Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 164 of 276
Found at i:53590895 original size:40 final size:40
Alignment explanation
Indices: 53590797--53590966 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
53590787 TCCTCGTTCA
* * * *
53590797 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
53590836 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * *
53590876 AATGCCTTCGAGACTTAACCCGAATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * *
53590916 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
53590956 AAGGCCTTCGG
1 AATGCCTTCGG
53590967 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 34 0.30
40 81 0.70
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:53590938 original size:80 final size:79
Alignment explanation
Indices: 53590797--53590943 Score: 213
Period size: 79 Copynumber: 1.8 Consensus size: 79
53590787 TCCTCGTTCA
* * ** *
53590797 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGAGACATAACCCGAATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGATT
53590862 TAACAACTCGCACG
66 TAACAACTCGCACG
* * *
53590876 AATGCCTTCGAGACTTAACCCGAATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGAGACATAACCCGAATTTAATAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
53590941 TTA
65 TTA
53590944 GTATCTCGCA
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 32 0.54
80 27 0.46
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGAGACATAACCCGAATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGATT
TAACAACTCGCACG
Found at i:53591003 original size:80 final size:79
Alignment explanation
Indices: 53590833--53591019 Score: 205
Period size: 80 Copynumber: 2.3 Consensus size: 79
53590823 TAGTAACTCA
* * *
53590833 CACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGAGACTTAACCCG
1 CACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGAGACTTAACCCG
* *
53590898 AATTTAATAACTCG
66 AATATAATAACTAG
** * **
53590912 CACGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCG-GATCTTAGTC
1 CAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGAGA-CTTAACC
* * *
53590976 CGGATATATTCACTTAG
64 CGAATATAATAAC-TAG
* *
53590993 CACAAAGCCTTCGGGACTTAGCCCGGA
1 CACAATGCCTTCGGGACTTAACCCGGA
53591020 CAGCATTCAA
Statistics
Matches: 90, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
79 5 0.06
80 80 0.89
81 5 0.06
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
CACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGAGACTTAACCCG
AATATAATAACTAG
Found at i:53591028 original size:41 final size:41
Alignment explanation
Indices: 53590951--53591028 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
53590941 TTAGTATCTC
* * *
53590951 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
53590992 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
53591029 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:53592500 original size:42 final size:42
Alignment explanation
Indices: 53592453--53592537 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
53592443 TAGACAATAA
53592453 GTATCACATTCAAACATTTCGGTGACTCGGTTTAGCGGTCCC
1 GTATCACATTCAAACATTTCGGTGACTCGGTTTAGCGGTCCC
53592495 GTATCACATTCAAACATTTCGGTGACTCGGTTTAGCGGTCCC
1 GTATCACATTCAAACATTTCGGTGACTCGGTTTAGCGGTCCC
53592537 G
1 G
53592538 AAGCCACTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.31
Consensus pattern (42 bp):
GTATCACATTCAAACATTTCGGTGACTCGGTTTAGCGGTCCC
Found at i:53594750 original size:284 final size:284
Alignment explanation
Indices: 53594236--53594807 Score: 1110
Period size: 284 Copynumber: 2.0 Consensus size: 284
53594226 TGTCGCAGAT
53594236 TCAAGTCTCGTTGAGTCATCAAATATTTGAGACTTTTGTGATCCGAAAATACATGGCACTTCTCA
1 TCAAGTCTCGTTGAGTCATCAAATATTTGAGACTTTTGTGATCCGAAAATACATGGCACTTCTCA
53594301 CCAAACGATAATGTCGCCATATTTTTAAAGCAAACACGATGGCAGCTAGTTCGAGATCATGGGTC
66 CCAAACGATAATGTCGCCATATTTTTAAAGCAAACACGATGGCAGCTAGTTCGAGATCATGGGTC
53594366 GGATAATTCCTCTCGTGTGGCTTCAATTGTCTCGACGCATAGGCCACGACTCGACCTTCTTGCAT
131 GGATAATTCCTCTCGTGTGGCTTCAATTGTCTCGACGCATAGGCCACGACTCGACCTTCTTGCAT
53594431 CAATACGCAACCCAACCCAAGTAGGGATGCGTCACTATAAATGACAAACTCTTTACCTGATTCGG
196 CAATACGCAACCCAACCCAAGTAGGGATGCGTCACTATAAATGACAAACTCTTTACCTGATTCGG
53594496 GTTGCACCAAAATTGGAGCTTCAG
261 GTTGCACCAAAATTGGAGCTTCAG
53594520 TCAA-TCTCGTTGAGTCATCAAATATTTGAGACTTTTGTGATCCGAAAATACATGGCACTTCTCA
1 TCAAGTCTCGTTGAGTCATCAAATATTTGAGACTTTTGTGATCCGAAAATACATGGCACTTCTCA
53594584 CCAAACAGATAATGTCGCCATATTTTTAAAGCAAACACGATGGCAGCTAGTTCGAGATCATGGGT
66 CCAAAC-GATAATGTCGCCATATTTTTAAAGCAAACACGATGGCAGCTAGTTCGAGATCATGGGT
53594649 CGGATAATTCCTCTCGTGTGGCTTCAATTGTCTCGACGCATAGGCCACGACTCGACCTTCTTGCA
130 CGGATAATTCCTCTCGTGTGGCTTCAATTGTCTCGACGCATAGGCCACGACTCGACCTTCTTGCA
* *
53594714 TCAATACGCGACCCAACCTAAGTAGGGATGCGTCACTATAAATGACAAACTCTTTACCTGATTCG
195 TCAATACGCAACCCAACCCAAGTAGGGATGCGTCACTATAAATGACAAACTCTTTACCTGATTCG
53594779 GGTTGCACCAAAATTGGAGCTTCAG
260 GGTTGCACCAAAATTGGAGCTTCAG
53594804 TCAA
1 TCAA
53594808 ATGAGTTTTC
Statistics
Matches: 285, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
283 66 0.23
284 219 0.77
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (284 bp):
TCAAGTCTCGTTGAGTCATCAAATATTTGAGACTTTTGTGATCCGAAAATACATGGCACTTCTCA
CCAAACGATAATGTCGCCATATTTTTAAAGCAAACACGATGGCAGCTAGTTCGAGATCATGGGTC
GGATAATTCCTCTCGTGTGGCTTCAATTGTCTCGACGCATAGGCCACGACTCGACCTTCTTGCAT
CAATACGCAACCCAACCCAAGTAGGGATGCGTCACTATAAATGACAAACTCTTTACCTGATTCGG
GTTGCACCAAAATTGGAGCTTCAG
Found at i:53597525 original size:31 final size:31
Alignment explanation
Indices: 53597490--53597570 Score: 99
Period size: 31 Copynumber: 2.5 Consensus size: 31
53597480 CTTCCTGCAT
* *
53597490 TAAAATCCAACCAAATACAACAAATATAGTA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
* *
53597521 TAAAATGCAACCAAAAACAACAAATTTAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
*
53597552 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
53597571 TATTAATTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 28 0.65
33 15 0.35
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGCA
Found at i:53597852 original size:42 final size:42
Alignment explanation
Indices: 53597804--53597900 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 42
53597794 TCTGCTGCCA
* *
53597804 TCGCTGCTGCCTCTGCCTCCCTCACTCG-TGCCTCTGCCTCTC
1 TCGCTGCTGCCTCTGCCTCCCTCACT-GATGCCGCTGCCTCCC
*
53597846 TCGCTGCTGCCGT-TGTCTCCCTCACTGATGCCGCTGCCTCCC
1 TCGCTGCTGCC-TCTGCCTCCCTCACTGATGCCGCTGCCTCCC
**
53597888 TCTTTGCTGCCTC
1 TCGCTGCTGCCTC
53597901 GGCTCTAAGT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
41 2 0.04
42 44 0.94
43 1 0.02
ACGTcount: A:0.03, C:0.46, G:0.19, T:0.32
Consensus pattern (42 bp):
TCGCTGCTGCCTCTGCCTCCCTCACTGATGCCGCTGCCTCCC
Found at i:53597898 original size:21 final size:21
Alignment explanation
Indices: 53597807--53597898 Score: 87
Period size: 21 Copynumber: 4.4 Consensus size: 21
53597797 GCTGCCATCG
*
53597807 CTGCTGCCTCTGCCTCCCTCA
1 CTGCTGCCGCTGCCTCCCTCA
* * *
53597828 CT-CGTGCCTCTGCCTCTCTCG
1 CTGC-TGCCGCTGCCTCCCTCA
* *
53597849 CTGCTGCCGTTGTCTCCCTCA
1 CTGCTGCCGCTGCCTCCCTCA
* *
53597870 CTGATGCCGCTGCCTCCCTCT
1 CTGCTGCCGCTGCCTCCCTCA
*
53597891 TTGCTGCC
1 CTGCTGCC
53597899 TCGGCTCTAA
Statistics
Matches: 56, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
20 1 0.02
21 54 0.96
22 1 0.02
ACGTcount: A:0.03, C:0.47, G:0.18, T:0.32
Consensus pattern (21 bp):
CTGCTGCCGCTGCCTCCCTCA
Found at i:53598546 original size:17 final size:14
Alignment explanation
Indices: 53598508--53598536 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
53598498 TAAAAATATT
53598508 ATTTAATAGTAGAA
1 ATTTAATAGTAGAA
53598522 ATTTAATAGTAGAA
1 ATTTAATAGTAGAA
53598536 A
1 A
53598537 GTTATTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (14 bp):
ATTTAATAGTAGAA
Found at i:53603373 original size:9 final size:9
Alignment explanation
Indices: 53603359--53603577 Score: 82
Period size: 9 Copynumber: 24.7 Consensus size: 9
53603349 TAAGTATAAT
53603359 TAAGTTATG
1 TAAGTTATG
53603368 TAAGTTATG
1 TAAGTTATG
* * *
53603377 ATATGATATA
1 -TAAGTTATG
*
53603387 T-ATTTATG
1 TAAGTTATG
53603395 T-A-TTATG
1 TAAGTTATG
53603402 TAAGTTATG
1 TAAGTTATG
* *
53603411 TAAATTATT
1 TAAGTTATG
53603420 TAAGTTATG
1 TAAGTTATG
53603429 T-A-TTATG
1 TAAGTTATG
* **
53603436 TACGACAT-
1 TAAGTTATG
* *
53603444 AAAGTAATG
1 TAAGTTATG
* * *
53603453 AAATTTGATCTT
1 TAAGTT-A--TG
*
53603465 TAAATTATG
1 TAAGTTATG
*
53603474 TAAGTCATG
1 TAAGTTATG
53603483 T-A-TTATG
1 TAAGTTATG
53603490 TAAGTTATG
1 TAAGTTATG
*
53603499 TAAATTATG
1 TAAGTTATG
53603508 TAAGTTATG
1 TAAGTTATG
* *
53603517 -AAATTCAAACTT
1 TAAGTT---A-TG
*
53603529 TAAATTATG
1 TAAGTTATG
53603538 TAAGTTATG
1 TAAGTTATG
53603547 T-A-TTATG
1 TAAGTTATG
*
53603554 TAAATTATG
1 TAAGTTATG
*
53603563 TAAATTATG
1 TAAGTTATG
*
53603572 TGAGTT
1 TAAGTT
53603578 GCTGGTGAAC
Statistics
Matches: 157, Mismatches: 35, Indels: 36
0.69 0.15 0.16
Matches are distributed among these distances:
7 23 0.15
8 19 0.12
9 94 0.60
10 8 0.05
11 2 0.01
12 6 0.04
13 5 0.03
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:53603401 original size:34 final size:34
Alignment explanation
Indices: 53603363--53603437 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
53603353 TATAATTAAG
* *
53603363 TTATGTAAGTTATG-ATATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAATGATATA-AGTTATGTA
* *
53603397 TTATGTAAGTTATGTAAATTATTTAAGTTATGTA
1 TTATGTAAGTTATGTAAATGATATAAGTTATGTA
53603431 TTATGTA
1 TTATGTA
53603438 CGACATAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
34 29 0.81
35 7 0.19
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.51
Consensus pattern (34 bp):
TTATGTAAGTTATGTAAATGATATAAGTTATGTA
Found at i:53603423 original size:18 final size:18
Alignment explanation
Indices: 53603396--53603577 Score: 106
Period size: 18 Copynumber: 10.7 Consensus size: 18
53603386 ATATTTATGT
53603396 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
*
53603414 ATTATTTAAGTTATGT--
1 ATTATGTAAGTTATGTAA
* **
53603430 ATTATGTACG--ACATAA
1 ATTATGTAAGTTATGTAA
* * * *
53603446 AGTAATGAAATTTGATCTTTAA
1 A-TTATGTAAGTT-A--TGTAA
*
53603468 ATTATGTAAGTCATGT--
1 ATTATGTAAGTTATGTAA
53603484 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
53603502 ATTATGTAAGTTATG-AA
1 ATTATGTAAGTTATGTAA
*
53603519 ATTCA---AA-CT-T-TAA
1 ATT-ATGTAAGTTATGTAA
53603532 ATTATGTAAGTTATGT--
1 ATTATGTAAGTTATGTAA
*
53603548 ATTATGTAAATTATGTAA
1 ATTATGTAAGTTATGTAA
*
53603566 ATTATGTGAGTT
1 ATTATGTAAGTT
53603578 GCTGGTGAAC
Statistics
Matches: 122, Mismatches: 22, Indels: 40
0.66 0.12 0.22
Matches are distributed among these distances:
12 1 0.01
13 6 0.05
14 3 0.02
15 4 0.03
16 40 0.33
17 11 0.09
18 44 0.36
20 2 0.02
21 7 0.06
22 4 0.03
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:53603748 original size:62 final size:60
Alignment explanation
Indices: 53603671--53603863 Score: 211
Period size: 62 Copynumber: 3.2 Consensus size: 60
53603661 AATTAAAGTG
*
53603671 AAATAAAATAGAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATA-AATTTAATTTAATTAGGTAAT-TTA
* * * * *
53603733 AAATAAAATAAAATATTTAAAATAAAA--TAAAATGTTAAAATT-ATTT--TT-CGTGATTCA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAA---TAAATTTAATTTAATTAGGTAATTTA
*
53603790 AAA-AAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAATTTGA
1 AAATAAAATAAAATATTTAAAATAAAACTTTAAATA-AATTTAATTTAATTAGGTAATTT-A
53603851 AAATAAAATAAAA
1 AAATAAAATAAAA
53603864 GAGAACAAAA
Statistics
Matches: 107, Mismatches: 12, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
55 2 0.02
56 26 0.24
57 9 0.08
58 8 0.07
59 4 0.04
60 9 0.08
61 8 0.07
62 39 0.36
63 2 0.02
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.36
Consensus pattern (60 bp):
AAATAAAATAAAATATTTAAAATAAAACTTTAAATAAATTTAATTTAATTAGGTAATTTA
Found at i:53607904 original size:14 final size:14
Alignment explanation
Indices: 53607855--53607906 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
53607845 ATTAAAACCC
53607855 TAAACCCTAAAACACAA
1 TAAACCCT-AAA-AC-A
53607872 TAAACCCTAAAAC-
1 TAAACCCTAAAACA
*
53607885 TCAAACTCTAAAACA
1 T-AAACCCTAAAACA
53607900 TAAACCC
1 TAAACCC
53607907 ATAACACAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
13 1 0.03
14 16 0.52
15 3 0.10
16 3 0.10
17 8 0.26
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (14 bp):
TAAACCCTAAAACA
Found at i:53610217 original size:18 final size:17
Alignment explanation
Indices: 53610171--53610209 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
53610161 GTTTAAAAAG
53610171 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
53610188 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
53610205 AAAAC
1 AAAAC
53610210 TTAATGAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.62, C:0.13, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:53622910 original size:28 final size:28
Alignment explanation
Indices: 53622849--53622944 Score: 122
Period size: 28 Copynumber: 3.4 Consensus size: 28
53622839 ATTAAGTCCA
*
53622849 CACACTCAGTGCTATATAATC-AACTCG
1 CACACTTAGTGCTATATAATCAAACTCG
*
53622876 CACACTTAGTGATATATAATCAAACTCG
1 CACACTTAGTGCTATATAATCAAACTCG
* * * *
53622904 CACACTTAGTGCTGTACAATTTAAACCCG
1 CACACTTAGTGCTATATAA-TCAAACTCG
53622933 CACACTTAGTGC
1 CACACTTAGTGC
53622945 CAATCTCATG
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 19 0.32
28 22 0.37
29 19 0.32
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CACACTTAGTGCTATATAATCAAACTCG
Found at i:53626824 original size:48 final size:48
Alignment explanation
Indices: 53626767--53626916 Score: 192
Period size: 48 Copynumber: 3.1 Consensus size: 48
53626757 CACATGGTAG
* ** * * *
53626767 GATGCCAATGCCATATCCCGGATATGGTCTTACATAGGATCACATATT
1 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCATATATT
* **
53626815 GATGCCAATGCCATGTCCCACACATGGTCTTACATGGGATCATAGGTT
1 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCATATATT
* * *
53626863 GATGCTAATGCCATGTCCCAAACATGGTATTACATGGGATCATATATC
1 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCATATATT
53626911 GATGCC
1 GATGCC
53626917 GATGGCCAGC
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCATATATT
Found at i:53634562 original size:21 final size:21
Alignment explanation
Indices: 53634533--53634572 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
53634523 GGCTAAAAAC
*
53634533 GATGTTGTAATTTAGAGTCGG
1 GATGCTGTAATTTAGAGTCGG
53634554 GATGCTGTAATTTAGAGTC
1 GATGCTGTAATTTAGAGTC
53634573 AAGTTGCGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.07, G:0.30, T:0.38
Consensus pattern (21 bp):
GATGCTGTAATTTAGAGTCGG
Found at i:53636935 original size:43 final size:42
Alignment explanation
Indices: 53636851--53637012 Score: 164
Period size: 42 Copynumber: 3.8 Consensus size: 42
53636841 TATCATACCA
* * * * **
53636851 ATGCCATATCCCAGATATGATCTTACA-TATAATCTTGTATCG
1 ATGCCATATCCCAAATATGGTCTTACACGA-AGTCTCATATCG
* * *
53636893 ATGACAATAGCCCAACTATGGTCTTACACGAAGTCTCATATCG
1 ATG-CCATATCCCAAATATGGTCTTACACGAAGTCTCATATCG
* * * * *
53636936 ATGCCATATCCCAAAAATGGTTTTACCCGAAATCTCATATTG
1 ATGCCATATCCCAAATATGGTCTTACACGAAGTCTCATATCG
*
53636978 ATGCCATATCCCAAATATGGTCTTACACAAAGTCT
1 ATGCCATATCCCAAATATGGTCTTACACGAAGTCT
53637013 TAGTAACCCT
Statistics
Matches: 96, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
42 64 0.67
43 31 0.32
44 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAAATATGGTCTTACACGAAGTCTCATATCG
Found at i:53646309 original size:24 final size:24
Alignment explanation
Indices: 53646282--53646330 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
53646272 ATGCTTTACA
53646282 TAGATATTGTTACTTACAAATATG
1 TAGATATTGTTACTTACAAATATG
53646306 TAGATATTGTTACTTACAAATATG
1 TAGATATTGTTACTTACAAATATG
53646330 T
1 T
53646331 TTTAGACAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (24 bp):
TAGATATTGTTACTTACAAATATG
Found at i:53647758 original size:15 final size:15
Alignment explanation
Indices: 53647729--53647764 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
53647719 CCTCCTATAT
53647729 TTTTATTCTTATTTTC
1 TTTT-TTCTTATTTTC
*
53647745 TTTTTTCTTTTTTTC
1 TTTTTTCTTATTTTC
53647760 TTTTT
1 TTTTT
53647765 ATTACTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTCTTATTTTC
Found at i:53653982 original size:43 final size:43
Alignment explanation
Indices: 53653934--53654046 Score: 106
Period size: 43 Copynumber: 2.6 Consensus size: 43
53653924 TACAAATGGC
* *
53653934 ATATCCCAGATATGGTCTTACATGTAA-TCTCGTATCGATTACA
1 ATATCCCAGATATGGTCTTACATGTAAGTCTCATAT-GAATACA
* * * * *
53653977 ATATCCCA-ACTATGGTTTTACACG-AAGTCTCATATTAATGCC
1 ATATCCCAGA-TATGGTCTTACATGTAAGTCTCATATGAATACA
*
53654019 ATATCCTAGATATGGTCTTACACTGTAA
1 ATATCCCAGATATGGTCTTACA-TGTAA
53654047 CACCCCGAAC
Statistics
Matches: 55, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
42 24 0.44
43 29 0.53
44 2 0.04
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (43 bp):
ATATCCCAGATATGGTCTTACATGTAAGTCTCATATGAATACA
Found at i:53655270 original size:24 final size:24
Alignment explanation
Indices: 53655238--53655284 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
53655228 ACCAACTATG
* *
53655238 CCATGGTTCCTTAGACCTTTCGGA
1 CCATAGTTCCTTAGACCTATCGGA
53655262 CCATAGTTCCTTAGACCTATCGG
1 CCATAGTTCCTTAGACCTATCGG
53655285 TTCAATCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.32
Consensus pattern (24 bp):
CCATAGTTCCTTAGACCTATCGGA
Found at i:53655619 original size:29 final size:27
Alignment explanation
Indices: 53655601--53655670 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
53655591 ATATTAAGTC
53655601 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
53655628 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
53655656 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
53655671 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:53655664 original size:28 final size:28
Alignment explanation
Indices: 53655601--53655698 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
53655591 ATATTAAGTC
*
53655601 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
53655628 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
53655656 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
53655685 CGCACACTTAGTGC
1 CGCACACTTAGTGC
53655699 CAATCTCAGG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53660441 original size:13 final size:13
Alignment explanation
Indices: 53660409--53660446 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
53660399 TCATATGTGT
53660409 TAATAA-ATAAAA
1 TAATAATATAAAA
53660421 TAATAATA-AAAA
1 TAATAATATAAAA
53660433 TATATAATATAAAA
1 TA-ATAATATAAAA
53660447 AAAATAGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 12 0.52
13 7 0.30
14 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
TAATAATATAAAA
Found at i:53667782 original size:15 final size:14
Alignment explanation
Indices: 53667762--53667804 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
53667752 TAATACGAGT
53667762 TAATAAATAAAATAA
1 TAATAAA-AAAATAA
53667777 TAATAAAAATATATAA
1 TAATAAAAA-A-ATAA
53667793 T-ATAAAAAAATA
1 TAATAAAAAAATA
53667805 GGCAATAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.12
14 3 0.12
15 15 0.58
16 5 0.19
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
TAATAAAAAAATAA
Found at i:53667794 original size:13 final size:13
Alignment explanation
Indices: 53667762--53667804 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
53667752 TAATACGAGT
53667762 TAATAA-ATAAAA
1 TAATAATATAAAA
53667774 TAATAATA-AAAA
1 TAATAATATAAAA
53667786 TATATAATATAAAA
1 TA-ATAATATAAAA
*
53667800 AAATA
1 TAATA
53667805 GGCAATAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 12 0.44
13 10 0.37
14 5 0.19
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
TAATAATATAAAA
Found at i:53674235 original size:47 final size:47
Alignment explanation
Indices: 53674166--53674339 Score: 165
Period size: 47 Copynumber: 3.6 Consensus size: 47
53674156 CGTAATGCCA
*
53674166 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCCAACAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCAACAAGTCG
* * * * * *
53674213 ATGCCATGTACCAGACATGGTCTTTCACTGACT-ATCGAA-ATTGACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCAACA-AGTC-G
* * * **
53674260 ACGCCATGTCCCAGACTTGGTCTTACACTGGCTC-TCACACCTTCGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CAAC-AAGT--CG
53674310 ATGCCATGTCCCAGACATGGTCTTACACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTG
53674340 ACACATCTCG
Statistics
Matches: 100, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
45 1 0.01
46 7 0.07
47 60 0.60
48 1 0.01
49 1 0.01
50 29 0.29
51 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCAACAAGTCG
Found at i:53674339 original size:97 final size:94
Alignment explanation
Indices: 53674168--53674341 Score: 242
Period size: 94 Copynumber: 1.8 Consensus size: 94
53674158 TAATGCCAAT
*
53674168 GCCATGTCCTAGACATGGTCTTACACTGGCTCATCCAACAAGTCGATGCCATGTACCAGACATGG
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCATCCAACAAGTCGATGCCATGTACCAGACATGG
*
53674233 TCTTTCACTGACTATCGAAATTGACTGAC
66 TCTTACACTGACTATCGAAATTGACTGAC
* * ** *
53674262 GCCATGTCCCAGACTTGGTCTTACACTGGCTC-TCACACCTTCGTGCCGATGCCATGTCCCAGAC
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CAAC-AAGT--CGATGCCATGTACCAGAC
53674326 ATGGTCTTACACTGAC
62 ATGGTCTTACACTGAC
53674342 ACATCTCGTA
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
93 2 0.03
94 33 0.48
95 2 0.03
97 32 0.46
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (94 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTCATCCAACAAGTCGATGCCATGTACCAGACATGG
TCTTACACTGACTATCGAAATTGACTGAC
Found at i:53674392 original size:46 final size:48
Alignment explanation
Indices: 53674264--53674522 Score: 220
Period size: 46 Copynumber: 5.5 Consensus size: 48
53674254 TGACTGACGC
* *
53674264 CATGTCCCAGACTTGGTCTTACACTGGCTCTCACACCTTCGT-GCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCT-ACATC-TCGTAGCCGATG
*
53674313 CCATGTCCCAGACATGGTCTTACACT-G-AC-ACATCTCGTAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTAGCCGATG
* * * *
53674359 CATGGCCCAGACA-CGTCTTACACTGGCT-TACATCTCG-AGGTCAATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTA-GCCGATG
* * * *
53674405 CATGTCCTAGACAT-GTCTTATACTAGCTCT-CGTCTCGATA-CCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCG-TAGCCGATG
* * * *
53674451 CTATGTCCCAAACATGGTCTTACACTGGCTCT-CATAAT-GTGGTCGATG
1 C-ATGTCCCAGACATGGTCTTACACTGGCTCTACAT-CTCGTAGCCGATG
*
53674499 CATGTCCTAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
53674523 AGCGCACAAA
Statistics
Matches: 171, Mismatches: 25, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
44 10 0.06
45 18 0.11
46 68 0.40
47 24 0.14
48 25 0.15
49 2 0.01
50 24 0.14
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGTAGCCGATG
Found at i:53703235 original size:68 final size:66
Alignment explanation
Indices: 53703155--53703370 Score: 212
Period size: 67 Copynumber: 3.3 Consensus size: 66
53703145 GAGTGCACTT
* *
53703155 CATGTGTACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTA
1 CATGTGTACAAGAGAGCTAC-AGAGA-TATGCTGTAGCTAGGTCGCATGGGTGATACTATGTGTA
53703220 CAC
64 CAC
* * * *
53703223 CATGTAGT-CAAGAGAGCTACAG-GATAT-CTGTAGCTAGGTCGCATGTGTGATTCCAGGTGAAG
1 CATGT-GTACAAGAGAGCTACAGAGATATGCTGTAGCTAGGTCGCATGGGTGATACTA--TG-TG
*
53703285 GACAC
62 TACAC
* * * * *
53703290 CATGTAG-ACAAGAGAGCTAC-GAGATAAGCTG--GCTAGGTCACATGGGTGGTACTAAGTGTTC
1 CATGT-GTACAAGAGAGCTACAGAGATATGCTGTAGCTAGGTCGCATGGGTGATACTATGTGTAC
53703351 AC
65 AC
53703353 CATGTGTACAAGAGAGCT
1 CATGTGTACAAGAGAGCT
53703371 GAACTATATG
Statistics
Matches: 123, Mismatches: 17, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
62 1 0.01
63 20 0.16
64 25 0.20
65 3 0.02
66 22 0.18
67 30 0.24
68 20 0.16
69 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (66 bp):
CATGTGTACAAGAGAGCTACAGAGATATGCTGTAGCTAGGTCGCATGGGTGATACTATGTGTACA
C
Found at i:53706736 original size:30 final size:30
Alignment explanation
Indices: 53706702--53706762 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
53706692 TTCCCAAGCC
53706702 TAGGGGCAAAAGTGTAAATATGCAAAATTT
1 TAGGGGCAAAAGTGTAAATATGCAAAATTT
* * * *
53706732 TAGGGGCAAAATTGTAATTTTTCAAAATTT
1 TAGGGGCAAAAGTGTAAATATGCAAAATTT
53706762 T
1 T
53706763 GAATTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAATTT
Found at i:53713956 original size:23 final size:23
Alignment explanation
Indices: 53713926--53713974 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
53713916 AAGCTGAACA
53713926 TGCTGAACATTTGAGACTTGTGT
1 TGCTGAACATTTGAGACTTGTGT
53713949 TGCTGAACATTTGAGACTTGTGT
1 TGCTGAACATTTGAGACTTGTGT
53713972 TGC
1 TGC
53713975 AGACTTTCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (23 bp):
TGCTGAACATTTGAGACTTGTGT
Found at i:53719195 original size:27 final size:26
Alignment explanation
Indices: 53719147--53719206 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
53719137 GCGAGGCTGC
*
53719147 TAGATATTGTGACGAAGTCACCAGATA
1 TAGATATTGTGACGAAGCCACCAGA-A
* * *
53719174 TAGATATTGTGGCTAGGCCACCAGAA
1 TAGATATTGTGACGAAGCCACCAGAA
*
53719200 CAGATAT
1 TAGATAT
53719207 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (26 bp):
TAGATATTGTGACGAAGCCACCAGAA
Found at i:53719299 original size:27 final size:26
Alignment explanation
Indices: 53719251--53719302 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
53719241 GTGAGGCTGC
*
53719251 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
53719277 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
53719303 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:53719977 original size:27 final size:27
Alignment explanation
Indices: 53719947--53720145 Score: 184
Period size: 27 Copynumber: 7.4 Consensus size: 27
53719937 GGGCAAAATG
* * * *
53719947 GTAATTTTACCCCACAAGGGTATCTCT
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
53719974 GTAATTTTACCCTA-TAGAGGTATTTCA
1 GTAATTCTACCCTACAAG-GGTATTTCA
* *
53720001 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* * **
53720028 GTAATTCTATCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
53720055 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * **
53720082 ATAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCA
* * * **
53720109 GTAATTCTACCTTATAGGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCA
53720136 GTAATTCTAC
1 GTAATTCTAC
53720146 AACTTATCCA
Statistics
Matches: 149, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 145 0.97
28 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:53720059 original size:81 final size:81
Alignment explanation
Indices: 53719974--53720145 Score: 256
Period size: 81 Copynumber: 2.1 Consensus size: 81
53719964 GGGTATCTCT
* * * *
53719974 GTAATTTTACCCTATAGAGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTATC
1 GTAATTCTACCCTACAGAGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGGTAATTCTA-C
53720039 C-TACAGGGGTATTTTG
65 CTTACAGGGGTATTTTG
* * *
53720055 GTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTTGGTAATTCTACC
1 GTAATTCTACCCTACAGAGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGGTAATTCTACC
*
53720120 TTATAGGGGTATTTTG
66 TTACAGGGGTATTTTG
53720136 GTAATTCTAC
1 GTAATTCTAC
53720146 AACTTATCCA
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 2 0.02
81 80 0.98
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (81 bp):
GTAATTCTACCCTACAGAGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGGTAATTCTACC
TTACAGGGGTATTTTG
Found at i:53728413 original size:27 final size:27
Alignment explanation
Indices: 53728382--53728559 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
53728372 TAAATTGTAC
53728382 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
53728409 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
53728435 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
53728463 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
53728491 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
53728518 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
53728545 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
53728560 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:53728496 original size:82 final size:81
Alignment explanation
Indices: 53728383--53728538 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
53728373 AAATTGTACA
* *
53728383 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
53728447 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
53728464 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
53728529 TGCGAGTTGA
65 TGCGAATTGA
53728539 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:53728550 original size:82 final size:81
Alignment explanation
Indices: 53728379--53728559 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
53728369 GATTAAATTG
* *
53728379 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
53728444 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
53728460 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
53728524 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
53728542 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
53728560 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:53728570 original size:27 final size:27
Alignment explanation
Indices: 53728464--53728570 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
53728454 TGACCATGCG
* * * *
53728464 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
53728492 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
53728519 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
53728546 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
53728571 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:53737297 original size:28 final size:28
Alignment explanation
Indices: 53737265--53737419 Score: 204
Period size: 28 Copynumber: 5.5 Consensus size: 28
53737255 ATAGTAAGTC
53737265 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGTTATATAATCAAACT
53737293 CGCACACTTAGTGCTTA-ATAATCAAACT
1 CGCACACTTAGTG-TTATATAATCAAACT
*
53737321 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTG-TTATATAATCAAACT
*
53737350 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGTTATATAATCAAACT
* * ** * *
53737378 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGTTATATAA-TCAAACT
53737407 CGCACACTTAGTG
1 CGCACACTTAGTG
53737420 CCAATCTCAT
Statistics
Matches: 116, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
28 72 0.62
29 44 0.38
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGTTATATAATCAAACT
Found at i:53737352 original size:57 final size:57
Alignment explanation
Indices: 53737265--53737420 Score: 219
Period size: 57 Copynumber: 2.8 Consensus size: 57
53737255 ATAGTAAGTC
*
53737265 CGCACACTTAGTG-TTATATAATCAAACTCGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTAGTGCTAT-ATAATCAAACT
53737321 CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
53737378 TGCACACTTAGTGCTATGCA-ATTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCT-TACATAATCAAACTCGCACACTTAGTGC
53737421 CAATCTCATG
Statistics
Matches: 91, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 13 0.14
57 74 0.81
58 4 0.04
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTAGTGCTATATAATCAAACT
Found at i:53742031 original size:39 final size:39
Alignment explanation
Indices: 53741945--53742177 Score: 251
Period size: 39 Copynumber: 6.0 Consensus size: 39
53741935 ACTTGAAACC
** **
53741945 AATTACCAGCACA-AGCCTGCGGGAATTTAAACCCGG-TAT
1 AATT-CCAGCACATAGCCTGC-GGACCTTAAGTCCGGATAT
* * * * * *
53741984 AATACCAGCTCGA-AGCCTGCGGAACTTTAGCCCGGACAT
1 AATTCCAGCAC-ATAGCCTGCGGACCTTAAGTCCGGATAT
* * *
53742023 ATTTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGTTAT
1 AATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATAT
53742062 AATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATAT
1 AATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATAT
*
53742101 AATTCCAGCACATAGCCTGCGGA-CTCTAAGTCCAGATAT
1 AATTCCAGCACATAGCCTGCGGACCT-TAAGTCCGGATAT
*
53742140 AATTCCAGCACATAGCCTGCGGA-CTCTAAGTCCAGATA
1 AATTCCAGCACATAGCCTGCGGACCT-TAAGTCCGGATA
53742178 AACATCACTG
Statistics
Matches: 171, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
38 20 0.12
39 151 0.88
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (39 bp):
AATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATAT
Found at i:53762176 original size:39 final size:39
Alignment explanation
Indices: 53762133--53762283 Score: 184
Period size: 39 Copynumber: 3.9 Consensus size: 39
53762123 CCAGACATAT
* * *
53762133 TTCCAGCACGTAGCCTGCGGAC-CTTAAGTCTGGTTATAA
1 TTCCAGCACATAGCCTGCGGACTC-TAAGTCCGGATATAA
* * *
53762172 TTCCAGCAC--AGCCTACGGAC-CTTAAGTCCAGATGTAA
1 TTCCAGCACATAGCCTGCGGACTC-TAAGTCCGGATATAA
*
53762209 TTCCATCACATAGCCTGCGGACTCTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACTCTAAGTCCGGATATAA
*
53762248 TTCCAGCACATAGCCTGCGGACTCTAAGTCTGGATA
1 TTCCAGCACATAGCCTGCGGACTCTAAGTCCGGATA
53762284 AACATCACTG
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
37 31 0.32
39 66 0.67
40 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACTCTAAGTCCGGATATAA
Found at i:53766448 original size:49 final size:50
Alignment explanation
Indices: 53766366--53766613 Score: 304
Period size: 49 Copynumber: 5.0 Consensus size: 50
53766356 TGATCTATTG
*
53766366 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
* * * *
53766416 TT-GGTCGCATGTGTAGTACTAAGTACAGGCTACTATGCGTACCCA-ATAA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA
* * * * **
53766465 CTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG
1 -TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
* * *
53766516 TTAGGTCACGTGTGTAGTACTAAGTGCATGCTACTACGTGTACTAGATAA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
* * *
53766566 TT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
53766614 GCTTTGGCTA
Statistics
Matches: 167, Mismatches: 27, Indels: 9
0.82 0.13 0.04
Matches are distributed among these distances:
49 78 0.47
50 54 0.32
51 35 0.21
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
Found at i:53766505 original size:28 final size:28
Alignment explanation
Indices: 53766473--53766556 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
53766463 AACTTCGATC
53766473 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
53766501 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
*
53766523 ACGTGTGTAGTACTAAGTGCATGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
53766551 ACGTGT
1 ACGTGT
53766557 ACTAGATAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 16
0.64 0.11 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.20
23 2 0.05
24 3 0.07
25 5 0.12
26 3 0.07
27 2 0.05
28 14 0.34
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:53771771 original size:50 final size:49
Alignment explanation
Indices: 53771603--53771830 Score: 251
Period size: 50 Copynumber: 4.6 Consensus size: 49
53771593 TCTATTGTGA
* * *
53771603 GGTCACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTA-CGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * * ** *
53771651 GGTCGCATGTGTAGTACTATGTGTAGGCTACAATGCCTACCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * **
53771701 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
53771751 AGGTCACATGTGTAGTACTAAGTGCAGGTTACTACGTGTACCAGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
53771801 TGTCGCATGTGTAGTACTAAGTGCAGGCTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTA
53771831 ATATGCATAG
Statistics
Matches: 144, Mismatches: 33, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
48 30 0.21
49 33 0.23
50 47 0.33
51 34 0.24
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:53771812 original size:99 final size:99
Alignment explanation
Indices: 53771605--53771830 Score: 267
Period size: 99 Copynumber: 2.3 Consensus size: 99
53771595 TATTGTGAGG
* * * *
53771605 TCACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTACGGATAATTGGTCGCATGTGTAGTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGATAATTGGTCACATGTGTAGTACTA
* * * *
53771670 TGTGTAGGCTACAATGCCTACCCGATAACTTCGA
66 AGTGCAGGCTACAACGCCTACCAGATAACTTCGA
* **
53771704 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGATAATT-GGTCACATGTGTAGTAC
* * ** *
53771769 TAAGTGCAGGTTACTACGTGTACCAGATAA-TTTG-
64 TAAGTGCAGGCTACAACGCCTACCAGATAACTTCGA
*
53771803 TCGCATGTGTAGTACTAAGTGCAGGCTA
1 TCACATGTGTAGTACTAAGTGCAGGCTA
53771831 ATATGCATAG
Statistics
Matches: 109, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
99 62 0.57
100 9 0.08
101 38 0.35
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (99 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGATAATTGGTCACATGTGTAGTACTA
AGTGCAGGCTACAACGCCTACCAGATAACTTCGA
Found at i:53802344 original size:98 final size:99
Alignment explanation
Indices: 53802165--53802347 Score: 257
Period size: 98 Copynumber: 1.9 Consensus size: 99
53802155 TCTTTCTGAG
* * *
53802165 TGGTACACACAAAGTATACCTTTCCTTTTCATATGGTATACACAGAGTATACCCTTCCTTTTCAT
1 TGGTACACACAAAGTATACCTTTCCTTTTCATATGGTACACACAGAGTATACCATACCTTTTCAT
53802230 ATGGTATACACAAAGTATACATTTCCTTTTTATA
66 ATGGTATACACAAAGTATACATTTCCTTTTTATA
* *
53802264 TGGTACATACAAAGTATACCTTTCCTTTTCA-A-GTGTACACACA-ATGTGTA-CATAACCTTTT
1 TGGTACACACAAAGTATACCTTTCCTTTTCATATG-GTACACACAGA-GTATACCAT-ACCTTTT
*
53802325 CATGTGGTATACACAAAGTATAC
63 CATATGGTATACACAAAGTATAC
53802348 CGAACATTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
97 4 0.05
98 41 0.55
99 30 0.40
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (99 bp):
TGGTACACACAAAGTATACCTTTCCTTTTCATATGGTACACACAGAGTATACCATACCTTTTCAT
ATGGTATACACAAAGTATACATTTCCTTTTTATA
Found at i:53802359 original size:33 final size:33
Alignment explanation
Indices: 53802165--53802348 Score: 219
Period size: 33 Copynumber: 5.6 Consensus size: 33
53802155 TCTTTCTGAG
53802165 TGGTACACACAAAGTATACCTTTCCTTTTCATA
1 TGGTACACACAAAGTATACCTTTCCTTTTCATA
* * *
53802198 TGGTATACACAGAGTATACCCTTCCTTTTCATA
1 TGGTACACACAAAGTATACCTTTCCTTTTCATA
* * *
53802231 TGGTATACACAAAGTATACATTTCCTTTTTATA
1 TGGTACACACAAAGTATACCTTTCCTTTTCATA
*
53802264 TGGTACATACAAAGTATACCTTTCCTTTTCA-A
1 TGGTACACACAAAGTATACCTTTCCTTTTCATA
* * * ** *
53802296 -GTGTACACACAATGTGTACATAACCTTTTCATG
1 TG-GTACACACAAAGTATACCTTTCCTTTTCATA
*
53802329 TGGTATACACAAAGTATACC
1 TGGTACACACAAAGTATACC
53802349 GAACATTTTC
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
31 1 0.01
32 24 0.19
33 100 0.79
34 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (33 bp):
TGGTACACACAAAGTATACCTTTCCTTTTCATA
Found at i:53802387 original size:29 final size:29
Alignment explanation
Indices: 53802354--53802447 Score: 125
Period size: 29 Copynumber: 3.2 Consensus size: 29
53802344 ATACCGAACA
* *
53802354 TTTTCACATACGATAGCCAAAGCTATCCC
1 TTTTCACATTCGATAGCCGAAGCTATCCC
* *
53802383 TTTTCACATTCGATAGCTGAAGTTATCCC
1 TTTTCACATTCGATAGCCGAAGCTATCCC
* *
53802412 TTTGCACATTCCATAGCCGAAGCTATCCC
1 TTTTCACATTCGATAGCCGAAGCTATCCC
*
53802441 TATTCAC
1 TTTTCAC
53802448 TGATCAGATA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.32
Consensus pattern (29 bp):
TTTTCACATTCGATAGCCGAAGCTATCCC
Found at i:53802467 original size:31 final size:31
Alignment explanation
Indices: 53802425--53802630 Score: 231
Period size: 31 Copynumber: 6.7 Consensus size: 31
53802415 GCACATTCCA
* * * *
53802425 TAGCCGAAGCTATCC-CTATTCACTGATCAGA
1 TAGCTGAAGCTA-CCACTTTTCACTAATCAGG
*
53802456 TAGCTGGAGCTACCACTTTTCACTAATCAGG
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
* * *
53802487 TAGCCGAAGCTACTACTTTTCACTGATCAGG
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
53802518 TAGCTGAAGCTACCACTTTTCACTAATCAGG
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
* ** *
53802549 TAGCCGAAGCT---ACTTTTTGCTGATCAGG
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
* * *
53802577 TAGCCGAAGCTACCATTTTTCACTGATCAGG
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
*
53802608 TAGCCGAAGCTACCACTTTTCAC
1 TAGCTGAAGCTACCACTTTTCAC
53802631 ATTGTACACA
Statistics
Matches: 151, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
28 25 0.17
30 2 0.01
31 124 0.82
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (31 bp):
TAGCTGAAGCTACCACTTTTCACTAATCAGG
Found at i:53802509 original size:62 final size:62
Alignment explanation
Indices: 53802425--53802630 Score: 294
Period size: 62 Copynumber: 3.4 Consensus size: 62
53802415 GCACATTCCA
* * * *
53802425 TAGCCGAAGCTA-TCCCTATTCACTGATCAGATAGCTGGAGCTACCACTTTTCACTAATCAGG
1 TAGCCGAAGCTACT-ACTTTTCACTGATCAGGTAGCTGAAGCTACCACTTTTCACTAATCAGG
53802487 TAGCCGAAGCTACTACTTTTCACTGATCAGGTAGCTGAAGCTACCACTTTTCACTAATCAGG
1 TAGCCGAAGCTACTACTTTTCACTGATCAGGTAGCTGAAGCTACCACTTTTCACTAATCAGG
* * * *
53802549 TAGCCGAAGCTACT--TTTT-GCTGATCAGGTAGCCGAAGCTACCATTTTTCACTGATCAGG
1 TAGCCGAAGCTACTACTTTTCACTGATCAGGTAGCTGAAGCTACCACTTTTCACTAATCAGG
*
53802608 TAGCCGAAGCTACCACTTTTCAC
1 TAGCCGAAGCTACTACTTTTCAC
53802631 ATTGTACACA
Statistics
Matches: 130, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
59 50 0.38
60 4 0.03
61 4 0.03
62 71 0.55
63 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (62 bp):
TAGCCGAAGCTACTACTTTTCACTGATCAGGTAGCTGAAGCTACCACTTTTCACTAATCAGG
Found at i:53805200 original size:15 final size:15
Alignment explanation
Indices: 53805177--53805218 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
53805167 GAAGCCCAGA
53805177 ATAAGGAAATCCATG
1 ATAAGGAAATCCATG
*
53805192 ATAAAGAAATCCATG
1 ATAAGGAAATCCATG
53805207 ATAAGGAAATCC
1 ATAAGGAAATCC
53805219 CATTTACAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (15 bp):
ATAAGGAAATCCATG
Found at i:53807463 original size:46 final size:45
Alignment explanation
Indices: 53807396--53807565 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 45
53807386 TGTCACCCGC
53807396 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCG-GCATTCGCAT
* *
53807442 CCATAAGTGAAGTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** * * *
53807488 ACATCTCTCGAACTCGGACTCCACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
*
53807535 CCATAAGTGAACCCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
53807566 TACGGATGCC
Statistics
Matches: 99, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 1 0.01
46 59 0.60
47 29 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:53807563 original size:93 final size:93
Alignment explanation
Indices: 53807404--53807575 Score: 267
Period size: 93 Copynumber: 1.8 Consensus size: 93
53807394 GCCCATAAGT
**
53807404 GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAAGTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACCCGGACTCAACTCAA
53807469 CGAGCT-CGGATGCCTAGTTACATCTCTC
66 CGAG-TACGGATGCCTAGTTACATCTCTC
* * *
53807497 GAACTCGGACTCCACTCAATGAGTTCG-GACATTCGCATCCATAAGTGAACCCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAGTGAACCCGGACTCAACTCA
53807561 ACGAGTACGGATGCC
65 ACGAGTACGGATGCC
53807576 CAAATATCCT
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACCCGGACTCAACTCAA
CGAGTACGGATGCCTAGTTACATCTCTC
Found at i:53812896 original size:46 final size:46
Alignment explanation
Indices: 53812829--53813004 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
53812819 TCTAACCTGC
*
53812829 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * *
53812875 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGT-TCGCAT
* *** * *
53812921 ACATCTCTCGAACAT-GGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAAC-TCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
*
53812968 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
53813005 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 72 0.67
47 34 0.31
48 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:53816958 original size:31 final size:32
Alignment explanation
Indices: 53816893--53817101 Score: 247
Period size: 31 Copynumber: 6.8 Consensus size: 32
53816883 TCACATTCGA
* * *
53816893 TAGC-CGAAGCTATCC-CTATTCACTGATCATG
1 TAGCTCGAAGCTA-CCACTTTTCACTAATCAGG
* *
53816924 TAGCTAG-AGTTACCACTTTTCACTAATCAGG
1 TAGCTCGAAGCTACCACTTTTCACTAATCAGG
*
53816955 TAGC-CGAAGCTACTACTTTTCACTAA-CGAGG
1 TAGCTCGAAGCTACCACTTTTCACTAATC-AGG
*
53816986 TAGCT-GAAGCTACCACTTTTCACTAATCAAG
1 TAGCTCGAAGCTACCACTTTTCACTAATCAGG
* *
53817017 TAGCT-GAAGCTACTACTTTCCACTAATCAGG
1 TAGCTCGAAGCTACCACTTTTCACTAATCAGG
*
53817048 TAGC-CGAAGCTACCACTTTTCACTGATCAGG
1 TAGCTCGAAGCTACCACTTTTCACTAATCAGG
53817079 TAG-TCGAAGCTACCACTTTTCAC
1 TAGCTCGAAGCTACCACTTTTCAC
53817102 ATTGTACACA
Statistics
Matches: 154, Mismatches: 16, Indels: 16
0.83 0.09 0.09
Matches are distributed among these distances:
30 4 0.03
31 148 0.96
32 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (32 bp):
TAGCTCGAAGCTACCACTTTTCACTAATCAGG
Found at i:53817057 original size:93 final size:93
Alignment explanation
Indices: 53816893--53817101 Score: 273
Period size: 93 Copynumber: 2.2 Consensus size: 93
53816883 TCACATTCGA
* * * * * *
53816893 TAGCCGAAGCTATCC-CTATTCACTGATCATGTAGCTAGAGTTACCACTTTTCACTAATCAGGTA
1 TAGCTGAAGCTA-CCACTTTTCACTAATCAAGTAGCTAGAGCTACCACTTTCCACTAATCAGGTA
*
53816957 GCCGAAGCTACTACTTTTCACT-AACGAGG
65 GCCGAAGCTACCACTTTTCACTGAAC-AGG
*
53816986 TAGCTGAAGCTACCACTTTTCACTAATCAAGTAGCT-GAAGCTACTACTTTCCACTAATCAGGTA
1 TAGCTGAAGCTACCACTTTTCACTAATCAAGTAGCTAG-AGCTACCACTTTCCACTAATCAGGTA
*
53817050 GCCGAAGCTACCACTTTTCACTGATCAGG
65 GCCGAAGCTACCACTTTTCACTGAACAGG
53817079 TAG-TCGAAGCTACCACTTTTCAC
1 TAGCT-GAAGCTACCACTTTTCAC
53817102 ATTGTACACA
Statistics
Matches: 103, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
92 4 0.04
93 97 0.94
94 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (93 bp):
TAGCTGAAGCTACCACTTTTCACTAATCAAGTAGCTAGAGCTACCACTTTCCACTAATCAGGTAG
CCGAAGCTACCACTTTTCACTGAACAGG
Found at i:53827189 original size:40 final size:40
Alignment explanation
Indices: 53827157--53827344 Score: 270
Period size: 40 Copynumber: 4.7 Consensus size: 40
53827147 CCAGCATGAT
* * * * *
53827157 TGCTCTTTGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
53827197 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
53827237 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
53827277 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
53827317 TGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TGCTCTTCGGGACTTAGCCCGGATACATC
53827345 GTCGAGACCT
Statistics
Matches: 133, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 4 0.03
40 129 0.97
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:53827505 original size:38 final size:38
Alignment explanation
Indices: 53827398--53827510 Score: 174
Period size: 38 Copynumber: 3.0 Consensus size: 38
53827388 GAATTTTAAT
*
53827398 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTATACATAGCCATCGGGTCTTTAC
53827436 CCGGACATAATCTCTATACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTATACATAGCCATCGGGTCTTTAC
* * *
53827474 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTAT-ACATAGCCATCGGGTCTTTA
53827511 AACTCGGATT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
37 1 0.01
38 69 0.99
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (38 bp):
CCGGACATAATCTCTATACATAGCCATCGGGTCTTTAC
Found at i:53842949 original size:94 final size:94
Alignment explanation
Indices: 53842681--53843092 Score: 450
Period size: 94 Copynumber: 4.4 Consensus size: 94
53842671 GGGTAAAGTA
* * * *
53842681 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCATCTTCGA-GGCTGATGCTATGTCC
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACTCGTCTT-AATGTC-GATGCCATGTCC
* * *
53842744 TAGACATGGTCTTACACTAGCTCTCATACA-ACTGTG
61 CAGACATGGTCTTATACTAGCTCTCATA-ATA-T-AG
* * * *
53842780 CCGATGCCATGTCCTAGACATGGTCTTACACT-GACACATC-TCAT-A-GCCGATG-TATGTCCC
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CAC-TCGTCTTAATGTCGATGCCATGTCCC
* * * *** *
53842840 AAACAT-GTGTTATACTAGCT-TACGTCCCGA-GG
62 AGACATGGTCTTATACTAGCTCT-CAT-AATATAG
*
53842872 CTGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTAATGTCGATGCCATGTCCCAGAC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTAATGTCGATGCCATGTCCCAGAC
53842937 ATGGTCTTATACTAGCTCTCATAATATAG
66 ATGGTCTTATACTAGCTCTCATAATATAG
53842966 CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTAATGTCGATGCCATGTCCCAGAC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTAATGTCGATGCCATGTCCCAGAC
53843031 ATGGTCTTATACTAGCTCTCATAATATAG
66 ATGGTCTTATACTAGCTCTCATAATATAG
53843060 CCGATGCATGTCCCAGACATGTCTTACACTAGC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC
53843093 TCACATAAAT
Statistics
Matches: 275, Mismatches: 24, Indels: 33
0.83 0.07 0.10
Matches are distributed among these distances:
89 2 0.01
90 16 0.06
91 15 0.05
92 12 0.04
93 14 0.05
94 156 0.57
95 14 0.05
96 4 0.01
97 3 0.01
98 2 0.01
99 35 0.13
100 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (94 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTAATGTCGATGCCATGTCCCAGAC
ATGGTCTTATACTAGCTCTCATAATATAG
Found at i:53843091 original size:140 final size:142
Alignment explanation
Indices: 53842681--53843100 Score: 448
Period size: 140 Copynumber: 3.0 Consensus size: 142
53842671 GGGTAAAGTA
* * *
53842681 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTTCGAGGCTGATGCTATGTCCTA
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGC-ATCGTCTT-GAGGCTGATGCCATGTCCCA
* *
53842746 GACATGGTCTTACACTAGCTCTCATACA-ACTGTGCCGATGCCATGTCCTAGACATGGTCTTACA
62 GACATGGTCTTACACTAGCTCTCATA-ATA-T-AGCCGATGCCATGTCCCAGACATGGTCTTACA
* *
53842810 CT-G-ACACAT-CTCATAG
124 CTAGCTCACATAATCATAG
* * * * * **
53842826 CCGATGTATGTCCCAAACATGTGTTATACTAGCTTACGTCCCGAGGCTGATG-CATGTCCCAGAC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCAT-CGTCTTGAGGCTGATGCCATGTCCCAGAC
* * ** * *
53842890 AT-GTCTTACACTAGCACTCGTCTTA-ATGTCGATGCCATGTCCCAGACATGGTCTTATACTAGC
65 ATGGTCTTACACTAGCTCTCATAATATA-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
*
53842953 TCTCATAAT-ATAG
129 TCACATAATCATAG
* *
53842966 CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTAATG-TCGATGCCATGTCCCAGA
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCA-TCGTCTTGAGGCT-GATGCCATGTCCCAGA
*
53843030 CATGGTCTTATACTAGCTCTCATAATATAGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC
64 CATGGTCTTACACTAGCTCTCATAATATAGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
53843093 TCACATAA
129 TCACATAA
53843101 ATGACCCAAG
Statistics
Matches: 226, Mismatches: 38, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
138 30 0.13
139 2 0.01
140 84 0.37
141 42 0.19
142 35 0.15
143 15 0.07
144 12 0.05
145 6 0.03
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (142 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCATCGTCTTGAGGCTGATGCCATGTCCCAGACA
TGGTCTTACACTAGCTCTCATAATATAGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
ACATAATCATAG
Found at i:53843100 original size:46 final size:47
Alignment explanation
Indices: 53842681--53843100 Score: 315
Period size: 46 Copynumber: 8.9 Consensus size: 47
53842671 GGGTAAAGTA
* ** **
53842681 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTTCGAGG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCATAATATA-G
* * *
53842730 CTGATGCTATGTCCTAGACATGGTCTTACACTAGCTCTCATACA-ACTGTG
1 CCGATGC-ATGTCCCAGACATGGTCTTACACTAGCTCTCATA-ATA-T-AG
* * * *
53842780 CCGATGCCATGTCCTAGACATGGTCTTACACT-G-ACACAT-CTCATAG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-ATAG
* * * * * *** *
53842826 CCGATGTATGTCCCAAACAT-GTGTTATACTAGCT-TACGTCCCGA-GG
1 CCGATGCATGTCCCAGACATGGTCTTACACTAGCTCT-CAT-AATATAG
* * * **
53842872 CTGATGCATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTTA-ATG
1 CCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATATA-G
* *
53842918 TCGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCATAATATAG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCATAATATAG
* * **
53842966 CCGATGCATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTTA-ATG
1 CCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATATA-G
* *
53843012 TCGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCATAATATAG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCATAATATAG
*
53843060 CCGATGCATGTCCCAGACAT-GTCTTACACTAGCTCACATAA
1 CCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATAA
53843101 ATGACCCAAG
Statistics
Matches: 296, Mismatches: 54, Indels: 45
0.75 0.14 0.11
Matches are distributed among these distances:
44 8 0.03
45 15 0.05
46 89 0.30
47 59 0.20
48 55 0.19
49 39 0.13
50 30 0.10
51 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (47 bp):
CCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATATAG
Found at i:53845982 original size:17 final size:16
Alignment explanation
Indices: 53845948--53845985 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
53845938 AATGGGTGAT
53845948 GTTATTCTGAATTAAA
1 GTTATTCTGAATTAAA
53845964 GTTATTCTGTTAA-TAAA
1 GTTATTCTG--AATTAAA
53845981 GTTAT
1 GTTAT
53845986 CCCAATTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.45
17 9 0.45
18 2 0.10
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.47
Consensus pattern (16 bp):
GTTATTCTGAATTAAA
Found at i:53852817 original size:15 final size:15
Alignment explanation
Indices: 53852797--53852827 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
53852787 GGCACCAAAG
*
53852797 GCCGAGAAGAAGCCT
1 GCCGAGAAAAAGCCT
53852812 GCCGAGAAAAAGCCT
1 GCCGAGAAAAAGCCT
53852827 G
1 G
53852828 TAGCAGAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.26, G:0.32, T:0.06
Consensus pattern (15 bp):
GCCGAGAAAAAGCCT
Found at i:53857005 original size:49 final size:48
Alignment explanation
Indices: 53856944--53857071 Score: 157
Period size: 49 Copynumber: 2.6 Consensus size: 48
53856934 ACATCAAAGT
* *
53856944 TGATGCCATGTCCAAGACAGGTCTTACACTAACTTTCATATATCTAGG
1 TGATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATATATCTAGG
* * ** * **
53856992 CTGATGCCGTGTCCCAGACAGGTCTTACCCTGGCTCTCATCTATCTTTG
1 -TGATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATATATCTAGG
53857041 TCGATGCCATGTCCCAGACAGGTCTTACACT
1 T-GATGCCATGTCCCAGACAGGTCTTACACT
53857072 GACACACAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
48 1 0.01
49 66 0.99
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (48 bp):
TGATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATATATCTAGG
Found at i:53857193 original size:46 final size:48
Alignment explanation
Indices: 53857084--53857212 Score: 163
Period size: 46 Copynumber: 2.7 Consensus size: 48
53857074 CACACAAAAA
* * * *
53857084 GCCGACGCCATGTCCCAGACAAGTCTTACACTAGCTTGTATATCTCAAG
1 GCCGACG-CATGTCCCAGGCATGTCTTACACTAGCTTCTACATCTCAAG
* *
53857133 GCCGACGCATGTCCCAGGCATGTCTTACACTAGC-TCT-CGTCTCAAT
1 GCCGACGCATGTCCCAGGCATGTCTTACACTAGCTTCTACATCTCAAG
* *
53857179 GCTGATGCATGTCCCAGGCATGTCTTACACTAGC
1 GCCGACGCATGTCCCAGGCATGTCTTACACTAGC
53857213 ACACATATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
46 38 0.53
47 2 0.03
48 25 0.35
49 7 0.10
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (48 bp):
GCCGACGCATGTCCCAGGCATGTCTTACACTAGCTTCTACATCTCAAG
Found at i:53859292 original size:29 final size:29
Alignment explanation
Indices: 53859248--53859346 Score: 126
Period size: 29 Copynumber: 3.4 Consensus size: 29
53859238 ACCTCAGATA
*
53859248 ATGAAAAGGGATAGCTTCGTCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
53859277 ACGAAAAGGGATAGCTTCGGATATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * * * *
53859306 GTGAATAGGGATAGCTTTGGCTATTGACT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
53859335 ATGAAAAGGGAT
1 ATGAAAAGGGAT
53859347 GGTGACGACC
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:53861080 original size:47 final size:44
Alignment explanation
Indices: 53860976--53861098 Score: 149
Period size: 47 Copynumber: 2.7 Consensus size: 44
53860966 ATAAGTGCTG
* *
53860976 ATGCATGTCCCAGACATGTCTTACACTAGCACGAAGCTTAGCCA
1 ATGCATGTCCCAGACACGTCTTACACTGGCACGAAGCTTAGCCA
* * *
53861020 ATGCATGTTCCAGACACGTCTTACACTGGCTAC-CATCATTGAGGCCA
1 ATGCATGTCCCAGACACGTCTTACACTGGC-ACGAAGC-TT-A-GCCA
*
53861067 ATGCATGTCCCAGACACATCTTACACTGGCAC
1 ATGCATGTCCCAGACACGTCTTACACTGGCAC
53861099 TCATCTCTAT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
44 29 0.43
45 4 0.06
46 3 0.04
47 32 0.47
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.24
Consensus pattern (44 bp):
ATGCATGTCCCAGACACGTCTTACACTGGCACGAAGCTTAGCCA
Found at i:53868468 original size:49 final size:50
Alignment explanation
Indices: 53868395--53868521 Score: 156
Period size: 49 Copynumber: 2.6 Consensus size: 50
53868385 TAAGTTGCTA
* * *
53868395 ATGCCATGTCCCAGACATGATCTTACACTGGCTATC-T-TCATCGAG-GCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGTGT-AT-AAGTGCCG
* *
53868444 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATAAGTGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGTGTATAAGTGCCG
53868494 ATG-CATGTCCCAGACAT-GTCTTACACTA
1 ATGCCATGTCCCAGACATGGTCTTACACTA
53868522 TCACGAAGCT
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
48 11 0.16
49 49 0.70
50 9 0.13
51 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGTGTATAAGTGCCG
Found at i:53869064 original size:16 final size:16
Alignment explanation
Indices: 53869039--53869069 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53869029 AATATCAAAG
*
53869039 ATGTATTCATTTAGTA
1 ATGTACTCATTTAGTA
53869055 ATGTACTCATTTAGT
1 ATGTACTCATTTAGT
53869070 CATTAATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (16 bp):
ATGTACTCATTTAGTA
Found at i:53872075 original size:42 final size:42
Alignment explanation
Indices: 53872010--53872107 Score: 146
Period size: 42 Copynumber: 2.3 Consensus size: 42
53872000 ATCGGGACTA
53872010 TGTGTAAGACCATATCTAGGATATAGCATC-ATTATGAGATTT
1 TGTGTAAGACCATATCTAGGATATAGCATCGA-TATGAGATTT
* *
53872052 TGTGTAAGACCATATCT-GAGATATGGCATCGATATGATATTT
1 TGTGTAAGACCATATCTAG-GATATAGCATCGATATGAGATTT
53872094 TGTGTAAGACCATA
1 TGTGTAAGACCATA
53872108 GCTGGGCTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
41 1 0.02
42 50 0.96
43 1 0.02
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (42 bp):
TGTGTAAGACCATATCTAGGATATAGCATCGATATGAGATTT
Found at i:53875189 original size:45 final size:45
Alignment explanation
Indices: 53875127--53875302 Score: 163
Period size: 45 Copynumber: 4.0 Consensus size: 45
53875117 TAGGATTTTG
* *
53875127 ATATGTGTTTTCATGTAAGACCACGTCTGGGATGTTGGTATCGAT
1 ATATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGAT
53875172 ATATGTGTTTT-ATTGTAAGACCACGTCTGGGACGTTGGCATCG--
1 ATATGTGTTTTCA-TGTAAGACCACGTCTGGGACGTTGGCATCGAT
* * * * *
53875215 ATATGTGGTTACGA-GTAAGACCACGTCTGGGACATCGACATCG-T
1 ATATGTGTTTTC-ATGTAAGACCACGTCTGGGACGTTGGCATCGAT
* ***
53875259 AT-T-TG-ATTCATGTAAGACC-CTGTCTGGGATAATGGCATCGAT
1 ATATGTGTTTTCATGTAAGACCAC-GTCTGGGACGTTGGCATCGAT
53875301 AT
1 AT
53875303 GAGATAGCAT
Statistics
Matches: 111, Mismatches: 13, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
40 2 0.02
41 25 0.23
42 5 0.05
43 36 0.32
44 3 0.03
45 40 0.36
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.33
Consensus pattern (45 bp):
ATATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGAT
Found at i:53880269 original size:46 final size:47
Alignment explanation
Indices: 53880051--53880271 Score: 203
Period size: 46 Copynumber: 4.7 Consensus size: 47
53880041 GGTATAATGT
* *
53880051 CGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTC---GTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACATCTCAATGTGGC
* *
53880097 CGATGCATGTCCCACACATGTCTTACACTAGCTTACATCTCAA---GGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC--ACATCTCAATGTGGC
* * *
53880143 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGT---
1 CGATGCATGTCCCAGACATGTCTTACACT-G-GCACATCTCAATGTGGC
*
53880189 CGATGCCATGTCCTAGACATGGTCTTACACTGGCAC-TCAT-AATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACATC-TCAATGTGGC
*
53880237 CGATGCATGTCCCAGACATATCTTACACTGGCACA
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACA
53880272 CAAATAACCC
Statistics
Matches: 145, Mismatches: 14, Indels: 31
0.76 0.07 0.16
Matches are distributed among these distances:
44 11 0.08
45 20 0.14
46 71 0.49
47 27 0.19
48 16 0.11
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCACATCTCAATGTGGC
Found at i:53882723 original size:49 final size:49
Alignment explanation
Indices: 53882646--53882762 Score: 146
Period size: 49 Copynumber: 2.4 Consensus size: 49
53882636 TGTAGCGTGT
* * *
53882646 CAGTGTAAGACCTATCTGGGACATGGCATCGACAC-CGATAAATGAGAGC
1 CAGTATAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAAATGAAAGC
* * * *
53882695 CTGTATAAGACCTGTCTGGGACATGGCATTGACCTCGATATATGAAAGT
1 CAGTATAAGACCTGTCTGGGACATGGCATCGACCTCGATAAATGAAAGC
*
53882744 CAGTGTAAGACCTGTCTGG
1 CAGTATAAGACCTGTCTGG
53882763 TACACGTTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
48 1 0.02
49 57 0.98
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (49 bp):
CAGTATAAGACCTGTCTGGGACATGGCATCGACCTCGATAAATGAAAGC
Found at i:53886015 original size:14 final size:14
Alignment explanation
Indices: 53885996--53886023 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
53885986 GCTTTCGTGT
53885996 AAGACCACGTCTGG
1 AAGACCACGTCTGG
53886010 AAGACCACGTCTGG
1 AAGACCACGTCTGG
53886024 GACGTTGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.14
Consensus pattern (14 bp):
AAGACCACGTCTGG
Found at i:53886074 original size:45 final size:45
Alignment explanation
Indices: 53886010--53886173 Score: 213
Period size: 45 Copynumber: 3.6 Consensus size: 45
53886000 CCACGTCTGG
* * * *
53886010 AAGACCACGTCTGGGACGTTGGCATCAATATTTGTGTTTTCGTAT
1 AAGACCATGTCTGGGACGTTGGCATCGATATATGTGTTTTCGTGT
* * *
53886055 AAGACCATATTTGGGACGTTGACATCGATATATGTGTTTTCGTGT
1 AAGACCATGTCTGGGACGTTGGCATCGATATATGTGTTTTCGTGT
* * * *
53886100 AAGACCATGTCTGGGACGTTGGTATTGATATATGTGGTTACGTGT
1 AAGACCATGTCTGGGACGTTGGCATCGATATATGTGTTTTCGTGT
53886145 AAGACCATGTCTGGGACAG-TGGCATCGAT
1 AAGACCATGTCTGGGAC-GTTGGCATCGAT
53886174 GTGAGATAGC
Statistics
Matches: 102, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 101 0.99
46 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (45 bp):
AAGACCATGTCTGGGACGTTGGCATCGATATATGTGTTTTCGTGT
Found at i:53889295 original size:43 final size:42
Alignment explanation
Indices: 53889204--53889322 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 42
53889194 CTTTAATTCG
* * *
53889204 TGTAAGACCACGTCTAGGACGTTGGCATTGTATTTGATTTCA
1 TGTAAGACCACGTCCAGGACGTTGGCATCGTATTTGATTACA
* **
53889246 TATAAGACCTTGTCCAGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCACGTCCAGGAC-GTTGGCATCG-TATTTGATTACA
* * ** *
53889289 TGTAAGACGACTTCTGGGACGTTGGCATTGTATT
1 TGTAAGACCACGTCCAGGACGTTGGCATCGTATT
53889323 AGCTTTCTAA
Statistics
Matches: 60, Mismatches: 14, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
42 28 0.47
43 32 0.53
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (42 bp):
TGTAAGACCACGTCCAGGACGTTGGCATCGTATTTGATTACA
Found at i:53894542 original size:104 final size:104
Alignment explanation
Indices: 53894362--53894569 Score: 416
Period size: 104 Copynumber: 2.0 Consensus size: 104
53894352 GTTGAACCTT
53894362 CGGAAAGATTGGATGATACAGATGGTATGTAGCTAGGTCACATGTATAGTGCTGAGTGCACATCA
1 CGGAAAGATTGGATGATACAGATGGTATGTAGCTAGGTCACATGTATAGTGCTGAGTGCACATCA
53894427 TGTGTACAAGAGAGCTACAAGACATTATGATGTAGCTAG
66 TGTGTACAAGAGAGCTACAAGACATTATGATGTAGCTAG
53894466 CGGAAAGATTGGATGATACAGATGGTATGTAGCTAGGTCACATGTATAGTGCTGAGTGCACATCA
1 CGGAAAGATTGGATGATACAGATGGTATGTAGCTAGGTCACATGTATAGTGCTGAGTGCACATCA
53894531 TGTGTACAAGAGAGCTACAAGACATTATGATGTAGCTAG
66 TGTGTACAAGAGAGCTACAAGACATTATGATGTAGCTAG
53894570 GTCGCATGGG
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (104 bp):
CGGAAAGATTGGATGATACAGATGGTATGTAGCTAGGTCACATGTATAGTGCTGAGTGCACATCA
TGTGTACAAGAGAGCTACAAGACATTATGATGTAGCTAG
Found at i:53897668 original size:46 final size:46
Alignment explanation
Indices: 53897567--53897654 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
53897557 TGTAACCCGC
* * * *
53897567 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
53897613 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
53897655 AACCATCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:53904538 original size:46 final size:46
Alignment explanation
Indices: 53904471--53904599 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
53904461 TGTAACCCGC
* * * *
53904471 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
53904517 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
53904563 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
53904600 TGCTCAACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:53904618 original size:46 final size:45
Alignment explanation
Indices: 53904479--53904618 Score: 140
Period size: 46 Copynumber: 3.0 Consensus size: 45
53904469 GCCCATAAGC
* ** * *
53904479 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
*** *
53904525 GAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
53904571 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
53904617 GA
1 GA
53904619 CATGTCACTT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 79 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:53909789 original size:43 final size:41
Alignment explanation
Indices: 53909683--53909794 Score: 120
Period size: 41 Copynumber: 2.7 Consensus size: 41
53909673 TTTATGTGTC
* *
53909683 AGACCATGTCAGGGACGTTGGCATCGTATTTGGTTTCAGTA
1 AGACCACGTCTGGGACGTTGGCATCGTATTTGGTTTCAGTA
* **
53909724 AGACC-CTATCTGGGACAATGGCATCGATATTT-GTTTACACGTA
1 AGACCAC-GTCTGGGACGTTGGCATCG-TATTTGGTTT-CA-GTA
*
53909767 AGACCACGTCTGGGATGTTGGCATCGTA
1 AGACCACGTCTGGGACGTTGGCATCGTA
53909795 CGAGCTTTGC
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
41 24 0.42
42 9 0.16
43 23 0.40
44 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (41 bp):
AGACCACGTCTGGGACGTTGGCATCGTATTTGGTTTCAGTA
Found at i:53917153 original size:14 final size:14
Alignment explanation
Indices: 53917136--53917165 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
53917126 TCAAAACAAG
*
53917136 AATTAAGAACACAT
1 AATTAAGAACAAAT
53917150 AATTAAGAACAAAT
1 AATTAAGAACAAAT
53917164 AA
1 AA
53917166 AATATTTATC
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:0.63, C:0.10, G:0.07, T:0.20
Consensus pattern (14 bp):
AATTAAGAACAAAT
Found at i:53922426 original size:25 final size:26
Alignment explanation
Indices: 53922398--53922451 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
53922388 CATAGTTTAT
53922398 TTTGGATTTT-CTTTTCCAGTTAAAC
1 TTTGGATTTTACTTTTCCAGTTAAAC
* * *
53922423 TTT-GTTTTTAGTTTTCCATTTAAAC
1 TTTGGATTTTACTTTTCCAGTTAAAC
53922448 TTTG
1 TTTG
53922452 ATTAACCTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.19, C:0.13, G:0.11, T:0.57
Consensus pattern (26 bp):
TTTGGATTTTACTTTTCCAGTTAAAC
Found at i:53924868 original size:35 final size:35
Alignment explanation
Indices: 53924822--53924892 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
53924812 GGATCAACTA
*
53924822 CAGTGTCCTTTGTGCATTACGACTTGGATATCTCC
1 CAGTGACCTTTGTGCATTACGACTTGGATATCTCC
53924857 CAGTGACCTTTGTGCATTACGACTTGGATATCTCC
1 CAGTGACCTTTGTGCATTACGACTTGGATATCTCC
53924892 C
1 C
53924893 TGAACAGAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (35 bp):
CAGTGACCTTTGTGCATTACGACTTGGATATCTCC
Found at i:53925966 original size:27 final size:27
Alignment explanation
Indices: 53925935--53926141 Score: 315
Period size: 27 Copynumber: 7.6 Consensus size: 27
53925925 ATATTAAGTC
* * *
53925935 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
53925962 AGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
53925990 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
53926017 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
53926045 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
53926072 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
53926100 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
*
53926127 TGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53926142 GCACAATTTA
Statistics
Matches: 168, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
27 90 0.54
28 78 0.46
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:53926022 original size:55 final size:55
Alignment explanation
Indices: 53925935--53926141 Score: 342
Period size: 55 Copynumber: 3.8 Consensus size: 55
53925925 ATATTAAGTC
* * * * *
53925935 CGCACACTCAGTGCTATATAATCAACTAGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
53925990 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
53926045 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
* *
53926100 CGCACACTTAGTGCTACATAGTCAATTTGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
53926142 GCACAATTTA
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 145 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:53926378 original size:17 final size:17
Alignment explanation
Indices: 53926356--53926389 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
53926346 ATACCAACTA
53926356 TATGCTTAATGACTTAC
1 TATGCTTAATGACTTAC
53926373 TATGCTTAATGACTTAC
1 TATGCTTAATGACTTAC
53926390 CTCGTGTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (17 bp):
TATGCTTAATGACTTAC
Found at i:53927673 original size:50 final size:50
Alignment explanation
Indices: 53927618--53927718 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
53927608 ATGTTGGCCG
*
53927618 GCCATTCACATTCAAAAATGGTCTATTTGACATGCAAGTCCACTCTTTTT
1 GCCATTCACATTCAAAAATGGTCTATTTGACATGCAAGTCCAATCTTTTT
53927668 GCCATTCACATTCAAAAATGGTCTATTTGACATGCAAGTCCAATCTTTTT
1 GCCATTCACATTCAAAAATGGTCTATTTGACATGCAAGTCCAATCTTTTT
53927718 G
1 G
53927719 GTACATGCAC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.36
Consensus pattern (50 bp):
GCCATTCACATTCAAAAATGGTCTATTTGACATGCAAGTCCAATCTTTTT
Found at i:53934131 original size:27 final size:27
Alignment explanation
Indices: 53934100--53934223 Score: 176
Period size: 27 Copynumber: 4.6 Consensus size: 27
53934090 ATATTAAGTC
* *
53934100 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
53934127 AGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
53934155 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
53934182 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
*
53934209 TGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53934224 GCACAATTTA
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 64 0.72
28 25 0.28
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:53934187 original size:55 final size:54
Alignment explanation
Indices: 53934100--53934223 Score: 176
Period size: 55 Copynumber: 2.3 Consensus size: 54
53934090 ATATTAAGTC
* *
53934100 CGCACACTCAGTGCTATATAATCAACTAGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTAGCACACTTAGTGCTACATAATC-AACT
* * * *
53934155 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTAGCACACTTAGTGCTACATAATCAACT
*
53934209 TGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53934224 GCACAATTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 17 0.27
55 45 0.73
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTAGCACACTTAGTGCTACATAATCAACT
Found at i:53938205 original size:27 final size:27
Alignment explanation
Indices: 53938188--53938667 Score: 474
Period size: 27 Copynumber: 17.6 Consensus size: 27
53938178 ATATTAAGTC
53938188 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
53938215 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
53938243 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
53938270 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
53938297 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
53938325 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
53938353 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
53938381 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
53938409 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
53938436 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
53938463 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
53938491 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
53938518 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
53938545 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
53938572 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
53938599 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * * *
53938626 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
53938653 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
53938668 GCACAATTTA
Statistics
Matches: 444, Mismatches: 6, Indels: 6
0.97 0.01 0.01
Matches are distributed among these distances:
27 281 0.63
28 163 0.37
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:53938318 original size:54 final size:54
Alignment explanation
Indices: 53938188--53938667 Score: 852
Period size: 54 Copynumber: 8.8 Consensus size: 54
53938178 ATATTAAGTC
* * * *
53938188 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AACT
53938243 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
53938297 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTC-AACT
53938353 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTC-AACT
53938409 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
*
53938463 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAACT
53938518 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
53938572 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
*
53938626 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
53938668 GCACAATTTA
Statistics
Matches: 415, Mismatches: 7, Indels: 7
0.97 0.02 0.02
Matches are distributed among these distances:
54 179 0.43
55 153 0.37
56 83 0.20
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
Found at i:53938325 original size:82 final size:82
Alignment explanation
Indices: 53938188--53938667 Score: 874
Period size: 82 Copynumber: 5.9 Consensus size: 82
53938178 ATATTAAGTC
* * * *
53938188 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
53938253 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
53938270 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
53938335 GTGCTACATAGTCAAACT
66 GTGCTACATAGTC-AACT
53938353 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
53938418 AGTGCTACATAGTCAACT
65 AGTGCTACATAGTCAACT
*
53938436 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
53938501 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
53938518 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AACTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
53938582 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
*
53938599 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AATTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
53938663 GTGCT
66 GTGCT
53938668 GCACAATTTA
Statistics
Matches: 389, Mismatches: 7, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
81 99 0.25
82 181 0.47
83 54 0.14
84 55 0.14
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:53946693 original size:28 final size:27
Alignment explanation
Indices: 53946630--53946781 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
53946620 ATATTAAGTC
* * *
53946630 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
53946657 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
53946685 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
53946712 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
* *
53946740 CTCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
53946767 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53946782 GCACAATTTA
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:53946714 original size:55 final size:55
Alignment explanation
Indices: 53946630--53946781 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
53946620 ATATTAAGTC
* * *
53946630 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
53946685 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
53946740 CTCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
53946782 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:53947077 original size:96 final size:94
Alignment explanation
Indices: 53946915--53947103 Score: 351
Period size: 96 Copynumber: 2.0 Consensus size: 94
53946905 ATCATCACAT
*
53946915 ACGTACATGCATATATATATTTATTCATTCCATTCAGCATCATTACATAAACGTTATGTCCATTT
1 ACGTACATGCATATATATATTTATTCATTCCATTCAGCATCATTACATAAACGTTATGACCATTT
53946980 GAATTAATACCAACTATATGCTTAATGAA
66 GAATTAATACCAACTATATGCTTAATGAA
53947009 ACGTACATGCATATATATATATTTATTCATTCCATTCAGCATCATTACATAAACGTTATGACCAT
1 ACGTACATGC--ATATATATATTTATTCATTCCATTCAGCATCATTACATAAACGTTATGACCAT
53947074 TTGAATTAATACCAACTATATGCTTAATGA
64 TTGAATTAATACCAACTATATGCTTAATGA
53947104 CTTACCTCGT
Statistics
Matches: 92, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
94 10 0.11
96 82 0.89
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (94 bp):
ACGTACATGCATATATATATTTATTCATTCCATTCAGCATCATTACATAAACGTTATGACCATTT
GAATTAATACCAACTATATGCTTAATGAA
Found at i:53959505 original size:31 final size:31
Alignment explanation
Indices: 53959462--53959525 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
53959452 CCTTTTCATA
53959462 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
53959493 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
53959524 TT
1 TT
53959526 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:53959765 original size:24 final size:24
Alignment explanation
Indices: 53959718--53960582 Score: 1662
Period size: 24 Copynumber: 36.0 Consensus size: 24
53959708 GCTTTGTCAT
*
53959718 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
53959743 ATAACTGGGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
53959768 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53959792 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53959816 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53959840 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53959864 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53959888 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53959912 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53959936 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53959960 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53959984 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53960008 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53960032 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53960056 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53960080 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53960104 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53960128 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53960152 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53960176 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53960200 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53960224 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53960248 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53960272 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53960296 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53960320 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53960344 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53960368 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53960392 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53960416 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53960440 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53960464 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53960488 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53960512 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53960536 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
53960560 ATAATTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
53960583 GCACTTCCTC
Statistics
Matches: 834, Mismatches: 2, Indels: 9
0.99 0.00 0.01
Matches are distributed among these distances:
23 1 0.00
24 802 0.96
25 25 0.03
26 6 0.01
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:53960658 original size:20 final size:20
Alignment explanation
Indices: 53960635--53960677 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
53960625 GAACATCTCG
53960635 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
53960655 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
53960675 TGT
1 TGT
53960678 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:53960742 original size:25 final size:25
Alignment explanation
Indices: 53960714--53960761 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
53960704 ATATATAAAC
* *
53960714 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
53960739 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
53960762 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:53968784 original size:27 final size:27
Alignment explanation
Indices: 53968753--53968915 Score: 175
Period size: 27 Copynumber: 6.0 Consensus size: 27
53968743 TCTAAACATA
* *
53968753 TACCACATAGGGGCAAAATAGTCAATT
1 TACCACATAAGGGCAAAATAGTCATTT
** * **
53968780 TACCATGTAAGGG-TATTTCAGTCATTT
1 TACCACATAAGGGCAAAAT-AGTCATTT
* * *
53968807 TACCACATATGGGTAAAACAGTCATTT
1 TACCACATAAGGGCAAAATAGTCATTT
* *
53968834 TACCATATAGGGGCAAAATAGTCATTT
1 TACCACATAAGGGCAAAATAGTCATTT
* *
53968861 TACCTCATAAAGGCAAAATAGTCATTT
1 TACCACATAAGGGCAAAATAGTCATTT
*
53968888 TACCTCATAAGGGCAAAATAGTCATTT
1 TACCACATAAGGGCAAAATAGTCATTT
53968915 T
1 T
53968916 GTCAAATTGG
Statistics
Matches: 111, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 2 0.02
27 108 0.97
28 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (27 bp):
TACCACATAAGGGCAAAATAGTCATTT
Found at i:53979341 original size:27 final size:27
Alignment explanation
Indices: 53979308--53979481 Score: 170
Period size: 27 Copynumber: 6.4 Consensus size: 27
53979298 ACCCAAAAAT
* *
53979308 AGGTAAAATGACCGTAATACCCCTATA
1 AGGTAAAATGACCATAATACCCCTGTA
* * *
53979335 AGATAAAATGACCATAGTGCCCCTGTA
1 AGGTAAAATGACCATAATACCCCTGTA
* *
53979362 AGGTAAAATTACCATAATGCCCCTGTA
1 AGGTAAAATGACCATAATACCCCTGTA
* * *
53979389 GGGTAAAATGACCATAATACCCTTATA
1 AGGTAAAATGACCATAATACCCCTGTA
* * * * *
53979416 TGGTAAAATAACCGTAATGCCCTTGT-
1 AGGTAAAATGACCATAATACCCCTGTA
* *
53979442 AGGATAAAATGACTATAATATCCCTGTA
1 AGG-TAAAATGACCATAATACCCCTGTA
*
53979470 TGGTAAAATGAC
1 AGGTAAAATGAC
53979482 GATTATGCCC
Statistics
Matches: 119, Mismatches: 26, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 2 0.02
27 115 0.97
28 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (27 bp):
AGGTAAAATGACCATAATACCCCTGTA
Found at i:53979396 original size:54 final size:54
Alignment explanation
Indices: 53979308--53979478 Score: 198
Period size: 54 Copynumber: 3.2 Consensus size: 54
53979298 ACCCAAAAAT
* * * * * *
53979308 AGGTAAAATGACCGTAATACCCCTATAAGATAAAATGACCATAGTGCCCCTGTA
1 AGGTAAAATAACCGTAATGCCCCTGTAGGATAAAATGACCATAATACCCCTGTA
* * * * *
53979362 AGGTAAAATTACCATAATGCCCCTGTAGGGTAAAATGACCATAATACCCTTATA
1 AGGTAAAATAACCGTAATGCCCCTGTAGGATAAAATGACCATAATACCCCTGTA
* * * *
53979416 TGGTAAAATAACCGTAATGCCCTTGTAGGATAAAATGACTATAATATCCCTGTA
1 AGGTAAAATAACCGTAATGCCCCTGTAGGATAAAATGACCATAATACCCCTGTA
*
53979470 TGGTAAAAT
1 AGGTAAAAT
53979479 GACGATTATG
Statistics
Matches: 98, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 98 1.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (54 bp):
AGGTAAAATAACCGTAATGCCCCTGTAGGATAAAATGACCATAATACCCCTGTA
Found at i:53979450 original size:81 final size:81
Alignment explanation
Indices: 53979309--53979495 Score: 214
Period size: 81 Copynumber: 2.3 Consensus size: 81
53979299 CCCAAAAATA
* * * * *
53979309 GGTAAAATGACCGTAATACCCCTATAAGATAAAATGACCATAGTGCCCCTGTAAGGTAAAATTAC
1 GGTAAAATGACCATAATACCCTTATAAGATAAAATAACCATAATGCCCCTGTAAGGTAAAATGAC
*
53979374 CATAATGCCCCTGTAG
66 CATAATACCCCTGTAG
* * * *
53979390 GGTAAAATGACCATAATACCCTTATATGGTAAAATAACCGTAATGCCCTTGT-AGGATAAAATGA
1 GGTAAAATGACCATAATACCCTTATAAGATAAAATAACCATAATGCCCCTGTAAGG-TAAAATGA
* * *
53979454 CTATAATATCCCTGTAT
65 CCATAATACCCCTGTAG
* * *
53979471 GGTAAAATGACGATTATGCCCTTAT
1 GGTAAAATGACCATAATACCCTTAT
53979496 GTTCCGAATG
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 3 0.03
81 86 0.97
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (81 bp):
GGTAAAATGACCATAATACCCTTATAAGATAAAATAACCATAATGCCCCTGTAAGGTAAAATGAC
CATAATACCCCTGTAG
Found at i:53983525 original size:27 final size:27
Alignment explanation
Indices: 53983494--53983645 Score: 198
Period size: 27 Copynumber: 5.6 Consensus size: 27
53983484 CCCCAAAATA
*
53983494 GGTAAAATGA-CTGTAATGCCCCTATAG
1 GGTAAAATGATC-GTAATGCCCCTGTAG
* *
53983521 GGTAAAATGACCATAATGCCCCTGTAG
1 GGTAAAATGATCGTAATGCCCCTGTAG
*
53983548 AGTAAAATGATCGTAATGCCCCTGTAG
1 GGTAAAATGATCGTAATGCCCCTGTAG
* * * *
53983575 GGTAAAATGATCGTAATACCCTTATAA
1 GGTAAAATGATCGTAATGCCCCTGTAG
53983602 GGTAAAATGATCGTAATGCCCCTGTAG
1 GGTAAAATGATCGTAATGCCCCTGTAG
* *
53983629 GATAAAATGATTGTAAT
1 GGTAAAATGATCGTAAT
53983646 ATTTCTGTAT
Statistics
Matches: 108, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
27 107 0.99
28 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (27 bp):
GGTAAAATGATCGTAATGCCCCTGTAG
Found at i:53983635 original size:81 final size:81
Alignment explanation
Indices: 53983494--53983645 Score: 218
Period size: 81 Copynumber: 1.9 Consensus size: 81
53983484 CCCCAAAATA
* *
53983494 GGTAAAATGACTGTAATGCCCCTATAGGGTAAAATGACCATAATGCCCCTGTAGAGTAAAATGAT
1 GGTAAAATGACTGTAATACCCCTATAAGGTAAAATGACCATAATGCCCCTGTAGAGTAAAATGAT
53983559 CGTAATGCCCCTGTAG
66 CGTAATGCCCCTGTAG
* * *
53983575 GGTAAAATGA-TCGTAATACCCTTATAAGGTAAAATGATCGTAATGCCCCTGTAG-GATAAAATG
1 GGTAAAATGACT-GTAATACCCCTATAAGGTAAAATGACCATAATGCCCCTGTAGAG-TAAAATG
*
53983638 ATTGTAAT
64 ATCGTAAT
53983646 ATTTCTGTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.97
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (81 bp):
GGTAAAATGACTGTAATACCCCTATAAGGTAAAATGACCATAATGCCCCTGTAGAGTAAAATGAT
CGTAATGCCCCTGTAG
Found at i:53983654 original size:81 final size:81
Alignment explanation
Indices: 53983494--53983666 Score: 215
Period size: 81 Copynumber: 2.1 Consensus size: 81
53983484 CCCCAAAATA
* *
53983494 GGTAAAATGACTGTAATGCCCCTATAGGGTAAAATGACCATAATGCCCCTGTAGAGTAAAATGAT
1 GGTAAAATGACTGTAATACCCCTATAAGGTAAAATGACCATAATGCCCCTGTAGAGTAAAATGAT
*
53983559 CGTAATGCCCCTGTAG
66 CGTAATACCCCTGTAG
* * *
53983575 GGTAAAATGA-TCGTAATACCCTTATAAGGTAAAATGATCGTAATGCCCCTGTAG-GATAAAATG
1 GGTAAAATGACT-GTAATACCCCTATAAGGTAAAATGACCATAATGCCCCTGTAGAG-TAAAATG
* *** *
53983638 ATTGTAATATTTCTGTAT
64 ATCGTAATACCCCTGTAG
53983656 GGTAAAATGAC
1 GGTAAAATGAC
53983667 GATTACGCCC
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
80 2 0.03
81 76 0.97
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (81 bp):
GGTAAAATGACTGTAATACCCCTATAAGGTAAAATGACCATAATGCCCCTGTAGAGTAAAATGAT
CGTAATACCCCTGTAG
Found at i:53989714 original size:79 final size:82
Alignment explanation
Indices: 53989603--53989787 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
53989593 GCTACTCGTT
* *
53989603 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
53989666 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
53989683 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
53989746 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
53989763 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
53989788 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:53989787 original size:40 final size:40
Alignment explanation
Indices: 53989584--53989787 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
53989574 CGGAATTTAA
** *
53989584 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
53989624 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
53989664 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
53989703 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
53989743 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
53989783 CCGGA
1 CCGGA
53989788 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:53997025 original size:39 final size:40
Alignment explanation
Indices: 53996980--53997147 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
53996970 CGGGGTTTAG
* * *
53996980 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
53997019 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
53997059 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
53997099 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
53997140 CCGGATAT
1 CCGGATAT
53997148 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:53997130 original size:41 final size:40
Alignment explanation
Indices: 53997003--53997147 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
53996993 CTCGCACAAG
* * * * *
53997003 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
53997043 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
53997083 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
53997124 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
53997148 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:54005850 original size:40 final size:40
Alignment explanation
Indices: 54005796--54006020 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 40
54005786 CTTGCACAAG
* * *
54005796 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
54005836 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
54005876 GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
54005916 ACCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
** * *
54005956 GCCTTC-GGATCTTAGTTCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
54005997 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
54006021 CATTCGAATA
Statistics
Matches: 158, Mismatches: 22, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
39 3 0.02
40 126 0.80
41 26 0.16
42 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:54006667 original size:38 final size:38
Alignment explanation
Indices: 54006616--54006702 Score: 147
Period size: 38 Copynumber: 2.3 Consensus size: 38
54006606 TGCTTACCTA
* *
54006616 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACATACGTACTCATTCATG
54006654 TGGCCGAACATACACATCAACATACGTACTCATTCATG
1 TGGCCGAACATACACATCAACATACGTACTCATTCATG
*
54006692 TAGCCGAACAT
1 TGGCCGAACAT
54006703 GCATGTCTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (38 bp):
TGGCCGAACATACACATCAACATACGTACTCATTCATG
Found at i:54014035 original size:40 final size:40
Alignment explanation
Indices: 54013988--54014212 Score: 263
Period size: 40 Copynumber: 5.6 Consensus size: 40
54013978 CTTGCACAAG
* *
54013988 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
54014028 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
54014068 GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * **
54014108 GCCTTCGGGTCTTAGCCCAGATATAG-CAACTCGCATGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * * *
54014148 GCCTTCGGATCTTAGTCTGGTTATAGTCACCTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
* *
54014189 GCCTTCGGGACTTAGCCCGAATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
54014213 CATTCGAATA
Statistics
Matches: 156, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 128 0.82
41 27 0.17
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Done.