Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 206 of 230
Found at i:61512247 original size:39 final size:40
Alignment explanation
Indices: 61512139--61512276 Score: 134
Period size: 40 Copynumber: 3.5 Consensus size: 40
61512129 GGCGTTTGGA
* * * *
61512139 TAAAAAATGCCACTAAAAATCAAGCAGTAGCGGCGCTTTT
1 TAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGATTTT
* * ** * **
61512179 GAAAAAACGCTGCTAAAGGTCGATTATTAGCGGCGATTTT
1 TAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGATTTT
*
61512219 TAAAAAACGCCGCTAAAAAT-AAGCATTAGCGGCGTTTTT
1 TAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGATTTT
* * *
61512258 TGAAAAGCGCCGCAAAAAA
1 TAAAAAACGCCGCTAAAAA
61512277 CTTAAGCCCA
Statistics
Matches: 76, Mismatches: 22, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
39 31 0.41
40 45 0.59
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.22
Consensus pattern (40 bp):
TAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGATTTT
Found at i:61516619 original size:24 final size:24
Alignment explanation
Indices: 61516592--61516637 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
61516582 CTGAATTCTA
*
61516592 TCTTT-TATTTAATTTATAATTAAT
1 TCTTTATAGTTAATTT-TAATTAAT
61516616 TCTTTATAGTTAATTTTAATTA
1 TCTTTATAGTTAATTTTAATTA
61516638 TTTATGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (24 bp):
TCTTTATAGTTAATTTTAATTAAT
Found at i:61518898 original size:19 final size:18
Alignment explanation
Indices: 61518850--61518900 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 18
61518840 GTTCTTTGAT
61518850 TTTTTATTTATTTAATTC
1 TTTTTATTTATTTAATTC
*
61518868 --TGTA-TTACTTTAATCTC
1 TTTTTATTTA-TTTAAT-TC
61518885 TTTTTATTTATTTAAT
1 TTTTTATTTATTTAAT
61518901 GCACCACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
15 3 0.12
16 9 0.35
17 2 0.08
19 9 0.35
20 3 0.12
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTTATTTATTTAATTC
Found at i:61523291 original size:22 final size:22
Alignment explanation
Indices: 61523263--61523307 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
61523253 TTTTTGATAA
61523263 TAGATTATAGCTGTTCAATTTG
1 TAGATTATAGCTGTTCAATTTG
61523285 TAGATTATAGCTGTTCAATTTG
1 TAGATTATAGCTGTTCAATTTG
61523307 T
1 T
61523308 CTATGTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.47
Consensus pattern (22 bp):
TAGATTATAGCTGTTCAATTTG
Found at i:61530024 original size:12 final size:12
Alignment explanation
Indices: 61530009--61530033 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61529999 AAATATACAT
61530009 AAATAATAAATA
1 AAATAATAAATA
61530021 AAATAATAAATA
1 AAATAATAAATA
61530033 A
1 A
61530034 GGTTATCGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATAATAAATA
Found at i:61530281 original size:3 final size:3
Alignment explanation
Indices: 61530273--61530307 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
61530263 AGATCCAGGC
61530273 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
61530308 ATCAAAGGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:61540711 original size:5 final size:5
Alignment explanation
Indices: 61540701--61540729 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
61540691 TGTGTTATTA
61540701 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
61540730 CACACACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:61541936 original size:30 final size:31
Alignment explanation
Indices: 61541900--61541961 Score: 92
Period size: 30 Copynumber: 2.0 Consensus size: 31
61541890 ATACAATTTG
*
61541900 ATATATAAACTTTTAATTT-GA-TATGATTAT
1 ATATATAAAATTTTAATTTAGATTAT-ATTAT
61541930 ATATATAAAATTTTAATTTAGATTATATTAT
1 ATATATAAAATTTTAATTTAGATTATATTAT
61541961 A
1 A
61541962 CACATTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 18 0.62
31 8 0.28
32 3 0.10
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (31 bp):
ATATATAAAATTTTAATTTAGATTATATTAT
Found at i:61548588 original size:16 final size:16
Alignment explanation
Indices: 61548568--61548599 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
61548558 ATTGGTAATA
61548568 TAAAAAAT-TTATTTT
1 TAAAAAATCTTATTTT
61548583 TAAAAAATCTTATTTT
1 TAAAAAATCTTATTTT
61548599 T
1 T
61548600 TATACTAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TAAAAAATCTTATTTT
Found at i:61549441 original size:21 final size:21
Alignment explanation
Indices: 61549415--61549462 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
61549405 AAAAACATTA
61549415 AAAATAA-TTTATATATTTTTT
1 AAAATAATTTTATA-ATTTTTT
*
61549436 AAAATAATTTTTTGAATTTTTT
1 AAAATAATTTTAT-AATTTTTT
61549458 AAAAT
1 AAAAT
61549463 TAAAATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 16 0.67
23 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
AAAATAATTTTATAATTTTTT
Found at i:61554929 original size:61 final size:60
Alignment explanation
Indices: 61554824--61554964 Score: 178
Period size: 61 Copynumber: 2.3 Consensus size: 60
61554814 TTTAGTGCGT
* * * *
61554824 TTTCATTTTGGTCACCCAAAATGAATTCTTTGCAATTTTGTCACCCTAGTCTTATGA-TAC
1 TTTCATTTTAGTCACCCAAAATGAATTCTTTGCAATTTTCTCACCCTACTCTTA-GAGCAC
* *
61554884 TTTCATTTTAGTCACACCAAAATGAAATTC-TTGTAATTTTCTCACCCTACTCTTAGAGCGC
1 TTTCATTTTAGTCAC-CCAAAATG-AATTCTTTGCAATTTTCTCACCCTACTCTTAGAGCAC
*
61554945 TTTTATTTTAGTCACCCAAA
1 TTTCATTTTAGTCACCCAAA
61554965 CGTTAAATCT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
60 21 0.30
61 45 0.63
62 5 0.07
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (60 bp):
TTTCATTTTAGTCACCCAAAATGAATTCTTTGCAATTTTCTCACCCTACTCTTAGAGCAC
Found at i:61558251 original size:31 final size:29
Alignment explanation
Indices: 61558178--61558251 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
61558168 ACCTTAGGTT
* *
61558178 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTCAAATGTA
**
61558207 ACATTTTTA-TCACTTATGTTATCATGTTGTA
1 ACA-TTTTAGTCACTTATGTT-TCA-AATGTA
61558238 ACATTTTAGTCACT
1 ACATTTTAGTCACT
61558252 AAGCTATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
29 14 0.38
30 12 0.32
31 11 0.30
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.49
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTCAAATGTA
Found at i:61559396 original size:33 final size:33
Alignment explanation
Indices: 61559354--61559419 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
61559344 TTATTTATTG
*
61559354 CTAGGTTGTTAAGTATTGGATATGACAAAAGAA
1 CTAGGTTGTTAAGTATTGGATACGACAAAAGAA
61559387 CTAGGTTGTTAAGTATTGGATACGACAAAAGAA
1 CTAGGTTGTTAAGTATTGGATACGACAAAAGAA
61559420 ATAAATGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (33 bp):
CTAGGTTGTTAAGTATTGGATACGACAAAAGAA
Found at i:61560293 original size:365 final size:365
Alignment explanation
Indices: 61559623--61560355 Score: 1351
Period size: 365 Copynumber: 2.0 Consensus size: 365
61559613 AAATGTGTCC
*
61559623 AGCAGGACGCACTTTCCTACCATGTCAGATAAAAACGTGTCTTGCTGGACGCGCTTTTTGTTTCT
1 AGCAGGACGCACTTTCCTACCATGTCAGATAAAAACGCGTCTTGCTGGACGCGCTTTTTGTTTCT
* * *
61559688 CTCTGTAACAGCCCGATTTTCAGTGTGTGTCGAAAACAGTAGTTTCAAGACCATAATTCGTAAAT
66 CTCTATAACAGCACGATTTTCAGTGTGTGTCGAAAACAATAGTTTCAAGACCATAATTCGTAAAT
61559753 GTTATTCAATTAATATTTACAAGGACTATAACATCGTATTAAACTTTGGTTAGGAAATTTTATCG
131 GTTATTCAATTAATATTTACAAGGACTATAACATCGTATTAAACTTTGGTTAGGAAATTTTATCG
*
61559818 TTTAGATAGTTTAATAAGTAAAAAGGACTGAATTGTAAAAATTGTAAAGGTTGAGTAGTTAAATT
196 TTTAGATAGTTTAATAAGTAAAAAGGACTGAATTGTAAAAACTGTAAAGGTTGAGTAGTTAAATT
61559883 AAAGGGACTAAATGGAAAATTTAACCCATGGGAAATTAGTTAGTGGAATTTGATGAGGTTATGCT
261 AAAGGGACTAAATGGAAAATTTAACCCATGGGAAATTAGTTAGTGGAATTTGATGAGGTTATGCT
61559948 TAATTAAGTGGTTTAATTAAGCTTATTAATGATTTATTAA
326 TAATTAAGTGGTTTAATTAAGCTTATTAATGATTTATTAA
* * *
61559988 AGCAGGACGCACTTTCCTACCATGTTAGATAAAAACGCGTCTTGTTGGACGCGTTTTTTGTTTCT
1 AGCAGGACGCACTTTCCTACCATGTCAGATAAAAACGCGTCTTGCTGGACGCGCTTTTTGTTTCT
61560053 CTCTATAACAGCACGATTTTCAGTGTGTGTCGAAAACAATAGTTTCAAGACCATAATTCGTAAAT
66 CTCTATAACAGCACGATTTTCAGTGTGTGTCGAAAACAATAGTTTCAAGACCATAATTCGTAAAT
*
61560118 GTTATTCAATTAATATTTACAAGGACTATAACGTCGTATTAAACTTTGGTTAGGAAATTTTATCG
131 GTTATTCAATTAATATTTACAAGGACTATAACATCGTATTAAACTTTGGTTAGGAAATTTTATCG
*
61560183 TTTAGATAGTTTAATAAGTAAAAATGACTGAATTGTAAAAACTGTAAAGGTTGAGTAGTTAAATT
196 TTTAGATAGTTTAATAAGTAAAAAGGACTGAATTGTAAAAACTGTAAAGGTTGAGTAGTTAAATT
61560248 AAAGGGACTAAATGGACAAA-TTAACCCATGGGAAATTAGTTAGTGGAATTTGATGAGGTTATGC
261 AAAGGGACTAAATGGA-AAATTTAACCCATGGGAAATTAGTTAGTGGAATTTGATGAGGTTATGC
*
61560312 TTAATTAAGTGGTTTAATTAGGCTTATTAATGATTTATTAA
325 TTAATTAAGTGGTTTAATTAAGCTTATTAATGATTTATTAA
61560353 AGC
1 AGC
61560356 TTAATTAAGA
Statistics
Matches: 356, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
365 353 0.99
366 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (365 bp):
AGCAGGACGCACTTTCCTACCATGTCAGATAAAAACGCGTCTTGCTGGACGCGCTTTTTGTTTCT
CTCTATAACAGCACGATTTTCAGTGTGTGTCGAAAACAATAGTTTCAAGACCATAATTCGTAAAT
GTTATTCAATTAATATTTACAAGGACTATAACATCGTATTAAACTTTGGTTAGGAAATTTTATCG
TTTAGATAGTTTAATAAGTAAAAAGGACTGAATTGTAAAAACTGTAAAGGTTGAGTAGTTAAATT
AAAGGGACTAAATGGAAAATTTAACCCATGGGAAATTAGTTAGTGGAATTTGATGAGGTTATGCT
TAATTAAGTGGTTTAATTAAGCTTATTAATGATTTATTAA
Found at i:61560362 original size:22 final size:23
Alignment explanation
Indices: 61560310--61560364 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
61560300 ATGAGGTTAT
* *
61560310 GCTTAATTAAGTGGTTTAATTAG
1 GCTTAATTAAGTGATTTAATTAA
61560333 GCTT-ATTAA-TGATTT-ATTAAA
1 GCTTAATTAAGTGATTTAATT-AA
61560354 GCTTAATTAAG
1 GCTTAATTAAG
61560365 AAAGTTGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 3 0.11
21 10 0.37
22 10 0.37
23 4 0.15
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (23 bp):
GCTTAATTAAGTGATTTAATTAA
Found at i:61561393 original size:143 final size:143
Alignment explanation
Indices: 61561148--61561420 Score: 503
Period size: 143 Copynumber: 1.9 Consensus size: 143
61561138 TATCATATAC
*
61561148 TGAAAGTATGCTCTACCGAGCCATATCTACTGATCCTACGAAAAGTTGCTCAATCACGCAAATCC
1 TGAAAGTATGCTCTACCGAGCCATATCTACTGATCCTACGAAAAGTTGCTCAATCAAGCAAATCC
* *
61561213 TACTGTTATACTGAGTGAAACTCAAACGAGGAGAAATCTAAAGATATA-CTGATGAAAACTCAAA
66 TACTGTTATACTCAGTGAAACTCAAACGAGGAGAAATCTAAAGATATATC-GACGAAAACTCAAA
61561277 TTTGTATTATAAAT
130 TTTGTATTATAAAT
61561291 TGAAAGTATGCTCTACCGAGCCATATCTACTGATCCTACGAAAAGTTGCTCAATCAAGCAAATCC
1 TGAAAGTATGCTCTACCGAGCCATATCTACTGATCCTACGAAAAGTTGCTCAATCAAGCAAATCC
61561356 TACTGTTATACTCAGTGAAACTCAAACGAGGAGAAATCTAAAGATATATCGACGAAAACTCAAAT
66 TACTGTTATACTCAGTGAAACTCAAACGAGGAGAAATCTAAAGATATATCGACGAAAACTCAAAT
61561421 CGAGTAATGT
Statistics
Matches: 126, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
143 125 0.99
144 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (143 bp):
TGAAAGTATGCTCTACCGAGCCATATCTACTGATCCTACGAAAAGTTGCTCAATCAAGCAAATCC
TACTGTTATACTCAGTGAAACTCAAACGAGGAGAAATCTAAAGATATATCGACGAAAACTCAAAT
TTGTATTATAAAT
Found at i:61562716 original size:16 final size:16
Alignment explanation
Indices: 61562695--61562740 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
61562685 TTTTTCCCCA
61562695 AAGGGTTTAAGGTTTT
1 AAGGGTTTAAGGTTTT
*
61562711 AAGGGTTTAAAGTTTT
1 AAGGGTTTAAGGTTTT
* *
61562727 TAGAGTTTAAGGTT
1 AAGGGTTTAAGGTT
61562741 GAAAATTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.43
Consensus pattern (16 bp):
AAGGGTTTAAGGTTTT
Found at i:61568151 original size:63 final size:63
Alignment explanation
Indices: 61568077--61568212 Score: 184
Period size: 63 Copynumber: 2.2 Consensus size: 63
61568067 AAAAAATACC
* * *
61568077 TGCAGAAGGTGTTGATGTAGGGTAC-GATGGTGCATAGTGTGGTACATATGTAAAAATAAAAGG
1 TGCAGAAGGTGTTGATGCAAGGTACAG-TGGTGCATAGCGTGGTACATATGTAAAAATAAAAGG
* * * *
61568140 TGCAGAAGGTGTTGATGCAAGTTACAGTGGTGCATTGCGTGGTGCTTATGTAAAAATAAAAGG
1 TGCAGAAGGTGTTGATGCAAGGTACAGTGGTGCATAGCGTGGTACATATGTAAAAATAAAAGG
*
61568203 TGCAAAAGGT
1 TGCAGAAGGT
61568213 TAGTGAAATT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
63 63 0.98
64 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.27
Consensus pattern (63 bp):
TGCAGAAGGTGTTGATGCAAGGTACAGTGGTGCATAGCGTGGTACATATGTAAAAATAAAAGG
Found at i:61569895 original size:22 final size:20
Alignment explanation
Indices: 61569867--61569945 Score: 79
Period size: 22 Copynumber: 3.7 Consensus size: 20
61569857 CTAAAAAATA
*
61569867 AAAAATTACCAAAATTATTTTT
1 AAAAATTA--AAAAATATTTTT
61569889 AAAAATTAAAAAATATTTTT
1 AAAAATTAAAAAATATTTTT
61569909 AAAAAAATATAAAAAAATATTTTT
1 --AAAAAT-T-AAAAAATATTTTT
*
61569933 -AAAATTCAAAAAT
1 AAAAATTAAAAAAT
61569946 TTAATTAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
19 6 0.12
20 12 0.24
21 5 0.10
22 14 0.27
23 1 0.02
24 13 0.25
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATTAAAAAATATTTTT
Found at i:61570075 original size:15 final size:14
Alignment explanation
Indices: 61570050--61570094 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 14
61570040 GTGATTTGAC
*
61570050 AAAAAATACAAATT
1 AAAAAATACAAATA
61570064 AAAAAATAACAAATA
1 AAAAAAT-ACAAATA
*
61570079 AAAAAAT-TAAATA
1 AAAAAATACAAATA
61570092 AAA
1 AAA
61570095 TACTAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 8 0.29
14 7 0.25
15 13 0.46
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (14 bp):
AAAAAATACAAATA
Found at i:61570774 original size:43 final size:44
Alignment explanation
Indices: 61570717--61570805 Score: 144
Period size: 43 Copynumber: 2.0 Consensus size: 44
61570707 GTTGATATAA
* *
61570717 AATAGAAGTTGTGATAATTAAACATTT-AAAATAATTATAATTT
1 AATAGAAGTAGTGATAATTAAACATTTAAAAATAATTAGAATTT
*
61570760 AATAGAAGTAGTGATAATTACACATTTAAAAATAATTAGAATTT
1 AATAGAAGTAGTGATAATTAAACATTTAAAAATAATTAGAATTT
61570804 AA
1 AA
61570806 GTTACAATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 25 0.60
44 17 0.40
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (44 bp):
AATAGAAGTAGTGATAATTAAACATTTAAAAATAATTAGAATTT
Found at i:61571694 original size:22 final size:22
Alignment explanation
Indices: 61571669--61571719 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
61571659 CGGTGTCCAA
*
61571669 TGTAAGGGTGCTGAAGTCTATT
1 TGTAAGGGTGCTGAAGCCTATT
61571691 TGTAAGGGTGCTGAAGCCTATT
1 TGTAAGGGTGCTGAAGCCTATT
61571713 TGTAAGG
1 TGTAAGG
61571720 ATCAATGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.24, C:0.10, G:0.33, T:0.33
Consensus pattern (22 bp):
TGTAAGGGTGCTGAAGCCTATT
Found at i:61576209 original size:25 final size:25
Alignment explanation
Indices: 61576175--61576226 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
61576165 TTATAAAGAT
*
61576175 GGAAAGAATATGGGAAATGAGTTAA
1 GGAAAGAATACGGGAAATGAGTTAA
61576200 GGAAAGAATACGGGAAATGAGTTAA
1 GGAAAGAATACGGGAAATGAGTTAA
61576225 GG
1 GG
61576227 CCCCTGTGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.46, C:0.02, G:0.35, T:0.17
Consensus pattern (25 bp):
GGAAAGAATACGGGAAATGAGTTAA
Found at i:61576962 original size:15 final size:16
Alignment explanation
Indices: 61576942--61576972 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
61576932 GTGGCTTGTG
61576942 TTGGTATAAG-CATAT
1 TTGGTATAAGCCATAT
61576957 TTGGTATAAGCCATAT
1 TTGGTATAAGCCATAT
61576973 GCTTCAACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (16 bp):
TTGGTATAAGCCATAT
Found at i:61578475 original size:30 final size:31
Alignment explanation
Indices: 61578424--61578483 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
61578414 TGTTATACGA
**
61578424 AAATTTTGATTTTGTGTAATTTT-ATAAATG
1 AAATTTTGATTTCATGTAATTTTCATAAATG
61578454 AAATTTTGATTTCAT-TCAATTTTCATAAAT
1 AAATTTTGATTTCATGT-AATTTTCATAAAT
61578484 CATTAGCAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 1 0.04
30 19 0.73
31 6 0.23
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.52
Consensus pattern (31 bp):
AAATTTTGATTTCATGTAATTTTCATAAATG
Found at i:61588472 original size:13 final size:13
Alignment explanation
Indices: 61588447--61588480 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
61588437 TTGTTTTGGG
*
61588447 AATAATTATAATT
1 AATAATTACAATT
*
61588460 AATTATTACAATT
1 AATAATTACAATT
61588473 AATAATTA
1 AATAATTA
61588481 ATTAAACACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (13 bp):
AATAATTACAATT
Found at i:61588898 original size:2 final size:2
Alignment explanation
Indices: 61588891--61588924 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
61588881 GGTCCCTGTT
*
61588891 TA TA TA TA TA TA TA TA TA TA TA TGA TA TA AA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA T
61588925 CAGATACGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:61594796 original size:3 final size:3
Alignment explanation
Indices: 61594788--61594813 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
61594778 GTATTAGCAT
61594788 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
61594814 GCTAACATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:61595028 original size:39 final size:40
Alignment explanation
Indices: 61594964--61595043 Score: 110
Period size: 39 Copynumber: 2.0 Consensus size: 40
61594954 CTATTAGTAA
61594964 TATTATTATTATCCTTATTTCATTTATGTTTTCTTTCATTTT
1 TATTATTATTAT-CTTATTTCATTTATGTTTTCTTTC-TTTT
* *
61595006 TATTTTTATTAT-TTATTT-ATTTATTTTTTCTTTCTTTT
1 TATTATTATTATCTTATTTCATTTATGTTTTCTTTCTTTT
61595044 CTAAAAGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
38 4 0.11
39 15 0.42
40 6 0.17
42 11 0.31
ACGTcount: A:0.17, C:0.09, G:0.01, T:0.72
Consensus pattern (40 bp):
TATTATTATTATCTTATTTCATTTATGTTTTCTTTCTTTT
Found at i:61595428 original size:4 final size:4
Alignment explanation
Indices: 61595411--61595444 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
61595401 TGCTTGATTC
* *
61595411 ATTT ATTC ATTT ATTT ATTT ACTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
61595445 CCAATATGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (4 bp):
ATTT
Found at i:61595916 original size:109 final size:108
Alignment explanation
Indices: 61595719--61596008 Score: 433
Period size: 109 Copynumber: 2.7 Consensus size: 108
61595709 TATTTAGTTT
* **
61595719 TTTGGAAATTCGAGAAAATGTGCCCTAATGTGCTGGCATTCGATTTTTTTCTCGTTCAACCAAAT
1 TTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA--TTTTTCTCGTTCAACCAAAT
* **
61595784 AGCTAAATATCCTTTTAAAAATTTCAAAATAAGACAATGTTTTGCG
64 AGCCAAATATCCTTCCAAAAATTTC-AAATAAGACAATGTTTTGCG
*
61595830 TTTGGAAATTCGAGAAAACGTGTCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAG
1 TTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAG
*
61595895 CCAAATATCCTTCCAAAAATTTCAAATAAGGCAATGTTTTGCG
66 CCAAATATCCTTCCAAAAATTTCAAATAAGACAATGTTTTGCG
* * *
61595938 TTTGGAAATTCGAG-GAACGTGCCCTAATGTGCTGGGTTTCGA--TTTCTCATTTAACCAAATAG
1 TTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAG
61596000 CCAAATATC
66 CCAAATATC
61596009 TTCTTGAATT
Statistics
Matches: 167, Mismatches: 12, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
105 27 0.16
107 26 0.16
108 33 0.20
109 42 0.25
111 39 0.23
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (108 bp):
TTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAG
CCAAATATCCTTCCAAAAATTTCAAATAAGACAATGTTTTGCG
Found at i:61596988 original size:26 final size:27
Alignment explanation
Indices: 61596959--61597024 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 27
61596949 AAATATGACA
*
61596959 AAAACATATGTATATATATAAATTAT-
1 AAAATATATGTATATATATAAATTATC
* *
61596985 AAAATATATGTACATATATATATTATC
1 AAAATATATGTATATATATAAATTATC
*
61597012 AAAATGTATGTAT
1 AAAATATATGTAT
61597025 GTATGTGTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 23 0.68
27 11 0.32
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (27 bp):
AAAATATATGTATATATATAAATTATC
Found at i:61597061 original size:35 final size:37
Alignment explanation
Indices: 61596993--61597063 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 37
61596983 ATAAAATATA
* * * *
61596993 TGTACATATATATATTATCAAAATGTATGTATGTATG
1 TGTACATAGATATATTATCAAAAAGAATATATGTATG
61597030 TGTACATAGATATA-TAT-AAAAAGAATATATGTAT
1 TGTACATAGATATATTATCAAAAAGAATATATGTAT
61597064 ATATATAGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 14 0.47
36 3 0.10
37 13 0.43
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.39
Consensus pattern (37 bp):
TGTACATAGATATATTATCAAAAAGAATATATGTATG
Found at i:61597495 original size:30 final size:29
Alignment explanation
Indices: 61597385--61597493 Score: 146
Period size: 30 Copynumber: 3.7 Consensus size: 29
61597375 ATAAAAAGTT
*
61597385 CATTTTAACCCCTAAAATTTTTCAAAATTA
1 CATTTTAACCCCTAAACTTTTT-AAAATTA
* *
61597415 CATTTTTACCCCTAAACTTTTTGAAATTA
1 CATTTTAACCCCTAAACTTTTTAAAATTA
*
61597444 CATTTTGACCCCTAAACTTTCTTAAAATTA
1 CATTTTAACCCCTAAACTTT-TTAAAATTA
**
61597474 TGTTTTAACCCCTAAACTTT
1 CATTTTAACCCCTAAACTTT
61597494 CTACACATTA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
29 25 0.36
30 45 0.64
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42
Consensus pattern (29 bp):
CATTTTAACCCCTAAACTTTTTAAAATTA
Found at i:61597504 original size:30 final size:30
Alignment explanation
Indices: 61597387--61597523 Score: 127
Period size: 30 Copynumber: 4.6 Consensus size: 30
61597377 AAAAAGTTCA
* * **
61597387 TTTTAACCCCTAAAATTT-TTCAAAATTACA
1 TTTTGACCCCTAAACTTTCTT-AAAATTATG
* * **
61597417 TTTTTACCCCTAAACTTT-TTGAAATTACA
1 TTTTGACCCCTAAACTTTCTTAAAATTATG
61597446 TTTTGACCCCTAAACTTTCTTAAAATTATG
1 TTTTGACCCCTAAACTTTCTTAAAATTATG
* *
61597476 TTTTAACCCCTAAACTTTC-TACACATTATG
1 TTTTGACCCCTAAACTTTCTTA-AAATTATG
* *
61597506 TTTTGGCCCCAAAACTTT
1 TTTTGACCCCTAAACTTT
61597524 TCCTACATTT
Statistics
Matches: 93, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
29 27 0.29
30 66 0.71
ACGTcount: A:0.31, C:0.23, G:0.04, T:0.42
Consensus pattern (30 bp):
TTTTGACCCCTAAACTTTCTTAAAATTATG
Found at i:61597871 original size:7 final size:7
Alignment explanation
Indices: 61597855--61597906 Score: 59
Period size: 7 Copynumber: 7.3 Consensus size: 7
61597845 GAAGAAGAAG
*
61597855 AAGAAGA
1 AAGAAAA
61597862 AAGAAAA
1 AAGAAAA
61597869 AAGAAAA
1 AAGAAAA
61597876 AAGAAAA
1 AAGAAAA
*
61597883 AGAAAAAA
1 A-AGAAAA
*
61597891 AATAAAA
1 AAGAAAA
*
61597898 AATAAAA
1 AAGAAAA
61597905 AA
1 AA
61597907 TATTATAACA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
7 35 0.85
8 6 0.15
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.04
Consensus pattern (7 bp):
AAGAAAA
Found at i:61597882 original size:13 final size:13
Alignment explanation
Indices: 61597849--61597890 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
61597839 GGTTTTGAAG
* *
61597849 AAGAAGAAGAAGA
1 AAGAAAAAGAAAA
61597862 AAGAAAAAAGAAAA
1 AAG-AAAAAGAAAA
61597876 AAGAAAAAGAAAA
1 AAGAAAAAGAAAA
61597889 AA
1 AA
61597891 AATAAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AAGAAAAAGAAAA
Found at i:61598058 original size:8 final size:8
Alignment explanation
Indices: 61598047--61598112 Score: 50
Period size: 8 Copynumber: 8.5 Consensus size: 8
61598037 CAACAGCCTG
61598047 GCAGCCCA
1 GCAGCCCA
*
61598055 GCAGGCCA
1 GCAGCCCA
61598063 GCAGCCCA
1 GCAGCCCA
*
61598071 GTC--CCTA
1 G-CAGCCCA
*
61598078 GCAGGCCA
1 GCAGCCCA
61598086 GCAGCCCA
1 GCAGCCCA
61598094 GC--CCCTA
1 GCAGCCC-A
*
61598101 GCAGGCCA
1 GCAGCCCA
61598109 GCAG
1 GCAG
61598113 GCCTCCAAGC
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
6 4 0.09
7 7 0.16
8 31 0.69
9 3 0.07
ACGTcount: A:0.23, C:0.44, G:0.29, T:0.05
Consensus pattern (8 bp):
GCAGCCCA
Found at i:61598082 original size:23 final size:23
Alignment explanation
Indices: 61598054--61598112 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
61598044 CTGGCAGCCC
*
61598054 AGCAGGCCAGCAGCCCAGTCCCT
1 AGCAGGCCAGCAGCCCAGCCCCT
61598077 AGCAGGCCAGCAGCCCAGCCCCT
1 AGCAGGCCAGCAGCCCAGCCCCT
61598100 AGCAGGCCAGCAG
1 AGCAGGCCAGCAG
61598113 GCCTCCAAGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.24, C:0.42, G:0.29, T:0.05
Consensus pattern (23 bp):
AGCAGGCCAGCAGCCCAGCCCCT
Found at i:61598173 original size:13 final size:12
Alignment explanation
Indices: 61598147--61598201 Score: 64
Period size: 12 Copynumber: 4.8 Consensus size: 12
61598137 AGCAGGCCAG
61598147 AAAAAGAAAAGA
1 AAAAAGAAAAGA
*
61598159 AAAAAGAAGAGGA
1 AAAAAGAA-AAGA
61598172 AAAAAG---AGA
1 AAAAAGAAAAGA
61598181 AAAAA-AAAAGA
1 AAAAAGAAAAGA
61598192 AAAAAGAAAA
1 AAAAAGAAAA
61598202 AGGGGCCCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
9 7 0.19
11 8 0.22
12 12 0.33
13 9 0.25
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAGA
Found at i:61598178 original size:20 final size:19
Alignment explanation
Indices: 61598153--61598202 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
61598143 CCAGAAAAAG
* *
61598153 AAAAGAAAAAAGAAGAGGAA
1 AAAAGAAAAAA-AAAAAGAA
61598173 AAAAGAGAAAAAAAAAAGAA
1 AAAAGA-AAAAAAAAAAGAA
61598193 AAAAGAAAAA
1 AAAAGAAAAA
61598203 GGGGCCCAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 4 0.15
20 18 0.67
21 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAAAAAAAAGAA
Found at i:61598203 original size:13 final size:13
Alignment explanation
Indices: 61598147--61598202 Score: 62
Period size: 13 Copynumber: 4.3 Consensus size: 13
61598137 AGCAGGCCAG
61598147 AAAAAG-AAAAGA
1 AAAAAGAAAAAGA
* *
61598159 AAAAAGAAGAGGA
1 AAAAAGAAAAAGA
61598172 AAAAAGAGAAAA-A
1 AAAAAGA-AAAAGA
61598185 AAAAAGAAAAAAGA
1 AAAAAG-AAAAAGA
61598199 AAAA
1 AAAA
61598203 GGGGCCCAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
12 6 0.17
13 22 0.61
14 8 0.22
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAGA
Found at i:61600523 original size:3 final size:3
Alignment explanation
Indices: 61600477--61600511 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
61600467 AACATAAACA
61600477 AAT AAGT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
61600512 ACAAAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:61602283 original size:132 final size:132
Alignment explanation
Indices: 61602039--61602288 Score: 304
Period size: 132 Copynumber: 1.9 Consensus size: 132
61602029 GGTTTGATTC
* * * * * * * * *
61602039 AATCTGGTTCCCTATTTCCTTGGGAAGATAAGATTCATTGTCTTTGATCTGCTCCACTACCGCTT
1 AATCTGCTTCCCTACTACCTTAGGAAGATAAGATTCATCGTCTTCGATCTACTCCACTACCACGT
* * ** *
61602104 AGGGAGACAGGATCTGCAATCTTCAGCCTACTCCGCTTCTGCTCAGGGAGATAAGGCTAGTGGCT
66 AGGGAGACAAGATCTGCAATCTTCAACCTACTCCAATTCTGCCCAGGGAGATAAGGCTAGTGGCT
61602169 TA
131 TA
* **
61602171 AATCTGCTTCCCTACTACCTTAGGAAGATAAGATTCGTCGTCTTCGATCTACTCCACTATTACGT
1 AATCTGCTTCCCTACTACCTTAGGAAGATAAGATTCATCGTCTTCGATCTACTCCACTACCACGT
* * *
61602236 AGGGGGACAAGATCTGCAATCTTCAATCTATTCCAATGT-TGCCCAGGGAGATA
66 AGGGAGACAAGATCTGCAATCTTCAACCTACTCCAAT-TCTGCCCAGGGAGATA
61602289 GAATTACTGG
Statistics
Matches: 97, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
132 96 0.99
133 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.30
Consensus pattern (132 bp):
AATCTGCTTCCCTACTACCTTAGGAAGATAAGATTCATCGTCTTCGATCTACTCCACTACCACGT
AGGGAGACAAGATCTGCAATCTTCAACCTACTCCAATTCTGCCCAGGGAGATAAGGCTAGTGGCT
TA
Found at i:61602525 original size:88 final size:88
Alignment explanation
Indices: 61602432--61602845 Score: 681
Period size: 88 Copynumber: 4.7 Consensus size: 88
61602422 AAGACTGGTT
** * *
61602432 TCTTCAACCAGCTC-CGCTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGA-CTTGCTTCACTGT
1 TCTTCAACCAGCTCTATC-ACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATC-TGCTTCGCTGT
*
61602495 CAATGCAGGACGGCAAGATCTTTTG
64 CAATGCAGGAAGGCAAGATCTTTTG
* *
61602520 TCTTCAACCAGCTCTATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTA
1 TCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
*
61602585 ATGTAGGAAGGCAAGATCTTTTG
66 ATGCAGGAAGGCAAGATCTTTTG
61602608 TCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
1 TCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
*
61602673 ATGCA-GAAGAGCAAGATATTTTG
66 ATGCAGGAAG-GCAAGATCTTTTG
*
61602696 TCTTCAACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
1 TCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
*
61602761 ATGTAGGAAGGCAAGATCTTTTG
66 ATGCAGGAAGGCAAGATCTTTTG
61602784 TCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTG
1 TCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTG
61602846 CTTCACTATC
Statistics
Matches: 308, Mismatches: 14, Indels: 8
0.93 0.04 0.02
Matches are distributed among these distances:
87 4 0.01
88 298 0.97
89 6 0.02
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (88 bp):
TCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
ATGCAGGAAGGCAAGATCTTTTG
Found at i:61609835 original size:3 final size:3
Alignment explanation
Indices: 61609789--61609823 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
61609779 AACATAAACA
61609789 AAT AAGT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
61609824 ACAAAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:61611749 original size:18 final size:19
Alignment explanation
Indices: 61611716--61611751 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
61611706 TAGAAAATAT
*
61611716 ATAATGATAACTATAATGC
1 ATAATGATAACAATAATGC
61611735 ATAAT-ATAACAATAATG
1 ATAATGATAACAATAATG
61611752 TTTTTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (19 bp):
ATAATGATAACAATAATGC
Found at i:61612772 original size:21 final size:21
Alignment explanation
Indices: 61612748--61612802 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
61612738 GTGGGTCTGT
* *
61612748 TTATTGGTTTGGGCCCGGGCA
1 TTATTGGCTTGAGCCCGGGCA
61612769 TTATTGGGCTTGAGCCCGGGCA
1 TTATT-GGCTTGAGCCCGGGCA
61612791 TTATTGGGCTTG
1 TTATT-GGCTTG
61612803 TACATCGTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 5 0.16
22 26 0.84
ACGTcount: A:0.11, C:0.18, G:0.36, T:0.35
Consensus pattern (21 bp):
TTATTGGCTTGAGCCCGGGCA
Found at i:61612788 original size:22 final size:22
Alignment explanation
Indices: 61612760--61612802 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
61612750 ATTGGTTTGG
61612760 GCCCGGGCATTATTGGGCTTGA
1 GCCCGGGCATTATTGGGCTTGA
61612782 GCCCGGGCATTATTGGGCTTG
1 GCCCGGGCATTATTGGGCTTG
61612803 TACATCGTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.12, C:0.23, G:0.37, T:0.28
Consensus pattern (22 bp):
GCCCGGGCATTATTGGGCTTGA
Found at i:61612906 original size:17 final size:18
Alignment explanation
Indices: 61612872--61612912 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
61612862 ACGCCCTTTT
61612872 AAAAATTGTAAATATTCAA
1 AAAAATTGT-AATATTCAA
*
61612891 AAAAATTGT-ATTTTCAA
1 AAAAATTGTAATATTCAA
61612908 AAAAA
1 AAAAA
61612913 AATCCTCGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.57
19 9 0.43
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (18 bp):
AAAAATTGTAATATTCAA
Found at i:61615914 original size:87 final size:85
Alignment explanation
Indices: 61615806--61616094 Score: 261
Period size: 87 Copynumber: 3.4 Consensus size: 85
61615796 TTTAAGTCTA
*
61615806 CTCCACTGTAATCTCAGGGAGATAAGATCTCTTATTTTAATCCGCCCCACTGTAA-CTTCAGGGA
1 CTCCACTGTAATCTCAGGGAGATAAGATCTC-TATTTTAATCCGCTCCACTGTAATC-TCAGGGA
*
61615870 GATAGGATAGTGTCTTCGATCTG
64 GATAGGATACTGTCTT-GATCTG
* ** ** * *
61615893 CTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGTAATCTCAGGG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-CTA-T-TTTAATCCGCTCCACTGTAATCTCAGGG
* * * *
61615958 AGATAAGA-CCTGAT-GTGATCTT
63 AGATAGGATACTG-TCTTGATCTG
* * * *
61615980 CTCTACTGTAA-CTTCAGAGAGATAAGATC-C---TTTAATCCGCTCCATTGTAATCTCAAGGAG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTCTATTTTAATCCGCTCCACTGTAATCTCAGGGAG
*
61616040 ATAGGATTACTATCTTTGATCTG
65 ATAGGA-TACTGTC-TTGATCTG
*
61616063 CTCCGCTGTAATCTCAGGGAGATAAGATCTCT
1 CTCCACTGTAATCTCAGGGAGATAAGATCTCT
61616095 GGCTTCAATC
Statistics
Matches: 158, Mismatches: 31, Indels: 28
0.73 0.14 0.13
Matches are distributed among these distances:
80 29 0.18
81 1 0.01
82 2 0.01
83 30 0.19
84 2 0.01
86 1 0.01
87 59 0.37
88 4 0.03
89 29 0.18
90 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.32
Consensus pattern (85 bp):
CTCCACTGTAATCTCAGGGAGATAAGATCTCTATTTTAATCCGCTCCACTGTAATCTCAGGGAGA
TAGGATACTGTCTTGATCTG
Found at i:61616110 original size:44 final size:43
Alignment explanation
Indices: 61615806--61616094 Score: 211
Period size: 44 Copynumber: 6.7 Consensus size: 43
61615796 TTTAAGTCTA
* * *
61615806 CTCCACTGTAATCTCAGGGAGATAAGATCTCTTATTTTAATCCG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTCTT-CTTTGATCTG
* * * * *
61615850 CCCCACTGTAA-CTTCAGGGAGATAGGATAGT-GTCTTCGATCTG
1 CTCCACTGTAATC-TCAGGGAGATAAGAT-CTCTTCTTTGATCTG
* * *
61615893 CTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT---CTTCTTTGATCTG
* ** * *
61615939 TTCCACTGTAATCTCAGGGAGATAAGA-C-CTGATGTGATCTT
1 CTCCACTGTAATCTCAGGGAGATAAGATCTCTTCTTTGATCTG
* * * *
61615980 CTCTACTGTAA-CTTCAGAGAGATAAGA--TC--CTTTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTCTTCTTTGATCTG
* * *
61616019 CTCCATTGTAATCTCAAGGAGATAGGAT-TACTATCTTTGATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-CT-TCTTTGATCTG
*
61616063 CTCCGCTGTAATCTCAGGGAGATAAGATCTCT
1 CTCCACTGTAATCTCAGGGAGATAAGATCTCT
61616095 GGCTTCAATC
Statistics
Matches: 187, Mismatches: 42, Indels: 32
0.72 0.16 0.12
Matches are distributed among these distances:
39 25 0.13
40 3 0.02
41 31 0.17
42 1 0.01
43 30 0.16
44 60 0.32
45 3 0.02
46 34 0.18
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.32
Consensus pattern (43 bp):
CTCCACTGTAATCTCAGGGAGATAAGATCTCTTCTTTGATCTG
Found at i:61616156 original size:86 final size:87
Alignment explanation
Indices: 61616052--61616450 Score: 382
Period size: 88 Copynumber: 4.6 Consensus size: 87
61616042 AGGATTACTA
* * * ** * * * *
61616052 TCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC-TCTGGCTTCAATCTGCTCCAAT-G
1 TCTTTGATCTGCTTCGCTGTAATGT-AGGAAGGCAAGATCTTCTGTCTTCAACCAGCT-CAATCA
**
61616115 CAACCGATGGAGGCAAGGCTT-TG
64 CAACCGAAAGAGGCAAGGCTTGTG
* * * * * *
61616138 TCTTTGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTACT-TCTTTAACTAGCTCCA-CTG
1 TCTTTGATCTGCTTCGCTG-TAATGTAGGAAGGCAAGATCTTCTGTCTTCAACCAGCTCAATC-A
* ** *
61616201 CAATCGATGGATGCAAGGCTT-TG
64 CAACCGAAAGAGGCAAGGCTTGTG
* *
61616224 T-TTTCGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCA
1 TCTTT-GATCTGCTTCGCTG-TAATGTAGGAAGGCAAGATCTTCTGTCTTCAACCAGCTCAATCA
*
61616288 CAACCGAAAGAGGCAAGGTTTGTG
64 CAACCGAAAGAGGCAAGGCTTGTG
* * *
61616312 TCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCAC
1 TCTTTGATCTGCTTCGCTGT-AATGTAGGAAGGCAAGATCTTCTGTCTTCAACCAGCTCAATCAC
*
61616377 AACCGAAAGAGGCAAGGTTTGTG
65 AACCGAAAGAGGCAAGGCTTGTG
* * *
61616400 TCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCCTT-TGTCTTCA
1 TCTTTGATCTGCTTCGCTGT-AATGTAGGAAGGCAAGAT-CTTCTGTCTTCA
61616451 TTGATCTGTC
Statistics
Matches: 272, Mismatches: 30, Indels: 20
0.84 0.09 0.06
Matches are distributed among these distances:
85 5 0.02
86 96 0.35
87 36 0.13
88 130 0.48
89 5 0.02
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (87 bp):
TCTTTGATCTGCTTCGCTGTAATGTAGGAAGGCAAGATCTTCTGTCTTCAACCAGCTCAATCACA
ACCGAAAGAGGCAAGGCTTGTG
Found at i:61616174 original size:43 final size:43
Alignment explanation
Indices: 61616125--61616260 Score: 104
Period size: 43 Copynumber: 3.2 Consensus size: 43
61616115 CAACCGATGG
61616125 AGGCAAGGCTTTGTCTTTGATCTGCTTCGCTGTTAATGCAGGA
1 AGGCAAGGCTTTGTCTTTGATCTGCTTCGCTGTTAATGCAGGA
* * * * * *
61616168 AGGCAAGATCTACT-TCTTT-AACTAGCTCCACTG-CAAT-CGATGG-
1 AGGCAAG-GCT-TTGTCTTTGATCT-GCTTCGCTGTTAATGC-A-GGA
* *
61616211 ATGCAAGGCTTTGT-TTTCGATCTGCTTCGCTGTTAATGTAGGA
1 AGGCAAGGCTTTGTCTTT-GATCTGCTTCGCTGTTAATGCAGGA
61616254 AGGCAAG
1 AGGCAAG
61616261 ATCTTTTGTC
Statistics
Matches: 67, Mismatches: 15, Indels: 22
0.64 0.14 0.21
Matches are distributed among these distances:
41 4 0.06
42 13 0.19
43 33 0.49
44 16 0.24
45 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (43 bp):
AGGCAAGGCTTTGTCTTTGATCTGCTTCGCTGTTAATGCAGGA
Found at i:61616302 original size:44 final size:44
Alignment explanation
Indices: 61616254--61616392 Score: 138
Period size: 44 Copynumber: 3.2 Consensus size: 44
61616244 TAATGTAGGA
61616254 AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
1 AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
* * * * * ** ** * * *
61616298 AGGCAAGGT-TTGTGTCTTCGATCTGCTTCGCTGTCAA-TGTAGG
1 AGGCAAGATCTTTTGTCTTCAACCAGC-TCTATCACAACCGAAAG
61616341 AAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
1 -AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
61616386 AGGCAAG
1 AGGCAAG
61616393 GTTTGTGTCT
Statistics
Matches: 67, Mismatches: 24, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 16 0.24
44 35 0.52
45 16 0.24
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.27
Consensus pattern (44 bp):
AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
Found at i:61616337 original size:88 final size:88
Alignment explanation
Indices: 61616115--61616450 Score: 439
Period size: 88 Copynumber: 3.9 Consensus size: 88
61616105 TGCTCCAATG
** * * *
61616115 CAACCGATGGAGGCAAGGCTT-TGTCTTTGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCT
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
** * * * *
61616179 ACT-TCTTTAACTAGCTCCA-CTG
66 TTTGTCTTCAACCAGCTCTATC-A
* ** * * *
61616201 CAATCGATGGATGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATC
1 CAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATC
61616264 TTTTGTCTTCAACCAGCTCTATCA
65 TTTTGTCTTCAACCAGCTCTATCA
*
61616288 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
61616353 TTTGTCTTCAACCAGCTCTATCA
66 TTTGTCTTCAACCAGCTCTATCA
* *
61616376 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCC
1 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
61616441 TTTGTCTTCA
66 TTTGTCTTCA
61616451 TTGATCTGTC
Statistics
Matches: 225, Mismatches: 19, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
86 59 0.26
87 31 0.14
88 135 0.60
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (88 bp):
CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
TTTGTCTTCAACCAGCTCTATCA
Found at i:61616434 original size:44 final size:44
Alignment explanation
Indices: 61616298--61616436 Score: 124
Period size: 44 Copynumber: 3.2 Consensus size: 44
61616288 CAACCGAAAG
* *
61616298 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGA
1 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAA
* * * * * * * *
61616342 AGGCAAGATCTTTTGTCTTCAACCAGC-T--CTATCACA-ACCGAAA
1 AGGCAAGGT-TTGTGTCTTCGATCTGCTTCGCTGTCA-ATGCAG-AA
61616385 GAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAA
1 -AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAA
61616430 AGGCAAG
1 AGGCAAG
61616437 ATCCTTTGTC
Statistics
Matches: 69, Mismatches: 18, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
42 6 0.09
43 15 0.22
44 25 0.36
45 16 0.23
46 7 0.10
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (44 bp):
AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAA
Found at i:61616447 original size:176 final size:173
Alignment explanation
Indices: 61616115--61616450 Score: 433
Period size: 174 Copynumber: 1.9 Consensus size: 173
61616105 TGCTCCAATG
** * *
61616115 CAACCGATGGAGGCAAGGCTTTGTCTTTGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTA
1 CAACCGAAAGAGGCAAGGCTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTA
* * * * ** * *
61616180 CTTCTTTAACTAGCTCCACTGCAATCGATGGATGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTT
66 CTTCTTCAACCAGCTCCACTACAACCGAAAGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTC
* * *
61616245 AATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCA
131 AATGCAGAAAGGCAAGATCCTTTGTCTTCAACCAGCTCTATCA
* *
61616288 CAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
1 CAACCGAAAGAGGCAAGGCTT-TGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
** *
61616353 TTTGTCTTCAACCAGCTCTA-TCACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCG
65 ACT-TCTTCAACCAGCTCCACT-ACAACCGAAAGAGGCAAGGCTTTGT-T-TTCGATCTGCTTCG
61616416 CTGTCAATGCAGAAAGGCAAGATCCTTTGTCTTCA
126 CTGTCAATGCAGAAAGGCAAGATCCTTTGTCTTCA
61616451 TTGATCTGTC
Statistics
Matches: 138, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
173 18 0.13
174 47 0.34
175 28 0.20
176 45 0.33
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (173 bp):
CAACCGAAAGAGGCAAGGCTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTA
CTTCTTCAACCAGCTCCACTACAACCGAAAGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTC
AATGCAGAAAGGCAAGATCCTTTGTCTTCAACCAGCTCTATCA
Found at i:61624496 original size:18 final size:18
Alignment explanation
Indices: 61624473--61624541 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
61624463 ATAAAATCAG
*
61624473 AAAATTTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
**
61624491 -AAAATTCCCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
* *
61624507 AAAAAGTTTCATGTTTTC
1 AAAAATTTTCGTGTTTTC
*
61624525 AAAAATTATCGTGTTTT
1 AAAAATTTTCGTGTTTT
61624542 AATCGGATCA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
16 4 0.10
17 17 0.44
18 18 0.46
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.46
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:61625656 original size:12 final size:13
Alignment explanation
Indices: 61625638--61625676 Score: 62
Period size: 12 Copynumber: 3.0 Consensus size: 13
61625628 AGGAAAATTT
61625638 TAATAATAATATA
1 TAATAATAATATA
61625651 -AATAATAATATA
1 TAATAATAATATA
61625663 TACATAATAATATA
1 TA-ATAATAATATA
61625677 CAAAAGTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.50
13 1 0.04
14 11 0.46
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (13 bp):
TAATAATAATATA
Found at i:61625669 original size:14 final size:14
Alignment explanation
Indices: 61625638--61625676 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
61625628 AGGAAAATTT
61625638 TAATAATAATATAAA
1 TAATAAT-ATATAAA
*
61625653 TAATAATATATACA
1 TAATAATATATAAA
61625667 TAATAATATA
1 TAATAATATA
61625677 CAAAAGTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 16 0.70
15 7 0.30
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (14 bp):
TAATAATATATAAA
Found at i:61625866 original size:18 final size:18
Alignment explanation
Indices: 61625843--61625879 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
61625833 AAATATGTAG
61625843 ATAAATATATAA-ACTAAT
1 ATAAATA-ATAATACTAAT
61625861 ATAAATAATAATACTAAT
1 ATAAATAATAATACTAAT
61625879 A
1 A
61625880 ATAATGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAATAATAATACTAAT
Found at i:61628299 original size:12 final size:11
Alignment explanation
Indices: 61628282--61628323 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
61628272 TTAGTTTTTT
61628282 TATTTGGGCTTG
1 TATTTGGG-TTG
61628294 TATTTGGGTTG
1 TATTTGGGTTG
*
61628305 TAATTGGG-T-
1 TATTTGGGTTG
61628314 TATTTGGGTT
1 TATTTGGGTT
61628324 AATTTGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
11 10 0.37
12 8 0.30
ACGTcount: A:0.12, C:0.02, G:0.33, T:0.52
Consensus pattern (11 bp):
TATTTGGGTTG
Found at i:61628976 original size:16 final size:17
Alignment explanation
Indices: 61628955--61628988 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
61628945 TTATCTTAGA
*
61628955 ATTTTTTG-GTATTTTC
1 ATTTTTTGTATATTTTC
61628971 ATTTTTTGTATATTTTC
1 ATTTTTTGTATATTTTC
61628988 A
1 A
61628989 ATCAAATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.18, C:0.06, G:0.09, T:0.68
Consensus pattern (17 bp):
ATTTTTTGTATATTTTC
Found at i:61629325 original size:58 final size:58
Alignment explanation
Indices: 61629205--61629327 Score: 142
Period size: 58 Copynumber: 2.1 Consensus size: 58
61629195 ATGGTGACCA
** ** * *
61629205 AAAAAGACAAAATTGAATAATTTGGTGACCATTTTGTAACTTTCTATGGTTGAGTGAGC
1 AAAAA-ACAAAATACAATAATTAAGTGACCATGTTGTAACTTTCTATAGTTGAGTGAGC
*
61629264 AAAAAACAAAATACAATAATTAAGTGACCATGTTGTAACTTT-TGATAGTT-AGGTGATC
1 AAAAAACAAAATACAATAATTAAGTGACCATGTTGTAACTTTCT-ATAGTTGA-GTGAGC
61629322 AAAAAA
1 AAAAAA
61629328 GAAATTTACT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
57 2 0.04
58 48 0.87
59 5 0.09
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (58 bp):
AAAAAACAAAATACAATAATTAAGTGACCATGTTGTAACTTTCTATAGTTGAGTGAGC
Found at i:61630596 original size:15 final size:15
Alignment explanation
Indices: 61630545--61630597 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
61630535 TAAAATATAT
61630545 ATTTATATTATTTTTA
1 ATTTATA-TATTTTTA
*
61630561 ATTTA-ATATTTAATA
1 ATTTATATATTT-TTA
*
61630576 ATTTTATATATTTTTT
1 A-TTTATATATTTTTA
61630592 ATTTAT
1 ATTTAT
61630598 TAAAATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 5 0.16
15 9 0.29
16 11 0.35
17 6 0.19
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTATATATTTTTA
Found at i:61632010 original size:3 final size:3
Alignment explanation
Indices: 61631994--61632052 Score: 57
Period size: 3 Copynumber: 19.0 Consensus size: 3
61631984 TTAGTAATTC
*
61631994 TAT TATT TAGT TAT TAT TAT TAT TAT TAT TA- TATT TAT TAA TAT TAT
1 TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
* *
61632041 TGT TAT TTT TAT
1 TAT TAT TAT TAT
61632053 GTTTTTATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
2 2 0.04
3 36 0.78
4 8 0.17
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:61637142 original size:15 final size:15
Alignment explanation
Indices: 61637114--61637184 Score: 56
Period size: 17 Copynumber: 4.4 Consensus size: 15
61637104 AAAATACAAA
61637114 AAAAAAGAGAAAGAAAG
1 AAAAAA-AG-AAGAAAG
61637131 AAAAAAAGAAGAAAG
1 AAAAAAAGAAGAAAG
61637146 AGAATAAGAAGAAG-AAG
1 A-AA-AA-AAGAAGAAAG
*
61637163 AATAGAAAAGAA-AAGG
1 AA-A-AAAAGAAGAAAG
61637179 AAAAAA
1 AAAAAA
61637185 GGAGAGGCCA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
14 3 0.06
15 9 0.19
16 14 0.30
17 15 0.32
18 6 0.13
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.03
Consensus pattern (15 bp):
AAAAAAAGAAGAAAG
Found at i:61637149 original size:21 final size:21
Alignment explanation
Indices: 61637111--61637176 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
61637101 TAAAAAATAC
61637111 AAAAAAA-AAGAGAA-AGAAAG
1 AAAAAAAGAAGA-AAGAGAAAG
61637131 AAAAAAAGAAGAAAGAGAATA-
1 AAAAAAAGAAGAAAGAGAA-AG
* *
61637152 AGAAGAAGAAGAATAGA-AAAG
1 AAAAAAAGAAGAA-AGAGAAAG
61637173 AAAA
1 AAAA
61637177 GGAAAAAAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
20 10 0.26
21 24 0.63
22 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (21 bp):
AAAAAAAGAAGAAAGAGAAAG
Found at i:61637356 original size:44 final size:43
Alignment explanation
Indices: 61637292--61637374 Score: 112
Period size: 44 Copynumber: 1.9 Consensus size: 43
61637282 GGGGTACGAA
* * *
61637292 GTGATCAGAGCGGCTTAAATTTTGGATCAAATTGGGGCATGGTG
1 GTGATCAGAGCAGCTCAAATTTT-GATCAAATCGGGGCATGGTG
* *
61637336 GTGATCAGAGTAGCTCAAATTTTGATCAGATCGGGGCAT
1 GTGATCAGAGCAGCTCAAATTTTGATCAAATCGGGGCAT
61637375 ATGATGATCT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 14 0.41
44 20 0.59
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.29
Consensus pattern (43 bp):
GTGATCAGAGCAGCTCAAATTTTGATCAAATCGGGGCATGGTG
Found at i:61638709 original size:99 final size:99
Alignment explanation
Indices: 61638498--61638722 Score: 317
Period size: 98 Copynumber: 2.3 Consensus size: 99
61638488 AAACCATAGT
* * * **
61638498 TTGCAATTCAAAGATTGAATCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGAAGCATTT
1 TTGCAATTCAAAGATTGAAGCCACAACGATAAATCTTACTTCCCAGGCGATGCAGCGAAGCAGAT
* *
61638563 TGAAGCTACAACGGCGAATCTCACTTCCCTGACA
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* *
61638597 TTGCAATTCAAAGATTGAAGCCACAACGATAAATCTTAC-TCCCAGGCGATGCAGGGGAGCAGAT
1 TTGCAATTCAAAGATTGAAGCCACAACGATAAATCTTACTTCCCAGGCGATGCAGCGAAGCAGAT
* *
61638661 TGAAGCTACAATAGTGAATCTCACTTCCCCGACA
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* *
61638695 TTGCAATTTAAAAGATTGAAGCTACAAC
1 TTGCAA-TTCAAAGATTGAAGCCACAAC
61638723 AGCGGATCTT
Statistics
Matches: 112, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
98 57 0.51
99 55 0.49
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (99 bp):
TTGCAATTCAAAGATTGAAGCCACAACGATAAATCTTACTTCCCAGGCGATGCAGCGAAGCAGAT
TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
Found at i:61638747 original size:50 final size:49
Alignment explanation
Indices: 61638695--61639777 Score: 879
Period size: 50 Copynumber: 22.7 Consensus size: 49
61638685 TTCCCCGACA
* *
61638695 TTGCAATTTAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGC
1 TTGCAGTTGAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGC
* * * *
61638744 ATTGCAGTGGAACAGATTGAAGCTACAGCAGTGGATCTTAC-TTCC---C
1 -TTGCAGTTGAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGC
** * * *
61638790 GGGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTG
1 TTGCAGTTGAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-C
* * *
61638840 TTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGC-TTCC---C
1 TTGCAGTTGAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGC
* * * *
61638885 TGGCAGTTAAAAAGATTGAAACTACAATAGCGGATCTTACTTTCCTAGC
1 TTGCAGTTGAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGC
* * * * *
61638934 ATTGCAGTGGAACAGATTGAAGTTATAGCAGCGGATCTTAC-TTCC---C
1 -TTGCAGTTGAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGC
* * * * * * *
61638980 TAGCAATTAAAAAATATTGAAGCTACAACAACGGATCTTATTTTCCTAGTG
1 TTGCAGTT-GAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-C
* * * * *
61639031 TTACAG-TGAAACGGATTGAAGTTACAACAGCAGATCTTGC-TTCC---C
1 TTGCAGTTGAAA-AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGC
* * * *
61639076 TTGCAATTAAAAATATTGAAGCTACAACAGCGGATCTTACTTTCCTTGC
1 TTGCAGTTGAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGC
* * * *
61639125 GTTGTAG-TGAAACAGATTGAAGCTACAGCAGCAGATCTTGC-TTCC---C
1 -TTGCAGTTGAAA-AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGC
** * * *
61639171 CGGCAGTTAAAAATATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTG
1 TTGCAGTTGAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-C
* * *
61639221 TTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGC-TTCC---C
1 TTGCAGTTGAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGC
** * *
61639266 CGGCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTATTTTCCTAGC
1 TTGCAGTTGAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGC
* * * * *
61639315 GTTGCAG-TGAAACGGATTGAAGCTACAGCAACAGATCTTGC-TTCC---C
1 -TTGCAGTTGAAA-AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGC
* *
61639361 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGC
1 TTGCAGTTGAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGC
* *
61639410 GTTACAG-TGAAATAGATTGAAGCTACAGCAGCGGATCTTACTTTCCTAGC
1 -TTGCAGTTGAAA-AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGC
* * * ** *
61639460 ATTGCAGTGGAACAGATTGAAGCTACAGCAGTAGATCTTGC-TTCC---C
1 -TTGCAGTTGAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGC
* * * *
61639506 -CGACAGTTAAAAAGATTGAAGCTACAACAACGGATCTTACTTTCCTAGTG
1 TTG-CAGTTGAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-C
* * *
61639556 TTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGC-TTCC---C
1 TTGCAGTTGAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGC
* * *
61639601 TGGCAGTTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCTAGC
1 TTGCAGTTGAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGC
* * * * * *
61639650 ATTGTAGTAGAACAGATTGAAGCTACAGCAGCGGATCTTGCTTCCCTAG-
1 -TTGCAGTTGAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGC
* *
61639699 -T--AGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTG
1 TTGCAGTTGAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-C
* *
61639746 TTGCAGTGGAACAGATTGAAGCTACAACAGCG
1 TTGCAGTTGAAAAGATTGAAGCTACAACAGCG
61639778 ATTGAAGCTA
Statistics
Matches: 802, Mismatches: 170, Indels: 122
0.73 0.16 0.11
Matches are distributed among these distances:
44 1 0.00
45 286 0.36
46 73 0.09
47 5 0.01
48 1 0.00
49 56 0.07
50 373 0.47
51 7 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (49 bp):
TTGCAGTTGAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGC
Found at i:61638819 original size:95 final size:95
Alignment explanation
Indices: 61638697--61639448 Score: 1072
Period size: 95 Copynumber: 7.9 Consensus size: 95
61638687 CCCCGACATT
* * *
61638697 GCAATTTAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGATT
1 GCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGAAACAGATT
* * *
61638762 GAAGCTACAGCAGTGGATCTTACTTCCCGG
66 GAAGCTACAGCAGCGGATCTTGCTTCCCTG
* *
61638792 GCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTGTTGCAGTGGAACAGATT
1 GCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGAAACAGATT
*
61638857 GAAGCTACAACAGCGGATCTTGCTTCCCTG
66 GAAGCTACAGCAGCGGATCTTGCTTCCCTG
* * * * *
61638887 GCAGTTAAAAAGATTGAAACTACAATAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGATT
1 GCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGAAACAGATT
* * * *
61638952 GAAGTTATAGCAGCGGATCTTACTTCCCTA
66 GAAGCTACAGCAGCGGATCTTGCTTCCCTG
* * * * * *
61638982 GCAATTAAAAAATATTGAAGCTACAACAACGGATCTTATTTTCCTAGTGTTACAGTGAAACGGAT
1 GCAATT-AAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGAAACAGAT
* * * *
61639047 TGAAGTTACAACAGCAGATCTTGCTTCCCTT
65 TGAAGCTACAGCAGCGGATCTTGCTTCCCTG
* * *
61639078 GCAATTAAAAATATTGAAGCTACAACAGCGGATCTTACTTTCCTTGCGTTGTAGTGAAACAGATT
1 GCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGAAACAGATT
* *
61639143 GAAGCTACAGCAGCAGATCTTGCTTCCCCG
66 GAAGCTACAGCAGCGGATCTTGCTTCCCTG
* * * *
61639173 GCAGTTAAAAATATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTGTTGCAGTGGAACAGATT
1 GCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGAAACAGATT
* *
61639238 GAAGCTACAACAGCGGATCTTGCTTCCCCG
66 GAAGCTACAGCAGCGGATCTTGCTTCCCTG
* * *
61639268 GCAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTATTTTCCTAGCGTTGCAGTGAAACGGATT
1 GCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGAAACAGATT
* * *
61639333 GAAGCTACAGCAACAGATCTTGCTTCCCTT
66 GAAGCTACAGCAGCGGATCTTGCTTCCCTG
* *
61639363 GCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTACAGTGAAATAGATT
1 GCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGAAACAGATT
61639428 GAAGCTACAGCAGCGGATCTT
66 GAAGCTACAGCAGCGGATCTT
61639449 ACTTTCCTAG
Statistics
Matches: 588, Mismatches: 68, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
95 508 0.86
96 80 0.14
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (95 bp):
GCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGAAACAGATT
GAAGCTACAGCAGCGGATCTTGCTTCCCTG
Found at i:61638928 original size:190 final size:190
Alignment explanation
Indices: 61638704--61639737 Score: 1117
Period size: 190 Copynumber: 5.4 Consensus size: 190
61638694 ATTGCAATTT
*
61638704 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGATTGAAGCTA
1 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGAAACAGATTGAAGCTA
** *
61638769 CAGCAGTGGATCTTACTTCCCGGGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTC
66 CAGCAGCAGATCTTACTTCCCTGGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTC
* *
61638834 CTAGTGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAGTTA
131 CTAGTGTTACAGTGAAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAGTTA
* * * *
61638894 AAAAGATTGAAACTACAATAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGATTGAAGTTA
1 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGAAACAGATTGAAGCTA
* * * * * *
61638959 TAGCAGCGGATCTTACTTCCCTAGCAATTAAAAAATATTGAAGCTACAACAACGGATCTTATTTT
66 CAGCAGCAGATCTTACTTCCCTGGCAATT-AAAAAGATTGAAGCTACAACAGCGGATCTTACTTT
* * * * *
61639024 CCTAGTGTTACAGTGAAACGGATTGAAGTTACAACAGCAGATCTTGCTTCCCTTGCAATTA
130 CCTAGTGTTACAGTGAAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAGTTA
* * * *
61639085 AAAATATTGAAGCTACAACAGCGGATCTTACTTTCCTTGCGTTGTAGTGAAACAGATTGAAGCTA
1 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGAAACAGATTGAAGCTA
* * * *
61639150 CAGCAGCAGATCTTGCTTCCCCGGCAGTTAAAAATATTGAAGCTACAACAGCGGATCTTACTTTC
66 CAGCAGCAGATCTTACTTCCCTGGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTC
* * *
61639215 CTAGTGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCGGCAGTTA
131 CTAGTGTTACAGTGAAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAGTTA
* * *
61639275 AAAAGATTGAAGCTACAACAGCGGATCTTATTTTCCTAGCGTTGCAGTGAAACGGATTGAAGCTA
1 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGAAACAGATTGAAGCTA
* * *
61639340 CAGCAACAGATCTTGCTTCCCTTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTC
66 CAGCAGCAGATCTTACTTCCCTGGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTC
* * * * * **
61639405 CTAGCGTTACAGTGAAATAGATTGAAGCTACAGCAGCGGATCTTACTTTCCTAGCATTGCAGTGG
131 CTAGTGTTACAGTGAAACAGATTGAAGCTACAACAGCGGATCTTGC-TTCC---C-TGGCAGTTA
* * ** * ** * *
61639470 AACAGATTGAAGCTACAGCAGTAGATCTTGC-TTCCCCG-A---CAGTTAAAAAGATTGAAGCTA
1 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGAAACAGATTGAAGCTA
* * * * * ** * *
61639530 CAACAACGGATCTTACTTTCCTAGTGTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTG
66 CAGCAGCAGATCTTAC-TTCC--CTG--GCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTA
* * * * * * *
61639595 CTTCCCT-G-G---CAGTTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCTAGCATTGT
126 CTTTCCTAGTGTTACAGTGAAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCA--GT
61639655 AGTA
189 --TA
* * * * * *
61639659 GAACAGATTGAAGCTACAGCAGCGGATCTTGCTTCCCTAG---T--AGTTAAAAAGATTGAAGCT
1 -AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGAAACAGATTGAAGCT
* *
61639719 ACAACAGCGGATCTTACTT
65 ACAGCAGCAGATCTTACTT
61639738 TCCTAGTGTT
Statistics
Matches: 728, Mismatches: 98, Indels: 37
0.84 0.11 0.04
Matches are distributed among these distances:
185 4 0.01
186 1 0.00
187 2 0.00
189 5 0.01
190 461 0.63
191 178 0.24
193 2 0.00
194 7 0.01
195 68 0.09
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (190 bp):
AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGAAACAGATTGAAGCTA
CAGCAGCAGATCTTACTTCCCTGGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTC
CTAGTGTTACAGTGAAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAGTTA
Found at i:61639476 original size:335 final size:335
Alignment explanation
Indices: 61639090--61639777 Score: 1144
Period size: 335 Copynumber: 2.1 Consensus size: 335
61639080 AATTAAAAAT
* * *
61639090 ATTGAAGCTACAACAGCGGATCTTACTTTCCTTGCGTTGTAGTGAAACAGATTGAAGCTACAGCA
1 ATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGAAACAGATTGAAGCTACAGCA
* * *
61639155 GCAGATCTTGCTTCCCCGGCAGTTAAAAATATTGAAGCTACAACAGCGGATCTTACTTTCCTAGT
66 GCAGATCTTGCTTCCCCGACAGTTAAAAAGATTGAAGCTACAACAACGGATCTTACTTTCCTAGT
61639220 GTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCGGCAGTTAAAAAGATTGA
131 GTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCGGCAGTTAAAAAGATTGA
* * * *
61639285 AGCTACAACAGCGGATCTTATTTTCCTAGCGTTGCAGT-GAAACGGATTGAAGCTACAGCAACAG
196 AGCTACAACAGCGAATCTTACTTTCCTAGCATTGCAGTAG-AACAGATTGAAGCTACAGCAACAG
*
61639349 ATCTTGCTTCCCTTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTA
260 ATCTTGCTTCCCTAGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTA
*
61639414 CAGTGAAATAG
325 CAGTGAAACAG
* *
61639425 ATTGAAGCTACAGCAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACAGATTGAAGCTACAGCA
1 ATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGAAACAGATTGAAGCTACAGCA
*
61639490 GTAGATCTTGCTTCCCCGACAGTTAAAAAGATTGAAGCTACAACAACGGATCTTACTTTCCTAGT
66 GCAGATCTTGCTTCCCCGACAGTTAAAAAGATTGAAGCTACAACAACGGATCTTACTTTCCTAGT
*
61639555 GTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAGTTAAAAAGATTGA
131 GTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCGGCAGTTAAAAAGATTGA
* * *
61639620 AGCTACAACAGCGAATCTTACTTTCCTAGCATTGTAGTAGAACAGATTGAAGCTACAGCAGCGGA
196 AGCTACAACAGCGAATCTTACTTTCCTAGCATTGCAGTAGAACAGATTGAAGCTACAGCAACAGA
* * * *
61639685 TCTTGCTTCCCTAGTAGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGTGTTGC
261 TCTTGCTTCCCTAGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTAC
*
61639750 AGTGGAACAG
326 AGTGAAACAG
61639760 ATTGAAGCTACAACAGCG
1 ATTGAAGCTACAACAGCG
61639778 ATTGAAGCTA
Statistics
Matches: 327, Mismatches: 25, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
335 326 1.00
336 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (335 bp):
ATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGAAACAGATTGAAGCTACAGCA
GCAGATCTTGCTTCCCCGACAGTTAAAAAGATTGAAGCTACAACAACGGATCTTACTTTCCTAGT
GTTGCAGTGGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCCCGGCAGTTAAAAAGATTGA
AGCTACAACAGCGAATCTTACTTTCCTAGCATTGCAGTAGAACAGATTGAAGCTACAGCAACAGA
TCTTGCTTCCCTAGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTAC
AGTGAAACAG
Found at i:61639512 original size:95 final size:95
Alignment explanation
Indices: 61639373--61639777 Score: 551
Period size: 95 Copynumber: 4.2 Consensus size: 95
61639363 GCAATTAAAA
* * * * * *
61639373 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTACAGTGAAATAGATTGAAGCTACAG
1 AGATTGAAGCTACAGCAGCGGATCTTGC-TTCC--CCG--ACAGTTAAAAAGATTGAAGCTACAA
61639438 CAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
61 CAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
** *
61639473 AGATTGAAGCTACAGCAGTAGATCTTGCTTCCCCGACAGTTAAAAAGATTGAAGCTACAACAACG
1 AGATTGAAGCTACAGCAGCGGATCTTGCTTCCCCGACAGTTAAAAAGATTGAAGCTACAACAGCG
**
61639538 GATCTTACTTTCCTAGTGTTGCAGTGGAAC
66 GATCTTACTTTCCTAGCATTGCAGTGGAAC
* * *
61639568 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAGTTAAAAAGATTGAAGCTACAACAGCG
1 AGATTGAAGCTACAGCAGCGGATCTTGCTTCCCCGACAGTTAAAAAGATTGAAGCTACAACAGCG
* * *
61639633 AATCTTACTTTCCTAGCATTGTAGTAGAAC
66 GATCTTACTTTCCTAGCATTGCAGTGGAAC
* *
61639663 AGATTGAAGCTACAGCAGCGGATCTTGCTT-CCCTAGTAGTTAAAAAGATTGAAGCTACAACAGC
1 AGATTGAAGCTACAGCAGCGGATCTTGCTTCCCCGA-CAGTTAAAAAGATTGAAGCTACAACAGC
**
61639727 GGATCTTACTTTCCTAGTGTTGCAGTGGAAC
65 GGATCTTACTTTCCTAGCATTGCAGTGGAAC
*
61639758 AGATTGAAGCTACAACAGCG
1 AGATTGAAGCTACAGCAGCG
61639778 ATTGAAGCTA
Statistics
Matches: 271, Mismatches: 33, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
94 2 0.01
95 239 0.88
97 2 0.01
99 4 0.01
100 24 0.09
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (95 bp):
AGATTGAAGCTACAGCAGCGGATCTTGCTTCCCCGACAGTTAAAAAGATTGAAGCTACAACAGCG
GATCTTACTTTCCTAGCATTGCAGTGGAAC
Found at i:61639782 original size:18 final size:18
Alignment explanation
Indices: 61639759--61639813 Score: 110
Period size: 18 Copynumber: 3.1 Consensus size: 18
61639749 CAGTGGAACA
61639759 GATTGAAGCTACAACAGC
1 GATTGAAGCTACAACAGC
61639777 GATTGAAGCTACAACAGC
1 GATTGAAGCTACAACAGC
61639795 GATTGAAGCTACAACAGC
1 GATTGAAGCTACAACAGC
61639813 G
1 G
61639814 GATCTTGCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (18 bp):
GATTGAAGCTACAACAGC
Found at i:61642631 original size:47 final size:45
Alignment explanation
Indices: 61642580--61642747 Score: 141
Period size: 47 Copynumber: 3.6 Consensus size: 45
61642570 TATTTAATAT
61642580 TAATTATTTTAAATTGTATAAATTCATATAAGAAAATTTATTATCAA
1 TAATTATTTTAAATT-TATAAATTCATATAAGAAAATTTATTAT-AA
* * **
61642627 TAATT-TTATGAAA-TTATATATT-AT-T-ATTAAATTATATGTAATAA
1 TAATTATT-TTAAATTTATAAATTCATATAAGAAAATT-TAT-T-ATAA
* * *
61642671 TAATTATTTTAAATTATACAAATTCATATAAGATAATTTATTAGTTA
1 TAATTATTTTAAATT-TATAAATTCATATAAGAAAATTTATTA-TAA
61642718 TAATTATTTTAAATTTTATTAAA-TCATATA
1 TAATTATTTTAAA-TTTA-TAAATTCATATA
61642748 TTTTAATTAA
Statistics
Matches: 96, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
42 6 0.06
43 4 0.04
44 14 0.15
45 12 0.12
46 10 0.10
47 36 0.38
48 9 0.09
49 5 0.05
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (45 bp):
TAATTATTTTAAATTTATAAATTCATATAAGAAAATTTATTATAA
Found at i:61642647 original size:91 final size:91
Alignment explanation
Indices: 61642506--61642713 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 91
61642496 TTGATTTTAG
* *
61642506 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
61642571 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
* *
61642598 TAAATTCATATAAGAAAATTTATTATCAATAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
61642663 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
61642689 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
61642714 GTTATAATTA
Statistics
Matches: 107, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 91 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:61642673 original size:44 final size:43
Alignment explanation
Indices: 61642527--61642688 Score: 125
Period size: 44 Copynumber: 3.6 Consensus size: 43
61642517 AAGAACATTT
* * *
61642527 TATTATTAAGAATT-TTATGAAATTATATATCATTATTAAATTA
1 TATTAATAATAATTATT-TGAAATTATATATTATTATTAAATTA
* * * **
61642570 TATTTAATATTAATTATTTTAAATTGTATAAATTCATATAAGAAAATT-
1 TA-TTAATAATAATTATTTGAAA-T-TATATATT-AT-T-ATTAAATTA
61642618 TATT-ATCAATAATT-TTATGAAATTATATATTATTATTAAATTA
1 TATTAAT-AATAATTATT-TGAAATTATATATTATTATTAAATTA
*
61642661 TATGTAATAATAATTATTTTAAATTATA
1 TAT-TAATAATAATTATTTGAAATTATA
61642689 CAAATTCATA
Statistics
Matches: 92, Mismatches: 14, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
42 6 0.07
43 6 0.07
44 32 0.35
45 14 0.15
46 11 0.12
47 14 0.15
48 3 0.03
49 6 0.07
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (43 bp):
TATTAATAATAATTATTTGAAATTATATATTATTATTAAATTA
Found at i:61642682 original size:26 final size:28
Alignment explanation
Indices: 61642628--61642688 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
61642618 TATTATCAAT
* *
61642628 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
61642656 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
61642682 AATTATA
1 AATTATA
61642689 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:61643091 original size:16 final size:16
Alignment explanation
Indices: 61643070--61643111 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
61643060 TTATTAAATT
*
61643070 ATATATTTTAATTATA
1 ATATATTTTAATAATA
61643086 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
61643101 AT-TATGTTTAA
1 ATATAT-TTTAA
61643112 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:61643096 original size:15 final size:15
Alignment explanation
Indices: 61643061--61643102 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
61643051 TTAAGAATTT
*
61643061 TATTAAATTAT-ATA
1 TATTTAATTATAATA
61643075 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
61643089 TATTTAATAATAAT
1 TATTTAATTATAAT
61643103 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:61643242 original size:18 final size:17
Alignment explanation
Indices: 61643214--61643248 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
61643204 ATTATTAAGA
*
61643214 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
61643231 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
61643249 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:61643247 original size:157 final size:157
Alignment explanation
Indices: 61643048--61643361 Score: 565
Period size: 157 Copynumber: 2.0 Consensus size: 157
61643038 AGAATATTAG
*
61643048 TTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAA
1 TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
* *
61643113 TATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAAATTGAATAACAATAACAATAA
66 TATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAAATTAAATAACAATAACAATAA
* *
61643178 TAATTTACCAAAATAAATTTCTGCTAA
131 TAATTTACCAAAACAAATTTATGCTAA
61643205 TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
1 TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
*
61643270 TATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAA
66 TATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAAATTAAATAACAATAACAATAA
*
61643335 TCATTTACCAAAACAAATTTATGCTAA
131 TAATTTACCAAAACAAATTTATGCTAA
61643362 GGGTATTCTA
Statistics
Matches: 150, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 150 1.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.45
Consensus pattern (157 bp):
TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
TATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAAATTAAATAACAATAACAATAA
TAATTTACCAAAACAAATTTATGCTAA
Found at i:61643494 original size:45 final size:44
Alignment explanation
Indices: 61643413--61643503 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
61643403 ATCTCTATTC
* *
61643413 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCAATA
*** *
61643457 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCCAATA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTATTCCAATA
61643502 CA
1 CA
61643504 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCAATA
Found at i:61643505 original size:16 final size:16
Alignment explanation
Indices: 61643484--61643551 Score: 100
Period size: 16 Copynumber: 4.2 Consensus size: 16
61643474 GATTTGCTAT
*
61643484 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
61643500 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
*
61643516 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
*
61643532 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
61643548 TACA
1 TACA
61643552 GCGAACCAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.35, C:0.34, G:0.00, T:0.31
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:61654623 original size:15 final size:15
Alignment explanation
Indices: 61654572--61654624 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
61654562 TAAAATATAT
61654572 ATTTATATTATTTTTA
1 ATTTATA-TATTTTTA
*
61654588 ATTTA-ATATTTAATA
1 ATTTATATATTT-TTA
*
61654603 ACTTTATATATTTTTT
1 A-TTTATATATTTTTA
61654619 ATTTAT
1 ATTTAT
61654625 TAAAATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 5 0.16
15 9 0.29
16 11 0.35
17 6 0.19
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTATATATTTTTA
Found at i:61664562 original size:24 final size:25
Alignment explanation
Indices: 61664535--61664586 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
61664525 TCTTATTTTA
*
61664535 ATTTAATATTTA-ATAATTTTATAT
1 ATTTAATATTTATAAAATTTTATAT
**
61664559 ATTTTTTATTTATTAAAATTTTATAT
1 ATTTAATATTTA-TAAAATTTTATAT
61664585 AT
1 AT
61664587 AGTTACCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 10 0.43
26 13 0.57
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
ATTTAATATTTATAAAATTTTATAT
Found at i:61668081 original size:2 final size:2
Alignment explanation
Indices: 61668074--61668098 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
61668064 CATGGTTTTA
61668074 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
61668099 AGTTTCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:61678167 original size:9 final size:9
Alignment explanation
Indices: 61678109--61678166 Score: 89
Period size: 9 Copynumber: 6.4 Consensus size: 9
61678099 GTAGTGATTC
*
61678109 AATTTGGTT
1 AATTCGGTT
61678118 AATTCGGTT
1 AATTCGGTT
*
61678127 AATTCGGGT
1 AATTCGGTT
61678136 AATTCGGTT
1 AATTCGGTT
61678145 AATTCGGTT
1 AATTCGGTT
*
61678154 AATTTGGTT
1 AATTCGGTT
61678163 AATT
1 AATT
61678167 TTTTACCAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.47
Consensus pattern (9 bp):
AATTCGGTT
Found at i:61680945 original size:18 final size:18
Alignment explanation
Indices: 61680922--61681080 Score: 194
Period size: 18 Copynumber: 8.8 Consensus size: 18
61680912 CGTTTATAGT
*
61680922 ACTATTTACGTATACGAC
1 ACTATTCACGTATACGAC
*
61680940 ACTATTCACGTATACGAT
1 ACTATTCACGTATACGAC
* *
61680958 ACTATTCACGTATATGGC
1 ACTATTCACGTATACGAC
* *
61680976 ACTATTCATGTATACGAT
1 ACTATTCACGTATACGAC
*
61680994 ACTATTCACGTATACGGC
1 ACTATTCACGTATACGAC
*
61681012 ACTATTCACGTATACGGC
1 ACTATTCACGTATACGAC
61681030 ACTATTCACGTATAC-AGC
1 ACTATTCACGTATACGA-C
* **
61681048 ACTATTTACGTATACGGT
1 ACTATTCACGTATACGAC
*
61681066 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
61681081 AGTAGTTGGG
Statistics
Matches: 121, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
18 121 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (18 bp):
ACTATTCACGTATACGAC
Found at i:61681004 original size:54 final size:54
Alignment explanation
Indices: 61680922--61681080 Score: 230
Period size: 54 Copynumber: 2.9 Consensus size: 54
61680912 CGTTTATAGT
* * *
61680922 ACTATTTACGTATACGACACTATTCACGTATACGATACTATTCACGTATATGGC
1 ACTATTCACGTATACGACACTATTCACGTATACGGTACTATTCACGTATACGGC
* * *
61680976 ACTATTCATGTATACGATACTATTCACGTATACGGCACTATTCACGTATACGGC
1 ACTATTCACGTATACGACACTATTCACGTATACGGTACTATTCACGTATACGGC
* *
61681030 ACTATTCACGTATAC-AGCACTATTTACGTATACGGTACTGTTCACGTATAC
1 ACTATTCACGTATACGA-CACTATTCACGTATACGGTACTATTCACGTATAC
61681081 AGTAGTTGGG
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 1 0.01
54 92 0.99
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (54 bp):
ACTATTCACGTATACGACACTATTCACGTATACGGTACTATTCACGTATACGGC
Found at i:61681081 original size:36 final size:36
Alignment explanation
Indices: 61680920--61681082 Score: 220
Period size: 36 Copynumber: 4.5 Consensus size: 36
61680910 ACCGTTTATA
*
61680920 GTACTATTTACGTATAC-GACACTATTCACGTATACG
1 GTACTATTCACGTATACAG-CACTATTCACGTATACG
* ** *
61680956 ATACTATTCACGTATATGGCACTATTCATGTATACG
1 GTACTATTCACGTATACAGCACTATTCACGTATACG
* *
61680992 ATACTATTCACGTATACGGCACTATTCACGTATACG
1 GTACTATTCACGTATACAGCACTATTCACGTATACG
* *
61681028 GCACTATTCACGTATACAGCACTATTTACGTATACG
1 GTACTATTCACGTATACAGCACTATTCACGTATACG
*
61681064 GTACTGTTCACGTATACAG
1 GTACTATTCACGTATACAG
61681083 TAGTTGGGAT
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
36 113 0.99
37 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (36 bp):
GTACTATTCACGTATACAGCACTATTCACGTATACG
Found at i:61694816 original size:6 final size:6
Alignment explanation
Indices: 61694807--61694847 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
61694797 GAGATGATGA
* *
61694807 GATTGG GATTGG GATTGG CATTGG CATTGG GATT-G GATTGG
1 GATTGG GATTGG GATTGG GATTGG GATTGG GATTGG GATTGG
61694848 AGGGTTGAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.17, C:0.05, G:0.44, T:0.34
Consensus pattern (6 bp):
GATTGG
Found at i:61694835 original size:18 final size:17
Alignment explanation
Indices: 61694807--61694847 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
61694797 GAGATGATGA
*
61694807 GATTGGGATTGGGATTG
1 GATTGGCATTGGGATTG
61694824 GCATTGGCATTGGGATTG
1 G-ATTGGCATTGGGATTG
61694842 GATTGG
1 GATTGG
61694848 AGGGTTGAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.17, C:0.05, G:0.44, T:0.34
Consensus pattern (17 bp):
GATTGGCATTGGGATTG
Found at i:61704536 original size:19 final size:17
Alignment explanation
Indices: 61704526--61704688 Score: 143
Period size: 18 Copynumber: 9.4 Consensus size: 17
61704516 ATTTTTATTT
61704526 AACACGAGAATTTTTGAA
1 AACACGAGAATTTTT-AA
61704544 AACACGAGAATTTTT-A
1 AACACGAGAATTTTTAA
* *
61704560 AACAGGA-AAATTTTAGA
1 AACACGAGAATTTTTA-A
* *
61704577 AACATGAAAATTTTTAGA
1 AACACGAGAATTTTTA-A
*
61704595 AACACGAAAATTTTTAA
1 AACACGAGAATTTTTAA
* * *
61704612 AACACGACATTTTTTTTGA
1 AACACGAGA--ATTTTTAA
*
61704631 AACACGGGAATTTTTAA
1 AACACGAGAATTTTTAA
* *
61704648 AACA-GGGAAATTTTAGA
1 AACACGAGAATTTTTA-A
*
61704665 AACACGAAAATTTTTAA
1 AACACGAGAATTTTTAA
61704682 AACACGA
1 AACACGA
61704689 CATTTTTTTG
Statistics
Matches: 122, Mismatches: 16, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
15 6 0.05
16 17 0.14
17 39 0.32
18 47 0.39
19 13 0.11
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (17 bp):
AACACGAGAATTTTTAA
Found at i:61704572 original size:34 final size:34
Alignment explanation
Indices: 61704526--61704706 Score: 170
Period size: 34 Copynumber: 5.2 Consensus size: 34
61704516 ATTTTTATTT
*
61704526 AACACGAGAATTTTTGAAAACACGAGAATTTTT-A
1 AACACGAAAATTTTT-AAAACACGAGAATTTTTGA
* * *
61704560 AACAGGAAAA-TTTTAGAAACATGAAAATTTTTAGA
1 AACACGAAAATTTTTA-AAACACGAGAATTTTT-GA
* *
61704595 AACACGAAAATTTTTAAAACACGACATTTTTTTTGA
1 AACACGAAAATTTTTAAAACACGAGA--ATTTTTGA
** * *
61704631 AACACGGGAATTTTTAAAACA-GGGAAATTTTAGA
1 AACACGAAAATTTTTAAAACACGAG-AATTTTTGA
* *
61704665 AACACGAAAATTTTTAAAACACGACATTTTTTTGA
1 AACACGAAAATTTTTAAAACACGAGA-ATTTTTGA
61704700 AACACGA
1 AACACGA
61704707 TTTAAAAAAA
Statistics
Matches: 118, Mismatches: 20, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
32 1 0.01
33 18 0.15
34 34 0.29
35 33 0.28
36 27 0.23
37 5 0.04
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (34 bp):
AACACGAAAATTTTTAAAACACGAGAATTTTTGA
Found at i:61704632 original size:88 final size:88
Alignment explanation
Indices: 61704536--61704706 Score: 256
Period size: 88 Copynumber: 1.9 Consensus size: 88
61704526 AACACGAGAA
*
61704536 TTTTTGAAAACACGAGAATTTTT-AAACAGGAAAATTTTAGAAACATGAAAATTTTTAGAAACAC
1 TTTTTG-AAACACGAGAATTTTTAAAACAGGAAAATTTTAGAAACACGAAAATTTTTA-AAACAC
61704600 GA-AAATTTTTAAAACACGACATTT
64 GACAAATTTTTAAAACACGACATTT
* *
61704624 TTTTTGAAACACGGGAATTTTTAAAACAGGGAAATTTTAGAAACACGAAAATTTTTAAAACACGA
1 TTTTTGAAACACGAGAATTTTTAAAACAGGAAAATTTTAGAAACACGAAAATTTTTAAAACACGA
** *
61704689 CATTTTTTTGAAACACGA
66 CAAATTTTTAAAACACGA
61704707 TTTAAAAAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
87 23 0.31
88 52 0.69
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (88 bp):
TTTTTGAAACACGAGAATTTTTAAAACAGGAAAATTTTAGAAACACGAAAATTTTTAAAACACGA
CAAATTTTTAAAACACGACATTT
Found at i:61704675 original size:70 final size:71
Alignment explanation
Indices: 61704526--61704705 Score: 244
Period size: 70 Copynumber: 2.6 Consensus size: 71
61704516 ATTTTTATTT
* * * *
61704526 AACACGAGAATTTTTGAAAACACGAGA-ATTTTT-AAACA-GGAAAATTTTAGAAACATGAAAAT
1 AACACGAAAATTTTT-AAAACACGACATTTTTTTGAAACACGGAAAATTTTAGAAACAGGAAAAT
61704588 TTTTAGA
65 TTTTAGA
* * *
61704595 AACACGAAAATTTTTAAAACACGACATTTTTTTTGAAACACGGGAATTTTTA-AAACAGGGAAA-
1 AACACGAAAATTTTTAAAACACGACA-TTTTTTTGAAACACGGAAAATTTTAGAAACAGGAAAAT
61704658 TTTTAGA
65 TTTTAGA
61704665 AACACGAAAATTTTTAAAACACGACATTTTTTTGAAACACG
1 AACACGAAAATTTTTAAAACACGACATTTTTTTGAAACACG
61704706 ATTTAAAAAA
Statistics
Matches: 100, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
68 10 0.10
69 29 0.29
70 38 0.38
71 14 0.14
72 9 0.09
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (71 bp):
AACACGAAAATTTTTAAAACACGACATTTTTTTGAAACACGGAAAATTTTAGAAACAGGAAAATT
TTTAGA
Found at i:61704696 original size:17 final size:17
Alignment explanation
Indices: 61704526--61704688 Score: 152
Period size: 17 Copynumber: 9.4 Consensus size: 17
61704516 ATTTTTATTT
*
61704526 AACACGAGAATTTTTGAA
1 AACACGAAAATTTTT-AA
*
61704544 AACACGAGAATTTTT-A
1 AACACGAAAATTTTTAA
*
61704560 AACAGGAAAA-TTTTAGA
1 AACACGAAAATTTTTA-A
*
61704577 AACATGAAAATTTTTAGA
1 AACACGAAAATTTTTA-A
61704595 AACACGAAAATTTTTAA
1 AACACGAAAATTTTTAA
** *
61704612 AACACGACATTTTTTTTGA
1 AACACGA-A-AATTTTTAA
**
61704631 AACACGGGAATTTTTAA
1 AACACGAAAATTTTTAA
* *
61704648 AACAGGGAAA-TTTTAGA
1 AACACGAAAATTTTTA-A
61704665 AACACGAAAATTTTTAA
1 AACACGAAAATTTTTAA
61704682 AACACGA
1 AACACGA
61704689 CATTTTTTTG
Statistics
Matches: 122, Mismatches: 16, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
15 4 0.03
16 14 0.11
17 49 0.40
18 43 0.35
19 12 0.10
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (17 bp):
AACACGAAAATTTTTAA
Found at i:61704709 original size:16 final size:17
Alignment explanation
Indices: 61704501--61704706 Score: 79
Period size: 18 Copynumber: 11.9 Consensus size: 17
61704491 GTATTTCTTT
61704501 TTTTTTTAAAA-ACGAA
1 TTTTTTTAAAACACGAA
*
61704517 TTTTTATT-TAACACGAGA
1 TTTTT-TTAAAACACGA-A
* *
61704535 ATTTTTGAAAACACGAGA
1 TTTTTTTAAAACACGA-A
* *
61704553 -ATTTTT-AAACAGGAA
1 TTTTTTTAAAACACGAA
** *
61704568 -AATTTTAGAAACATGAA
1 TTTTTTTA-AAACACGAA
**
61704585 AATTTTTAGAAACACGAA
1 TTTTTTTA-AAACACGAA
**
61704603 AATTTTTAAAACACGACA
1 TTTTTTTAAAACACGA-A
*
61704621 TTTTTTTTGAAACACGGGAA
1 -TTTTTTTAAAACAC--GAA
*
61704641 --TTTTTAAAACAGGGAA
1 TTTTTTTAAAACA-CGAA
*
61704657 --ATTTTAGAAACACGAA
1 TTTTTTTA-AAACACGAA
**
61704673 AATTTTTAAAACACGACA
1 TTTTTTTAAAACACGA-A
*
61704691 TTTTTTTGAAACACGA
1 TTTTTTTAAAACACGA
61704707 TTTAAAAAAA
Statistics
Matches: 152, Mismatches: 22, Indels: 30
0.75 0.11 0.15
Matches are distributed among these distances:
15 6 0.04
16 25 0.16
17 50 0.33
18 57 0.38
19 11 0.07
20 1 0.01
21 2 0.01
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (17 bp):
TTTTTTTAAAACACGAA
Found at i:61704757 original size:18 final size:18
Alignment explanation
Indices: 61704736--61704814 Score: 50
Period size: 19 Copynumber: 3.9 Consensus size: 18
61704726 TGCGAGAATC
61704736 TTTTTGAAACACGAAAAA
1 TTTTTGAAACACGAAAAA
* *
61704754 TTTTTTACAAACGCGAAAAGTGAAA
1 -TTTTT-GAAACACG-AAA----AA
* *
61704779 TTTTTGAAATACGAGAAA
1 TTTTTGAAACACGAAAAA
61704797 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
61704815 TTTGAAACAC
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
18 8 0.18
19 14 0.31
20 6 0.13
21 3 0.07
22 2 0.04
23 5 0.11
24 5 0.11
25 2 0.04
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (18 bp):
TTTTTGAAACACGAAAAA
Found at i:61704815 original size:18 final size:18
Alignment explanation
Indices: 61704775--61704817 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
61704765 CGCGAAAAGT
*
61704775 GAAATTTTTGAAATACGA
1 GAAATTTTTGAAACACGA
61704793 GAAATTTTTGAAAACACGA
1 GAAATTTTTG-AAACACGA
61704812 -AAATTT
1 GAAATTT
61704818 GAAACACAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.33
Consensus pattern (18 bp):
GAAATTTTTGAAACACGA
Found at i:61704878 original size:79 final size:78
Alignment explanation
Indices: 61704795--61704970 Score: 237
Period size: 79 Copynumber: 2.2 Consensus size: 78
61704785 AAATACGAGA
**
61704795 AATTTTTGAAAACACGAAA-ATTTGAAACACAAGGTTTTTTTTTGAAAACACGAAAACACGAAAA
1 AATTTTTGAAAACACGAAATATTTGAAACACAA-G-AATTTTTTGAAAACACGAAAACACGAAAA
* *
61704859 TTTGTCAAACACGGG
64 TTTGTAAAACACAGG
* * * *
61704874 AATTTTTGAAAACACGAAATTTTTTTAAACACGAGAATTTTTTGAAAACACGAAAACACGAAATT
1 AATTTTTGAAAACACGAAA-TATTTGAAACACAAGAATTTTTTGAAAACACGAAAACACGAAAAT
*
61704939 TTTTAAAACACAGG
65 TTGTAAAACACAGG
61704953 AATTTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
61704971 TTTTTTTTAT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 75 0.87
80 1 0.01
81 10 0.12
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.28
Consensus pattern (78 bp):
AATTTTTGAAAACACGAAATATTTGAAACACAAGAATTTTTTGAAAACACGAAAACACGAAAATT
TGTAAAACACAGG
Found at i:61704880 original size:44 final size:42
Alignment explanation
Indices: 61704802--61704970 Score: 138
Period size: 43 Copynumber: 4.1 Consensus size: 42
61704792 AGAAATTTTT
***
61704802 GAAAACACGAAAATTTG-AAACACAAGGTTTTTTTTTGAAAACAC
1 GAAAACACGAAAATTTGTAAACAC--GG-GAATTTTTGAAAACAC
61704846 GAAAACACGAAAATTTGTCAAACACGGGAATTTTTGAAAACAC
1 GAAAACACGAAAATTTGT-AAACACGGGAATTTTTGAAAACAC
** * *
61704889 G-----A--AATTTTTTTAAACACGAGAATTTTTTGAAAACAC
1 GAAAACACGAAAATTTGTAAACACGGGAA-TTTTTGAAAACAC
* * *
61704925 GAAAACACGAAATTTTTTAAAACACAGGAATTTTTGAAAACAC
1 GAAAACACGAAAATTTGT-AAACACGGGAATTTTTGAAAACAC
61704968 GAA
1 GAA
61704971 TTTTTTTTAT
Statistics
Matches: 104, Mismatches: 10, Indels: 23
0.76 0.07 0.17
Matches are distributed among these distances:
35 10 0.10
36 20 0.19
38 1 0.01
41 1 0.01
43 38 0.37
44 28 0.27
46 6 0.06
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.27
Consensus pattern (42 bp):
GAAAACACGAAAATTTGTAAACACGGGAATTTTTGAAAACAC
Found at i:61704892 original size:35 final size:36
Alignment explanation
Indices: 61704846--61704929 Score: 125
Period size: 35 Copynumber: 2.4 Consensus size: 36
61704836 TTGAAAACAC
*
61704846 GAAAACACGAAAATTTGTCAAACACGGGAA-TTTTT
1 GAAAACACGAAAATTTGTCAAACACGAGAATTTTTT
* * *
61704881 GAAAACACGAAATTTTTTTAAACACGAGAATTTTTT
1 GAAAACACGAAAATTTGTCAAACACGAGAATTTTTT
61704917 GAAAACACGAAAA
1 GAAAACACGAAAA
61704930 CACGAAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 26 0.60
36 17 0.40
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.26
Consensus pattern (36 bp):
GAAAACACGAAAATTTGTCAAACACGAGAATTTTTT
Found at i:61704898 original size:19 final size:18
Alignment explanation
Indices: 61704846--61704928 Score: 82
Period size: 18 Copynumber: 4.7 Consensus size: 18
61704836 TTGAAAACAC
* *
61704846 GAAAACACGAAAATTTGT
1 GAAAACACGAAATTTTTT
* *
61704864 -CAAACACGGGAA-TTTTT
1 GAAAACAC-GAAATTTTTT
61704881 GAAAACACGAAATTTTTT
1 GAAAACACGAAATTTTTT
*
61704899 -TAAACACGAGAATTTTTT
1 GAAAACACGA-AATTTTTT
61704917 GAAAACACGAAA
1 GAAAACACGAAA
61704929 ACACGAAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
17 21 0.40
18 24 0.45
19 8 0.15
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.27
Consensus pattern (18 bp):
GAAAACACGAAATTTTTT
Found at i:61704946 original size:25 final size:27
Alignment explanation
Indices: 61704900--61704949 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
61704890 AAATTTTTTT
61704900 AAACACGAGAATTTTTTGAAAACACGA
1 AAACACGAGAATTTTTTGAAAACACGA
61704927 AAACACGA-AATTTTTT-AAAACAC
1 AAACACGAGAATTTTTTGAAAACAC
61704950 AGGAATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 7 0.30
26 8 0.35
27 8 0.35
ACGTcount: A:0.50, C:0.16, G:0.10, T:0.24
Consensus pattern (27 bp):
AAACACGAGAATTTTTTGAAAACACGA
Found at i:61704948 original size:17 final size:17
Alignment explanation
Indices: 61704847--61705016 Score: 99
Period size: 17 Copynumber: 10.2 Consensus size: 17
61704837 TGAAAACACG
* *
61704847 AAAACACGAAAATTTGT
1 AAAACACGAAATTTTTT
* * *
61704864 CAAACACGGGAATTTTTG
1 AAAACAC-GAAATTTTTT
61704882 AAAACACGAAATTTTTT
1 AAAACACGAAATTTTTT
*
61704899 TAAACACGAGAATTTTTT
1 AAAACACGA-AATTTTTT
61704917 GAAAACACG---------
1 -AAAACACGAAATTTTTT
61704926 AAAACACGAAATTTTTT
1 AAAACACGAAATTTTTT
* *
61704943 AAAACACAGGAATTTTTG
1 AAAACAC-GAAATTTTTT
*
61704961 AAAACACGAATTTTTTT
1 AAAACACGAAATTTTTT
* **
61704978 TATTCACGAGAA-TTTTT
1 AAAACACGA-AATTTTTT
*
61704995 GAAACACGAAATTTTTTT
1 AAAACACGAAA-TTTTTT
61705013 AAAA
1 AAAA
61705017 GAAAGAGACA
Statistics
Matches: 114, Mismatches: 23, Indels: 31
0.68 0.14 0.18
Matches are distributed among these distances:
8 8 0.07
16 2 0.02
17 53 0.46
18 44 0.39
19 7 0.06
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (17 bp):
AAAACACGAAATTTTTT
Found at i:61704959 original size:43 final size:44
Alignment explanation
Indices: 61704881--61704970 Score: 148
Period size: 44 Copynumber: 2.1 Consensus size: 44
61704871 GGGAATTTTT
*
61704881 GAAAACACGAAATTTTTTTAAACACGAGAATTTTTTGAAAACAC
1 GAAAACACGAAATTTTTTAAAACACGAGAATTTTTTGAAAACAC
61704925 GAAAACACGAAATTTTTTAAAACAC-AGGAA-TTTTTGAAAACAC
1 GAAAACACGAAATTTTTTAAAACACGA-GAATTTTTTGAAAACAC
61704968 GAA
1 GAA
61704971 TTTTTTTTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
43 17 0.39
44 27 0.61
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (44 bp):
GAAAACACGAAATTTTTTAAAACACGAGAATTTTTTGAAAACAC
Found at i:61704976 original size:35 final size:35
Alignment explanation
Indices: 61704925--61705016 Score: 116
Period size: 35 Copynumber: 2.6 Consensus size: 35
61704915 TTGAAAACAC
*
61704925 GAAAACACGAAATTTTTTAAAACAC-AGGAATTTTT
1 GAAAACACGAATTTTTTTAAAACACGA-GAATTTTT
* **
61704960 GAAAACACGAATTTTTTTTATTCACGAGAATTTTT
1 GAAAACACGAATTTTTTTAAAACACGAGAATTTTT
61704995 G-AAACACGAAATTTTTTTAAAA
1 GAAAACACG-AATTTTTTTAAAA
61705017 GAAAGAGACA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
34 7 0.15
35 40 0.83
36 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (35 bp):
GAAAACACGAATTTTTTTAAAACACGAGAATTTTT
Found at i:61704976 original size:79 final size:79
Alignment explanation
Indices: 61704832--61705005 Score: 271
Period size: 79 Copynumber: 2.2 Consensus size: 79
61704822 CACAAGGTTT
* *
61704832 TTTTTTGAAAACACGAAAACACGAAAATTTGTCAAACACGGGAATTTTTGAAAACACGAAATTTT
1 TTTTTTGAAAACACGAAAACACGAAAATTTGTAAAACACAGGAATTTTTGAAAACACGAAATTTT
61704897 TTTAAACACGAGAA
66 TTTAAACACGAGAA
* * *
61704911 TTTTTTGAAAACACGAAAACACGAAATTTTTTAAAACACAGGAATTTTTGAAAACACGAATTTTT
1 TTTTTTGAAAACACGAAAACACGAAAATTTGTAAAACACAGGAATTTTTGAAAACACGAAATTTT
**
61704976 TTTATTCACGAGAA
66 TTTAAACACGAGAA
61704990 -TTTTTG-AAACACGAAA
1 TTTTTTGAAAACACGAAA
61705006 TTTTTTTAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
77 10 0.11
78 6 0.07
79 72 0.82
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (79 bp):
TTTTTTGAAAACACGAAAACACGAAAATTTGTAAAACACAGGAATTTTTGAAAACACGAAATTTT
TTTAAACACGAGAA
Found at i:61705113 original size:17 final size:17
Alignment explanation
Indices: 61705067--61705115 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
61705057 TATTATTATT
*
61705067 ATTTTGAAACACGAGAA
1 ATTTTGAAACATGAGAA
61705084 ATTTTGAAGACATGA-AA
1 ATTTTGAA-ACATGAGAA
61705101 ATTTTTGAAACATGA
1 A-TTTTGAAACATGA
61705116 TTTTTCTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 17 0.59
18 12 0.41
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (17 bp):
ATTTTGAAACATGAGAA
Found at i:61705916 original size:6 final size:6
Alignment explanation
Indices: 61705905--61705994 Score: 92
Period size: 6 Copynumber: 14.3 Consensus size: 6
61705895 CTGACTATAA
61705905 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT- TCTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC T-TTTTC
** * *
61705953 TTCTCAC TTTTTC TTCTTTT TTCTTTC TTCTTTC TTCTTC TT
1 TT-TTTC TTTTTC TT-TTTC TT-TTTC TT-TTTC TTTTTC TT
61705995 CGGGCCGCAC
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
5 1 0.01
6 49 0.67
7 23 0.32
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:61705969 original size:21 final size:20
Alignment explanation
Indices: 61705941--61705991 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
61705931 TTTCTTTTTC
61705941 TTTT-TTCTTTTCTTCTCACT
1 TTTTCTTCTTTT-TTCTCACT
**
61705961 TTTTCTTCTTTTTTCTTTCT
1 TTTTCTTCTTTTTTCTCACT
61705981 TCTTTCTTCTT
1 T-TTTCTTCTT
61705992 CTTCGGGCCG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTCTTCTTTTTTCTCACT
Found at i:61706153 original size:19 final size:17
Alignment explanation
Indices: 61706129--61706167 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
61706119 TTTTCTCATT
61706129 TTTTGCTACTGCGTTTTTG
1 TTTTGCTACT-C-TTTTTG
*
61706148 TTTTGCTTCTCTTTTTG
1 TTTTGCTACTCTTTTTG
61706165 TTT
1 TTT
61706168 CGATTTCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 1 0.05
19 9 0.47
ACGTcount: A:0.03, C:0.15, G:0.15, T:0.67
Consensus pattern (17 bp):
TTTTGCTACTCTTTTTG
Found at i:61706603 original size:30 final size:28
Alignment explanation
Indices: 61706554--61706652 Score: 83
Period size: 30 Copynumber: 3.4 Consensus size: 28
61706544 AAATTGTAAT
* * *
61706554 TTTTTGAAATTTTAGGGGTTAAAGTGAAA
1 TTTTAGAAAGTTTAAGGGTTAAA-TGAAA
*
61706583 TTTTGAGAAAGTTTAAGGGTTGAAATGTAA
1 TTTT-AGAAAGTTTAAGGGTT-AAATGAAA
*
61706613 TTTTAGAAAAGTTT-AGGGTCAAAATGTAAA
1 TTTTAG-AAAGTTTAAGGGT-TAAATG-AAA
*
61706643 TTTTAAAAAG
1 TTTTAGAAAG
61706653 GTTTGGGGTC
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
29 20 0.34
30 35 0.60
31 3 0.05
ACGTcount: A:0.39, C:0.01, G:0.22, T:0.37
Consensus pattern (28 bp):
TTTTAGAAAGTTTAAGGGTTAAATGAAA
Found at i:61706630 original size:29 final size:28
Alignment explanation
Indices: 61706581--61706705 Score: 124
Period size: 30 Copynumber: 4.2 Consensus size: 28
61706571 GTTAAAGTGA
* **
61706581 AATTTTGAGAAAGTTTAAGGGTTGAAATGT
1 AATTTT-AAAAAGTTT-AGGGTCAAAATGT
61706611 AATTTTAGAAAAGTTTAGGGTCAAAATGT
1 AATTTTA-AAAAGTTTAGGGTCAAAATGT
* *
61706640 AAATTTTAAAAAGGTTTGGGGTCAAAATAT
1 -AATTTTAAAAA-GTTTAGGGTCAAAATGT
* *
61706670 AAGTTTTAAAAAGTATAGGGGTCAAAATGC
1 AA-TTTTAAAAAGTTTA-GGGTCAAAATGT
61706700 AATTTT
1 AATTTT
61706706 TTATTTTTTT
Statistics
Matches: 81, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
29 25 0.31
30 56 0.69
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (28 bp):
AATTTTAAAAAGTTTAGGGTCAAAATGT
Found at i:61706644 original size:60 final size:60
Alignment explanation
Indices: 61706566--61706698 Score: 139
Period size: 59 Copynumber: 2.2 Consensus size: 60
61706556 TTTGAAATTT
* * * ** * *
61706566 TAGGGGTTAAAGTG-AAATTTTGAGAAA-GTTTAAGGGTTGAAATGTAA-TTTTAGAAAAGTT
1 TAGGGGTCAAAATGTAAATTTT-AAAAAGGTTT-AGGGTCAAAATATAAGTTTTA-AAAAGTA
*
61706626 TA-GGGTCAAAATGTAAATTTTAAAAAGGTTTGGGGTCAAAATATAAGTTTTAAAAAGTA
1 TAGGGGTCAAAATGTAAATTTTAAAAAGGTTTAGGGTCAAAATATAAGTTTTAAAAAGTA
61706685 TAGGGGTCAAAATG
1 TAGGGGTCAAAATG
61706699 CAATTTTTTA
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
59 32 0.52
60 29 0.48
ACGTcount: A:0.41, C:0.02, G:0.25, T:0.32
Consensus pattern (60 bp):
TAGGGGTCAAAATGTAAATTTTAAAAAGGTTTAGGGTCAAAATATAAGTTTTAAAAAGTA
Done.