Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 75 of 91
Found at i:17071669 original size:18 final size:19
Alignment explanation
Indices: 17071646--17071683 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
17071636 ACACATTGAA
17071646 TATCACGAGG-AGTAA-ATT
1 TATCAC-AGGAAGTAAGATT
17071664 TATCACAGGAAGTAAGATT
1 TATCACAGGAAGTAAGATT
17071683 T
1 T
17071684 GTTGCAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.17
18 11 0.61
19 4 0.22
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (19 bp):
TATCACAGGAAGTAAGATT
Found at i:17075956 original size:37 final size:36
Alignment explanation
Indices: 17075868--17076356 Score: 280
Period size: 37 Copynumber: 13.7 Consensus size: 36
17075858 AATCATTTCA
* * *
17075868 AGAAAATGTCTCAAGTGAGACG-AA-CTTTTTCAAG
1 AGAAAATATCTCAAGTGAGATGAAATTTTTTTCAAG
* *
17075902 AGAAAACATCTCAAGTGAGATGAAATTTTGTTTCGAG
1 AGAAAATATCTCAAGTGAGATGAAATTTT-TTTCAAG
* *
17075939 AGAAAAT-T-TC--TTGAG-TGAATTTTTTTTCCAAG
1 AGAAAATATCTCAAGTGAGATGAAATTTTTTT-CAAG
* * *
17075971 GGAAGACATCTCAAGTGAGATGAAATTTTATTTCAAG
1 AGAAAATATCTCAAGTGAGATGAAATTTT-TTTCAAG
* * *
17076008 AGAAAATGTCTCGAGTGAGATGAAA--ATTTTCAAG
1 AGAAAATATCTCAAGTGAGATGAAATTTTTTTCAAG
* * **
17076042 GGAAAATATTTCAAGTGAGATGAAATTTTGTTTTGAG
1 AGAAAATATCTCAAGTGAGATGAAATTTT-TTTCAAG
* * * * *
17076079 AGAAACTGTCTCGAGTGAGACGAAA--ATTTTCAA-
1 AGAAAATATCTCAAGTGAGATGAAATTTTTTTCAAG
* *
17076112 AGGAAAATATCTCAAGTGATATGAAATTTTGTTTCGAG
1 A-GAAAATATCTCAAGTGAGATGAAATTTT-TTTCAAG
* * * *
17076150 AGAAACT-TGTCTAAGGTGAGACCGAAATTGTTTT-AAG
1 AGAAAATATCTC-AA-GTGAGA-TGAAATTTTTTTCAAG
*
17076187 -GAAAACTATCTCAAGTGAGA-GAAAATTTTTGTTTCGAG
1 AGAAAA-TATCTCAAGTGAGATG-AAA-TTTT-TTTCAAG
** * ** * **
17076225 AGAAGCTATCCCTGGTGAGA-CAAA-AATTTTCAAG
1 AGAAAATATCTCAAGTGAGATGAAATTTTTTTCAAG
* **
17076259 AGAAAATATTTCAAGTGAGAT-AATATTTTTTTTGAG
1 AGAAAATATCTCAAGTGAGATGAA-ATTTTTTTCAAG
* * * *
17076295 A-AAAACTATTTCAAGTGAGATAAAATTTGTTTAAAG
1 AGAAAA-TATCTCAAGTGAGATGAAATTTTTTTCAAG
* * *
17076331 AGAAACTATCTCAAATGAGATAAAAT
1 AGAAAATATCTCAAGTGAGATGAAAT
17076357 CTGTTTCAGG
Statistics
Matches: 343, Mismatches: 78, Indels: 66
0.70 0.16 0.14
Matches are distributed among these distances:
31 3 0.01
32 15 0.04
33 6 0.02
34 95 0.28
35 15 0.04
36 75 0.22
37 96 0.28
38 28 0.08
39 10 0.03
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (36 bp):
AGAAAATATCTCAAGTGAGATGAAATTTTTTTCAAG
Found at i:17076041 original size:34 final size:34
Alignment explanation
Indices: 17075868--17076356 Score: 211
Period size: 34 Copynumber: 13.8 Consensus size: 34
17075858 AATCATTTCA
* * *
17075868 AGAAAATGTCTCAAGTGAGACGAACTTTTTCAAG
1 AGAAAATATCTCAAGTGAGATGAAATTTTTCAAG
* *
17075902 AGAAAACATCTCAAGTGAGATGAAATTTTGTTTCGAG
1 AGAAAATATCTCAAGTGAGATGAAA--TT-TTTCAAG
* ** **
17075939 AGAAAATTTCTTGAGTGA-AT--TTTTTTTCCAAG
1 AGAAAATATCTCAAGTGAGATGAAATTTTT-CAAG
* * *
17075971 GGAAGACATCTCAAGTGAGATGAAATTTTATTTCAAG
1 AGAAAATATCTCAAGTGAGATGAAA--TT-TTTCAAG
* * *
17076008 AGAAAATGTCTCGAGTGAGATGAAAATTTTCAAG
1 AGAAAATATCTCAAGTGAGATGAAATTTTTCAAG
* * **
17076042 GGAAAATATTTCAAGTGAGATGAAATTTTGTTTTGAG
1 AGAAAATATCTCAAGTGAGATGAAA--TT-TTTCAAG
* * * * *
17076079 AGAAACTGTCTCGAGTGAGACGAAAATTTTCAA-
1 AGAAAATATCTCAAGTGAGATGAAATTTTTCAAG
* *
17076112 AGGAAAATATCTCAAGTGATATGAAATTTTGTTTCGAG
1 A-GAAAATATCTCAAGTGAGATGAAA--TT-TTTCAAG
* * * *
17076150 AGAAACT-TGTCTAAGGTGAGACCGAAATTGTTTTAAG
1 AGAAAATATCTC-AA-GTGAGA-TGAAATT-TTTCAAG
*
17076187 -GAAAACTATCTCAAGTGAGA-GAAAATTTTTGTTTCGAG
1 AGAAAA-TATCTCAAGTGAGATG-AAA---TT-TTTCAAG
** * ** ** *
17076225 AGAAGCTATCCCTGGTGAGACAAAAATTTTCAAG
1 AGAAAATATCTCAAGTGAGATGAAATTTTTCAAG
* ***
17076259 AGAAAATATTTCAAGTGAGAT-AATATTTTTTTTG
1 AGAAAATATCTCAAGTGAGATGAA-ATTTTTCAAG
* * *
17076293 AGAAAAACTATTTCAAGTGAGATAAAATTTGTTTAAAG
1 AG-AAAA-TATCTCAAGTGAGATGAAA-TT-TTTCAAG
* * *
17076331 AGAAACTATCTCAAATGAGATAAAAT
1 AGAAAATATCTCAAGTGAGATGAAAT
17076357 CTGTTTCAGG
Statistics
Matches: 336, Mismatches: 84, Indels: 69
0.69 0.17 0.14
Matches are distributed among these distances:
31 3 0.01
32 17 0.05
33 5 0.01
34 101 0.30
35 11 0.03
36 52 0.15
37 100 0.30
38 40 0.12
39 7 0.02
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (34 bp):
AGAAAATATCTCAAGTGAGATGAAATTTTTCAAG
Found at i:17076068 original size:71 final size:71
Alignment explanation
Indices: 17075868--17076299 Score: 407
Period size: 71 Copynumber: 6.1 Consensus size: 71
17075858 AATCATTTCA
* ** * *
17075868 AGAAAATGTCTCAAGTGAGACGAACTTTTTCAAGAGAAAACATCTCAAGTGAGATGAAATTTTGT
1 AGAAAATGTCTCGAGTGAGACGAAAATTTTCAAGGGAAAATATCTCAAGTGAGATGAAATTTTGT
17075933 TTCGAG
66 TTCGAG
* * **** * * *
17075939 AGAAAATTTCTTGAGTGA-A--TTTTTTTTCCAAGGGAAGACATCTCAAGTGAGATGAAATTTTA
1 AGAAAATGTCTCGAGTGAGACGAAAATTTT-CAAGGGAAAATATCTCAAGTGAGATGAAATTTTG
*
17076001 TTTCAAG
65 TTTCGAG
* *
17076008 AGAAAATGTCTCGAGTGAGATGAAAATTTTCAAGGGAAAATATTTCAAGTGAGATGAAATTTTGT
1 AGAAAATGTCTCGAGTGAGACGAAAATTTTCAAGGGAAAATATCTCAAGTGAGATGAAATTTTGT
*
17076073 TTTGAG
66 TTCGAG
* * *
17076079 AGAAACTGTCTCGAGTGAGACGAAAATTTTCAAAGGAAAATATCTCAAGTGATATGAAATTTTGT
1 AGAAAATGTCTCGAGTGAGACGAAAATTTTCAAGGGAAAATATCTCAAGTGAGATGAAATTTTGT
17076144 TTCGAG
66 TTCGAG
* * * *
17076150 AGAAACTTGTCT-AAGGTGAGACCGAAATTGTTTTAA-GGAAAACTATCTCAAGTGAGA-GAAAA
1 AGAAA-ATGTCTCGA-GTGAGA-CGAAAAT-TTTCAAGGGAAAA-TATCTCAAGTGAGATG-AAA
17076212 TTTTTGTTTCGAG
60 -TTTTGTTTCGAG
** * * * * *
17076225 AGAAGCTATCCCTG-GTGAGACAAAAATTTTCAAGAGAAAATATTTCAAGTGAGAT-AATATTTT
1 AGAAAATGTCTC-GAGTGAGACGAAAATTTTCAAGGGAAAATATCTCAAGTGAGATGAA-ATTTT
*
17076288 -TTTTGAG
64 GTTTCGAG
17076295 A-AAAA
1 AGAAAA
17076300 CTATTTCAAG
Statistics
Matches: 299, Mismatches: 46, Indels: 34
0.79 0.12 0.09
Matches are distributed among these distances:
68 5 0.02
69 55 0.18
70 9 0.03
71 127 0.42
72 34 0.11
73 23 0.08
74 30 0.10
75 16 0.05
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (71 bp):
AGAAAATGTCTCGAGTGAGACGAAAATTTTCAAGGGAAAATATCTCAAGTGAGATGAAATTTTGT
TTCGAG
Found at i:17076278 original size:17 final size:17
Alignment explanation
Indices: 17076247--17076314 Score: 52
Period size: 17 Copynumber: 4.1 Consensus size: 17
17076237 TGGTGAGACA
17076247 AAAAT-TTTCAA--GAG
1 AAAATATTTCAAGTGAG
17076261 AAAATATTTCAAGTGAG
1 AAAATATTTCAAGTGAG
* ****
17076278 ATAATATTTTTTTTGAG
1 AAAATATTTCAAGTGAG
17076295 AAAAACTATTTCAAGTGAG
1 -AAAA-TATTTCAAGTGAG
17076314 A
1 A
17076315 TAAAATTTGT
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
14 5 0.13
15 6 0.15
17 15 0.38
18 4 0.10
19 9 0.23
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (17 bp):
AAAATATTTCAAGTGAG
Found at i:17076305 original size:36 final size:36
Alignment explanation
Indices: 17076256--17076362 Score: 126
Period size: 36 Copynumber: 3.0 Consensus size: 36
17076246 AAAAATTTTC
* * *
17076256 AAGAGAAAA-TATTTCAAGTGAGATAATATTTTTTTT
1 AAGA-AAAACTATTTCAAGTGAGATAAAATTTGTTTA
*
17076292 GAGAAAAACTATTTCAAGTGAGATAAAATTTGTTTA
1 AAGAAAAACTATTTCAAGTGAGATAAAATTTGTTTA
* * * *
17076328 AAGAGAAACTATCTCAAATGAGATAAAATCTGTTT
1 AAGAAAAACTATTTCAAGTGAGATAAAATTTGTTT
17076363 CAGGGAAATG
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
35 4 0.07
36 57 0.93
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.35
Consensus pattern (36 bp):
AAGAAAAACTATTTCAAGTGAGATAAAATTTGTTTA
Found at i:17076332 original size:72 final size:70
Alignment explanation
Indices: 17075978--17076354 Score: 294
Period size: 71 Copynumber: 5.2 Consensus size: 70
17075968 AAGGGAAGAC
* ** * * * ** * *
17075978 ATCTCAAGTGAGATGAAATTTTATTTCAAGAGAAAATGTCTCGAGTGAGATGAAAATTTTCAAGG
1 ATCTCAAGTGAGAT-AAATTTTGTTTTGAGAGAAACTATCTCAAGTGAGACCAAAATTTTTAAAG
17076043 GAAAAT
65 GAAAAT
* * * * *
17076049 ATTTCAAGTGAGATGAAATTTTGTTTTGAGAGAAACTGTCTCGAGTGAGACGAAAATTTTCAAAG
1 ATCTCAAGTGAGAT-AAATTTTGTTTTGAGAGAAACTATCTCAAGTGAGACCAAAATTTTTAAAG
17076114 GAAAAT
65 GAAAAT
* * * * *
17076120 ATCTCAAGTGATATGAAATTTTGTTTCGAGAGAAACT-TGTCTAAGGTGAGACCGAAATTGTTTT
1 ATCTCAAGTGAGAT-AAATTTTGTTTTGAGAGAAACTATCTC-AA-GTGAGACCAAAATT-TTTA
17076184 AAGGAAAACT
62 AAGGAAAA-T
* * * * ** * *
17076194 ATCTCAAGTGAGAGAAAATTTTTGTTTCGAGAGAAGCTATCCCTGGTGAGA-CAAAAATTTTCAA
1 ATCTCAAGTGAGA-TAAA-TTTTGTTTTGAGAGAAACTATCTCAAGTGAGACCAAAATTTTTAAA
17076258 GAGAAAAT
64 G-GAAAAT
* * * *
17076266 ATTTCAAGTGAGATAATATTTT-TTTTGAGAAAAACTATTTCAAGTGAGA-TAAAATTTGTTTAA
1 ATCTCAAGTGAGATAA-ATTTTGTTTTGAGAGAAACTATCTCAAGTGAGACCAAAA-TT-TTTAA
*
17076329 AGAGAAACT
63 AG-GAAAAT
*
17076338 ATCTCAAATGAGATAAA
1 ATCTCAAGTGAGATAAA
17076355 ATCTGTTTCA
Statistics
Matches: 254, Mismatches: 41, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
70 27 0.11
71 107 0.42
72 58 0.23
73 20 0.08
74 22 0.09
75 18 0.07
76 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (70 bp):
ATCTCAAGTGAGATAAATTTTGTTTTGAGAGAAACTATCTCAAGTGAGACCAAAATTTTTAAAGG
AAAAT
Found at i:17076364 original size:108 final size:105
Alignment explanation
Indices: 17075978--17076356 Score: 302
Period size: 108 Copynumber: 3.5 Consensus size: 105
17075968 AAGGGAAGAC
* * * * * *
17075978 ATCTCAAGTGAGATGAAATTTTATTTCAAGAGAAAATGTCTCGAGTGAGATGAAAATTTTCAAGG
1 ATCTCAAGTGAGA-GAAAATTTGTTTAAAGAGAAAATATCTCAAGTGAGATGAAAATTTTCAAGA
*
17076043 GAAAATATTTCAAGTGAGATGAAATTTTGTTTTGAGAGAAACT
65 GAAAATATTTCAAGTGAGAT-AAATTTT-TTTTGAGAAAAACT
* * * * * *
17076086 GTCTCGAGTGAGACGAAAA-TT-TTCAAAG-GAAAATATCTCAAGTGATATGAAATTTTGTTTCG
1 ATCTCAAGTGAGA-GAAAATTTGTTTAAAGAGAAAATATCTCAAGTGAGATGAAA--AT-TTTCA
* * * * * *
17076148 AGAGAAACT-TGTCTAAGGTGAGACCGAAA-TTGTTTTAAGGAAAACT
62 AGAGAAAATATTTC-AA-GTGAGA--TAAATTTTTTTTGAGAAAAACT
** ** * ** **
17076194 ATCTCAAGTGAGAGAAAATTTTTGTTTCGAGAGAAGCTATCCCTGGTGAGACAAAAATTTTCAAG
1 ATCTCAAGTGAGAGAAAA--TTTGTTTAAAGAGAAAATATCTCAAGTGAGATGAAAATTTTCAAG
17076259 AGAAAATATTTCAAGTGAGATAATATTTTTTTTGAGAAAAACT
64 AGAAAATATTTCAAGTGAGATAA-ATTTTTTTTGAGAAAAACT
* * * *
17076302 ATTTCAAGTGAGATAAAATTTGTTTAAAGAGAAACTATCTCAAATGAGAT-AAAAT
1 ATCTCAAGTGAGAGAAAATTTGTTTAAAGAGAAAATATCTCAAGTGAGATGAAAAT
17076357 CTGTTTCAGG
Statistics
Matches: 206, Mismatches: 50, Indels: 33
0.71 0.17 0.11
Matches are distributed among these distances:
105 26 0.13
106 31 0.15
107 12 0.06
108 86 0.42
109 22 0.11
110 9 0.04
111 4 0.02
112 16 0.08
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (105 bp):
ATCTCAAGTGAGAGAAAATTTGTTTAAAGAGAAAATATCTCAAGTGAGATGAAAATTTTCAAGAG
AAAATATTTCAAGTGAGATAAATTTTTTTTGAGAAAAACT
Found at i:17083312 original size:52 final size:52
Alignment explanation
Indices: 17083234--17083339 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
17083224 GGTTATGTGT
17083234 ATCGATGTACTCTTAAATAAATGAACATCGAATGCAATTAGTGCATCGATGC
1 ATCGATGTACTCTTAAATAAATGAACATCGAATGCAATTAGTGCATCGATGC
*
17083286 ATCGATGTACTCTTAAATAAATGAACATCGAATTCAATTAGTGCATCGATGC
1 ATCGATGTACTCTTAAATAAATGAACATCGAATGCAATTAGTGCATCGATGC
17083338 AT
1 AT
17083340 AAGGAGTGCA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (52 bp):
ATCGATGTACTCTTAAATAAATGAACATCGAATGCAATTAGTGCATCGATGC
Found at i:17083957 original size:2 final size:2
Alignment explanation
Indices: 17083950--17083983 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
17083940 TGAATCATTG
17083950 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
17083984 GTGTGTGTGT
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:17085045 original size:23 final size:23
Alignment explanation
Indices: 17085013--17085079 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
17085003 ACCTTATATA
17085013 GCACTTCGGTGCATTTCTACGCG
1 GCACTTCGGTGCATTTCTACGCG
* * *
17085036 GCACTACGGTGCAATTCTACGTG
1 GCACTTCGGTGCATTTCTACGCG
* *
17085059 GCACTTCAGTGCATTTATACG
1 GCACTTCGGTGCATTTCTACG
17085080 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:0.19, C:0.27, G:0.24, T:0.30
Consensus pattern (23 bp):
GCACTTCGGTGCATTTCTACGCG
Found at i:17085235 original size:30 final size:30
Alignment explanation
Indices: 17085192--17085267 Score: 125
Period size: 30 Copynumber: 2.5 Consensus size: 30
17085182 ATGTAATATG
17085192 TATATGATGTGATATGAATTGTATAACATGA
1 TATATG-TGTGATATGAATTGTATAACATGA
*
17085223 TATATGTGTGATATGAATTGTATGACATGA
1 TATATGTGTGATATGAATTGTATAACATGA
*
17085253 TATATGTATGATATG
1 TATATGTGTGATATG
17085268 GGTGATTGCA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
30 37 0.86
31 6 0.14
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.41
Consensus pattern (30 bp):
TATATGTGTGATATGAATTGTATAACATGA
Found at i:17085262 original size:16 final size:16
Alignment explanation
Indices: 17085211--17085263 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
17085201 TGATATGAAT
*
17085211 TGTATAACATGATATA
1 TGTATGACATGATATA
* *
17085227 TGTGTGATATGA-AT-
1 TGTATGACATGATATA
17085241 TGTATGACATGATATA
1 TGTATGACATGATATA
17085257 TGTATGA
1 TGTATGA
17085264 TATGGGTGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 10 0.33
15 4 0.13
16 16 0.53
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (16 bp):
TGTATGACATGATATA
Found at i:17089330 original size:2 final size:2
Alignment explanation
Indices: 17089325--17089360 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
17089315 TTGAAATATA
*
17089325 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TA TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
17089361 AACATAAGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (2 bp):
TG
Found at i:17095965 original size:3 final size:3
Alignment explanation
Indices: 17095957--17096021 Score: 103
Period size: 3 Copynumber: 21.7 Consensus size: 3
17095947 TCAAACCATC
* * *
17095957 AAT AAT AAT GAT GAT AAT CAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17096005 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
17096022 AAAACTAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17098354 original size:23 final size:23
Alignment explanation
Indices: 17098328--17098398 Score: 65
Period size: 23 Copynumber: 3.0 Consensus size: 23
17098318 TTAAAAAACT
17098328 ATATA-ATTTTTTTAAAATATATA
1 ATATACATTTTTTTAAAAT-TATA
* **
17098351 ATATACATATGTTCCAAAATTAT-
1 ATATACAT-TTTTTTAAAATTATA
*
17098374 ATATACATGTTTTTAAAATGTATA
1 ATATACATTTTTTTAAAAT-TATA
17098398 A
1 A
17098399 AATAAGGTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
22 7 0.19
23 16 0.43
24 6 0.16
25 8 0.22
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (23 bp):
ATATACATTTTTTTAAAATTATA
Found at i:17138666 original size:23 final size:23
Alignment explanation
Indices: 17138591--17138669 Score: 65
Period size: 23 Copynumber: 3.4 Consensus size: 23
17138581 AAATAAAACA
**
17138591 ATTATTTATATATTTTTATAAAA-
1 ATTATTTATA-ATCATTATAAAAT
*
17138614 ATTATATTA-AATCATTCTAAAAT
1 ATTAT-TTATAATCATTATAAAAT
*
17138637 TTATATTTATAAT-ATTATAAAAT
1 AT-TATTTATAATCATTATAAAAT
17138660 ATCTATTTAT
1 AT-TATTTAT
17138670 TTTTTAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
22 9 0.20
23 27 0.60
24 9 0.20
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTATTTATAATCATTATAAAAT
Found at i:17138708 original size:23 final size:25
Alignment explanation
Indices: 17138659--17138711 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 25
17138649 TATTATAAAA
17138659 TATCTATTTATTTTTTAAAATATTAT
1 TATCTATTTA-TTTTTAAAATATTAT
17138685 TATCTATTTA-TTTTAAATTATATTAT
1 TATCTATTTATTTTTAAA--ATATTAT
17138711 T
1 T
17138712 TTTAAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 7 0.28
26 18 0.72
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (25 bp):
TATCTATTTATTTTTAAAATATTAT
Found at i:17138726 original size:15 final size:16
Alignment explanation
Indices: 17138695--17138727 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17138685 TATCTATTTA
*
17138695 TTTTAAATTATATTAT
1 TTTTAAATTATACTAT
17138711 TTTTAAATTAT-CTAT
1 TTTTAAATTATACTAT
17138726 TT
1 TT
17138728 GATTTCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTAAATTATACTAT
Found at i:17138768 original size:12 final size:12
Alignment explanation
Indices: 17138751--17138791 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
17138741 ATTATTTAAC
17138751 ATTAAATAAATA
1 ATTAAATAAATA
*
17138763 ATTAAAAAAATA
1 ATTAAATAAATA
* *
17138775 TTTAAATAATTA
1 ATTAAATAAATA
17138787 ATTAA
1 ATTAA
17138792 TATTATTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
ATTAAATAAATA
Found at i:17138822 original size:20 final size:22
Alignment explanation
Indices: 17138797--17138845 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
17138787 ATTAATATTA
*
17138797 TTTAAAATAAATAA-TATA-AT
1 TTTAAAATAAATAAGTAGATAT
17138817 TTT-AAA-AAATAAGTAGATAT
1 TTTAAAATAAATAAGTAGATAT
17138837 TTTAAAATA
1 TTTAAAATA
17138846 TTTAAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 6 0.25
19 6 0.25
20 8 0.33
21 3 0.12
22 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (22 bp):
TTTAAAATAAATAAGTAGATAT
Found at i:17139616 original size:29 final size:31
Alignment explanation
Indices: 17139578--17139643 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
17139568 ATATAATATA
* *
17139578 ATATAATTTTT-GAAAACA-TT-TTTATAAC
1 ATATAATTTTTAGAAAACAGTTATTGAAAAC
17139606 ATATAATTTTTAGAAAACAGTTATTGAAAAC
1 ATATAATTTTTAGAAAACAGTTATTGAAAAC
17139637 ATATAAT
1 ATATAAT
17139644 ATATAGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 11 0.33
29 7 0.21
30 2 0.06
31 13 0.39
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (31 bp):
ATATAATTTTTAGAAAACAGTTATTGAAAAC
Found at i:17139726 original size:37 final size:38
Alignment explanation
Indices: 17139668--17139878 Score: 215
Period size: 38 Copynumber: 5.6 Consensus size: 38
17139658 AAAAAAATCA
17139668 ATTTTTGAAAATATATATATTATATAGTTTTGAAAACG
1 ATTTTTGAAAATATATATATTATATAGTTTTGAAAACG
* * *
17139706 GTCTTTGAAAA-ACATATATTATATAGTTTTGAAAACG
1 ATTTTTGAAAATATATATATTATATAGTTTTGAAAACG
**
17139743 ATTTTTG--AA-A-ATATATTATATAG-TTTGAAATTG
1 ATTTTTGAAAATATATATATTATATAGTTTTGAAAACG
17139776 ATTTTTGAAAATATATATATATATATTATATAGTTTTGAAAA-G
1 ATTTTTG---A-A-A-ATATATATATTATATAGTTTTGAAAACG
*
17139819 A-TTTTGAAAATAAATATATAATATATAGTTTTGAAAAC-
1 ATTTTTGAAAAT--ATATATATTATATAGTTTTGAAAACG
*
17139857 TTTTTTGAAAATATATAATATT
1 ATTTTTGAAAATATAT-ATATT
17139879 TTGAAAACAT
Statistics
Matches: 146, Mismatches: 11, Indels: 32
0.77 0.06 0.17
Matches are distributed among these distances:
33 15 0.10
34 13 0.09
35 3 0.02
36 2 0.01
37 35 0.24
38 37 0.25
39 11 0.08
40 1 0.01
41 1 0.01
42 6 0.04
43 15 0.10
44 7 0.05
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (38 bp):
ATTTTTGAAAATATATATATTATATAGTTTTGAAAACG
Found at i:17139762 original size:34 final size:34
Alignment explanation
Indices: 17139682--17139798 Score: 155
Period size: 37 Copynumber: 3.4 Consensus size: 34
17139672 TTGAAAATAT
* *
17139682 ATATATTATATAGTTTTGAAAACGGTCTTTGAAAAA
1 ATATATTATATAGTTTTGAAAACGATTTTTG--AAA
17139718 CATATATTATATAGTTTTGAAAACGATTTTTGAAA
1 -ATATATTATATAGTTTTGAAAACGATTTTTGAAA
**
17139753 ATATATTATATAG-TTTGAAATTGATTTTTGAAA
1 ATATATTATATAGTTTTGAAAACGATTTTTGAAA
17139786 ATATATATATATA
1 ATATAT-TATATA
17139799 TATTATATAG
Statistics
Matches: 75, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
33 24 0.32
34 19 0.25
35 3 0.04
37 29 0.39
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.44
Consensus pattern (34 bp):
ATATATTATATAGTTTTGAAAACGATTTTTGAAA
Found at i:17139815 original size:114 final size:111
Alignment explanation
Indices: 17139678--17139884 Score: 310
Period size: 114 Copynumber: 1.8 Consensus size: 111
17139668 ATTTTTGAAA
* *
17139678 ATATATATATTATATAGTTTTGAAAACGGTCTTTGAAAA-ACATATAT-TATATAGTTTTGAAAA
1 ATATATATATTATATAGTTTTGAAAA-GAT-TTTGAAAATAAATATATATATATAGTTTTGAAAA
17139741 CGATTTTTGAAAATATATTATATAGTTTGAAATTGATTTTTGAAAATATAT
64 C-ATTTTTGAAAATATA-TA-ATAGTTTGAAATTGATTTTTGAAAATATAT
17139792 ATATATATATTATATAGTTTTGAAAAGATTTTGAAAATAAATATATAATATATAGTTTTGAAAAC
1 ATATATATATTATATAGTTTTGAAAAGATTTTGAAAATAAATATAT-ATATATAGTTTTGAAAAC
* *
17139857 TTTTTTGAAAATATATAATATTTTGAAA
65 ATTTTTGAAAATATATAATAGTTTGAAA
17139885 ACATTTTCGA
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
112 18 0.21
113 11 0.13
114 40 0.47
115 17 0.20
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.44
Consensus pattern (111 bp):
ATATATATATTATATAGTTTTGAAAAGATTTTGAAAATAAATATATATATATAGTTTTGAAAACA
TTTTTGAAAATATATAATAGTTTGAAATTGATTTTTGAAAATATAT
Found at i:17139906 original size:29 final size:30
Alignment explanation
Indices: 17139839--17139898 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
17139829 TAAATATATA
* *
17139839 ATAT-ATAGTTTTGAAAACTTTTTTGAAAAT
1 ATATAATA-TTTTGAAAACATTTTCGAAAAT
17139869 ATATAATATTTTGAAAACATTTTCGAAAAT
1 ATATAATATTTTGAAAACATTTTCGAAAAT
17139899 TTGAATATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 24 0.89
31 3 0.11
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.43
Consensus pattern (30 bp):
ATATAATATTTTGAAAACATTTTCGAAAAT
Found at i:17141357 original size:21 final size:22
Alignment explanation
Indices: 17141319--17141362 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
17141309 CTTTTAAAAA
17141319 TTAACATTTTTTCATTTTTATT
1 TTAACATTTTTTCATTTTTATT
17141341 TTAACATTTTTTC-TTTTTATT
1 TTAACATTTTTTCATTTTTATT
17141362 T
1 T
17141363 ATTTTTCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.70
Consensus pattern (22 bp):
TTAACATTTTTTCATTTTTATT
Found at i:17141422 original size:13 final size:13
Alignment explanation
Indices: 17141401--17141442 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
17141391 TTATTACATT
17141401 TTTTATTTTTTAA
1 TTTTATTTTTTAA
*
17141414 TTTTGTTTTTT-A
1 TTTTATTTTTTAA
*
17141426 TTCTTATTTCTTAA
1 TT-TTATTTTTTAA
17141440 TTT
1 TTT
17141443 AACCTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 3 0.12
13 18 0.75
14 3 0.12
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (13 bp):
TTTTATTTTTTAA
Found at i:17144778 original size:3 final size:3
Alignment explanation
Indices: 17144770--17144863 Score: 138
Period size: 3 Copynumber: 31.7 Consensus size: 3
17144760 TTTGGCCTGC
17144770 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * *
17144815 AAT AAT AAT AAC ATT AAT -AT AAT AAT AAT AAT ATT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17144862 AA
1 AA
17144864 AAATTAGTGT
Statistics
Matches: 82, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
2 4 0.05
3 75 0.91
4 3 0.04
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:17145480 original size:123 final size:122
Alignment explanation
Indices: 17145216--17145663 Score: 666
Period size: 123 Copynumber: 3.7 Consensus size: 122
17145206 TAATTAAGGC
*
17145216 AAGGTTGAACATA-TTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACA-AGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTA
* * * * * * *
17145280 TGAACACTTCTGGAAATGTTTATGCTGGTATATCTCCTTCTGTGATAGCGTCATGCAA
65 TGAACTCTTCTGGAAAAGTATATGATGATCTATCTCCTTCTGTGATAGAGTCATGCAA
* * * *
17145338 AAGGTTTAACAAGTTCTTCTCGTTATGAACTTTTTCTTCCTCTTCAGATAAGTTCTTCTTATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
* * *
17145403 GAACTTTCTCTGGAAAAGTATATGATGATCTATCTCCTTCTATGATAGAGTCATTCAA
66 GAACTCT-TCTGGAAAAGTATATGATGATCTATCTCCTTCTGTGATAGAGTCATGCAA
* *
17145461 AAGGTTGAACAAGTTCTTCTCATTATGAAATTCTTCTTCCTCTTCAGATAAGTTCTTCTTATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
* *
17145526 GAACTTTCTCTGGAAAAGTATATGTTGATCTATCTCCTTCTGTGATAGAGTCATGCAA
66 GAACTCT-TCTGGAAAAGTATATGATGATCTATCTCCTTCTGTGATAGAGTCATGCAA
*
17145584 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTA
17145648 TGAACTCTTCTGGAAA
65 TGAACTCTTCTGGAAA
17145664 TATTGATCCA
Statistics
Matches: 297, Mismatches: 26, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
121 1 0.00
122 74 0.25
123 222 0.75
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (122 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
GAACTCTTCTGGAAAAGTATATGATGATCTATCTCCTTCTGTGATAGAGTCATGCAA
Found at i:17146113 original size:22 final size:22
Alignment explanation
Indices: 17146052--17146114 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
17146042 AAATCCAATA
* * * *
17146052 AATATTTCTTCTTTGAAAAGGG
1 AATATATCATCTTTGAAGAGAG
*
17146074 AATCTATCATCTTTGAAGAGAG
1 AATATATCATCTTTGAAGAGAG
*
17146096 AATATATCCTCTTTGAAGA
1 AATATATCATCTTTGAAGA
17146115 ATATAGATGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (22 bp):
AATATATCATCTTTGAAGAGAG
Found at i:17147085 original size:18 final size:18
Alignment explanation
Indices: 17147048--17147085 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
17147038 TATATAAAAG
*
17147048 AATAAATTGAATTTCGAA
1 AATAAATTGAATTTCAAA
17147066 AATAAATTGAATTTCAAA
1 AATAAATTGAATTTCAAA
17147084 AA
1 AA
17147086 GATAAATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (18 bp):
AATAAATTGAATTTCAAA
Found at i:17154843 original size:15 final size:15
Alignment explanation
Indices: 17154823--17154854 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17154813 TGCAATGAAT
*
17154823 AATGAATGTATGCAA
1 AATGAATATATGCAA
17154838 AATGAATATATGCAA
1 AATGAATATATGCAA
17154853 AA
1 AA
17154855 GGTATTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.16, T:0.25
Consensus pattern (15 bp):
AATGAATATATGCAA
Found at i:17156065 original size:15 final size:15
Alignment explanation
Indices: 17156045--17156081 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
17156035 TGAGACATTA
17156045 CCCGCCCCGCATCCG
1 CCCGCCCCGCATCCG
17156060 CCCGCCCCGCATCCG
1 CCCGCCCCGCATCCG
17156075 CCCGCCC
1 CCCGCCC
17156082 AGCTAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.05, C:0.70, G:0.19, T:0.05
Consensus pattern (15 bp):
CCCGCCCCGCATCCG
Found at i:17160668 original size:16 final size:17
Alignment explanation
Indices: 17160647--17160678 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
17160637 TTTAGGCCAT
17160647 TTTCTCATT-TCTCTCC
1 TTTCTCATTGTCTCTCC
17160663 TTTCTCATTGTCTCTC
1 TTTCTCATTGTCTCTC
17160679 TAAAAACAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.06, C:0.34, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTCTCATTGTCTCTCC
Found at i:17161448 original size:3 final size:3
Alignment explanation
Indices: 17161440--17161541 Score: 145
Period size: 3 Copynumber: 34.0 Consensus size: 3
17161430 GTTTGGCCTG
*
17161440 TAA TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA TATA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* *
17161486 TAAA TAA T-A TAA TAA TAA CAA TAA CAA T-A TAA TAA TAA TAA TAA
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17161530 TAA TAA TAA TAA
1 TAA TAA TAA TAA
17161542 AAACAAATAG
Statistics
Matches: 89, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
2 4 0.04
3 79 0.89
4 6 0.07
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:17162533 original size:26 final size:26
Alignment explanation
Indices: 17162501--17162556 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
17162491 TTGAATTAAT
17162501 TAAAATCTTATTTAATTATTATGAAA
1 TAAAATCTTATTTAATTATTATGAAA
* *
17162527 TAAAATCTTATTTAATTATTCTGAAT
1 TAAAATCTTATTTAATTATTATGAAA
17162553 TAAA
1 TAAA
17162557 TATTCATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (26 bp):
TAAAATCTTATTTAATTATTATGAAA
Found at i:17162566 original size:25 final size:26
Alignment explanation
Indices: 17162501--17162564 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
17162491 TTGAATTAAT
*
17162501 TAAAATCTTATTTAATTATTATGAAA
1 TAAAATCTCATTTAATTATTATGAAA
* * *
17162527 TAAAATCTTATTTAATTATTCTGAAT
1 TAAAATCTCATTTAATTATTATGAAA
17162553 TAAATAT-TCATT
1 TAAA-ATCTCATT
17162565 AAAAGAGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 32 0.94
27 2 0.06
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (26 bp):
TAAAATCTCATTTAATTATTATGAAA
Found at i:17169399 original size:26 final size:26
Alignment explanation
Indices: 17169370--17169425 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
17169360 CCGAATTAAT
17169370 TAAAATCTTATTTAATTATTATGAAA
1 TAAAATCTTATTTAATTATTATGAAA
* * *
17169396 TAAAATTTTATTTAATTATTTTGAAT
1 TAAAATCTTATTTAATTATTATGAAA
17169422 TAAA
1 TAAA
17169426 TATTCATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (26 bp):
TAAAATCTTATTTAATTATTATGAAA
Found at i:17171739 original size:2 final size:2
Alignment explanation
Indices: 17171732--17171807 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
17171722 CCAAATTAGC
17171732 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
17171774 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
17171808 TATGTAGTGA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17183058 original size:18 final size:18
Alignment explanation
Indices: 17182974--17183046 Score: 146
Period size: 18 Copynumber: 4.1 Consensus size: 18
17182964 AACTTGAATT
17182974 TGGTATCGATACCTAGGA
1 TGGTATCGATACCTAGGA
17182992 TGGTATCGATACCTAGGA
1 TGGTATCGATACCTAGGA
17183010 TGGTATCGATACCTAGGA
1 TGGTATCGATACCTAGGA
17183028 TGGTATCGATACCTAGGA
1 TGGTATCGATACCTAGGA
17183046 T
1 T
17183047 TGAATCAATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 55 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (18 bp):
TGGTATCGATACCTAGGA
Found at i:17183058 original size:36 final size:36
Alignment explanation
Indices: 17182982--17183058 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
17182972 TTTGGTATCG
* *
17182982 ATACCTAGGATGGTATCGATACCTAGGATGGTATCG
1 ATACCTAGGATGGTATCGATACCTAGGATGGAATCA
*
17183018 ATACCTAGGATGGTATCGATACCTAGGATTGAATCA
1 ATACCTAGGATGGTATCGATACCTAGGATGGAATCA
17183054 ATACC
1 ATACC
17183059 CTAATACATA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (36 bp):
ATACCTAGGATGGTATCGATACCTAGGATGGAATCA
Found at i:17199104 original size:23 final size:23
Alignment explanation
Indices: 17199036--17199104 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
17199026 ACATCTTACA
* * *
17199036 TAGCACTACGGTGTAATTTTACG
1 TAGCACTTCGGTGCAATTATACG
** *
17199059 CGGCACTTCGGTGCAATTCTACG
1 TAGCACTTCGGTGCAATTATACG
*
17199082 TAGCACTTCGGTGCATTTATACG
1 TAGCACTTCGGTGCAATTATACG
17199105 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (23 bp):
TAGCACTTCGGTGCAATTATACG
Found at i:17202150 original size:29 final size:29
Alignment explanation
Indices: 17202118--17202199 Score: 78
Period size: 29 Copynumber: 2.8 Consensus size: 29
17202108 TATTTGAGTT
17202118 GTGGTAAAAATATAAGTTTTAAAAGTTT-A
1 GTGGTAAAAATATAA-TTTTAAAAGTTTAA
** *
17202147 GTGGCCAAAGTATAAATTTTGAAAAGTTTAA
1 GTGGTAAAAATAT-AATTTT-AAAAGTTTAA
* *
17202178 G-GATAAAAATGTAATTTTAAAA
1 GTGGTAAAAATATAATTTTAAAA
17202200 ATTATATATT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
28 4 0.10
29 20 0.48
30 16 0.38
31 2 0.05
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.34
Consensus pattern (29 bp):
GTGGTAAAAATATAATTTTAAAAGTTTAA
Found at i:17205545 original size:21 final size:21
Alignment explanation
Indices: 17205520--17205568 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
17205510 CATTTGGACT
17205520 TATATTAAGAAAATACGATCA
1 TATATTAAGAAAATACGATCA
17205541 TATATTAAGAAAATACGATCA
1 TATATTAAGAAAATACGATCA
17205562 TATATTA
1 TATATTA
17205569 TTGAATTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (21 bp):
TATATTAAGAAAATACGATCA
Found at i:17205637 original size:19 final size:19
Alignment explanation
Indices: 17205615--17205656 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
17205605 TATGTTTTCC
17205615 TGAATAGTACTATACGGTA
1 TGAATAGTACTATACGGTA
*
17205634 TGAATAGTACTATACTGTA
1 TGAATAGTACTATACGGTA
17205653 TGAA
1 TGAA
17205657 CAACATAGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (19 bp):
TGAATAGTACTATACGGTA
Found at i:17206543 original size:22 final size:22
Alignment explanation
Indices: 17206518--17206578 Score: 104
Period size: 22 Copynumber: 2.8 Consensus size: 22
17206508 GTCATATGAA
*
17206518 ATTTGTCCCGAAGGACCTATGT
1 ATTTGTCCCAAAGGACCTATGT
*
17206540 ATTTGTCCCAAAGGACTTATGT
1 ATTTGTCCCAAAGGACCTATGT
17206562 ATTTGTCCCAAAGGACC
1 ATTTGTCCCAAAGGACC
17206579 GCGTAGAACC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (22 bp):
ATTTGTCCCAAAGGACCTATGT
Found at i:17207909 original size:3 final size:3
Alignment explanation
Indices: 17207901--17207926 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17207891 CTCGTTTGAT
17207901 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
17207927 TGAAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:17225361 original size:21 final size:20
Alignment explanation
Indices: 17225303--17225361 Score: 84
Period size: 21 Copynumber: 3.0 Consensus size: 20
17225293 CAACAATTGG
*
17225303 TAACAATTGGTAT-TTTTTT
1 TAACAATTGATATCTTTTTT
*
17225322 TAACAATTGATATCCTTTTGT
1 TAACAATTGATAT-CTTTTTT
17225343 TAACAATTGATATCTTTTT
1 TAACAATTGATATCTTTTT
17225362 CATTAAACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 12 0.34
20 5 0.14
21 18 0.51
ACGTcount: A:0.29, C:0.10, G:0.08, T:0.53
Consensus pattern (20 bp):
TAACAATTGATATCTTTTTT
Found at i:17226063 original size:34 final size:33
Alignment explanation
Indices: 17226024--17226094 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 33
17226014 TTTTGTAAAG
*
17226024 GGGAAAGATTCTAGCTAAGCCCATGTAAAAGCTA
1 GGGAAAGATTCTAGCTAAGCCCATG-AAAAACTA
* * * *
17226058 GGGAAAGGTTCTAGTTTATCCCATGAAAAACTA
1 GGGAAAGATTCTAGCTAAGCCCATGAAAAACTA
17226091 GGGA
1 GGGA
17226095 GTTGTAAAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 11 0.34
34 21 0.66
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (33 bp):
GGGAAAGATTCTAGCTAAGCCCATGAAAAACTA
Found at i:17235696 original size:23 final size:23
Alignment explanation
Indices: 17235661--17235710 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
17235651 ATCAAGCACA
*
17235661 ATAATATATTAGGTA-CTGCTTAT
1 ATAATATAATAGGTAGC-GCTTAT
*
17235684 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
17235707 ATAA
1 ATAA
17235711 CAAAATATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:17235774 original size:23 final size:23
Alignment explanation
Indices: 17235757--17235830 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
17235747 AATAACATAT
17235757 TAGGTACCGCTTATATAATGTAA
1 TAGGTACCGCTTATATAATGTAA
*
17235780 TAGGTATCGCTTATATAATGTAA
1 TAGGTACCGCTTATATAATGTAA
* **
17235803 TAGGTAGCGCTTATATAATAAAA
1 TAGGTACCGCTTATATAATGTAA
17235826 TAGGT
1 TAGGT
17235831 TAATTACTGG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.35
Consensus pattern (23 bp):
TAGGTACCGCTTATATAATGTAA
Found at i:17235804 original size:110 final size:109
Alignment explanation
Indices: 17235661--17235906 Score: 393
Period size: 110 Copynumber: 2.2 Consensus size: 109
17235651 ATCAAGCACA
* * *
17235661 ATAATATATTAGGTACTGCTTATATAATGTAATAGGTAGCGCTTATATAACAAAATATGTTAATT
1 ATAATGTAATAGGTAC-GCTTATATAATGTAATAGGTAGCGCTTATATAACAAAATAGGTTAATT
*
17235726 ACTGGAAACATTATCAAGCACAATAACATATTAGGTACCGCTTAT
65 ACTGGAAACATTATCAAGCACAATAACATATTAGGTACCACTTAT
*
17235771 ATAATGTAATAGGTATCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATT
1 ATAATGTAATAGGTA-CGCTTATATAATGTAATAGGTAGCGCTTATATAACAAAATAGGTTAATT
*
17235836 ACTGGAAACATTATCAAGCACAATAACATATTAGGTAGCACTTAT
65 ACTGGAAACATTATCAAGCACAATAACATATTAGGTACCACTTAT
* *
17235881 ATAACGTAATAGGTAGCGTTTATATA
1 ATAATGTAATAGGTA-CGCTTATATA
17235907 TCAAAATAGG
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
110 125 0.99
111 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.33
Consensus pattern (109 bp):
ATAATGTAATAGGTACGCTTATATAATGTAATAGGTAGCGCTTATATAACAAAATAGGTTAATTA
CTGGAAACATTATCAAGCACAATAACATATTAGGTACCACTTAT
Found at i:17235893 original size:23 final size:23
Alignment explanation
Indices: 17235858--17235917 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
17235848 ATCAAGCACA
*
17235858 ATAACATATTAGGTAGCACTTAT
1 ATAACATAATAGGTAGCACTTAT
* **
17235881 ATAACGTAATAGGTAGCGTTTAT
1 ATAACATAATAGGTAGCACTTAT
* *
17235904 ATATCAAAATAGGT
1 ATAACATAATAGGT
17235918 TAATTACTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCACTTAT
Found at i:17236639 original size:109 final size:109
Alignment explanation
Indices: 17236300--17236664 Score: 502
Period size: 111 Copynumber: 3.3 Consensus size: 109
17236290 TAACGCCTAT
* * *
17236300 AAAGTATCGATACTTTATAAAAATGTATCGATATTTTACAATATAACATGTAAAAATATGACAAA
1 AAAGTATAGATACTTTATAAAAA-GGATCGATACTTTACAATATAACATGTAAAAATATGAC-AA
*
17236365 ACCAGTTTCATTATGACAAAAACGGTAAAATTTACCTGATATGTTG
64 ACCAGTTTCATTATGACAAAACCGGTAAAATTTACCTGATATGTTG
* * * * *
17236411 AAAGTATCGATCATTTTATAAAAAAGATCGATATTTTACAATATAACATGTATAAATATGACAAA
1 AAAGTATAGAT-ACTTTATAAAAAGGATCGATACTTTACAATATAACATGTAAAAATATGAC-AA
*
17236476 ACTAGTTTCATTATGACAAAACCGGTAAAATTTACCTGATATGTTG
64 ACCAGTTTCATTATGACAAAACCGGTAAAATTTACCTGATATGTTG
* * * *
17236522 AAAGTATAGATTCTTTTATAAAAAGGATAGATACATTACAATATAACAGGTAAAAATATGAC-AA
1 AAAGTATAGATAC-TTTATAAAAAGGATCGATACTTTACAATATAACATGTAAAAATATGACAAA
* ** *
17236586 CCAGTTTCATTATGGCAAAACCAATAAAATTTACCTTATATGTTG
65 CCAGTTTCATTATGACAAAACCGGTAAAATTTACCTGATATGTTG
17236631 AAAGTATAGATAC--TATAAAAAGGATCGATACTTT
1 AAAGTATAGATACTTTATAAAAAGGATCGATACTTT
17236665 TTTGAAAGTT
Statistics
Matches: 229, Mismatches: 23, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
106 19 0.08
109 54 0.24
111 145 0.63
112 11 0.05
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (109 bp):
AAAGTATAGATACTTTATAAAAAGGATCGATACTTTACAATATAACATGTAAAAATATGACAAAC
CAGTTTCATTATGACAAAACCGGTAAAATTTACCTGATATGTTG
Found at i:17237300 original size:111 final size:111
Alignment explanation
Indices: 17237109--17237444 Score: 510
Period size: 111 Copynumber: 3.0 Consensus size: 111
17237099 ATATCGATAC
* * *
17237109 TTTATAAAAATGTATCGATATTTTACAATATAACAAGTAAAAATATGACAAAACCAGTTTCATTC
1 TTTATAAAAAT-AATCGATACTTTACAATATAACAAGTAAAAATATGACAAAACCAGTTTCATTA
* * * *
17237174 TGACAAAAACGGTAAAATTTACCTAATTTGTTGAAAGTATCGATCAT
65 TGACAAAACCGGTAAAATTTACCTGATATGTTGAAAGTATAGATCAT
* *
17237221 TTTATAAAAATAATCTATACTTTACAATATAACAAGTATAAATATGACAAAACCAGTTTCATTAT
1 TTTATAAAAATAATCGATACTTTACAATATAACAAGTAAAAATATGACAAAACCAGTTTCATTAT
*
17237286 GACAAAACCTGTAAAATTTACCTGATATGTTGAAAGTATAGATCAT
66 GACAAAACCGGTAAAATTTACCTGATATGTTGAAAGTATAGATCAT
* * * * **
17237332 TTTATAAAAATGATAGATACTTTACAATATAACAGGTAAAAATATGACAAACCCAGTTTTTTTAT
1 TTTATAAAAATAATCGATACTTTACAATATAACAAGTAAAAATATGACAAAACCAGTTTCATTAT
*
17237397 GACAAAACCGGTAAAAATTACCTGATATGTTGAAAGTATAGATCAT
66 GACAAAACCGGTAAAATTTACCTGATATGTTGAAAGTATAGATCAT
17237443 TT
1 TT
17237445 ATATGACAAA
Statistics
Matches: 204, Mismatches: 20, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
111 193 0.95
112 11 0.05
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (111 bp):
TTTATAAAAATAATCGATACTTTACAATATAACAAGTAAAAATATGACAAAACCAGTTTCATTAT
GACAAAACCGGTAAAATTTACCTGATATGTTGAAAGTATAGATCAT
Found at i:17237460 original size:72 final size:72
Alignment explanation
Indices: 17237373--17237511 Score: 224
Period size: 72 Copynumber: 1.9 Consensus size: 72
17237363 ACAGGTAAAA
* ** * *
17237373 ATATGACAAACCCAGTTTTTTTATGACAAAACCGGTAAAAATTACCTGATATGTTGAAAGTATAG
1 ATATGACAAAACCAGTTTCATTATGACAAAAACGGTAAAAATTACCTAATATGTTGAAAGTATAG
17237438 ATCATTT
66 ATCATTT
*
17237445 ATATGACAAAACCAGTTTCATTATGACAAAAACGGTAAAATTTACCTAATATGTTGAAAGTATAG
1 ATATGACAAAACCAGTTTCATTATGACAAAAACGGTAAAAATTACCTAATATGTTGAAAGTATAG
17237510 AT
66 AT
17237512 ACTTTTCATT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 61 1.00
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.32
Consensus pattern (72 bp):
ATATGACAAAACCAGTTTCATTATGACAAAAACGGTAAAAATTACCTAATATGTTGAAAGTATAG
ATCATTT
Found at i:17237647 original size:111 final size:112
Alignment explanation
Indices: 17237501--17237739 Score: 363
Period size: 111 Copynumber: 2.1 Consensus size: 112
17237491 TAATATGTTG
* * * *
17237501 AAAGTATAGATACTTTTCATTATAAAAGGTAAAAATATGATAAAATCAATTTCATTATGACAAAA
1 AAAGGATAGATACTTTACAATATAAAAGGTAAAAATATGACAAAATCAATTTCATTATGACAAAA
*
17237566 CCGGTAAAATTTACCTGATATGTTGAAAGTATAGAT-CATTTTATAA
66 CAGGTAAAATTTACCTGATATGTTGAAAGTATAGATACATTTTATAA
* * *
17237612 AAAGGATATATACTTTACAATATAACAGGTAAAAATATGACAAAATCAGTTTCATTATGACAAAA
1 AAAGGATAGATACTTTACAATATAAAAGGTAAAAATATGACAAAATCAATTTCATTATGACAAAA
* * *
17237677 CAGGTAAAATTTACTTGATATGTTGAAAGTATATATACTTTTTATAA
66 CAGGTAAAATTTACCTGATATGTTGAAAGTATAGATACATTTTATAA
*
17237724 AAAGGATCGATACTTT
1 AAAGGATAGATACTTT
17237740 TTTGAAAGTT
Statistics
Matches: 114, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
111 91 0.80
112 23 0.20
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (112 bp):
AAAGGATAGATACTTTACAATATAAAAGGTAAAAATATGACAAAATCAATTTCATTATGACAAAA
CAGGTAAAATTTACCTGATATGTTGAAAGTATAGATACATTTTATAA
Found at i:17249114 original size:13 final size:12
Alignment explanation
Indices: 17249095--17249119 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17249085 TTGTTCCATG
17249095 GAAAAAAAGACA
1 GAAAAAAAGACA
17249107 GAAAAAAAGACA
1 GAAAAAAAGACA
17249119 G
1 G
17249120 CAATATTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.08, G:0.20, T:0.00
Consensus pattern (12 bp):
GAAAAAAAGACA
Found at i:17254277 original size:18 final size:17
Alignment explanation
Indices: 17254256--17254311 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 17
17254246 CTCTGCTACA
*
17254256 CAAAACAAGTCTGATACC
1 CAAAAC-AGTCTAATACC
*
17254274 CAAAACGAGTGTAATACC
1 CAAAAC-AGTCTAATACC
17254292 CAAAATCAGTCTAATACC
1 CAAAA-CAGTCTAATACC
17254310 CA
1 CA
17254312 TAAAACTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 32 0.97
19 1 0.03
ACGTcount: A:0.45, C:0.27, G:0.11, T:0.18
Consensus pattern (17 bp):
CAAAACAGTCTAATACC
Found at i:17256853 original size:21 final size:21
Alignment explanation
Indices: 17256827--17256866 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
17256817 GAGAAATTAT
17256827 TTTTAAAATTCAAAAATGATA
1 TTTTAAAATTCAAAAATGATA
*
17256848 TTTTAAAATTGAAAAATGA
1 TTTTAAAATTCAAAAATGA
17256867 AAATAATCTC
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:0.53, C:0.03, G:0.07, T:0.38
Consensus pattern (21 bp):
TTTTAAAATTCAAAAATGATA
Found at i:17260671 original size:23 final size:23
Alignment explanation
Indices: 17260640--17260698 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
17260630 CTGTGCGCTA
*
17260640 GGTATCGATACCCGCTTTGAATG
1 GGTACCGATACCCGCTTTGAATG
**
17260663 GGTACCGATACCATCTTTGAATG
1 GGTACCGATACCCGCTTTGAATG
*
17260686 GGTACCGAGACCC
1 GGTACCGATACCC
17260699 CCTTCGGGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.25
Consensus pattern (23 bp):
GGTACCGATACCCGCTTTGAATG
Found at i:17261178 original size:13 final size:13
Alignment explanation
Indices: 17261160--17261193 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
17261150 TACACCTTGA
*
17261160 TTTTCAAACATTG
1 TTTTCAAACATAG
17261173 TTTTCAAACATAG
1 TTTTCAAACATAG
17261186 TTTTCAAA
1 TTTTCAAA
17261194 AATTTGCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (13 bp):
TTTTCAAACATAG
Found at i:17271861 original size:20 final size:21
Alignment explanation
Indices: 17271836--17271876 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
17271826 GATCCTAACT
*
17271836 TATCACTTAT-ACATATCACA
1 TATCACATATAACATATCACA
*
17271856 TATCACATATAACATTTCACA
1 TATCACATATAACATATCACA
17271877 GGAAACACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.34
Consensus pattern (21 bp):
TATCACATATAACATATCACA
Found at i:17277566 original size:18 final size:17
Alignment explanation
Indices: 17277543--17277630 Score: 95
Period size: 18 Copynumber: 4.9 Consensus size: 17
17277533 GCGTAGAATT
17277543 TGTCCCATAGGACCACTA
1 TGTCCCA-AGGACCACTA
*
17277561 TGTCCCAAAGGACCACTG
1 TGTCCC-AAGGACCACTA
* *
17277579 TGTTCCGAAGGACCACTG
1 TG-TCCCAAGGACCACTA
*
17277597 TGTCCCGAATGACCACTA
1 TGTCCC-AAGGACCACTA
17277615 TGTCCCGAAGGACCAC
1 TGTCCC-AAGGACCAC
17277631 GTAGACCCTT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
17 3 0.05
18 54 0.89
19 4 0.07
ACGTcount: A:0.26, C:0.33, G:0.22, T:0.19
Consensus pattern (17 bp):
TGTCCCAAGGACCACTA
Found at i:17277592 original size:36 final size:36
Alignment explanation
Indices: 17277543--17277630 Score: 115
Period size: 36 Copynumber: 2.4 Consensus size: 36
17277533 GCGTAGAATT
*
17277543 TGTCCC-ATAGGACCACTATGTCCCAAAGGACCACTG
1 TGTCCCGA-AGGACCACTATGTCCCAAAGGACCACTA
* * * *
17277579 TGTTCCGAAGGACCACTGTGTCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTATGTCCCAAAGGACCACTA
17277615 TGTCCCGAAGGACCAC
1 TGTCCCGAAGGACCAC
17277631 GTAGACCCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
36 44 0.98
37 1 0.02
ACGTcount: A:0.26, C:0.33, G:0.22, T:0.19
Consensus pattern (36 bp):
TGTCCCGAAGGACCACTATGTCCCAAAGGACCACTA
Found at i:17288043 original size:63 final size:62
Alignment explanation
Indices: 17287929--17288051 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 62
17287919 AGGTTTTGTG
* ** *
17287929 AGGTATTTTTCAAAACATTGAATGTAATTTTGGTATTAGTACTCATAAAAGTATTGATACTA
1 AGGTATTTTTCAAAACATCGAATGTAATTTTGGTACGAGTACTCATAAAAGTATCGATACTA
* *
17287991 AGGTATTTTTCCAGAACATCGAATGTAATTTTGGTACCGA-TACTCGGT-AAAGTATCGATAC
1 AGGTATTTTT-CAAAACATCGAATGTAATTTTGGTA-CGAGTACTC-ATAAAAGTATCGATAC
17288052 CACAATATAG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
62 10 0.19
63 40 0.77
64 2 0.04
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (62 bp):
AGGTATTTTTCAAAACATCGAATGTAATTTTGGTACGAGTACTCATAAAAGTATCGATACTA
Found at i:17288066 original size:22 final size:21
Alignment explanation
Indices: 17288041--17288095 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
17288031 TACTCGGTAA
* *
17288041 AGTATCGATACCACAATATAGG
1 AGTATCGATACCACAAGA-AAG
*
17288063 AGTATTGATACC-CAAGAAAG
1 AGTATCGATACCACAAGAAAG
*
17288083 AGTATCAATACCA
1 AGTATCGATACCA
17288096 TCGTGAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 12 0.44
21 4 0.15
22 11 0.41
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (21 bp):
AGTATCGATACCACAAGAAAG
Found at i:17300404 original size:23 final size:23
Alignment explanation
Indices: 17300378--17300426 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
17300368 ATAAAGAACC
*
17300378 AAAATAAA-CTTAAATATACCATT
1 AAAATAAAGCTTAAACAT-CCATT
*
17300401 AAAATAAAGTTTAAACATCCATT
1 AAAATAAAGCTTAAACATCCATT
17300424 AAA
1 AAA
17300427 CCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAATAAAGCTTAAACATCCATT
Found at i:17309083 original size:17 final size:15
Alignment explanation
Indices: 17309047--17309085 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 15
17309037 TTGAAAAATC
17309047 TATTTAATAATAAAA
1 TATTTAATAATAAAA
17309062 T-TTTAATAATTAAAA
1 TATTTAATAA-TAAAA
17309077 TAATTTAAT
1 T-ATTTAAT
17309086 GATTGGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.38
15 7 0.33
17 6 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TATTTAATAATAAAA
Found at i:17310851 original size:2 final size:2
Alignment explanation
Indices: 17310840--17310886 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
17310830 CATAAAATTA
17310840 AT AT -T 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
17310881 AT AT AT
1 AT AT AT
17310887 GAGTCCTGTC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:17311495 original size:45 final size:45
Alignment explanation
Indices: 17311444--17311532 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
17311434 TAATCCATAC
17311444 TTAAACATATCTTTTAAAATCCCGTGTTTATCCTAGATAAAGACT
1 TTAAACATATCTTTTAAAATCCCGTGTTTATCCTAGATAAAGACT
17311489 TTAAACATATCTTTTAAAATCCCGTGTTTATCCTAGATAAAGAC
1 TTAAACATATCTTTTAAAATCCCGTGTTTATCCTAGATAAAGAC
17311533 ATTAGAAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (45 bp):
TTAAACATATCTTTTAAAATCCCGTGTTTATCCTAGATAAAGACT
Found at i:17312505 original size:3 final size:3
Alignment explanation
Indices: 17312491--17312548 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
17312481 TTTGCCCGTT
* * * * *
17312491 TTA TTT TTA TTA TTA TAA TTG TTA TAA TTA TTA TTA TTA TTAA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
*
17312537 ATA TTA TTA TTA
1 TTA TTA TTA TTA
17312549 CATATTACAG
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
3 40 0.95
4 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:17314312 original size:24 final size:23
Alignment explanation
Indices: 17314285--17314329 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
17314275 TAGTCATATA
17314285 AATATATATATATTGTTTAATAAT
1 AATATATATATATT-TTTAATAAT
* *
17314309 AATATTTATTTATTTTTAATA
1 AATATATATATATTTTTAATA
17314330 TCGAAGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
AATATATATATATTTTTAATAAT
Found at i:17314753 original size:2 final size:2
Alignment explanation
Indices: 17314699--17314742 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
17314689 ATAAATATCT
17314699 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
17314741 TA
1 TA
17314743 AATTAATATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17315278 original size:26 final size:26
Alignment explanation
Indices: 17315248--17315303 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
17315238 TAATTCTTTC
17315248 TTTTCAAAAT-TGTTATATACT-TATTA
1 TTTTCAAAATAT-TTATAT-CTATATTA
*
17315274 TTTTCATAATATTTATATCTATATTA
1 TTTTCAAAATATTTATATCTATATTA
17315300 TTTT
1 TTTT
17315304 TTAATATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 2 0.07
26 24 0.89
27 1 0.04
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (26 bp):
TTTTCAAAATATTTATATCTATATTA
Found at i:17317499 original size:7 final size:7
Alignment explanation
Indices: 17317487--17317554 Score: 63
Period size: 7 Copynumber: 10.0 Consensus size: 7
17317477 TATATTTACA
17317487 TTTGCAT
1 TTTGCAT
17317494 TTTGCAT
1 TTTGCAT
17317501 TTTGCAT
1 TTTGCAT
17317508 TTTGCATT
1 TTTGCA-T
*
17317516 TTTTCA-
1 TTTGCAT
*
17317522 TTTGTA-
1 TTTGCAT
*
17317528 TTTACAT
1 TTTGCAT
17317535 TTT-CATT
1 TTTGCA-T
17317542 TTTGCA-
1 TTTGCAT
17317548 TTTGCAT
1 TTTGCAT
17317555 CTTGGCATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
6 16 0.31
7 27 0.53
8 8 0.16
ACGTcount: A:0.16, C:0.13, G:0.10, T:0.60
Consensus pattern (7 bp):
TTTGCAT
Found at i:17317577 original size:47 final size:47
Alignment explanation
Indices: 17317479--17317577 Score: 121
Period size: 47 Copynumber: 2.1 Consensus size: 47
17317469 TACATTCATA
* ** *
17317479 TATTTACATTTGCATTTTGCATTTTGCATTTTGCATTTTTTCATTTG
1 TATTTACATTTGCATTTTGCATTTTGCATTTGGCATAATTACATTTG
*
17317526 TATTTACATTTTCATTTTTGCA-TTTGCATCTTGGCATAATTACATTT-
1 TATTTACATTTGCA-TTTTGCATTTTGCAT-TTGGCATAATTACATTTG
17317573 TATTT
1 TATTT
17317578 CAAACTATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
47 25 0.56
48 20 0.44
ACGTcount: A:0.20, C:0.13, G:0.09, T:0.58
Consensus pattern (47 bp):
TATTTACATTTGCATTTTGCATTTTGCATTTGGCATAATTACATTTG
Found at i:17320847 original size:32 final size:32
Alignment explanation
Indices: 17320804--17320867 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
17320794 GAGAGTCTGG
* * *
17320804 AAACAAGAAGTATCTCTACGATATGAGCATAA
1 AAACAAAAAGTATCTCTACAAGATGAGCATAA
17320836 AAACAAAAAGTATCTCTACAAGATGAGCATAA
1 AAACAAAAAGTATCTCTACAAGATGAGCATAA
17320868 CAACCATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.20
Consensus pattern (32 bp):
AAACAAAAAGTATCTCTACAAGATGAGCATAA
Found at i:17323356 original size:75 final size:75
Alignment explanation
Indices: 17323196--17323365 Score: 189
Period size: 75 Copynumber: 2.3 Consensus size: 75
17323186 AACAAGAAGT
* * *
17323196 AAATGATGGAGCATGTTGAAAACCCATTTCAATCATAATCATGAATATTGACACATTTCGAATGT
1 AAATGATGGGGCATGTTGAAAACCCATTTCAATCAGAATCATGAATATTGACACATTTCGAACGT
** *
17323261 TTGTATTAGC
66 TCATAATAGC
* * * * *** *
17323271 CAATGCTGGGGCATGCTGAAAACCC-TTTCAATCAGAATCATGAATGTTGATGTATTTTTGAACG
1 AAATGATGGGGCATGTTGAAAACCCATTTCAATCAGAATCATGAATATTGACACA-TTTCGAACG
17323335 TTCATAATAGC
65 TTCATAATAGC
*
17323346 AAATGTTGGGGCATGTTGAA
1 AAATGATGGGGCATGTTGAA
17323366 GGCCCATATC
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
74 24 0.31
75 53 0.69
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (75 bp):
AAATGATGGGGCATGTTGAAAACCCATTTCAATCAGAATCATGAATATTGACACATTTCGAACGT
TCATAATAGC
Found at i:17324685 original size:22 final size:22
Alignment explanation
Indices: 17324657--17324713 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
17324647 ACATCTACAT
*
17324657 TCTTCAAAGATGATATATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
17324679 TCTTCAAAAATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
17324701 TTTTCAAAGATGA
1 TCTTCAAAGATGA
17324714 AAGCTTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:17325752 original size:113 final size:113
Alignment explanation
Indices: 17325554--17325974 Score: 666
Period size: 113 Copynumber: 3.7 Consensus size: 113
17325544 CATTTCCAAA
*
17325554 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
17325619 TCAACCTTTTGCTCGAATTCATCACTCGATGGATCAACATTGCTAGGT
66 TCAACCTTTTGCTCGAATTCATCACTCGATGGATCAACATTGCTAGGT
*
17325667 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAATAACTTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* * *
17325732 TCAACCTTTTGCTCGAATTCATCACTCGATGGATCATCATTGCCAAGT
66 TCAACCTTTTGCTCGAATTCATCACTCGATGGATCAACATTGCTAGGT
17325780 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* **
17325845 TCAACCTTTTGCTCGAATTCATCACTCGATAGATCAACATCAACTTTTTCAGAG-
66 TCAACCTTTTGCTCGAATTCATCACTCGATGGATC-A-A-C-A-TTGCT-AG-GT
* * *
17325899 AAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
17325963 TCAACCTTTTGC
66 TCAACCTTTTGC
17325975 ATGACTCTAT
Statistics
Matches: 286, Mismatches: 15, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
113 206 0.72
114 1 0.00
116 1 0.00
117 1 0.00
118 46 0.16
119 30 0.10
120 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (113 bp):
AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
TCAACCTTTTGCTCGAATTCATCACTCGATGGATCAACATTGCTAGGT
Found at i:17326059 original size:118 final size:116
Alignment explanation
Indices: 17325540--17326080 Score: 517
Period size: 113 Copynumber: 4.6 Consensus size: 116
17325530 CAGAATATTT
17325540 TCAACATTTCCA-A-AAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCAT
1 TCAACATTTCCAGAGAA-AGTTCATAATGAGAAGAACTCATCTGAAG---GAAGAAGAAGTTCAT
* **
17325603 AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCAC----TCGAT--GGA
62 AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACGAGATAGATCAACA
* * *
17325652 TCAACATTGCTAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 TCAACATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCT---GAAGGAAGAAGAAGTTCAT
* ** *
17325716 AATGAGAATAACTTGTTCAACCTTTTGCTCGAATTCATCACTCGATGGAT---CA
62 AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACGAGATAGATCAACA
* *
17325768 T---CATTGCCA-AGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 TCAACATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCT---GAAGGAAGAAGAAGTTCAT
**
17325829 AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTCGATAGATCAACA
62 AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACGAGATAGATCAACA
* * *
17325884 TCAACTTTTTCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAA
1 TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG-A-AGGAAGAAGAAGTTCATAA
* * * *
17325949 TGAGAAGAGCTTGTTCAACCTTTTGCAT-G-ACTCTATCACAGAAGGAGATATATCAGCA
64 TGAGAAGAACTTGTTCAACCTTTTGC-TCGAATTC-ATCAC-----GAGATAGATCAACA
** * *
17326007 TCAACATTTCCAGA-AGTGTTCATAATAAGAAGAACTCATCTGAAGAAGAGAAGAAGTTCATAAT
1 TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGGA-AGAAGAAGTTCATAAT
*
17326071 AAGAAGAACT
65 GAGAAGAACT
17326081 CATCTGAAGA
Statistics
Matches: 372, Mismatches: 29, Indels: 47
0.83 0.06 0.10
Matches are distributed among these distances:
112 10 0.03
113 186 0.50
114 1 0.00
116 10 0.03
117 8 0.02
118 50 0.13
119 31 0.08
120 5 0.01
121 25 0.07
122 24 0.06
123 22 0.06
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (116 bp):
TCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGGAAGAAGAAGTTCATAATG
AGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACGAGATAGATCAACA
Found at i:17326068 original size:38 final size:40
Alignment explanation
Indices: 17326024--17326120 Score: 180
Period size: 38 Copynumber: 2.5 Consensus size: 40
17326014 TTCCAGAAGT
17326024 GTTCATAATAAGAAGAACTCATCTGAAGAA-G-AGAAGAA
1 GTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAA
17326062 GTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 GTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAA
17326102 GTTCATAATAAGAAGAACT
1 GTTCATAATAAGAAGAACT
17326121 TGTTCAACCT
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
38 30 0.53
39 1 0.02
40 26 0.46
ACGTcount: A:0.49, C:0.10, G:0.21, T:0.20
Consensus pattern (40 bp):
GTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAA
Found at i:17326177 original size:161 final size:162
Alignment explanation
Indices: 17325900--17326241 Score: 490
Period size: 161 Copynumber: 2.1 Consensus size: 162
17325890 TTTTCAGAGA
* * * *
17325900 AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTC
* * * *
17325965 AACCTTTTGCATGACTCTATCACAGAAGGAGATATATCAGCATCAACATTTCCAGAAG-TGTTCA
66 AACCTTTTGCATGACTCTATCACAGAAGGAGATAAATCAACACCAACATTTCCAGAAGAAGTTCA
17326029 TAATAAGAAGAACTCATCTGAAGAAG-AGAAG
131 TAATAAGAAGAACTCATCTGAAGAAGAAGAAG
17326060 AAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTT
1 AAGTTCATAATAAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATAAGAAGAACTTGTT
** * * * * *
17326125 CAACCTTTTGTTTGATTTTATCCCAGATGGAGATAAATCAACACCTACATTTCCAGAAGAAGTTC
65 CAACCTTTTGCATGACTCTATCACAGAAGGAGATAAATCAACACCAACATTTCCAGAAGAAGTTC
* * *
17326190 ATAATGAGAAGAACTTATCTGAAGAGGAAGAAG
130 ATAATAAGAAGAACTCATCTGAAGAAGAAGAAG
*
17326223 AAGTTCATAATTAGAAGAA
1 AAGTTCATAATAAGAAGAA
17326242 TTTGTTCAAC
Statistics
Matches: 160, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
160 28 0.17
161 81 0.51
162 28 0.17
163 23 0.14
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (162 bp):
AAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTC
AACCTTTTGCATGACTCTATCACAGAAGGAGATAAATCAACACCAACATTTCCAGAAGAAGTTCA
TAATAAGAAGAACTCATCTGAAGAAGAAGAAG
Found at i:17326290 original size:284 final size:280
Alignment explanation
Indices: 17325782--17326365 Score: 893
Period size: 284 Copynumber: 2.1 Consensus size: 280
17325772 TGCCAAGTAG
*
17325782 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTC
* * * * * *
17325847 AACCTTTTGCTCGAATTCATCACTCGATAGATCAACATCAACTTTTTCAGAGAAAGTTCATAATG
66 AACCTTTTGCTCGAATTCATCAATAGATAAATCAACACCAACATTTCCAGAGAAAGTTCATAATG
*
17325912 AGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCAT
131 AGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCAT
* *
17325977 GACTCTATCACAGAAGGAGATATATCAGCATCAACATTTCCAGAAGTGTTCATAATAAGAAGAAC
196 GACGCTATCACAGAAGGAGATAGATCAGCATCAACATTTCCAGAAGTGTTCATAATAAGAAGAAC
*
17326042 TCATCTGAAGAA-GAGAAGA
261 TCATCTAAAGAAGGAGAAGA
*
17326061 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTC
* * * * *
17326126 AACCTTTTGTTTGATTTTATCCCAGATGGAGATAAATCAACACCTACATTTCCAGA-AGAAGTTC
66 AACCTTTTGCTCGAATTCAT--CA-AT--AGATAAATCAACACCAACATTTCCAGAGA-AAGTTC
* * *
17326190 ATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATTAGAAGAATTTGTTCAACTTT
125 ATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTT
* *
17326255 TTGCTTGACGCTATCACGGAAGGAGATAGATCAGCATCAACATTTCCAGAAGTGTTCATAATAAG
190 TTGCATGACGCTATCACAGAAGGAGATAGATCAGCATCAACATTTCCAGAAGTGTTCATAATAAG
17326320 AAGAACTCATCTAAAGAAGGAGAAGA
255 AAGAACTCATCTAAAGAAGGAGAAGA
*
17326346 AGTTCATAATGAGAATAACT
1 AGTTCATAATGAGAAGAACT
17326366 TGTTCAACCT
Statistics
Matches: 274, Mismatches: 24, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
279 79 0.29
281 2 0.01
282 1 0.00
283 1 0.00
284 166 0.61
285 25 0.09
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (280 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTC
AACCTTTTGCTCGAATTCATCAATAGATAAATCAACACCAACATTTCCAGAGAAAGTTCATAATG
AGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCAT
GACGCTATCACAGAAGGAGATAGATCAGCATCAACATTTCCAGAAGTGTTCATAATAAGAAGAAC
TCATCTAAAGAAGGAGAAGA
Found at i:17326369 original size:122 final size:124
Alignment explanation
Indices: 17326055--17326376 Score: 443
Period size: 123 Copynumber: 2.6 Consensus size: 124
17326045 TCTGAAGAAG
17326055 AGAAGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAAC
1 AGAAGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAAC
* *** * * *
17326120 TTGTTCAACCTTTTGTTTGATTTTATCCCAGATGGAGATAAATCAACACCTACATTTCC
66 TTGTTCAACCTTTTGCTTGACGCTATCACAGAAGGAGATAAATCAACACCAACATTTCC
* * * *
17326179 AGAAGAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATTAGAAGAAT
1 AGAAGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAAC
* * * * *
17326243 TTGTTCAACTTTTTGCTTGACGCTATCACGGAAGGAGATAGATCAGCATCAACATTTCC
66 TTGTTCAACCTTTTGCTTGACGCTATCACAGAAGGAGATAAATCAACACCAACATTTCC
* * * *
17326302 AGAAG-TGTTCATAATAAGAAGAACTCATCTAAAGAAGG-AGAAGAAGTTCATAATGAGAATAAC
1 AGAAGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAAC
17326365 TTGTTCAACCTT
66 TTGTTCAACCTT
17326377 AATTTAATTC
Statistics
Matches: 173, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
122 58 0.34
123 82 0.47
124 33 0.19
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (124 bp):
AGAAGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAAC
TTGTTCAACCTTTTGCTTGACGCTATCACAGAAGGAGATAAATCAACACCAACATTTCC
Found at i:17326718 original size:3 final size:3
Alignment explanation
Indices: 17326704--17326772 Score: 68
Period size: 3 Copynumber: 23.0 Consensus size: 3
17326694 TTGGCCCGTT
* * * *
17326704 TTA TTT TTA TTA TTA TAA TTG TTA TTA TTA TTA TTA -TA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
17326751 TTA TTAA TAA ATA TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA
17326773 CATATTACAG
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
2 2 0.04
3 48 0.92
4 2 0.04
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:17328076 original size:11 final size:11
Alignment explanation
Indices: 17328060--17328084 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17328050 TTTAACCATG
17328060 TTATTTTTATT
1 TTATTTTTATT
17328071 TTATTTTTATT
1 TTATTTTTATT
17328082 TTA
1 TTA
17328085 GTCATTTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:17328782 original size:2 final size:2
Alignment explanation
Indices: 17328775--17328804 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
17328765 ATAAATATCT
17328775 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
17328805 AATTAATAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17330097 original size:18 final size:18
Alignment explanation
Indices: 17330074--17330114 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
17330064 TTTACACAGG
*
17330074 AAAAAATGAGA-AGACAAA
1 AAAAAAAGAGAGA-ACAAA
17330092 AAAAAAAGAGAGAACAAA
1 AAAAAAAGAGAGAACAAA
17330110 AAAAA
1 AAAAA
17330115 CAATTGCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.02
Consensus pattern (18 bp):
AAAAAAAGAGAGAACAAA
Found at i:17331528 original size:15 final size:15
Alignment explanation
Indices: 17331508--17331543 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
17331498 GTATATGGTT
17331508 TTGTGTCTAACCCGA
1 TTGTGTCTAACCCGA
17331523 TTGTGTCTAACCCGA
1 TTGTGTCTAACCCGA
*
17331538 GTGTGT
1 TTGTGT
17331544 TTAGATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (15 bp):
TTGTGTCTAACCCGA
Found at i:17341357 original size:20 final size:21
Alignment explanation
Indices: 17341319--17341379 Score: 72
Period size: 23 Copynumber: 2.9 Consensus size: 21
17341309 TTTTGGTGCA
*
17341319 GAGGGAATCGA-TCCACCC-TT
1 GAGGGAACCGATTCC-CCCTTT
17341339 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCTTT
17341360 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATTCCCCC
17341380 CACAGGGGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
20 13 0.36
21 6 0.17
22 1 0.03
23 16 0.44
ACGTcount: A:0.23, C:0.33, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCTTT
Found at i:17341401 original size:21 final size:21
Alignment explanation
Indices: 17341362--17341401 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17341352 CCCCCTTTGA
*
17341362 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
* *
17341383 AGGGGAATCGATACTCCCC
1 AGGGGAACCGATACCCCCC
17341402 TGGGGTTCTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:17343355 original size:15 final size:15
Alignment explanation
Indices: 17343335--17343376 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 15
17343325 TTGTTTCAAC
*
17343335 ATTTTGGATTGTTTG
1 ATTTTGGATTGTTGG
17343350 ATTTTGTGGATTGTTGG
1 A-TTT-TGGATTGTTGG
17343367 ATTTTGGATT
1 ATTTTGGATT
17343377 TATGAATGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 7 0.29
16 6 0.25
17 11 0.46
ACGTcount: A:0.14, C:0.00, G:0.29, T:0.57
Consensus pattern (15 bp):
ATTTTGGATTGTTGG
Found at i:17343361 original size:17 final size:17
Alignment explanation
Indices: 17343339--17343372 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17343329 TTCAACATTT
*
17343339 TGGATTGTTTGATTTTG
1 TGGATTGTTGGATTTTG
17343356 TGGATTGTTGGATTTTG
1 TGGATTGTTGGATTTTG
17343373 GATTTATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.32, T:0.56
Consensus pattern (17 bp):
TGGATTGTTGGATTTTG
Found at i:17361472 original size:55 final size:55
Alignment explanation
Indices: 17361306--17361893 Score: 440
Period size: 55 Copynumber: 10.7 Consensus size: 55
17361296 AAGCAAATCA
* * ** * *
17361306 ATTGTTCGAGTCCTATACTCCTTAAAAGAAGAAAGAACA-AGCCCG-TTTGCTGAAG
1 ATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGA-CCCGTTTTTC-GAAG
* * * * * ** *
17361361 ATTGGTCGAAGTCCTAAACTTCTTGAAAGAAGAGGGAACATA-CCAATTTGCTGAAG
1 ATTGTTC-AAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCGTTTTTC-GAAG
* * * *
17361417 ATTGTTCGAGTCCTATACTCCATAAAAAAAGAGGGAGCAGACCCGTTTTTCGAAG
1 ATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCGTTTTTCGAAG
* * * * * * * *
17361472 ATTGTTCGAGTCTTATACTTCATGAAAGAAGATGGAGCAGACCTGTTTTTCAAAT
1 ATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCGTTTTTCGAAG
* * * * * * * ** *
17361527 ATTGTTCGAGTCTTATACTCCCTAAAAGAATATGTAGTTGACCCATTTTAT-GAAG
1 ATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCGTTTT-TCGAAG
* * * * * * *
17361582 ATTTTTCAAGTCCTATACTCCCTGAAAGAATAGGGAG-TGAACCCATTTCT-GAAAA
1 ATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAG-ACCCGTTTTTCG-AAG
* *
17361637 ATT-TTCAAGTCCTATACT-CTCTGAAAGAAGAGGGAGCGGACTCG-TTTTCTGAAG
1 ATTGTTCAAGTCCTATACTCCT-TGAAAGAAGAGGGAGCAGACCCGTTTTTC-GAAG
* * * * * *
17361691 ATTGTTCAAGTCCAATACTCCTTGAAGGAAGAAGGAGCCGAACCGTTTTCCGAAG
1 ATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCGTTTTTCGAAG
* * * * * * *
17361746 TTTGTTCAAGTCCTATACTCCTTGAAGGAAGAAGGAGCGGACCCATTTTCCAAAG
1 ATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCGTTTTTCGAAG
* * * * *
17361801 ATTGTTAAAGTCCTATACTCC-TGAAATAAGAGGGACCAGACCCGTTTTCCAAAG
1 ATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCGTTTTTCGAAG
* *
17361855 ATTGTTCAAGTCCTATACTCCCTGAGAGAAGAGGGAGCA
1 ATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCA
17361894 TACTCCTCTT
Statistics
Matches: 439, Mismatches: 79, Indels: 30
0.80 0.14 0.05
Matches are distributed among these distances:
53 4 0.01
54 88 0.20
55 291 0.66
56 55 0.13
57 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (55 bp):
ATTGTTCAAGTCCTATACTCCTTGAAAGAAGAGGGAGCAGACCCGTTTTTCGAAG
Found at i:17361711 original size:164 final size:164
Alignment explanation
Indices: 17361413--17361892 Score: 416
Period size: 164 Copynumber: 2.9 Consensus size: 164
17361403 CCAATTTGCT
* * * * * * * * * *
17361413 GAAGATTGTTCGAGTCCTATACTCCATAAAAAAAGAGGGAGC-AGACCCGTTTTTCGAAGATTGT
1 GAAGTTTGTTCAAGTCCTATACTCCCTGAAAGAAGAAGGAGCGA-ACCCATTTTCCAAAAATTGT
** * * * * *
17361477 TCGAGTCTTATACT-TCATGAAAGAAGATGGAGCAGACCTGTTTT-TCAAATATTGTTCGAGTCT
65 TAAAGTCCTATACTCTC-TGAAAGAAGAGGGAGCAGACC-GTTTTCT-AAAGATTGTTCAAGTCC
* * * ** * *
17361540 TATACTCCCTAAAAGAATATGTAGTTGACCCATTTTAT
127 TATACTCCCTAAAAGAAGAAGGAGCCGAACCATTTTAC
* * * *
17361578 GAAGATTT-TTCAAGTCCTATACTCCCTGAAAGAATAGGGAGTGAACCCA-TTTCTGAAAAATT-
1 GAAG-TTTGTTCAAGTCCTATACTCCCTGAAAGAAGAAGGAGCGAACCCATTTTC-CAAAAATTG
* * * *
17361640 TTCAAGTCCTATACTCTCTGAAAGAAGAGGGAGCGGACTCGTTTTCTGAAGATTGTTCAAGTCCA
64 TTAAAGTCCTATACTCTCTGAAAGAAGAGGGAGCAGAC-CGTTTTCTAAAGATTGTTCAAGTCCT
* * * * *
17361705 ATACTCCTTGAAGGAAGAAGGAGCCGAACCGTTTTCC
128 ATACTCCCTAAAAGAAGAAGGAGCCGAACCATTTTAC
* * * *
17361742 GAAGTTTGTTCAAGTCCTATACTCCTTGAAGGAAGAAGGAGCGGACCCATTTTCCAAAGATTGTT
1 GAAGTTTGTTCAAGTCCTATACTCCCTGAAAGAAGAAGGAGCGAACCCATTTTCCAAAAATTGTT
* * *
17361807 AAAGTCCTATACTC-CTGAAATAAGAGGGACCAGACCCGTTTTCCAAAGATTGTTCAAGTCCTAT
66 AAAGTCCTATACTCTCTGAAAGAAGAGGGAGCAGA-CCGTTTTCTAAAGATTGTTCAAGTCCTAT
* * *
17361871 ACTCCCTGAGAGAAGAGGGAGC
130 ACTCCCTAAAAGAAGAAGGAGC
17361893 ATACTCCTCT
Statistics
Matches: 253, Mismatches: 52, Indels: 21
0.78 0.16 0.06
Matches are distributed among these distances:
163 3 0.01
164 182 0.72
165 65 0.26
166 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (164 bp):
GAAGTTTGTTCAAGTCCTATACTCCCTGAAAGAAGAAGGAGCGAACCCATTTTCCAAAAATTGTT
AAAGTCCTATACTCTCTGAAAGAAGAGGGAGCAGACCGTTTTCTAAAGATTGTTCAAGTCCTATA
CTCCCTAAAAGAAGAAGGAGCCGAACCATTTTAC
Found at i:17361765 original size:219 final size:218
Alignment explanation
Indices: 17361369--17361893 Score: 495
Period size: 219 Copynumber: 2.4 Consensus size: 218
17361359 AGATTGGTCG
* * * * * * ** * *
17361369 AAGTCCTAAACTTCTTGAAAGAAGAGGGAACATACCAATTTGCTGAAGATTGTTCGAGTCCTATA
1 AAGTCCTATAC-TCCTGAAAGAAGAGGGACCAGACCCATTTTCCAAAAATTGTTCAAGTCCTATA
* * * ** *
17361434 CTCCATAAAAAAAGAGGGAGCAGACCCGTTTTTCGAAGATTGTTCGAGTCTTATACTTCATGAAA
65 CTCC-TGAAAGAAGAGGGAGCAGACCCGTTTTTCGAAGATTGTTCAAGTCCAATACTCCATGAAA
* * * * * * *
17361499 GAAGATGGAGCAGACCTGTTTTTCAAATATTGTTCGAGTCTTATACTCCCTAAAAGAATATGTAG
129 GAAGAAGGAGCAGACCTGTTTTCCAAATATTGTTCAAGTCCTATACTCCCTAAAAGAAGAAGGAG
** ** * *
17361564 TTGACCCATTTTATGAAGATTTTTC
194 CGGACCCATTTTACAAAGATTGTTA
* ** *
17361589 AAGTCCTATACTCCCTGAAAGAATAGGGA-GTGAACCCA-TTTCTGAAAAATT-TTCAAGTCCTA
1 AAGTCCTATACT-CCTGAAAGAAGAGGGACCAG-ACCCATTTTC-CAAAAATTGTTCAAGTCCTA
* * *
17361651 TACTCTCTGAAAGAAGAGGGAGCGGACTCG-TTTTCTGAAGATTGTTCAAGTCCAATACTCCTTG
63 TACTC-CTGAAAGAAGAGGGAGCAGACCCGTTTTTC-GAAGATTGTTCAAGTCCAATACTCCATG
* * * * * *
17361715 AAGGAAGAAGGAGCCGAACC-GTTTTCCGAAGT-TTGTTCAAGTCCTATACTCCTTGAAGGAAGA
126 AAAGAAGAAGGAGCAG-ACCTGTTTTCC-AAATATTGTTCAAGTCCTATACTCCCTAAAAGAAGA
*
17361778 AGGAGCGGACCCATTTTCCAAAGATTGTTA
189 AGGAGCGGACCCATTTTACAAAGATTGTTA
* * *
17361808 AAGTCCTATACTCCTGAAATAAGAGGGACCAGACCCGTTTTCCAAAGATTGTTCAAGTCCTATAC
1 AAGTCCTATACTCCTGAAAGAAGAGGGACCAGACCCATTTTCCAAAAATTGTTCAAGTCCTATAC
*
17361873 TCCCTGAGAGAAGAGGGAGCA
66 T-CCTGAAAGAAGAGGGAGCA
17361894 TACTCCTCTT
Statistics
Matches: 244, Mismatches: 50, Indels: 23
0.77 0.16 0.07
Matches are distributed among these distances:
218 29 0.12
219 174 0.71
220 41 0.17
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (218 bp):
AAGTCCTATACTCCTGAAAGAAGAGGGACCAGACCCATTTTCCAAAAATTGTTCAAGTCCTATAC
TCCTGAAAGAAGAGGGAGCAGACCCGTTTTTCGAAGATTGTTCAAGTCCAATACTCCATGAAAGA
AGAAGGAGCAGACCTGTTTTCCAAATATTGTTCAAGTCCTATACTCCCTAAAAGAAGAAGGAGCG
GACCCATTTTACAAAGATTGTTA
Found at i:17364460 original size:65 final size:66
Alignment explanation
Indices: 17364383--17364539 Score: 194
Period size: 65 Copynumber: 2.4 Consensus size: 66
17364373 CACCCCCATT
* *
17364383 TCGAATGCATTTTGTGTACCGATGCACAAG-CCATGCATTGATACACTCTTGAATAT-TTTGAAA
1 TCGAATGTATTTTGTGTACCGATGCACAAGACCATGCATCGATACACTCTTGAAT-TGTTTGAAA
17364446 CA
65 CA
* * * **
17364448 TCGAATGTATTTTATGTACCGATGCA-TAGACCATGCATCGATGCACTCTTGGCTTGTTTGAAAC
1 TCGAATGTATTTTGTGTACCGATGCACAAGACCATGCATCGATACACTCTTGAATTGTTTGAAAC
17364512 A
66 A
* * *
17364513 TCAAATGTAATTAGTGTACCGATGCAC
1 TCGAATGTATTTTGTGTACCGATGCAC
17364540 TAAGTCTTAT
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 3 0.04
65 75 0.96
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (66 bp):
TCGAATGTATTTTGTGTACCGATGCACAAGACCATGCATCGATACACTCTTGAATTGTTTGAAAC
A
Found at i:17370353 original size:23 final size:22
Alignment explanation
Indices: 17370323--17370401 Score: 83
Period size: 23 Copynumber: 3.5 Consensus size: 22
17370313 ACACTAGATA
17370323 GTGCATCGATGCATCCCTTGAAT
1 GTGCATCGATGCA-CCCTTGAAT
* *
17370346 GTGCATCGATACA-CCATGAA-
1 GTGCATCGATGCACCCTTGAAT
17370366 GATGCA-CTGATGCACTCCTTGAAT
1 G-TGCATC-GATGCAC-CCTTGAAT
17370390 GTGCATCGATGC
1 GTGCATCGATGC
17370402 GCTCTGCTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
20 2 0.04
21 15 0.33
23 27 0.59
24 2 0.04
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (22 bp):
GTGCATCGATGCACCCTTGAAT
Found at i:17370388 original size:44 final size:43
Alignment explanation
Indices: 17370304--17370399 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 43
17370294 TTGTGCACTA
*
17370304 TGCATCGATACACTAGATAGTGCATCGATGCATCCCTTGAATG
1 TGCATCGATACACCAGATAGTGCATCGATGCATCCCTTGAATG
17370347 TGCATCGATACACCATGA-AGATGCA-CTGATGCA-CTCCTTGAATG
1 TGCATCGATACACCA-GATAG-TGCATC-GATGCATC-CCTTGAATG
17370391 TGCATCGAT
1 TGCATCGAT
17370400 GCGCTCTGCT
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
43 18 0.38
44 30 0.62
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (43 bp):
TGCATCGATACACCAGATAGTGCATCGATGCATCCCTTGAATG
Found at i:17372778 original size:20 final size:20
Alignment explanation
Indices: 17372755--17372797 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
17372745 AATCCACCAC
*
17372755 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
17372775 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
17372795 ATG
1 ATG
17372798 GGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:17373359 original size:2 final size:2
Alignment explanation
Indices: 17373352--17373378 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17373342 ATTTATAATT
17373352 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
17373379 TTTTTATGCG
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:17377745 original size:20 final size:20
Alignment explanation
Indices: 17377722--17377764 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
17377712 AATCCACCAC
*
17377722 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
17377742 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
17377762 ATG
1 ATG
17377765 GGCTCGTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:17383431 original size:18 final size:19
Alignment explanation
Indices: 17383403--17383440 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
17383393 CATCTTCTTA
17383403 TTTTTACTTTAATTACTTT
1 TTTTTACTTTAATTACTTT
*
17383422 TTTTTA-TTTAATTGCTTT
1 TTTTTACTTTAATTACTTT
17383440 T
1 T
17383441 ATTATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.71
Consensus pattern (19 bp):
TTTTTACTTTAATTACTTT
Found at i:17383449 original size:18 final size:18
Alignment explanation
Indices: 17383410--17383451 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
17383400 TTATTTTTAC
*
17383410 TTTAATTACTTTTTTTTA
1 TTTAATTACTTTTTTATA
*
17383428 TTTAATTGCTTTTATTAT-
1 TTTAATTACTTTT-TTATA
17383446 TTTAAT
1 TTTAAT
17383452 GTCTTTTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTAATTACTTTTTTATA
Found at i:17399690 original size:20 final size:20
Alignment explanation
Indices: 17399665--17399729 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
17399655 CCTCTGGTAC
*
17399665 CGATATTGACCGTTCAGTAT
1 CGATATTAACCGTTCAGTAT
17399685 CGATATTAACCGTTCAGTAT
1 CGATATTAACCGTTCAGTAT
* *
17399705 CGATACTAACC-TCTGAGTAT
1 CGATATTAACCGT-TCAGTAT
17399725 CGATA
1 CGATA
17399730 CCCACCCTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 1 0.02
20 40 0.98
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (20 bp):
CGATATTAACCGTTCAGTAT
Found at i:17402369 original size:2 final size:2
Alignment explanation
Indices: 17402362--17402389 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17402352 TTGCCCTTAC
17402362 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
17402390 TCTTTGTCTA
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):
AT
Found at i:17404539 original size:8 final size:8
Alignment explanation
Indices: 17404513--17404619 Score: 112
Period size: 8 Copynumber: 13.4 Consensus size: 8
17404503 AAATAGATAT
17404513 AAAATAAA
1 AAAATAAA
*
17404521 TAAAAGGAAA
1 -AAAA-TAAA
17404531 AAAATAAA
1 AAAATAAA
*
17404539 AAAAT-CA
1 AAAATAAA
*
17404546 AAATTAAA
1 AAAATAAA
*
17404554 AAAAT-CA
1 AAAATAAA
*
17404561 AAATTAAA
1 AAAATAAA
*
17404569 AAAA-ATA
1 AAAATAAA
17404576 AAAATAAA
1 AAAATAAA
17404584 AAAATAAA
1 AAAATAAA
17404592 AAAATAAAA
1 AAAAT-AAA
17404601 AAAATAAA
1 AAAATAAA
17404609 AAAATAAA
1 AAAATAAA
17404617 AAA
1 AAA
17404620 GTTTACTATT
Statistics
Matches: 81, Mismatches: 12, Indels: 11
0.78 0.12 0.11
Matches are distributed among these distances:
7 16 0.20
8 46 0.57
9 16 0.20
10 3 0.04
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (8 bp):
AAAATAAA
Found at i:17404541 original size:16 final size:14
Alignment explanation
Indices: 17404513--17404619 Score: 81
Period size: 15 Copynumber: 7.2 Consensus size: 14
17404503 AAATAGATAT
* *
17404513 AAAATAAATAAAAG
1 AAAAAAAATAAAAA
*
17404527 GAAAAAAATAAAAA
1 AAAAAAAATAAAAA
* *
17404541 AATCAAAATTAAAAA
1 AA-AAAAAATAAAAA
* *
17404556 AATCAAAATTAAAAA
1 AA-AAAAAATAAAAA
17404571 AAATAAAAATAAAAAA
1 AAA-AAAAAT-AAAAA
17404587 ATAAAAAAATAAAAA
1 A-AAAAAAATAAAAA
17404602 AAATAAAAA-AATAAA
1 AAA-AAAAATAA-AAA
17404617 AAA
1 AAA
17404620 GTTTACTATT
Statistics
Matches: 79, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
14 16 0.20
15 49 0.62
16 12 0.15
17 2 0.03
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (14 bp):
AAAAAAAATAAAAA
Found at i:17404548 original size:15 final size:15
Alignment explanation
Indices: 17404529--17404619 Score: 103
Period size: 15 Copynumber: 5.9 Consensus size: 15
17404519 AATAAAAGGA
17404529 AAAAAATAAAAAAAT
1 AAAAAATAAAAAAAT
* *
17404544 CAAAATTAAAAAAAT
1 AAAAAATAAAAAAAT
* *
17404559 CAAAATTAAAAAAA-
1 AAAAAATAAAAAAAT
17404573 ATAAAAATAAAAAAAT
1 A-AAAAATAAAAAAAT
17404589 AAAAAAATAAAAAAAAT
1 -AAAAAAT-AAAAAAAT
17404606 AAAAAAATAAAAAA
1 -AAAAAATAAAAAA
17404620 GTTTACTATT
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
15 39 0.57
16 12 0.18
17 17 0.25
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAAAATAAAAAAAT
Found at i:17404570 original size:1 final size:1
Alignment explanation
Indices: 17404566--17404619 Score: 54
Period size: 1 Copynumber: 54.0 Consensus size: 1
17404556 AATCAAAATT
* * * * * *
17404566 AAAAAAAATAAAAATAAAAAAATAAAAAAATAAAAAAAATAAAAAAATAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
17404620 GTTTACTATT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (1 bp):
A
Found at i:17405778 original size:3 final size:3
Alignment explanation
Indices: 17405770--17405809 Score: 53
Period size: 3 Copynumber: 12.3 Consensus size: 3
17405760 AAAAACCTGC
17405770 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAAT AGAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT A-AT AAT A
17405810 TTTTTTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 25 0.71
4 10 0.29
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:17406519 original size:65 final size:65
Alignment explanation
Indices: 17406302--17406804 Score: 707
Period size: 65 Copynumber: 7.8 Consensus size: 65
17406292 GTGAAGTTGA
* * * **
17406302 GCTTTGAGTTGGATATCATTCGTTGTGAAGTTGAAATCCAA----GTAT-TGTTTCACAAAATTG
1 GCTTTGAGTTGGATATCCTTCATTGTGAAGTTGAAATCCAATCTTGTATAAGTTTCACCGAATTG
* * * * *
17406362 GCTTTGAGTTGGATATCCTTCATTGTGAAGTTGAAATCCAATATTGAATATTGCTTCACCAAATT
1 GCTTTGAGTTGGATATCCTTCATTGTGAAGTTGAAATCCAATCTTGTATA-AGTTTCACCGAATT
17406427 G
65 G
* *
17406428 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTATAAATTTCACCGAATTG
1 GCTTTGAGTTGGATATCCTTCATTGTGAAGTTGAAATCCAATCTTGTATAAGTTTCACCGAATTG
*
17406493 GCTTTGAGTTAGATATCCTTCATTGTGAAGTTGAAATCCAATCTTG-AGTAAGTTTCACCGAATT
1 GCTTTGAGTTGGATATCCTTCATTGTGAAGTTGAAATCCAATCTTGTA-TAAGTTTCACCGAATT
17406557 G
65 G
* * * *
17406558 GCTTTGAGTTGGATATCTTTCATTGTGAAGTTGAAATCTAATCTTGTATAAATTTCACCGAATTA
1 GCTTTGAGTTGGATATCCTTCATTGTGAAGTTGAAATCCAATCTTGTATAAGTTTCACCGAATTG
*
17406623 ACTTTGAGTTGGATATCCTTCATTGTGAAGTTGAAATCCAATCTTG-AGTAAGTTTCACCGAATT
1 GCTTTGAGTTGGATATCCTTCATTGTGAAGTTGAAATCCAATCTTGTA-TAAGTTTCACCGAATT
17406687 G
65 G
* * *
17406688 GCTTTGAGTTGGATATCCTTCGTTATGAAGTTGAAATCCAATCTTG-AGTAAGTTTCACCAAATT
1 GCTTTGAGTTGGATATCCTTCATTGTGAAGTTGAAATCCAATCTTGTA-TAAGTTTCACCGAATT
17406752 G
65 G
* *
17406753 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTTTAAG
1 GCTTTGAGTTGGATATCCTTCATTGTGAAGTTGAAATCCAATCTTGTATAAG
17406805 ATGTGTCACT
Statistics
Matches: 402, Mismatches: 31, Indels: 15
0.90 0.07 0.03
Matches are distributed among these distances:
60 39 0.10
64 5 0.01
65 297 0.74
66 61 0.15
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.38
Consensus pattern (65 bp):
GCTTTGAGTTGGATATCCTTCATTGTGAAGTTGAAATCCAATCTTGTATAAGTTTCACCGAATTG
Found at i:17408425 original size:19 final size:19
Alignment explanation
Indices: 17408401--17408456 Score: 103
Period size: 19 Copynumber: 2.9 Consensus size: 19
17408391 ATTCATTATA
17408401 ATGTCTTCAGTCCAGTCTG
1 ATGTCTTCAGTCCAGTCTG
17408420 ATGTCTTCAGTCCAGTCTG
1 ATGTCTTCAGTCCAGTCTG
*
17408439 ATGTCTTCAATCCAGTCT
1 ATGTCTTCAGTCCAGTCT
17408457 TGCTCAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.38
Consensus pattern (19 bp):
ATGTCTTCAGTCCAGTCTG
Found at i:17408631 original size:51 final size:51
Alignment explanation
Indices: 17408555--17408657 Score: 170
Period size: 51 Copynumber: 2.0 Consensus size: 51
17408545 ATTCTCATAA
*
17408555 TTTGAATCTCGATGCGTCATTTGAATCGAGAAAATCCTTGCATATACGTCT
1 TTTGAATCTCGATGCGTCATTTGAATCAAGAAAATCCTTGCATATACGTCT
* * *
17408606 TTTGAATCTCGATGCGTCATTTGAATCAAGATAATCGTTGCATATGCGTCT
1 TTTGAATCTCGATGCGTCATTTGAATCAAGAAAATCCTTGCATATACGTCT
17408657 T
1 T
17408658 GTCTTCTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (51 bp):
TTTGAATCTCGATGCGTCATTTGAATCAAGAAAATCCTTGCATATACGTCT
Found at i:17408690 original size:12 final size:11
Alignment explanation
Indices: 17408662--17408754 Score: 64
Period size: 11 Copynumber: 8.1 Consensus size: 11
17408652 CGTCTTGTCT
*
17408662 TCTTTTTTTCC
1 TCTTTTTTTTC
*
17408673 TTTTTTTATTTC
1 TCTTTTT-TTTC
17408685 TCTTTTTTATTTTC
1 TC--TTTT-TTTTC
17408699 TCTTTGCTTTTTC
1 TCTTT--TTTTTC
*
17408712 T-TTGTTTTTC
1 TCTTTTTTTTC
*
17408722 TCTTTTTTCT-
1 TCTTTTTTTTC
*
17408732 TCTTCTTTTTC
1 TCTTTTTTTTC
*
17408743 TCTTTTTGTTC
1 TCTTTTTTTTC
17408754 T
1 T
17408755 GATTGGATCT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
10 15 0.23
11 22 0.34
12 9 0.14
13 6 0.09
14 11 0.17
15 1 0.02
ACGTcount: A:0.02, C:0.18, G:0.03, T:0.76
Consensus pattern (11 bp):
TCTTTTTTTTC
Found at i:17408691 original size:14 final size:14
Alignment explanation
Indices: 17408659--17408703 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
17408649 ATGCGTCTTG
*
17408659 TCTTCTTTT-TTTC
1 TCTTTTTTTATTTC
17408672 -CTTTTTTTATTTC
1 TCTTTTTTTATTTC
17408685 TC-TTTTTTATTTTC
1 TCTTTTTTTA-TTTC
17408699 TCTTT
1 TCTTT
17408704 GCTTTTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 7 0.26
13 11 0.41
14 7 0.26
15 2 0.07
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (14 bp):
TCTTTTTTTATTTC
Found at i:17408713 original size:25 final size:24
Alignment explanation
Indices: 17408659--17408741 Score: 60
Period size: 25 Copynumber: 3.4 Consensus size: 24
17408649 ATGCGTCTTG
* * * **
17408659 TCTTCTTTTTTTCCTTTTTTTATT
1 TCTTCTTTTTTTTCTCTCTTTGCT
*
17408683 TC-TCTTTTTTATTTTCTCTTTGCT
1 TCTTCTTTTTT-TTCTCTCTTTGCT
* * *
17408707 TTTTCTTTGTTTTTCTCTTTTTTCT
1 TCTTCTTT-TTTTTCTCTCTTTGCT
17408732 TCTTCTTTTT
1 TCTTCTTTTT
17408742 CTCTTTTTGT
Statistics
Matches: 45, Mismatches: 11, Indels: 6
0.73 0.18 0.10
Matches are distributed among these distances:
23 8 0.18
24 12 0.27
25 22 0.49
26 3 0.07
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.77
Consensus pattern (24 bp):
TCTTCTTTTTTTTCTCTCTTTGCT
Done.