Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 131 of 284
Found at i:43770380 original size:40 final size:40
Alignment explanation
Indices: 43770312--43770517 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 40
43770302 GGGATTTAGT
** * *
43770312 CGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
* * *
43770351 CGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
* *
43770391 CGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
* * * * *
43770431 GGGATATAG-CAACTCGCACAAATGCCTTCGGATCTCAGTC
1 CGGATATAGTC-ACTAGCACAAATGCCTTCGGGTCTTAGCC
* * * *
43770471 CGAATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
43770511 CGGATAT
1 CGGATAT
43770518 CATTCGAATA
Statistics
Matches: 135, Mismatches: 29, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
39 15 0.11
40 119 0.88
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
Found at i:43778543 original size:40 final size:40
Alignment explanation
Indices: 43778475--43778680 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 40
43778465 GGGATTTAGT
** * *
43778475 CGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
* * * *
43778514 CGGATATGGTCACTAGCATAAATGCCTTCGAGACTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
* * *
43778554 CGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAACC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
* * * *
43778594 CGGATATAG-CAACTCGCACAAATGCCTTCGGATCTCAGTC
1 CGGATATAGTC-ACTAGCACAAATGCCTTCGGGTCTTAGCC
* * *
43778634 CGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
43778674 CGGATAT
1 CGGATAT
43778681 CATTCGAATA
Statistics
Matches: 135, Mismatches: 29, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
39 15 0.11
40 119 0.88
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCC
Found at i:43795616 original size:26 final size:26
Alignment explanation
Indices: 43795553--43795619 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 26
43795543 TACATTGTTG
* * *
43795553 CTCACACAAGTTGTGAAATGAGTCTG
1 CTCACACAAGCTGTGAAATGAGCCTA
*
43795579 CTCACACAAGCTGTGAAATGGGCCTA
1 CTCACACAAGCTGTGAAATGAGCCTA
* *
43795605 CTCGCACGAGCTGTG
1 CTCACACAAGCTGTG
43795620 GGTCGGAATG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.22
Consensus pattern (26 bp):
CTCACACAAGCTGTGAAATGAGCCTA
Found at i:43800445 original size:12 final size:12
Alignment explanation
Indices: 43800428--43800469 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
43800418 TCAGGTTGTT
43800428 ACATGGCCTAGC
1 ACATGGCCTAGC
43800440 ACATGGCCTAGC
1 ACATGGCCTAGC
* * *
43800452 ATACGGCCTGGC
1 ACATGGCCTAGC
43800464 ACATGG
1 ACATGG
43800470 GCGTGTGTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.24, C:0.31, G:0.29, T:0.17
Consensus pattern (12 bp):
ACATGGCCTAGC
Found at i:43803674 original size:94 final size:96
Alignment explanation
Indices: 43803341--43803688 Score: 277
Period size: 96 Copynumber: 3.7 Consensus size: 96
43803331 GAGGTTTAAG
* * * **
43803341 GTGTAAGACCATAGCTCT-ACTATGG-AAGCATATGGAGTCT-ACCGAGATAATAAACATGGGGT
1 GTGTAAGACCATAGCT-TGAATATGGCAA-CATATGGAGTCTCACAG-GACAATAAACATAAGGT
* * * * *
43803403 AATCCACCAAAACG-TTAAACAT-GGGGTTAGATT
63 AGTTCACCAAGATGTTTAAACATAAGGG-TAGATT
* * * * * *
43803436 GTGTAAGAACATAGCTCGAATATGGCAATATATGGAGT-TCACTAGGAGAATAAACACATGGTAG
1 GTGTAAGACCATAGCTTGAATATGGCAACATATGGAGTCTCAC-AGGACAATAAACATAAGGTAG
*
43803500 TTCACCAAGATGTTTAAACATGAGGGTAGATT
65 TTCACCAAGATGTTTAAACATAAGGGTAGATT
* * * *
43803532 GTGTAAGACCATAGCTT-AACTATGGCAGCTTATGGTGTC-CATCAGGACAATAAACATAGGGTA
1 GTGTAAGACCATAGCTTGAA-TATGGCAACATATGGAGTCTCA-CAGGACAATAAACATAAGGTA
* *
43803595 TTTTGA-CAAGATG-TT-AACATAAGGGTAGATT
64 -GTTCACCAAGATGTTTAAACATAAGGGTAGATT
* * * * * * *
43803626 GTGTAAGACCATAACTTGATTATGGCAACATCTGGAGTCTGACGGGACAGTGAACATAAGGTA
1 GTGTAAGACCATAGCTTGAATATGGCAACATATGGAGTCTCACAGGACAATAAACATAAGGTA
43803689 ATCCACCAGG
Statistics
Matches: 204, Mismatches: 37, Indels: 25
0.77 0.14 0.09
Matches are distributed among these distances:
94 64 0.31
95 61 0.30
96 72 0.35
97 7 0.03
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (96 bp):
GTGTAAGACCATAGCTTGAATATGGCAACATATGGAGTCTCACAGGACAATAAACATAAGGTAGT
TCACCAAGATGTTTAAACATAAGGGTAGATT
Found at i:43813211 original size:27 final size:27
Alignment explanation
Indices: 43813172--43813349 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
43813162 ATGTTGAGCC
* *
43813172 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
43813199 CACACACTTAGTGCTACGTAATAAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
43813226 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
43813254 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
43813281 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
43813308 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
43813335 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
43813350 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:43813332 original size:54 final size:55
Alignment explanation
Indices: 43813172--43813349 Score: 182
Period size: 54 Copynumber: 3.3 Consensus size: 55
43813162 ATGTTGAGCC
* * * * * * * *
43813172 CGCACACTCAGTGCTATATAATC-AACTCACACACTTAGTGCTACGTAATAAAAT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
** * *
43813226 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
* **
43813281 CGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
*
43813335 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
43813350 GTACAATTTA
Statistics
Matches: 102, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
54 59 0.58
55 43 0.42
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:43816518 original size:38 final size:38
Alignment explanation
Indices: 43816475--43816580 Score: 97
Period size: 38 Copynumber: 2.8 Consensus size: 38
43816465 GTACACCAGT
* *
43816475 ATAAAGTCTT-CTAGGAATAAAGCCTGAATAACACCGGC
1 ATAAAG-CTTGCTAGGAACAAAGCCCGAATAACACCGGC
* * *
43816513 ATAAAGCTTGCTAGGCACATAGCCCGAATATCACCGGC
1 ATAAAGCTTGCTAGGAACAAAGCCCGAATAACACCGGC
* * * * * *
43816551 ACAAAGCCTACTAAGCACATAGCCCGAATA
1 ATAAAGCTTGCTAGGAACAAAGCCCGAATA
43816581 TCTTCAGCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
37 3 0.05
38 55 0.95
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.18
Consensus pattern (38 bp):
ATAAAGCTTGCTAGGAACAAAGCCCGAATAACACCGGC
Found at i:43816581 original size:38 final size:38
Alignment explanation
Indices: 43816495--43816621 Score: 146
Period size: 38 Copynumber: 3.3 Consensus size: 38
43816485 CTAGGAATAA
* * * *
43816495 AGCCTGAATAACACCGGCATAAAGCTTGCTAGGCACAT
1 AGCCCGAATATCACCGGCATAAAGCCTACTAGGCACAT
* *
43816533 AGCCCGAATATCACCGGCACAAAGCCTACTAAGCACAT
1 AGCCCGAATATCACCGGCATAAAGCCTACTAGGCACAT
** * *
43816571 AGCCCGAATATCTTCAGCATAAAGCCTAATAGGCACAT
1 AGCCCGAATATCACCGGCATAAAGCCTACTAGGCACAT
* *
43816609 AACCCAAATATCA
1 AGCCCGAATATCA
43816622 TTATGTTTTT
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 74 1.00
ACGTcount: A:0.38, C:0.29, G:0.16, T:0.17
Consensus pattern (38 bp):
AGCCCGAATATCACCGGCATAAAGCCTACTAGGCACAT
Found at i:43819454 original size:42 final size:47
Alignment explanation
Indices: 43819354--43819456 Score: 128
Period size: 42 Copynumber: 2.3 Consensus size: 47
43819344 AGTGCCTTTC
43819354 ATAGCCGAAGCTA-TCTCAGTCTCGCACACTAAGTGTCATATATATAT
1 ATAGCCGAAGCTATTCTCAGTCTCGCACACTAAG-GTCATATATATAT
* * *
43819401 ATAGCCAAAGCTATTCTGA-T-TCGCACACTAA-GT-A-CTATATAT
1 ATAGCCGAAGCTATTCTCAGTCTCGCACACTAAGGTCATATATATAT
43819443 ATAGCCGAAGCTAT
1 ATAGCCGAAGCTAT
43819457 CTTGAAATGC
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
42 20 0.39
43 1 0.02
44 2 0.04
46 11 0.22
47 13 0.25
48 4 0.08
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (47 bp):
ATAGCCGAAGCTATTCTCAGTCTCGCACACTAAGGTCATATATATAT
Found at i:43820637 original size:27 final size:27
Alignment explanation
Indices: 43820607--43820673 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
43820597 GATCATTTCG
*
43820607 CCTTACAGGGGCATTACAATTATTATA
1 CCTTACAGGGGCATTACAATCATTATA
* * * *
43820634 CCTTATAAGGGCATT-CAGTCATTTTA
1 CCTTACAGGGGCATTACAATCATTATA
43820660 CC-TAC-GGGGCATTA
1 CCTTACAGGGGCATTA
43820674 TGGCCCTATA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
24 7 0.22
25 2 0.06
26 10 0.31
27 13 0.41
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (27 bp):
CCTTACAGGGGCATTACAATCATTATA
Found at i:43823960 original size:45 final size:45
Alignment explanation
Indices: 43823466--43823958 Score: 695
Period size: 45 Copynumber: 11.0 Consensus size: 45
43823456 CTCAGATCAT
* * *
43823466 CGGCATT-TCGCCTGCTAGGCTC-GAGGCCCG-ATATCATTTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATTTCAC
* * ** * *
43823508 CGGCATTATAGCCTGTTAGGCTCAAAAGCCCGAATAGTATCTCAT
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATTTCAC
* * * *
43823553 TGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAATATCTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATTTCAC
* * * *
43823598 CGGAATTATAGCCTGTTAGGCTCAAAGGCCCGAATAATATCTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATTTCAC
* *
43823643 CGACATTATAGCCTGCTAAGCTCAAAGGCCCGAATAACATTTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATTTCAC
* * *
43823688 CAGCATTATAGCCTACTAGGCTCAAAGGCCAGAATAACATTTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATTTCAC
* *
43823733 TGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAACATTTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATTTCAC
43823778 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATTTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATTTCAC
* *
43823823 CGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAATATTTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATTTCAC
* *
43823868 TGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAACATTTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATTTCAC
* *
43823913 CAGCATTATAGCCTGCTAGGCACAAAGGCCCGAATAACATTTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATTTCAC
43823958 C
1 C
43823959 AGTTCTTTCC
Statistics
Matches: 402, Mismatches: 46, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
42 7 0.02
43 13 0.03
44 6 0.01
45 376 0.94
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (45 bp):
CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATTTCAC
Found at i:43829104 original size:43 final size:41
Alignment explanation
Indices: 43829035--43829188 Score: 170
Period size: 43 Copynumber: 3.7 Consensus size: 41
43829025 AGCTCATACA
* * * *
43829035 ATGCC-ATATCCCAGATATGGCCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCA-ATAT-G
* *
43829077 ATGCCAATGTCTCAGACATGGTCTTACATGAAATCATATAATG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCA-AT-ATG
*
43829120 ATGCC-A-GTCCCAGACATGGTCTTACACGTAATTGCAATATG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAA-T-CAATATG
43829161 ATGCCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
43829189 CATAATCACA
Statistics
Matches: 96, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
41 30 0.31
42 10 0.10
43 54 0.56
44 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAATATG
Found at i:43832259 original size:43 final size:43
Alignment explanation
Indices: 43832092--43832262 Score: 177
Period size: 43 Copynumber: 4.0 Consensus size: 43
43832082 ACATAACGTA
* * * *
43832092 CAATGCCAACGTCCCAGACATGGTCTTACATGTAATCATATCT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT
* * * * * *
43832135 CGATGCCACTGTCCCAGATAGGGTCTTACAC-AAATCAAATA-
1 CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT
* * *
43832176 CGATACCGATGTCCCAGACATGGTCTTACACGTAATCACATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT
* *
43832219 CAATGCCAATGTCCCAGACGTGGTCTTACATG-AATACACATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGTAAT-CACATAT
43832262 C
1 C
43832263 GAAAATCCTA
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
41 26 0.25
42 18 0.17
43 60 0.58
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT
Found at i:43843069 original size:40 final size:40
Alignment explanation
Indices: 43843025--43843247 Score: 237
Period size: 40 Copynumber: 5.6 Consensus size: 40
43843015 GCTCCTCGTT
*
43843025 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
* *
43843065 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
* *
43843105 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
*
43843145 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAAT-TCGCA
* * * * *
43843184 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AATTCGCA
43843225 C-AA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
43843248 ACAGCATTCA
Statistics
Matches: 161, Mismatches: 12, Indels: 21
0.83 0.06 0.11
Matches are distributed among these distances:
38 3 0.02
39 44 0.27
40 105 0.65
41 8 0.05
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
Found at i:43843209 original size:79 final size:80
Alignment explanation
Indices: 43843025--43843248 Score: 289
Period size: 79 Copynumber: 2.8 Consensus size: 80
43843015 GCTCCTCGTT
* * *
43843025 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
43843089 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
*
43843105 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
43843169 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* * *
43843184 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCC
43843245 CGGA
63 CGGA
43843249 CAGCATTCAA
Statistics
Matches: 129, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
78 12 0.09
79 60 0.47
80 55 0.43
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:43844345 original size:13 final size:13
Alignment explanation
Indices: 43844327--43844351 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43844317 GGATGAGCAT
43844327 TTTTTTTTCTTTA
1 TTTTTTTTCTTTA
43844340 TTTTTTTTCTTT
1 TTTTTTTTCTTT
43844352 CTAGTTTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.08, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTA
Found at i:43845075 original size:40 final size:40
Alignment explanation
Indices: 43845005--43845942 Score: 1196
Period size: 40 Copynumber: 23.5 Consensus size: 40
43844995 AAACCAAGTA
* *
43845005 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
43845044 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43845084 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
43845124 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
43845164 CCATCGTGG-CTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCG-GGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* * * *
43845204 CCTTCGGGACTTAGCCCGG-T-TA-TCA-TCCGAATATTCATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACT-CGCACA--AATG
*
43845243 CACTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 C-CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
43845284 CCATCGTGG-CTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCG-GGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
43845324 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
43845364 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
43845404 CCATCGTGG-CTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCG-GGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
43845444 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
43845484 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
43845524 CCATCGTGG-CTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCG-GGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
43845564 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
43845604 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
43845644 CCATCGTGG-CTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCG-GGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
43845684 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
43845724 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
43845764 CCATCGTGG-CTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCG-GGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
43845804 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
43845844 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
43845884 CCATCGTGG-CTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCG-GGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
43845924 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
43845943 TTATCATCCG
Statistics
Matches: 786, Mismatches: 75, Indels: 74
0.84 0.08 0.08
Matches are distributed among these distances:
36 1 0.00
37 6 0.01
38 2 0.00
39 53 0.07
40 679 0.86
41 36 0.05
42 2 0.00
43 6 0.01
44 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:43845249 original size:120 final size:120
Alignment explanation
Indices: 43845005--43845942 Score: 1667
Period size: 120 Copynumber: 7.8 Consensus size: 120
43844995 AAACCAAGTA
* * * *
43845005 CCTTCGGGATTTAGC-CGGATATAGCT-ACTCGCTCAAATGCCTTCG-GGACTTAGCCCG-GATA
1 CCTTCGGGACTTAGCTCGGATATAG-TAACTCGCACAAATGCCATCGTGG-CTTAGCCCGAAAT-
* *
43845066 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
63 TAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43845124 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCATCGTGGCTTAGCCCGAAATTAG
1 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCATCGTGGCTTAGCCCGAAATTAG
* * * *
43845189 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGG-T-TA-TCA-TCCGAATATTCATG
66 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACT-CGCACA--AATG
43845243 CACTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCATCGTGGCTTAGCCCGAAATTA
1 C-CTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCATCGTGGCTTAGCCCGAAATTA
43845308 GTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
65 GTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43845364 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCATCGTGGCTTAGCCCGAAATTAG
1 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCATCGTGGCTTAGCCCGAAATTAG
43845429 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43845484 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCATCGTGGCTTAGCCCGAAATTAG
1 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCATCGTGGCTTAGCCCGAAATTAG
43845549 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43845604 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCATCGTGGCTTAGCCCGAAATTAG
1 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCATCGTGGCTTAGCCCGAAATTAG
43845669 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43845724 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCATCGTGGCTTAGCCCGAAATTAG
1 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCATCGTGGCTTAGCCCGAAATTAG
43845789 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43845844 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCATCGTGGCTTAGCCCGAAATTAG
1 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCATCGTGGCTTAGCCCGAAATTAG
43845909 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
66 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
43845943 TTATCATCCG
Statistics
Matches: 793, Mismatches: 14, Indels: 23
0.96 0.02 0.03
Matches are distributed among these distances:
116 1 0.00
117 6 0.01
118 2 0.00
119 20 0.03
120 746 0.94
121 9 0.01
122 2 0.00
123 6 0.01
124 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (120 bp):
CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCATCGTGGCTTAGCCCGAAATTAG
TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:43855316 original size:27 final size:27
Alignment explanation
Indices: 43855285--43855462 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
43855275 TAAATTGTAC
43855285 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
43855312 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43855338 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
43855366 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
43855394 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43855421 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
43855448 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43855463 GACTCAATAT
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:43855399 original size:82 final size:81
Alignment explanation
Indices: 43855286--43855441 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
43855276 AAATTGTACA
* *
43855286 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
43855350 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
43855367 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
43855432 TGCGAGTTGA
65 TGCGAATTGA
43855442 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:43855453 original size:82 final size:81
Alignment explanation
Indices: 43855282--43855462 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
43855272 GATTAAATTG
* *
43855282 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
43855347 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
43855363 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
43855427 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
43855445 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
43855463 GACTCAATAT
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:43861333 original size:40 final size:40
Alignment explanation
Indices: 43861256--43861432 Score: 252
Period size: 40 Copynumber: 4.5 Consensus size: 40
43861246 AAACCAAGTA
* * *
43861256 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGAATATAG-TAACTCGCACAAATG
43861295 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
*
43861335 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
* * *
43861375 CCTTCGGGGCTTAGCCCAGAAT-TAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCC-GAATATAGTAACTCGCACAAATG
43861415 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
43861433 GTTATCATCC
Statistics
Matches: 126, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
39 15 0.12
40 108 0.86
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
Found at i:43869348 original size:29 final size:27
Alignment explanation
Indices: 43869330--43869399 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
43869320 ATATTAAGTC
43869330 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
43869357 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
43869385 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
43869400 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:43869393 original size:28 final size:28
Alignment explanation
Indices: 43869330--43869427 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
43869320 ATATTAAGTC
*
43869330 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
43869357 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
43869385 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
43869414 CGCACACTTAGTGC
1 CGCACACTTAGTGC
43869428 CAATCTCATG
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:43877791 original size:79 final size:79
Alignment explanation
Indices: 43877688--43877841 Score: 247
Period size: 79 Copynumber: 1.9 Consensus size: 79
43877678 TCTTAAATAT
*
43877688 AAATTTGACCAATTTACAAGTGATGGAAAAAAATTGGACATGGATGGAATTTTTGAAAGATTAGT
1 AAATTTGACCAATTTACAAGTGATGGAAAAAAATTGGACATAGATGGAATTTTTGAAAGATTAGT
*
43877753 AAGGAAGGGCATTG
66 AAAGAAGGGCATTG
* * *
43877767 AAATTTGATCAATTT-CTAAGTGATGGACAAAAATTGGACATAGATGGAATTTTTGAAAGTTTAG
1 AAATTTGACCAATTTAC-AAGTGATGGAAAAAAATTGGACATAGATGGAATTTTTGAAAGATTAG
43877831 TAAAGAAGGGC
65 TAAAGAAGGGC
43877842 GTTTTGGTCA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
78 1 0.01
79 68 0.99
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.29
Consensus pattern (79 bp):
AAATTTGACCAATTTACAAGTGATGGAAAAAAATTGGACATAGATGGAATTTTTGAAAGATTAGT
AAAGAAGGGCATTG
Found at i:43878382 original size:30 final size:30
Alignment explanation
Indices: 43878324--43878384 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
43878314 TTCCTAAGCC
*
43878324 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATACAAAAGTT
* * * *
43878354 TAGGGGCAAAATTGTAATTTTACCAAAGTT
1 TAGGGGCAAAAGTGTAAATATACAAAAGTT
43878384 T
1 T
43878385 GAGTTAATGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATACAAAAGTT
Found at i:43881490 original size:30 final size:30
Alignment explanation
Indices: 43881456--43881516 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
43881446 TCCTTAACTC
43881456 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
43881486 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
43881516 A
1 A
43881517 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:43882406 original size:50 final size:50
Alignment explanation
Indices: 43882347--43882573 Score: 319
Period size: 50 Copynumber: 4.5 Consensus size: 50
43882337 TCATGGCAAC
* * * *
43882347 AAGTGATAAGTGATAGCTTCGACTATACTTATTTGATCAAGGATAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
43882397 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
* * *
43882447 ATGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAATTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
** * *
43882497 AAGTGATAAGTGATAGCTTCGGCTACACTTATCAAATCAAGGATAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
* * *
43882547 TAAGTGAAAAGTGGTAGCCTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
43882574 CTGATCAGTG
Statistics
Matches: 160, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 137 0.86
51 23 0.14
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
Found at i:43882587 original size:31 final size:31
Alignment explanation
Indices: 43882544--43882665 Score: 199
Period size: 31 Copynumber: 3.9 Consensus size: 31
43882534 CAAGGATAAA
* *
43882544 TGATAAGTGAAAAGTGGTAGCCTCGGCTACC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
43882575 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
* *
43882606 TGATCAGTGAAAAATGGTAGCTTTGGCTACC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
*
43882637 TGATCAGTGAATAGTGGTAGCTTCGGCTA
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTA
43882666 AAAGTGACAA
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 84 1.00
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (31 bp):
TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
Found at i:43882902 original size:10 final size:10
Alignment explanation
Indices: 43882887--43882912 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
43882877 GCTATGGCAC
43882887 CAGTGATTAT
1 CAGTGATTAT
43882897 CAGTGATTAT
1 CAGTGATTAT
43882907 CAGTGA
1 CAGTGA
43882913 AATTCAGTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.35
Consensus pattern (10 bp):
CAGTGATTAT
Found at i:43893790 original size:92 final size:92
Alignment explanation
Indices: 43893633--43893819 Score: 338
Period size: 92 Copynumber: 2.0 Consensus size: 92
43893623 ACCAACCATT
* *
43893633 ATCCTCATCTTCCACAACTACTCTGTATAGCCAAATTGGAAGAAGGATATTGCCTTGAAAACCAA
1 ATCCTCATCTTCCACAACTACTCTATATAGCCAAATTGGAAGAAGGATAGTGCCTTGAAAACCAA
* *
43893698 CTATGGAGATTCCTCTGAACCTTCTCC
66 CCATGGAGATTCCTCTAAACCTTCTCC
43893725 ATCCTCATCTTCCACAACTACTCTATATAGCCAAATTGGAAGAAGGATAGTGCCTTGAAAACCAA
1 ATCCTCATCTTCCACAACTACTCTATATAGCCAAATTGGAAGAAGGATAGTGCCTTGAAAACCAA
43893790 CCATGGAGATTCCTCTAAACCTTCTCC
66 CCATGGAGATTCCTCTAAACCTTCTCC
43893817 ATC
1 ATC
43893820 TTCAAAGCTT
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (92 bp):
ATCCTCATCTTCCACAACTACTCTATATAGCCAAATTGGAAGAAGGATAGTGCCTTGAAAACCAA
CCATGGAGATTCCTCTAAACCTTCTCC
Found at i:43894291 original size:24 final size:23
Alignment explanation
Indices: 43894263--43894316 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
43894253 AGATAAATCT
43894263 TAGAATAAATTATTTGAGATATTC
1 TAGAATAAATTATTT-AGATATTC
** *
43894287 TAGAATATTTTATTTTGATATTC
1 TAGAATAAATTATTTAGATATTC
43894310 TAGAATA
1 TAGAATA
43894317 TTTTATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.46
Consensus pattern (23 bp):
TAGAATAAATTATTTAGATATTC
Found at i:43894310 original size:23 final size:23
Alignment explanation
Indices: 43894280--43894325 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
43894270 AATTATTTGA
43894280 GATATTCTAGAATATTTTATTTT
1 GATATTCTAGAATATTTTATTTT
43894303 GATATTCTAGAATATTTTATTTT
1 GATATTCTAGAATATTTTATTTT
43894326 ATCTTTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (23 bp):
GATATTCTAGAATATTTTATTTT
Found at i:43894376 original size:41 final size:41
Alignment explanation
Indices: 43894324--43894405 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
43894314 ATATTTTATT
* *
43894324 TTATCTTTTAGTAGTTGATTATAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTAGTTGATTAGAATAAGGAAATTATTTTCC
* *
43894365 TTATCTTTTAGTAGTTTATTAGAATAATGAAATTATTTTCC
1 TTATCTTTTAGTAGTTGATTAGAATAAGGAAATTATTTTCC
43894406 CAATTAGGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.50
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTGATTAGAATAAGGAAATTATTTTCC
Found at i:43902020 original size:46 final size:46
Alignment explanation
Indices: 43901953--43902141 Score: 360
Period size: 46 Copynumber: 4.1 Consensus size: 46
43901943 CACAAAGCAT
*
43901953 CTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCAACGAG
1 CTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAG
43901999 CTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAG
1 CTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAG
43902045 CTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAG
1 CTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAG
43902091 CTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAG
1 CTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAG
*
43902137 TTCGG
1 CTCGG
43902142 ATGCCTAGTT
Statistics
Matches: 141, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 141 1.00
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.21
Consensus pattern (46 bp):
CTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAG
Found at i:43902182 original size:47 final size:47
Alignment explanation
Indices: 43902114--43902991 Score: 1747
Period size: 47 Copynumber: 18.7 Consensus size: 47
43902104 ATCCATAAGT
43902114 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
43902161 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
43902208 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
43902255 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
43902302 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
43902349 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
43902396 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
43902443 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
43902490 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
43902537 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
43902584 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
43902631 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
43902678 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
43902725 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
43902772 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
43902819 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
43902866 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
43902913 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
*
43902960 GAACTCGGACTCAACTCAACGAGTTCAGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
43902992 TCAACCATCC
Statistics
Matches: 830, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 830 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:43903443 original size:30 final size:30
Alignment explanation
Indices: 43903409--43903468 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
43903399 ATTTAATACG
43903409 AACTTTGGA-AAAATTACACTTTTGCCCCTA
1 AACTTT-GACAAAATTACACTTTTGCCCCTA
* *
43903439 AACTTTTACATAATTACACTTTTGCCCCTA
1 AACTTTGACAAAATTACACTTTTGCCCCTA
43903469 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGACAAAATTACACTTTTGCCCCTA
Found at i:43904326 original size:70 final size:70
Alignment explanation
Indices: 43904213--43904351 Score: 244
Period size: 70 Copynumber: 2.0 Consensus size: 70
43904203 TATAAAATAG
* *
43904213 TTATTTTTATCTCAGATTTGTGGTTACGAAACCACTATTCTGATTAAGCCCTAATTCAGGATATT
1 TTATTTCTATCTCAGATTTGTGGTTACAAAACCACTATTCTGATTAAGCCCTAATTCAGGATATT
43904278 ACAAA
66 ACAAA
43904283 TTATTTCTATCTC-GAATTTGTGGTTACAAAACCACTATTCTGATTAAGCCCTAATTCAGGATAT
1 TTATTTCTATCTCAG-ATTTGTGGTTACAAAACCACTATTCTGATTAAGCCCTAATTCAGGATAT
43904347 TACAA
65 TACAA
43904352 CTCTCCCCCC
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
69 1 0.02
70 65 0.98
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (70 bp):
TTATTTCTATCTCAGATTTGTGGTTACAAAACCACTATTCTGATTAAGCCCTAATTCAGGATATT
ACAAA
Found at i:43911725 original size:19 final size:19
Alignment explanation
Indices: 43911701--43911741 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
43911691 TATTTTAAAG
43911701 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
43911720 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
43911739 TTA
1 TTA
43911742 GAATAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.44
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:43911810 original size:41 final size:41
Alignment explanation
Indices: 43911778--43911859 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
43911768 ATATTTTATT
43911778 TTATCTTTTAGTAGTTGATTAGAATAAGAGAATTATTTTCC
1 TTATCTTTTAGTAGTTGATTAGAATAAGAGAATTATTTTCC
* *
43911819 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTAGTTGATTAGAATAAGAGAATTATTTTCC
43911860 CAATTAGGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTGATTAGAATAAGAGAATTATTTTCC
Found at i:43925689 original size:40 final size:40
Alignment explanation
Indices: 43925507--43925729 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
43925497 TCCTCGTTCA
* * * * *
43925507 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
43925546 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
43925586 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
43925626 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
43925666 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
43925706 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
43925730 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:43925738 original size:41 final size:41
Alignment explanation
Indices: 43925661--43925738 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
43925651 TTAGTATCTC
* * *
43925661 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
43925702 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
43925739 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:43933516 original size:40 final size:39
Alignment explanation
Indices: 43933418--43933640 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 39
43933408 TCCTCGTTCA
* * * * *
43933418 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
43933457 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
43933496 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
43933536 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
43933576 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
43933617 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
43933641 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:43933640 original size:120 final size:119
Alignment explanation
Indices: 43933418--43933640 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
43933408 TCCTCGTTCA
* * * *
43933418 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
43933483 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
43933537 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
43933601 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
43933641 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:43938408 original size:43 final size:42
Alignment explanation
Indices: 43938273--43938419 Score: 138
Period size: 43 Copynumber: 3.5 Consensus size: 42
43938263 TGTGTTATCG
*
43938273 TGTAAGA-CATGTCTGGGACATTGGCATCGAT-TTGAGATTTACA
1 TGTAAGACCATGTCTGGGACA-TGGCATCGATATT-TGA-TTACA
* * * * *
43938316 TGGAAGATCATGTCTGGGACATCAGCATCG-TATTTGATTTCG
1 TGTAAGACCATGTCTGGGACAT-GGCATCGATATTTGATTACA
** *
43938358 TAAAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACA-TGGCATCGATATTTGATTACA
*
43938401 TGTAAGACCAAGTCTGGGA
1 TGTAAGACCATGTCTGGGA
43938420 TGTTGGCATT
Statistics
Matches: 83, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
42 26 0.31
43 36 0.43
44 21 0.25
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATGGCATCGATATTTGATTACA
Found at i:43940647 original size:21 final size:21
Alignment explanation
Indices: 43940621--43940664 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
43940611 GTACCAAATA
43940621 CCATACCATTTCACACCAATT
1 CCATACCATTTCACACCAATT
**
43940642 CCATACCATTTCGTACCAATT
1 CCATACCATTTCACACCAATT
43940663 CC
1 CC
43940665 CAAATACCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.39, G:0.02, T:0.30
Consensus pattern (21 bp):
CCATACCATTTCACACCAATT
Found at i:43949617 original size:48 final size:48
Alignment explanation
Indices: 43949556--43949733 Score: 320
Period size: 48 Copynumber: 3.7 Consensus size: 48
43949546 CATCTCCTAC
43949556 ATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCACACAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCACACAT
43949604 ATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCACACAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCACACAT
* * *
43949652 ATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCTCATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCACACAT
*
43949700 ATATTTCACACTAGCCATTCGGCTTTACCACACA
1 ATATTTCACATTAGCCATTCGGCTTTACCACACA
43949734 CATATATATT
Statistics
Matches: 126, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 126 1.00
ACGTcount: A:0.32, C:0.30, G:0.07, T:0.31
Consensus pattern (48 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCACACAT
Found at i:43953205 original size:40 final size:40
Alignment explanation
Indices: 43953149--43953340 Score: 321
Period size: 40 Copynumber: 4.8 Consensus size: 40
43953139 GAATGCACAT
* * *
43953149 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
43953189 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
43953229 CACCAACACAAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
43953269 CACCAGCACGAATGCTCTTTGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
43953309 CACCAGCACGGATGCTCTTCGGGACTTAGCCC
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCC
43953341 ACTACTGACC
Statistics
Matches: 142, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.21
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:43953655 original size:40 final size:40
Alignment explanation
Indices: 43953599--43953717 Score: 184
Period size: 40 Copynumber: 3.0 Consensus size: 40
43953589 GAATGCACAT
* * *
43953599 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
43953639 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
43953679 CACCAGCACAAATGCTCTTCGGGACTTAGCCCGGCTATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
43953718 TAACTCTCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.26, C:0.32, G:0.22, T:0.20
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:43963094 original size:40 final size:40
Alignment explanation
Indices: 43963010--43963234 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
43963000 TTGAATGATG
* * * *
43963010 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
43963050 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43963090 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43963129 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
43963170 T-CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
43963210 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43963235 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 11 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43963256 original size:119 final size:119
Alignment explanation
Indices: 43963010--43963267 Score: 294
Period size: 119 Copynumber: 2.2 Consensus size: 119
43963000 TTGAATGATG
*
43963010 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
* **
43963075 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * *
43963129 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAAT-CGGGCTAAG-TCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-ATCCGGACTAAGAT-CCGAAGGCA
* * * *
43963191 TTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
63 TTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
43963249 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
43963268 TATGTGATTT
Statistics
Matches: 119, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
118 3 0.03
119 83 0.70
120 33 0.28
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:43966542 original size:99 final size:99
Alignment explanation
Indices: 43966361--43966554 Score: 289
Period size: 99 Copynumber: 2.0 Consensus size: 99
43966351 AACCATGAGG
* * * *
43966361 TTGTGCATTTACTATCGTCAGCTGAATAAAGTGACAATAAAGAACAAATATCCGTTACTGCGTAT
1 TTGTGCATTGACTATCATCAACTGAATAAAGTGACAATAAAGAACAAATATCCGTTACCGCGTAT
* *
43966426 CGATGATTTGTTTGATCAACTAAAGGGAGCCTCA
66 CGATGATCTGTTCGATCAACTAAAGGGAGCCTCA
* * *
43966460 TTGTGCATTGACTATCATCAACTGAATAAAGTGACGATAAAGAATAAGTATCCGTTACCGCGTAT
1 TTGTGCATTGACTATCATCAACTGAATAAAGTGACAATAAAGAACAAATATCCGTTACCGCGTAT
* *
43966525 TGATGATCTGTTCGATCAATTAAAGGGAGC
66 CGATGATCTGTTCGATCAACTAAAGGGAGC
43966555 ATCGGTGTTT
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
99 84 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (99 bp):
TTGTGCATTGACTATCATCAACTGAATAAAGTGACAATAAAGAACAAATATCCGTTACCGCGTAT
CGATGATCTGTTCGATCAACTAAAGGGAGCCTCA
Found at i:43966864 original size:97 final size:97
Alignment explanation
Indices: 43966736--43966934 Score: 364
Period size: 97 Copynumber: 2.1 Consensus size: 97
43966726 CTTCAGACAG
43966736 TATTTGGACCGGTTCGTAGTTGTGTTCATTGATGACATCTTGGTCTATTCAAGAGATGAGACCGA
1 TATTTGGACCGGTTCGTAGTTGTGTTCATTGATGACATCTTGGTCTATTCAAGAGATGAGACCGA
*
43966801 ACATGCTGAGCACCTGAGATTAGTGTTGCAAA
66 ACATGCTGAGCACCTGAGACTAGTGTTGCAAA
43966833 TATTTGGACCGGTTCGTAGTTGTGTTCATTGATGACATCTTGGTCTATTCAAGAGATGAGACCGA
1 TATTTGGACCGGTTCGTAGTTGTGTTCATTGATGACATCTTGGTCTATTCAAGAGATGAGACCGA
* *
43966898 ACATGCTGAGCATCTGAGGCTAGTGTTGCAAA
66 ACATGCTGAGCACCTGAGACTAGTGTTGCAAA
43966930 T-TTTG
1 TATTTG
43966935 CGGGATAAGC
Statistics
Matches: 99, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
96 4 0.04
97 95 0.96
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (97 bp):
TATTTGGACCGGTTCGTAGTTGTGTTCATTGATGACATCTTGGTCTATTCAAGAGATGAGACCGA
ACATGCTGAGCACCTGAGACTAGTGTTGCAAA
Found at i:43967657 original size:182 final size:182
Alignment explanation
Indices: 43967350--43967713 Score: 728
Period size: 182 Copynumber: 2.0 Consensus size: 182
43967340 CAAGAAGGTC
43967350 GAGTGGTGGCCTATGCGTCGAGACAATTAAAGCCACATGAGAAAAATTATCCGACCCATGATCTC
1 GAGTGGTGGCCTATGCGTCGAGACAATTAAAGCCACATGAGAAAAATTATCCGACCCATGATCTC
43967415 GAACTAGCTGCCATCGTATTCGCTTTAAAAATATGGCGACATTACTTATTTGGTGAAAAGTGCCA
66 GAACTAGCTGCCATCGTATTCGCTTTAAAAATATGGCGACATTACTTATTTGGTGAAAAGTGCCA
43967480 TGTATTTTCGGATCACAAAAGTCTCAAATATTTGATGACTCAAAGAGACTTA
131 TGTATTTTCGGATCACAAAAGTCTCAAATATTTGATGACTCAAAGAGACTTA
43967532 GAGTGGTGGCCTATGCGTCGAGACAATTAAAGCCACATGAGAAAAATTATCCGACCCATGATCTC
1 GAGTGGTGGCCTATGCGTCGAGACAATTAAAGCCACATGAGAAAAATTATCCGACCCATGATCTC
43967597 GAACTAGCTGCCATCGTATTCGCTTTAAAAATATGGCGACATTACTTATTTGGTGAAAAGTGCCA
66 GAACTAGCTGCCATCGTATTCGCTTTAAAAATATGGCGACATTACTTATTTGGTGAAAAGTGCCA
43967662 TGTATTTTCGGATCACAAAAGTCTCAAATATTTGATGACTCAAAGAGACTTA
131 TGTATTTTCGGATCACAAAAGTCTCAAATATTTGATGACTCAAAGAGACTTA
43967714 AATCTGCGAC
Statistics
Matches: 182, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
182 182 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (182 bp):
GAGTGGTGGCCTATGCGTCGAGACAATTAAAGCCACATGAGAAAAATTATCCGACCCATGATCTC
GAACTAGCTGCCATCGTATTCGCTTTAAAAATATGGCGACATTACTTATTTGGTGAAAAGTGCCA
TGTATTTTCGGATCACAAAAGTCTCAAATATTTGATGACTCAAAGAGACTTA
Found at i:43969870 original size:58 final size:58
Alignment explanation
Indices: 43969783--43969913 Score: 237
Period size: 59 Copynumber: 2.3 Consensus size: 58
43969773 GAATATGATG
43969783 AAAACAAAAAAAAAGTGTGTGGTTGT-CCCCCCCCCCATTTTGCCGAAACTAGAAAGA
1 AAAACAAAAAAAAAGTGTGTGGTTGTCCCCCCCCCCCATTTTGCCGAAACTAGAAAGA
*
43969840 AAAACAAAAAAAATAGTGTGTGGTTGTCCCCCCCCCCCATTTTGCCGAACCTAGAAAGA
1 AAAACAAAAAAAA-AGTGTGTGGTTGTCCCCCCCCCCCATTTTGCCGAAACTAGAAAGA
43969899 AAAACAAAAAAAAAG
1 AAAACAAAAAAAAAG
43969914 GGTTAATCCT
Statistics
Matches: 71, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
57 13 0.18
58 15 0.21
59 43 0.61
ACGTcount: A:0.43, C:0.24, G:0.16, T:0.18
Consensus pattern (58 bp):
AAAACAAAAAAAAAGTGTGTGGTTGTCCCCCCCCCCCATTTTGCCGAAACTAGAAAGA
Found at i:43970004 original size:67 final size:67
Alignment explanation
Indices: 43969931--43970064 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 67
43969921 CCTTTGGTTC
43969931 ATCCTTGGCCAAAAATTTTAAGGAGGAAGGAAGAAGAAAGGTTGAAGAGGTTCGACCATGCATGT
1 ATCCTTGGCCAAAAATTTTAAGGAGGAAGGAAGAAGAAAGGTTGAAGAGGTTCGACCATGCATGT
43969996 AA
66 AA
*
43969998 ATCCTTGGCCAAAAATTTTAAGGAGGAAGGAAGAAGAAAGGTTGAAGAGGTTCGGCCATGCATGT
1 ATCCTTGGCCAAAAATTTTAAGGAGGAAGGAAGAAGAAAGGTTGAAGAGGTTCGACCATGCATGT
43970063 AA
66 AA
43970065 CTAGGCTAAG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (67 bp):
ATCCTTGGCCAAAAATTTTAAGGAGGAAGGAAGAAGAAAGGTTGAAGAGGTTCGACCATGCATGT
AA
Found at i:43970847 original size:23 final size:23
Alignment explanation
Indices: 43970820--43970873 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
43970810 ACGTTTACCG
*
43970820 CTATTAGCAGCTTTGCTGCGTTA
1 CTATTAGCAGCTTTGCTACGTTA
*
43970843 CTATTAGTAGCTTTGCTACGTTA
1 CTATTAGCAGCTTTGCTACGTTA
43970866 CTATTAGC
1 CTATTAGC
43970874 CGCTACGCTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (23 bp):
CTATTAGCAGCTTTGCTACGTTA
Found at i:43972993 original size:15 final size:15
Alignment explanation
Indices: 43972973--43973003 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
43972963 CCAACCTTCA
*
43972973 AATTTTATCTCAATT
1 AATTTTACCTCAATT
43972988 AATTTTACCTCAATT
1 AATTTTACCTCAATT
43973003 A
1 A
43973004 TACATAATAT
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:0.16, G:0.00, T:0.48
Consensus pattern (15 bp):
AATTTTACCTCAATT
Found at i:43974857 original size:11 final size:11
Alignment explanation
Indices: 43974841--43974867 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
43974831 TAGAAATTAG
43974841 TTTGTGAAACT
1 TTTGTGAAACT
43974852 TTTGTGAAACT
1 TTTGTGAAACT
43974863 TTTGT
1 TTTGT
43974868 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:43976013 original size:15 final size:15
Alignment explanation
Indices: 43975978--43976112 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 15
43975968 TTAAGAATTT
*
43975978 TATTAAATTAT-ATA
1 TATTTAATTATAATA
43975992 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
43976006 TATTTAATAATAAT-
1 TATTTAATTATAATA
43976020 TATGTTAATT-T-ATA
1 TAT-TTAATTATAATA
* *
43976034 T-TTTACAGTATCATA
1 TATTTA-ATTATAATA
*
43976049 TATTATGATTTGAGTAAATTCA
1 TATT-T-AATT-A-T-AA-T-A
*
43976071 TATTAAATTAT-ATA
1 TATTTAATTATAATA
43976085 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
43976099 TATTTAATAATAAT
1 TATTTAATTATAAT
43976113 TATGTTTAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 33
0.68 0.08 0.24
Matches are distributed among these distances:
12 3 0.03
13 21 0.23
14 17 0.18
15 32 0.34
16 3 0.03
17 2 0.02
18 3 0.03
19 2 0.02
20 4 0.04
21 1 0.01
22 5 0.05
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:43976101 original size:16 final size:16
Alignment explanation
Indices: 43976080--43976121 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
43976070 ATATTAAATT
*
43976080 ATATATTTTAATTATA
1 ATATATTTTAATAATA
43976096 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
43976111 AT-TATGTTTAA
1 ATATAT-TTTAA
43976122 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:43976238 original size:151 final size:155
Alignment explanation
Indices: 43976071--43976365 Score: 526
Period size: 151 Copynumber: 1.9 Consensus size: 155
43976061 AGTAAATTCA
*
43976071 TATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
1 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
43976136 TTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAAT-A-ATTTACCAAAACA
66 TTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAACATTTACCAAAACA
43976197 AATTTATGCTAATTATTAAGAATTT
131 AATTTATGCTAATTATTAAGAATTT
43976222 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
1 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
43976287 TTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAA
66 TTTATTATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACAATAA-CATTTACCAAAA
*
43976352 CAAATTTCTGCTAA
129 CAAATTTATGCTAA
43976366 GGGTATTCTA
Statistics
Matches: 136, Mismatches: 2, Indels: 6
0.94 0.01 0.04
Matches are distributed among these distances:
151 76 0.56
152 2 0.01
154 33 0.24
155 1 0.01
157 24 0.18
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (155 bp):
TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
TTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAACATTTACCAAAACA
AATTTATGCTAATTATTAAGAATTT
Found at i:43976246 original size:18 final size:17
Alignment explanation
Indices: 43976218--43976252 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43976208 ATTATTAAGA
*
43976218 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
43976235 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
43976253 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:43976506 original size:16 final size:16
Alignment explanation
Indices: 43976485--43976523 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
43976475 TTGATTTGCT
*
43976485 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
43976501 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
43976517 ATTACAC
1 ATTACAC
43976524 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:43976524 original size:16 final size:16
Alignment explanation
Indices: 43976498--43976554 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
43976488 ACACAGCTTT
* *
43976498 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
43976514 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
43976530 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
43976546 TCCAATACA
1 TCCAATACA
43976555 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:43995320 original size:22 final size:21
Alignment explanation
Indices: 43995265--43995344 Score: 79
Period size: 23 Copynumber: 3.5 Consensus size: 21
43995255 ATATATCAGT
43995265 TTGTAAGAGCTTACTGTTCTCAGC
1 TTGT-AGAGCTTACTGTT-T-AGC
*
43995289 TCGTATGAGCTTACTGTTTAGC
1 TTGTA-GAGCTTACTGTTTAGC
*
43995311 TTGTCAGAGCTTACCGTTTTAGC
1 TTGT-AGAGCTTACTG-TTTAGC
43995334 TTAGTAGAGCT
1 TT-GTAGAGCT
43995345 ACTATTGATC
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
22 15 0.31
23 17 0.35
24 17 0.35
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.39
Consensus pattern (21 bp):
TTGTAGAGCTTACTGTTTAGC
Found at i:43996268 original size:16 final size:16
Alignment explanation
Indices: 43996247--43996278 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43996237 TATGTAATGC
*
43996247 CCCAAAAATCTCGAAA
1 CCCAAAAATCCCGAAA
43996263 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
43996279 TCCCGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:43997565 original size:8 final size:8
Alignment explanation
Indices: 43997552--43997586 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
43997542 ATGTATCGGC
43997552 AAAAGCCG
1 AAAAGCCG
43997560 AAAAGCCG
1 AAAAGCCG
* *
43997568 AAATGTCG
1 AAAAGCCG
43997576 AAAAGCCG
1 AAAAGCCG
43997584 AAA
1 AAA
43997587 GTTTGGCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.51, C:0.20, G:0.23, T:0.06
Consensus pattern (8 bp):
AAAAGCCG
Found at i:43997852 original size:29 final size:29
Alignment explanation
Indices: 43997810--43997911 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
43997800 TGGATGTGAC
*
43997810 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
43997839 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
43997868 TGGGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
*
43997896 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
43997912 GATACAGGTA
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 16 0.25
29 49 0.75
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:43997919 original size:57 final size:58
Alignment explanation
Indices: 43997810--43997920 Score: 170
Period size: 57 Copynumber: 1.9 Consensus size: 58
43997800 TGGATGTGAC
* *
43997810 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
* * *
43997868 TGGGCCTAATGGGCCATATGAATATGA-TTGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGT
43997921 ATGTGAAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 24 0.50
58 24 0.50
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (58 bp):
TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:44000935 original size:39 final size:40
Alignment explanation
Indices: 44000840--44001101 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
44000830 TTGAATGATG
*
44000840 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
44000878 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
44000919 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
44000958 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
44000997 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
44001036 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
44001075 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
44001102 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:44029599 original size:52 final size:50
Alignment explanation
Indices: 44029523--44029623 Score: 130
Period size: 52 Copynumber: 2.0 Consensus size: 50
44029513 ATGAACAAAT
* *
44029523 GAGTTACTTAATACATGACTTAATTTAATGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATACATGACATAATTT-ATGATGCAAA-TTTAACTAACATGG
* * * *
44029575 GAGTTACATAATGCATGTCATAATTTATTATGCAAATTTAAGTAACATG
1 GAGTTACATAATACATGACATAATTTATGATGCAAATTTAACTAACATG
44029624 ATGTATTAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 12 0.28
51 9 0.21
52 22 0.51
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.36
Consensus pattern (50 bp):
GAGTTACATAATACATGACATAATTTATGATGCAAATTTAACTAACATGG
Found at i:44033154 original size:27 final size:27
Alignment explanation
Indices: 44032889--44033160 Score: 263
Period size: 27 Copynumber: 10.1 Consensus size: 27
44032879 GGTAAATCAA
* * *
44032889 TCATTTTTCCTTATAGGGGTATTACAG
1 TCATTTTACCCTATAGGGGTATTTCAG
*
44032916 TCATTTTACCCTATAGGGGTATTACAG
1 TCATTTTACCCTATAGGGGTATTTCAG
* * *
44032943 TCATTTTACCCTACAAGGGTATTACAG
1 TCATTTTACCCTATAGGGGTATTTCAG
* * * *
44032970 TCATTTTATCTTATAGGGGTATTTGGAA
1 TCATTTTACCCTATAGGGGTATTT-CAG
*
44032998 T-ATTTTACCCAAT-GGGAGTATTTCAG
1 TCATTTTACCCTATAGGG-GTATTTCAG
44033024 TCATTTTACCCTAT-GGGGCTATTTCTA-
1 TCATTTTACCCTATAGGGG-TATTTC-AG
* *
44033051 TCATTTTA-CATATGGGGGTATTT-AGG
1 TCATTTTACCCTATAGGGGTATTTCA-G
*
44033077 TCATTTTACCCTAT-GGGAGTATTTCGG
1 TCATTTTACCCTATAGGG-GTATTTCAG
*
44033104 TCATTTTACCCTAT-GGGGATATTTTAG
1 TCATTTTACCCTATAGGGG-TATTTCAG
* *
44033131 TCATTTTACCCTATAGAGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCAG
44033158 TCA
1 TCA
44033161 CCATTTCGAC
Statistics
Matches: 207, Mismatches: 25, Indels: 26
0.80 0.10 0.10
Matches are distributed among these distances:
24 1 0.00
26 27 0.13
27 173 0.84
28 6 0.03
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTTCAG
Found at i:44043528 original size:30 final size:30
Alignment explanation
Indices: 44043494--44043551 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
44043484 TTTTCGAGCA
* * *
44043494 TAGGGGTAAAATAGTTATTTTGCCAAAGTC
1 TAGGGGCAAAATAGTCATTTTACCAAAGTC
*
44043524 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATAGTCATTTTACCAAAG
44043552 ATGTGAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATAGTCATTTTACCAAAGTC
Found at i:44043951 original size:46 final size:46
Alignment explanation
Indices: 44043894--44044062 Score: 182
Period size: 46 Copynumber: 3.6 Consensus size: 46
44043884 TCTTATGTAC
* *
44043894 CAGTGTAAGACATGTCTGAGACATGCAT-TGGCCACATTATGTGTGA
1 CAGTGTAAGACATGTCTGGGACATGCATCT-GCCACATTATGAGTGA
* * *
44043940 CAGTATAAGACATGTCAGGGACATGCATCTGCCACATTATGAGTGC
1 CAGTGTAAGACATGTCTGGGACATGCATCTGCCACATTATGAGTGA
* * * *
44043986 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCGTAGA-GATGAGTG-
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCTGC-CACATTATGAGTGA
*
44044033 CTAGTGTAAGACGTGTCTGGGACATGCATC
1 C-AGTGTAAGACATGTCTGGGACATGCATC
44044063 GGCTAAGAGT
Statistics
Matches: 106, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
46 53 0.50
47 28 0.26
48 23 0.22
49 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
CAGTGTAAGACATGTCTGGGACATGCATCTGCCACATTATGAGTGA
Found at i:44044088 original size:44 final size:47
Alignment explanation
Indices: 44043978--44044093 Score: 132
Period size: 44 Copynumber: 2.5 Consensus size: 47
44043968 CTGCCACATT
* *
44043978 ATGAGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGTAGAG
1 ATGAGTGCTAGTGCAAGA-CATGTCTGGGACATGGCATCAGCGTAGAG
* * *
44044026 ATGAGTGCTAGTGTAAGACGTGTCTGGGACAT-GCATCGGC-TA-AG
1 ATGAGTGCTAGTGCAAGACATGTCTGGGACATGGCATCAGCGTAGAG
*
44044070 A-GTTGTGCTAGTGCAAGACATGTC
1 ATG-AGTGCTAGTGCAAGACATGTC
44044094 CAAGACATGC
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 21 0.34
45 2 0.03
46 7 0.11
47 13 0.21
48 17 0.28
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (47 bp):
ATGAGTGCTAGTGCAAGACATGTCTGGGACATGGCATCAGCGTAGAG
Found at i:44045020 original size:55 final size:53
Alignment explanation
Indices: 44044937--44045068 Score: 178
Period size: 55 Copynumber: 2.5 Consensus size: 53
44044927 GCACTTAAAA
*
44044937 TTTT-AAGTCAGTATTGTACACAGGCAGGCCACAC-GAGTGTGTGCCATGGCCGTG
1 TTTTAAAGTCAGTATTGTACACGGGCAGGCCACACTG-GTGTGTGCCATGG-C-TG
44044991 TTTTAAAGTCAGTATTGTACACGGGCAGGCCACACTGGTGTGTGCCATGGCTG
1 TTTTAAAGTCAGTATTGTACACGGGCAGGCCACACTGGTGTGTGCCATGGCTG
* * * *
44045044 TGTTAAAGTTAGTGTTGCACACGGG
1 TTTTAAAGTCAGTATTGTACACGGG
44045069 ATAAGGGCAC
Statistics
Matches: 71, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
53 23 0.32
54 5 0.07
55 42 0.59
56 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (53 bp):
TTTTAAAGTCAGTATTGTACACGGGCAGGCCACACTGGTGTGTGCCATGGCTG
Found at i:44050537 original size:27 final size:26
Alignment explanation
Indices: 44050507--44050557 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
44050497 ATTTTTTTAA
44050507 AAAATCATAAAAATATAAAAATATTTT
1 AAAATCATAAAAATAT-AAAATATTTT
** *
44050534 AAAATTTTAAAAATATTAAATATT
1 AAAATCATAAAAATATAAAATATT
44050558 AAATATTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.33
27 14 0.67
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
AAAATCATAAAAATATAAAATATTTT
Found at i:44050599 original size:32 final size:32
Alignment explanation
Indices: 44050563--44050623 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
44050553 ATATTAAATA
* *
44050563 TTTATATAAACTTAT-ATAATTTATAAAAAAAC
1 TTTATA-AAAATTATAATAAATTATAAAAAAAC
44050595 TTTATAAAAATTATAATAAATTATAAAAA
1 TTTATAAAAATTATAATAAATTATAAAAA
44050624 TATTAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 7 0.27
32 19 0.73
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (32 bp):
TTTATAAAAATTATAATAAATTATAAAAAAAC
Found at i:44050615 original size:10 final size:9
Alignment explanation
Indices: 44050506--44050700 Score: 76
Period size: 10 Copynumber: 20.6 Consensus size: 9
44050496 TATTTTTTTA
*
44050506 AAAAATCAT
1 AAAAATTAT
44050515 AAAAA-TAT
1 AAAAATTAT
*
44050523 AAAAATATTT
1 AAAAAT-TAT
* *
44050533 TAAAATTTT
1 AAAAATTAT
44050542 AAAAA-TATT
1 AAAAATTA-T
*
44050551 AAATATTA-
1 AAAAATTAT
* *
44050559 AATATTTAT
1 AAAAATTAT
*
44050568 ATAAACTTAT
1 A-AAAATTAT
* *
44050578 ATAATTTAT
1 AAAAATTAT
44050587 AAAAAAACTTTAT
1 --AAAAA--TTAT
44050600 AAAAATTAT
1 AAAAATTAT
44050609 AATAAATTAT
1 AA-AAATTAT
44050619 AAAAA-TATT
1 AAAAATTA-T
*
44050628 AAAAA-AAT
1 AAAAATTAT
*
44050636 ATAAACTTAT
1 A-AAAATTAT
*
44050646 AAAAATATAA
1 AAAAAT-TAT
*
44050656 AAAGAATCAT
1 AAA-AATTAT
44050666 AAAAATTTAT
1 AAAAA-TTAT
*
44050676 AATAAATTCT
1 AA-AAATTAT
*
44050686 AATACATTAT
1 AA-AAATTAT
44050696 AAAAA
1 AAAAA
44050701 AATTAAGAAC
Statistics
Matches: 141, Mismatches: 27, Indels: 36
0.69 0.13 0.18
Matches are distributed among these distances:
8 17 0.12
9 51 0.36
10 55 0.39
11 14 0.10
13 4 0.03
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.35
Consensus pattern (9 bp):
AAAAATTAT
Found at i:44050620 original size:19 final size:18
Alignment explanation
Indices: 44050506--44050700 Score: 76
Period size: 19 Copynumber: 10.3 Consensus size: 18
44050496 TATTTTTTTA
*
44050506 AAAAATCATAAAAA-TAT
1 AAAAATTATAAAAATTAT
* * *
44050523 AAAAATATTTTAAAATTTT
1 AAAAAT-TATAAAAATTAT
*
44050542 AAAAA-TATTAAATATTA-
1 AAAAATTA-TAAAAATTAT
* * *
44050559 AATATTTATATAAACTTAT
1 AAAAATTATA-AAAATTAT
* *
44050578 ATAATTTATAAAAAAACTTTAT
1 AAAAATTAT--AAAAA--TTAT
44050600 AAAAATTATAATAAATTAT
1 AAAAATTATAA-AAATTAT
*
44050619 AAAAA-TATTAAAAA-AAT
1 AAAAATTA-TAAAAATTAT
* *
44050636 ATAAACTTATAAAAATATAA
1 A-AAAATTATAAAAAT-TAT
*
44050656 AAAGAATCATAAAAATTTAT
1 AAA-AATTATAAAAA-TTAT
* *
44050676 AATAAATTCTAATACATTAT
1 AA-AAATTATAA-AAATTAT
44050696 AAAAA
1 AAAAA
44050701 AATTAAGAAC
Statistics
Matches: 131, Mismatches: 27, Indels: 38
0.67 0.14 0.19
Matches are distributed among these distances:
17 15 0.11
18 32 0.24
19 33 0.25
20 32 0.24
21 8 0.06
22 11 0.08
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.35
Consensus pattern (18 bp):
AAAAATTATAAAAATTAT
Found at i:44050645 original size:27 final size:27
Alignment explanation
Indices: 44050610--44050668 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
44050600 AAAAATTATA
44050610 ATAAATTATAAAAATATTAAAAA-AAT-
1 ATAAATTATAAAAATA-TAAAAAGAATC
44050636 ATAAACTTATAAAAATATAAAAAGAATC
1 ATAAA-TTATAAAAATATAAAAAGAATC
44050664 ATAAA
1 ATAAA
44050669 AATTTATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 11 0.37
27 14 0.47
28 5 0.17
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (27 bp):
ATAAATTATAAAAATATAAAAAGAATC
Found at i:44050654 original size:8 final size:8
Alignment explanation
Indices: 44050597--44050658 Score: 52
Period size: 8 Copynumber: 7.0 Consensus size: 8
44050587 AAAAAAACTT
44050597 TATAAAAA
1 TATAAAAA
44050605 TTATAATAAA
1 -TATAA-AAA
44050615 TTATAAAAA
1 -TATAAAAA
44050624 TATTAAAAAAA
1 TA-T--AAAAA
**
44050635 TATAAACT
1 TATAAAAA
44050643 TATAAAAA
1 TATAAAAA
44050651 TATAAAAA
1 TATAAAAA
44050659 GAATCATAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
8 19 0.42
9 9 0.20
10 10 0.22
11 7 0.16
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (8 bp):
TATAAAAA
Found at i:44050700 original size:67 final size:67
Alignment explanation
Indices: 44050566--44050701 Score: 161
Period size: 67 Copynumber: 2.0 Consensus size: 67
44050556 TTAAATATTT
** * *
44050566 ATATAAACTTATATAATTTATAAAAAAACTTTATAAAAATTATAATAAATTATAAAAATATTAAA
1 ATATAAACTTATATAAAATATAAAAAAAC-TCATAAAAATTATAATAAATTATAAAAACATTAAA
44050631 AAA
65 AAA
* *
44050634 ATATAAACTTATA-AAAATATAAAAAGAA-TCATAAAAATTTATAATAAATTCT-AATACATTAT
1 ATATAAACTTATATAAAATATAAAAA-AACTCATAAAAA-TTATAATAAATTATAAAAACATTA-
44050696 AAAAA
63 AAAAA
44050701 A
1 A
44050702 ATTAAGAACA
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
66 15 0.25
67 29 0.49
68 15 0.25
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (67 bp):
ATATAAACTTATATAAAATATAAAAAAACTCATAAAAATTATAATAAATTATAAAAACATTAAAA
AA
Found at i:44051306 original size:9 final size:8
Alignment explanation
Indices: 44051235--44051313 Score: 50
Period size: 9 Copynumber: 8.8 Consensus size: 8
44051225 TTTTAAAATA
44051235 AATTTTAT
1 AATTTTAT
* *
44051243 ATTTTTTT
1 AATTTTAT
*
44051251 GAATTTTTT
1 -AATTTTAT
44051260 ATATTTTAT
1 A-ATTTTAT
44051269 AAGTTTATAT
1 AA-TTT-TAT
44051279 AATTTTTAAAT
1 AA-TTTT--AT
44051290 AATTTTAT
1 AATTTTAT
44051298 AACTTTTAT
1 AA-TTTTAT
44051307 AAATTTT
1 -AATTTT
44051314 TTATAAATGA
Statistics
Matches: 58, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
8 12 0.21
9 28 0.48
10 14 0.24
11 4 0.07
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (8 bp):
AATTTTAT
Found at i:44051437 original size:18 final size:19
Alignment explanation
Indices: 44051414--44051449 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
44051404 TTTAAAATAT
44051414 ATTTTTAT-ATTTTTAATG
1 ATTTTTATAATTTTTAATG
44051432 ATTTTTATAATTTTTAAT
1 ATTTTTATAATTTTTAAT
44051450 AAAAAATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (19 bp):
ATTTTTATAATTTTTAATG
Found at i:44051444 original size:9 final size:9
Alignment explanation
Indices: 44051232--44051447 Score: 56
Period size: 10 Copynumber: 23.1 Consensus size: 9
44051222 CTTTTTTAAA
*
44051232 ATAAATTTT
1 ATAATTTTT
44051241 AT-ATTTTT
1 ATAATTTTT
*
44051249 TTGAATTTTT
1 AT-AATTTTT
44051259 -T-ATATTTT
1 ATAAT-TTTT
*
44051267 ATAAGTTTAT
1 ATAA-TTTTT
44051277 ATAATTTTT
1 ATAATTTTT
44051286 A-AATAATTTT
1 ATAAT--TTTT
*
44051296 ATAACTTTT
1 ATAATTTTT
44051305 ATAAATTTTTT
1 AT-AA-TTTTT
** *
44051316 ATAAATGATG
1 AT-AATTTTT
*
44051326 AGAATTTTT
1 ATAATTTTT
*
44051335 AGGAATTTTT
1 A-TAATTTTT
44051345 -TAAGTTTTAT
1 ATAA-TTTT-T
44051355 ATAA--TTT
1 ATAATTTTT
44051362 ATAA-TTTT
1 ATAATTTTT
* *
44051370 AGAAGTTTAT
1 ATAA-TTTTT
* *
44051380 ATAAAATATT
1 AT-AATTTTT
* *
44051390 A-AAATATT
1 ATAATTTTT
44051398 ATAATTTTT
1 ATAATTTTT
44051407 AAAATATATTTTT
1 ---ATA-ATTTTT
44051420 AT-ATTTTT
1 ATAATTTTT
*
44051428 AATGATTTTT
1 -ATAATTTTT
44051438 ATAATTTTT
1 ATAATTTTT
44051447 A
1 A
44051448 ATAAAAAATG
Statistics
Matches: 158, Mismatches: 23, Indels: 52
0.68 0.10 0.22
Matches are distributed among these distances:
7 7 0.04
8 37 0.23
9 40 0.25
10 48 0.30
11 17 0.11
12 3 0.02
13 6 0.04
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (9 bp):
ATAATTTTT
Found at i:44054268 original size:13 final size:13
Alignment explanation
Indices: 44054250--44054277 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
44054240 ACCCCCGCTT
44054250 TATTTAATTCTTC
1 TATTTAATTCTTC
44054263 TATTTAATTCTTC
1 TATTTAATTCTTC
44054276 TA
1 TA
44054278 CAAGAATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.14, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTTAATTCTTC
Found at i:44057297 original size:21 final size:21
Alignment explanation
Indices: 44057271--44057311 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
44057261 AGACGAGCAA
* *
44057271 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
44057292 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
44057312 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:44062961 original size:6 final size:6
Alignment explanation
Indices: 44062943--44063032 Score: 69
Period size: 6 Copynumber: 14.7 Consensus size: 6
44062933 AAGAAACATT
* * *
44062943 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAAA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
44062992 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA
44063033 ATATCAGGTA
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
5 4 0.06
6 55 0.83
7 5 0.08
8 2 0.03
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:44062990 original size:31 final size:31
Alignment explanation
Indices: 44062954--44063061 Score: 137
Period size: 31 Copynumber: 3.5 Consensus size: 31
44062944 TCAGAACTAG
* * *
44062954 AATCAGAATCAGAATCAGAATTAGGTGACAA
1 AATCAAAATCAGAATCAGAATCAGGTAACAA
* * *
44062985 AATCAGAATCAGAATCAGTATCAGGTAACAG
1 AATCAAAATCAGAATCAGAATCAGGTAACAA
44063016 AATCAAAATCAGAATCA-ATATCAGGTAACAA
1 AATCAAAATCAGAATCAGA-ATCAGGTAACAA
*
44063047 AATTAAAATCAGAAT
1 AATCAAAATCAGAAT
44063062 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
31 68 1.00
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.20
Consensus pattern (31 bp):
AATCAAAATCAGAATCAGAATCAGGTAACAA
Found at i:44063033 original size:12 final size:12
Alignment explanation
Indices: 44062982--44063039 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
44062972 AATTAGGTGA
44062982 CAAAATCAGAAT
1 CAAAATCAGAAT
* *
44062994 CAGAATCAGTAT
1 CAAAATCAGAAT
*
44063006 CAGGTAA-CAGAAT
1 CA--AAATCAGAAT
44063019 CAAAATCAGAAT
1 CAAAATCAGAAT
*
44063031 CAATATCAG
1 CAAAATCAG
44063040 GTAACAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
11 2 0.05
12 26 0.70
13 7 0.19
14 2 0.05
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (12 bp):
CAAAATCAGAAT
Found at i:44063604 original size:27 final size:27
Alignment explanation
Indices: 44063574--44063690 Score: 121
Period size: 27 Copynumber: 4.3 Consensus size: 27
44063564 GGGGTAAAAT
* *
44063574 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
44063601 GGTAATTCTACCTTAC-AGGATTATTTC
1 GGTAATTTTACCCTACAAGG-GTATTTC
* * * *
44063628 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
44063655 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
44063682 GGTAATTTT
1 GGTAATTTT
44063691 GTAAATCGAG
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
26 6 0.08
27 60 0.83
28 6 0.08
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:44063634 original size:54 final size:54
Alignment explanation
Indices: 44063575--44063690 Score: 135
Period size: 54 Copynumber: 2.1 Consensus size: 54
44063565 GGGTAAAATG
* *
44063575 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTAC-AGGATTATTTCA
1 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGG-GTATTTCA
* * * * * * *
44063629 GTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCA
44063683 GTAATTTT
1 GTAATTTT
44063691 GTAAATCGAG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 48 0.94
55 3 0.06
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (54 bp):
GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCA
Found at i:44063823 original size:27 final size:27
Alignment explanation
Indices: 44063793--44064127 Score: 366
Period size: 27 Copynumber: 12.4 Consensus size: 27
44063783 GGTATCTCAT
* **
44063793 TAATTTCACAAATTAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * *
44063820 TAATTTTACAAACTAGGGATATTTTGA
1 TAATTTTACAAACCAGGGGTATTTTGG
*
44063847 TAATTTTACAAACTAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
** *
44063874 TAATTTTGTAAACCAAGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
44063901 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * * * *
44063928 TGATTTTATAAACCAAGGGTATTCTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
44063955 TAATTTTACAAACCAGTGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* ** * *
44063982 TAATTTTATAAACCAATGGTATTCTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
44064009 TAATTTTACAAACTAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
** *
44064036 TAATTTTGTAAACCAAGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * *
44064063 TAATTTTACAAATC-GAGGATATTTGGG
1 TAATTTTACAAACCAG-GGGTATTTTGG
* ** *
44064090 TAATTTTATAAACTGGGGGTACTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
44064117 TAATTTTACAA
1 TAATTTTACAA
44064128 CTGGGGGTAT
Statistics
Matches: 255, Mismatches: 51, Indels: 4
0.82 0.16 0.01
Matches are distributed among these distances:
27 254 1.00
28 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAACCAGGGGTATTTTGG
Found at i:44064145 original size:26 final size:27
Alignment explanation
Indices: 44064089--44064148 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
44064079 GGATATTTGG
**
44064089 GTAATTTTATAAACTGGGGGTACTTTG
1 GTAATTTTATAAACTGGGGGTACTTCA
*
44064116 GTAATTTTA-CAACTGGGGGTA-TATCA
1 GTAATTTTATAAACTGGGGGTACT-TCA
44064142 GTAATTT
1 GTAATTT
44064149 GGTAAACTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 19 0.66
27 9 0.31
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.40
Consensus pattern (27 bp):
GTAATTTTATAAACTGGGGGTACTTCA
Found at i:44074706 original size:27 final size:27
Alignment explanation
Indices: 44074645--44074785 Score: 151
Period size: 27 Copynumber: 5.3 Consensus size: 27
44074635 AGCATGGCTG
* ** *
44074645 CCAGAATAGATAA-TGTGAAAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* * *
44074671 CCAGTACAGATAATCGTGGCAGGGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
44074698 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
44074725 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* * *
44074752 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
44074779 CCAGAAC
1 CCAGAAC
44074786 GCTTCCTCCA
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.13
27 84 0.86
28 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:44074950 original size:28 final size:26
Alignment explanation
Indices: 44074888--44074961 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 26
44074878 AAATTAACCC
** *
44074888 TAGGGGTATAACGGTAATTTTACACC
1 TAGGGGTATAATAGTAATTTTACACA
*
44074914 TAGGGGTATAATAGTAATTTTCCATACA
1 TAGGGGTATAATAGTAATTTT--ACACA
*
44074942 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAATAGTAATTT
44074962 AGCTACTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 19 0.46
28 22 0.54
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.36
Consensus pattern (26 bp):
TAGGGGTATAATAGTAATTTTACACA
Found at i:44076439 original size:26 final size:26
Alignment explanation
Indices: 44076403--44076512 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
44076393 CATGAAATTC
44076403 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
44076429 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
44076455 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
44076481 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
44076507 TTATCA
1 TTATCA
44076513 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:44078242 original size:22 final size:22
Alignment explanation
Indices: 44078217--44078274 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
44078207 TGTTTGAGTT
*
44078217 AAATTAAAAAATTGAACATTTC
1 AAATTAAAATATTGAACATTTC
44078239 AAATTAAAATATTGAACATTTC
1 AAATTAAAATATTGAACATTTC
44078261 AAATTAAAATATTG
1 AAATTAAAATATTG
44078275 TTATAGTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.34
Consensus pattern (22 bp):
AAATTAAAATATTGAACATTTC
Found at i:44078505 original size:18 final size:19
Alignment explanation
Indices: 44078484--44078522 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
44078474 ATTTTGATTT
*
44078484 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTTGAA
44078502 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTATTTTGAA
44078521 TT
1 TT
44078523 ATTTTGTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAA
Found at i:44079744 original size:64 final size:63
Alignment explanation
Indices: 44079620--44079746 Score: 175
Period size: 64 Copynumber: 2.0 Consensus size: 63
44079610 ATAATCTACC
* *
44079620 CGCTCTTCCATCACCCTTAATCGAGCCCTACTTGAGATAAGCTGATTTTTCGCATATGGCCCT
1 CGCTCTTCCATCACCCTTAATCGAGCCCTACTTGAGAGAAGCTGATTTTTCGCACATGGCCCT
* * * *
44079683 NCGCTCTTCCATCACCCTTGATCTAGCCCTACTTGAGAGAAGTTGA-TTTTCTGCACGTGGCCCT
1 -CGCTCTTCCATCACCCTTAATCGAGCCCTACTTGAGAGAAGCTGATTTTTC-GCACATGGCCCT
44079747 TATAGGTAGG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
63 5 0.09
64 51 0.91
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.31
Consensus pattern (63 bp):
CGCTCTTCCATCACCCTTAATCGAGCCCTACTTGAGAGAAGCTGATTTTTCGCACATGGCCCT
Found at i:44082370 original size:17 final size:18
Alignment explanation
Indices: 44082331--44082376 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
44082321 GATATATGCA
* *
44082331 AATGAGTATATTTTCATG
1 AATGAGTATAATTGCATG
*
44082349 GATGAGTA-AATTGCATG
1 AATGAGTATAATTGCATG
44082366 AATGAG-ATAAT
1 AATGAGTATAAT
44082377 GCCTTGTTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 1 0.04
17 15 0.65
18 7 0.30
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.35
Consensus pattern (18 bp):
AATGAGTATAATTGCATG
Found at i:44085811 original size:16 final size:15
Alignment explanation
Indices: 44085786--44085824 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
44085776 AATTGTTTTC
*
44085786 TTTTTCATTTAATTAA
1 TTTTTTATTTAA-TAA
44085802 TTTTTTATTTAATAA
1 TTTTTTATTTAATAA
*
44085817 CTTTTTAT
1 TTTTTTAT
44085825 CTTTCCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTTATTTAATAA
Found at i:44085821 original size:15 final size:16
Alignment explanation
Indices: 44085785--44085824 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
44085775 AAATTGTTTT
44085785 CTTTTTCATTTAATTAA
1 CTTTTT-ATTTAATTAA
*
44085802 TTTTTTATTTAA-TAA
1 CTTTTTATTTAATTAA
44085817 CTTTTTAT
1 CTTTTTAT
44085825 CTTTCCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 10 0.48
16 6 0.29
17 5 0.24
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (16 bp):
CTTTTTATTTAATTAA
Found at i:44087883 original size:55 final size:55
Alignment explanation
Indices: 44087755--44087957 Score: 250
Period size: 54 Copynumber: 3.7 Consensus size: 55
44087745 AACTTACCAC
* * *
44087755 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GT-ACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGTAACTCATCAA
* *
44087808 TGCCATGCCTTGACATGGTCTTACATGGGACCCTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGTAACTCATCAA
* * * * * *
44087863 TGCCATGTCATGACATGGTCTTACGTGATTTCCTTGCCTTATAG-AACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGTAACTCATCAA
* * * *
44087917 TGCCATACCTTGGCATGGTCTTACATGATATCCTTGTCTTA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
44087958 CCAAATTCCA
Statistics
Matches: 128, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
53 38 0.30
54 45 0.35
55 45 0.35
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (55 bp):
TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGTAACTCATCAA
Found at i:44103321 original size:48 final size:48
Alignment explanation
Indices: 44103265--44103397 Score: 160
Period size: 48 Copynumber: 2.8 Consensus size: 48
44103255 ATTGATATGT
* *
44103265 GATCCCATGTAAGACCATATCATGGACATGGCATTGGCATCGACCTGC
1 GATCCCATGTAAGACCATATCTTGGACATGGCATTGGCATCGACATGC
* * * * *
44103313 GTTCCCATGTAAGACCATGT-TTGGGACATGGCATTAGCATCGATATGT
1 GATCCCATGTAAGACCATATCTT-GGACATGGCATTGGCATCGACATGC
* * *
44103361 GATCCCATATAAGACCATATCTTAGATATGGCATTGG
1 GATCCCATGTAAGACCATATCTTGGACATGGCATTGG
44103398 AATCCTATCA
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
47 1 0.01
48 67 0.96
49 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (48 bp):
GATCCCATGTAAGACCATATCTTGGACATGGCATTGGCATCGACATGC
Found at i:44108864 original size:15 final size:16
Alignment explanation
Indices: 44108844--44108876 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44108834 CCTTGTTCAA
44108844 TAAAAAA-ATAATACT
1 TAAAAAATATAATACT
*
44108859 TAAAAAATATAATGCT
1 TAAAAAATATAATACT
44108875 TA
1 TA
44108877 TGATAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (16 bp):
TAAAAAATATAATACT
Found at i:44111605 original size:70 final size:70
Alignment explanation
Indices: 44111492--44111631 Score: 271
Period size: 70 Copynumber: 2.0 Consensus size: 70
44111482 AAGTATAGGG
*
44111492 GTAAAATAGTAATTTTACCCAAGTATGAATTTTGGGTCATTTTGAGTAATGTATGTATTAAACGA
1 GTAAAATAGTAATTTTACCCAAGTATGAATTTTGGGTCATTTTGAGTAATGTATGTATTAAACAA
44111557 GCTAA
66 GCTAA
44111562 GTAAAATAGTAATTTTACCCAAGTATGAATTTTGGGTCATTTTGAGTAATGTATGTATTAAACAA
1 GTAAAATAGTAATTTTACCCAAGTATGAATTTTGGGTCATTTTGAGTAATGTATGTATTAAACAA
44111627 GCTAA
66 GCTAA
44111632 ATTTGGTATT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (70 bp):
GTAAAATAGTAATTTTACCCAAGTATGAATTTTGGGTCATTTTGAGTAATGTATGTATTAAACAA
GCTAA
Found at i:44113855 original size:40 final size:40
Alignment explanation
Indices: 44113710--44113893 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
44113700 TTGAATGATG
* * *
44113710 TCCGGGCTAAGTCCCTAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
44113749 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44113789 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
44113828 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
44113869 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44113894 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
39 51 0.41
40 62 0.50
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44113915 original size:79 final size:79
Alignment explanation
Indices: 44113762--44113926 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
44113752 GGACTAAGAT
** ** *
44113762 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
44113827 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
44113841 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
44113903 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
44113920 CCGAAGG
1 CCGAAGG
44113927 TACGTGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
78 3 0.04
79 45 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:44118348 original size:16 final size:15
Alignment explanation
Indices: 44118323--44118352 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
44118313 CTAGATCGGC
44118323 AAAAGCCGAAAAGCA
1 AAAAGCCGAAAAGCA
44118338 AAAATGCCGAAAAGC
1 AAAA-GCCGAAAAGC
44118353 CGGTATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.57, C:0.20, G:0.20, T:0.03
Consensus pattern (15 bp):
AAAAGCCGAAAAGCA
Found at i:44118641 original size:28 final size:28
Alignment explanation
Indices: 44118601--44118665 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
44118591 ATGTACTAGA
*
44118601 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
44118629 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
44118657 ATACCCCTA
1 ATACCCCTA
44118666 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:44118829 original size:27 final size:27
Alignment explanation
Indices: 44118771--44118852 Score: 112
Period size: 28 Copynumber: 3.0 Consensus size: 27
44118761 AGGAAGCGTC
44118771 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
44118799 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
44118826 CTGGTGGCACTGCCACAAAATATCTGT
1 CTGGTGGCACTGCCAC-AAATATCTGT
44118853 ATCTAGTGAC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.48
28 25 0.52
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:44118879 original size:55 final size:56
Alignment explanation
Indices: 44118771--44118885 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
44118761 AGGAAGCGTC
* * * *
44118771 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTAGTGACCCTACCACATATATCTGTAT
* * *
44118826 CTGGTGGC-ACTGCCACAAAATATCTGTATCTAGTGACTCTATCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTAGTGACCCTACCACATATATCTGTAT
44118882 CTGG
1 CTGG
44118886 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.60
56 19 0.38
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTAGTGACCCTACCACATATATCTGTAT
Found at i:44122158 original size:15 final size:17
Alignment explanation
Indices: 44122138--44122169 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
44122128 TAGCATGTTC
44122138 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
44122153 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
44122170 CAAGTGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:44126831 original size:12 final size:12
Alignment explanation
Indices: 44126801--44126834 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
44126791 ATCATGTTAC
*
44126801 AACATTAACAAA
1 AACATTAAAAAA
44126813 AAC-TTAAAAAA
1 AACATTAAAAAA
44126824 AACATTAAAAA
1 AACATTAAAAA
44126835 CAAGACAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (12 bp):
AACATTAAAAAA
Found at i:44133444 original size:16 final size:17
Alignment explanation
Indices: 44133423--44133456 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
44133413 TTACCATGCA
44133423 TATAACAT-TTAAATGT
1 TATAACATATTAAATGT
44133439 TATAACATAATTAAATGT
1 TATAACAT-ATTAAATGT
44133457 AAATTTACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (17 bp):
TATAACATATTAAATGT
Found at i:44135446 original size:25 final size:25
Alignment explanation
Indices: 44135387--44135447 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
44135377 GTACATATAT
* * *
44135387 GCACATACAAGCTATGAATTGGTAT
1 GCACATACGAGCTATAAATTGGTAA
* *
44135412 GCTC-TCACGAGCTGTAAATTGGTAA
1 GCACAT-ACGAGCTATAAATTGGTAA
44135437 GCACATACGAG
1 GCACATACGAG
44135448 ATGAGAATCA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
24 1 0.04
25 26 0.93
26 1 0.04
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (25 bp):
GCACATACGAGCTATAAATTGGTAA
Done.