTATGGCATCACAAAT-CAAACAAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACAC-AATGAAAACAAA
* *
8897010 TAAGACCATAGTTGAAAGACACTATGACAACACGATGGAAAACAAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACACAAT-GAAAACAAA
* *
8897056 TAAGACCATGGTTGAAAGACACCATGGCA
1 TAAGACCATAGTTGAAAGACACTATGGCA
8897085 CACTCCGATC
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
44 2 0.03
45 30 0.46
46 33 0.51
ACGTcount: A:0.46, C:0.19, G:0.18, T:0.17
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGGCAACACAATGAAAACAAA
Found at i:8897014 original size:90 final size:90
Alignment explanation
Indices: 8896785--8897018 Score: 222
Period size: 90 Copynumber: 2.6 Consensus size: 90
8896775 GGAGAATAAA
* * * * * *
8896785 TAAGACCATAGTTGAAAGACACTACGACAACATACCAT-AAACGAGTAAGACCATGAATGAAAGA
1 TAAGACCATAGTTGAAAGACGCTATGGCATCACA-AATCAAACGAGTAAGACCATGAATGAAAGA
*
8896849 CGTTATGAAATCACGATTTTAATGAG
65 CGTTATGAAATCACGATTCTAATGAG
* * * * * * ** *
8896875 TAAAACCAT-GACTGAAAGACGTTATGGCATCACGATTCTATTGAGTAAGACCATGACTGAAAGA
1 TAAGACCATAG-TTGAAAGACGCTATGGCATCACAAATCAAACGAGTAAGACCATGAATGAAAGA
* ** *
8896939 TGTTATGGCATCACGATTCT-ATTATG
65 CGTTATGAAATCACGATTCTAATGA-G
* *
8896965 TAAGACCATAGTTGAAAGACGCTATGGCATCACAAATCAAACAAATAAGACCAT
1 TAAGACCATAGTTGAAAGACGCTATGGCATCACAAATCAAACGAGTAAGACCAT
8897019 AGTTGAAAGA
Statistics
Matches: 110, Mismatches: 30, Indels: 8
0.74 0.20 0.05
Matches are distributed among these distances:
89 5 0.05
90 104 0.95
91 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (90 bp):
TAAGACCATAGTTGAAAGACGCTATGGCATCACAAATCAAACGAGTAAGACCATGAATGAAAGAC
GTTATGAAATCACGATTCTAATGAG
Found at i:8897072 original size:22 final size:22
Alignment explanation
Indices: 8897003--8897072 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
8896993 ATCACAAATC
*
8897003 AAACAAATAAGACCATAGTTGA
1 AAACAAATAAGACCATGGTTGA
* * * * *
8897025 AAGAC-ACTATGACAACACGATGGA
1 AA-ACAAATAAGAC--CATGGTTGA
8897049 AAACAAATAAGACCATGGTTGA
1 AAACAAATAAGACCATGGTTGA
8897071 AA
1 AA
8897073 GACACCATGG
Statistics
Matches: 33, Mismatches: 11, Indels: 8
0.63 0.21 0.15
Matches are distributed among these distances:
22 16 0.48
23 4 0.12
24 13 0.39
ACGTcount: A:0.51, C:0.16, G:0.17, T:0.16
Consensus pattern (22 bp):
AAACAAATAAGACCATGGTTGA
Found at i:8903244 original size:51 final size:51
Alignment explanation
Indices: 8903185--8903461 Score: 285
Period size: 51 Copynumber: 5.5 Consensus size: 51
8903175 AATCGATGAA
* * *
8903185 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
* * * * * * * *
8903236 CACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACTGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATGTTGGT
* * * *
8903287 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTAAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
* * * *
8903338 CACATGTGTAGTACTAAGTGAAGGC-ACCTATGTGTACCGA-AAA-GCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTA-CTACGTGAACCGATAAATG--TTGGT
** *
8903389 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
8903439 CACGTGTGTAGTACTATGTGAAG
1 CACGTGTGTAGTACTATGTGAAG
8903462 ACAACTATGT
Statistics
Matches: 181, Mismatches: 37, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
49 1 0.01
50 32 0.18
51 146 0.81
52 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
Found at i:8903361 original size:102 final size:102
Alignment explanation
Indices: 8903185--8903479 Score: 423
Period size: 102 Copynumber: 2.9 Consensus size: 102
8903175 AATCGATGAA
8903185 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* *
8903250 TAAGTGAAGGCTA-CAATGTGTACTGAGAAGCTTTGGT
66 TAAGTGAAGGC-ACCAATGTGTACCGAAAAGCTTTGGT
*
8903287 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTAAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
8903352 TAAGTGAAGGCACCTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCACCAATGTGTACCGAAAAGCTTTGGT
* * *** * *
8903389 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* * * * *
8903453 TATGTGAAGACAACTATGTGTATCGAA
66 TAAGTGAAGGCACCAATGTGTACCGAA
8903480 TGATAAAAGT
Statistics
Matches: 176, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
101 44 0.25
102 132 0.75
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCACCAATGTGTACCGAAAAGCTTTGGT
Found at i:8908854 original size:22 final size:21
Alignment explanation
Indices: 8908813--8908854 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8908803 TTGCCTTCAA
*
8908813 TGTCGCGACACAGCTTGAAGG
1 TGTCGCGACACACCTTGAAGG
*
8908834 TGTCGCGACATACCCTTGAAG
1 TGTCGCGACACA-CCTTGAAG
8908855 ATATTCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.24, C:0.26, G:0.29, T:0.21
Consensus pattern (21 bp):
TGTCGCGACACACCTTGAAGG
Found at i:8909722 original size:15 final size:15
Alignment explanation
Indices: 8909699--8909734 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
8909689 TCTTGAGCTT
8909699 TTATT-TCTTTTATG
1 TTATTATCTTTTATG
*
8909713 TTATTATCTTTTATT
1 TTATTATCTTTTATG
8909728 TTATTAT
1 TTATTAT
8909735 TTTAAAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.72
Consensus pattern (15 bp):
TTATTATCTTTTATG
Found at i:8910208 original size:12 final size:11
Alignment explanation
Indices: 8910179--8910207 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
8910169 TTTATTTTTT
8910179 TATTTTTAAAA
1 TATTTTTAAAA
8910190 TATTTTTAAAA
1 TATTTTTAAAA
8910201 TATTTTT
1 TATTTTT
8910208 TTTATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:8920022 original size:31 final size:31
Alignment explanation
Indices: 8919987--8920045 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
8919977 ACCTAAACCT
* *
8919987 TTTTTTG-TCCAATTAGGTACTTGAACTTAGC
1 TTTTTTGTTCAAATTA-GTACCTGAACTTAGC
8920018 TTTTTTGTTCAAATTAGTACCTGAACTT
1 TTTTTTGTTCAAATTAGTACCTGAACTT
8920046 GGCTCCATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 18 0.72
32 7 0.28
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (31 bp):
TTTTTTGTTCAAATTAGTACCTGAACTTAGC
Found at i:8920205 original size:60 final size:60
Alignment explanation
Indices: 8920115--8920229 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 60
8920105 TAAAGCCAAG
* * * *
8920115 TTTAGGTACCAATTTGAACCAAGAAACCAAGTTCAGGTGCC-AATTTGGACCAAAATAAGT
1 TTTAGGTACCAAATTCAACCAAGAAACCAAGTTCAAGTACCTAA-TTGGACCAAAATAAGT
* *
8920175 TTTAGGTACCAAATTCAACCTTA-AAGCCAAGTTCAAGTACCTAATTGGACCAAAA
1 TTTAGGTACCAAATTCAACC-AAGAAACCAAGTTCAAGTACCTAATTGGACCAAAA
8920230 AAAACCTTAG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
60 44 0.94
61 3 0.06
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (60 bp):
TTTAGGTACCAAATTCAACCAAGAAACCAAGTTCAAGTACCTAATTGGACCAAAATAAGT
Found at i:8924150 original size:28 final size:29
Alignment explanation
Indices: 8924114--8924173 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
8924104 TTAATTAATT
* * *
8924114 TTTTTTAAATTTTAAAATTAA-AAAAATA
1 TTTTTTAAAATTAAAAATCAATAAAAATA
*
8924142 TTTTTTAAAATTAAAAATCAATAAAATTA
1 TTTTTTAAAATTAAAAATCAATAAAAATA
8924171 TTT
1 TTT
8924174 AAAAAGTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (29 bp):
TTTTTTAAAATTAAAAATCAATAAAAATA
Found at i:8925144 original size:32 final size:32
Alignment explanation
Indices: 8925103--8925166 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
8925093 GCGATCCTTC
8925103 TGTCTTAGTGTTGAAACTTTGAAAAGCTTTTA
1 TGTCTTAGTGTTGAAACTTTGAAAAGCTTTTA
8925135 TGTCTTAGTGTTGAAACTTTGAAAAGCTTTTA
1 TGTCTTAGTGTTGAAACTTTGAAAAGCTTTTA
8925167 AAATACGATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (32 bp):
TGTCTTAGTGTTGAAACTTTGAAAAGCTTTTA
Found at i:8925931 original size:13 final size:13
Alignment explanation
Indices: 8925915--8925940 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8925905 TATAATAAAA
8925915 TAAAATAATATTT
1 TAAAATAATATTT
8925928 TAAAATAATATTT
1 TAAAATAATATTT
8925941 AATGAATTTG
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAAAATAATATTT
Found at i:8926040 original size:23 final size:22
Alignment explanation
Indices: 8925996--8926056 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 22
8925986 GTATTATTTC
8925996 TAAAAAT-ATATTAAAAGCAAAT-
1 TAAAAATAATATT--AAGCAAATA
8926018 TCAAAAATAATATTAAGCTAAATA
1 T-AAAAATAATATTAAGC-AAATA
*
8926042 TTAAAATAATATTAA
1 TAAAAATAATATTAA
8926057 AAACAATGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
22 5 0.15
23 23 0.68
24 6 0.18
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (22 bp):
TAAAAATAATATTAAGCAAATA
Found at i:8927524 original size:24 final size:24
Alignment explanation
Indices: 8927487--8927534 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
8927477 GACTGTGGAC
*
8927487 ATTTTAAAATTTGGTTTTATTTTT
1 ATTTTAAAATTTGGGTTTATTTTT
8927511 ATTTATAAAA-TTGGGTTTATTTTT
1 ATTT-TAAAATTTGGGTTTATTTTT
8927535 GGTTTGCGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.62
Consensus pattern (24 bp):
ATTTTAAAATTTGGGTTTATTTTT
Found at i:8947110 original size:26 final size:26
Alignment explanation
Indices: 8947066--8947139 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
8947056 TATTTTCTAG
8947066 AAATTTTACCAAGGATAAAATAACCA
1 AAATTTTACCAAGGATAAAATAACCA
* * * *
8947092 AAATTTTATCAGGGGTAAAATAATCA
1 AAATTTTACCAAGGATAAAATAACCA
*
8947118 AAATTTTACTAAAGG-TAAAATA
1 AAATTTTAC-CAAGGATAAAATA
8947140 GGGATAAGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 37 0.93
27 3 0.08
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.28
Consensus pattern (26 bp):
AAATTTTACCAAGGATAAAATAACCA
Found at i:8950031 original size:38 final size:38
Alignment explanation
Indices: 8949842--8950038 Score: 191
Period size: 38 Copynumber: 5.2 Consensus size: 38
8949832 TAACCATACT
* * * *
8949842 GGCACGAAGCCTACTAGGTACTAAGCCTGATTAACACT
1 GGCACAAAGCCTGCTAGGCACTAAGCCTGATTAACACC
* * * *
8949880 GGCACATAGCCTGCTAGGCTCTAAGGCC-GAATAA-ATCT
1 GGCACAAAGCCTGCTAGGCACTAA-GCCTGATTAACA-CC
** *
8949918 GGCATGAAGCTTGCTAGGCACTAAGCCTGATTAACACC
1 GGCACAAAGCCTGCTAGGCACTAAGCCTGATTAACACC
* * * *
8949956 GGCACGAAGTCTGCTAGGCATTAAACCTGATTAACACC
1 GGCACAAAGCCTGCTAGGCACTAAGCCTGATTAACACC
* * *
8949994 GGCACAAAGCCTGCTAGACACTAAGCCTAAATAACACC
1 GGCACAAAGCCTGCTAGGCACTAAGCCTGATTAACACC
*
8950032 AGCACAA
1 GGCACAA
8950039 CCAAATATTT
Statistics
Matches: 129, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
37 4 0.03
38 121 0.94
39 4 0.03
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (38 bp):
GGCACAAAGCCTGCTAGGCACTAAGCCTGATTAACACC
Found at i:8955704 original size:87 final size:88
Alignment explanation
Indices: 8955603--8955763 Score: 254
Period size: 88 Copynumber: 1.8 Consensus size: 88
8955593 AACCTCAAAC
*
8955603 ATACCATTATAATATTTAATTA-TTTTTTTATACTAATTAAGTAAGAAGCATACAAATAAATAAC
1 ATACCATTATAATATTTAATTAGTTTTTTTATACTAATTAAGTAACAAGCATACAAATAAATAAC
8955667 AATACAAAAAGAAAATCTCACAT
66 AATACAAAAAGAAAATCTCACAT
* *
8955690 ATACCATT-TCAATATTTATTTAGTTTTTTTATACTAATTAAGTGACAAGCATACAAATAAATAA
1 ATACCATTAT-AATATTTAATTAGTTTTTTTATACTAATTAAGTAACAAGCATACAAATAAATAA
* *
8955754 TACTACAAAA
65 CAATACAAAA
8955764 CCAATTAAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
86 1 0.01
87 19 0.28
88 47 0.70
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.35
Consensus pattern (88 bp):
ATACCATTATAATATTTAATTAGTTTTTTTATACTAATTAAGTAACAAGCATACAAATAAATAAC
AATACAAAAAGAAAATCTCACAT
Found at i:8958325 original size:16 final size:16
Alignment explanation
Indices: 8958304--8958341 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
8958294 TTTGGTTCGC
8958304 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
8958320 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
8958336 TGTAAT
1 TGTAAT
8958342 AGCAAATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.34, T:0.29
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:8958426 original size:39 final size:43
Alignment explanation
Indices: 8958320--8958429 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
8958310 GGAATAGAGG
8958320 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
** * ***
8958365 TGTAATGGAATAGAGGCATAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
8958405 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
8958430 TAAGGGAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
39 19 0.35
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.40
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:8958595 original size:18 final size:17
Alignment explanation
Indices: 8958574--8958608 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8958564 TTATTATTAA
*
8958574 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
8958592 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
8958609 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:8958717 original size:59 final size:58
Alignment explanation
Indices: 8958650--8958835 Score: 166
Period size: 59 Copynumber: 3.1 Consensus size: 58
8958640 CTCAAATCAT
* *
8958650 AATATATGATACTATAAAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTATTATTAAATATATTTTAATAAA
* * * * *
8958709 AATATATGAT-TTAATAAAATTCTTAATATTAAAT-ATTCTTATATGAAT-T-TTCTAA-AATCA
1 AATATATGATACT-ATAAAA-T-ATAAT-TTAAATAATTATTAT-TAAATATATTTTAATAA--A
* *
8958769 TAATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAA
1 -AATATATGATACTATAAAATATAATTTAA-ATAATTATTATTAAATATATTTTAATAAA
8958829 AATATAT
1 AATATAT
8958836 AATTTATCAT
Statistics
Matches: 99, Mismatches: 14, Indels: 28
0.70 0.10 0.20
Matches are distributed among these distances:
58 6 0.06
59 38 0.38
60 19 0.19
61 31 0.31
62 5 0.05
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTATTATTAAATATATTTTAATAAA
Found at i:8958773 original size:120 final size:120
Alignment explanation
Indices: 8958554--8958841 Score: 479
Period size: 120 Copynumber: 2.4 Consensus size: 120
8958544 TTAATCATAT
8958554 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
8958619 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
8958674 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
8958738 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
8958794 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTA
8958842 TCATCATACT
Statistics
Matches: 155, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
119 2 0.01
120 151 0.97
121 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:8958787 original size:61 final size:60
Alignment explanation
Indices: 8958589--8958789 Score: 155
Period size: 61 Copynumber: 3.3 Consensus size: 60
8958579 TTTTAATTAA
* * * *
8958589 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATCTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCT-AAATCAT
* * * * * * * *
8958650 AATATATGATACT-ATAAAA-T-ATAAT-TTGAAATAAT-TAATATTAAATATATT-TTAATTAA
1 AATATATAAT-CTAATAAAATTCTTAATATT-AAATATTCTTATA-TGAAT-T-TTCTAAATCAT
* *
8958709 AATATATGATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
1 AATATATAATCTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCT-AAATCAT
8958770 AATATATAATACT-ATAAAAT
1 AATATATAAT-CTAATAAAAT
8958790 ATAATTTAAC
Statistics
Matches: 105, Mismatches: 22, Indels: 26
0.69 0.14 0.17
Matches are distributed among these distances:
58 6 0.06
59 35 0.33
60 6 0.06
61 50 0.48
62 8 0.08
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (60 bp):
AATATATAATCTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAATCAT
Found at i:8960800 original size:2 final size:2
Alignment explanation
Indices: 8960795--8960821 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8960785 TATATATATA
8960795 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
8960822 ATATTTATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:8961156 original size:2 final size:2
Alignment explanation
Indices: 8961149--8961179 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8961139 TTGTGTATGA
8961149 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8961180 AGTTCATGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8961799 original size:41 final size:41
Alignment explanation
Indices: 8961751--8961909 Score: 205
Period size: 41 Copynumber: 3.9 Consensus size: 41
8961741 GTGAAATTAT
* *
8961751 TCAGACTATACGTCTAGCAAGCTAAGTGCCGGTGAATTGAA
1 TCAGGCTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAA
* *
8961792 TC-GGACTATACGTCCAGCAGGCTAAGTGCCGGTGAGTTGAA
1 TCAGG-CTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAA
* * * *
8961833 TCAGGCTACAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
1 TCAGGCTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAA
*
8961874 TCAGGCTATA-GGCTTAGCAGGCTAAGTGCCGGTGAA
1 TCAGGCTATACGTC-TAGCAGGCTAAGTGCCGGTGAA
8961910 CGGAATTAAA
Statistics
Matches: 103, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
40 3 0.03
41 98 0.95
42 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (41 bp):
TCAGGCTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAA
Found at i:8961910 original size:41 final size:41
Alignment explanation
Indices: 8961765--8961949 Score: 180
Period size: 41 Copynumber: 4.5 Consensus size: 41
8961755 ACTATACGTC
* * *
8961765 TAGCAAGCTAAGTGCCGGTGAATTGAATC-GGACTATACG-T
1 TAGCAGGCTAAGTGCCGGTGAACTGAATCAGG-CTATAAGCT
* ** * *
8961805 CCAGCAGGCTAAGTGCCGGTGAGTTGAATCAGGCTACAAGCC
1 -TAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGCT
*
8961847 TAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGCT
1 TAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGCT
* * ** *
8961888 TAGCAGGCTAAGTGCCGGTGAACGGAATTAAACTATAAGCC
1 TAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGCT
*
8961929 TATCAGG-TGAAGTGCC-GTGAA
1 TAGCAGGCT-AAGTGCCGGTGAA
8961950 TCTGTTTAAA
Statistics
Matches: 122, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
40 6 0.05
41 114 0.93
42 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (41 bp):
TAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGCT
Found at i:8961928 original size:82 final size:82
Alignment explanation
Indices: 8961755--8961949 Score: 209
Period size: 82 Copynumber: 2.4 Consensus size: 82
8961745 AATTATTCAG
* * * *
8961755 ACTATACGTCTAGCAAGCTAAGTGCCGGTGAATTGAATCGGACTATACGTCCAGCAGGCTAAGTG
1 ACTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAATCGGACTATACGTCCAGCAGGCTAAGTG
*** *
8961820 CCGGTGAGTTGAATCAG
66 CCGGTGAACGGAATCAA
* * * *
8961837 GCTACAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGG-CTATA-GGCTTAGCAGGCTAAG
1 ACTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAATC-GGACTATACGTC-CAGCAGGCTAAG
*
8961900 TGCCGGTGAACGGAATTAA
64 TGCCGGTGAACGGAATCAA
*
8961919 ACTATAAGCCTATCAGG-TGAAGTGCC-GTGAA
1 ACTATAAGCCTAGCAGGCT-AAGTGCCGGTGAA
8961950 TCTGTTTAAA
Statistics
Matches: 94, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
81 8 0.09
82 84 0.89
83 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.22
Consensus pattern (82 bp):
ACTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAATCGGACTATACGTCCAGCAGGCTAAGTG
CCGGTGAACGGAATCAA
Found at i:8966789 original size:42 final size:40
Alignment explanation
Indices: 8966743--8966834 Score: 114
Period size: 39 Copynumber: 2.3 Consensus size: 40
8966733 TAAAAAGTAT
*
8966743 TTATATTAAAAAAACACTACCATAAATATAATAAATGTTTTA
1 TTATATTAAAAAAACA-T-CCATAAATATAATAAATATTTTA
* **
8966785 TTATACT-AAAAAACATTGATAAATATAATAAATATTTTA
1 TTATATTAAAAAAACATCCATAAATATAATAAATATTTTA
*
8966824 TTGTATTAAAA
1 TTATATTAAAA
8966835 TTTTATATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
39 25 0.58
40 4 0.09
41 8 0.19
42 6 0.14
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (40 bp):
TTATATTAAAAAAACATCCATAAATATAATAAATATTTTA
Found at i:8967639 original size:41 final size:41
Alignment explanation
Indices: 8967581--8967686 Score: 176
Period size: 41 Copynumber: 2.6 Consensus size: 41
8967571 TTACAGACAG
* *
8967581 ACAAACCTTTAACAAAAGTAAAGTCCTAGTACAATGACTTAT
1 ACAAA-CTTTAATAAAAGTAAAGTCCTAGTACAATGACTCAT
*
8967623 ACAAACTTTAATAAAAGTAAAATCCTAGTACAATGACTCAT
1 ACAAACTTTAATAAAAGTAAAGTCCTAGTACAATGACTCAT
8967664 ACAAACTTTAATAAAAGTAAAGT
1 ACAAACTTTAATAAAAGTAAAGT
8967687 ATAATAATTC
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
41 55 0.92
42 5 0.08
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.26
Consensus pattern (41 bp):
ACAAACTTTAATAAAAGTAAAGTCCTAGTACAATGACTCAT
Found at i:8972689 original size:14 final size:14
Alignment explanation
Indices: 8972670--8972696 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8972660 TATGTGACAA
8972670 ATATATTTATAAAT
1 ATATATTTATAAAT
8972684 ATATATTTATAAA
1 ATATATTTATAAA
8972697 AATCAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATATATTTATAAAT
Found at i:8973574 original size:30 final size:31
Alignment explanation
Indices: 8973531--8973590 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 31
8973521 ATATCTGAAT
*
8973531 TTGACACTTTTTCCTAATTTGGTACTTAAAC
1 TTGACACTTTTTCCTAATTTGGTACCTAAAC
8973562 TTGACA-TTTTTCCTAATTTGGTACCTAAA
1 TTGACACTTTTTCCTAATTTGGTACCTAAA
8973591 TTTATTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 22 0.79
31 6 0.21
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.45
Consensus pattern (31 bp):
TTGACACTTTTTCCTAATTTGGTACCTAAAC
Found at i:8974076 original size:29 final size:30
Alignment explanation
Indices: 8974006--8974066 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
8973996 AAAAAGAGTC
8974006 AAATTTAGGTACCAAATTGGACCCCCAAAA
1 AAATTTAGGTACCAAATTGGACCCCCAAAA
8974036 AAATTTAGGTACCAAATTGGACCCCCAAAA
1 AAATTTAGGTACCAAATTGGACCCCCAAAA
8974066 A
1 A
8974067 GTTTAAGTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.44, C:0.23, G:0.13, T:0.20
Consensus pattern (30 bp):
AAATTTAGGTACCAAATTGGACCCCCAAAA
Found at i:8974941 original size:34 final size:34
Alignment explanation
Indices: 8974886--8974951 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
8974876 CAAACACCAG
*
8974886 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTAC-GAAAAGT
*
8974921 AAAACATTTTCCCG-AAATCATTTTACGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACGAAAA
8974952 ATATTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.41
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (34 bp):
AAAACATTTTCCAGTAAATCATTTTACGAAAAGT
Found at i:8975642 original size:20 final size:21
Alignment explanation
Indices: 8975619--8975666 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
8975609 CCTTTTTTAA
*
8975619 TTTTTTTATTAACT-TTTGTC
1 TTTTTTTATTAAATATTTGTC
* *
8975639 TTTTTCT-TTAAATATTTTTC
1 TTTTTTTATTAAATATTTGTC
8975659 TTTTTTTA
1 TTTTTTTA
8975667 AGTTTTTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTTTTATTAAATATTTGTC
Found at i:8975685 original size:12 final size:12
Alignment explanation
Indices: 8975670--8975706 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
8975660 TTTTTTAAGT
8975670 TTTTTTATTTTG
1 TTTTTTATTTTG
8975682 TTTTTTATTTTG
1 TTTTTTATTTTG
*
8975694 TTTATT-TTTTG
1 TTTTTTATTTTG
8975705 TT
1 TT
8975707 ATTAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 7 0.29
12 17 0.71
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (12 bp):
TTTTTTATTTTG
Found at i:8975697 original size:21 final size:22
Alignment explanation
Indices: 8975660--8975701 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
8975650 ATATTTTTCT
8975660 TTTTTTAAGTTTTTTTATTTTG
1 TTTTTTAAGTTTTTTTATTTTG
8975682 TTTTTT-A-TTTTGTTTATTTT
1 TTTTTTAAGTTTT-TTTATTTT
8975702 TTGTTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.81
Consensus pattern (22 bp):
TTTTTTAAGTTTTTTTATTTTG
Found at i:8975775 original size:21 final size:21
Alignment explanation
Indices: 8975727--8975788 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 21
8975717 AAAAAAATTG
* * *
8975727 AAATGTATATTTGAAATGTTTT
1 AAATATATATTTTAAA-ATTTT
8975749 ATAATATATATTTTAAAATTTT
1 A-AATATATATTTTAAAATTTT
*
8975771 AAATAT-TATTTTTAAATT
1 AAATATATATTTTAAAATT
8975789 ATTTTTAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 11 0.31
21 5 0.14
22 6 0.17
23 13 0.37
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
AAATATATATTTTAAAATTTT
Found at i:8975782 original size:20 final size:22
Alignment explanation
Indices: 8975745--8975788 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
8975735 ATTTGAAATG
8975745 TTTTATAATATATATTTTAAAA
1 TTTTATAATATATATTTTAAAA
*
8975767 TTTTA-AATAT-TATTTTTAAA
1 TTTTATAATATATATTTTAAAA
8975787 TT
1 TT
8975789 ATTTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
21 5 0.24
22 5 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTTATAATATATATTTTAAAA
Found at i:8975785 original size:13 final size:12
Alignment explanation
Indices: 8975767--8975824 Score: 54
Period size: 11 Copynumber: 5.0 Consensus size: 12
8975757 TATTTTAAAA
8975767 TTTTAAATATTAT
1 TTTTAAA-ATTAT
8975780 TTTT-AAATTAT
1 TTTTAAAATTAT
8975791 TTTT-AAA--A-
1 TTTTAAAATTAT
8975799 TTTTAAATATTATT
1 TTTTAAA-ATTA-T
8975813 TTTTAAAATTAT
1 TTTTAAAATTAT
8975825 GTCTTATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
8 4 0.10
9 3 0.08
10 1 0.03
11 12 0.31
12 4 0.10
13 8 0.21
14 7 0.18
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTAAAATTAT
Found at i:8975812 original size:21 final size:21
Alignment explanation
Indices: 8975778--8975822 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
8975768 TTTAAATATT
*
8975778 ATTTTTAAATTA-TTTTTAAA
1 ATTTTAAAATTATTTTTTAAA
8975798 ATTTTAAATATTATTTTTTAAA
1 ATTTTAAA-ATTATTTTTTAAA
8975820 ATT
1 ATT
8975823 ATGTCTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.32
21 4 0.18
22 11 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTAAAATTATTTTTTAAA
Found at i:8975899 original size:14 final size:14
Alignment explanation
Indices: 8975882--8975910 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8975872 TTTAAATTTT
8975882 AAATATATTTTTAA
1 AAATATATTTTTAA
8975896 AAATATATTTTTAA
1 AAATATATTTTTAA
8975910 A
1 A
8975911 CAAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATATATTTTTAA
Found at i:8976005 original size:36 final size:33
Alignment explanation
Indices: 8975937--8976033 Score: 110
Period size: 34 Copynumber: 2.9 Consensus size: 33
8975927 CAAAAATATA
*
8975937 TTTT-TAAATTTTAAATA-TATATTTGAAATTAT
1 TTTTATAAATTTTAAATATTAT-TTTTAAATTAT
*
8975969 TTCTTATAAATTTTAAAAATATATTTTTGAAATTAT
1 TT-TTATAAATTTTAAATAT-TATTTTT-AAATTAT
*
8976005 TTTT-TTAATTTTAAATATTATTTTTAAAT
1 TTTTATAAATTTTAAATATTATTTTTAAAT
8976034 ATTAAATATA
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
32 6 0.11
33 9 0.16
34 24 0.43
35 5 0.09
36 12 0.21
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (33 bp):
TTTTATAAATTTTAAATATTATTTTTAAATTAT
Found at i:8976028 original size:20 final size:20
Alignment explanation
Indices: 8976000--8976050 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
8975990 TATTTTTGAA
* *
8976000 ATTATTTTTTTAATTTTAAAT
1 ATTA-TTTTTAAATATTAAAT
8976021 ATTATTTTTAAATATTAAAT
1 ATTATTTTTAAATATTAAAT
8976041 A-TATTTTTAA
1 ATTATTTTTAA
8976051 TAATATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 9 0.32
20 15 0.54
21 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTATTTTTAAATATTAAAT
Found at i:8976031 original size:13 final size:13
Alignment explanation
Indices: 8976013--8976037 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8976003 ATTTTTTTAA
8976013 TTTTAAATATTAT
1 TTTTAAATATTAT
8976026 TTTTAAATATTA
1 TTTTAAATATTA
8976038 AATATATTTT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAAATATTAT
Found at i:8976057 original size:21 final size:20
Alignment explanation
Indices: 8975998--8976057 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
8975988 TATATTTTTG
* *
8975998 AAAT-TATTTTTTTAATTTT
1 AAATATATTTTTATAATATT
8976017 AAATATTATTTTTA-AATATT
1 AAATA-TATTTTTATAATATT
8976037 AAATATATTTTTAATAATATT
1 AAATATATTTTT-ATAATATT
8976058 TAAACATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 11 0.31
20 11 0.31
21 13 0.37
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AAATATATTTTTATAATATT
Found at i:8976145 original size:13 final size:12
Alignment explanation
Indices: 8976123--8976153 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
8976113 AAATATCTTT
8976123 AAAAATAATTTA
1 AAAAATAATTTA
8976135 AAAATATAATTTA
1 AAAA-ATAATTTA
8976148 AAAAAT
1 AAAAAT
8976154 TCTAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAATAATTTA
Found at i:8986491 original size:3 final size:3
Alignment explanation
Indices: 8986483--8986547 Score: 67
Period size: 3 Copynumber: 21.7 Consensus size: 3
8986473 AATCATTAAA
* * * * * *
8986483 AAT AAT AAT AAT AAT TAT ATT AAC AAT AAT AAT AAT TAT ATT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
8986531 AAT AAT AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AA
8986548 AATTCTTATT
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:8986505 original size:24 final size:23
Alignment explanation
Indices: 8986481--8986541 Score: 90
Period size: 21 Copynumber: 2.7 Consensus size: 23
8986471 ACAATCATTA
8986481 AAAATAATAATAATAATTATATT
1 AAAATAATAATAATAATTATATT
*
8986504 --AACAATAATAATAATTATATT
1 AAAATAATAATAATAATTATATT
8986525 AACAATAATAATAATAA
1 AA-AATAATAATAATAA
8986542 AAATAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 20 0.61
24 13 0.39
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (23 bp):
AAAATAATAATAATAATTATATT
Found at i:8986512 original size:21 final size:21
Alignment explanation
Indices: 8986486--8986539 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
8986476 CATTAAAAAT
8986486 AATAATAATAATTATATTAAC
1 AATAATAATAATTATATTAAC
8986507 AATAATAATAATTATATTAAC
1 AATAATAATAATTATATTAAC
8986528 AATAATAATAAT
1 AATAATAATAAT
8986540 AAAAATAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (21 bp):
AATAATAATAATTATATTAAC
Found at i:8987402 original size:5 final size:5
Alignment explanation
Indices: 8987394--8987463 Score: 99
Period size: 5 Copynumber: 14.2 Consensus size: 5
8987384 TTTTTTACTT
*
8987394 ATATA ATATA ATACA ATATA ATATA ATATA ATATA ATATA ATATA ATAT-
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
*
8987443 ATAATA AAATA ATAT- ATATA A
1 AT-ATA ATATA ATATA ATATA A
8987464 AACATAAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
4 6 0.10
5 51 0.88
6 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (5 bp):
ATATA
Found at i:8995491 original size:16 final size:18
Alignment explanation
Indices: 8995465--8995497 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8995455 ATAAACATCA
8995465 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
8995482 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
8995498 CATGATTCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:8999658 original size:43 final size:43
Alignment explanation
Indices: 8999611--8999799 Score: 204
Period size: 43 Copynumber: 4.4 Consensus size: 43
8999601 AGAGTAATAC
8999611 CTTTAGCGGCGTTTTTGGTATAAGCGCCGCTATAGA-CTAGGGT
1 CTTTAGCGGCGTTTTTGGTATAAGCGCCGCTATAGATC-AGGGT
*
8999654 CTTTAGCGGCGTTTTTTGGTAAAGAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCG-TTTTTGGTATA-AGCGCCGCTATAGATCAGGGT
* * **
8999699 CTTTAGTGGCGTTTGTGCG-CGAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTG-GTATAAGCGCCGCTATAGATCAGGGT
* * * * ****
8999742 CTTTTGTGGCGTTTTT-ATATAAGCGCCGCTATAGACCAACAC
1 CTTTAGCGGCGTTTTTGGTATAAGCGCCGCTATAGATCAGGGT
8999784 CTTTAGCGGCGTTTTT
1 CTTTAGCGGCGTTTTT
8999800 CCCACAAACG
Statistics
Matches: 124, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
42 31 0.25
43 46 0.37
44 16 0.13
45 30 0.24
46 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.33
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTGGTATAAGCGCCGCTATAGATCAGGGT
Found at i:8999852 original size:43 final size:43
Alignment explanation
Indices: 8999787--8999907 Score: 147
Period size: 43 Copynumber: 2.8 Consensus size: 43
8999777 CCAACACCTT
* * *
8999787 TAGCGGCGTTTTTCCCACAAACGCCGC-AATAGACCCTGATCTA
1 TAGCGGCGCTTTTACCAAAAACGCCGCTAA-AGACCCTGATCTA
* ** *
8999830 TTA-TGGCGCTTTTGTCAAAAACGCCACTAAAGACCCTGATCTA
1 -TAGCGGCGCTTTTACCAAAAACGCCGCTAAAGACCCTGATCTA
8999873 TAGCGGCGCTTTTACCAAAAACGCCGCTAAAGACC
1 TAGCGGCGCTTTTACCAAAAACGCCGCTAAAGACC
8999908 AACACCTTTA
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
42 2 0.03
43 59 0.91
44 4 0.06
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (43 bp):
TAGCGGCGCTTTTACCAAAAACGCCGCTAAAGACCCTGATCTA
Found at i:9000071 original size:10 final size:9
Alignment explanation
Indices: 9000040--9000069 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
9000030 AGCCAAAAGT
9000040 AATATAATA
1 AATATAATA
9000049 AATATCAATA
1 AATAT-AATA
9000059 AATATAATA
1 AATATAATA
9000068 AA
1 AA
9000070 ATTCATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (9 bp):
AATATAATA
Found at i:9000262 original size:21 final size:21
Alignment explanation
Indices: 9000233--9000344 Score: 116
Period size: 21 Copynumber: 5.3 Consensus size: 21
9000223 TTTGACGCTG
9000233 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* **
9000254 CTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
9000275 CTCTGCTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
9000296 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
9000317 CTCTGCTTCTCTTGCTGCTGC
1 CTCTGCTTCCCTCGCTGCAGC
*
9000338 ATCTGCT
1 CTCTGCT
9000345 CTAAGCTGCT
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 76 1.00
ACGTcount: A:0.05, C:0.42, G:0.17, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:9000297 original size:42 final size:42
Alignment explanation
Indices: 9000233--9000334 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
9000223 TTTGACGCTG
**
9000233 CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCGCTGCAGC
* * * *
9000275 CTCTGCTTCCCTCGCTGTAGCCTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCGCTGCAGC
* *
9000317 CTCTGCTTCTCTTGCTGC
1 CTCTGCTTCCCTCGCTGC
9000335 TGCATCTGCT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.05, C:0.43, G:0.17, T:0.35
Consensus pattern (42 bp):
CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCGCTGCAGC
Found at i:9000482 original size:66 final size:66
Alignment explanation
Indices: 9000321--9000485 Score: 208
Period size: 66 Copynumber: 2.5 Consensus size: 66
9000311 TGCCGCCTCT
* * * * * *
9000321 GCTTCTCTTGCTGCTGCATCTGCTCTAAGCTGCT-GCTGGAGTTCTTCATACTTTCGTTGAACCT
1 GCTTCTCTCGATGCTGCATCCGCTTTAAGTTG-TAGCTGGAGTTCTTCATACTTTCGTTGAACAT
9000385 CA
65 CA
* *
9000387 GCTTCTCTCGCTGCTGCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATA-TCTTCTTTGAACAT
1 GCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATACT-TTCGTTGAACAT
9000451 CA
65 CA
* *
9000453 GCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGT
1 GCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
9000486 GTAATTTGCT
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
65 2 0.02
66 86 0.98
ACGTcount: A:0.14, C:0.27, G:0.19, T:0.39
Consensus pattern (66 bp):
GCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTGAACATC
A
Done.