Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 63 of 82
Found at i:22589090 original size:28 final size:26
Alignment explanation
Indices: 22589040--22589098 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
22589030 CTCTTACCAA
22589040 GGTTTTTTTTTTTTTTTGGTTTGTTT
1 GGTTTTTTTTTTTTTTTGGTTTGTTT
*
22589066 GGTTTTTTTTTGTTTTT-GTTT-TTT
1 GGTTTTTTTTTTTTTTTGGTTTGTTT
22589090 -GTTTTTTTT
1 GGTTTTTTTT
22589099 AAATGAGACT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 9 0.28
24 3 0.09
25 4 0.12
26 16 0.50
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (26 bp):
GGTTTTTTTTTTTTTTTGGTTTGTTT
Found at i:22589094 original size:21 final size:19
Alignment explanation
Indices: 22589044--22589097 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
22589034 TACCAAGGTT
22589044 TTTTTTTTTTTTTGGTTTG
1 TTTTTTTTTTTTTGGTTTG
* *
22589063 TTTGGTTTTTTTTTGTTTTTG
1 TTT-TTTTTTTTTTG-GTTTG
22589084 TTTTTTGTTTTTTT
1 TTTTTT-TTTTTTT
22589098 TAAATGAGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 3 0.10
20 12 0.41
21 14 0.48
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (19 bp):
TTTTTTTTTTTTTGGTTTG
Found at i:22589200 original size:41 final size:41
Alignment explanation
Indices: 22589099--22589217 Score: 115
Period size: 41 Copynumber: 3.0 Consensus size: 41
22589089 TGTTTTTTTT
* *
22589099 AAATGAGACTCCTCAAAGCTGAGAC-AATGAAACTTT--AAA
1 AAATGAAACTCCTCAAAGCTGAGGCTAA-GAAACTTTAAAAA
** *
22589138 AAA-G-AACTCCTCAAAATTGAGGCTACGAAACTTTAAAAA
1 AAATGAAACTCCTCAAAGCTGAGGCTAAGAAACTTTAAAAA
* *
22589177 AAATGAAACTCCCCAAAGCTGAGG-TAATATAACTTTAAAAA
1 AAATGAAACTCCTCAAAGCTGAGGCTAAGA-AACTTTAAAAA
22589218 TATAGCTCCT
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
37 23 0.36
38 2 0.03
39 9 0.14
40 4 0.06
41 26 0.41
ACGTcount: A:0.48, C:0.18, G:0.13, T:0.21
Consensus pattern (41 bp):
AAATGAAACTCCTCAAAGCTGAGGCTAAGAAACTTTAAAAA
Found at i:22589399 original size:38 final size:37
Alignment explanation
Indices: 22589106--22589405 Score: 230
Period size: 37 Copynumber: 7.9 Consensus size: 37
22589096 TTTAAATGAG
* *
22589106 ACTCCTCAAAGCTGAGACAATGAAACTTTAAAAA-AGA
1 ACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATA-A
** *
22589143 ACTCCTCAAAATTGAGGCTACGAAACTTTAAAAAAAATGAA
1 ACTCCTCAAAGCTGAGGCAACGAAACTTT---AAAAAT-AA
* * *
22589184 ACTCCCCAAAGCTGAGGTAA-TATAACTTTAAAAATATA
1 ACTCCTCAAAGCTGAGGCAACGA-AACTTTAAAAATA-A
* * * * *
22589222 GCTCCTCAATGCTGAGGCAAC-ATGACTTTAGAAATGA
1 ACTCCTCAAAGCTGAGGCAACGA-AACTTTAAAAATAA
* * * *
22589259 ACTCTTTAGAGCTGAGGCAACGAGACTTTAAAAATAA
1 ACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATAA
** *
22589296 ACTCCTCAAAATTGAGGCAAC-AAGACTTTAAAAATGA
1 ACTCCTCAAAGCTGAGGCAACGAA-ACTTTAAAAATAA
** * *
22589333 ACTCCTCAAAATTGAGGTAATGAAACTTTAAAAATAAA
1 ACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAAT-AA
* * * *
22589371 ACTCCCCAAAGCTGAGTCAACGAGACTTTTAAAAT
1 ACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAAT
22589406 CTTGAAACTA
Statistics
Matches: 208, Mismatches: 43, Indels: 23
0.76 0.16 0.08
Matches are distributed among these distances:
36 1 0.00
37 112 0.54
38 66 0.32
40 6 0.03
41 22 0.11
42 1 0.00
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (37 bp):
ACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATAA
Found at i:22589651 original size:116 final size:116
Alignment explanation
Indices: 22589447--22589665 Score: 375
Period size: 116 Copynumber: 1.9 Consensus size: 116
22589437 ATACACTCGG
* * *
22589447 AGGATTTAAGAGAATAATGTGCCCAGAGGTTTTCAGAATGTATCCGAAGAATTTAGGAAATGTGG
1 AGGATTTAAGAGAATAATGTGCCAAGAGGTCTTCAGAATGTACCCGAAGAATTTAGGAAATGTGG
22589512 CTCCTCGAAAACTGAGGCAACGTAACTTTAAAAATGAAACTAATTACCCGA
66 CTCCTCGAAAACTGAGGCAACGTAACTTTAAAAATGAAACTAATTACCCGA
* *
22589563 AGGATTTAAGAGAATAATGTGCCAAGAGGTCTTCAGAATGTACCCGGAGGATTTAGGAAATGTGG
1 AGGATTTAAGAGAATAATGTGCCAAGAGGTCTTCAGAATGTACCCGAAGAATTTAGGAAATGTGG
* *
22589628 CTTCTCGAAAATTGAGGCAACGTAACTTTAAAAATGAA
66 CTCCTCGAAAACTGAGGCAACGTAACTTTAAAAATGAA
22589666 CTCCTCAAAA
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
116 96 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.25
Consensus pattern (116 bp):
AGGATTTAAGAGAATAATGTGCCAAGAGGTCTTCAGAATGTACCCGAAGAATTTAGGAAATGTGG
CTCCTCGAAAACTGAGGCAACGTAACTTTAAAAATGAAACTAATTACCCGA
Found at i:22595953 original size:27 final size:27
Alignment explanation
Indices: 22595923--22595982 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
22595913 TTACTACTGG
* *
22595923 CCTTGAGGCTTCCATGTAGAATTTAAT
1 CCTTGAGGCATCCATGTAGAATTCAAT
**
22595950 CCTTGATTCATCCATGTAGAATTCAAT
1 CCTTGAGGCATCCATGTAGAATTCAAT
22595977 CCTTGA
1 CCTTGA
22595983 TTCGTCCATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (27 bp):
CCTTGAGGCATCCATGTAGAATTCAAT
Found at i:22595983 original size:27 final size:27
Alignment explanation
Indices: 22595933--22595991 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
22595923 CCTTGAGGCT
*
22595933 TCCATGTAGAATTTAATCCTTGATTCA
1 TCCATGTAGAATTCAATCCTTGATTCA
*
22595960 TCCATGTAGAATTCAATCCTTGATTCG
1 TCCATGTAGAATTCAATCCTTGATTCA
22595987 TCCAT
1 TCCAT
22595992 CATCCTTTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (27 bp):
TCCATGTAGAATTCAATCCTTGATTCA
Found at i:22599717 original size:27 final size:25
Alignment explanation
Indices: 22599661--22599728 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 25
22599651 TTATTTAATT
* *
22599661 ATTATTTTTATTTTATTTTACTTTTT
1 ATTATTATT-TTTTATTTTACTTTTA
22599687 ATTATCATATTTTTTATTTTA-TTTCTA
1 ATTAT--TATTTTTTATTTTACTTT-TA
22599714 ATTATTATTTTTTAT
1 ATTATTATTTTTTAT
22599729 ACTTTACATT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
25 10 0.27
26 8 0.22
27 16 0.43
28 3 0.08
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (25 bp):
ATTATTATTTTTTATTTTACTTTTA
Found at i:22599726 original size:20 final size:20
Alignment explanation
Indices: 22599643--22599728 Score: 69
Period size: 20 Copynumber: 4.5 Consensus size: 20
22599633 TTTTTTTGTC
*
22599643 ATTTTTTATTATTTAATTATT
1 ATTTTTTATTATCTAATT-TT
22599664 A-TTTTTATT-T-T-ATTTT
1 ATTTTTTATTATCTAATTTT
*
22599680 ACTTTTTATTATC-ATATTTT
1 ATTTTTTATTATCTA-ATTTT
22599700 -TTATTTTATT-TCTAATTATT
1 ATT-TTTTATTATCTAATT-TT
22599720 ATTTTTTAT
1 ATTTTTTAT
22599729 ACTTTACATT
Statistics
Matches: 55, Mismatches: 1, Indels: 19
0.73 0.01 0.25
Matches are distributed among these distances:
16 3 0.05
17 11 0.20
18 2 0.04
19 7 0.13
20 29 0.53
21 3 0.05
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.72
Consensus pattern (20 bp):
ATTTTTTATTATCTAATTTT
Found at i:22599949 original size:15 final size:15
Alignment explanation
Indices: 22599931--22599986 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
22599921 TATATTCGAA
22599931 TTATTATTATTTTTT
1 TTATTATTATTTTTT
* *
22599946 TTATCATCATTTTTT
1 TTATTATTATTTTTT
*
22599961 TTATCTATTGTTATTTAT
1 TTAT-TATTATT-TTT-T
22599979 TTATTATT
1 TTATTATT
22599987 TTTATTGAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
15 17 0.52
16 4 0.12
17 7 0.21
18 5 0.15
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.71
Consensus pattern (15 bp):
TTATTATTATTTTTT
Found at i:22602341 original size:31 final size:31
Alignment explanation
Indices: 22602267--22602343 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
22602257 TCCAATTGTT
* * **
22602267 CTGACATGCTGAGTGGAAGCAGATTTATGGG
1 CTGACACGCTAAGTGGAAGCAGATTTATCAG
* *
22602298 CTAACACACTAAGTGGAAGCAGATTTATCAG
1 CTGACACGCTAAGTGGAAGCAGATTTATCAG
*
22602329 TTGACACGCTAAGTG
1 CTGACACGCTAAGTG
22602344 ATAGTGGATT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (31 bp):
CTGACACGCTAAGTGGAAGCAGATTTATCAG
Found at i:22602674 original size:32 final size:33
Alignment explanation
Indices: 22602627--22602692 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
22602617 TACAATGGAT
*
22602627 TGTATAAAATAAATTTTGTATACAAAAAATTTG
1 TGTATAAAATAAATTTTGTATACAAAAAAATTG
*
22602660 TGTATACAA-AAATTTTGTATACAAAAAAATTG
1 TGTATAAAATAAATTTTGTATACAAAAAAATTG
22602692 T
1 T
22602693 ACAGACAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 23 0.74
33 8 0.26
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (33 bp):
TGTATAAAATAAATTTTGTATACAAAAAAATTG
Found at i:22602690 original size:17 final size:16
Alignment explanation
Indices: 22602626--22602687 Score: 92
Period size: 16 Copynumber: 3.9 Consensus size: 16
22602616 TTACAATGGA
22602626 TTGTATA-AAATAAATT
1 TTGTATACAAA-AAATT
22602642 TTGTATACAAAAAATT
1 TTGTATACAAAAAATT
22602658 TGTGTATAC-AAAAATT
1 T-TGTATACAAAAAATT
22602674 TTGTATACAAAAAA
1 TTGTATACAAAAAA
22602688 ATTGTACAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.16
16 26 0.60
17 10 0.23
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (16 bp):
TTGTATACAAAAAATT
Found at i:22602692 original size:15 final size:15
Alignment explanation
Indices: 22602626--22602693 Score: 75
Period size: 15 Copynumber: 4.3 Consensus size: 15
22602616 TTACAATGGA
22602626 TTGTATA-AAATAAATT
1 TTGTATACAAA-AAA-T
22602642 TTGTATACAAAAAATT
1 TTGTATACAAAAAA-T
*
22602658 TGTGTATACAAAAATT
1 T-TGTATACAAAAAAT
*
22602674 TTGTATACAAAAAAA
1 TTGTATACAAAAAAT
22602689 TTGTA
1 TTGTA
22602694 CAGACAATGG
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
15 17 0.36
16 15 0.32
17 15 0.32
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (15 bp):
TTGTATACAAAAAAT
Found at i:22604288 original size:31 final size:31
Alignment explanation
Indices: 22604246--22604551 Score: 337
Period size: 31 Copynumber: 9.9 Consensus size: 31
22604236 TAACATGTCG
* *
22604246 TGCATATCAAGTAAAATGTTGTCACACGCCA
1 TGCATAACAAGTAAAATGTTGTGACACGCCA
*
22604277 TGCAAAACAAGTAAAATGTTGTGACACGCCA
1 TGCATAACAAGTAAAATGTTGTGACACGCCA
*
22604308 TGCATAACAAGATAAACT-TTGTGACACGCCA
1 TGCATAACAAG-TAAAATGTTGTGACACGCCA
22604339 TGCATAACAAGTAAAATGTTGTGACACGCC-
1 TGCATAACAAGTAAAATGTTGTGACACGCCA
* **
22604369 TGCATAACAAGTTAAACATTGTGACACGCCA
1 TGCATAACAAGTAAAATGTTGTGACACGCCA
* * * * * *
22604400 TCCATAACAAGCAAATTGTCGTGACACTCTA
1 TGCATAACAAGTAAAATGTTGTGACACGCCA
* * * *
22604431 AGGATAACAAGCAAAATGTTGTGACACGGCA
1 TGCATAACAAGTAAAATGTTGTGACACGCCA
* * * * *
22604462 TGCATATCAAATCAAACGTTGTGACATGCCA
1 TGCATAACAAGTAAAATGTTGTGACACGCCA
* *
22604493 TGAATAACAAGTAAAATGTTGTGACACACCA
1 TGCATAACAAGTAAAATGTTGTGACACGCCA
* ** *
22604524 TGCATATCAAGGCAAATGTTGTCACACG
1 TGCATAACAAGTAAAATGTTGTGACACG
22604552 TTGAGGCTGA
Statistics
Matches: 224, Mismatches: 48, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
30 32 0.14
31 187 0.83
32 5 0.02
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (31 bp):
TGCATAACAAGTAAAATGTTGTGACACGCCA
Found at i:22605201 original size:156 final size:156
Alignment explanation
Indices: 22604912--22605260 Score: 385
Period size: 156 Copynumber: 2.2 Consensus size: 156
22604902 GGGTCAATTG
* * * *
22604912 CAATAACATATATAATTGTGTTATTCAATAATCATATATGGAATTGTTGAACATTAACCGTTACA
1 CAATTACATATATAACTGTGTTATTCAATAATCATATATGAAATTATTGAACATTAACCGTTACA
** * * * * * * ** *
22604977 ACTTTAATATCTTAACCGGCGGCTTATTAGCAGTCTGCGGTGGAGTCGGACTGATCGGTGTTTAA
66 ACTTTAATATCTTAACCGGCAACTCATTAGCAGTCTACGATGGAGCCAGACCGATCAATGCTTAA
22605042 GGACCTGTCGTCACTTTCGCAAACTA
131 GGACCTGTCGTCACTTTCGCAAACTA
* * *
22605068 TAATTACATATATAACTGTGTTATTCAATAATCATGTATGAAATTATTGAACATTAATCGTTACA
1 CAATTACATATATAACTGTGTTATTCAATAATCATATATGAAATTATTGAACATTAACCGTTACA
* * * * * *
22605133 ACTTTAATATCCTT-ACTGTCAACTCGTTAGCTGTCTACGATTGAGCCAGACCGATCAATGCTTG
66 ACTTTAATAT-CTTAACCGGCAACTCATTAGCAGTCTACGATGGAGCCAGACCGATCAATGCTTA
* * *
22605197 AGGACCTGTCGTCGCTTTCGTAAACTG
130 AGGACCTGTCGTCACTTTCGCAAACTA
* * * * * *
22605224 CAATTACAGAAATTACTGTGTTACTCGATAAACATAT
1 CAATTACATATATAACTGTGTTATTCAATAATCATAT
22605261 GTGGGAATGT
Statistics
Matches: 157, Mismatches: 35, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
156 154 0.98
157 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (156 bp):
CAATTACATATATAACTGTGTTATTCAATAATCATATATGAAATTATTGAACATTAACCGTTACA
ACTTTAATATCTTAACCGGCAACTCATTAGCAGTCTACGATGGAGCCAGACCGATCAATGCTTAA
GGACCTGTCGTCACTTTCGCAAACTA
Found at i:22607247 original size:31 final size:31
Alignment explanation
Indices: 22606892--22607250 Score: 396
Period size: 31 Copynumber: 11.6 Consensus size: 31
22606882 AATAAGGAAT
* *
22606892 AAATGTTGTGACATGCCATGCAT-TGCAAGCA
1 AAATGTTGTGACACGCCATGCATAT-CAAGTA
* * *
22606923 AAATGTTGTGACATGCAATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATATCAAGTA
* *
22606954 AAATGTTGTGACACACCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATATCAAGTA
* *
22606985 AAATGTTGTGACACACCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATATCAAGTA
* * *
22607016 AAATGTTGTGACACACCATGCATAACAAGTT
1 AAATGTTGTGACACGCCATGCATATCAAGTA
*
22607047 AAATGTTGTGACACACCATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATATCAAGTA
* *
22607078 AAATGTTGTCACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATATCAAGTA
* * * *
22607109 AAATGTTGTGACACACCATACGTATCAAGTG
1 AAATGTTGTGACACGCCATGCATATCAAGTA
* *
22607140 AAATGCTGTCACACGCCATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATATCAAGTA
** * * ** *
22607171 AAATACTATCACACATCATACATATCAAGTA
1 AAATGTTGTGACACGCCATGCATATCAAGTA
*** * *
22607202 AAATGCCATCACACGCTATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATATCAAGTA
*
22607233 AAATGTTGTCACACGCCA
1 AAATGTTGTGACACGCCA
22607251 ATAACTAACT
Statistics
Matches: 288, Mismatches: 39, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
31 288 1.00
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (31 bp):
AAATGTTGTGACACGCCATGCATATCAAGTA
Found at i:22607806 original size:24 final size:24
Alignment explanation
Indices: 22607773--22607852 Score: 63
Period size: 24 Copynumber: 3.4 Consensus size: 24
22607763 AACCATGACC
*
22607773 ATGGCGTGTCACCAACTTTGAACT
1 ATGGCATGTCACCAACTTTGAACT
* * ****
22607797 TTGGCATGTCA-CAGCTTCCCTCT
1 ATGGCATGTCACCAACTTTGAACT
*
22607820 ATGGCATGTCACCAACTCTGAACT
1 ATGGCATGTCACCAACTTTGAACT
* *
22607844 CTAGCATGT
1 ATGGCATGT
22607853 TACAAATTCC
Statistics
Matches: 39, Mismatches: 16, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
23 17 0.44
24 22 0.56
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (24 bp):
ATGGCATGTCACCAACTTTGAACT
Found at i:22608214 original size:47 final size:47
Alignment explanation
Indices: 22607771--22608212 Score: 481
Period size: 47 Copynumber: 9.4 Consensus size: 47
22607761 TAAACCATGA
* * * *
22607771 CCATGGCGTGTCACCAACTTTGAACTTTGGCATGTCACAGCTTCCCT
1 CCATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCT
* * * * * *
22607818 CTATGGCATGTCACCAACTCTGAACTCTAGCATGTTACAAATTCCCT
1 CCATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCT
*
22607865 CCATGGCGTGTCACCAACTCCT-AACTCTGGTGTGTCACAGATTCCCT
1 CCATGGCGTGTCACCAACT-CTGAACTCTGGCGTGTCACAGATTCCCT
* * *
22607912 CCATGGCGTCTCACCAACTCTGAACGCTGACGTGTCACAGATTCCCT
1 CCATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCT
* * * * * *
22607959 CCATGCCATGTCACCAACTCTTAACTCTAGTGTGTCACAGATTTCCT
1 CCATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCT
* * * ** *
22608006 CAATGGCGTCTCACCAACTTTGAACGGTGGAGTGTCACAGATTCCCT
1 CCATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCT
* * *
22608053 CAATGTCGTGTCACCAACTCTTAACTCTGGCGTGTCACAGATTCCCT
1 CCATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCT
* * * * * * *
22608100 CCATGGTGTCTCACCAACTCTGAACACTGTCGTGTCATAAATTCCCA
1 CCATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCT
* * * **
22608147 CCATGGCGTATCACCAACTTTTAACTCTGGCGCCTCACAGATTCCCT
1 CCATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCT
* *
22608194 CCATGGCATCTCACCAACT
1 CCATGGCGTGTCACCAACT
22608213 TTGAGCAGTG
Statistics
Matches: 324, Mismatches: 69, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
46 2 0.01
47 320 0.99
48 2 0.01
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.28
Consensus pattern (47 bp):
CCATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCT
Found at i:22613037 original size:29 final size:27
Alignment explanation
Indices: 22612985--22613073 Score: 99
Period size: 27 Copynumber: 3.1 Consensus size: 27
22612975 AAAAAAAAAA
*
22612985 ATTATTTATAAAATTTAAAATATTAAT
1 ATTATATATAAAATTTAAAATATTAAT
*
22613012 ATTATATATATAATTTAAACATTATTAAT
1 ATTATATATAAAATTTAAA-A-TATTAAT
22613041 ATTAATATGATTAAAATATT-AAATATTAAT
1 ATT-ATAT-A-TAAAAT-TTAAAATATTAAT
22613071 ATT
1 ATT
22613074 TAACCTGATG
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
27 17 0.32
28 1 0.02
29 10 0.19
30 14 0.26
31 2 0.04
32 7 0.13
33 2 0.04
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
ATTATATATAAAATTTAAAATATTAAT
Found at i:22613212 original size:15 final size:15
Alignment explanation
Indices: 22613178--22613225 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
22613168 TAANTAAAAT
22613178 ATTATTAATTATTTT-
1 ATTATTAA-TATTTTA
22613193 A-TATTTAA-ATTTTA
1 ATTA-TTAATATTTTA
22613207 ATTATTAATATTTTA
1 ATTATTAATATTTTA
22613222 ATTA
1 ATTA
22613226 ATTATAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 5 0.17
14 7 0.24
15 17 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTATTAATATTTTA
Found at i:22613241 original size:19 final size:19
Alignment explanation
Indices: 22613204--22613242 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22613194 TATTTAAATT
*
22613204 TTAATTATTAATATTTTAA
1 TTAATTATTAAAATTTTAA
22613223 TTAATTA-TAAAATTATTAA
1 TTAATTATTAAAATT-TTAA
22613242 T
1 T
22613243 ATTAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTAATTATTAAAATTTTAA
Found at i:22621368 original size:20 final size:21
Alignment explanation
Indices: 22621340--22621380 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
22621330 TTTGCTTAAA
22621340 AAAAGATTAAG-AAATTTTTT
1 AAAAGATTAAGCAAATTTTTT
* *
22621360 AAAATATTATGCAAATTTTTT
1 AAAAGATTAAGCAAATTTTTT
22621381 TTTGGAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (21 bp):
AAAAGATTAAGCAAATTTTTT
Found at i:22629455 original size:19 final size:18
Alignment explanation
Indices: 22629431--22629471 Score: 59
Period size: 16 Copynumber: 2.3 Consensus size: 18
22629421 TTAGCTTCTT
22629431 CTCTTCTCCGTTTATGAAC
1 CTCTTCTCC-TTTATGAAC
22629450 CTC-T-TCCTTTATGAAC
1 CTCTTCTCCTTTATGAAC
22629466 CTCTTC
1 CTCTTC
22629472 CTTTGTCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 12 0.60
17 4 0.20
18 1 0.05
19 3 0.15
ACGTcount: A:0.15, C:0.34, G:0.07, T:0.44
Consensus pattern (18 bp):
CTCTTCTCCTTTATGAAC
Found at i:22629462 original size:16 final size:16
Alignment explanation
Indices: 22629441--22629475 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
22629431 CTCTTCTCCG
22629441 TTTATGAACCTCTTCC
1 TTTATGAACCTCTTCC
22629457 TTTATGAACCTCTTCC
1 TTTATGAACCTCTTCC
22629473 TTT
1 TTT
22629476 GTCTCAGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.17, C:0.29, G:0.06, T:0.49
Consensus pattern (16 bp):
TTTATGAACCTCTTCC
Found at i:22631865 original size:6 final size:6
Alignment explanation
Indices: 22631854--22631890 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
22631844 ATTACAATCA
* *
22631854 CGCCTT CGCCTT CGCCTT CGCCTT CCCCTT CCCCTT C
1 CGCCTT CGCCTT CGCCTT CGCCTT CGCCTT CGCCTT C
22631891 CCCCGCTCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.57, G:0.11, T:0.32
Consensus pattern (6 bp):
CGCCTT
Found at i:22638184 original size:15 final size:15
Alignment explanation
Indices: 22638143--22638198 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
22638133 CTGATCTACA
*
22638143 TCTTCTTCTGTGGTTT
1 TCTTCTTCT-TGTTTT
** *
22638159 TGGTCTGCTTGTTTT
1 TCTTCTTCTTGTTTT
*
22638174 TCTTCTTCTTGTTTC
1 TCTTCTTCTTGTTTT
22638189 TCTTCTTCTT
1 TCTTCTTCTT
22638199 CTTCTCATCC
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
15 26 0.81
16 6 0.19
ACGTcount: A:0.00, C:0.21, G:0.14, T:0.64
Consensus pattern (15 bp):
TCTTCTTCTTGTTTT
Found at i:22639189 original size:14 final size:15
Alignment explanation
Indices: 22639170--22639198 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
22639160 ATTAAAATAT
22639170 TAAAAAATA-AAAAA
1 TAAAAAATAGAAAAA
22639184 TAAAAAATAGAAAAA
1 TAAAAAATAGAAAAA
22639199 AAATCGTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (15 bp):
TAAAAAATAGAAAAA
Found at i:22644133 original size:28 final size:28
Alignment explanation
Indices: 22644087--22644141 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
22644077 AGATTGAAAC
* *
22644087 TTTATTTATGTTTGATGTAATTTATTTG
1 TTTATTTATATTGGATGTAATTTATTTG
*
22644115 TTTATTTATATTGGGTGTAATTTATTT
1 TTTATTTATATTGGATGTAATTTATTT
22644142 ATTTGTAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.22, C:0.00, G:0.15, T:0.64
Consensus pattern (28 bp):
TTTATTTATATTGGATGTAATTTATTTG
Found at i:22645841 original size:22 final size:22
Alignment explanation
Indices: 22645803--22646042 Score: 103
Period size: 22 Copynumber: 10.9 Consensus size: 22
22645793 GTTTTTGTGA
*
22645803 TTTTTGGGCATT-CGTGACTAG
1 TTTTTAGGCATTGCGTGACTAG
* *
22645824 TTTTTAGGTATTGTGTGACT-G
1 TTTTTAGGCATTGCGTGACTAG
* *
22645845 ATTTT-GGACATTGCGTGA-TTG
1 TTTTTAGG-CATTGCGTGACTAG
** **
22645866 ACTTT-GAGCATTTAGTGACTAG
1 TTTTTAG-GCATTGCGTGACTAG
* * * *
22645888 TTTTTAAGTATTGCATGACTAA
1 TTTTTAGGCATTGCGTGACTAG
* *
22645910 TTTTTAGACATTGCGTGATTAG
1 TTTTTAGGCATTGCGTGACTAG
* * *
22645932 TTTTTAAGTATTGCGTGACTGG
1 TTTTTAGGCATTGCGTGACTAG
** * *
22645954 TTGATATGGCATTACGTGACTAA
1 TTTTTA-GGCATTGCGTGACTAG
** * * * *
22645977 TTGATAGACATTGTGTGATTTG
1 TTTTTAGGCATTGCGTGACTAG
* * *
22645999 TTAGTAAGGCATTACGTGACTAG
1 TT-TTTAGGCATTGCGTGACTAG
* *
22646022 TTAGTAAGGCATTGCGTGACT
1 TT-TTTAGGCATTGCGTGACT
22646043 TAAGCATTGC
Statistics
Matches: 161, Mismatches: 50, Indels: 14
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.02
21 37 0.23
22 71 0.44
23 50 0.31
ACGTcount: A:0.23, C:0.10, G:0.25, T:0.41
Consensus pattern (22 bp):
TTTTTAGGCATTGCGTGACTAG
Found at i:22646017 original size:23 final size:23
Alignment explanation
Indices: 22645998--22646042 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
22645988 TGTGTGATTT
22645998 GTTAGTAAGGCATTACGTGACTA
1 GTTAGTAAGGCATTACGTGACTA
*
22646021 GTTAGTAAGGCATTGCGTGACT
1 GTTAGTAAGGCATTACGTGACT
22646043 TAAGCATTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (23 bp):
GTTAGTAAGGCATTACGTGACTA
Found at i:22646143 original size:22 final size:22
Alignment explanation
Indices: 22646050--22646135 Score: 102
Period size: 22 Copynumber: 4.0 Consensus size: 22
22646040 ACTTAAGCAT
*
22646050 TGCTTAAAAATCAGTCACGTCA
1 TGCTTAAAAATCAGTCACGTAA
* **
22646072 TGCCTAAAAATCAGTCACACAA
1 TGCTTAAAAATCAGTCACGTAA
* * *
22646094 TGCCT-AAAATCAATCATGTAA
1 TGCTTAAAAATCAGTCACGTAA
22646115 TGCTTAAAAATCAGTCACGTA
1 TGCTTAAAAATCAGTCACGTA
22646136 GTGATTAAGT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
21 16 0.31
22 36 0.69
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.26
Consensus pattern (22 bp):
TGCTTAAAAATCAGTCACGTAA
Found at i:22658980 original size:21 final size:22
Alignment explanation
Indices: 22658942--22658983 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
22658932 ATTATGTACT
22658942 AATTATTAAATTAAATATTTGA
1 AATTATTAAATTAAATATTTGA
* *
22658964 AATT-TTATATTATATATTTG
1 AATTATTAAATTAAATATTTG
22658984 GAATGAAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
AATTATTAAATTAAATATTTGA
Found at i:22659347 original size:33 final size:33
Alignment explanation
Indices: 22659272--22659348 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
22659262 ATCATGTGAA
* ** *
22659272 ATTAACATATCACGTTATCGTCAATTATGATAT
1 ATTAACATGTCATATTATCATCAATTATGATAT
22659305 ATTAACATGTCATATTATCATCAATTATGATAT
1 ATTAACATGTCATATTATCATCAATTATGATAT
* *
22659338 TTTAGCATGTC
1 ATTAACATGTC
22659349 GCGTTAGCTC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (33 bp):
ATTAACATGTCATATTATCATCAATTATGATAT
Found at i:22667690 original size:17 final size:18
Alignment explanation
Indices: 22667647--22667690 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
22667637 TATATACAAT
*
22667647 ATAATTTTTA-TAAATTA
1 ATAATTTTAATTAAATTA
22667664 ATAATTTTAATTAAATT-
1 ATAATTTTAATTAAATTA
*
22667681 ATATTTTTAA
1 ATAATTTTAA
22667691 CTAGTTTCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATAATTTTAATTAAATTA
Found at i:22667764 original size:14 final size:16
Alignment explanation
Indices: 22667736--22667767 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
22667726 AATTCATTAA
22667736 ATTTATAAAATAATAT
1 ATTTATAAAATAATAT
22667752 ATTTA-AAAA-AATAT
1 ATTTATAAAATAATAT
22667766 AT
1 AT
22667768 AAGTGTCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 4 0.25
16 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTTATAAAATAATAT
Found at i:22686006 original size:17 final size:17
Alignment explanation
Indices: 22685965--22686007 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
22685955 TAAAGGCAAA
22685965 AACAAAAAAAAAAAGAG
1 AACAAAAAAAAAAAGAG
22685982 AA-AGAAAAAGAAAAA-AG
1 AACA-AAAAA-AAAAAGAG
22685999 AACAAAAAA
1 AACAAAAAA
22686008 TGGGGATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 1 0.04
17 16 0.70
18 6 0.26
ACGTcount: A:0.84, C:0.05, G:0.12, T:0.00
Consensus pattern (17 bp):
AACAAAAAAAAAAAGAG
Found at i:22706455 original size:15 final size:14
Alignment explanation
Indices: 22706437--22706510 Score: 53
Period size: 14 Copynumber: 5.3 Consensus size: 14
22706427 ATAACAATTC
22706437 TTATAATATTCTATT
1 TTATAATATT-TATT
*
22706452 TTATAA-ATTTAAAT
1 TTATAATATTT-ATT
*
22706466 ATATAATATTTATT
1 TTATAATATTTATT
**
22706480 TTATTTTATTT-TT
1 TTATAATATTTATT
* * *
22706493 ATAAAATAATTATT
1 TTATAATATTTATT
22706507 TTAT
1 TTAT
22706511 TTTATTTCGT
Statistics
Matches: 43, Mismatches: 13, Indels: 7
0.68 0.21 0.11
Matches are distributed among these distances:
13 9 0.21
14 24 0.56
15 10 0.23
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATAATATTTATT
Found at i:22706505 original size:27 final size:27
Alignment explanation
Indices: 22706465--22706517 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
22706455 TAAATTTAAA
* *
22706465 TATATAATATTTATTTTATTTTATTTT
1 TATAAAATAATTATTTTATTTTATTTT
22706492 TATAAAATAATTATTTTATTTTATTT
1 TATAAAATAATTATTTTATTTTATTT
22706518 CGTAAACCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (27 bp):
TATAAAATAATTATTTTATTTTATTTT
Found at i:22712619 original size:2 final size:2
Alignment explanation
Indices: 22712604--22712751 Score: 203
Period size: 2 Copynumber: 75.0 Consensus size: 2
22712594 TTGCGTAACA
*
22712604 AT AT AT AC AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
22712645 GT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT ANT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * *
22712687 AT AT CT AT AT AT AT AT AT AT AT -T AT AT AT AT GT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22712728 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
22712752 GTATGTATTA
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
1 3 0.02
2 124 0.97
3 1 0.01
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22718255 original size:241 final size:240
Alignment explanation
Indices: 22717811--22718435 Score: 932
Period size: 241 Copynumber: 2.6 Consensus size: 240
22717801 GGCTTTTAAC
* * * *
22717811 ATTTTTTATTCTATAAC-TTTTGATAGGTAAGGACTAAAACAAGTCTATGTATTAAAAATTACAT
1 ATTTTTCATTCTATAACTTTTTG-TAGGTGAGGACTAAAGCAAGTCTATGTCTTAAAAATTACAT
* *
22717875 ATTACAAAATGTTATAGTCGGTAGTAGAAAATGTAAAGCAATATTACGATAATTTATAATTTTAT
65 ATTACAAAATATTATAGTCGGTAGTAGAAAATGTAAAGCAATATTACAATAATTTATAATTTTAT
* * * *
22717940 ATATTGATTGTTAAGCAAGGCTGCATCTGTCAATTTAAAGTACAACTAGGAATATATTCGTGCAT
130 ATATTGATTGTTAAGCAAGGCTACATCTGTCAATTTAAAGTACAACTAGAAATATATCCGTGCAC
* * * *
22718005 TGCACACGGAGACACTAATATATGTTGTAATGGTTGTGTTTATTAT
195 TGCACACGGAGACAATAATACATATTGTAATAGTTGTGTTTATTAT
* **
22718051 ATTTTTCATTCTATAACTTTTTGTAGGTGAGGACTAAAGCAAGTCCATGTCTTAAAAAAAAACAT
1 ATTTTTCATTCTATAACTTTTTGTAGGTGAGGACTAAAGCAAGTCTATGTCTT-AAAAATTACAT
* *
22718116 ATTACAAAATCTTATAGTCGGTAGTAGAAAATGTAAAGCAATATTACAATAATTTATAAGTTTAT
65 ATTACAAAATATTATAGTCGGTAGTAGAAAATGTAAAGCAATATTACAATAATTTATAATTTTAT
* *
22718181 ATATTGATTGTTAAGTAAGGCTACATCTGTCAATTTAAAGTACAACCT-GAAATATATCCGTGCG
130 ATATTGATTGTTAAGCAAGGCTACATCTGTCAATTTAAAGTACAA-CTAGAAATATATCCGTGCA
*
22718245 CTGTACACGGAGACAATAATACATATTGTAATAGTTGTGTTTATTAT
194 CTGCACACGGAGACAATAATACATATTGTAATAGTTGTGTTTATTAT
* *
22718292 ATTTTTCATTTTATAATTTTTTGTAGGTGAGGACTAAAGCAAGTCTATGTAC-TAAAAATTACAT
1 ATTTTTCATTCTATAACTTTTTGTAGGTGAGGACTAAAGCAAGTCTATGT-CTTAAAAATTACAT
** *
22718356 ATTACAAAATATTATAGTCAATAGTATAGAAAATGTAAAACAATATTACAATAATTTATAATTTT
65 ATTACAAAATATTATAGTCGGTAG--TAGAAAATGTAAAGCAATATTACAATAATTTATAATTTT
22718421 ATATATTGATTGTTA
128 ATATATTGATTGTTA
22718436 GCTTAGTTAC
Statistics
Matches: 348, Mismatches: 31, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
240 72 0.21
241 221 0.64
242 55 0.16
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.37
Consensus pattern (240 bp):
ATTTTTCATTCTATAACTTTTTGTAGGTGAGGACTAAAGCAAGTCTATGTCTTAAAAATTACATA
TTACAAAATATTATAGTCGGTAGTAGAAAATGTAAAGCAATATTACAATAATTTATAATTTTATA
TATTGATTGTTAAGCAAGGCTACATCTGTCAATTTAAAGTACAACTAGAAATATATCCGTGCACT
GCACACGGAGACAATAATACATATTGTAATAGTTGTGTTTATTAT
Found at i:22718889 original size:43 final size:43
Alignment explanation
Indices: 22718821--22718924 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 43
22718811 ATTAAGCAGT
* * *
22718821 ATCAAAGATATCATA-TATTATGCTTGGAACCATAGTACCCCAG
1 ATCAAAGATATCA-AGTATTAAGCTTGGAACCATAGCACCACAG
* * * *
22718864 ATTAAAGATATCAAGTATTAAGCTTGGAAGCGTAGCACTACAG
1 ATCAAAGATATCAAGTATTAAGCTTGGAACCATAGCACCACAG
*
22718907 ATCAAGGATATCAAGTAT
1 ATCAAAGATATCAAGTAT
22718925 AATGATTTGA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 1 0.02
43 50 0.98
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.27
Consensus pattern (43 bp):
ATCAAAGATATCAAGTATTAAGCTTGGAACCATAGCACCACAG
Found at i:22728776 original size:28 final size:25
Alignment explanation
Indices: 22728721--22728778 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 25
22728711 ACGTGTTTTC
* *
22728721 TTAGGTTTTTTTTTTTTTTAAAGTT
1 TTAGGTTTTTTTGTTTTTTAAACTT
*
22728746 TTAGGATTATTTTTGTTTTTTAATCTAT
1 TTAGG-TT-TTTTTGTTTTTTAAACT-T
22728774 TTAGG
1 TTAGG
22728779 CTATCATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 5 0.19
26 2 0.07
27 14 0.52
28 6 0.22
ACGTcount: A:0.19, C:0.02, G:0.14, T:0.66
Consensus pattern (25 bp):
TTAGGTTTTTTTGTTTTTTAAACTT
Found at i:22729774 original size:29 final size:30
Alignment explanation
Indices: 22729722--22729782 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
22729712 TAATTATTCG
*
22729722 TAAAATTAAAAGTATAATGATAAAATTTAA
1 TAAAATTAAAAGTATAATGATAAAATTCAA
*
22729752 TAAAATTGAAA-TA-AAGTGATAAAATTCAA
1 TAAAATTAAAAGTATAA-TGATAAAATTCAA
22729781 TA
1 TA
22729783 TTAATTCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 2 0.07
29 16 0.57
30 10 0.36
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (30 bp):
TAAAATTAAAAGTATAATGATAAAATTCAA
Found at i:22737780 original size:2 final size:2
Alignment explanation
Indices: 22737773--22737799 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22737763 GGGAAATGAA
22737773 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
22737800 ACTGAAGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22739267 original size:3 final size:3
Alignment explanation
Indices: 22739259--22739305 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
22739249 CTTAAAAACC
22739259 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
22739306 CAATATTGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:22741311 original size:26 final size:26
Alignment explanation
Indices: 22741277--22741340 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
22741267 CAAGTGCACG
* *
22741277 TGTTGAAAAAAATATTATTACATGTCA
1 TGTT-AAAAAAAAATTATTAAATGTCA
22741304 TGTTAAAAAAAAATTATTAAATGTCA
1 TGTTAAAAAAAAATTATTAAATGTCA
* *
22741330 TTTTAATAAAA
1 TGTTAAAAAAA
22741341 GTTTAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 29 0.88
27 4 0.12
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.38
Consensus pattern (26 bp):
TGTTAAAAAAAAATTATTAAATGTCA
Found at i:22741993 original size:34 final size:34
Alignment explanation
Indices: 22741950--22742040 Score: 112
Period size: 34 Copynumber: 2.7 Consensus size: 34
22741940 CTTCAACACC
* * *
22741950 AGATGTTACACGTCAA-GATCAAAGTTTTAATACT
1 AGATGTTACACGCCAAGGCT-AAAGCTTTAATACT
*
22741984 AGATGTTACATGCCAAGGCTAAAGCTTTAATACT
1 AGATGTTACACGCCAAGGCTAAAGCTTTAATACT
* *
22742018 AGATGTTACATGCCAAAGCTAAA
1 AGATGTTACACGCCAAGGCTAAA
22742041 ACCTTAGCAC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
34 49 0.96
35 2 0.04
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (34 bp):
AGATGTTACACGCCAAGGCTAAAGCTTTAATACT
Found at i:22759565 original size:48 final size:48
Alignment explanation
Indices: 22759499--22759592 Score: 188
Period size: 48 Copynumber: 2.0 Consensus size: 48
22759489 AAATGGAGGG
22759499 TTTTTTCTTTTAACTTGTTTGTTCTTTAATCCTTGAATTAGTAGTTTT
1 TTTTTTCTTTTAACTTGTTTGTTCTTTAATCCTTGAATTAGTAGTTTT
22759547 TTTTTTCTTTTAACTTGTTTGTTCTTTAATCCTTGAATTAGTAGTT
1 TTTTTTCTTTTAACTTGTTTGTTCTTTAATCCTTGAATTAGTAGTT
22759593 GATTTCCAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.17, C:0.11, G:0.11, T:0.62
Consensus pattern (48 bp):
TTTTTTCTTTTAACTTGTTTGTTCTTTAATCCTTGAATTAGTAGTTTT
Found at i:22762915 original size:17 final size:17
Alignment explanation
Indices: 22762888--22762924 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
22762878 ATTTAATTAT
22762888 CTTAAAGACC-AAAATC
1 CTTAAAGACCAAAAATC
22762904 CTTAAGAGACCAAAAATC
1 CTTAA-AGACCAAAAATC
22762922 CTT
1 CTT
22762925 TAAGCCGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 5 0.26
18 9 0.47
ACGTcount: A:0.46, C:0.24, G:0.08, T:0.22
Consensus pattern (17 bp):
CTTAAAGACCAAAAATC
Found at i:22779218 original size:3 final size:3
Alignment explanation
Indices: 22779210--22779235 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22779200 ACAAACAGCA
22779210 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
22779236 AACACAGCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22785082 original size:2 final size:2
Alignment explanation
Indices: 22785050--22785074 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22785040 ATTGACTTGC
22785050 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
22785075 GTTATATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22786798 original size:20 final size:22
Alignment explanation
Indices: 22786773--22786823 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
22786763 TTCTTTTTTT
22786773 TAATTAATAA-AA-AATAATAA
1 TAATTAATAATAATAATAATAA
*
22786793 TAATTATATAATAATAATTATAA
1 TAATTA-ATAATAATAATAATAA
*
22786816 AAATTAAT
1 TAATTAAT
22786824 CAAGACATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 6 0.23
21 4 0.15
22 4 0.15
23 12 0.46
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
TAATTAATAATAATAATAATAA
Found at i:22786803 original size:14 final size:14
Alignment explanation
Indices: 22786786--22786814 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
22786776 TTAATAAAAA
22786786 ATAATAATAATTAT
1 ATAATAATAATTAT
22786800 ATAATAATAATTAT
1 ATAATAATAATTAT
22786814 A
1 A
22786815 AAAATTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATAATAATTAT
Found at i:22805890 original size:25 final size:25
Alignment explanation
Indices: 22805862--22805911 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
22805852 TAAGAGATTT
*
22805862 TGGAAGAAAATGAATAAAGGAAAAG
1 TGGAAGAAAATGAATAAAAGAAAAG
*
22805887 TGGAAGGAAATGAATAAAAGAAAAG
1 TGGAAGAAAATGAATAAAAGAAAAG
22805912 AAGTTCTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.28, T:0.12
Consensus pattern (25 bp):
TGGAAGAAAATGAATAAAAGAAAAG
Found at i:22806486 original size:37 final size:37
Alignment explanation
Indices: 22806444--22806514 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
22806434 CTGAAACCTC
22806444 AACCGTCACGCTTCATCAATCCATTACACATCAGCTT
1 AACCGTCACGCTTCATCAATCCATTACACATCAGCTT
* * **
22806481 AACCGTTACGCTTCATCATTGGATTACACATCAG
1 AACCGTCACGCTTCATCAATCCATTACACATCAG
22806515 TGCTAACTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.30, C:0.31, G:0.11, T:0.28
Consensus pattern (37 bp):
AACCGTCACGCTTCATCAATCCATTACACATCAGCTT
Found at i:22815859 original size:52 final size:52
Alignment explanation
Indices: 22815757--22815885 Score: 138
Period size: 52 Copynumber: 2.5 Consensus size: 52
22815747 TTTAATTAAG
* **
22815757 GATAATTTTACTACTAAAACTGGATGGATAATTTTACCATCAGATGTGGATA
1 GATAATTTTACTACTAAAACTGGATAGATAATTTTACCATCAGAAATGGATA
*
22815809 GATAATTTTGCTACT-AAACGTGGATAGATAATTTTATCGC-T-AGAAATGGATA
1 GATAATTTTACTACTAAAAC-TGGATAGATAATTTTA-C-CATCAGAAATGGATA
* * * *
22815861 AATAATTTTACCACTAGAAGTGGAT
1 GATAATTTTACTACTAAAACTGGAT
22815886 GAATACCTTA
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
51 4 0.06
52 55 0.86
53 4 0.06
54 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (52 bp):
GATAATTTTACTACTAAAACTGGATAGATAATTTTACCATCAGAAATGGATA
Found at i:22815890 original size:26 final size:25
Alignment explanation
Indices: 22815758--22815890 Score: 99
Period size: 26 Copynumber: 5.1 Consensus size: 25
22815748 TTAATTAAGG
* * * *
22815758 ATAATTTTACTACTAAAACTGGATGG
1 ATAATTTTACCACTAGAAGTGGAT-A
*
22815784 ATAATTTTACCA-TCAGATGTGGATA
1 ATAATTTTACCACT-AGAAGTGGATA
* *
22815809 GATAATTTTGCTACTA-AACGTGGATA
1 -ATAATTTTACCACTAGAA-GTGGATA
* * *
22815835 GATAATTTTATCGCTAGAAATGGATAA
1 -ATAATTTTACCACTAGAAGTGGAT-A
22815862 ATAATTTTACCACTAGAAGTGGATGA
1 ATAATTTTACCACTAGAAGTGGAT-A
22815888 ATA
1 ATA
22815891 CCTTAATCCA
Statistics
Matches: 84, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
25 2 0.02
26 78 0.93
27 4 0.05
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (25 bp):
ATAATTTTACCACTAGAAGTGGATA
Found at i:22815960 original size:28 final size:28
Alignment explanation
Indices: 22815929--22815994 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
22815919 ATAACCCATT
* *
22815929 AAAAGTGGATGAATACTTAT-AACTCACC
1 AAAAGTGGATGAAAACTT-TCAACCCACC
22815957 AAAAGTGGATGAAAACTTTCAACCCACC
1 AAAAGTGGATGAAAACTTTCAACCCACC
*
22815985 AGAAGTGGAT
1 AAAAGTGGAT
22815995 AACAAATCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.21
Consensus pattern (28 bp):
AAAAGTGGATGAAAACTTTCAACCCACC
Found at i:22816054 original size:28 final size:28
Alignment explanation
Indices: 22816003--22816070 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
22815993 ATAACAAATC
* *
22816003 AAAAGTAGATGAATACTTGTAACCCACA
1 AAAAGTGGATGAATACTTGCAACCCACA
*
22816031 AAAAGTGGATGAATACCTT-CAACCCACC
1 AAAAGTGGATGAATA-CTTGCAACCCACA
*
22816059 AGAAGTGGATGA
1 AAAAGTGGATGA
22816071 TTAATGAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 32 0.91
29 3 0.09
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (28 bp):
AAAAGTGGATGAATACTTGCAACCCACA
Found at i:22816081 original size:74 final size:74
Alignment explanation
Indices: 22815911--22816068 Score: 235
Period size: 74 Copynumber: 2.1 Consensus size: 74
22815901 CTAACCCTCA
** * * * * *
22815911 AGAAGTGGATAACCCATTAAAAGTGGATGAATACTTATAACTCACCAAAAGTGGATGAAAACTTT
1 AGAAGTGGATAACAAATCAAAAGTAGATGAATACTTATAACCCACAAAAAGTGGATGAAAACCTT
22815976 CAACCCACC
66 CAACCCACC
* *
22815985 AGAAGTGGATAACAAATCAAAAGTAGATGAATACTTGTAACCCACAAAAAGTGGATGAATACCTT
1 AGAAGTGGATAACAAATCAAAAGTAGATGAATACTTATAACCCACAAAAAGTGGATGAAAACCTT
22816050 CAACCCACC
66 CAACCCACC
22816059 AGAAGTGGAT
1 AGAAGTGGAT
22816069 GATTAATGAA
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.20
Consensus pattern (74 bp):
AGAAGTGGATAACAAATCAAAAGTAGATGAATACTTATAACCCACAAAAAGTGGATGAAAACCTT
CAACCCACC
Found at i:22816459 original size:24 final size:22
Alignment explanation
Indices: 22816403--22816460 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 22
22816393 ATGAAGATGC
22816403 TTTAA-TATGTTCTTATTATAT
1 TTTAATTATGTTCTTATTATAT
*
22816424 TTAAATGATATGTTCTTATTATGTAT
1 TTTAAT--TATGTTCTTATTA--TAT
22816450 TTTAATTATGT
1 TTTAATTATGT
22816461 ATTTAATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 4 0.13
24 18 0.60
26 8 0.27
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.59
Consensus pattern (22 bp):
TTTAATTATGTTCTTATTATAT
Found at i:22823437 original size:25 final size:28
Alignment explanation
Indices: 22823409--22823466 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 28
22823399 AAAAAAAGTT
*
22823409 AAAAATCTTTAAACCTTA-A-AAA-AAA
1 AAAAATCCTTAAACCTTAGAGAAACAAA
* *
22823434 AAAACTCCTTAAATCTTAGAGAAACAAA
1 AAAAATCCTTAAACCTTAGAGAAACAAA
22823462 AAAAA
1 AAAAA
22823467 AAAAAAACTC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 15 0.58
26 1 0.04
27 3 0.12
28 7 0.27
ACGTcount: A:0.62, C:0.14, G:0.03, T:0.21
Consensus pattern (28 bp):
AAAAATCCTTAAACCTTAGAGAAACAAA
Found at i:22825347 original size:20 final size:20
Alignment explanation
Indices: 22825311--22825348 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
22825301 TTTTTCTTCA
*
22825311 TTAAAAAAATTTCTTATTAT
1 TTAAAAAAATCTCTTATTAT
22825331 TTAAAAAACATCT-TTATT
1 TTAAAAAA-ATCTCTTATT
22825349 TAACACATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAAAAAAATCTCTTATTAT
Found at i:22830137 original size:24 final size:24
Alignment explanation
Indices: 22830087--22830138 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
22830077 AACTTAGAAG
*
22830087 TTTAGAAATTTTAATAAATAAATA
1 TTTAGAAATTTTAATAAAGAAATA
* *
22830111 TTTATAAATTTTAATTGAAGAAA-A
1 TTTAGAAATTTTAA-TAAAGAAATA
22830135 TTTA
1 TTTA
22830139 AATAAACAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (24 bp):
TTTAGAAATTTTAATAAAGAAATA
Found at i:22840377 original size:100 final size:98
Alignment explanation
Indices: 22840204--22840475 Score: 413
Period size: 100 Copynumber: 2.7 Consensus size: 98
22840194 CACGAACTTG
* * * * *
22840204 GACTTAGTCTTGATCACGAAAGTGCTTGATCTTGGCGTCAAGGGTCTTCACGACTTAGTCTTGAT
1 GACTTAGTCTTGATCACGAACGTACTTGATCTT-TC-TTAAGGGTCTTCATGACTTAGTCTTGAT
22840269 CACGAACACTTGATCTTCACTTCAAGGGTCTTCAC
64 CACGAACACTTGATCTTCACTTCAAGGGTCTTCAC
22840304 GACTTAGTCTTGATCACGAACGTACTTGATCTTCTCATTAAGGGTCTTCATGACTTAGTCTTGAT
1 GACTTAGTCTTGATCACGAACGTACTTGATCTT-TC-TTAAGGGTCTTCATGACTTAGTCTTGAT
*
22840369 CACGAACACTTGATCTTCGCTTCAAGGGTCTTCAC
64 CACGAACACTTGATCTTCACTTCAAGGGTCTTCAC
*
22840404 GACTTAGTCTTGATCACGAAC--ACTTGATCTTTGCTTCAAGGGTCTTCATGACTTAATCTTGAT
1 GACTTAGTCTTGATCACGAACGTACTTGATCTTT-CTT-AAGGGTCTTCATGACTTAGTCTTGAT
22840467 CACGAACAC
64 CACGAACAC
22840476 AATATCTTGA
Statistics
Matches: 161, Mismatches: 9, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
97 3 0.02
98 45 0.28
100 113 0.70
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (98 bp):
GACTTAGTCTTGATCACGAACGTACTTGATCTTTCTTAAGGGTCTTCATGACTTAGTCTTGATCA
CGAACACTTGATCTTCACTTCAAGGGTCTTCAC
Found at i:22840483 original size:49 final size:49
Alignment explanation
Indices: 22840204--22840475 Score: 404
Period size: 49 Copynumber: 5.5 Consensus size: 49
22840194 CACGAACTTG
* *
22840204 GACTTAGTCTTGATCACGAA-AGTGCTTGATCTTGGCGTCAAGGGTCTTCAC
1 GACTTAGTCTTGATCACGAACA---CTTGATCTTCGCTTCAAGGGTCTTCAC
*
22840255 GACTTAGTCTTGATCACGAACACTTGATCTTCACTTCAAGGGTCTTCAC
1 GACTTAGTCTTGATCACGAACACTTGATCTTCGCTTCAAGGGTCTTCAC
* *
22840304 GACTTAGTCTTGATCACGAACGTACTTGATCTTCTCATT-AAGGGTCTTCAT
1 GACTTAGTCTTGATCACGAAC--ACTTGATCTTCGC-TTCAAGGGTCTTCAC
22840355 GACTTAGTCTTGATCACGAACACTTGATCTTCGCTTCAAGGGTCTTCAC
1 GACTTAGTCTTGATCACGAACACTTGATCTTCGCTTCAAGGGTCTTCAC
* *
22840404 GACTTAGTCTTGATCACGAACACTTGATCTTTGCTTCAAGGGTCTTCAT
1 GACTTAGTCTTGATCACGAACACTTGATCTTCGCTTCAAGGGTCTTCAC
*
22840453 GACTTAATCTTGATCACGAACAC
1 GACTTAGTCTTGATCACGAACAC
22840476 AATATCTTGA
Statistics
Matches: 206, Mismatches: 10, Indels: 12
0.90 0.04 0.05
Matches are distributed among these distances:
48 2 0.01
49 137 0.67
51 64 0.31
52 3 0.01
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (49 bp):
GACTTAGTCTTGATCACGAACACTTGATCTTCGCTTCAAGGGTCTTCAC
Found at i:22840555 original size:24 final size:23
Alignment explanation
Indices: 22840481--22840559 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 23
22840471 AACACAATAT
22840481 CTTGATCACGAACTTCGCTTGATAT-
1 CTTGATCACGAACTTCG-TTG-T-TG
**
22840506 CTTGATCACGAACTTCGTTGCCG
1 CTTGATCACGAACTTCGTTGTTG
*
22840529 CTTTGATCACAAACTTCGTTGTTG
1 C-TTGATCACGAACTTCGTTGTTG
22840553 CTTGATC
1 CTTGATC
22840560 TTCACTTCAG
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
23 7 0.15
24 23 0.49
25 17 0.36
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (23 bp):
CTTGATCACGAACTTCGTTGTTG
Found at i:22841030 original size:82 final size:81
Alignment explanation
Indices: 22840917--22841117 Score: 323
Period size: 82 Copynumber: 2.5 Consensus size: 81
22840907 TAATTATTAA
** * *
22840917 AGATAAATTAAATGACCAATAATTAAATTTTGATTGGTAAAAAATATGAATATTATCTCTAAATT
1 AGATAAATTGGATGACCAATAACTAATTTTTGATTGGTAAAAAATATGAATATTATCTCTAAATT
22840982 ATCTTGATTTATTTAG
66 ATCTTGATTTATTTAG
* *
22840998 AGATAAAATTGGATGACCAACAACTAATTTTTGATTGGTCAAAAATATGAATATTATCTCTAAAT
1 AGAT-AAATTGGATGACCAATAACTAATTTTTGATTGGTAAAAAATATGAATATTATCTCTAAAT
22841063 TATCTTGATTTATTTAG
65 TATCTTGATTTATTTAG
22841080 AGATAAATTGGATGACCAATAACTAAATTTTT-ATTGGT
1 AGATAAATTGGATGACCAATAACT-AATTTTTGATTGGT
22841118 CTAATTTAAA
Statistics
Matches: 111, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
81 29 0.26
82 82 0.74
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (81 bp):
AGATAAATTGGATGACCAATAACTAATTTTTGATTGGTAAAAAATATGAATATTATCTCTAAATT
ATCTTGATTTATTTAG
Found at i:22844184 original size:31 final size:31
Alignment explanation
Indices: 22844127--22844189 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
22844117 TGAGGGGGAG
* *
22844127 TAATGAAAGCTATCTCAATTAGTGATTTTAA
1 TAATGAAAGCTATCTCAATTAATGATTCTAA
* * *
22844158 TAATGAAGGCTATCTTAGTTAATGATTCTAA
1 TAATGAAAGCTATCTCAATTAATGATTCTAA
22844189 T
1 T
22844190 TTGTCGTGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.40
Consensus pattern (31 bp):
TAATGAAAGCTATCTCAATTAATGATTCTAA
Found at i:22855349 original size:2 final size:2
Alignment explanation
Indices: 22855344--22855388 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
22855334 ATGGATCTTA
22855344 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22855386 AT A
1 AT A
22855389 AGAGTTTTCN
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22856474 original size:24 final size:23
Alignment explanation
Indices: 22856450--22856496 Score: 58
Period size: 26 Copynumber: 1.9 Consensus size: 23
22856440 TATTTTTTAT
22856450 ATTTTTTCTTTTAATAGTTTCTATA
1 ATTTTTTCTTTTAA-A-TTTCTATA
*
22856475 GATTTTTTTTTTTAAATTTCTA
1 -ATTTTTTCTTTTAAATTTCTA
22856497 CGAATCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 6 0.30
25 1 0.05
26 13 0.65
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.66
Consensus pattern (23 bp):
ATTTTTTCTTTTAAATTTCTATA
Found at i:22858076 original size:2 final size:2
Alignment explanation
Indices: 22858022--22858063 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
22858012 GTACTTCTTC
* * *
22858022 AT AT AT AT AT AT AT AA AT AT AT AT AT TT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22858064 GCACATATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:22861391 original size:17 final size:17
Alignment explanation
Indices: 22861364--22861403 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
22861354 ATTTTTTTTT
22861364 ATATAACAATAAA-AAA
1 ATATAACAATAAATAAA
*
22861380 ATGATAATAATAAATAAA
1 AT-ATAACAATAAATAAA
22861398 ATATAA
1 ATATAA
22861404 ATTTTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 14 0.67
18 5 0.24
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (17 bp):
ATATAACAATAAATAAA
Found at i:22863184 original size:225 final size:223
Alignment explanation
Indices: 22862787--22863248 Score: 649
Period size: 225 Copynumber: 2.1 Consensus size: 223
22862777 TTGAAAATAT
* * *
22862787 AATA-AATAAAAAAGAAAAATACATGAGGAAAAAATAATTATTATAAAAAATGAAATGATTATTT
1 AATATAATAAATAA-AAAAATACATGAGGAAAAAATAATTATTATAAAAAATAAAATAATTATTT
* *
22862851 TGAGTGATCCGATGACAAAATTTCACTTAAAAGGGCAAAGAGTTGCCTCTTTCAAGTGGATTTCT
65 TGAGTGATCCAATGACAAAATTTCACTTAAAAGGGCAAAGAGTTGCCTATTTCAAGTGGATTTCT
** * * **
22862916 TAGGTGCGGAGTTCGAGACGGATTTTCACCGAAGTATCGGGATAAATCTAAACTCTATACTGTAA
130 TAGGTGCACAGTTCGAGACGGATTTTCAACGAAGCATCGGGATAAATCTAAACTCTATACTCCAA
22862981 TACCCATCAACTCAAATAATCGTTGTTAA
195 TACCCATCAACTCAAATAATCGTTGTTAA
* * *
22863010 AATATAATAAATAAAAAAATACATGATGTAAATATAATTATTATAAAAAATAAAATAATTATTTT
1 AATATAATAAATAAAAAAATACATGAGGAAAAAATAATTATTATAAAAAATAAAATAATTATTTT
* * * * ***
22863075 GAGTGTTTCAATGATAGAATTTCACTTAAAAAGGGACAAAGAGTTGCCTATTTTGGGTGGATTTC
66 GAGTGATCCAATGACAAAATTTCACTT-AAAAGGG-CAAAGAGTTGCCTATTTCAAGTGGATTTC
* *
22863140 TTAGGTGCACAGTTCGAGACTGATTTTCAACGAAGCATCGGGATAAATCTGAACTCTATACTCCA
129 TTAGGTGCACAGTTCGAGACGGATTTTCAACGAAGCATCGGGATAAATCTAAACTCTATACTCCA
* *
22863205 ATACCCATCAATTCAAATAATTGTTGTTAA
194 ATACCCATCAACTCAAATAATCGTTGTTAA
*
22863235 AAAATAAT-AATAAA
1 AATATAATAAATAAA
22863249 CATATAAACA
Statistics
Matches: 210, Mismatches: 26, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
223 72 0.34
224 21 0.10
225 117 0.56
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (223 bp):
AATATAATAAATAAAAAAATACATGAGGAAAAAATAATTATTATAAAAAATAAAATAATTATTTT
GAGTGATCCAATGACAAAATTTCACTTAAAAGGGCAAAGAGTTGCCTATTTCAAGTGGATTTCTT
AGGTGCACAGTTCGAGACGGATTTTCAACGAAGCATCGGGATAAATCTAAACTCTATACTCCAAT
ACCCATCAACTCAAATAATCGTTGTTAA
Found at i:22866496 original size:2 final size:2
Alignment explanation
Indices: 22866489--22866513 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22866479 TTTATCGTGC
22866489 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
22866514 CGAGTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:22866793 original size:2 final size:2
Alignment explanation
Indices: 22866786--22866817 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
22866776 TTTGCTTACC
22866786 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
22866818 ATATATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:22866822 original size:2 final size:2
Alignment explanation
Indices: 22866817--22866861 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
22866807 TCTCTCTCTC
22866817 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22866859 TA T
1 TA T
22866862 TTGTTTGCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22867991 original size:19 final size:19
Alignment explanation
Indices: 22867964--22868000 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
22867954 TTTTAATTTT
*
22867964 AATTGTTTTTAGTTAAAAA
1 AATTGTTTTTAGATAAAAA
*
22867983 AATTTTTTTTAGATAAAA
1 AATTGTTTTTAGATAAAA
22868001 TCACTTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (19 bp):
AATTGTTTTTAGATAAAAA
Found at i:22868071 original size:28 final size:26
Alignment explanation
Indices: 22868038--22868243 Score: 139
Period size: 26 Copynumber: 7.7 Consensus size: 26
22868028 CAAGCGTATA
*
22868038 TAAAAAAAATATTGTTACACGTCATAT
1 TAAAAAAAA-ATTGTTACACGTCATGT
* * * *
22868065 T-AAAAAAAATTATTACACATTATAT
1 TAAAAAAAAATTGTTACACGTCATGT
* *
22868090 TTAAAAAAAGTTGTTACACGTCATGT
1 TAAAAAAAAATTGTTACACGTCATGT
* *
22868116 TGAAAAAATATTATTGTTACGCGTCATGT
1 T-AAAAAA-A-AATTGTTACACGTCATGT
* * ***
22868145 T-CAAAAAAATTGTTATATACCATGT
1 TAAAAAAAAATTGTTACACGTCATGT
* * *
22868170 TGAAAAAAAAAATTATTACATGTCATAT
1 T--AAAAAAAAATTGTTACACGTCATGT
*
22868198 TGAAAAAAAATTGTTACACG-CATTGT
1 TAAAAAAAAATTGTTACACGTCA-TGT
*
22868224 TAAAAGAAAAAATTATTACA
1 T-AAA-AAAAAATTGTTACA
22868244 TATTATGTTG
Statistics
Matches: 138, Mismatches: 31, Indels: 19
0.73 0.16 0.10
Matches are distributed among these distances:
25 30 0.22
26 47 0.34
27 12 0.09
28 33 0.24
29 16 0.12
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (26 bp):
TAAAAAAAAATTGTTACACGTCATGT
Found at i:22868176 original size:80 final size:80
Alignment explanation
Indices: 22868039--22868243 Score: 184
Period size: 80 Copynumber: 2.5 Consensus size: 80
22868029 AAGCGTATAT
** * * *
22868039 AAAAAAAATATTGTTACACGTCATATTAAAAAAAATTATTACACATTATATT-TAAAAAAAGTTG
1 AAAAAAAATATTGTTACACGTCATATTAAAAAAAATTATTACACACCATATTGAAAAAAAAATTA
*
22868103 TTACACGTCATGTTG
66 TTACACGTCATATTG
* * * * * * * *
22868118 AAAAAATATTATTGTTACGCGTCATGTTCAAAAAAATTGTTATATACCATGTTGAAAAAAAAAAT
1 AAAAAA-AATATTGTTACACGTCATATTAAAAAAAATTATTACACACCATATTG-AAAAAAAAAT
*
22868183 TATTACATGTCATATTG
64 TATTACACGTCATATTG
*
22868200 -AAAAAAA-ATTGTTACACG-CATTGTTAAAAGAAAAAATTATTACA
1 AAAAAAAATATTGTTACACGTCA-TATT--AA-AAAAAATTATTACA
22868244 TATTATGTTG
Statistics
Matches: 99, Mismatches: 20, Indels: 11
0.76 0.15 0.08
Matches are distributed among these distances:
78 2 0.02
79 20 0.20
80 37 0.37
81 6 0.06
82 34 0.34
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (80 bp):
AAAAAAAATATTGTTACACGTCATATTAAAAAAAATTATTACACACCATATTGAAAAAAAAATTA
TTACACGTCATATTG
Found at i:22868205 original size:54 final size:54
Alignment explanation
Indices: 22868066--22868258 Score: 151
Period size: 54 Copynumber: 3.6 Consensus size: 54
22868056 ACGTCATATT
* * * * **
22868066 AAAAAAAATTATTACACATTATATTTAAAAAAAGTTGTTACACGTCATGTTGAA
1 AAAAAAAATTATTACACATCATATTGAAAAAAAATTGTTATACACCATGTTGAA
** * * * * * *
22868120 AAAATATTATTGTTACGCGTCATGTT-CAAAAAAATTGTTATATACCATGTTGAA
1 AAAA-AAAATTATTACACATCATATTGAAAAAAAATTGTTATACACCATGTTGAA
**
22868174 AAAAAAAATTATTACATGTCATATTGAAAAAAAATTG-T-TACACGCATTGTT-AA
1 AAAAAAAATTATTACACATCATATTGAAAAAAAATTGTTATACAC-CA-TGTTGAA
* * *
22868227 AAGAAAAAATTATTACATATTATGTTGAAAAA
1 AA-AAAAAATTATTACACATCATATTGAAAAA
22868259 TATTATAACC
Statistics
Matches: 110, Mismatches: 24, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
52 4 0.04
53 22 0.20
54 70 0.64
55 14 0.13
ACGTcount: A:0.47, C:0.09, G:0.10, T:0.34
Consensus pattern (54 bp):
AAAAAAAATTATTACACATCATATTGAAAAAAAATTGTTATACACCATGTTGAA
Found at i:22877224 original size:22 final size:22
Alignment explanation
Indices: 22877199--22877243 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
22877189 ATCAACACAT
22877199 GTCTCCAAGTCATCAGAAATAA
1 GTCTCCAAGTCATCAGAAATAA
*
22877221 GTCTCCAAGTCATCAGGAATAA
1 GTCTCCAAGTCATCAGAAATAA
22877243 G
1 G
22877244 AGTACGCAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (22 bp):
GTCTCCAAGTCATCAGAAATAA
Found at i:22884621 original size:35 final size:35
Alignment explanation
Indices: 22884571--22884639 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
22884561 CATTTATTAT
* *
22884571 ATTCATATATTACTATTGCATACACAAATCTACTA
1 ATTCATATATCACTATTACATACACAAATCTACTA
* *
22884606 ATTCATGTATCACTATTACATACATAAATCTACT
1 ATTCATATATCACTATTACATACACAAATCTACT
22884640 TTATCAAGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.39, C:0.20, G:0.03, T:0.38
Consensus pattern (35 bp):
ATTCATATATCACTATTACATACACAAATCTACTA
Found at i:22885142 original size:63 final size:62
Alignment explanation
Indices: 22884952--22885143 Score: 199
Period size: 63 Copynumber: 3.1 Consensus size: 62
22884942 CCCCAACAAT
** * * **
22884952 TTTTAAATTTTTATAATTTATCTCTA-TCTTTTAAAAATTTTATAATTTCACTCCTTTAATAA
1 TTTTAAATTTTTATAACATATCTTTACT-TTTTAGAAATTTTATAATTTCACTCCTACAATAA
* * * *
22885014 CTTTTAAATTTTTATAACTTGTCTTTACTTTTTAGAAATTTTATAATTTCGCT-CTAACAAAAA
1 -TTTTAAATTTTTATAACATATCTTTACTTTTTAGAAATTTTATAATTTCACTCCT-ACAATAA
* * * * *
22885077 TTTTAAAGTTTTTCTAACATATTTTTATTTTTTTGAAATTTTATAATTTTACTCCTACAATAA
1 TTTTAAA-TTTTTATAACATATCTTTACTTTTTAGAAATTTTATAATTTCACTCCTACAATAA
22885140 TTTT
1 TTTT
22885144 TTGTTTAGTG
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
62 9 0.08
63 96 0.89
64 3 0.03
ACGTcount: A:0.32, C:0.11, G:0.03, T:0.54
Consensus pattern (62 bp):
TTTTAAATTTTTATAACATATCTTTACTTTTTAGAAATTTTATAATTTCACTCCTACAATAA
Found at i:22885451 original size:14 final size:15
Alignment explanation
Indices: 22885432--22885496 Score: 64
Period size: 14 Copynumber: 4.5 Consensus size: 15
22885422 GTAATAGTAG
*
22885432 TTTA-TTTACTTATT
1 TTTACTTTAATTATT
*
22885446 TTTATTTTAA-TATT
1 TTTACTTTAATTATT
*
22885460 TTTAACTTTAATTTTT
1 TTT-ACTTTAATTATT
*
22885476 TTTA-TTTAATAATT
1 TTTACTTTAATTATT
22885490 TTTACTT
1 TTTACTT
22885497 GATGATTTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
14 23 0.55
15 13 0.31
16 6 0.14
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTACTTTAATTATT
Found at i:22889685 original size:2 final size:2
Alignment explanation
Indices: 22889678--22889763 Score: 131
Period size: 2 Copynumber: 43.0 Consensus size: 2
22889668 GCATAAATTA
22889678 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
22889718 AT AT GAT ANT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT -AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22889762 AT
1 AT
22889764 CAAGATAAAA
Statistics
Matches: 78, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
1 2 0.03
2 72 0.92
3 4 0.05
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (2 bp):
AT
Found at i:22892837 original size:13 final size:13
Alignment explanation
Indices: 22892819--22892847 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
22892809 TTTTATATTG
22892819 CTAACCTCTGCCT
1 CTAACCTCTGCCT
22892832 CTAACCTCTGCCT
1 CTAACCTCTGCCT
22892845 CTA
1 CTA
22892848 TATAACTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.45, G:0.07, T:0.31
Consensus pattern (13 bp):
CTAACCTCTGCCT
Found at i:22895147 original size:22 final size:22
Alignment explanation
Indices: 22895117--22895158 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22895107 TCTCTCCCTT
* *
22895117 TTTTTTGTACTACTTTTGTCCC
1 TTTTCTGTACCACTTTTGTCCC
22895139 TTTTCTGTACCACTTTTGTC
1 TTTTCTGTACCACTTTTGTC
22895159 TTTCTCTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.10, C:0.24, G:0.10, T:0.57
Consensus pattern (22 bp):
TTTTCTGTACCACTTTTGTCCC
Found at i:22896841 original size:22 final size:20
Alignment explanation
Indices: 22896816--22896885 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 20
22896806 ATTTTTAGTA
22896816 TTATTATTATTTA-ATCATTATT
1 TTATT-TTATTTATAT-ATT-TT
22896838 TTATTTTACTTTATATATTTT
1 TTATTTTA-TTTATATATTTT
* *
22896859 TTATTTTTATATTTTCTATTTT
1 TTA-TTTTAT-TTATATATTTT
22896881 TTATT
1 TTATT
22896886 CTTCCATATT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
21 11 0.26
22 29 0.69
23 2 0.05
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (20 bp):
TTATTTTATTTATATATTTT
Found at i:22896859 original size:15 final size:15
Alignment explanation
Indices: 22896841--22896879 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
22896831 CATTATTTTA
22896841 TTTTACTTTATATATT
1 TTTTA-TTTATATATT
*
22896857 TTTTATTTTTATATT
1 TTTTATTTATATATT
*
22896872 TTCTATTT
1 TTTTATTT
22896880 TTTATTCTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTATTTATATATT
Found at i:22896865 original size:7 final size:7
Alignment explanation
Indices: 22896853--22896907 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
22896843 TTACTTTATA
22896853 TATTTTT
1 TATTTTT
22896860 TATTTTT
1 TATTTTT
*
22896867 ATATTTTC
1 -TATTTTT
22896875 TATTTTT
1 TATTTTT
*
22896882 TATTCTTC
1 TATT-TTT
* *
22896890 CATATTT
1 TATTTTT
22896897 TATTTTT
1 TATTTTT
22896904 TATT
1 TATT
22896908 CTAAGTTTCT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
7 28 0.74
8 10 0.26
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (7 bp):
TATTTTT
Found at i:22896880 original size:15 final size:15
Alignment explanation
Indices: 22896851--22896907 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
22896841 TTTTACTTTA
*
22896851 TATATTTTTTATTTT
1 TATATTTTCTATTTT
22896866 TATATTTTCTATTTT
1 TATATTTTCTATTTT
*
22896881 T-TATTCTTCCATATTT
1 TATATT-TTCTAT-TTT
22896897 TAT-TTTT-TATT
1 TATATTTTCTATT
22896908 CTAAGTTTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
13 1 0.03
14 6 0.17
15 22 0.61
16 6 0.17
17 1 0.03
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (15 bp):
TATATTTTCTATTTT
Found at i:22896900 original size:22 final size:23
Alignment explanation
Indices: 22896853--22896909 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
22896843 TTACTTTATA
*
22896853 TATTTTTTATT-TTTATATTTTC
1 TATTTTTTATTCTTCATATTTTC
22896875 TATTTTTTATTCTTCCATA-TTT-
1 TATTTTTTATTCTT-CATATTTTC
22896897 TATTTTTTATTCT
1 TATTTTTTATTCT
22896910 AAGTTTCTCC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 24 0.75
23 5 0.16
24 3 0.09
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (23 bp):
TATTTTTTATTCTTCATATTTTC
Found at i:22897109 original size:7 final size:7
Alignment explanation
Indices: 22897097--22897188 Score: 61
Period size: 7 Copynumber: 13.4 Consensus size: 7
22897087 ATTTTCACAA
22897097 ATTTATT
1 ATTTATT
22897104 ATTTATT
1 ATTTATT
22897111 ATTTATT
1 ATTTATT
**
22897118 ATAAATT
1 ATTTATT
**
22897125 -TGAATT
1 ATTTATT
22897131 ATTT-TT
1 ATTTATT
22897137 ATTTATT
1 ATTTATT
22897144 ATTT-TT
1 ATTTATT
*
22897150 ATCT-TT
1 ATTTATT
22897156 -TTTATAT
1 ATTTAT-T
22897163 ATTGTTATTT
1 A-T-TTA-TT
22897173 ATTTATT
1 ATTTATT
22897180 ATTT-TT
1 ATTTATT
22897186 ATT
1 ATT
22897189 GAATAACTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 17
0.74 0.07 0.18
Matches are distributed among these distances:
5 2 0.03
6 24 0.34
7 33 0.47
8 3 0.04
9 2 0.03
10 5 0.07
11 1 0.01
ACGTcount: A:0.27, C:0.01, G:0.02, T:0.70
Consensus pattern (7 bp):
ATTTATT
Found at i:22897150 original size:9 final size:9
Alignment explanation
Indices: 22897138--22897188 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
22897128 ATTATTTTTA
22897138 TTTATTATT
1 TTTATTATT
22897147 TTTATCT-TT
1 TTTAT-TATT
22897156 TTTATATATT
1 TTTAT-TATT
* *
22897166 GTTATT-TA
1 TTTATTATT
22897174 TTTATTATT
1 TTTATTATT
22897183 TTTATT
1 TTTATT
22897189 GAATAACTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
8 6 0.18
9 21 0.62
10 7 0.21
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (9 bp):
TTTATTATT
Found at i:22897157 original size:22 final size:23
Alignment explanation
Indices: 22897132--22897174 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
22897122 ATTTGAATTA
*
22897132 TTTTTATTTATTATT-TTTATCT
1 TTTTTATATATTATTATTTATCT
*
22897154 TTTTTATATATTGTTATTTAT
1 TTTTTATATATTATTATTTAT
22897175 TTATTATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTTTATATATTATTATTTATCT
Found at i:22898055 original size:104 final size:103
Alignment explanation
Indices: 22897900--22898113 Score: 344
Period size: 104 Copynumber: 2.1 Consensus size: 103
22897890 TTTTTACCTA
*
22897900 TTTTTTA-TATTATTATTATTATTATTTGTATATGTTTTTTTTTATTTCTATTTTTCTCTTGACA
1 TTTTTTACTA-TATTATTATTATTATTTGTATATGTTTTTTTTAATTTCTATTTTTCTCTTGACA
*
22897964 CTTAATCATTTAATCATTTTTATTTTTTATATGTATCTT
65 CTTAATCATTTAATCATTTTCATTTTTTATATGTATCTT
*
22898003 TTCTTTTANCTATATTA-TATT-TTTTTTGTATATGTTTTTTTTAAATTTCTATTTTTCTCTTGA
1 TT-TTTTA-CTATATTATTATTATTATTTGTATATGTTTTTTTT-AATTTCTATTTTTCTCTTGA
22898066 CACTTAATCATTTAATCATTTTCATTTTTTATATGTATCTT
63 CACTTAATCATTTAATCATTTTCATTTTTTATATGTATCTT
22898107 TTTTTTA
1 TTTTTTA
22898114 TTCTACCTAA
Statistics
Matches: 104, Mismatches: 3, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
103 27 0.26
104 70 0.67
105 5 0.05
106 2 0.02
ACGTcount: A:0.22, C:0.09, G:0.04, T:0.65
Consensus pattern (103 bp):
TTTTTTACTATATTATTATTATTATTTGTATATGTTTTTTTTAATTTCTATTTTTCTCTTGACAC
TTAATCATTTAATCATTTTCATTTTTTATATGTATCTT
Found at i:22898861 original size:15 final size:15
Alignment explanation
Indices: 22898841--22898870 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
22898831 GTATTTTCGA
22898841 ATTTTTTTGGTATAT
1 ATTTTTTTGGTATAT
22898856 ATTTTTTTGGTATAT
1 ATTTTTTTGGTATAT
22898871 TTCTTTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (15 bp):
ATTTTTTTGGTATAT
Found at i:22903073 original size:11 final size:11
Alignment explanation
Indices: 22903057--22903081 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22903047 AGATAAAGAA
22903057 AATAAATACTT
1 AATAAATACTT
22903068 AATAAATACTT
1 AATAAATACTT
22903079 AAT
1 AAT
22903082 TTAAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
AATAAATACTT
Found at i:22908102 original size:21 final size:21
Alignment explanation
Indices: 22908078--22908124 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
22908068 ATTTATTATG
22908078 TTTTAAAAAATAAAAA-ATATT
1 TTTTAAAAAATAAAAATA-ATT
* *
22908099 TTTTAAATAATAATAATAATT
1 TTTTAAAAAATAAAAATAATT
22908120 TTTTA
1 TTTTA
22908125 TTTTTAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTTAAAAAATAAAAATAATT
Found at i:22909202 original size:21 final size:22
Alignment explanation
Indices: 22909178--22909219 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
22909168 AAGTCATGGT
22909178 TTGACCAC-AAAAGGCTTAAAA
1 TTGACCACAAAAAGGCTTAAAA
* *
22909199 TTGAGCACAAAAATGCTTAAA
1 TTGACCACAAAAAGGCTTAAA
22909220 TAAACGATGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (22 bp):
TTGACCACAAAAAGGCTTAAAA
Found at i:22912982 original size:2 final size:2
Alignment explanation
Indices: 22912975--22912999 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22912965 AAATTGTTTC
22912975 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
22913000 CAGGCACATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22915018 original size:40 final size:40
Alignment explanation
Indices: 22914953--22915028 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
22914943 ATAAATATCT
22914953 TATTATATTTAATTATGAAGACTATAGAGTCCAACACCTC
1 TATTATATTTAATTATGAAGACTATAGAGTCCAACACCTC
* *
22914993 TATTGTATTTAATTATGAAGCCTATAGAGTCCAACA
1 TATTATATTTAATTATGAAGACTATAGAGTCCAACA
22915029 TCTCAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (40 bp):
TATTATATTTAATTATGAAGACTATAGAGTCCAACACCTC
Found at i:22926493 original size:14 final size:14
Alignment explanation
Indices: 22926476--22926505 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22926466 TATAACTTTA
22926476 TTATTATATATTTT
1 TTATTATATATTTT
*
22926490 TTATTTTATATTTT
1 TTATTATATATTTT
22926504 TT
1 TT
22926506 TGTCAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTATTATATATTTT
Found at i:22926498 original size:16 final size:16
Alignment explanation
Indices: 22926472--22926506 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
22926462 CTAATATAAC
22926472 TTTATTATTATATATTT
1 TTTATTATTATAT-TTT
22926489 TTTATT-TTATATTTT
1 TTTATTATTATATTTT
22926504 TTT
1 TTT
22926507 GTCAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 6 0.33
17 6 0.33
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTATTATTATATTTT
Found at i:22927482 original size:2 final size:2
Alignment explanation
Indices: 22927475--22927503 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22927465 AACATTCGTG
22927475 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22927504 TTTGCTTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22929700 original size:41 final size:44
Alignment explanation
Indices: 22929655--22929735 Score: 123
Period size: 41 Copynumber: 1.9 Consensus size: 44
22929645 AATAGGTACG
*
22929655 TATAAAAGGAGAAAGTCT-GAAAA-AAATA-TTAAATATGCATC
1 TATAAAAGGAGAAAGTCTAAAAAATAAATATTTAAATATGCATC
*
22929696 TATAACAGGAGAAAGTCTAAAAAATAAATATTTAAATATG
1 TATAAAAGGAGAAAGTCTAAAAAATAAATATTTAAATATG
22929736 TACGTATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
41 17 0.49
42 4 0.11
43 5 0.14
44 9 0.26
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.26
Consensus pattern (44 bp):
TATAAAAGGAGAAAGTCTAAAAAATAAATATTTAAATATGCATC
Found at i:22940410 original size:2 final size:2
Alignment explanation
Indices: 22940403--22940451 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
22940393 AAGTGGCATT
* * * *
22940403 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG CA TA TA CA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22940445 TA TA TA T
1 TA TA TA T
22940452 TTATTCATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:22941243 original size:16 final size:16
Alignment explanation
Indices: 22941205--22941236 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22941195 ATTGATTTGA
*
22941205 AATAAATTAAAAAAAT
1 AATAAATGAAAAAAAT
22941221 AATAAATGAAAAAAAT
1 AATAAATGAAAAAAAT
22941237 TAAAAATTTT
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:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (16 bp):
AATAAATGAAAAAAAT
Found at i:22947475 original size:16 final size:18
Alignment explanation
Indices: 22947448--22947480 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22947438 ATTATGTGTG
22947448 GATTTAGTTT-AATTTTA
1 GATTTAGTTTAAATTTTA
22947465 GATTT-GTTTAAATTTT
1 GATTTAGTTTAAATTTT
22947481 TTGATATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (18 bp):
GATTTAGTTTAAATTTTA
Found at i:22955288 original size:20 final size:23
Alignment explanation
Indices: 22955252--22955295 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
22955242 ATTTAACTAA
22955252 TTATATTTTATATATTAT-AGTT
1 TTATATTTTATATATTATAAGTT
22955274 TTATA-TTTA-ATATTATAAGTT
1 TTATATTTTATATATTATAAGTT
22955295 T
1 T
22955296 AAATATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (23 bp):
TTATATTTTATATATTATAAGTT
Found at i:22955664 original size:15 final size:17
Alignment explanation
Indices: 22955635--22955666 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
22955625 ATGTTACATA
22955635 AAATTATTTTATATTAT
1 AAATTATTTTATATTAT
22955652 AAATT-TTTT-TATTAT
1 AAATTATTTTATATTAT
22955667 TGGTTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
AAATTATTTTATATTAT
Found at i:22968417 original size:3 final size:3
Alignment explanation
Indices: 22968409--22968435 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
22968399 TTAACTTACT
22968409 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
22968436 TTATAATCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:22979561 original size:21 final size:22
Alignment explanation
Indices: 22979537--22979581 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
22979527 AAAAACACTT
22979537 ATAAAATCAT-AATTTTTTCAA
1 ATAAAATCATGAATTTTTTCAA
*
22979558 AT-AATTCATGAATTTTTTCAA
1 ATAAAATCATGAATTTTTTCAA
22979579 ATA
1 ATA
22979582 TTATACTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (22 bp):
ATAAAATCATGAATTTTTTCAA
Found at i:22979594 original size:20 final size:21
Alignment explanation
Indices: 22979543--22979581 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
22979533 ACTTATAAAA
22979543 TCAT-AATTTTTTCAAATAAT
1 TCATGAATTTTTTCAAATAAT
22979563 TCATGAATTTTTTCAAATA
1 TCATGAATTTTTTCAAATA
22979582 TTATACTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (21 bp):
TCATGAATTTTTTCAAATAAT
Found at i:22986704 original size:30 final size:30
Alignment explanation
Indices: 22986670--22986729 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
22986660 ACGGATGTGC
*
22986670 TATTTATTTATTTTGAAATATTTGAAATTG
1 TATTTATTTATTTTGAAACATTTGAAATTG
22986700 TATTTATTTATTTTGAAACATTTGAAATTG
1 TATTTATTTATTTTGAAACATTTGAAATTG
22986730 AAATCGTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (30 bp):
TATTTATTTATTTTGAAACATTTGAAATTG
Found at i:22986740 original size:30 final size:30
Alignment explanation
Indices: 22986675--22986740 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
22986665 TGTGCTATTT
* * * *
22986675 ATTTATTTTGAAATATTTGAAATTGTATTT
1 ATTTATTTTGAAACATTTGAAATTGAAATC
22986705 ATTTATTTTGAAACATTTGAAATTGAAATC
1 ATTTATTTTGAAACATTTGAAATTGAAATC
*
22986735 GTTTAT
1 ATTTAT
22986741 CATGAAATAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.35, C:0.03, G:0.11, T:0.52
Consensus pattern (30 bp):
ATTTATTTTGAAACATTTGAAATTGAAATC
Found at i:22986778 original size:21 final size:21
Alignment explanation
Indices: 22986754--22986803 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
22986744 GAAATACCAG
*
22986754 AAATTTAATTGAAATTATTTA
1 AAATTTAATTGAAATTATCTA
* **
22986775 AAATTTTATTTTAATTATCTA
1 AAATTTAATTGAAATTATCTA
*
22986796 TAATTTAA
1 AAATTTAA
22986804 CCAAAACCTA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
AAATTTAATTGAAATTATCTA
Found at i:22994222 original size:2 final size:2
Alignment explanation
Indices: 22994215--22994242 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22994205 AGCCGTATAA
22994215 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
22994243 TGATTGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Done.