Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 77 of 310
Found at i:24529607 original size:65 final size:65
Alignment explanation
Indices: 24529497--24529621 Score: 160
Period size: 65 Copynumber: 1.9 Consensus size: 65
24529487 AATGATGGAC
* * * * * * * *
24529497 AAGAAGGAAATTGATTGAGAGCATAGCTCGAGACGAATAAGTTAATCAAAGATGACAAACATAAT
1 AAGAAAGAAACTGATTGAGAGCATAGCTCGAAACGAACAAATTAATAAAAAATAACAAACATAAT
* *
24529562 AAGAAAGAAACTGATTGAGAGCATAGCTTGAAATGAACAAATTAATAAAAAATAACAAAC
1 AAGAAAGAAACTGATTGAGAGCATAGCTCGAAACGAACAAATTAATAAAAAATAACAAAC
24529622 TTTGTTAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
65 50 1.00
ACGTcount: A:0.52, C:0.10, G:0.18, T:0.19
Consensus pattern (65 bp):
AAGAAAGAAACTGATTGAGAGCATAGCTCGAAACGAACAAATTAATAAAAAATAACAAACATAAT
Found at i:24529941 original size:8 final size:8
Alignment explanation
Indices: 24529930--24530000 Score: 56
Period size: 8 Copynumber: 8.6 Consensus size: 8
24529920 TCTTTTTCCT
24529930 TTTTTTTG
1 TTTTTTTG
24529938 TTTTTCTT-
1 TTTTT-TTG
*
24529946 TTTTTCT-
1 TTTTTTTG
* *
24529953 TCTTTTTC
1 TTTTTTTG
*
24529961 TTCTTTTG
1 TTTTTTTG
24529969 TTTTTTTG
1 TTTTTTTG
24529977 TTTTTCTTTTG
1 --TTT-TTTTG
24529988 TTTTTTTG
1 TTTTTTTG
24529996 TTTTT
1 TTTTT
24530001 CTTTTGTTAG
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
7 6 0.12
8 32 0.63
9 5 0.10
10 3 0.06
11 5 0.10
ACGTcount: A:0.00, C:0.08, G:0.07, T:0.85
Consensus pattern (8 bp):
TTTTTTTG
Found at i:24529958 original size:39 final size:40
Alignment explanation
Indices: 24529915--24530005 Score: 116
Period size: 39 Copynumber: 2.3 Consensus size: 40
24529905 CTGGCCTTTC
24529915 CTTTTTCTTTTTCCT-TTTTTTTGTTTTTC-TTT-TTTTCTT
1 CTTTTTCTTTTT--TGTTTTTTTGTTTTTCTTTTGTTTTCTT
*
24529954 CTTTTTCTTCTTTTGTTTTTTTGTTTTTCTTTTGTTTTTTT
1 CTTTTTCTT-TTTTGTTTTTTTGTTTTTCTTTTGTTTTCTT
*
24529995 GTTTTTCTTTT
1 CTTTTTCTTTT
24530006 GTTAGTGAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
38 1 0.02
39 23 0.50
40 8 0.17
41 14 0.30
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.82
Consensus pattern (40 bp):
CTTTTTCTTTTTTGTTTTTTTGTTTTTCTTTTGTTTTCTT
Found at i:24529983 original size:19 final size:19
Alignment explanation
Indices: 24529930--24530008 Score: 117
Period size: 19 Copynumber: 4.1 Consensus size: 19
24529920 TCTTTTTCCT
24529930 TTTTTTTGTTTTTCTTTT-
1 TTTTTTTGTTTTTCTTTTG
24529948 TTTCTTCTT-TTTCTTCTTTTG
1 TTT-TT-TTGTTT-TTCTTTTG
24529969 TTTTTTTGTTTTTCTTTTG
1 TTTTTTTGTTTTTCTTTTG
24529988 TTTTTTTGTTTTTCTTTTG
1 TTTTTTTGTTTTTCTTTTG
24530007 TT
1 TT
24530009 AGTGAAGTAT
Statistics
Matches: 56, Mismatches: 0, Indels: 9
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.05
19 36 0.64
20 14 0.25
21 3 0.05
ACGTcount: A:0.00, C:0.09, G:0.08, T:0.84
Consensus pattern (19 bp):
TTTTTTTGTTTTTCTTTTG
Found at i:24541803 original size:10 final size:11
Alignment explanation
Indices: 24541784--24541816 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
24541774 TTGATATGTT
24541784 AATGAAGAGAA
1 AATGAAGAGAA
24541795 AAT-AAGAGAA
1 AATGAAGAGAA
*
24541805 AGTGAAGAGAA
1 AATGAAGAGAA
24541816 A
1 A
24541817 TAGTGTAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.27, T:0.09
Consensus pattern (11 bp):
AATGAAGAGAA
Found at i:24543519 original size:46 final size:46
Alignment explanation
Indices: 24543467--24543692 Score: 303
Period size: 46 Copynumber: 4.9 Consensus size: 46
24543457 GTGTGCTCTC
** *
24543467 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
24543513 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
** *
24543559 TG-TCGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGAT-ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
24543605 TGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
24543651 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGC
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGC
24543693 GTCATGTCAA
Statistics
Matches: 161, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
45 2 0.01
46 159 0.99
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.20
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:24543630 original size:92 final size:92
Alignment explanation
Indices: 24543481--24543692 Score: 343
Period size: 92 Copynumber: 2.3 Consensus size: 92
24543471 ATGAAATGTG
* *
24543481 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
* * *
24543546 TACCATGGCAACATGTCGGGAAATGAA
66 TACCATGGCAACATGACAGAAAATGAA
24543573 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
*
24543638 TACCATGGCAACATGACAGAAAATGAG
66 TACCATGGCAACATGACAGAAAATGAA
* * *
24543665 TAAGACCATAGTTGAAAGACACTATGGC
1 TAAGACCATGGTTGAAAGATACCATGGC
24543693 GTCATGTCAA
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
92 111 1.00
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGACAGAAAATGAA
Found at i:24544589 original size:47 final size:47
Alignment explanation
Indices: 24544515--24544646 Score: 178
Period size: 46 Copynumber: 2.8 Consensus size: 47
24544505 TGTTACAGAG
*
24544515 GCATCCGAACTCGTTGAGTTGCATTCCGAGTTCACCTATGGATGC-AA
1 GCATCCGAACTCGTTGAGTTGCGTTCCGAGTTCA-CTATGGATGCGAA
* * *
24544562 GCATCCAAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGCGAA
1 GCATCCGAACTCGTTGAGTTGCGTTCCGAGTTCACTATGGATGCGAA
* * *
24544609 -CACCCGAGCTCGTTGAGTTGCGTTCCGAGTTCATTATG
1 GCATCCGAACTCGTTGAGTTGCGTTCCGAGTTCACTATG
24544647 AGTGAGATTA
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
46 43 0.57
47 33 0.43
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.30
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGCGTTCCGAGTTCACTATGGATGCGAA
Found at i:24547464 original size:25 final size:25
Alignment explanation
Indices: 24547434--24547481 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
24547424 TAAATTCTTA
24547434 ATTTG-ATTTATTATTTTAAAAATAT
1 ATTTGAATTTATT-TTTTAAAAATAT
* *
24547459 ATTTGAATTTGTTTTTTGAAAAT
1 ATTTGAATTTATTTTTTAAAAAT
24547482 TTCATATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.56
Consensus pattern (25 bp):
ATTTGAATTTATTTTTTAAAAATAT
Found at i:24550168 original size:3 final size:3
Alignment explanation
Indices: 24550160--24550194 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
24550150 CTATCAAAAA
* *
24550160 ATT ATT ATT ATT ATT CTT ATT ATT GTT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
24550195 AAAATTTATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:24552589 original size:63 final size:61
Alignment explanation
Indices: 24552498--24552622 Score: 223
Period size: 63 Copynumber: 2.0 Consensus size: 61
24552488 ATAAGGCCCA
*
24552498 TTTTAAAAATGGGCCAAGCCTCGGGTAAGGCATGTTTGGCCCGAGTCCGGCTTGAATTCAC
1 TTTTAAAAAGGGGCCAAGCCTCGGGTAAGGCATGTTTGGCCCGAGTCCGGCTTGAATTCAC
24552559 TTTTAAAAAAGGGGCCAAAGCCTCGGGTAAGGCATGTTTGGCCCGAGTCCGGCTTGAATTCAC
1 TTTT-AAAAAGGGGCC-AAGCCTCGGGTAAGGCATGTTTGGCCCGAGTCCGGCTTGAATTCAC
24552622 T
1 T
24552623 AATAGACAAA
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
61 4 0.07
62 10 0.16
63 47 0.77
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (61 bp):
TTTTAAAAAGGGGCCAAGCCTCGGGTAAGGCATGTTTGGCCCGAGTCCGGCTTGAATTCAC
Found at i:24554957 original size:13 final size:13
Alignment explanation
Indices: 24554939--24554965 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24554929 GAACTAAAGA
24554939 TTCACCCCTCAAT
1 TTCACCCCTCAAT
24554952 TTCACCCCTCAAT
1 TTCACCCCTCAAT
24554965 T
1 T
24554966 GTTTATCTCG
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:0.22, C:0.44, G:0.00, T:0.33
Consensus pattern (13 bp):
TTCACCCCTCAAT
Found at i:24561517 original size:44 final size:44
Alignment explanation
Indices: 24561449--24561537 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
24561439 ATTACATGTA
* * *
24561449 TCGCATCCATTATGAGCTCGGACCAACTCAACGAGCT-GAGATGC
1 TCGCATCCATAATGAACTCAGACCAACTCAACGAGCTCG-GATGC
24561493 TCGCATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGC
24561537 T
1 T
24561538 TCACATATAC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 40 0.98
45 1 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (44 bp):
TCGCATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGC
Found at i:24563414 original size:18 final size:17
Alignment explanation
Indices: 24563391--24563434 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
24563381 CAAAATTTTG
24563391 GGCCCACATGCCCGTGTT
1 GGCCCACATGCCCGTG-T
* * *
24563409 GGCCCATACGCTCGTGT
1 GGCCCACATGCCCGTGT
24563426 GGCCCACAT
1 GGCCCACAT
24563435 CGCCTAGACT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.14, C:0.39, G:0.27, T:0.20
Consensus pattern (17 bp):
GGCCCACATGCCCGTGT
Found at i:24564662 original size:23 final size:25
Alignment explanation
Indices: 24564621--24564672 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
24564611 TATCATCTTA
*
24564621 AAAAAATCTACCATAATTTT-TTTT
1 AAAAAATCTACCATAATTTTCTTCT
* *
24564645 AAAAAA-CTATCATTATTTTCTTCT
1 AAAAAATCTACCATAATTTTCTTCT
24564669 AAAA
1 AAAA
24564673 GATACTACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.42
Consensus pattern (25 bp):
AAAAAATCTACCATAATTTTCTTCT
Found at i:24565073 original size:16 final size:16
Alignment explanation
Indices: 24565052--24565087 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
24565042 ATTTTTTTTG
24565052 AAATTTTAAATTTAAA
1 AAATTTTAAATTTAAA
24565068 AAATTTTAAATTTAAA
1 AAATTTTAAATTTAAA
24565084 AAAT
1 AAAT
24565088 AATTAATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATTTTAAATTTAAA
Found at i:24565095 original size:16 final size:16
Alignment explanation
Indices: 24565052--24565093 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
24565042 ATTTTTTTTG
*
24565052 AAATTTTAAATTTAAA
1 AAATATTAAATTTAAA
*
24565068 AAATTTTAAATTTAAA
1 AAATATTAAATTTAAA
24565084 AAATAATTAA
1 AAAT-ATTAA
24565094 TTGCTGACGC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATATTAAATTTAAA
Found at i:24568113 original size:131 final size:130
Alignment explanation
Indices: 24567867--24568256 Score: 440
Period size: 131 Copynumber: 3.0 Consensus size: 130
24567857 TTTATAATCA
* * *
24567867 TTTTAAAAATTCTTCAAAACGAAGACGAAATTTGATGTTTGACAATTCGCAGAATCGTGCCCTAA
1 TTTT-AAAATTCTTCAAAACGAAGGCGAGATTTGATATTTG-CAATTCGCAGAATCGTGCCCTAA
* * * * *
24567932 CGTTTTGGGTTGCAATTTCGCATTTACTCAAAATAATCGAATATCGCTTCAAAATTTCACTCATG
64 CGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTCA-G
*
24567997 -TC
128 CCC
* * * *
24567999 TTTTAAAATTCTTCGAAACGAAGGCGAGATTCGAAATTTAGCAATTCGCAGAATTGTGCCCTAAC
1 TTTTAAAATTCTTCAAAACGAAGGCGAGATTTGATATTT-GCAATTCGCAGAATCGTGCCCTAAC
* * * * *
24568064 GTGTTGGGTTGCAATTTCTTGTTTGCTCTAAATAATCGAGTATCTCTTCAAAATTTTACTCAGCC
65 GTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTCAGCC
24568129 C
130 C
** * * * * * **
24568130 TTTTAAGAACCCTTTAAAACAAAGGCAAGGTTTGATATTTGGTAATTCGTGGAATCGTGCCCTAA
1 TTTTAA-AATTCTTCAAAACGAAGGCGAGATTTGATATTT-GCAATTCGCAGAATCGTGCCCTAA
* * * *
24568195 CGTGTTGGGTTGCGATTTCTCGTTTGCTCGAAATAATCAAATAACCCTTCAAAATTTCACTC
64 CGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTC
24568257 GTATCCTTTA
Statistics
Matches: 216, Mismatches: 39, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
130 1 0.00
131 112 0.52
132 103 0.48
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (130 bp):
TTTTAAAATTCTTCAAAACGAAGGCGAGATTTGATATTTGCAATTCGCAGAATCGTGCCCTAACG
TGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTCAGCCC
Found at i:24568213 original size:132 final size:131
Alignment explanation
Indices: 24567909--24568256 Score: 410
Period size: 132 Copynumber: 2.6 Consensus size: 131
24567899 TGATGTTTGA
* * * *
24567909 CAATTCGCAGAATCGTGCCCTAACGTTTTGGGTTGCAATTTCGCATTTACTCAAAATAATCGAAT
1 CAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAAT
* * ** * * *
24567974 ATCGCTTCAAAATTTCACTCATGTCTTTTAAAATTCTTCGAAACGAAGGCGAGATTCGAAATTTA
66 ATCCCTTCAAAATTTCACTCATGCCTTTTAAAACCCTTCAAAACAAAGGCAAGATTCGAAATTTA
24568039 G
131 G
* * * *
24568040 CAATTCGCAGAATTGTGCCCTAACGTGTTGGGTTGCAATTTCTTGTTTGCTCTAAATAATCGAGT
1 CAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAAT
* * * * * *
24568105 ATCTCTTCAAAATTTTACTCA-GCCCTTTTAAGAACCCTTTAAAACAAAGGCAAGGTTTGATATT
66 ATCCCTTCAAAATTTCACTCATG-CCTTTTAA-AACCCTTCAAAACAAAGGCAAGATTCGAAATT
*
24568169 TGG
129 TAG
* ** * * *
24568172 TAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCGATTTCTCGTTTGCTCGAAATAATCAAAT
1 CAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAAT
*
24568237 AACCCTTCAAAATTTCACTC
66 ATCCCTTCAAAATTTCACTC
24568257 GTATCCTTTA
Statistics
Matches: 182, Mismatches: 33, Indels: 3
0.83 0.15 0.01
Matches are distributed among these distances:
130 1 0.01
131 83 0.46
132 98 0.54
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (131 bp):
CAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAAT
ATCCCTTCAAAATTTCACTCATGCCTTTTAAAACCCTTCAAAACAAAGGCAAGATTCGAAATTTA
G
Found at i:24580002 original size:44 final size:44
Alignment explanation
Indices: 24579937--24580602 Score: 819
Period size: 44 Copynumber: 15.1 Consensus size: 44
24579927 GCAAATCCTG
* * *
24579937 CAGATTTGGCATCCCTATATTGGCGGAGAGCAGATCGAAGATAT
1 CAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATAT
* * *
24579981 CAGATTTGACGTCTTTGTATTGGCGGAGAGCAGATCAAAGATAGT
1 CAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATA-T
* *
24580026 -AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAG
1 CAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATAT
** *
24580069 CAGATTTGGTGTCTTTGTATTGGCGGAGAGCAGATCAAAGATAGT
1 CAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATA-T
* *
24580114 -AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAG
1 CAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATAT
** *
24580157 CAGATTTGGTGTCTTTGTATTGGCGGAGAGCAGATCAAAGATAGT
1 CAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATA-T
* *
24580202 -AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAG
1 CAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATAT
** *
24580245 CAGATTTGGTGTCTTTGTATTGGCGGAGAGCAGATCAAAGATAGT
1 CAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATA-T
*
24580290 -AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATAG
1 CAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATAT
* * *
24580333 CAGATTTGGCGTCTCTGTATTGGCGAAGAGCAGATTAAAGATAGT
1 CAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATA-T
* * * *
24580378 -AGATTTGGCATCTCTGTATTGGCAGAGAACAGATCGAAGATAG
1 CAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATAT
* * * *
24580421 CAGATTTAG-AGTCTCTGCATCGGCGGAGAGCAGATCAAAGATAG
1 CAGATTTGGCA-TCTCTGTATTGGCGGAGAGCAGATCAAAGATAT
* * *
24580465 CAGATTTGGCGTCACTGTATTGGCGGAGAGTAGATCAAAGATAGT
1 CAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATA-T
*
24580510 -AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGT
1 CAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATA-T
* ** *
24580554 -AGATTTGGCATCTCTGTACTGGTAGAGAGCAGATCGAAA-ATAA
1 CAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATC-AAAGATAT
24580597 CAGATT
1 CAGATT
24580603 GGTTCTTGAG
Statistics
Matches: 534, Mismatches: 73, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
43 1 0.00
44 530 0.99
45 3 0.01
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (44 bp):
CAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATAT
Found at i:24580087 original size:88 final size:88
Alignment explanation
Indices: 24579938--24580609 Score: 1042
Period size: 88 Copynumber: 7.7 Consensus size: 88
24579928 CAAATCCTGC
* * * **
24579938 AGATTTGGCATCCCTATATTGGCGGAGAGCAGATCGAAGATATCAGATTTGACGTCTTTGTATTG
1 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGTGTCTTTGTATTG
24580003 GCGGAGAGCAGATCAAAGATAGT
66 GCGGAGAGCAGATCAAAGATAGT
24580026 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGTGTCTTTGTATTG
1 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGTGTCTTTGTATTG
24580091 GCGGAGAGCAGATCAAAGATAGT
66 GCGGAGAGCAGATCAAAGATAGT
24580114 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGTGTCTTTGTATTG
1 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGTGTCTTTGTATTG
24580179 GCGGAGAGCAGATCAAAGATAGT
66 GCGGAGAGCAGATCAAAGATAGT
24580202 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGTGTCTTTGTATTG
1 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGTGTCTTTGTATTG
24580267 GCGGAGAGCAGATCAAAGATAGT
66 GCGGAGAGCAGATCAAAGATAGT
* * *
24580290 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTG
1 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGTGTCTTTGTATTG
* *
24580355 GCGAAGAGCAGATTAAAGATAGT
66 GCGGAGAGCAGATCAAAGATAGT
* * * * * * *
24580378 AGATTTGGCATCTCTGTATTGGCAGAGAACAGATCGAAGATAGCAGATTTAGAGTCTCTGCATCG
1 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGTGTCTTTGTATTG
*
24580443 GCGGAGAGCAGATCAAAGATAGC
66 GCGGAGAGCAGATCAAAGATAGT
* * * * * ** *
24580466 AGATTTGGCGTCACTGTATTGGCGGAGAGTAGATCAAAGATAGTAGATTTGGCATCTCTGTATTG
1 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGTGTCTTTGTATTG
*
24580531 GCGGAGAGCAGATCGAAGATAGT
66 GCGGAGAGCAGATCAAAGATAGT
* ** * *
24580554 AGATTTGGCATCTCTGTACTGGTAGAGAGCAGATCGAAAATAACAGA-TTGGT-TCTT
1 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGTGTCTT
24580610 GAGTTTTCAA
Statistics
Matches: 538, Mismatches: 46, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
86 3 0.01
87 4 0.01
88 531 0.99
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (88 bp):
AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGTGTCTTTGTATTG
GCGGAGAGCAGATCAAAGATAGT
Found at i:24583618 original size:131 final size:130
Alignment explanation
Indices: 24583372--24583761 Score: 447
Period size: 131 Copynumber: 3.0 Consensus size: 130
24583362 TTTATAATCA
* * *
24583372 TTTTAAAAATTCTTCAAAACGAAGACGAAATTTGATGTTTGACAATTCGCAGAATCGTGCCCTAA
1 TTTT-AAAATTCTTCAAAACGAAGGCGAGATTTGATATTTG-CAATTCGCAGAATCGTGCCCTAA
* *** * * *
24583437 CGTTTTGGGTTGCAATTTCGCATTTACTCAAAATAATCGAATATCGCTTCAAAATTTCACTCATG
64 CGTGTTGGGTTGCAATTTCTTGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATC
*
24583502 TC
129 CC
* * * *
24583504 TTTTAAAATTCTTCGAAACGAAGGCGAGATTCGAAATTTAGCAATTCGCAGAATTGTGCCCTAAC
1 TTTTAAAATTCTTCAAAACGAAGGCGAGATTTGATATTT-GCAATTCGCAGAATCGTGCCCTAAC
* * *
24583569 GTGTTGGGTTGCAATTTCTTGTTTGCTCTAAATAATCGAGTATCCCTTCAAAATTTTACTCATCC
65 GTGTTGGGTTGCAATTTCTTGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATCC
24583634 C
130 C
** * * * * * **
24583635 TTTTAAGAACCCTTTAAAACAAAGGCAAGGTTTGATATTTGGTAATTCGTGGAATCGTGCCCTAA
1 TTTTAA-AATTCTTCAAAACGAAGGCGAGATTTGATATTT-GCAATTCGCAGAATCGTGCCCTAA
** * * *
24583700 CGTGTTGGGTTGTGATTTCTTGTTTGCTCGAAATAATCAAATAACCCTTCAAAATTTCACTC
64 CGTGTTGGGTTGCAATTTCTTGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTC
24583762 GTATCCTTTA
Statistics
Matches: 217, Mismatches: 39, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
131 113 0.52
132 104 0.48
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (130 bp):
TTTTAAAATTCTTCAAAACGAAGGCGAGATTTGATATTTGCAATTCGCAGAATCGTGCCCTAACG
TGTTGGGTTGCAATTTCTTGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATCCC
Found at i:24583718 original size:132 final size:131
Alignment explanation
Indices: 24583414--24583761 Score: 417
Period size: 132 Copynumber: 2.6 Consensus size: 131
24583404 TGATGTTTGA
* *** *
24583414 CAATTCGCAGAATCGTGCCCTAACGTTTTGGGTTGCAATTTCGCATTTACTCAAAATAATCGAAT
1 CAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTTGTTTGCTCAAAATAATCGAAT
* ** ** * * *
24583479 ATCGCTTCAAAATTTCACTCATGTCTTTTAAAATTCTTCGAAACGAAGGCGAGATTCGAAATTTA
66 ATCCCTTCAAAATTTCACTCATCCCTTTTAAAACCCTTCAAAACAAAGGCAAGATTCGAAATTTA
24583544 G
131 G
* * *
24583545 CAATTCGCAGAATTGTGCCCTAACGTGTTGGGTTGCAATTTCTTGTTTGCTCTAAATAATCGAGT
1 CAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTTGTTTGCTCAAAATAATCGAAT
* * * * *
24583610 ATCCCTTCAAAATTTTACTCATCCCTTTTAAGAACCCTTTAAAACAAAGGCAAGGTTTGATATTT
66 ATCCCTTCAAAATTTCACTCATCCCTTTTAA-AACCCTTCAAAACAAAGGCAAGATTCGAAATTT
*
24583675 GG
130 AG
* ** ** * *
24583677 TAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGTGATTTCTTGTTTGCTCGAAATAATCAAAT
1 CAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTTGTTTGCTCAAAATAATCGAAT
*
24583742 AACCCTTCAAAATTTCACTC
66 ATCCCTTCAAAATTTCACTC
24583762 GTATCCTTTA
Statistics
Matches: 183, Mismatches: 33, Indels: 1
0.84 0.15 0.00
Matches are distributed among these distances:
131 84 0.46
132 99 0.54
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (131 bp):
CAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTTGTTTGCTCAAAATAATCGAAT
ATCCCTTCAAAATTTCACTCATCCCTTTTAAAACCCTTCAAAACAAAGGCAAGATTCGAAATTTA
G
Found at i:24593870 original size:18 final size:18
Alignment explanation
Indices: 24593834--24593871 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
24593824 TAAATGTTAC
*
24593834 AATAATAACAAAAGTAAT
1 AATAATAAAAAAAGTAAT
24593852 AATAATAAAAGAAAG-AAT
1 AATAATAAAA-AAAGTAAT
24593870 AA
1 AA
24593872 AGAAAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.18
Consensus pattern (18 bp):
AATAATAAAAAAAGTAAT
Found at i:24596384 original size:14 final size:14
Alignment explanation
Indices: 24596367--24596395 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24596357 TGTATTAAGA
24596367 TCATTGTATATAAT
1 TCATTGTATATAAT
24596381 TCATTGTATATAAT
1 TCATTGTATATAAT
24596395 T
1 T
24596396 GTAAAAGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (14 bp):
TCATTGTATATAAT
Found at i:24597205 original size:35 final size:35
Alignment explanation
Indices: 24597166--24597323 Score: 151
Period size: 35 Copynumber: 4.5 Consensus size: 35
24597156 TGTTGACACA
** *
24597166 TAGGGTTCACATAGTATATAGACTCGCATATTAAC
1 TAGGGTTCACATAACATATAGACTCGCATAGTAAC
* * *
24597201 TAGGGTTCACATAACATATAGGCTCGCATGGTAGC
1 TAGGGTTCACATAACATATAGACTCGCATAGTAAC
* * *
24597236 TAGGGTTCACATAACAGT-TAGGCTTGCAGT-GTACC
1 TAGGGTTCACATAACA-TATAGACTCGCA-TAGTAAC
** * *
24597271 TAGGGTTCACATAACATATAGGTTCCCATA-CAACC
1 TAGGGTTCACATAACATATAGACTCGCATAGTAA-C
24597306 TAGGGTTCACATAACATA
1 TAGGGTTCACATAACATA
24597324 GTTTGCATAT
Statistics
Matches: 105, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
34 3 0.03
35 100 0.95
36 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (35 bp):
TAGGGTTCACATAACATATAGACTCGCATAGTAAC
Found at i:24597318 original size:18 final size:19
Alignment explanation
Indices: 24597267--24597323 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 19
24597257 GCTTGCAGTG
24597267 TACCTAGGGTTCACATAACA
1 TACCTAGGGTTCACAT-ACA
*
24597287 TA--TA-GGTTCCCATACA
1 TACCTAGGGTTCACATACA
24597303 -ACCTAGGGTTCACATAACA
1 TACCTAGGGTTCACAT-ACA
24597322 TA
1 TA
24597324 GTTTGCATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
15 1 0.03
16 3 0.10
17 10 0.33
18 10 0.33
19 3 0.10
20 3 0.10
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (19 bp):
TACCTAGGGTTCACATACA
Found at i:24598943 original size:21 final size:21
Alignment explanation
Indices: 24598919--24598959 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
24598909 TGCAATCGAC
*
24598919 AGGCTATGTCACAAGACATGT
1 AGGCCATGTCACAAGACATGT
* *
24598940 AGGCCATGTCGCGAGACATG
1 AGGCCATGTCACAAGACATG
24598960 CTAGCTAATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
AGGCCATGTCACAAGACATGT
Found at i:24601272 original size:27 final size:25
Alignment explanation
Indices: 24601223--24601294 Score: 90
Period size: 27 Copynumber: 2.8 Consensus size: 25
24601213 AGCTAATATT
* *
24601223 GGGAAGCTCCATAGAGCCATTAACC
1 GGGAAGCTCTAAAGAGCCATTAACC
* *
24601248 GGGAAGCTCATGAAAGAGCCTTTAATC
1 GGGAAGCTC-T-AAAGAGCCATTAACC
24601275 GGGAAGCTCTAAAGAGCCAT
1 GGGAAGCTCTAAAGAGCCAT
24601295 ATATCGGGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 18 0.45
26 1 0.03
27 21 0.52
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.18
Consensus pattern (25 bp):
GGGAAGCTCTAAAGAGCCATTAACC
Found at i:24601300 original size:25 final size:25
Alignment explanation
Indices: 24601154--24601316 Score: 81
Period size: 24 Copynumber: 6.6 Consensus size: 25
24601144 ATGTAACGGA
* * *
24601154 AAGCTCCAGAGAGCCAT-TAACGGG
1 AAGCTCTAAAGAGCCATATATCGGG
* * *
24601178 AAG-TTTATATGAGCCA-ATATCAGG
1 AAGCTCTA-AAGAGCCATATATCGGG
* * *
24601202 AAGTTC-AAGAGAGCTA-ATATTGGG
1 AAGCTCTAA-AGAGCCATATATCGGG
* * *
24601226 AAGCTCCATAGAGCCAT-TAACCGGG
1 AAGCTCTAAAGAGCCATAT-ATCGGG
*
24601251 AAGCTCATGAAAGAGCC-TTTAATCGGG
1 AAGCTC-T-AAAGAGCCATAT-ATCGGG
24601278 AAGCTCTAAAGAGCCATATATCGGG
1 AAGCTCTAAAGAGCCATATATCGGG
*
24601303 ACGCTC-ATAAGAGC
1 AAGCTCTA-AAGAGC
24601317 TGCAGTGTGT
Statistics
Matches: 106, Mismatches: 21, Indels: 23
0.71 0.14 0.15
Matches are distributed among these distances:
23 3 0.03
24 42 0.40
25 37 0.35
26 4 0.04
27 20 0.19
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (25 bp):
AAGCTCTAAAGAGCCATATATCGGG
Found at i:24618150 original size:21 final size:20
Alignment explanation
Indices: 24618124--24618165 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
24618114 CTAAATTTTC
24618124 ACTTATAATATACATATGATT
1 ACTTATAATATACATAT-ATT
* *
24618145 ACTTATTATATTCATATATT
1 ACTTATAATATACATATATT
24618165 A
1 A
24618166 TCACTTATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (20 bp):
ACTTATAATATACATATATT
Found at i:24619051 original size:21 final size:21
Alignment explanation
Indices: 24619027--24619070 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
24619017 AAACGAGCAA
24619027 GGGCGGAATGGCACAATGGGC
1 GGGCGGAATGGCACAATGGGC
*
24619048 GGGCGGAATGGCACGATGGGC
1 GGGCGGAATGGCACAATGGGC
24619069 GG
1 GG
24619071 TGGACCAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.18, G:0.52, T:0.09
Consensus pattern (21 bp):
GGGCGGAATGGCACAATGGGC
Found at i:24619791 original size:49 final size:49
Alignment explanation
Indices: 24619719--24619816 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
24619709 GCACGACGGA
*
24619719 CGATGGACCAATATTGATAAAATAAAATAAAAACCGTCCACAAGTGAAC
1 CGATGAACCAATATTGATAAAATAAAATAAAAACCGTCCACAAGTGAAC
24619768 CGATGAACCAATATTGATAAAATAAAATAAAAACCGTCCACAAGTGAAC
1 CGATGAACCAATATTGATAAAATAAAATAAAAACCGTCCACAAGTGAAC
24619817 TGATAATACT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.50, C:0.18, G:0.13, T:0.18
Consensus pattern (49 bp):
CGATGAACCAATATTGATAAAATAAAATAAAAACCGTCCACAAGTGAAC
Found at i:24622061 original size:67 final size:67
Alignment explanation
Indices: 24621988--24622121 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 67
24621978 ATTTGCTTCA
24621988 CATTTTTACATTTTCTTTGATTTTTCTTGTCATTTGGTTTGCTTGAGCTTGTAGAAATACAAATG
1 CATTTTTACATTTTCTTTGATTTTTCTTGTCATTTGGTTTGCTTGAGCTTGTAGAAATACAAATG
24622053 AT
66 AT
*
24622055 CATTTTTACATTTTCTTTTATTTTTCTTGTCATTTGGTTTGCTTGAGCTTGTAGAAATACAAATG
1 CATTTTTACATTTTCTTTGATTTTTCTTGTCATTTGGTTTGCTTGAGCTTGTAGAAATACAAATG
24622120 AT
66 AT
24622122 TGGTTAGGAT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.51
Consensus pattern (67 bp):
CATTTTTACATTTTCTTTGATTTTTCTTGTCATTTGGTTTGCTTGAGCTTGTAGAAATACAAATG
AT
Found at i:24622151 original size:67 final size:66
Alignment explanation
Indices: 24622013--24622151 Score: 154
Period size: 67 Copynumber: 2.1 Consensus size: 66
24622003 TTTGATTTTT
*** * * **
24622013 CTTGTCATTTGGTTTGCTTGAGCTTGTAGAAATACAAATGATCATTTTTACATTTTCTTTTATTT
1 CTTGTCATTTGGTTTGCTTGAGCTTGTAGAAATACAAATGATCATTAGGACATTTAC-TATAGGT
*
24622078 TT
65 TG
**
24622080 CTTGTCATTTGGTTTGCTTGAGCTTGTAGAAATACAAATGATTGGTTAGGATCATTTAC-ATAGG
1 CTTGTCATTTGGTTTGCTTGAGCTTGTAGAAATACAAATGA-TCATTAGGA-CATTTACTATAGG
24622144 TTG
64 TTG
24622147 CTTGT
1 CTTGT
24622152 GTTTATGAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
67 50 0.83
68 4 0.07
69 6 0.10
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.47
Consensus pattern (66 bp):
CTTGTCATTTGGTTTGCTTGAGCTTGTAGAAATACAAATGATCATTAGGACATTTACTATAGGTT
G
Found at i:24623752 original size:43 final size:43
Alignment explanation
Indices: 24623702--24623824 Score: 171
Period size: 43 Copynumber: 2.9 Consensus size: 43
24623692 GAGGTGTGAT
*
24623702 TTCGTGTAAGACCATGTCTAGGACATTGGCATCGATATGA-GA
1 TTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGATGA
24623744 TTACGTGTAAGACCATGTCTGGGACATTGGCATC-ATAT-ATGA
1 TT-CGTGTAAGACCATGTCTGGGACATTGGCATCGATATGATGA
* * **
24623786 TTCGTGTAAGACCCTGTATGGGACAGAGGCATCGATATG
1 TTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATG
24623825 TGAAAACATG
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
41 28 0.39
42 14 0.19
43 30 0.42
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (43 bp):
TTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGATGA
Found at i:24631086 original size:10 final size:10
Alignment explanation
Indices: 24631071--24631095 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24631061 AAATAAGTTA
24631071 AATTTGTATT
1 AATTTGTATT
24631081 AATTTGTATT
1 AATTTGTATT
24631091 AATTT
1 AATTT
24631096 AGATCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (10 bp):
AATTTGTATT
Found at i:24631454 original size:43 final size:43
Alignment explanation
Indices: 24631401--24631484 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
24631391 TCTGAAGTGT
* * **
24631401 GATTTCGTGTAAGACCATGTCTAGGACATTGGCATCGATATAA
1 GATTACGTGTAAGACCACGTCTAGGACAGAGGCATCGATATAA
*
24631444 GATTACGTGTAAGACCACGTCTGGGACAGAGGCATCGATAT
1 GATTACGTGTAAGACCACGTCTAGGACAGAGGCATCGATAT
24631485 GTGAAAACAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (43 bp):
GATTACGTGTAAGACCACGTCTAGGACAGAGGCATCGATATAA
Found at i:24631498 original size:43 final size:43
Alignment explanation
Indices: 24631408--24631503 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
24631398 TGTGATTTCG
* ** ** *
24631408 TGTAAGACCATGTCTAGGACATTGGCATCGATATAAGATTACG
1 TGTAAGACCACGTCTAGGACAGAGGCATCGATATAAGAAAACA
* **
24631451 TGTAAGACCACGTCTGGGACAGAGGCATCGATATGTGAAAACA
1 TGTAAGACCACGTCTAGGACAGAGGCATCGATATAAGAAAACA
24631494 TGTAAGACCA
1 TGTAAGACCA
24631504 TATCCGGGAT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (43 bp):
TGTAAGACCACGTCTAGGACAGAGGCATCGATATAAGAAAACA
Found at i:24631809 original size:91 final size:91
Alignment explanation
Indices: 24631708--24631885 Score: 311
Period size: 91 Copynumber: 2.0 Consensus size: 91
24631698 ATAAAAAGTA
* *
24631708 ATTATATATGTATGTGATATTGGTTATATTCGGCCAACTAGAATTAAAATGTAAATGTTCTTTTG
1 ATTATATATGTATGTGACATTGGTTATATTCGGCCAACAAGAATTAAAATGTAAATGTTCTTTTG
*
24631773 ATGATTTATTTTCTTACGGCTTTTTG
66 ATGATTTATTTGCTTACGGCTTTTTG
*
24631799 ATTATATATGTATGTGACATTGGTTATATTCGGCCAACAAGAATTAATATGTAAATGTTCTTTTG
1 ATTATATATGTATGTGACATTGGTTATATTCGGCCAACAAGAATTAAAATGTAAATGTTCTTTTG
*
24631864 ATGATTTATTTGCTTATGGCTT
66 ATGATTTATTTGCTTACGGCTT
24631886 GCTAAGCTTT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 82 1.00
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (91 bp):
ATTATATATGTATGTGACATTGGTTATATTCGGCCAACAAGAATTAAAATGTAAATGTTCTTTTG
ATGATTTATTTGCTTACGGCTTTTTG
Found at i:24631930 original size:19 final size:19
Alignment explanation
Indices: 24631906--24631946 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
24631896 TCAAGCTTAA
*
24631906 TTTGTGTGTTTACTTGATG
1 TTTGTGTGTTTACTCGATG
24631925 TTTGTGTGTTTACTCGATG
1 TTTGTGTGTTTACTCGATG
24631944 TTT
1 TTT
24631947 TATAGATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.10, C:0.07, G:0.24, T:0.59
Consensus pattern (19 bp):
TTTGTGTGTTTACTCGATG
Found at i:24638880 original size:11 final size:10
Alignment explanation
Indices: 24638857--24638895 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
24638847 CTATAAATAT
*
24638857 AAAAAATACA
1 AAAAAATTCA
*
24638867 AAAAAATTGA
1 AAAAAATTCA
24638877 AAAAAATTCTA
1 AAAAAATTC-A
24638888 AAAAAATT
1 AAAAAATT
24638896 ATCCTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.21
Consensus pattern (10 bp):
AAAAAATTCA
Found at i:24641534 original size:4 final size:4
Alignment explanation
Indices: 24641507--24641548 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
24641497 TAAAAAATTC
*
24641507 AATA ACTA AATCA AAT- AA-A AATA AATA AATA AATA AATA AAT
1 AATA AATA AAT-A AATA AATA AATA AATA AATA AATA AATA AAT
24641549 GATACAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 4 0.12
4 25 0.76
5 4 0.12
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:24641535 original size:19 final size:18
Alignment explanation
Indices: 24641507--24641543 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
24641497 TAAAAAATTC
*
24641507 AATAACTAAATCAAATAAA
1 AATAAATAAAT-AAATAAA
24641526 AATAAATAAATAAATAAA
1 AATAAATAAATAAATAAA
24641544 TAAATGATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (18 bp):
AATAAATAAATAAATAAA
Found at i:24648665 original size:17 final size:17
Alignment explanation
Indices: 24648615--24648666 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
24648605 ATTAGATAAG
* *
24648615 TATTATTTTATTAATAT
1 TATTATTATATTATTAT
* *
24648632 TTTTATGATATGT-TTAT
1 TATTATTATAT-TATTAT
24648649 TATTATTATATTATTAT
1 TATTATTATATTATTAT
24648666 T
1 T
24648667 TATTTAGAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
16 1 0.04
17 25 0.93
18 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TATTATTATATTATTAT
Found at i:24650560 original size:46 final size:46
Alignment explanation
Indices: 24650508--24650689 Score: 231
Period size: 46 Copynumber: 4.0 Consensus size: 46
24650498 AGTGTACTCT
* * *
24650508 CTGATATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
24650554 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
24650600 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
24650646 ATAACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
24650690 TCATGTCAAA
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 121 0.99
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:24650996 original size:16 final size:17
Alignment explanation
Indices: 24650975--24651007 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24650965 ATGATGGAGC
24650975 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
24650991 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
24651008 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:24653763 original size:31 final size:31
Alignment explanation
Indices: 24653723--24653793 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
24653713 AAGTAGTAAC
*
24653723 TACTATGTATCGATGTTTATGTTATAGCAGG
1 TACTATGTATCGATGTTTATATTATAGCAGG
* * * *
24653754 TACTTTGTATCGGTGTTTATATTGTATCAGG
1 TACTATGTATCGATGTTTATATTATAGCAGG
24653785 TACTATGTA
1 TACTATGTA
24653794 CCTATGTTGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.45
Consensus pattern (31 bp):
TACTATGTATCGATGTTTATATTATAGCAGG
Found at i:24654165 original size:31 final size:28
Alignment explanation
Indices: 24654125--24654188 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 28
24654115 TCAATTTTAG
*
24654125 AATTAGGGAAAGGCAAGTAAGTTGTGTTA
1 AATT-GGGAAAGACAAGTAAGTTGTGTTA
24654154 AATTNNNGGGAAAGACAAGTAAGTTGTGTTA
1 AATT---GGGAAAGACAAGTAAGTTGTGTTA
24654185 AATT
1 AATT
24654189 TATTTAGGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 4 0.13
31 27 0.87
ACGTcount: A:0.38, C:0.03, G:0.27, T:0.28
Consensus pattern (28 bp):
AATTGGGAAAGACAAGTAAGTTGTGTTA
Found at i:24672594 original size:17 final size:17
Alignment explanation
Indices: 24672555--24672596 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
24672545 TTAATTTCTC
* *
24672555 TTTATA-ATTTTATAAT
1 TTTATATATATTAAAAT
24672571 TTT-TATATATTAAAAT
1 TTTATATATATTAAAAT
24672587 TTTATATATA
1 TTTATATATA
24672597 CCCAGCTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 2 0.09
16 14 0.64
17 6 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTATATATATTAAAAT
Found at i:24673477 original size:25 final size:26
Alignment explanation
Indices: 24673430--24673478 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
24673420 ACTTTCTTTA
** *
24673430 TATATATTTTTAAAATTTTAAATTCT
1 TATATATTTTTAAAAAATAAAATTCT
24673456 TATA-ATTTTTAAAAAATAAAATT
1 TATATATTTTTAAAAAATAAAATT
24673479 TGGAATTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (26 bp):
TATATATTTTTAAAAAATAAAATTCT
Found at i:24673522 original size:19 final size:19
Alignment explanation
Indices: 24673495--24673542 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
24673485 TTTAATATTT
*
24673495 TTTTAAATTTTAAAAAGTA
1 TTTTGAATTTTAAAAAGTA
* *
24673514 TTTTGAATTTTTAATAATTA
1 TTTTGAA-TTTTAAAAAGTA
24673534 TTTTGAATT
1 TTTTGAATT
24673543 ATTTTGTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (19 bp):
TTTTGAATTTTAAAAAGTA
Found at i:24673525 original size:20 final size:20
Alignment explanation
Indices: 24673502--24673542 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
24673492 TTTTTTTAAA
24673502 TTTTAAAAAGTATTTTGAAT
1 TTTTAAAAAGTATTTTGAAT
* *
24673522 TTTTAATAATTATTTTGAAT
1 TTTTAAAAAGTATTTTGAAT
24673542 T
1 T
24673543 ATTTTGTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (20 bp):
TTTTAAAAAGTATTTTGAAT
Found at i:24674006 original size:3 final size:3
Alignment explanation
Indices: 24673998--24674029 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
24673988 CAATAATCTT
24673998 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
24674030 TTAAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:24677654 original size:3 final size:3
Alignment explanation
Indices: 24677648--24677685 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
24677638 TATTAAGGTT
24677648 TAA TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA T
24677686 TATTATTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:24677672 original size:19 final size:19
Alignment explanation
Indices: 24677648--24677684 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
24677638 TATTAAGGTT
24677648 TAATAATAATAATAATAAA
1 TAATAATAATAATAATAAA
24677667 TAATAATAATAATAATAA
1 TAATAATAATAATAATAA
24677685 TTATTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TAATAATAATAATAATAAA
Found at i:24678438 original size:20 final size:21
Alignment explanation
Indices: 24678408--24678451 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
24678398 ATAAAATAAT
*
24678408 AAACAAAAGTAAAATAAAAAG
1 AAACAAAAGTAAAAGAAAAAG
*
24678429 AAAC-AAAGTAAAAGAAACAG
1 AAACAAAAGTAAAAGAAAAAG
24678449 AAA
1 AAA
24678452 AGAAACAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.75, C:0.07, G:0.11, T:0.07
Consensus pattern (21 bp):
AAACAAAAGTAAAAGAAAAAG
Found at i:24679636 original size:38 final size:38
Alignment explanation
Indices: 24679594--24679670 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 38
24679584 ACTGGGTAGC
* *
24679594 ACTTTACTTCG-GCTAGGCCGATGAGACACTGGGTGCCA
1 ACTTTACTTCGAACTA-GCCGATGAGACACCGGGTGCCA
* * *
24679632 ACTTTGCTTCGAACTATCCGATGAGGCACCGGGTGCCA
1 ACTTTACTTCGAACTAGCCGATGAGACACCGGGTGCCA
24679670 A
1 A
24679671 ATTGGTGTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
38 30 0.91
39 3 0.09
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.23
Consensus pattern (38 bp):
ACTTTACTTCGAACTAGCCGATGAGACACCGGGTGCCA
Found at i:24682527 original size:40 final size:40
Alignment explanation
Indices: 24682433--24682577 Score: 191
Period size: 40 Copynumber: 3.6 Consensus size: 40
24682423 TACTCGAATG
* *
24682433 ATATCCGGGCTAAGCCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGCGACT
* * *
24682474 ACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* * * *
24682514 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
*
24682554 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
24682578 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 62 0.69
41 28 0.31
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
Found at i:24684554 original size:22 final size:22
Alignment explanation
Indices: 24684529--24684572 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
24684519 TAGTCATATA
24684529 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
24684551 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
24684573 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:24684598 original size:19 final size:17
Alignment explanation
Indices: 24684526--24684610 Score: 52
Period size: 18 Copynumber: 4.8 Consensus size: 17
24684516 ATTTAGTCAT
*
24684526 ATAATAAATTATTAATATA
1 ATAATAAATT-TT-ATTTA
24684545 ATAAATATAATTTATTATTT-
1 AT-AATA-AA-TT-TTATTTA
24684565 -TAATAAA--TTATTTA
1 ATAATAAATTTTATTTA
*
24684579 ATATTTAAATTTTATCTTA
1 ATA-ATAAATTTTAT-TTA
24684598 ATAATAAATTTTA
1 ATAATAAATTTTA
24684611 AAGATAATAA
Statistics
Matches: 54, Mismatches: 3, Indels: 19
0.71 0.04 0.25
Matches are distributed among these distances:
13 6 0.11
15 2 0.04
16 4 0.07
17 2 0.04
18 17 0.31
19 9 0.17
20 4 0.07
21 5 0.09
22 5 0.09
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (17 bp):
ATAATAAATTTTATTTA
Found at i:24684624 original size:15 final size:16
Alignment explanation
Indices: 24684598--24684627 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24684588 TTTTATCTTA
24684598 ATAATAAATTTTAAAG
1 ATAATAAATTTTAAAG
24684614 ATAAT-AATTTTAAA
1 ATAATAAATTTTAAA
24684628 TAATATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (16 bp):
ATAATAAATTTTAAAG
Found at i:24684685 original size:15 final size:15
Alignment explanation
Indices: 24684665--24684721 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
24684655 ATTCAATATT
24684665 AATATTTTAATAATA
1 AATATTTTAATAATA
*
24684680 AATATTTATTACAAATATA
1 AATA-TT-TTA-ATA-ATA
*
24684699 AATATATTAATAATA
1 AATATTTTAATAATA
24684714 AATATTTT
1 AATATTTT
24684722 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 14 0.41
16 4 0.12
17 6 0.18
18 3 0.09
19 7 0.21
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:24684696 original size:17 final size:17
Alignment explanation
Indices: 24684671--24684720 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
24684661 TATTAATATT
24684671 TTAATAATAAATATTTA
1 TTAATAATAAATATTTA
*
24684688 TTACA-AATATAA-ATATA
1 TTA-ATAATA-AATATTTA
24684705 TTAATAATAAATATTT
1 TTAATAATAAATATTT
24684721 TGTAGTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
16 3 0.11
17 21 0.78
18 3 0.11
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAATAATAAATATTTA
Found at i:24714268 original size:19 final size:19
Alignment explanation
Indices: 24714241--24714278 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
24714231 ATTTTCCAGA
*
24714241 AAATGATTTACTTTTCTGG
1 AAATAATTTACTTTTCTGG
24714260 AAATAATTTACTTTTCTGG
1 AAATAATTTACTTTTCTGG
24714279 TGTTTTGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (19 bp):
AAATAATTTACTTTTCTGG
Found at i:24715741 original size:32 final size:32
Alignment explanation
Indices: 24715695--24715755 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
24715685 TGTCAATCAT
24715695 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
24715727 TTCAATATCTAACAAGCTTGAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
24715756 CAATATCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:24715762 original size:27 final size:30
Alignment explanation
Indices: 24715695--24715768 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
24715685 TGTCAATCAT
*
24715695 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
*
24715727 TTCAATATCTAACAAGCTTGAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
24715755 -TCAATATCTAACAA
1 TTCAATATCTAACAA
24715769 ATTCAAGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.35
28 2 0.05
29 2 0.05
32 22 0.55
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:24715779 original size:27 final size:27
Alignment explanation
Indices: 24715728--24715782 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
24715718 CATAATAAAT
* *
24715728 TCAATATCTAACAAGCTTGAAACATAA
1 TCAATATCTAACAAGATTCAAACATAA
24715755 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATTCAA-ACATAA
24715782 T
1 T
24715783 AATTTCAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.27
Consensus pattern (27 bp):
TCAATATCTAACAAGATTCAAACATAA
Found at i:24720991 original size:55 final size:53
Alignment explanation
Indices: 24720932--24721037 Score: 140
Period size: 55 Copynumber: 2.0 Consensus size: 53
24720922 GGGAAGAGAT
* * *
24720932 TTGAAGAACGGGAGAAGAAGAAGACTTACCTGGATGAAGAATGAGATGGAAAAAG
1 TTGAAGAACGGAAGAAAAAGAAGACTTACCT-GATGAAG-AGGAGATGGAAAAAG
* * *
24720987 TTGAAGAATGGAAGAAAAAGATGGCTTACCTGATGAAGAGGAGATGGAAAA
1 TTGAAGAACGGAAGAAAAAGAAGACTTACCTGATGAAGAGGAGATGGAAAA
24721038 TATCTTACAG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 12 0.27
54 7 0.16
55 26 0.58
ACGTcount: A:0.45, C:0.07, G:0.32, T:0.16
Consensus pattern (53 bp):
TTGAAGAACGGAAGAAAAAGAAGACTTACCTGATGAAGAGGAGATGGAAAAAG
Found at i:24721005 original size:20 final size:22
Alignment explanation
Indices: 24720966--24721006 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
24720956 CTTACCTGGA
*
24720966 TGAAGAATGAGATGGAAAAAGT
1 TGAAGAATGAGATAGAAAAAGT
24720988 TGAAGAATG-GA-AGAAAAAG
1 TGAAGAATGAGATAGAAAAAG
24721007 ATGGCTTACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 9 0.50
ACGTcount: A:0.54, C:0.00, G:0.32, T:0.15
Consensus pattern (22 bp):
TGAAGAATGAGATAGAAAAAGT
Found at i:24734934 original size:46 final size:46
Alignment explanation
Indices: 24734884--24735056 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
24734874 TGGTTGAGCA
24734884 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
24734930 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
24734975 CATCCAAACTCGTTGAGTTGAGTCCGCGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
24735023 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
24735057 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.57
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:24735040 original size:93 final size:93
Alignment explanation
Indices: 24734881--24735051 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
24734871 GGATGGTTGA
* * * *
24734881 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
24734946 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
24734974 GCATCCAAACTCGTTGAGTTGAGTCCGCGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
24735039 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
24735052 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:24736964 original size:13 final size:13
Alignment explanation
Indices: 24736946--24736970 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24736936 TCCTTTGTCT
24736946 TTTCTTTTTTTTC
1 TTTCTTTTTTTTC
24736959 TTTCTTTTTTTT
1 TTTCTTTTTTTT
24736971 TGAAGGTCTT
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTCTTTTTTTTC
Found at i:24737558 original size:6 final size:6
Alignment explanation
Indices: 24737549--24737589 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
24737539 GCTTTTTTTT
* * *
24737549 TTTGCC TTTGCC TTTGCC TTTGCC TTTTCC CTTACC TTTGC
1 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC TTTGC
24737590 AATATAGTGC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.02, C:0.34, G:0.12, T:0.51
Consensus pattern (6 bp):
TTTGCC
Found at i:24741480 original size:46 final size:46
Alignment explanation
Indices: 24741439--24742338 Score: 1506
Period size: 46 Copynumber: 19.5 Consensus size: 46
24741429 ATCCGAACTC
* * * * *
24741439 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTC
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
* * * * *
24741485 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTC
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
24741531 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
24741577 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
24741623 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
24741669 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
24741715 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
24741761 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
24741807 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
24741853 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
24741899 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
24741945 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
24741991 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
24742037 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
24742083 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
24742129 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
* * * * *
24742175 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTC
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
* * * *
24742221 GTTGAGTTGAGTCCGAG-T---TTGTGAGATG-TAACTAGGCATCCGAACTCA
1 GTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAAC---GC--CCCAGCT-A
* *
24742269 -TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTC
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
24742314 GTTGAGTTGAGTCCGAGTTCACTTA
1 GTTGAGTTGAGTCCGAGTTCACTTA
24742339 GGGGCGGGTT
Statistics
Matches: 822, Mismatches: 19, Indels: 26
0.95 0.02 0.03
Matches are distributed among these distances:
42 6 0.01
43 4 0.00
45 2 0.00
46 773 0.94
47 23 0.03
48 3 0.00
50 4 0.00
51 7 0.01
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (46 bp):
GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCCAGCTA
Found at i:24747309 original size:61 final size:60
Alignment explanation
Indices: 24747233--24747382 Score: 175
Period size: 60 Copynumber: 2.5 Consensus size: 60
24747223 CCTATTCAGA
* *
24747233 AATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAATCTGCGCCATAGCCC-CTTAC
1 AATCAGAGTAT-ACTGGGCCTTAGCCCATATCAATATCAATCTGCGCCATAGCCCTATTAC
* * *
24747292 AGTATCAGAGTATACTGGGCC-TAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTAC
1 A--ATCAGAGTATACTGGGCCTTAGCCCATATCAATATCAATCTGCGCCATAGCCCTATTAC
24747353 AAGTC-GAGATATACTGGGCCTT-GCCCATAT
1 AA-TCAGAG-TATACTGGGCCTTAGCCCATAT
24747383 TAACACAATA
Statistics
Matches: 79, Mismatches: 5, Indels: 13
0.81 0.05 0.13
Matches are distributed among these distances:
59 5 0.06
60 51 0.65
61 22 0.28
62 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (60 bp):
AATCAGAGTATACTGGGCCTTAGCCCATATCAATATCAATCTGCGCCATAGCCCTATTAC
Found at i:24749481 original size:12 final size:13
Alignment explanation
Indices: 24749459--24749487 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
24749449 TAAACTAAAC
24749459 ATAAGAAATAATA
1 ATAAGAAATAATA
24749472 ATAA-AAATAATA
1 ATAAGAAATAATA
24749484 ATAA
1 ATAA
24749488 TGATAACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
ATAAGAAATAATA
Found at i:24752573 original size:41 final size:41
Alignment explanation
Indices: 24752480--24752665 Score: 169
Period size: 41 Copynumber: 4.5 Consensus size: 41
24752470 GATTCAGATA
* ** * *
24752480 TATATATGACACTTAGTGTGCGATTTGGA-ATAGATTCGAC
1 TATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTCGAC
*
24752520 TATATATAGCACTTAGTGTGCGAGATCGAGATAGCTTCGAC
1 TATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTCGAC
* * *
24752561 TATATATGGCACTTACTGTGCTAGATCGAGATAG-TTGCGGC
1 TATATATGGCACTTAGTGTGCGAGATCGAGATAGCTT-CGAC
* * * ** * *
24752602 TATGTAAGGCACTTAGTGTGAGAGATTAAAATAGCTTCAAC
1 TATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTCGAC
* * *
24752643 TATGTATTGGCACATAATGTGCG
1 TATATA-TGGCACTTAGTGTGCG
24752666 TGATATCGAG
Statistics
Matches: 118, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
40 26 0.22
41 78 0.66
42 14 0.12
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.32
Consensus pattern (41 bp):
TATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTCGAC
Found at i:24754497 original size:47 final size:47
Alignment explanation
Indices: 24754428--24754522 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
24754418 ATATTTATCA
* *
24754428 TACAATTCAGATAATAATAACAATATCTGTCTTAGGTTTCATTCCCC
1 TACAATTCAGATAATAATAACAAGATCTATCTTAGGTTTCATTCCCC
24754475 TACAATTCAGATAATAATAACAAGATCTATCTTAGGTTTCATTCCCC
1 TACAATTCAGATAATAATAACAAGATCTATCTTAGGTTTCATTCCCC
24754522 T
1 T
24754523 TAGGTATTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (47 bp):
TACAATTCAGATAATAATAACAAGATCTATCTTAGGTTTCATTCCCC
Found at i:24756958 original size:13 final size:14
Alignment explanation
Indices: 24756942--24756973 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
24756932 AATTAAAGAT
24756942 AAAAGTAA-AAATA
1 AAAAGTAATAAATA
24756955 AAAA-TAATAAATA
1 AAAAGTAATAAATA
24756968 AAAAGT
1 AAAAGT
24756974 TTTTAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 13 0.76
14 1 0.06
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (14 bp):
AAAAGTAATAAATA
Found at i:24772014 original size:37 final size:37
Alignment explanation
Indices: 24771938--24772022 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 37
24771928 TTTGAGTACG
* * *
24771938 TGTAAGACCATAGCTGGGCTATGGCATCGTAATGACA
1 TGTAAGACCATAGCTAGGCTATGGCATCATAATCACA
* * *
24771975 TGTAAGACCATAGCTAGGCTATGGCATTATGATCCCA
1 TGTAAGACCATAGCTAGGCTATGGCATCATAATCACA
24772012 TGTAAGACCAT
1 TGTAAGACCAT
24772023 GTCTGGGACA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (37 bp):
TGTAAGACCATAGCTAGGCTATGGCATCATAATCACA
Found at i:24772057 original size:48 final size:48
Alignment explanation
Indices: 24772004--24772182 Score: 254
Period size: 48 Copynumber: 3.7 Consensus size: 48
24771994 TATGGCATTA
*
24772004 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
* *
24772052 TGATCCCATGTAAGATCATGTCTAGGACATGGCATTGGCATCGATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
* * *
24772100 TGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGAGATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
**
24772148 TGAT--TTTGGATAAGACCATGTCTGGGACATGGCAT
1 TGATCCCAT-G-TAAGACCATGTCTGGGACATGGCAT
24772183 CAATATGAGA
Statistics
Matches: 117, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
46 1 0.01
47 1 0.01
48 115 0.98
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
Found at i:24776105 original size:42 final size:42
Alignment explanation
Indices: 24776058--24776137 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
24776048 TCGGTTTGTG
* * *
24776058 ATTTCATATAAGACCTTGTCAGGGACATGGCGTTGATATCAT
1 ATTTCATATAAGACCATATCAGGGACATGGCATTGATATCAT
* * *
24776100 ATTTCATGTAAGACCATATCTGGGATATGGCATTGATA
1 ATTTCATATAAGACCATATCAGGGACATGGCATTGATA
24776138 CGGTCCTAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (42 bp):
ATTTCATATAAGACCATATCAGGGACATGGCATTGATATCAT
Found at i:24777566 original size:41 final size:40
Alignment explanation
Indices: 24777480--24777665 Score: 194
Period size: 41 Copynumber: 4.5 Consensus size: 40
24777470 AATTCAAATA
*
24777480 TATATATGGCACTTAGTGTGCGA-TTCAGAATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGAGATCAG-ATAGCTTCGGC
*
24777520 TATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTCGGT
1 TATATATGGCACTTAGTGTGCGAGATC-AGATAGCTTCGGC
* * *
24777561 TATATATGGCAATTAGTGTGTGAGATCAAGATAGCTTTGGC
1 TATATATGGCACTTAGTGTGCGAGATC-AGATAGCTTCGGC
* * * * * **
24777602 TATCTAAGGCACTTAGTGTGTGAGATTAAAATAGCTTCAAC
1 TATATATGGCACTTAGTGTGCGAGA-TCAGATAGCTTCGGC
* *
24777643 TATGTATTGGCATTTAGTGTGCG
1 TATATA-TGGCACTTAGTGTGCG
24777666 TGATATCGAG
Statistics
Matches: 123, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
40 23 0.19
41 84 0.68
42 16 0.13
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCGAGATCAGATAGCTTCGGC
Found at i:24787523 original size:37 final size:37
Alignment explanation
Indices: 24787475--24787555 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
24787465 TTTCATTTTC
* *
24787475 ATTTCCATTTTGGCGAAAACCACATTCATTTCCAAATG
1 ATTT-CATTTTGGAGAAAACCACAATCATTTCCAAATG
* **
24787513 ATTTCATTTTGGAGAAAATCTTAATCATTTCCAAATG
1 ATTTCATTTTGGAGAAAACCACAATCATTTCCAAATG
24787550 -TTTCAT
1 ATTTCAT
24787556 ATTTCTCTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
36 6 0.16
37 28 0.74
38 4 0.11
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.40
Consensus pattern (37 bp):
ATTTCATTTTGGAGAAAACCACAATCATTTCCAAATG
Found at i:24791222 original size:20 final size:19
Alignment explanation
Indices: 24791199--24791256 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
24791189 AACAATACAC
24791199 AAATTGAAAATATATAATAA
1 AAATTGAAAATATA-AATAA
** *
24791219 AAATTGATTATATTAAAATTA
1 AAATTGAAAATA-T-AAATAA
24791240 AAATT-AAAATATAAATA
1 AAATTGAAAATATAAATA
24791257 TAATTAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
18 4 0.13
19 1 0.03
20 14 0.47
21 10 0.33
22 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
AAATTGAAAATATAAATAA
Found at i:24791264 original size:23 final size:23
Alignment explanation
Indices: 24791235--24791280 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
24791225 ATTATATTAA
* *
24791235 AATTAAAATTAAAATATAAATAT
1 AATTAAAAATAAAAAATAAATAT
*
24791258 AATTAAAAATAAAAAATATATAT
1 AATTAAAAATAAAAAATAAATAT
24791281 TTATTATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AATTAAAAATAAAAAATAAATAT
Found at i:24796956 original size:35 final size:35
Alignment explanation
Indices: 24796912--24796983 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
24796902 GAATAATCAC
*
24796912 AAATTTTAAATATAAACAATAAAAAATAAATATAA
1 AAATCTTAAATATAAACAATAAAAAATAAATATAA
* *
24796947 AAATCTTAAATATAGACAGTAAAAAATAAATATAA
1 AAATCTTAAATATAAACAATAAAAAATAAATATAA
24796982 AA
1 AA
24796984 GATACTCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.26
Consensus pattern (35 bp):
AAATCTTAAATATAAACAATAAAAAATAAATATAA
Found at i:24807595 original size:72 final size:72
Alignment explanation
Indices: 24807478--24807661 Score: 350
Period size: 72 Copynumber: 2.6 Consensus size: 72
24807468 ACAACTTGAC
* *
24807478 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACGACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
24807543 ACTAACA
66 ACTAACA
24807550 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
24807615 ACTAACA
66 ACTAACA
24807622 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
24807662 AATAATAATA
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 110 1.00
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:24807670 original size:3 final size:3
Alignment explanation
Indices: 24807662--24807702 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
24807652 ATTACATCCA
24807662 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
24807703 AACATGTGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24812037 original size:72 final size:72
Alignment explanation
Indices: 24811920--24812247 Score: 647
Period size: 72 Copynumber: 4.6 Consensus size: 72
24811910 ACAACTTGAC
*
24811920 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
24811985 ACTAACA
66 ACTAACA
24811992 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
24812057 ACTAACA
66 ACTAACA
24812064 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
24812129 ACTAACA
66 ACTAACA
24812136 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
24812201 ACTAACA
66 ACTAACA
24812208 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
24812248 AATAATAATA
Statistics
Matches: 255, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 255 1.00
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.27
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:24812256 original size:3 final size:3
Alignment explanation
Indices: 24812248--24812291 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
24812238 ATTACATCCA
24812248 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
24812292 AACATGTGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24822014 original size:20 final size:20
Alignment explanation
Indices: 24821986--24822025 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24821976 GGATTTGGGT
*
24821986 TTCAAGTTTGGGGTTCAAGG
1 TTCAAGTTTGGGCTTCAAGG
*
24822006 TTCAGGTTTGGGCTTCAAGG
1 TTCAAGTTTGGGCTTCAAGG
24822026 GTTTGGGTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.17, C:0.12, G:0.35, T:0.35
Consensus pattern (20 bp):
TTCAAGTTTGGGCTTCAAGG
Found at i:24822022 original size:13 final size:13
Alignment explanation
Indices: 24822004--24822042 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
24821994 TGGGGTTCAA
24822004 GGTTC-AGGTTTG
1 GGTTCAAGGTTTG
24822016 GGCTTCAAGGGTTTG
1 GG-TTCAA-GGTTTG
24822031 GGTTCAAGGTTT
1 GGTTCAAGGTTT
24822043 ATGGGTTCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.08
13 8 0.33
14 6 0.25
15 8 0.33
ACGTcount: A:0.13, C:0.10, G:0.38, T:0.38
Consensus pattern (13 bp):
GGTTCAAGGTTTG
Found at i:24822038 original size:14 final size:14
Alignment explanation
Indices: 24822010--24822051 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
24822000 TCAAGGTTCA
24822010 GGTTTGGGCTTCAAG
1 GGTTTGGG-TTCAAG
24822025 GGTTTGGGTTCAAG
1 GGTTTGGGTTCAAG
*
24822039 GTTTATGGGTTCA
1 GGTT-TGGGTTCA
24822052 GAGTTACGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.14, C:0.10, G:0.38, T:0.38
Consensus pattern (14 bp):
GGTTTGGGTTCAAG
Found at i:24822039 original size:34 final size:34
Alignment explanation
Indices: 24821970--24822041 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
24821960 CGAGATTTAG
* *
24821970 GGTTGAGGATTTGGGTTTCAAGTTTGGGGTTCAA
1 GGTTCAGGATTTGGGCTTCAAGTTTGGGGTTCAA
24822004 GGTTCAGG-TTTGGGCTTCAAGGGTTT-GGGTTCAA
1 GGTTCAGGATTTGGGCTTCAA--GTTTGGGGTTCAA
24822038 GGTT
1 GGTT
24822042 TATGGGTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 11 0.32
34 19 0.56
35 4 0.12
ACGTcount: A:0.15, C:0.08, G:0.39, T:0.38
Consensus pattern (34 bp):
GGTTCAGGATTTGGGCTTCAAGTTTGGGGTTCAA
Found at i:24822789 original size:60 final size:61
Alignment explanation
Indices: 24822712--24822838 Score: 154
Period size: 60 Copynumber: 2.1 Consensus size: 61
24822702 TTTGTTTTAA
* * *
24822712 TAAAAAATTCAACAAATTT-AGCCTTT-AATATTTACAAAATTTATTATTTTAGTT-TGAATTC
1 TAAAAAATTCAACAAATTTAAG--TTTCAACATTTACAAAATATATTAATTTAGTTCT-AATTC
* *
24822773 TAAAAAA-TCAATAAATTTAAGTTTCAACATTTACAAAATATGTTAATTTAGTTCTAATTC
1 TAAAAAATTCAACAAATTTAAGTTTCAACATTTACAAAATATATTAATTTAGTTCTAATTC
24822833 TAAAAA
1 TAAAAA
24822839 TTTAAAAGAA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
59 3 0.05
60 45 0.78
61 10 0.17
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (61 bp):
TAAAAAATTCAACAAATTTAAGTTTCAACATTTACAAAATATATTAATTTAGTTCTAATTC
Found at i:24827847 original size:28 final size:28
Alignment explanation
Indices: 24827816--24827883 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
24827806 GACAATAGCT
* *
24827816 TGCTGCTGCATTCTTGTGGACATGTGCA
1 TGCTGCTGCATTCTTGTGAACATGTACA
* *
24827844 TGCTGCTCCATTCTTGTGAACATTTACA
1 TGCTGCTGCATTCTTGTGAACATGTACA
*
24827872 CGCTGCTGCATT
1 TGCTGCTGCATT
24827884 GTTGACAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (28 bp):
TGCTGCTGCATTCTTGTGAACATGTACA
Found at i:24832275 original size:28 final size:28
Alignment explanation
Indices: 24832255--24832312 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
24832245 ATTTTTTTGG
*
24832255 ACATGTGCATGTTGCTCCATTCTTGTGA
1 ACATGTACATGTTGCTCCATTCTTGTGA
* * * *
24832283 ACATTTACATGTTGCTGCATTGTTGAGA
1 ACATGTACATGTTGCTCCATTCTTGTGA
24832311 AC
1 AC
24832313 TTTCAACAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (28 bp):
ACATGTACATGTTGCTCCATTCTTGTGA
Found at i:24842070 original size:24 final size:25
Alignment explanation
Indices: 24842006--24842088 Score: 77
Period size: 24 Copynumber: 3.4 Consensus size: 25
24841996 CTAATATATT
24842006 AGCTC-ATAAGAGCTTACTGTTCTC
1 AGCTCGATAAGAGCTTACTGTTCTC
* * *
24842030 AGCTCG-TCAGGGTTTACTGTT-TCC
1 AGCTCGATAAGAGCTTACTGTTCT-C
*
24842054 AGCTCGAT-AGAGCTTACTGATCATC
1 AGCTCGATAAGAGCTTACTGTTC-TC
24842079 AGCTC-ATAAG
1 AGCTCGATAAG
24842089 GAGTTTATCA
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
23 1 0.02
24 36 0.77
25 9 0.19
26 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (25 bp):
AGCTCGATAAGAGCTTACTGTTCTC
Found at i:24851129 original size:16 final size:16
Alignment explanation
Indices: 24851101--24851141 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
24851091 TACTTAAGTT
24851101 TAATAATCCTATAATA
1 TAATAATCCTATAATA
* *
24851117 TACTAATCTTATAATA
1 TAATAATCCTATAATA
24851133 TAATAATCC
1 TAATAATCC
24851142 AATGGCCATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATAATCCTATAATA
Found at i:24860456 original size:30 final size:30
Alignment explanation
Indices: 24860422--24860484 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
24860412 TGAACAAACT
*
24860422 ACTTTTAATTGAAATTTTTAATTTTTTAAA
1 ACTTTTAATTGAAATTTTTAACTTTTTAAA
24860452 ACTTTTAATTGAAATTTTTAACTTTTTAAA
1 ACTTTTAATTGAAATTTTTAACTTTTTAAA
24860482 ACT
1 ACT
24860485 GCTTTTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (30 bp):
ACTTTTAATTGAAATTTTTAACTTTTTAAA
Found at i:24866239 original size:27 final size:26
Alignment explanation
Indices: 24866174--24866227 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 26
24866164 ATGCTCCAAT
24866174 AAGC-CACTATCATTAAATTGCACTG
1 AAGCACACTATCATTAAATTGCACTG
*
24866199 AAGCACTACTATCATTTAATTGCACTG
1 AAGCAC-ACTATCATTAAATTGCACTG
24866226 AA
1 AA
24866228 ATGTCACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 4 0.15
26 1 0.04
27 21 0.81
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (26 bp):
AAGCACACTATCATTAAATTGCACTG
Found at i:24867759 original size:23 final size:22
Alignment explanation
Indices: 24867733--24867776 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
24867723 ATGACATTTT
24867733 CTTCGTATAATTCACTTTTAATC
1 CTTCGTAT-ATTCACTTTTAATC
* * *
24867756 CTTCTTCTATTTACTTTTAAT
1 CTTCGTATATTCACTTTTAAT
24867777 TCAATTTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.23, C:0.20, G:0.02, T:0.55
Consensus pattern (22 bp):
CTTCGTATATTCACTTTTAATC
Found at i:24868355 original size:16 final size:17
Alignment explanation
Indices: 24868341--24868372 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24868331 ACTAAGTTAT
24868341 AACTAATTAAAGTTAAC
1 AACTAATTAAAGTTAAC
24868358 AACTAATTAAA-TTAA
1 AACTAATTAAAGTTAA
24868373 TTAAAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.31
Consensus pattern (17 bp):
AACTAATTAAAGTTAAC
Found at i:24874828 original size:44 final size:41
Alignment explanation
Indices: 24874731--24874829 Score: 112
Period size: 40 Copynumber: 2.4 Consensus size: 41
24874721 GAATGGTATT
* *
24874731 TGGCACTAAGTGTGCGATTCAAAATAGCTTCGGCTATCTGA
1 TGGCACTAAGTGTGCGATCCAAAATAGCTTCAGCTATCTGA
* *
24874772 -GGCACTAAGTGTGCGATACCAAGATAGCTTCAGTTAAT-TGAAA
1 TGGCACTAAGTGTGCGAT-CCAAAATAGCTTCAGCT-ATCTG--A
24874815 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
24874830 AAAATATTTC
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
40 17 0.35
41 15 0.31
42 2 0.04
43 1 0.02
44 14 0.29
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGATCCAAAATAGCTTCAGCTATCTGA
Found at i:24876281 original size:39 final size:39
Alignment explanation
Indices: 24876212--24876291 Score: 97
Period size: 39 Copynumber: 2.1 Consensus size: 39
24876202 AACATGTTTT
* ** *
24876212 TGAGTATTGCGATGTACACTTGAATGTTATGCGATTATA
1 TGAGTATTGCGATATACACTTGAACATTATGCAATTATA
* * *
24876251 TGAGTATTGCTATATACGCTTGAACATTATGTAATTATA
1 TGAGTATTGCGATATACACTTGAACATTATGCAATTATA
24876290 TG
1 TG
24876292 CTTAAAAGTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (39 bp):
TGAGTATTGCGATATACACTTGAACATTATGCAATTATA
Found at i:24880231 original size:21 final size:21
Alignment explanation
Indices: 24880207--24880246 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
24880197 TTGAATTGGG
24880207 AACCAGTGG-TCTGATTATTGC
1 AACCAGTGGTTC-GATTATTGC
*
24880228 AACCATTGGTTCGATTATT
1 AACCAGTGGTTCGATTATT
24880247 AGAATACTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (21 bp):
AACCAGTGGTTCGATTATTGC
Found at i:24880459 original size:21 final size:22
Alignment explanation
Indices: 24880433--24880478 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
24880423 AAAGTGGATA
*
24880433 AAAAAAGTACAATTATCAAA-T
1 AAAAAAGTACAATTACCAAACT
*
24880454 AAAAAAGTACAGTTACCAAACT
1 AAAAAAGTACAATTACCAAACT
24880476 AAA
1 AAA
24880479 CCTAGCTGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.61, C:0.13, G:0.07, T:0.20
Consensus pattern (22 bp):
AAAAAAGTACAATTACCAAACT
Found at i:24886601 original size:16 final size:16
Alignment explanation
Indices: 24886582--24886616 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
24886572 ATTTATAAAA
24886582 ATAAAAAT-TATTTAAT
1 ATAAAAATAT-TTTAAT
24886598 ATAAAAATATTTTAAT
1 ATAAAAATATTTTAAT
24886614 ATA
1 ATA
24886617 TTTTAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.94
17 1 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATAAAAATATTTTAAT
Found at i:24887024 original size:19 final size:21
Alignment explanation
Indices: 24887002--24887040 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
24886992 GCTTCAATTT
*
24887002 TTTTAA-AT-TATAATATATC
1 TTTTAACATATATAAAATATC
24887021 TTTTAACATATATAAAATAT
1 TTTTAACATATATAAAATAT
24887041 GCAATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 2 0.12
21 9 0.53
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTAACATATATAAAATATC
Found at i:24890604 original size:39 final size:39
Alignment explanation
Indices: 24890552--24890629 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
24890542 CGAGTTTAAT
24890552 TTTCTTTCTGGGAATTGAATAATTAATATCAGAAGAGAA
1 TTTCTTTCTGGGAATTGAATAATTAATATCAGAAGAGAA
24890591 TTTCTTTCTGGGAATTGAATAATTAATATCAGAAGAGAA
1 TTTCTTTCTGGGAATTGAATAATTAATATCAGAAGAGAA
24890630 AGACCAACCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (39 bp):
TTTCTTTCTGGGAATTGAATAATTAATATCAGAAGAGAA
Found at i:24901666 original size:13 final size:14
Alignment explanation
Indices: 24901634--24901668 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
24901624 TTCCTTTCAA
24901634 AAAATTATTATTATT
1 AAAATT-TTATTATT
24901649 AAAATTTTATTA-T
1 AAAATTTTATTATT
24901662 AAAATTT
1 AAAATTT
24901669 AAAAGAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.40
14 6 0.30
15 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
AAAATTTTATTATT
Found at i:24907106 original size:20 final size:20
Alignment explanation
Indices: 24907085--24907137 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
24907075 TCTTTCTATA
24907085 AAAAT-ATGATGAACAAATT
1 AAAATAATGATGAACAAATT
24907104 AAAATAATGATGAACAAATT
1 AAAATAATGATGAACAAATT
24907124 AAAATAATGATGAA
1 AAAATAATGATGAA
24907138 AATATGTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 5 0.15
20 28 0.85
ACGTcount: A:0.60, C:0.04, G:0.11, T:0.25
Consensus pattern (20 bp):
AAAATAATGATGAACAAATT
Found at i:24912042 original size:43 final size:43
Alignment explanation
Indices: 24911886--24912047 Score: 182
Period size: 43 Copynumber: 3.8 Consensus size: 43
24911876 CAAAGTCTGC
* *** * *
24911886 TATAAATTTTGCTTGTGTATAGTATTTAACAATGGGCGAGTTG
1 TATAAAGTTTGCTTGTGTATAGTATTCGCCAATAGGAGAGTTG
* * *
24911929 TATAAAGTTTGCTTGTGTATAGTATTCACCACTAGGTGAGTTG
1 TATAAAGTTTGCTTGTGTATAGTATTCGCCAATAGGAGAGTTG
* * *
24911972 TATAAAGTTTGCTTATGTATAATATTCGTCAATAGGAGAGTTG
1 TATAAAGTTTGCTTGTGTATAGTATTCGCCAATAGGAGAGTTG
* *
24912015 TATGAAGTCTT-CTTGTGTATTGTATTCGCCAAT
1 TATAAAGT-TTGCTTGTGTATAGTATTCGCCAAT
24912048 GGGCGAACTA
Statistics
Matches: 101, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 99 0.98
44 2 0.02
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (43 bp):
TATAAAGTTTGCTTGTGTATAGTATTCGCCAATAGGAGAGTTG
Found at i:24913426 original size:24 final size:24
Alignment explanation
Indices: 24913365--24913410 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
24913355 CAGTTTGAAA
* *
24913365 GAGCGTCCCGTTATTAGCTCTCAT
1 GAGCATCCCGTTATTAGCCCTCAT
24913389 GAGCATCCCGTTATTAGCCCTC
1 GAGCATCCCGTTATTAGCCCTC
24913411 TCGAGCTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.17, C:0.33, G:0.20, T:0.30
Consensus pattern (24 bp):
GAGCATCCCGTTATTAGCCCTCAT
Found at i:24913589 original size:26 final size:26
Alignment explanation
Indices: 24913541--24913591 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
24913531 ATGGCTTTTT
* *
24913541 GTGAGCTTCTCGATTAAAGGCTCTTA
1 GTGAGCTTCTCGATCAAACGCTCTTA
* *
24913567 GTGAGCTTCTTGATCAATCGCTCTT
1 GTGAGCTTCTCGATCAAACGCTCTT
24913592 CAGAGCTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTGAGCTTCTCGATCAAACGCTCTTA
Found at i:24915164 original size:26 final size:26
Alignment explanation
Indices: 24915128--24915187 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
24915118 CATACCCCAG
24915128 TAAAATTTTGACAATTTTA-CTCCCGA
1 TAAAATTTTGACAATTTTACCT-CCGA
**
24915154 TAAAATTTTGATGATTTTACCTCCGA
1 TAAAATTTTGACAATTTTACCTCCGA
24915180 TAAAATTT
1 TAAAATTT
24915188 CGAGAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 29 0.94
27 2 0.06
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (26 bp):
TAAAATTTTGACAATTTTACCTCCGA
Found at i:24918008 original size:47 final size:47
Alignment explanation
Indices: 24917939--24918147 Score: 208
Period size: 47 Copynumber: 4.5 Consensus size: 47
24917929 ATTGACGGAA
* * * *
24917939 AAGACCATGGTTGGGCCATGGCAAC-ATGTGATATGTGATTTCCGTAT
1 AAGACCATAGCTGGGCTATGGCATCGATGTGATATGTGATTT-CGTAT
* * *
24917986 AAGACCATAGCTGGGCTATGGCATCGGTGTGATATGAGCTTTCGTAT
1 AAGACCATAGCTGGGCTATGGCATCGATGTGATATGTGATTTCGTAT
* * * * * * *
24918033 AGGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTTTTGTGT
1 AAGACCATAGCTGGGCTATGGCATCGATGTGATATGTGATTTCGTAT
* * *
24918080 AAGACCATATCTGGGATATGGCATC-AGTGTGATATGTGA-TTCGTGT
1 AAGACCATAGCTGGGCTATGGCATCGA-TGTGATATGTGATTTCGTAT
* *
24918126 AAGACCGTGGCTGGGCTATGGC
1 AAGACCATAGCTGGGCTATGGC
24918148 TTTAGTGTGT
Statistics
Matches: 139, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
46 24 0.17
47 102 0.73
48 13 0.09
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.31
Consensus pattern (47 bp):
AAGACCATAGCTGGGCTATGGCATCGATGTGATATGTGATTTCGTAT
Found at i:24925665 original size:30 final size:30
Alignment explanation
Indices: 24925629--24925688 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
24925619 TTCCCGAGCC
24925629 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
* *
24925659 TAGGGGCAAAAGTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
24925689 AGTATTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATGCAAAAGTT
Done.