Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007307.1 Hibiscus syriacus cultivar Beakdansim tig00019469_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: 104793
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:3036 original size:40 final size:40
Alignment explanation
Indices: 2992--3088 Score: 158
Period size: 40 Copynumber: 2.4 Consensus size: 40
2982 GAACGGGGTG
*
2992 CTAAAATGAAACAAAAACTAAAGTTTCTAATGGCATGTTA
1 CTAAAATGAAACAAAAACTAAAGTTTCTAATGGCAGGTTA
* *
3032 CTAAAATGAAACAAAAACTAAAGTTTCTACTGGCGGGTTA
1 CTAAAATGAAACAAAAACTAAAGTTTCTAATGGCAGGTTA
*
3072 CTAAAATGAAAAAAAAA
1 CTAAAATGAAACAAAAA
3089 ACTATACTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.51, C:0.12, G:0.13, T:0.24
Consensus pattern (40 bp):
CTAAAATGAAACAAAAACTAAAGTTTCTAATGGCAGGTTA
Found at i:5156 original size:2 final size:2
Alignment explanation
Indices: 5149--5180 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
5139 AGATAGATAC
5149 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
5181 TAATAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11265 original size:36 final size:36
Alignment explanation
Indices: 11214--11294 Score: 135
Period size: 36 Copynumber: 2.2 Consensus size: 36
11204 TGATGTGCGC
* *
11214 GCACGCACACATAGACACGTACACGTACATGCACGT
1 GCACACACACATAGACACGTACACGTACACGCACGT
*
11250 GCATACACACATAGACACGTACACGTACACGCACGT
1 GCACACACACATAGACACGTACACGTACACGCACGT
11286 GCACACACA
1 GCACACACA
11295 TACGTATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.36, C:0.35, G:0.17, T:0.12
Consensus pattern (36 bp):
GCACACACACATAGACACGTACACGTACACGCACGT
Found at i:11279 original size:20 final size:20
Alignment explanation
Indices: 11215--11279 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 20
11205 GATGTGCGCG
11215 CACGCACACATAGACACGTA
1 CACGCACACATAGACACGTA
* *
11235 CACG--TACAT-G-CACGTG
1 CACGCACACATAGACACGTA
**
11251 CATACACACATAGACACGTA
1 CACGCACACATAGACACGTA
*
11271 CACGTACAC
1 CACGCACAC
11280 GCACGTGCAC
Statistics
Matches: 32, Mismatches: 9, Indels: 8
0.65 0.18 0.16
Matches are distributed among these distances:
16 7 0.22
17 1 0.03
18 8 0.25
19 1 0.03
20 15 0.47
ACGTcount: A:0.37, C:0.34, G:0.15, T:0.14
Consensus pattern (20 bp):
CACGCACACATAGACACGTA
Found at i:19120 original size:60 final size:60
Alignment explanation
Indices: 19032--19167 Score: 177
Period size: 60 Copynumber: 2.3 Consensus size: 60
19022 GGAATATGAC
* *
19032 TCATTTTAAATTAGTCCTTGAACATTTAAACATTCTAAA-TTAATCCCCAAACTATGACTA
1 TCATTTTAAATTAGTCCTTAAACATTTAAACATTC-AAATTTAATCCACAAACTATGACTA
* * * *
19092 TCATTTTAAATTCA-TCCTTAAACTTTTAAACATTCAAATTTCATCCACAAACTATGATTC
1 TCATTTTAAATT-AGTCCTTAAACATTTAAACATTCAAATTTAATCCACAAACTATGACTA
*
19152 TCATTCTAAATTAGTC
1 TCATTTTAAATTAGTC
19168 TCCAAACTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
59 4 0.06
60 61 0.92
61 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.04, T:0.39
Consensus pattern (60 bp):
TCATTTTAAATTAGTCCTTAAACATTTAAACATTCAAATTTAATCCACAAACTATGACTA
Found at i:20688 original size:24 final size:24
Alignment explanation
Indices: 20659--20729 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
20649 TCTAGTGACA
*
20659 TGTTTTCTCTGCTCTTGTGGAATG
1 TGTTTTCTCTACTCTTGTGGAATG
*
20683 TGTTTTCTCAACT-TTAGT-GACATG
1 TGTTTTCTCTACTCTT-GTGGA-ATG
*
20707 T-TTTTCTTTACTCTTGTGGAATG
1 TGTTTTCTCTACTCTTGTGGAATG
20730 ATATTTGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
23 18 0.46
24 21 0.54
ACGTcount: A:0.14, C:0.15, G:0.20, T:0.51
Consensus pattern (24 bp):
TGTTTTCTCTACTCTTGTGGAATG
Found at i:23307 original size:23 final size:22
Alignment explanation
Indices: 23278--23356 Score: 113
Period size: 23 Copynumber: 3.5 Consensus size: 22
23268 ATGAAGACTA
23278 TGCTGAATGAAACAGTAAAACAC
1 TGCTGAATGAAACA-TAAAACAC
*
23301 TGTTGAATGAAACATCAAAACAC
1 TGCTGAATGAAACAT-AAAACAC
*
23324 TGCTGAATGAAACAACAAAACAC
1 TGCTGAATGAAAC-ATAAAACAC
23347 TGCTGAATGA
1 TGCTGAATGA
23357 TTCAGCATTA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
22 1 0.02
23 49 0.96
24 1 0.02
ACGTcount: A:0.47, C:0.18, G:0.16, T:0.19
Consensus pattern (22 bp):
TGCTGAATGAAACATAAAACAC
Found at i:29154 original size:14 final size:15
Alignment explanation
Indices: 29137--29175 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
29127 TAATTGAAAA
*
29137 CCCTAAATT-CTAGT
1 CCCTAAATTAATAGT
29151 CCCTAAATTAAATAGT
1 CCCTAAATT-AATAGT
29167 CCCTAAATT
1 CCCTAAATT
29176 TTAAATAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
16 13 0.59
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (15 bp):
CCCTAAATTAATAGT
Found at i:29251 original size:23 final size:23
Alignment explanation
Indices: 29225--29269 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
29215 AACCCAGATT
29225 TGTGGGTCTCATCAAAAACCTCA
1 TGTGGGTCTCATCAAAAACCTCA
29248 TGTGGGTCTCATCAAAAACCTC
1 TGTGGGTCTCATCAAAAACCTC
29270 CCTAGACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (23 bp):
TGTGGGTCTCATCAAAAACCTCA
Found at i:33292 original size:38 final size:38
Alignment explanation
Indices: 33241--33318 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
33231 AAAACTGGCT
33241 TCATGCTTGCTTCTGAACCTAACAAACACAAACGTGGA
1 TCATGCTTGCTTCTGAACCTAACAAACACAAACGTGGA
*
33279 TCATGCTTGCTTCTGAACCTAACATACACAAACGTGGA
1 TCATGCTTGCTTCTGAACCTAACAAACACAAACGTGGA
33317 TC
1 TC
33319 CATCACATAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (38 bp):
TCATGCTTGCTTCTGAACCTAACAAACACAAACGTGGA
Found at i:35272 original size:29 final size:28
Alignment explanation
Indices: 35221--35283 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
35211 TTGAATAACG
* *
35221 AAATGAAATGTTAGGCACCAAACTAGAACA
1 AAATGAAACGTTAAGCACCAAACT-GAA-A
*
35251 AAAT-AAACGTTAAGCACTAAACTGAAA
1 AAATGAAACGTTAAGCACCAAACTGAAA
35278 AAATGA
1 AAATGA
35284 GTATAGGTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 5 0.17
28 4 0.14
29 16 0.55
30 4 0.14
ACGTcount: A:0.54, C:0.14, G:0.14, T:0.17
Consensus pattern (28 bp):
AAATGAAACGTTAAGCACCAAACTGAAA
Found at i:35760 original size:30 final size:30
Alignment explanation
Indices: 35724--35798 Score: 98
Period size: 29 Copynumber: 2.5 Consensus size: 30
35714 AAAACCGAAT
*
35724 TAAACGGAGACAGGGAAAAAACGTTTATGC
1 TAAACGGGGACAGGGAAAAAACGTTTATGC
* * *
35754 TAAACGGGGATAGGG-AAAACCGTTTATGT
1 TAAACGGGGACAGGGAAAAAACGTTTATGC
*
35783 TAAATGGGGACAGGGA
1 TAAACGGGGACAGGGA
35799 CGGGACAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 25 0.66
30 13 0.34
ACGTcount: A:0.39, C:0.11, G:0.32, T:0.19
Consensus pattern (30 bp):
TAAACGGGGACAGGGAAAAAACGTTTATGC
Found at i:35907 original size:40 final size:39
Alignment explanation
Indices: 35863--35952 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 39
35853 TATTACAAAT
*
35863 AATTATTATATATATATATAATA-TTACTAAATTTGATTTA
1 AATTA-TATATATATATATAATATTTA-TAAATTTAATTTA
* * *
35903 AATTAAAAAATATATATATAATATTTATATATTTAATTTA
1 AATT-ATATATATATATATAATATTTATAAATTTAATTTA
35943 AA-TATATATA
1 AATTATATATA
35953 CTAGGCCCGA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
38 5 0.12
39 1 0.02
40 32 0.76
41 4 0.10
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (39 bp):
AATTATATATATATATATAATATTTATAAATTTAATTTA
Found at i:52494 original size:3 final size:3
Alignment explanation
Indices: 52488--52531 Score: 54
Period size: 3 Copynumber: 14.0 Consensus size: 3
52478 GGGTCTTTTT
52488 TTA TTA TTA TTA TT- TTA TATA TTTA TTA TTA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA -TTA TTA TTA -TTA TTA TTA TTA
52532 AATTTTTGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 2 0.05
3 27 0.73
4 7 0.19
5 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:52503 original size:16 final size:16
Alignment explanation
Indices: 52484--52531 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
52474 GTCCGGGTCT
52484 TTTTTTATTATTATTA
1 TTTTTTATTATTATTA
*
52500 TTTTATA-TATTTATTA
1 TTTTTTATTA-TTATTA
*
52516 TTATTTATTATTATTA
1 TTTTTTATTATTATTA
52532 AATTTTTGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 2 0.07
16 23 0.85
17 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTTATTATTATTA
Found at i:52522 original size:10 final size:10
Alignment explanation
Indices: 52487--52530 Score: 61
Period size: 10 Copynumber: 4.2 Consensus size: 10
52477 CGGGTCTTTT
52487 TTTATTATTA
1 TTTATTATTA
*
52497 TTATTTTATATA
1 TT-TATTAT-TA
52509 TTTATTATTA
1 TTTATTATTA
52519 TTTATTATTA
1 TTTATTATTA
52529 TT
1 TT
52531 AAATTTTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 16 0.53
11 10 0.33
12 4 0.13
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTATTATTA
Found at i:56206 original size:30 final size:31
Alignment explanation
Indices: 56170--56229 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
56160 TCTTGCTTGC
56170 ACTAACTC-GTTTCTCT-ATTTTGTTTGTGTT
1 ACTAACTCAGTTTCTCTCA-TTTGTTTGTGTT
* *
56200 ACTAACTCATTTTTTCTCATTTGTTTGTGT
1 ACTAACTCAGTTTCTCTCATTTGTTTGTGT
56230 CATTTTTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 8 0.31
31 17 0.65
32 1 0.04
ACGTcount: A:0.15, C:0.17, G:0.12, T:0.57
Consensus pattern (31 bp):
ACTAACTCAGTTTCTCTCATTTGTTTGTGTT
Found at i:59594 original size:22 final size:22
Alignment explanation
Indices: 59553--59620 Score: 127
Period size: 22 Copynumber: 3.0 Consensus size: 22
59543 CTCGTATAAA
59553 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
59576 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
59598 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
59620 T
1 T
59621 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 33 0.73
23 12 0.27
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:59879 original size:30 final size:30
Alignment explanation
Indices: 59834--59892 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
59824 ATCGCGTAGT
* * *
59834 CATATTATTTCCATACCTTTATCACATAGA
1 CATATCATTTACATACATTTATCACATAGA
59864 CATATCATTTACATACATTTATCACATAG
1 CATATCATTTACATACATTTATCACATAG
59893 CTCATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.39
Consensus pattern (30 bp):
CATATCATTTACATACATTTATCACATAGA
Found at i:60409 original size:66 final size:67
Alignment explanation
Indices: 60261--60433 Score: 215
Period size: 67 Copynumber: 2.6 Consensus size: 67
60251 TTTTTCTCAT
* * *
60261 GGGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGA
1 GGGGGTATCGGTT-CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGA
60326 TGA
65 TGA
* * * * *
60329 GGAGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGTT
1 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
60393 GA
66 GA
* *
60395 GGGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
60434 AACCCAGAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 6 0.07
66 18 0.20
67 57 0.62
68 11 0.12
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.28
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
GA
Found at i:62294 original size:35 final size:37
Alignment explanation
Indices: 62253--62350 Score: 155
Period size: 35 Copynumber: 2.7 Consensus size: 37
62243 TTTCTTTTGT
*
62253 AAAACAAATTTTGTCTCGCTTGAGACAGTTT-TTT-A
1 AAAACAAATTTTGTCTCGCTTGAGACAATTTCTTTAA
*
62288 AAAACAAATTTTGTCTCGCTTGAGATAATTTCTTTAA
1 AAAACAAATTTTGTCTCGCTTGAGACAATTTCTTTAA
*
62325 AAAACAAATTTCGTCTCGCTTGAGAC
1 AAAACAAATTTTGTCTCGCTTGAGAC
62351 CTTTTCCCTT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
35 29 0.51
36 3 0.05
37 25 0.44
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (37 bp):
AAAACAAATTTTGTCTCGCTTGAGACAATTTCTTTAA
Found at i:62443 original size:105 final size:105
Alignment explanation
Indices: 62316--62625 Score: 365
Period size: 105 Copynumber: 2.9 Consensus size: 105
62306 CTTGAGATAA
* * *
62316 TTTCTTTAAAAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTGGATATACAAATTTCGAATT
1 TTTCTTT-AAAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTGGAGATACAAATTTCAAATT
* * * *
62381 TGTTTCACATTAAGCAAAGTTAATATCACTTGAGATTGTTG
65 TGCTTCACATGAAACAAAATTAATATCACTTGAGATTGTTG
* * * * *
62422 TTTCTTTTAAAACAAACTTCGTCTCGCTTGAGATATTTTTCCTTTGAGATACAAATTTCAAATTT
1 TTTCTTTAAAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTGGAGATACAAATTTCAAATTT
*
62487 GCTTCACATGAAACAAAATTAATCTCACTTGAGATTGTTG
66 GCTTCACATGAAACAAAATTAATATCACTTGAGATTGTTG
* ** * **
62527 TTTATTTCGAAACAAATTTCGTTTCGCTTGAGACATTTTTTTTCTCT-GAGATACAAATTT-AAA
1 TTTCTTTAAAAACAAATTTCGTCTCGCTTGAGACA--TTTTCCCT-TGGAGATACAAATTTCAAA
* *
62590 TTTG-TTGTACTTGAAACAAAATTAATATCACTTGAG
63 TTTGCTT-CACATGAAACAAAATTAATATCACTTGAG
62626 TTTTTCAAAA
Statistics
Matches: 177, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
105 116 0.66
106 40 0.23
107 20 0.11
108 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (105 bp):
TTTCTTTAAAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTGGAGATACAAATTTCAAATTT
GCTTCACATGAAACAAAATTAATATCACTTGAGATTGTTG
Found at i:62814 original size:29 final size:29
Alignment explanation
Indices: 62777--62848 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
62767 CTCTTGAGAT
62777 AAATCTTTGAGTCTGTTCCTTTTGAATA-A
1 AAATCTTTGAGTCTGTTCCTTTTGAA-ACA
*
62806 AAATCTTTGAGT-TGTTTCTTTTGAAACA
1 AAATCTTTGAGTCTGTTCCTTTTGAAACA
62834 AATATCTTTGAGTCT
1 AA-ATCTTTGAGTCT
62849 ATTTCTGTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 1 0.03
28 15 0.38
29 22 0.56
30 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (29 bp):
AAATCTTTGAGTCTGTTCCTTTTGAAACA
Found at i:62863 original size:30 final size:29
Alignment explanation
Indices: 62808--62865 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
62798 TTGAATAAAA
* * *
62808 ATCTTTGAGTTGTTTCTTTTGAAACAAAT
1 ATCTTTGAGTTATTTCTGTTAAAACAAAT
62837 ATCTTTGAGTCTATTTCTGTTAAAACAAA
1 ATCTTTGAGT-TATTTCTGTTAAAACAAA
62866 GTTTTGTCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (29 bp):
ATCTTTGAGTTATTTCTGTTAAAACAAAT
Found at i:62960 original size:62 final size:63
Alignment explanation
Indices: 62827--62988 Score: 211
Period size: 63 Copynumber: 2.5 Consensus size: 63
62817 TTGTTTCTTT
* * *
62827 TGAAACAAATATCTTTGAGTCTATTTCTGTTAAAACAAAGTTTTGTCTCTCTTGAGACAATTTTG
1 TGAAA-AAA-ATCTTTGAGTCTATTTCTTTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCG
* *
62892 TAAAAAAAATCTTTGAGTCTATTTATTTTGAAACAAAG-TTTGTCTCTCTTGAGACAATTTCG
1 TGAAAAAAATCTTTGAGTCTATTTCTTTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCG
*
62954 TGAAAAAAAAAATCTTTGAGT-TGTTTCTTTTGAAA
1 TG---AAAAAAATCTTTGAGTCTATTTCTTTTGAAA
62989 AAATCTTTGA
Statistics
Matches: 86, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
62 24 0.28
63 27 0.31
64 15 0.17
65 20 0.23
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.41
Consensus pattern (63 bp):
TGAAAAAAATCTTTGAGTCTATTTCTTTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCG
Found at i:62973 original size:91 final size:92
Alignment explanation
Indices: 62878--63044 Score: 212
Period size: 91 Copynumber: 1.8 Consensus size: 92
62868 TTTGTCTCTC
*
62878 TTGAGACAATTT-TGTAAAAAAAATCTTTGAGTCTATTTATTTTGAAAC-AAAGTTTGTCTCTCT
1 TTGAG-CAATTTCTGTAAAAAAAATCTTTGAGTCTATTTATTTGGAAACAAAAGTTTGTCTCTCT
62941 TGAGACAATTTCGTGAAAAAAAAAATCT
65 TGAGACAATTTCGTGAAAAAAAAAATCT
*** * ** * * *
62969 TTGAGTTGTTTCTTTTGAAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTT
1 TTGAGCAATTTCTGTAAAAAAAATCTTTGAGTCTATTTATTTGGAAACAAAAGTTTGTCTCTCTT
*
63034 GGGACAATTTC
66 GAGACAATTTC
63045 TTTTGAAAAT
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
90 3 0.05
91 35 0.56
92 25 0.40
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (92 bp):
TTGAGCAATTTCTGTAAAAAAAATCTTTGAGTCTATTTATTTGGAAACAAAAGTTTGTCTCTCTT
GAGACAATTTCGTGAAAAAAAAAATCT
Found at i:62996 original size:26 final size:27
Alignment explanation
Indices: 62960--63015 Score: 96
Period size: 26 Copynumber: 2.1 Consensus size: 27
62950 TTCGTGAAAA
*
62960 AAAAAATCTTTGAGT-TGTTTCTTTTG
1 AAAAAATCTTTGAGTCTGTTTCTTTGG
62986 AAAAAATCTTTGAGTCTGTTTCTTTGG
1 AAAAAATCTTTGAGTCTGTTTCTTTGG
63013 AAA
1 AAA
63016 CAAAATTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 15 0.54
27 13 0.46
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (27 bp):
AAAAAATCTTTGAGTCTGTTTCTTTGG
Found at i:63029 original size:154 final size:159
Alignment explanation
Indices: 62804--63101 Score: 428
Period size: 156 Copynumber: 1.9 Consensus size: 159
62794 CCTTTTGAAT
*
62804 AAAAATCTTTGAGTTGTTTCTTTTGAAACAAATATCTTTGAGTCTATTTCTGTTAAAACAAAGTT
1 AAAAATCTTTGAGTTGTTTCTTTTGAAACAAATATCTTTGAGTCTATTTCTGTTAAAACAAAATT
* **
62869 TTGTCTCTCTTGAGACAA-TT-TTGTAAAAAAAATCTTTGAGTCTATTTATTTTGAAACAAAGTT
66 TTGTCTCTCTTGAGACAATTTCTTGTAAAAAAAATCTTTGAGTATATTTATTTAAAAACAAAGTT
62932 TGTCTCTCTTGAGACAATTTCGTGAAAAA
131 TGTCTCTCTTGAGACAATTTCGTGAAAAA
* *
62961 AAAAATCTTTGAGTTGTTTCTTTTG-AA-AAA-ATCTTTGAGTCTGTTTCT-TTGGAAACAAAAT
1 AAAAATCTTTGAGTTGTTTCTTTTGAAACAAATATCTTTGAGTCTATTTCTGTT-AAAACAAAAT
* * * ** * *
63022 TTTGTCTCTCTTGGGACAATTTCTTTTGAAAATCATCTTTGAGTATATTTCTTTAAAAACAAATT
65 TTTGTCTCTCTTGAGACAATTTCTTGTAAAAAAAATCTTTGAGTATATTTATTTAAAAACAAAGT
63087 TTGTCTCTCTTGAGA
130 TTGTCTCTCTTGAGA
63102 TAGTTTCTAA
Statistics
Matches: 125, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
153 2 0.02
154 43 0.34
155 5 0.04
156 50 0.40
157 25 0.20
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.43
Consensus pattern (159 bp):
AAAAATCTTTGAGTTGTTTCTTTTGAAACAAATATCTTTGAGTCTATTTCTGTTAAAACAAAATT
TTGTCTCTCTTGAGACAATTTCTTGTAAAAAAAATCTTTGAGTATATTTATTTAAAAACAAAGTT
TGTCTCTCTTGAGACAATTTCGTGAAAAA
Found at i:63060 original size:91 final size:92
Alignment explanation
Indices: 62895--63075 Score: 231
Period size: 91 Copynumber: 2.0 Consensus size: 92
62885 AATTTTGTAA
*
62895 AAAAAATCTTTGAGTCTATTTATTTTGAAACAAAGTTTGTCTCTCTTGAGACAATTTCGTGAAAA
1 AAAAAATCTTTGAGTCTATTTATTTGGAAACAAAGTTTGTCTCTCTTGAGACAATTTCGTGAAAA
*
62960 AAAAAATCTTTGAGT-TGTTTCTTTTG
66 AAAAAATCTTTGAGTATATTTCTTTTG
* * * * ****
62986 AAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGGGACAATTTC-TTTTG
1 AAAAAATCTTTGAGTCTATTTATTTGGAAAC-AAAGTTTGTCTCTCTTGAGACAATTTCGTGAAA
**
63050 AAAATCATCTTTGAGTATATTTCTTT
65 AAAAAAATCTTTGAGTATATTTCTTT
63076 AAAAACAAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
91 43 0.57
92 33 0.43
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (92 bp):
AAAAAATCTTTGAGTCTATTTATTTGGAAACAAAGTTTGTCTCTCTTGAGACAATTTCGTGAAAA
AAAAAATCTTTGAGTATATTTCTTTTG
Found at i:63109 original size:64 final size:64
Alignment explanation
Indices: 62976--63120 Score: 184
Period size: 64 Copynumber: 2.3 Consensus size: 64
62966 TCTTTGAGTT
* * ** *
62976 GTTTCTTTTGAAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGGGACA
1 GTTTCTTTTGAAAAAATCTTTGAGTATATTTCTTTAAAAACAAAATTTTGTCTCTCTTGAGACA
* * *
63040 ATTTCTTTTGAAAATCATCTTTGAGTATATTTCTTTAAAAAC-AAATTTTGTCTCTCTTGAGATA
1 GTTTCTTTTGAAAA-AATCTTTGAGTATATTTCTTTAAAAACAAAATTTTGTCTCTCTTGAGACA
**
63104 GTTTCTAATGAAAAAAT
1 GTTTCTTTTGAAAAAAT
63121 AACATTTGGG
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
63 2 0.03
64 44 0.65
65 22 0.32
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.44
Consensus pattern (64 bp):
GTTTCTTTTGAAAAAATCTTTGAGTATATTTCTTTAAAAACAAAATTTTGTCTCTCTTGAGACA
Found at i:63686 original size:378 final size:376
Alignment explanation
Indices: 62991--63801 Score: 1460
Period size: 378 Copynumber: 2.1 Consensus size: 376
62981 TTTTGAAAAA
* * ** * ***
62991 ATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGGGACAATTTCTTTTGAAAATC
1 ATCTTTGAGTTTGTTTCTCTGGAAACAAGGTTTTATC-C-CTTAAAACAATTTCTTTTGAAAATC
63056 ATCTTTGAGTATATTTCTTTAAAAACAAATTTTGTCTCTCTTGAGATAGTTTCTAATGAAAAAAT
64 ATCTTTGAGTATATTTCTTTAAAAACAAATTTTGTCTCTCTTGAGATAGTTTCTAATGAAAAAAT
*
63121 AACATTTGGGATTGTTTCCTTTGAAACAAATTTCGTCTCACTTAAGATGTAATCCATCTTTGAGC
129 AACATTTGGGATTGTTTCCTTTGAAACAAATTTCGTCTCACTTAAGACGTAATCCATCTTTGAGC
63186 ATGTTTCTTTTGAAACAAAATTGTCTCTCGAGACAACTTCTTTTGAAAATACCCAACTTTGAGAT
194 ATGTTTCTTTTGAAACAAAATTGTCTCTCGAGACAACTTCTTTTGAAAATACCCAACTTTGAGAT
63251 CGTTTCTATTAAAACAAATTTTATCTCGCATGAGACAGTTTCCTTTCAATGTCATCTTTGAGTCG
259 CGTTTCTATTAAAACAAATTTTATCTCGCATGAGACAGTTTCCTTTCAATGTCATCTTTGAGTCG
63316 TTTCCCTTGAAACGAATTTTGTCTCTTGAAACATTTTCTCTTAAAACAAGATC
324 TTTCCCTTGAAACGAATTTTGTCTCTTGAAACATTTTCTCTTAAAACAAGATC
*
63369 ATCTTTGAGTTTGTTTCTCTGGAAACAAGGTTTTATCCCTTAAAACAGTTTCTTTTGAAAATCAT
1 ATCTTTGAGTTTGTTTCTCTGGAAACAAGGTTTTATCCCTTAAAACAATTTCTTTTGAAAATCAT
63434 CTTTGAGTATATTTCTTTAAAAACAAATTTTGTCTCTCTTGAGATAGTTTCTAATGAAAAAATAA
66 CTTTGAGTATATTTCTTTAAAAACAAATTTTGTCTCTCTTGAGATAGTTTCTAATGAAAAAATAA
*
63499 CCTTTGGGATTGTTTCCTTTGAAACAAATTTCGTCTCACTTAAGACGTAATCCATCTTTGAGCAT
131 CATTTGGGATTGTTTCCTTTGAAACAAATTTCGTCTCACTTAAGACGTAATCCATCTTTGAGCAT
*
63564 GTTTCTTTTGAAACAAAATTTTGTCTCTCGAGACAACTTCTTTTGAAAATACCCACCTTTGAGAT
196 GTTTCTTTTGAAACAAAA--TTGTCTCTCGAGACAACTTCTTTTGAAAATACCCAACTTTGAGAT
63629 CGTTTCTATTAAAACAAATTTTATCTCGCATGAGACAGTTTCCTTTCAATGTCATCTTTGAGTCG
259 CGTTTCTATTAAAACAAATTTTATCTCGCATGAGACAGTTTCCTTTCAATGTCATCTTTGAGTCG
*
63694 TTTCCCTTTAAACGAATTTTGTCTCTTGAAACATTTTCTCTTAAAACAAGATC
324 TTTCCCTTGAAACGAATTTTGTCTCTTGAAACATTTTCTCTTAAAACAAGATC
*
63747 ATCTTTGAGTTTGTTTCTCTGGAAACAAGGTTTTATCCCTTAAAACATTTTCTTT
1 ATCTTTGAGTTTGTTTCTCTGGAAACAAGGTTTTATCCCTTAAAACAATTTCTTT
63802 AGAAGAAAAA
Statistics
Matches: 417, Mismatches: 14, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
376 169 0.41
377 1 0.00
378 247 0.59
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.41
Consensus pattern (376 bp):
ATCTTTGAGTTTGTTTCTCTGGAAACAAGGTTTTATCCCTTAAAACAATTTCTTTTGAAAATCAT
CTTTGAGTATATTTCTTTAAAAACAAATTTTGTCTCTCTTGAGATAGTTTCTAATGAAAAAATAA
CATTTGGGATTGTTTCCTTTGAAACAAATTTCGTCTCACTTAAGACGTAATCCATCTTTGAGCAT
GTTTCTTTTGAAACAAAATTGTCTCTCGAGACAACTTCTTTTGAAAATACCCAACTTTGAGATCG
TTTCTATTAAAACAAATTTTATCTCGCATGAGACAGTTTCCTTTCAATGTCATCTTTGAGTCGTT
TCCCTTGAAACGAATTTTGTCTCTTGAAACATTTTCTCTTAAAACAAGATC
Found at i:64274 original size:28 final size:28
Alignment explanation
Indices: 64228--64324 Score: 108
Period size: 28 Copynumber: 3.4 Consensus size: 28
64218 GAGACAGTTA
64228 CTTTTGAAACACATTATCTTTGAG-CTTGTTT
1 CTTTTGAAACA-A--ATCTTTGAGTC-TGTTT
64259 -TTCTTGAAACAAATCTTTGAGTCTGTTT
1 CTT-TTGAAACAAATCTTTGAGTCTGTTT
* *
64287 CTTTTGAAACAAATCTTTGAATCGGTTT
1 CTTTTGAAACAAATCTTTGAGTCTGTTT
*
64315 CTCTTGAAAC
1 CTTTTGAAAC
64325 CATAACTCCT
Statistics
Matches: 60, Mismatches: 3, Indels: 9
0.83 0.04 0.12
Matches are distributed among these distances:
28 46 0.77
29 3 0.05
30 3 0.05
31 8 0.13
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.44
Consensus pattern (28 bp):
CTTTTGAAACAAATCTTTGAGTCTGTTT
Found at i:64564 original size:84 final size:84
Alignment explanation
Indices: 64433--64676 Score: 382
Period size: 84 Copynumber: 2.9 Consensus size: 84
64423 TAACTAGCCG
* *
64433 TCCTCATCAAGTAGGAACCGAGTTATCACCCTTATATGGCCAAAAACTCTTCATCACGTATGAGC
1 TCCTCATCACGTAGGAACCGAG---TCACCCTTAGATGGCCAAAAACTCTTCATCACGTATGAGC
64498 AGTGTCGTCCCCTGACCAGATT
63 AGTGTCGTCCCCTGACCAGATT
64520 TCCTCATCACGTAGGAACCGAGTCACCCTTAGATGGCCAAAAACTCTTCATCACGTATGAGCAGT
1 TCCTCATCACGTAGGAACCGAGTCACCCTTAGATGGCCAAAAACTCTTCATCACGTATGAGCAGT
* *
64585 GTCATCCTCTGACCAGATT
66 GTCGTCCCCTGACCAGATT
* * * *
64604 TCCTCATCACGTAGGAACCGAGTCACCCTTAGACGACC-AGAACTCTTCATCATGTATGAGCAGT
1 TCCTCATCACGTAGGAACCGAGTCACCCTTAGATGGCCAAAAACTCTTCATCACGTATGAGCAGT
64668 GTCGTCCCC
66 GTCGTCCCC
64677 ACCAACACGC
Statistics
Matches: 147, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
83 31 0.21
84 95 0.65
87 21 0.14
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (84 bp):
TCCTCATCACGTAGGAACCGAGTCACCCTTAGATGGCCAAAAACTCTTCATCACGTATGAGCAGT
GTCGTCCCCTGACCAGATT
Found at i:64616 original size:40 final size:40
Alignment explanation
Indices: 64483--64616 Score: 117
Period size: 40 Copynumber: 3.2 Consensus size: 40
64473 CAAAAACTCT
* *
64483 TCATCACGTATGAGCAGTGTCGTCCCCTGACCAGATTTCC
1 TCATCACGTATGAGCAGTGTCATCCTCTGACCAGATTTCC
* * * * * * ** *
64523 TCATCACGTAGGAACCGAGTCACCCT-TAGATGGCCAAAAACTCT
1 TCATCACGTATGAGCAGTGTCATCCTCT-GA---CC-AGATTTCC
64567 TCATCACGTATGAGCAGTGTCATCCTCTGACCAGATTTCC
1 TCATCACGTATGAGCAGTGTCATCCTCTGACCAGATTTCC
64607 TCATCACGTA
1 TCATCACGTA
64617 GGAACCGAGT
Statistics
Matches: 68, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
39 1 0.01
40 35 0.51
41 2 0.03
43 2 0.03
44 27 0.40
45 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (40 bp):
TCATCACGTATGAGCAGTGTCATCCTCTGACCAGATTTCC
Found at i:64828 original size:3 final size:3
Alignment explanation
Indices: 64820--64862 Score: 50
Period size: 3 Copynumber: 13.0 Consensus size: 3
64810 CGGGTCTTTT
64820 TTA TTA TTA TTA TTTA TATA TTTA TTA TTA TTTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA T-TA -TTA TTA TTA -TTA TTA TTA TTA
64863 AATTTTTGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
3 25 0.69
4 10 0.28
5 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:64851 original size:10 final size:10
Alignment explanation
Indices: 64823--64861 Score: 64
Period size: 10 Copynumber: 4.1 Consensus size: 10
64813 GTCTTTTTTA
64823 TTATTATTAT
1 TTATTATTAT
64833 TTA-TA-TAT
1 TTATTATTAT
64841 TTATTATTAT
1 TTATTATTAT
64851 TTATTATTAT
1 TTATTATTAT
64861 T
1 T
64862 AAATTTTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 6 0.22
9 4 0.15
10 17 0.63
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTATTATTAT
Found at i:64857 original size:21 final size:20
Alignment explanation
Indices: 64819--64861 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
64809 CCGGGTCTTT
64819 TTTATTATTATTATTTATATA
1 TTTATTATTATTATTTAT-TA
64840 TTTATTATTATT-TATTATTA
1 TTTATTATTATTAT-TTATTA
64860 TT
1 TT
64862 AAATTTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTATTATTATTATTTATTA
Found at i:68884 original size:19 final size:20
Alignment explanation
Indices: 68847--68883 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
68837 AGCATTTTAA
68847 AAACAAAGTTAAAAGAAAAT
1 AAACAAAGTTAAAAGAAAAT
68867 AAACAAAG-T-AAAGAAAA
1 AAACAAAGTTAAAAGAAAA
68884 AGAGAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 1 0.06
20 8 0.47
ACGTcount: A:0.73, C:0.05, G:0.11, T:0.11
Consensus pattern (20 bp):
AAACAAAGTTAAAAGAAAAT
Found at i:78526 original size:78 final size:78
Alignment explanation
Indices: 78392--78547 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
78382 GAAGTTATAA
78392 GAGTCTATAAAAGATCTAGGGAGAGAAACATTTGGCTCAAAAGTTTGCAGGAAATCAATTCTAAA
1 GAGTCTATAAAAGATCTAGGGAGAGAAACATTTGGCTCAAAAGTTTGCAGGAAATCAATTCTAAA
78457 ACAGAGGGGGTTT
66 ACAGAGGGGGTTT
*
78470 GAGTTTATAAAAGATCTAGGGAGAGAAACATTTGGCTCAAAAGTTTGCAGGAAATCAATTCTAAA
1 GAGTCTATAAAAGATCTAGGGAGAGAAACATTTGGCTCAAAAGTTTGCAGGAAATCAATTCTAAA
78535 ACAGAGGGGGTTT
66 ACAGAGGGGGTTT
78548 CAATCAAGCA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.25
Consensus pattern (78 bp):
GAGTCTATAAAAGATCTAGGGAGAGAAACATTTGGCTCAAAAGTTTGCAGGAAATCAATTCTAAA
ACAGAGGGGGTTT
Found at i:81783 original size:18 final size:18
Alignment explanation
Indices: 81760--81802 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
81750 TCTTTGAATC
81760 AGTTTGGGATATTAAATG
1 AGTTTGGGATATTAAATG
*
81778 AGTTTGAGATATTAAATG
1 AGTTTGGGATATTAAATG
81796 AGTTTGG
1 AGTTTGG
81803 TGAGTTCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.40
Consensus pattern (18 bp):
AGTTTGGGATATTAAATG
Found at i:89651 original size:22 final size:22
Alignment explanation
Indices: 89626--89669 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
89616 TCCAGAAACA
89626 CCAGTACCATGAGACAAACCTG
1 CCAGTACCATGAGACAAACCTG
89648 CCAGTACCATGAGACAAACCTG
1 CCAGTACCATGAGACAAACCTG
89670 GTTCCAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.18, T:0.14
Consensus pattern (22 bp):
CCAGTACCATGAGACAAACCTG
Found at i:92425 original size:23 final size:23
Alignment explanation
Indices: 92391--92444 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
92381 CCAACCAAAT
* * *
92391 ATGGGAACGTAAATTCTATTCCC
1 ATGGGAATGTAAATTCCATTCAC
92414 ATGGGAATGTAAATTCCATTCAC
1 ATGGGAATGTAAATTCCATTCAC
92437 ATGGGAAT
1 ATGGGAAT
92445 CCCACATTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (23 bp):
ATGGGAATGTAAATTCCATTCAC
Found at i:94406 original size:11 final size:11
Alignment explanation
Indices: 94390--94429 Score: 80
Period size: 11 Copynumber: 3.6 Consensus size: 11
94380 GTTGAAGAAA
94390 TGAAGTAGATG
1 TGAAGTAGATG
94401 TGAAGTAGATG
1 TGAAGTAGATG
94412 TGAAGTAGATG
1 TGAAGTAGATG
94423 TGAAGTA
1 TGAAGTA
94430 AATGGCCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.28
Consensus pattern (11 bp):
TGAAGTAGATG
Found at i:98594 original size:3 final size:3
Alignment explanation
Indices: 98588--98625 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
98578 TTAGTGAGGC
98588 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
98626 GTATCATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:98889 original size:32 final size:32
Alignment explanation
Indices: 98810--99213 Score: 479
Period size: 32 Copynumber: 12.9 Consensus size: 32
98800 GAATGACCTA
* *
98810 TCCATATGTTCC-TAAGAACATAGGTAA-T-TG
1 TCCATATGTCCCGAAAG-ACATAGGTAATTATG
* *
98840 TCCAAATGTCCCTAAAGACATAGGTAATTATG
1 TCCATATGTCCCGAAAGACATAGGTAATTATG
*
98872 TCTATATGTCCCGAAAGAC--AGGTAATTATG
1 TCCATATGTCCCGAAAGACATAGGTAATTATG
* * * *
98902 TTCATGTGTCCC-AAAGACATAGTTAATTCTG
1 TCCATATGTCCCGAAAGACATAGGTAATTATG
* *
98933 TCCATATATCCCGAAAGACATAGGTAATTCTG
1 TCCATATGTCCCGAAAGACATAGGTAATTATG
*
98965 TCCATATGTCCCAAAAGACAT--GTAA-TATG
1 TCCATATGTCCCGAAAGACATAGGTAATTATG
* * *
98994 TCCATATGTCCTGAAAGACATAGGTAATTCTA
1 TCCATATGTCCCGAAAGACATAGGTAATTATG
*
99026 TCTATATGTCCCGAAAGACATAGGTAA-TACTG
1 TCCATATGTCCCGAAAGACATAGGTAATTA-TG
* *
99058 TCCATATGTCCCAAAAGACATAGGTAATTATA
1 TCCATATGTCCCGAAAGACATAGGTAATTATG
* *
99090 TCCATATGTCCAGAAAGACGTAGGTAATTATG
1 TCCATATGTCCCGAAAGACATAGGTAATTATG
* * * *
99122 TCTAAATGCCCCGAAAGACATAGGTAA-TACTA
1 TCCATATGTCCCGAAAGACATAGGTAATTA-TG
99154 TCCATATGTCCCGAAAGACATAGGTAATTATG
1 TCCATATGTCCCGAAAGACATAGGTAATTATG
*
99186 TCCATATGTCTCGAAAGACATAGGTAAT
1 TCCATATGTCCCGAAAGACATAGGTAAT
99214 ACCCGACTCT
Statistics
Matches: 317, Mismatches: 44, Indels: 24
0.82 0.11 0.06
Matches are distributed among these distances:
29 28 0.09
30 44 0.14
31 29 0.09
32 212 0.67
33 4 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (32 bp):
TCCATATGTCCCGAAAGACATAGGTAATTATG
Found at i:99011 original size:93 final size:95
Alignment explanation
Indices: 98810--99213 Score: 486
Period size: 93 Copynumber: 4.3 Consensus size: 95
98800 GAATGACCTA
*
98810 TCCATATGTTCCT--AAGAACATAGGTAA-T-TGTCCAAATGTCCCTAAAGACATAGGTAATTA-
1 TCCATATG-TCCTGAAAG-ACATAGGTAATTCTGTCCAAATGTCCCGAAAGACATAGGTAA-TAC
* * *
98870 TGTCTATATGTCCCGAAAGACA-GGTAATTATG
63 TGTCCATATGTCCCAAAAGACATAGTAATTATG
* * * * * * *
98902 TTCATGTGTCC-CAAAGACATAGTTAATTCTGTCCATATATCCCGAAAGACATAGGTAATTCTGT
1 TCCATATGTCCTGAAAGACATAGGTAATTCTGTCCAAATGTCCCGAAAGACATAGGTAATACTGT
98966 CCATATGTCCCAAAAGACAT-GTAA-TATG
66 CCATATGTCCCAAAAGACATAGTAATTATG
* * *
98994 TCCATATGTCCTGAAAGACATAGGTAATTCTATCTATATGTCCCGAAAGACATAGGTAATACTGT
1 TCCATATGTCCTGAAAGACATAGGTAATTCTGTCCAAATGTCCCGAAAGACATAGGTAATACTGT
*
99059 CCATATGTCCCAAAAGACATAGGTAATTATA
66 CCATATGTCCCAAAAGACATA-GTAATTATG
* * * * * *
99090 TCCATATGTCCAGAAAGACGTAGGTAATTATGTCTAAATGCCCCGAAAGACATAGGTAATACTAT
1 TCCATATGTCCTGAAAGACATAGGTAATTCTGTCCAAATGTCCCGAAAGACATAGGTAATACTGT
*
99155 CCATATGTCCCGAAAGACATAGGTAATTATG
66 CCATATGTCCCAAAAGACATA-GTAATTATG
99186 TCCATATGT-CTCGAAAGACATAGGTAAT
1 TCCATATGTCCT-GAAAGACATAGGTAAT
99214 ACCCGACTCT
Statistics
Matches: 272, Mismatches: 29, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
91 12 0.04
92 24 0.09
93 117 0.43
95 5 0.02
96 114 0.42
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (95 bp):
TCCATATGTCCTGAAAGACATAGGTAATTCTGTCCAAATGTCCCGAAAGACATAGGTAATACTGT
CCATATGTCCCAAAAGACATAGTAATTATG
Found at i:103187 original size:21 final size:22
Alignment explanation
Indices: 103147--103199 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
103137 AATTCCAGAA
* *
103147 TGCTACAGGGGTATCGATACCC-
1 TGCTACA-GTGTACCGATACCCT
103169 TGCTACAGTGTACCGATACCCT
1 TGCTACAGTGTACCGATACCCT
103191 TGCTACAGT
1 TGCTACAGT
103200 AATTTCGGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 12 0.43
22 16 0.57
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (22 bp):
TGCTACAGTGTACCGATACCCT
Found at i:103526 original size:3 final size:3
Alignment explanation
Indices: 103518--103554 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
103508 AGGTATAAAT
103518 ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
103555 GCATTTCATA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:103795 original size:20 final size:21
Alignment explanation
Indices: 103770--103809 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
103760 AGAACATATG
103770 TAATGTCC-ATGTCCCGAATA
1 TAATGTCCAATGTCCCGAATA
103790 TAATGTCCATATGTCCCGAA
1 TAATGTCCA-ATGTCCCGAA
103810 AGACATAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
22 10 0.56
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (21 bp):
TAATGTCCAATGTCCCGAATA
Found at i:103830 original size:32 final size:32
Alignment explanation
Indices: 103792--104103 Score: 383
Period size: 32 Copynumber: 10.0 Consensus size: 32
103782 CCCGAATATA
103792 ATGTCCATATGTCCCGAAAGACATAGGTAATT
1 ATGTCCATATGTCCCGAAAGACATAGGTAATT
103824 ATGTCCATATGTCCCGAAA-ACATAGGTAA-T
1 ATGTCCATATGTCCCGAAAGACATAGGTAATT
103854 ATGTCCATATGTCCC-AAAGACATAGGTAATT
1 ATGTCCATATGTCCCGAAAGACATAGGTAATT
* *
103885 CTGTTCATATGTCCCGAAAGACATAGGTAA-T
1 ATGTCCATATGTCCCGAAAGACATAGGTAATT
* * *
103916 ACCGTCAATATGTCCCAAAAGACATAGGTAATT
1 A-TGTCCATATGTCCCGAAAGACATAGGTAATT
* *
103949 -TGTCCATATGTCTCAAAAGACATAGGTAA-T
1 ATGTCCATATGTCCCGAAAGACATAGGTAATT
* * *
103979 ACTATCCATATGTCCCGAAAGACGTATGTAATT
1 A-TGTCCATATGTCCCGAAAGACATAGGTAATT
* *
104012 -TCATCCATATGTCCCAAAAGACATAGGT-A-T
1 AT-GTCCATATGTCCCGAAAGACATAGGTAATT
104042 -TGTCCATATGTCCCGAAAGACATAGGTAATT
1 ATGTCCATATGTCCCGAAAGACATAGGTAATT
* * * *
104073 CTGTCTATATGTCCTGAAAGACTTAGGTAAT
1 ATGTCCATATGTCCCGAAAGACATAGGTAAT
104104 ACTTGACTCT
Statistics
Matches: 245, Mismatches: 23, Indels: 24
0.84 0.08 0.08
Matches are distributed among these distances:
29 27 0.11
30 30 0.12
31 54 0.22
32 132 0.54
33 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (32 bp):
ATGTCCATATGTCCCGAAAGACATAGGTAATT
Found at i:104051 original size:156 final size:156
Alignment explanation
Indices: 103793--104103 Score: 432
Period size: 156 Copynumber: 2.0 Consensus size: 156
103783 CCGAATATAA
* * *
103793 TGTCCATATGTCCCGAAAGACATAGGTAATTATGTCCATATGTCCCGAAAACATAGGTAATATGT
1 TGTCCATATGTCCCAAAAGACATAGGTAATTATATCCATATGTCCCGAAAACATAGGTAATATAT
*
103858 CCATATGTCCCAAAGACATAGGTAATTCTGTTCATATGTCCCGAAAGACATAGGTAATACCGTCA
66 CCATATGTCCCAAAGACATAGGTAATTCTGTCCATATGTCCCGAAAGACATAGGTAATACCGTCA
103923 ATATGTCCCAAAAGACATAGGTAATT
131 ATATGTCCCAAAAGACATAGGTAATT
* * * *
103949 TGTCCATATGTCTCAAAAGACATAGGTAA-TACTATCCATATGTCCCGAAAGACGTATGTAATTT
1 TGTCCATATGTCCCAAAAGACATAGGTAATTA-TATCCATATGTCCCGAAA-ACATAGGTAATAT
* *
104013 CATCCATATGTCCCAAAAGACATAGGT-A-T-TGTCCATATGTCCCGAAAGACATAGGTAATTCT
64 -ATCCATATGTCCC-AAAGACATAGGTAATTCTGTCCATATGTCCCGAAAGACATAGGTAATACC
* ** *
104075 GTCTATATGTCCTGAAAGACTTAGGTAAT
127 GTCAATATGTCCCAAAAGACATAGGTAAT
104104 ACTTGACTCT
Statistics
Matches: 137, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
155 2 0.01
156 99 0.72
157 11 0.08
158 13 0.09
159 12 0.09
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (156 bp):
TGTCCATATGTCCCAAAAGACATAGGTAATTATATCCATATGTCCCGAAAACATAGGTAATATAT
CCATATGTCCCAAAGACATAGGTAATTCTGTCCATATGTCCCGAAAGACATAGGTAATACCGTCA
ATATGTCCCAAAAGACATAGGTAATT
Found at i:104103 original size:93 final size:93
Alignment explanation
Indices: 103793--104103 Score: 430
Period size: 93 Copynumber: 3.3 Consensus size: 93
103783 CCGAATATAA
*
103793 TGTCCATATGTCCCGAAAGACATAGGTAATTAT-GTCCATATGTCCCGAAA-ACATAGGTAATAT
1 TGTCCATATGTCCCGAAAGACATAGGTAATT-TCGTCCATATGTCCCAAAAGACATAGGTAAT-T
103856 GTCCATATGTCCCAAAGACATAGGTAATTC
64 GTCCATATGTCCCAAAGACATAGGTAATTC
* ** *
103886 TGTTCATATGTCCCGAAAGACATAGGTAATACCGTCAATATGTCCCAAAAGACATAGGTAATTTG
1 TGTCCATATGTCCCGAAAGACATAGGTAATTTCGTCCATATGTCCCAAAAGACATAGGTAA-TTG
* *
103951 TCCATATGTCTCAAAAGACATAGGTAATAC
65 TCCATATGTC-CCAAAGACATAGGTAATTC
* * * *
103981 TATCCATATGTCCCGAAAGACGTATGTAATTTCATCCATATGTCCCAAAAGACATAGGT-ATTGT
1 TGTCCATATGTCCCGAAAGACATAGGTAATTTCGTCCATATGTCCCAAAAGACATAGGTAATTGT
104045 CCATATGTCCCGAAAGACATAGGTAATTC
66 CCATATGTCCC-AAAGACATAGGTAATTC
* * *
104074 TGTCTATATGTCCTGAAAGACTTAGGTAAT
1 TGTCCATATGTCCCGAAAGACATAGGTAAT
104104 ACTTGACTCT
Statistics
Matches: 191, Mismatches: 22, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
92 1 0.01
93 98 0.51
94 23 0.12
95 69 0.36
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (93 bp):
TGTCCATATGTCCCGAAAGACATAGGTAATTTCGTCCATATGTCCCAAAAGACATAGGTAATTGT
CCATATGTCCCAAAGACATAGGTAATTC
Done.