Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 105 of 221
Found at i:32322016 original size:22 final size:22
Alignment explanation
Indices: 32321972--32322017 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
32321962 AGAATATTAT
* *
32321972 AAAAAATTATTACAAACTGTAA
1 AAAAAATAATTACAAACTATAA
32321994 AAAAAATAATTA-AAAGCTATAA
1 AAAAAATAATTACAAA-CTATAA
32322016 AA
1 AA
32322018 TTATAAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.65, C:0.07, G:0.04, T:0.24
Consensus pattern (22 bp):
AAAAAATAATTACAAACTATAA
Found at i:32322397 original size:21 final size:21
Alignment explanation
Indices: 32322359--32322398 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
32322349 ATTTGATTTT
*
32322359 TATATTATTAAATTATCATTA
1 TATATTATTAAATAATCATTA
* *
32322380 TATATTTTTATATAATCAT
1 TATATTATTAAATAATCAT
32322399 AAATTTAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
TATATTATTAAATAATCATTA
Found at i:32323422 original size:17 final size:18
Alignment explanation
Indices: 32323402--32323436 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
32323392 ATTTTTTTTC
32323402 CTAAATTATATTT-TTAT
1 CTAAATTATATTTATTAT
*
32323419 CTAAATTCTATTTATTAT
1 CTAAATTATATTTATTAT
32323437 TATTTTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (18 bp):
CTAAATTATATTTATTAT
Found at i:32329563 original size:29 final size:29
Alignment explanation
Indices: 32329530--32329600 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
32329520 AATCCCGAGA
*
32329530 TATTTTTTCAGAACCCATCTTGTCAAAAT
1 TATTTTTTCAGAACCCATCTCGTCAAAAT
* * *
32329559 TATTTTTTCAAAACTCATCTCGTCAAACT
1 TATTTTTTCAGAACCCATCTCGTCAAAAT
32329588 TATTTTTTCAGAA
1 TATTTTTTCAGAA
32329601 TCCCTAAACC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.44
Consensus pattern (29 bp):
TATTTTTTCAGAACCCATCTCGTCAAAAT
Found at i:32329967 original size:29 final size:28
Alignment explanation
Indices: 32329934--32329991 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 28
32329924 TTTATATTTT
*
32329934 TAACCCATTTCTGTAATTTTCAACAAAAG
1 TAACCCATTTCCGTAATTTTCAA-AAAAG
*
32329963 TAACCCATTTCCGTAATTTTTAAAAAAG
1 TAACCCATTTCCGTAATTTTCAAAAAAG
32329991 T
1 T
32329992 GGATCTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (28 bp):
TAACCCATTTCCGTAATTTTCAAAAAAG
Found at i:32336041 original size:24 final size:23
Alignment explanation
Indices: 32336014--32336060 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
32336004 TTGAATATTA
32336014 TTTAATT-TTTTTCATTTATATAAG
1 TTTAATTATTTTT-ATTT-TATAAG
32336038 TTTAATTAATTTTTATTTTATAA
1 TTTAATT-ATTTTTATTTTATAA
32336061 TTTTTTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 12 0.57
25 4 0.19
26 5 0.24
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (23 bp):
TTTAATTATTTTTATTTTATAAG
Found at i:32337586 original size:18 final size:18
Alignment explanation
Indices: 32337563--32337606 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
32337553 ATGCTAGGTG
*
32337563 TGTATCCTAGCCGTTATA
1 TGTATCCTAACCGTTATA
*
32337581 TGTATCCTAACCTTTATA
1 TGTATCCTAACCGTTATA
*
32337599 TGTTTCCT
1 TGTATCCT
32337607 GTTTCCAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.45
Consensus pattern (18 bp):
TGTATCCTAACCGTTATA
Found at i:32338114 original size:62 final size:60
Alignment explanation
Indices: 32337998--32338118 Score: 145
Period size: 62 Copynumber: 2.0 Consensus size: 60
32337988 ATTTGTACAA
* * ****
32337998 ATTTTTTATATTGTTTCATTTAATAAAATAAAAGTTTTTTTTAATATTTTAATAGTAAATT
1 ATTTTTTATATTGTCTCATTTAATAAAATAAAAGTTTTTTTGAATAAGACAATAG-AAATT
*
32338059 ATTTTTATATATTGTC-CTATTTAATAAAATAGAAGTTTTTTTGAATAAGACAATAGAAAT
1 ATTTTT-TATATTGTCTC-ATTTAATAAAATAAAAGTTTTTTTGAATAAGACAATAGAAAT
32338119 AATGCAACAT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
61 11 0.22
62 40 0.78
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (60 bp):
ATTTTTTATATTGTCTCATTTAATAAAATAAAAGTTTTTTTGAATAAGACAATAGAAATT
Found at i:32341365 original size:114 final size:115
Alignment explanation
Indices: 32341220--32341445 Score: 355
Period size: 114 Copynumber: 2.0 Consensus size: 115
32341210 TTTTCAAAAT
*
32341220 CGTCTTCTCAAAATTATTTTTTTAGGAACTACTACAGAAAAAGAGCATCCACGTGGGAGCTTTTT
1 CGTCTTCTCAAAATTATTTTTTTAGAAACTACTACAGAAAAAGAGCATCCACGTGGGAGCTTTTT
* * * *
32341285 TCAGTACTTTTGCTGACAGTGCATCCTGCTTGAAGCATTTTTGACACAAC
66 TCAGTACTTTTGCTGACAGTACACCCTGCTTAAAGAATTTTTGACACAAC
**
32341335 CGTCTTCTCAAAATTA-TTTTTTAGAAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTT
1 CGTCTTCTCAAAATTATTTTTTTAGAAACTACTACAGAAAAAGAGCATCCACGTGGGAGCTTTTT
* * *
32341399 TTAGTACTTTTGTTGATAGTACACCCTGCTTAAAGAATTTTTGACAC
66 TCAGTACTTTTGCTGACAGTACACCCTGCTTAAAGAATTTTTGACAC
32341446 TATTTTTTTT
Statistics
Matches: 101, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
114 85 0.84
115 16 0.16
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (115 bp):
CGTCTTCTCAAAATTATTTTTTTAGAAACTACTACAGAAAAAGAGCATCCACGTGGGAGCTTTTT
TCAGTACTTTTGCTGACAGTACACCCTGCTTAAAGAATTTTTGACACAAC
Found at i:32341663 original size:32 final size:33
Alignment explanation
Indices: 32341588--32341672 Score: 118
Period size: 34 Copynumber: 2.6 Consensus size: 33
32341578 ACAAAATTAT
* * *
32341588 TTTTAAAAATCCCCAAACCCTAATTTAATTTTTC
1 TTTTAAAAAACCCTAAACCCTAATTTAA-TTTTA
*
32341622 TTTTAAAAAACCTTAAACCCTAATTTAA-TTTA
1 TTTTAAAAAACCCTAAACCCTAATTTAATTTTA
32341654 TTTTAAAAAACCCTAAACC
1 TTTTAAAAAACCCTAAACC
32341673 TTAACCCCGC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 21 0.46
34 25 0.54
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (33 bp):
TTTTAAAAAACCCTAAACCCTAATTTAATTTTA
Found at i:32341747 original size:16 final size:17
Alignment explanation
Indices: 32341716--32341749 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
32341706 ACAAAACCCT
32341716 AACCCTAAACCCCATAA
1 AACCCTAAACCCCATAA
32341733 AACCCTAAA-CCCATAA
1 AACCCTAAACCCCATAA
32341749 A
1 A
32341750 CGCTAGGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.50, C:0.38, G:0.00, T:0.12
Consensus pattern (17 bp):
AACCCTAAACCCCATAA
Found at i:32342970 original size:18 final size:18
Alignment explanation
Indices: 32342933--32342971 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
32342923 AATTGAAATT
*
32342933 TATTTTATAATAAGATAA
1 TATTTTATAATAAGAAAA
*
32342951 TATTTTATAATAATAAAA
1 TATTTTATAATAAGAAAA
32342969 TAT
1 TAT
32342972 CATATATAAA
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:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
TATTTTATAATAAGAAAA
Found at i:32343195 original size:25 final size:24
Alignment explanation
Indices: 32343167--32343233 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 24
32343157 TTGTAATTTG
32343167 TAATATATATTTATTAATAAAATAT
1 TAATATATATTT-TTAATAAAATAT
*
32343192 TAATATAAATATTTTTCAATAATATAT
1 TAATAT--ATATTTTT-AATAAAATAT
*
32343219 TAAGA-ATATTTTTAA
1 TAATATATATTTTTAA
32343234 AATTTAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
23 2 0.05
24 8 0.22
25 6 0.16
26 2 0.05
27 19 0.51
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (24 bp):
TAATATATATTTTTAATAAAATAT
Found at i:32343317 original size:22 final size:21
Alignment explanation
Indices: 32343255--32343319 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 21
32343245 ATTATGGTTA
32343255 AATT-TATTATTAAAAT-AA-
1 AATTATATTATTAAAATAAAT
* * *
32343273 AATTGTAATATT-AAATAATT
1 AATTATATTATTAAAATAAAT
32343293 AATTATATTATTAAATATAAAT
1 AATTATATTATTAAA-ATAAAT
32343315 AATTA
1 AATTA
32343320 AATAGGTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
18 8 0.22
19 7 0.19
20 10 0.27
21 2 0.05
22 10 0.27
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
AATTATATTATTAAAATAAAT
Found at i:32343996 original size:13 final size:15
Alignment explanation
Indices: 32343978--32344010 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
32343968 TGAGTGAAAA
32343978 AGAAGAAAAG-AA-G
1 AGAAGAAAAGTAAGG
32343991 AGAAGAAAAGTAAGG
1 AGAAGAAAAGTAAGG
32344006 AGAAG
1 AGAAG
32344011 GAGAGGGCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 2 0.11
15 6 0.33
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (15 bp):
AGAAGAAAAGTAAGG
Found at i:32344082 original size:18 final size:18
Alignment explanation
Indices: 32344052--32344089 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
32344042 AAAAAAAGAG
32344052 AAGGAGAAAAGAGAGAGGA
1 AAGGAGAAAAGAGA-AGGA
32344071 AAGGAG-AAAGAGAAGGA
1 AAGGAGAAAAGAGAAGGA
32344088 AA
1 AA
32344090 AAAATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 7 0.37
19 6 0.32
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (18 bp):
AAGGAGAAAAGAGAAGGA
Found at i:32344991 original size:36 final size:37
Alignment explanation
Indices: 32344945--32345021 Score: 120
Period size: 39 Copynumber: 2.1 Consensus size: 37
32344935 TATGATGTGG
*
32344945 AAAAATTTGTTTGGTA-TTTTTTTTGTAATTAAAAGC
1 AAAAAATTGTTTGGTATTTTTTTTTGTAATTAAAAGC
32344981 AAAAAATTGTTTGGTATTTTTTTTTTTGTAATTAAAAGC
1 AAAAAATTGTTTGGTA--TTTTTTTTTGTAATTAAAAGC
32345020 AA
1 AA
32345022 TATATAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
36 15 0.41
39 22 0.59
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.49
Consensus pattern (37 bp):
AAAAAATTGTTTGGTATTTTTTTTTGTAATTAAAAGC
Found at i:32347950 original size:19 final size:19
Alignment explanation
Indices: 32347926--32347962 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
32347916 GGCACAGTGG
*
32347926 CCAACGGTCGACACGGTGA
1 CCAACGGGCGACACGGTGA
*
32347945 CCAACGGGCGGCACGGTG
1 CCAACGGGCGACACGGTG
32347963 GTCAATAGCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.32, G:0.38, T:0.08
Consensus pattern (19 bp):
CCAACGGGCGACACGGTGA
Found at i:32352991 original size:27 final size:27
Alignment explanation
Indices: 32352960--32353037 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
32352950 ACTAGGTGTA
*
32352960 CCGCCTATTAGATAGCCACCACTAGTG
1 CCGCCTATCAGATAGCCACCACTAGTG
* ** **
32352987 CCGCCTGTCAGATAGCCATAACCGGTG
1 CCGCCTATCAGATAGCCACCACTAGTG
32353014 CCGCCTATCAGATATG-CACCACTA
1 CCGCCTATCAGATA-GCCACCACTA
32353038 CTAAAATATT
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
27 38 0.97
28 1 0.03
ACGTcount: A:0.26, C:0.35, G:0.19, T:0.21
Consensus pattern (27 bp):
CCGCCTATCAGATAGCCACCACTAGTG
Found at i:32353991 original size:69 final size:69
Alignment explanation
Indices: 32353908--32354091 Score: 194
Period size: 69 Copynumber: 2.7 Consensus size: 69
32353898 ATATTGACTA
* *** * *
32353908 ACTCTCTTAGCTCACTGCTTTGCTAATTTCATTAAAAAGTTAATTTTAATCTAACATTGGCTAGA
1 ACTCTCGTAGCTCACTGCTAAACTAATTTCATTAAAAAGTTAATTTTAACCTAACATTGACTAGA
32353973 GAAT
66 GAAT
* * * *
32353977 ACTCTCGTAGCTCACTTCTAAACTATTTTCCTTAAAAAGTTAATTTTAACCTCACATTGACTAGA
1 ACTCTCGTAGCTCACTGCTAAACTAATTTCATTAAAAAGTTAATTTTAACCTAACATTGACTAGA
32354042 GAAT
66 GAAT
* * * * * * *
32354046 ACTCCCATAGCCCACT--T-CACTATTTTTATTAGAAAGTTAATTTTAA
1 ACTCTCGTAGCTCACTGCTAAACTAATTTCATTAAAAAGTTAATTTTAA
32354092 TCCCATATTA
Statistics
Matches: 98, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
66 25 0.26
67 1 0.01
69 72 0.73
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (69 bp):
ACTCTCGTAGCTCACTGCTAAACTAATTTCATTAAAAAGTTAATTTTAACCTAACATTGACTAGA
GAAT
Found at i:32354108 original size:66 final size:66
Alignment explanation
Indices: 32353934--32354115 Score: 197
Period size: 69 Copynumber: 2.7 Consensus size: 66
32353924 GCTTTGCTAA
** * * *
32353934 TTTCATTAAAAAGTTAATTTTAATCTAACATTGGCTAGAGAATACTCTCGTAGCTCACTTCTAAA
1 TTTCATTAAAAAGTTAATTTTAATCCCACATT-GCTAGAGAATACTCCCATAGCCCACTTC--AA
32353999 CTAT
63 CTAT
*
32354003 TTTCCTTAAAAAGTTAATTTTAA-CCTCACATTGACTAGAGAATACTCCCATAGCCCACTTC-AC
1 TTTCATTAAAAAGTTAATTTTAATCC-CACATTG-CTAGAGAATACTCCCATAGCCCACTTCAAC
32354066 TAT
64 TAT
* * * * *
32354069 TTTTATTAGAAAGTTAATTTTAATCCCATATTAGTTAGAGAACACTC
1 TTTCATTAAAAAGTTAATTTTAATCCCACATT-GCTAGAGAATACTC
32354116 TCATGCTCAC
Statistics
Matches: 97, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
66 41 0.42
67 3 0.03
68 2 0.02
69 51 0.53
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (66 bp):
TTTCATTAAAAAGTTAATTTTAATCCCACATTGCTAGAGAATACTCCCATAGCCCACTTCAACTA
T
Found at i:32355284 original size:28 final size:28
Alignment explanation
Indices: 32355248--32355323 Score: 118
Period size: 28 Copynumber: 2.7 Consensus size: 28
32355238 AAAAATAAAA
32355248 ATTTACCAAAATAT-TACAAATTTTTTTT
1 ATTTACCAAAATATATA-AAATTTTTTTT
*
32355276 ATTTACCAAAATATATAAACTTTTTTTT
1 ATTTACCAAAATATATAAAATTTTTTTT
*
32355304 ATTTATCAAAATATATAAAA
1 ATTTACCAAAATATATAAAA
32355324 AAACCAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
28 42 0.95
29 2 0.05
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.46
Consensus pattern (28 bp):
ATTTACCAAAATATATAAAATTTTTTTT
Found at i:32355426 original size:27 final size:27
Alignment explanation
Indices: 32355396--32355462 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
32355386 CGCCAATGGT
32355396 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
* **
32355423 ATTGGCGGCACCAATGGTGCCAATGCC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
32355450 ATTGGCGGCACCA
1 ATTGGCGGCACCA
32355463 GTTGGTATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.27, C:0.30, G:0.28, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAACC
Found at i:32355513 original size:4 final size:4
Alignment explanation
Indices: 32355504--32355635 Score: 85
Period size: 4 Copynumber: 31.2 Consensus size: 4
32355494 CAGAAGGAGG
* *
32355504 GAAA GAAA GAAA GAAA GGAGAG GAAA GAAA GAAA GGAGAG GAAA GAAA
1 GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA GAAA -GA-AA GAAA GAAA
*
32355552 GAAAA GGAAA GGAGAA GAAA -AAA -AAG GAAA GAAA G-AA G-AA GAAAA
1 G-AAA -GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA
*
32355597 GGAGAA GAGAA GAAA -AAA GAAA GAAA GAAG GAAA GAAA G
1 -GA-AA GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G
32355636 GGAAAGGAGA
Statistics
Matches: 107, Mismatches: 8, Indels: 26
0.76 0.06 0.18
Matches are distributed among these distances:
3 14 0.13
4 56 0.52
5 29 0.27
6 8 0.07
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:32355531 original size:14 final size:14
Alignment explanation
Indices: 32355503--32355635 Score: 79
Period size: 14 Copynumber: 9.7 Consensus size: 14
32355493 GCAGAAGGAG
32355503 GGAAAGAAAG-AAA
1 GGAAAGAAAGAAAA
* *
32355516 -GAAAGGAGAGGAAA
1 GGAAA-GAAAGAAAA
* *
32355530 -GAAAGAAAGGAGA
1 GGAAAGAAAGAAAA
32355543 GGAAAGAAAGAAAA
1 GGAAAGAAAGAAAA
32355557 GGAAAGGAGAAGAAAA
1 GGAAA-GA-AAGAAAA
*
32355573 -AAAAGGAAAG-AAA
1 GGAAA-GAAAGAAAA
32355586 -G-AAG-AAGAAAA
1 GGAAAGAAAGAAAA
32355597 GGAGAAGAGAAGAAAAA
1 GGA-AAGA-AAG-AAAA
*
32355614 AGAAAGAAAG--AA
1 GGAAAGAAAGAAAA
32355626 GGAAAGAAAG
1 GGAAAGAAAG
32355636 GGAAAGGAGA
Statistics
Matches: 99, Mismatches: 9, Indels: 25
0.74 0.07 0.19
Matches are distributed among these distances:
10 3 0.03
11 4 0.04
12 18 0.18
13 14 0.14
14 29 0.29
15 11 0.11
16 14 0.14
17 6 0.06
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
GGAAAGAAAGAAAA
Found at i:32355531 original size:18 final size:18
Alignment explanation
Indices: 32355508--32355667 Score: 108
Period size: 18 Copynumber: 9.1 Consensus size: 18
32355498 AGGAGGGAAA
32355508 GAAAGAAAGAAAGGAGAG
1 GAAAGAAAGAAAGGAGAG
32355526 GAAAGAAAGAAAGGAGAG
1 GAAAGAAAGAAAGGAGAG
*
32355544 GAAAGAAAGAAAAGGAAAG
1 GAAAGAAAG-AAAGGAGAG
32355563 GAGAAGAAA-AAA--A-AG
1 GA-AAGAAAGAAAGGAGAG
32355578 GAAAGAAAG-AA-GA-AG
1 GAAAGAAAGAAAGGAGAG
* * * *
32355593 AAAAG-GAGAAGAGAAGAA
1 GAAAGAAAGAA-AGGAGAG
*
32355611 AAAAGAAAGAAA-GA-AG
1 GAAAGAAAGAAAGGAGAG
32355627 GAAAGAAAGGGAAAGGAGAAG
1 GAAAGAAA--GAAAGGAG-AG
* *
32355648 AGAAA-AAAAAAAGAAGAG
1 -GAAAGAAAGAAAGGAGAG
32355666 GA
1 GA
32355668 GGGAAGAAAG
Statistics
Matches: 116, Mismatches: 11, Indels: 31
0.73 0.07 0.20
Matches are distributed among these distances:
14 10 0.09
15 12 0.10
16 10 0.09
17 4 0.03
18 43 0.37
19 22 0.19
20 6 0.05
21 5 0.04
22 4 0.03
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
GAAAGAAAGAAAGGAGAG
Found at i:32355551 original size:40 final size:38
Alignment explanation
Indices: 32355504--32355636 Score: 150
Period size: 38 Copynumber: 3.5 Consensus size: 38
32355494 CAGAAGGAGG
* *
32355504 GAAAGAAAGAAAGAAAGGAGAGGAAAGAAAGAAAGGAGAG
1 GAAAGAAAGAAAGAAAGGAGAAGAAAGAAA-AAAGGA-AA
32355544 GAAAGAAAGAAAAGGAAAGGAGAAG-AA-AAAAAAGGAAA
1 GAAAGAAAG-AAA-GAAAGGAGAAGAAAGAAAAAAGGAAA
32355582 GAAAG-AAG-AAGAAAAGGAGAAGAGAAGAAAAAA-GAAA
1 GAAAGAAAGAAAG-AAAGGAGAAGA-AAGAAAAAAGGAAA
*
32355619 GAAAGAAGGAAAGAAAGG
1 GAAAGAAAGAAAGAAAGG
32355637 GAAAGGAGAA
Statistics
Matches: 82, Mismatches: 3, Indels: 18
0.80 0.03 0.17
Matches are distributed among these distances:
34 1 0.01
35 12 0.15
37 14 0.17
38 19 0.23
39 9 0.11
40 12 0.15
41 5 0.06
42 10 0.12
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (38 bp):
GAAAGAAAGAAAGAAAGGAGAAGAAAGAAAAAAGGAAA
Found at i:32355661 original size:37 final size:37
Alignment explanation
Indices: 32355504--32355663 Score: 148
Period size: 39 Copynumber: 4.2 Consensus size: 37
32355494 CAGAAGGAGG
* * * *
32355504 GAAAGAAAGAAAG-AAAGGAGAGGA-AAGAAAGAAAG
1 GAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAAA
* *
32355539 GAGAGGAAAGAAAGAAAAGGAAAGGAGAAGAAAAAAAA
1 GA-AAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAAA
*
32355577 GGAAAGAAAGAAGAAGAAAAGGAGAA-GAGAAGAAAAAAGAAA
1 -GAAAG-AAGGA-AAGAAAAGGA-AAGGAGAAG-AAAAA-AAA
*
32355619 GAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAA
1 GAAAGAAGGAAAGAAAAGGAAAGGAGAAGA-AAAAAAA
32355657 -AAAGAAG
1 GAAAGAAG
32355664 AGGAGGGAAG
Statistics
Matches: 105, Mismatches: 9, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
35 2 0.02
36 10 0.10
37 17 0.16
38 17 0.16
39 24 0.23
40 20 0.19
41 12 0.11
42 3 0.03
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (37 bp):
GAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAAA
Found at i:32355681 original size:41 final size:40
Alignment explanation
Indices: 32355497--32355694 Score: 149
Period size: 42 Copynumber: 4.8 Consensus size: 40
32355487 GTGGGGGCAG
** *
32355497 AAGGAGGGAAAGAAA-GAAA-GAAAGGAGAGGAAAGAAAGA
1 AAGGAGGG-AAGAAAGGAAAGGAAAGGAGAAAAAAAAAAGA
*
32355536 AAGGAGAGGAAAGAAAGAAAAGGAAAGGAGAAGAAAAAAAAGGA
1 AAGGAG-GG-AAGAAAGGAAAGGAAAGGAGAA-AAAAAAAA-GA
** * *
32355580 AA-GAAAGAAG-AAGAAAAGGAGAAGAGAAGAAAAAAGAAAGA
1 AAGGAGGGAAGAAAGGAAAGGA-AAG-G-AGAAAAAAAAAAGA
* *
32355621 AAGAAGGAAAGAAAGGGAAAGGAGAA-GAGAAAAAAAAAAGA
1 AAGGAGGGAAGAAA-GGAAAGGA-AAGGAGAAAAAAAAAAGA
*
32355662 AGAGGAGGGAAGAAAGGAAA-AAAAGG-GAAAAAA
1 A-AGGAGGGAAGAAAGGAAAGGAAAGGAGAAAAAA
32355695 GGTAATTTTA
Statistics
Matches: 130, Mismatches: 16, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
39 15 0.12
40 21 0.16
41 32 0.25
42 34 0.26
43 14 0.11
44 14 0.11
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (40 bp):
AAGGAGGGAAGAAAGGAAAGGAAAGGAGAAAAAAAAAAGA
Found at i:32362025 original size:15 final size:12
Alignment explanation
Indices: 32361988--32362018 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
32361978 AAAAAAATTT
*
32361988 ATACTCAAAATA
1 ATACACAAAATA
32362000 ATACACAAAATA
1 ATACACAAAATA
32362012 ATACACA
1 ATACACA
32362019 CTAAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.61, C:0.19, G:0.00, T:0.19
Consensus pattern (12 bp):
ATACACAAAATA
Found at i:32362073 original size:23 final size:23
Alignment explanation
Indices: 32362016--32362073 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 23
32362006 AAAATAATAC
* *
32362016 ACACTAAA-ATTATTAATTTTAT
1 ACACAAAATATTAATAATTTTAT
32362038 ACTACGAATAATATTAATAATTTTAT
1 AC-AC-AA-AATATTAATAATTTTAT
32362064 ACACAAAATA
1 ACACAAAATA
32362074 ATACACACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
22 2 0.07
23 6 0.20
24 3 0.10
25 4 0.13
26 15 0.50
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (23 bp):
ACACAAAATATTAATAATTTTAT
Found at i:32362073 original size:26 final size:26
Alignment explanation
Indices: 32362024--32362076 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
32362014 ACACACTAAA
* *
32362024 ATTATTAATTTTATACTACGAATAAT
1 ATTAATAATTTTATACTACAAATAAT
32362050 ATTAATAATTTTATAC-ACAAAATAAT
1 ATTAATAATTTTATACTAC-AAATAAT
32362076 A
1 A
32362077 CACACTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 2 0.08
26 22 0.92
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.42
Consensus pattern (26 bp):
ATTAATAATTTTATACTACAAATAAT
Found at i:32362262 original size:3 final size:3
Alignment explanation
Indices: 32362254--32362282 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
32362244 TCTTCATACT
32362254 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
32362283 TAATAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:32362382 original size:19 final size:21
Alignment explanation
Indices: 32362358--32362396 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
32362348 ACTAAAACAA
*
32362358 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
32362377 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
32362397 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:32362698 original size:26 final size:27
Alignment explanation
Indices: 32362637--32362698 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
32362627 GTTTTTTTTA
*
32362637 ATATATTTTGGTAAATAAAAAAAGTTT
1 ATATATTTTGGCAAATAAAAAAAGTTT
*
32362664 ATATGTTTTGGCAAATAAAAAAA-TTGT
1 ATATATTTTGGCAAATAAAAAAAGTT-T
32362691 A-ATATTTT
1 ATATATTTT
32362699 AATAAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.26
27 23 0.74
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.42
Consensus pattern (27 bp):
ATATATTTTGGCAAATAAAAAAAGTTT
Found at i:32365157 original size:24 final size:21
Alignment explanation
Indices: 32365109--32365157 Score: 53
Period size: 24 Copynumber: 2.2 Consensus size: 21
32365099 TTGCTTATCA
*
32365109 ATTTGCTTATTTTGCCTTGAT
1 ATTTGCTTATTTTGCCTTGAG
*
32365130 ATTTGCTTCATGTTTAGCTTTGAG
1 ATTTGCTT-AT-TTT-GCCTTGAG
32365154 ATTT
1 ATTT
32365158 ATATTGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 8 0.35
22 2 0.09
23 3 0.13
24 10 0.43
ACGTcount: A:0.16, C:0.12, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTTGCTTATTTTGCCTTGAG
Found at i:32373375 original size:24 final size:25
Alignment explanation
Indices: 32373312--32373377 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
32373302 AAGGGAATAG
*
32373312 GGGAAGGAA-ATGAGGAAAAATGGAA
1 GGGAATGAAGATGA-GAAAAATGGAA
32373337 GGGAATGAAGA-GAGAAAAATGAGAA
1 GGGAATGAAGATGAGAAAAATG-GAA
*
32373362 GTGAA-G-AGATGAGAAA
1 GGGAATGAAGATGAGAAA
32373378 GGTTGAGATG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
23 3 0.08
24 15 0.42
25 17 0.47
26 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.38, T:0.09
Consensus pattern (25 bp):
GGGAATGAAGATGAGAAAAATGGAA
Found at i:32376398 original size:16 final size:17
Alignment explanation
Indices: 32376374--32376410 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
32376364 GTTTTATCAA
*
32376374 TTTAGTCATTTGTTTAT
1 TTTAGTCATTTATTTAT
32376391 TTTA-TCATTTATTTAT
1 TTTAGTCATTTATTTAT
32376407 TTTA
1 TTTA
32376411 ATTATTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTAGTCATTTATTTAT
Found at i:32383266 original size:35 final size:35
Alignment explanation
Indices: 32383234--32383348 Score: 101
Period size: 35 Copynumber: 3.3 Consensus size: 35
32383224 AGATTTATTC
*
32383234 GACTAGTGCAGCGCACACCTATCGCCAGTTTATCT
1 GACTAGTGCAGCGCACACCTATCGTCAGTTTATCT
* * * * *
32383269 GACTAGCACTG-GGCGCAAAAC-ATTGTCGGTTTAT-T
1 GACTAG---TGCAGCGCACACCTATCGTCAGTTTATCT
* *
32383304 CAACTAGTGCAGGGCACACCTATCGTCAGTTTATCT
1 -GACTAGTGCAGCGCACACCTATCGTCAGTTTATCT
32383340 GACTAGTGC
1 GACTAGTGC
32383349 TGGGCGCAAA
Statistics
Matches: 59, Mismatches: 14, Indels: 14
0.68 0.16 0.16
Matches are distributed among these distances:
33 2 0.03
34 6 0.10
35 26 0.44
36 16 0.27
37 7 0.12
38 2 0.03
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (35 bp):
GACTAGTGCAGCGCACACCTATCGTCAGTTTATCT
Found at i:32383302 original size:36 final size:36
Alignment explanation
Indices: 32383259--32383383 Score: 121
Period size: 36 Copynumber: 3.5 Consensus size: 36
32383249 CACCTATCGC
**
32383259 CAGTTTATCTGACTAGCACTGGGCGCAAAACATTGT
1 CAGTTTATCTGACTAGTGCTGGGCGCAAAACATTGT
* * * * * *
32383295 CGGTTTAT-TCAACTAGTGC-AGG-GCACACCTATCGT
1 CAGTTTATCT-GACTAGTGCTGGGCGCAAAAC-ATTGT
32383330 CAGTTTATCTGACTAGTGCTGGGCGCAAAACATTGT
1 CAGTTTATCTGACTAGTGCTGGGCGCAAAACATTGT
* *
32383366 CAATTTATCCGACTAGTG
1 CAGTTTATCTGACTAGTG
32383384 TAACCCATCG
Statistics
Matches: 68, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
34 5 0.07
35 22 0.32
36 36 0.53
37 5 0.07
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (36 bp):
CAGTTTATCTGACTAGTGCTGGGCGCAAAACATTGT
Found at i:32383315 original size:71 final size:70
Alignment explanation
Indices: 32383199--32383425 Score: 275
Period size: 71 Copynumber: 3.3 Consensus size: 70
32383189 GGTTCGTCCA
* * * * *
32383199 ACTAGCGCTGGGTGCAAATCATTGTAGATTTATTCGACTAGTGCAGCGCACACCTATCGCCAGTT
1 ACTAGCACTGGGCGCAAAACATTGTCGATTTATTCGACTAGTGCAG-GCACACCTATCGTCAGTT
32383264 TATCTG
65 TATCTG
* *
32383270 ACTAGCACTGGGCGCAAAACATTGTCGGTTTATTCAACTAGTGCAGGGCACACCTATCGTCAGTT
1 ACTAGCACTGGGCGCAAAACATTGTCGATTTATTCGACTAGTGCA-GGCACACCTATCGTCAGTT
32383335 TATCTG
65 TATCTG
** * * * * *
32383341 ACTAGTGCTGGGCGCAAAACATTGTCAATTTATCCGACTAGTGTA---AC-CC-ATCGTCTGGTT
1 ACTAGCACTGGGCGCAAAACATTGTCGATTTATTCGACTAGTGCAGGCACACCTATCGTCAGTTT
32383401 ATCTG
66 ATCTG
32383406 ACTAGCACTGGGCGCAAAAC
1 ACTAGCACTGGGCGCAAAAC
32383426 TTAGTTATGG
Statistics
Matches: 137, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
65 32 0.23
66 2 0.01
67 2 0.01
71 100 0.73
72 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (70 bp):
ACTAGCACTGGGCGCAAAACATTGTCGATTTATTCGACTAGTGCAGGCACACCTATCGTCAGTTT
ATCTG
Found at i:32388640 original size:13 final size:13
Alignment explanation
Indices: 32388622--32388646 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32388612 CTTATTTAAA
32388622 TAAAATAAAATAG
1 TAAAATAAAATAG
32388635 TAAAATAAAATA
1 TAAAATAAAATA
32388647 AAAGTAAAAT
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:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (13 bp):
TAAAATAAAATAG
Found at i:32390599 original size:29 final size:29
Alignment explanation
Indices: 32390567--32390640 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
32390557 TTGATGATTT
*
32390567 TTTCAACATTTTTAATTTATTTCAACTTA
1 TTTCAACATTTTTAATTTATTTAAACTTA
* * *
32390596 TTTCAATATTGTTAATTTATTTAAATTTA
1 TTTCAACATTTTTAATTTATTTAAACTTA
*
32390625 TTTTAACA-TTTTAATT
1 TTTCAACATTTTTAATT
32390641 GATATATTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 7 0.18
29 31 0.82
ACGTcount: A:0.32, C:0.08, G:0.01, T:0.58
Consensus pattern (29 bp):
TTTCAACATTTTTAATTTATTTAAACTTA
Found at i:32394962 original size:22 final size:21
Alignment explanation
Indices: 32394920--32394972 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
32394910 ATCAAAAATG
*
32394920 AAAAG-AAAAGAAAAATAAGA
1 AAAAGAAAAAGAAAAAAAAGA
*
32394940 AAAATAAAAAGAAAAAAAGAGA
1 AAAAGAAAAAGAAAAAAA-AGA
32394962 AAAAGAAAAAG
1 AAAAGAAAAAG
32394973 GATAGGTCAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 4 0.14
21 11 0.39
22 13 0.46
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (21 bp):
AAAAGAAAAAGAAAAAAAAGA
Found at i:32394964 original size:16 final size:15
Alignment explanation
Indices: 32394913--32394971 Score: 64
Period size: 15 Copynumber: 3.7 Consensus size: 15
32394903 CATCCAAATC
32394913 AAAAATGAAAAGAAAAG
1 AAAAA-GAAAA-AAAAG
* * *
32394930 AAAAATAAGAAAAAT
1 AAAAAGAAAAAAAAG
32394945 AAAAAGAAAAAAAGAG
1 AAAAAGAAAAAAA-AG
32394961 AAAAAGAAAAA
1 AAAAAGAAAAA
32394972 GGATAGGTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
15 15 0.43
16 15 0.43
17 5 0.14
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (15 bp):
AAAAAGAAAAAAAAG
Found at i:32396929 original size:4 final size:4
Alignment explanation
Indices: 32396922--32396956 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
32396912 CAGTCTCAAA
32396922 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
32396957 ATTCTGCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:32397555 original size:264 final size:264
Alignment explanation
Indices: 32397224--32397837 Score: 937
Period size: 264 Copynumber: 2.3 Consensus size: 264
32397214 GTAGATCGCA
* * * *
32397224 TCAGGTCTTACCTCCCTAAGGTTACAGTGGAGTAGGCAGAAGAATTTCAGATCTTATCTCCTTGA
1 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACAGAACAATTTCAGATCTTATCTCCTTGA
*
32397289 GGTTACAGTGGAGCAAATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGA
66 GGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGA
* * *
32397354 AGACACTACCCTATCTCCCTGAAGTTATAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTG
131 AGACACTACCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCACTCTG
** *
32397419 AAGTTACAGTAGAGTAGATTGCATCAGGTCTTATCTCCCTGAGGTTACAGTAGAGTAGATCGAAG
196 AAGTTACAGTAGAGTAGATCCCATCAGGTCTTATCTCCCTGAGGTTACAGTAGAGTAGACCGAAG
32397484 AATT
261 AATT
* *
32397488 TCAGGTCTTATCTTCCTGAGGTTACAGTGGAGTAGACCGAACAATTTCAGATCTTATCTCCTTGA
1 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACAGAACAATTTCAGATCTTATCTCCTTGA
* *
32397553 GGTTACAGTGGAGCAGATTAAAGCCAGAGATCTTATCTCCTTGAGATTACAGCAGAGCAGATTGA
66 GGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGA
* *
32397618 AGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGTATCTTATCACTCTG
131 AGACACTACCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCACTCTG
* * *
32397683 AAGTTACAGTAGAGTAGATCCCATCAGGTCTTATCTCCCTGAGGTTATAGTGGAGTAGACCGATG
196 AAGTTACAGTAGAGTAGATCCCATCAGGTCTTATCTCCCTGAGGTTACAGTAGAGTAGACCGAAG
32397748 AATT
261 AATT
* * * ** * *
32397752 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCA---GAGATCTTATCTCCTTG
1 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACAGAA-CAATTTCAGATCTTATCTCCTTG
* *
32397814 AGATTACAGCGGAGCAGATTGAAG
65 AGGTTACAGTGGAGCAGATTGAAG
32397838 ACACTATCCT
Statistics
Matches: 318, Mismatches: 31, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
262 37 0.12
264 279 0.88
265 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (264 bp):
TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACAGAACAATTTCAGATCTTATCTCCTTGA
GGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGA
AGACACTACCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCACTCTG
AAGTTACAGTAGAGTAGATCCCATCAGGTCTTATCTCCCTGAGGTTACAGTAGAGTAGACCGAAG
AATT
Found at i:32397690 original size:87 final size:86
Alignment explanation
Indices: 32397273--32397701 Score: 287
Period size: 87 Copynumber: 4.9 Consensus size: 86
32397263 AAGAATTTCA
* * * * *** * *
32397273 GATCTTATCTCCTTGAGGTTACAGTGGAGCAAATTGAAGCCAGAGATCTTATCTCCCTG-AGATT
1 GATCCTATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAATAAAGATCTTATCTCTCTGAAG-TT
* *
32397337 ACAGCAGAGCAGATTGAAGACAC
64 ACAGTAGAGTAGATTGAAGACAC
* * * **
32397360 TACCCTATCTCCCTGAAGTTATAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTA
1 GATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAA-GATCTTATCTCTCTGAAGTTA
* *
32397425 CAGTAGAGTAGATTGCA-TCA-
65 CAGTAGAGTAGATTGAAGACAC
* * * * * * ** * *
32397445 GGTCTTATCTCCCTGAGGTTACAGTAGAGTAGATCGAAGAATTTCAGGTCTTATCT-TCCTGAGG
1 GATCCTATCTCCCTGAAGTTACAGTGGAGCAGAT-TAA-AA-TAAAGATCTTATCTCT-CTGAAG
* ** *
32397509 TTACAGTGGAGTAGACCGAACA-ATTTC
62 TTACAGTAGAGTAGATTGAAGACA---C
* * * ** *
32397536 AGATCTTATCTCCTTGAGGTTACAGTGGAGCAGATTAAAGCCAGAGATCTTATCTC-CTTG-AGA
1 -GATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA-ATAAAGATCTTATCTCTC-TGAAG-
* *
32397599 TTACAGCAGAGCAGATTGAAGACAC
62 TTACAGTAGAGTAGATTGAAGACAC
* * *
32397624 TATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGTATCTTATCACTCTGAAGTTA
1 GATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAAG-ATCTTATCTCTCTGAAGTTA
32397689 CAGTAGAGTAGAT
65 CAGTAGAGTAGAT
32397702 CCCATCAGGT
Statistics
Matches: 258, Mismatches: 64, Indels: 40
0.71 0.18 0.11
Matches are distributed among these distances:
85 26 0.10
86 12 0.05
87 148 0.57
88 8 0.03
89 2 0.01
90 29 0.11
91 3 0.01
92 30 0.12
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (86 bp):
GATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAAAGATCTTATCTCTCTGAAGTTAC
AGTAGAGTAGATTGAAGACAC
Found at i:32397716 original size:218 final size:218
Alignment explanation
Indices: 32397488--32398153 Score: 883
Period size: 218 Copynumber: 3.1 Consensus size: 218
32397478 TCGAAGAATT
* * *
32397488 TCAGGTCTTATCTTCCTGAGGTTACAGTGGAGTAGACCGAACAATTTCAGATCTTATCTCCTTGA
1 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGA
* *
32397553 GGTTACAGTGGAGCAGATTAAAGCCAGAGATCTTATCTCCTTGAGATTACAGCAGAGCAGATTGA
66 GGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGA
*
32397618 AGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGTATCTTATCACTCTG
131 AGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCACTCTG
32397683 AAGTTACAGTAGAGTAGATCCCA
196 AAGTTACAGTAGAGTAGATCCCA
* *
32397706 TCAGGTCTTATCTCCCTGAGGTTATAGTGGAGTAGACCGATGAATTTCAGATCTTATCTCCCTGA
1 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGA
*
32397771 GATTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGA
66 GGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGA
* * *
32397836 AGACACTATCCTATCTCCCTGAAGTTATAGTGGAGCGAATTAAAATAAAGGATCTTATCTCTCTG
131 AGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCACTCTG
**
32397901 AAGTTACAGTAGAGTAGATTGCA
196 AAGTTACAGTAGAGTAGATCCCA
* * * *
32397924 TTAGGTCTTGTCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTTAGATCTTATCTCCCTAA
1 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGA
* * ** * * *
32397989 GCAG-T--AGTGGAGCAGATCGAGGATACCA-ATCTTATCTCCCTGAGATTATAGCGGAGCAGAT
66 G--GTTACAGTGGAGCAGATTGAAGCCA-GAGATCTTATCTCCTTGAGATTACAGCGGAGCAGAT
** * ** * * * * * * * *
32398050 AAAAGCCAGAAATCTTATTTCCCTGAAGTTGCAGTGGAGCGGATAAAAATGATGGATCTCATCCC
128 TGAAGACA-CTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCAC
* * *
32398115 TCTGAAGTTGCAGTAGAGCAGATCTCA
192 TCTGAAGTTACAGTAGAGTAGATCCCA
*
32398142 TCA-GACTTATCT
1 TCAGGTCTTATCT
32398154 TTAAAAGTTG
Statistics
Matches: 394, Mismatches: 50, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
217 59 0.15
218 334 0.85
219 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (218 bp):
TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGA
GGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGA
AGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCACTCTG
AAGTTACAGTAGAGTAGATCCCA
Found at i:32397777 original size:87 final size:84
Alignment explanation
Indices: 32397269--32397788 Score: 224
Period size: 87 Copynumber: 6.0 Consensus size: 84
32397259 GCAGAAGAAT
* ** **
32397269 TTCAGATCTTATCTCCTTGAGGTTACAGTGGAGCAAATTG-AAGCCAGAGATCTTATCTCCCTGA
1 TTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCCGA-TGAAATTC--AGATCTTATCTCCCTGA
* * ***
32397333 GATTACAGCAGAGCAGATTGAA
63 GATTACAGTAGAGTAGATCCCA
** * * * * * ** * ** *
32397355 GACACTACCCTATCTCCCTGAAGTTATAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGA
1 TTCA-GATCTTATCTCCCTGAGGTTACAGTGGAGCCGA-TGAAATTCA-GATCTTATCTCCCTGA
**
32397420 -AGTTACAGTAGAGTAGATTGCA
63 GA-TTACAGTAGAGTAGATCCCA
* * * * * *
32397442 -TCAGGTCTTATCTCCCTGAGGTTACAGTAGAGTAGATCGAAGAATTTCAGGTCTTATCTTCCTG
1 TTCAGATCTTATCTCCCTGAGGTTACAGT-G-G-AG-CCGATGAAATTCAGATCTTATCTCCCTG
* *
32397506 AGGTTACAGTGGAGTAGA-CCGAACAA
62 AGATTACAGTAGAGTAGATCC---C-A
* * * ** *
32397532 TTTCAGATCTTATCTCCTTGAGGTTACAGTGGAGCAGATTAAAGCCAGAGATCTTATCTCCTTGA
1 -TTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCCGATGAAATTC--AGATCTTATCTCCCTGA
* * ***
32397597 GATTACAGCAGAGCAGATTGAA
63 GATTACAGTAGAGTAGATCCCA
** * * * * * ** * *
32397619 GACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGTATCTTATCACTCTGA
1 TTCA-GATCTTATCTCCCTGAGGTTACAGTGGAGCCGA-TGAAATTCAG-ATCTTATCTCCCTGA
32397684 -AGTTACAGTAGAGTAGATCCCA
63 GA-TTACAGTAGAGTAGATCCCA
* * *
32397706 -TCAGGTCTTATCTCCCTGAGGTTATAGTGGAGTAGACCGATGAATTTCAGATCTTATCTCCCTG
1 TTCAGATCTTATCTCCCTGAGGTTACAGT-G-G-AG-CCGATGAAATTCAGATCTTATCTCCCTG
* *
32397770 AGATTACAGTGGAGCAGAT
62 AGATTACAGTAGAGTAGAT
32397789 TGAAGCCAGA
Statistics
Matches: 315, Mismatches: 92, Indels: 53
0.68 0.20 0.12
Matches are distributed among these distances:
85 39 0.12
86 15 0.05
87 170 0.54
88 26 0.08
89 9 0.03
90 29 0.09
91 1 0.00
92 26 0.08
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (84 bp):
TTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCCGATGAAATTCAGATCTTATCTCCCTGAGAT
TACAGTAGAGTAGATCCCA
Found at i:32398418 original size:44 final size:44
Alignment explanation
Indices: 32398354--32398550 Score: 172
Period size: 44 Copynumber: 4.5 Consensus size: 44
32398344 CATCCATTCT
*
32398354 TATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGAAACCAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
* ** ** * *
32398398 TATCTCCCTGAAGGTGCAGTGGAGTGGA-TTAA-AACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAAC-CA-ATCC
* * * * * * *
32398442 TATCTCTCTGAAGTTGCAAT--AG-AG-CAGATCGCATCCAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGA-AGAAACCAATCC
32398483 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
* *
32398527 TATCTCCCTGAAGGTGAAGTGGAG
1 TATCTCCCTGAAGTTGCAGTGGAG
32398551 TGCATTAAAA
Statistics
Matches: 117, Mismatches: 27, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
41 23 0.20
42 7 0.06
43 8 0.07
44 75 0.64
45 4 0.03
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
Found at i:32398575 original size:44 final size:43
Alignment explanation
Indices: 32398351--32398583 Score: 131
Period size: 44 Copynumber: 5.4 Consensus size: 43
32398341 CCGCATCCAT
* **
32398351 TCTTATCTCCCTGAA-GTTACAGTGGAGCAGACAGAAGAAACCA-A
1 TCTTATCTCCCTGAAGGTGA-AGTGGAGCAG-CATTA-AAACCAGA
* * * *
32398395 TCCTATCTCCCTGAAGGTGCAGTGGAG-TGGATTAAAACCACAGA
1 TCTTATCTCCCTGAAGGTGAAGTGGAGCAGCATTAAAA-C-CAGA
* * * *** *
32398439 TCTTATCTCTCTGAAGTTGCAA-TAGAGCAG-ATCGCATCCAG-
1 TCTTATCTCCCTGAAGGTG-AAGTGGAGCAGCATTAAAACCAGA
* * **
32398480 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCA-A
1 TCTTATCTCCCTGAAGGTGAAGTGGAGCAG-CATTA-AAACCAGA
* *
32398524 TCCTATCTCCCTGAAGGTGAAGTGGAG-TGCATTAAAACCATAGA
1 TCTTATCTCCCTGAAGGTGAAGTGGAGCAGCATTAAAACC--AGA
*
32398568 TCTTATCTCTCTGAAG
1 TCTTATCTCCCTGAAG
32398584 TTGCAGTAAA
Statistics
Matches: 142, Mismatches: 33, Indels: 28
0.70 0.16 0.14
Matches are distributed among these distances:
40 1 0.01
41 33 0.23
42 9 0.06
43 7 0.05
44 88 0.62
45 4 0.03
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGGTGAAGTGGAGCAGCATTAAAACCAGA
Found at i:32398646 original size:129 final size:129
Alignment explanation
Indices: 32398264--32398639 Score: 576
Period size: 129 Copynumber: 2.9 Consensus size: 129
32398254 ACAAGGCACA
* * * * *
32398264 AATCCTATCTCCCTGAAGTTGTAGTAGAGTGGATTAAAACCACAGATCTTATCTCTTTGAAGTTA
1 AATCCTATCTCCCTGAAGGTGAAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
* * *
32398329 CAGTAGAGCAGACCGCATCCATTCTTATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGAAACC
66 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACC
*
32398393 AATCCTATCTCCCTGAAGGTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGGTGAAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
*
32398458 CAATAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACC
66 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACC
* *
32398522 AATCCTATCTCCCTGAAGGTGAAGTGGAGTGCATTAAAACCATAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGGTGAAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
* * * *
32398587 CAGTAAAGTAGATCGCAT-CAGGTCTTATC-CCCTTGAAGTTGCAGAGGGGCAGA
66 CAGTAGAGCAGATCGCATCCA-GTCTTATCTCCC-TGAAGTTGCAGTGGAGCAGA
32398640 TTGAAGATGG
Statistics
Matches: 228, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
128 5 0.02
129 223 0.98
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (129 bp):
AATCCTATCTCCCTGAAGGTGAAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACC
Found at i:32400208 original size:22 final size:21
Alignment explanation
Indices: 32400157--32400209 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
32400147 GTTATATTCA
*
32400157 AATATATTTATTTTAAAATTT
1 AATATATTTTTTTTAAAATTT
*
32400178 AACTCT-TTTTTGTTT-AAATTT
1 AA-TATATTTTT-TTTAAAATTT
32400199 AATATATTTTT
1 AATATATTTTT
32400210 AATTTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
20 2 0.08
21 19 0.73
22 5 0.19
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (21 bp):
AATATATTTTTTTTAAAATTT
Found at i:32400623 original size:29 final size:28
Alignment explanation
Indices: 32400578--32400672 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 28
32400568 CTCTTTCAAA
* *
32400578 TATTTTAACATTTTTAATTTATTTCAACT
1 TATTTCAACA-TTTTAATTTATTTAAACT
* *
32400607 TATTTCAATATTGTTAATTTATTTAAATT
1 TATTTCAACATT-TTAATTTATTTAAACT
* *
32400636 TATTTTAACATTTTAATTGATATATTATACT
1 TATTTCAACATTTTAATT--TAT-TTAAACT
32400667 TATTTC
1 TATTTC
32400673 TTAAATTATG
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
28 8 0.15
29 32 0.60
30 3 0.06
31 10 0.19
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (28 bp):
TATTTCAACATTTTAATTTATTTAAACT
Found at i:32411715 original size:16 final size:17
Alignment explanation
Indices: 32411677--32411717 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
32411667 CCTTCAAAAA
*
32411677 ATATATATTGTAAATGTT
1 ATAT-TATTGTAAATCTT
32411695 A-ATTATTGTAAA-CTT
1 ATATTATTGTAAATCTT
32411710 ATATTATT
1 ATATTATT
32411718 TATTTTCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 15 0.71
17 2 0.10
18 1 0.05
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (17 bp):
ATATTATTGTAAATCTT
Found at i:32412712 original size:17 final size:18
Alignment explanation
Indices: 32412676--32412718 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
32412666 TTTAAAAATT
32412676 TAAAATATAAAAGAATACA
1 TAAAA-ATAAAAGAATACA
*
32412695 TAAAAATAAAA-TATACA
1 TAAAAATAAAAGAATACA
32412712 TAAAAAT
1 TAAAAAT
32412719 CTTAATTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.52
18 6 0.26
19 5 0.22
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (18 bp):
TAAAAATAAAAGAATACA
Found at i:32413045 original size:19 final size:19
Alignment explanation
Indices: 32413012--32413064 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
32413002 TTCATAATAG
32413012 TAATTCATCAA-CATTTAAC
1 TAATT-ATCAATCATTTAAC
* *
32413031 TAA-TATCATATCATTTCAG
1 TAATTATCA-ATCATTTAAC
32413050 TAATTATCAATCATT
1 TAATTATCAATCATT
32413065 CATATTCGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 4 0.14
18 2 0.07
19 18 0.62
20 5 0.17
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.42
Consensus pattern (19 bp):
TAATTATCAATCATTTAAC
Found at i:32413979 original size:23 final size:26
Alignment explanation
Indices: 32413922--32413982 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 26
32413912 AAGCCATGAT
32413922 CGGTAAGCTCATTCCGAGCTAAATAA
1 CGGTAAGCTCATTCCGAGCTAAATAA
32413948 CGGTAAGCTC-TAT-CGAGCT-AA-AA
1 CGGTAAGCTCAT-TCCGAGCTAAATAA
*
32413971 TGGTAAGCTCAT
1 CGGTAAGCTCAT
32413983 AAGAGCTGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 11 0.34
24 3 0.09
25 7 0.22
26 11 0.34
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (26 bp):
CGGTAAGCTCATTCCGAGCTAAATAA
Found at i:32422552 original size:23 final size:26
Alignment explanation
Indices: 32422495--32422555 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
32422485 GAGCCATGAT
32422495 CGGTAAGCTCATTCTGAGCTAAATAA
1 CGGTAAGCTCATTCTGAGCTAAATAA
32422521 CGGTAAGCTC-TATC-GAGCT-AA-AA
1 CGGTAAGCTCAT-TCTGAGCTAAATAA
*
32422544 TGGTAAGCTCAT
1 CGGTAAGCTCAT
32422556 AAGAGCTGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 11 0.34
24 3 0.09
25 6 0.19
26 12 0.38
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (26 bp):
CGGTAAGCTCATTCTGAGCTAAATAA
Found at i:32435717 original size:21 final size:20
Alignment explanation
Indices: 32435691--32435758 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 20
32435681 TTTGTCCTAG
32435691 CCTACCTTAAATCGACATCAA
1 CCTACCTTAAATC-ACATCAA
*
32435712 CCTACC--CAA-CACCATCAA
1 CCTACCTTAAATCA-CATCAA
32435730 CGCCTACCTTAAATCAACATCAA
1 --CCTACCTTAAATC-ACATCAA
32435753 CCTACC
1 CCTACC
32435759 CAACACCATC
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
17 1 0.03
18 7 0.18
19 2 0.05
20 6 0.16
21 12 0.32
22 2 0.05
23 7 0.18
24 1 0.03
ACGTcount: A:0.37, C:0.41, G:0.03, T:0.19
Consensus pattern (20 bp):
CCTACCTTAAATCACATCAA
Found at i:32435729 original size:18 final size:18
Alignment explanation
Indices: 32435706--32435771 Score: 69
Period size: 18 Copynumber: 3.4 Consensus size: 18
32435696 CTTAAATCGA
32435706 CATCAACCTACCCAACAC
1 CATCAACCTACCCAACAC
* *
32435724 CATCAACGCCTACCTTAAATCAA
1 CATCAA--CCTACC--CAA-CAC
32435747 CATCAACCTACCCAACAC
1 CATCAACCTACCCAACAC
32435765 CATCAAC
1 CATCAAC
32435772 TATCTTTACA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
18 15 0.38
19 2 0.05
20 6 0.15
21 6 0.15
22 2 0.05
23 8 0.21
ACGTcount: A:0.39, C:0.44, G:0.02, T:0.15
Consensus pattern (18 bp):
CATCAACCTACCCAACAC
Found at i:32435750 original size:41 final size:41
Alignment explanation
Indices: 32435690--32435771 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
32435680 ATTTGTCCTA
*
32435690 GCCTACCTTAAATCGACATCAACCTACCCAACACCATCAAC
1 GCCTACCTTAAATCAACATCAACCTACCCAACACCATCAAC
32435731 GCCTACCTTAAATCAACATCAACCTACCCAACACCATCAAC
1 GCCTACCTTAAATCAACATCAACCTACCCAACACCATCAAC
32435772 TATCTTTACA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.38, C:0.41, G:0.04, T:0.17
Consensus pattern (41 bp):
GCCTACCTTAAATCAACATCAACCTACCCAACACCATCAAC
Found at i:32436612 original size:13 final size:12
Alignment explanation
Indices: 32436594--32436666 Score: 52
Period size: 12 Copynumber: 6.5 Consensus size: 12
32436584 TGTAAGCGAG
32436594 AAAAGAACATTGA
1 AAAAGAA-ATTGA
32436607 AAAAGAAATTG-
1 AAAAGAAATTGA
32436618 -AAAGAAA-TGA
1 AAAAGAAATTGA
*
32436628 AAAAGCAAA-AGA
1 AAAAG-AAATTGA
*
32436640 AGAA-AAA--GA
1 AAAAGAAATTGA
*
32436649 GAAAGAAATTGA
1 AAAAGAAATTGA
32436661 AAAAGA
1 AAAAGA
32436667 GAGTGAGACT
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
9 6 0.12
10 13 0.27
11 4 0.08
12 19 0.39
13 7 0.14
ACGTcount: A:0.68, C:0.03, G:0.19, T:0.10
Consensus pattern (12 bp):
AAAAGAAATTGA
Found at i:32436630 original size:21 final size:21
Alignment explanation
Indices: 32436595--32436662 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 21
32436585 GTAAGCGAGA
32436595 AAAGAACATTGAAAAAGAAATTG
1 AAAGAA-A-TGAAAAAGAAATTG
*
32436618 AAAGAAATGAAAAAGCAAA-AG
1 AAAGAAATGAAAAAG-AAATTG
* *
32436639 -AAGAAAAAGAGAAAGAAATTG
1 AAAG-AAATGAAAAAGAAATTG
32436660 AAA
1 AAA
32436663 AAGAGAGTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
20 6 0.16
21 19 0.51
22 6 0.16
23 6 0.16
ACGTcount: A:0.68, C:0.03, G:0.19, T:0.10
Consensus pattern (21 bp):
AAAGAAATGAAAAAGAAATTG
Found at i:32443881 original size:49 final size:49
Alignment explanation
Indices: 32443816--32444437 Score: 1070
Period size: 49 Copynumber: 12.9 Consensus size: 49
32443806 TAGTATGGCG
*
32443816 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
32443865 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
32443914 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
32443963 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
32444010 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
32444059 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
32444108 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
32444155 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
32444204 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
32444251 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
32444300 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* *
32444347 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * * * *
32444394 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
32444438 TCCCGAAGGG
Statistics
Matches: 551, Mismatches: 14, Indels: 18
0.95 0.02 0.03
Matches are distributed among these distances:
47 235 0.43
48 1 0.00
49 315 0.57
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:32444022 original size:96 final size:97
Alignment explanation
Indices: 32443816--32444437 Score: 1048
Period size: 96 Copynumber: 6.5 Consensus size: 97
32443806 TAGTATGGCG
* *
32443816 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
32443881 GAATGTGAAAGTGTATATATATGTGATAAGGCC
66 GAATGTGAAAGTG-ATATATATGTGATAAGGCC
32443914 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
32443979 GAATGTGAAAGTG-TATATATGTGATAAGGCC
66 GAATGTGAAAGTGATATATATGTGATAAGGCC
*
32444010 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
32444075 GAATGTGAAAGTGTATATATATGTGATAAGGCC
66 GAATGTGAAAGTG-ATATATATGTGATAAGGCC
32444108 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
32444171 GAATGTGAAAGTGTATATATATGTGATAAGGCC
66 GAATGTGAAAGTG-ATATATATGTGATAAGGCC
32444204 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
32444267 GAATGTGAAAGTGTATATATATGTGATAAGGCC
66 GAATGTGAAAGTG-ATATATATGTGATAAGGCC
32444300 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
32444363 GAATGTGAAAGTG-TATATATGTGACAGGGCC
66 GAATGTGAAAGTGATATATATGTGATAAGGCC
* * * * *
32444394 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
32444438 TCCCGAAGGG
Statistics
Matches: 509, Mismatches: 11, Indels: 12
0.96 0.02 0.02
Matches are distributed among these distances:
94 50 0.10
95 1 0.00
96 336 0.66
98 122 0.24
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (97 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAAAGTGATATATATGTGATAAGGCC
Found at i:32444081 original size:145 final size:143
Alignment explanation
Indices: 32443816--32444437 Score: 1059
Period size: 145 Copynumber: 4.3 Consensus size: 143
32443806 TAGTATGGCG
*
32443816 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGAT
32443881 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
64 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
32443946 ATATATGTGATAAGGCC
127 ATATATGTGATAAGGCC
32443963 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
32444028 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
32444093 ATATGTGATAAGGCC
129 ATATGTGATAAGGCC
*
32444108 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
32444173 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
32444238 ATGTGATAAGGCC
131 ATGTGATAAGGCC
*
32444251 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGAT
32444316 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
64 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
32444379 ATATGTGACAGGGCC
129 ATATGTGATAAGGCC
* * * * * *
32444394 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
32444438 TCCCGAAGGG
Statistics
Matches: 463, Mismatches: 10, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
141 14 0.03
143 134 0.29
145 287 0.62
147 28 0.06
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (143 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCC
Found at i:32448066 original size:21 final size:21
Alignment explanation
Indices: 32448040--32448082 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
32448030 TTAGGGTGGA
32448040 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
* *
32448061 TCAGCTCTTATGAGCTTTTGT
1 TCAGCTCTTACGAGCTTCTGT
32448082 T
1 T
32448083 GATGTGTTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:32450233 original size:29 final size:29
Alignment explanation
Indices: 32450141--32450258 Score: 104
Period size: 29 Copynumber: 4.1 Consensus size: 29
32450131 TTTAATTAAT
** *
32450141 TTTTTAAAATTTAAAAATATTTTTTATAAT-
1 TTTTTAATTTTTAAAAATA-ATTTTA-AATA
* *
32450171 TTTTTACTTTTTAAAAAATAATTTT-AATG
1 TTTTTAATTTTT-AAAAATAATTTTAAATA
*
32450200 CTTTTAATTTTTAAAAATAATTTTAAATA
1 TTTTTAATTTTTAAAAATAATTTTAAATA
32450229 TTTTTGAA-TTTTAAAAAT--TTTTAAA-A
1 TTTTT-AATTTTTAAAAATAATTTTAAATA
32450255 TTTT
1 TTTT
32450259 CAAAAGTTAA
Statistics
Matches: 76, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
26 5 0.07
27 7 0.09
28 15 0.20
29 27 0.36
30 15 0.20
31 7 0.09
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (29 bp):
TTTTTAATTTTTAAAAATAATTTTAAATA
Found at i:32450240 original size:17 final size:17
Alignment explanation
Indices: 32450218--32450250 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32450208 TTTTAAAAAT
*
32450218 AATTTTAAATATTTTTG
1 AATTTTAAAAATTTTTG
32450235 AATTTTAAAAATTTTT
1 AATTTTAAAAATTTTT
32450251 AAAATTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
AATTTTAAAAATTTTTG
Found at i:32451042 original size:20 final size:21
Alignment explanation
Indices: 32451019--32451061 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
32451009 AATTTGAAAA
*
32451019 TTAAAATATTTATTT-TAATT
1 TTAAAATATTAATTTCTAATT
*
32451039 TTAAATTATTAATTTCTAATT
1 TTAAAATATTAATTTCTAATT
32451060 TT
1 TT
32451062 TTTATGCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTAAAATATTAATTTCTAATT
Found at i:32462959 original size:18 final size:17
Alignment explanation
Indices: 32462936--32462969 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
32462926 CCACATTGAT
32462936 TAAAATTATAAAAAATTC
1 TAAAATT-TAAAAAATTC
*
32462954 TAAAATTTCAAAAATT
1 TAAAATTTAAAAAATT
32462970 ATATAAATAA
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:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAAATTTAAAAAATTC
Found at i:32463092 original size:25 final size:24
Alignment explanation
Indices: 32463042--32463092 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 24
32463032 AATATATAAC
* * *
32463042 TTTTAAAAATTAAAGTTCAAATTA
1 TTTTAAAAATTAAAATTAAAAATA
*
32463066 TTTTAAAATTTTAAAATTAAAAATA
1 TTTTAAAA-ATTAAAATTAAAAATA
32463091 TT
1 TT
32463093 GTCATAACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
TTTTAAAAATTAAAATTAAAAATA
Found at i:32471486 original size:3 final size:3
Alignment explanation
Indices: 32471418--32471466 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
32471408 AACCATGCTG
32471418 ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
32471465 AT
1 AT
32471467 GCAAAGAACA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:32472399 original size:27 final size:28
Alignment explanation
Indices: 32472362--32472417 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
32472352 AAATTTTCAA
* *
32472362 AAAAAATTATA-ATATTATTTTAAAAATT
1 AAAAAATTATATAAATT-TCTTAAAAATT
32472390 AAAAAA-TATATAAATTTCTTAAAAATT
1 AAAAAATTATATAAATTTCTTAAAAATT
32472417 A
1 A
32472418 TATTAAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (28 bp):
AAAAAATTATATAAATTTCTTAAAAATT
Found at i:32473764 original size:7 final size:7
Alignment explanation
Indices: 32473750--32473784 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
32473740 GTTACATTTG
32473750 AAATATA
1 AAATATA
*
32473757 ATATATA
1 AAATATA
32473764 AAA-ATA
1 AAATATA
32473770 AAATATA
1 AAATATA
32473777 AAATATA
1 AAATATA
32473784 A
1 A
32473785 GTGTTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAATATA
Found at i:32473775 original size:13 final size:14
Alignment explanation
Indices: 32473750--32473784 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
32473740 GTTACATTTG
*
32473750 AAATATAATATATA
1 AAATATAAAATATA
32473764 AAA-ATAAAATATA
1 AAATATAAAATATA
32473777 AAATATAA
1 AAATATAA
32473785 GTGTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAATATAAAATATA
Found at i:32474925 original size:20 final size:19
Alignment explanation
Indices: 32474902--32474968 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 19
32474892 GTCAAAACTA
32474902 TATAAAATAATATAAAATTT
1 TATAAAATAA-ATAAAATTT
32474922 TATATTAAA-AAATAAAA-TT
1 TATA--AAATAAATAAAATTT
*
32474941 TATGAAATAAAT--AATTT
1 TATAAAATAAATAAAATTT
*
32474958 TTTAAAATAAA
1 TATAAAATAAA
32474969 AATTTATTAC
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
16 2 0.05
17 14 0.35
18 4 0.10
19 5 0.12
20 10 0.25
21 2 0.05
22 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (19 bp):
TATAAAATAAATAAAATTT
Found at i:32474925 original size:22 final size:20
Alignment explanation
Indices: 32474900--32474941 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
32474890 TAGTCAAAAC
32474900 TATATAAAATAATATAAAATTT
1 TATATAAAA-AA-ATAAAATTT
*
32474922 TATATTAAAAAATAAAATTT
1 TATATAAAAAAATAAAATTT
32474942 ATGAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TATATAAAAAAATAAAATTT
Found at i:32477772 original size:19 final size:19
Alignment explanation
Indices: 32477741--32477801 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
32477731 TTAAAAATAA
*
32477741 TTTTT-ATACTTTTTAATT
1 TTTTTAATAATTTTTAATT
*
32477759 TTTTTAATAATTTTTATAAT
1 TTTTTAATAATTTTTA-ATT
* *
32477779 TTTTGAA-AA-TTTTGATT
1 TTTTTAATAATTTTTAATT
32477796 TTTTTA
1 TTTTTA
32477802 CATTTAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
17 7 0.20
18 9 0.26
19 11 0.31
20 8 0.23
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTTTAATAATTTTTAATT
Found at i:32477791 original size:28 final size:28
Alignment explanation
Indices: 32477736--32477791 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
32477726 AAAAATTAAA
* **
32477736 AATAATTTTTATACTTTTTAATTTTTTT
1 AATAATTTTTATAATTTTTAATAATTTT
32477764 AATAATTTTTATAATTTTTGAA-AATTTT
1 AATAATTTTTATAATTTTT-AATAATTTT
32477792 GATTTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (28 bp):
AATAATTTTTATAATTTTTAATAATTTT
Found at i:32483012 original size:11 final size:11
Alignment explanation
Indices: 32482992--32483041 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
32482982 TTTTGTAGAT
32482992 TTTTGGTGTTG
1 TTTTGGTGTTG
*
32483003 TTTTGATGTTG
1 TTTTGGTGTTG
* **
32483014 TTTTGCTACTG
1 TTTTGGTGTTG
32483025 TTGTTGGTGTTG
1 TT-TTGGTGTTG
32483037 TTTTG
1 TTTTG
32483042 CTACTTTTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
11 23 0.74
12 8 0.26
ACGTcount: A:0.04, C:0.04, G:0.30, T:0.62
Consensus pattern (11 bp):
TTTTGGTGTTG
Found at i:32483035 original size:23 final size:22
Alignment explanation
Indices: 32483001--32483052 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
32482991 TTTTTGGTGT
32483001 TGTTTTGATGTTGTTTTGCTAC
1 TGTTTTGATGTTGTTTTGCTAC
*
32483023 TGTTGTTGGTGTTGTTTTGCTAC
1 TGTT-TTGATGTTGTTTTGCTAC
*
32483046 TTTTTTG
1 TGTTTTG
32483053 TGCTATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 7 0.26
23 20 0.74
ACGTcount: A:0.06, C:0.08, G:0.25, T:0.62
Consensus pattern (22 bp):
TGTTTTGATGTTGTTTTGCTAC
Found at i:32485480 original size:27 final size:27
Alignment explanation
Indices: 32485404--32485483 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
32485394 ACACGCCATA
32485404 AAAGAAAAGCCTTTGCGGTGAATTATG
1 AAAGAAAAGCCTTTGCGGTGAATTATG
* *
32485431 AAAGAAAAGTCTTCGCGGTGAATTATG
1 AAAGAAAAGCCTTTGCGGTGAATTATG
* *
32485458 AAAGAAAAGCCTTTGTGGCGAATTAT
1 AAAGAAAAGCCTTTGCGGTGAATTAT
32485484 TGAAGGATCT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.26
Consensus pattern (27 bp):
AAAGAAAAGCCTTTGCGGTGAATTATG
Found at i:32489116 original size:25 final size:26
Alignment explanation
Indices: 32489075--32489125 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
32489065 ATAATATAAC
* *
32489075 TTTTAATATAAATATAGTATTAATAT
1 TTTTAATATAAATATAGAATAAATAT
32489101 TTTTAAT-TATAA-ATAGAATAAATAT
1 TTTTAATATA-AATATAGAATAAATAT
32489126 AAATATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (26 bp):
TTTTAATATAAATATAGAATAAATAT
Found at i:32506814 original size:44 final size:43
Alignment explanation
Indices: 32506705--32506816 Score: 134
Period size: 44 Copynumber: 2.6 Consensus size: 43
32506695 ACTACTGCTT
* * *
32506705 AGGGAGACAGGATCTACAATCTTCAACTATTCCACTGCAGTCC
1 AGGGAGATAGGATTTACAATCTTCAACTATTCCACTGCAGCCC
* * **
32506748 AGGGAGATAGGACTTACAATCTTTAACCTATTCCACTGTTGCCC
1 AGGGAGATAGGATTTACAATCTTCAA-CTATTCCACTGCAGCCC
* *
32506792 AGGGAGATAGGATTTGCTATCTTCA
1 AGGGAGATAGGATTTACAATCTTCA
32506817 CTGATCTCTA
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
43 22 0.39
44 35 0.61
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (43 bp):
AGGGAGATAGGATTTACAATCTTCAACTATTCCACTGCAGCCC
Found at i:32517545 original size:55 final size:55
Alignment explanation
Indices: 32517475--32517587 Score: 226
Period size: 55 Copynumber: 2.1 Consensus size: 55
32517465 CTTTCGATTT
32517475 TTTGACAAGCTCCTCTCTAAAGCCTCGTTTCGTACTTGAACTTCCTGGAATTTTC
1 TTTGACAAGCTCCTCTCTAAAGCCTCGTTTCGTACTTGAACTTCCTGGAATTTTC
32517530 TTTGACAAGCTCCTCTCTAAAGCCTCGTTTCGTACTTGAACTTCCTGGAATTTTC
1 TTTGACAAGCTCCTCTCTAAAGCCTCGTTTCGTACTTGAACTTCCTGGAATTTTC
32517585 TTT
1 TTT
32517588 CCCACCTATC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.19, C:0.27, G:0.14, T:0.40
Consensus pattern (55 bp):
TTTGACAAGCTCCTCTCTAAAGCCTCGTTTCGTACTTGAACTTCCTGGAATTTTC
Found at i:32524560 original size:17 final size:17
Alignment explanation
Indices: 32524538--32524582 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
32524528 AAGAAAATGA
*
32524538 TTTACGAAAACAACGGT
1 TTTACGAAAACAAAGGT
* *
32524555 TTTACGTAAACAAATGT
1 TTTACGAAAACAAAGGT
32524572 TTT-CGAAAACA
1 TTTACGAAAACA
32524583 CAAGTTCGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (17 bp):
TTTACGAAAACAAAGGT
Found at i:32525165 original size:19 final size:19
Alignment explanation
Indices: 32525120--32525170 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
32525110 ACTGAAACTG
32525120 ATGCATAAAA--TTTTATA
1 ATGCATAAAAGTTTTTATA
*
32525137 ATGTAGATAAAAGTTTTTATA
1 ATG--CATAAAAGTTTTTATA
32525158 ATGCATAAAAGTT
1 ATGCATAAAAGTT
32525171 GTTTTGATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 3 0.11
19 15 0.54
21 10 0.36
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (19 bp):
ATGCATAAAAGTTTTTATA
Found at i:32531874 original size:27 final size:28
Alignment explanation
Indices: 32531837--32531890 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
32531827 CCAAACTTTA
32531837 AGGTTCAAGGTTTAG-GTTTAGGGTTTT
1 AGGTTCAAGGTTTAGAGTTTAGGGTTTT
* * *
32531864 AGGTTCGAGGTTTGGAGTTTATGGTTT
1 AGGTTCAAGGTTTAGAGTTTAGGGTTT
32531891 GCAGTTATGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.17, C:0.04, G:0.35, T:0.44
Consensus pattern (28 bp):
AGGTTCAAGGTTTAGAGTTTAGGGTTTT
Found at i:32538349 original size:24 final size:24
Alignment explanation
Indices: 32538321--32538372 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
32538311 AATAAAAAAT
*
32538321 AAAAAGTAGTCCAAAATCAACAGA
1 AAAAAGTAGTCCAAAAGCAACAGA
* *
32538345 AAAAAGTTGTCCAAAAGCAATAGA
1 AAAAAGTAGTCCAAAAGCAACAGA
32538369 AAAA
1 AAAA
32538373 TATGAAATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (24 bp):
AAAAAGTAGTCCAAAAGCAACAGA
Found at i:32538863 original size:13 final size:13
Alignment explanation
Indices: 32538845--32538874 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
32538835 GGATTTTGTT
32538845 TTTTTATATTTTA
1 TTTTTATATTTTA
*
32538858 TTTTTATTTTTTA
1 TTTTTATATTTTA
32538871 TTTT
1 TTTT
32538875 ACCTTACAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTATATTTTA
Found at i:32539555 original size:7 final size:7
Alignment explanation
Indices: 32539543--32539567 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
32539533 TTGTTGTTTT
32539543 TAAAAAA
1 TAAAAAA
32539550 TAAAAAA
1 TAAAAAA
32539557 TAAAAAA
1 TAAAAAA
32539564 TAAA
1 TAAA
32539568 TTATGCAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAAAAA
Found at i:32544507 original size:24 final size:25
Alignment explanation
Indices: 32544443--32544521 Score: 69
Period size: 24 Copynumber: 3.3 Consensus size: 25
32544433 CAAAAGAGCG
*
32544443 TCCCGATATTA-GCTCTCTC-TAGCT
1 TCCCGATAATATGCTCT-TCGTAGCT
* *
32544467 TCCCG-TTATATGGTCTTGCG-AGCT
1 TCCCGATAATATGCTCTT-CGTAGCT
*
32544491 TCCCGATAATAT-CTCTTCGTAGCA
1 TCCCGATAATATGCTCTTCGTAGCT
32544515 TCCCGAT
1 TCCCGAT
32544522 TGGTTGTGAT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
23 6 0.14
24 33 0.75
25 5 0.11
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.35
Consensus pattern (25 bp):
TCCCGATAATATGCTCTTCGTAGCT
Found at i:32544619 original size:26 final size:26
Alignment explanation
Indices: 32544582--32544652 Score: 92
Period size: 25 Copynumber: 2.8 Consensus size: 26
32544572 CCAGATATAT
* *
32544582 GGCTCTTCGTGAGTTTCCCGAATAAA
1 GGCTCTTTGTGAGCTTCCCGAATAAA
* *
32544608 GGCTCTTTGTGAGCTT-CCTAATTAA
1 GGCTCTTTGTGAGCTTCCCGAATAAA
32544633 GGCTCTTT-TGAGCTTCCCGA
1 GGCTCTTTGTGAGCTTCCCGA
32544653 TATGGTTCGC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
24 7 0.18
25 18 0.46
26 14 0.36
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCCGAATAAA
Found at i:32548737 original size:23 final size:23
Alignment explanation
Indices: 32548673--32548738 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
32548663 TTTACTGTTC
*
32548673 ACGAATATATTCATTTAAC-TTAA
1 ACGAATATATTCA-TAAACATTAA
* * * *
32548696 TCGAACATGTTCACAAACATTAA
1 ACGAATATATTCATAAACATTAA
*
32548719 ACGAATATATTCATGAACAT
1 ACGAATATATTCATAAACAT
32548739 GTAATTAAAC
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
22 3 0.09
23 29 0.91
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.32
Consensus pattern (23 bp):
ACGAATATATTCATAAACATTAA
Found at i:32548760 original size:47 final size:46
Alignment explanation
Indices: 32548673--32548761 Score: 117
Period size: 47 Copynumber: 1.9 Consensus size: 46
32548663 TTTACTGTTC
* * *
32548673 ACGAATATATTCATTTAACTTAATCGAACATGTTCACAAACATTAA
1 ACGAATATATTCATTGAACTTAATCAAACATGCTCACAAACATTAA
*
32548719 ACGAATATATTCA-TGAACATGTAATTAAACATGCTCACAAACA
1 ACGAATATATTCATTGAAC-T-TAATCAAACATGCTCACAAACA
32548762 ATGTTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
45 4 0.11
46 14 0.38
47 19 0.51
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (46 bp):
ACGAATATATTCATTGAACTTAATCAAACATGCTCACAAACATTAA
Found at i:32556245 original size:3 final size:3
Alignment explanation
Indices: 32556220--32556294 Score: 80
Period size: 3 Copynumber: 24.7 Consensus size: 3
32556210 AAAACATCAC
* * * *
32556220 AAT AAT AAC CAT AAT ATT GAT AAT AAT AAT ATAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
*
32556266 AAT AGT AA- AGAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AA
32556295 AATTGCTAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
2 1 0.02
3 54 0.92
4 4 0.07
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:32557887 original size:98 final size:98
Alignment explanation
Indices: 32557713--32557892 Score: 263
Period size: 98 Copynumber: 1.8 Consensus size: 98
32557703 GAGATAAGAC
*
32557713 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTACGATTTTAATCCACTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTACGACTTTAATCCACTCCACTG
*
32557778 CAACTTTAGGGAGATAGAATTATCGGCTTCAAT
66 CAACTTCAGGGAGATAGAATTATCGGCTTCAAT
* * * * **
32557811 CTGATGTGATCTACTCTACTGTAATTTCAGAGAGTTGAGATCCT-TTACTTTAATCCACTCCACT
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGAT-CTACGACTTTAATCCACTCCACT
*
32557875 GTAACTTCAGGGAGATAG
65 GCAACTTCAGGGAGATAG
32557893 GATAGTGTCT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
98 70 0.97
99 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (98 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTACGACTTTAATCCACTCCACTG
CAACTTCAGGGAGATAGAATTATCGGCTTCAAT
Found at i:32562230 original size:21 final size:20
Alignment explanation
Indices: 32562206--32562248 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
32562196 TGAATCTGCA
32562206 TTCGCTCTAATTTTTCCAACC
1 TTCGCTC-AATTTTTCCAACC
* * *
32562227 TTCGTTCCATTTTTCTAACC
1 TTCGCTCAATTTTTCCAACC
32562247 TT
1 TT
32562249 TGTTTGGATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.16, C:0.30, G:0.05, T:0.49
Consensus pattern (20 bp):
TTCGCTCAATTTTTCCAACC
Found at i:32564670 original size:3 final size:3
Alignment explanation
Indices: 32564645--32564758 Score: 149
Period size: 3 Copynumber: 37.7 Consensus size: 3
32564635 AAAACATCAC
* * * * *
32564645 AAT AAT AAC CAT AAT ATT GAT AAT AAT AAT AAT AAT AAT AAT AGT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32564692 AGAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
32564738 AAT AGAT GAT AAT AAT AAT AA
1 AAT A-AT AAT AAT AAT AAT AA
32564759 AATTGCTAAA
Statistics
Matches: 96, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
2 1 0.01
3 92 0.96
4 3 0.03
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:32566750 original size:28 final size:28
Alignment explanation
Indices: 32566689--32566751 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
32566679 AAAAAAATCA
* *
32566689 GAAT-TATTTTTTAAAATTTTAAGAGAT
1 GAATATATATTTTAAAATTTTAAGAAAT
*
32566716 -ATTATATATTTTAAAATTTTAA-AAATT
1 GAATATATATTTTAAAATTTTAAGAAA-T
32566743 GAATATATA
1 GAATATATA
32566752 AAAAAATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 4 0.14
27 18 0.62
28 7 0.24
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (28 bp):
GAATATATATTTTAAAATTTTAAGAAAT
Found at i:32566761 original size:23 final size:20
Alignment explanation
Indices: 32566735--32566775 Score: 55
Period size: 23 Copynumber: 1.9 Consensus size: 20
32566725 TTTAAAATTT
32566735 TAAAAATTGAATATATAAAAAAA
1 TAAAAA-TGAA-ATA-AAAAAAA
32566758 TAAAAATGAAATAAAAAA
1 TAAAAATGAAATAAAAAA
32566776 TTAAGTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 3 0.17
22 4 0.22
23 6 0.33
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (20 bp):
TAAAAATGAAATAAAAAAAA
Found at i:32566831 original size:15 final size:14
Alignment explanation
Indices: 32566783--32566830 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
32566773 AAATTAAGTT
32566783 AAAAGTTAACATTT-
1 AAAAGTTAAC-TTTA
*
32566797 AAAAGCTTACTCTTTA
1 AAAAG-TTA-ACTTTA
32566813 AAAAGTTAACTTTA
1 AAAAGTTAACTTTA
32566827 AAAA
1 AAAA
32566831 ATATTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 14 0.48
15 9 0.31
16 6 0.21
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.33
Consensus pattern (14 bp):
AAAAGTTAACTTTA
Found at i:32566873 original size:23 final size:24
Alignment explanation
Indices: 32566842--32566891 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
32566832 TATTTTTTTT
*
32566842 AAATCT-AAAAGTACACAACAAATA
1 AAATCTAAAAAATACACAA-AAATA
*
32566866 AAAT-TAAAAAATATACAAAAATA
1 AAATCTAAAAAATACACAAAAATA
32566889 AAA
1 AAA
32566892 AAATTCAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.70, C:0.10, G:0.02, T:0.18
Consensus pattern (24 bp):
AAATCTAAAAAATACACAAAAATA
Found at i:32572432 original size:17 final size:18
Alignment explanation
Indices: 32572410--32572449 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
32572400 CGATTAATTC
32572410 ATTAATTTAGA-AATTTA
1 ATTAATTTAGATAATTTA
* *
32572427 ATTAATTTATATGATTTA
1 ATTAATTTAGATAATTTA
32572445 ATTAA
1 ATTAA
32572450 ATAAATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
ATTAATTTAGATAATTTA
Found at i:32577295 original size:20 final size:20
Alignment explanation
Indices: 32577270--32577308 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
32577260 TATAATATTT
32577270 GTAATAATTT-GTGTAATTAG
1 GTAAT-ATTTGGTGTAATTAG
32577290 GTAATATTTGGTGTAATTA
1 GTAATATTTGGTGTAATTA
32577309 AAGCCGATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
GTAATATTTGGTGTAATTAG
Found at i:32585287 original size:63 final size:63
Alignment explanation
Indices: 32585215--32585461 Score: 275
Period size: 63 Copynumber: 3.9 Consensus size: 63
32585205 TACCTATTGA
** * * * *
32585215 GAAGGTGTTGATGCATGGAATGATTGTGGGTGTTATGGTGCTTATGTAAAATAAACTGGTGCT
1 GAAGGTGTTGATGCATGGAATGATTGTGCATGTTGTGGTGCTTGTGTAAAATAAACTGGAGTT
* * * * * * *
32585278 AAATGTGTTGATGCAAGGAATAATTGTGCATGTTGTGGTGTTTTTGTAAAATAAACTAGAGTT
1 GAAGGTGTTGATGCATGGAATGATTGTGCATGTTGTGGTGCTTGTGTAAAATAAACTGGAGTT
* ** * * *
32585341 GAAGGTGTTGATACGGGGAATGTTATGTG--TGCTGTGGTGTTTGTGTAAAATAAACTGGAGTT
1 GAAGGTGTTGATGCATGGAATGAT-TGTGCATGTTGTGGTGCTTGTGTAAAATAAACTGGAGTT
*
32585403 GAAGGTGTTGATGC-TAGGAATGATTGTGCATGTTGTGGTACTTGTGTAAAATAAACTGG
1 GAAGGTGTTGATGCAT-GGAATGATTGTGCATGTTGTGGTGCTTGTGTAAAATAAACTGG
32585462 GTTAGCACAA
Statistics
Matches: 152, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
61 4 0.03
62 50 0.33
63 94 0.62
64 4 0.03
ACGTcount: A:0.27, C:0.06, G:0.32, T:0.36
Consensus pattern (63 bp):
GAAGGTGTTGATGCATGGAATGATTGTGCATGTTGTGGTGCTTGTGTAAAATAAACTGGAGTT
Found at i:32590212 original size:6 final size:6
Alignment explanation
Indices: 32590203--32590297 Score: 190
Period size: 6 Copynumber: 15.8 Consensus size: 6
32590193 AGTACAACTG
32590203 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
32590251 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAAT
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAAT
32590298 AGATAAAACA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 89 1.00
ACGTcount: A:0.67, C:0.16, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATC
Found at i:32591853 original size:14 final size:14
Alignment explanation
Indices: 32591824--32591852 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
32591814 TAATAAAAGT
32591824 AATAATAATATAAA
1 AATAATAATATAAA
32591838 AATAATAA-ATAAA
1 AATAATAATATAAA
32591851 AA
1 AA
32591853 AGTGAAGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AATAATAATATAAA
Found at i:32592358 original size:141 final size:141
Alignment explanation
Indices: 32592104--32592381 Score: 493
Period size: 141 Copynumber: 2.0 Consensus size: 141
32592094 CGGGCTAGCG
*
32592104 AAGAGAAGAGGAAGCCATGGGTGTGTATGTGGACTATGTTGGGCCATACGACTGTGTGAGTTGAC
1 AAGAGAAGAGGAAGCCATGGGTGTGTATGTGGACTATGTTGGGCCATACGACCGTGTGAGTTGAC
* * *
32592169 TATGTTACTCATTGTGCTCGTGTGGCCTATTTTAAAGTATTTCTCCACTGTTCACATGGCCTGTC
66 TATGTTACTCATTGTACTCGTGTGGCCTATCTTAAAGTATTGCTCCACTGTTCACATGGCCTGTC
32592234 ACATGCCAGAA
131 ACATGCCAGAA
*
32592245 AAGAGAGGAGGAAGCCATGGGTGTGTATGTGGACTATGTTGGGCCATACGACCGTGTGAGTTGAC
1 AAGAGAAGAGGAAGCCATGGGTGTGTATGTGGACTATGTTGGGCCATACGACCGTGTGAGTTGAC
* *
32592310 TATGTTACTCGTTGTACTCGTGTGGCCTATCTTAAAGTATTGCTCCACTGTTCACATGGCTTGTC
66 TATGTTACTCATTGTACTCGTGTGGCCTATCTTAAAGTATTGCTCCACTGTTCACATGGCCTGTC
32592375 ACATGCC
131 ACATGCC
32592382 CATGTGTCTA
Statistics
Matches: 130, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
141 130 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (141 bp):
AAGAGAAGAGGAAGCCATGGGTGTGTATGTGGACTATGTTGGGCCATACGACCGTGTGAGTTGAC
TATGTTACTCATTGTACTCGTGTGGCCTATCTTAAAGTATTGCTCCACTGTTCACATGGCCTGTC
ACATGCCAGAA
Found at i:32596373 original size:50 final size:52
Alignment explanation
Indices: 32596260--32596374 Score: 155
Period size: 50 Copynumber: 2.2 Consensus size: 52
32596250 ATGAGCAAAT
* * *
32596260 GAGTTACTTAATGCATTACTTAATTTAATGATGCAAACTTTAACTAATATGA
1 GAGTTACATAATGCATTACATAATTTAATGATGCAAACTTTAACTAACATGA
* *
32596312 GAGTTAGATAATGCATGT-CATAATTT-ATGATGCCAAC-TTAACTAACATGA
1 GAGTTACATAATGCAT-TACATAATTTAATGATGCAAACTTTAACTAACATGA
32596362 GAGTTACATAATG
1 GAGTTACATAATG
32596375 ATTCACTTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
50 24 0.43
51 10 0.18
52 21 0.38
53 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (52 bp):
GAGTTACATAATGCATTACATAATTTAATGATGCAAACTTTAACTAACATGA
Found at i:32597135 original size:21 final size:22
Alignment explanation
Indices: 32597096--32597136 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
32597086 AATATTTATT
* *
32597096 TTATTTTGTTTCTTTTTCTTCA
1 TTATTTTGTTTCATGTTCTTCA
32597118 TTATTTT-TTTCATGTTCTT
1 TTATTTTGTTTCATGTTCTT
32597137 TCCTTTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.10, C:0.12, G:0.05, T:0.73
Consensus pattern (22 bp):
TTATTTTGTTTCATGTTCTTCA
Found at i:32599463 original size:7 final size:7
Alignment explanation
Indices: 32599442--32599479 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
32599432 TGTCAAATTT
*
32599442 AAATTAA
1 AAATAAA
*
32599449 AAACAAA
1 AAATAAA
32599456 AAAT-AA
1 AAATAAA
32599462 AAATAAA
1 AAATAAA
32599469 AAATAAA
1 AAATAAA
32599476 AAAT
1 AAAT
32599480 GGCTAAACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (7 bp):
AAATAAA
Found at i:32599464 original size:13 final size:13
Alignment explanation
Indices: 32599446--32599477 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
32599436 AAATTTAAAT
32599446 TAAAAACAAAAAA
1 TAAAAACAAAAAA
*
32599459 TAAAAATAAAAAA
1 TAAAAACAAAAAA
32599472 TAAAAA
1 TAAAAA
32599478 ATGGCTAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.12
Consensus pattern (13 bp):
TAAAAACAAAAAA
Found at i:32604977 original size:65 final size:63
Alignment explanation
Indices: 32604900--32605096 Score: 166
Period size: 65 Copynumber: 3.2 Consensus size: 63
32604890 AAATATATTT
*
32604900 AATATTAATTATTTCAAATTATATTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAG
1 AATATTAATTATTT-AAATTATATTTA-AGTATCATATATTATGATTTAAGTAAATTCATATAAG
* * * * **
32604965 AATATTGATTA-TTAGAATTTTA-TTAA--AT--TATA-TAT--TTTAATTAAAAT-ATAT-TT
1 AATATTAATTATTTA-AATTATATTTAAGTATCATATATTATGATTTAAGTAAATTCATATAAG
* *
32605018 AATAATT-ATTATTTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AAT-ATTAATTA-TTTAAATTATA-TTTA-AGTATCATATATTATGATTTAAGTAAATTCATATA
32605082 AG
62 AG
32605084 AATATTAATTATT
1 AATATTAATTATT
32605097 AAGAGTTTTA
Statistics
Matches: 101, Mismatches: 14, Indels: 34
0.68 0.09 0.23
Matches are distributed among these distances:
53 7 0.07
54 12 0.12
55 12 0.12
56 3 0.03
57 4 0.04
58 4 0.04
59 2 0.02
60 2 0.02
61 4 0.04
62 4 0.04
63 4 0.04
64 17 0.17
65 19 0.19
66 7 0.07
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (63 bp):
AATATTAATTATTTAAATTATATTTAAGTATCATATATTATGATTTAAGTAAATTCATATAAG
Found at i:32605007 original size:18 final size:18
Alignment explanation
Indices: 32604981--32605036 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 18
32604971 GATTATTAGA
32604981 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
32604998 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
32605014 A-TTTAA-T-AATTAT-T
1 ATTTTAATTAAATTATAT
32605028 ATTTTAATT
1 ATTTTAATT
32605037 TATATTTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 12 0.35
16 6 0.18
17 5 0.15
18 6 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:32605089 original size:119 final size:119
Alignment explanation
Indices: 32604862--32605157 Score: 479
Period size: 119 Copynumber: 2.5 Consensus size: 119
32604852 AATTATTTTA
* *
32604862 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATT-ATTATTTTAAATTATATTT
* * *
32604926 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AG
65 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
32604980 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTATTATTTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTATTATTTTAAATTATA-TTT
32605045 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
32605100 AGTTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTATTAT-TTTAAAT
32605158 ATGAGTAAAT
Statistics
Matches: 165, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
118 54 0.33
119 55 0.33
120 50 0.30
121 6 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (119 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTATTATTTTAAATTATATTTA
CAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:32605117 original size:59 final size:57
Alignment explanation
Indices: 32604935--32605117 Score: 137
Period size: 56 Copynumber: 3.1 Consensus size: 57
32604925 TATAGTATCA
* *
32604935 TATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAGAATTTTATTAAAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAG-ATTTTATTAAAT
* * *
32604993 TATA-TAT--TTTAATTAAAATAT-ATTTAATAATTATT-ATT-TTA-ATTTATATTTTACAGTA
1 TATATTATGATTTAAGT-AAAT-TCATATAAGAA-TATTAATTATTAGATTT-TA--TTA-A--A
32605051 T
57 T
*
32605052 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAGTTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATT-AGA-TTTTATTAAAT
32605113 TATAT
1 TATAT
32605118 ATTTTAATTA
Statistics
Matches: 97, Mismatches: 8, Indels: 39
0.67 0.06 0.27
Matches are distributed among these distances:
53 4 0.04
54 2 0.02
55 8 0.08
56 17 0.18
57 9 0.09
58 4 0.04
59 7 0.07
61 6 0.06
62 8 0.08
63 15 0.15
64 10 0.10
65 1 0.01
66 3 0.03
67 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (57 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAGATTTTATTAAAT
Done.