Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 82 of 316
Found at i:24629696 original size:56 final size:55
Alignment explanation
Indices: 24629595--24629703 Score: 139
Period size: 56 Copynumber: 2.0 Consensus size: 55
24629585 ATCTACAAAC
* *
24629595 CAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCAGTAACTTTGTAAACCAAGGGTATTTCTATAA-TTTTAGAAAGT
* * * *
24629651 CAAGGGTATTTCTGTAACTTTGTAAATCAGGGGTATTT-TGGTAATTTTAGAAA
1 CAAGGGTATTTCAGTAACTTTGTAAACCAAGGGTATTTCT-ATAATTTTAGAAA
24629704 TTGAGGGTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
55 10 0.22
56 36 0.78
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.40
Consensus pattern (55 bp):
CAAGGGTATTTCAGTAACTTTGTAAACCAAGGGTATTTCTATAATTTTAGAAAGT
Found at i:24629704 original size:27 final size:27
Alignment explanation
Indices: 24629588--24629861 Score: 146
Period size: 27 Copynumber: 10.1 Consensus size: 27
24629578 TTGGTAAATC
* * *
24629588 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAATCAGGGGTATTTCGGTAATTT
** * ** **
24629615 TGTAAACCAATGGTATTTCTATAATTTT
1 TACAAATCAGGGGTATTTCGGTAA-TTT
* * * *
24629643 TAGAAAGTCAAGGGTATTTCTGTAACTT
1 TACAAA-TCAGGGGTATTTCGGTAATTT
** *
24629671 TGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAATCAGGGGTATTTCGGTAATTT
* * * *
24629698 TAGAAAT-TGAGGGTATTGCGATAATTT
1 TACAAATCAG-GGGTATTTCGGTAATTT
* * *
24629725 CACAAA-CTAGTGGTATTTTGGTAATTT
1 TACAAATC-AGGGGTATTTCGGTAATTT
* *
24629752 TACAAA-CTGGGGGTATTTTGGTAATTT
1 TACAAATC-AGGGGTATTTCGGTAATTT
* * *
24629779 TACAAGTC-GAAGGTATTTCAGTAATTT
1 TACAAATCAG-GGGTATTTCGGTAATTT
* *
24629806 TACAAATC-GAGGGTATTTCAGTATTTT
1 TACAAATCAG-GGGTATTTCGGTAATTT
*
24629833 TACAAA-CTAAGGGTATTTCGGTAATTT
1 TACAAATC-AGGGGTATTTCGGTAATTT
24629860 TA
1 TA
24629862 GTAAACTAAA
Statistics
Matches: 195, Mismatches: 43, Indels: 18
0.76 0.17 0.07
Matches are distributed among these distances:
26 3 0.02
27 162 0.83
28 15 0.08
29 15 0.08
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
TACAAATCAGGGGTATTTCGGTAATTT
Found at i:24629741 original size:54 final size:53
Alignment explanation
Indices: 24629681--24629861 Score: 184
Period size: 54 Copynumber: 3.4 Consensus size: 53
24629671 TGTAAATCAG
* * * *
24629681 GGGTATTTTGGTAATTTTAGAAATTGAGGGTATTGCGATAATTTCACAAACTA
1 GGGTATTTCGGTAATTTTACAAATTGAGGGTATTTCGATAATTTTACAAACTA
* * * * * * *
24629734 GTGGTATTTTGGTAATTTTACAAACTGGGGGTATTTTGGTAATTTTACAAGTCGA
1 G-GGTATTTCGGTAATTTTACAAATTGAGGGTATTTCGATAATTTTACAA-ACTA
* * * *
24629789 AGGTATTTCAGTAATTTTACAAATCGAGGGTATTTC-AGTATTTTTACAAACTAA
1 GGGTATTTCGGTAATTTTACAAATTGAGGGTATTTCGA-TAATTTTACAAACT-A
24629843 GGGTATTTCGGTAATTTTA
1 GGGTATTTCGGTAATTTTA
24629862 GTAAACTAAA
Statistics
Matches: 102, Mismatches: 22, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
53 2 0.02
54 98 0.96
55 2 0.02
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (53 bp):
GGGTATTTCGGTAATTTTACAAATTGAGGGTATTTCGATAATTTTACAAACTA
Found at i:24629774 original size:81 final size:81
Alignment explanation
Indices: 24629653--24629862 Score: 221
Period size: 81 Copynumber: 2.6 Consensus size: 81
24629643 TAGAAAGTCA
* * * *
24629653 AGGGTATTTCTGTAACTTTGTA-AATC-AGGGGTATTTTGGTAATTTTAGAAATTGAGGGTATTG
1 AGGGTATTTCAGTAA-TTT-TACAAACTAGGGGTATTTTGGTAATTTTAGAAATCGAAGGTATTG
*
24629716 C-GATAATTTCACAAA-CT
64 CAG-TAATTTCACAAATCG
** * * * *
24629733 AGTGGTATTTTGGTAATTTTACAAACTGGGGGTATTTTGGTAATTTTACAAGTCGAAGGTATTTC
1 AG-GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTAGAAATCGAAGGTATTGC
*
24629798 AGTAATTTTACAAATCG
65 AGTAATTTCACAAATCG
* * *
24629815 AGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTAG
1 AGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTAG
24629863 TAAACTAAAG
Statistics
Matches: 107, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
79 2 0.02
80 8 0.07
81 93 0.87
82 4 0.04
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.40
Consensus pattern (81 bp):
AGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTAGAAATCGAAGGTATTGCA
GTAATTTCACAAATCG
Found at i:24629876 original size:81 final size:81
Alignment explanation
Indices: 24629588--24629876 Score: 207
Period size: 81 Copynumber: 3.5 Consensus size: 81
24629578 TTGGTAAATC
* * * *
24629588 TACAAACCAAGGGTATTTCAGTAATTTT-GTAAACCAATGGTATTTCTA-TAATTTTTAGAAAGT
1 TACAAACTAAGGGTATTTCGGTAATTTTAGTAAACTAA-GGTATTTC-AGTAA-TTTTACAAA-T
* *
24629651 CAAGGGTATTTCTGTAACTTTG
62 CAAGGGTATTTCAGT-A-TTTT
* * * * * * * *
24629673 TA-AATC-AGGGGTATTTTGGTAATTTTAG-AAATTGAGGGTATTGC-GATAATTTCACAAA-CT
1 TACAAACTAAGGGTATTTCGGTAATTTTAGTAAACT-AAGGTATTTCAG-TAATTTTACAAATCA
** *
24629733 AGTGGTATTTTGGTAATTT
64 AG-GGTATTTCAGTATTTT
** * * * * *
24629752 TACAAACTGGGGGTATTTTGGTAATTTTA-CAAGTCGAAGGTATTTCAGTAATTTTACAAATCGA
1 TACAAACTAAGGGTATTTCGGTAATTTTAGTAA-ACTAAGGTATTTCAGTAATTTTACAAATCAA
24629816 GGGTATTTCAGTATTTT
65 GGGTATTTCAGTATTTT
*
24629833 TACAAACTAAGGGTATTTCGGTAATTTTAGTAAACTAAAGTATT
1 TACAAACTAAGGGTATTTCGGTAATTTTAGTAAACTAAGGTATT
24629877 CTAAACAGGG
Statistics
Matches: 158, Mismatches: 34, Indels: 28
0.72 0.15 0.13
Matches are distributed among these distances:
79 4 0.03
80 7 0.04
81 97 0.61
82 13 0.08
83 30 0.19
84 5 0.03
85 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (81 bp):
TACAAACTAAGGGTATTTCGGTAATTTTAGTAAACTAAGGTATTTCAGTAATTTTACAAATCAAG
GGTATTTCAGTATTTT
Found at i:24631772 original size:25 final size:25
Alignment explanation
Indices: 24631736--24631837 Score: 63
Period size: 24 Copynumber: 4.2 Consensus size: 25
24631726 CATCGTATTC
* * *
24631736 GCTCTTTCGAGCT-ATGATCGGTAA
1 GCTCCTTCGAGCTGATGAACAGTAA
24631760 GCTCCTTCTGAGCTGATGAACAGTAA
1 GCTCCTTC-GAGCTGATGAACAGTAA
* *
24631786 GCT-TTATCAAGCT-A-GAAACAGTAA
1 GCTCCT-TCGAGCTGATG-AACAGTAA
* *
24631810 GCT-CTGACGAGCTGA-GAATAGTAA
1 GCTCCT-TCGAGCTGATGAACAGTAA
24631834 GCTC
1 GCTC
24631838 TTATGAGTTG
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
23 1 0.02
24 35 0.56
25 12 0.19
26 14 0.23
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (25 bp):
GCTCCTTCGAGCTGATGAACAGTAA
Found at i:24631822 original size:24 final size:25
Alignment explanation
Indices: 24631770--24631838 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 25
24631760 GCTCCTTCTG
*
24631770 AGCTGATGAACAGTAAGCT-TTATCA
1 AGCTGA-GAACAGTAAGCTCTGATCA
*
24631795 AGCT-AGAAACAGTAAGCTCTGA-CG
1 AGCTGAG-AACAGTAAGCTCTGATCA
*
24631819 AGCTGAGAATAGTAAGCTCT
1 AGCTGAGAACAGTAAGCTCT
24631839 TATGAGTTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.03
24 29 0.76
25 8 0.21
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (25 bp):
AGCTGAGAACAGTAAGCTCTGATCA
Found at i:24657045 original size:39 final size:39
Alignment explanation
Indices: 24656928--24657137 Score: 298
Period size: 39 Copynumber: 5.3 Consensus size: 39
24656918 GCTCCTCGTT
* * *
24656928 CAAATGCCTTCGAGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCG-GGCTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
24656968 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
24657008 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
24657047 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
24657086 CAAATGCTTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
24657125 CAAATGCCTTCGG
1 CAAATGCCTTCGG
24657138 ATCTTAGTCC
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 112 0.72
40 42 0.27
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:24657176 original size:78 final size:79
Alignment explanation
Indices: 24656928--24657185 Score: 291
Period size: 78 Copynumber: 3.3 Consensus size: 79
24656918 GCTCCTCGTT
* * * *
24656928 CAAATGCCTTCGAGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCG-GGCTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGACTTAGCCC
*
24656991 GGAT-TTGGTAAC-TCGCA
62 GGATATTAGT-ACTTCGCA
*
24657008 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGA-
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGACTTAGCCCGGAT
24657072 ATTAGTA-TCTCGCA
66 ATTAGTACT-TCGCA
* *
24657086 CAAATGCTTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGA-CTTAGCCCGGA
*
24657151 TATT-GTCACTTAGCA
65 TATTAGT-ACTTCGCA
24657166 C-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGG-CTTAGCC
24657186 TGGACATCAT
Statistics
Matches: 157, Mismatches: 11, Indels: 21
0.83 0.06 0.11
Matches are distributed among these distances:
77 1 0.01
78 82 0.52
79 51 0.32
80 22 0.14
81 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGACTTAGCCCGGAT
ATTAGTACTTCGCA
Found at i:24659367 original size:14 final size:14
Alignment explanation
Indices: 24659348--24659377 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
24659338 AGATAAATAT
24659348 TAAATTTAATTTAA
1 TAAATTTAATTTAA
24659362 TAAATTTAATTTAA
1 TAAATTTAATTTAA
24659376 TA
1 TA
24659378 TTAAGATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAAATTTAATTTAA
Found at i:24689006 original size:30 final size:30
Alignment explanation
Indices: 24688970--24689031 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
24688960 TACAAAACCA
24688970 TCTAAATCTTTATGTAGAATTTGAAAATTT
1 TCTAAATCTTTATGTAGAATTTGAAAATTT
24689000 TCTAAATCTTTATGTAGAATTTGAAAATTT
1 TCTAAATCTTTATGTAGAATTTGAAAATTT
24689030 TC
1 TC
24689032 ATTAGGTGGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.47
Consensus pattern (30 bp):
TCTAAATCTTTATGTAGAATTTGAAAATTT
Found at i:24702761 original size:38 final size:38
Alignment explanation
Indices: 24702710--24702782 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
24702700 ATAGAAGTTT
24702710 AGAAAGGAGTGGATGATGTTGAAAGTAAATAGGTACTC
1 AGAAAGGAGTGGATGATGTTGAAAGTAAATAGGTACTC
24702748 AGAAAGGAGTGGATGATGTTGAAAGTAAATAGGTA
1 AGAAAGGAGTGGATGATGTTGAAAGTAAATAGGTA
24702783 TCATACATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.41, C:0.03, G:0.33, T:0.23
Consensus pattern (38 bp):
AGAAAGGAGTGGATGATGTTGAAAGTAAATAGGTACTC
Found at i:24708853 original size:46 final size:45
Alignment explanation
Indices: 24708786--24708958 Score: 204
Period size: 46 Copynumber: 3.8 Consensus size: 45
24708776 AACCCGCCCC
* *
24708786 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGACGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCG-ATCCA
* * * * *
24708832 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGATCCA
* * *
24708878 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGAATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCG-ATCCA
24708925 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
24708959 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
45 2 0.02
46 67 0.64
47 34 0.32
48 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGATCCA
Found at i:24708905 original size:93 final size:93
Alignment explanation
Indices: 24708791--24708961 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
24708781 GCCCCTAAGT
* *
24708791 GAACTCGGACTCAACTCAACGAGCTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
24708856 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
24708884 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
24708949 CGAGTTCGGATGC
66 CGAGTTCGGATGC
24708962 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:24726727 original size:46 final size:46
Alignment explanation
Indices: 24726557--24726729 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
24726547 AACCCGCCCC
* * * * *
24726557 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGACGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCTA
* * * *
24726603 TAAGTGAACTCGGACTCAACTCAACGAGTT-TGA-ATGCCTAGTTACATT
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTA--T-C-TA
* *
24726651 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCTA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCTA
24726696 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
24726730 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
44 3 0.03
45 5 0.05
46 60 0.58
47 27 0.26
48 4 0.04
49 5 0.05
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCTA
Found at i:24731269 original size:18 final size:18
Alignment explanation
Indices: 24731236--24731347 Score: 107
Period size: 18 Copynumber: 6.2 Consensus size: 18
24731226 AGTTTCATTT
*
24731236 AGTAACATTCAATTATTC
1 AGTAACAATCAATTATTC
* * *
24731254 AGTAGCAATTAGTTATTC
1 AGTAACAATCAATTATTC
* **
24731272 AGTAACAATCATTTGCTC
1 AGTAACAATCAATTATTC
* *
24731290 AGTAGCAATCAATTATTT
1 AGTAACAATCAATTATTC
*
24731308 AGTAACGATCAATTATTC
1 AGTAACAATCAATTATTC
* * *
24731326 AGTAACATTCAGTCATTC
1 AGTAACAATCAATTATTC
24731344 AGTA
1 AGTA
24731348 CTTTTATTTA
Statistics
Matches: 73, Mismatches: 21, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 73 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (18 bp):
AGTAACAATCAATTATTC
Found at i:24731561 original size:44 final size:44
Alignment explanation
Indices: 24731510--24731601 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
24731500 CTGGAGTAAC
*
24731510 AGTAACAGTACAACACACA-AGGTGCCTCATCGACTTAAAGTCGA
1 AGTAACAGTACAACACACATA-GTGCCTCATCGACTCAAAGTCGA
* ** *
24731554 AGTAACAGTACGACACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACAACACACATAGTGCCTCATCGACTCAAAGTCGA
24731598 AGTA
1 AGTA
24731602 TCCCTGAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 41 0.98
45 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACAACACACATAGTGCCTCATCGACTCAAAGTCGA
Found at i:24738493 original size:3 final size:3
Alignment explanation
Indices: 24738485--24738520 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
24738475 TGTATATTAA
24738485 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT AT
24738521 GGTTTTTACA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:24738560 original size:25 final size:25
Alignment explanation
Indices: 24738489--24738560 Score: 58
Period size: 25 Copynumber: 2.9 Consensus size: 25
24738479 TATTAAATTA
* * * *
24738489 TTATTATTATTATTATTATTATTAT
1 TTATTAATGTTATTTTTATTAATAT
**
24738514 TTATT-ATGGTT-TTTACATTTAATAT
1 TTATTAAT-GTTATTTTTA-TTAATAT
24738539 TTATTAATGTTATTTTTATTAA
1 TTATTAATGTTATTTTTATTAA
24738561 ATTGATATTT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
24 4 0.11
25 25 0.71
26 6 0.17
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (25 bp):
TTATTAATGTTATTTTTATTAATAT
Found at i:24738820 original size:15 final size:15
Alignment explanation
Indices: 24738797--24738829 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
24738787 GGGAAGGAAA
*
24738797 GAAGGAAAAAAAAGG
1 GAAGAAAAAAAAAGG
24738812 GAAGAAAAAAAAAGG
1 GAAGAAAAAAAAAGG
24738827 GAA
1 GAA
24738830 AATTGGGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (15 bp):
GAAGAAAAAAAAAGG
Found at i:24740538 original size:45 final size:45
Alignment explanation
Indices: 24740485--24740593 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
24740475 CGACTACTGT
* * * * *
24740485 TACTGTTACCGTTATTGTTACCGATTCGGCATTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTATGTCGAA
* ** * *
24740530 TACTGTTACTGTTACCGTTATTGATTTAGCACTTTGTATGTTGAA
1 TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTATGTCGAA
24740575 TACTGTTACTGTTACTGTT
1 TACTGTTACTGTTACTGTT
24740594 CCGGATTTGT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.46
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCGATTCAGCACTTTGTATGTCGAA
Found at i:24740797 original size:18 final size:18
Alignment explanation
Indices: 24740776--24740826 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
24740766 TTATTACTGA
24740776 ATAATTGACTGTTACCGG
1 ATAATTGACTGTTACCGG
**
24740794 ATAATTGACTGTTAATGG
1 ATAATTGACTGTTACCGG
24740812 AT-ATTAGACTGTTAC
1 ATAATT-GACTGTTAC
24740827 TGAATAACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 3 0.10
18 26 0.90
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (18 bp):
ATAATTGACTGTTACCGG
Found at i:24740844 original size:18 final size:18
Alignment explanation
Indices: 24740821--24740960 Score: 88
Period size: 18 Copynumber: 7.8 Consensus size: 18
24740811 GATATTAGAC
24740821 TGTTACTGAATAACTGAA
1 TGTTACTGAATAACTGAA
* *
24740839 TATTACTGAATAATTG-A
1 TGTTACTGAATAACTGAA
* ** *
24740856 TCATTAGAGAATAACTGAT
1 T-GTTACTGAATAACTGAA
** *
24740875 TGTCGCTGAATGAA-TGAC
1 TGTTACTGAAT-AACTGAA
*
24740893 TGTTACTGAATAACTTAA
1 TGTTACTGAATAACTGAA
*
24740911 TTGTTACTGAATATCTG-A
1 -TGTTACTGAATAACTGAA
* * * *
24740929 TTTTACTGAATAATTTAC
1 TGTTACTGAATAACTGAA
*
24740947 TGTTACTGGATAAC
1 TGTTACTGAATAAC
24740961 CGATCAATTG
Statistics
Matches: 90, Mismatches: 26, Indels: 12
0.70 0.20 0.09
Matches are distributed among these distances:
17 16 0.18
18 57 0.63
19 17 0.19
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (18 bp):
TGTTACTGAATAACTGAA
Found at i:24741002 original size:18 final size:18
Alignment explanation
Indices: 24740976--24741039 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
24740966 AATTGAGCGA
* *
24740976 TACTAAATAATTGGTTAT
1 TACTGAATAATTGGTTGT
* *
24740994 TATTGAATAATTGATTGT
1 TACTGAATAATTGGTTGT
* *
24741012 TACCGAATAATTGGCTGT
1 TACTGAATAATTGGTTGT
24741030 TACTGAATAA
1 TACTGAATAA
24741040 ATAATTGTTC
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.41
Consensus pattern (18 bp):
TACTGAATAATTGGTTGT
Found at i:24742670 original size:6 final size:6
Alignment explanation
Indices: 24742634--24742683 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
24742624 AGTCTTCAAA
* * * *
24742634 AAAAAT AAAATT AAAATT AAAAAT AATAAT AAAAAT AATAAT -AAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
24742681 AAA
1 AAA
24742684 TAAACTCAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
5 4 0.11
6 33 0.89
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (6 bp):
AAAAAT
Found at i:24749700 original size:18 final size:18
Alignment explanation
Indices: 24749656--24749765 Score: 94
Period size: 18 Copynumber: 6.1 Consensus size: 18
24749646 AGTTTCATTT
* *
24749656 AGTAACATTCAATTATTC
1 AGTAACAATCAGTTATTC
* * *
24749674 AATAGCAATTAGTTATTC
1 AGTAACAATCAGTTATTC
* **
24749692 AGTAACAATCATTTGCTC
1 AGTAACAATCAGTTATTC
*
24749710 AGTAGCAATCAGTTATTC
1 AGTAACAATCAGTTATTC
* * *
24749728 AGTAACGATCAATTATCC
1 AGTAACAATCAGTTATTC
* *
24749746 AGTAACAGTCAGTCATTC
1 AGTAACAATCAGTTATTC
24749764 AG
1 AG
24749766 ACTTTTATTT
Statistics
Matches: 68, Mismatches: 24, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (18 bp):
AGTAACAATCAGTTATTC
Found at i:24749749 original size:36 final size:35
Alignment explanation
Indices: 24749656--24749765 Score: 107
Period size: 36 Copynumber: 3.1 Consensus size: 35
24749646 AGTTTCATTT
* * *
24749656 AGTAACATTCAATTATTCAATAGCAATTAGTTATTC
1 AGTAACA-TCAATTATCCAGTAGCAATCAGTTATTC
24749692 AGTAACAATC-ATT-TGCTCAGTAGCAATCAGTTATTC
1 AGTAAC-ATCAATTAT-C-CAGTAGCAATCAGTTATTC
* * *
24749728 AGTAACGATCAATTATCCAGTAACAGTCAGTCATTC
1 AGTAAC-ATCAATTATCCAGTAGCAATCAGTTATTC
24749764 AG
1 AG
24749766 ACTTTTATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
34 1 0.02
35 3 0.05
36 52 0.84
37 5 0.08
38 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (35 bp):
AGTAACATCAATTATCCAGTAGCAATCAGTTATTC
Found at i:24750775 original size:16 final size:18
Alignment explanation
Indices: 24750746--24750779 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
24750736 CATTTACTTT
24750746 ATATATATTATAATAATA
1 ATATATATTATAATAATA
24750764 ATATA-ATT-TAATAATA
1 ATATATATTATAATAATA
24750780 TACTTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 3 0.19
18 5 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATATTATAATAATA
Found at i:24756808 original size:20 final size:21
Alignment explanation
Indices: 24756778--24756823 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
24756768 TAAGACATGG
*
24756778 CAGGTGGTGGTGGGCCTGCCA
1 CAGGCGGTGGTGGGCCTGCCA
24756799 -AGGCGGTGGTGGGCCTGCCA
1 CAGGCGGTGGTGGGCCTGCCA
24756819 CAGGC
1 CAGGC
24756824 TGCACTGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.11, C:0.26, G:0.48, T:0.15
Consensus pattern (21 bp):
CAGGCGGTGGTGGGCCTGCCA
Found at i:24756989 original size:3 final size:3
Alignment explanation
Indices: 24756960--24757026 Score: 50
Period size: 3 Copynumber: 23.0 Consensus size: 3
24756950 TTTCGGGTAG
* * *
24756960 GAA GAAA GAA GGA GAA GAA AAA AAA GAA G-A GAA GAA GAA -AA G-A
1 GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * *
24757003 CAA GAA GAA AAA GAA GAA GGA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA
24757027 AGAGGCGGCA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
2 5 0.10
3 42 0.84
4 3 0.06
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:24757430 original size:17 final size:17
Alignment explanation
Indices: 24757410--24757442 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
24757400 CTTAATGAAA
24757410 AAATAAAATACAAAAAG
1 AAATAAAATACAAAAAG
24757427 AAATAAAATACAAAAA
1 AAATAAAATACAAAAA
24757443 AATAACTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (17 bp):
AAATAAAATACAAAAAG
Found at i:24757635 original size:148 final size:148
Alignment explanation
Indices: 24757481--24758006 Score: 701
Period size: 148 Copynumber: 3.6 Consensus size: 148
24757471 GTGGGTTTTT
24757481 TACTAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAGAAT-
1 TACTAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAGAATA
*
24757545 AAAAAATACAAA-AAATGGCCAAAATCAGGATTTTTTACTAAATTAATATAAAAAATACTAAAAT
65 AAAAAATACAAACAAAGGGCCAAAATCAGGATTTTTTACTAAATTAATATAAAAAA-ACTAAAAT
24757609 AATACATTTGAAACATTATG
129 AATACATTTGAAACATTATG
* *
24757629 TACTAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATTAGAGAATA
1 TACT-AAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAGAATA
* * *
24757694 AAAAAATACAAACAAAGGGCTAAAATTCAGGGTTTTTTACTAAATTAATAT-AAAAAA-TAAAGT
65 AAAAAATACAAACAAAGGGCCAAAA-TCAGGATTTTTTACTAAATTAATATAAAAAAACTAAAAT
24757757 AATACATTTGAAAC------
129 AATACATTTGAAACATTATG
* ** * * *
24757771 TA--AAATAATATAAAAACTAAAATAAAAAAAATAGTATATTTTAGAGAATAAAA-TC-CG---A
1 TACTAAATAATATAAAAAATAAAAT-ACGAAAATAGTATATTTTAAAAAATAAAATTCGAGAATA
* *
24757829 AAAAAATACAAACAAAGGGGCAAAATCAGAATTTTTTACTAAATT-ATATAAAAAAACTAAAATA
65 AAAAAATACAAACAAAGGGCCAAAATCAGGATTTTTTACTAAATTAATATAAAAAAACTAAAATA
24757893 ATACATTTGAAACATTATG
130 ATACATTTGAAACATTATG
* * *
24757912 TACTAAAGTAATATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCTAAAAT
1 TACTAAA-TAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAGAAT
24757977 AAAAAAAATACAAACAAAGGGCCAAAATCA
64 -AAAAAAATACAAACAAAGGGCCAAAATCA
24758007 CCGAACAAAA
Statistics
Matches: 328, Mismatches: 27, Indels: 44
0.82 0.07 0.11
Matches are distributed among these distances:
133 4 0.01
134 24 0.07
135 43 0.13
138 1 0.00
139 21 0.06
140 25 0.08
141 2 0.01
142 2 0.01
143 3 0.01
144 31 0.09
145 12 0.04
148 71 0.22
149 22 0.07
150 43 0.13
151 24 0.07
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (148 bp):
TACTAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAGAATAA
AAAAATACAAACAAAGGGCCAAAATCAGGATTTTTTACTAAATTAATATAAAAAAACTAAAATAA
TACATTTGAAACATTATG
Found at i:24757926 original size:283 final size:289
Alignment explanation
Indices: 24757485--24758004 Score: 817
Period size: 284 Copynumber: 1.8 Consensus size: 289
24757475 GTTTTTTACT
**
24757485 AAATAATATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAGAATAAAAA
1 AAATAATATAAAAAAATAAAATAAAAAAATAGTATATTTTAAAAAATAAAATTCGAGAATAAAAA
* *
24757550 ATACAAAAAATGGCCAAAATCAGGATTTTTTACTAAATTAATATAAAAAATACTAAAATAATACA
66 ATACAAAAAAGGGCCAAAATCAGAATTTTTTACTAAATTAATATAAAAAATACTAAAATAATACA
*
24757615 TTTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATATGAAAATAGTATATTTTAAAAAA
131 TTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAA
*
24757679 TAAAAT-TAGAGAAT-AAAAAAATACAAACAAAGGGCTAAAATTCAGGGTTTTTTACTAAATTAA
196 TAAAATCTA-A-AATAAAAAAAATACAAACAAAGGGCCAAAATTCAGGGTTTTTTACTAAATTAA
24757742 TATAAAAAATAAAGTAATACATTTGAAACTA
259 TATAAAAAATAAAGTAATACATTTGAAACTA
* * * *
24757773 AAATAATAT-AAAAACTAAAATAAAAAAAATAGTATATTTTAGAGAATAAAA-TC-CG-A-AAAA
1 AAATAATATAAAAAAATAAAAT-AAAAAAATAGTATATTTTAAAAAATAAAATTCGAGAATAAAA
*
24757833 AATACAAACAAAGGGGCAAAATCAGAATTTTTTACTAAATT-ATATAAAAAA-ACTAAAATAATA
65 AATACAAA-AAAGGGCCAAAATCAGAATTTTTTACTAAATTAATATAAAAAATACTAAAATAATA
*
24757896 CATTTGAAACATTATGTACTAAAGTAATATAAAAAAATAAAATACGAAAATAGTATATTTTAAAA
129 CATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTTAAAA
24757961 AATAAAATCCTAAAATAAAAAAAATACAAACAAAGGGCCAAAAT
194 AATAAAAT-CTAAAATAAAAAAAATACAAACAAAGGGCCAAAAT
24758005 CACCGAACAA
Statistics
Matches: 214, Mismatches: 12, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
283 41 0.19
284 66 0.31
285 57 0.27
286 3 0.01
287 13 0.06
288 34 0.16
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (289 bp):
AAATAATATAAAAAAATAAAATAAAAAAATAGTATATTTTAAAAAATAAAATTCGAGAATAAAAA
ATACAAAAAAGGGCCAAAATCAGAATTTTTTACTAAATTAATATAAAAAATACTAAAATAATACA
TTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAA
TAAAATCTAAAATAAAAAAAATACAAACAAAGGGCCAAAATTCAGGGTTTTTTACTAAATTAATA
TAAAAAATAAAGTAATACATTTGAAACTA
Found at i:24759719 original size:15 final size:15
Alignment explanation
Indices: 24759699--24759728 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24759689 TAATAAAAAG
*
24759699 GAAAAATAAAGCTAA
1 GAAAAAGAAAGCTAA
24759714 GAAAAAGAAAGCTAA
1 GAAAAAGAAAGCTAA
24759729 AATCAACCAT
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:0.67, C:0.07, G:0.17, T:0.10
Consensus pattern (15 bp):
GAAAAAGAAAGCTAA
Found at i:24773620 original size:18 final size:18
Alignment explanation
Indices: 24773599--24773637 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
24773589 CGAGCCATAA
*
24773599 CCAGATCCCAAGCCTGAG
1 CCAGAGCCCAAGCCTGAG
24773617 CCAGAGCCCAAGCCTGAG
1 CCAGAGCCCAAGCCTGAG
24773635 CCA
1 CCA
24773638 CAGTCGGAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.41, G:0.23, T:0.08
Consensus pattern (18 bp):
CCAGAGCCCAAGCCTGAG
Found at i:24774248 original size:17 final size:17
Alignment explanation
Indices: 24774228--24774276 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
24774218 CTTTAAATAC
24774228 ATTACAACATTAATCTA
1 ATTACAACATTAATCTA
*
24774245 ATTAACTACATTAATCTA
1 ATT-ACAACATTAATCTA
**
24774263 ATTGGAACATTAAT
1 ATTACAACATTAAT
24774277 TAAATACATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.37
Consensus pattern (17 bp):
ATTACAACATTAATCTA
Found at i:24778062 original size:19 final size:18
Alignment explanation
Indices: 24778040--24778078 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
24778030 AAACATAAAA
24778040 ATAACAATAAAAAAACTAT
1 ATAACAATAAAAAAA-TAT
* *
24778059 ATAATATTAAAAAAATAT
1 ATAACAATAAAAAAATAT
24778077 AT
1 AT
24778079 TTTTCTTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAACAATAAAAAAATAT
Found at i:24778402 original size:27 final size:28
Alignment explanation
Indices: 24778360--24778422 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
24778350 TATCCACCTC
24778360 TATATTTTTAT-TTTTTTCAGCTTTTAT
1 TATATTTTTATATTTTTTCAGCTTTTAT
24778387 TATATTTTTATATTTTTTCAGCTTTTAT
1 TATATTTTTATATTTTTTCAGCTTTTAT
24778415 T-T-TTTTTA
1 TATATTTTTA
24778423 CTGTTTATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
26 6 0.17
27 12 0.34
28 17 0.49
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.71
Consensus pattern (28 bp):
TATATTTTTATATTTTTTCAGCTTTTAT
Found at i:24778436 original size:19 final size:19
Alignment explanation
Indices: 24778414--24778451 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
24778404 TCAGCTTTTA
*
24778414 TTTTTTTT-ACTGTTTATG
1 TTTTTTTTAACTGATTATG
24778432 TTTTTTTTAACTGATTATG
1 TTTTTTTTAACTGATTATG
24778451 T
1 T
24778452 CAGAAACCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.16, C:0.05, G:0.11, T:0.68
Consensus pattern (19 bp):
TTTTTTTTAACTGATTATG
Found at i:24790851 original size:20 final size:20
Alignment explanation
Indices: 24790826--24790898 Score: 67
Period size: 20 Copynumber: 3.4 Consensus size: 20
24790816 ATTCCAAAAA
24790826 TAATATTATTTTAATAAATT
1 TAATATTATTTTAATAAATT
24790846 TAATATTTATCTTGTAAATAAATAT
1 TAATA-TTAT-TT-T-AATAAAT-T
* *
24790871 T-TTATTAATTTAATAAGATT
1 TAATATTATTTTAATAA-ATT
24790891 TAATATTA
1 TAATATTA
24790899 AAGTGATTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
20 12 0.28
21 12 0.28
22 4 0.09
23 4 0.09
24 9 0.21
25 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (20 bp):
TAATATTATTTTAATAAATT
Found at i:24791283 original size:20 final size:20
Alignment explanation
Indices: 24791258--24791298 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
24791248 AGATAACACG
24791258 ACCAAGATTTTGTTTTGGAA
1 ACCAAGATTTTGTTTTGGAA
* *
24791278 ACCAAGTTTTTGTTTTTGAA
1 ACCAAGATTTTGTTTTGGAA
24791298 A
1 A
24791299 ATTTTTCAAG
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:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (20 bp):
ACCAAGATTTTGTTTTGGAA
Found at i:24796733 original size:29 final size:29
Alignment explanation
Indices: 24796653--24796733 Score: 99
Period size: 29 Copynumber: 2.8 Consensus size: 29
24796643 GAAGAGGTGG
* * *
24796653 AGAACTTGTTCGTTGAGAGTTCACGATAA
1 AGAACTTGTTCATTGAGAATTCGCGATAA
* * * *
24796682 AGAATTTATTCATTGAGATTTCGCGATGA
1 AGAACTTGTTCATTGAGAATTCGCGATAA
24796711 AGAACTTGTTCATTGAGAATTCG
1 AGAACTTGTTCATTGAGAATTCG
24796734 TGTCAATGTG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (29 bp):
AGAACTTGTTCATTGAGAATTCGCGATAA
Found at i:24799828 original size:19 final size:20
Alignment explanation
Indices: 24799804--24799843 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
24799794 TAACTCAAAA
24799804 TTTAAAAAAAAATCGA-TTT
1 TTTAAAAAAAAATCGAGTTT
* *
24799823 TTTAAAATAGAATCGAGTTT
1 TTTAAAAAAAAATCGAGTTT
24799843 T
1 T
24799844 ACTCCCCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTAAAAAAAAATCGAGTTT
Found at i:24801603 original size:22 final size:22
Alignment explanation
Indices: 24801578--24801619 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
24801568 TAAACAAATC
24801578 AAATAAACA-TAAAAATAAAAAA
1 AAATAAA-ATTAAAAATAAAAAA
*
24801600 AAATAAAATTAAAAGTAAAA
1 AAATAAAATTAAAAATAAAA
24801620 GTAAAATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (22 bp):
AAATAAAATTAAAAATAAAAAA
Found at i:24801613 original size:12 final size:11
Alignment explanation
Indices: 24801578--24801625 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 11
24801568 TAAACAAATC
24801578 AAATAAACATAA
1 AAATAAA-ATAA
24801590 AAATAAAA-AA
1 AAATAAAATAA
24801600 AAATAAAATTAA
1 AAATAAAA-TAA
*
24801612 AAGTAAAAGTAA
1 AAATAAAA-TAA
24801624 AA
1 AA
24801626 TACTCTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 10 0.31
11 1 0.03
12 21 0.66
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:24807292 original size:8 final size:8
Alignment explanation
Indices: 24807281--24807308 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
24807271 TTATAATTGC
24807281 TAAAGGAT
1 TAAAGGAT
24807289 TAAAGGAT
1 TAAAGGAT
24807297 TAAAGGAT
1 TAAAGGAT
24807305 TAAA
1 TAAA
24807309 ATAACAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.21, T:0.25
Consensus pattern (8 bp):
TAAAGGAT
Found at i:24808479 original size:25 final size:26
Alignment explanation
Indices: 24808451--24808520 Score: 83
Period size: 25 Copynumber: 2.7 Consensus size: 26
24808441 GTGAATTCTC
*
24808451 TGAAGCTAGTGTTAGCAGCATCGT-A
1 TGAAGCTAGTGTTAGCAGCATCCTGA
*
24808476 TGAAGCTAGTGTTAG-A-AATCCTGA
1 TGAAGCTAGTGTTAGCAGCATCCTGA
24808500 TCGGAAGCTAGTGTTAGCAGC
1 T--GAAGCTAGTGTTAGCAGC
24808521 CCAAATATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
23 4 0.11
24 3 0.08
25 15 0.41
26 14 0.38
27 1 0.03
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (26 bp):
TGAAGCTAGTGTTAGCAGCATCCTGA
Found at i:24815238 original size:28 final size:29
Alignment explanation
Indices: 24815198--24815267 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
24815188 TTTTAGAAAA
24815198 TTTTAAAACTTTTAAC-TTTCTTATAAATT
1 TTTTAAAA-TTTTAACTTTTCTTATAAATT
* * *
24815227 TTTTAGAATTTTAACTTTTTTTATATATT
1 TTTTAAAATTTTAACTTTTCTTATAAATT
24815256 TTTTAAAATTTT
1 TTTTAAAATTTT
24815268 TATAATTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
28 7 0.19
29 29 0.81
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.61
Consensus pattern (29 bp):
TTTTAAAATTTTAACTTTTCTTATAAATT
Found at i:24815276 original size:29 final size:29
Alignment explanation
Indices: 24815198--24815281 Score: 75
Period size: 29 Copynumber: 2.9 Consensus size: 29
24815188 TTTTAGAAAA
* *
24815198 TTTTAAAACTTTTA-ACTTTCTTATAAATT
1 TTTTAAAATTTTTATAATTT-TTATAAATT
* * * *
24815227 TTTTAGAATTTTAACT-TTTTTTATATATT
1 TTTTAAAATTTTTA-TAATTTTTATAAATT
24815256 TTTTAAAATTTTTATAATTTTT-TAAA
1 TTTTAAAATTTTTATAATTTTTATAAA
24815282 ATATATATTT
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
28 4 0.09
29 36 0.84
30 3 0.07
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (29 bp):
TTTTAAAATTTTTATAATTTTTATAAATT
Found at i:24815321 original size:19 final size:20
Alignment explanation
Indices: 24815291--24815338 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
24815281 AATATATATT
*
24815291 TTTTGAAATTTTTATAAA-TA
1 TTTTG-AATTTTTAAAAATTA
24815311 TTTTGAA-TTTTAAAAATTA
1 TTTTGAATTTTTAAAAATTA
24815330 TTTTGAATT
1 TTTTGAATT
24815339 ATTTTGTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 8 0.32
19 11 0.44
20 6 0.24
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTGAATTTTTAAAAATTA
Found at i:24815577 original size:16 final size:17
Alignment explanation
Indices: 24815551--24815585 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
24815541 GCAACCAAAG
*
24815551 AGAAGTTCATGCACGTA
1 AGAAGTTCATGCACATA
24815568 AGAA-TTCATGCACATA
1 AGAAGTTCATGCACATA
24815584 AG
1 AG
24815586 TCTTGCGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (17 bp):
AGAAGTTCATGCACATA
Found at i:24824590 original size:21 final size:21
Alignment explanation
Indices: 24824566--24824607 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
24824556 AGCCAAAGAA
24824566 AAAATTGCGATTGAATCGACG
1 AAAATTGCGATTGAATCGACG
24824587 AAAATTGCGATTGAATCGACG
1 AAAATTGCGATTGAATCGACG
24824608 GCAGAGCACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (21 bp):
AAAATTGCGATTGAATCGACG
Found at i:24827097 original size:15 final size:16
Alignment explanation
Indices: 24827070--24827099 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24827060 ATTAAAATAA
24827070 TTTTAAAACTAATTAT
1 TTTTAAAACTAATTAT
24827086 TTTTAAAA-TAATTA
1 TTTTAAAACTAATTA
24827100 ATAAAAAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTTAAAACTAATTAT
Found at i:24835466 original size:13 final size:13
Alignment explanation
Indices: 24835448--24835472 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24835438 AATTTTTTTA
24835448 TTTTTAATTAATG
1 TTTTTAATTAATG
24835461 TTTTTAATTAAT
1 TTTTTAATTAAT
24835473 AAATATATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:24837887 original size:30 final size:30
Alignment explanation
Indices: 24837853--24837910 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
24837843 CCGAGCCTAA
*
24837853 GGGCAAAAGTGTAAATATGTAAAAGTTTAG
1 GGGCAAAAGTGTAAATATGCAAAAGTTTAG
* * *
24837883 GGGCAAAATTGTAATTTTGCAAAAGTTT
1 GGGCAAAAGTGTAAATATGCAAAAGTTT
24837911 GAGTTAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGCAAAAGTTTAG
Found at i:24838848 original size:49 final size:51
Alignment explanation
Indices: 24838722--24838850 Score: 181
Period size: 51 Copynumber: 2.6 Consensus size: 51
24838712 TAGCTAGGTT
*
24838722 GCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATC
1 GCATGTGTAGTACTAAGTGCAGGCTACTACGCATACCCGATAACTTCGATC
* * ** * *
24838773 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-GGTC
1 GCATGTGTAGTACTAAGTGCAGGCTACTACGCATACCCGATAACTTCGATC
24838822 GCATGTGTAGTACTAAGTGCAGGCTACTA
1 GCATGTGTAGTACTAAGTGCAGGCTACTA
24838851 TGCGTACCAG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
49 30 0.43
50 2 0.03
51 37 0.54
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (51 bp):
GCATGTGTAGTACTAAGTGCAGGCTACTACGCATACCCGATAACTTCGATC
Found at i:24838858 original size:49 final size:51
Alignment explanation
Indices: 24838722--24838863 Score: 198
Period size: 49 Copynumber: 2.8 Consensus size: 51
24838712 TAGCTAGGTT
* *
24838722 GCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATC
1 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATC
* * * * * *
24838773 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-GGTC
1 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATC
24838822 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
24838864 GTTTGGCTAC
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 40 0.51
50 2 0.03
51 37 0.47
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (51 bp):
GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATC
Found at i:24842514 original size:24 final size:24
Alignment explanation
Indices: 24842482--24842528 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
24842472 TACCCGAAAT
24842482 AAAAGCACATTGAGAATCGTCAAC
1 AAAAGCACATTGAGAATCGTCAAC
24842506 AAAAGCACATTGAGAATCGTCAA
1 AAAAGCACATTGAGAATCGTCAA
24842529 TACACTCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.19, G:0.17, T:0.17
Consensus pattern (24 bp):
AAAAGCACATTGAGAATCGTCAAC
Found at i:24845423 original size:22 final size:24
Alignment explanation
Indices: 24845380--24845423 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
24845370 AAACCTTAAG
*
24845380 AAACGTGCCAAAGACAGTAGACAT
1 AAACGTGCCAAAGACAGCAGACAT
24845404 AAACGTGCC-AA-ACAGCAGAC
1 AAACGTGCCAAAGACAGCAGAC
24845424 CTAATCTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 2 0.11
24 9 0.47
ACGTcount: A:0.45, C:0.25, G:0.20, T:0.09
Consensus pattern (24 bp):
AAACGTGCCAAAGACAGCAGACAT
Found at i:24845664 original size:12 final size:13
Alignment explanation
Indices: 24845647--24845676 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
24845637 AAAATTACTA
24845647 AAAATTAAAAA-T
1 AAAATTAAAAATT
24845659 AAAATTAAAAATT
1 AAAATTAAAAATT
24845672 AAAAT
1 AAAAT
24845677 ATTTATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AAAATTAAAAATT
Found at i:24857887 original size:68 final size:68
Alignment explanation
Indices: 24857768--24857894 Score: 193
Period size: 68 Copynumber: 1.9 Consensus size: 68
24857758 CTTTCCAAGG
**
24857768 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTT
24857833 TTC
66 TTC
** *
24857836 AAAATCAACTCATATTGCGAGA-AGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
1 AAAATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTA
24857895 GTTTATAAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
67 1 0.02
68 52 0.98
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (68 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTT
TTC
Found at i:24858251 original size:75 final size:74
Alignment explanation
Indices: 24857952--24858288 Score: 425
Period size: 75 Copynumber: 4.5 Consensus size: 74
24857942 TTTGTTTTTC
*
24857952 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAATTTC
24858016 TGTTGTTAAAAA
65 TGTT-TT-AAAA
** *
24858028 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
24858093 GTTTT--CA
66 GTTTTAAAA
* * * * *
24858100 AAATTCAACTTATATTGCGAG-GAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAG-GTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
24858164 TATTTTCAAAA
65 TGTTTT-AAAA
* *
24858175 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATT
24858239 TCTGTTTT-AAA
63 TCTGTTTTAAAA
* *
24858250 AAGATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
24858289 ATTACACACT
Statistics
Matches: 229, Mismatches: 22, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
72 63 0.28
74 1 0.00
75 77 0.34
76 61 0.27
77 27 0.12
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTTTAAAA
Found at i:24858308 original size:75 final size:72
Alignment explanation
Indices: 24857934--24858288 Score: 412
Period size: 72 Copynumber: 4.8 Consensus size: 72
24857924 GAGTTAAGCC
* ** *
24857934 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTCAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
24857998 TGAGGTAA
66 TGAGGT-A
**
24858006 TTTT-AATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGAC
1 TTTTCAATTTCTGTT-TT---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
24858070 ACGCTGAGGTA
62 ACGCTGAGGTA
* * * * * *
24858081 ATTTCAATTTCTGTTTTCAAAATTCAACTTATATTGCGAG-GAATGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAG-GTGAGTTGAGCCTCAGGACACG
*
24858145 TTGAGGTA
65 CTGAGGTA
* *
24858153 TTTTCAATTTCTATTTTCAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTC
1 TTTTCAATTTCTGTTTT---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---
*
24858217 ACATGCTGAGGTA
60 ACACGCTGAGGTA
*
24858230 TTTTCAATTTCTGTTTTAAAAAGATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 TTTTCAATTTCTGTTTTAAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
24858289 ATTACACACT
Statistics
Matches: 244, Mismatches: 24, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
72 76 0.31
73 2 0.01
74 6 0.02
75 72 0.30
76 61 0.25
77 27 0.11
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (72 bp):
TTTTCAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTA
Found at i:24858708 original size:88 final size:87
Alignment explanation
Indices: 24858506--24858751 Score: 298
Period size: 88 Copynumber: 2.8 Consensus size: 87
24858496 TGTTTTAATT
* *
24858506 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATTAAGC-
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACA--TCGAGGTATTTTCAATT--TCT
* * *
24858570 CTTTTGATTTCTGTTTTTCAAAAAAA
62 GTTTTCATTTATGTTTTTCAAAAAAA
* *
24858596 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATCGAGGTATTTTCCATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACATCGAGGTATTTTCAATTTCTGTTT
* *
24858661 TCATTATTATGTTTTT-GAAAGAA
66 TCA-T-TTATGTTTTTCAAAAAAA
** * * *
24858684 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACATCGAGGTATTTTCAATTTCTGTTT
24858749 TCA
66 TCA
24858752 AAATTCAACT
Statistics
Matches: 137, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
86 1 0.01
87 5 0.04
88 82 0.60
89 9 0.07
90 40 0.29
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (87 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACATCGAGGTATTTTCAATTTCTGTTT
TCATTTATGTTTTTCAAAAAAA
Found at i:24858868 original size:73 final size:72
Alignment explanation
Indices: 24858684--24858936 Score: 391
Period size: 73 Copynumber: 3.5 Consensus size: 72
24858674 TTTGAAAGAA
*
24858684 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
24858749 TCAAAAT
66 TCAAAAT
*
24858756 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TT
24858821 TTCAAAAT
65 TTCAAAAT
* * *
24858829 TCAACTCATATTGTGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTT-
** *
24858894 TAAAAAAAA
65 T-TCAAAAT
24858903 TCAACTCATATTGCGA-AAAGTGAGTTGAGCCTCA
1 TCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCA
24858937 GTTCACATGT
Statistics
Matches: 167, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
72 62 0.37
73 72 0.43
74 33 0.20
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
TCAAAAT
Found at i:24860799 original size:26 final size:25
Alignment explanation
Indices: 24860742--24860799 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
24860732 ATTCTTATTT
* *
24860742 TATTTTTATATCATTATATTTTATC
1 TATTTTTATATCATTATATTATATA
* *
24860767 CACTTTTTATATTATTATTATTATATA
1 TA-TTTTTATATCATTA-TATTATATA
24860794 TATTTT
1 TATTTT
24860800 AATCTTACTT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
25 1 0.04
26 17 0.65
27 8 0.31
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (25 bp):
TATTTTTATATCATTATATTATATA
Found at i:24864165 original size:42 final size:42
Alignment explanation
Indices: 24864096--24864210 Score: 101
Period size: 42 Copynumber: 2.7 Consensus size: 42
24864086 AAGTGCTTAA
* *
24864096 AGAAACCCATAAGGGTTGAA-TGAAAGCTCGTA-AGAACTGAAT
1 AGAAACCCAT-AGGGTTAAACAG-AAGCTCGTATAGAACTGAAT
* * * *
24864138 GGAAACCCATGAGGGTTTAACAGAAGCTC-AATAGAGCTGAAT
1 AGAAACCCAT-AGGGTTAAACAGAAGCTCGTATAGAACTGAAT
* *
24864180 AGAAACTCATATGAGTTAAACAGAAGCTCGT
1 AGAAACCCATA-GGGTTAAACAGAAGCTCGT
24864211 GAGAGCTAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
41 2 0.03
42 55 0.95
43 1 0.02
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (42 bp):
AGAAACCCATAGGGTTAAACAGAAGCTCGTATAGAACTGAAT
Found at i:24867214 original size:35 final size:35
Alignment explanation
Indices: 24867162--24867233 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
24867152 ACACTTTTGC
24867162 AATAGAGTCCTTTGAATTTGTGCAACCTAAAGGAT
1 AATAGAGTCCTTTGAATTTGTGCAACCTAAAGGAT
*
24867197 AATAGAGT-CTTTCGAATTTGTGCAATCTAAAGGAT
1 AATAGAGTCCTTT-GAATTTGTGCAACCTAAAGGAT
24867232 AA
1 AA
24867234 GAAAAATGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 4 0.11
35 31 0.89
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (35 bp):
AATAGAGTCCTTTGAATTTGTGCAACCTAAAGGAT
Found at i:24871817 original size:18 final size:18
Alignment explanation
Indices: 24871794--24871837 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
24871784 ATTGATCCTA
24871794 ATATAAAAATAAAGAAAT
1 ATATAAAAATAAAGAAAT
*
24871812 ATATAAAAATAAATAAAT
1 ATATAAAAATAAAGAAAT
*
24871830 ATCTAAAA
1 ATATAAAA
24871838 GAATAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (18 bp):
ATATAAAAATAAAGAAAT
Found at i:24874009 original size:48 final size:48
Alignment explanation
Indices: 24873900--24874043 Score: 281
Period size: 48 Copynumber: 3.0 Consensus size: 48
24873890 GGAGCCCAGT
24873900 TCAATTATACAAAGATAAACTAAGGACCTCTAGTTTTG-TGTTACTAA
1 TCAATTATACAAAGATAAACTAAGGACCTCTAGTTTTGTTGTTACTAA
24873947 TCAATTATACAAAGATAAACTAAGGACCTCTAGTTTTGTTGTTACTAA
1 TCAATTATACAAAGATAAACTAAGGACCTCTAGTTTTGTTGTTACTAA
24873995 TCAATTATACAAAGATAAACTAAGGACCTCTAGTTTTGTTGTTACTAA
1 TCAATTATACAAAGATAAACTAAGGACCTCTAGTTTTGTTGTTACTAA
24874043 T
1 T
24874044 AAAAATATCC
Statistics
Matches: 96, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
47 38 0.40
48 58 0.60
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (48 bp):
TCAATTATACAAAGATAAACTAAGGACCTCTAGTTTTGTTGTTACTAA
Found at i:24887653 original size:14 final size:14
Alignment explanation
Indices: 24887634--24887663 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24887624 CCATATACAA
*
24887634 ATAAACTTATCAAC
1 ATAAACTTATAAAC
24887648 ATAAACTTATAAAC
1 ATAAACTTATAAAC
24887662 AT
1 AT
24887664 CAAGAATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAAACTTATAAAC
Found at i:24889083 original size:17 final size:17
Alignment explanation
Indices: 24889061--24889119 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
24889051 AATTGTTTAC
24889061 TCAAGAAGAAATCAAAA
1 TCAAGAAGAAATCAAAA
* * * *
24889078 TCAAGAAAGTGGACTCATAC
1 TCAAG-AA--GAAATCAAAA
24889098 TCAAGAAGAAATCAAAA
1 TCAAGAAGAAATCAAAA
24889115 TCAAG
1 TCAAG
24889120 GAAGTGGAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
17 16 0.52
18 2 0.06
19 2 0.06
20 11 0.35
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (17 bp):
TCAAGAAGAAATCAAAA
Found at i:24889094 original size:31 final size:32
Alignment explanation
Indices: 24889059--24889128 Score: 86
Period size: 37 Copynumber: 2.0 Consensus size: 32
24889049 TTAATTGTTT
24889059 ACTCAAGAAGAAATCAAAATCAAGAAAGTGGACTCA
1 ACTCAAGAAGAAATCAAAATCAAGAAAGTGG----A
*
24889095 TACTCAAGAAGAAATCAAAATCAAGGAAGTGGA
1 -ACTCAAGAAGAAATCAAAATCAAGAAAGTGGA
24889128 A
1 A
24889129 TCCACCAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
32 1 0.03
33 1 0.03
37 30 0.94
ACGTcount: A:0.53, C:0.14, G:0.19, T:0.14
Consensus pattern (32 bp):
ACTCAAGAAGAAATCAAAATCAAGAAAGTGGA
Found at i:24904493 original size:13 final size:13
Alignment explanation
Indices: 24904475--24904499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24904465 CCGAGCACAC
24904475 GCCCGTGTCCCTG
1 GCCCGTGTCCCTG
24904488 GCCCGTGTCCCT
1 GCCCGTGTCCCT
24904500 CACACTGCCA
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:0.48, G:0.28, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTG
Found at i:24910472 original size:11 final size:11
Alignment explanation
Indices: 24910456--24910484 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
24910446 GCCACGCGAA
24910456 CACCTTCTCCC
1 CACCTTCTCCC
24910467 CACCTTCTCCC
1 CACCTTCTCCC
24910478 CACCTTC
1 CACCTTC
24910485 CCATTTCTTC
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:0.10, C:0.62, G:0.00, T:0.28
Consensus pattern (11 bp):
CACCTTCTCCC
Found at i:24912919 original size:10 final size:10
Alignment explanation
Indices: 24912904--24912937 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
24912894 ATAAAAAAGT
24912904 AAAAACAAAA
1 AAAAACAAAA
* *
24912914 AAAAACCAGA
1 AAAAACAAAA
24912924 AAAAACAAAA
1 AAAAACAAAA
24912934 AAAA
1 AAAA
24912938 CACATAAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:24916319 original size:29 final size:29
Alignment explanation
Indices: 24916256--24916323 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
24916246 TAATCAACCG
*
24916256 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
24916285 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
24916314 CGCACACTTA
1 CGCACACTTA
24916324 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:24916438 original size:174 final size:174
Alignment explanation
Indices: 24916145--24916472 Score: 629
Period size: 174 Copynumber: 1.9 Consensus size: 174
24916135 AACTCAAGGT
* *
24916145 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
24916210 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCACACACTTAGTGCCATGT
24916275 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
24916319 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
24916384 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCACACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCACACACTTAGTGCCATGT
24916449 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
24916473 TGTACAATTT
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 151 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCACACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:24916464 original size:29 final size:28
Alignment explanation
Indices: 24916425--24916500 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 28
24916415 CTTAATAATC
24916425 AACCGCACACACTTAGTGCCATGTAC-TTTA
1 AACC-CACACACTTAGTG-C-TGTACATTTA
*
24916455 AACTCACACACTTAGTGCTGTACAATTTA
1 AACCCACACACTTAGTGCTGTAC-ATTTA
*
24916484 AACCCGCACACTTAGTG
1 AACCCACACACTTAGTG
24916501 TCAATCTCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 32 0.78
30 3 0.07
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
AACCCACACACTTAGTGCTGTACATTTA
Found at i:24924462 original size:29 final size:29
Alignment explanation
Indices: 24924399--24924466 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
24924389 TAATCAACCG
*
24924399 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
24924428 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
24924457 CGCACACTTA
1 CGCACACTTA
24924467 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:24924578 original size:174 final size:174
Alignment explanation
Indices: 24924288--24924615 Score: 638
Period size: 174 Copynumber: 1.9 Consensus size: 174
24924278 AACTCAAGGT
* *
24924288 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
24924353 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
24924418 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
24924462 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
24924527 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
24924592 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
24924616 TGTACAATTT
Statistics
Matches: 152, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 152 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:24924609 original size:29 final size:30
Alignment explanation
Indices: 24924575--24924646 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
24924565 ATCAACCGCG
*
24924575 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
24924604 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
24924633 CACACTTAGTGCCA
1 CACACTTAGTGCCA
24924647 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:24930505 original size:33 final size:32
Alignment explanation
Indices: 24930435--24930512 Score: 79
Period size: 33 Copynumber: 2.3 Consensus size: 32
24930425 GTTCACTTTC
*
24930435 TCAATTCAATATCACTTTCACTTCATTTACGAA
1 TCAATTCAATATCACTTTCAC-TCATATACGAA
*
24930468 TCAATTCAATTTCACTTTTCA-TCAATATAC-AA
1 TCAATTCAATATCAC-TTTCACTC-ATATACGAA
24930500 TTCAATATCAATA
1 -TCAAT-TCAATA
24930513 CTTATCCATC
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
32 4 0.11
33 24 0.63
34 10 0.26
ACGTcount: A:0.37, C:0.22, G:0.01, T:0.40
Consensus pattern (32 bp):
TCAATTCAATATCACTTTCACTCATATACGAA
Found at i:24930807 original size:17 final size:18
Alignment explanation
Indices: 24930777--24930810 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24930767 AATTTCTATT
24930777 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
24930795 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
24930811 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:24931516 original size:19 final size:21
Alignment explanation
Indices: 24931479--24931517 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
24931469 AAAATCTCAT
24931479 AATATAATTATTTAATTAAAA
1 AATATAATTATTTAATTAAAA
*
24931500 AATAT-ATT-TTTACTTAAA
1 AATATAATTATTTAATTAAA
24931518 TAAAAAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (21 bp):
AATATAATTATTTAATTAAAA
Found at i:24932740 original size:20 final size:19
Alignment explanation
Indices: 24932715--24932830 Score: 74
Period size: 20 Copynumber: 5.8 Consensus size: 19
24932705 CATAATAGAG
24932715 GAGGCATCGAAGTGCAAACA
1 GAGGCA-CGAAGTGCAAACA
* * *
24932735 GAGGCACAAATGTGCGATCA
1 GAGGCACGAA-GTGCAAACA
24932755 GAGGCACCGAAGTGCAAACA
1 GAGGCA-CGAAGTGCAAACA
* * *
24932775 AAGACACCGAAGTGTGAAA-A
1 GAGGCA-CGAAGTG-CAAACA
* *
24932795 -AGGCATCAAAGTGCAAATA
1 GAGGCA-CGAAGTGCAAACA
*
24932814 GAGACACTGAAGTGCAA
1 GAGGCAC-GAAGTGCAA
24932831 TCCCGTACAA
Statistics
Matches: 75, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
18 3 0.04
19 15 0.20
20 51 0.68
21 6 0.08
ACGTcount: A:0.42, C:0.19, G:0.28, T:0.11
Consensus pattern (19 bp):
GAGGCACGAAGTGCAAACA
Found at i:24937060 original size:20 final size:20
Alignment explanation
Indices: 24937035--24937086 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
24937025 GAGACAATGA
24937035 ACACGCCTGTGTGCTTTAGG
1 ACACGCCTGTGTGCTTTAGG
*
24937055 ACACGCCCGTGTGCTTTAGG
1 ACACGCCTGTGTGCTTTAGG
*
24937075 ACACGTCTGTGT
1 ACACGCCTGTGT
24937087 CCCTAACCCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.29
Consensus pattern (20 bp):
ACACGCCTGTGTGCTTTAGG
Found at i:24958795 original size:27 final size:27
Alignment explanation
Indices: 24958757--24958810 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
24958747 AACTAGACTC
24958757 AATAAGGAATATTTACATATAAAGATT
1 AATAAGGAATATTTACATATAAAGATT
24958784 AATAAGGAATATTTACATATAAAGATT
1 AATAAGGAATATTTACATATAAAGATT
24958811 GACTTATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.04, G:0.11, T:0.33
Consensus pattern (27 bp):
AATAAGGAATATTTACATATAAAGATT
Found at i:24959771 original size:93 final size:93
Alignment explanation
Indices: 24959661--24959831 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
24959651 GCCCCTAAGT
* *
24959661 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
24959726 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
24959754 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
24959819 CGAGTTCGGATGC
66 CGAGTTCGGATGC
24959832 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:24959828 original size:46 final size:46
Alignment explanation
Indices: 24959656--24959828 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
24959646 AACCCGCCCC
* * *
24959656 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
24959702 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
24959750 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
24959795 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
24959829 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:24966760 original size:25 final size:25
Alignment explanation
Indices: 24966732--24966780 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
24966722 AAGCATACTC
24966732 CAAACAAAAAGAGTAAA-AAAAAAAT
1 CAAACAAAAAGAG-AAACAAAAAAAT
*
24966757 CAAACAAATAGAGAAACAAAAAAA
1 CAAACAAAAAGAGAAACAAAAAAA
24966781 GAAAATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.76, C:0.10, G:0.08, T:0.06
Consensus pattern (25 bp):
CAAACAAAAAGAGAAACAAAAAAAT
Found at i:24971064 original size:28 final size:29
Alignment explanation
Indices: 24971033--24971094 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
24971023 AATTCTTTTT
24971033 AAAATAATAAAAATTCTGTAAAAA-ATTA
1 AAAATAATAAAAATTCTGTAAAAATATTA
* * *
24971061 AAAATATTTAAAATTTTGTAAAAATTATTA
1 AAAATAATAAAAATTCTGTAAAAA-TATTA
24971091 AAAA
1 AAAA
24971095 CTCTAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 21 0.72
30 8 0.28
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAATAATAAAAATTCTGTAAAAATATTA
Found at i:24971608 original size:20 final size:21
Alignment explanation
Indices: 24971574--24971612 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
24971564 CTCTCTCTAG
24971574 GGTTAGGGTTTTTTATTTTTA
1 GGTTAGGGTTTTTTATTTTTA
24971595 GGTTAGGG-TTTTTATTTT
1 GGTTAGGGTTTTTTATTTT
24971613 ATCAGCGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.13, C:0.00, G:0.26, T:0.62
Consensus pattern (21 bp):
GGTTAGGGTTTTTTATTTTTA
Found at i:24981953 original size:28 final size:27
Alignment explanation
Indices: 24981921--24982007 Score: 84
Period size: 28 Copynumber: 3.1 Consensus size: 27
24981911 TTAAACCACC
*
24981921 ATACATATTATTATTTTGAAGTTTTTTT
1 ATACATATTATTATTTT-AAATTTTTTT
* * * *
24981949 TTACATGTCTTTTATTTTAAATTATTTT
1 ATACATAT-TATTATTTTAAATTTTTTT
* *
24981977 ATACATAATATATATTTTAAATTTTTGT
1 ATACATATTAT-TATTTTAAATTTTTTT
24982005 ATA
1 ATA
24982008 TGTTAGTTTA
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
27 2 0.04
28 36 0.78
29 8 0.17
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (27 bp):
ATACATATTATTATTTTAAATTTTTTT
Found at i:24998262 original size:18 final size:18
Alignment explanation
Indices: 24998236--24998274 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
24998226 CCTAAGAAAC
* *
24998236 TTTATATCCTTTTGGGAT
1 TTTAAATCCTTTAGGGAT
24998254 TTTAAATCCTTTAGGGAT
1 TTTAAATCCTTTAGGGAT
24998272 TTT
1 TTT
24998275 CATATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.10, G:0.15, T:0.54
Consensus pattern (18 bp):
TTTAAATCCTTTAGGGAT
Found at i:24999656 original size:43 final size:43
Alignment explanation
Indices: 24999591--24999912 Score: 391
Period size: 43 Copynumber: 7.5 Consensus size: 43
24999581 CGCAAAAAAT
* * *
24999591 GCCGCTATAGAACATGATCTTTAGCGGCGCTTTTCCCATAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAAC
* * *
24999634 GCCGCTAAAGAACGTGACCTTTAGCAGCGCTTTT-CCACAAAA
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
24999676 GCCGCTAAAGAATATGACCTTTAGCGGCGCTTTTTCCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAAC
*
24999719 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAAT
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * * *
24999762 GCTGCTAAAGAACATGACATTTAGCGGCACTTTTTCTACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAAC
** * * *
24999805 GCCGCTAAAGAATC-TGACCTTTAGCAACACTTTTCCCACGAAT
1 GCCGCTAAAGAA-CATGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * *
24999848 GCCACTATA-AA-ATAGACCTTTAGCGGCGCTTTTCTCACAAGC
1 GCCGCTAAAGAACAT-GACCTTTAGCGGCGCTTTTCCCACAAAC
24999890 GCCGCTAAAGAACATGACCTTTA
1 GCCGCTAAAGAACATGACCTTTA
24999913 AAAATATATA
Statistics
Matches: 235, Mismatches: 38, Indels: 12
0.82 0.13 0.04
Matches are distributed among these distances:
41 1 0.00
42 67 0.29
43 164 0.70
44 3 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:24999700 original size:85 final size:86
Alignment explanation
Indices: 24999586--24999912 Score: 410
Period size: 85 Copynumber: 3.8 Consensus size: 86
24999576 AGCGTCGCAA
* * * *
24999586 AAAATGCCGCTATAGAACATGATCTTTAGCGGCGCTTTTCCCATAAACGCCGCTAAAGAACGTGA
1 AAAA-GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGA
24999651 CCTTTAGCAGCGCTTTT-CCAC
65 CCTTTAGCAGCGCTTTTCCCAC
* *
24999672 AAAAGCCGCTAAAGAATATGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGAACATGAC
1 AAAAGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGAC
*
24999737 CTTTAGCGGCGCTTTTCCCAC
66 CTTTAGCAGCGCTTTTCCCAC
* * * * * *
24999758 AAATGCTGCTAAAGAACATGACATTTAGCGGCACTTTTTCTACAAACGCCGCTAAAGAATC-TGA
1 AAAAGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAA-CATGA
* *
24999822 CCTTTAGCAACACTTTTCCCAC
65 CCTTTAGCAGCGCTTTTCCCAC
* * * * * *
24999844 GAATGCCACTATA-AA-ATAGACCTTTAGCGGCGCTTTTCTCACAAGCGCCGCTAAAGAACATGA
1 AAAAGCCGCTAAAGAACAT-GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGA
24999907 CCTTTA
65 CCTTTA
24999913 AAAATATATA
Statistics
Matches: 211, Mismatches: 26, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
84 3 0.01
85 115 0.55
86 92 0.44
87 1 0.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (86 bp):
AAAAGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGAC
CTTTAGCAGCGCTTTTCCCAC
Found at i:24999839 original size:128 final size:129
Alignment explanation
Indices: 24999591--24999912 Score: 418
Period size: 128 Copynumber: 2.5 Consensus size: 129
24999581 CGCAAAAAAT
* * *
24999591 GCCGCTATAGAACATGATCTTTAGCGGCGCTTTTCCCATAAACGCCGCTAAAGAACGTGACCTTT
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTT
* ** *
24999656 AGCAGCGCTTTTCCACAAAAGCCGCTAAAGAATATGACCTTTAGCGGCGCTTTTT-CCACAAAC
66 AGCAGCACTTTTCCACAAAAGCCGCTAAAGAATATGACCTTTAGCAACACTTTTTCCCACAAAC
* * * *
24999719 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAATGCTGCTAAAGAACATGACATTT
1 GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTT
* * * * * *
24999784 AGCGGCACTTTTTCTACAAACGCCGCTAAAGAATCTGACCTTTAGCAACAC-TTTTCCCACGAAT
66 AGCAGCAC-TTTTCCACAAAAGCCGCTAAAGAATATGACCTTTAGCAACACTTTTTCCCACAAAC
* * *
24999848 GCCACTATA-AA-ATAGACCTTTAGCGGCGCTTTTCTCACAAGCGCCGCTAAAGAACATGACCTT
1 GCCGCTATAGAACAT-GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTT
24999911 TA
65 TA
24999913 AAAATATATA
Statistics
Matches: 167, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
127 2 0.01
128 116 0.69
129 49 0.29
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (129 bp):
GCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTT
AGCAGCACTTTTCCACAAAAGCCGCTAAAGAATATGACCTTTAGCAACACTTTTTCCCACAAAC
Found at i:25000017 original size:22 final size:22
Alignment explanation
Indices: 24999991--25000036 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
24999981 TTTGAACTTT
*
24999991 AAACTATATACTTTTAAGGATA
1 AAACTATATAATTTTAAGGATA
25000013 AAACTATATAATTTTAAGGATA
1 AAACTATATAATTTTAAGGATA
25000035 AA
1 AA
25000037 TAAAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.35
Consensus pattern (22 bp):
AAACTATATAATTTTAAGGATA
Found at i:25003868 original size:23 final size:22
Alignment explanation
Indices: 25003837--25003881 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
25003827 AGAAAACATC
*
25003837 CTCCACCAACCCTGCACACCAT
1 CTCCACCAACCCAGCACACCAT
25003859 CTCCATCCAACCCAGCACACCAT
1 CTCCA-CCAACCCAGCACACCAT
25003882 GTGGGGATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.29, C:0.53, G:0.04, T:0.13
Consensus pattern (22 bp):
CTCCACCAACCCAGCACACCAT
Found at i:25006003 original size:19 final size:20
Alignment explanation
Indices: 25005979--25006016 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
25005969 TTAAATATTA
*
25005979 AAATTTTAAGTTTT-TTTTT
1 AAATTTTAAATTTTATTTTT
25005998 AAATTTTAAATTTTATTTT
1 AAATTTTAAATTTTATTTT
25006017 GAAGATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (20 bp):
AAATTTTAAATTTTATTTTT
Found at i:25006690 original size:21 final size:21
Alignment explanation
Indices: 25006664--25006710 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
25006654 CCCAAACCCC
25006664 AAACCCCAAATCCTAGACCAT
1 AAACCCCAAATCCTAGACCAT
* * *
25006685 AAACCCTAATTCTTAGACCAT
1 AAACCCCAAATCCTAGACCAT
25006706 AAACC
1 AAACC
25006711 TACACCTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.34, G:0.04, T:0.19
Consensus pattern (21 bp):
AAACCCCAAATCCTAGACCAT
Found at i:25007101 original size:14 final size:14
Alignment explanation
Indices: 25007083--25007126 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
25007073 TCCCCTATCC
*
25007083 CCATAAACCCTAAA
1 CCATAAAACCTAAA
* *
25007097 TCATAAAACATAAA
1 CCATAAAACCTAAA
*
25007111 CCATAAATCCTAAA
1 CCATAAAACCTAAA
25007125 CC
1 CC
25007127 CCTAACCCTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.18
Consensus pattern (14 bp):
CCATAAAACCTAAA
Found at i:25007110 original size:21 final size:21
Alignment explanation
Indices: 25007084--25007124 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25007074 CCCCTATCCC
*
25007084 CATAAACCCTAAATCATAAAA
1 CATAAACCATAAATCATAAAA
*
25007105 CATAAACCATAAATCCTAAA
1 CATAAACCATAAATCATAAA
25007125 CCCCTAACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (21 bp):
CATAAACCATAAATCATAAAA
Found at i:25007217 original size:14 final size:14
Alignment explanation
Indices: 25007170--25007223 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
25007160 AATAATAACT
25007170 CCTAAAGCT-TAAAC
1 CCTAAA-CTATAAAC
* * *
25007184 CCTAAACCATATAT
1 CCTAAACTATAAAC
*
25007198 CTTAAACTATAAAC
1 CCTAAACTATAAAC
25007212 CCTAAACTATAA
1 CCTAAACTATAA
25007224 TAATAATTAA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
13 1 0.03
14 30 0.97
ACGTcount: A:0.46, C:0.26, G:0.02, T:0.26
Consensus pattern (14 bp):
CCTAAACTATAAAC
Found at i:25007634 original size:39 final size:40
Alignment explanation
Indices: 25007575--25007669 Score: 129
Period size: 39 Copynumber: 2.4 Consensus size: 40
25007565 TTTTTTTGCG
* * *
25007575 GCGTTTTTCAAAAAGTGCCGCTAATGGTCGACCTATAGCA
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCAACCTATAGCA
**
25007615 GCGTTTTT-AAAAAGCGCCGCTAATGCTCAATTTATAGCA
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCAACCTATAGCA
*
25007654 GCATTTTTCAAAAAGC
1 GCGTTTTTCAAAAAGC
25007670 AAAACTACTG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (40 bp):
GCGTTTTTCAAAAAGCGCCGCTAATGCTCAACCTATAGCA
Found at i:25007786 original size:40 final size:40
Alignment explanation
Indices: 25007726--25007831 Score: 140
Period size: 40 Copynumber: 2.6 Consensus size: 40
25007716 TAATTTTTTT
* *
25007726 GCGGTGTTTTTCAAAAAGCGCTGCTAATGGTCGACCTATA
1 GCGGTGTTTTTCAAAAAGCGCTGCTAATGCTCAACCTATA
* * * *
25007766 GCGGCGTTTTTTAAAAAGCGCTGTTAATGCTCAATCTATA
1 GCGGTGTTTTTCAAAAAGCGCTGCTAATGCTCAACCTATA
* *
25007806 GCGGTGGTTTTCAAAAAGCGCCGCTA
1 GCGGTGTTTTTCAAAAAGCGCTGCTA
25007832 GTGCCACTAC
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (40 bp):
GCGGTGTTTTTCAAAAAGCGCTGCTAATGCTCAACCTATA
Found at i:25007852 original size:155 final size:155
Alignment explanation
Indices: 25007457--25007986 Score: 677
Period size: 155 Copynumber: 3.4 Consensus size: 155
25007447 AACGTTTTTT
* * * * *
25007457 GCGGCGTTTTTGATAAAGCGCCGCTAAAGCTCGATCTATAGCGGCATTTTTCAAAAAGCACCGTT
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCATTTTTCAAAAAGCACCGCT
* * * * *
25007522 AATGTCACTAAAGCTCAACACAAAACGATGGCATTGTGCTTAATTTTTTTGCGGCGTTTTTCAAA
66 AATGCCACTAAAGCTCAACATAAAACGACGACGTTGTGCTTAATTTTTTTGCGGCGTTTTTCAAA
* *
25007587 AAGTGCCGCTAATGGTCGACCTATA
131 AAGCGCTGCTAATGGTCGACCTATA
* * * ***
25007612 GCAGCG-TTTTTAAAAAGCGCCGCTAATGCTCAATTTATAGCAGCATTTTTCAAAAAGCAAAACT
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCATTTTTCAAAAAGCACCGCT
* * *
25007676 ACTGCCACTAAAGCTCAACATAAAACGACGACGTTTTGCTTAATTTTTTTGCGGTGTTTTTCAAA
66 AATGCCACTAAAGCTCAACATAAAACGACGACGTTGTGCTTAATTTTTTTGCGGCGTTTTTCAAA
25007741 AAGCGCTGCTAATGGTCGACCTATA
131 AAGCGCTGCTAATGGTCGACCTATA
* * *** *
25007766 GCGGCGTTTTTTAAAAAGCGCTGTTAATGCTCAATCTATAGCGGTGGTTTTCAAAAAGCGCCGCT
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCATTTTTCAAAAAGCACCGCT
* * * * * *
25007831 AGTGCCACTACATCTCAACATAAAACGACAACGTTGTGCTTAATTTTTTTGTGGCGTTTGTCAAA
66 AATGCCACTAAAGCTCAACATAAAACGACGACGTTGTGCTTAATTTTTTTGCGGCGTTTTTCAAA
25007896 AAGCG-TCGCTAATGGTCGACCTATA
131 AAGCGCT-GCTAATGGTCGACCTATA
* * * * * * *
25007921 GCGGCATTTTTTGAAAAGCTCCGCTAATACTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCT
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCATTTTTCAAAAAGCACCGCT
25007986 A
66 A
25007987 CTGTTCGAGA
Statistics
Matches: 323, Mismatches: 50, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
154 134 0.41
155 189 0.59
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (155 bp):
GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCATTTTTCAAAAAGCACCGCT
AATGCCACTAAAGCTCAACATAAAACGACGACGTTGTGCTTAATTTTTTTGCGGCGTTTTTCAAA
AAGCGCTGCTAATGGTCGACCTATA
Found at i:25007960 original size:40 final size:40
Alignment explanation
Indices: 25007891--25007986 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
25007881 GTGGCGTTTG
**
25007891 TCAAAAAGCGT-CGCTAATGGTCGACCTATAGCGGCATTTT
1 TCAAAAAGC-TCCGCTAATACTCGACCTATAGCGGCATTTT
** * *
25007931 TTGAAAAGCTCCGCTAATACTCGATCTATAGCGGCGTTTT
1 TCAAAAAGCTCCGCTAATACTCGACCTATAGCGGCATTTT
*
25007971 TCAAAAAGCGCCGCTA
1 TCAAAAAGCTCCGCTA
25007987 CTGTTCGAGA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
39 1 0.02
40 45 0.98
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (40 bp):
TCAAAAAGCTCCGCTAATACTCGACCTATAGCGGCATTTT
Found at i:25023877 original size:40 final size:40
Alignment explanation
Indices: 25023833--25023967 Score: 148
Period size: 40 Copynumber: 3.2 Consensus size: 40
25023823 TAACGACATA
* * *
25023833 TCGGCTATGAA-TGGCACTTAGTGTGCGGTTTGAAATAGCT
1 TCGGCTAT-AAGTGGCACTTGGTGTGCGATTTGAGATAGCT
25023873 TCGGCTA-AATGTGGCACTTGGTGTGCGATTTGAGATAGCT
1 TCGGCTATAA-GTGGCACTTGGTGTGCGATTTGAGATAGCT
*
25023913 TCGACTATATATATATGTGGCACTTGGTGTGCGATTTGAGATAGCT
1 TCGGC----TATA-A-GTGGCACTTGGTGTGCGATTTGAGATAGCT
25023959 TCGGCTATA
1 TCGGCTATA
25023968 TATATGTGTG
Statistics
Matches: 82, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
38 2 0.02
40 37 0.45
42 4 0.05
44 2 0.02
45 1 0.01
46 36 0.44
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (40 bp):
TCGGCTATAAGTGGCACTTGGTGTGCGATTTGAGATAGCT
Found at i:25023948 original size:46 final size:46
Alignment explanation
Indices: 25023881--25023992 Score: 179
Period size: 46 Copynumber: 2.4 Consensus size: 46
25023871 CTTCGGCTAA
25023881 ATGTGGCACTTGGTGTGCGATTTGAGATAGCTTCGACTATATATAT
1 ATGTGGCACTTGGTGTGCGATTTGAGATAGCTTCGACTATATATAT
*
25023927 ATGTGGCACTTGGTGTGCGATTTGAGATAGCTTCGGCTATATATAT
1 ATGTGGCACTTGGTGTGCGATTTGAGATAGCTTCGACTATATATAT
* * * *
25023973 GTGTGACACTTAGTATGCGA
1 ATGTGGCACTTGGTGTGCGA
25023993 AATATTAAGA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 61 1.00
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.36
Consensus pattern (46 bp):
ATGTGGCACTTGGTGTGCGATTTGAGATAGCTTCGACTATATATAT
Found at i:25024049 original size:28 final size:28
Alignment explanation
Indices: 25023979--25024050 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
25023969 ATATGTGTGA
* *
25023979 CACTTAGTATGCGAAATATTAAGAACGG
1 CACTTAGTGTGCGAGATATTAAGAACGG
* * *
25024007 CACTTGGTGTGCGAGATATTAAGTATGG
1 CACTTAGTGTGCGAGATATTAAGAACGG
25024035 CACTTAGTGTGCGAGA
1 CACTTAGTGTGCGAGA
25024051 CATCGAAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (28 bp):
CACTTAGTGTGCGAGATATTAAGAACGG
Found at i:25026935 original size:29 final size:29
Alignment explanation
Indices: 25026900--25026955 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
25026890 TCGAGTAGTA
25026900 GGAGTAGAAGTCATAGTAGGTATAGTTTC
1 GGAGTAGAAGTCATAGTAGGTATAGTTTC
25026929 GGAGTAGAAGTCATAGTAGGTATAGTT
1 GGAGTAGAAGTCATAGTAGGTATAGTT
25026956 CCTACTGCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.30
Consensus pattern (29 bp):
GGAGTAGAAGTCATAGTAGGTATAGTTTC
Found at i:25027625 original size:21 final size:21
Alignment explanation
Indices: 25027560--25027614 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
25027550 GAGCAGTACC
* *
25027560 ACACACCCGTGTGGTTTAGAG
1 ACACGCCCGTGTGGTTTAGGG
25027581 ACACGCCCGTGTGGTTTAGGG
1 ACACGCCCGTGTGGTTTAGGG
25027602 ACACGCCCGTGTG
1 ACACGCCCGTGTG
25027615 TCTCTATGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.18, C:0.27, G:0.33, T:0.22
Consensus pattern (21 bp):
ACACGCCCGTGTGGTTTAGGG
Found at i:25030368 original size:23 final size:23
Alignment explanation
Indices: 25030342--25030389 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
25030332 TTCGAGATCA
25030342 TAATAGCTTTAATCTAGCTATCT
1 TAATAGCTTTAATCTAGCTATCT
25030365 TAATAGCTTTAATCTAGCTATCT
1 TAATAGCTTTAATCTAGCTATCT
25030388 TA
1 TA
25030390 GGGATTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.44
Consensus pattern (23 bp):
TAATAGCTTTAATCTAGCTATCT
Found at i:25030737 original size:21 final size:21
Alignment explanation
Indices: 25030713--25030752 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25030703 TTTGCCTAAG
*
25030713 ATATGAATTGGATTGAATTAA
1 ATATGAATTGGATTAAATTAA
*
25030734 ATATGAATTGTATTAAATT
1 ATATGAATTGGATTAAATT
25030753 GATGTTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (21 bp):
ATATGAATTGGATTAAATTAA
Found at i:25031184 original size:25 final size:25
Alignment explanation
Indices: 25031128--25031189 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
25031118 ATTTGGATCT
*
25031128 TATGAGCTTCCCGTTATATGGCTCA
1 TATGAGCTTCTCGTTATATGGCTCA
* * *
25031153 AAAGAGCTTCTCGTT-TATGCGCTCG
1 TATGAGCTTCTCGTTATATG-GCTCA
25031178 TATGAGCATTCT
1 TATGAGC-TTCT
25031190 TAAAAATGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 4 0.14
25 21 0.72
26 4 0.14
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (25 bp):
TATGAGCTTCTCGTTATATGGCTCA
Found at i:25034768 original size:43 final size:43
Alignment explanation
Indices: 25034720--25034814 Score: 147
Period size: 43 Copynumber: 2.2 Consensus size: 43
25034710 TGTGATAACA
* * *
25034720 TGTAAGACCATGTTTGGGATATTGGCATTGTATTAT-GATTACG
1 TGTAAGACCATGTTTGGGACATTGGCATTGT-TAATCGAATACG
25034763 TGTAAGACCATGTTTGGGACATTGGCATTGTTAATCGAATACG
1 TGTAAGACCATGTTTGGGACATTGGCATTGTTAATCGAATACG
25034806 TGTAAGACC
1 TGTAAGACC
25034815 CTATCTAGGA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
42 3 0.06
43 45 0.94
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (43 bp):
TGTAAGACCATGTTTGGGACATTGGCATTGTTAATCGAATACG
Found at i:25034868 original size:42 final size:43
Alignment explanation
Indices: 25034703--25034874 Score: 129
Period size: 43 Copynumber: 4.0 Consensus size: 43
25034693 ACATTAGGTT
* * *
25034703 ATCGATATGTGATAACATGTAAGACCATGTTTGGGATATTGGC
1 ATCGATATGTGATAACATGTAAGACCATATCTGGGATATTGAC
* * * * * * * *
25034746 ATTG-TATTATGATTACGTGTAAGACCATGTTTGGGACATTGGC
1 ATCGATA-TGTGATAACATGTAAGACCATATCTGGGATATTGAC
* * * * * *
25034789 ATTGTTAAT-CGA-ATACGTGTAAGACCCTATCTAGGATA-TGAC
1 ATCGAT-ATGTGATA-ACATGTAAGACCATATCTGGGATATTGAC
25034831 ATCGATATGTGATAACATGTAAGACCATATCTGGGATA-TGAC
1 ATCGATATGTGATAACATGTAAGACCATATCTGGGATATTGAC
25034873 AT
1 AT
25034875 TTTATGAGCT
Statistics
Matches: 104, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
41 2 0.02
42 38 0.37
43 61 0.59
44 2 0.02
45 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (43 bp):
ATCGATATGTGATAACATGTAAGACCATATCTGGGATATTGAC
Found at i:25049231 original size:43 final size:43
Alignment explanation
Indices: 25049174--25049328 Score: 127
Period size: 43 Copynumber: 3.6 Consensus size: 43
25049164 GTTATTAATA
* * * *
25049174 TGTGATAACATGTAAGACCATGTCTGA-GACATTGGCCTTGTGT
1 TGTGATTACGTGTAAGACCATGTCTGAGGACATTGGCATCGT-T
*
25049217 TGTGATTACGTGTAAGACTATGTCT-AGGACATTGGCATCGTT
1 TGTGATTACGTGTAAGACCATGTCTGAGGACATTGGCATCGTT
** * * * * *
25049259 AATCGATTACGTGTAAGACCCTGTCTG-GGATAATGGCATCAATA
1 TGT-GATTACGTGTAAGACCATGTCTGAGGACATTGGCATC-GTT
* * *
25049303 TGTGATAACATGTAAGACCATATCTG
1 TGTGATTACGTGTAAGACCATGTCTG
25049329 GGATATCGCA
Statistics
Matches: 89, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
42 3 0.03
43 84 0.94
44 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTGATTACGTGTAAGACCATGTCTGAGGACATTGGCATCGTT
Done.