Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 301 of 335
Found at i:89563445 original size:35 final size:34
Alignment explanation
Indices: 89563406--89563487 Score: 119
Period size: 35 Copynumber: 2.4 Consensus size: 34
89563396 ACTTGCCTCT
89563406 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
89563440 CTCCCACTCTCCCATGCTGTTTGCCACTAGCACCA
1 -TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
89563475 TCACACACTCCCA
1 TCCCACTCTCCCA
89563488 CCGCACCTGC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
34 11 0.26
35 32 0.74
ACGTcount: A:0.20, C:0.49, G:0.10, T:0.22
Consensus pattern (34 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:89564330 original size:3 final size:3
Alignment explanation
Indices: 89564322--89564417 Score: 192
Period size: 3 Copynumber: 32.0 Consensus size: 3
89564312 GTTATTTTCA
89564322 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
89564370 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
89564418 GTACTTTTGT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 93 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:89564928 original size:2 final size:2
Alignment explanation
Indices: 89564921--89564949 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
89564911 CATATCTTTA
89564921 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
89564950 AGTATATCTT
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:89569557 original size:53 final size:54
Alignment explanation
Indices: 89569451--89569557 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
89569441 GCATTCGAAC
* *
89569451 TCGTTGAGTTGCGTTTCGAGTTCACCTATGGATGCAAGCATCCGAACTCGTTGA
1 TCGTTGAGTTGCGTTCCGAGTTCACCTATGGATGCAAGCACCCGAACTCGTTGA
* * *
89569505 TCGTTGAGTTGTGTTCCGAGTTCA-TTATGGATGCGAA-CACCCGAGCTCGTTGA
1 TCGTTGAGTTGCGTTCCGAGTTCACCTATGGATGC-AAGCACCCGAACTCGTTGA
89569558 GTTGCGTTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
53 23 0.49
54 24 0.51
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (54 bp):
TCGTTGAGTTGCGTTCCGAGTTCACCTATGGATGCAAGCACCCGAACTCGTTGA
Found at i:89575478 original size:13 final size:13
Alignment explanation
Indices: 89575460--89575493 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
89575450 ATAATTTTCA
*
89575460 AATTATAACTAAT
1 AATTATAAATAAT
*
89575473 AATTATAAATTAT
1 AATTATAAATAAT
89575486 AATTATAA
1 AATTATAA
89575494 TTATTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (13 bp):
AATTATAAATAAT
Found at i:89575489 original size:6 final size:6
Alignment explanation
Indices: 89575441--89575497 Score: 51
Period size: 6 Copynumber: 8.7 Consensus size: 6
89575431 AATTCAAATG
* *
89575441 TTATAA TATATAA TTTTCAAA TTATAA CTAATAA TTATAAA TTATAA TTATAA
1 TTATAA T-TATAA TTAT--AA TTATAA -TTATAA TTAT-AA TTATAA TTATAA
89575494 TTAT
1 TTAT
89575498 TTTTTAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
6 20 0.48
7 17 0.40
8 5 0.12
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (6 bp):
TTATAA
Found at i:89582208 original size:19 final size:19
Alignment explanation
Indices: 89582184--89582225 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
89582174 GAAACATAAA
89582184 ATGCATCCTGGCAAATGAG
1 ATGCATCCTGGCAAATGAG
*
89582203 ATGCATCCTGGCACATGAG
1 ATGCATCCTGGCAAATGAG
89582222 -TGCA
1 ATGCA
89582226 CAAACTCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (19 bp):
ATGCATCCTGGCAAATGAG
Found at i:89588734 original size:2 final size:2
Alignment explanation
Indices: 89588727--89588751 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
89588717 AAAATAAGTT
89588727 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
89588752 TAAAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:89588954 original size:17 final size:16
Alignment explanation
Indices: 89588932--89588972 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
89588922 TTTTCAAAGG
89588932 CCCAAATTAACCCTAAA
1 CCCAAATTAACCCT-AA
**
89588949 CCCAAACAAACCCTAA
1 CCCAAATTAACCCTAA
89588965 CCCAAATT
1 CCCAAATT
89588973 GGCCCAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.15
Consensus pattern (16 bp):
CCCAAATTAACCCTAA
Found at i:89590823 original size:17 final size:18
Alignment explanation
Indices: 89590783--89590823 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
89590773 TTGTAATTTA
89590783 TTTGTATAATATTTCATC
1 TTTGTATAATATTTCATC
* *
89590801 TATGTAT-ATATTTCATG
1 TTTGTATAATATTTCATC
89590818 TTTGTA
1 TTTGTA
89590824 ACTTTGCTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.56
Consensus pattern (18 bp):
TTTGTATAATATTTCATC
Found at i:89591752 original size:60 final size:61
Alignment explanation
Indices: 89591678--89591798 Score: 156
Period size: 61 Copynumber: 2.0 Consensus size: 61
89591668 TTATTTATAA
* ** *
89591678 GGGAAATAAATTTT-AGGGATCCTAAGAGGGGGAAAT-GTATAGAGTTCCATCCTTGAATGT
1 GGGAAACAAATTTTAAGAAATCCTAAAAGGGGGAAATAGT-TAGAGTTCCATCCTTGAATGT
* * *
89591738 GGGAAACAAATTTTAAGAAATCCTAAAAGGGGGAAATAGTTAGATTTGCATGCTTGAATGT
1 GGGAAACAAATTTTAAGAAATCCTAAAAGGGGGAAATAGTTAGAGTTCCATCCTTGAATGT
89591799 CAAAACGTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
60 13 0.25
61 37 0.71
62 2 0.04
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.28
Consensus pattern (61 bp):
GGGAAACAAATTTTAAGAAATCCTAAAAGGGGGAAATAGTTAGAGTTCCATCCTTGAATGT
Found at i:89596434 original size:15 final size:15
Alignment explanation
Indices: 89596414--89596452 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
89596404 TTAGAGGTTG
89596414 GGAAGCAACCAATGT
1 GGAAGCAACCAATGT
89596429 GGAAGCAACCAATGT
1 GGAAGCAACCAATGT
89596444 GGAAGCAAC
1 GGAAGCAAC
89596453 ATCTTCATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.41, C:0.21, G:0.28, T:0.10
Consensus pattern (15 bp):
GGAAGCAACCAATGT
Found at i:89598568 original size:16 final size:16
Alignment explanation
Indices: 89598547--89598579 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
89598537 AAATGGAAAG
89598547 TAAACATGATTATGGA
1 TAAACATGATTATGGA
89598563 TAAACATGATTATGGA
1 TAAACATGATTATGGA
89598579 T
1 T
89598580 CACTTGTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.33
Consensus pattern (16 bp):
TAAACATGATTATGGA
Found at i:89600134 original size:78 final size:78
Alignment explanation
Indices: 89600005--89600161 Score: 269
Period size: 78 Copynumber: 2.0 Consensus size: 78
89599995 TCGAGTTGAG
* *
89600005 AGTGATATTCAGGTAAAGTTCTTCCAATAATATTTAAGTTGGGAGTGATATTCGAGTTGGGTATG
1 AGTGATATTCAGATAAAGTTCTTCCAATAATATTTAAGTTGGGAGTGATATTCAAGTTGGGTATG
* *
89600070 GGTATGGGACTCT
66 AGTATGGGAATCT
*
89600083 AGTGATATTCAGATAAAGTTCTTCCAATAATATTTAAGTTGGGAGTGATATTTAAGTTGGGTATG
1 AGTGATATTCAGATAAAGTTCTTCCAATAATATTTAAGTTGGGAGTGATATTCAAGTTGGGTATG
89600148 AGTATGGGAATCT
66 AGTATGGGAATCT
89600161 A
1 A
89600162 AAATTTGCAT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36
Consensus pattern (78 bp):
AGTGATATTCAGATAAAGTTCTTCCAATAATATTTAAGTTGGGAGTGATATTCAAGTTGGGTATG
AGTATGGGAATCT
Found at i:89607537 original size:20 final size:19
Alignment explanation
Indices: 89607514--89607551 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
89607504 TTATATAAAT
89607514 TACGTAAAATAAATATTTTA
1 TACG-AAAATAAATATTTTA
*
89607534 TACGAATATAAATATTTT
1 TACGAAAATAAATATTTT
89607552 TAAAAGCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (19 bp):
TACGAAAATAAATATTTTA
Found at i:89608296 original size:14 final size:14
Alignment explanation
Indices: 89608277--89608305 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
89608267 ATCACTCTCA
89608277 TTAATATTTTTTTG
1 TTAATATTTTTTTG
89608291 TTAATATTTTTTTG
1 TTAATATTTTTTTG
89608305 T
1 T
89608306 ATGGTGTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (14 bp):
TTAATATTTTTTTG
Found at i:89615732 original size:3 final size:3
Alignment explanation
Indices: 89615724--89615783 Score: 57
Period size: 3 Copynumber: 19.7 Consensus size: 3
89615714 CTTTATTAAA
* ** * * *
89615724 TAT TAT TAT TAT TTT TGC TAA TAT TAT TAC TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
89615772 TAT TAT ATAT TA
1 TAT TAT -TAT TA
89615784 GAGTATATTT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:89615746 original size:21 final size:21
Alignment explanation
Indices: 89615722--89615783 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
89615712 TTCTTTATTA
* *
89615722 AATATTATTATTATTTTTGCT
1 AATATTATTATTATTATTACT
*
89615743 AATATTATTACTATTATTACT
1 AATATTATTATTATTATTACT
*
89615764 ATTATTATTATTATATATTA
1 AATATTATTATTAT-TATTA
89615784 GAGTATATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
21 30 0.86
22 5 0.14
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (21 bp):
AATATTATTATTATTATTACT
Found at i:89616048 original size:28 final size:28
Alignment explanation
Indices: 89616017--89616070 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
89616007 TATATATAGA
*
89616017 TATTTTAGTACTTAT-TATAATATTTTCT
1 TATTATAGTA-TTATGTATAATATTTTCT
* *
89616045 TATTATATTATTATGTATATTATTTT
1 TATTATAGTATTATGTATAATATTTT
89616071 TACTCATTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 4 0.18
28 18 0.82
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63
Consensus pattern (28 bp):
TATTATAGTATTATGTATAATATTTTCT
Found at i:89617765 original size:5 final size:5
Alignment explanation
Indices: 89617755--89617786 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
89617745 TTTGTGAGAA
89617755 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
89617787 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:89617780 original size:9 final size:9
Alignment explanation
Indices: 89617756--89617786 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
89617746 TTGTGAGAAA
89617756 AAATAAAAT
1 AAATAAAAT
89617765 AAAATAAAAT
1 -AAATAAAAT
89617775 AAATAAAAT
1 AAATAAAAT
89617784 AAA
1 AAA
89617787 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:89622228 original size:14 final size:14
Alignment explanation
Indices: 89622205--89622239 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
89622195 TACCAATTTG
89622205 AAAA-AAATAAAAT
1 AAAATAAATAAAAT
89622218 AAAATAAATAAAAT
1 AAAATAAATAAAAT
*
89622232 AAGATAAA
1 AAAATAAA
89622240 GAACACACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:89624467 original size:284 final size:283
Alignment explanation
Indices: 89623951--89624523 Score: 911
Period size: 284 Copynumber: 2.0 Consensus size: 283
89623941 TTAAAGTTTG
89623951 TTATAATTATTGTTGAAACTTCTAAAGAGATTAAAATATATTTTTCCAAAATTTTCCCTTACTAA
1 TTATAATTATTGTTGAAACTTCTAAAGAGATTAAAATATATTTTTCCAAAATTTTCCCTTACTAA
* *
89624016 TGACTTTCAAAAGAATGGTGATATGAATGGTTAGCAAATACATTCAAATAATCATTTGAAAAACT
66 TGACTTTCAAAAGAATGGTGATATAAATGGTTAACAAATACATTCAAATAATCATTTGAAAAACT
*
89624081 AGTATTCAAGATTGAATACGTAGATTATGAGAAAGTATGTAATGTTTTCATGAAGGGGAGTAAAT
131 AGTATTCAAGATTGAATACATAGATTATGAGAAAGTATGTAATGTTTTCATGAAGGGGAGTAAAT
* * *
89624146 ACGTGTTGTACTCTTTTTTCCTTAACCGAGATTTTGTCCTATTGGGTTTTCCTAATAAGGTTTTT
196 ACGCGTTGTACTCTTTTTCCCTTAACCGAGATTTTGTCCCATTGGGTTTTCCTAATAAGGTTTTT
*
89624211 AATGAGACAACATATTATACGTA
261 AATAAGACAACATATTATACGTA
*
89624234 TTATAGATTATTGTTGAAAC-TCTTGAAGAGATTAAAATATA-TTTTCCTAAAA-TTTCTCCTTA
1 TTATA-ATTATTGTTGAAACTTC-TAAAGAGATTAAAATATATTTTTCC-AAAATTTTC-CCTTA
* *
89624296 TTAATGACTTTCAAAAGAATGGTGATATAAATGGTTAACAAATACATTTCAAATAGTCATTTGAA
62 CTAATGACTTTCAAAAGAATGGTGATATAAATGGTTAACAAATACA-TTCAAATAATCATTTGAA
* *
89624361 ATACTAGTATTCAAGATTGAATACATAGATTATGAGAAAGTATGTGATGTTTTCATG-AGGGGAG
126 AAACTAGTATTCAAGATTGAATACATAGATTATGAGAAAGTATGTAATGTTTTCATGAAGGGGAG
* * * *
89624425 TACATATGCGTTGTACTCTTTTTCCCTTAACCGAGGTTTTGTCCCATTGGGTTTTCCTGATAAGG
191 TAAATACGCGTTGTACTCTTTTTCCCTTAACCGAGATTTTGTCCCATTGGGTTTTCCTAATAAGG
* *
89624490 TTTTTAATAAGGCAACATATTATGCGTA
256 TTTTTAATAAGACAACATATTATACGTA
89624518 TTATAA
1 TTATAA
89624524 ATATGTGTAC
Statistics
Matches: 267, Mismatches: 18, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
283 18 0.07
284 178 0.67
285 71 0.27
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (283 bp):
TTATAATTATTGTTGAAACTTCTAAAGAGATTAAAATATATTTTTCCAAAATTTTCCCTTACTAA
TGACTTTCAAAAGAATGGTGATATAAATGGTTAACAAATACATTCAAATAATCATTTGAAAAACT
AGTATTCAAGATTGAATACATAGATTATGAGAAAGTATGTAATGTTTTCATGAAGGGGAGTAAAT
ACGCGTTGTACTCTTTTTCCCTTAACCGAGATTTTGTCCCATTGGGTTTTCCTAATAAGGTTTTT
AATAAGACAACATATTATACGTA
Found at i:89632546 original size:16 final size:16
Alignment explanation
Indices: 89632527--89632557 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
89632517 CTTCTTCACT
89632527 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
89632543 TACTTACTTACTTAA
1 TACTCACTTACTTAA
89632558 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:89632563 original size:20 final size:20
Alignment explanation
Indices: 89632524--89632563 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
89632514 AAACTTCTTC
* *
89632524 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
89632544 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
89632564 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:89632948 original size:23 final size:24
Alignment explanation
Indices: 89632921--89632987 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 24
89632911 AAGTAAAGTA
89632921 AATAAAAAGGAAAGAAACAAA-AG
1 AATAAAAAGGAAAGAAACAAACAG
* *
89632944 AATAAAAA-GAAGGAAAGAAACAG
1 AATAAAAAGGAAAGAAACAAACAG
**
89632967 AAT-AGCAGGAAACGAAACAAA
1 AATAAAAAGGAAA-GAAACAAA
89632988 GAAGAAACAG
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
22 12 0.34
23 16 0.46
24 7 0.20
ACGTcount: A:0.69, C:0.07, G:0.19, T:0.04
Consensus pattern (24 bp):
AATAAAAAGGAAAGAAACAAACAG
Found at i:89634546 original size:21 final size:21
Alignment explanation
Indices: 89634500--89634594 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
89634490 AGGCACTTTA
89634500 TGTGTCGTATTTCAGGCACC-CG
1 TGTGTCGTA--TCAGGCACCTCG
89634522 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
89634543 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
89634564 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
89634585 TGTGTCGTAT
1 TGTGTCGTAT
89634595 ACTGATCAGG
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.14
21 48 0.73
22 9 0.14
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:89634579 original size:42 final size:41
Alignment explanation
Indices: 89634487--89634594 Score: 126
Period size: 42 Copynumber: 2.6 Consensus size: 41
89634477 CGGCTTTATG
* *
89634487 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTA--TCAGGCACCCGTGTGTCGT
*
89634530 ATCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTATCAGGCACC-CGTGTGTCGT
* * * *
89634572 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGTAT
89634595 ACTGATCAGG
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 9 0.16
42 28 0.50
43 19 0.34
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.35
Consensus pattern (41 bp):
ATCAGGCACCTCATGTGTCGTATCAGGCACCCGTGTGTCGT
Found at i:89642431 original size:23 final size:23
Alignment explanation
Indices: 89642401--89642487 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
89642391 GCTTTATCGA
* *
89642401 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
89642424 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
89642445 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
89642467 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
89642488 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:89643677 original size:23 final size:24
Alignment explanation
Indices: 89643638--89643682 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
89643628 TTTGCTCTTC
89643638 TAGCATGAACTTATCTTACCTTTT
1 TAGCATGAACTTATCTTACCTTTT
89643662 TAGCAT-AACTCT-TCTTACCTT
1 TAGCATGAACT-TATCTTACCTT
89643683 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.44
Consensus pattern (24 bp):
TAGCATGAACTTATCTTACCTTTT
Found at i:89643941 original size:55 final size:54
Alignment explanation
Indices: 89643751--89644005 Score: 265
Period size: 55 Copynumber: 4.8 Consensus size: 54
89643741 ACACGGGTAC
* * * * *
89643751 CTTACCATTGCCATGACTTGTCATGGTCTTATATGGTATCCTT---TT-GA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* *
89643800 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* * * *
89643853 CTCACCAATGACATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AA
* * * * *
89643908 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
*
89643961 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
89644006 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 23, Indels: 16
0.82 0.11 0.08
Matches are distributed among these distances:
49 40 0.23
52 4 0.02
53 45 0.26
54 8 0.05
55 73 0.42
56 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
Found at i:89648881 original size:19 final size:20
Alignment explanation
Indices: 89648859--89648896 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
89648849 TTTATAATTT
*
89648859 TTTA-TTTTACCATTTTATC
1 TTTATTTTTAACATTTTATC
89648878 TTTATTTTTAACATTTTAT
1 TTTATTTTTAACATTTTAT
89648897 GTTAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTATTTTTAACATTTTATC
Found at i:89648904 original size:20 final size:20
Alignment explanation
Indices: 89648863--89648904 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
89648853 TAATTTTTTA
* *
89648863 TTTTACCATTTTATCTTTAT
1 TTTTAACATTTTATCTTAAT
*
89648883 TTTTAACATTTTATGTTAAT
1 TTTTAACATTTTATCTTAAT
89648903 TT
1 TT
89648905 AATTTACATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTAACATTTTATCTTAAT
Found at i:89650113 original size:23 final size:23
Alignment explanation
Indices: 89650069--89650129 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
89650059 TATTGTTATT
89650069 TTTTTAATAAAATATTTTTATAACA
1 TTTTTAAT-AAATATTTTTATAA-A
* *
89650094 TTTTTAAT-AATTTTTTTATAAT
1 TTTTTAATAAATATTTTTATAAA
89650116 TTTTTAA-AAATATT
1 TTTTTAATAAATATT
89650130 AAAATATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
22 12 0.38
23 12 0.38
25 8 0.25
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTTAATAAATATTTTTATAAA
Found at i:89653730 original size:30 final size:31
Alignment explanation
Indices: 89653675--89653740 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
89653665 AATAGTTTAT
*
89653675 ATTTTTATAATTTTTAAAAAATTAAATTA-A
1 ATTTTTATAATTTTTAAAAAATTAAAGTATA
*
89653705 ATTTTTATAA-TTTTAAAAAGGTTAAAGTATA
1 ATTTTTATAATTTTTAAAAA-ATTAAAGTATA
89653736 ATTTT
1 ATTTT
89653741 ATTTTTATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 9 0.28
30 17 0.53
31 6 0.19
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (31 bp):
ATTTTTATAATTTTTAAAAAATTAAAGTATA
Found at i:89655597 original size:10 final size:9
Alignment explanation
Indices: 89655558--89655746 Score: 77
Period size: 9 Copynumber: 20.4 Consensus size: 9
89655548 ACATGTGGCA
*
89655558 AAAAATGAT
1 AAAAATTAT
89655567 AAAAA--AT
1 AAAAATTAT
*
89655574 AAAAATCAAT
1 AAAAAT-TAT
*
89655584 AAAAGTTAT
1 AAAAATTAT
89655593 AAAAATTATT
1 AAAAATTA-T
**
89655603 AAATTTTAAT
1 AAAAATT-AT
*
89655613 AAAAATAAT
1 AAAAATTAT
* *
89655622 AAATA-TCT
1 AAAAATTAT
*
89655630 AAAATTTATT
1 AAAAATTA-T
*
89655640 AAAAA-TAG
1 AAAAATTAT
89655648 AAGAATATTAT
1 AA-AA-ATTAT
89655659 AAAAA-TAGT
1 AAAAATTA-T
89655668 AAAAAATTAT
1 -AAAAATTAT
89655678 AAAAAAATTAT
1 --AAAAATTAT
***
89655689 AATTTTTAT
1 AAAAATTAT
*
89655698 AAAAATCAT
1 AAAAATTAT
*
89655707 AAAACA-TAG
1 AAAA-ATTAT
*
89655716 AAAAATATAA
1 AAAAAT-TAT
89655726 AAAAATTAT
1 AAAAATTAT
89655735 -AAAATTAT
1 AAAAATTAT
89655743 AAAA
1 AAAA
89655747 TTTTTTAAAG
Statistics
Matches: 134, Mismatches: 28, Indels: 36
0.68 0.14 0.18
Matches are distributed among these distances:
7 7 0.05
8 17 0.13
9 52 0.39
10 41 0.31
11 17 0.13
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:89655624 original size:19 final size:19
Alignment explanation
Indices: 89655571--89655625 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
89655561 AATGATAAAA
*
89655571 AATAAAAATCAATAAAAGTT
1 AATAAAAAT-AATAAATGTT
* *
89655591 -ATAAAAATTATTAAATTTT
1 AATAAAAA-TAATAAATGTT
89655610 AATAAAAATAATAAAT
1 AATAAAAATAATAAAT
89655626 ATCTAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 21 0.72
20 8 0.28
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
AATAAAAATAATAAATGTT
Found at i:89655663 original size:19 final size:19
Alignment explanation
Indices: 89655639--89655738 Score: 64
Period size: 19 Copynumber: 5.3 Consensus size: 19
89655629 TAAAATTTAT
*
89655639 TAAAAATAG-AAGAATATTA
1 TAAAAATAGTAA-AAAATTA
89655658 TAAAAATAGTAAAAAATTA
1 TAAAAATAGTAAAAAATTA
* * ***
89655677 TAAAAAAATTATAATTTTTA
1 TAAAAATAGTA-AAAAATTA
*
89655697 TAAAAATCA-TAAAACA-TA
1 TAAAAAT-AGTAAAAAATTA
*
89655715 GAAAAATA-TAAAAAAATTA
1 TAAAAATAGT-AAAAAATTA
89655734 TAAAA
1 TAAAA
89655739 TTATAAAATT
Statistics
Matches: 63, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
17 2 0.03
18 13 0.21
19 32 0.51
20 15 0.24
21 1 0.02
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (19 bp):
TAAAAATAGTAAAAAATTA
Found at i:89656049 original size:10 final size:10
Alignment explanation
Indices: 89655997--89656106 Score: 54
Period size: 10 Copynumber: 11.4 Consensus size: 10
89655987 TTTTAGTGCA
89655997 TTTTATAATT
1 TTTTATAATT
*
89656007 TTATAATAA-T
1 TT-TTATAATT
**
89656017 TTTTATAAAA
1 TTTTATAATT
*
89656027 TTTTACAATTT
1 TTTTATAA-TT
89656038 TTTTATAA-T
1 TTTTATAATT
*
89656047 TTTAAT-ATT
1 TTTTATAATT
*
89656056 TTATTA-AA-A
1 TT-TTATAATT
*
89656065 TTTAAT-ATT
1 TTTTATAATT
* *
89656074 TTTTATCA-C
1 TTTTATAATT
*
89656083 TTTTATTATT
1 TTTTATAATT
89656093 TTTTATAATT
1 TTTTATAATT
89656103 TTTT
1 TTTT
89656107 TGCCAGATGT
Statistics
Matches: 73, Mismatches: 17, Indels: 20
0.66 0.15 0.18
Matches are distributed among these distances:
8 4 0.05
9 28 0.38
10 29 0.40
11 12 0.16
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:89656105 original size:19 final size:18
Alignment explanation
Indices: 89655997--89656104 Score: 94
Period size: 19 Copynumber: 5.7 Consensus size: 18
89655987 TTTTAGTGCA
89655997 TTTTATAATTTTATAATAATT
1 TTTTATAA-TTT-TAAT-ATT
*
89656018 TTTATAAAATTTTACA-ATTT
1 TTT-TATAATTTTA-ATA-TT
89656038 TTTTATAATTTTAATATT
1 TTTTATAATTTTAATATT
*
89656056 TTATTA-AAATTTAATATT
1 TT-TTATAATTTTAATATT
* *
89656074 TTTTATCACTTTTATTATT
1 TTTTAT-AATTTTAATATT
89656093 TTTTATAATTTT
1 TTTTATAATTTT
89656105 TTTGCCAGAT
Statistics
Matches: 73, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
17 3 0.04
18 23 0.32
19 29 0.40
20 7 0.10
21 7 0.10
22 4 0.05
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTATAATTTTAATATT
Found at i:89660097 original size:38 final size:38
Alignment explanation
Indices: 89660046--89660120 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
89660036 TTTAGATGTG
**
89660046 TCGCTTCATAGAGCTTATAGATAACCATTTTCATGGTT
1 TCGCTTCATAGAGCACATAGATAACCATTTTCATGGTT
* *
89660084 TCGCTTCGTAGAGCACGTAGATAACCATTTTCATGGT
1 TCGCTTCATAGAGCACATAGATAACCATTTTCATGGT
89660121 GCCGCCAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (38 bp):
TCGCTTCATAGAGCACATAGATAACCATTTTCATGGTT
Found at i:89663295 original size:131 final size:131
Alignment explanation
Indices: 89663125--89663380 Score: 386
Period size: 131 Copynumber: 2.0 Consensus size: 131
89663115 AGAAAACACG
* * * * *
89663125 AGTGGAATTCGAAAGGAATATTCGATTATTTTGAACAAACGGGAAATCGCAACCCAGCACGATAG
1 AGTGAAATTCCAAAGGAACATTCGATTATTTTGAACAAACGGGAAATCGCAACCCAACACAATAG
*
89663190 GGCACTATTCCCCGAATTGCCAAACACCGAACATTACCTTAATTTTGAAAAATTTTTAAAGACAT
66 GGCACAATTCCCCGAATTGCCAAACACCGAACATTACCTTAATTTTGAAAAATTTTTAAAGACAT
89663255 A
131 A
*
89663256 AGTGAAATTCCAAAGGAACATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAACACAATAG
1 AGTGAAATTCCAAAGGAACATTCGATTATTTTGAACAAACGGGAAATCGCAACCCAACACAATAG
* * * ** * *
89663321 GGCACAATTCCCCGAATTGCCAAGCATCGAACATTGCCTTCGTTTTTAAGAATTTTTAAA
66 GGCACAATTCCCCGAATTGCCAAACACCGAACATTACCTTAATTTTGAAAAATTTTTAAA
89663381 TGGATAATTA
Statistics
Matches: 111, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
131 111 1.00
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (131 bp):
AGTGAAATTCCAAAGGAACATTCGATTATTTTGAACAAACGGGAAATCGCAACCCAACACAATAG
GGCACAATTCCCCGAATTGCCAAACACCGAACATTACCTTAATTTTGAAAAATTTTTAAAGACAT
A
Found at i:89665365 original size:11 final size:11
Alignment explanation
Indices: 89665341--89665375 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
89665331 GGGTCTAGAC
*
89665341 TTGT-TTGGGC
1 TTGTATTGGGT
89665351 TTGTATTGGGT
1 TTGTATTGGGT
89665362 TTGTATTGGGT
1 TTGTATTGGGT
89665373 TTG
1 TTG
89665376 GGACTTGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.06, C:0.03, G:0.37, T:0.54
Consensus pattern (11 bp):
TTGTATTGGGT
Found at i:89668983 original size:14 final size:14
Alignment explanation
Indices: 89668966--89668994 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
89668956 TTAGGTTTGG
89668966 ATTATTTTAAGCTT
1 ATTATTTTAAGCTT
89668980 ATTATTTTAAGCTT
1 ATTATTTTAAGCTT
89668994 A
1 A
89668995 GGTTTTTCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (14 bp):
ATTATTTTAAGCTT
Found at i:89671512 original size:16 final size:16
Alignment explanation
Indices: 89671493--89671527 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
89671483 TATAAAATGT
*
89671493 TTTAAACCCTAAATAA
1 TTTAAACCCGAAATAA
*
89671509 TTTAAACTCGAAATAA
1 TTTAAACCCGAAATAA
89671525 TTT
1 TTT
89671528 GAACTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.37
Consensus pattern (16 bp):
TTTAAACCCGAAATAA
Found at i:89673486 original size:34 final size:34
Alignment explanation
Indices: 89673426--89673490 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
89673416 TAGACCCGTC
*
89673426 TATATTATTTTTAATTTTTTAAAAAATATTTAGAT
1 TATATTATTTTTAATTATTTAAAAAAT-TTTAGAT
89673461 TATATTA-TTTTAA-TATTTAATAAAATTTTA
1 TATATTATTTTTAATTATTTAA-AAAATTTTA
89673491 TATATCTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 10 0.36
34 11 0.39
35 7 0.25
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (34 bp):
TATATTATTTTTAATTATTTAAAAAATTTTAGAT
Found at i:89674185 original size:18 final size:18
Alignment explanation
Indices: 89674133--89674186 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
89674123 ATTATAATAC
89674133 TTTAAT-ACTTTTCTAATT
1 TTTAATAACTTTT-TAATT
89674151 TTT-ATAACATTTATTAATT
1 TTTAATAAC-TTT-TTAATT
89674170 TTTAATAACTTTTTAAT
1 TTTAATAACTTTTTAAT
89674187 AATTTTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
17 2 0.06
18 10 0.31
19 14 0.44
20 6 0.19
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTAATAACTTTTTAATT
Found at i:89674241 original size:10 final size:10
Alignment explanation
Indices: 89674146--89674273 Score: 70
Period size: 10 Copynumber: 12.9 Consensus size: 10
89674136 AATACTTTTC
89674146 TAATTTTT-A
1 TAATTTTTAA
** *
89674155 TAACATTTAT
1 TAATTTTTAA
89674165 TAATTTTTAA
1 TAATTTTTAA
89674175 TAACTTTTTAA
1 TAA-TTTTTAA
89674186 TAA-TTTTAA
1 TAATTTTTAA
* *
89674195 -ATTTTTTCTA
1 TAATTTTT-AA
* *
89674205 TAGTTTTCAA
1 TAATTTTTAA
*
89674215 TAATCGTTT-A
1 TAAT-TTTTAA
89674225 TAA-TTTTAA
1 TAATTTTTAA
89674234 TAATTTTT-A
1 TAATTTTTAA
*
89674243 TAACATTTTAA
1 TAA-TTTTTAA
* *
89674254 TTATTTATAA
1 TAATTTTTAA
89674264 TAAATTTTTA
1 T-AATTTTTA
89674274 GTATTTTTCT
Statistics
Matches: 87, Mismatches: 21, Indels: 20
0.68 0.16 0.16
Matches are distributed among these distances:
8 4 0.05
9 24 0.28
10 33 0.38
11 26 0.30
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:89678379 original size:15 final size:13
Alignment explanation
Indices: 89678341--89678382 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 13
89678331 TTCGAATCGG
89678341 TTTTCTTTTTTTC
1 TTTTCTTTTTTTC
89678354 TTTTC--TTTTTC
1 TTTTCTTTTTTTC
89678365 TTTACTCTTTTTTTC
1 TTT--TCTTTTTTTC
89678380 TTT
1 TTT
89678383 GTTTACATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 9 0.36
13 7 0.28
15 9 0.36
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:89679034 original size:3 final size:3
Alignment explanation
Indices: 89679021--89679113 Score: 93
Period size: 3 Copynumber: 31.0 Consensus size: 3
89679011 TACTTGTAAC
*
89679021 ATT ATTT ATT ATT A-T ATTT ACT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * *
89679067 ATT ATT ATT ATT A-T ATTT ATT AAC A-T ATT ATC ATT ATT TTT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
89679111 ATT
1 ATT
89679114 CATATTAATA
Statistics
Matches: 75, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
2 5 0.07
3 63 0.84
4 7 0.09
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:89679120 original size:32 final size:32
Alignment explanation
Indices: 89679060--89679126 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
89679050 TTATTATTAT
* *
89679060 TATTATTATTATTATTATTATATTTATTAACA
1 TATTATCATTATTATTATTATATATATTAACA
* *
89679092 TATTATCATTATTTTTATTAT-TCATATTAATA
1 TATTATCATTATTATTATTATAT-ATATTAACA
89679124 TAT
1 TAT
89679127 ATATTAATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 1 0.03
32 29 0.97
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (32 bp):
TATTATCATTATTATTATTATATATATTAACA
Found at i:89691979 original size:88 final size:86
Alignment explanation
Indices: 89691827--89692000 Score: 233
Period size: 88 Copynumber: 2.0 Consensus size: 86
89691817 CTAGAATCAG
* * *
89691827 TGAATTCATAGATCTTACCCCATAAGCAGTAGGGGAATAAATCGAAGGCAACGAACTTTAACCCC
1 TGAATTCATAGATCTTACCCCATAAGCAGTAGGGAAACAAATCGAAGACAACGAACTTTAACCCC
*
89691892 CTAAGTAGTAGGGTAACAAGC
66 CTAAGCAGTAGGGTAACAAGC
** * * *
89691913 TGAAGTTCATAGATCTTATCACCC-TAAGCAGTAGGGAAACGGATCGAAGATAATGAGCTTTAAC
1 TGAA-TTCATAGATCTTA-C-CCCATAAGCAGTAGGGAAACAAATCGAAGACAACGAACTTTAAC
89691977 CCCCTAAGCAGTAGGGTAACAAGC
63 CCCCTAAGCAGTAGGGTAACAAGC
89692001 CAAATTTACA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
86 4 0.05
87 13 0.17
88 56 0.74
89 3 0.04
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (86 bp):
TGAATTCATAGATCTTACCCCATAAGCAGTAGGGAAACAAATCGAAGACAACGAACTTTAACCCC
CTAAGCAGTAGGGTAACAAGC
Found at i:89692317 original size:221 final size:221
Alignment explanation
Indices: 89691923--89692475 Score: 919
Period size: 221 Copynumber: 2.5 Consensus size: 221
89691913 TGAAGTTCAT
*
89691923 AGATCTTATCACCCTAAGCAGTAGGGAAACGGATCGAAGATAATGAGCTTTAACCCCCTAAGCAG
1 AGATCTTAAC-CCCTAAGCAGTAGGGAAACGGATCGAAGATAATGAGCTTTAACCCCCTAAGCAG
*
89691988 TAGGGTAACAAGCCAAATTTACAGACCTTAACCCCCTAAGTAGTAGGGTAATAGGTTGAAAATTA
65 TAGGGTAACAAGCCAAATTTACAGACCTTAACCCCCTAAGTAGTAGGGTAATAGGCTGAAAATTA
* *
89692053 TAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAATCCAGCGAGTCTTGTCTTCCTGAAG
130 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAATCCAGCGAATCTTGTCTTCCTGAAG
89692118 TTGCAGTGAAGCAGATTGAAGATTTAC
195 TTGCAGTGAAGCAGATTGAAGATTTAC
*
89692145 AGATCTTAACCCCTAAGCAGTATGGAAACGGATCGAAGATAATGAGCTTTAACCCCCTAAGCAGT
1 AGATCTTAACCCCTAAGCAGTAGGGAAACGGATCGAAGATAATGAGCTTTAACCCCCTAAGCAGT
89692210 AGGGTAACAAGCCAAATTTACAGACCTTAACCCCCTAAGTAGTAGGGTAATAGGCTGAAAATTAC
66 AGGGTAACAAGCCAAATTTACAGACCTTAACCCCCTAAGTAGTAGGGTAATAGGCTGAAAATTAC
*
89692275 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAATCCAGCGAATCTTGTCTTCCTGAAGT
131 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAATCCAGCGAATCTTGTCTTCCTGAAGT
89692340 TGCAGTGAAGCAGATTGAAGATTTAC
196 TGCAGTGAAGCAGATTGAAGATTTAC
* * * * * *
89692366 AGATCTTAACCCCCTAAGCAATAGGGAAACAGATTGAAGATGACGAG-TCTTAAACCCCTAAGCA
1 AGATCTTAA-CCCCTAAGCAGTAGGGAAACGGATCGAAGATAATGAGCT-TTAACCCCCTAAGCA
* * * * *
89692430 GTAGGGTAACAGGCTAAATTTACAGATCTTAACCTCCTAAGCAGTA
64 GTAGGGTAACAAGCCAAATTTACAGACCTTAACCCCCTAAGTAGTA
89692476 AGGAAACAGA
Statistics
Matches: 311, Mismatches: 18, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
221 216 0.69
222 95 0.31
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (221 bp):
AGATCTTAACCCCTAAGCAGTAGGGAAACGGATCGAAGATAATGAGCTTTAACCCCCTAAGCAGT
AGGGTAACAAGCCAAATTTACAGACCTTAACCCCCTAAGTAGTAGGGTAATAGGCTGAAAATTAC
AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAATCCAGCGAATCTTGTCTTCCTGAAGT
TGCAGTGAAGCAGATTGAAGATTTAC
Found at i:89692457 original size:87 final size:86
Alignment explanation
Indices: 89692360--89692663 Score: 319
Period size: 87 Copynumber: 3.5 Consensus size: 86
89692350 CAGATTGAAG
*
89692360 ATTTACAGATCTTAACCCCCTAAGCAATAGGGAAACAGATTGAAGATGACGAGTCTTAAACCCCT
1 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATT-AAGATGACGAGTCTTAAACCCCT
89692425 AAGCAGTAGGGTAACAGGCTAA
65 AAGCAGTAGGGTAACAGGCTAA
* * * * * * *
89692447 ATTTACAGATCTTAACCTCCTAAGCAGTAAGGAAACAGATCAAAGGTGATGAGCCTTAAACCCTT
1 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAT-TAAGATGACGAGTCTTAAACCCCT
89692512 AAGCAGTAGGGTAACAGGCTAA
65 AAGCAGTAGGGTAACAGGCTAA
* * * * ** *
89692534 ATTTTCAGATCTTAAACCCCTAAGCAGTAGGGTAACGGGCTAA-ATTTAC-AGATCTTAAACCCC
1 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATTAAGA-TGACGAG-TCTTAAACCCC
* * *
89692597 TAAGCAGTAGGGAAACA-GATCA
64 TAAGCAGTAGGGTAACAGGCTAA
* * * *
89692619 ATGATGACA-AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAA
1 AT--TTACAGA-TCTTAACCCCCTAAGCAGTAGGGAAACAGATTAA
89692664 AAATCAAATA
Statistics
Matches: 180, Mismatches: 31, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
85 7 0.04
86 30 0.17
87 143 0.79
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (86 bp):
ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATTAAGATGACGAGTCTTAAACCCCTA
AGCAGTAGGGTAACAGGCTAA
Found at i:89692473 original size:43 final size:43
Alignment explanation
Indices: 89692360--89692664 Score: 264
Period size: 43 Copynumber: 7.0 Consensus size: 43
89692350 CAGATTGAAG
* * * **
89692360 ATTTACAGATCTTAACCCCCTAAGCAATAGGGAAACAGATTGAA
1 ATTTACAGATCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-AA
*
89692404 GA-TGAC-GAGTCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAA
1 -ATTTACAGA-TCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAA
* * *
89692447 ATTTACAGATCTT-AACCTCCTAAGCAGTAAGGAAACA-GATCAA
1 ATTTACAGATCTTAAACC-CCTAAGCAGTAGGGTAACAGGCT-AA
* * * * *
89692490 AGGTGA-TGAGCCTTAAACCCTTAAGCAGTAGGGTAACAGGCTAA
1 A-TTTACAGA-TCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAA
* *
89692534 ATTTTCAGATCTTAAACCCCTAAGCAGTAGGGTAACGGGCTAA
1 ATTTACAGATCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAA
* * *
89692577 ATTTACAGATCTTAAACCCCTAAGCAGTAGGGAAACA-GATCA
1 ATTTACAGATCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAA
* * * *
89692619 ATGATGACA-AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAA
1 AT--TTACAGA-TCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAA
89692664 A
1 A
89692665 AATCAAATAT
Statistics
Matches: 210, Mismatches: 36, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
42 12 0.06
43 100 0.48
44 87 0.41
45 11 0.05
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (43 bp):
ATTTACAGATCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAA
Found at i:89692604 original size:130 final size:130
Alignment explanation
Indices: 89692413--89692664 Score: 407
Period size: 130 Copynumber: 1.9 Consensus size: 130
89692403 AGATGACGAG
89692413 TCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCTCCTAAGCAGTAAG
1 TCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCTCCTAAGCAGTAAG
* ** *
89692478 GAAACAGATCAAAGGTGATGAGCCTTAAACCCTTAAGCAGTAGGGTAACAGGCTAAATTTTCAGA
66 GAAACAGATCAAAGATGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTTCAGA
* *
89692543 TCTTAAACCCCTAAGCAGTAGGGTAACGGGCTAAATTTACAGATCTTAAACC-CCTAAGCAGTAG
1 TCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTT-AACCTCCTAAGCAGTAA
* * *
89692607 GGAAACAGATCAATGATGACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAA
65 GGAAACAGATCAAAGATGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAA
89692665 AATCAAATAT
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
130 108 0.96
131 4 0.04
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (130 bp):
TCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCTCCTAAGCAGTAAG
GAAACAGATCAAAGATGACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTTCAGA
Found at i:89692756 original size:41 final size:42
Alignment explanation
Indices: 89692706--89692785 Score: 119
Period size: 41 Copynumber: 1.9 Consensus size: 42
89692696 GAGCAGCTAA
*
89692706 AAGCCACAGC-AGATCTCCTTGAAGTTTCAGTGG-ATTAAGCG
1 AAGCCACAGCAAG-TCTCATTGAAGTTTCAGTGGAATTAAGCG
*
89692747 AAGCTACAGCAAGTCTCATTGAAGTTTCAGTGGAATTAA
1 AAGCCACAGCAAGTCTCATTGAAGTTTCAGTGGAATTAA
89692786 TGGAAGTTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
41 28 0.80
42 7 0.20
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (42 bp):
AAGCCACAGCAAGTCTCATTGAAGTTTCAGTGGAATTAAGCG
Found at i:89694110 original size:3 final size:3
Alignment explanation
Indices: 89694097--89694183 Score: 72
Period size: 3 Copynumber: 29.0 Consensus size: 3
89694087 TACTTGTAAC
*
89694097 ATT ATTT ATT ATT A-T ATTT ACT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* ** * *
89694143 ACT ATT A-T ATTT ATT AAC A-T ATT ATC ATT ATT TTT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
89694184 CATATTAATA
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
2 5 0.07
3 55 0.82
4 7 0.10
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:89694651 original size:2 final size:2
Alignment explanation
Indices: 89694638--89694674 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
89694628 ACGTACATTT
* *
89694638 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
89694675 CCTGTCTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (2 bp):
TA
Found at i:89696133 original size:13 final size:13
Alignment explanation
Indices: 89696115--89696141 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
89696105 TGATATATTA
89696115 AAGTTTATGAAAT
1 AAGTTTATGAAAT
89696128 AAGTTTATGAAAT
1 AAGTTTATGAAAT
89696141 A
1 A
89696142 GAATAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (13 bp):
AAGTTTATGAAAT
Found at i:89697532 original size:38 final size:38
Alignment explanation
Indices: 89697475--89697563 Score: 99
Period size: 39 Copynumber: 2.3 Consensus size: 38
89697465 TATATTATAG
* ** * *
89697475 TTTTAAAATTTTAAAAAAAAATTCATAAT-TTTTTATAT
1 TTTTATAATTTTCTAAAAAAATT-ATAATACTTTAATAT
89697513 TTCTTATAATTTTCTAAAAAAATTATAATACTTTAATAT
1 TT-TTATAATTTTCTAAAAAAATTATAATACTTTAATAT
*
89697552 TTTTCTAATTTT
1 TTTTATAATTTT
89697564 TATAACATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
38 16 0.37
39 27 0.63
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (38 bp):
TTTTATAATTTTCTAAAAAAATTATAATACTTTAATAT
Found at i:89697612 original size:10 final size:10
Alignment explanation
Indices: 89697544--89697693 Score: 66
Period size: 9 Copynumber: 15.4 Consensus size: 10
89697534 ATTATAATAC
89697544 TTTAAT-ATT
1 TTTAATAATT
*
89697553 TTT-CTAATT
1 TTTAATAATT
**
89697562 TTT-ATAACA
1 TTTAATAATT
* *
89697571 TTTATTAAGT
1 TTTAATAATT
* *
89697581 TCTAATAA-C
1 TTTAATAATT
89697590 TTTAATAAATT
1 TTTAAT-AATT
89697601 TTTAATAA-T
1 TTTAATAATT
*
89697610 TTTAA-ATTT
1 TTTAATAATT
*
89697619 TTTCTATAATT
1 TTT-AATAATT
*
89697630 TTCT-ATAATC
1 TT-TAATAATT
* *
89697640 GTTCATAA-T
1 TTTAATAATT
89697649 TTTAATAATT
1 TTTAATAATT
89697659 TTT-ATAATAT
1 TTTAATAAT-T
*
89697669 TTTAATTATT
1 TTTAATAATT
*
89697679 TATAATAACTT
1 TTTAATAA-TT
89697690 TTTA
1 TTTA
89697694 GTATTTTTCT
Statistics
Matches: 104, Mismatches: 24, Indels: 24
0.68 0.16 0.16
Matches are distributed among these distances:
8 2 0.02
9 42 0.40
10 39 0.38
11 20 0.19
12 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (10 bp):
TTTAATAATT
Found at i:89697679 original size:29 final size:28
Alignment explanation
Indices: 89697590--89697701 Score: 84
Period size: 29 Copynumber: 3.8 Consensus size: 28
89697580 TTCTAATAAC
*
89697590 TTTAATAAATTTTTAATAATTTTAAATT-T
1 TTTAAT-AATTTTT-ATAATTTTTAATTAT
* ** * *
89697619 TTTCTATAATTTTCTATAATCGTTCATAAT
1 TTT-AATAATTTT-TATAATTTTTAATTAT
89697649 TTTAATAATTTTTATAATATTTTAATTAT
1 TTTAATAATTTTTATAAT-TTTTAATTAT
89697678 TTATAATAACTTTTTAGT-ATTTTT
1 TT-TAATAA-TTTTTA-TAATTTTT
89697702 CTATTTTTTA
Statistics
Matches: 65, Mismatches: 11, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
28 6 0.09
29 33 0.51
30 17 0.26
31 8 0.12
32 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (28 bp):
TTTAATAATTTTTATAATTTTTAATTAT
Found at i:89706264 original size:12 final size:12
Alignment explanation
Indices: 89706244--89706284 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
89706234 CATTTAATTA
89706244 TTAATTAATTTT
1 TTAATTAATTTT
*
89706256 TTAAATAATATTT
1 TTAATTAAT-TTT
89706269 TT-ATTAA-TTT
1 TTAATTAATTTT
89706279 TTAATT
1 TTAATT
89706285 CATTATTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
10 5 0.20
11 3 0.12
12 12 0.48
13 5 0.20
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TTAATTAATTTT
Found at i:89706691 original size:21 final size:23
Alignment explanation
Indices: 89706667--89706710 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
89706657 ATTTATTATT
89706667 TAAAAATA-TTA-TATATAAATA
1 TAAAAATACTTATTATATAAATA
*
89706688 TAAAATTACTTATTATATAAATA
1 TAAAAATACTTATTATATAAATA
89706711 ACTAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 3 0.15
23 10 0.50
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
TAAAAATACTTATTATATAAATA
Found at i:89708988 original size:11 final size:11
Alignment explanation
Indices: 89708959--89708993 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
89708949 GGTATAGTCA
89708959 ATGACTCGTAT
1 ATGACTCGTAT
89708970 ATGAACTCGTAT
1 ATG-ACTCGTAT
89708982 ATGACTCGTAT
1 ATGACTCGTAT
89708993 A
1 A
89708994 CGACACTAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (11 bp):
ATGACTCGTAT
Found at i:89709008 original size:23 final size:22
Alignment explanation
Indices: 89708957--89709008 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
89708947 AAGGTATAGT
* *
89708957 CAATGACTCGTATATGAACTCG
1 CAATGACTCGTATACGAACTAG
*
89708979 TATATGACTCGTATACGACACTAG
1 CA-ATGACTCGTATACGA-ACTAG
89709003 CAATGA
1 CAATGA
89709009 ATGTGACATC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 1 0.04
23 18 0.75
24 5 0.21
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (22 bp):
CAATGACTCGTATACGAACTAG
Found at i:89722356 original size:32 final size:32
Alignment explanation
Indices: 89722315--89722379 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
89722305 TGGAACAAAG
89722315 TAGGAAACATTTGAAGTTGAACCCAATTTTTA
1 TAGGAAACATTTGAAGTTGAACCCAATTTTTA
89722347 TAGGAAACATTTGAAGTTGAACCCAATTTTTA
1 TAGGAAACATTTGAAGTTGAACCCAATTTTTA
89722379 T
1 T
89722380 CTTTCTTTAT
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:0.37, C:0.12, G:0.15, T:0.35
Consensus pattern (32 bp):
TAGGAAACATTTGAAGTTGAACCCAATTTTTA
Found at i:89723632 original size:126 final size:124
Alignment explanation
Indices: 89723502--89723949 Score: 452
Period size: 126 Copynumber: 3.6 Consensus size: 124
89723492 AGAATCATCA
* * ** *
89723502 CCCTGTTAGAGAAACTCCTGAAGTATCATCTCCGGGACCAGCATACTCACCCAGGCATCATGGCC
1 CCCTGTTCGAGAAACT-CTGAAGCATCATCTCCGGGACCAGCATACTCACCCAAACATCATAGCC
* *
89723567 CTGTTTTTGAACCCCCTGAAACATCAATTCTAGAGCCAGAACACTCTCTCAATCATCACGG
65 CTGTTTCTGAACCCCCT-AAACATCAATTCTAGAGCCAGAACACTCTCTCAAGCATCACGG
* * * *
89723628 CCCTGTTCCAGAATA-TCTCAAGGCATCATCTCCGGGGCCAGCATACTCACTCAAACATCATAGC
1 CCCTGTTCGAGAA-ACTCTGAA-GCATCATCTCCGGGACCAGCATACTCACCCAAACATCATAGC
* * * * * * * * * * * * * *
89723692 CATGTTGCAGAATCACCTAAAGCCTC-ATCTCTGGTGCCTGCACACTCTCCCAAGAATGATC-A
64 CCTGTTTCTGAACCCCCTAAA-CATCAAT-TCTAGAGCCAGAACACTCTCTCAAGCATCA-CGG
* * * * *
89723754 CCCTGTTGGAGAAATTCCTGAAGCATCATCTCCAGGACCAGCATACTCACCCAAGCATCATGGCC
1 CCCTGTTCGAGAAACT-CTGAAGCATCATCTCCGGGACCAGCATACTCACCCAAACATCATAGCC
* *
89723819 CTGTTTCTGAACTCCCTCAAACATCAATTCTAGAGCCAGAACACTCTCTCAAGCATCATGG
65 CTGTTTCTGAACCCCCT-AAACATCAATTCTAGAGCCAGAACACTCTCTCAAGCATCACGG
* * * * *
89723880 CCCCGTTCTAGAATCTCTCAAAGCATCATCTCCGGGGCCAGCATACTCACCCAAACATCATAGCC
1 CCCTGTTCGAGAAACTCT-GAAGCATCATCTCCGGGACCAGCATACTCACCCAAACATCATAGCC
89723945 CTGTT
65 CTGTT
89723950 GTGGAACCTC
Statistics
Matches: 252, Mismatches: 59, Indels: 22
0.76 0.18 0.07
Matches are distributed among these distances:
125 12 0.05
126 229 0.91
127 11 0.04
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.23
Consensus pattern (124 bp):
CCCTGTTCGAGAAACTCTGAAGCATCATCTCCGGGACCAGCATACTCACCCAAACATCATAGCCC
TGTTTCTGAACCCCCTAAACATCAATTCTAGAGCCAGAACACTCTCTCAAGCATCACGG
Found at i:89723971 original size:252 final size:252
Alignment explanation
Indices: 89723396--89723950 Score: 876
Period size: 252 Copynumber: 2.2 Consensus size: 252
89723386 AAGAATCATG
* * ** * * *
89723396 AAGCATCATCTCCAGAGCCAGCGCACTCTCCCGAGCATCATAGCCATGTTGCAGAATCACCTGAA
1 AAGCATCATCTCCGGGGCCAGCATACTCACCCAAACATCATAGCCATGTTGCAGAATCACCTGAA
*
89723461 GCCTCATCTCTGGTGCCCGCACACTCTCCCAAGAATCATCACCCTGTTAGAGAAACTCCTGAAGT
66 GCCTCATCTCTGGTGCCCGCACACTCTCCCAAGAATCATCACCCTGTTAGAGAAACTCCTGAAGC
* * * *
89723526 ATCATCTCCGGGACCAGCATACTCACCCAGGCATCATGGCCCTGTTTTTGAACCCCCTGAAACAT
131 ATCATCTCCAGGACCAGCATACTCACCCAAGCATCATGGCCCTGTTTCTGAACCCCCTCAAACAT
* *
89723591 CAATTCTAGAGCCAGAACACTCTCTCAATCATCACGGCCCTGTTCCAGAATATCTCA
196 CAATTCTAGAGCCAGAACACTCTCTCAAGCATCACGGCCCCGTTCCAGAATATCTCA
* * *
89723648 AGGCATCATCTCCGGGGCCAGCATACTCACTCAAACATCATAGCCATGTTGCAGAATCACCTAAA
1 AAGCATCATCTCCGGGGCCAGCATACTCACCCAAACATCATAGCCATGTTGCAGAATCACCTGAA
* * * *
89723713 GCCTCATCTCTGGTGCCTGCACACTCTCCCAAGAATGATCACCCTGTTGGAGAAATTCCTGAAGC
66 GCCTCATCTCTGGTGCCCGCACACTCTCCCAAGAATCATCACCCTGTTAGAGAAACTCCTGAAGC
*
89723778 ATCATCTCCAGGACCAGCATACTCACCCAAGCATCATGGCCCTGTTTCTGAACTCCCTCAAACAT
131 ATCATCTCCAGGACCAGCATACTCACCCAAGCATCATGGCCCTGTTTCTGAACCCCCTCAAACAT
* * *
89723843 CAATTCTAGAGCCAGAACACTCTCTCAAGCATCATGGCCCCGTTCTAGAATCTCTCA
196 CAATTCTAGAGCCAGAACACTCTCTCAAGCATCACGGCCCCGTTCCAGAATATCTCA
*
89723900 AAGCATCATCTCCGGGGCCAGCATACTCACCCAAACATCATAGCCCTGTTG
1 AAGCATCATCTCCGGGGCCAGCATACTCACCCAAACATCATAGCCATGTTG
89723951 TGGAACCTCC
Statistics
Matches: 275, Mismatches: 28, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
252 275 1.00
ACGTcount: A:0.27, C:0.34, G:0.16, T:0.22
Consensus pattern (252 bp):
AAGCATCATCTCCGGGGCCAGCATACTCACCCAAACATCATAGCCATGTTGCAGAATCACCTGAA
GCCTCATCTCTGGTGCCCGCACACTCTCCCAAGAATCATCACCCTGTTAGAGAAACTCCTGAAGC
ATCATCTCCAGGACCAGCATACTCACCCAAGCATCATGGCCCTGTTTCTGAACCCCCTCAAACAT
CAATTCTAGAGCCAGAACACTCTCTCAAGCATCACGGCCCCGTTCCAGAATATCTCA
Found at i:89724028 original size:126 final size:127
Alignment explanation
Indices: 89723481--89724035 Score: 450
Period size: 126 Copynumber: 4.4 Consensus size: 127
89723471 TGGTGCCCGC
* ** * ** *
89723481 ACACTCTCCCAAGAATCATCACCCTGTTAG-AGAAACTCCTGAAGTATCATCTCCGGGACCAGCA
1 ACACTCTCCCAAGCATCATGGCCCTGTT-GCAGAATCTCCCAAAGCATCATCTCCGGGACCAGCA
** * *
89723545 TACTCACCCAGGCATCATGGCCCTGTTTTTGAACC-CCCTGAAACATCAATTCTAGAGCCAGA
65 TACTCACCCAAACATCATAGCCCTGTTGTTGAACCTCCCTGAAACATCAATTCTAGAGCCAGA
* * * * * * * *
89723607 ACACTCTCTCAATCATCACGGCCCTGTTCCAGAATATCTCAAGGCATCATCTCCGGGGCCAGCAT
1 ACACTCTCCCAAGCATCATGGCCCTGTTGCAGAATCTCCCAAAGCATCATCTCCGGGACCAGCAT
* * ** * * * * *
89723672 ACTCACTCAAACATCATAGCCATGTTGCAGAA--TCACCT-AAAGCCTC-ATCTCTGGTGCCTGC
66 ACTCACCCAAACATCATAGCCCTGTTGTTGAACCTC-CCTGAAA-CATCAAT-TCTAGAGCCAGA
* * ** * ** *
89723733 ACACTCTCCCAAGAATGATCACCCTGTTGGAGAAAT-TCCTGAAGCATCATCTCCAGGACCAGCA
1 ACACTCTCCCAAGCATCATGGCCCTGTTGCAG-AATCTCCCAAAGCATCATCTCCGGGACCAGCA
* * *
89723797 TACTCACCCAAGCATCATGGCCCTGTT-TCTGAA-CTCCCTCAAACATCAATTCTAGAGCCAGA
65 TACTCACCCAAACATCATAGCCCTGTTGT-TGAACCTCCCTGAAACATCAATTCTAGAGCCAGA
* * * *
89723859 ACACTCTCTCAAGCATCATGGCCCCGTT-CTAGAATCTCTCAAAGCATCATCTCCGGGGCCAGCA
1 ACACTCTCCCAAGCATCATGGCCCTGTTGC-AGAATCTCCCAAAGCATCATCTCCGGGACCAGCA
* * * * * *
89723923 TACTCACCCAAACATCATAGCCCTGTTGTGGAACCTCCC-GAAGCCTC-ATGTCCAGAGCAAGC
65 TACTCACCCAAACATCATAGCCCTGTTGTTGAACCTCCCTGAAACATCAAT-TCTAGAGCCAGA
* * * * * * *
89723985 ACAGTCTCCCGATCATCATGGCACTATTGCAGAACCTCCCAAAGCGTCATC
1 ACACTCTCCCAAGCATCATGGCCCTGTTGCAGAATCTCCCAAAGCATCATC
89724036 ACCAGAGCCA
Statistics
Matches: 328, Mismatches: 85, Indels: 32
0.74 0.19 0.07
Matches are distributed among these distances:
125 11 0.03
126 300 0.91
127 17 0.05
ACGTcount: A:0.28, C:0.34, G:0.16, T:0.22
Consensus pattern (127 bp):
ACACTCTCCCAAGCATCATGGCCCTGTTGCAGAATCTCCCAAAGCATCATCTCCGGGACCAGCAT
ACTCACCCAAACATCATAGCCCTGTTGTTGAACCTCCCTGAAACATCAATTCTAGAGCCAGA
Found at i:89724061 original size:252 final size:252
Alignment explanation
Indices: 89723396--89724075 Score: 716
Period size: 252 Copynumber: 2.7 Consensus size: 252
89723386 AAGAATCATG
* * ** * * * * **
89723396 AAGCATCATCTCCAGAGCCAGCGCACTCTCCCGAGCATCATAGCCATGTTGCAGAATCACCTGAA
1 AAGCATCATCTCCGGGGCCAGCATACTCACCCAAACATCATAGCCATGTTGCAGAACCACCCAAA
** * ** * * **
89723461 GCCTCATCTCTGGTGCCCGCACACTCTCCCAAGAATCATCACCCTGTTAG-AGAAACTCCTGAAG
66 GCCTCATCTCCAGAGCAAGCACACTCTCCCAAGAATCATCACACTATT-GCAGAAACTCCCAAAG
* * * * * * *
89723525 TATCATCTCCGGGACCAGCATACTCACCCAGGCATCATGGCCCTGTTTTTGAACCCCCTGAAACA
130 CATCATCACCAGGACCAGCACACTCACCCAAGCATCATGGCCCTGTTTCTGAACCCCCTCAAACA
* *
89723590 TCAATTCTAGAGCCAGAACACTCTCTCAATCATCACGGCCCTGTTCCAGAATATCTCA
195 TCAATTCTAGAGCCAGAACACTCTCTCAAGCATCACGGCCCCGTTCCAGAATATCTCA
* * * *
89723648 AGGCATCATCTCCGGGGCCAGCATACTCACTCAAACATCATAGCCATGTTGCAGAATCACCTAAA
1 AAGCATCATCTCCGGGGCCAGCATACTCACCCAAACATCATAGCCATGTTGCAGAACCACCCAAA
** * ** * * * * * **
89723713 GCCTCATCTCTGGTGCCTGCACACTCTCCCAAGAATGATCACCCTGTTGGAGAAATTCCTGAAGC
66 GCCTCATCTCCAGAGCAAGCACACTCTCCCAAGAATCATCACACTATTGCAGAAACTCCCAAAGC
* * *
89723778 ATCATCTCCAGGACCAGCATACTCACCCAAGCATCATGGCCCTGTTTCTGAACTCCCTCAAACAT
131 ATCATCACCAGGACCAGCACACTCACCCAAGCATCATGGCCCTGTTTCTGAACCCCCTCAAACAT
* * *
89723843 CAATTCTAGAGCCAGAACACTCTCTCAAGCATCATGGCCCCGTTCTAGAATCTCTCA
196 CAATTCTAGAGCCAGAACACTCTCTCAAGCATCACGGCCCCGTTCCAGAATATCTCA
* ** * *
89723900 AAGCATCATCTCCGGGGCCAGCATACTCACCCAAACATCATAGCCCTGTTGTGGAACCTCCCGAA
1 AAGCATCATCTCCGGGGCCAGCATACTCACCCAAACATCATAGCCATGTTGCAGAACCACCCAAA
* * * ** ** *
89723965 GCCTCATGTCCAGAGCAAGCACAGTCTCCCGATCATCATGGCACTATTGCAGAACCTCCCAAAGC
66 GCCTCATCTCCAGAGCAAGCACACTCTCCCAAGAATCATCACACTATTGCAGAAACTCCCAAAGC
* * * * *
89724030 GTCATCACCA-GAGCCAGCCCCCTCTCCCAAGCACCATGGCCCTGTT
131 ATCATCACCAGGA-CCAGCACACTCACCCAAGCATCATGGCCCTGTT
89724076 GCAGAACCAG
Statistics
Matches: 366, Mismatches: 60, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
251 3 0.01
252 363 0.99
ACGTcount: A:0.27, C:0.35, G:0.17, T:0.21
Consensus pattern (252 bp):
AAGCATCATCTCCGGGGCCAGCATACTCACCCAAACATCATAGCCATGTTGCAGAACCACCCAAA
GCCTCATCTCCAGAGCAAGCACACTCTCCCAAGAATCATCACACTATTGCAGAAACTCCCAAAGC
ATCATCACCAGGACCAGCACACTCACCCAAGCATCATGGCCCTGTTTCTGAACCCCCTCAAACAT
CAATTCTAGAGCCAGAACACTCTCTCAAGCATCACGGCCCCGTTCCAGAATATCTCA
Found at i:89724260 original size:188 final size:188
Alignment explanation
Indices: 89724042--89724443 Score: 540
Period size: 188 Copynumber: 2.1 Consensus size: 188
89724032 CATCACCAGA
* * * * *
89724042 GCCAGCCCCCTCTCCCAAGCACCATGGCCCTGTTGCAGAACCAGCCAAAGCCTCATCTCCA-TGG
1 GCCAGCCCACTCTCCCGAGCATCATGGCCCTGTTGCAGAACCAGCCAAAACCTCATCT-CAGGGG
* * ** *
89724106 CCAGCACACTTACCCAAGTATCATGGCTCCATTGTAGAGGCC-CCAGAAACATCGAA-TCTAGAG
65 CCAGCACACTCACCCAAGCATCATGGCTCCATTGTA-AAACCACCAGAAACATC-AATTCCAGAG
* * * * *
89724169 ACAAAAAATTCTCCCAAGCACTATGGACCTGTTCTAGAACCTCTGAAAGTATCATCTCTTG
128 ACAAAAAATTCTCCCAAGCACGATGGACCTCTTCTAGAACCACTGAAAGCATCATCTCTAG
89724230 GCCAGCCCACTCTCCCGAGCATCATGGCCCTGTTGCAGAACCAGCCAAAACCTCATCTCAGGGGC
1 GCCAGCCCACTCTCCCGAGCATCATGGCCCTGTTGCAGAACCAGCCAAAACCTCATCTCAGGGGC
** *
89724295 CAGCACACTCACCCAAGCATCATGGCTCTGTTGTAAAACCACCAGAAATATCAATTCCAGAGACA
66 CAGCACACTCACCCAAGCATCATGGCTCCATTGTAAAACCACCAGAAACATCAATTCCAGAGACA
* *
89724360 AAAAATTCTCTCAAGCACGATGGACCTCTTCTAGAACCACTTAAAGCATCATCTCTAG
131 AAAAATTCTCCCAAGCACGATGGACCTCTTCTAGAACCACTGAAAGCATCATCTCTAG
* * *
89724418 GACCAGCACACTGTCCTGAGCATCAT
1 G-CCAGCCCACTCTCCCGAGCATCAT
89724444 ATTTCCGTTG
Statistics
Matches: 187, Mismatches: 23, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
187 7 0.04
188 159 0.85
189 21 0.11
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (188 bp):
GCCAGCCCACTCTCCCGAGCATCATGGCCCTGTTGCAGAACCAGCCAAAACCTCATCTCAGGGGC
CAGCACACTCACCCAAGCATCATGGCTCCATTGTAAAACCACCAGAAACATCAATTCCAGAGACA
AAAAATTCTCCCAAGCACGATGGACCTCTTCTAGAACCACTGAAAGCATCATCTCTAG
Found at i:89724316 original size:63 final size:60
Alignment explanation
Indices: 89723396--89724640 Score: 344
Period size: 63 Copynumber: 19.8 Consensus size: 60
89723386 AAGAATCATG
* * * * * **
89723396 AAGCATCATCTCCAGAGCCAGCGCACTCTCCCGAGCATCATAGCCATGTTGCAGAATCACCTG
1 AAGCATCATCT-CAGGGCCAGCACACTCTCCCAAGCATCATGGCCCTGTTGCAGAA-C-CCCA
* * * * ** **
89723459 AAGCCTCATCTCTGGTGCCCGCACACTCTCCCAAGAATCATCACCCTGTTAG-AGAAACTCCTG
1 AAGCATCATCTCAGG-GCCAGCACACTCTCCCAAGCATCATGGCCCTGTT-GCAG-AAC-CCCA
* * * * * ***
89723522 AAGTATCATCTCCGGGACCAGCATACTCACCCAGGCATCATGGCCCTGTTTTTGAACCCCCTGA
1 AAGCATCATCTCAGGG-CCAGCACACTCTCCCAAGCATCATGGCCCTGTTGCAGAA-CCCC--A
* * * * * * * *
89723586 AA-CATCAAT-TCTAGAGCCAGAACACTCTCTCAATCATCACGGCCCTGTTCCAGAATATCTCA
1 AAGCATC-ATCTC-AGGGCCAGCACACTCTCCCAAGCATCATGGCCCTGTTGCAG-A-ACCCCA
* * * * * * * * *
89723648 AGGCATCATCTCCGGGGCCAGCATACTCACTCAAACATCATAGCCATGTTGCAGAATCACCTA
1 AAGCATCATCT-CAGGGCCAGCACACTCTCCCAAGCATCATGGCCCTGTTGCAGAA-C-CCCA
* * * * * ** * * **
89723711 AAGCCTCATCTCTGGTGCCTGCACACTCTCCCAAGAATGATCACCCTGTTGGAGAAATTCCTG
1 AAGCATCATCTCAGG-GCCAGCACACTCTCCCAAGCATCATGGCCCTGTTGCAG-AA-CCCCA
* * * * *
89723774 AAGCATCATCTCCAGGACCAGCATACTCACCCAAGCATCATGGCCCTGTTTCTGAACTCCCTCA
1 AAGCATCATCT-CAGGGCCAGCACACTCTCCCAAGCATCATGGCCCTGTTGCAGAA--CCC-CA
* * * * *
89723838 AA-CATCAAT-TCTAGAGCCAGAACACTCTCTCAAGCATCATGGCCCCGTT-CTAGAATCTCTCA
1 AAGCATC-ATCTC-AGGGCCAGCACACTCTCCCAAGCATCATGGCCCTGTTGC-AGAA-C-CCCA
* * * * * ** *
89723900 AAGCATCATCTCCGGGGCCAGCATACTCACCCAAACATCATAGCCCTGTTGTGGAACCTCCCG
1 AAGCATCATCT-CAGGGCCAGCACACTCTCCCAAGCATCATGGCCCTGTTGCAGAA-C-CCCA
* * * * * * * * *
89723963 AAGCCTCATGTCCAGAGCAAGCACAGTCTCCCGATCATCATGGCACTATTGCAGAACCTCCCA
1 AAGCATCATCT-CAGGGCCAGCACACTCTCCCAAGCATCATGGCCCTGTTGCAGAA-C-CCCA
* * * * * *
89724026 AAGCGTCATCACCAGAGCCAGCCCCCTCTCCCAAGCACCATGGCCCTGTTGCAGAACCAGCCA
1 AAGCATCATC-TCAGGGCCAGCACACTCTCCCAAGCATCATGGCCCTGTTGCAGAACC--CCA
* * * * * *
89724089 AAGCCTCATCTCCATGGCCAGCACACT-TACCCAAGTATCATGGCTCC-ATTGTAGAGGCCCCA
1 AAGCATCATCT-CAGGGCCAGCACACTCT-CCCAAGCATCATGGC-CCTGTTGCAGA-ACCCCA
* * * ** * * *
89724151 GAAACATCGAATCT-AGAGACAAAAAATTCTCCCAAGCA-CTATGGACCTGTT-CTAGAACCTCT
1 -AAGCATC--ATCTCAGGGCCAGCACACTCTCCCAAGCATC-ATGGCCCTGTTGC-AGAACC-C-
*
89724213 GA
59 CA
* ** * *
89724215 AAGTATCATCTCTTGGCCAGCCCACTCTCCCGAGCATCATGGCCCTGTTGCAGAACCAGCCA
1 AAGCATCATCTCAGGGCCAGCACACTCTCCCAAGCATCATGGCCCTGTTGCAGAACC--CCA
* * * * * *
89724277 AAACCTCATCTCAGGGGCCAGCACACTCACCCAAGCATCATGGCTCTGTTGTAAAACCACCA
1 AAGCATCATCTCA-GGGCCAGCACACTCTCCCAAGCATCATGGCCCTGTTGCAGAACC-CCA
** * * ** * * * * *
89724339 GAAATATCAAT-TCCAGAGACAAAAAATTCTCTCAAGCA-CGATGGACCTCTT-CTAGAACCACT
1 -AAGCATC-ATCT-CAGGGCCAGCACACTCTCCCAAGCATC-ATGGCCCTGTTGC-AGAACC-C-
*
89724401 TA
59 CA
* * ** *** *
89724403 AAGCATCATCTCTAGGACCAGCACACTGTCCTGAGCATCATATTTCC-GTTGAAGAACCTCCCA
1 AAGCATCATCTC-AGGGCCAGCACACTCTCCCAAGCATCAT-GGCCCTGTTGCAGAA-C-CCCA
* * * * * *
89724466 AAGCATTATCTGCAGAGCCAGCATACTCTCCCGAGCATCATGACCCTGTTGCAGAGCCTGCCA
1 AAGCATCATCT-CAGGGCCAGCACACTCTCCCAAGCATCATGGCCCTGTTGCAGAACC--CCA
** * * * * ** * * *
89724529 AAGCCCCATCCCCAGTGCCAGCTCACTCTTCCAAGC-TCAATGATCATGTTCCAAAACCACCCA
1 AAGCATCAT-CTCAGGGCCAGCACACTCTCCCAAGCATC-ATGGCCCTGTTGCAGAA-C-CCCA
* *** * *
89724592 AAGCATCATCTCTTGGATTAGCATACTCACCCAAGCATCATGGCCCTGT
1 AAGCATCATCTC-AGGGCCAGCACACTCTCCCAAGCATCATGGCCCTGT
89724641 CGTACAACCA
Statistics
Matches: 843, Mismatches: 265, Indels: 148
0.67 0.21 0.12
Matches are distributed among these distances:
61 7 0.01
62 91 0.11
63 693 0.82
64 45 0.05
65 7 0.01
ACGTcount: A:0.28, C:0.34, G:0.16, T:0.21
Consensus pattern (60 bp):
AAGCATCATCTCAGGGCCAGCACACTCTCCCAAGCATCATGGCCCTGTTGCAGAACCCCA
Found at i:89729557 original size:2 final size:2
Alignment explanation
Indices: 89729550--89729576 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
89729540 ATGCACTTAC
89729550 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
89729577 GCACACACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:89730767 original size:25 final size:25
Alignment explanation
Indices: 89730733--89730784 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
89730723 AATGTAAAGC
*
89730733 TTTGCCGACTTCAGTTACTTACATT
1 TTTGCCGACTTCAGTCACTTACATT
89730758 TTTGCCGACTTCAGTCACTTACATT
1 TTTGCCGACTTCAGTCACTTACATT
89730783 TT
1 TT
89730785 AGTTATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.44
Consensus pattern (25 bp):
TTTGCCGACTTCAGTCACTTACATT
Found at i:89732158 original size:14 final size:15
Alignment explanation
Indices: 89732128--89732160 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
89732118 ATATTAGTAT
89732128 TAATATTAATTAAAAA
1 TAATATTAA-TAAAAA
89732144 TAATATTAA-AAAAA
1 TAATATTAATAAAAA
89732158 TAA
1 TAA
89732161 AAGAACATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
16 9 0.53
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAATATTAATAAAAA
Found at i:89732841 original size:21 final size:22
Alignment explanation
Indices: 89732817--89732863 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
89732807 GAGCCTTGGG
* *
89732817 TTTGTTGTTGTTTTTCCA-TGT
1 TTTGTTGTTATTTTCCCACTGT
89732838 TTTGTTGTTATTTTCCCACTGT
1 TTTGTTGTTATTTTCCCACTGT
89732860 TTTG
1 TTTG
89732864 CTATCATTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.06, C:0.13, G:0.17, T:0.64
Consensus pattern (22 bp):
TTTGTTGTTATTTTCCCACTGT
Found at i:89733679 original size:40 final size:40
Alignment explanation
Indices: 89733635--89733716 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
89733625 GCTAGCTTTT
89733635 CGTTGCTTTTATCAATTACATTAGTATACGTTAACTGTCA
1 CGTTGCTTTTATCAATTACATTAGTATACGTTAACTGTCA
89733675 CGTTGCTTTTATCAATTACATTAGTATACGTTAACTGTCA
1 CGTTGCTTTTATCAATTACATTAGTATACGTTAACTGTCA
89733715 CG
1 CG
89733717 CCAGATGGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.41
Consensus pattern (40 bp):
CGTTGCTTTTATCAATTACATTAGTATACGTTAACTGTCA
Found at i:89736280 original size:23 final size:23
Alignment explanation
Indices: 89736253--89736305 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
89736243 GAATTTAAAT
*
89736253 AAATATTCATA-TTTATATTATTA
1 AAATATTCATATTTTAAATTA-TA
*
89736276 AAATATTTATATTTTAAATTATA
1 AAATATTCATATTTTAAATTATA
89736299 AAATATT
1 AAATATT
89736306 AATAAATTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 19 0.70
24 8 0.30
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
AAATATTCATATTTTAAATTATA
Found at i:89736283 original size:17 final size:16
Alignment explanation
Indices: 89736261--89736293 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
89736251 ATAAATATTC
89736261 ATATTTATATTATTAAA
1 ATATTTATATT-TTAAA
89736278 ATATTTATATTTTAAA
1 ATATTTATATTTTAAA
89736294 TTATAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATATTTATATTTTAAA
Found at i:89738056 original size:12 final size:14
Alignment explanation
Indices: 89738029--89738066 Score: 53
Period size: 12 Copynumber: 2.8 Consensus size: 14
89738019 ATTATTATTC
89738029 TAATATCAATTTAA
1 TAATATCAATTTAA
89738043 TAATAT-AA-TTAA
1 TAATATCAATTTAA
89738055 TAATCATCAATT
1 TAAT-ATCAATT
89738067 CAAAAATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 8 0.38
13 4 0.19
14 8 0.38
15 1 0.05
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (14 bp):
TAATATCAATTTAA
Found at i:89750657 original size:72 final size:71
Alignment explanation
Indices: 89750536--89750730 Score: 239
Period size: 72 Copynumber: 2.7 Consensus size: 71
89750526 GAGTTAAGCC
* * * *
89750536 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
89750600 TGAGGTA
65 TGAGGTA
** *
89750607 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGA
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
89750672 TGAGGTA
65 TGAGGTA
* * * * *
89750679 ATCTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTTCAATTTTTGTTT-TTAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
89750731 ACCTTTTAAT
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
71 6 0.06
72 69 0.65
73 31 0.29
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
GAGGTA
Found at i:89750913 original size:88 final size:88
Alignment explanation
Indices: 89750761--89751088 Score: 471
Period size: 88 Copynumber: 3.7 Consensus size: 88
89750751 TCAAAATTAG
* *
89750761 CTCATAGTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGTCTTCAT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGTTTTCAT
*
89750826 TATTATGTTTTTGAAAGAATCAG
66 TATTATGTTTTTGAAAGAATCAA
89750849 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGTTTTCAT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGTTTTCAT
89750914 TATTATG-TTTTGAAAGAATCAA
66 TATTATGTTTTTGAAAGAATCAA
* *
89750936 CTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTTCAATTTCTG-TTTT
* * ** *
89751001 CAAT-TTCTGTCTTTCAAAAAAAAATCAA
63 CATTATTATGT-TTT--TGAAAGAATCAA
* * *
89751029 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGTT
89751089 GTCAAAAAAA
Statistics
Matches: 218, Mismatches: 15, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
87 46 0.21
88 70 0.32
89 28 0.13
90 9 0.04
91 25 0.11
93 40 0.18
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (88 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGTTTTCAT
TATTATGTTTTTGAAAGAATCAA
Found at i:89751002 original size:14 final size:14
Alignment explanation
Indices: 89750983--89751017 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
89750973 CGCCGAGGTA
89750983 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
89750997 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
89751011 CTTTCAA
1 TTTTCAA
89751018 AAAAAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:89751124 original size:74 final size:75
Alignment explanation
Indices: 89750998--89751325 Score: 257
Period size: 74 Copynumber: 4.1 Consensus size: 75
89750988 AATTTCCGTT
* * *
89750998 TTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-A
1 TTTCAATTTCTGT-TGTC--AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGCA
*
89751062 CACGCTGAGGTAA
63 CACGCCGAGGTAA
*
89751075 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACA
1 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGG-CACA
*
89751140 CGCCGAGGTAT
65 CGCCGAGGTAA
* * * * * *** * *
89751151 TTTCAATTTCCGTTTTTCAATTTCTGCTTTAAAAA-AAAATCAACTCATATTGCGAGAGGTGAGT
1 TTTCAATTTCTG-TTGTCAA----------AAAAATCAACTC--GT-ATTGCGAGAG--GCGAGT
*
89751215 TGAGCCTCAGG-ACACGCTGAGGTAA
50 TGAGCCTCAGGCACACGCCGAGGTAA
* * *
89751240 TTTCAATTTCTGTTGTCAAAAAAGTCAACTCGTATTGCGAGCGGCGAGTTGAGCCGCAGGTCACA
1 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGG-CACA
*
89751305 CGCCGAGGTAT
65 CGCCGAGGTAA
89751316 TTTCAATTTC
1 TTTCAATTTC
89751326 CGTTTTTCAA
Statistics
Matches: 196, Mismatches: 34, Indels: 43
0.72 0.12 0.16
Matches are distributed among these distances:
74 55 0.28
76 53 0.27
77 20 0.10
78 4 0.02
79 4 0.02
86 4 0.02
87 5 0.03
88 7 0.04
89 28 0.14
91 16 0.08
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (75 bp):
TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGCACAC
GCCGAGGTAA
Found at i:89751270 original size:165 final size:163
Alignment explanation
Indices: 89750930--89752110 Score: 1170
Period size: 165 Copynumber: 7.2 Consensus size: 163
89750920 GTTTTGAAAG
*
89750930 AATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
89750995 GTTTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
66 GTTTTTCAATTTCTG-CTTT---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
*
89751060 GACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
127 GACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAA
* * *
89751097 AATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
89751162 GTTTTTCAATTTCTGCTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
66 GTTTTTCAATTTCTGCTTT--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
*
89751227 CACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
129 CACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAA
* * * * *
89751262 AGTCAACTCGTATTGCGAGCGGCGAGTTGAGCCGCAGGTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* *
89751327 GTTTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TG
66 GTTTTTCAATTTCTG-CTTT---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* * *
89751391 GCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAA
127 G---ACACGCTGAGGTAATTTCAATTTCTGT-TTTCAAAAA
*
89751432 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
*
89751497 GTTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
66 GTTTTTCAATTTCTG-CTTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--
* * * * *
89751562 CACACACTGAGGTATTTTTTTTACTTCAATTTATATTTTTC--AAA
127 GACACGCTGAGGTA--------ATTTCAATTTCT-GTTTTCAAAAA
* * * *
89751606 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGATCACACACCGACGTATTTTCAATTT-C
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* * ** *
89751670 -----T--GTTT-T-C-----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
66 GTTTTTCAATTTCTGCTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
89751721 CGTTGAGGTATTTTCAATTTCTGTTTTC-AAAA
131 CGCTGAGGTAATTTCAATTTCTGTTTTCAAAAA
* * * * *
89751753 AATCAACTTATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTTCAATTT-
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACACGCCGAGGTATTTTCAATTTC
* * *
89751816 C---TGTC---TT-T-C---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
65 CGTTTTTCAATTTCTGCTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--G
* * * *
89751870 ACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAA
128 ACACGCTGAGGTA--ATTTCAATTTCT-GTTTTCAAAAA
* * * * * ** *
89751909 AATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* ** * * *
89751974 GTTTTTCAAATTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTC
66 GTTTTTCAATTTCTGCTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-AC
* * *
89752037 ACGTGCTGAGCTATTTTCAATTTCTATTTTTTTTTCAAAAA
130 AC--GCTGAGGTAATTTCAATTTC-----TGTTTTCAAAAA
*
89752078 AATTCAACTCATATTTCGAGAGGTGAGTTGAGC
1 AA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
89752111 TTTTTAATTT
Statistics
Matches: 870, Mismatches: 91, Indels: 103
0.82 0.09 0.10
Matches are distributed among these distances:
146 6 0.01
147 65 0.07
148 4 0.00
149 1 0.00
150 35 0.04
152 11 0.01
154 11 0.01
155 16 0.02
156 53 0.06
157 37 0.04
160 3 0.00
163 3 0.00
164 1 0.00
165 172 0.20
166 14 0.02
167 160 0.18
168 48 0.06
169 38 0.04
170 114 0.13
173 1 0.00
174 63 0.07
176 13 0.01
177 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (163 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
GTTTTTCAATTTCTGCTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTAATTTCAATTTCTGTTTTCAAAAA
Found at i:89751410 original size:93 final size:93
Alignment explanation
Indices: 89751257--89751428 Score: 220
Period size: 93 Copynumber: 1.8 Consensus size: 93
89751247 TTCTGTTGTC
* * * *
89751257 AAAAAAGTCAACTCGTATTGCGAGCGGCGAGTTGAGCCGCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCGCAGGTCACACGCCGAGCTATTTTCAA
*
89751322 TTTCCGTTTTTCAATTTCTGCCTTTCAA
66 TTTCCGTCTTTCAATTTCTGCCTTTCAA
* * ** * *
89751350 AAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCC-TTGGCTCACGCGCTGAGCTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCGCAGG-TCACACGCCGAGCTATTTTCA
*
89751414 ATTTCTGTCTTTCAA
65 ATTTCCGTCTTTCAA
89751429 AAAAATCAAC
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
92 2 0.03
93 64 0.97
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (93 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCGCAGGTCACACGCCGAGCTATTTTCAA
TTTCCGTCTTTCAATTTCTGCCTTTCAA
Found at i:89751477 original size:79 final size:79
Alignment explanation
Indices: 89751329--89752321 Score: 432
Period size: 77 Copynumber: 12.2 Consensus size: 79
89751319 CAATTTCCGT
** * * *
89751329 TTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TG-G
1 TTTTCAATTTCTGTTTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT
* *
89751392 CTCACGCGCTGAGCTA
64 CACACGCGCTGAGGTA
*
89751408 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
89751473 CACGC-C-GAGGTA
66 CACGCGCTGAGGTA
* * * *
89751485 TTTTCAATTTCCGTTTTTCAATTTCTGTCTTTCAAAAA--AA-TCA-ACT-C-ATATTGCGAGAG
1 TTTTCAATTTCTGTTTTTCAA------------AAAAATCAACTCATATTGCGAGA--G-GTGAG
* * * * * *
89751544 GTGAG-TTGAGCTTCAGATCACACACTGAGGTA
51 TTGAGCCTCAG-ATC--A-CACGCGCTGAGGTA
* * *
89751576 TTTTTTTTACTTCAATTTATATTTTTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
1 ------TT--TTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
89751639 TCAGATCACACAC-C-GACGTA
58 TCAGATCACACGCGCTGAGGTA
* ** *
89751659 TTTTCAATTTCTG-TTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
*
89751719 CA--CGTTGAGGTA
66 CACGCGCTGAGGTA
* * * *
89751731 TTTTCAATTTCTG-TTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT-TG-GCT
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
*
89751792 CACGCGCTGAGCTA
66 CACGCGCTGAGGTA
* *
89751806 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
*
89751871 CA--CACTGAGGTA
66 CACGCGCTGAGGTA
* * * * * *
89751883 TTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGT
1 --TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT
* *
89751948 CACATG-TC-GAGGTA
64 CACACGCGCTGAGGTA
** *
89751962 TTTTCAAAATCTGTTTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTTCAATTTCTGTTTTTC-AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * * * *
89752027 GCCT-TG-GCTCACGTGCTGAGCTA
55 GCCTCAGATCACACGCGCTGAGGTA
* * *
89752050 TTTTCAATTTCTATTTTTTTTTCAAAAAAATTCAACTCATATTTCGAGAGGTGAGTTGAGCTTTT
1 TTTTCAATTTC----TGTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CT
* * * * *
89752115 TA-ATTTCTGCGA-GAGTTGAGTTGA
59 CAGA--TC-AC-ACGCGCTGAGGT-A
* *
89752139 GTCTTTTAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-
1 -T-TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGA
***
89752201 TCACA-TATC-GAGGTA
63 TCACACGCGCTGAGGTA
* *
89752216 TTTTCAAAATCTGCTTTTCAAGTTAAGTTTC-AAAAAATCAACTCATATTGTGAGAGGTGAGTTG
1 TTTTC--AA------TTTC-TGTT---TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * * *
89752280 AGCCT-TG-GCTCACGCGCTGAGCTA
54 AGCCTCAGATCACACGCGCTGAGGTA
89752304 TTTTCAATTTCTGTTTTT
1 TTTTCAATTTCTGTTTTT
89752322 AATGTCTGTT
Statistics
Matches: 707, Mismatches: 108, Indels: 201
0.70 0.11 0.20
Matches are distributed among these distances:
70 1 0.00
72 26 0.04
73 36 0.05
74 42 0.06
75 33 0.05
76 8 0.01
77 126 0.18
78 9 0.01
79 97 0.14
80 6 0.01
81 7 0.01
82 29 0.04
83 12 0.02
84 34 0.05
85 21 0.03
86 24 0.03
87 19 0.03
88 116 0.16
89 16 0.02
90 3 0.00
91 19 0.03
92 7 0.01
97 2 0.00
99 14 0.02
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (79 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
CACGCGCTGAGGTA
Found at i:89751504 original size:14 final size:14
Alignment explanation
Indices: 89751485--89751519 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
89751475 CGCCGAGGTA
89751485 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
89751499 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
89751513 CTTTCAA
1 TTTTCAA
89751520 AAAAATCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:89751563 original size:91 final size:90
Alignment explanation
Indices: 89751408--89751675 Score: 379
Period size: 91 Copynumber: 3.0 Consensus size: 90
89751398 CGCTGAGCTA
89751408 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
*
89751473 CACGCCGAGGTATTTTCAATTTCCGT
66 CACACCGAGGTATTTTCAATTT-CGT
*
89751499 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
*
89751564 CACACTGAGGTATTTT---TTT--T
66 CACACCGAGGTATTTTCAATTTCGT
** * * * *
89751584 ACTTCAATTTATATTTTTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
*
89751647 CACACCGACGTATTTTCAATTTCTGT
66 CACACCGAGGTATTTTCAATTTC-GT
89751673 TTT
1 TTT
89751676 CAAAATTCAA
Statistics
Matches: 157, Mismatches: 14, Indels: 14
0.85 0.08 0.08
Matches are distributed among these distances:
83 56 0.36
85 15 0.10
86 3 0.02
88 3 0.02
89 2 0.01
91 78 0.50
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.37
Consensus pattern (90 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
CACACCGAGGTATTTTCAATTTCGT
Found at i:89751808 original size:147 final size:153
Alignment explanation
Indices: 89751499--89751943 Score: 519
Period size: 147 Copynumber: 2.9 Consensus size: 153
89751489 CAATTTCCGT
** *
89751499 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCTGTCTTTC-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGATCA
*
89751564 CACACTGAGGTATTTTTTTTACTTCAATTTATATTTTTC-AAAAATCAACTCATATTGCGAGAAG
65 CACACTGAGGTA-----TTT--TTCAATTTATAGTTTTCAAAAAATCAACTCATATTGCGAGAAG
89751628 TGAGTTGAGCCTCAGATCACACACCGACGTA
123 TGAGTTGAGCCTCAGATCACACACCGACGTA
* *
89751659 TTTTCAATTTCTGT-TTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GAC
1 TTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGATCAC
** * * *
89751720 ACGTTGAGGTA-TTTTCAATTTCT-GTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGA
66 ACACTGAGGTATTTTTCAATTTATAGTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
** * * * *
89751783 GCCTTGGCTCACGCGCTGA-GCTA
131 GCCTCAGATCACACACCGACG-TA
** *
89751806 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCTGTCTTTC-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGATCA
* * *
89751871 CACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGT
65 CACACTGAGGTA-TTTTTCAATTTATAGTTTTC-AAAAAATCAACTCATATTGCGAGAAGTGAGT
89751936 TGAGCCTC
128 TGAGCCTC
89751944 GGGTCACATG
Statistics
Matches: 244, Mismatches: 30, Indels: 26
0.81 0.10 0.09
Matches are distributed among these distances:
146 6 0.02
147 69 0.28
148 4 0.02
149 2 0.01
150 35 0.14
151 1 0.00
152 11 0.05
154 11 0.05
155 16 0.07
156 36 0.15
157 35 0.14
159 4 0.02
160 14 0.06
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (153 bp):
TTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGATCAC
ACACTGAGGTATTTTTCAATTTATAGTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
GCCTCAGATCACACACCGACGTA
Found at i:89751847 original size:77 final size:77
Alignment explanation
Indices: 89751499--89752321 Score: 462
Period size: 88 Copynumber: 10.2 Consensus size: 77
89751489 CAATTTCCGT
* * * *
89751499 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATC
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT-GGCTC
* *
89751563 ACACACTGAGGTA
65 ACACGCTGAGCTA
* *
89751576 TTTTTTTTACTTCAATTTATATTTTTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
1 ------TT--TTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
** * * *
89751639 TCAGATCACACACCGA-CGTA
58 TTGGCTCACACGCTGAGC-TA
* * **
89751659 TTTTCAATTTCTG-TTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCC-T--CAAG
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGC-TC
* *
89751718 ACACGTTGAGGTA
65 ACACGCTGAGCTA
* *
89751731 TTTTCAATTTCTG-TTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCA
*
89751794 CGCGCTGAGCTA
66 CACGCTGAGCTA
* * * *
89751806 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATC
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT-GGCTC
* *
89751870 ACACACTGAGGTA
65 ACACGCTGAGCTA
* * * * * *
89751883 TTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGT
1 --TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCT
* *
89751948 CACATG-TCGAGGTA
64 CACACGCT-GAGCTA
**
89751962 TTTTCAAAATCTGTTTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTTCAATTTCTGTTTTTC-AA----------AAAAATCAACTCATATTGCGAGAAGTGAGTTGA
**
89752027 GCCTTGGCTCACGTGCTGAGCTA
55 GCCTTGGCTCACACGCTGAGCTA
* * * *
89752050 TTTTCAATTTCTATTTTTTTTTCAAAAAAATTCAACTCATATTTCGAGAGGTGAGTTGAGCTTTT
1 TTTTCAATTTC----TGTTTTTCAAAAAAA-TCAACTCATATTGCGAGAAGTGAGTTGAGC---C
** * * *
89752115 TAATTTCTGCGAGA-GTTGAGTTGA
58 T--TGGCT-C-ACACGCTGAGCT-A
* * * **
89752139 GTCTTTTAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-
1 -T-TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGC
** *
89752201 TCACA-TATCGAGGTA
63 TCACACGCT-GAGCTA
* * *
89752216 TTTTCAAAATCTGCTTTTCAAGTTAAGTTTC-AAAAAATCAACTCATATTGTGAGAGGTGAGTTG
1 TTTTC--AA------TTTC-TGTT---TTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTG
*
89752280 AGCCTTGGCTCACGCGCTGAGCTA
54 AGCCTTGGCTCACACGCTGAGCTA
89752304 TTTTCAATTTCTGTTTTT
1 TTTTCAATTTCTGTTTTT
89752322 AATGTCTGTT
Statistics
Matches: 589, Mismatches: 91, Indels: 127
0.73 0.11 0.16
Matches are distributed among these distances:
72 26 0.04
73 32 0.05
74 40 0.07
75 35 0.06
76 12 0.02
77 70 0.12
78 8 0.01
79 66 0.11
80 6 0.01
81 6 0.01
82 28 0.05
83 54 0.09
84 33 0.06
85 20 0.03
86 2 0.00
87 15 0.03
88 113 0.19
89 4 0.01
90 1 0.00
91 11 0.02
92 7 0.01
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (77 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCA
CACGCTGAGCTA
Found at i:89751981 original size:14 final size:13
Alignment explanation
Indices: 89751962--89751997 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
89751952 TGTCGAGGTA
89751962 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
89751975 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
89751989 TTTTCAAAA
1 TTTTCAAAA
89751998 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:89752128 original size:30 final size:30
Alignment explanation
Indices: 89752094--89752153 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
89752084 ACTCATATTT
89752094 CGAGAGGTGAGTTGAG-CTTTTTAATTTCTG
1 CGAGAGGTGAGTTGAGTC-TTTTAATTTCTG
*
89752124 CGAGAGTTGAGTTGAGTCTTTTAATTTCTG
1 CGAGAGGTGAGTTGAGTCTTTTAATTTCTG
89752154 TTTTTCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.20, C:0.10, G:0.28, T:0.42
Consensus pattern (30 bp):
CGAGAGGTGAGTTGAGTCTTTTAATTTCTG
Found at i:89752236 original size:254 final size:247
Alignment explanation
Indices: 89751731--89752321 Score: 775
Period size: 254 Copynumber: 2.4 Consensus size: 247
89751721 CGTTGAGGTA
* *
89751731 TTTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
1 TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
*
89751796 CGCTGAGCTATTTTCAATTTC---TGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
66 CGCTGAGCTATTTTCAATTTCTTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
*
89751858 GAGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATT
131 GAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATT
* * ** * *
89751923 GCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTGT
195 GCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
*
89751976 TTTTCAAATTCTGTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACG
1 TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
* * *
89752040 TGCTGAGCTATTTTCAATTTCTATTTTTTTTTCAAAAAAATTCAACTCATATTTCGAGAGGTGAG
66 CGCTGAGCTATTTTCAATTTCT-TTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAG
* * * * * * *
89752105 TTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATC
129 TTGAGC--TTCAGA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATC
*
89752167 AACTCATATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
185 AACTCACATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
* ** *
89752230 TTTTCAAGTTAAG-TTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGCTCACG
1 TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
89752294 CGCTGAGCTATTTTCAATTTCTGTTTTT
66 CGCTGAGCTATTTTCAATTTCT-TTTTT
89752322 AATGTCTGTT
Statistics
Matches: 302, Mismatches: 29, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
244 64 0.21
245 17 0.06
248 13 0.04
249 29 0.10
250 1 0.00
251 3 0.01
252 2 0.01
253 5 0.02
254 145 0.48
255 5 0.02
256 13 0.04
257 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (247 bp):
TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
CGCTGAGCTATTTTCAATTTCTTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
GAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTG
CGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
Found at i:89753047 original size:31 final size:27
Alignment explanation
Indices: 89752977--89753046 Score: 119
Period size: 26 Copynumber: 2.7 Consensus size: 27
89752967 AAGCCCTCCC
89752977 AAAAA-AAAAAACCTAA-CCAAAAAAA
1 AAAAAGAAAAAACCTAACCCAAAAAAA
89753002 AAAAAGAAAAAACCTAACCCAAAAAAA
1 AAAAAGAAAAAACCTAACCCAAAAAAA
89753029 AAAAAG-AAAAACCTAACC
1 AAAAAGAAAAAACCTAACC
89753047 TCTCCCAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
25 5 0.12
26 23 0.53
27 15 0.35
ACGTcount: A:0.74, C:0.19, G:0.03, T:0.04
Consensus pattern (27 bp):
AAAAAGAAAAAACCTAACCCAAAAAAA
Found at i:89753623 original size:2 final size:2
Alignment explanation
Indices: 89753618--89753660 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
89753608 TAAATACTAT
*
89753618 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
89753660 T
1 T
89753661 TAAATACCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:89759180 original size:44 final size:44
Alignment explanation
Indices: 89759121--89759699 Score: 833
Period size: 44 Copynumber: 13.2 Consensus size: 44
89759111 TCCTTGAAAC
* * * * *
89759121 AGATTACAGATTTGGCATCTCTGTAGCGGTGGAGAACAGATTGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
89759165 AGATAACAGATTTGGCGCCTCTGTAGCAGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
89759209 AGATAACAAATTTGGCATCTCTATAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
89759253 AGATAATAAATTTGGCGTCTCTATAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
89759297 AGATAATAGATTTGGCGTCTCTGTAGCGGTGGAGAGTAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
89759341 AGATAACAGATTTGGCGCCTCTGTAGCAGCGGAGAGCAAATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
89759385 AGATAACAGATTTGGCGTCTCTATAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
89759429 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
89759473 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * * *
89759517 AGAT----GATTTGGCATCTTTGTAACGGCGGAGAACAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * * *
89759557 AGATAACAGATTTGGAGTCTCTGTAGCAGTGAAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
89759601 AGATAACAGATTTGGCGTCTCTGTAGCGGGGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
89759645 AGATAATAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
89759689 AAATAACAGAT
1 AGATAACAGAT
89759700 CGGTGTTCCT
Statistics
Matches: 479, Mismatches: 52, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
40 36 0.08
44 443 0.92
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (44 bp):
AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
Found at i:89761523 original size:23 final size:21
Alignment explanation
Indices: 89761468--89761564 Score: 68
Period size: 23 Copynumber: 4.2 Consensus size: 21
89761458 TTTGTAACAT
* * *
89761468 TATTATTATTATTTCTAATGTG
1 TATTATTA-TATTTTTAATATA
89761490 TATTATATATATTTTTAATACTA
1 TATTAT-TATATTTTTAATA-TA
*
89761513 TATTATGTATATATTATATTATATA
1 TATTAT-TATAT-TT-T-TAATATA
*
89761538 TATTTATTATATTTTTATGTATA
1 TA-TTATTATATTTTTA-ATATA
89761561 TATT
1 TATT
89761565 TTTAATATCA
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
22 18 0.30
23 21 0.34
24 4 0.07
25 10 0.16
26 8 0.13
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (21 bp):
TATTATTATATTTTTAATATA
Found at i:89761539 original size:25 final size:24
Alignment explanation
Indices: 89761495--89761568 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 24
89761485 ATGTGTATTA
89761495 TATATATTT-TTA-ATACTATATTAT
1 TATATATTTATTATATA-TAT-TTAT
89761519 GTATATATTATATTATATATATTTAT
1 -TATATATT-TATTATATATATTTAT
* *
89761545 TATATTTTTATGTATATATTTTTA
1 TATATATTTAT-TATATATATTTA
89761569 ATATCACATT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
24 3 0.07
25 26 0.60
26 5 0.12
27 6 0.14
28 3 0.07
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (24 bp):
TATATATTTATTATATATATTTAT
Found at i:89761547 original size:18 final size:18
Alignment explanation
Indices: 89761490--89761550 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 18
89761480 TTCTAATGTG
89761490 TATTATATATATTT-TTAA
1 TATTATATATATTTATT-A
* *
89761508 TACTATATTATGTATATATTA
1 TA-T-TA-TATATATTTATTA
89761529 TATTATATATATTTATTA
1 TATTATATATATTTATTA
89761547 TATT
1 TATT
89761551 TTTATGTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 17 0.49
19 3 0.09
20 3 0.09
21 10 0.29
22 2 0.06
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
TATTATATATATTTATTA
Found at i:89761556 original size:37 final size:38
Alignment explanation
Indices: 89761490--89761601 Score: 112
Period size: 37 Copynumber: 3.0 Consensus size: 38
89761480 TTCTAATGTG
*
89761490 TATTATATATATTT-TTAATACTATATTATGTATATATTA
1 TATTATATATATTTATTAATA-T-TTTTATGTATATATTA
89761529 TATTATATATATTTATT-ATATTTTTATGTATATATT-
1 TATTATATATATTTATTAATATTTTTATGTATATATTA
* *
89761565 T-TTA-ATATCACATTATTCATATTTTT-T-TATATATTA
1 TATTATATAT-A-TTTATTAATATTTTTATGTATATATTA
89761601 T
1 T
89761602 CCCATGTAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 13
0.81 0.02 0.16
Matches are distributed among these distances:
34 4 0.06
35 12 0.18
36 8 0.12
37 22 0.33
38 1 0.02
39 17 0.26
40 2 0.03
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (38 bp):
TATTATATATATTTATTAATATTTTTATGTATATATTA
Found at i:89761739 original size:3 final size:3
Alignment explanation
Indices: 89761733--89761812 Score: 108
Period size: 3 Copynumber: 26.0 Consensus size: 3
89761723 TTTATTCATA
* *
89761733 TAT TAT TAT CAT TAT TTT CTACGT TAT -AT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TA--T TAT TAT TAT TAT TAT TAT TAT TAT
89761780 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
89761813 CATTTTCATT
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.03
3 63 0.91
4 1 0.01
5 2 0.03
6 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:89765771 original size:37 final size:38
Alignment explanation
Indices: 89765685--89765771 Score: 90
Period size: 37 Copynumber: 2.3 Consensus size: 38
89765675 TTTTATAACT
* **
89765685 TTTAATATTTTTATTAAAATTTTAAGAACTTTTTTATT
1 TTTAATACTTTTATTAAAATTTTAAGAACTTTTTTAAA
* *
89765723 TTATAAT-CTTTTATT-AATTTTTAATAA-TTTTTGTAAA
1 TT-TAATACTTTTATTAAAATTTTAAGAACTTTTT-TAAA
89765760 TTTAATACTTTT
1 TTTAATACTTTT
89765772 CTATAACTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
36 9 0.22
37 19 0.46
38 9 0.22
39 4 0.10
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.61
Consensus pattern (38 bp):
TTTAATACTTTTATTAAAATTTTAAGAACTTTTTTAAA
Found at i:89768752 original size:10 final size:10
Alignment explanation
Indices: 89768737--89768772 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
89768727 ATATAATCTT
*
89768737 ATTAAATTAA
1 ATTAAATCAA
89768747 ATTAAATCAA
1 ATTAAATCAA
*
89768757 ATCAAATCAA
1 ATTAAATCAA
89768767 ATTAAA
1 ATTAAA
89768773 ACTTTTCTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (10 bp):
ATTAAATCAA
Found at i:89775749 original size:112 final size:112
Alignment explanation
Indices: 89775613--89775839 Score: 418
Period size: 112 Copynumber: 2.0 Consensus size: 112
89775603 ACCTAATTAG
89775613 ATTTTTGAAAATAATAAATTAATGAACATGTTAAAAAATGTGAAAAATTCAAGAAAGTGATAAAT
1 ATTTTTGAAAATAATAAATTAATGAACATGTTAAAAAATGTGAAAAATTCAAGAAAGTGATAAAT
*
89775678 GATTGTGATTATTATTAATGTGATTAAATGGGCAAAGAAAGGACTAA
66 GATTGTGATTATTATTAATGTGATTAAATAGGCAAAGAAAGGACTAA
* *
89775725 ATTTTTTAAAATAATAAATTAATGAACATGTTAATAAATGTGAAAAATTCAAGAAAGTGATAAAT
1 ATTTTTGAAAATAATAAATTAATGAACATGTTAAAAAATGTGAAAAATTCAAGAAAGTGATAAAT
*
89775790 GATTGTGATTATTGTTAATGTGATTAAATAGGCAAAGAAAGGACTAA
66 GATTGTGATTATTATTAATGTGATTAAATAGGCAAAGAAAGGACTAA
89775837 ATT
1 ATT
89775840 ATAAAATGTT
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
112 111 1.00
ACGTcount: A:0.48, C:0.04, G:0.16, T:0.33
Consensus pattern (112 bp):
ATTTTTGAAAATAATAAATTAATGAACATGTTAAAAAATGTGAAAAATTCAAGAAAGTGATAAAT
GATTGTGATTATTATTAATGTGATTAAATAGGCAAAGAAAGGACTAA
Found at i:89780202 original size:18 final size:19
Alignment explanation
Indices: 89780172--89780207 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
89780162 TTCAAGAATT
89780172 ATTAATAATTTTTATAATA
1 ATTAATAATTTTTATAATA
89780191 ATTAAT-ATTTTTATAAT
1 ATTAATAATTTTTATAAT
89780208 TTAAAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTAATAATTTTTATAATA
Found at i:89782620 original size:3 final size:3
Alignment explanation
Indices: 89782603--89783084 Score: 152
Period size: 3 Copynumber: 159.0 Consensus size: 3
89782593 TTACTTTTAA
* * *
89782603 TAT TCT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TCTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
* * * * * **
89782651 TAT TGT AAT TGT TAT TAT TTT TAT TTT TAT TGC TAT TAT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
89782698 TAA TAT TAC TA- TAGT TA- TAT TCAC TAT TAT TAT TAC TGT TA- TAT
1 TAT TAT TAT TAT TA-T TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
* * * *
89782742 T-T TAT TAT TAGGT CAT TAT TAT AAT TAT TAT TAACT TAT T-T TAT CAC
1 TAT TAT TAT TA--T TAT TAT TAT TAT TAT TAT T-A-T TAT TAT TAT TAT
* * *
89782789 TAT TAT CAT ATAT ATAT TAT TAT T-T ATAT TAT TGT TAT TAT TAC TAT
1 TAT TAT TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
89782836 TGT TAAA TAT TCT TAT TAT TAC TAT TAT TTT TGT TCCT T-T TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT
* * * * * **
89782882 TGT CTAT TAT CAA TAT TAT TACT T-T TAT TAT CAT CAT TAT TACT CGT
1 TAT -TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA-T TAT
* * * * * * *
89782929 CAG TAT T-T TCAT CACT AAC TAT ACAT TAT TAT TAC TACT TAT TAT T-T
1 TAT TAT TAT T-AT TA-T TAT TAT -TAT TAT TAT TAT TA-T TAT TAT TAT
* * * * * * *
89782976 TAC CAT TGT TAT CTAA TA- TAT TAT CAA TAT CAT TAT TAT TAT T-T
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
89783020 TAA TAT TGT AACT TAA TA- TAT TAG TAT TGA- TAT T-T TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
89783064 TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
89783085 CTTAGTTTTA
Statistics
Matches: 342, Mismatches: 99, Indels: 76
0.66 0.19 0.15
Matches are distributed among these distances:
2 32 0.09
3 271 0.79
4 35 0.10
5 4 0.01
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:89784923 original size:39 final size:39
Alignment explanation
Indices: 89784869--89784984 Score: 205
Period size: 39 Copynumber: 3.0 Consensus size: 39
89784859 GATCTAAAGC
89784869 CCGAAGTCTAGCTGAAGCACATAAGTGCTAAACGGAAGG
1 CCGAAGTCTAGCTGAAGCACATAAGTGCTAAACGGAAGG
89784908 CCGAAGTCTAGCTGAAGCACATAAGTGCTAAACGGAAGG
1 CCGAAGTCTAGCTGAAGCACATAAGTGCTAAACGGAAGG
* * *
89784947 CCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
1 CCGAAGTCTAGCTGAAGCACATAAGTGCTAAACGGAAG
89784985 CCTGAATGCT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.37, C:0.22, G:0.28, T:0.14
Consensus pattern (39 bp):
CCGAAGTCTAGCTGAAGCACATAAGTGCTAAACGGAAGG
Found at i:89784996 original size:39 final size:38
Alignment explanation
Indices: 89784869--89785003 Score: 191
Period size: 39 Copynumber: 3.4 Consensus size: 38
89784859 GATCTAAAGC
*
89784869 CCGAAGTCTAGCTGAAGCACATAAGTGCTAAACGGAAGG
1 CCGAAG-CTAACTGAAGCACATAAGTGCTAAACGGAAGG
*
89784908 CCGAAGTCTAGCTGAAGCACATAAGTGCTAAACGGAAGG
1 CCGAAG-CTAACTGAAGCACATAAGTGCTAAACGGAAGG
*
89784947 CCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAA-G
1 CCGAA-GCTAACTGAAGCACATAAGTGCTAAACGGAAGG
89784985 CCTGAATGCTAACTGAAGC
1 CC-GAA-GCTAACTGAAGC
89785004 TTATCAGAGC
Statistics
Matches: 91, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
38 3 0.03
39 87 0.96
40 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.27, T:0.15
Consensus pattern (38 bp):
CCGAAGCTAACTGAAGCACATAAGTGCTAAACGGAAGG
Found at i:89787230 original size:32 final size:33
Alignment explanation
Indices: 89787181--89787248 Score: 79
Period size: 32 Copynumber: 2.1 Consensus size: 33
89787171 TAGTGAATGT
*
89787181 CAACAAAACAATAGAAAA-AAGT-GGAAAAACAA
1 CAACAAAACAATAGAAAACAA-TAGCAAAAACAA
*
89787213 CAACAAAAC-ATGGGAAAACAATAGCAAAAACAA
1 CAACAAAACAAT-AGAAAACAATAGCAAAAACAA
89787246 CAA
1 CAA
89787249 TGTTTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
31 2 0.06
32 15 0.48
33 14 0.45
ACGTcount: A:0.66, C:0.16, G:0.12, T:0.06
Consensus pattern (33 bp):
CAACAAAACAATAGAAAACAATAGCAAAAACAA
Found at i:89787242 original size:22 final size:23
Alignment explanation
Indices: 89787185--89787244 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 23
89787175 GAATGTCAAC
89787185 AAAACAATAG-AAAAA-AGTGGA
1 AAAACAATAGCAAAAACAGTGGA
* * *
89787206 AAAACAACAAC-AAAACA-TGGG
1 AAAACAATAGCAAAAACAGTGGA
89787227 AAAACAATAGCAAAAACA
1 AAAACAATAGCAAAAACA
89787245 ACAATGTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 24 0.77
22 7 0.23
ACGTcount: A:0.67, C:0.13, G:0.13, T:0.07
Consensus pattern (23 bp):
AAAACAATAGCAAAAACAGTGGA
Found at i:89788384 original size:10 final size:10
Alignment explanation
Indices: 89788366--89788461 Score: 56
Period size: 10 Copynumber: 10.0 Consensus size: 10
89788356 TTAATTATTC
89788366 TTATAATTTT
1 TTATAATTTT
* *
89788376 TTATCATTTA
1 TTATAATTTT
*
89788386 TAATAATTTT
1 TTATAATTTT
* *
89788396 TAATAAATTT
1 TTATAATTTT
*
89788406 CTAT-A-TTT
1 TTATAATTTT
89788414 TTATAATTTT
1 TTATAATTTT
* *
89788424 TTA-CA-CTT
1 TTATAATTTT
* *
89788432 TAATATTTTT
1 TTATAATTTT
*
89788442 TTAAAATTTT
1 TTATAATTTT
*
89788452 ATATAATTTT
1 TTATAATTTT
89788462 AAATATAAAA
Statistics
Matches: 62, Mismatches: 20, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
8 10 0.16
9 3 0.05
10 49 0.79
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.61
Consensus pattern (10 bp):
TTATAATTTT
Found at i:89788418 original size:48 final size:44
Alignment explanation
Indices: 89788361--89788455 Score: 118
Period size: 48 Copynumber: 2.1 Consensus size: 44
89788351 TAAGTTTAAT
*
89788361 TATTCTTATAATTTTTTATCATTTATAATAATTTTTAATAAATTTCTA
1 TATTCTTATAATTTTTTA-CACTT-TAATAATTTTTAA-AAATTT-TA
* * *
89788409 TATTTTTATAATTTTTTACACTTTAATATTTTTTTAAAATTTTA
1 TATTCTTATAATTTTTTACACTTTAATAATTTTTAAAAATTTTA
89788453 TAT
1 TAT
89788456 AATTTTAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
44 5 0.12
45 6 0.14
46 11 0.26
47 4 0.09
48 17 0.40
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (44 bp):
TATTCTTATAATTTTTTACACTTTAATAATTTTTAAAAATTTTA
Found at i:89788455 original size:18 final size:18
Alignment explanation
Indices: 89788412--89788455 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
89788402 ATTTCTATAT
* * *
89788412 TTTTATAATTTTTTACAC
1 TTTTATATTTTTTTAAAA
*
89788430 TTTAATATTTTTTTAAAA
1 TTTTATATTTTTTTAAAA
89788448 TTTTATAT
1 TTTTATAT
89788456 AATTTTAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTATATTTTTTTAAAA
Found at i:89789146 original size:3 final size:3
Alignment explanation
Indices: 89789138--89789165 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
89789128 AAGCAGGGTC
89789138 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
89789166 TTGATTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:89795744 original size:19 final size:19
Alignment explanation
Indices: 89795708--89795758 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
89795698 ATGGGGGAAG
89795708 GATC-TATATATATAATGTA
1 GATCATATATATAT-ATGTA
89795727 GATCATATATATATATGTA
1 GATCATATATATATATGTA
*
89795746 TAT-AT-TATATATA
1 GATCATATATATATA
89795759 GATTACATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 8 0.27
18 2 0.07
19 11 0.37
20 9 0.30
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (19 bp):
GATCATATATATATATGTA
Found at i:89796582 original size:2 final size:2
Alignment explanation
Indices: 89796575--89796662 Score: 158
Period size: 2 Copynumber: 44.0 Consensus size: 2
89796565 TAGTTATGCC
89796575 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* *
89796617 CT CT CT CT CT CC CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
89796659 CT CT
1 CT CT
89796663 ATATATATAT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:89796667 original size:2 final size:2
Alignment explanation
Indices: 89796662--89796710 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
89796652 TCTCTCTCTC
89796662 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
89796704 TG TA TA T
1 TA TA TA T
89796711 CACTATTAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Done.