Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007749.1 Hibiscus syriacus cultivar Beakdansim tig00110015_pilon, whole genome shotgun sequence
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: 1787532
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:2204 original size:14 final size:13
Alignment explanation
Indices: 2185--2230 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
2175 TTTTTATTTA
2185 TATTAATTTGAATT
1 TATTAATTT-AATT
2199 TATTAATTTAATT
1 TATTAATTTAATT
*
2212 TATTTAGATTTAAAT
1 TA-TTA-ATTTAATT
2227 TATT
1 TATT
2231 TTATATTAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 6 0.21
14 14 0.48
15 9 0.31
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (13 bp):
TATTAATTTAATT
Found at i:2233 original size:16 final size:16
Alignment explanation
Indices: 2203--2289 Score: 99
Period size: 16 Copynumber: 5.6 Consensus size: 16
2193 TGAATTTATT
*
2203 AATTTAATTTA-TTTA
1 AATTTAAATTATTTTA
*
2218 GATTTAAATTATTTTA
1 AATTTAAATTATTTTA
* *
2234 TA-TTAACATCATTTTA
1 AATTTAA-ATTATTTTA
*
2250 AATTTAAATTA-TTTG
1 AATTTAAATTATTTTA
2265 AATTTAAATTATTTTA
1 AATTTAAATTATTTTA
2281 AATTTAAAT
1 AATTTAAAT
2290 GAATTTGAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
15 27 0.45
16 29 0.48
17 4 0.07
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
AATTTAAATTATTTTA
Found at i:2239 original size:15 final size:15
Alignment explanation
Indices: 2182--2289 Score: 96
Period size: 15 Copynumber: 7.1 Consensus size: 15
2172 TATTTTTTAT
* *
2182 TTATATTAATTTGAA
1 TTATTTTAATTTAAA
* *
2197 TT-TATTAATTTAAT
1 TTATTTTAATTTAAA
2211 TTA-TTTAGATTTAAA
1 TTATTTTA-ATTTAAA
2226 TTATTTT-ATATTAACA
1 TTATTTTAAT-TTAA-A
*
2242 TCATTTTAAATTTAAA
1 TTATTTT-AATTTAAA
*
2258 TTATTTGAATTTAAA
1 TTATTTTAATTTAAA
2273 TTATTTTAAATTTAAA
1 TTATTTT-AATTTAAA
2289 T
1 T
2290 GAATTTGAAG
Statistics
Matches: 77, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
14 17 0.22
15 29 0.38
16 25 0.32
17 4 0.05
18 2 0.03
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.56
Consensus pattern (15 bp):
TTATTTTAATTTAAA
Found at i:2256 original size:32 final size:31
Alignment explanation
Indices: 2214--2298 Score: 100
Period size: 32 Copynumber: 2.7 Consensus size: 31
2204 ATTTAATTTA
* *
2214 TTTAGATTTAAATTATTT-TATATTAACATCAT
1 TTTAAATTTAAATTATTTGAAT-TTAA-ATCAT
*
2246 TTTAAATTTAAATTATTTGAATTTAAATTAT
1 TTTAAATTTAAATTATTTGAATTTAAATCAT
*
2277 TTTAAATTTAAATGAATTTGAA
1 TTTAAATTTAAAT-TATTTGAA
2299 GAATTTAACA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
31 17 0.36
32 28 0.60
33 2 0.04
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (31 bp):
TTTAAATTTAAATTATTTGAATTTAAATCAT
Found at i:27230 original size:103 final size:102
Alignment explanation
Indices: 27046--27262 Score: 371
Period size: 103 Copynumber: 2.1 Consensus size: 102
27036 GTCGAGGGTC
* *
27046 TATGTGGTCCTTCGGGACATATAAGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATAAGCATTCTTTGGAACATGTGTGAAGTCTGGTGAAACACATAC
* *
27111 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAA-GAATGA
*
27149 TATGTGGTCCTTCGGGACATATATGCATTCTTTGGAACATGTGTGAAGTCTGGTGAAACACATAC
1 TATGTGGTCCTTCGGGACATATAAGCATTCTTTGGAACATGTGTGAAGTCTGGTGAAACACATAC
*
27214 TTGATCCCTAGTATATGTATATGATTCTTAAGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGAATGA
27251 TATGTGGTCCTT
1 TATGTGGTCCTT
27263 ATGACATTAT
Statistics
Matches: 108, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
102 18 0.17
103 90 0.83
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (102 bp):
TATGTGGTCCTTCGGGACATATAAGCATTCTTTGGAACATGTGTGAAGTCTGGTGAAACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGAATGA
Found at i:27304 original size:23 final size:23
Alignment explanation
Indices: 27278--27345 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
27268 ATTATTATAT
27278 GGCACTACGGTGCAATTCTATGC
1 GGCACTACGGTGCAATTCTATGC
* * *
27301 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTATGC
* *
27324 GGCACTTCGGTGCAATTATATG
1 GGCACTACGGTGCAATTCTATG
27346 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTATGC
Found at i:33000 original size:103 final size:103
Alignment explanation
Indices: 32816--33033 Score: 373
Period size: 103 Copynumber: 2.1 Consensus size: 103
32806 GTCGAGGGTC
* *
32816 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACGTGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTAGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
32881 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
* *
32919 TATGTGGTTCTTTGGGACATATATGTATTCTTTAGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTAGAACATGTGTGAAGTCTGGTGAGACACATAC
*
32984 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
33022 TATGTGGTCCTT
1 TATGTGGTCCTT
33034 ATGGACATTA
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTAGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:33077 original size:23 final size:23
Alignment explanation
Indices: 33051--33117 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
33041 TTATTATATG
33051 GCACTACGGTGCAATTCTATGCA
1 GCACTACGGTGCAATTCTATGCA
* * **
33074 GCACTCCGGTGCAATTCTACGTG
1 GCACTACGGTGCAATTCTATGCA
* *
33097 GCACTTCGGTGCAATTATATG
1 GCACTACGGTGCAATTCTATG
33118 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.28
Consensus pattern (23 bp):
GCACTACGGTGCAATTCTATGCA
Found at i:36381 original size:22 final size:21
Alignment explanation
Indices: 36314--36382 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
36304 ACCTTGTGGA
*
36314 GGGTATCAGTA-CC-CTCAGG
1 GGGTATCAGTACCCACTAAGG
*
36333 GGGTATCAGTACCCACTAAAG
1 GGGTATCAGTACCCACTAAGG
** *
36354 GGGTATTGGTACCCATTCAAGG
1 GGGTATCAGTACCCACT-AAGG
36376 GGGTATC
1 GGGTATC
36383 GATACCTAGC
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
19 11 0.28
20 2 0.05
21 18 0.45
22 9 0.22
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (21 bp):
GGGTATCAGTACCCACTAAGG
Found at i:36388 original size:22 final size:21
Alignment explanation
Indices: 36330--36388 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
36320 CAGTACCCTC
36330 AGGGGGTATC-AGTACCCACTA
1 AGGGGGTATCGA-TACCCACTA
* * * *
36351 AAGGGGTATTGGTACCCATTCA
1 AGGGGGTATCGATACCCACT-A
36373 AGGGGGTATCGATACC
1 AGGGGGTATCGATACC
36389 TAGCGCCGAA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (21 bp):
AGGGGGTATCGATACCCACTA
Found at i:37482 original size:14 final size:14
Alignment explanation
Indices: 37463--37490 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37453 AAGATGCCAT
37463 CTTTTCTTTGCTTG
1 CTTTTCTTTGCTTG
37477 CTTTTCTTTGCTTG
1 CTTTTCTTTGCTTG
37491 ATTTGGAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.21, G:0.14, T:0.64
Consensus pattern (14 bp):
CTTTTCTTTGCTTG
Found at i:43791 original size:11 final size:11
Alignment explanation
Indices: 43731--43793 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
43721 AAAATTACAT
*
43731 TATTAAAAATC
1 TATTAAAAATA
43742 TATTAAAAATA
1 TATTAAAAATA
* ***
43753 TACTATTGATA
1 TATTAAAAATA
43764 -ATTATAAAAT-
1 TATTA-AAAATA
43774 T-TTAAAAATA
1 TATTAAAAATA
43784 TATTAAAAAT
1 TATTAAAAAT
43794 TCTATAATAT
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
9 5 0.13
10 7 0.18
11 27 0.69
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.40
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:44133 original size:17 final size:16
Alignment explanation
Indices: 44115--44151 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
44105 AATATTTAAT
*
44115 ATATTTGTAATAA-TA
1 ATATTTTTAATAACTA
44130 ATATTTTTAATAACTA
1 ATATTTTTAATAACTA
44146 AT-TTTT
1 ATATTTT
44152 AAAATTGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (16 bp):
ATATTTTTAATAACTA
Found at i:44328 original size:21 final size:21
Alignment explanation
Indices: 44303--44359 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
44293 TAAACTCTAT
*
44303 ACTCTAAACCTTAAATTATAA
1 ACTCTAAACCTTAAATAATAA
*
44324 TCTCTAAA-CTCTAAATAATAA
1 ACTCTAAACCT-TAAATAATAA
* *
44345 ACCCTAAACCCTAAA
1 ACTCTAAACCTTAAA
44360 CCCTTAATCC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 2 0.07
21 26 0.90
22 1 0.03
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (21 bp):
ACTCTAAACCTTAAATAATAA
Found at i:45887 original size:11 final size:11
Alignment explanation
Indices: 45854--45896 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
45844 ATATTCTTAG
45854 GCTTGAATCGA
1 GCTTGAATCGA
**
45865 GCTCAAAATCGA
1 GCT-TGAATCGA
45877 GCTTGAATCGA
1 GCTTGAATCGA
*
45888 GCTTCAATC
1 GCTTGAATC
45897 TACTTCGAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (11 bp):
GCTTGAATCGA
Found at i:46223 original size:18 final size:18
Alignment explanation
Indices: 46178--46264 Score: 81
Period size: 18 Copynumber: 4.9 Consensus size: 18
46168 TTATCATACA
*
46178 TTTCACGTTATCGGAT-AT
1 TTTCA-GTTATCAGATGAT
* *
46196 TTACAATTATCAGATGAT
1 TTTCAGTTATCAGATGAT
*
46214 TTTTAGTTATCAGATGA-
1 TTTCAGTTATCAGATGAT
*
46231 TTACAGTTATCAGATG-T
1 TTTCAGTTATCAGATGAT
*
46248 TTTACAGTTATTAGATG
1 TTT-CAGTTATCAGATG
46265 TAGATTAATA
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
17 24 0.43
18 32 0.57
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (18 bp):
TTTCAGTTATCAGATGAT
Found at i:46235 original size:35 final size:35
Alignment explanation
Indices: 46196--46264 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
46186 TATCGGATAT
*
46196 TTACAATTATCAGATGATTTT-TAGTTATCAGATGA
1 TTACAATTATCAGATG-TTTTACAGTTATCAGATGA
* *
46231 TTACAGTTATCAGATGTTTTACAGTTATTAGATG
1 TTACAATTATCAGATGTTTTACAGTTATCAGATG
46265 TAGATTAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 4 0.13
35 26 0.87
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (35 bp):
TTACAATTATCAGATGTTTTACAGTTATCAGATGA
Found at i:46265 original size:18 final size:18
Alignment explanation
Indices: 46195--46265 Score: 83
Period size: 18 Copynumber: 4.0 Consensus size: 18
46185 TTATCGGATA
*
46195 TTTACAATTATCAGATGAT
1 TTTACAGTTATCAGATG-T
*
46214 TTT-TAGTTATCAGATG-
1 TTTACAGTTATCAGATGT
*
46230 ATTACAGTTATCAGATGT
1 TTTACAGTTATCAGATGT
*
46248 TTTACAGTTATTAGATGT
1 TTTACAGTTATCAGATGT
46266 AGATTAATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
16 2 0.05
17 12 0.27
18 27 0.61
19 3 0.07
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.45
Consensus pattern (18 bp):
TTTACAGTTATCAGATGT
Found at i:53513 original size:2 final size:2
Alignment explanation
Indices: 53506--53553 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
53496 TTAACCATTA
53506 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53548 AT AT AT
1 AT AT AT
53554 GAAATTATTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:54239 original size:2 final size:2
Alignment explanation
Indices: 54234--54263 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
54224 TATTTTTTTC
54234 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
54264 CATACAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55215 original size:36 final size:36
Alignment explanation
Indices: 55175--55302 Score: 105
Period size: 36 Copynumber: 3.6 Consensus size: 36
55165 GGGGGTGCAT
* *
55175 TTGGAGGTTGAGGTTCAGTTACAACAGTGGGCT-AA
1 TTGGAGGTTGAGGTTCAATTACAACAGTCGGCTCAA
* * *
55210 GTTGGAGATTGAGGTTCAATTTCAACAGTCGGTTCAA
1 -TTGGAGGTTGAGGTTCAATTACAACAGTCGGCTCAA
** * ** ** * *
55247 TTGGAGGTTGAATTTCTATTTTAGTAGTGGGTTCAA
1 TTGGAGGTTGAGGTTCAATTACAACAGTCGGCTCAA
*
55283 TTGGAGGTTTAGGTTCAATT
1 TTGGAGGTTGAGGTTCAATT
55303 TCAAATATAT
Statistics
Matches: 74, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
36 72 0.97
37 2 0.03
ACGTcount: A:0.24, C:0.09, G:0.30, T:0.37
Consensus pattern (36 bp):
TTGGAGGTTGAGGTTCAATTACAACAGTCGGCTCAA
Found at i:55314 original size:2 final size:2
Alignment explanation
Indices: 55307--55340 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
55297 TCAATTTCAA
55307 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55341 GAGCATTTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59815 original size:94 final size:95
Alignment explanation
Indices: 59686--59907 Score: 286
Period size: 94 Copynumber: 2.3 Consensus size: 95
59676 TCAGGGGATG
* * * * * * *
59686 ACACTGCTCATACGTGATGAAGAGTTCTGGCCATCTTTAGGAAATGTGATAACATGGTTCCAAC-
1 ACACGGCTCCTACGTGATGAAGAGATCTGGTCATCTTTAGGAAAGGCGATAACACGGTTCCAACG
*
59750 TCGATGAGGACGGCTGGTTATCTA-TGGGTA
66 T-GATGAGGACGGCTGGTTATCTAGGGGGTA
* * *
59780 ACACGGCTCCTACGTGATGAGGAGATCTGGTCATCTTTAGGAAGGGCGATAACACGGTTCCTACG
1 ACACGGCTCCTACGTGATGAAGAGATCTGGTCATCTTTAGGAAAGGCGATAACACGGTTCCAACG
* *
59845 TGATGAGGACGTCTGGTTATCTAGGGGGTG
66 TGATGAGGACGGCTGGTTATCTAGGGGGTA
* *
59875 ATACGGCTCCTACGCGATGAAGAGATCTGGTCA
1 ACACGGCTCCTACGTGATGAAGAGATCTGGTCA
59908 GGGGATGACA
Statistics
Matches: 110, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
94 75 0.68
95 35 0.32
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (95 bp):
ACACGGCTCCTACGTGATGAAGAGATCTGGTCATCTTTAGGAAAGGCGATAACACGGTTCCAACG
TGATGAGGACGGCTGGTTATCTAGGGGGTA
Found at i:59904 original size:44 final size:44
Alignment explanation
Indices: 59763--59905 Score: 128
Period size: 51 Copynumber: 3.1 Consensus size: 44
59753 ATGAGGACGG
* * *
59763 CTGGTTATCTA-TGGGTAACACGGCTCCTACGTGATGAGGAGAT
1 CTGGTTATCTAGGGGGTGATACGGCTCCTACGTGATGAGGAGAT
* * *
59806 CTGGTCATCTTTAGGAAGGGCGATAACACGGTTCCTACGTGATGAGGACG-T
1 CTGGTTATC--TAGG--GGGTGAT---ACGGCTCCTACGTGATGAGGA-GAT
* *
59857 CTGGTTATCTAGGGGGTGATACGGCTCCTACGCGATGAAGAGAT
1 CTGGTTATCTAGGGGGTGATACGGCTCCTACGTGATGAGGAGAT
59901 CTGGT
1 CTGGT
59906 CAGGGGATGA
Statistics
Matches: 79, Mismatches: 11, Indels: 19
0.72 0.10 0.17
Matches are distributed among these distances:
43 9 0.11
44 24 0.30
45 2 0.03
47 6 0.08
48 4 0.05
49 4 0.05
51 29 0.37
52 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (44 bp):
CTGGTTATCTAGGGGGTGATACGGCTCCTACGTGATGAGGAGAT
Found at i:60292 original size:29 final size:29
Alignment explanation
Indices: 60240--60507 Score: 160
Period size: 29 Copynumber: 9.0 Consensus size: 29
60230 GAGACAAAAC
60240 TTTGTTTCAAAAGAAACAAACTCAAAGAT
1 TTTGTTTCAAAAGAAACAAACTCAAAGAT
**
60269 TTTGCTTTCAAAAGAAA-TGACTCAAAGAT
1 TTTG-TTTCAAAAGAAACAAACTCAAAGAT
* * *
60298 TTT-TTTACGAAATTGTCTTAAGAGAAA--CAAA-AC
1 TTTGTTT-C-AAA-AG----AA-ACAAACTCAAAGAT
* * *
60331 TTTGGTTCAAAAGAAACAGACTCAAAGAA
1 TTTGTTTCAAAAGAAACAAACTCAAAGAT
*
60360 TTT-TTTCAAATGAAAC-AACTCAAAGATT
1 TTTGTTTCAAAAGAAACAAACTCAAAGA-T
* *
60388 TTTATTTCAAAAGAAAC-AACTCACAGATT
1 TTTGTTTCAAAAGAAACAAACTCAAAGA-T
* * *
60417 TTTATTTCAAAAGAAA-TAACTCACAGACT
1 TTTGTTTCAAAAGAAACAAACTCAAAGA-T
60446 TTTGTTT-AAAGAGAAACAAACTCAAAGATAGGT
1 TTTGTTTCAAA-AGAAACAAACTCAAAG--A--T
** *
60479 TTTGTTTCAAGGGAAACAATCTCAAAGAT
1 TTTGTTTCAAAAGAAACAAACTCAAAGAT
60508 GTTCGTTTTA
Statistics
Matches: 191, Mismatches: 25, Indels: 46
0.73 0.10 0.18
Matches are distributed among these distances:
26 3 0.02
27 14 0.07
28 22 0.12
29 86 0.45
30 21 0.11
31 2 0.01
32 4 0.02
33 27 0.14
34 10 0.05
35 1 0.01
36 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (29 bp):
TTTGTTTCAAAAGAAACAAACTCAAAGAT
Found at i:60340 original size:91 final size:89
Alignment explanation
Indices: 60165--60390 Score: 251
Period size: 91 Copynumber: 2.5 Consensus size: 89
60155 GTTAAGAGAC
* * * * * * *
60165 ACAATCTCAAAG-A-TTTTTCAAAAGGAACAAACT-AAAGATTTTTCTCAAGAAAAACTATCTCA
1 ACAAACTCAAAGAATTTTTTCAAAAGAAAC-AACTCAAAGATTTTT-TTACG--AAATTGTCTTA
* *
60227 AGAGAGACAAAACTTTGTTTCAAAAGAA
62 AGAGAAACAAAACTTTGGTTCAAAAGAA
* **
60255 ACAAACTCAAAGATTTTGCTTTCAAAAGAAATGACTCAAAGATTTTTTTACGAAATTGTCTTAAG
1 ACAAACTCAAAGAATTT--TTTCAAAAGAAACAACTCAAAGATTTTTTTACGAAATTGTCTTAAG
60320 AGAAACAAAACTTTGGTTCAAAAGAA
64 AGAAACAAAACTTTGGTTCAAAAGAA
* *
60346 ACAGACTCAAAGAATTTTTTCAAATGAAACAACTCAAAGATTTTT
1 ACAAACTCAAAGAATTTTTTCAAAAGAAACAACTCAAAGATTTTT
60391 ATTTCAAAAG
Statistics
Matches: 114, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
89 25 0.22
90 11 0.10
91 49 0.43
92 2 0.02
93 6 0.05
94 21 0.18
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.28
Consensus pattern (89 bp):
ACAAACTCAAAGAATTTTTTCAAAAGAAACAACTCAAAGATTTTTTTACGAAATTGTCTTAAGAG
AAACAAAACTTTGGTTCAAAAGAA
Found at i:60368 original size:28 final size:29
Alignment explanation
Indices: 60336--60507 Score: 170
Period size: 29 Copynumber: 5.8 Consensus size: 29
60326 AAAACTTTGG
*
60336 TTCAAAAGAAACAGACTCAAAGA-ATTT-T
1 TTCAAAAGAAACA-ACTCAAAGATTTTTAT
*
60364 TTCAAATGAAACAACTCAAAGATTTTTAT
1 TTCAAAAGAAACAACTCAAAGATTTTTAT
*
60393 TTCAAAAGAAACAACTCACAGATTTTTAT
1 TTCAAAAGAAACAACTCAAAGATTTTTAT
* * * *
60422 TTCAAAAGAAATAACTCACAGACTTTTGT
1 TTCAAAAGAAACAACTCAAAGATTTTTAT
*
60451 TT-AAAGAGAAACAAACTCAAAGATAGGTTTTGT
1 TTCAAA-AGAAAC-AACTCAAAGAT---TTTTAT
**
60484 TTCAAGGGAAACAATCTCAAAGAT
1 TTCAAAAGAAACAA-CTCAAAGAT
60508 GTTCGTTTTA
Statistics
Matches: 123, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
27 9 0.07
28 18 0.15
29 61 0.50
30 9 0.07
32 2 0.02
33 22 0.18
34 2 0.02
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (29 bp):
TTCAAAAGAAACAACTCAAAGATTTTTAT
Found at i:60495 original size:33 final size:33
Alignment explanation
Indices: 60445--60507 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
60435 ACTCACAGAC
60445 TTTTGTTTAAAGAGAAACAAACTCAAAGATAGG
1 TTTTGTTTAAAGAGAAACAAACTCAAAGATAGG
* * *
60478 TTTTGTTTCAAGGGAAACAATCTCAAAGAT
1 TTTTGTTTAAAGAGAAACAAACTCAAAGAT
60508 GTTCGTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.30
Consensus pattern (33 bp):
TTTTGTTTAAAGAGAAACAAACTCAAAGATAGG
Found at i:60563 original size:67 final size:66
Alignment explanation
Indices: 60478--60631 Score: 154
Period size: 66 Copynumber: 2.3 Consensus size: 66
60468 CAAAGATAGG
* * * *
60478 TTTTG-TTTCAAGGGAAACA-ATCTCAAAGATGTTCGT-TTTAAGAGAAATTGTCTTAAAAGAGA
1 TTTTGTTTTCAA-AGAAACATAT-TCAAAGAT-TT-GTCTTTAAAAGAAACTGTCTCAAAAGAGA
*
60540 CAAGA
62 CAAAA
* * * *
60545 TTTTGTTTTCATAA-AAACATATTTAAAGATTTTTCTTTAAAAGGAACTGTCTCAAAATAGACAA
1 TTTTGTTTTCA-AAGAAACATATTCAAAGATTTGTCTTTAAAAGAAACTGTCTCAAAAGAGACAA
60609 AA
65 AA
60611 TTTTGTTTTCAAAGAAACATA
1 TTTTGTTTTCAAAGAAACATA
60632 CCCAAATATT
Statistics
Matches: 73, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
65 3 0.04
66 45 0.62
67 17 0.23
68 7 0.10
69 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (66 bp):
TTTTGTTTTCAAAGAAACATATTCAAAGATTTGTCTTTAAAAGAAACTGTCTCAAAAGAGACAAA
A
Found at i:60767 original size:30 final size:31
Alignment explanation
Indices: 60713--60771 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
60703 GAGACAAAGT
60713 TTTGTTTCAAAAGAAATAGACTCAAAGATCC
1 TTTGTTTCAAAAGAAATAGACTCAAAGATCC
*
60744 TTTGTTTCAAAAGAAA-CGACTCAAAGAT
1 TTTGTTTCAAAAGAAATAGACTCAAAGAT
60772 GATGTTTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (31 bp):
TTTGTTTCAAAAGAAATAGACTCAAAGATCC
Found at i:60849 original size:36 final size:37
Alignment explanation
Indices: 60806--60913 Score: 146
Period size: 36 Copynumber: 2.9 Consensus size: 37
60796 TTCATAATTT
* *
60806 GAAAAATTATCTCAAGTGAGACAACATTTGTTTTT-A
1 GAAAAATTATCTCAAGCGAGACAAAATTTGTTTTTGA
* * * *
60842 GAGAAATTGTCTCAAACGAGACAAAAATTGTTTTTGA
1 GAAAAATTATCTCAAGCGAGACAAAATTTGTTTTTGA
60879 GAAAAATTATCTCAAGCGAGACAAAAATTTGTTTT
1 GAAAAATTATCTCAAGCGAGAC-AAAATTTGTTTT
60914 AAAATTCTCA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
36 29 0.48
37 20 0.33
38 11 0.18
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (37 bp):
GAAAAATTATCTCAAGCGAGACAAAATTTGTTTTTGA
Found at i:63759 original size:137 final size:137
Alignment explanation
Indices: 63513--63779 Score: 534
Period size: 137 Copynumber: 1.9 Consensus size: 137
63503 GCACTTGAGA
63513 CGCGACATCCCTCCATCGTTGAGCATATTGTCGAAAGTTCTCACCATTCTTCATCTCCATATTCT
1 CGCGACATCCCTCCATCGTTGAGCATATTGTCGAAAGTTCTCACCATTCTTCATCTCCATATTCT
63578 GCAGCGTTGTTCGATCAGGGGCCATATCGATCATGTGCTTGTATTGAATCAGAAATGCACTAGCC
66 GCAGCGTTGTTCGATCAGGGGCCATATCGATCATGTGCTTGTATTGAATCAGAAATGCACTAGCC
63643 TGAGACG
131 TGAGACG
63650 CGCGACATCCCTCCATCGTTGAGCATATTGTCGAAAGTTCTCACCATTCTTCATCTCCATATTCT
1 CGCGACATCCCTCCATCGTTGAGCATATTGTCGAAAGTTCTCACCATTCTTCATCTCCATATTCT
63715 GCAGCGTTGTTCGATCAGGGGCCATATCGATCATGTGCTTGTATTGAATCAGAAATGCACTAGCC
66 GCAGCGTTGTTCGATCAGGGGCCATATCGATCATGTGCTTGTATTGAATCAGAAATGCACTAGCC
63780 AAATCCTTCC
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
137 130 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (137 bp):
CGCGACATCCCTCCATCGTTGAGCATATTGTCGAAAGTTCTCACCATTCTTCATCTCCATATTCT
GCAGCGTTGTTCGATCAGGGGCCATATCGATCATGTGCTTGTATTGAATCAGAAATGCACTAGCC
TGAGACG
Found at i:66993 original size:30 final size:30
Alignment explanation
Indices: 66940--67020 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
66930 TAATATGGCC
* *
66940 AAAACATAAACTTAAATGGCTAAAATAGTA
1 AAAACAGAAACTTAAAGGGCTAAAATAGTA
*
66970 AAAACAGAAACTT-AAGGGTCTAAAATA-AA
1 AAAACAGAAACTTAAAGGG-CTAAAATAGTA
* *
66999 TAAAATAGAAATTTAAAGGGCT
1 -AAAACAGAAACTTAAAGGGCT
67021 CAAAGCAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
29 5 0.12
30 33 0.77
31 5 0.12
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.22
Consensus pattern (30 bp):
AAAACAGAAACTTAAAGGGCTAAAATAGTA
Found at i:68474 original size:21 final size:20
Alignment explanation
Indices: 68388--68545 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
68378 AAATGACCAA
**
68388 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
68407 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
68427 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
68447 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
68468 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
68489 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
68509 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
68530 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
68546 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:68574 original size:20 final size:20
Alignment explanation
Indices: 68512--68781 Score: 251
Period size: 20 Copynumber: 13.5 Consensus size: 20
68502 CGATTTTCCA
* ** *
68512 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
68532 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
68552 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
68572 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
68592 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
68612 AAATCGCAATGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
68632 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
68652 AAATTGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
68672 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
68692 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
68712 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
68732 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
68752 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
68772 AAATCACAAC
1 AAATCGCAAC
68782 ACTGAAATTT
Statistics
Matches: 206, Mismatches: 36, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 202 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:68598 original size:40 final size:40
Alignment explanation
Indices: 68551--68781 Score: 286
Period size: 40 Copynumber: 5.8 Consensus size: 40
68541 CGCGAACACA
* * *
68551 TAAATCGCAACGCGTATCCGTAAATCGCAACG-TGTATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGAT-AATCCG
* * * * *
68591 TATATCGCAACGCGTATCCGTAAATCGCAATG-TGTATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGAT-AATCCG
* * * *
68631 TATATCGCAACGCGTATCCGTAAATTGCAACGATAATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
*
68671 TAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
*
68711 TAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
* *
68751 TAAATCGCAACGAGAATCTGTAAATCACAAC
1 TAAATCGCAACGAGAATCCGTAAATCGCAAC
68782 ACTGAAATTT
Statistics
Matches: 179, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 178 0.99
41 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (40 bp):
TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
Found at i:69502 original size:24 final size:24
Alignment explanation
Indices: 69463--69509 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
69453 AAATTTGGTC
69463 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
69487 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
69510 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:72060 original size:33 final size:33
Alignment explanation
Indices: 71965--72174 Score: 205
Period size: 33 Copynumber: 6.2 Consensus size: 33
71955 CGGAAATTAC
71965 AATCGCAACGAGAGAATCGCAATGCGAAATG-A
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
* *
71997 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGA-GAGAATCGCAATGC-GAAATGAA
*
72031 AATCGCAACGAGAGAATTGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
* * * * *
72064 AATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGA
1 AATCGCAACGAGAGAATCG-CAATGCGAAATGA-A
*
72096 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
*
72135 AATCGCAACGAGAGAATCGCAATGCGAAATTAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
72168 AATCGCA
1 AATCGCA
72175 TTGCGATTCT
Statistics
Matches: 146, Mismatches: 17, Indels: 29
0.76 0.09 0.15
Matches are distributed among these distances:
31 8 0.05
32 28 0.19
33 60 0.41
34 22 0.15
35 2 0.01
36 2 0.01
38 10 0.07
39 7 0.05
40 7 0.05
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (33 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:72073 original size:19 final size:19
Alignment explanation
Indices: 71979--72180 Score: 185
Period size: 19 Copynumber: 11.7 Consensus size: 19
71969 GCAACGAGAG
71979 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
*
71997 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
72011 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
72031 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
72045 AATTGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
72064 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
72083 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
72097 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
72116 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
72135 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
72149 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
72168 AATCGCATTGCGA
1 AATCGCAATGCGA
72181 TTCTCCCGTT
Statistics
Matches: 150, Mismatches: 12, Indels: 43
0.73 0.06 0.21
Matches are distributed among these distances:
13 3 0.02
14 37 0.25
15 3 0.02
16 8 0.05
17 5 0.03
18 11 0.07
19 70 0.47
20 13 0.09
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:72082 original size:52 final size:52
Alignment explanation
Indices: 72006--72180 Score: 314
Period size: 52 Copynumber: 3.3 Consensus size: 52
71996 AAATCCCAAC
*
72006 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATTGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
72059 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
72111 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
72163 ATTAAAATCGCATTGCGA
1 ATGAAAATCGCAATGCGA
72181 TTCTCCCGTT
Statistics
Matches: 119, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
52 103 0.87
53 16 0.13
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:72243 original size:52 final size:52
Alignment explanation
Indices: 72170--72285 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
72160 GAAATTAAAA
72170 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
*
72223 TCGCA-TGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
72274 TCGCATTGCGAT
1 TCGCATTGCGAT
72286 AGTCAATTTT
Statistics
Matches: 61, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
51 23 0.38
52 33 0.54
53 5 0.08
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.43
Consensus pattern (52 bp):
TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:72265 original size:19 final size:19
Alignment explanation
Indices: 72189--72285 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
72179 GATTCTCCCG
72189 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
72209 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
72228 -TGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
72241 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
72260 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
72279 TTGCGAT
1 TTGCGAT
72286 AGTCAATTTT
Statistics
Matches: 69, Mismatches: 2, Indels: 13
0.82 0.02 0.15
Matches are distributed among these distances:
14 5 0.07
15 4 0.06
16 6 0.09
17 4 0.06
18 5 0.07
19 30 0.43
20 15 0.22
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:72411 original size:14 final size:14
Alignment explanation
Indices: 72392--72428 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
72382 CATCAATTAC
72392 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
72406 ACAAATCATCTTTT
1 ACAAATCAACTTTT
72420 ACAAATCAA
1 ACAAATCAA
72429 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:74351 original size:20 final size:20
Alignment explanation
Indices: 74326--74391 Score: 91
Period size: 19 Copynumber: 3.4 Consensus size: 20
74316 ATAGTTACTT
* *
74326 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAACTCAAAA
74346 TCGCAACGCGAAAC-CAAAA
1 TCGCAACGCGAAACTCAAAA
*
74365 TCGCAACGCG-AACTGAAAA
1 TCGCAACGCGAAACTCAAAA
74384 TCGCAACG
1 TCGCAACG
74392 ACAGAATCGC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
18 3 0.07
19 26 0.62
20 13 0.31
ACGTcount: A:0.44, C:0.29, G:0.17, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:74366 original size:19 final size:19
Alignment explanation
Indices: 74326--74424 Score: 84
Period size: 19 Copynumber: 5.4 Consensus size: 19
74316 ATAGTTACTT
* *
74326 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
74346 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
74365 TCGCAACGCG-AACTGAAAA
1 TCGCAACGCGAAAC-CAAAA
*
74384 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
**
74398 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
74417 TCGCAACG
1 TCGCAACG
74425 AAAGAATCGC
Statistics
Matches: 66, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
14 9 0.14
16 3 0.05
17 2 0.03
18 4 0.06
19 35 0.53
20 13 0.20
ACGTcount: A:0.44, C:0.27, G:0.18, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:74401 original size:14 final size:14
Alignment explanation
Indices: 74382--74438 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
74372 GCGAACTGAA
*
74382 AATCGCAACGACAG
1 AATCGCAACGAAAG
74396 AATCGCAACGCGAAATG
1 AATCGCAA--CGAAA-G
74413 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
74429 AATCGCAACG
1 AATCGCAACG
74439 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.25, G:0.21, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:74405 original size:33 final size:33
Alignment explanation
Indices: 74363--74456 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
74353 GCGAAACCAA
* *
74363 AATCGCAACGCGAACTGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
74396 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
74429 AATCGCAACGCGAAATGAAAAATCGCAA
1 AATCGCAACGCGAAATG-AAAATCGCAA
74457 TGCGATTTTG
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
33 48 0.83
34 10 0.17
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:74481 original size:19 final size:18
Alignment explanation
Indices: 74457--74584 Score: 85
Period size: 19 Copynumber: 7.3 Consensus size: 18
74447 AAAATCGCAA
74457 TGCGATTTTGGTTTCGAGT
1 TGCGATTTTGGTTTCG-GT
*
74476 TGCGATCTT-G--TC-GT
1 TGCGATTTTGGTTTCGGT
74490 TGCGA-TTTGGTTTCGCGT
1 TGCGATTTTGGTTTCG-GT
*
74508 TGCGATTCT-G--TC-GT
1 TGCGATTTTGGTTTCGGT
**
74522 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCG-GT
*
74541 TGCGATTTTGGTTTCGCAT
1 TGCGATTTTGGTTTCG-GT
*
74560 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCG-GT
74580 TGCGA
1 TGCGA
74585 AAGTAAACTA
Statistics
Matches: 86, Mismatches: 11, Indels: 23
0.72 0.09 0.19
Matches are distributed among these distances:
13 2 0.02
14 18 0.21
16 6 0.07
17 2 0.02
18 9 0.10
19 37 0.43
20 12 0.14
ACGTcount: A:0.10, C:0.16, G:0.28, T:0.45
Consensus pattern (18 bp):
TGCGATTTTGGTTTCGGT
Found at i:74542 original size:33 final size:34
Alignment explanation
Indices: 74457--74547 Score: 134
Period size: 32 Copynumber: 2.8 Consensus size: 34
74447 AAAATCGCAA
*
74457 TGCGATTTTGGTTTCGAGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
74490 TGCGA-TTTGGTTTCGCGTTGCGATTC-TGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
**
74522 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
74548 TTGGTTTCGC
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
32 28 0.53
33 25 0.47
ACGTcount: A:0.09, C:0.18, G:0.29, T:0.45
Consensus pattern (34 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
Found at i:74909 original size:89 final size:93
Alignment explanation
Indices: 74632--74999 Score: 664
Period size: 93 Copynumber: 4.1 Consensus size: 93
74622 ATGGATTGCA
74632 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATA-TA-TTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
74694 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
74722 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
74787 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
74815 TTACTTTCAA-CAAAAGACAAAACAAAGAC-AA-A-TATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
74876 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
74904 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCAC-GTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
74968 TAGCAGAA-TGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
74995 TTACT
1 TTACT
75000 AAGCAATCTA
Statistics
Matches: 270, Mismatches: 1, Indels: 13
0.95 0.00 0.05
Matches are distributed among these distances:
89 67 0.25
90 24 0.09
91 57 0.21
92 50 0.19
93 72 0.27
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:76796 original size:161 final size:163
Alignment explanation
Indices: 76530--76852 Score: 600
Period size: 161 Copynumber: 2.0 Consensus size: 163
76520 CCGAAAAAAA
76530 TTCTACAAAAACAATAAACATACCAAGTTAGATATACCAAAAACTACACTGTGAAGATATACCAA
1 TTCTACAAAAACAATAAACATACCAAGTTAGATATACCAAAAACTACACTGTGAAGATATACCAA
76595 AAACAATAAACATAAAAGTAGTAGTTTATTCTTGAAACTAAAATTTGC-ACACTGTTTTGTC-TT
66 AAACAATAAACATAAAAGTAGTAGTTTATTCTTGAAACT-AAA-TTGCAACACTGTTTTGTCTTT
76658 TGGTTGAAATGAAAATCGC-ACGAGAGAATCGCAT
129 TGGTTGAAATGAAAATCGCAACGAGAGAATCGCAT
76692 TTCTACAAAAACAATAAACATACCAAGTTAGATATACC-AAAACTACACTGTGAAGATATACCAA
1 TTCTACAAAAACAATAAACATACCAAGTTAGATATACCAAAAACTACACTGTGAAGATATACCAA
76756 AAACAATAAACATAAAAGTAGTAGTTTATTCTTGAAACTAAATTGCAACACTGTTTTGTCTTTTG
66 AAACAATAAACATAAAAGTAGTAGTTTATTCTTGAAACTAAATTGCAACACTGTTTTGTCTTTTG
76821 GTTGAAATGAAAATCGCAACGAGAGAATCGCA
131 GTTGAAATGAAAATCGCAACGAGAGAATCGCA
76853 ACGCGAAATG
Statistics
Matches: 158, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
159 4 0.03
160 16 0.10
161 86 0.54
162 52 0.33
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (163 bp):
TTCTACAAAAACAATAAACATACCAAGTTAGATATACCAAAAACTACACTGTGAAGATATACCAA
AAACAATAAACATAAAAGTAGTAGTTTATTCTTGAAACTAAATTGCAACACTGTTTTGTCTTTTG
GTTGAAATGAAAATCGCAACGAGAGAATCGCAT
Found at i:76862 original size:33 final size:33
Alignment explanation
Indices: 76824--77008 Score: 239
Period size: 33 Copynumber: 5.5 Consensus size: 33
76814 TCTTTTGGTT
76824 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
76857 GAAATGAAAACCGCAAC--GAGAATCGTAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
76888 GAAATGAAAATCGCAACGAGAGATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAGA--A---TCGCAAC--GC
76928 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
76961 GAAATGAAAATCGCAACGAAAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
76994 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
77009 TTGCGATTTT
Statistics
Matches: 134, Mismatches: 9, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
31 29 0.22
33 66 0.49
35 8 0.06
38 7 0.05
40 24 0.18
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:76905 original size:19 final size:19
Alignment explanation
Indices: 76846--77008 Score: 90
Period size: 19 Copynumber: 9.4 Consensus size: 19
76836 GCAACGAGAG
76846 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
76865 AACCGCAA--CG--A-G--
1 AATCGCAACGCGAAATGAA
*
76877 AATCGTAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* * *
76896 AATCGCAACGAGAGATGAC
1 AATCGCAACGCGAAATGAA
** *
76915 TGTCGCAACGAGAGAAATGAA
1 AATCGCAAC--GCGAAATGAA
*
76936 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
76950 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
76969 AATCGCAA--CGAAA-G--
1 AATCGCAACGCGAAATGAA
**
76983 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAATGAA
77002 AATCGCA
1 AATCGCA
77009 TTGCGATTTT
Statistics
Matches: 108, Mismatches: 17, Indels: 38
0.66 0.10 0.23
Matches are distributed among these distances:
12 6 0.06
14 21 0.19
15 2 0.02
16 9 0.08
17 9 0.08
18 1 0.01
19 46 0.43
21 14 0.13
ACGTcount: A:0.45, C:0.22, G:0.23, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:76934 original size:21 final size:21
Alignment explanation
Indices: 76888--76951 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
76878 ATCGTAACGC
76888 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
76909 G--ATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
76928 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
76949 GAA
1 GAA
76952 TCGCAACGCG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 16 0.46
21 19 0.54
ACGTcount: A:0.47, C:0.16, G:0.27, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:76955 original size:14 final size:14
Alignment explanation
Indices: 76936--76992 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
76926 GAGAAATGAA
76936 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
76950 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
76969 AATCGCAACGAAAG
1 AATCGCAACGAGAG
76983 AATCGCAACG
1 AATCGCAACG
76993 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:77090 original size:41 final size:41
Alignment explanation
Indices: 77033--77110 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
77023 TCGCGTTGCG
*
77033 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
77074 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
77111 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:77095 original size:20 final size:21
Alignment explanation
Indices: 77034--77109 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
77024 CGCGTTGCGA
77034 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
77055 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
77075 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
77096 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
77110 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:77231 original size:33 final size:33
Alignment explanation
Indices: 77189--77259 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
77179 AATACTAACT
*
77189 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
77222 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
77255 TGAAA
1 TGAAA
77260 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:77493 original size:22 final size:22
Alignment explanation
Indices: 77441--77495 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
77431 TGGTTGTGAG
**
77441 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
77463 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
77485 GGATTTCTTCG
1 GGATTTCTTCG
77496 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:77666 original size:20 final size:20
Alignment explanation
Indices: 77641--77794 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
77631 CTTTAAATAT
77641 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
77661 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
77683 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
77702 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
77722 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
77742 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
77762 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
77782 CGCGTTGCGATTT
1 CGCGTTGCGATTT
77795 TGGAAAATCG
Statistics
Matches: 113, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 94 0.83
21 15 0.13
22 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:77768 original size:40 final size:40
Alignment explanation
Indices: 77640--77794 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
77630 GCTTTAAATA
*
77640 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTGT
** * *
77681 TATCGTTGCGATTTACGGATACGCGTTGCGATATACG-GAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-T
* *
77721 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
* ** *
77761 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT
77795 TGGAAAATCG
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 66 0.69
41 30 0.31
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.37
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
Found at i:77811 original size:21 final size:21
Alignment explanation
Indices: 77781--77863 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
77771 ATTTTCATAT
*
77781 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
77802 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
77823 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
77844 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
77864 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:77854 original size:42 final size:43
Alignment explanation
Indices: 77761--77859 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
77751 ATTTATGTGT
* *
77761 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
77802 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
77844 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
77860 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:79262 original size:2 final size:2
Alignment explanation
Indices: 79257--79284 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
79247 GTATCCATGT
79257 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
79285 ATTTGCTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:82358 original size:3 final size:3
Alignment explanation
Indices: 82350--82407 Score: 57
Period size: 3 Copynumber: 19.0 Consensus size: 3
82340 AATATGTAAT
* *
82350 TAA TAA TAA TAA TTAA TAA -ACA AAA TAA TAA TAA TAA -ACA AAA TAA
1 TAA TAA TAA TAA -TAA TAA TA-A TAA TAA TAA TAA TAA TA-A TAA TAA
82396 TAA TAA TAA TAA
1 TAA TAA TAA TAA
82408 GATTAAAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
2 2 0.04
3 41 0.85
4 5 0.10
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:82386 original size:18 final size:18
Alignment explanation
Indices: 82354--82404 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
82344 TGTAATTAAT
82354 AATAATAATTAATAAACAA
1 AATAATAA-TAATAAACAA
82373 AATAATAATAATAAACAA
1 AATAATAATAATAAACAA
82391 AATAATAATAATAA
1 AATAATAATAATAA
82405 TAAGATTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 24 0.75
19 8 0.25
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (18 bp):
AATAATAATAATAAACAA
Found at i:87698 original size:32 final size:34
Alignment explanation
Indices: 87662--87727 Score: 118
Period size: 32 Copynumber: 2.0 Consensus size: 34
87652 AGTCAGGTTA
87662 TTAGTTATTAAAG-AAATGTTGTT-TTTTTAAAG
1 TTAGTTATTAAAGAAAATGTTGTTATTTTTAAAG
87694 TTAGTTATTAAAGAAAATGTTGTTATTTTTAAAG
1 TTAGTTATTAAAGAAAATGTTGTTATTTTTAAAG
87728 ATCTTCGGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.41
33 10 0.31
34 9 0.28
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.48
Consensus pattern (34 bp):
TTAGTTATTAAAGAAAATGTTGTTATTTTTAAAG
Found at i:99273 original size:19 final size:20
Alignment explanation
Indices: 99242--99279 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
99232 TATAGCTTTC
99242 AAATAACCTAAAGAAAAATG
1 AAATAACCTAAAGAAAAATG
*
99262 AAATAA-CTAAAGATAAAT
1 AAATAACCTAAAGAAAAAT
99280 CTTAAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.66, C:0.08, G:0.08, T:0.18
Consensus pattern (20 bp):
AAATAACCTAAAGAAAAATG
Found at i:99832 original size:17 final size:17
Alignment explanation
Indices: 99793--99832 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
99783 CTGGTAGTGT
*
99793 GTCGGGTCAATTTTCGG
1 GTCGGGTCAATTTTCGA
*
99810 GT-GGGTCAATTTTTGA
1 GTCGGGTCAATTTTCGA
99826 GTCGGGT
1 GTCGGGT
99833 AACTATGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.12, C:0.12, G:0.38, T:0.38
Consensus pattern (17 bp):
GTCGGGTCAATTTTCGA
Found at i:99876 original size:32 final size:31
Alignment explanation
Indices: 99840--99952 Score: 97
Period size: 32 Copynumber: 3.5 Consensus size: 31
99830 GGTAACTATG
* *
99840 AGATCGGTTGATTTTTTGGTCGGGTTAATACC
1 AGATCGGTTGATTTTTTGGT-GGGTCAATATC
** *
99872 AGATCAATTAGATTTTAT-GTGAGGTCAATATC
1 AGATCGGTT-GATTTTTTGGTG-GGTCAATATC
*
99904 AGATCGGTT--TTCTTTTGGATTGAGTCAATATC
1 AGATCGGTTGATT-TTTTGG--TGGGTCAATATC
99936 AGATCGGTTGATTTTTT
1 AGATCGGTTGATTTTTT
99953 ATTTGGGTCA
Statistics
Matches: 64, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
29 2 0.03
30 3 0.05
31 2 0.03
32 42 0.66
33 13 0.20
34 2 0.03
ACGTcount: A:0.24, C:0.11, G:0.23, T:0.42
Consensus pattern (31 bp):
AGATCGGTTGATTTTTTGGTGGGTCAATATC
Found at i:100256 original size:32 final size:31
Alignment explanation
Indices: 100203--100265 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
100193 GCTTGGTTTC
**
100203 GATTCGAGTTATTTTTTATTCCGATTGTCTTT
1 GATTCGAGTTATTTTCGATTCCGATTG-CTTT
* *
100235 GATTCGTGTTATTTTCGATTCCGGTTGCTTT
1 GATTCGAGTTATTTTCGATTCCGATTGCTTT
100266 TGGTTTAGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 4 0.15
32 23 0.85
ACGTcount: A:0.13, C:0.14, G:0.19, T:0.54
Consensus pattern (31 bp):
GATTCGAGTTATTTTCGATTCCGATTGCTTT
Found at i:105634 original size:18 final size:18
Alignment explanation
Indices: 105611--105653 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
105601 AAGTGCCTTT
105611 GTCATTGCAGCATCAGTA
1 GTCATTGCAGCATCAGTA
105629 GTCATTGCAGCATCAGTA
1 GTCATTGCAGCATCAGTA
105647 GTCATTG
1 GTCATTG
105654 AACCAGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (18 bp):
GTCATTGCAGCATCAGTA
Found at i:110446 original size:2 final size:2
Alignment explanation
Indices: 110439--110463 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
110429 TTATATTTTC
110439 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 A
110464 CACACACGCA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:114326 original size:19 final size:21
Alignment explanation
Indices: 114304--114366 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 21
114294 CGGTCGGGCT
114304 GGTTCAG-ACCGGTC-AAACC
1 GGTTCAGAACCGGTCAAAACC
*
114323 GGTTC-GAACCTGTCAAAACC
1 GGTTCAGAACCGGTCAAAACC
* * *
114343 GGTTCAAAACCAGT-TAAACC
1 GGTTCAGAACCGGTCAAAACC
114363 GGTT
1 GGTT
114367 TTCCAGCTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 1 0.03
19 11 0.30
20 19 0.51
21 6 0.16
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (21 bp):
GGTTCAGAACCGGTCAAAACC
Found at i:114351 original size:11 final size:10
Alignment explanation
Indices: 114304--114366 Score: 51
Period size: 9 Copynumber: 6.4 Consensus size: 10
114294 CGGTCGGGCT
*
114304 GGTTCAGACC
1 GGTTCAAACC
114314 GG-TCAAACC
1 GGTTCAAACC
*
114323 GGTTCGAACC
1 GGTTCAAACC
*
114333 TG-TCAAAACC
1 GGTTC-AAACC
114343 GGTTCAAAACC
1 GGTTC-AAACC
*
114354 AGTT-AAACC
1 GGTTCAAACC
114363 GGTT
1 GGTT
114367 TTCCAGCTTC
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
9 18 0.42
10 14 0.33
11 11 0.26
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (10 bp):
GGTTCAAACC
Found at i:121125 original size:17 final size:17
Alignment explanation
Indices: 121105--121155 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
121095 GAAAGTCAAT
121105 GGTCAACGGTCGGGTGG
1 GGTCAACGGTCGGGTGG
* *
121122 GGTCAACGGTCAGGTCG
1 GGTCAACGGTCGGGTGG
121139 GGT---CGGTCGGGTGG
1 GGTCAACGGTCGGGTGG
121153 GGT
1 GGT
121156 TAGACCGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 12 0.40
17 18 0.60
ACGTcount: A:0.10, C:0.18, G:0.53, T:0.20
Consensus pattern (17 bp):
GGTCAACGGTCGGGTGG
Found at i:122808 original size:11 final size:11
Alignment explanation
Indices: 122794--122821 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
122784 TTAGGGACCA
122794 ATTAATTCATT
1 ATTAATTCATT
122805 ATTAATTCATT
1 ATTAATTCATT
122816 ATTAAT
1 ATTAAT
122822 AACTTTAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (11 bp):
ATTAATTCATT
Found at i:125480 original size:31 final size:32
Alignment explanation
Indices: 125440--125598 Score: 177
Period size: 32 Copynumber: 5.0 Consensus size: 32
125430 CTCGTATAAT
125440 AATCTGTCCATATGTCCCAAAGAACATAGGTA
1 AATCTGTCCATATGTCCCAAAGAACATAGGTA
*
125472 AAT-TGTCCATATGTCCCGAATG-ACATAGGT-
1 AATCTGTCCATATGTCCC-AAAGAACATAGGTA
* * * *
125502 AATATGTCCATATATCCCGAATAACATAGGT-
1 AATCTGTCCATATGTCCCAAAGAACATAGGTA
*
125533 AATCTTGTCCATATGTCCCGAAGAACATAGGT-
1 AATC-TGTCCATATGTCCCAAAGAACATAGGTA
*
125565 AATCCTGTACATATGTCCCGAAAG-ACATAGGTA
1 AAT-CTGTCCATATGTCCC-AAAGAACATAGGTA
125598 A
1 A
125599 CCCTCGACTC
Statistics
Matches: 110, Mismatches: 10, Indels: 13
0.83 0.08 0.10
Matches are distributed among these distances:
30 4 0.04
31 46 0.42
32 55 0.50
33 5 0.05
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (32 bp):
AATCTGTCCATATGTCCCAAAGAACATAGGTA
Found at i:125552 original size:32 final size:32
Alignment explanation
Indices: 125439--125598 Score: 204
Period size: 31 Copynumber: 5.1 Consensus size: 32
125429 GCTCGTATAA
*
125439 TAATC-TGTCCATATGTCCCAAAGAACATAGG
1 TAATCTTGTCCATATGTCCCGAAGAACATAGG
*
125470 TAA-ATTGTCCATATGTCCCGAATG-ACATAGG
1 TAATCTTGTCCATATGTCCCGAA-GAACATAGG
* * *
125501 TAAT-ATGTCCATATATCCCGAATAACATAGG
1 TAATCTTGTCCATATGTCCCGAAGAACATAGG
125532 TAATCTTGTCCATATGTCCCGAAGAACATAGG
1 TAATCTTGTCCATATGTCCCGAAGAACATAGG
* *
125564 TAATCCTGTACATATGTCCCGAA-AGACATAGG
1 TAATCTTGTCCATATGTCCCGAAGA-ACATAGG
125596 TAA
1 TAA
125599 CCCTCGACTC
Statistics
Matches: 113, Mismatches: 10, Indels: 11
0.84 0.07 0.08
Matches are distributed among these distances:
31 57 0.50
32 56 0.50
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (32 bp):
TAATCTTGTCCATATGTCCCGAAGAACATAGG
Found at i:129669 original size:20 final size:20
Alignment explanation
Indices: 129644--129685 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
129634 GGAAAAACAC
129644 GGTAAAATGACTTACCGTTT
1 GGTAAAATGACTTACCGTTT
129664 GGTAAAATGACTTACCGTTT
1 GGTAAAATGACTTACCGTTT
129684 GG
1 GG
129686 AAATCCGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (20 bp):
GGTAAAATGACTTACCGTTT
Found at i:131743 original size:15 final size:15
Alignment explanation
Indices: 131723--131751 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
131713 TTAATATTAT
131723 ATAAAATAAACCTAC
1 ATAAAATAAACCTAC
131738 ATAAAATAAACCTA
1 ATAAAATAAACCTA
131752 AAATAGTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.17, G:0.00, T:0.21
Consensus pattern (15 bp):
ATAAAATAAACCTAC
Found at i:132842 original size:29 final size:29
Alignment explanation
Indices: 132800--132870 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
132790 CCCCAACACG
* **
132800 GGTCGACATGCACTCCCAGTGACCTACAA
1 GGTCGCCATGCACTCCCAACGACCTACAA
***
132829 GGTCGCCATGCACTCCCAACGACCTTGTA
1 GGTCGCCATGCACTCCCAACGACCTACAA
132858 GGTCGCCATGCAC
1 GGTCGCCATGCAC
132871 GCCCGGGCGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.23, C:0.37, G:0.23, T:0.18
Consensus pattern (29 bp):
GGTCGCCATGCACTCCCAACGACCTACAA
Found at i:133044 original size:12 final size:12
Alignment explanation
Indices: 133027--133101 Score: 75
Period size: 12 Copynumber: 6.5 Consensus size: 12
133017 TTCAGCTGCA
*
133027 TTATTGAAGCAC
1 TTATTGCAGCAC
*
133039 TTATTGCTGCA-
1 TTATTGCAGCAC
*
133050 TTATTGCAGCCC
1 TTATTGCAGCAC
*
133062 TTATTGCTGCA-
1 TTATTGCAGCAC
*
133073 TTATTGCAGCCC
1 TTATTGCAGCAC
*
133085 TTATTGCTGCA-
1 TTATTGCAGCAC
133096 TTATTG
1 TTATTG
133102 TAGTCCTTCA
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
11 24 0.47
12 27 0.53
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.41
Consensus pattern (12 bp):
TTATTGCAGCAC
Found at i:133109 original size:23 final size:23
Alignment explanation
Indices: 133021--133101 Score: 144
Period size: 23 Copynumber: 3.5 Consensus size: 23
133011 CGTGAATTCA
* *
133021 GCTGCATTATTGAAGCACTTATT
1 GCTGCATTATTGCAGCCCTTATT
133044 GCTGCATTATTGCAGCCCTTATT
1 GCTGCATTATTGCAGCCCTTATT
133067 GCTGCATTATTGCAGCCCTTATT
1 GCTGCATTATTGCAGCCCTTATT
133090 GCTGCATTATTG
1 GCTGCATTATTG
133102 TAGTCCTTCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.40
Consensus pattern (23 bp):
GCTGCATTATTGCAGCCCTTATT
Found at i:133549 original size:26 final size:29
Alignment explanation
Indices: 133491--133554 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 29
133481 ATATATTAAA
133491 AAATAATTAATTAGTGTGTTAGTTAGTCT
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
*
133520 -AATATTTAATTAGT-TG-TAGTTAGT-T
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
*
133545 AAATAGTTAA
1 AAATAATTAA
133555 GTTATATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 1 0.03
26 16 0.50
27 2 0.06
28 13 0.41
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.45
Consensus pattern (29 bp):
AAATAATTAATTAGTGTGTTAGTTAGTCT
Found at i:133707 original size:18 final size:18
Alignment explanation
Indices: 133684--133738 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
133674 AATAATTATT
133684 TAAATTAGTTTATTGTTA
1 TAAATTAGTTTATTGTTA
133702 TAAATTA--TTA--G-T-
1 TAAATTAGTTTATTGTTA
*
133714 T-AATTAGTTTATTATTA
1 TAAATTAGTTTATTGTTA
133731 TAAATTAG
1 TAAATTAG
133739 GGTAAAACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 5 0.17
12 1 0.03
13 4 0.14
14 1 0.03
16 4 0.14
17 1 0.03
18 13 0.45
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
TAAATTAGTTTATTGTTA
Found at i:133792 original size:21 final size:21
Alignment explanation
Indices: 133766--133805 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
133756 GATAATGAGT
133766 TTGTTAGTTTAAATTATATTA
1 TTGTTAGTTTAAATTATATTA
*
133787 TTGTTAGTTTAAGTTATAT
1 TTGTTAGTTTAAATTATAT
133806 CATATAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.57
Consensus pattern (21 bp):
TTGTTAGTTTAAATTATATTA
Found at i:134049 original size:30 final size:30
Alignment explanation
Indices: 133982--134077 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 30
133972 TTTAGTTAAT
* *
133982 TAGTTTTTTAGTAGTAAATTATAATTAAA-AA
1 TAGTTTATTAGT-TTAAATTAT-ATTAAAGAA
* *
134013 TCGTTTATTAGTTTAATTTATATTAAAGAA
1 TAGTTTATTAGTTTAAATTATATTAAAGAA
134043 TAGTTTATTAG-TTAAAGTTATATTAAAGAA
1 TAGTTTATTAGTTTAAA-TTATATTAAAGAA
134073 TAGTT
1 TAGTT
134078 AAAGTTATAT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
29 10 0.18
30 37 0.65
31 10 0.18
ACGTcount: A:0.41, C:0.01, G:0.11, T:0.47
Consensus pattern (30 bp):
TAGTTTATTAGTTTAAATTATATTAAAGAA
Found at i:134051 original size:15 final size:16
Alignment explanation
Indices: 134030--134078 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 16
134020 TTAGTTTAAT
134030 TTATATTAAAGAATAG
1 TTATATTAAAGAATAG
***
134046 TT-TATTAGTTAA-AG
1 TTATATTAAAGAATAG
134060 TTATATTAAAGAATAG
1 TTATATTAAAGAATAG
134076 TTA
1 TTA
134079 AAGTTATATT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
14 4 0.16
15 14 0.56
16 7 0.28
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (16 bp):
TTATATTAAAGAATAG
Found at i:134070 original size:11 final size:11
Alignment explanation
Indices: 134054--134091 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
134044 AGTTTATTAG
134054 TTAAAGTTATA
1 TTAAAGTTATA
*
134065 TTAAAG-AATA
1 TTAAAGTTATA
134075 GTTAAAGTTATA
1 -TTAAAGTTATA
134087 TTAAA
1 TTAAA
134092 AATAGTTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 3 0.13
11 17 0.74
12 3 0.13
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (11 bp):
TTAAAGTTATA
Found at i:134097 original size:21 final size:22
Alignment explanation
Indices: 134051--134098 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
134041 AATAGTTTAT
134051 TAGTTAAAGTTATATTAAAGAA
1 TAGTTAAAGTTATATTAAAGAA
134073 TAGTTAAAGTTATATTAAA-AA
1 TAGTTAAAGTTATATTAAAGAA
134094 TAGTT
1 TAGTT
134099 TACGTTTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (22 bp):
TAGTTAAAGTTATATTAAAGAA
Found at i:136218 original size:10 final size:10
Alignment explanation
Indices: 136195--136229 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
136185 TTTTCTTGCC
136195 ATTTATTATTT
1 ATTTATT-TTT
136206 ATTTATTTTT
1 ATTTATTTTT
136216 ATTTATTTTT
1 ATTTATTTTT
136226 ATTT
1 ATTT
136230 TACTAACTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 17 0.71
11 7 0.29
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:136219 original size:14 final size:15
Alignment explanation
Indices: 136195--136223 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
136185 TTTTCTTGCC
136195 ATTTATTATTTATTT
1 ATTTATTATTTATTT
136210 ATTT-TTATTTATTT
1 ATTTATTATTTATTT
136224 TTATTTTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTATTATTTATTT
Found at i:140798 original size:18 final size:18
Alignment explanation
Indices: 140764--140799 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
140754 TCAATATCAA
* *
140764 ATATTGGGGTATTTTTGG
1 ATATTGGGGCATCTTTGG
140782 ATATTGGGGCATCTTTGG
1 ATATTGGGGCATCTTTGG
140800 GGATTCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.06, G:0.33, T:0.44
Consensus pattern (18 bp):
ATATTGGGGCATCTTTGG
Found at i:141322 original size:36 final size:37
Alignment explanation
Indices: 141275--141350 Score: 136
Period size: 36 Copynumber: 2.1 Consensus size: 37
141265 GTGCTCACCA
*
141275 TTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAA-CT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAAAAACCT
141311 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAAAAACCT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAAAAACCT
141348 TTG
1 TTG
141351 AAATTGTTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 33 0.87
37 5 0.13
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.38
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAAAAAACCT
Found at i:141592 original size:37 final size:37
Alignment explanation
Indices: 141522--141593 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
141512 TGGAACTAAG
* * *
141522 TTTTGTCTCTCTTGAGACAGGTTTTCTTAAAACAAAA
1 TTTTGTCTCCCTTGAGACACGTTTTCATAAAACAAAA
*
141559 TTTTGTCTCCCTTGAGAC-CGTTTCTCATGAAACAA
1 TTTTGTCTCCCTTGAGACACGTTT-TCATAAAACAA
141594 CAGATATCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 4 0.13
37 26 0.87
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
TTTTGTCTCCCTTGAGACACGTTTTCATAAAACAAAA
Found at i:142317 original size:106 final size:106
Alignment explanation
Indices: 142160--142588 Score: 662
Period size: 106 Copynumber: 4.0 Consensus size: 106
142150 ATATCGCACC
* * *
142160 ACTCGAGACAACACAAGTTCAACTTCACAATGAAGGGACGGCTAGTTGTCAACAAACAACTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAATAAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
*
142225 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
142266 ACTCAAGACAACACAAGTTCAACTTCACAACAAAGGGATGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAATAAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* **
142331 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGGCATTGG
66 AATTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGG
* *
142372 ACTCGAGACAGCACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAATAAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
*
142437 AATTTCAGAACCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGG
*
142478 ACTCGAGACAACACAAGTTCAACTTCACAA-AGAAGGGATGGCTGGTTGTCAACAAACAATTTCC
1 ACTCGAGACAACACAAGTTCAACTTCACAATA-AAGGGACGGCTGGTTGTCAACAAACAATTTCC
* * * * * *
142542 CAGTTCCAGAACCAATTTTAACTTCACGGCGGAGAATATTGG
65 CAATTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGG
142584 ACTCG
1 ACTCG
142589 GAACAATACA
Statistics
Matches: 295, Mismatches: 27, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
106 295 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.22
Consensus pattern (106 bp):
ACTCGAGACAACACAAGTTCAACTTCACAATAAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:146979 original size:17 final size:17
Alignment explanation
Indices: 146959--147000 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
146949 TTTAGTATCA
146959 AATAATTAAATATTAAT
1 AATAATTAAATATTAAT
* * *
146976 AATAAATCATTATTAAT
1 AATAATTAAATATTAAT
146993 AATAATTA
1 AATAATTA
147001 GTAAATCATT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
AATAATTAAATATTAAT
Found at i:147065 original size:59 final size:58
Alignment explanation
Indices: 146941--147049 Score: 161
Period size: 59 Copynumber: 1.9 Consensus size: 58
146931 ATTTCATTAC
* *
146941 TAGT-AATCTTTAGTATCAAATAATTAAATATTAATAATAAATCATTATTAATAATAAT
1 TAGTAAATCATTAGTATCAAATAATTAAATATT-ATAATAAATCATTATAAATAATAAT
146999 TAGTAAATCATTAGTATCAAATAATTAAATATT-TAA-AAATCATTAATAAAT
1 TAGTAAATCATTAGTATCAAATAATTAAATATTATAATAAATCATT-ATAAAT
147050 TCGACTATGT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
56 8 0.17
57 8 0.17
58 4 0.09
59 27 0.57
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (58 bp):
TAGTAAATCATTAGTATCAAATAATTAAATATTATAATAAATCATTATAAATAATAAT
Found at i:147138 original size:11 final size:11
Alignment explanation
Indices: 147112--147258 Score: 51
Period size: 11 Copynumber: 11.9 Consensus size: 11
147102 TTATTATTCC
147112 ATAATTATTAGTA
1 ATAATTATTA--A
147125 ATAATTATTAA
1 ATAATTATTAA
147136 ATAATTATTATTAA
1 AT-A--ATTATTAA
*
147150 ATCATTATTATAAA
1 AT-A--ATTATTAA
* *
147164 ATCATTACTAA
1 ATAATTATTAA
* *
147175 ATCACTATTAA
1 ATAATTATTAA
*
147186 ATCATTACTATTAA
1 AT-A--ATTATTAA
*
147200 ATTATTATTATA
1 ATAATTATTA-A
147212 ATGATTATTATTAA
1 AT-A--ATTATTAA
* *
147226 ATCATTATTATC
1 ATAATTATTA-A
*
147238 ATTATTATTAA
1 ATAATTATTAA
*
147249 ATCATTATTA
1 ATAATTATTA
147259 TAAAATCATT
Statistics
Matches: 107, Mismatches: 16, Indels: 24
0.73 0.11 0.16
Matches are distributed among these distances:
11 42 0.39
12 13 0.12
13 10 0.09
14 35 0.33
15 7 0.07
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.47
Consensus pattern (11 bp):
ATAATTATTAA
Found at i:147140 original size:14 final size:14
Alignment explanation
Indices: 147112--147165 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
147102 TTATTATTCC
*
147112 ATAATTATT-AGTA
1 ATAATTATTAAATA
147125 ATAATTATTAAATA
1 ATAATTATTAAATA
* *
147139 ATTATTATTAAATC
1 ATAATTATTAAATA
* *
147153 ATTATTATAAAAT
1 ATAATTATTAAAT
147166 CATTACTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
13 9 0.25
14 27 0.75
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (14 bp):
ATAATTATTAAATA
Found at i:147166 original size:14 final size:14
Alignment explanation
Indices: 147128--147358 Score: 156
Period size: 14 Copynumber: 17.3 Consensus size: 14
147118 ATTAGTAATA
*
147128 ATTATTAAATAATT
1 ATTATTAAATCATT
147142 ATTATTAAATCATT
1 ATTATTAAATCATT
*
147156 ATTA-TAAA--ATC
1 ATTATTAAATCATT
*
147167 ATTACTAAATC---
1 ATTATTAAATCATT
*
147178 ACTATTAAATCATT
1 ATTATTAAATCATT
* *
147192 ACTATTAAATTATT
1 ATTATTAAATCATT
*
147206 ATTA-T-AATGATT
1 ATTATTAAATCATT
147218 ATTATTAAATC---
1 ATTATTAAATCATT
147229 ATTATT--ATCATT
1 ATTATTAAATCATT
147241 ATTATTAAATCATT
1 ATTATTAAATCATT
*
147255 ATTATAAAATCATT
1 ATTATTAAATCATT
*
147269 ATTATAAAATCATT
1 ATTATTAAATCATT
*
147283 ACTAAATCATCAAATCATT
1 A-T---T-ATTAAATCATT
*
147302 AAATATTAAAGTC---
1 -ATTATTAAA-TCATT
147315 ATTATTAAATCATT
1 ATTATTAAATCATT
*
147329 ATTA-T-AATTATT
1 ATTATTAAATCATT
*
147341 ATTACTAAATCATT
1 ATTATTAAATCATT
147355 ATTA
1 ATTA
147359 AATCATAATA
Statistics
Matches: 177, Mismatches: 15, Indels: 50
0.73 0.06 0.21
Matches are distributed among these distances:
9 3 0.02
11 23 0.13
12 38 0.21
13 8 0.05
14 84 0.47
15 6 0.03
16 3 0.02
18 1 0.01
19 10 0.06
20 1 0.01
ACGTcount: A:0.45, C:0.09, G:0.01, T:0.45
Consensus pattern (14 bp):
ATTATTAAATCATT
Found at i:147232 original size:23 final size:23
Alignment explanation
Indices: 147131--147415 Score: 107
Period size: 25 Copynumber: 11.6 Consensus size: 23
147121 AGTAATAATT
*
147131 ATTA-AATAATTATTATTAAATC
1 ATTATAATCATTATTATTAAATC
** * *
147153 ATTATTATAAAATCATTACTAAATC
1 ATTA-TA-ATCATTATTATTAAATC
* * *
147178 ACTATTAAATCATTACTATTAAATTATT
1 ATTA-T-AATCATTATTATT-AA--ATC
*
147206 ATTATAATGATTATTATTAAATC
1 ATTATAATCATTATTATTAAATC
*
147229 ATTATTATCATTATTATTAAATC
1 ATTATAATCATTATTATTAAATC
*
147252 ATTATTATAAAATCATTATTATAAAATC
1 ---ATTAT--AATCATTATTATTAAATC
* *
147280 ATTACTAAATCATCAAATCATTAAAT-
1 ATTA-T-AATCAT--TATTATTAAATC
*
147306 ATTA-AAGTCATTATTA--AATCATT
1 ATTATAA-TCATTATTATTAA--ATC
* *
147329 ATTATAATTATTATTACTAAATC
1 ATTATAATCATTATTATTAAATC
*
147352 ATTATTAAATCA-TAATATTAAAATC
1 ATTA-T-AATCATTATTATT-AAATC
* *
147377 ATTACTAAATCATCAAATCATTAAAT-
1 ATTA-T-AATCAT--TATTATTAAATC
*
147403 ATTAAAATCATTA
1 ATTATAATCATTA
147416 CTAAATCATT
Statistics
Matches: 201, Mismatches: 34, Indels: 56
0.69 0.12 0.19
Matches are distributed among these distances:
20 2 0.01
22 10 0.05
23 43 0.21
24 19 0.09
25 61 0.30
26 28 0.14
27 13 0.06
28 25 0.12
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.43
Consensus pattern (23 bp):
ATTATAATCATTATTATTAAATC
Found at i:147329 original size:11 final size:11
Alignment explanation
Indices: 147142--147448 Score: 128
Period size: 11 Copynumber: 25.9 Consensus size: 11
147132 TTAAATAATT
147142 ATTATTAAATC
1 ATTATTAAATC
147153 ATTATTATAAAATC
1 ATTA-T-T-AAATC
*
147167 ATTACTAAATC
1 ATTATTAAATC
*
147178 ACTATTAAATC
1 ATTATTAAATC
*
147189 ATTACTATTAAATT
1 A-T--TATTAAATC
*
147203 ATTATTATAATGATT
1 ATTA-T-TAA--ATC
147218 ATTATTAAATC
1 ATTATTAAATC
* *
147229 ATTATTATCATT
1 ATTATTA-AATC
147241 ATTATTAAATC
1 ATTATTAAATC
147252 ATTATTATAAAATC
1 ATTA-T-T-AAATC
147266 ATTATTATAAAATC
1 ATTA-T-T-AAATC
*
147280 ATTACTAAATC
1 ATTATTAAATC
* * * * *
147291 ATCAAATCATTA
1 AT-TATTAAATC
*
147303 AATATTAAAGTC
1 ATTATTAAA-TC
147315 ATTATTAAATC
1 ATTATTAAATC
*
147326 ATTATTATAATT
1 ATTATTA-AATC
147338 ATTATTACTAAATC
1 ATTA-T--TAAATC
147352 ATTATTAAATC
1 ATTATTAAATC
147363 ATAATATTAAAATC
1 AT--TATT-AAATC
*
147377 ATTACTAAATC
1 ATTATTAAATC
147388 ATCAAATCATTAAAT-
1 AT----T-ATTAAATC
147403 ATTA--AAATC
1 ATTATTAAATC
*
147412 ATTACTAAATC
1 ATTATTAAATC
147423 ---ATTAAAT-
1 ATTATTAAATC
147430 ATTA--AAATC
1 ATTATTAAATC
147439 ATTATTAAAT
1 ATTATTAAAT
147449 TATTTTTATG
Statistics
Matches: 231, Mismatches: 28, Indels: 74
0.69 0.08 0.22
Matches are distributed among these distances:
8 14 0.06
9 8 0.03
10 2 0.01
11 80 0.35
12 38 0.16
13 15 0.06
14 56 0.24
15 12 0.05
16 6 0.03
ACGTcount: A:0.47, C:0.10, G:0.01, T:0.42
Consensus pattern (11 bp):
ATTATTAAATC
Found at i:147356 original size:97 final size:96
Alignment explanation
Indices: 147218--147426 Score: 314
Period size: 97 Copynumber: 2.2 Consensus size: 96
147208 TATAATGATT
* * *
147218 ATTATTAAATCATTATTATCATTATTATTAAATCATTATTATAAAATCATTAT-TATAAAATCAT
1 ATTATTAAATCATTATTATAATTATTATTAAA-CATCATTATAAAATCATAATAT-TAAAATCAT
*
147282 TACTAAATCATCAAATCATTAAATATTAAAGTC
64 TACTAAATCATCAAATCATTAAATATTAAAATC
*
147315 ATTATTAAATCATTATTATAATTATTATTACTAA-ATCATTATTAAATCATAATATTAAAATCAT
1 ATTATTAAATCATTATTATAATTATTATTA--AACATCATTATAAAATCATAATATTAAAATCAT
147379 TACTAAATCATCAAATCATTAAATATTAAAATC
64 TACTAAATCATCAAATCATTAAATATTAAAATC
*
147412 ATTACTAAATCATTA
1 ATTATTAAATCATTA
147427 AATATTAAAA
Statistics
Matches: 103, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
97 100 0.97
98 1 0.01
99 2 0.02
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (96 bp):
ATTATTAAATCATTATTATAATTATTATTAAACATCATTATAAAATCATAATATTAAAATCATTA
CTAAATCATCAAATCATTAAATATTAAAATC
Found at i:147391 original size:14 final size:14
Alignment explanation
Indices: 147128--147391 Score: 92
Period size: 14 Copynumber: 20.1 Consensus size: 14
147118 ATTAGTAATA
* *
147128 ATTATTAAATAATT
1 ATTATTAAATCATC
*
147142 ATTATTAAATCATT
1 ATTATTAAATCATC
147156 ATTA-TAAA--ATC
1 ATTATTAAATCATC
*
147167 ATTACTAAATCA-C
1 ATTATTAAATCATC
*
147180 --TATTAAATCATT
1 ATTATTAAATCATC
*
147192 ACTATTAAAT--T-
1 ATTATTAAATCATC
* *
147203 ATTATTATAATGATT
1 ATTATTA-AATCATC
147218 ATTATT-AA--ATC
1 ATTATTAAATCATC
*
147229 ATTATT--ATCATT
1 ATTATTAAATCATC
*
147241 ATTATTAAATCATT
1 ATTATTAAATCATC
* *
147255 ATTATAAAATCATT
1 ATTATTAAATCATC
147269 ATTA-TAAA--ATC
1 ATTATTAAATCATC
*
147280 ATTACTAAATCATC
1 ATTATTAAATCATC
* *
147294 AAATCATTAAATATTAAAGTC
1 --ATTATT-AA-A-T-CA-TC
*
147315 ATTATTAAATCATT
1 ATTATTAAATCATC
* *
147329 ATTA-T-AATTATT
1 ATTATTAAATCATC
*
147341 ATTACT-AA--ATC
1 ATTATTAAATCATC
147352 ATTATTAAATCAT-
1 ATTATTAAATCATC
*
147365 AATATTAAA--ATC
1 ATTATTAAATCATC
*
147377 ATTACTAAATCATC
1 ATTATTAAATCATC
147391 A
1 A
147392 AATCATTAAA
Statistics
Matches: 197, Mismatches: 22, Indels: 62
0.70 0.08 0.22
Matches are distributed among these distances:
10 1 0.01
11 44 0.22
12 39 0.20
13 22 0.11
14 64 0.32
15 7 0.04
16 5 0.03
17 3 0.02
18 3 0.02
19 6 0.03
20 1 0.01
21 2 0.01
ACGTcount: A:0.46, C:0.09, G:0.01, T:0.44
Consensus pattern (14 bp):
ATTATTAAATCATC
Found at i:147410 original size:8 final size:9
Alignment explanation
Indices: 147368--147442 Score: 70
Period size: 8 Copynumber: 8.4 Consensus size: 9
147358 AAATCATAAT
147368 ATTAAAATC
1 ATTAAAATC
147377 ATTACTAAATC
1 ATTA--AAATC
*
147388 A-TCAAATC
1 ATTAAAATC
147396 ATT-AAAT-
1 ATTAAAATC
147403 ATTAAAATC
1 ATTAAAATC
147412 ATTACTAAATC
1 ATTA--AAATC
147423 ATT-AAAT-
1 ATTAAAATC
147430 ATTAAAATC
1 ATTAAAATC
147439 ATTA
1 ATTA
147443 TTAAATTATT
Statistics
Matches: 56, Mismatches: 1, Indels: 18
0.75 0.01 0.24
Matches are distributed among these distances:
7 6 0.11
8 22 0.39
9 13 0.23
10 1 0.02
11 14 0.25
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (9 bp):
ATTAAAATC
Found at i:147421 original size:27 final size:27
Alignment explanation
Indices: 147391--147448 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
147381 CTAAATCATC
147391 AAATCATTAAATATTAAAATCATTACT
1 AAATCATTAAATATTAAAATCATTACT
*
147418 AAATCATTAAATATTAAAATCATTATT
1 AAATCATTAAATATTAAAATCATTACT
147445 AAAT
1 AAAT
147449 TATTTTTATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (27 bp):
AAATCATTAAATATTAAAATCATTACT
Found at i:147648 original size:49 final size:49
Alignment explanation
Indices: 147595--147737 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
147585 CTAAATTATT
*
147595 ATTAAATATTAACAATAATTTAATTATTACTAATCATTACTACCAAATC
1 ATTAAATATTAATAATAATTTAATTATTACTAATCATTACTACCAAATC
*
147644 ATTAAATATTAATAATAATTTTATTATTACTAATCATTACTACCAAATC
1 ATTAAATATTAATAATAATTTAATTATTACTAATCATTACTACCAAATC
*
147693 ATTAAATATTAATAATAATAATTTCATTATTACTAATCATTACTA
1 ATTAAATA-T--TAATAATAATTTAATTATTACTAATCATTACTA
147738 AATAATTACT
Statistics
Matches: 88, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
49 55 0.62
50 1 0.01
52 32 0.36
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (49 bp):
ATTAAATATTAATAATAATTTAATTATTACTAATCATTACTACCAAATC
Found at i:151142 original size:17 final size:18
Alignment explanation
Indices: 151098--151146 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
151088 TAAACAAAAA
151098 AATATTTTTTTTAAACACT
1 AATA-TTTTTTTAAACACT
*
151117 AA-ATATTTTTAAACAC-
1 AATATTTTTTTAAACACT
151133 AATATTTTTTTAAA
1 AATATTTTTTTAAA
151147 TGGAAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 2 0.07
17 22 0.81
18 1 0.04
19 2 0.07
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (18 bp):
AATATTTTTTTAAACACT
Found at i:151658 original size:28 final size:30
Alignment explanation
Indices: 151618--151680 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 30
151608 GTTTTTTATA
*
151618 TAATATAATATATAACTTAAAATAATAAAC
1 TAATATAATATATAACTTAAAATAACAAAC
*
151648 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAAATAACAAAC
151676 TAATA
1 TAATA
151681 ATTTATACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 24 0.77
29 1 0.03
30 6 0.19
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.32
Consensus pattern (30 bp):
TAATATAATATATAACTTAAAATAACAAAC
Found at i:151687 original size:28 final size:28
Alignment explanation
Indices: 151622--151687 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
151612 TTTATATAAT
*
151622 ATAATATATAACTTAAAATAATAAACTA
1 ATAATATATAACTTAAAATAACAAACTA
*
151650 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAAATAACAAACTA
*
151678 ATAATTTATA
1 ATAATATATA
151688 CTAATAAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 2 0.06
28 29 0.88
29 2 0.06
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAATATATAACTTAAAATAACAAACTA
Found at i:151690 original size:21 final size:21
Alignment explanation
Indices: 151657--151705 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
151647 CTAATATAAT
151657 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* * *
151678 ATAATTTATACTAATAAACTA
1 ATAACTTAAACTAACAAACTA
151699 ATTAACT
1 A-TAACT
151706 AAATTTTAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:152256 original size:21 final size:21
Alignment explanation
Indices: 152226--152269 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
152216 CATGAGCCAT
* *
152226 GCACTGCTCCCTAGATAGCTC
1 GCACTCCTCCATAGATAGCTC
*
152247 GCACTCCTCCATGGATAGCTC
1 GCACTCCTCCATAGATAGCTC
152268 GC
1 GC
152270 CGGGCGTGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.39, G:0.20, T:0.23
Consensus pattern (21 bp):
GCACTCCTCCATAGATAGCTC
Found at i:156139 original size:242 final size:242
Alignment explanation
Indices: 155708--156435 Score: 1440
Period size: 242 Copynumber: 3.0 Consensus size: 242
155698 ATTTGAGCTA
*
155708 TCAAAATATAAATATAAACCAATTCTTGCATAACCCTTCATGTGAGCTAAACTTAGCTAAATATT
1 TCAAATTATAAATATAAACCAATTCTTGCATAACCCTTCATGTGAGCTAAACTTAGCTAAATATT
155773 ACTTTAATTAATCCTTTTAGTTGTAGAGAATGATTGAAATGCTGAAAATGATCTCTAATATTACG
66 ACTTTAATTAATCCTTTTAGTTGTAGAGAATGATTGAAATGCTGAAAATGATCTCTAATATTACG
155838 ATAATCCTTCTCTTAGAAGAGATTTTGGGATATACCCAAATTCGTAATGATCTTGAATTTATGCA
131 ATAATCCTTCTCTTAGAAGAGATTTTGGGATATACCCAAATTCGTAATGATCTTGAATTTATGCA
155903 TGAAATTGTTATATTGGCTAATTGGTTTAGGACAATGCTATATACAT
196 TGAAATTGTTATATTGGCTAATTGGTTTAGGACAATGCTATATACAT
155950 TCAAATTATAAATATAAACCAATTCTTGCATAACCCTTCATGTGAGCTAAACTTAGCTAAATATT
1 TCAAATTATAAATATAAACCAATTCTTGCATAACCCTTCATGTGAGCTAAACTTAGCTAAATATT
156015 ACTTTAATTAATCCTTTTAGTTGTAGAGAATGATTGAAATGCTGAAAATGATCTCTAATATTACG
66 ACTTTAATTAATCCTTTTAGTTGTAGAGAATGATTGAAATGCTGAAAATGATCTCTAATATTACG
156080 ATAATCCTTCTCTTAGAAGAGATTTTGGGATATACCCAAATTCGTAATGATCTTGAATTTATGCA
131 ATAATCCTTCTCTTAGAAGAGATTTTGGGATATACCCAAATTCGTAATGATCTTGAATTTATGCA
156145 TGAAATTGTTATATTGGCTAATTGGTTTAGGACAATGCTATATACAT
196 TGAAATTGTTATATTGGCTAATTGGTTTAGGACAATGCTATATACAT
156192 TC-AATTATAAATATAAACCAATTCTTGCATAACCCTTCATGTGAGCTAAACTTAGCTAAATATT
1 TCAAATTATAAATATAAACCAATTCTTGCATAACCCTTCATGTGAGCTAAACTTAGCTAAATATT
156256 ACTTTAATTAATCCTTTTAGTTGTAGAGAATGATTGAAATGCTGAAAATGATCTCTAATATTACG
66 ACTTTAATTAATCCTTTTAGTTGTAGAGAATGATTGAAATGCTGAAAATGATCTCTAATATTACG
156321 ATAATCCTTCTCTTAGAAGAGATTTTGGGATATACCCAAATTCGTAATGATCTTGAATTTATGCA
131 ATAATCCTTCTCTTAGAAGAGATTTTGGGATATACCCAAATTCGTAATGATCTTGAATTTATGCA
156386 TGAAATTGTTATATTGGCTAATTGGTTTAGGACAATGCTATATACAT
196 TGAAATTGTTATATTGGCTAATTGGTTTAGGACAATGCTATATACAT
156433 TCA
1 TCA
156436 TGAACTGCAT
Statistics
Matches: 484, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
241 241 0.50
242 243 0.50
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (242 bp):
TCAAATTATAAATATAAACCAATTCTTGCATAACCCTTCATGTGAGCTAAACTTAGCTAAATATT
ACTTTAATTAATCCTTTTAGTTGTAGAGAATGATTGAAATGCTGAAAATGATCTCTAATATTACG
ATAATCCTTCTCTTAGAAGAGATTTTGGGATATACCCAAATTCGTAATGATCTTGAATTTATGCA
TGAAATTGTTATATTGGCTAATTGGTTTAGGACAATGCTATATACAT
Found at i:156376 original size:241 final size:241
Alignment explanation
Indices: 155714--156435 Score: 1435
Period size: 241 Copynumber: 3.0 Consensus size: 241
155704 GCTATCAAAA
155714 TATAAATATAAACCAATTCTTGCATAACCCTTCATGTGAGCTAAACTTAGCTAAATATTACTTTA
1 TATAAATATAAACCAATTCTTGCATAACCCTTCATGTGAGCTAAACTTAGCTAAATATTACTTTA
155779 ATTAATCCTTTTAGTTGTAGAGAATGATTGAAATGCTGAAAATGATCTCTAATATTACGATAATC
66 ATTAATCCTTTTAGTTGTAGAGAATGATTGAAATGCTGAAAATGATCTCTAATATTACGATAATC
155844 CTTCTCTTAGAAGAGATTTTGGGATATACCCAAATTCGTAATGATCTTGAATTTATGCATGAAAT
131 CTTCTCTTAGAAGAGATTTTGGGATATACCCAAATTCGTAATGATCTTGAATTTATGCATGAAAT
155909 TGTTATATTGGCTAATTGGTTTAGGACAATGCTATATACATTCAAAT
196 TGTTATATTGGCTAATTGGTTTAGGACAATGCTATATACATTC-AAT
155956 TATAAATATAAACCAATTCTTGCATAACCCTTCATGTGAGCTAAACTTAGCTAAATATTACTTTA
1 TATAAATATAAACCAATTCTTGCATAACCCTTCATGTGAGCTAAACTTAGCTAAATATTACTTTA
156021 ATTAATCCTTTTAGTTGTAGAGAATGATTGAAATGCTGAAAATGATCTCTAATATTACGATAATC
66 ATTAATCCTTTTAGTTGTAGAGAATGATTGAAATGCTGAAAATGATCTCTAATATTACGATAATC
156086 CTTCTCTTAGAAGAGATTTTGGGATATACCCAAATTCGTAATGATCTTGAATTTATGCATGAAAT
131 CTTCTCTTAGAAGAGATTTTGGGATATACCCAAATTCGTAATGATCTTGAATTTATGCATGAAAT
156151 TGTTATATTGGCTAATTGGTTTAGGACAATGCTATATACATTCAAT
196 TGTTATATTGGCTAATTGGTTTAGGACAATGCTATATACATTCAAT
156197 TATAAATATAAACCAATTCTTGCATAACCCTTCATGTGAGCTAAACTTAGCTAAATATTACTTTA
1 TATAAATATAAACCAATTCTTGCATAACCCTTCATGTGAGCTAAACTTAGCTAAATATTACTTTA
156262 ATTAATCCTTTTAGTTGTAGAGAATGATTGAAATGCTGAAAATGATCTCTAATATTACGATAATC
66 ATTAATCCTTTTAGTTGTAGAGAATGATTGAAATGCTGAAAATGATCTCTAATATTACGATAATC
156327 CTTCTCTTAGAAGAGATTTTGGGATATACCCAAATTCGTAATGATCTTGAATTTATGCATGAAAT
131 CTTCTCTTAGAAGAGATTTTGGGATATACCCAAATTCGTAATGATCTTGAATTTATGCATGAAAT
156392 TGTTATATTGGCTAATTGGTTTAGGACAATGCTATATACATTCA
196 TGTTATATTGGCTAATTGGTTTAGGACAATGCTATATACATTCA
156436 TGAACTGCAT
Statistics
Matches: 480, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
241 242 0.50
242 238 0.50
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (241 bp):
TATAAATATAAACCAATTCTTGCATAACCCTTCATGTGAGCTAAACTTAGCTAAATATTACTTTA
ATTAATCCTTTTAGTTGTAGAGAATGATTGAAATGCTGAAAATGATCTCTAATATTACGATAATC
CTTCTCTTAGAAGAGATTTTGGGATATACCCAAATTCGTAATGATCTTGAATTTATGCATGAAAT
TGTTATATTGGCTAATTGGTTTAGGACAATGCTATATACATTCAAT
Found at i:170463 original size:21 final size:21
Alignment explanation
Indices: 170438--170485 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
170428 CCTAATATTG
170438 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
170459 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
*
170480 TAATGT
1 CAATGT
170486 TTGAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (21 bp):
CAATGTCAAAATTAGGTGCAA
Found at i:175114 original size:21 final size:21
Alignment explanation
Indices: 175089--175136 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
175079 CCTAATATTG
175089 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
175110 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
*
175131 TAATGT
1 CAATGT
175137 TTGAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (21 bp):
CAATGTCAAAATTAGGTGCAA
Found at i:180731 original size:2 final size:2
Alignment explanation
Indices: 180724--180774 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
180714 TGTGTTTTCA
180724 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
180766 AT AT AT AT A
1 AT AT AT AT A
180775 GATTCTACAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:183941 original size:19 final size:19
Alignment explanation
Indices: 183912--183955 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
183902 TTGAGCATAC
183912 ATAAT-AATAACAACAATA
1 ATAATAAATAACAACAATA
*
183930 ATAATAAATAACATCAATA
1 ATAATAAATAACAACAATA
*
183949 ACAATAA
1 ATAATAA
183956 TAGTTGGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (19 bp):
ATAATAAATAACAACAATA
Done.