Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 334 of 438
Found at i:104671134 original size:40 final size:41
Alignment explanation
Indices: 104671040--104671260 Score: 230
Period size: 40 Copynumber: 5.6 Consensus size: 41
104671030 TATTCGAATG
* *
104671040 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTA-GTGACT
* * *
104671081 ATAACCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAG-TGACT
* *
104671121 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGACT
*
104671161 ATATCCGGGCTAAG-TCCCGAAGGCA-TCTGTGCTAGTGACC
1 ATATCCGGGCTAAGATCCCGAAGGCATTC-GTGCTAGTGACT
* * *
104671201 ATATCCGGGCTAAGA-CCCGAAGGCCTT-GTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGA-CT
104671240 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
104671261 ATTACTTGAG
Statistics
Matches: 153, Mismatches: 17, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 14 0.09
39 15 0.10
40 92 0.60
41 30 0.20
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGACT
Found at i:104679157 original size:40 final size:40
Alignment explanation
Indices: 104679063--104679247 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
104679053 TATTCGAATG
* *
104679063 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTCGTGCTA-GTGACT
* * * *
104679104 ATAACCGGACTAAGATTCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTCGTGCTAG-TGACT
* * *
104679144 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTCGTGCTAGTGACT
*
104679184 ATATCCGGGCTAAG-TCCCGAAGGCA-TCTGTGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTC-GTGCTAGTGACT
*
104679224 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
104679248 CTTGTACAAG
Statistics
Matches: 120, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 89 0.74
41 28 0.23
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTCGTGCTAGTGACT
Found at i:104679233 original size:80 final size:81
Alignment explanation
Indices: 104679063--104679247 Score: 243
Period size: 80 Copynumber: 2.3 Consensus size: 81
104679053 TATTCGAATG
* * * *
104679063 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATTCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
*
104679128 ATTCGTGCGAGTTGCT
66 ATTCGTGCGAGTTGCC
* *
104679144 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
*
104679207 CA-TCTGTGCTAG-TGACC
65 CATTC-GTGCGAGTTG-CC
104679224 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
104679248 CTTGTACAAG
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
79 5 0.05
80 56 0.60
81 32 0.34
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCGTGCGAGTTGCC
Found at i:104681793 original size:149 final size:149
Alignment explanation
Indices: 104681569--104681864 Score: 414
Period size: 149 Copynumber: 2.0 Consensus size: 149
104681559 GGGCTTGAAA
** * * * *
104681569 ATGTTGGTAATTTTTTGGCACAAAATCATGGGCCTAATGTGCCGTAGTACACTAAACTGAGGGCG
1 ATGTTGGTAATTTTTCAGAACAAAATCATAGGCCTAATGTGCCATAGCACACTAAACTGAGGGCG
* * * * * *
104681634 CATGTTCATGACATTGATGCCTCGCTATGTGTAAGGTTGCCTCGTCTCCTTGATTTTCATGCATC
66 CATGTCCATGAAATTGATACCTCACCATGTGTAAGGTTGCCTCGTCTCCCTGATTTTCATGCATC
*
104681699 CGATTATTTGACTACCTTT
131 CGATTATTTGACCACCTTT
* * *
104681718 ATGTTGGTAATTTTTCAGAACAAAGTCATAGGCCTAATGTGCTATGGCACACTAAACTGAGGGCG
1 ATGTTGGTAATTTTTCAGAACAAAATCATAGGCCTAATGTGCCATAGCACACTAAACTGAGGGCG
* *
104681783 -AGTGTCCATGAAATTGATACCTCACCATGTGTAGGGTTGCCTCGTCTCCCTGATTTTTATGCAT
66 CA-TGTCCATGAAATTGATACCTCACCATGTGTAAGGTTGCCTCGTCTCCCTGATTTTCATGCAT
104681847 CCGATTATTTGACCACCT
130 CCGATTATTTGACCACCT
104681865 CTGGGTCCAA
Statistics
Matches: 128, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
148 1 0.01
149 127 0.99
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (149 bp):
ATGTTGGTAATTTTTCAGAACAAAATCATAGGCCTAATGTGCCATAGCACACTAAACTGAGGGCG
CATGTCCATGAAATTGATACCTCACCATGTGTAAGGTTGCCTCGTCTCCCTGATTTTCATGCATC
CGATTATTTGACCACCTTT
Found at i:104684175 original size:13 final size:13
Alignment explanation
Indices: 104684157--104684182 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
104684147 GCACATTCTG
104684157 GAGACTGGTCTTA
1 GAGACTGGTCTTA
104684170 GAGACTGGTCTTA
1 GAGACTGGTCTTA
104684183 CTCTCTTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (13 bp):
GAGACTGGTCTTA
Found at i:104684809 original size:5 final size:5
Alignment explanation
Indices: 104684799--104684823 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
104684789 GACAAGATAG
104684799 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
104684824 TGTATGGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:104685749 original size:21 final size:22
Alignment explanation
Indices: 104685715--104685761 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
104685705 AAATTTGTAA
*
104685715 TATTAATTCTATTTAATATTAT
1 TATTAATTATATTTAATATTAT
*
104685737 TATT-ATTATATTTACTATTAT
1 TATTAATTATATTTAATATTAT
104685758 TATT
1 TATT
104685762 TATAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTAATTATATTTAATATTAT
Found at i:104685805 original size:17 final size:16
Alignment explanation
Indices: 104685782--104685830 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 16
104685772 AGTGTACTTT
104685782 GTATGTATATATTATTA
1 GTATGTATATATT-TTA
*
104685799 TTATGTATAT-TTTTA
1 GTATGTATATATTTTA
104685814 GTATGTATATATATTTA
1 GTATGTATATAT-TTTA
104685831 TGAAGTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 12 0.43
16 3 0.11
17 13 0.46
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (16 bp):
GTATGTATATATTTTA
Found at i:104685809 original size:15 final size:15
Alignment explanation
Indices: 104685789--104685828 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
104685779 TTTGTATGTA
*
104685789 TATATTATTATTATG
1 TATATTATTAGTATG
*
104685804 TATATTTTTAGTATG
1 TATATTATTAGTATG
104685819 TATATATATT
1 TATAT-TATT
104685829 TATGAAGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (15 bp):
TATATTATTAGTATG
Found at i:104686453 original size:2 final size:2
Alignment explanation
Indices: 104686438--104686474 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
104686428 TTCATTTTAA
*
104686438 AT AT AT -T AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
104686475 TAGTACCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:104686908 original size:19 final size:19
Alignment explanation
Indices: 104686872--104686910 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
104686862 TATTTATTTT
*
104686872 ATATATATGTAAATATTAC
1 ATATATATGTAAACATTAC
* *
104686891 ATATATATTTTAACATTAC
1 ATATATATGTAAACATTAC
104686910 A
1 A
104686911 AGTTATTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (19 bp):
ATATATATGTAAACATTAC
Found at i:104694460 original size:40 final size:40
Alignment explanation
Indices: 104694411--104694562 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
104694401 ACAACCACAA
* * *** *
104694411 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
104694451 GCACCATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
* *
104694491 GCACGAA-TGCCTTCGGGTCTTAGCCCGGACATAATC-ACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* * *
104694531 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
104694563 CATTCAAATG
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
39 2 0.02
40 92 0.96
41 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:104702344 original size:40 final size:40
Alignment explanation
Indices: 104702252--104702404 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
104702242 TACAACCACA
* * * * ** *
104702252 AGCACAATTGCCTTCGAGTCTTAACCCGGATTTGGTAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACT
* * *
104702292 TGCACCATTGCCTTCGGGTCTTAGCCCGGATATAA-CAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACT
* * *
104702332 CGCACGAATGCCTTCGGGTCTTAGCCCGGACATAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACT
* * *
104702372 AGCATAAATGCCTTCGGGACTCAGCCCGGATAT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
104702405 CATTCAAATG
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
40 92 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACT
Found at i:104710181 original size:86 final size:85
Alignment explanation
Indices: 104709973--104710523 Score: 502
Period size: 86 Copynumber: 6.5 Consensus size: 85
104709963 TTATTTCTGC
* ** * * *
104709973 TTTCAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGTCTCG-CATGCCGATGTATTTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC---TCAGGACACGCTGAGGTATTTT
* * *
104710037 CAATTTCTGTTTTTAAT-TCATGC
63 CAAATTCTGTTTTTAATCTTAT-T
*
104710060 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA
104710125 ATTCTGTTTTTAATCTGTATT
66 ATTCTGTTTTTAATCT-TATT
* * * *
104710146 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGTCACATGCCGAGGTATTTTC
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AG-GACACGCTGAGGTATTTTC
* *
104710211 AAATTCTGTTTTCAATTTCTATT
64 AAATTCTGTTTTTAATCT-TATT
* ** * * *
104710234 TTTCCAAAATCAGTTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTCCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA
* *
104710299 TTTCTG-GTTT--TC--A--
66 ATTCTGTTTTTAATCTTATT
* *
104710312 ---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA
* * * *
104710374 AATCTATTTTTTTAT-TTCTGCT
66 ATTCT-GTTTTTAATCTTAT--T
* * * * *
104710396 TTT-TAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTTAG
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA
* *
104710460 TTTCTGTTTTTCAAAT-TTCTGT
66 ATTCTGTTTTT--AATCTTAT-T
* **
104710482 TTGTCAAGAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
1 TT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
104710524 TGGCTCATGC
Statistics
Matches: 381, Mismatches: 61, Indels: 43
0.79 0.13 0.09
Matches are distributed among these distances:
75 57 0.15
77 3 0.01
79 1 0.00
80 1 0.00
83 1 0.00
84 3 0.01
85 35 0.09
86 124 0.33
87 51 0.13
88 105 0.28
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (85 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA
ATTCTGTTTTTAATCTTATT
Found at i:104710415 original size:161 final size:165
Alignment explanation
Indices: 104709979--104710452 Score: 487
Period size: 161 Copynumber: 2.8 Consensus size: 165
104709969 CTGCTTTCAG
* ** * **
104709979 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGTCTCG-CATGCCGATGTATTTTCAATTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T-CCAGGACATGCCGAGGTATTTTCAAAAT
* * **
104710043 C-TGTTTTTAATTCATGCTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
64 CTTTTTTTTATTTC-TGCTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* ** * *
104710107 ACGCTGAGGTATTTTTAAATTCTGTTTTTAATCTGTATTTTTCAA
128 ACGCTGAGGTAATTCCAAATTCTGTGTTT-ATC--TA----TAAA
* * * *
104710152 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGTCACATGCCGAGGTATTTTCAAATTC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCCAG-GACATGCCGAGGTATTTTCAAAATC
* ** * ** *
104710217 TGTTTTCAATTTCT-ATTTTTCCAAAATCAGTTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
65 TTTTTTTTATTTCTGCTTTTT--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
104710281 ACGCTGAGGTAATTCCAATTTCTG-GTTT-TC-A-AAA
128 ACGCTGAGGTAATTCCAAATTCTGTGTTTATCTATAAA
* *
104710315 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-CCAGGACACGCTGAGGTATTTTCAAAATCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCCAGGACATGCCGAGGTATTTTCAAAATCT
* *
104710379 ATTTTTTTATTTCTGCTTTTTAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACAT
66 -TTTTTTTATTTCTGCTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
104710444 GCTGAGGTA
130 GCTGAGGTA
104710453 TTTTTAGTTT
Statistics
Matches: 254, Mismatches: 40, Indels: 26
0.79 0.12 0.08
Matches are distributed among these distances:
161 70 0.28
162 13 0.05
163 40 0.16
168 1 0.00
171 2 0.01
172 4 0.02
173 58 0.23
174 66 0.26
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (165 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCCAGGACATGCCGAGGTATTTTCAAAATCT
TTTTTTTATTTCTGCTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTAATTCCAAATTCTGTGTTTATCTATAAA
Found at i:104710503 original size:249 final size:248
Alignment explanation
Indices: 104710064--104710523 Score: 651
Period size: 249 Copynumber: 1.8 Consensus size: 248
104710054 TCATGCTTTC
* * *
104710064 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTATTTTAAAATTA
104710129 TGTTTTTAATCTGTATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGTCA
66 TGTTTTTAATCTGTATTTTT-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGTCA
* **
104710194 CATGCCGAGGTATTTTCAAATTCTGTTTTCAATTTCTATTTTTCCAAAATCAGTTCATATTGCGA
130 CATGCCGAGGTATTTTCAAATTCTGTTTTCAATTTCTATTTGTCCAAAATCAACTCATATTGCGA
**
104710259 GAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTCCAATTTCTGGTTTTCAA
195 GAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTCCAATTTCTGGTTTTCAA
104710313 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTATTTTCAAAATC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTATTTT-AAAAT-
* * * * *
104710378 TATTTTTTTATTTCTG-CTTTTT-AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-AG-
64 TATGTTTTTA-ATCTGTATTTTTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGT
* * * ** *
104710439 GACATGCTGAGGTATTTTTAGTTTCTGTTTTTCAAATTTCTGTTTGT-CAAGAATCAACTCATAT
128 CACATGCCGAGGTATTTTCAAATTCTG-TTTTC-AATTTCTATTTGTCCAA-AATCAACTCATAT
104710503 TGCGAGAAATGAGTTGAGCCT
190 TGCGAGAAATGAGTTGAGCCT
104710524 TGGCTCATGC
Statistics
Matches: 186, Mismatches: 19, Indels: 12
0.86 0.09 0.06
Matches are distributed among these distances:
247 22 0.12
248 10 0.05
249 133 0.72
250 4 0.02
251 13 0.07
252 4 0.02
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (248 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTATTTTAAAATTA
TGTTTTTAATCTGTATTTTTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGTCAC
ATGCCGAGGTATTTTCAAATTCTGTTTTCAATTTCTATTTGTCCAAAATCAACTCATATTGCGAG
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTCCAATTTCTGGTTTTCAA
Found at i:104710533 original size:88 final size:85
Alignment explanation
Indices: 104710314--104710561 Score: 264
Period size: 86 Copynumber: 2.8 Consensus size: 85
104710304 GGTTTTCAAA
* * **
104710314 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTATTTTCAAAATCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CCTAGGACATGCTGAGGTATTTTCAATTTCT
* ** *
104710379 ATTTTTTTATTTCTGCTTTTT
65 GTTTTTAAATTTCTGCTTTTC
* * *
104710400 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTTAGTTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGACATGCTGAGGTATTTTCAATTTCT
104710465 GTTTTTCAAATTTCTG-TTTGTC
65 GTTTTT-AAATTTCTGCTTT-TC
** * * **
104710487 AAGAATCAACTCATATTGCGAGAAATGAGTTGAGCCTTGGCTCATGCGCTGAACTATTTTCAATT
1 AA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG-ACAT--GCTGAGGTATTTTCAATT
104710552 TCTGTTTTTA
62 TCTGTTTTTA
104710562 GTATATGTTA
Statistics
Matches: 135, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
85 2 0.01
86 63 0.47
87 12 0.09
88 34 0.25
89 1 0.01
90 23 0.17
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (85 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGACATGCTGAGGTATTTTCAATTTCTG
TTTTTAAATTTCTGCTTTTC
Found at i:104711814 original size:16 final size:16
Alignment explanation
Indices: 104711795--104711826 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
104711785 AATAAAAAGC
*
104711795 AAAAAGAAAAAAAATA
1 AAAAACAAAAAAAATA
104711811 AAAAACAAAAAAAATA
1 AAAAACAAAAAAAATA
104711827 GGATTTTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.88, C:0.03, G:0.03, T:0.06
Consensus pattern (16 bp):
AAAAACAAAAAAAATA
Found at i:104712329 original size:29 final size:29
Alignment explanation
Indices: 104712287--104712344 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
104712277 GTTTTTAGTC
* *
104712287 CTCCTACTATTTGCGCATGTTGGAATAGG
1 CTCCTACTATTTGCACATGTTAGAATAGG
*
104712316 CTCCTACTATTTGCACGTGTTAGAATAGG
1 CTCCTACTATTTGCACATGTTAGAATAGG
104712345 TCGTTCTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.34
Consensus pattern (29 bp):
CTCCTACTATTTGCACATGTTAGAATAGG
Found at i:104712474 original size:18 final size:18
Alignment explanation
Indices: 104712439--104712485 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
104712429 ATTAAATTTG
104712439 TAATATTA--ATTCTATT
1 TAATATTATTATTCTATT
104712455 TAATATTATTATTCTATT
1 TAATATTATTATTCTATT
*
104712473 TACTATTATTATT
1 TAATATTATTATT
104712486 TATAAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
16 8 0.29
18 20 0.71
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (18 bp):
TAATATTATTATTCTATT
Found at i:104712529 original size:17 final size:16
Alignment explanation
Indices: 104712506--104712554 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 16
104712496 AGTGTACTTT
104712506 GTATGTATATATTATTA
1 GTATGTATATATT-TTA
*
104712523 TTATGTATAT-TTTTA
1 GTATGTATATATTTTA
104712538 GTATGTATATATATTTA
1 GTATGTATATAT-TTTA
104712555 TGAAGTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 12 0.43
16 3 0.11
17 13 0.46
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (16 bp):
GTATGTATATATTTTA
Found at i:104712533 original size:15 final size:15
Alignment explanation
Indices: 104712513--104712552 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
104712503 TTTGTATGTA
*
104712513 TATATTATTATTATG
1 TATATTATTAGTATG
*
104712528 TATATTTTTAGTATG
1 TATATTATTAGTATG
104712543 TATATATATT
1 TATAT-TATT
104712553 TATGAAGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (15 bp):
TATATTATTAGTATG
Found at i:104712664 original size:21 final size:19
Alignment explanation
Indices: 104712623--104712662 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
104712613 TTTAATACTA
104712623 TATTATATATATACATCTT
1 TATTATATATATACATCTT
* *
104712642 TATTCTATGTATACATACTT
1 TATTATATATATACAT-CTT
104712662 T
1 T
104712663 TAATATTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.33, C:0.12, G:0.03, T:0.53
Consensus pattern (19 bp):
TATTATATATATACATCTT
Found at i:104713167 original size:2 final size:2
Alignment explanation
Indices: 104713156--104713196 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
104713146 TTCATTTTAA
104713156 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
104713197 TAGTACCTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:104713630 original size:19 final size:19
Alignment explanation
Indices: 104713594--104713632 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
104713584 TATTTATTTT
*
104713594 ATATATATGTAAATATTAC
1 ATATATATGTAAACATTAC
* *
104713613 ATATATATTTTAACATTAC
1 ATATATATGTAAACATTAC
104713632 A
1 A
104713633 AGTTATTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (19 bp):
ATATATATGTAAACATTAC
Found at i:104717408 original size:4 final size:4
Alignment explanation
Indices: 104717401--104717428 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
104717391 GACATTTATG
104717401 CATT CATT CATT CATT CATT CATT CATT
1 CATT CATT CATT CATT CATT CATT CATT
104717429 GCATATCCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
CATT
Found at i:104718272 original size:21 final size:21
Alignment explanation
Indices: 104718248--104718288 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
104718238 AATATATTAA
* *
104718248 CAAATACCAAAAAATAAAAAG
1 CAAAAACCAAAAAAAAAAAAG
*
104718269 CAAAAAGCAAAAAAAAAAAA
1 CAAAAACCAAAAAAAAAAAA
104718289 AAAAAGGATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.78, C:0.12, G:0.05, T:0.05
Consensus pattern (21 bp):
CAAAAACCAAAAAAAAAAAAG
Found at i:104718795 original size:29 final size:29
Alignment explanation
Indices: 104718753--104718810 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
104718743 GTTTTTAGTC
* *
104718753 CTCCTACTATTTGCGCGTGTTGGAATAGG
1 CTCCTACTATTTGCACGTGTTAGAATAGG
*
104718782 CTCCTACTATTTGCATGTGTTAGAATAGG
1 CTCCTACTATTTGCACGTGTTAGAATAGG
104718811 TCGTTCTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (29 bp):
CTCCTACTATTTGCACGTGTTAGAATAGG
Found at i:104718938 original size:18 final size:18
Alignment explanation
Indices: 104718905--104718951 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
104718895 ATTAAATTTG
*
104718905 TAATATTA--ATTCTATT
1 TAATATTATTATTATATT
104718921 TAATATTATTATTATATT
1 TAATATTATTATTATATT
*
104718939 TACTATTATTATT
1 TAATATTATTATT
104718952 TATAAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 8 0.30
18 19 0.70
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (18 bp):
TAATATTATTATTATATT
Found at i:104718995 original size:17 final size:16
Alignment explanation
Indices: 104718972--104719020 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 16
104718962 AGTGTACTTT
104718972 GTATGTATATATTATTA
1 GTATGTATATATT-TTA
*
104718989 TTATGTATAT-TTTTA
1 GTATGTATATATTTTA
104719004 GTATGTATATATATTTA
1 GTATGTATATAT-TTTA
104719021 TGAAGTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 12 0.43
16 3 0.11
17 13 0.46
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (16 bp):
GTATGTATATATTTTA
Found at i:104718999 original size:15 final size:15
Alignment explanation
Indices: 104718979--104719018 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
104718969 TTTGTATGTA
*
104718979 TATATTATTATTATG
1 TATATTATTAGTATG
*
104718994 TATATTTTTAGTATG
1 TATATTATTAGTATG
104719009 TATATATATT
1 TATAT-TATT
104719019 TATGAAGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (15 bp):
TATATTATTAGTATG
Found at i:104719643 original size:2 final size:2
Alignment explanation
Indices: 104719628--104719664 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
104719618 TTCATTTTAA
*
104719628 AT AT AT -T AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
104719665 TAGTACCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:104719661 original size:57 final size:55
Alignment explanation
Indices: 104719556--104719664 Score: 132
Period size: 57 Copynumber: 1.9 Consensus size: 55
104719546 GTATTACGTA
* *
104719556 TATATGTTCTTTTAAAATATCATAGTATTTATGCATTTTATTATATATATATGTTG
1 TATATGTTCTTTTAAAATATCATAGTATATAT-CATTATATTATATATATATGTTG
*
104719612 TATATGTTCATTTTAAATATATTAT-GTATATAT-ATATATATATATATATATAT
1 TATATGTTC-TTTTAAA-ATATCATAGTATATATCAT-TATAT-TATATATATAT
104719665 TAGTACCTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
55 2 0.04
56 13 0.28
57 25 0.54
58 6 0.13
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (55 bp):
TATATGTTCTTTTAAAATATCATAGTATATATCATTATATTATATATATATGTTG
Found at i:104722057 original size:13 final size:13
Alignment explanation
Indices: 104722039--104722081 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
104722029 TAGATTTTTC
104722039 CTAAATATTATCA
1 CTAAATATTATCA
104722052 CTAAATA--ATC-
1 CTAAATATTATCA
104722062 CTAAATATTATCA
1 CTAAATATTATCA
104722075 CTAAATA
1 CTAAATA
104722082 AATCAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:104722064 original size:23 final size:23
Alignment explanation
Indices: 104722037--104722082 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
104722027 GCTAGATTTT
104722037 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
104722060 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
104722083 ATCAAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:104722090 original size:23 final size:23
Alignment explanation
Indices: 104722041--104722090 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
104722031 GATTTTTCCT
*
104722041 AAATATTATCACTAAATAATCCT
1 AAATATTATCACTAAATAATCCA
104722064 AAATATTATCACTAAATAAAT-CA
1 AAATATTATCACTAAAT-AATCCA
104722087 AAAT
1 AAAT
104722091 TTAAAAATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:104724291 original size:31 final size:32
Alignment explanation
Indices: 104724256--104724332 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
104724246 ATGATGCTAG
* *
104724256 AGATATTTTAATATTTTA-TAAT-TATTTAATT
1 AGATATTTTATTATTTTATTAATAT-TTTAATA
**
104724287 AGATA-AATATTATTTTATTAATATTTTAATA
1 AGATATTTTATTATTTTATTAATATTTTAATA
104724318 AGATATTTTATTATT
1 AGATATTTTATTATT
104724333 ATTTTATTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
30 9 0.24
31 20 0.54
32 8 0.22
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (32 bp):
AGATATTTTATTATTTTATTAATATTTTAATA
Found at i:104724311 original size:11 final size:11
Alignment explanation
Indices: 104724297--104724341 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
104724287 AGATAAATAT
104724297 TATTTTATTAA
1 TATTTTATTAA
*
104724308 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
104724321 TATTTTATTAT
1 TATTTTATTAA
104724332 TATTTTATTA
1 TATTTTATTA
104724342 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:104726296 original size:62 final size:62
Alignment explanation
Indices: 104726189--104726341 Score: 270
Period size: 62 Copynumber: 2.5 Consensus size: 62
104726179 AATTGATGGT
* *
104726189 AAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCAAAGAATATGTGG
1 AAAATGGATTTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCAAAGAATATGTGG
104726251 AAAATGGATTTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCAAAGAATATGTGG
1 AAAATGGATTTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCAAAGAATATGTGG
* *
104726313 AAAATGAATTTAGCCCGGACGGGTAATCC
1 AAAATGGATTTAGCCCGGACGGGTGATCC
104726342 GAATTAGGGT
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 87 1.00
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.22
Consensus pattern (62 bp):
AAAATGGATTTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCAAAGAATATGTGG
Found at i:104726592 original size:46 final size:46
Alignment explanation
Indices: 104726525--104726890 Score: 520
Period size: 46 Copynumber: 8.0 Consensus size: 46
104726515 AGTGTGCTCT
*
104726525 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
104726571 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
104726617 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
*
104726663 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
104726709 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * *
104726755 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
104726801 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
104726847 ATGACA-GAAAATG-AGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTA-TAAGACCATGGTTGAAAGATACCATGGCA
104726891 TCATGTCAAA
Statistics
Matches: 298, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
45 2 0.01
46 296 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:104727197 original size:16 final size:17
Alignment explanation
Indices: 104727176--104727208 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
104727166 ATGATGGAGC
104727176 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
104727192 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
104727209 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:104728500 original size:2 final size:2
Alignment explanation
Indices: 104728493--104728523 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
104728483 ATCGGGTATG
104728493 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 T
104728524 GCCCATTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:104728999 original size:24 final size:24
Alignment explanation
Indices: 104728967--104729197 Score: 381
Period size: 24 Copynumber: 9.6 Consensus size: 24
104728957 TATCTCAAAT
104728967 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
104728991 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
104729015 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
104729039 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
104729063 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
104729087 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
* *
104729111 GCACTACGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* * *
104729135 GCACTACGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
* *
104729159 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
104729183 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
104729198 ACATAATAAG
Statistics
Matches: 200, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 200 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:104736274 original size:2 final size:2
Alignment explanation
Indices: 104736267--104736300 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
104736257 ATCGGGTATG
104736267 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
104736301 AGTATGCCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:104736796 original size:24 final size:24
Alignment explanation
Indices: 104736749--104736953 Score: 324
Period size: 24 Copynumber: 8.6 Consensus size: 24
104736739 TATCTCAAAT
104736749 GCACTATGTGTGCGA-TTACTATG
1 GCACTATGTGTGCGATTTACTATG
104736772 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
104736796 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
104736820 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
104736844 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
104736868 GCACTA-GTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* * *
104736891 GCACTACGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
* *
104736915 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
104736939 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
104736954 ACATAATAAG
Statistics
Matches: 174, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
23 37 0.21
24 137 0.79
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:104736848 original size:95 final size:95
Alignment explanation
Indices: 104736749--104736953 Score: 322
Period size: 95 Copynumber: 2.2 Consensus size: 95
104736739 TATCTCAAAT
* *
104736749 GCACTATGTGTGCGA-TTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATT
1 GCACTATGTGTGCGATTTACTATGGCACTA-GTGTGCGATTTACTATAGCACTACGTGTGCGATT
* *
104736813 CACTATGGCACTATGTGTGCGATTTACTATG
65 CACTATAGCACTATGTGTGCGATTTACTATA
*
104736844 GCACTATGTGTGCGATTTACTATGGCACTAGTGTGCGATTTACTATAGCACTACGTGTGCGATTT
1 GCACTATGTGTGCGATTTACTATGGCACTAGTGTGCGATTTACTATAGCACTACGTGTGCGATTC
* *
104736909 GCTATAGCACTATGTGTGCGATTTGCTATA
66 ACTATAGCACTATGTGTGCGATTTACTATA
*
104736939 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
104736954 ACATAATAAG
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
95 87 0.86
96 14 0.14
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (95 bp):
GCACTATGTGTGCGATTTACTATGGCACTAGTGTGCGATTTACTATAGCACTACGTGTGCGATTC
ACTATAGCACTATGTGTGCGATTTACTATA
Found at i:104739326 original size:10 final size:10
Alignment explanation
Indices: 104739311--104739335 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
104739301 TCTATCAATG
104739311 AAAAAAATCT
1 AAAAAAATCT
104739321 AAAAAAATCT
1 AAAAAAATCT
104739331 AAAAA
1 AAAAA
104739336 CCAACGACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAAAATCT
Found at i:104745251 original size:32 final size:32
Alignment explanation
Indices: 104745214--104745275 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
104745204 GCTTATCATG
104745214 CCCATCATCCATTAACTATTAAAATGCTAATA
1 CCCATCATCCATTAACTATTAAAATGCTAATA
*
104745246 CCCATCATTCATTAACTATTAAAATGCTAA
1 CCCATCATCCATTAACTATTAAAATGCTAA
104745276 AATGCATACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.40, C:0.24, G:0.03, T:0.32
Consensus pattern (32 bp):
CCCATCATCCATTAACTATTAAAATGCTAATA
Found at i:104745295 original size:32 final size:32
Alignment explanation
Indices: 104745214--104745296 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 32
104745204 GCTTATCATG
* * *
104745214 CCCATCATCCATTAACTATTAAAATGCTAATA
1 CCCATCATTCATCAACTATTAAAATGCTAAAA
*
104745246 CCCATCATTCATTAACTATTAAAATGCTAAAA
1 CCCATCATTCATCAACTATTAAAATGCTAAAA
**
104745278 TGCATACATT-ATCAACTAT
1 CCCAT-CATTCATCAACTAT
104745297 CCATCACCTT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
32 41 0.91
33 4 0.09
ACGTcount: A:0.41, C:0.23, G:0.04, T:0.33
Consensus pattern (32 bp):
CCCATCATTCATCAACTATTAAAATGCTAAAA
Found at i:104750129 original size:12 final size:12
Alignment explanation
Indices: 104750112--104750142 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
104750102 AGTACTACCT
104750112 CGGCCTCGACCA
1 CGGCCTCGACCA
104750124 CGGCCTCGACCA
1 CGGCCTCGACCA
104750136 CGGCCTC
1 CGGCCTC
104750143 TTCCCCGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.52, G:0.26, T:0.10
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:104752284 original size:40 final size:40
Alignment explanation
Indices: 104752206--104752404 Score: 159
Period size: 40 Copynumber: 5.0 Consensus size: 40
104752196 TTTAACCTGA
* * * * * *
104752206 TATAGTGACTCGCTCGATTGTCTTCGGGACCTAGCCCGGT
1 TATAGTAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGT
* * * *
104752246 TATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGAT
1 TATAGTAACTCGCACGAATGCCTTCGGGTCTTAGCCCGG-T
* * * *
104752287 T-TGGTAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGA
1 TATAGTAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGT
** **
104752326 TATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCTTGT
1 TATAGTAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGT
* * * * *
104752366 TATAATTACTAGCA-TAATTGCCTTCGGGACTTAGCCCGG
1 TATAGTAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGG
104752405 ATATCATTCC
Statistics
Matches: 127, Mismatches: 29, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
39 3 0.02
40 122 0.96
41 2 0.02
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.30
Consensus pattern (40 bp):
TATAGTAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGT
Found at i:104756568 original size:32 final size:32
Alignment explanation
Indices: 104756531--104756595 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
104756521 AATGCTTATC
104756531 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
*
104756563 ATGCCCATCATTCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
104756595 A
1 A
104756596 AATGCATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.32
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:104756615 original size:32 final size:31
Alignment explanation
Indices: 104756535--104756616 Score: 87
Period size: 32 Copynumber: 2.6 Consensus size: 31
104756525 CTTATCATGC
* *
104756535 CCATCATCCATTAACTATTAAAATGCTAATG
1 CCATCATTCATCAACTATTAAAATGCTAATG
*
104756566 CCCATCATTCATTAACTATTAAAATGCTAAAATG
1 -CCATCATTCATCAACTATTAAAATGCT--AATG
104756600 -CATACATT-ATCAACTAT
1 CCAT-CATTCATCAACTAT
104756617 CCATCACCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
32 37 0.82
33 4 0.09
34 4 0.09
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (31 bp):
CCATCATTCATCAACTATTAAAATGCTAATG
Found at i:104759956 original size:21 final size:20
Alignment explanation
Indices: 104759932--104759971 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
104759922 TATGAGCTTT
*
104759932 AATGATTGATGATAGATTATG
1 AATGATTAATGATAG-TTATG
*
104759953 AATGTTTAATGATAGTTAT
1 AATGATTAATGATAGTTAT
104759972 ATAAGTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (20 bp):
AATGATTAATGATAGTTATG
Found at i:104761503 original size:19 final size:20
Alignment explanation
Indices: 104761479--104761516 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
104761469 TAATTAGATT
104761479 TTAATTAA-GTAAATTTAGC
1 TTAATTAAGGTAAATTTAGC
*
104761498 TTAATTAAGGTTAATTTAG
1 TTAATTAAGGTAAATTTAG
104761517 TGTAATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
TTAATTAAGGTAAATTTAGC
Found at i:104761815 original size:20 final size:18
Alignment explanation
Indices: 104761790--104761830 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
104761780 ACGAATGAGC
104761790 AGGGAAAGAAAGAAAGAAAA
1 AGGGAAAG-AA-AAAGAAAA
104761810 AGGGAAAGAAAAAGAAAA
1 AGGGAAAGAAAAAGAAAA
104761828 AGG
1 AGG
104761831 AAAATTAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 11 0.52
19 2 0.10
20 8 0.38
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (18 bp):
AGGGAAAGAAAAAGAAAA
Found at i:104762668 original size:6 final size:6
Alignment explanation
Indices: 104762657--104762688 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
104762647 TTCGTACCTG
104762657 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
104762689 CCTTACGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.47
Consensus pattern (6 bp):
ACTGTT
Found at i:104762694 original size:18 final size:18
Alignment explanation
Indices: 104762657--104762694 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
104762647 TTCGTACCTG
**
104762657 ACTGTTACTGTTACTGTT
1 ACTGTTACTGTTACCCTT
104762675 ACTGTTACTGTTACCCTT
1 ACTGTTACTGTTACCCTT
104762693 AC
1 AC
104762695 GGTGTATTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.24, G:0.13, T:0.45
Consensus pattern (18 bp):
ACTGTTACTGTTACCCTT
Found at i:104766530 original size:26 final size:26
Alignment explanation
Indices: 104766493--104766602 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
104766483 CATGAAATTC
104766493 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
104766519 TTATCATTAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
104766545 TTATCATGGAGCATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
104766571 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
104766597 TTATCA
1 TTATCA
104766603 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:104767381 original size:38 final size:39
Alignment explanation
Indices: 104767286--104767412 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
104767276 CTGTGTCACG
* * * *
104767286 GGCGTGTCTTTGGCCTTGTGAGACACACGATCAGGCCACA
1 GGCGTGTCTTTAGCCGTGTGAGACACATGGT-AGGCCACA
104767326 GGCGTGTCTTTCA-CCGTGTGAGACACATGGTAGGCCACA
1 GGCGTGTCTTT-AGCCGTGTGAGACACATGGTAGGCCACA
* *
104767365 -GCGTGTCTTTAGCCGTGTGAGACATATGGCTGGGCCACACA
1 GGCGTGTCTTTAGCCGTGTGAGACACATGG-TAGG-C-CACA
104767406 GGCGTGT
1 GGCGTGT
104767413 GTCCTCTGTT
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
37 1 0.01
38 26 0.35
39 11 0.15
40 27 0.36
41 4 0.05
42 6 0.08
ACGTcount: A:0.19, C:0.25, G:0.32, T:0.24
Consensus pattern (39 bp):
GGCGTGTCTTTAGCCGTGTGAGACACATGGTAGGCCACA
Found at i:104767901 original size:40 final size:38
Alignment explanation
Indices: 104767836--104767911 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 38
104767826 TGATAAGTTT
* *
104767836 TATATATTTTAAATATTTTCAATAATTCAAATAAAAGA
1 TATATATTTTAAATATTTACAATAATTAAAATAAAAGA
* *
104767874 TATATTATTTTAATCTATTTACTATAATTAAAATAAAA
1 TATA-TATTTTAA-ATATTTACAATAATTAAAATAAAA
104767912 TATTTAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 4 0.12
39 8 0.25
40 20 0.62
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (38 bp):
TATATATTTTAAATATTTACAATAATTAAAATAAAAGA
Found at i:104768184 original size:16 final size:16
Alignment explanation
Indices: 104768155--104768188 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
104768145 AACACAATAT
* *
104768155 ATTATTAATTAATAAA
1 ATTATAAATAAATAAA
104768171 ATTATAAATAAATAAA
1 ATTATAAATAAATAAA
104768187 AT
1 AT
104768189 CATTAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTATAAATAAATAAA
Found at i:104771511 original size:47 final size:47
Alignment explanation
Indices: 104771410--104771998 Score: 371
Period size: 47 Copynumber: 12.6 Consensus size: 47
104771400 TATGCGTGCT
* * *
104771410 GATGCATGTCCCAGACATGTATTACACTAGC-A-CAACTCTT-A-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCTA-TCTTGAGGCC
** * * * *
104771454 GATGTGTGTCCCAAACACGTCTTACATTGGCTATCTATGTTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCTATCTTGAGGCC
* * *
104771501 GATGCATGTCCCAAACATGTCTTACTCTGGC-A-CTCATCTCTG-TGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCT-ATCT-TGAGGCC
* * * * *
104771547 GATACCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT-ATGCGTGCT
1 GAT-GCATGTCCCAGACAT-GTCTTACACTGGCTATC-TATCTTGAG-GCC
* * * *
104771597 GATGCATGTCCCAGACATGTCTTGCACTAG-TA-CAACTCTT-A-GTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCTA-TCTTGAGGCC
* * * * *
104771641 GATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCTATCTTGAGGCC
* * * *
104771688 GATGTATGTCCCAGACATGTCTTACTCTGGC-A-CTCATCTCTG-TGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCT-ATCT-TGAGGCC
* * * * *
104771734 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-ATGTATGCGTGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCTATCT-TGAG-GCC
* *
104771784 GATGCATGTCCCAGACATGTCTTACACTAGC-A-CAACTCTT-A-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCTA-TCTTGAGGCC
* * * * *
104771828 GATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCTATCTTGAGGCC
* **
104771875 GATGCATGTCCCAGACATGTCTTACTCTGGC-A-CTCATCTCT-ATACC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCT-ATCT-TGAGGCC
* * ** * *
104771921 GATGCCATGTCCCAGACATGGTCTTACTCTGGCTCTC-ATAATGTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCTATCTTGAGGCC
*
104771969 GAAGCATGTCCCAGACATGTCTTACACTGG
1 GATGCATGTCCCAGACATGTCTTACACTGG
104771999 TGCACAAATC
Statistics
Matches: 420, Mismatches: 85, Indels: 78
0.72 0.15 0.13
Matches are distributed among these distances:
44 81 0.19
45 18 0.04
46 50 0.12
47 151 0.36
48 74 0.18
49 28 0.07
50 17 0.04
51 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCTATCTTGAGGCC
Found at i:104771651 original size:140 final size:136
Alignment explanation
Indices: 104771500--104771998 Score: 325
Period size: 140 Copynumber: 3.6 Consensus size: 136
104771490 ATGTTGAGGC
* *
104771500 CGATGCATGTCCCAAACATGTCTTACTCTGGCACTCATCTCTGT-GCCGATACCATGTCCCAGAC
1 CGATGCATGTCCCAAACACGTCTTACACTGG--CT-ATCTCTGTGGCCGAT-CCATGTCCCAGAC
* *
104771564 ATGGTCTTACACTGGCTCTCATATATGCGTGCTGATG-CATGTCCCAGACAT-GTCTTGCACTAG
62 AT-GTCTTACACTGGCACTCATATAT--GTGCTGATGCCATGTCCCAGACATGGTCTTACACTAG
104771627 TACAACTCTTAGT
124 TACAACTCTTAGT
* * **
104771640 CGATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAGGCCGATGTATGTCCCAGACA
1 CGATGCATGTCCCAAACACGTCTTACACTGGCTATCTCTGT---GGCCGATCCATGTCCCAGACA
* * * *
104771705 TGTCTTACTCTGGCACTCATCTCTGTGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT
63 TGTCTTACACTGGCACTCATATATGTGCTGATGCCATGTCCCAGACATGGTCTTACACTAG-T-A
** * **
104771770 CATGTATGCGT
126 CAACTCTTAGT
* * * * * * * *
104771781 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-TAGCCGATGCGTGTCCCAGACA
1 -C-GATGCATGTCCCAAACACGTCTTACACTGGC-TATCTCTGTGGCCGATCCATGTCCCAGACA
* * * * *
104771845 CGTCTTACACTGGCTATCTC-TGTCGA-G-GCCGATG-CATGTCCCAGACAT-GTCTTACTCTGG
63 TGTCTTACACTGGC-A-CTCATAT--ATGTGCTGATGCCATGTCCCAGACATGGTCTTACACTAG
* * *
104771905 CACTCATCTCTATA-C
124 TA--CAACTCT-TAGT
* * * * * * **
104771920 CGATGCCATGTCCCAGACATGGTCTTACTCTGGCTCTCATAATGTGGCTGAAGCATGTCCCAGAC
1 CGATG-CATGTCCCAAACA-CGTCTTACACTGGCTATC-T-CTGTGGCCGATCCATGTCCCAGAC
104771985 ATGTCTTACACTGG
62 ATGTCTTACACTGG
104771999 TGCACAAATC
Statistics
Matches: 285, Mismatches: 51, Indels: 45
0.75 0.13 0.12
Matches are distributed among these distances:
137 21 0.07
138 31 0.11
139 57 0.20
140 86 0.30
141 51 0.18
142 5 0.02
143 29 0.10
144 5 0.02
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (136 bp):
CGATGCATGTCCCAAACACGTCTTACACTGGCTATCTCTGTGGCCGATCCATGTCCCAGACATGT
CTTACACTGGCACTCATATATGTGCTGATGCCATGTCCCAGACATGGTCTTACACTAGTACAACT
CTTAGT
Found at i:104771688 original size:187 final size:187
Alignment explanation
Indices: 104771359--104771996 Score: 1055
Period size: 187 Copynumber: 3.4 Consensus size: 187
104771349 GATAAATTGT
* *
104771359 CGATGCCATGTCCCAAATATGGTCTTACACTAGCTCTCATATATGCGTGCTGATGCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATGCGTGCTGATGCATGTCCCAG
* * * *
104771424 ACATGTATTACACTAGCACAACTCTTAGCCGATGTGTGTCCCAAACACGTCTTACATTGGCTATC
66 ACATGTCTTACACTAGCACAACTCTTAGCCGATGCGTGTCCCAGACACGTCTTACACTGGCTATC
* * *
104771489 TATGTTGAGGCCGATGCATGTCCCAAACATGTCTTACTCTGGCACTCATCTCTGTGC
131 TCTGTCGAGGCCGATGCATGTCCCAGACATGTCTTACTCTGGCACTCATCTCTGTGC
* *
104771546 CGATACCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTGCTGATGCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATGCGTGCTGATGCATGTCCCAG
* * *
104771611 ACATGTCTTGCACTAGTACAACTCTTAGTCGATGCGTGTCCCAGACACGTCTTACACTGGCTATC
66 ACATGTCTTACACTAGCACAACTCTTAGCCGATGCGTGTCCCAGACACGTCTTACACTGGCTATC
*
104771676 TCTGTCGAGGCCGATGTATGTCCCAGACATGTCTTACTCTGGCACTCATCTCTGTGC
131 TCTGTCGAGGCCGATGCATGTCCCAGACATGTCTTACTCTGGCACTCATCTCTGTGC
* *
104771733 TGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATGTATGCGTGCTGATGCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATGCGTGCTGATGCATGTCCCAG
104771798 ACATGTCTTACACTAGCACAACTCTTAGCCGATGCGTGTCCCAGACACGTCTTACACTGGCTATC
66 ACATGTCTTACACTAGCACAACTCTTAGCCGATGCGTGTCCCAGACACGTCTTACACTGGCTATC
* *
104771863 TCTGTCGAGGCCGATGCATGTCCCAGACATGTCTTACTCTGGCACTCATCTCTATAC
131 TCTGTCGAGGCCGATGCATGTCCCAGACATGTCTTACTCTGGCACTCATCTCTGTGC
* * * *
104771920 CGATGCCATGTCCCAGACATGGTCTTACTCTGGCTCTCATA-ATGTG-GCTGAAGCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATGCGTGCTGATGCATGTCCCAG
104771983 ACATGTCTTACACT
66 ACATGTCTTACACT
104771997 GGTGCACAAA
Statistics
Matches: 420, Mismatches: 31, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
185 30 0.07
186 4 0.01
187 386 0.92
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (187 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATGCGTGCTGATGCATGTCCCAG
ACATGTCTTACACTAGCACAACTCTTAGCCGATGCGTGTCCCAGACACGTCTTACACTGGCTATC
TCTGTCGAGGCCGATGCATGTCCCAGACATGTCTTACTCTGGCACTCATCTCTGTGC
Found at i:104775692 original size:2 final size:2
Alignment explanation
Indices: 104775687--104775719 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
104775677 TGTGTGGGGT
104775687 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 T
104775720 TTATTAAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:104779613 original size:149 final size:149
Alignment explanation
Indices: 104779338--104779632 Score: 428
Period size: 149 Copynumber: 2.0 Consensus size: 149
104779328 TGGACCCAGG
* *
104779338 GGTGGTCAAATAATCGGATGCATAAAAATCAGGGAGACGAGGCAACCCTACACATGGCGAGGCAT
1 GGTGGTCAAATAATCAGATGCATAAAAATCAAGGAGACGAGGCAACCCTACACATGGCGAGGCAT
* * * * * * * * * *
104779403 CAATTTTATGGACACGCGCCTTCAGTTTAGTGTACCACAGCACATTAGGCCTATGACTTTGTTCT
66 CAATGTCATGAACACGCACCCTCAATTTAGTGCACCACAGCACATTAGGCCCATGACTTTGTGCC
104779468 GAAAAATTACCAACATAGA
131 GAAAAATTACCAACATAGA
* * *
104779487 GGTGGTCAAATAATCAGATGCATGAAAATTAAGGAGACGAGGCAACCCTACGCATGGCGAGGCAT
1 GGTGGTCAAATAATCAGATGCATAAAAATCAAGGAGACGAGGCAACCCTACACATGGCGAGGCAT
* * *
104779552 CAATGTCATGAACATGCACCCTCAATTTAGTGCACCACGGCACATTAGGCCCATGATTTTGTGCC
66 CAATGTCATGAACACGCACCCTCAATTTAGTGCACCACAGCACATTAGGCCCATGACTTTGTGCC
104779617 GAAAAATTACCAACAT
131 GAAAAATTACCAACAT
104779633 TTTCAAGCCC
Statistics
Matches: 128, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
149 128 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (149 bp):
GGTGGTCAAATAATCAGATGCATAAAAATCAAGGAGACGAGGCAACCCTACACATGGCGAGGCAT
CAATGTCATGAACACGCACCCTCAATTTAGTGCACCACAGCACATTAGGCCCATGACTTTGTGCC
GAAAAATTACCAACATAGA
Found at i:104781477 original size:13 final size:13
Alignment explanation
Indices: 104781459--104781501 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
104781449 TAGATTTTTC
104781459 CTAAATATTATCA
1 CTAAATATTATCA
104781472 CTAAATA--ATC-
1 CTAAATATTATCA
104781482 CTAAATATTATCA
1 CTAAATATTATCA
104781495 CTAAATA
1 CTAAATA
104781502 AATTAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:104781485 original size:23 final size:23
Alignment explanation
Indices: 104781457--104781502 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
104781447 TTTAGATTTT
104781457 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
104781480 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
104781503 ATTAAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:104785315 original size:13 final size:13
Alignment explanation
Indices: 104785297--104785339 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
104785287 AATTTTGATT
104785297 TATTTAGTGATAA
1 TATTTAGTGATAA
104785310 TATTTAG-GAT--
1 TATTTAGTGATAA
*
104785320 TACTTAGTGATAA
1 TATTTAGTGATAA
104785333 TATTTAG
1 TATTTAG
104785340 GAAAAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:104794337 original size:31 final size:30
Alignment explanation
Indices: 104794291--104794352 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 30
104794281 TTCATCCAGG
104794291 TAAGCCTTTTTTTCTTCCATTCTTCAACTT
1 TAAGCCTTTTTTTCTTCCATTCTTCAACTT
*
104794321 TAAGCTTTCTTTTTCTTCCATTCTTCAACTT
1 TAAGCCTT-TTTTTCTTCCATTCTTCAACTT
104794352 T
1 T
104794353 TTCCATCTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.16, C:0.26, G:0.03, T:0.55
Consensus pattern (30 bp):
TAAGCCTTTTTTTCTTCCATTCTTCAACTT
Found at i:104796894 original size:92 final size:93
Alignment explanation
Indices: 104796751--104796935 Score: 309
Period size: 92 Copynumber: 2.0 Consensus size: 93
104796741 AGCAATCCTT
* * *
104796751 TTCTTAGCCTTTATTTACTTTTGTTAGGATTGAGCTCTGATTAGATATTTTGTTTTGGATTTAAT
1 TTCTTAGCCTTTATTTACTTTTATTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGATTTAAT
104796816 TGTTGATTCATCTTTTTTCTATTATTTC
66 TGTTGATTCATCTTTTTTCTATTATTTC
* *
104796844 TTCTTCGCCTTTATTTAC-TTTATTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGGTTTAAT
1 TTCTTAGCCTTTATTTACTTTTATTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGATTTAAT
*
104796908 TGTTTATTCATCTTTTTTCTATTATTTC
66 TGTTGATTCATCTTTTTTCTATTATTTC
104796936 CTGGCAGCTC
Statistics
Matches: 86, Mismatches: 6, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 69 0.80
93 17 0.20
ACGTcount: A:0.18, C:0.11, G:0.14, T:0.57
Consensus pattern (93 bp):
TTCTTAGCCTTTATTTACTTTTATTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGATTTAAT
TGTTGATTCATCTTTTTTCTATTATTTC
Found at i:104797408 original size:25 final size:25
Alignment explanation
Indices: 104797374--104797448 Score: 141
Period size: 25 Copynumber: 3.0 Consensus size: 25
104797364 AAGGTTAATG
104797374 CTATTTGTCAATTCCCATTCAACAT
1 CTATTTGTCAATTCCCATTCAACAT
104797399 CTATTTGTCAATTCCCATTCAACAT
1 CTATTTGTCAATTCCCATTCAACAT
*
104797424 CTATTTGCCAATTCCCATTCAACAT
1 CTATTTGTCAATTCCCATTCAACAT
104797449 TCTCTCTCGG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.28, C:0.29, G:0.04, T:0.39
Consensus pattern (25 bp):
CTATTTGTCAATTCCCATTCAACAT
Found at i:104799658 original size:26 final size:27
Alignment explanation
Indices: 104799628--104799689 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
104799618 AGTTTTGAGA
104799628 TATAAATTAAAAATAAATAAATAAA-T
1 TATAAATTAAAAATAAATAAATAAATT
* * *
104799654 TATAAACTAAGAATAAGTAAATAAATT
1 TATAAATTAAAAATAAATAAATAAATT
*
104799681 TATACATTA
1 TATAAATTA
104799690 TAGATTAGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 22 0.73
27 8 0.27
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (27 bp):
TATAAATTAAAAATAAATAAATAAATT
Found at i:104800337 original size:13 final size:13
Alignment explanation
Indices: 104800315--104800352 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
104800305 TATTTAAAAT
*
104800315 AATAAATAATTAA
1 AATAATTAATTAA
*
104800328 AATAATTAATTAT
1 AATAATTAATTAA
104800341 AAT-ATTAATTAA
1 AATAATTAATTAA
104800353 GTGATAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AATAATTAATTAA
Found at i:104811850 original size:30 final size:30
Alignment explanation
Indices: 104811814--104811973 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
104811804 GACAAGATTG
* * * * *
104811814 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
104811844 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
104811872 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
104811901 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
104811931 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
104811960 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
104811974 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:104811941 original size:59 final size:57
Alignment explanation
Indices: 104811814--104811973 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
104811804 GACAAGATTG
* * * * * *
104811814 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
104811872 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
104811931 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
104811974 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:104819752 original size:30 final size:30
Alignment explanation
Indices: 104819716--104819875 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
104819706 GACAAGATTG
* * * * *
104819716 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
104819746 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
104819774 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
104819803 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
104819833 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
104819862 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
104819876 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:104819843 original size:59 final size:57
Alignment explanation
Indices: 104819716--104819875 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
104819706 GACAAGATTG
* * * * * *
104819716 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
104819774 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
104819833 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
104819876 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:104821522 original size:54 final size:54
Alignment explanation
Indices: 104821464--104821630 Score: 158
Period size: 54 Copynumber: 3.1 Consensus size: 54
104821454 TAGGCTACGA
* * * *
104821464 ATTTACAATCAGAACCTTCAACTTACGGGATTTTACGAATCTTG-GAGTTTGCTG
1 ATTTACAATCACAACCTTCAACTTACGAGAATTTACGAATCTCGAGA-TTTGCTG
* ** *
104821518 ATTTACGATCACAACCTTTTACTTTCGAGAATTTACGAATCTCGAGATTTGCTG
1 ATTTACAATCACAACCTTCAACTTACGAGAATTTACGAATCTCGAGATTTGCTG
* * ** * * * *
104821572 ATTTACAATCACGACATTTTACTGACGAGACTTTATGAATCTCGTAG-TTCGCTG
1 ATTTACAATCACAACCTTCAACTTACGAGAATTTACGAATCTCG-AGATTTGCTG
104821626 ATTTA
1 ATTTA
104821631 TGATTACGAC
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
54 91 0.96
55 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (54 bp):
ATTTACAATCACAACCTTCAACTTACGAGAATTTACGAATCTCGAGATTTGCTG
Found at i:104821640 original size:54 final size:53
Alignment explanation
Indices: 104821495--104821640 Score: 166
Period size: 54 Copynumber: 2.7 Consensus size: 53
104821485 CTTACGGGAT
* * * **
104821495 TTTACGAATCTTGGAGTTTGCTGATTTACGATCACAACCTTTTACTTTCGAGAA
1 TTTACGAATC-TCGAGTTTGCTGATTTACGATCACGACATTTTACTGACGAGAA
* *
104821549 TTTACGAATCTCGAGATTTGCTGATTTACAATCACGACATTTTACTGACGAGAC
1 TTTACGAATCTCGAG-TTTGCTGATTTACGATCACGACATTTTACTGACGAGAA
* * * *
104821603 TTTATGAATCTCGTAGTTCGCTGATTTATGATTACGAC
1 TTTACGAATCTCG-AGTTTGCTGATTTACGATCACGAC
104821641 CTACTTATAG
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 4 0.05
54 72 0.92
55 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (53 bp):
TTTACGAATCTCGAGTTTGCTGATTTACGATCACGACATTTTACTGACGAGAA
Found at i:104821708 original size:54 final size:54
Alignment explanation
Indices: 104821642--104821755 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
104821632 GATTACGACC
* * * * * *
104821642 TACTTATAGGATTTTACGACTCTCATGGTCTACTTATTTATGATGACAACCTTT
1 TACTTATAGGATTTTACGAATCTCAAGGTCCACTGATTTACGATAACAACCTTT
* * *
104821696 TACTTATGGGATTTTACGAATCTCAAGGTCCGCTGATTTACGATAACGACCTTT
1 TACTTATAGGATTTTACGAATCTCAAGGTCCACTGATTTACGATAACAACCTTT
104821750 TACTTA
1 TACTTA
104821756 CGAAATTTAT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.39
Consensus pattern (54 bp):
TACTTATAGGATTTTACGAATCTCAAGGTCCACTGATTTACGATAACAACCTTT
Found at i:104821870 original size:19 final size:19
Alignment explanation
Indices: 104821824--104821871 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
104821814 GTATATATTT
*
104821824 TAAA-TTTATTTAAGTAGA
1 TAAATTTTATTTAAGAAGA
* *
104821842 TAAATCTTATTTAGGAAGA
1 TAAATTTTATTTAAGAAGA
104821861 TAAATTTTATT
1 TAAATTTTATT
104821872 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (19 bp):
TAAATTTTATTTAAGAAGA
Found at i:104821953 original size:42 final size:42
Alignment explanation
Indices: 104821895--104821978 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
104821885 TATTTTTATT
*
104821895 TTATCTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCCC
1 TTATCTTTTAGTAGTTTATTAGAATAAAGGAACTATTTTCCC
* *
104821937 TTATGTTTTAGTAGTTTATTAGAATAAATGAACTATTTTCCC
1 TTATCTTTTAGTAGTTTATTAGAATAAAGGAACTATTTTCCC
104821979 AATTAGGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (42 bp):
TTATCTTTTAGTAGTTTATTAGAATAAAGGAACTATTTTCCC
Found at i:104826892 original size:33 final size:39
Alignment explanation
Indices: 104826848--104826929 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 39
104826838 GTAAAAACAC
*
104826848 AATAGTTATAATAATGA-AA-A-T-GTATTA-TAAT-AT
1 AATAGTAATAATAATGATAATAGTGGTATTAGTAATAAT
*
104826881 AATAGTAATAATGATGATAATAGTGGTATTAGTAATAAT
1 AATAGTAATAATAATGATAATAGTGGTATTAGTAATAAT
*
104826920 AATAATAATA
1 AATAGTAATA
104826930 GGAAATAATG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 15 0.38
34 2 0.05
35 1 0.03
36 1 0.03
37 6 0.15
38 4 0.10
39 11 0.28
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (39 bp):
AATAGTAATAATAATGATAATAGTGGTATTAGTAATAAT
Found at i:104827353 original size:22 final size:22
Alignment explanation
Indices: 104827322--104827377 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
104827312 TTTGTAGGCA
*
104827322 AGTGGAGTGGTTGGGATGGTTT
1 AGTGGGGTGGTTGGGATGGTTT
*
104827344 AGTGGGGTGGTTGGGGTGGTTT
1 AGTGGGGTGGTTGGGATGGTTT
104827366 AGTGGGGTGGTT
1 AGTGGGGTGGTT
104827378 TAGTGGGGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.09, C:0.00, G:0.55, T:0.36
Consensus pattern (22 bp):
AGTGGGGTGGTTGGGATGGTTT
Found at i:104827354 original size:13 final size:13
Alignment explanation
Indices: 104827333--104827425 Score: 103
Period size: 13 Copynumber: 7.8 Consensus size: 13
104827323 GTGGAGTGGT
*
104827333 TGGGATGGTTTAG
1 TGGGGTGGTTTAG
104827346 TGGGGTGG--T--
1 TGGGGTGGTTTAG
104827355 TGGGGTGGTTTAG
1 TGGGGTGGTTTAG
104827368 TGGGGTGGTTTAG
1 TGGGGTGGTTTAG
104827381 TGGGGTGG--T--
1 TGGGGTGGTTTAG
*
104827390 TGGAGTGGTTTAG
1 TGGGGTGGTTTAG
*
104827403 TGGAGTGGTTTAG
1 TGGGGTGGTTTAG
104827416 TGGGGTGGTT
1 TGGGGTGGTT
104827426 GGAGTGAAGA
Statistics
Matches: 69, Mismatches: 3, Indels: 16
0.78 0.03 0.18
Matches are distributed among these distances:
9 15 0.22
11 4 0.06
13 50 0.72
ACGTcount: A:0.09, C:0.00, G:0.54, T:0.38
Consensus pattern (13 bp):
TGGGGTGGTTTAG
Found at i:104827378 original size:35 final size:35
Alignment explanation
Indices: 104827333--104827431 Score: 171
Period size: 35 Copynumber: 2.8 Consensus size: 35
104827323 GTGGAGTGGT
* *
104827333 TGGGATGGTTTAGTGGGGTGGTTGGGGTGGTTTAG
1 TGGGGTGGTTTAGTGGGGTGGTTGGAGTGGTTTAG
104827368 TGGGGTGGTTTAGTGGGGTGGTTGGAGTGGTTTAG
1 TGGGGTGGTTTAGTGGGGTGGTTGGAGTGGTTTAG
*
104827403 TGGAGTGGTTTAGTGGGGTGGTTGGAGTG
1 TGGGGTGGTTTAGTGGGGTGGTTGGAGTG
104827432 AAGATATTTG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 61 1.00
ACGTcount: A:0.09, C:0.00, G:0.55, T:0.36
Consensus pattern (35 bp):
TGGGGTGGTTTAGTGGGGTGGTTGGAGTGGTTTAG
Found at i:104827428 original size:22 final size:22
Alignment explanation
Indices: 104827322--104827431 Score: 89
Period size: 22 Copynumber: 4.8 Consensus size: 22
104827312 TTTGTAGGCA
*
104827322 AGTGGAGTGGTTGG-GATGGTTT
1 AGTGGGGTGGTTGGAG-TGGTTT
*
104827344 AGTGGGGTGGTTGGGGTGGTTT
1 AGTGGGGTGGTTGGAGTGGTTT
* **
104827366 AGTGGGGTGGTT-TAGTGGGGT
1 AGTGGGGTGGTTGGAGTGGTTT
* *
104827387 GGTTGGAGTGGTTTAGTGGAGTGGTTT
1 AG-TGGGGTGG--T--TGGAGTGGTTT
104827414 AGTGGGGTGGTTGGAGTG
1 AGTGGGGTGGTTGGAGTG
104827432 AAGATATTTG
Statistics
Matches: 69, Mismatches: 12, Indels: 14
0.73 0.13 0.15
Matches are distributed among these distances:
21 6 0.09
22 45 0.65
23 1 0.01
24 2 0.03
26 8 0.12
27 7 0.10
ACGTcount: A:0.10, C:0.00, G:0.55, T:0.35
Consensus pattern (22 bp):
AGTGGGGTGGTTGGAGTGGTTT
Found at i:104827549 original size:16 final size:15
Alignment explanation
Indices: 104827508--104827552 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
104827498 CTTTGGAGGT
** *
104827508 TGTTGGGTTTTGGGC
1 TGTTGGGTTTTTAGA
104827523 TGTTGGGTTTTTAGA
1 TGTTGGGTTTTTAGA
104827538 TGTTGGGCTTTTTAG
1 TGTTGGG-TTTTTAG
104827553 CCTGGGTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.07, C:0.04, G:0.38, T:0.51
Consensus pattern (15 bp):
TGTTGGGTTTTTAGA
Found at i:104828173 original size:206 final size:206
Alignment explanation
Indices: 104827923--104829006 Score: 1909
Period size: 206 Copynumber: 5.3 Consensus size: 206
104827913 CAAATCTGCT
* * *
104827923 TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGGCTTCGGTATAAAC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
* * * * *
104827988 ATTTGAAGGCCAGATCTGCTATGTATCTACTCTTCATCGAAATGGAGATGCCAGACTTTGACTTG
66 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
* *
104828053 TTCTCTGACAATACAGAGATGCCAAATCATCTTAAACTTGCTTTAGCATAAGCACGCGAAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
*
104828118 AATCAGCTATA
196 AATCAGCTATG
*
104828129 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGCATAAAC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
** *
104828194 ATCTGAAGGCCAGATCTGCTATGTATCTATTCTCCGTCAAAATGGAGATGCCAGACTTCGACTTG
66 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
*
104828259 TTCTCTGACAATACAGAGATGCGAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
104828324 AATCAGCTATG
196 AATCAGCTATG
*
104828335 TCTTTGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
104828400 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
66 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
* * * *
104828465 TTCTCTGATAATACAGAGATGCGAAATTATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAACCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
104828530 AATCAGCTATG
196 AATCAGCTATG
*
104828541 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTACTTCAGTATAAAC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
*
104828606 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCATCGAAATGGAGATGCCAGACTTCGACTTG
66 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
* *
104828671 TTCTCTGACAATATAGAGATGCCAAATCATCTTAGACTTGCTTTAGCATAAGCACGCGAAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
104828736 AATCAGCTATG
196 AATCAGCTATG
104828747 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
104828812 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
66 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
104828877 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
104828942 AATCAGCTATG
196 AATCAGCTATG
* * *
104828953 TCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTAGATC-TGCTT
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTT
104829007 TAGCCATATC
Statistics
Matches: 840, Mismatches: 38, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
205 5 0.01
206 835 0.99
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (206 bp):
TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAAC
ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
AATCAGCTATG
Found at i:104830458 original size:40 final size:40
Alignment explanation
Indices: 104830381--104830586 Score: 272
Period size: 40 Copynumber: 5.2 Consensus size: 40
104830371 AAACCAAGTA
* * * *
104830381 CCTTCGGGATTTAG-CCAGATATAGCTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
*
104830420 CCTTCGGGACTTAGCCCGGTTATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
**
104830460 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* * * * *
104830500 CCTTCGGGACTTAGCCCGGATATAATC-GCTAGCATAAATA
1 CCTTCGGGACTTAGCCCGGATAT-AGCAACTCGCACAAATG
*
104830540 CCTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
104830580 CCTTCGG
1 CCTTCGG
104830587 ATCTTAGTCC
Statistics
Matches: 144, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 15 0.10
40 128 0.89
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
Found at i:104835379 original size:40 final size:39
Alignment explanation
Indices: 104835335--104835516 Score: 238
Period size: 39 Copynumber: 4.6 Consensus size: 39
104835325 GTTCAAAACA
* * ** * *
104835335 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
104835375 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
104835415 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* * *
104835454 CCTTCGGGCTTAGCCCGAATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
104835493 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
104835517 CTCGAACATT
Statistics
Matches: 126, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 86 0.68
40 40 0.32
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:104835446 original size:39 final size:39
Alignment explanation
Indices: 104835365--104835517 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
104835355 TATGGTAACC
* *
104835365 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
104835405 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
104835444 CGCACAATTGCCTTCGGGCTTAGCCCGAATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
104835483 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
104835518 TCGAACATTC
Statistics
Matches: 104, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 87 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:104842458 original size:40 final size:39
Alignment explanation
Indices: 104842414--104842595 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
104842404 GTTCAAAACA
* * ** * *
104842414 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
104842454 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
104842494 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
104842533 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
104842572 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
104842596 CTCGAACATT
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:104842525 original size:39 final size:39
Alignment explanation
Indices: 104842444--104842596 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
104842434 TATGGTAACC
* *
104842444 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
104842484 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
104842523 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
104842562 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
104842597 TCGAACATTC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:104845662 original size:46 final size:46
Alignment explanation
Indices: 104845602--104845867 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
104845592 TTTGAAGTGA
* * * * * *
104845602 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * * *
104845648 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCTTGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
104845694 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
104845740 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
104845786 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
104845824 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
104845868 AGAGCACCTC
Statistics
Matches: 197, Mismatches: 14, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
38 33 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 150 0.76
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:104845832 original size:38 final size:38
Alignment explanation
Indices: 104845781--104845856 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
104845771 CATTTCATAT
104845781 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
104845819 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
104845857 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:104855449 original size:40 final size:40
Alignment explanation
Indices: 104855375--104855676 Score: 509
Period size: 40 Copynumber: 7.6 Consensus size: 40
104855365 AACCCAAGTA
*
104855375 CCTTCGGGACTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
104855414 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
104855454 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
104855494 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* * *
104855534 CCTTCGGGACTTAGCTCAGATATAGTTAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
104855574 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
104855614 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
104855654 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
104855677 CATTCGAATA
Statistics
Matches: 246, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.05
40 230 0.93
41 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:104857213 original size:46 final size:46
Alignment explanation
Indices: 104857163--104857288 Score: 216
Period size: 46 Copynumber: 2.7 Consensus size: 46
104857153 TGGTTGAGCA
*
104857163 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
104857209 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
104857255 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
104857289 GGGGCGGGTT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:104865525 original size:40 final size:40
Alignment explanation
Indices: 104865452--104865751 Score: 491
Period size: 40 Copynumber: 7.6 Consensus size: 40
104865442 AACCCAAGTA
* * *
104865452 CCTTCGGGATTTAG-CC-GATATA-ACAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
104865490 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
104865530 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
104865570 CCTTCGGGACTTAGCCCGGATATAGTC-ATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
104865609 CCTTCGGGACTTAGCCCGAATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
104865649 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
104865689 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
104865729 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
104865752 CATTCGAATA
Statistics
Matches: 245, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
38 12 0.05
39 39 0.16
40 191 0.78
41 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:104865692 original size:119 final size:120
Alignment explanation
Indices: 104865452--104865751 Score: 491
Period size: 119 Copynumber: 2.5 Consensus size: 120
104865442 AACCCAAGTA
* * * *
104865452 CCTTCGGGATTTAG-CC-GATATA-ACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
*
104865514 GTCAATAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
65 GTCAATAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
104865570 CCTTCGGGACTTAGCCCGGATATAGTC-ATAGCACAAATGCCTTCGGGACTTAGCCCGAATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
* *
104865634 TCAATAGCACAAATGCCTTCGGGACTTAGCCTGGATATAGTCAATAGCACAAATG
66 TCAATAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
104865689 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
104865752 CATTCGAATA
Statistics
Matches: 169, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
118 13 0.08
119 114 0.67
120 41 0.24
121 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (120 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:104870156 original size:33 final size:39
Alignment explanation
Indices: 104870112--104870193 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 39
104870102 GTAAAAACAC
*
104870112 AATAGTTATAATAATGA-AA-A-T-GTATTA-TAAT-AT
1 AATAGTAATAATAATGATAATAGTGGTATTAGTAATAAT
*
104870145 AATAGTAATAATGATGATAATAGTGGTATTAGTAATAAT
1 AATAGTAATAATAATGATAATAGTGGTATTAGTAATAAT
*
104870184 AATAATAATA
1 AATAGTAATA
104870194 GAAAATAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 15 0.38
34 2 0.05
35 1 0.03
36 1 0.03
37 6 0.15
38 4 0.10
39 11 0.28
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (39 bp):
AATAGTAATAATAATGATAATAGTGGTATTAGTAATAAT
Found at i:104870202 original size:19 final size:18
Alignment explanation
Indices: 104870178--104870219 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
104870168 TGGTATTAGT
*
104870178 AATAATAATAATAATAGAA
1 AATAATAACAATAATA-AA
*
104870197 AATAATAACAATATTAAA
1 AATAATAACAATAATAAA
104870215 AATAA
1 AATAA
104870220 CACTCTCCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (18 bp):
AATAATAACAATAATAAA
Found at i:104870742 original size:16 final size:15
Alignment explanation
Indices: 104870701--104870745 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
104870691 CTTTGGAGGT
** *
104870701 TGTTGGGTTTTGGGC
1 TGTTGGGTTTTTAGA
104870716 TGTTGGGTTTTTAGA
1 TGTTGGGTTTTTAGA
104870731 TGTTGGGCTTTTTAG
1 TGTTGGG-TTTTTAG
104870746 CCCGGGCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.07, C:0.04, G:0.38, T:0.51
Consensus pattern (15 bp):
TGTTGGGTTTTTAGA
Found at i:104870840 original size:19 final size:18
Alignment explanation
Indices: 104870811--104870858 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
104870801 GTATATATTT
*
104870811 TAAATTTATTTAGGTAGA
1 TAAATTTATTTAGGAAGA
104870829 TAAATCTTATTTAGGAAGA
1 TAAAT-TTATTTAGGAAGA
104870848 TAAACTTTATT
1 TAAA-TTTATT
104870859 CATATTCTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 5 0.19
19 21 0.78
20 1 0.04
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (18 bp):
TAAATTTATTTAGGAAGA
Found at i:104871185 original size:53 final size:54
Alignment explanation
Indices: 104871066--104871310 Score: 201
Period size: 54 Copynumber: 4.6 Consensus size: 54
104871056 GGAAACTTTC
* * * * * *
104871066 ACCTTCTACTTATGAGATTTTACCAATCTCACGGTCCACTGATTTATGATCAGG
1 ACCTTCTACTTACGAGGTTTTACAAATCTCACAGTCCATTGATTTACGATCAGG
** * *
104871120 ACCTTCTACTTACGAGGTTTTACAAATCTCAC-GTCTGTTGATTTACGATGATG
1 ACCTTCTACTTACGAGGTTTTACAAATCTCACAGTCCATTGATTTACGATCAGG
** ** * *
104871173 ATTTTCTACTTAC-AGGATTTTACGGATCTCACAGTCCATTGATTTACAATCATG
1 ACCTTCTACTTACGAGG-TTTTACAAATCTCACAGTCCATTGATTTACGATCAGG
* * ** * ** * * *
104871227 ACCTCCTACTTATGAAATTTTACGAATCTTGCAGTCCGTTAATTTACGTTC-GTG
1 ACCTTCTACTTACGAGGTTTTACAAATCTCACAGTCCATTGATTTACGATCAG-G
104871281 ACCTTCTACTTACG-GGATTTTACAAATCTC
1 ACCTTCTACTTACGAGG-TTTTACAAATCTC
104871311 GCGGTCCTCT
Statistics
Matches: 149, Mismatches: 37, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
52 3 0.02
53 39 0.26
54 106 0.71
55 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (54 bp):
ACCTTCTACTTACGAGGTTTTACAAATCTCACAGTCCATTGATTTACGATCAGG
Found at i:104871255 original size:107 final size:108
Alignment explanation
Indices: 104871066--104871310 Score: 255
Period size: 107 Copynumber: 2.3 Consensus size: 108
104871056 GGAAACTTTC
* * ** *
104871066 ACCTTCTACTTA-TGAGATTTTACCAATCTCACGGTCCACTGATTTATGATCAGGACCTTCTACT
1 ACCTTCTACTTACAG-GATTTTACCAATCTCACAGTCCACTGATTTACAATCAGGACCTCCTACT
** * *
104871130 TACGAGGTTTTACAAATC-T-CACGTCTGTTGATTTACGAT-GATG
65 TACGAAATTTTACAAATCTTGCA-GTCCGTTAATTTACGATCG-TG
** ** * *
104871173 ATTTTCTACTTACAGGATTTTACGGATCTCACAGTCCATTGATTTACAATCATGACCTCCTACTT
1 ACCTTCTACTTACAGGATTTTACCAATCTCACAGTCCACTGATTTACAATCAGGACCTCCTACTT
* * *
104871238 ATGAAATTTTACGAATCTTGCAGTCCGTTAATTTACGTTCGTG
66 ACGAAATTTTACAAATCTTGCAGTCCGTTAATTTACGATCGTG
* *
104871281 ACCTTCTACTTACGGGATTTTACAAATCTC
1 ACCTTCTACTTACAGGATTTTACCAATCTC
104871311 GCGGTCCTCT
Statistics
Matches: 111, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
107 65 0.59
108 43 0.39
109 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (108 bp):
ACCTTCTACTTACAGGATTTTACCAATCTCACAGTCCACTGATTTACAATCAGGACCTCCTACTT
ACGAAATTTTACAAATCTTGCAGTCCGTTAATTTACGATCGTG
Found at i:104871337 original size:54 final size:52
Alignment explanation
Indices: 104871066--104871357 Score: 192
Period size: 54 Copynumber: 5.4 Consensus size: 52
104871056 GGAAACTTTC
* * * * * * *
104871066 ACCTTCTACTTATGAGATTTTACCAATCTCACGGTCCACTGATTTATGATCAGG
1 ACCTTCTACTTACGGGATTTTACAAATCTCACAGTCC-TTGATTTA-CATCATG
* *
104871120 ACCTTCTACTTACGAGG-TTTTACAAATCTCAC-GTCTGTTGATTTACGATGATG
1 ACCTTCTACTTACG-GGATTTTACAAATCTCACAGTC-CTTGATTTAC-ATCATG
** * **
104871173 ATTTTCTACTTACAGGATTTTACGGATCTCACAGTCCATTGATTTACAATCATG
1 ACCTTCTACTTACGGGATTTTACAAATCTCACAGTCC-TTGATTTAC-ATCATG
* * ** * ** * * *
104871227 ACCTCCTACTTATGAAATTTTACGAATCTTGCAGTCCGTTAATTTACGTTCGTG
1 ACCTTCTACTTACGGGATTTTACAAATCTCACAGTCC-TTGATTTAC-ATCATG
* * * *
104871281 ACCTTCTACTTACGGGATTTTACAAATCTCGCGGTCCTCTAATTGACATTCATG
1 ACCTTCTACTTACGGGATTTTACAAATCTCACAGTCCT-TGATTTACA-TCATG
* * *
104871335 ACCTTCTAGTTATGCGATTTTAC
1 ACCTTCTACTTACGGGATTTTAC
104871358 GATTCTAGGT
Statistics
Matches: 186, Mismatches: 44, Indels: 16
0.76 0.18 0.07
Matches are distributed among these distances:
52 2 0.01
53 39 0.21
54 144 0.77
55 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (52 bp):
ACCTTCTACTTACGGGATTTTACAAATCTCACAGTCCTTGATTTACATCATG
Found at i:104871505 original size:27 final size:27
Alignment explanation
Indices: 104871474--104871528 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
104871464 CTGACCTTGA
104871474 AAGGAGGATAGAGGAATCAATTTTCTT
1 AAGGAGGATAGAGGAATCAATTTTCTT
104871501 AAGGAGGATAGAGGAATCAATTTTCTT
1 AAGGAGGATAGAGGAATCAATTTTCTT
104871528 A
1 A
104871529 CATTGCCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.29
Consensus pattern (27 bp):
AAGGAGGATAGAGGAATCAATTTTCTT
Found at i:104871772 original size:54 final size:54
Alignment explanation
Indices: 104871709--104871868 Score: 146
Period size: 54 Copynumber: 2.9 Consensus size: 54
104871699 ATGATGAAAA
* ** * **
104871709 CTTTCTACTTACGAGATTTAACGAATCTCGT-GGTCTATTAATTTACGATGGCGAC
1 CTTT-TACTTACGAGATTTAACGAATCTCATAATTC-ACTAATTTACGATCACGAC
* *
104871764 CTTTTACTTAC-AGGATTTTACGAATCTCATAATTCGCTAATTTACGATCACGAC
1 CTTTTACTTACGA-GATTTAACGAATCTCATAATTCACTAATTTACGATCACGAC
* * * * *
104871818 CTTCTACTTACGAGATTTTAC-AAGTCTCACAGTCCACTAATTTACGATCAC
1 CTTTTACTTACGAGATTTAACGAA-TCTCATAATTCACTAATTTACGATCAC
104871869 AATCTTCTAC
Statistics
Matches: 88, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
53 3 0.03
54 78 0.89
55 7 0.08
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (54 bp):
CTTTTACTTACGAGATTTAACGAATCTCATAATTCACTAATTTACGATCACGAC
Found at i:104871859 original size:108 final size:108
Alignment explanation
Indices: 104871641--104872005 Score: 254
Period size: 108 Copynumber: 3.4 Consensus size: 108
104871631 GTTTCAGTTG
* * * * * *** * * *
104871641 ATTTACAATCACGACCTTTTGCTTTCAAGATTTTACGAATTTCACGGTTCGCTAGTTTATGATGA
1 ATTTACGATCACGACCTTTTACTTACAGGATTTTACGAATCTCATAATTCGCTAATTTACGATCA
* *** * *
104871706 AAACTTTCTACTTACGAGATTTAACGAATCTCGTGGTCTATTA
66 AAACCTTCTACTTACGAGATTTAACGAATCTCACAGTCCACTA
**
104871749 ATTTACGATGGCGACCTTTTACTTACAGGATTTTACGAATCTCATAATTCGCTAATTTACGATCA
1 ATTTACGATCACGACCTTTTACTTACAGGATTTTACGAATCTCATAATTCGCTAATTTACGATCA
** *
104871814 CGACCTTCTACTTACGAGATTTTAC-AAGTCTCACAGTCCACTA
66 AAACCTTCTACTTACGAGATTTAACGAA-TCTCACAGTCCACTA
* * * * * ** * * *
104871857 ATTTACGATCACAATCTTCTACATACAGGATTTTAAGAA-CTCATGGTCCACTGATTTACGATCA
1 ATTTACGATCACGACCTTTTACTTACAGGATTTTACGAATCTCATAATTCGCTAATTTACGATCA
*** ** * * * * *
104871921 CGGCCACCTATTTACGAGACCTT-GCGAATCTCGCAGTTCACTGA
66 AAACCTTCTACTTACGAGA-TTTAACGAATCTCACAGTCCACT-A
* * *
104871965 A-TTGCGATCATGACCTTTTACTTA-TGTGATTTTACGAATCT
1 ATTTACGATCACGACCTTTTACTTACAG-GATTTTACGAATCT
104872006 ATGCGTGTTG
Statistics
Matches: 201, Mismatches: 50, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
106 1 0.00
107 77 0.38
108 123 0.61
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (108 bp):
ATTTACGATCACGACCTTTTACTTACAGGATTTTACGAATCTCATAATTCGCTAATTTACGATCA
AAACCTTCTACTTACGAGATTTAACGAATCTCACAGTCCACTA
Found at i:104871876 original size:54 final size:53
Alignment explanation
Indices: 104871747--104871921 Score: 147
Period size: 54 Copynumber: 3.3 Consensus size: 53
104871737 CGTGGTCTAT
** * * * * * * * *
104871747 TAATTTACGATGGCGACCTTTTACTTACAGGATTTTACGAATCTCATAATTCGC
1 TAATTTACGATCACAACCTTCTACATACAGGATTTTAAGAA-CTCACAGTCCAC
* * *
104871801 TAATTTACGATCACGACCTTCTACTTAC-GAGATTTTACA-AGTCTCACAGTCCAC
1 TAATTTACGATCACAACCTTCTACATACAG-GATTTTA-AGA-ACTCACAGTCCAC
* **
104871855 TAATTTACGATCACAATCTTCTACATACAGGATTTTAAGAACTCATGGTCCAC
1 TAATTTACGATCACAACCTTCTACATACAGGATTTTAAGAACTCACAGTCCAC
*
104871908 TGATTTACGATCAC
1 TAATTTACGATCAC
104871922 GGCCACCTAT
Statistics
Matches: 100, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
53 25 0.25
54 74 0.74
55 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (53 bp):
TAATTTACGATCACAACCTTCTACATACAGGATTTTAAGAACTCACAGTCCAC
Found at i:104874516 original size:54 final size:54
Alignment explanation
Indices: 104874422--104874659 Score: 180
Period size: 54 Copynumber: 4.4 Consensus size: 54
104874412 CATGACTTTT
* * * * *
104874422 TACTTACGGGATTTTACAAATCTCACAGTCTA-CT-AGTTTATGATGACGACCTTT
1 TACTTACAGGATTTTACGAATCTCACGGTC-AGCTGA-TTTATGATCACGACCTTC
*
104874476 TACTTACAGGATTTTACGAATCTCATGGTCAGCTGATTTATGATCACGACCTTC
1 TACTTACAGGATTTTACGAATCTCACGGTCAGCTGATTTATGATCACGACCTTC
* * ** * * * * ** *
104874530 TA-TT--ATGACTTTTTAAGAATCTCGTGGACTGCTGATTTACGACCATAAGCTTC
1 TACTTACAGGA--TTTTACGAATCTCACGGTCAGCTGATTTATGATCACGACCTTC
** * * * *
104874583 TACTTATGGGGTTTTAAGAATCTCACGGTCCGCTAATTTATGATCACGACCTTC
1 TACTTACAGGATTTTACGAATCTCACGGTCAGCTGATTTATGATCACGACCTTC
* *
104874637 AACTTACATGATTTTACGAATCT
1 TACTTACAGGATTTTACGAATCT
104874660 AGACATGTTG
Statistics
Matches: 142, Mismatches: 35, Indels: 14
0.74 0.18 0.07
Matches are distributed among these distances:
51 3 0.02
53 39 0.27
54 98 0.69
55 1 0.01
56 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.37
Consensus pattern (54 bp):
TACTTACAGGATTTTACGAATCTCACGGTCAGCTGATTTATGATCACGACCTTC
Found at i:104875051 original size:54 final size:54
Alignment explanation
Indices: 104874993--104875169 Score: 151
Period size: 54 Copynumber: 3.3 Consensus size: 54
104874983 TTTACTTACG
* * * * * *
104874993 GGATTTTACGAGTCTCACAGTCTGCTAATTT-CAGATTATGATCTTCTACTTATA
1 GGATTTTACGAATCTCACAGTCCGCTAATTTACA-ATCACGACCATCTACTTATA
* * * *
104875047 GGATTTTATGAATCTCGCAGTCCGTTAATTTACAATCACGACCATCTACTTATT
1 GGATTTTACGAATCTCACAGTCCGCTAATTTACAATCACGACCATCTACTTATA
* *** * * * *
104875101 GGATTTTATGAATCTTGTAGTCCAG-TAATTTACGATCACAACCTTCTACTTACA
1 GGATTTTACGAATCTCACAGTCC-GCTAATTTACAATCACGACCATCTACTTATA
*
104875155 CGATTTTACGAATCT
1 GGATTTTACGAATCT
104875170 AGGTGTGTTG
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
54 99 0.97
55 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (54 bp):
GGATTTTACGAATCTCACAGTCCGCTAATTTACAATCACGACCATCTACTTATA
Found at i:104876002 original size:452 final size:444
Alignment explanation
Indices: 104875128--104876041 Score: 1093
Period size: 452 Copynumber: 2.0 Consensus size: 444
104875118 TAGTCCAGTA
*
104875128 ATTTACGATCACAACCTTCTACTTACACGATTTTACGAATCTAGGTGTGTTGAGGAATAACTCAA
1 ATTTACGATCACGACCTTCTACTTACACGATTTTACGAATCTAGGTGTGTTGAGGAATAACTCAA
* * * *
104875193 AACTGACCCTTTTTCCTTTCAAAGCAAATTAGATGCCAGAGATGATGAATATAAGCGTGTTGCTG
66 AACTGACCCTTTTACCCTTCAAAGCAAATTAGATGCCAGAGATGATGAATATAAGCATGTTGATG
* * *
104875258 AAGAACTGATCTTGAAAGAAAAATAGATGTATCAATTTTGTTATATTGCCTTAGGAAGGCTGAAG
131 AAGAACTGACCTTGAAAGAAAAATAGAGGTATAAATTTTGTTATATTGCCTTAGGAAGGCTGAAG
* * ** ** * *
104875323 TTAGTTTTATTTACCATGTGTCTGAAATGAGGCTTGAAACAGATCGATTTCCTAAAAAAAAAGGA
196 CTAGTTCTATACACCATACGTATGAAATGAGGCTTGAAACAGATCGATCTCCTAAAAAAAAAGGA
* *
104875388 ACTTTCTAAAAAACTTTAGCTGATTTACAATCACAACATTTTACTTTCGGGACTTTATGAATCTC
261 ACTTTCTAAAAAACTTCAGCTGATTTACAATCACAACATTTTACTTTCGGGACTTTATAAATCTC
* * * * *
104875453 ACAGTCTGTCGATTTTCAATGACAACCTTCAACTTGCGATATTTTACAGATCTCGTGGTCTGATG
326 ACAGTCTCTCGATTTTCAATGACAACCTTCAACTTACGAGATTTTACAGATCTCATGGTCTGATA
* * * *
104875518 ATTTATGATAATGACCTTTTACTTACAGGATTTTGTGAATCTCAAGGTTTGCTG
391 ATTTATGATAACGACCTTTTACTTACAGGATTTTATGAATCTCAAGGTATACTG
****
104875572 ATTTACGATCACGACCTTCTACTTATGTTATTTTACGAATCTAGGTGTGTTGAGGAATAACTCAA
1 ATTTACGATCACGACCTTCTACTTACACGATTTTACGAATCTAGGTGTGTTGAGGAATAACTCAA
* * * * * * *
104875637 AATTGA-CCTCTTTACCCTTCAGAGTAAGTTAGATGCTAGAGGTGATGAATATAGGCATGTTGAT
66 AACTGACCCT-TTTACCCTTCAAAGCAAATTAGATGCCAGAGATGATGAATATAAGCATGTTGAT
* * * * *
104875701 GAAGAACTTAAACTGACCTTGAAAGGAAGATAGCGGTATAAATTTTGTTCTATTGCCTTTGTG-A
130 GAAG------AACTGACCTTGAAAGAAAAATAGAGGTATAAATTTTGTTATATTGCCTTAG-GAA
* * *
104875765 GGCTGAAGCTAGTTCTCTACACCATACGTATGAAATGAGGCTTGAAATAGATCGATCTGCTCAGA
188 GGCTGAAGCTAGTTCTATACACCATACGTATGAAATGAGGCTTGAAACAGATCGATCTCCT-A-A
* * * *
104875830 AAAATAAA-GAGCTTTCTGAAAAACTTCAGTTGATTTACAATCACGATC-TTTTACTTTCGGGAC
251 AAAA-AAAGGAACTTTCTAAAAAACTTCAGCTGATTTACAATCAC-AACATTTTACTTTCGGGAC
* ** *
104875893 TTTATAAATTTCACAGTCTACT-GATTTTCAATGATGACCTTCTACTTACGAGATTTTAC-GAAT
314 TTTATAAATCTCACAGTCT-CTCGATTTTCAATGACAACCTTCAACTTACGAGATTTTACAG-AT
* * ** * * *
104875956 CTCATGGTCTGCTAATTTATGGTAACGATTTTTTACTTATAGGATTTTATTAATCTCACGGTATA
377 CTCATGGTCTGATAATTTATGATAACGACCTTTTACTTACAGGATTTTATGAATCTCAAGGTATA
104876021 CTG
442 CTG
* *
104876024 ATTTATGATCATGACCTT
1 ATTTACGATCACGACCTT
104876042 TTATTTATTT
Statistics
Matches: 393, Mismatches: 63, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
443 3 0.01
444 113 0.29
450 94 0.24
451 3 0.01
452 174 0.44
453 6 0.02
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (444 bp):
ATTTACGATCACGACCTTCTACTTACACGATTTTACGAATCTAGGTGTGTTGAGGAATAACTCAA
AACTGACCCTTTTACCCTTCAAAGCAAATTAGATGCCAGAGATGATGAATATAAGCATGTTGATG
AAGAACTGACCTTGAAAGAAAAATAGAGGTATAAATTTTGTTATATTGCCTTAGGAAGGCTGAAG
CTAGTTCTATACACCATACGTATGAAATGAGGCTTGAAACAGATCGATCTCCTAAAAAAAAAGGA
ACTTTCTAAAAAACTTCAGCTGATTTACAATCACAACATTTTACTTTCGGGACTTTATAAATCTC
ACAGTCTCTCGATTTTCAATGACAACCTTCAACTTACGAGATTTTACAGATCTCATGGTCTGATA
ATTTATGATAACGACCTTTTACTTACAGGATTTTATGAATCTCAAGGTATACTG
Found at i:104876708 original size:54 final size:54
Alignment explanation
Indices: 104876650--104876771 Score: 154
Period size: 54 Copynumber: 2.3 Consensus size: 54
104876640 TTCTAGGACA
* * * *
104876650 TTACAAATCTCACGGTCCATTGATTTTCTATGACAACCTTCTACTTACGAGATT
1 TTACAAATCTCACGGTCCATTGATTTACGATAACAACCTTCTACTTACAAGATT
* * ** *
104876704 TTACAAATCTCATGGTCTATTGATTTACGATAACGGCCTTTTACTTACAAGATT
1 TTACAAATCTCACGGTCCATTGATTTACGATAACAACCTTCTACTTACAAGATT
*
104876758 TTACAGATCTCACG
1 TTACAAATCTCACG
104876772 ATTCACTAAT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (54 bp):
TTACAAATCTCACGGTCCATTGATTTACGATAACAACCTTCTACTTACAAGATT
Found at i:104877052 original size:54 final size:54
Alignment explanation
Indices: 104876994--104877107 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 54
104876984 TTTTATGACA
* * *
104876994 ACCTTCTAAATA-TGAGATTTTACGAATCTCGTGGTCTATTGATTTACGATAACG
1 ACCTTCTAAATACAG-GATTTTACGAATCTCGTGGTCCACTGATTTACGATAACG
* ** * * *
104877048 ACCTTTTACTTACAGGATTTTACGAATCTCTTGGTCCACTGATTTACGATCATG
1 ACCTTCTAAATACAGGATTTTACGAATCTCGTGGTCCACTGATTTACGATAACG
104877102 ACCTTC
1 ACCTTC
104877108 AACTTACTTG
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
54 48 0.98
55 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (54 bp):
ACCTTCTAAATACAGGATTTTACGAATCTCGTGGTCCACTGATTTACGATAACG
Found at i:104877113 original size:54 final size:54
Alignment explanation
Indices: 104877009--104877124 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
104876999 CTAAATATGA
* * **
104877009 GATTTTACGAATCTCGTGGTCTATTGATTTACGATAACGACCTTTTACTTACAG
1 GATTTTACGAATCTCGTGGTCCACTGATTTACGATAACGACCTTCAACTTACAG
* * * **
104877063 GATTTTACGAATCTCTTGGTCCACTGATTTACGATCATGACCTTCAACTTACTT
1 GATTTTACGAATCTCGTGGTCCACTGATTTACGATAACGACCTTCAACTTACAG
104877117 GATTTTAC
1 GATTTTAC
104877125 AAATTTAGGC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.40
Consensus pattern (54 bp):
GATTTTACGAATCTCGTGGTCCACTGATTTACGATAACGACCTTCAACTTACAG
Found at i:104877470 original size:54 final size:54
Alignment explanation
Indices: 104877411--104877571 Score: 171
Period size: 54 Copynumber: 3.0 Consensus size: 54
104877401 TTACTTTCTG
*
104877411 GATTTTATGAATCTCACGGTCCACTAATTTACGATCACGACCTTCTACTTACAA
1 GATTTTATGAATCTCACGGTCCACTAATTTACGATCATGACCTTCTACTTACAA
* ** ** * * *
104877465 GATTTTATGAATCTCACGATTTGA-TAATTTTAAAATCATAATCTTCTACTAACAA
1 GATTTTATGAATCTCACG-GTCCACTAA-TTTACGATCATGACCTTCTACTTACAA
** * * *
104877520 GATTTTACAAATCGCACGGTCCACTGATTTACGATCATGACCTTCTAGTTAC
1 GATTTTATGAATCTCACGGTCCACTAATTTACGATCATGACCTTCTACTTAC
104877572 GTGCTTTTAC
Statistics
Matches: 82, Mismatches: 22, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
54 42 0.51
55 40 0.49
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (54 bp):
GATTTTATGAATCTCACGGTCCACTAATTTACGATCATGACCTTCTACTTACAA
Done.