Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 24 of 198
Found at i:7088327 original size:17 final size:20
Alignment explanation
Indices: 7088290--7088335 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
7088280 TTTTGACGAG
7088290 TGAGTCCATAAATATTATTA
1 TGAGTCCATAAATATTATTA
7088310 TGAGTCCATAAATATTATTA
1 TGAGTCCATAAATATTATTA
7088330 TGAGTC
1 TGAGTC
7088336 AAATGCAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (20 bp):
TGAGTCCATAAATATTATTA
Found at i:7089465 original size:22 final size:23
Alignment explanation
Indices: 7089440--7089482 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
7089430 TAGGTATTTT
*
7089440 TGTATTTT-TTATGTTTGAATTG
1 TGTATTTTATAATGTTTGAATTG
7089462 TGTATTTTATAATGTTTGAAT
1 TGTATTTTATAATGTTTGAAT
7089483 ATAGATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.23, C:0.00, G:0.16, T:0.60
Consensus pattern (23 bp):
TGTATTTTATAATGTTTGAATTG
Found at i:7104199 original size:2 final size:2
Alignment explanation
Indices: 7104192--7104220 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7104182 GACCTTTGGA
7104192 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7104221 AAGAAAAGTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7107148 original size:73 final size:73
Alignment explanation
Indices: 7107066--7107208 Score: 207
Period size: 73 Copynumber: 2.0 Consensus size: 73
7107056 AAGTGTGTTT
* * * *
7107066 GGTTCATTTATGTTTATGAATAAACTCGTTTATTTATCTATTCGTTTATAAAATCATTTAGTT-A
1 GGTTCATTTATATTTACGAATAAACTCGTTTATTTATCTATTCATATATAAAATCATTTA-TTCA
7107130 AAAATGCTC
65 AAAATGCTC
* * *
7107139 GGTTTATTTATATTTACGAATAAACTCGTTTATTTATCTATTTATATATAAACTCATTTATTCAA
1 GGTTCATTTATATTTACGAATAAACTCGTTTATTTATCTATTCATATATAAAATCATTTATTCAA
7107204 AAATG
66 AAATG
7107209 ATATTTTCCT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
72 2 0.03
73 60 0.97
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (73 bp):
GGTTCATTTATATTTACGAATAAACTCGTTTATTTATCTATTCATATATAAAATCATTTATTCAA
AAATGCTC
Found at i:7110593 original size:20 final size:18
Alignment explanation
Indices: 7110548--7110595 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 18
7110538 ATTAATTTTT
7110548 TTAAAA-AATTTAAAATA
1 TTAAAATAATTTAAAATA
7110565 TTCATAAATAATTTAGAAATAA
1 TT-A-AAATAATTTA-AAAT-A
7110587 TTAAAATAA
1 TTAAAATAA
7110596 AAAATATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 2 0.08
18 1 0.04
19 3 0.12
20 12 0.46
21 5 0.19
22 3 0.12
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (18 bp):
TTAAAATAATTTAAAATA
Found at i:7110595 original size:9 final size:10
Alignment explanation
Indices: 7110547--7110595 Score: 50
Period size: 9 Copynumber: 5.0 Consensus size: 10
7110537 AATTAATTTT
7110547 TTTAAAA-AA
1 TTTAAAATAA
7110556 TTTAAAAT-A
1 TTTAAAATAA
*
7110565 TTCATAAATAA
1 TTTA-AAATAA
7110576 TTTAGAAATAA
1 TTTA-AAATAA
7110587 -TTAAAATAA
1 TTTAAAATAA
7110596 AAAATATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 17 0.50
10 7 0.21
11 10 0.29
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (10 bp):
TTTAAAATAA
Found at i:7114846 original size:23 final size:22
Alignment explanation
Indices: 7114813--7114859 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
7114803 ATTTTTAAAA
*
7114813 TTAAAAAAATTATTTTTA-TTAT
1 TTAAAAAAATT-TTTATATTTAT
7114835 TTAAAAATAATTTTTATATTTAT
1 TTAAAAA-AATTTTTATATTTAT
7114858 TT
1 TT
7114860 TAAATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTAAAAAAATTTTTATATTTAT
Found at i:7114854 original size:19 final size:20
Alignment explanation
Indices: 7114817--7114856 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
7114807 TTAAAATTAA
*
7114817 AAAAATTATTTTTATTATTT
1 AAAAATAATTTTTATTATTT
7114837 AAAAATAATTTTTA-TATTT
1 AAAAATAATTTTTATTATTT
7114856 A
1 A
7114857 TTTTAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AAAAATAATTTTTATTATTT
Found at i:7121277 original size:25 final size:25
Alignment explanation
Indices: 7121246--7121294 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
7121236 TTTAAGTAAT
*
7121246 TAATG-TAAATTATTTCTAAAATTAA
1 TAATGATAAAATATTT-TAAAATTAA
7121271 TAATGTATAAAATATTTTAAAATT
1 TAATG-ATAAAATATTTTAAAATT
7121295 TTTAATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 5 0.24
26 7 0.33
27 9 0.43
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (25 bp):
TAATGATAAAATATTTTAAAATTAA
Found at i:7121307 original size:27 final size:27
Alignment explanation
Indices: 7121251--7121303 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
7121241 GTAATTAATG
* *
7121251 TAAATTATTTCTAAAATTAATAATGTA
1 TAAAATATTTCTAAAATTAATAATATA
**
7121278 TAAAATATTT-TAAAATTTTTAATATA
1 TAAAATATTTCTAAAATTAATAATATA
7121304 ATAATAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (27 bp):
TAAAATATTTCTAAAATTAATAATATA
Found at i:7121321 original size:31 final size:32
Alignment explanation
Indices: 7121277--7121353 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 32
7121267 TTAATAATGT
* *
7121277 ATAAAATAT-TTTAAAAT-TTTTAATATAATA
1 ATAAATTATATTTAAAATAATTTAATATAATA
*
7121307 ATAAATTATATTT-AAATAATTTAATATAATG
1 ATAAATTATATTTAAAATAATTTAATATAATA
*
7121338 ATAAATGATATTTAAA
1 ATAAATTATATTTAAA
7121354 TCATGGGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
30 12 0.30
31 26 0.65
32 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (32 bp):
ATAAATTATATTTAAAATAATTTAATATAATA
Found at i:7121354 original size:31 final size:31
Alignment explanation
Indices: 7121295--7121354 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
7121285 TTTTAAAATT
*
7121295 TTTAATATAATAATAAATTATATTTAAATAA
1 TTTAATATAATAATAAATGATATTTAAATAA
*
7121326 TTTAATATAATGATAAATGATATTTAAAT
1 TTTAATATAATAATAAATGATATTTAAAT
7121355 CATGGGTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (31 bp):
TTTAATATAATAATAAATGATATTTAAATAA
Found at i:7122299 original size:31 final size:31
Alignment explanation
Indices: 7122264--7122326 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
7122254 GCTGAACATC
**
7122264 TTAGTGACTTAAATAAAAACTTTTGAATAGT
1 TTAGTGACTTAAATAAAAACTTTCAAATAGT
*
7122295 TTAGTGACTTAAATGAAAACTTTCAAATAGT
1 TTAGTGACTTAAATAAAAACTTTCAAATAGT
7122326 T
1 T
7122327 CAATGACCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (31 bp):
TTAGTGACTTAAATAAAAACTTTCAAATAGT
Found at i:7124602 original size:33 final size:33
Alignment explanation
Indices: 7124560--7124627 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
7124550 TTTCTAGAAA
7124560 AAATGTGGGTACTGAAAATAGCCGTAAAATTCT
1 AAATGTGGGTACTGAAAATAGCCGTAAAATTCT
7124593 AAATGTGGGTACTGAAAATAGCCGTAAAATTCT
1 AAATGTGGGTACTGAAAATAGCCGTAAAATTCT
7124626 AA
1 AA
7124628 GTTGTGGGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (33 bp):
AAATGTGGGTACTGAAAATAGCCGTAAAATTCT
Found at i:7129944 original size:32 final size:32
Alignment explanation
Indices: 7129903--7129967 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
7129893 AGAGTGGTGT
7129903 TGCCGACGAATACTAGTCATCTTTTTCTTGGC
1 TGCCGACGAATACTAGTCATCTTTTTCTTGGC
7129935 TGCCGACGAATACTAGTCATCTTTTTCTTGGC
1 TGCCGACGAATACTAGTCATCTTTTTCTTGGC
7129967 T
1 T
7129968 TACCCCAAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.38
Consensus pattern (32 bp):
TGCCGACGAATACTAGTCATCTTTTTCTTGGC
Found at i:7136476 original size:43 final size:43
Alignment explanation
Indices: 7136397--7136518 Score: 140
Period size: 43 Copynumber: 2.8 Consensus size: 43
7136387 CTCATACAAT
* * *
7136397 GCCAACGTCCCAGACGTGGTCTTACATGTGATCACAAATCGAC
1 GCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAATCGAC
* * * *
7136440 GCC-ACTGTCCCAGACAG-GGTCTTATACGTAAACACAAGTTGAT
1 GCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACAAATCGAC
*
7136483 GCCAACGTCCCAGACGTGGTCTTACACGAAAACACA
1 GCCAACGTCCCAGACGTGGTCTTACACGTAAACACA
7136519 TTTCGAAAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
42 3 0.05
43 60 0.91
44 3 0.05
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (43 bp):
GCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAATCGAC
Found at i:7138792 original size:41 final size:41
Alignment explanation
Indices: 7138746--7138837 Score: 175
Period size: 41 Copynumber: 2.2 Consensus size: 41
7138736 ACCGGCACTT
7138746 AGCCTGCTAGGTTTAAAACCTGATTCAGTACACCGGCTTTA
1 AGCCTGCTAGGTTTAAAACCTGATTCAGTACACCGGCTTTA
*
7138787 AGCCTGCTAGGTTTAAAACTTGATTCAGTACACCGGCTTTA
1 AGCCTGCTAGGTTTAAAACCTGATTCAGTACACCGGCTTTA
7138828 AGCCTGCTAG
1 AGCCTGCTAG
7138838 ACTTATAGTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGGTTTAAAACCTGATTCAGTACACCGGCTTTA
Found at i:7138876 original size:42 final size:42
Alignment explanation
Indices: 7138817--7138963 Score: 231
Period size: 42 Copynumber: 3.5 Consensus size: 42
7138807 TGATTCAGTA
* * * *
7138817 CACCGGCTTTAAGCCTGCTAGACTTATAGTCTGAATTTACTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTTATTT
7138859 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTTATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTTATTT
** *
7138901 CACCGAAATTAAGCCTGCTAGACGTAAAGTCTAAATTTATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTTATTT
7138943 CACCGGCATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
7138964 GTACTGAGCC
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 96 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (42 bp):
CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTTATTT
Found at i:7139626 original size:2 final size:2
Alignment explanation
Indices: 7139619--7139652 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
7139609 TTTGATACAC
* *
7139619 AT AT AT AT AT AT AT AT AT AT AT AT CT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7139653 CTATTCGAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:7141901 original size:17 final size:17
Alignment explanation
Indices: 7141864--7141911 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
7141854 GAATTTAGAA
*
7141864 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
*
7141880 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTAGT
7141897 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
7141912 AGTTAGACTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:7156961 original size:7 final size:7
Alignment explanation
Indices: 7156949--7156974 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7156939 TACAGGTGGG
7156949 TTGAATT
1 TTGAATT
7156956 TTGAATT
1 TTGAATT
7156963 TTGAATT
1 TTGAATT
7156970 TTGAA
1 TTGAA
7156975 CCGGATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (7 bp):
TTGAATT
Found at i:7158035 original size:22 final size:22
Alignment explanation
Indices: 7158007--7158049 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
7157997 TTTATTGTTC
7158007 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTG
7158029 AAACATGAGAGCTTAGTACGT
1 AAACATGAGAGCTTAGTACGT
7158050 TAATATCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTG
Found at i:7159320 original size:2 final size:2
Alignment explanation
Indices: 7159313--7159338 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7159303 TTATCTCAAC
7159313 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
7159339 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7160463 original size:32 final size:32
Alignment explanation
Indices: 7160422--7160490 Score: 138
Period size: 32 Copynumber: 2.2 Consensus size: 32
7160412 TTTTAATTTT
7160422 TATATTATTATTTTGAAATTAAAGATACATAA
1 TATATTATTATTTTGAAATTAAAGATACATAA
7160454 TATATTATTATTTTGAAATTAAAGATACATAA
1 TATATTATTATTTTGAAATTAAAGATACATAA
7160486 TATAT
1 TATAT
7160491 ATATATATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (32 bp):
TATATTATTATTTTGAAATTAAAGATACATAA
Found at i:7165033 original size:170 final size:170
Alignment explanation
Indices: 7164734--7165055 Score: 464
Period size: 170 Copynumber: 1.9 Consensus size: 170
7164724 ATCCTCTCAA
* *
7164734 TTTTCGATTTCTAGTATTTGGTTCTCCTTCCTTTGGTTGGGTTTGGTGGATTTCGTCTGTTTCAG
1 TTTTCGATTTCTAGTATTTGGTTCTCCTTCCTTTGGCTGGGTTTGGTGGATTTCATCTGTTTCAG
* * * * * *
7164799 AGTTTCTATCGAATGACTAAACTGAGTTATTAGGTTTGCTTTCTTTTATTCTATTCTTAGTTCTT
66 AGTTTCTATCGAAGGAATAAACTGAGTTATTAGGTCTACTTTCTCTTATTCTATTCTCAGTTCTT
* *
7164864 CTCATAGATCTGATTACAACAATTTAGGTTTATTGTGTTG
131 CTCATAGACCTGATCACAACAATTTAGGTTTATTGTGTTG
* * * *
7164904 TTTTCGGTTTCTGGTATTTGGTTCTCCTTCCTTTTGCTGGGTTTGGTGGATTTTATCTGTTTCAG
1 TTTTCGATTTCTAGTATTTGGTTCTCCTTCCTTTGGCTGGGTTTGGTGGATTTCATCTGTTTCAG
** * * * *
7164969 AGTTTCTATCGAAGGAATAAGTTGGGTTATTAGGTCTACTTTCTCTTCTTTTGTTCTCAGTTCTT
66 AGTTTCTATCGAAGGAATAAACTGAGTTATTAGGTCTACTTTCTCTTATTCTATTCTCAGTTCTT
7165034 CTCATAGACCTGATCACAACAA
131 CTCATAGACCTGATCACAACAA
7165056 AGGTCTTGTG
Statistics
Matches: 132, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
170 132 1.00
ACGTcount: A:0.17, C:0.16, G:0.19, T:0.48
Consensus pattern (170 bp):
TTTTCGATTTCTAGTATTTGGTTCTCCTTCCTTTGGCTGGGTTTGGTGGATTTCATCTGTTTCAG
AGTTTCTATCGAAGGAATAAACTGAGTTATTAGGTCTACTTTCTCTTATTCTATTCTCAGTTCTT
CTCATAGACCTGATCACAACAATTTAGGTTTATTGTGTTG
Found at i:7168179 original size:25 final size:26
Alignment explanation
Indices: 7168151--7168199 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
7168141 CTAATTGACC
* *
7168151 ATTTTACCCTTTATAATC-CTTAAAA
1 ATTTCACCCTTAATAATCACTTAAAA
*
7168176 ATTTCATCCTTAATAATCACTTAA
1 ATTTCACCCTTAATAATCACTTAA
7168200 TTTTGTCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (26 bp):
ATTTCACCCTTAATAATCACTTAAAA
Found at i:7175095 original size:40 final size:41
Alignment explanation
Indices: 7175033--7175149 Score: 116
Period size: 40 Copynumber: 2.9 Consensus size: 41
7175023 GTTTGGAACA
* * *
7175033 AAAGCGCCAC-AACAAATCGAGCATTAGCGGCGATTTA-GCC
1 AAAGCGCCGCTAA-AAATAGAGCATTAGCGGCGATTTATCCC
** *
7175073 AAAGCGCCGCTAAAGGTAGAGCATCAGCGGCGA-TTATCCC
1 AAAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTATCCC
* * *
7175113 GAAGCGCCGCTAAAAATAG-GAATTAGCGGCGTTTTAT
1 AAAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTAT
7175150 ATAAAGCGCC
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
39 13 0.21
40 47 0.76
41 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (41 bp):
AAAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTATCCC
Found at i:7180141 original size:66 final size:65
Alignment explanation
Indices: 7180033--7180203 Score: 200
Period size: 66 Copynumber: 2.6 Consensus size: 65
7180023 GAGCAAATTA
* * * * *
7180033 CACAACTTAAAGCGGAGGCAACATCCAGAGAAGCTGATGTTCAAAG-AAGATATGAAGAACTCCA
1 CACAACTTAAAGCGGATGCAGCAGCAAGAGAAGCTGAGGTTCAAAGAAAG-TATGAAGAACTCCA
7180097 G
65 G
* *
7180098 CTACAACTTAAAGCGGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCGGATGCAGCAGCAAGAGAAGCTGAGGTTCAAAGAAAGTATGAAGAACTCCA
7180163 G
65 G
* * * * *
7180164 CAGCAGCTTAGAGCAGATGCGGCAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCGGATGCAGCAGCAAGAGAAGCTGAGG
7180204 CGGCAGCGAG
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
65 2 0.02
66 86 0.95
67 3 0.03
ACGTcount: A:0.39, C:0.20, G:0.28, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCGGATGCAGCAGCAAGAGAAGCTGAGGTTCAAAGAAAGTATGAAGAACTCCAG
Found at i:7180201 original size:21 final size:21
Alignment explanation
Indices: 7180175--7180246 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
7180165 AGCAGCTTAG
*
7180175 AGCAGATGCGGCAGCAAGAGA
1 AGCAGAGGCGGCAGCAAGAGA
*
7180196 AGCAGAGGCGGCAGCGAGAGA
1 AGCAGAGGCGGCAGCAAGAGA
* * * * *
7180217 AGTACAGGCTGCAGCGAGGGA
1 AGCAGAGGCGGCAGCAAGAGA
*
7180238 AGTAGAGGC
1 AGCAGAGGC
7180247 TAAAGCGAGG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.33, C:0.18, G:0.43, T:0.06
Consensus pattern (21 bp):
AGCAGAGGCGGCAGCAAGAGA
Found at i:7180247 original size:21 final size:21
Alignment explanation
Indices: 7180185--7180286 Score: 123
Period size: 21 Copynumber: 4.9 Consensus size: 21
7180175 AGCAGATGCG
* * * *
7180185 GCAGCAAGAGAAGCAGAGGCG
1 GCAGCGAGGGAAGTAGAGGCT
* *
7180206 GCAGCGAGAGAAGTACAGGCT
1 GCAGCGAGGGAAGTAGAGGCT
7180227 GCAGCGAGGGAAGTAGAGGCT
1 GCAGCGAGGGAAGTAGAGGCT
**
7180248 AAAGCGAGGGAAGTAGAGGCT
1 GCAGCGAGGGAAGTAGAGGCT
*
7180269 GCAGCGAGGGAAGCAGAG
1 GCAGCGAGGGAAGTAGAG
7180287 CAGCGTCAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 70 1.00
ACGTcount: A:0.34, C:0.16, G:0.44, T:0.06
Consensus pattern (21 bp):
GCAGCGAGGGAAGTAGAGGCT
Found at i:7181395 original size:7 final size:7
Alignment explanation
Indices: 7181383--7181461 Score: 86
Period size: 7 Copynumber: 10.4 Consensus size: 7
7181373 ACTTATACAT
7181383 AACTTAC
1 AACTTAC
7181390 AACTTAC
1 AACTTAC
*
7181397 ATAACTTAT
1 --AACTTAC
7181406 AACTTAC
1 AACTTAC
*
7181413 ATAACTTAT
1 --AACTTAC
7181422 AACTTAC
1 AACTTAC
7181429 AACTTAC
1 AACTTAC
7181436 AACTTAC
1 AACTTAC
7181443 ATAACTTAC
1 --AACTTAC
7181452 AACTTAC
1 AACTTAC
7181459 AAC
1 AAC
7181462 ACACATAACT
Statistics
Matches: 62, Mismatches: 4, Indels: 12
0.79 0.05 0.15
Matches are distributed among these distances:
7 43 0.69
9 19 0.31
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (7 bp):
AACTTAC
Found at i:7181402 original size:9 final size:9
Alignment explanation
Indices: 7181378--7181818 Score: 137
Period size: 9 Copynumber: 53.6 Consensus size: 9
7181368 NNNCCACTTA
7181378 TACATAACT
1 TACATAACT
7181387 TAC--AACT
1 TACATAACT
7181394 TACATAACT
1 TACATAACT
7181403 T--ATAACT
1 TACATAACT
7181410 TACATAACT
1 TACATAACT
7181419 T--ATAACT
1 TACATAACT
7181426 TAC--AACT
1 TACATAACT
7181433 TAC--AACT
1 TACATAACT
7181440 TACATAACT
1 TACATAACT
7181449 TAC--AACT
1 TACATAACT
7181456 TACA-ACAC-
1 TACATA-ACT
7181464 -ACATAACT
1 TACATAACT
* *
7181472 TA-ATTAGT
1 TACATAACT
7181480 TA-AT-A--
1 TACATAACT
*
7181485 TACATAAAT
1 TACATAACT
7181494 TACATAACT
1 TACATAACT
**
7181503 TAGTTAA-T
1 TACATAACT
7181511 TA-AT-A--
1 TACATAACT
*
7181516 TACATAAGT
1 TACATAACT
*
7181525 TACAAAACT
1 TACATAACT
7181534 TA-ATTAA-T
1 TACA-TAACT
7181542 TA-AT-A--
1 TACATAACT
*
7181547 TACATAAGT
1 TACATAACT
7181556 TACATTAA-T
1 TACA-TAACT
7181565 TA-ATTAA-T
1 TACA-TAACT
*
7181573 ATACATAAGT
1 -TACATAACT
7181583 TACATAACT
1 TACATAACT
**
7181592 TAGTTAA-T
1 TACATAACT
7181600 TA-AT-A-T
1 TACATAACT
**
7181606 TACATATGT
1 TACATAACT
7181615 TACATAACT
1 TACATAACT
*
7181624 TACATTAATAT
1 TACA-TAA-CT
*
7181635 GATACATAAAT
1 --TACATAACT
7181646 TACATAACT
1 TACATAACT
**
7181655 TAGTTAA-T
1 TACATAACT
7181663 TA-AT-A-T
1 TACATAACT
**
7181669 TACATATGT
1 TACATAACT
7181678 TACATAACT
1 TACATAACT
*
7181687 TACATTAATGT
1 TACA-TAA-CT
*
7181698 GATACATAAAT
1 --TACATAACT
7181709 TACATAACT
1 TACATAACT
**
7181718 TAGTTAA-T
1 TACATAACT
*
7181726 TA-AT-ATT
1 TACATAACT
*
7181733 ATACATAACG
1 -TACATAACT
7181743 TAC--AACT
1 TACATAACT
7181750 TACATAACT
1 TACATAACT
7181759 TAC--AACT
1 TACATAACT
7181766 TAC--AACT
1 TACATAACT
7181773 TACATAACT
1 TACATAACT
7181782 TAC--AACT
1 TACATAACT
7181789 TAC--AACT
1 TACATAACT
*
7181796 TAAATAACT
1 TACATAACT
7181805 TACATAACT
1 TACATAACT
7181814 TACAT
1 TACAT
7181819 TTTTTTAATT
Statistics
Matches: 343, Mismatches: 35, Indels: 108
0.71 0.07 0.22
Matches are distributed among these distances:
5 6 0.02
6 17 0.05
7 94 0.27
8 35 0.10
9 160 0.47
10 12 0.03
11 5 0.01
12 6 0.02
13 8 0.02
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.36
Consensus pattern (9 bp):
TACATAACT
Found at i:7181411 original size:23 final size:23
Alignment explanation
Indices: 7181383--7181473 Score: 123
Period size: 23 Copynumber: 4.0 Consensus size: 23
7181373 ACTTATACAT
*
7181383 AACTTACAACTTACATAACTTAT
1 AACTTACAACTTACATAACTTAC
7181406 AACTTACATAACTT--ATAACTTAC
1 AACTTAC--AACTTACATAACTTAC
7181429 AACTTACAACTTACATAACTTAC
1 AACTTACAACTTACATAACTTAC
**
7181452 AACTTACAACACACATAACTTA
1 AACTTACAACTTACATAACTTA
7181474 ATTAGTTAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.08
23 51 0.84
25 5 0.08
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (23 bp):
AACTTACAACTTACATAACTTAC
Found at i:7181473 original size:16 final size:16
Alignment explanation
Indices: 7181378--7181459 Score: 132
Period size: 16 Copynumber: 5.2 Consensus size: 16
7181368 NNNCCACTTA
7181378 TACATAACTTACAACT
1 TACATAACTTACAACT
*
7181394 TACATAACTTATAACT
1 TACATAACTTACAACT
*
7181410 TACATAACTTATAACT
1 TACATAACTTACAACT
7181426 TAC--AACTTACAACT
1 TACATAACTTACAACT
7181440 TACATAACTTACAACT
1 TACATAACTTACAACT
7181456 TACA
1 TACA
7181460 ACACACATAA
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
14 13 0.21
16 49 0.79
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:7181500 original size:31 final size:31
Alignment explanation
Indices: 7181464--7181928 Score: 314
Period size: 31 Copynumber: 14.6 Consensus size: 31
7181454 CTTACAACAC
*
7181464 ACATAACTTAATTAGTTAATATACATAAATT
1 ACATAACTTAATTAATTAATATACATAAATT
* *
7181495 ACATAACTTAGTTAATTAATATACATAAGTT
1 ACATAACTTAATTAATTAATATACATAAATT
* *
7181526 ACAAAACTTAATTAATTAATATACATAAGTT
1 ACATAACTTAATTAATTAATATACATAAATT
*
7181557 AC---A-TTAATTAATTAATATACATAAGTT
1 ACATAACTTAATTAATTAATATACATAAATT
* **
7181584 ACATAACTTAGTTAATTAATATTACATATGTT
1 ACATAACTTAATTAATTAATA-TACATAAATT
7181616 ACATAACTTACATTAA-T-ATGATACATAAATT
1 ACATAACTTA-ATTAATTAAT-ATACATAAATT
* **
7181647 ACATAACTTAGTTAATTAATATTACATATGTT
1 ACATAACTTAATTAATTAATA-TACATAAATT
*
7181679 ACATAACTTACATTAATGT--GATACATAAATT
1 ACATAACTTA-ATTAAT-TAATATACATAAATT
* **
7181710 ACATAACTTAGTTAATTAATATTATACATAACGT
1 ACATAACTTAATTAATT-A-A-TATACATAAATT
* *
7181744 AC--AACTTACA-TAACTT-ACA-ACTTACAACTT
1 ACATAACTTA-ATTAA-TTAATATACATA-AA-TT
* * *
7181774 ACATAACTTACA--ACTTACA-ACTTAAATAACTT
1 ACATAACTTA-ATTAATTA-ATA--TACATAAATT
** * **
7181806 ACATAACTTACATTTTTTTAATTATTCATAAAAC
1 ACATAACTTA-A-TTAATTAA-TATACATAAATT
*
7181840 ACATAACTTAATTAGTTAATATACATAAATT
1 ACATAACTTAATTAATTAATATACATAAATT
*
7181871 ACATAACTTAGTTAATTAATCAGTATTATACATAAATT
1 ACATAAC----TTAATTAAT---TAATATACATAAATT
*
7181909 ACATAACTTAGTTAATTAAT
1 ACATAACTTAATTAATTAAT
7181929 GTTATACATA
Statistics
Matches: 348, Mismatches: 46, Indels: 80
0.73 0.10 0.17
Matches are distributed among these distances:
27 26 0.07
28 5 0.01
29 3 0.01
30 16 0.05
31 133 0.38
32 80 0.23
33 13 0.04
34 39 0.11
35 11 0.03
36 1 0.00
38 21 0.06
ACGTcount: A:0.45, C:0.12, G:0.04, T:0.38
Consensus pattern (31 bp):
ACATAACTTAATTAATTAATATACATAAATT
Found at i:7181634 original size:22 final size:22
Alignment explanation
Indices: 7181604--7181713 Score: 88
Period size: 22 Copynumber: 5.1 Consensus size: 22
7181594 GTTAATTAAT
*
7181604 ATTACATATGTTACATAACTTAC
1 ATTA-ATATGTTACATAAATTAC
*
7181627 ATTAATATGATACATAAATTAC
1 ATTAATATGTTACATAAATTAC
*
7181649 A-TAACT-TAGTTA-ATTAA-T--
1 ATTAA-TAT-GTTACATAAATTAC
*
7181667 ATTACATATGTTACATAACTTAC
1 ATTA-ATATGTTACATAAATTAC
* *
7181690 ATTAATGTGATACATAAATTAC
1 ATTAATATGTTACATAAATTAC
7181712 AT
1 AT
7181714 AACTTAGTTA
Statistics
Matches: 69, Mismatches: 9, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
18 1 0.01
19 7 0.10
20 6 0.09
21 9 0.13
22 38 0.55
23 8 0.12
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (22 bp):
ATTAATATGTTACATAAATTAC
Found at i:7181653 original size:63 final size:61
Alignment explanation
Indices: 7181464--7181733 Score: 343
Period size: 63 Copynumber: 4.4 Consensus size: 61
7181454 CTTACAACAC
* * * * *
7181464 ACATAACTTAATTAGTTAATA-TACATAAATTACATAACTTAGTTAATTAATATACATAAGTT
1 ACATAACTTAGTTAATTAATATTACATAAGTTACATAACTTAATTAA-T-ATATACATAAATT
* * *
7181526 ACAAAACTTAATTAATTAATA-TACATAAGTTACATTAA-TTAATT-A-ATATACATAAGTT
1 ACATAACTTAGTTAATTAATATTACATAAGTTACA-TAACTTAATTAATATATACATAAATT
*
7181584 ACATAACTTAGTTAATTAATATTACATATGTTACATAACTTACATTAATATGATACATAAATT
1 ACATAACTTAGTTAATTAATATTACATAAGTTACATAACTTA-ATTAATAT-ATACATAAATT
* *
7181647 ACATAACTTAGTTAATTAATATTACATATGTTACATAACTTACATTAATGTGATACATAAATT
1 ACATAACTTAGTTAATTAATATTACATAAGTTACATAACTTA-ATTAATAT-ATACATAAATT
7181710 ACATAACTTAGTTAATTAATATTA
1 ACATAACTTAGTTAATTAATATTA
7181734 TACATAACGT
Statistics
Matches: 192, Mismatches: 9, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
58 35 0.18
59 15 0.08
60 3 0.02
61 2 0.01
62 38 0.20
63 99 0.52
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (61 bp):
ACATAACTTAGTTAATTAATATTACATAAGTTACATAACTTAATTAATATATACATAAATT
Found at i:7181690 original size:72 final size:70
Alignment explanation
Indices: 7181614--7181762 Score: 213
Period size: 63 Copynumber: 2.2 Consensus size: 70
7181604 ATTACATATG
7181614 TTACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATA-T-TACAT-A-
1 TTACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATAAC
*
7181675 -T--G
66 GTACA
*
7181677 TTACATAACTTACATTAATGTGATACATAAATTACATAACTTAGTTAATTAATATTATACATAAC
1 TTACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATAAC
7181742 GTACAA
66 GTAC-A
7181748 CTTACATAACTTACA
1 -TTACATAACTTACA
7181763 ACTTACAACT
Statistics
Matches: 75, Mismatches: 2, Indels: 9
0.87 0.02 0.10
Matches are distributed among these distances:
63 53 0.71
64 1 0.01
65 5 0.07
66 1 0.01
68 1 0.01
72 14 0.19
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (70 bp):
TTACATAACTTACATTAATATGATACATAAATTACATAACTTAGTTAATTAATATTATACATAAC
GTACA
Found at i:7181765 original size:7 final size:7
Alignment explanation
Indices: 7181743--7181797 Score: 74
Period size: 7 Copynumber: 7.3 Consensus size: 7
7181733 ATACATAACG
7181743 TACAACT
1 TACAACT
7181750 TACATAACT
1 TAC--AACT
7181759 TACAACT
1 TACAACT
7181766 TACAACT
1 TACAACT
7181773 TACATAACT
1 TAC--AACT
7181782 TACAACT
1 TACAACT
7181789 TACAACT
1 TACAACT
7181796 TA
1 TA
7181798 AATAACTTAC
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
7 30 0.68
9 14 0.32
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (7 bp):
TACAACT
Found at i:7181769 original size:23 final size:23
Alignment explanation
Indices: 7181743--7181817 Score: 123
Period size: 23 Copynumber: 3.2 Consensus size: 23
7181733 ATACATAACG
7181743 TACAACTTACATAACTTACAACT
1 TACAACTTACATAACTTACAACT
7181766 TACAACTTACATAACTTACAACT
1 TACAACTTACATAACTTACAACT
*
7181789 TACAACTTAAATAACTTACATAACT
1 TACAACTTACATAACTTAC--AACT
7181814 TACA
1 TACA
7181818 TTTTTTTAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 41 0.84
25 8 0.16
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (23 bp):
TACAACTTACATAACTTACAACT
Found at i:7181781 original size:16 final size:16
Alignment explanation
Indices: 7181734--7181818 Score: 88
Period size: 16 Copynumber: 5.3 Consensus size: 16
7181724 ATTAATATTA
*
7181734 TACATAACGTACAACT
1 TACATAACTTACAACT
7181750 TACATAACTTACAACT
1 TACATAACTTACAACT
7181766 TAC--AACTTACATAACT
1 TACATAACTTAC--AACT
7181782 TAC--AACTTACAACT
1 TACATAACTTACAACT
*
7181796 TAAATAACTTACATAACT
1 TACATAACTTAC--AACT
7181814 TACAT
1 TACAT
7181819 TTTTTTAATT
Statistics
Matches: 60, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
14 13 0.22
16 39 0.65
18 8 0.13
ACGTcount: A:0.45, C:0.24, G:0.01, T:0.31
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:7181954 original size:16 final size:16
Alignment explanation
Indices: 7181933--7181978 Score: 92
Period size: 16 Copynumber: 2.9 Consensus size: 16
7181923 ATTAATGTTA
7181933 TACATAACTTACAACT
1 TACATAACTTACAACT
7181949 TACATAACTTACAACT
1 TACATAACTTACAACT
7181965 TACATAACTTACAA
1 TACATAACTTACAA
7181979 TTTTTTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:7181957 original size:9 final size:9
Alignment explanation
Indices: 7181933--7182081 Score: 68
Period size: 9 Copynumber: 17.7 Consensus size: 9
7181923 ATTAATGTTA
7181933 TACATAACT
1 TACATAACT
7181942 TAC--AACT
1 TACATAACT
7181949 TACATAACT
1 TACATAACT
7181958 TAC--AACT
1 TACATAACT
7181965 TACATAACT
1 TACATAACT
***
7181974 TACAATTTTT
1 TAC-ATAACT
*
7181984 TA-ATTA-T
1 TACATAACT
* *
7181991 T-CGTAAAT
1 TACATAACT
*
7181999 TCCATAACT
1 TACATAACT
* *
7182008 TACTTAATT
1 TACATAACT
*
7182017 TTCATAA--
1 TACATAACT
*
7182024 TAAATAACT
1 TACATAACT
*
7182033 TACAGAACT
1 TACATAACT
7182042 TAC--AACT
1 TACATAACT
7182049 TACATAACT
1 TACATAACT
* ** *
7182058 TATACGACA
1 TACATAACT
7182067 TACATAACT
1 TACATAACT
7182076 TACATA
1 TACATA
7182082 GCATAATTTG
Statistics
Matches: 103, Mismatches: 25, Indels: 24
0.68 0.16 0.16
Matches are distributed among these distances:
7 30 0.29
8 5 0.05
9 63 0.61
10 5 0.05
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.36
Consensus pattern (9 bp):
TACATAACT
Found at i:7182050 original size:16 final size:16
Alignment explanation
Indices: 7182029--7182059 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7182019 CATAATAAAT
7182029 AACTTACAGAACTTAC
1 AACTTACAGAACTTAC
*
7182045 AACTTACATAACTTA
1 AACTTACAGAACTTA
7182060 TACGACATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.23, G:0.03, T:0.29
Consensus pattern (16 bp):
AACTTACAGAACTTAC
Found at i:7182076 original size:34 final size:33
Alignment explanation
Indices: 7181932--7182079 Score: 88
Period size: 34 Copynumber: 4.4 Consensus size: 33
7181922 AATTAATGTT
* *
7181932 ATACATAACTTACAACTTACATAACT-TACAAC
1 ATACATAACTTACAACTTACATAATTATACGAC
* *** * *
7181964 TTACATAACTTACAA-TTTTTTAATTATTCGTAA
1 ATACATAACTTACAACTTACATAATTATACG-AC
* * * *
7181997 ATTCCATAACTTACTTAATTTTCATAATAAATA--AC
1 A-TACATAACTTAC--AACTTACATAAT-TATACGAC
* *
7182032 TTACAGAACTTACAACTTACATAACTTATACGAC
1 ATACATAACTTACAACTTACATAA-TTATACGAC
7182066 ATACATAACTTACA
1 ATACATAACTTACA
7182080 TAGCATAATT
Statistics
Matches: 83, Mismatches: 23, Indels: 18
0.67 0.19 0.15
Matches are distributed among these distances:
31 6 0.07
32 28 0.34
33 2 0.02
34 35 0.42
35 1 0.01
36 2 0.02
37 7 0.08
38 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.36
Consensus pattern (33 bp):
ATACATAACTTACAACTTACATAATTATACGAC
Found at i:7182135 original size:16 final size:16
Alignment explanation
Indices: 7182116--7182148 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7182106 ACATAATCGC
7182116 CATAATAAATAACTTA
1 CATAATAAATAACTTA
*
7182132 CATAATACATAACTTA
1 CATAATAAATAACTTA
7182148 C
1 C
7182149 GTAGCTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (16 bp):
CATAATAAATAACTTA
Found at i:7183237 original size:43 final size:43
Alignment explanation
Indices: 7183080--7183227 Score: 244
Period size: 43 Copynumber: 3.4 Consensus size: 43
7183070 NNNNNCTTTA
*
7183080 ACTAAAAACGCCGCTAAAGACCCCAGTCTATAGCGGCGCTAAT
1 ACTAAAAACGCCGCTAAAGACCCCAGTCTATAGCGGCGCTTAT
* * *
7183123 ACTAAAAACGCCACTAAAGA-CCCTGATCTATAGCGGCGCTTTT
1 ACTAAAAACGCCGCTAAAGACCCCAG-TCTATAGCGGCGCTTAT
7183166 ACTAAAAACGCCGCTAAAGACCCCAGTCTATAGCGGCGCTTAT
1 ACTAAAAACGCCGCTAAAGACCCCAGTCTATAGCGGCGCTTAT
7183209 ACTAAAAACGCCGCTAAAG
1 ACTAAAAACGCCGCTAAAG
7183228 GTATTAGTCT
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
42 4 0.04
43 88 0.92
44 4 0.04
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (43 bp):
ACTAAAAACGCCGCTAAAGACCCCAGTCTATAGCGGCGCTTAT
Found at i:7183255 original size:43 final size:43
Alignment explanation
Indices: 7183080--7183293 Score: 186
Period size: 43 Copynumber: 5.0 Consensus size: 43
7183070 NNNNNCTTTA
* ** *
7183080 ACTAAAAACGCCGCTAAAGACCCCAGTCTAT-AGCGGCGCTAAT
1 ACTAAAAACGCCGCTAAAGATCTTAGTCT-TCAGCGGCGCTTAT
* * * *
7183123 ACTAAAAACGCCACTAAAGACCCT-GATCTAT-AGCGGCGCTTTT
1 ACTAAAAACGCCGCTAAAGATCTTAG-TCT-TCAGCGGCGCTTAT
* **
7183166 ACTAAAAACGCCGCTAAAGACCCCAGTCTAT-AGCGGCGCTTAT
1 ACTAAAAACGCCGCTAAAGATCTTAGTCT-TCAGCGGCGCTTAT
* * *
7183209 ACTAAAAACGCCGCTAAAGGTATTAGTCTTCAGCGGCGCTTCT
1 ACTAAAAACGCCGCTAAAGATCTTAGTCTTCAGCGGCGCTTAT
* * * * *
7183252 ACT-AAAGCGCCACTAAAGCTCTTACTCTTCAGCGGCGTTTAT
1 ACTAAAAACGCCGCTAAAGATCTTAGTCTTCAGCGGCGCTTAT
7183294 GATAGAAGCG
Statistics
Matches: 148, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
42 34 0.23
43 113 0.76
44 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (43 bp):
ACTAAAAACGCCGCTAAAGATCTTAGTCTTCAGCGGCGCTTAT
Found at i:7183255 original size:86 final size:86
Alignment explanation
Indices: 7183080--7183257 Score: 261
Period size: 86 Copynumber: 2.1 Consensus size: 86
7183070 NNNNNCTTTA
*
7183080 ACTAAAAACGCCGCTAAAGACCCCAGTCTATAGCGGCGCTAATACTAAAAACGCCACTAAAGACC
1 ACTAAAAACGCCGCTAAAGACCCCAGTCTATAGCGGCGCTAATACTAAAAACGCCACTAAAGACA
*
7183145 CTGATCTATAGCGGCGCTTTT
66 CTGATCTATAGCGGCGCTTCT
* * **
7183166 ACTAAAAACGCCGCTAAAGACCCCAGTCTATAGCGGCGCTTATACTAAAAACGCCGCTAAAGGTA
1 ACTAAAAACGCCGCTAAAGACCCCAGTCTATAGCGGCGCTAATACTAAAAACGCCACTAAAGACA
*
7183231 -TTAGTCT-TCAGCGGCGCTTCT
66 CTGA-TCTAT-AGCGGCGCTTCT
7183252 ACTAAA
1 ACTAAA
7183258 GCGCCACTAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
85 3 0.04
86 80 0.96
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (86 bp):
ACTAAAAACGCCGCTAAAGACCCCAGTCTATAGCGGCGCTAATACTAAAAACGCCACTAAAGACA
CTGATCTATAGCGGCGCTTCT
Found at i:7183422 original size:22 final size:22
Alignment explanation
Indices: 7183394--7183436 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
7183384 CTGCGGCGCT
*
7183394 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
7183416 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
7183437 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:7185594 original size:20 final size:21
Alignment explanation
Indices: 7185571--7185616 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
7185561 TTTTTTTATA
* *
7185571 TTTTTAACAACTTTTA-AATT
1 TTTTTAAAAAATTTTACAATT
*
7185591 TTTTAAAAAAATTTTACAATT
1 TTTTTAAAAAATTTTACAATT
7185612 TTTTT
1 TTTTT
7185617 GAATTTTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTTAAAAAATTTTACAATT
Found at i:7186203 original size:2 final size:2
Alignment explanation
Indices: 7186196--7186225 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7186186 ACTTCTCATG
7186196 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
7186226 CGTGTGTGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7187980 original size:2 final size:2
Alignment explanation
Indices: 7187973--7188000 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7187963 TACCCTAGCT
7187973 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
7188001 GGCTTAGTGA
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:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7194399 original size:21 final size:21
Alignment explanation
Indices: 7194364--7194404 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7194354 ATCTATAAAG
** *
7194364 TAAAAATAATTGAAATAAAAA
1 TAAAAATAAAAGAAACAAAAA
7194385 TAAAAATAAAAGAAACAAAA
1 TAAAAATAAAAGAAACAAAA
7194405 TTTAATTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (21 bp):
TAAAAATAAAAGAAACAAAAA
Found at i:7200663 original size:6 final size:6
Alignment explanation
Indices: 7200628--7200696 Score: 81
Period size: 6 Copynumber: 11.5 Consensus size: 6
7200618 GTCTACTTGC
*
7200628 AAAAT- AAAAT- AAAATA GAAGGAATA TAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA -AA--AATA AAAATA AAAATA AAAATA AAAATA
7200677 AAAATA AAAAT- AAAATA AAA
1 AAAATA AAAATA AAAATA AAA
7200697 TGTGTAATTT
Statistics
Matches: 57, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
5 15 0.26
6 35 0.61
7 2 0.04
8 1 0.02
9 4 0.07
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:7211562 original size:50 final size:50
Alignment explanation
Indices: 7211504--7211600 Score: 194
Period size: 50 Copynumber: 1.9 Consensus size: 50
7211494 AGTAGAGGGG
7211504 AGGAAAATATAAATTGATTCTAATTTGCTTATCTGTCATCGCTATTTACT
1 AGGAAAATATAAATTGATTCTAATTTGCTTATCTGTCATCGCTATTTACT
7211554 AGGAAAATATAAATTGATTCTAATTTGCTTATCTGTCATCGCTATTT
1 AGGAAAATATAAATTGATTCTAATTTGCTTATCTGTCATCGCTATTT
7211601 TTGCATGTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.42
Consensus pattern (50 bp):
AGGAAAATATAAATTGATTCTAATTTGCTTATCTGTCATCGCTATTTACT
Found at i:7211816 original size:13 final size:12
Alignment explanation
Indices: 7211795--7211824 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
7211785 TCTTTTCAAC
7211795 AAAAAAAAAAAT
1 AAAAAAAAAAAT
7211807 AAAAACAAAAAAT
1 AAAAA-AAAAAAT
7211820 AAAAA
1 AAAAA
7211825 TACTCCTCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.90, C:0.03, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAAAAAAAAAT
Found at i:7215011 original size:33 final size:32
Alignment explanation
Indices: 7214974--7215134 Score: 135
Period size: 33 Copynumber: 4.8 Consensus size: 32
7214964 ACATTCCTAG
* **
7214974 TGCCATAACCCAATTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATCAGAA
* * *
7215007 TGCCATAGCCCAGCTATAGTCTTACATATAAACA
1 TGCCATAGCCCAGCTATGGTCTTACAT-CAGA-A
* * * * *
7215041 TTGCCAT-GCTCCAACCATGGTCTTACTTTCATAG
1 -TGCCATAGC-CCAGCTATGGTCTTAC-ATCAGAA
* *
7215075 TGCCATAACCCAGTTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATCAGAA
7215108 TGCCATAGCCCAGCTATGGTCTTACAT
1 TGCCATAGCCCAGCTATGGTCTTACAT
7215135 ATACACACTG
Statistics
Matches: 99, Mismatches: 22, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
32 6 0.06
33 66 0.67
34 5 0.05
35 21 0.21
36 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (32 bp):
TGCCATAGCCCAGCTATGGTCTTACATCAGAA
Found at i:7215155 original size:101 final size:101
Alignment explanation
Indices: 7214962--7215202 Score: 392
Period size: 101 Copynumber: 2.4 Consensus size: 101
7214952 AATTCATCAT
*
7214962 TTACATTCCTAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATAGT
1 TTACATTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATAGT
* * *
7215027 CTTACATATAAACATTGCCATGCTCCAACCATGGTC
66 CTTACATATAAACACTGACACGCTCCAACCATGGTC
* * *
7215063 TTACTTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
1 TTACATTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATAGT
* *
7215128 CTTACATATACACACTGACACGGTCCAACCATGGTC
66 CTTACATATAAACACTGACACGCTCCAACCATGGTC
*
7215164 TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATCA
1 TTACATTCATAGTGCCATAACCCAATTATGGTCTTATCA
7215203 GTCAATTCAT
Statistics
Matches: 129, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 129 1.00
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (101 bp):
TTACATTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATAGT
CTTACATATAAACACTGACACGCTCCAACCATGGTC
Found at i:7217113 original size:12 final size:13
Alignment explanation
Indices: 7217091--7217124 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
7217081 GTTTTGGGGT
*
7217091 TTTAAGGTTAGGG
1 TTTAGGGTTAGGG
7217104 -TTAGGGTTAGGG
1 TTTAGGGTTAGGG
7217116 TTTAGGGTT
1 TTTAGGGTT
7217125 TTTAGGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.41
Consensus pattern (13 bp):
TTTAGGGTTAGGG
Found at i:7217533 original size:125 final size:125
Alignment explanation
Indices: 7217311--7217723 Score: 637
Period size: 125 Copynumber: 3.3 Consensus size: 125
7217301 ATTTATTAAG
* * * *
7217311 GAAATCACTCCCACATGGACGCGTTTTTGATACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAT
1 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* *
7217376 GTTTCTGAGCAAATAGTATAAAAAACACTTCAAGCAGGATGCTTTATGAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
* * * * *
7217436 GAAATCGCTCCCGCGTGGACACGCTTTTGCTACAATAGGTCTTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* *
7217501 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGTTTTATCAGAAGGATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
* * *
7217561 GAAATCGGTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTTGAGTTGAC
1 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* * *
7217626 GTTTTTGAGCAAATAGTATAAAAAATGCTTCAAGTAGGATGCTTTATCAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
* *
7217686 GAAATCGCTACCACATGGATGCGCTTTTGCTACAGTAG
1 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAG
7217724 CATGTTTGGG
Statistics
Matches: 260, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
125 260 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (125 bp):
GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
Found at i:7220811 original size:49 final size:49
Alignment explanation
Indices: 7220756--7220876 Score: 224
Period size: 49 Copynumber: 2.5 Consensus size: 49
7220746 TAAGAATATT
7220756 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
*
7220805 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAATTA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
*
7220854 AACTATTTTTTATTTTATTACAT
1 AACTATTTTGTATTTTATTACAT
7220877 TAATATAAAC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 70 1.00
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (49 bp):
AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
Found at i:7221040 original size:21 final size:21
Alignment explanation
Indices: 7221016--7221055 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7221006 TTGTGGTTGG
7221016 TCCGGT-GGAGATTCTGGTTCA
1 TCCGGTAGGAGA-TCTGGTTCA
*
7221037 TCCGGTAGGGGATCTGGTT
1 TCCGGTAGGAGATCTGGTT
7221056 GTTGATGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.12, C:0.17, G:0.38, T:0.33
Consensus pattern (21 bp):
TCCGGTAGGAGATCTGGTTCA
Found at i:7221338 original size:18 final size:18
Alignment explanation
Indices: 7221297--7221339 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
7221287 GATTAGAAAA
* * *
7221297 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
*
7221315 ATGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
7221333 AGGATAC
1 AGGATAC
7221340 GCACCTGGCA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:7223176 original size:11 final size:11
Alignment explanation
Indices: 7223162--7223248 Score: 51
Period size: 11 Copynumber: 8.3 Consensus size: 11
7223152 GAGAAAGTTA
7223162 AGAGGAAATTG
1 AGAGGAAATTG
*
7223173 AGAGCAAATTG
1 AGAGGAAATTG
**
7223184 AGATTAAA-T-
1 AGAGGAAATTG
* *
7223193 A-TGG-ATTTG
1 AGAGGAAATTG
7223202 AGA-GAAATTTG
1 AGAGGAAA-TTG
7223213 -GAAGGAAATTG
1 AG-AGGAAATTG
* *
7223224 AGAGCAATTTG
1 AGAGGAAATTG
7223235 AGAGGAAATTG
1 AGAGGAAATTG
7223246 AGA
1 AGA
7223249 AAATAATTGA
Statistics
Matches: 55, Mismatches: 13, Indels: 16
0.65 0.15 0.19
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 3 0.05
11 42 0.76
12 5 0.09
ACGTcount: A:0.44, C:0.02, G:0.30, T:0.24
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:7223224 original size:22 final size:22
Alignment explanation
Indices: 7223199--7223261 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 22
7223189 AAATATGGAT
7223199 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAG-AGGAAA
*
7223221 TTGAGAGCAATTTGAGAGGAAA
1 TTGAGAGAAATTTGAGAGGAAA
7223243 TTGAGA-AAATAATTGAGAG
1 TTGAGAGAAAT--TTGAGAG
7223262 AGTATTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
21 3 0.08
22 25 0.69
23 8 0.22
ACGTcount: A:0.44, C:0.02, G:0.30, T:0.24
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:7224790 original size:28 final size:28
Alignment explanation
Indices: 7224757--7224812 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
7224747 GCCCAAATTT
*
7224757 TCGAAGAGATTATTATAGAAACCAAACC
1 TCGAAGAGATTATGATAGAAACCAAACC
* *
7224785 TCGAAGAGATTATGCTAGAAATCAAACC
1 TCGAAGAGATTATGATAGAAACCAAACC
7224813 GACTTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (28 bp):
TCGAAGAGATTATGATAGAAACCAAACC
Found at i:7237879 original size:16 final size:17
Alignment explanation
Indices: 7237850--7237882 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
7237840 CAAATTTTTA
7237850 AAAATATTAATTTAATAT
1 AAAATATT-ATTTAATAT
7237868 AAAATATT-TTTAATA
1 AAAATATTATTTAATA
7237883 CTATAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAATATTATTTAATAT
Found at i:7237930 original size:16 final size:16
Alignment explanation
Indices: 7237900--7237949 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
7237890 TATATATGTA
7237900 TAATAAAAATATAAAAT
1 TAAT-AAAATATAAAAT
* *
7237917 TAATAAAATTTAAATT
1 TAATAAAATATAAAAT
*
7237933 TAATAACAACATAAAAT
1 TAATAA-AATATAAAAT
7237950 ATATAATGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 16 0.59
17 11 0.41
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (16 bp):
TAATAAAATATAAAAT
Found at i:7238658 original size:18 final size:20
Alignment explanation
Indices: 7238647--7238683 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7238637 TATATAATGT
7238647 ACTACTATTATATATATATA
1 ACTACTATTATATATATATA
*
7238667 ACTATTATTATAT-TATA
1 ACTACTATTATATATATA
7238684 GATTATAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (20 bp):
ACTACTATTATATATATATA
Found at i:7239326 original size:19 final size:17
Alignment explanation
Indices: 7239298--7239341 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
7239288 CTAGTAATAC
*
7239298 ATAAAATATTATTATCTTA
1 ATAAATTATTATT-T-TTA
7239317 ATAAATTATTATTTTTA
1 ATAAATTATTATTTTTA
*
7239334 TTAAATTA
1 ATAAATTA
7239342 GATTTTGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 10 0.43
18 1 0.04
19 12 0.52
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
ATAAATTATTATTTTTA
Found at i:7239520 original size:14 final size:15
Alignment explanation
Indices: 7239501--7239533 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
7239491 TATATTTGAG
7239501 TTTTAG-TATAAATA
1 TTTTAGATATAAATA
7239515 TTTTAGAATATAAATA
1 TTTTAG-ATATAAATA
7239531 TTT
1 TTT
7239534 GGTTTATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
16 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (15 bp):
TTTTAGATATAAATA
Found at i:7241621 original size:41 final size:43
Alignment explanation
Indices: 7241575--7241659 Score: 120
Period size: 41 Copynumber: 2.0 Consensus size: 43
7241565 AGGGTAAATC
* * *
7241575 CAACAACTCAAGTTTATCTTCT-C-CTTTTTAAATTCATTTTT
1 CAACAACCCAAGATTATCTACTCCTCTTTTTAAATTCATTTTT
*
7241616 CAACAACCCAAGATTATCTACTCCTCTTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTATCTACTCCTCTTTTTAAATTCATTTTT
7241659 C
1 C
7241660 TAGGATAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 19 0.50
42 1 0.03
43 18 0.47
ACGTcount: A:0.27, C:0.25, G:0.02, T:0.46
Consensus pattern (43 bp):
CAACAACCCAAGATTATCTACTCCTCTTTTTAAATTCATTTTT
Found at i:7244636 original size:13 final size:13
Alignment explanation
Indices: 7244618--7244648 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
7244608 CTGTTTTTAA
7244618 AAAATAATATTTT
1 AAAATAATATTTT
*
7244631 AAAATAGTATTTT
1 AAAATAATATTTT
7244644 AAAAT
1 AAAAT
7244649 TTTTTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (13 bp):
AAAATAATATTTT
Found at i:7245872 original size:107 final size:108
Alignment explanation
Indices: 7245609--7245875 Score: 290
Period size: 107 Copynumber: 2.4 Consensus size: 108
7245599 AAAAAATTGA
* ** * **
7245609 TGCTGGCCA-GAAGATGGCCGACACCAAGTACAATTTTCGGTTCCCAAAGCACATTTCTTTTGCT
1 TGCTGGCCATGTA-ATGGCCGACACCAAGTACAATTTTCGACTCCCAATG--CATTT-TTTTATT
* * *
7245673 TTGGGACACTGATGGCCAGCACCAGTGTATTTAAAAGAAATTTTTGGG
62 TTGGAACACTGATGGCCAGCACCAGTGTATTTAAAAGAAA-TATTAGG
*
7245721 TGCTGGTCATGTAATGGCCGACACCAAGTACAATTTTCGACTCCCAATGCATTTTTTTATTTTGG
1 TGCTGGCCATGTAATGGCCGACACCAAGTACAATTTTCGACTCCCAATGCATTTTTTTATTTTGG
*
7245786 AACACTGATGGCC-GACACCAGTGTGTTTTAAAA-AAA-ATTAGG
66 AACACTGATGGCCAG-CACCAGTGT-ATTTAAAAGAAATATTAGG
* ** * * *
7245828 TGCTGGCCATGTAATGGTCGGTACCAAGTACATTTTTTGCCTCCCAAT
1 TGCTGGCCATGTAATGGCCGACACCAAGTACAATTTTCGACTCCCAAT
7245876 ACAATATTTT
Statistics
Matches: 134, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
107 45 0.34
108 1 0.01
109 33 0.25
110 12 0.09
112 41 0.31
113 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (108 bp):
TGCTGGCCATGTAATGGCCGACACCAAGTACAATTTTCGACTCCCAATGCATTTTTTTATTTTGG
AACACTGATGGCCAGCACCAGTGTATTTAAAAGAAATATTAGG
Found at i:7248638 original size:21 final size:21
Alignment explanation
Indices: 7248613--7248652 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
7248603 TATTTAAAAT
7248613 TAAATATAAATTGTTTTATAG
1 TAAATATAAATTGTTTTATAG
7248634 TAAATATAAATTGTTTTAT
1 TAAATATAAATTGTTTTAT
7248653 TTCTCGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (21 bp):
TAAATATAAATTGTTTTATAG
Found at i:7248678 original size:78 final size:78
Alignment explanation
Indices: 7248549--7248695 Score: 294
Period size: 78 Copynumber: 1.9 Consensus size: 78
7248539 AGATCCTGCA
7248549 TTTATAGTAAATATAAATTGTTTTATTTCTCGTTTAAAAAAGAATTTAAATGAATATTTAAAATT
1 TTTATAGTAAATATAAATTGTTTTATTTCTCGTTTAAAAAAGAATTTAAATGAATATTTAAAATT
7248614 AAATATAAATTGT
66 AAATATAAATTGT
7248627 TTTATAGTAAATATAAATTGTTTTATTTCTCGTTTAAAAAAGAATTTAAATGAATATTTAAAATT
1 TTTATAGTAAATATAAATTGTTTTATTTCTCGTTTAAAAAAGAATTTAAATGAATATTTAAAATT
7248692 AAAT
66 AAAT
7248696 GGAACATTTT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 69 1.00
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (78 bp):
TTTATAGTAAATATAAATTGTTTTATTTCTCGTTTAAAAAAGAATTTAAATGAATATTTAAAATT
AAATATAAATTGT
Found at i:7249073 original size:11 final size:11
Alignment explanation
Indices: 7249053--7249095 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
7249043 AATTTTTTTT
7249053 CATTTCATTTC
1 CATTTCATTTC
*
7249064 CATTTTATTT-
1 CATTTCATTTC
7249074 CATTTACATTTC
1 CATTT-CATTTC
7249086 CATTTCATTT
1 CATTTCATTT
7249096 AAATTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 5 0.18
11 18 0.64
12 5 0.18
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.58
Consensus pattern (11 bp):
CATTTCATTTC
Found at i:7249083 original size:6 final size:5
Alignment explanation
Indices: 7249050--7249095 Score: 56
Period size: 5 Copynumber: 8.6 Consensus size: 5
7249040 TCAAATTTTT
*
7249050 TTTCA TTTCA TTTCCA TTTTA TTTCA TTTACA TTTCCA TTTCA TTT
1 TTTCA TTTCA TTT-CA TTTCA TTTCA TTT-CA TTT-CA TTTCA TTT
7249096 AAATTTAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
5 21 0.58
6 15 0.42
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.61
Consensus pattern (5 bp):
TTTCA
Found at i:7249083 original size:22 final size:21
Alignment explanation
Indices: 7249044--7249095 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
7249034 GTCCTTTCAA
*
7249044 ATTTTTTTTCATTTCATTTCC
1 ATTTTATTTCATTTCATTTCC
7249065 ATTTTATTTCATTTACATTTCC
1 ATTTTATTTCATTT-CATTTCC
*
7249087 ATTTCATTT
1 ATTTTATTT
7249096 AAATTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 13 0.46
22 15 0.54
ACGTcount: A:0.19, C:0.17, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTTATTTCATTTCATTTCC
Found at i:7249131 original size:17 final size:18
Alignment explanation
Indices: 7249111--7249154 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
7249101 TAATTATTTC
7249111 TCATTTCAAATTTT-TTT
1 TCATTTCAAATTTTGTTT
**
7249128 TCATTTCAGTTTTTGTTT
1 TCATTTCAAATTTTGTTT
*
7249146 TCGTTTCAA
1 TCATTTCAA
7249155 TTTATAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.18, C:0.14, G:0.07, T:0.61
Consensus pattern (18 bp):
TCATTTCAAATTTTGTTT
Found at i:7249208 original size:5 final size:5
Alignment explanation
Indices: 7249179--7249261 Score: 53
Period size: 5 Copynumber: 15.6 Consensus size: 5
7249169 TCATTTAAAC
* * * *
7249179 TTTCA TTCCA TTTCA TAATCA --TCA TTTCA TATTCA TTACAAA TTACA
1 TTTCA TTTCA TTTCA T-TTCA TTTCA TTTCA T-TTCA TTTC--A TTTCA
7249226 TTTCA TTTCA TTTCA TATTCA TTTAACA TTTCA TTT
1 TTTCA TTTCA TTTCA T-TTCA TTT--CA TTTCA TTT
7249262 AATTATTTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 18
0.74 0.06 0.21
Matches are distributed among these distances:
3 3 0.05
5 38 0.59
6 13 0.20
7 10 0.16
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.51
Consensus pattern (5 bp):
TTTCA
Found at i:7249248 original size:11 final size:11
Alignment explanation
Indices: 7249200--7249249 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
7249190 TTCATAATCA
7249200 TCATTTCATAT
1 TCATTTCATAT
* *
7249211 TCATTACAAAT
1 TCATTTCATAT
7249222 TACATTTCAT-T
1 T-CATTTCATAT
7249233 TCATTTCATAT
1 TCATTTCATAT
7249244 TCATTT
1 TCATTT
7249250 AACATTTCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 8 0.24
11 19 0.58
12 6 0.18
ACGTcount: A:0.30, C:0.18, G:0.00, T:0.52
Consensus pattern (11 bp):
TCATTTCATAT
Found at i:7249275 original size:18 final size:20
Alignment explanation
Indices: 7249254--7249293 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
7249244 TCATTTAACA
7249254 TTTCATTT-AA-TTATTTTT
1 TTTCATTTAAATTTATTTTT
7249272 TTTCATTTAAATTTATTTTT
1 TTTCATTTAAATTTATTTTT
7249292 TT
1 TT
7249294 CCTAACATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 2 0.10
20 10 0.50
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTCATTTAAATTTATTTTT
Found at i:7249278 original size:23 final size:23
Alignment explanation
Indices: 7249226--7249279 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
7249216 ACAAATTACA
*
7249226 TTTCATTTCATTTCATATTCATT
1 TTTCATTTCATTTAATATTCATT
** *
7249249 TAACATTTCATTTAATTATT-TTT
1 TTTCATTTCATTTAA-TATTCATT
7249272 TTTCATTT
1 TTTCATTT
7249280 AAATTTATTT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTCATTTCATTTAATATTCATT
Found at i:7249451 original size:21 final size:22
Alignment explanation
Indices: 7249425--7249466 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7249415 TATCAAGGGC
7249425 ATTTAAA-ATTTT-TCATATTTT
1 ATTTAAATATTTTCTCA-ATTTT
7249446 ATTTAAATATTTTCTCAATTT
1 ATTTAAATATTTTCTCAATTT
7249467 AAATATCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 9 0.47
23 3 0.16
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTAAATATTTTCTCAATTTT
Found at i:7249691 original size:17 final size:17
Alignment explanation
Indices: 7249669--7249711 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
7249659 CATTTTTTTT
**
7249669 CATTTCATTGGTATTTC
1 CATTTCATTGCCATTTC
*
7249686 CATTTCATTTCCATTTC
1 CATTTCATTGCCATTTC
7249703 CATTTCATT
1 CATTTCATT
7249712 TAAATTATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.19, C:0.23, G:0.05, T:0.53
Consensus pattern (17 bp):
CATTTCATTGCCATTTC
Found at i:7249695 original size:11 final size:12
Alignment explanation
Indices: 7249681--7249712 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
7249671 TTTCATTGGT
7249681 ATTTCCATTT-C
1 ATTTCCATTTCC
7249692 ATTTCCATTTCC
1 ATTTCCATTTCC
7249704 ATTT-CATTT
1 ATTTCCATTT
7249713 AAATTATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.19, C:0.25, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTTCCATTTCC
Found at i:7249700 original size:6 final size:6
Alignment explanation
Indices: 7249681--7249712 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
7249671 TTTCATTGGT
7249681 ATTTCC ATTT-C ATTTCC ATTTCC ATTT-C ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
7249713 AAATTATCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.19, C:0.25, G:0.00, T:0.56
Consensus pattern (6 bp):
ATTTCC
Found at i:7249730 original size:28 final size:28
Alignment explanation
Indices: 7249699--7249774 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 28
7249689 TTCATTTCCA
7249699 TTTCCATTTCATTTAAATTATCTTTTTT
1 TTTCCATTTCATTTAAATTATCTTTTTT
**
7249727 TTT-C----CATTTAAATT-TAATTTTT
1 TTTCCATTTCATTTAAATTATCTTTTTT
*
7249749 TTCCTCATTTCATTTAAATTATCTTT
1 TTTC-CATTTCATTTAAATTATCTTT
7249775 CTTCCCATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 13
0.67 0.09 0.24
Matches are distributed among these distances:
22 8 0.22
23 10 0.28
24 1 0.03
27 1 0.03
28 13 0.36
29 3 0.08
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTCCATTTCATTTAAATTATCTTTTTT
Found at i:7249734 original size:23 final size:23
Alignment explanation
Indices: 7249708--7249822 Score: 71
Period size: 23 Copynumber: 4.9 Consensus size: 23
7249698 ATTTCCATTT
7249708 CATTTAAATTATCTTTTTTTTTC
1 CATTTAAATTATCTTTTTTTTTC
*
7249731 CATTTAAATTTAAT-TTTTTTCCTCATTT
1 CATTTAAA-TT-ATCTTTTTT--T--TTC
* *
7249759 CATTTAAATTATC--TTTCTTCC
1 CATTTAAATTATCTTTTTTTTTC
*
7249780 CATTTTAATT-T-TTTTTGTCATTT-
1 CATTTAAATTATCTTTTT-T--TTTC
7249803 CATTTAAATTATCTTTTTTT
1 CATTTAAATTATCTTTTTTT
7249823 ATATTTAAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 29
0.65 0.07 0.27
Matches are distributed among these distances:
20 1 0.01
21 13 0.19
22 1 0.01
23 18 0.26
24 12 0.17
25 10 0.14
26 3 0.04
27 2 0.03
28 10 0.14
ACGTcount: A:0.23, C:0.14, G:0.01, T:0.63
Consensus pattern (23 bp):
CATTTAAATTATCTTTTTTTTTC
Found at i:7249819 original size:27 final size:26
Alignment explanation
Indices: 7249789--7249876 Score: 71
Period size: 26 Copynumber: 3.5 Consensus size: 26
7249779 CCATTTTAAT
7249789 TTTTTTTGTCATTTCATTTAAATTATC
1 TTTTTTT-TCATTTCATTTAAATTATC
7249816 -TTTTTTT-A--T-ATTTAAATTTAAT-
1 TTTTTTTTCATTTCATTTAAA-TT-ATC
* *
7249838 TTTTTTCTCATTTCATTTAGATTATC
1 TTTTTTTTCATTTCATTTAAATTATC
* *
7249864 TTTCTTTCCATTT
1 TTTTTTTTCATTT
7249877 TAATTTACGT
Statistics
Matches: 48, Mismatches: 5, Indels: 17
0.69 0.07 0.24
Matches are distributed among these distances:
21 7 0.15
22 3 0.06
23 8 0.17
24 2 0.04
25 3 0.06
26 19 0.40
27 6 0.12
ACGTcount: A:0.22, C:0.11, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTTTTTTCATTTCATTTAAATTATC
Found at i:7249862 original size:92 final size:94
Alignment explanation
Indices: 7249703--7249882 Score: 310
Period size: 92 Copynumber: 1.9 Consensus size: 94
7249693 TTTCCATTTC
*
7249703 CATTTCATTTAAATTATCTTTTTTTTTCCATTTAAATTTAATTTTTTTCCTCATTTCATTTAAAT
1 CATTTCATTTAAATTATCTTTTTTTAT-CATTTAAATTTAATTTTTTTCCTCATTTCATTTAAAT
7249768 TATCTTTCTTCCCATTTTAATTTTTTTTGT
65 TATCTTTCTTCCCATTTTAATTTTTTTTGT
*
7249798 CATTTCATTTAAATTATCTTTTTTTAT-ATTTAAATTTAATTTTTTT-CTCATTTCATTTAGATT
1 CATTTCATTTAAATTATCTTTTTTTATCATTTAAATTTAATTTTTTTCCTCATTTCATTTAAATT
*
7249861 ATCTTTCTTTCCATTTTAATTT
66 ATCTTTCTTCCCATTTTAATTT
7249883 ACGTTTTTTA
Statistics
Matches: 82, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
92 37 0.45
93 19 0.23
95 26 0.32
ACGTcount: A:0.23, C:0.13, G:0.01, T:0.62
Consensus pattern (94 bp):
CATTTCATTTAAATTATCTTTTTTTATCATTTAAATTTAATTTTTTTCCTCATTTCATTTAAATT
ATCTTTCTTCCCATTTTAATTTTTTTTGT
Found at i:7249891 original size:49 final size:48
Alignment explanation
Indices: 7249699--7249883 Score: 227
Period size: 48 Copynumber: 3.9 Consensus size: 48
7249689 TTCATTTCCA
*
7249699 TTTC-CATTTCATTTAAATTATCTTTTTTTTTCCATTTAAATTTAATTTT
1 TTTCTCATTTCATTTAAATTATC--TTTCTTTCCATTTAAATTTAATTTT
* *
7249748 TTTCCTCATTTCATTTAAATTATCTTTCTTCCCATTTTAA--T--TTTT
1 TTT-CTCATTTCATTTAAATTATCTTTCTTTCCATTTAAATTTAATTTT
* * **
7249793 TTTGTCATTTCATTTAAATTATCTTTTTTTATATTTAAATTTAATTTT
1 TTTCTCATTTCATTTAAATTATCTTTCTTTCCATTTAAATTTAATTTT
* *
7249841 TTTCTCATTTCATTTAGATTATCTTTCTTTCCATTTTAATTTA
1 TTTCTCATTTCATTTAAATTATCTTTCTTTCCATTTAAATTTA
7249884 CGTTTTTTAC
Statistics
Matches: 115, Mismatches: 15, Indels: 13
0.80 0.10 0.09
Matches are distributed among these distances:
44 30 0.26
45 7 0.06
46 1 0.01
47 1 0.01
48 41 0.36
49 16 0.14
50 1 0.01
51 18 0.16
ACGTcount: A:0.23, C:0.14, G:0.01, T:0.62
Consensus pattern (48 bp):
TTTCTCATTTCATTTAAATTATCTTTCTTTCCATTTAAATTTAATTTT
Found at i:7249921 original size:92 final size:92
Alignment explanation
Indices: 7249732--7249921 Score: 233
Period size: 92 Copynumber: 2.1 Consensus size: 92
7249722 TTTTTTTTCC
**
7249732 ATTTAAATTTAATTTTTTTCCTCATTTCATTTAAATTATCTTTCTTCCCATTTTAATTTTTTTTG
1 ATTTAAATTTAATTTTTTTCCTCATTTCATTTAAATTATCTTTCTTCCCATTTTAATTTCGTTTG
* * **
7249797 TCATTTCATTTAAATTATCTTTTTTTAT
66 T-ATTACATTTAAATTATCTCTCATTAT
* *
7249825 ATTTAAATTTAATTTTTTT-CTCATTTCATTTAGATTATCTTTCTTTCCATTTTAATTTACGTTT
1 ATTTAAATTTAATTTTTTTCCTCATTTCATTTAAATTATCTTTCTTCCCATTTTAATTT-CGTTT
* *
7249889 -T-TTACATATTAATTTTTCTCTCATTAT
65 GTATTACAT-TTAAATTATCTCTCATTAT
7249916 AATTTA
1 -ATTTA
7249922 TTTCATTTAA
Statistics
Matches: 84, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
90 5 0.06
91 14 0.17
92 43 0.51
93 22 0.26
ACGTcount: A:0.25, C:0.13, G:0.02, T:0.61
Consensus pattern (92 bp):
ATTTAAATTTAATTTTTTTCCTCATTTCATTTAAATTATCTTTCTTCCCATTTTAATTTCGTTTG
TATTACATTTAAATTATCTCTCATTAT
Found at i:7252987 original size:108 final size:108
Alignment explanation
Indices: 7252857--7253120 Score: 284
Period size: 109 Copynumber: 2.4 Consensus size: 108
7252847 TTTTATTAAA
* * * *
7252857 TGTACTTGGTGCCGGTCGTTACATGGCTAGCACCTAAATTTTTTTTTAAATACACTGGTGCT-GA
1 TGTACTTGGTGCCGGCCATTACATGGCCAGCACC-AAATTTTTTTTTAAATACACTAGT-CTCGA
* * * **
7252921 CCGTCAGTGTTCCAAAATAAAAAAA-TGCATTGGGAGTCGAAAAT
64 CCATCAGTGTCCCAAAATAAAAAAAGTGCATTGAGAACCGAAAAT
* * *
7252965 TGTATTTGGTGCCGGCCATTACATGACCAGCACCCAAATTTTTTTTTTAAATACACTAGTCTCGG
1 TGTACTTGGTGCCGGCCATTACATGGCCAGCA-CCAAA-TTTTTTTTTAAATACACTAGTCTCGA
* * *
7253030 TCATCAGTGTCCCAAAGTAAAAAAATGTGCCTTGAGAACCGAAAAT
64 CCATCAGTGTCCCAAAATAAAAAAA-GTGCATTGAGAACCGAAAAT
* *
7253076 TGTAGC-TAGTGCCGGCCATCTA-TTGGCCAGCACCAAATTTTTTTT
1 TGTA-CTTGGTGCCGGCCAT-TACATGGCCAGCACCAAATTTTTTTT
7253121 ATTATTGTCT
Statistics
Matches: 130, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
108 32 0.25
109 52 0.40
110 5 0.04
111 39 0.30
112 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (108 bp):
TGTACTTGGTGCCGGCCATTACATGGCCAGCACCAAATTTTTTTTTAAATACACTAGTCTCGACC
ATCAGTGTCCCAAAATAAAAAAAGTGCATTGAGAACCGAAAAT
Found at i:7254644 original size:113 final size:113
Alignment explanation
Indices: 7254304--7255016 Score: 981
Period size: 113 Copynumber: 6.3 Consensus size: 113
7254294 AAAATAAGCA
* * * * *
7254304 TTAGCGGCGTTTTTATAAAAGCGCCGCAAAAAGCCAAAGACAAACGGCACCGTTTTCTGATTTTT
1 TTAGCGGCGTTTTT-TTAAAGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTT
* *
7254369 TGGGGTCTTTAGCGGCGTTTTCTGTAAAAGCGCCGCTAATGCTCAGGTTT
65 TGGGGTCTTTAGCGGCGTTTTATGT-AAAGCGCCGCTAATGCTCAGGTCT
* * * *
7254419 TTAGCGGCGTTGTTTTAAGAGCGCCGCAAAGAGTCTAAACCCAACGGCACCGTTTTCTGAG-TTT
1 TTAGCGGCGTTTTTTTAA-AGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTT
* * * *
7254483 TGGGGTCTTTAGTGGCG-TTTATGTAAAGTGCCGCTAATGCTTATGTCT
65 TGGGGTCTTTAGCGGCGTTTTATGTAAAGCGCCGCTAATGCTCAGGTCT
* **
7254531 TTAGCGACGTTTTTTTAAAGCGCCGCAAAAAAGCCTAAGCTTAACGGCACCGTTTTCTGAGTTTT
1 TTAGCGGCGTTTTTTTAAAGCGCCGC-AAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTT
* *
7254596 TGGGGTCTTTCGCGGCG-TTTATGTAAAGCGCCGCTAATGTTCAGGTCT
65 TGGGGTCTTTAGCGGCGTTTTATGTAAAGCGCCGCTAATGCTCAGGTCT
*
7254644 TTAGTGGCGTTTTTTTAAATGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTT
1 TTAGCGGCGTTTTTTTAAA-GCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAG-TTT
* *
7254709 TTGGGGTCTTTAGCGGCGCATTTA--TAAAGCGCCGCTAATGCTGAGGTCT
64 TTGGGGTCTTTAGCGGCG-TTTTATGTAAAGCGCCGCTAATGCTCAGGTCT
** *
7254758 TTAGCGGCGTTTTCTCAAAAGCGCCGCAAAAAGCCTAAACCCAACGGCACCGTTTTCTGAGTTTT
1 TTAGCGGCGTTTT-TTTAAAGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTT
* *
7254823 GGGGGTCTTTAGTGGCGTTTTATGTAAAGCGCCGCTAATGCTCAGGTCT
65 TGGGGTCTTTAGCGGCGTTTTATGTAAAGCGCCGCTAATGCTCAGGTCT
7254872 TTAGCGGCGTTTTTTTAAATGCGCCGC-AAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTT
1 TTAGCGGCGTTTTTTTAAA-GCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTT
* * * * *
7254936 TGGGGACTTTAGCGGCGTTTT-TGAATAAGCGCCGCTAATGCTGATGCCT
65 TGGGGTCTTTAGCGGCGTTTTATGTA-AAGCGCCGCTAATGCTCAGGTCT
7254985 TTAGCGGCGTTTTTTGTAAAGCGCCGCAAAAA
1 TTAGCGGCGTTTTTT-TAAAGCGCCGCAAAAA
7255017 CATTTTATCT
Statistics
Matches: 531, Mismatches: 53, Indels: 29
0.87 0.09 0.05
Matches are distributed among these distances:
111 8 0.02
112 72 0.14
113 219 0.41
114 176 0.33
115 52 0.10
116 4 0.01
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (113 bp):
TTAGCGGCGTTTTTTTAAAGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTTT
GGGGTCTTTAGCGGCGTTTTATGTAAAGCGCCGCTAATGCTCAGGTCT
Found at i:7254713 original size:227 final size:225
Alignment explanation
Indices: 7254304--7255016 Score: 1015
Period size: 227 Copynumber: 3.1 Consensus size: 225
7254294 AAAATAAGCA
* *
7254304 TTAGCGGCGTTTTTATAAAAGCGCCGCAAAAAGCCAAAGACAAACGGCACCGTTTTCTGATTTTT
1 TTAGCGGCGTTTTT-TAAAAGCGCCGCAAAAAGCCTAAG-CAAACGGCACCGTTTTCTGAGTTTT
* * *
7254369 TGGGGTCTTTAGCGGCGTTTTCTGTAAAAGCGCCGCTAATGCTCAGGTTTTTAGCGGCGTTGTTT
64 TGGGGTCTTTAGCGGCGTTTTATGT-AAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTT
* * * *
7254434 TAAGA-GCGCCGCAAAGAGTCTAAACCCAACGGCACCGTTTTCTGAG-TTTTGGGGTCTTTAGTG
128 TAA-ATGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTTTGGGGTCTTTAGCG
* *
7254497 GCGTTTATGTAAAGTGCCGCTAATGCTTATGTCT
192 GCGTTTATGTAAAGCGCCGCTAATGCTGATGTCT
* * *
7254531 TTAGCGACGTTTTTTTAAAGCGCCGCAAAAAAGCCTAAGCTTAACGGCACCGTTTTCTGAGTTTT
1 TTAGCGGCGTTTTTTAAAAGCGCCGC-AAAAAGCCTAAGC-AAACGGCACCGTTTTCTGAGTTTT
* * *
7254596 TGGGGTCTTTCGCGGCG-TTTATGTAAAGCGCCGCTAATGTTCAGGTCTTTAGTGGCGTTTTTTT
64 TGGGGTCTTTAGCGGCGTTTTATGTAAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTTT
7254660 AAATGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTTTTGGGGTCTTTAGCGG
129 AAATGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAG-TTTTTGGGGTCTTTAGCGG
*
7254725 CGCATTTA--TAAAGCGCCGCTAATGCTGAGGTCT
193 CG--TTTATGTAAAGCGCCGCTAATGCTGATGTCT
* * *
7254758 TTAGCGGCGTTTTCTCAAAAGCGCCGCAAAAAGCCTAAACCCAACGGCACCGTTTTCTGAGTTTT
1 TTAGCGGCGTTTT-TTAAAAGCGCCGCAAAAAGCCT-AAGCAAACGGCACCGTTTTCTGAGTTTT
* *
7254823 GGGGGTCTTTAGTGGCGTTTTATGTAAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTTT
64 TGGGGTCTTTAGCGGCGTTTTATGTAAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTTT
*
7254888 AAATGCGCCGC-AAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTTTGGGGACTTTAGCGGC
129 AAATGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTTTGGGGTCTTTAGCGGC
* * *
7254952 GTTTTTGAATAAGCGCCGCTAATGCTGATGCCT
194 GTTTATGTA-AAGCGCCGCTAATGCTGATGTCT
*
7254985 TTAGCGGCGTTTTTTGTAAAGCGCCGCAAAAA
1 TTAGCGGCGTTTTTT-AAAAGCGCCGCAAAAA
7255017 CATTTTATCT
Statistics
Matches: 437, Mismatches: 35, Indels: 28
0.87 0.07 0.06
Matches are distributed among these distances:
224 4 0.01
225 76 0.17
226 40 0.09
227 243 0.56
228 70 0.16
229 4 0.01
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (225 bp):
TTAGCGGCGTTTTTTAAAAGCGCCGCAAAAAGCCTAAGCAAACGGCACCGTTTTCTGAGTTTTTG
GGGTCTTTAGCGGCGTTTTATGTAAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTTTAA
ATGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTTTGGGGTCTTTAGCGGCGT
TTATGTAAAGCGCCGCTAATGCTGATGTCT
Found at i:7255781 original size:89 final size:89
Alignment explanation
Indices: 7255630--7255824 Score: 336
Period size: 89 Copynumber: 2.2 Consensus size: 89
7255620 ATGGTTTAAG
7255630 GTTTAGGGGTTAGGGGTTAGTGATTCGGGGTCGAGTTAGGGTTTAGGATTTAGATTAATTAGTGT
1 GTTTAGGGGTTAGGGGTTAGTGATTCGGGGTCGAGTTAGGGTTTAGGATTTAGATTAATTAGTGT
*
7255695 TTTTTAATTTATATATTAAATAAT
66 TTTTTAAATTATATATTAAATAAT
* *
7255719 GTTTAGGGGTTGGGGGTTAGTGATTCGTGGTCGAGTTAGGGTTTAGGATTTAGATTAATTAGTGT
1 GTTTAGGGGTTAGGGGTTAGTGATTCGGGGTCGAGTTAGGGTTTAGGATTTAGATTAATTAGTGT
*
7255784 TTTTTAAATTATATATTAAATAGT
66 TTTTTAAATTATATATTAAATAAT
* *
7255808 GTTTAGGGTTTAAGGGT
1 GTTTAGGGGTTAGGGGT
7255825 GGGGTTTGGG
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 99 1.00
ACGTcount: A:0.25, C:0.02, G:0.30, T:0.44
Consensus pattern (89 bp):
GTTTAGGGGTTAGGGGTTAGTGATTCGGGGTCGAGTTAGGGTTTAGGATTTAGATTAATTAGTGT
TTTTTAAATTATATATTAAATAAT
Found at i:7258855 original size:9 final size:9
Alignment explanation
Indices: 7258841--7258899 Score: 52
Period size: 9 Copynumber: 6.8 Consensus size: 9
7258831 TTTAATATTA
7258841 TACATAAAT
1 TACATAAAT
7258850 TACATAAAT
1 TACATAAAT
*
7258859 TACATAACT
1 TACATAAAT
*
7258868 TA-ATTAAT
1 TACATAAAT
*
7258876 TA-AT-ATT
1 TACATAAAT
*
7258883 ATACATATAT
1 -TACATAAAT
7258893 TACATAA
1 TACATAA
7258900 CTTGCATTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
7 2 0.05
8 10 0.25
9 27 0.68
10 1 0.03
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (9 bp):
TACATAAAT
Found at i:7258864 original size:43 final size:43
Alignment explanation
Indices: 7258816--7259525 Score: 244
Period size: 43 Copynumber: 17.0 Consensus size: 43
7258806 ATTAATATTA
* *
7258816 TACATAACTTGATTATTTAATATTATACATAAATTACATAAAT
1 TACATAACTTAATTAATTAATATTATACATAAATTACATAAAT
* *
7258859 TACATAACTTAATTAATTAATATTATACATATATTACATAACT
1 TACATAACTTAATTAATTAATATTATACATAAATTACATAAAT
* * * * **
7258902 TGCATTAA--T-ATTATACATAA-ATTAT--ATGACTTA-ATTGAT
1 TACA-TAACTTAATTA-A-TTAATATTATACATAAATTACATAAAT
* *
7258941 TA-AT-ATTATACATTAATTACATAACTTATA-TTAATATTGTACATAAAT
1 TACATAACT-TA-ATTAATTA-AT-A-TTATACATAA-A-T-TACATAAAT
* * * *
7258989 TATATGACTTAATTAATTAATATTATACATTAATTACATAACT
1 TACATAACTTAATTAATTAATATTATACATAAATTACATAAAT
* * * *
7259032 TACATTAA--T-ATTATACATAA-ATTAT--ATGACTTA-ATTAAT
1 TACA-TAACTTAATTA-A-TTAATATTATACATAAATTACATAAAT
* *
7259071 TA-AT-ATTATACATTAATTACATAACT-TACATTAATATTATACATAAAT
1 TACATAACT-TA-ATTAATTA-AT-ATTATACA-TAA-A-T-TACATAAAT
* * *
7259119 TACATGACTTAATTAATTAATATTATACATAACTTAC--AACT
1 TACATAACTTAATTAATTAATATTATACATAAATTACATAAAT
* * *
7259160 TACATAACTT-A--CATTAATATTATACTTAAATTACAT-AAG
1 TACATAACTTAATTAATTAATATTATACATAAATTACATAAAT
* * * *
7259199 T---T-AGTTAATTAATTAATATTATACATAACTTATATAACT
1 TACATAACTTAATTAATTAATATTATACATAAATTACATAAAT
* * * *
7259238 TAC--AACTTACA-TAACTT-ACATTA-ATAT-TAT-ACTTAAAT
1 TACATAACTTA-ATTAA-TTAATATTATACATAAATTACATAAAT
* * * *
7259276 TACATAAGTTAGTTAATTAATATTATACATAACTTACATAACT
1 TACATAACTTAATTAATTAATATTATACATAAATTACATAAAT
* * * *
7259319 TAC--AACTTACA-TAACTT-ACATTA-ATAT-TA-TACTTAAAT
1 TACATAACTTA-ATTAA-TTAATATTATACATAAATTACATAAAT
* * * *
7259357 TACATAAGTTAGTTAATTAATATTATACATAACTTACATAACT
1 TACATAACTTAATTAATTAATATTATACATAAATTACATAAAT
* * * *
7259400 TAC--AACTTACA-TAACTT-ACATTA-ATAT-TA-TACTTAAAT
1 TACATAACTTA-ATTAA-TTAATATTATACATAAATTACATAAAT
* * * *
7259438 TACATAAGTTAGTTAATTAATATTATACATAACTTACATAACT
1 TACATAACTTAATTAATTAATATTATACATAAATTACATAAAT
* * *
7259481 TACAACTTACATAACTTACATTAATATTATACTTAAATTACATAA
1 TAC-A-TAACTTAA-TTA-ATTAATATTATACATAAATTACATAA
7259526 GTTAGTTAAT
Statistics
Matches: 480, Mismatches: 106, Indels: 158
0.65 0.14 0.21
Matches are distributed among these distances:
35 3 0.01
36 4 0.01
37 2 0.00
38 71 0.15
39 27 0.06
40 64 0.13
41 76 0.16
42 25 0.05
43 96 0.20
44 12 0.03
45 10 0.02
46 13 0.03
47 36 0.08
48 29 0.06
49 8 0.02
50 4 0.01
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (43 bp):
TACATAACTTAATTAATTAATATTATACATAAATTACATAAAT
Found at i:7258935 original size:65 final size:65
Alignment explanation
Indices: 7258850--7259241 Score: 554
Period size: 65 Copynumber: 5.9 Consensus size: 65
7258840 ATACATAAAT
* * *
7258850 TACATAAATTACATAACTTAATTAATTAATATTATACA-TATATTACATAACTTGCATTAATATT
1 TACATAAATTATATGACTTAATTAATTAATATTATACATTA-ATTACATAACTTACATTAATATT
7258914 A
65 A
* * *
7258915 TACATAAATTATATGACTTAATTGATTAATATTATACATTAATTACATAACTTATATTAATATTG
1 TACATAAATTATATGACTTAATTAATTAATATTATACATTAATTACATAACTTACATTAATATTA
7258980 TACATAAATTATATGACTTAATTAATTAATATTATACATTAATTACATAACTTACATTAATATTA
1 TACATAAATTATATGACTTAATTAATTAATATTATACATTAATTACATAACTTACATTAATATTA
7259045 TACATAAATTATATGACTTAATTAATTAATATTATACATTAATTACATAACTTACATTAATATTA
1 TACATAAATTATATGACTTAATTAATTAATATTATACATTAATTACATAACTTACATTAATATTA
*
7259110 TACATAAATTACATGACTTAATTAATTAATATTATACATAACTTACAACTTACATAACTTACATT
1 TACATAAATTATATGACTTAATTAATTAATATTATAC---A-TT--AA-TTACATAACTTACATT
7259175 AATATTA
59 AATATTA
* * * *
7259182 TACTTAAATTACATAAGTTAGTTAATTAATTAATATTATACA-TAACTTATATAACTTACA
1 TACATAAATT--AT-A-TGACTTAATTAATTAATATTATACATTAA-TTACATAACTTACA
7259242 ACTTACATAA
Statistics
Matches: 300, Mismatches: 15, Indels: 20
0.90 0.04 0.06
Matches are distributed among these distances:
65 219 0.73
66 2 0.01
68 1 0.00
69 18 0.06
71 3 0.01
72 32 0.11
73 1 0.00
74 1 0.00
75 1 0.00
76 22 0.07
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.42
Consensus pattern (65 bp):
TACATAAATTATATGACTTAATTAATTAATATTATACATTAATTACATAACTTACATTAATATTA
Found at i:7259195 original size:81 final size:80
Alignment explanation
Indices: 7259087--7259552 Score: 752
Period size: 81 Copynumber: 5.8 Consensus size: 80
7259077 TATACATTAA
* * * *
7259087 TTACATAACTTACATTAATATTATACATAAATTACAT--G--ACTTAATT-A-ATTA-ATATTA-
1 TTACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAAC
7259144 TACATAACTTACAAC
66 TACATAACTTACAAC
7259159 TTACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATTAATATTATACA
1 TTACATAACTTACATTAATATTATACTTAAATTACATAAGTTAG----TTAATTAATATTATACA
*
7259224 TAACTTATATAACTTACAAC
62 TAAC-TACATAACTTACAAC
7259244 TTACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAAC
1 TTACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAAC
7259309 TTACATAACTTACAAC
66 -TACATAACTTACAAC
7259325 TTACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAAC
1 TTACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAAC
7259390 TTACATAACTTACAAC
66 -TACATAACTTACAAC
7259406 TTACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAAC
1 TTACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAAC
7259471 TTACATAACTTACAAC
66 -TACATAACTTACAAC
7259487 TTACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATT-ATATTATACATAAC
1 TTACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAAC
7259551 TA
66 TA
7259553 ATTTTCATAA
Statistics
Matches: 375, Mismatches: 6, Indels: 19
0.94 0.01 0.05
Matches are distributed among these distances:
72 36 0.10
74 1 0.00
76 1 0.00
79 2 0.01
80 20 0.05
81 249 0.66
82 4 0.01
83 4 0.01
85 58 0.15
ACGTcount: A:0.45, C:0.13, G:0.02, T:0.40
Consensus pattern (80 bp):
TTACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAAC
TACATAACTTACAAC
Found at i:7259244 original size:16 final size:16
Alignment explanation
Indices: 7259225--7259257 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7259215 TATTATACAT
*
7259225 AACTTATATAACTTAC
1 AACTTACATAACTTAC
7259241 AACTTACATAACTTAC
1 AACTTACATAACTTAC
7259257 A
1 A
7259258 TTAATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:7259253 original size:9 final size:9
Alignment explanation
Indices: 7259220--7259501 Score: 112
Period size: 9 Copynumber: 31.6 Consensus size: 9
7259210 ATTAATATTA
7259220 TACATAACT
1 TACATAACT
*
7259229 TATATAACT
1 TACATAACT
7259238 TAC--AACT
1 TACATAACT
7259245 TACATAACT
1 TACATAACT
*
7259254 TACATTAATATT
1 TACA-T-A-ACT
* *
7259266 ATACTTAAAT
1 -TACATAACT
*
7259276 TACATAAGT
1 TACATAACT
**
7259285 TAGTTAA-T
1 TACATAACT
*
7259293 TA-AT-ATT
1 TACATAACT
7259300 ATACATAACT
1 -TACATAACT
7259310 TACATAACT
1 TACATAACT
7259319 TAC--AACT
1 TACATAACT
7259326 TACATAACT
1 TACATAACT
*
7259335 TACATTAATATT
1 TACA-T-A-ACT
* *
7259347 ATACTTAAAT
1 -TACATAACT
*
7259357 TACATAAGT
1 TACATAACT
**
7259366 TAGTTAA-T
1 TACATAACT
*
7259374 TA-AT-ATT
1 TACATAACT
7259381 ATACATAACT
1 -TACATAACT
7259391 TACATAACT
1 TACATAACT
7259400 TAC--AACT
1 TACATAACT
7259407 TACATAACT
1 TACATAACT
*
7259416 TACATTAATATT
1 TACA-T-A-ACT
* *
7259428 ATACTTAAAT
1 -TACATAACT
*
7259438 TACATAAGT
1 TACATAACT
**
7259447 TAGTTAA-T
1 TACATAACT
*
7259455 TA-AT-ATT
1 TACATAACT
7259462 ATACATAACT
1 -TACATAACT
7259472 TACATAACT
1 TACATAACT
7259481 TAC--AACT
1 TACATAACT
7259488 TACATAACT
1 TACATAACT
7259497 TACAT
1 TACAT
7259502 TAATATTATA
Statistics
Matches: 212, Mismatches: 29, Indels: 64
0.70 0.10 0.21
Matches are distributed among these distances:
6 3 0.01
7 34 0.16
8 15 0.07
9 121 0.57
10 15 0.07
11 6 0.03
12 9 0.04
13 9 0.04
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (9 bp):
TACATAACT
Found at i:7259327 original size:16 final size:15
Alignment explanation
Indices: 7259309--7259500 Score: 67
Period size: 16 Copynumber: 11.9 Consensus size: 15
7259299 TATACATAAC
7259309 TTACATAACTTACAA
1 TTACATAACTTACAA
7259324 CTTACATAACTTAC-A
1 -TTACATAACTTACAA
*
7259339 TTAATATTATACTTA-AA
1 TT-ACA-TA-ACTTACAA
* *
7259356 TTACATAAGTTAGTTAA
1 TTACATAACTTA--CAA
*
7259373 TTA-AT-ATTATACATAA
1 TTACATAACT-TAC--AA
7259389 CTTACATAACTTACAA
1 -TTACATAACTTACAA
7259405 CTTACATAACTTAC-A
1 -TTACATAACTTACAA
*
7259420 TTAATATTATACTTA-AA
1 TT-ACA-TA-ACTTACAA
* *
7259437 TTACATAAGTTAGTTAA
1 TTACATAACTTA--CAA
*
7259454 TTA-AT-ATTATACATAA
1 TTACATAACT-TAC--AA
7259470 CTTACATAACTTACAA
1 -TTACATAACTTACAA
7259486 CTTACATAACTTACA
1 -TTACATAACTTACA
7259501 TTAATATTAT
Statistics
Matches: 138, Mismatches: 12, Indels: 52
0.68 0.06 0.26
Matches are distributed among these distances:
14 12 0.09
15 14 0.10
16 66 0.48
17 32 0.23
18 10 0.07
19 4 0.03
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (15 bp):
TTACATAACTTACAA
Found at i:7259339 original size:34 final size:33
Alignment explanation
Indices: 7259301--7259501 Score: 97
Period size: 34 Copynumber: 6.2 Consensus size: 33
7259291 ATTAATATTA
7259301 TACATAACTTACATAACTTACAACTTACATAACT
1 TACATAACTTACATAACTTACAA-TTACATAACT
* *
7259335 TACATTAA--TA-TTATACTTA-AATTACATAAGT
1 TACA-TAACTTACATA-ACTTACAATTACATAACT
** *
7259366 TAGTTAA-TTA-AT-ATTATACATAACTTACATAACT
1 TACATAACTTACATAACT-TAC--AA-TTACATAACT
*
7259400 TAC--AACTTACATAACTTAC-ATTA-AT-ATT
1 TACATAACTTACATAACTTACAATTACATAACT
* * * * *
7259428 ATACTTAAATTACATAAGTTAGTTAATTA-AT-ATT
1 -TACATAACTTACATAACTTA--CAATTACATAACT
7259462 ATACATAACTTACATAACTTACAACTTACATAACT
1 -TACATAACTTACATAACTTACAA-TTACATAACT
7259497 TACAT
1 TACAT
7259502 TAATATTATA
Statistics
Matches: 129, Mismatches: 18, Indels: 40
0.69 0.10 0.21
Matches are distributed among these distances:
28 2 0.02
29 7 0.05
30 8 0.06
31 28 0.22
32 8 0.06
33 15 0.12
34 54 0.42
35 7 0.05
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.38
Consensus pattern (33 bp):
TACATAACTTACATAACTTACAATTACATAACT
Found at i:7259688 original size:18 final size:18
Alignment explanation
Indices: 7259661--7259696 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7259651 ATAATTTGGG
7259661 TAATAAATAACTTACATA
1 TAATAAATAACTTACATA
*
7259679 TAATACATAACTTACATA
1 TAATAAATAACTTACATA
7259697 GCGTAACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (18 bp):
TAATAAATAACTTACATA
Found at i:7264001 original size:21 final size:21
Alignment explanation
Indices: 7263929--7264001 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
7263919 AGCAGCTTAG
* * *
7263929 AGCAGATGCGGCAGCAAAAGA
1 AGCAGAGGCTGCAGCAAGAGA
*
7263950 AGCAGAGGC-GACAGCGAGAGA
1 AGCAGAGGCTG-CAGCAAGAGA
* * *
7263971 AGAACAGGCTGCAGCAAGGGA
1 AGCAGAGGCTGCAGCAAGAGA
7263992 AGCAGAGGCT
1 AGCAGAGGCT
7264002 AAAGCGAGGG
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
20 1 0.02
21 39 0.95
22 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.38, T:0.04
Consensus pattern (21 bp):
AGCAGAGGCTGCAGCAAGAGA
Found at i:7264011 original size:21 final size:21
Alignment explanation
Indices: 7263948--7264019 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
7263938 GGCAGCAAAA
* *
7263948 GAAGCAGAGGCGACAGCGAGA
1 GAAGCAGAGGCTACAGCGAGG
* * * *
7263969 GAAGAACAGGCTGCAGCAAGG
1 GAAGCAGAGGCTACAGCGAGG
*
7263990 GAAGCAGAGGCTAAAGCGAGG
1 GAAGCAGAGGCTACAGCGAGG
*
7264011 GAAGTAGAG
1 GAAGCAGAG
7264020 CAGCGTCAAA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.39, C:0.15, G:0.42, T:0.04
Consensus pattern (21 bp):
GAAGCAGAGGCTACAGCGAGG
Found at i:7264381 original size:43 final size:42
Alignment explanation
Indices: 7264323--7264448 Score: 126
Period size: 46 Copynumber: 2.9 Consensus size: 42
7264313 AATCTGCCAA
*
7264323 ATTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATTAGGGT
1 ATTTAGCGGCGTTTTTGG-AAAAGCGCCGCTATAGATAAGGGT
* * * ** *
7264366 CTTTAACGGTGTTTTTGCGCGAAGCGCCGCTATATAGACAAAGGGT
1 ATTTAGCGGCGTTTTTG-GAAAAGCGCCGC--TATAGA-TAAGGGT
*
7264412 ATTTAGCGGCGTTTTCTGGATAAGCGCCGCTATAGAT
1 ATTTAGCGGCGTTTT-TGGAAAAGCGCCGCTATAGAT
7264449 CATGTGTCTA
Statistics
Matches: 65, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
43 23 0.35
44 7 0.11
45 6 0.09
46 27 0.42
47 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (42 bp):
ATTTAGCGGCGTTTTTGGAAAAGCGCCGCTATAGATAAGGGT
Found at i:7269968 original size:211 final size:210
Alignment explanation
Indices: 7269604--7270025 Score: 756
Period size: 211 Copynumber: 2.0 Consensus size: 210
7269594 CCATAATTCA
*
7269604 ACCATACATAACTACTTATTACCAAACCAAACTTACCATATATGACCACATTTATGCCAACACAA
1 ACCATACACAACTACTTATTACCAAACCAAACTTACCATATATGACCACATTTATGCCAACACAA
*
7269669 ATAGCTCGTAACTACATCAAAGCATAACCCTACTTGGCCACATTATGAACCTACCAAATTTGGTC
66 ATAGCTCGTAACTACATCAAAGCATAACCCTACTTGGCCACATTATGAACATACCAAATTTGGTC
* *
7269734 ACTCAAAACATACATCCACTTAGCCATATCAACATCAACCATCAAAGCATCAAAATGCCAAAAGC
131 ACTCAAAACATACATCCACTTAGCCATATAAACACCAACCATCAAAGCATCAAAATGCCAAAAGC
7269799 ACACCAACCATATACC
196 ACACCAACCAT-TACC
* *
7269815 ACCATACGCAACTACTTATTACCAAAGCAAACTTACCATATATGACCACATTTATGCCAACACAA
1 ACCATACACAACTACTTATTACCAAACCAAACTTACCATATATGACCACATTTATGCCAACACAA
*
7269880 ATAGCTCGTAACTACATTAAAGCATAA-CCTCACTTGGCCACATTATGAACATACCAAATTTGGT
66 ATAGCTCGTAACTACATCAAAGCATAACCCT-ACTTGGCCACATTATGAACATACCAAATTTGGT
7269944 CACTCAAAACATACATCCACTTAGCCATATAAACACCAACCATCAAAGCATCAAAATGCCAAAAG
130 CACTCAAAACATACATCCACTTAGCCATATAAACACCAACCATCAAAGCATCAAAATGCCAAAAG
7270009 CACACCAACCATTACC
195 CACACCAACCATTACC
7270025 A
1 A
7270026 TTTATACATG
Statistics
Matches: 203, Mismatches: 7, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
210 8 0.04
211 195 0.96
ACGTcount: A:0.41, C:0.30, G:0.07, T:0.22
Consensus pattern (210 bp):
ACCATACACAACTACTTATTACCAAACCAAACTTACCATATATGACCACATTTATGCCAACACAA
ATAGCTCGTAACTACATCAAAGCATAACCCTACTTGGCCACATTATGAACATACCAAATTTGGTC
ACTCAAAACATACATCCACTTAGCCATATAAACACCAACCATCAAAGCATCAAAATGCCAAAAGC
ACACCAACCATTACC
Found at i:7281685 original size:6 final size:6
Alignment explanation
Indices: 7281674--7281709 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
7281664 CATGTATTCG
7281674 GCCCTT GCCCTT GCCCTT GCCCTT GCCCTT GCCCTT
1 GCCCTT GCCCTT GCCCTT GCCCTT GCCCTT GCCCTT
7281710 CTATTCTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.17, T:0.33
Consensus pattern (6 bp):
GCCCTT
Found at i:7286607 original size:3 final size:3
Alignment explanation
Indices: 7286601--7286714 Score: 51
Period size: 3 Copynumber: 36.7 Consensus size: 3
7286591 AGTCCTTTTT
* * *
7286601 TTA TTA TTC TTG TTA TGTTA TTA TTA TTA TTA TTA TTA -TA GGTA TTA
1 TTA TTA TTA TTA TTA T-T-A TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* *
7286648 TTA TT- GTA TTA -GA TTA TATA TCTA TTTA CCTT- TTA TATA TTA TT-
1 TTA TTA TTA TTA TTA TTA T-TA T-TA -TTA --TTA TTA T-TA TTA TTA
7286692 TTA TT- TTA TTA TGTA TTA TTA TT
1 TTA TTA TTA TTA T-TA TTA TTA TT
7286715 TTAATTCTTT
Statistics
Matches: 87, Mismatches: 10, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
2 10 0.11
3 55 0.63
4 17 0.20
5 5 0.06
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:7288289 original size:19 final size:19
Alignment explanation
Indices: 7288265--7288312 Score: 73
Period size: 17 Copynumber: 2.6 Consensus size: 19
7288255 TTTAATCTAC
7288265 TATACATAAAAAAATTTAT
1 TATACATAAAAAAATTTAT
7288284 TATACAT--AAAAATTTAT
1 TATACATAAAAAAATTTAT
*
7288301 TATATATAAAAA
1 TATACATAAAAA
7288313 TTAATATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 16 0.62
19 10 0.38
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (19 bp):
TATACATAAAAAAATTTAT
Found at i:7289191 original size:40 final size:40
Alignment explanation
Indices: 7289147--7289222 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
7289137 ACAAAAAATC
* * *
7289147 GAGCATTAGTGGCGATTTAGCCA-AAGCGCCGCTAAAGGTA
1 GAGCATCAGCGGCGATTT-CCCAGAAGCGCCGCTAAAGGTA
7289187 GAGCATCAGCGGCGATTTCCCAGAAGCGCCGCTAAA
1 GAGCATCAGCGGCGATTTCCCAGAAGCGCCGCTAAA
7289223 AATAGGAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 3 0.09
40 29 0.91
ACGTcount: A:0.29, C:0.25, G:0.29, T:0.17
Consensus pattern (40 bp):
GAGCATCAGCGGCGATTTCCCAGAAGCGCCGCTAAAGGTA
Found at i:7289359 original size:41 final size:40
Alignment explanation
Indices: 7289302--7289538 Score: 258
Period size: 41 Copynumber: 5.8 Consensus size: 40
7289292 TTTTTAAACA
* **
7289302 TTTAGCGGCGTTTTTATCTAAGCGCCACTAATGCTCGGATT
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGG-CC
* * *
7289343 TTTAGCGGCGTTTTTATCTGAGCGCCGCTAATTCTTTGGCC
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGC-TCGGCC
**
7289384 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATA
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGG-CC
* * *
7289425 TTTAGCGGCGTTTTTATCTGAGCGCCACTAATTCTCTGGCC
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTC-GGCC
* * ***
7289466 TTTAGCGGCGTTTGTATCTAAGCACCGCTAATGCATTTACC
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGC-TCGGCC
** *
7289507 TTTAGCGGCGTTTTTGCCGAAGCGCCGCTAAT
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAAT
7289539 AGTAACAAAA
Statistics
Matches: 163, Mismatches: 29, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
40 3 0.02
41 154 0.94
42 6 0.04
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.35
Consensus pattern (40 bp):
TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGCC
Found at i:7289520 original size:123 final size:123
Alignment explanation
Indices: 7289301--7289538 Score: 336
Period size: 123 Copynumber: 1.9 Consensus size: 123
7289291 TTTTTTAAAC
** * *
7289301 ATTTAGCGGCGTTTTTATCTAAGCGCCACTAATGCTCGGATTTTTAGCGGCGTTTTTATCTGAGC
1 ATTTAGCGGCGTTTTTATCTAAGCGCCACTAATGCTCGGACCTTTAGCGGCGTTTGTATCTAAGC
* * * * *
7289366 GCCGCTAATTCTTTGGCCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGAT
66 ACCGCTAATGCTTTGACCTTTAGCGGCGTTTTTACCGAAGCGCCGCTAATGCTCGGAT
* *
7289424 ATTTAGCGGCGTTTTTATCTGAGCGCCACTAATTCTCTGG-CCTTTAGCGGCGTTTGTATCTAAG
1 ATTTAGCGGCGTTTTTATCTAAGCGCCACTAATGCTC-GGACCTTTAGCGGCGTTTGTATCTAAG
*
7289488 CACCGCTAATGCATTT-ACCTTTAGCGGCGTTTTTGCCGAAGCGCCGCTAAT
65 CACCGCTAATGC-TTTGACCTTTAGCGGCGTTTTTACCGAAGCGCCGCTAAT
7289539 AGTAACAAAA
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
123 96 0.95
124 5 0.05
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (123 bp):
ATTTAGCGGCGTTTTTATCTAAGCGCCACTAATGCTCGGACCTTTAGCGGCGTTTGTATCTAAGC
ACCGCTAATGCTTTGACCTTTAGCGGCGTTTTTACCGAAGCGCCGCTAATGCTCGGAT
Found at i:7289538 original size:82 final size:82
Alignment explanation
Indices: 7289302--7289499 Score: 342
Period size: 82 Copynumber: 2.4 Consensus size: 82
7289292 TTTTTAAACA
* *
7289302 TTTAGCGGCGTTTTTATCTAAGCGCCACTAATGCTCGGATTTTTAGCGGCGTTTTTATCTGAGCG
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATATTTAGCGGCGTTTTTATCTGAGCG
*
7289367 CCGCTAATTCTTTGGCC
66 CCGCTAATTCTCTGGCC
7289384 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATATTTAGCGGCGTTTTTATCTGAGCG
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATATTTAGCGGCGTTTTTATCTGAGCG
*
7289449 CCACTAATTCTCTGGCC
66 CCGCTAATTCTCTGGCC
* *
7289466 TTTAGCGGCGTTTGTATCTAAGCACCGCTAATGC
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGC
7289500 ATTTACCTTT
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 110 1.00
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (82 bp):
TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATATTTAGCGGCGTTTTTATCTGAGCG
CCGCTAATTCTCTGGCC
Found at i:7293590 original size:21 final size:21
Alignment explanation
Indices: 7293561--7293613 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
7293551 ACATCTTTAA
* *
7293561 TATATATATTTATATACAGTTT
1 TATATATATTTAT-TAAAATTT
7293583 TA-ATATATTTATTAAAATTT
1 TATATATATTTATTAAAATTT
7293603 TATATATATTT
1 TATATATATTT
7293614 GAAAAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 8 0.29
21 18 0.64
22 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TATATATATTTATTAAAATTT
Done.