Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008756.1 Hibiscus syriacus cultivar Beakdansim tig00111848_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: 4584045
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 21
Found at i:4271341 original size:13 final size:13
Alignment explanation
Indices: 4271323--4271412 Score: 108
Period size: 13 Copynumber: 6.5 Consensus size: 13
4271313 CAACGGTCAA
4271323 CGGGTCAACGGGT
1 CGGGTCAACGGGT
4271336 CGGGTCAACGGGT
1 CGGGTCAACGGGT
4271349 CGGGTCAACGGGTTGGGT
1 CGGGTCAAC-----GGGT
*
4271367 CGGGTCAACTGGT
1 CGGGTCAACGGGT
*
4271380 CGGGTAAACGGGT
1 CGGGTCAACGGGT
*
4271393 CGGGTAAACGGGT
1 CGGGTCAACGGGT
4271406 CGGGTCA
1 CGGGTCA
4271413 TGACCGGTCA
Statistics
Matches: 68, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
13 55 0.81
18 13 0.19
ACGTcount: A:0.17, C:0.20, G:0.46, T:0.18
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:4271354 original size:18 final size:18
Alignment explanation
Indices: 4271344--4271384 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
4271334 GTCGGGTCAA
4271344 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
* *
4271362 TGGGTCGGGTCAACTGGT
1 CGGGTCGGGTCAACGGGT
4271380 CGGGT
1 CGGGT
4271385 AAACGGGTCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.20, G:0.49, T:0.22
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:4271370 original size:31 final size:31
Alignment explanation
Indices: 4271331--4271397 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
4271321 AACGGGTCAA
*
4271331 CGGGTCGGGTCAACGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGTCGGGTAAACGGGT
* *
4271362 TGGGTCGGGTCAACTGGTCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGTCGGGTAAACGGGT
4271393 CGGGT
1 CGGGT
4271398 AAACGGGTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.13, C:0.19, G:0.48, T:0.19
Consensus pattern (31 bp):
CGGGTCGGGTCAACGGGTCGGGTAAACGGGT
Found at i:4271381 original size:44 final size:44
Alignment explanation
Indices: 4271323--4271411 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
4271313 CAACGGTCAA
* * *
4271323 CGGGTCAACGGGTCGGGTCAACGGGTCGGGTCAACGGGTTGGGT
1 CGGGTCAACGGGTCGGGTAAACGGGTCGGGTAAACGGGTCGGGT
*
4271367 CGGGTCAACTGGTCGGGTAAACGGGTCGGGTAAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGTAAACGGGTCGGGTAAACGGGTCGGGT
4271411 C
1 C
4271412 ATGACCGGTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.16, C:0.20, G:0.46, T:0.18
Consensus pattern (44 bp):
CGGGTCAACGGGTCGGGTAAACGGGTCGGGTAAACGGGTCGGGT
Found at i:4273462 original size:35 final size:35
Alignment explanation
Indices: 4273389--4273463 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
4273379 CGTCACTAAC
**
4273389 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
*
4273424 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
4273459 AGTAA
1 AGTAA
4273464 TCTTCCTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.29, G:0.28, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:4273615 original size:19 final size:19
Alignment explanation
Indices: 4273573--4273615 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
4273563 GTCATGTATC
*
4273573 AGATC-AGAATCCATGTCA
1 AGATCAAGAATCCAGGTCA
*
4273591 ATATCAAGAATCCAGGTCA
1 AGATCAAGAATCCAGGTCA
*
4273610 GGATCA
1 AGATCA
4273616 TAATAGAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (19 bp):
AGATCAAGAATCCAGGTCA
Found at i:4274753 original size:18 final size:18
Alignment explanation
Indices: 4274732--4274767 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4274722 CTTCCATCCG
*
4274732 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
4274750 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
4274768 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:4276037 original size:10 final size:9
Alignment explanation
Indices: 4276024--4276071 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 9
4276014 GTCAAAGTTT
4276024 TGGTCAACAG
1 TGGTCAAC-G
4276034 TGGTCAACG
1 TGGTCAACG
4276043 TGGGTCAAC-
1 T-GGTCAACG
4276052 -GGTCAACG
1 TGGTCAACG
4276060 -GGTCAACG
1 TGGTCAACG
4276068 -GGTC
1 TGGTC
4276072 GGGTCAACGG
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.19
8 12 0.33
9 2 0.06
10 15 0.42
ACGTcount: A:0.23, C:0.23, G:0.35, T:0.19
Consensus pattern (9 bp):
TGGTCAACG
Found at i:4276065 original size:8 final size:8
Alignment explanation
Indices: 4276025--4276096 Score: 59
Period size: 8 Copynumber: 9.4 Consensus size: 8
4276015 TCAAAGTTTT
4276025 GGTCAACAG
1 GGTCAAC-G
4276034 TGGTCAACGTG
1 -GGTCAAC--G
4276045 GGTCAAC-
1 GGTCAACG
4276052 GGTCAACG
1 GGTCAACG
4276060 GGTCAACG
1 GGTCAACG
4276068 GGT---CG
1 GGTCAACG
4276073 GGTCAACG
1 GGTCAACG
4276081 GGT---CG
1 GGTCAACG
4276086 GGTCAACG
1 GGTCAACG
4276094 GGT
1 GGT
4276097 TGGGTCGGGT
Statistics
Matches: 53, Mismatches: 1, Indels: 18
0.74 0.01 0.25
Matches are distributed among these distances:
5 10 0.19
7 7 0.13
8 21 0.40
10 14 0.26
11 1 0.02
ACGTcount: A:0.21, C:0.22, G:0.40, T:0.17
Consensus pattern (8 bp):
GGTCAACG
Found at i:4276076 original size:13 final size:13
Alignment explanation
Indices: 4276058--4276147 Score: 108
Period size: 13 Copynumber: 6.5 Consensus size: 13
4276048 CAACGGTCAA
4276058 CGGGTCAACGGGT
1 CGGGTCAACGGGT
4276071 CGGGTCAACGGGT
1 CGGGTCAACGGGT
4276084 CGGGTCAACGGGTTGGGT
1 CGGGTCAAC-----GGGT
*
4276102 CGGGTCAACTGGT
1 CGGGTCAACGGGT
*
4276115 CGGGTAAACGGGT
1 CGGGTCAACGGGT
*
4276128 CGGGTAAACGGGT
1 CGGGTCAACGGGT
4276141 CGGGTCA
1 CGGGTCA
4276148 TGACCGGTCA
Statistics
Matches: 68, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
13 55 0.81
18 13 0.19
ACGTcount: A:0.17, C:0.20, G:0.46, T:0.18
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:4276089 original size:18 final size:18
Alignment explanation
Indices: 4276079--4276119 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
4276069 GTCGGGTCAA
4276079 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
* *
4276097 TGGGTCGGGTCAACTGGT
1 CGGGTCGGGTCAACGGGT
4276115 CGGGT
1 CGGGT
4276120 AAACGGGTCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.20, G:0.49, T:0.22
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:4276105 original size:31 final size:31
Alignment explanation
Indices: 4276066--4276132 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
4276056 AACGGGTCAA
*
4276066 CGGGTCGGGTCAACGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGTCGGGTAAACGGGT
* *
4276097 TGGGTCGGGTCAACTGGTCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGTCGGGTAAACGGGT
4276128 CGGGT
1 CGGGT
4276133 AAACGGGTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.13, C:0.19, G:0.48, T:0.19
Consensus pattern (31 bp):
CGGGTCGGGTCAACGGGTCGGGTAAACGGGT
Found at i:4276116 original size:44 final size:44
Alignment explanation
Indices: 4276058--4276146 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
4276048 CAACGGTCAA
* * *
4276058 CGGGTCAACGGGTCGGGTCAACGGGTCGGGTCAACGGGTTGGGT
1 CGGGTCAACGGGTCGGGTAAACGGGTCGGGTAAACGGGTCGGGT
*
4276102 CGGGTCAACTGGTCGGGTAAACGGGTCGGGTAAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGTAAACGGGTCGGGTAAACGGGTCGGGT
4276146 C
1 C
4276147 ATGACCGGTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.16, C:0.20, G:0.46, T:0.18
Consensus pattern (44 bp):
CGGGTCAACGGGTCGGGTAAACGGGTCGGGTAAACGGGTCGGGT
Found at i:4277180 original size:21 final size:21
Alignment explanation
Indices: 4277154--4277195 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4277144 CCAGAATGGG
*
4277154 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
4277175 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
4277196 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:4277374 original size:29 final size:31
Alignment explanation
Indices: 4277342--4277401 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
4277332 AAATTTTGAA
*
4277342 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
4277371 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
4277402 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:4278645 original size:17 final size:16
Alignment explanation
Indices: 4278618--4278660 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
4278608 ATGAAGGCTT
4278618 TTATATCTCTTCATCTTC
1 TTAT-TCTCTTCAT-TTC
*
4278636 TTATTCTCTTCATTTT
1 TTATTCTCTTCATTTC
4278652 TTATT-TCTT
1 TTATTCTCTT
4278661 TCTCATTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 7 0.29
17 9 0.38
18 4 0.17
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATTCTCTTCATTTC
Found at i:4282026 original size:19 final size:20
Alignment explanation
Indices: 4281980--4282027 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
4281970 AACTTTGGGC
4281980 ATCAATACCCGAAGAATAAT
1 ATCAATACCCGAAGAATAAT
**
4282000 ATTGATACCC-AATGAA-AAT
1 ATCAATACCCGAA-GAATAAT
4282019 ATCAATACC
1 ATCAATACC
4282028 ACAAGCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.48, C:0.21, G:0.08, T:0.23
Consensus pattern (20 bp):
ATCAATACCCGAAGAATAAT
Found at i:4283271 original size:23 final size:23
Alignment explanation
Indices: 4283228--4283285 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
4283218 TAAACATATT
* * *
4283228 CATTTAACGTTTGTCAGTATGTA
1 CATTTAATGTTTGTAAATATGTA
*
4283251 CATTTAATGTTTGTAAATATGTT
1 CATTTAATGTTTGTAAATATGTA
*
4283274 CGTTTAATGTTT
1 CATTTAATGTTT
4283286 TTGGTAACCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.26, C:0.09, G:0.16, T:0.50
Consensus pattern (23 bp):
CATTTAATGTTTGTAAATATGTA
Found at i:4284432 original size:2 final size:2
Alignment explanation
Indices: 4284425--4284449 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4284415 CTAGTTCAGG
4284425 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4284450 CGCAGATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4287344 original size:16 final size:17
Alignment explanation
Indices: 4287320--4287362 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
4287310 TAAAGATAGT
*
4287320 AATATTAAAAAT-AATA
1 AATAATAAAAATAAATA
4287336 AATAATAAAAATAAAATA
1 AATAATAAAAAT-AAATA
4287354 AA-AATAAAA
1 AATAATAAAA
4287363 TATTAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 11 0.46
17 7 0.29
18 6 0.25
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
AATAATAAAAATAAATA
Found at i:4287370 original size:17 final size:18
Alignment explanation
Indices: 4287326--4287371 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
4287316 TAGTAATATT
4287326 AAAA-ATAATAAATAATA
1 AAAATATAATAAATAATA
*
4287343 AAAATAAAATAAA-AAT-
1 AAAATATAATAAATAATA
4287359 AAAATATTAATAA
1 AAAATA-TAATAA
4287372 TCGATAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 6 0.24
17 12 0.48
18 7 0.28
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATATAATAAATAATA
Found at i:4287371 original size:11 final size:11
Alignment explanation
Indices: 4287327--4287364 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
4287317 AGTAATATTA
4287327 AAAATAATAAAT
1 AAAATAA-AAAT
4287339 --AATAAAAAT
1 AAAATAAAAAT
4287348 AAAATAAAAAT
1 AAAATAAAAAT
4287359 AAAATA
1 AAAATA
4287365 TTAATAATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.17
10 5 0.21
11 15 0.62
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:4303357 original size:9 final size:9
Alignment explanation
Indices: 4303345--4303378 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
4303335 TAATATTTTG
4303345 TATTTAATT
1 TATTTAATT
*
4303354 TATTTAA-G
1 TATTTAATT
4303362 TATTTAATT
1 TATTTAATT
4303371 TATTTAAT
1 TATTTAAT
4303379 ATTTTACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TATTTAATT
Found at i:4303384 original size:17 final size:17
Alignment explanation
Indices: 4303344--4303382 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
4303334 TTAATATTTT
4303344 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
4303361 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
4303378 -TATTT
1 GTATTT
4303383 TACTTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:4305148 original size:33 final size:33
Alignment explanation
Indices: 4305121--4305198 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
4305111 CCTTCACCTG
* * *
4305121 GTTTTATGACCTCATCGTCTCCACCTTCACAGA
1 GTTTTATGACCCCACCATCTCCACCTTCACAGA
*
4305154 GTTTTATGACCCCGCCATCTCCACCTTCACAGA
1 GTTTTATGACCCCACCATCTCCACCTTCACAGA
4305187 GTTTTATGACCC
1 GTTTTATGACCC
4305199 TTCCTGGAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.32
Consensus pattern (33 bp):
GTTTTATGACCCCACCATCTCCACCTTCACAGA
Found at i:4305631 original size:26 final size:26
Alignment explanation
Indices: 4305598--4305658 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
4305588 TAGATTTTGT
* *
4305598 TTTTTTATTATATTTGTATT-TAGTAC
1 TTTTTTATTATAGTTGT-TTATAGGAC
* *
4305624 TTTTTTATTGTAGTTGTTTATTGGAC
1 TTTTTTATTATAGTTGTTTATAGGAC
4305650 TTTTTTATT
1 TTTTTTATT
4305659 GTAATTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 2 0.07
26 28 0.93
ACGTcount: A:0.18, C:0.03, G:0.11, T:0.67
Consensus pattern (26 bp):
TTTTTTATTATAGTTGTTTATAGGAC
Found at i:4305645 original size:13 final size:13
Alignment explanation
Indices: 4305624--4305671 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
4305614 TATTTAGTAC
*
4305624 TTTTTTATTGTAG
1 TTTTTTATTGTAA
* * *
4305637 TTGTTTATTGGAC
1 TTTTTTATTGTAA
4305650 TTTTTTATTGTAA
1 TTTTTTATTGTAA
4305663 TTTTTTATT
1 TTTTTTATT
4305672 ATTTATCATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.17, C:0.02, G:0.12, T:0.69
Consensus pattern (13 bp):
TTTTTTATTGTAA
Found at i:4305659 original size:26 final size:26
Alignment explanation
Indices: 4305622--4305671 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
4305612 TGTATTTAGT
*
4305622 ACTTTTTTATTGTAGTTGTTTATTGG
1 ACTTTTTTATTGTAATTGTTTATTGG
*
4305648 ACTTTTTTATTGTAATTTTTTATT
1 ACTTTTTTATTGTAATTGTTTATT
4305672 ATTTATCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.18, C:0.04, G:0.12, T:0.66
Consensus pattern (26 bp):
ACTTTTTTATTGTAATTGTTTATTGG
Found at i:4305734 original size:33 final size:33
Alignment explanation
Indices: 4305687--4305773 Score: 104
Period size: 33 Copynumber: 2.6 Consensus size: 33
4305677 TCATTTAATA
* *
4305687 TTTACTTTAATTTGTTAATATGGTTGGA-TTTAT
1 TTTAATTTATTTTGTTAATATGGTTGGACTTT-T
* *
4305720 TTTAATTTATTTTGTTAATTTTGTTGGACTTTT
1 TTTAATTTATTTTGTTAATATGGTTGGACTTTT
4305753 TGTTAATTTATTTTGCTTAAT
1 T-TTAATTTATTTTG-TTAAT
4305774 TTTGTTTATC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
33 26 0.55
34 16 0.34
35 5 0.11
ACGTcount: A:0.22, C:0.03, G:0.13, T:0.62
Consensus pattern (33 bp):
TTTAATTTATTTTGTTAATATGGTTGGACTTTT
Found at i:4310279 original size:19 final size:18
Alignment explanation
Indices: 4310245--4310289 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 18
4310235 TAATAGTGAA
4310245 TTATTATAAAATATATTT
1 TTATTATAAAATATATTT
*
4310263 TTATTATAATTATATATTT
1 TTATTATAA-AATATATTT
4310282 TTATTATA
1 TTATTATA
4310290 GTTTAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTATAAAATATATTT
Found at i:4310313 original size:24 final size:25
Alignment explanation
Indices: 4310272--4310352 Score: 78
Period size: 24 Copynumber: 3.2 Consensus size: 25
4310262 TTTATTATAA
*
4310272 TTATATATTTTTATTATAGTTTAAAT
1 TTATATA-ATTTATTATAGTTTAAAT
*
4310298 TTATATAATTTA-TATA-TATTAACT
1 TTATATAATTTATTATAGT-TTAAAT
*
4310322 TT-TTTGAATTTATTATAGTTTAAAT
1 TTATAT-AATTTATTATAGTTTAAAT
*
4310347 TGATAT
1 TTATAT
4310353 GATTAATATA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
23 3 0.07
24 17 0.39
25 14 0.32
26 10 0.23
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (25 bp):
TTATATAATTTATTATAGTTTAAAT
Found at i:4317377 original size:62 final size:64
Alignment explanation
Indices: 4317309--4317431 Score: 196
Period size: 62 Copynumber: 1.9 Consensus size: 64
4317299 GCATTTTGGG
* *
4317309 ATAATATTTGATCAATTGATTGATACTGCTAGTGACCACT-C-CATGTATTTTGGCATTTTACA
1 ATAATATTTGATCAATTGATTGATACTGCTAGAGACCACTCCTCATGTAATTTGGCATTTTACA
*
4317371 ATAATATTTGATCACTTGATTGATACTGCTAGAGACCACTCCTTCATGTAATTTGGCATTT
1 ATAATATTTGATCAATTGATTGATACTGCTAGAGACCACTCC-TCATGTAATTTGGCATTT
4317432 CAGACATAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
62 38 0.69
63 1 0.02
65 16 0.29
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (64 bp):
ATAATATTTGATCAATTGATTGATACTGCTAGAGACCACTCCTCATGTAATTTGGCATTTTACA
Found at i:4323561 original size:21 final size:21
Alignment explanation
Indices: 4323512--4323563 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
4323502 TTTGTTTCAT
*
4323512 TGAAGCCAGGTTTTGATTTCTG
1 TGAA-CCAGATTTTGATTTCTG
*
4323534 TGTACCAGATTTTGATTTAC-G
1 TGAACCAGATTTTGATTT-CTG
4323555 TGAACCAGA
1 TGAACCAGA
4323564 AACCTTAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (21 bp):
TGAACCAGATTTTGATTTCTG
Found at i:4325230 original size:194 final size:195
Alignment explanation
Indices: 4324900--4325288 Score: 762
Period size: 194 Copynumber: 2.0 Consensus size: 195
4324890 TAGCTATTAA
4324900 GATCTTATCATGGGTTATACTTAGTATTTTAAAATATCTTATCATTTTTTTTTAATAAAAAGGGA
1 GATCTTATCATGGGTTATACTTAGTATTTTAAAATATCTTATCATTTTTTTTTAATAAAAAGGGA
4324965 GGCCTCGTTAAAAACCCCCATCATAACCATCAAGCTACAAGAGTGGCTCAACGGACATTGAAAGG
66 GGCCTCGTTAAAAACCCCCATCATAACCATCAAGCTACAAGAGTGGCTCAACGGACATTGAAAGG
4325030 AGGAAAAGAGTGCCTCAAAATTTTATTGCATAGATACCAAGTACAAGAGTACAATACCACCAAAC
131 AGGAAAAGAGTGCCTCAAAATTTTATTGCATAGATACCAAGTACAAGAGTACAATACCACCAAAC
4325095 GATCTTATCATGGGTTATACTTAGTATTTTAAAATATCTTATCA-TTTTTTTTAATAAAAAGGGA
1 GATCTTATCATGGGTTATACTTAGTATTTTAAAATATCTTATCATTTTTTTTTAATAAAAAGGGA
*
4325159 GGCCTCGTTAAAATCCCCCATCATAACCATCAAGCTACAAGAGTGGCTCAACGGACATTGAAAGG
66 GGCCTCGTTAAAAACCCCCATCATAACCATCAAGCTACAAGAGTGGCTCAACGGACATTGAAAGG
4325224 AGGAAAAGAGTGCCTCAAAATTTTATTGCATAGATACCAAGTACAAGAGTACAATACCACCAAAC
131 AGGAAAAGAGTGCCTCAAAATTTTATTGCATAGATACCAAGTACAAGAGTACAATACCACCAAAC
4325289 ACTACCTGAC
Statistics
Matches: 193, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
194 149 0.77
195 44 0.23
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (195 bp):
GATCTTATCATGGGTTATACTTAGTATTTTAAAATATCTTATCATTTTTTTTTAATAAAAAGGGA
GGCCTCGTTAAAAACCCCCATCATAACCATCAAGCTACAAGAGTGGCTCAACGGACATTGAAAGG
AGGAAAAGAGTGCCTCAAAATTTTATTGCATAGATACCAAGTACAAGAGTACAATACCACCAAAC
Found at i:4325655 original size:20 final size:20
Alignment explanation
Indices: 4325630--4325671 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
4325620 TTAAGTTACA
4325630 GTCACAGAAAGTTTGAAGGG
1 GTCACAGAAAGTTTGAAGGG
4325650 GTCACAGAAAGTTTGAAGGG
1 GTCACAGAAAGTTTGAAGGG
4325670 GT
1 GT
4325672 GACAATAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.10, G:0.36, T:0.21
Consensus pattern (20 bp):
GTCACAGAAAGTTTGAAGGG
Found at i:4336718 original size:30 final size:30
Alignment explanation
Indices: 4336684--4336743 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
4336674 ATTTCTGGTC
*
4336684 AAATTAATATTTTATCTAAAATTT-AAGATT
1 AAATTAATACTTTATCT-AAATTTCAAGATT
4336714 AAATTAATACTTTATCTAAATTTCAAGATT
1 AAATTAATACTTTATCTAAATTTCAAGATT
4336744 TTAAATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 6 0.21
30 22 0.79
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (30 bp):
AAATTAATACTTTATCTAAATTTCAAGATT
Found at i:4339470 original size:932 final size:930
Alignment explanation
Indices: 4337647--4339508 Score: 3487
Period size: 932 Copynumber: 2.0 Consensus size: 930
4337637 CGCCACTGGA
4337647 GTTGGAATCTGAATTTTACTGGTTTTTTTTTAGATTATGGTGTTGTTACTATTGCTGAACTGAAA
1 GTTGGAATCTGAATTTTACTGGTTTTTTTTTAGATTATGGTGTTGTTACTATTGCTGAACTGAAA
4337712 AACGGTTTATCTGGGAAGAGATCTTTTCGTCCGAATTCAAGTACAAGGCATGCCACTGAATGGTA
66 AACGGTTTATCTGGGAAGAGATCTTTTCGTCCGAATTCAAGTACAAGGCATGCCACTGAATGGTA
4337777 TGGTACAAGTACAACATTTTTTTCCTGTTTGTTTCCATGAAGAAAAAAAAGCTAGCTTTGTTGCA
131 TGGTACAAGTACAACATTTTTTTCCTGTTTGTTTCCATGAAGAAAAAAAAGCTAGCTTTGTTGCA
4337842 GGGTAGTTTTAAGGTTACTTTCACAGTTTCACACTTTCACCTACATATGATAGTCTATTTTCACT
196 GGGTAGTTTTAAGGTTACTTTCACAGTTTCACACTTTCACCTACATATGATAGTCTATTTTCACT
*
4337907 CATACATCTCGAATTTAATTCGGAAAACGATATTTTCCAACTCTATTCTTTAGTTCTGACAAAAC
261 CATACATCTCGAATTTAATTCGGAAAACGATATTTTCCAACTCTATTATTTAGTTCTGACAAAAC
4337972 CAACAACAGATTTATTGCTGTTGTGTACTATTTCCTAGGTGATCATATATATGCAAGAGTGCAAC
326 CAACAACAGATTTATTGCTGTTGTGTACTATTTCCTAGGTGATCATATATATGCAAGAGTGCAAC
4338037 CTTCTTTGGTTGGTTTCTGTTTAAAGTTTGAGCATGTTCATAGATGCTTCCAGTCAGTTATCTGC
391 CTTCTTTGGTTGGTTTCTGTTTAAAGTTTGAGCATGTTCATAGATGCTTCCAGTCAGTTATCTGC
*
4338102 CTCATCTAAGGGCCCTCTAATAGACAGCACCACTTGCTGATAGCCATTGAGACAGTCGGTGTCGA
456 CTCATCTAAGGGCCCTCTAATAGACAGCACCACTTGCTGATAGCCATTGAAACAGTCGGTGTCGA
4338167 ATGCGACGGGTTAACGCCTTTTCGAGCTGCGATCTCGACCTTATATGTCGTTCCACTTCAATCAA
521 ATGCGACGGGTTAACGCCTTTTCGAGCTGCGATCTCGACCTTATATGTCGTTCCACTTCAATCAA
4338232 CAACGACAAACATGTACGAGAAAAATCGTACACGCAGTACTTTTTAGCCTGACAAACCTTCTTGT
586 CAACGACAAACATGTACGAGAAAAATCGTACACGCAGTACTTTTTAGCCTGACAAACCTTCTTGT
4338297 TTTCTCACCGATTAATGCAAAACAAAACAGCAACTCAAAAAATAACTCTGGTTCAGCTTTTATTG
651 TTTCTCACCGATTAATGCAAAACAAAACAGCAACTCAAAAAATAACTCTGGTTCAGCTTTTATTG
4338362 CCTTACTCTTGCTGTTGAGAGCAACACCACTCATGTTATAAAATTATGAGTTGTCAGTTTTCCAA
716 CCTTACTCTTGCTGTTGAGAGCAACACCACTCATGTTATAAAATTATGAGTTGTCAGTTTTCCAA
4338427 CACGGGGCCTCCATTGTCGAACCAGAGAATCAAGACAAACTTTGTCCAAATCTTAAACACGTTCT
781 CACGGGGCCTCCATTGTCGAACCAGAGAATCAAGACAAACTTTGTCCAAATCTTAAACACGTTCT
4338492 CAATGAAAACAAACAGTTGACCGAACTGGTGGAGGGGAATTTATGGTTTCAAGCATTGGAATGTA
846 CAATGAAAACAAACAGTTGACCGAACTGGTGGAGGGGAATTTATGGTTTCAAGCATTGGAATGTA
4338557 GGATTATGGGAAAAAACTAG
911 GGATTATGGGAAAAAACTAG
*
4338577 GTTGGAATCTGAATTTTACTGG-TTTTTTTTATA-TATGGGTGTTGTTACTATTGCTGAACT-AA
1 GTTGGAATCTGAATTTTACTGGTTTTTTTTTAGATTAT-GGTGTTGTTACTATTGCTGAACTGAA
4338639 AAACAGGTTTATCTGGGAAGAGATCTTTTCGTCCGAATTCAAGTACAAGGCATGCCACTGAATGG
65 AAAC-GGTTTATCTGGGAAGAGATCTTTTCGTCCGAATTCAAGTACAAGGCATGCCACTGAATGG
4338704 TATGGTACAAGTACAACATTTTTTTCCTGTTTGTTTCCATGAAGAAAAAAAAGCTAGCTTTGTTG
129 TATGGTACAAGTACAACATTTTTTTCCTGTTTGTTTCCATGAAGAAAAAAAAGCTAGCTTTGTTG
4338769 CAGGGTAGTTTTAAGGTTACTTTCACAGTTTCACACTTTCACTCCTACATATGATAGTCTATTTT
194 CAGGGTAGTTTTAAGGTTACTTTCACAGTTTCACACTTTCA--CCTACATATGATAGTCTA-TTT
4338834 TCACTCATACATCTCGAATTTAATTCGGAAAACGATATTTTCCAACTCTATTATTTA-TTCTGAC
256 TCACTCATACATCTCGAATTTAATTCGGAAAACGATATTTTCCAACTCTATTATTTAGTTCTGAC
4338898 AAAACCAACAACAGATTTATTGCTGTTGTGTACTATTTCCTAGGTGATCATAATATATGCAAGAG
321 AAAACCAACAACAGATTTATTGCTGTTGTGTACTATTTCCTAGGTGATCAT-ATATATGCAAGAG
4338963 TGCAACCTTCTTTGGTTGGTTTCTGTTTAAAGTTTGAGCATGTTCATAGATGCTTCCAGTCAGTT
385 TGCAACCTTCTTTGGTTGGTTTCTGTTTAAAGTTTGAGCATGTTCATAGATGCTTCCAGTCAGTT
4339028 ATCTG-CTCATCTAAGGGCCCTCTAATAGACAGCACCACTTGCTGATAAGCCATTGAAACAGTCG
450 ATCTGCCTCATCTAAGGGCCCTCTAATAGACAGCACCACTTGCTGAT-AGCCATTGAAACAGTCG
4339092 GTGTCGAATGCGACGGGTTAACGCCTTTTCGAGCTGCGATCTCGACCTTATATGTCGTTCCACTT
514 GTGTCGAATGCGACGGGTTAACGCCTTTTCGAGCTGCGATCTCGACCTTATATGTCGTTCCACTT
4339157 CAATCAACAACGACAAACATGTACGAG-AAAATCGTACAACGCAGTTACTTTTTTAGCCTGACAA
579 CAATCAACAACGACAAACATGTACGAGAAAAATCGTAC-ACGCAG-TAC-TTTTTAGCCTGACAA
4339221 ACCTTCTTG-TTTCTCACCGATTAATGCAAAACAAAACA-CAACTC-AAAAATAACTCTGGTTCA
641 ACCTTCTTGTTTTCTCACCGATTAATGCAAAACAAAACAGCAACTCAAAAAATAACTCTGGTTCA
4339283 GCTTTTATTGCCTTACTCTTGCTGTTTGAGAGCAAACACCACTCATGTTATAAAATTATTGAGTT
706 GCTTTTATTGCCTTACTCTTGCTG-TTGAGAGC-AACACCACTCATGTTATAAAATTA-TGAGTT
4339348 GTCAGTTTTCCAACAC-GGGCCTCCATTGTCGAACCAGAGAATC-AGACAAACTTTGTCCAAATC
768 GTCAGTTTTCCAACACGGGGCCTCCATTGTCGAACCAGAGAATCAAGACAAACTTTGTCCAAATC
4339411 TT-AACACGTTCTCAATGAAAACATAACAGTTGACCGAACTGGTGGAGGGGAATTTATGGTTTCA
833 TTAAACACGTTCTCAATGAAAACA-AACAGTTGACCGAACTGGTGGAGGGGAATTTATGGTTTCA
4339475 AGCATTGGAATGTAGGATTATGGGAAAAAACTAG
897 AGCATTGGAATGTAGGATTATGGGAAAAAACTAG
4339509 CAATACGATA
Statistics
Matches: 915, Mismatches: 3, Indels: 26
0.97 0.00 0.03
Matches are distributed among these distances:
928 9 0.01
929 199 0.22
930 22 0.02
931 190 0.21
932 366 0.40
933 83 0.09
934 46 0.05
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (930 bp):
GTTGGAATCTGAATTTTACTGGTTTTTTTTTAGATTATGGTGTTGTTACTATTGCTGAACTGAAA
AACGGTTTATCTGGGAAGAGATCTTTTCGTCCGAATTCAAGTACAAGGCATGCCACTGAATGGTA
TGGTACAAGTACAACATTTTTTTCCTGTTTGTTTCCATGAAGAAAAAAAAGCTAGCTTTGTTGCA
GGGTAGTTTTAAGGTTACTTTCACAGTTTCACACTTTCACCTACATATGATAGTCTATTTTCACT
CATACATCTCGAATTTAATTCGGAAAACGATATTTTCCAACTCTATTATTTAGTTCTGACAAAAC
CAACAACAGATTTATTGCTGTTGTGTACTATTTCCTAGGTGATCATATATATGCAAGAGTGCAAC
CTTCTTTGGTTGGTTTCTGTTTAAAGTTTGAGCATGTTCATAGATGCTTCCAGTCAGTTATCTGC
CTCATCTAAGGGCCCTCTAATAGACAGCACCACTTGCTGATAGCCATTGAAACAGTCGGTGTCGA
ATGCGACGGGTTAACGCCTTTTCGAGCTGCGATCTCGACCTTATATGTCGTTCCACTTCAATCAA
CAACGACAAACATGTACGAGAAAAATCGTACACGCAGTACTTTTTAGCCTGACAAACCTTCTTGT
TTTCTCACCGATTAATGCAAAACAAAACAGCAACTCAAAAAATAACTCTGGTTCAGCTTTTATTG
CCTTACTCTTGCTGTTGAGAGCAACACCACTCATGTTATAAAATTATGAGTTGTCAGTTTTCCAA
CACGGGGCCTCCATTGTCGAACCAGAGAATCAAGACAAACTTTGTCCAAATCTTAAACACGTTCT
CAATGAAAACAAACAGTTGACCGAACTGGTGGAGGGGAATTTATGGTTTCAAGCATTGGAATGTA
GGATTATGGGAAAAAACTAG
Found at i:4344155 original size:35 final size:35
Alignment explanation
Indices: 4344104--4344177 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
4344094 AACACAGTCA
* * *
4344104 TCAATTATATTCTAAACC-CTAAATTCCAAAATATT
1 TCAAATATATTCTAAACCTC-AAATTCAAAAATACT
4344139 TCAAATATATTCTAAACCTCAAATTCAAAAATACT
1 TCAAATATATTCTAAACCTCAAATTCAAAAATACT
4344174 TCAA
1 TCAA
4344178 TTACATGCCC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
35 34 0.97
36 1 0.03
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (35 bp):
TCAAATATATTCTAAACCTCAAATTCAAAAATACT
Found at i:4344623 original size:147 final size:144
Alignment explanation
Indices: 4344359--4344637 Score: 435
Period size: 143 Copynumber: 1.9 Consensus size: 144
4344349 CTCAATTCAA
*
4344359 TTTATAAAATAATTGACTCGAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGTCAAATT
1 TTTATAAAATAACTGACTCGAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAG----ATT
*
4344424 GAATTGAATTTTCGAGTTTCTGTTTAAATTTAATTATAAATATTTATCATATTATAATATTATTT
62 GAATTGAATTTTCAAGTTTCTGTTTAAATTTAATTATAAATATTTATCATATTATAATATTATTT
4344489 GATTCCAATTCAGTTTAG
127 GATTCCAATTCAGTTTAG
*
4344507 TTTATAAAATAGCTGACTCG-AATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAG-TTGAAT
1 TTTATAAAATAACTGACTCGAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGATTGAAT
4344570 TGAATTTTTCAAGTTTCTGTTTAAATTTAATTATAAATATTTAT-A-A-TAT-ATATTATTTGAT
66 TGAA-TTTTCAAGTTTCTGTTTAAATTTAATTATAAATATTTATCATATTATAATATTATTTGAT
*
4344631 TCTAATT
130 TCCAATT
4344638 TAATAGTTTT
Statistics
Matches: 126, Mismatches: 4, Indels: 11
0.89 0.03 0.08
Matches are distributed among these distances:
139 18 0.14
140 3 0.02
141 1 0.01
142 11 0.09
143 38 0.30
147 37 0.29
148 18 0.14
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (144 bp):
TTTATAAAATAACTGACTCGAAATTTTTTCGATTTGAGTTTATAAAATTTAAATCAAGATTGAAT
TGAATTTTCAAGTTTCTGTTTAAATTTAATTATAAATATTTATCATATTATAATATTATTTGATT
CCAATTCAGTTTAG
Found at i:4345175 original size:35 final size:35
Alignment explanation
Indices: 4345136--4345215 Score: 142
Period size: 35 Copynumber: 2.3 Consensus size: 35
4345126 GGGGTTGGGC
4345136 ATGTAATTGAAGTATTTTGGAATTTGAGGTTTAGA
1 ATGTAATTGAAGTATTTTGGAATTTGAGGTTTAGA
*
4345171 ATGTAATTGAAGTATTTTGGAATTTGGGGTTTAGA
1 ATGTAATTGAAGTATTTTGGAATTTGAGGTTTAGA
*
4345206 ATATAATTGA
1 ATGTAATTGA
4345216 TGAATGTGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.25, T:0.42
Consensus pattern (35 bp):
ATGTAATTGAAGTATTTTGGAATTTGAGGTTTAGA
Found at i:4346593 original size:31 final size:31
Alignment explanation
Indices: 4346555--4346613 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
4346545 GAGTGACTAT
4346555 TTTTGTTACAAATCAATAACATTAGTGATCA
1 TTTTGTTACAAATCAATAACATTAGTGATCA
* *
4346586 TTTTGTTATAAATCAATAATATTAGTGA
1 TTTTGTTACAAATCAATAACATTAGTGA
4346614 CCAATTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.42
Consensus pattern (31 bp):
TTTTGTTACAAATCAATAACATTAGTGATCA
Found at i:4349857 original size:70 final size:73
Alignment explanation
Indices: 4349744--4349888 Score: 269
Period size: 70 Copynumber: 2.0 Consensus size: 73
4349734 GTGCAGGGAC
4349744 GGAACTAAGATAGGATAGTGTTAGAGACCAAATTGCCAAGGGACCTAGAAA-T-TTTAAGCCAAA
1 GGAACTAAGATAGGATAGTGTTAGAGACCAAATTGCCAAGGGACCTAGAAAGTATTTAAGCCAAA
4349807 ATT-GAGG
66 ATTGGAGG
4349814 GGAACTAAGATAGGATAGTGTTAGAGACCAAATTGCCAAGGGACCTAGAAAGTATTTAAGCCAAA
1 GGAACTAAGATAGGATAGTGTTAGAGACCAAATTGCCAAGGGACCTAGAAAGTATTTAAGCCAAA
4349879 ATTGGAGG
66 ATTGGAGG
4349887 GG
1 GG
4349889 GACAAAAGGC
Statistics
Matches: 72, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
70 51 0.71
71 1 0.01
72 14 0.19
73 6 0.08
ACGTcount: A:0.39, C:0.12, G:0.28, T:0.21
Consensus pattern (73 bp):
GGAACTAAGATAGGATAGTGTTAGAGACCAAATTGCCAAGGGACCTAGAAAGTATTTAAGCCAAA
ATTGGAGG
Found at i:4350083 original size:73 final size:73
Alignment explanation
Indices: 4349997--4350142 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
4349987 CATGGTTGTC
4349997 AAGCCAATGGTATAGGTTTGTAGTTAAAACAATGTTCGGTCGAGTATTTGCACATTGATGAATGT
1 AAGCCAATGGTATAGGTTTGTAGTTAAAACAATGTTCGGTCGAGTATTTGCACATTGATGAATGT
4350062 TTTTTTTT
66 TTTTTTTT
4350070 AAGCCAATGGTATAGGTTTGTAGTTAAAACAATGTTCGGTCGAGTATTTGCACATTGATGAATGT
1 AAGCCAATGGTATAGGTTTGTAGTTAAAACAATGTTCGGTCGAGTATTTGCACATTGATGAATGT
4350135 TTTTTTTT
66 TTTTTTTT
4350143 TTCATGCAGG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (73 bp):
AAGCCAATGGTATAGGTTTGTAGTTAAAACAATGTTCGGTCGAGTATTTGCACATTGATGAATGT
TTTTTTTT
Found at i:4351105 original size:17 final size:17
Alignment explanation
Indices: 4351083--4351128 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
4351073 TTTGGAAGAA
4351083 GATTAAATGTTAAAAAT
1 GATTAAATGTTAAAAAT
**
4351100 GATTAAAT-TTTCAAAT
1 GATTAAATGTTAAAAAT
*
4351116 -ATCAAATGTTAAA
1 GATTAAATGTTAAA
4351129 TTTATTAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
15 6 0.26
16 9 0.39
17 8 0.35
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.37
Consensus pattern (17 bp):
GATTAAATGTTAAAAAT
Found at i:4358822 original size:127 final size:122
Alignment explanation
Indices: 4358680--4358930 Score: 382
Period size: 128 Copynumber: 2.0 Consensus size: 122
4358670 GGATGACACT
*
4358680 TTCTTATGAAGTTTCGTATACTC-TGAGAAAATGTATTTAAAAAGT-AAAATAAAAA-ATCTAAA
1 TTCTTATGAAGTTTCGTATACTCACGAGAAAATGTATTT-AAAAGTAAAAATAAAAATATCTAAA
*
4358742 ATATATAAAAATATAAATTTTATCAAAAATAAATAAATGTACATAATTTATATCAAAATCACATA
65 AT-TAAAAAAATATAAATTTTAT---AAA-AAAT-AA-GTACATAATTTATATCAAAATCACATA
4358807 TTCTTATGAAGTTTCGTATACTCACGAGAAAATGTATTTAAAAGTAAAAATAAAAATATCTAAAA
1 TTCTTATGAAGTTTCGTATACTCACGAGAAAATGTATTTAAAAGTAAAAATAAAAATATCTAAAA
*
4358872 TTAAAAAAATATAAATTTTATAAAAAATAAGTATATAATTTATATCAAAATCACATA
66 TTAAAAAAATATAAATTTTATAAAAAATAAGTACATAATTTATATCAAAATCACATA
4358929 TT
1 TT
4358931 TACACGAACG
Statistics
Matches: 118, Mismatches: 3, Indels: 11
0.89 0.02 0.08
Matches are distributed among these distances:
122 28 0.24
123 2 0.02
124 4 0.03
125 3 0.03
127 29 0.25
128 43 0.36
129 9 0.08
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.34
Consensus pattern (122 bp):
TTCTTATGAAGTTTCGTATACTCACGAGAAAATGTATTTAAAAGTAAAAATAAAAATATCTAAAA
TTAAAAAAATATAAATTTTATAAAAAATAAGTACATAATTTATATCAAAATCACATA
Found at i:4361320 original size:18 final size:20
Alignment explanation
Indices: 4361297--4361336 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
4361287 AGGCATGAAA
*
4361297 TTTTAT-AAATAATT-TATT
1 TTTTATGAAAAAATTATATT
4361315 TTTTATGAAAAAATTATATT
1 TTTTATGAAAAAATTATATT
4361335 TT
1 TT
4361337 AAATTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 7 0.37
20 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTTATGAAAAAATTATATT
Found at i:4361337 original size:18 final size:18
Alignment explanation
Indices: 4361296--4361337 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
4361286 AAGGCATGAA
*
4361296 ATTTTATAAATAATTTAT
1 ATTTTATAAATAAATTAT
*
4361314 TTTTTATGAAA-AAATTAT
1 ATTTTAT-AAATAAATTAT
4361332 ATTTTA
1 ATTTTA
4361338 AATTTTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
ATTTTATAAATAAATTAT
Found at i:4369319 original size:23 final size:23
Alignment explanation
Indices: 4369293--4369347 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
4369283 TAAAATTTAA
* *
4369293 AAATAAAAAATAACTAAGTAACT
1 AAATAAAAAATAACTAACTAAAT
* *
4369316 AAATAAAAATTAATTAACTAAAT
1 AAATAAAAAATAACTAACTAAAT
4369339 AAA-AAAAAA
1 AAATAAAAAA
4369348 GATTTTACCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 5 0.19
23 22 0.81
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (23 bp):
AAATAAAAAATAACTAACTAAAT
Found at i:4369729 original size:22 final size:22
Alignment explanation
Indices: 4369695--4369747 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
4369685 AGAAATTTAA
*
4369695 ATTT-AAATTTTTTATATT-TTT
1 ATTTAAAATATTTTA-ATTATTT
4369716 ATTTAAAATATTTTAATTATTT
1 ATTTAAAATATTTTAATTATTT
4369738 -TTTGAAAATA
1 ATTT-AAAATA
4369748 GGATTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 10 0.36
22 18 0.64
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTTAAAATATTTTAATTATTT
Found at i:4369759 original size:19 final size:18
Alignment explanation
Indices: 4369735--4369775 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
4369725 ATTTTAATTA
* *
4369735 TTTTTTGAAAATAGGATT
1 TTTTTTTAAAATAAGATT
4369753 TTTTTTTAAAATAAGATT
1 TTTTTTTAAAATAAGATT
4369771 TTTTT
1 TTTTT
4369776 AATTAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.59
Consensus pattern (18 bp):
TTTTTTTAAAATAAGATT
Found at i:4371680 original size:2 final size:2
Alignment explanation
Indices: 4371673--4371701 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4371663 ATACTATTTC
4371673 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4371702 AAAGCAACGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4379998 original size:18 final size:16
Alignment explanation
Indices: 4379976--4380051 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 16
4379966 ACAACCCGAC
4379976 CCGACCCGTTGACCCAA
1 CCGACCCGTTGACCC-A
*
4379993 CTCGACCCGTTTA--C-
1 C-CGACCCGTTGACCCA
4380007 CCGACCCGTTGACCCGA
1 CCGACCCGTTGACCC-A
4380024 CCCGACCCGTTGA--C-
1 -CCGACCCGTTGACCCA
4380038 CCGACCCGTTGACC
1 CCGACCCGTTGACC
4380052 GTTTACCCGT
Statistics
Matches: 49, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
13 22 0.45
14 1 0.02
15 1 0.02
16 2 0.04
17 1 0.02
18 22 0.45
ACGTcount: A:0.17, C:0.47, G:0.20, T:0.16
Consensus pattern (16 bp):
CCGACCCGTTGACCCA
Found at i:4380012 original size:31 final size:31
Alignment explanation
Indices: 4379973--4380051 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
4379963 GTCACAACCC
*
4379973 GACCCGACCCGTTGACCCAACTCGACCCGTT
1 GACCCGACCCGTTGACCCAACCCGACCCGTT
* *
4380004 TACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCAACCCGACCCGTT
4380035 GACCCGACCCGTTGACC
1 GACCCGACCCGTTGACC
4380052 GTTTACCCGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.18, C:0.47, G:0.20, T:0.15
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCAACCCGACCCGTT
Found at i:4381398 original size:18 final size:18
Alignment explanation
Indices: 4381372--4381407 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4381362 TCGAAAGGAC
*
4381372 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
4381390 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
4381408 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:4382620 original size:24 final size:24
Alignment explanation
Indices: 4382525--4382632 Score: 85
Period size: 24 Copynumber: 4.5 Consensus size: 24
4382515 TGAATATTTA
* * *
4382525 TCTGATTTCTGATTTGAATTATAT
1 TCTGATATCTGATCTGAATTATGT
* * *
4382549 T-TGACATCTGATCTGAAATCTGT
1 TCTGATATCTGATCTGAATTATGT
* * * *
4382572 TCTGAT-TCCTAACCTGGATTCTGT
1 TCTGATAT-CTGATCTGAATTATGT
4382596 TCTGATATCTGATCTGAATTATGT
1 TCTGATATCTGATCTGAATTATGT
* *
4382620 TTTGATTTCTGAT
1 TCTGATATCTGAT
4382633 ATCTCCGTTT
Statistics
Matches: 64, Mismatches: 17, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
23 18 0.28
24 45 0.70
25 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.16, T:0.47
Consensus pattern (24 bp):
TCTGATATCTGATCTGAATTATGT
Found at i:4384649 original size:9 final size:9
Alignment explanation
Indices: 4384635--4384680 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
4384625 AAGGAAAAAG
4384635 TGACCGGTT
1 TGACCGGTT
4384644 TGACCGGTTT
1 TGACCGG-TT
* *
4384654 TGGAACTGTT
1 T-GACCGGTT
4384664 TGACCGGTT
1 TGACCGGTT
4384673 TGACCGGT
1 TGACCGGT
4384681 CACAACCCGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 21 0.68
10 6 0.19
11 4 0.13
ACGTcount: A:0.13, C:0.20, G:0.33, T:0.35
Consensus pattern (9 bp):
TGACCGGTT
Found at i:4384711 original size:18 final size:18
Alignment explanation
Indices: 4384685--4384723 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
4384675 ACCGGTCACA
*
4384685 ACCCGACCCGACCCGTTG
1 ACCCAACCCGACCCGTTG
4384703 ACCCAACCCGACCCGTTG
1 ACCCAACCCGACCCGTTG
4384721 ACC
1 ACC
4384724 GTTGACCCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.51, G:0.18, T:0.10
Consensus pattern (18 bp):
ACCCAACCCGACCCGTTG
Found at i:4384727 original size:7 final size:7
Alignment explanation
Indices: 4384715--4384746 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
4384705 CCAACCCGAC
4384715 CCGTTGA
1 CCGTTGA
4384722 CCGTTGA
1 CCGTTGA
4384729 CCCGTTGA
1 -CCGTTGA
4384737 CCGTTGA
1 CCGTTGA
4384744 CCG
1 CCG
4384747 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:4384732 original size:15 final size:15
Alignment explanation
Indices: 4384712--4384745 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
4384702 GACCCAACCC
4384712 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
4384727 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
4384742 GACC
1 GACC
4384746 GGAGTTGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.15, C:0.35, G:0.26, T:0.24
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:4386078 original size:18 final size:18
Alignment explanation
Indices: 4386052--4386087 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4386042 TCGAAAGGAC
*
4386052 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
4386070 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
4386088 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:4387309 original size:23 final size:23
Alignment explanation
Indices: 4387211--4387315 Score: 81
Period size: 23 Copynumber: 4.5 Consensus size: 23
4387201 GAATATTTTA
*
4387211 TCTGATTTCTGATTTGAATTATGT
1 TCTGA-TTCTGATCTGAATTATGT
* * * *
4387235 TTTGACATCTGAT-TGAAATCTGT
1 TCTGA-TTCTGATCTGAATTATGT
* * *
4387258 TCTGATTCCTAACCTGGATT-TGT
1 TCTGATT-CTGATCTGAATTATGT
4387281 TCTGATATCTGATCTGAATTATGT
1 TCTGAT-TCTGATCTGAATTATGT
4387305 T-TGATTCTGAT
1 TCTGATTCTGAT
4387316 ATCTCCGTTT
Statistics
Matches: 63, Mismatches: 14, Indels: 10
0.72 0.16 0.11
Matches are distributed among these distances:
22 7 0.11
23 37 0.59
24 19 0.30
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (23 bp):
TCTGATTCTGATCTGAATTATGT
Found at i:4387483 original size:2 final size:2
Alignment explanation
Indices: 4387476--4387512 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4387466 CGGATGGGGG
4387476 TA TA TA TA TA 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 TA TA TA TA TA T
4387513 TTTAAAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4389480 original size:18 final size:18
Alignment explanation
Indices: 4389454--4389492 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
4389444 ACCGGTCACA
*
4389454 ACCCGACCCGACCCGTTG
1 ACCCAACCCGACCCGTTG
4389472 ACCCAACCCGACCCGTTG
1 ACCCAACCCGACCCGTTG
4389490 ACC
1 ACC
4389493 GTTGACCCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.51, G:0.18, T:0.10
Consensus pattern (18 bp):
ACCCAACCCGACCCGTTG
Found at i:4389496 original size:7 final size:7
Alignment explanation
Indices: 4389484--4389515 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
4389474 CCAACCCGAC
4389484 CCGTTGA
1 CCGTTGA
4389491 CCGTTGA
1 CCGTTGA
4389498 CCCGTTGA
1 -CCGTTGA
4389506 CCGTTGA
1 CCGTTGA
4389513 CCG
1 CCG
4389516 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:4389501 original size:15 final size:15
Alignment explanation
Indices: 4389481--4389514 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
4389471 GACCCAACCC
4389481 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
4389496 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
4389511 GACC
1 GACC
4389515 GGAGTTGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.15, C:0.35, G:0.26, T:0.24
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:4390849 original size:17 final size:17
Alignment explanation
Indices: 4390824--4390858 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4390814 TCGAAAGGAC
*
4390824 TGAAGTAAATGATAAGA
1 TGAAGTAAATAATAAGA
*
4390841 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
4390858 T
1 T
4390859 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (17 bp):
TGAAGTAAATAATAAGA
Found at i:4392079 original size:24 final size:24
Alignment explanation
Indices: 4391983--4392091 Score: 94
Period size: 24 Copynumber: 4.5 Consensus size: 24
4391973 TGAATATTTA
* *
4391983 TCTGATTTCTGATTTGAATTATGT
1 TCTGATATCTGATCTGAATTATGT
* * * *
4392007 TTTGACATCTGATCTGAAATCTGT
1 TCTGATATCTGATCTGAATTATGT
* * * *
4392031 TCTGAT-TCCTAACCTGGATTCTGT
1 TCTGATAT-CTGATCTGAATTATGT
4392055 TCTGATATCTGATCTGAATTATGT
1 TCTGATATCTGATCTGAATTATGT
* *
4392079 TTTGATTTCTGAT
1 TCTGATATCTGAT
4392092 ATCTCCGTTT
Statistics
Matches: 65, Mismatches: 18, Indels: 4
0.75 0.21 0.05
Matches are distributed among these distances:
23 1 0.02
24 63 0.97
25 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.48
Consensus pattern (24 bp):
TCTGATATCTGATCTGAATTATGT
Found at i:4394215 original size:16 final size:15
Alignment explanation
Indices: 4394188--4394226 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
4394178 ATTATGAGAA
*
4394188 TAATATTTTTAAATT
1 TAATATTTTTAAAAT
4394203 TAATATATTTTAAAAT
1 TAATAT-TTTTAAAAT
4394219 TAAGTATT
1 TAA-TATT
4394227 ATATTTTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 6 0.29
16 12 0.57
17 3 0.14
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
TAATATTTTTAAAAT
Found at i:4398725 original size:38 final size:38
Alignment explanation
Indices: 4398675--4398764 Score: 114
Period size: 36 Copynumber: 2.4 Consensus size: 38
4398665 TTTGTATAAT
4398675 ATTACAAATTATAAAATATTTATAT-ATTTTCTTTAAAAA
1 ATTA-AAATTATAAAATATTTATATAATTTT-TTTAAAAA
* *
4398714 ATT-AAATT-TATAATATTTATATAATTTTTTTACAAA
1 ATTAAAATTATAAAATATTTATATAATTTTTTTAAAAA
*
4398750 ATTAAAAATATAAAA
1 ATTAAAATTATAAAA
4398765 AATGTTTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
36 23 0.52
37 14 0.32
38 4 0.09
39 3 0.07
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (38 bp):
ATTAAAATTATAAAATATTTATATAATTTTTTTAAAAA
Found at i:4409255 original size:20 final size:20
Alignment explanation
Indices: 4409230--4409441 Score: 146
Period size: 20 Copynumber: 10.5 Consensus size: 20
4409220 GATTTTCCAT
*
4409230 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGAA
* *
4409250 AATCGCAACGCGAACA-TATA
1 AATCGCAACGCGAATACGA-A
* *
4409270 AATCGCAACGCG-ATTCTGAC
1 AATCGCAACGCGAATAC-GAA
* * * *
4409290 TATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGAATACG-AA
* * *
4409311 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
4409331 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACG-AA
* * *
4409352 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
* *
4409372 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
*
4409392 AATCGCAACGC--ATATCTGTA
1 AATCGCAACGCGAATA-C-GAA
* *
4409412 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
4409432 AATCGCAACG
1 AATCGCAACG
4409442 AGATTCTGAC
Statistics
Matches: 156, Mismatches: 24, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
18 3 0.02
19 3 0.02
20 109 0.70
21 38 0.24
22 3 0.02
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGAATACGAA
Found at i:4409442 original size:20 final size:20
Alignment explanation
Indices: 4409291--4409444 Score: 168
Period size: 20 Copynumber: 7.6 Consensus size: 20
4409281 GATTCTGACT
* *
4409291 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGAGAATACGT-AA
* * *
4409312 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAA
*
4409332 ATCGCAACGACAATACGTAAA
1 ATCGCAACGAGAATACGT-AA
* * *
4409353 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAA
4409373 ATCGCAACGAGAATACGTAA
1 ATCGCAACGAGAATACGTAA
*
4409393 ATCGCAAC--GCATATCTGTAA
1 ATCGCAACGAGAATA-C-GTAA
4409413 ATCGCAACGAGAATACGTAA
1 ATCGCAACGAGAATACGTAA
4409433 ATCGCAACGAGA
1 ATCGCAACGAGA
4409445 TTCTGACTAT
Statistics
Matches: 114, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
18 4 0.04
19 1 0.01
20 71 0.62
21 34 0.30
22 4 0.04
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.18
Consensus pattern (20 bp):
ATCGCAACGAGAATACGTAA
Found at i:4409459 original size:40 final size:41
Alignment explanation
Indices: 4409230--4409449 Score: 247
Period size: 40 Copynumber: 5.5 Consensus size: 41
4409220 GATTTTCCAT
* * * * **
4409230 AATCGCAACGCGA-ATATGAAAATCGCAACGCGAACATATA
1 AATCGCAACGCGATATCTGTAAATCGCAACGAGAATACGTA
* * *
4409270 AATCGCAACGCGAT-TCTG-ACTATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGATATCTGTA-AATCGCAACGAGAATACGT-A
* *
4409311 AATCGCAACGCG-TATCCGTAAATCGCAACGACAATACGTAA
1 AATCGCAACGCGATATCTGTAAATCGCAACGAGAATACGT-A
*
4409352 AATCGCAACGCG-TATCCGTAAATCGCAACGAGAATACGTA
1 AATCGCAACGCGATATCTGTAAATCGCAACGAGAATACGTA
4409392 AATCGCAACGC-ATATCTGTAAATCGCAACGAGAATACGTA
1 AATCGCAACGCGATATCTGTAAATCGCAACGAGAATACGTA
*
4409432 AATCGCAACGAGAT-TCTG
1 AATCGCAACGCGATATCTG
4409450 ACTATCGCAA
Statistics
Matches: 157, Mismatches: 16, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 82 0.52
41 73 0.46
42 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (41 bp):
AATCGCAACGCGATATCTGTAAATCGCAACGAGAATACGTA
Found at i:4410329 original size:24 final size:24
Alignment explanation
Indices: 4410302--4410355 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
4410292 GTATTCGAAA
4410302 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
4410326 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
4410350 TTTGAT
1 TTTGAT
4410356 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:4411853 original size:20 final size:20
Alignment explanation
Indices: 4411828--4411880 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
4411818 AGACATTCAT
4411828 TTGACTATCGCAATACGGAA
1 TTGACTATCGCAATACGGAA
* *
4411848 TTGACTATTGCAATGCGGAA
1 TTGACTATCGCAATACGGAA
*
4411868 ATGACTATCGCAA
1 TTGACTATCGCAA
4411881 CGAGAGAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (20 bp):
TTGACTATCGCAATACGGAA
Found at i:4411911 original size:19 final size:19
Alignment explanation
Indices: 4411887--4411932 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
4411877 GCAACGAGAG
4411887 AATCGCAATACGAAATGAA
1 AATCGCAATACGAAATGAA
*
4411906 AATCGCAATGCGAAATGAA
1 AATCGCAATACGAAATGAA
4411925 AATCGCAA
1 AATCGCAA
4411933 CGAGAGAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.15
Consensus pattern (19 bp):
AATCGCAATACGAAATGAA
Found at i:4411930 original size:52 final size:54
Alignment explanation
Indices: 4411834--4411947 Score: 160
Period size: 52 Copynumber: 2.1 Consensus size: 54
4411824 TCATTTGACT
* ** * **
4411834 ATCGCAATACGGAATTGACTATTGCAATGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATACGGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
4411888 ATCGCAATAC-GAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATACGGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
4411940 ATCGCAAT
1 ATCGCAAT
4411948 GTGATTTTCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 29 0.54
53 15 0.28
54 10 0.19
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (54 bp):
ATCGCAATACGGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:4412093 original size:14 final size:14
Alignment explanation
Indices: 4412074--4412110 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4412064 CATCAATTAA
4412074 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
4412088 ACAAATCATCTTTT
1 ACAAATCAACATTT
4412102 ACAAATCAA
1 ACAAATCAA
4412111 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:4413519 original size:21 final size:21
Alignment explanation
Indices: 4413453--4413519 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
4413443 GTGAATCGGG
*
4413453 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
4413473 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
4413495 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
4413516 CTCT
1 CTCT
4413520 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:4413538 original size:42 final size:41
Alignment explanation
Indices: 4413453--4413575 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
4413443 GTGAATCGGG
* * * *
4413453 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
4413495 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
4413537 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
4413576 CGAGTCGGAC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:4415622 original size:19 final size:19
Alignment explanation
Indices: 4415543--4415614 Score: 99
Period size: 20 Copynumber: 3.7 Consensus size: 19
4415533 TCTTTTGGTT
*
4415543 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
4415562 GAGAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
4415582 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
4415602 GAAATGAAAATCG
1 GAAATGAAAATCG
4415615 TAATGCGATT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 13 0.28
20 31 0.67
21 2 0.04
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:4415653 original size:14 final size:14
Alignment explanation
Indices: 4415634--4415690 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
4415624 TTTGGTTTCG
4415634 CGTTGCGATTATCT
1 CGTTGCGATTATCT
*
4415648 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TT-A--TCT
*
4415667 CGTTGCGATTCTCT
1 CGTTGCGATTATCT
4415681 CGTTGCGATT
1 CGTTGCGATT
4415691 TTCATTTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 2 0.06
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTATCT
Found at i:4415666 original size:33 final size:33
Alignment explanation
Indices: 4415618--4415698 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
4415608 AAAATCGTAA
**
4415618 TGCGATTTTGGTTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
*
4415651 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
4415684 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
4415699 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.10, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
Found at i:4415701 original size:21 final size:20
Alignment explanation
Indices: 4415682--4415753 Score: 92
Period size: 20 Copynumber: 3.5 Consensus size: 20
4415672 CGATTCTCTC
4415682 GTTGCGATTTTCATTTCTC-T
1 GTTGCGATTTTCATTT-TCAT
** *
4415702 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTCAT
4415723 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
4415743 GTTGCGATTTT
1 GTTGCGATTTT
4415754 AAGTTTAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
20 30 0.67
21 15 0.33
ACGTcount: A:0.12, C:0.17, G:0.19, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:4416376 original size:20 final size:20
Alignment explanation
Indices: 4416347--4416497 Score: 130
Period size: 20 Copynumber: 7.5 Consensus size: 20
4416337 CGTTGCGGTT
*
4416347 TTGCGGTTTACGTATTGTCG
1 TTGCGATTTACGTATTGTCG
* * *
4416367 TTGCGATTTACGGATAAG-CA
1 TTGCGATTTACGTAT-TGTCG
*
4416387 TTGCGATTTACGTATTCTCG
1 TTGCGATTTACGTATTGTCG
*
4416407 TTGCGATTTACAG-ATACG-CG
1 TTGCGATTTAC-GTAT-TGTCG
*
4416427 TTGCGATTTACGTATTCTCG
1 TTGCGATTTACGTATTGTCG
* *
4416447 TTGCGATTTACGGATACG-CG
1 TTGCGATTTACGTAT-TGTCG
**
4416467 TTGCGATTTTATATATTGTCG
1 TTGCGA-TTTACGTATTGTCG
4416488 TTGCGATTTA
1 TTGCGATTTA
4416498 TGGATACGCG
Statistics
Matches: 103, Mismatches: 19, Indels: 18
0.74 0.14 0.13
Matches are distributed among these distances:
19 1 0.01
20 86 0.83
21 16 0.16
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (20 bp):
TTGCGATTTACGTATTGTCG
Found at i:4416509 original size:20 final size:20
Alignment explanation
Indices: 4416365--4416535 Score: 175
Period size: 20 Copynumber: 8.4 Consensus size: 20
4416355 TACGTATTGT
*
4416365 CGTTGCGATTTACGGATAAG
1 CGTTGCGATTTACGGATACG
* * * *
4416385 CATTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACG
*
4416405 CGTTGCGATTTACAGATACG
1 CGTTGCGATTTACGGATACG
* * *
4416425 CGTTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACG
4416445 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
* *
4416465 CGTTGCGATTTTA--TATATTG
1 CGTTGCGA-TTTACGGATA-CG
*
4416485 TCGTTGCGATTTATGGATACG
1 -CGTTGCGATTTACGGATACG
*
4416506 CGTTGCGATTTTACGGATACT
1 CGTTGCGA-TTTACGGATACG
4416527 CGTTGCGAT
1 CGTTGCGAT
4416536 AGTCAGAATC
Statistics
Matches: 122, Mismatches: 23, Indels: 12
0.78 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 85 0.70
21 31 0.25
22 3 0.02
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
CGTTGCGATTTACGGATACG
Found at i:4416530 original size:41 final size:40
Alignment explanation
Indices: 4416347--4416535 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
4416337 CGTTGCGGTT
* * * *
4416347 TTGCGGTTTACGTATTGTCGTTGCGATTTACGGATAAGCA
1 TTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCG
*
4416387 TTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGCG
1 TTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCG
4416427 TTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCG
1 TTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCG
** * *
4416467 TTGCGATTTTATATATTGTCGTTGCGATTTATGGATACGCG
1 TTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATACGCG
* *
4416508 TTGCGATTTTACGGATACTCGTTGCGAT
1 TTGCGA-TTTACGTATTCTCGTTGCGAT
4416536 AGTCAGAATC
Statistics
Matches: 133, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 80 0.60
41 53 0.40
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (40 bp):
TTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCG
Found at i:4416567 original size:20 final size:20
Alignment explanation
Indices: 4416544--4416596 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
4416534 ATAGTCAGAA
*
4416544 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
*
4416564 TCGCGTTGTGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
4416584 TCGCGTTGCGATT
1 TCGCGTTGCGATT
4416597 ATGGAAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.13, C:0.17, G:0.25, T:0.45
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:4416571 original size:122 final size:123
Alignment explanation
Indices: 4416314--4416596 Score: 304
Period size: 122 Copynumber: 2.3 Consensus size: 123
4416304 GCTTTAAAAA
* * *
4416314 TCGCGTTACGATTTACGGATACGCGTTGCGGTTTTGCGGTTTACGTATTGTCGTTGCGATTTACG
1 TCGCGTTGCGATTTACGGATACGCGTTGC-GATTT---GTATAC-TATTGTCGTTGCGATTTACG
* * * *
4416379 GATAAGCATTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGCGTTGCGATTTACGTAT
61 GATAAGCATTGCGATTTACGGATACTCGTTGCGATGTACAGATACGCGTTGCGATTTACATAT
* * *
4416442 TCTCGTTGCGATTTACGGATACGCGTTGCGATTT-TATA-TATTGTCGTTGCGATTTATGGATAC
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTGTATACTATTGTCGTTGCGATTTACGGATAA
* * *
4416505 GCGTTGCGATTTTACGGATACTCGTTGCGATAGT-CAGA-ATCGCGTTGCGATTTATATGT
66 GCATTGCGA-TTTACGGATACTCGTTGCGAT-GTACAGATA-CGCGTTGCGATTTACATAT
* * ** *
4416564 TCGCGTTGTGATTTTCATATTCGCGTTGCGATT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATT
4416597 ATGGAAAATC
Statistics
Matches: 133, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
121 32 0.24
122 66 0.50
123 4 0.03
127 4 0.03
128 27 0.20
ACGTcount: A:0.18, C:0.17, G:0.25, T:0.39
Consensus pattern (123 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTGTATACTATTGTCGTTGCGATTTACGGATAA
GCATTGCGATTTACGGATACTCGTTGCGATGTACAGATACGCGTTGCGATTTACATAT
Found at i:4416589 original size:81 final size:81
Alignment explanation
Indices: 4416364--4416596 Score: 226
Period size: 81 Copynumber: 2.9 Consensus size: 81
4416354 TTACGTATTG
* * * * ** * * *
4416364 TCGTTGCGATTTACGGATAAGCATTGCGATTTACGTATTCTCGTTGCGATTTACAGATACGCGTT
1 TCGTTGCGATTCACGAATACGCGTTGCGATTTATATATTCGCGTTGCGATTTTCATATACGCGTT
* *
4416429 GCGA-TTTACGTATTC
66 GCGATTTTACGGATAC
* *
4416444 TCGTTGCGATTTACGGATACGCGTTGCGATTTTATATATT-GTCGTTGCGA-TTT-ATGGATACG
1 TCGTTGCGATTCACGAATACGCGTTGCGA-TTTATATATTCG-CGTTGCGATTTTCAT--ATACG
4416506 CGTTGCGATTTTACGGATAC
62 CGTTGCGATTTTACGGATAC
* * *
4416526 TCGTTGCGATAGTCA-GAAT-CGCGTTGCGATTTATATGTTCGCGTTGTGATTTTCATATTCGCG
1 TCGTTGCGAT--TCACGAATACGCGTTGCGATTTATATATTCGCGTTGCGATTTTCATATACGCG
4416589 TTGCGATT
64 TTGCGATT
4416597 ATGGAAAATC
Statistics
Matches: 129, Mismatches: 14, Indels: 19
0.80 0.09 0.12
Matches are distributed among these distances:
79 1 0.01
80 29 0.22
81 59 0.46
82 33 0.26
83 5 0.04
84 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.39
Consensus pattern (81 bp):
TCGTTGCGATTCACGAATACGCGTTGCGATTTATATATTCGCGTTGCGATTTTCATATACGCGTT
GCGATTTTACGGATAC
Found at i:4425858 original size:22 final size:22
Alignment explanation
Indices: 4425833--4425923 Score: 105
Period size: 22 Copynumber: 4.1 Consensus size: 22
4425823 CCACAACTCG
4425833 TAATTTGCACCGAAGTACCACA
1 TAATTTGCACCGAAGTACCACA
*
4425855 TAA-TTGTC-CCGAAGGACCACA
1 TAATTTG-CACCGAAGTACCACA
* *
4425876 TAGGTTTGCACCGAAGTGCCACA
1 TA-ATTTGCACCGAAGTACCACA
* *
4425899 TAGTTTGCACCGAAGTGCCACA
1 TAATTTGCACCGAAGTACCACA
4425921 TAA
1 TAA
4425924 AACCCTCGAC
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
21 17 0.28
22 27 0.45
23 16 0.27
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (22 bp):
TAATTTGCACCGAAGTACCACA
Found at i:4426594 original size:20 final size:20
Alignment explanation
Indices: 4426571--4426622 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
4426561 CATACCCATG
4426571 GTATCGATACTAC-CAACTCA
1 GTATCGATACTACTCAACT-A
*
4426591 GTATCGATATCTTCTTCAACTA
1 GTATCGATA-CTAC-TCAACTA
4426613 GTATCGATAC
1 GTATCGATAC
4426623 CACCTTTAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 9 0.32
21 4 0.14
22 10 0.36
23 5 0.18
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.33
Consensus pattern (20 bp):
GTATCGATACTACTCAACTA
Found at i:4428953 original size:56 final size:57
Alignment explanation
Indices: 4428850--4428970 Score: 172
Period size: 56 Copynumber: 2.1 Consensus size: 57
4428840 TGAATTCGAT
* * *
4428850 TTGCGAAAATAAAATTCGCGTTGCGATAGTTGTGTTTACCTATATCGGTAATTAGCG
1 TTGCGAAAACAAAATTCACGTTGCGATAGTTGTGTTTACCTATATCGGTAATTAACG
* * * *
4428907 TTGCGAAAACGAAATTCACGTTGTGA-AGTTGTGTTTAGCTATATCGGTAATTAATG
1 TTGCGAAAACAAAATTCACGTTGCGATAGTTGTGTTTACCTATATCGGTAATTAACG
4428963 TTGCGAAA
1 TTGCGAAA
4428971 TTCGCGTTGC
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
56 35 0.61
57 22 0.39
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (57 bp):
TTGCGAAAACAAAATTCACGTTGCGATAGTTGTGTTTACCTATATCGGTAATTAACG
Found at i:4431495 original size:30 final size:30
Alignment explanation
Indices: 4431435--4431536 Score: 132
Period size: 30 Copynumber: 3.4 Consensus size: 30
4431425 TTAAATAATG
* *
4431435 AATTAATATTTCATTTAAAATTTAATAATTA
1 AATTTATATTTTATTTAAAATTT-ATAATTA
*
4431466 AATTTATATTTTATTTAAAATATATAATTA
1 AATTTATATTTTATTTAAAATTTATAATTA
* * *
4431496 AATTTATATTCTATTTAAATTTTATAAATA
1 AATTTATATTTTATTTAAAATTTATAATTA
*
4431526 AATTTAAATTT
1 AATTTATATTT
4431537 AATTAATTGT
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
30 42 0.68
31 20 0.32
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (30 bp):
AATTTATATTTTATTTAAAATTTATAATTA
Found at i:4431515 original size:17 final size:17
Alignment explanation
Indices: 4431463--4431541 Score: 60
Period size: 17 Copynumber: 4.8 Consensus size: 17
4431453 AATTTAATAA
*
4431463 TTAAATTTATATTTTAT
1 TTAAATTTATATTATAT
*
4431480 TTAAA---ATA-TATAA
1 TTAAATTTATATTATAT
*
4431493 TTAAATTTATATTCTAT
1 TTAAATTTATATTATAT
* *
4431510 TTAAATTTTATAAATAAAT
1 TTAAA-TTTAT-ATTATAT
4431529 TTAAATTTA-ATTA
1 TTAAATTTATATTA
4431542 ATTGTGTTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 13
0.70 0.12 0.19
Matches are distributed among these distances:
13 8 0.17
14 3 0.06
16 6 0.12
17 13 0.27
18 9 0.19
19 9 0.19
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAATTTATATTATAT
Found at i:4436239 original size:18 final size:16
Alignment explanation
Indices: 4436201--4436242 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4436191 TATATCATAT
4436201 ATATATATATAACTAA
1 ATATATATATAACTAA
* *
4436217 TTATATTTATAACATAA
1 ATATATATATAAC-TAA
4436234 A-ATATATAT
1 ATATATATAT
4436243 TACAATTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 18 0.86
17 3 0.14
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATATATATAACTAA
Found at i:4444076 original size:20 final size:21
Alignment explanation
Indices: 4444051--4444143 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
4444041 TTTTCCCAAT
*
4444051 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
4444071 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
4444092 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
4444112 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
4444133 TCGCAATGCGA
1 TCGCAATGCGA
4444144 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:4444096 original size:41 final size:41
Alignment explanation
Indices: 4444051--4444143 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
4444041 TTTTCCCAAT
4444051 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
*
4444092 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
4444133 TCGCAATGCGA
1 TCGCAATGCGA
4444144 TACTGACTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:4444178 original size:41 final size:41
Alignment explanation
Indices: 4444129--4444226 Score: 119
Period size: 41 Copynumber: 2.4 Consensus size: 41
4444119 GCGAATTTGG
*
4444129 AAAATCGCAATGCGATACTGACTATT-GCAATGCGATAATA-
1 AAAATCGCAATGCGATACTGACT-TTCGCAACGCGATAATAC
* * *
4444169 AAAACTCGCAACGAGATACTTACTTTCGCAACGCGATAATAC
1 AAAA-TCGCAATGCGATACTGACTTTCGCAACGCGATAATAC
*
4444211 ATAATCGCAATGCGAT
1 AAAATCGCAATGCGAT
4444227 TTTCAAAGCG
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
40 6 0.12
41 39 0.81
42 3 0.06
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.23
Consensus pattern (41 bp):
AAAATCGCAATGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:4446074 original size:18 final size:18
Alignment explanation
Indices: 4446053--4446097 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
4446043 TCCACTTCGG
*
4446053 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
4446071 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
4446089 GAGCCATCA
1 GAGCCATCA
4446098 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:4446627 original size:20 final size:20
Alignment explanation
Indices: 4446577--4446643 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
4446567 TAGTTTACTT
*
4446577 TCGCAACACGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
*
4446597 TCGCAACGCGAAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* **
4446617 TCGCAATGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
4446636 TCGCAACG
1 TCGCAACG
4446644 ACAAAATCGC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 13 0.32
20 27 0.68
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:4446651 original size:14 final size:14
Alignment explanation
Indices: 4446632--4446689 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
4446622 ATGCGAAATG
4446632 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
4446646 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
4446662 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
4446678 AAAATCGCAACG
1 AAAATCGCAACG
4446690 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:4446674 original size:32 final size:33
Alignment explanation
Indices: 4446616--4446706 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
4446606 GAAAATGGCT
4446616 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
4446649 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
4446681 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
4446707 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:4446747 original size:14 final size:14
Alignment explanation
Indices: 4446724--4446780 Score: 60
Period size: 14 Copynumber: 3.8 Consensus size: 14
4446714 TGTGTTTCGT
4446724 GTTGCGATTTTGTC
1 GTTGCGATTTTGTC
* *
4446738 GTTACGATTTCATTTC
1 GTTGCGATTT--TGTC
4446754 GCATTGCGATTTTGTC
1 G--TTGCGATTTTGTC
4446770 GTTGCGATTTT
1 GTTGCGATTTT
4446781 CATTTCGCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 19 0.54
16 8 0.23
18 8 0.23
ACGTcount: A:0.12, C:0.16, G:0.23, T:0.49
Consensus pattern (14 bp):
GTTGCGATTTTGTC
Found at i:4446761 original size:32 final size:33
Alignment explanation
Indices: 4446725--4446796 Score: 128
Period size: 32 Copynumber: 2.2 Consensus size: 33
4446715 GTGTTTCGTG
4446725 TTGCGATTTTGTCGTTACGA-TTTCATTTCGCA
1 TTGCGATTTTGTCGTTACGATTTTCATTTCGCA
*
4446757 TTGCGATTTTGTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTGTCGTTACGATTTTCATTTCGCA
4446790 TTGCGAT
1 TTGCGAT
4446797 AGCCATTTCC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 19 0.50
33 19 0.50
ACGTcount: A:0.14, C:0.18, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTGTCGTTACGATTTTCATTTCGCA
Found at i:4446795 original size:19 final size:19
Alignment explanation
Indices: 4446745--4446838 Score: 72
Period size: 19 Copynumber: 5.2 Consensus size: 19
4446735 GTCGTTACGA
4446745 TTTCATTTCGCATTGCGA-
1 TTTCATTTCGCATTGCGAT
*
4446763 TTT--TGTCG--TTGCGAT
1 TTTCATTTCGCATTGCGAT
4446778 TTTCATTTCGCATTGCGAT
1 TTTCATTTCGCATTGCGAT
*** *
4446797 AGCCATTTCCGCGTTGCGAT
1 TTTCATTT-CGCATTGCGAT
** *
4446817 AGTCATTTCGCGTTGCGAT
1 TTTCATTTCGCATTGCGAT
4446836 TTT
1 TTT
4446839 AAGTTTCGTG
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
14 6 0.10
15 3 0.05
16 4 0.07
17 4 0.07
18 3 0.05
19 24 0.39
20 17 0.28
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.44
Consensus pattern (19 bp):
TTTCATTTCGCATTGCGAT
Found at i:4446815 original size:20 final size:19
Alignment explanation
Indices: 4446781--4446835 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
4446771 TTGCGATTTT
*
4446781 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
4446800 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
4446820 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
4446836 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:4448863 original size:19 final size:19
Alignment explanation
Indices: 4448841--4448889 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
4448831 ATCGCAACGA
4448841 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4448860 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4448879 GAAAATCGCAA
1 GAAAATCGCAA
4448890 CGACAAAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.49, C:0.16, G:0.20, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:4448958 original size:20 final size:20
Alignment explanation
Indices: 4448935--4448983 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
4448925 CGATTTTCTC
*
4448935 GTTGCGATAACCATTTTTGT
1 GTTGCGATAACCATTTTCGT
*
4448955 GTTGCGATAGCCATTTTCGT
1 GTTGCGATAACCATTTTCGT
*
4448975 GTTACGATA
1 GTTGCGATA
4448984 GTCAAATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.41
Consensus pattern (20 bp):
GTTGCGATAACCATTTTCGT
Found at i:4450285 original size:12 final size:12
Alignment explanation
Indices: 4450268--4450292 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4450258 ATATAATCCT
4450268 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4450280 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4450292 G
1 G
4450293 TCCCCGAAGA
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:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:4452601 original size:19 final size:19
Alignment explanation
Indices: 4452579--4452670 Score: 78
Period size: 19 Copynumber: 5.4 Consensus size: 19
4452569 GGAAATTACT
4452579 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4452598 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
4452612 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
4452631 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
4452645 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4452664 ATCGCAA
1 ATCGCAA
4452671 CGAGGGAATC
Statistics
Matches: 55, Mismatches: 8, Indels: 20
0.66 0.10 0.24
Matches are distributed among these distances:
14 18 0.33
15 2 0.04
16 4 0.07
17 4 0.07
18 2 0.04
19 25 0.45
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:4452621 original size:33 final size:33
Alignment explanation
Indices: 4452579--4452704 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
4452569 GGAAATTACT
4452579 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
4452612 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
4452644 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
4452678 ATCGCAACGCGAAATG-AAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
4452705 CGAATTTAAT
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
32 12 0.14
33 70 0.84
34 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:4452690 original size:66 final size:65
Alignment explanation
Indices: 4452580--4452711 Score: 228
Period size: 66 Copynumber: 2.0 Consensus size: 65
4452570 GAAATTACTA
* *
4452580 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATG-AAATCGCAACGCGAAT
4452645 T
65 T
*
4452646 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAACGCGAAATGAAATCGCAACGCGAATT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAAATCGCAACGCGAATT
4452711 T
1 T
4452712 AATTTCGCGT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
65 17 0.27
66 46 0.73
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.16
Consensus pattern (65 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAAATCGCAACGCGAATT
Found at i:4452726 original size:19 final size:20
Alignment explanation
Indices: 4452704--4452746 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
4452694 AAATCGCAAC
4452704 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* * *
4452723 GCGATTTTCATTTTCGTGTT
1 GCGAATTTCAATTTCGCGTT
4452743 GCGA
1 GCGA
4452747 TTCTCTCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.44
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:4452911 original size:14 final size:14
Alignment explanation
Indices: 4452888--4452921 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
4452878 TCAATTAAAC
4452888 AATCAACTTTTACA
1 AATCAACTTTTACA
*
4452902 AATCACCTTTTACA
1 AATCAACTTTTACA
4452916 AATCAA
1 AATCAA
4452922 TTAAACAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (14 bp):
AATCAACTTTTACA
Found at i:4454351 original size:42 final size:42
Alignment explanation
Indices: 4454305--4454388 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
4454295 CGATGACAGT
* * *
4454305 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * * *
4454347 GGCCTTTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
4454389 CGAGTCGGGC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.23, C:0.15, G:0.39, T:0.23
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:4456445 original size:34 final size:33
Alignment explanation
Indices: 4456402--4456504 Score: 107
Period size: 39 Copynumber: 2.9 Consensus size: 33
4456392 ACGAGATAAT
**
4456402 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGAAAATCGCAACGA
4456436 GAGAATCGCAACGCGAAATGAAAATCGCAACCGCGAAA
1 GAGAATCGCAACGCGAAATGAAAATCGCAA---CG--A
* *
4456474 TAAAAATCGCAACGCGAAATGAAAATCGCAA
1 -GAGAATCGCAACGCGAAATGAAAATCGCAA
4456505 TGCGATTTTG
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
33 14 0.24
34 14 0.24
36 2 0.03
38 1 0.02
39 28 0.47
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGAAAATCGCAACGA
Found at i:4456463 original size:19 final size:19
Alignment explanation
Indices: 4456377--4456509 Score: 141
Period size: 20 Copynumber: 7.1 Consensus size: 19
4456367 GTCTTTGGTT
*
4456377 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
4456396 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
4456416 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
4456434 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
4456450 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
4456470 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
4456489 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
4456508 GA
1 GA
4456510 TTTTGGTTTC
Statistics
Matches: 96, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
14 9 0.09
15 1 0.01
16 2 0.02
17 1 0.01
18 2 0.02
19 34 0.35
20 45 0.47
21 2 0.02
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:4456483 original size:53 final size:54
Alignment explanation
Indices: 4456385--4456487 Score: 138
Period size: 53 Copynumber: 1.9 Consensus size: 54
4456375 TTGAAATGAA
* * **
4456385 AATCGCAACGAGATAATGAGAATCGCAACGCGGAAATGACTATCGCAACGAGAG
1 AATCGCAACGAGATAATGAAAATCGCAACGCGGAAATAAAAATCGCAACGAGAG
*
4456439 AATCGCAACGCGA-AATGAAAATCGCAAC-CGCGAAATAAAAATCGCAACG
1 AATCGCAACGAGATAATGAAAATCGCAACGCG-GAAATAAAAATCGCAACG
4456488 CGAAATGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
52 2 0.05
53 29 0.67
54 12 0.28
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (54 bp):
AATCGCAACGAGATAATGAAAATCGCAACGCGGAAATAAAAATCGCAACGAGAG
Found at i:4456540 original size:14 final size:14
Alignment explanation
Indices: 4456521--4456557 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
4456511 TTTGGTTTCG
4456521 CGTTGCGATTATCT
1 CGTTGCGATTATCT
4456535 CGTTGCGATTATCT
1 CGTTGCGATTATCT
4456549 CGTTGCGAT
1 CGTTGCGAT
4456558 AGTTATTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.14, C:0.22, G:0.24, T:0.41
Consensus pattern (14 bp):
CGTTGCGATTATCT
Found at i:4457120 original size:20 final size:20
Alignment explanation
Indices: 4457095--4457147 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
4457085 GCGCTATGTA
4457095 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
4457115 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
4457135 TATCTCGTTGCGA
1 AATCGCGTTGCGA
4457148 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Done.