Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 153 of 295
Found at i:48059627 original size:30 final size:30
Alignment explanation
Indices: 48059566--48059658 Score: 91
Period size: 30 Copynumber: 3.0 Consensus size: 30
48059556 AATAATTTTG
* *
48059566 ATAATATTTTATAA-CTATTAATAATTA-TTA
1 ATAAT-TTTTATAATTTA-TAATTATTATTTA
48059596 ATAATTTTTATAATTTATAATTATTATTTA
1 ATAATTTTTATAATTTATAATTATTATTTA
* *
48059626 ATAATTTTATAATAATTTAAAAATATATATTTA
1 ATAATTTT-T-ATAATTTATAATTAT-TATTTA
48059659 GAATGAATCT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.30
30 18 0.33
31 1 0.02
32 13 0.24
33 6 0.11
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (30 bp):
ATAATTTTTATAATTTATAATTATTATTTA
Found at i:48062622 original size:12 final size:13
Alignment explanation
Indices: 48062570--48062647 Score: 54
Period size: 14 Copynumber: 5.8 Consensus size: 13
48062560 AATATATAAA
*
48062570 AATATAAATTGTAT
1 AATATAAA-TATAT
48062584 AATATAAAAATATAT
1 AATAT--AAATATAT
48062599 AATATAACATATAT
1 AATATAA-ATATAT
*
48062613 AATA-CAATATAT
1 AATATAAATATAT
48062625 AA-A-AAATATTAT
1 AATATAAATA-TAT
*
48062637 GATATATAATA
1 AATATA-AATA
48062648 AAACATAATA
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
11 5 0.09
12 12 0.23
13 4 0.08
14 16 0.30
15 13 0.25
16 3 0.06
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (13 bp):
AATATAAATATAT
Found at i:48062801 original size:13 final size:13
Alignment explanation
Indices: 48062744--48062843 Score: 57
Period size: 13 Copynumber: 7.8 Consensus size: 13
48062734 TATTCTTCAT
48062744 ATAAAAATATAGTA
1 ATAAAAATATA-TA
* *
48062758 ACATAAATATATAA
1 ATAAAAATATAT-A
**
48062772 CATAAAAA-A-GGA
1 -ATAAAAATATATA
*
48062784 ATAAATATATATA
1 ATAAAAATATATA
*
48062797 ATAAAAATATATG
1 ATAAAAATATATA
*
48062810 ATAAAAA-AGAT-
1 ATAAAAATATATA
*
48062821 TTAAAAA-ATATA
1 ATAAAAATATATA
*
48062833 ATAATAATATA
1 ATAAAAATATA
48062844 ATGGATAATA
Statistics
Matches: 64, Mismatches: 16, Indels: 13
0.69 0.17 0.14
Matches are distributed among these distances:
11 15 0.23
12 10 0.16
13 23 0.36
14 11 0.17
15 5 0.08
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (13 bp):
ATAAAAATATATA
Found at i:48068688 original size:25 final size:25
Alignment explanation
Indices: 48068660--48068863 Score: 193
Period size: 25 Copynumber: 8.3 Consensus size: 25
48068650 ATGAAATCGA
* *
48068660 GAAGCTCTTTTGAGCCATATAACGG
1 GAAGCTCATGTGAGCCATATAACGG
*
48068685 GAAGCTCATGTGAGCCATGTAACGG
1 GAAGCTCATGTGAGCCATATAACGG
*
48068710 GAAGCTCATGTGAGCCATATAACGA
1 GAAGCTCATGTGAGCCATATAACGG
* *
48068735 GAAGCTCATGTGAGGCATATAAAGG
1 GAAGCTCATGTGAGCCATATAACGG
*
48068760 GAAGCTC-TGGAGAGCCAT-TAACGG
1 GAAGCTCAT-GTGAGCCATATAACGG
* * * *
48068784 TAAGTTCAAGTGAGCCA-ATATCGG
1 GAAGCTCATGTGAGCCATATAACGG
* *
48068808 GAAGCTC-TGGAGAGTCAT-TAACGG
1 GAAGCTCAT-GTGAGCCATATAACGG
** * * *
48068832 GAAGCTCATAAGAGTCATTTATCGG
1 GAAGCTCATGTGAGCCATATAACGG
48068857 GAAGCTC
1 GAAGCTC
48068864 CGAAAAGTAA
Statistics
Matches: 148, Mismatches: 24, Indels: 14
0.80 0.13 0.08
Matches are distributed among these distances:
24 54 0.36
25 94 0.64
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.22
Consensus pattern (25 bp):
GAAGCTCATGTGAGCCATATAACGG
Found at i:48071800 original size:16 final size:16
Alignment explanation
Indices: 48071779--48071819 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
48071769 ATCTGGTTGA
*
48071779 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
48071795 GAAAATTAATTAATT-
1 GAAAATTAATTAATTG
48071810 -AAAATTAATT
1 GAAAATTAATT
48071820 TCATAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 10 0.42
16 14 0.58
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:48072934 original size:13 final size:13
Alignment explanation
Indices: 48072916--48072952 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
48072906 TTAGCGGTGG
48072916 TGGTCAATGGCAA
1 TGGTCAATGGCAA
*
48072929 TGGTCAATGGCAG
1 TGGTCAATGGCAA
*
48072942 TGGCCAATGGC
1 TGGTCAATGGC
48072953 GGCCGAGAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (13 bp):
TGGTCAATGGCAA
Found at i:48081559 original size:43 final size:42
Alignment explanation
Indices: 48081430--48081586 Score: 149
Period size: 43 Copynumber: 3.6 Consensus size: 42
48081420 TGTGTTCTCG
* * * *
48081430 TGTAAGACCATGTCTGGGACATTGGTATCGACT-TATGATTTACA
1 TGTAAGACC-CGTCTGGGACGTTGGCATCGA-TATTTGA-TTACA
* * * * *
48081474 TGTAAGACTACATCTAGGACGTTGACATC-ATATTTGGTTACA
1 TGTAAGAC-CCGTCTGGGACGTTGGCATCGATATTTGATTACA
48081516 TGTAAGACCCTGTCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCC-GTCTGGGAC-GTTGGCATCGATATTTGATTACA
48081559 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACC-CGTCTGGGACGTTGGCAT
48081587 TATATGAGCT
Statistics
Matches: 92, Mismatches: 14, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
41 1 0.01
42 28 0.30
43 41 0.45
44 22 0.24
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (42 bp):
TGTAAGACCCGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:48085407 original size:22 final size:22
Alignment explanation
Indices: 48085363--48085407 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
48085353 ACCAAGAGTC
* *
48085363 AAAAAGAGCCAAAACCGAGCAA
1 AAAAAGAGACAAAACCGACCAA
* *
48085385 AAAAAGGGACAAAACGGACCAA
1 AAAAAGAGACAAAACCGACCAA
48085407 A
1 A
48085408 TCGAGAAGAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.20, G:0.20, T:0.00
Consensus pattern (22 bp):
AAAAAGAGACAAAACCGACCAA
Found at i:48089241 original size:21 final size:21
Alignment explanation
Indices: 48089215--48089257 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
48089205 ACATATCTAA
48089215 CACCACAAGTATGTGCACTAT
1 CACCACAAGTATGTGCACTAT
48089236 CACCACAAGTATGTGCACTAT
1 CACCACAAGTATGTGCACTAT
48089257 C
1 C
48089258 CATCGCAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.23
Consensus pattern (21 bp):
CACCACAAGTATGTGCACTAT
Found at i:48093002 original size:48 final size:48
Alignment explanation
Indices: 48092929--48093109 Score: 263
Period size: 48 Copynumber: 3.8 Consensus size: 48
48092919 TCTCATATCG
* * **
48092929 ATGCCATGTCCCAAAAATGGTCTTACACGAAATCACATATCGATGCCA
1 ATGCCATGTCCCAGAAATGGTCTTACATGGGATCACATATCGATGCCA
* * * *
48092977 AAGCCATATCTCAGATATGGTCTTACATGGGATCACATATCGATGCCA
1 ATGCCATGTCCCAGAAATGGTCTTACATGGGATCACATATCGATGCCA
48093025 ATGCCATGTCCCAGAAATGGTCTTACATGGGATCACATATCGATGCCA
1 ATGCCATGTCCCAGAAATGGTCTTACATGGGATCACATATCGATGCCA
* * *
48093073 ATGCCATGTCCCAGACAGGGTCTTAAATGGGATCACA
1 ATGCCATGTCCCAGAAATGGTCTTACATGGGATCACA
48093110 ATGCCATAAC
Statistics
Matches: 118, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 118 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (48 bp):
ATGCCATGTCCCAGAAATGGTCTTACATGGGATCACATATCGATGCCA
Found at i:48093132 original size:37 final size:36
Alignment explanation
Indices: 48093091--48093170 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
48093081 TCCCAGACAG
*
48093091 GGTCTTAAATGGGATCACAATGCCATAACCCAGCTAT
1 GGTCTTAAATGGCATCA-AATGCCATAACCCAGCTAT
* * * * *
48093128 GGTCTTACATGTCATTATATGCCATAGCCCAGCTAT
1 GGTCTTAAATGGCATCAAATGCCATAACCCAGCTAT
48093164 GGTCTTA
1 GGTCTTA
48093171 CACGTACTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 24 0.65
37 13 0.35
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (36 bp):
GGTCTTAAATGGCATCAAATGCCATAACCCAGCTAT
Found at i:48120624 original size:33 final size:33
Alignment explanation
Indices: 48120582--48120648 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
48120572 GTGGCAAAGA
48120582 AAATGGCTATCTACCAAGCCTTTCTCCATCCTT
1 AAATGGCTATCTACCAAGCCTTTCTCCATCCTT
48120615 AAATGGCTATCTACCAAGCCTTTCTCCATCCTT
1 AAATGGCTATCTACCAAGCCTTTCTCCATCCTT
48120648 A
1 A
48120649 TTTATACATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.25, C:0.33, G:0.09, T:0.33
Consensus pattern (33 bp):
AAATGGCTATCTACCAAGCCTTTCTCCATCCTT
Found at i:48125933 original size:27 final size:27
Alignment explanation
Indices: 48125901--48126195 Score: 168
Period size: 27 Copynumber: 10.9 Consensus size: 27
48125891 TTAGTTTACC
* *
48125901 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAATTACCCTCGATTTATA
* **
48125928 GAATTACC-GTTCTACCCTCGATTTATA
1 AAATTACCAAAT-TACCCTCGATTTATA
* **
48125955 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCAAATTACCCTCGATTTATA
* *** * *
48125982 AAATTATCGTTTTACCCTTGATTTACA
1 AAATTACCAAATTACCCTCGATTTATA
* * * *
48126009 AAATTACTAAAATACCC-CTGGTTTGTA
1 AAATTACCAAATTACCCTC-GATTTATA
* * * *
48126036 AAATTACTAAAATACCCCTTGATTTGTA
1 AAATTACCAAATTA-CCCTCGATTTATA
*
48126064 AAATTACTGAAA-TACCCTCGACTTGTA-A
1 AAATTAC-CAAATTACCCTCGA-TT-TATA
*
48126092 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAATTACCCTCGATTTATA
* * ** *
48126119 GAATTACTATTTTACCCTCGATTTACA
1 AAATTACCAAATTACCCTCGATTTATA
* * ** *
48126146 GAATTACTATTTTACCC-CTGATTTACA
1 AAATTACCAAATTACCCTC-GATTTATA
**
48126173 AAATTACCATTTTACCCTCGATT
1 AAATTACCAAATTACCCTCGATT
48126196 GTGAAATTAC
Statistics
Matches: 221, Mismatches: 35, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
26 3 0.01
27 173 0.78
28 41 0.19
29 4 0.02
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (27 bp):
AAATTACCAAATTACCCTCGATTTATA
Found at i:48125987 original size:54 final size:54
Alignment explanation
Indices: 48125913--48126195 Score: 187
Period size: 54 Copynumber: 5.2 Consensus size: 54
48125903 ATTACCAAAG
* * * * *
48125913 TACCCCCGATTTATAGAATTACCGTTCTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAAAATTACCATTT
* * * * * ***
48125967 TACCCTCGATTTATAAAATTATCGTTTTACCCTTGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAAAATTACCATTT
* * * *** * * * **
48126021 TACCC-CTGGTTTGTAAAATTACTAAAATACCCCTTGATTTGTAAAATTACTGA-AA
1 TACCCTC-GATTTATAAAATTACCATTTTA-CCCTCGATTTATAAAATTAC-CATTT
*** * *
48126076 TACCCTCGACTTGTA-AAAATTACCAAAGTACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGA-TT-TATAAAATTACCATTTTACCCTCGATTTATAAAATTACCATTT
* * * *
48126131 TACCCTCGATTTACAGAATTACTATTTTACCC-CTGATTTACAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTC-GATTTATAAAATTACCATTT
48126185 TACCCTCGATT
1 TACCCTCGATT
48126196 GTGAAATTAC
Statistics
Matches: 180, Mismatches: 40, Indels: 18
0.76 0.17 0.08
Matches are distributed among these distances:
53 4 0.02
54 106 0.59
55 52 0.29
56 17 0.09
57 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAAAATTACCATTT
Found at i:48126165 original size:137 final size:135
Alignment explanation
Indices: 48125967--48126215 Score: 320
Period size: 137 Copynumber: 1.8 Consensus size: 135
48125957 ATTACCATTT
* * *
48125967 TACCCTCGATTTATAAAATTATCGTTTTACCCTTGATTTACAAAATTACTAAAATACCCCTGGTT
1 TACCCTCGATTTATAAAATTATCATTTTACCCTCGATTTACAAAATTACTAAAATACCCCTGATT
** * *
48126032 TGTAAAATTACTAAAATACCCCTTGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAAATT
66 TACAAAATTACCAAAATA-CCCTCGA-TTGTAAAATTACTGAAATACCCTCGACTTGTAAAAATT
48126097 ACCAAAG
129 ACCAAAG
* * ***
48126104 TACCCTCGATTTATAGAATTA-CTATTTTACCCTCGATTTACAGAATTACTATTTTACCCCTGAT
1 TACCCTCGATTTATAAAATTATC-ATTTTACCCTCGATTTACAAAATTACTAAAATACCCCTGAT
*** *
48126168 TTACAAAATTACCATTTTACCCTCGATTGTGAAATTACTGAAATACCC
65 TTACAAAATTACCAAAATACCCTCGATTGTAAAATTACTGAAATACCC
48126216 CTATAGGGTA
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
135 21 0.22
136 7 0.07
137 67 0.71
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (135 bp):
TACCCTCGATTTATAAAATTATCATTTTACCCTCGATTTACAAAATTACTAAAATACCCCTGATT
TACAAAATTACCAAAATACCCTCGATTGTAAAATTACTGAAATACCCTCGACTTGTAAAAATTAC
CAAAG
Found at i:48126217 original size:27 final size:27
Alignment explanation
Indices: 48126187--48126324 Score: 95
Period size: 27 Copynumber: 5.1 Consensus size: 27
48126177 TACCATTTTA
**
48126187 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCTCGATTGTGAAATTACCAAAATAC
* * *
48126214 CCCT--ATAGGGTAGAATTACCAAAACAC
1 CCCTCGATTGTG-A-AATTACCAAAATAC
* * *
48126241 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCTCGATTGTGAAATTACCAAAATAC
* * * *
48126268 CACTGGTTTGTGAAATTA-CGAAATA-
1 CCCTCGATTGTGAAATTACCAAAATAC
* *
48126293 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCTCGA-TTGTGAAATTACCAAAATAC
48126321 CCCT
1 CCCT
48126325 AATTTACAAA
Statistics
Matches: 84, Mismatches: 20, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
25 7 0.08
26 17 0.20
27 53 0.63
28 5 0.06
29 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.28
Consensus pattern (27 bp):
CCCTCGATTGTGAAATTACCAAAATAC
Found at i:48126328 original size:27 final size:27
Alignment explanation
Indices: 48126227--48126376 Score: 126
Period size: 27 Copynumber: 5.6 Consensus size: 27
48126217 TATAGGGTAG
* *
48126227 AATTACCAAAACACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* ** *
48126254 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
*
48126281 AATTA-CGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
**
48126307 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
** * *
48126334 AATTA-CAGAAATACCTTTGATTTGTAG
1 AATTACCA-AAATACCCCTAATTTGTAA
* *
48126361 ATTTACCAAAAAACCC
1 AATTACCAAAATACCC
48126377 TTGTTGGATG
Statistics
Matches: 97, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
25 3 0.03
26 19 0.20
27 69 0.71
28 6 0.06
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:48126337 original size:53 final size:54
Alignment explanation
Indices: 48126247--48126376 Score: 145
Period size: 53 Copynumber: 2.4 Consensus size: 54
48126237 ACACCCCTAG
* ** ***
48126247 TTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTAC-GAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAATACCCTCAA
* **
48126300 TTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAATACCTTTGA
1 TTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAATACCCTCAA
* * *
48126354 TTTGTAGATTTACCAAAAAACCC
1 TTTGTAAAATTACCAAAATACCC
48126377 TTGTTGGATG
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
53 34 0.53
54 30 0.47
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAATACCCTCAA
Found at i:48126358 original size:80 final size:81
Alignment explanation
Indices: 48126159--48126358 Score: 203
Period size: 80 Copynumber: 2.5 Consensus size: 81
48126149 TTACTATTTT
* *** *
48126159 ACCCCTGATTTACAAAATTACCATTTTACC-CTCGA-TTGTGAAATTACTGAAATACCCCTATAG
1 ACCCCTAATTTACAAAATTACCAAAATACCACT-GATTTGTGAAATTACTGAAATACCCCAATAG
*
48126222 GGTAGAATTACCAAAAC
65 GGTAAAATTACCAAAAC
* ** * *
48126239 ACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTAC-GAAATACCCTCAAT-T
1 ACCCCTAATTTACAAAATTACCAAAATACCACTGATTTGTGAAATTACTGAAATACCC-CAATAG
* *
48126302 TGTAAAATTACCAAAAT
65 GGTAAAATTACCAAAAC
**
48126319 ACCCCTAATTTACAAAATTA-CAGAAATACCTTTGATTTGT
1 ACCCCTAATTTACAAAATTACCA-AAATACCACTGATTTGT
48126359 AGATTTACCA
Statistics
Matches: 97, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
79 2 0.02
80 78 0.80
81 17 0.18
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.30
Consensus pattern (81 bp):
ACCCCTAATTTACAAAATTACCAAAATACCACTGATTTGTGAAATTACTGAAATACCCCAATAGG
GTAAAATTACCAAAAC
Found at i:48127206 original size:20 final size:20
Alignment explanation
Indices: 48127181--48127267 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
48127171 GATATGATAT
*
48127181 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
48127201 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
48127221 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
48127241 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
48127261 ACATGAT
1 ACATGAT
48127268 GTATTCATAA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:48127395 original size:52 final size:49
Alignment explanation
Indices: 48127317--48127452 Score: 195
Period size: 52 Copynumber: 2.7 Consensus size: 49
48127307 GAGGAAGTGC
48127317 AAAAGGGCTTATGCCCAAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTT-TGCCC-AGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
48127369 AAAAGGGCTTGTGCCTCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTT-TGCC-CAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
48127420 AAAAGGGCTTTGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTTG-CCCAGTTTATTGAAAAG-GGCT
48127453 AGGCCTCCAG
Statistics
Matches: 80, Mismatches: 1, Indels: 9
0.89 0.01 0.10
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 5 0.06
51 27 0.34
52 33 0.41
53 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (49 bp):
AAAAGGGCTTTGCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:48127414 original size:25 final size:26
Alignment explanation
Indices: 48127317--48127452 Score: 172
Period size: 26 Copynumber: 5.3 Consensus size: 26
48127307 GAGGAAGTGC
*
48127317 AAAAGGGCTTATGCCCAAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
48127343 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
48127369 AAAAGGGCTTGTGCCTCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
48127395 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
48127420 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
48127443 AAAAGAGGCT
1 AAAAG-GGCT
48127453 AGGCCTCCAG
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 30 0.31
26 55 0.57
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:48127650 original size:42 final size:42
Alignment explanation
Indices: 48127585--48127676 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
48127575 TAGTCTCCCC
* ** *
48127585 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
* *
48127627 AAATGGGCTTGCATATATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
48127669 AAATGGGC
1 AAATGGGC
48127677 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:48127738 original size:31 final size:31
Alignment explanation
Indices: 48127700--48127814 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
48127690 AGTTTACAGT
* *
48127700 AAAGGCTTCGACCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
48127731 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
48127762 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
48127793 AGAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
48127815 TCAAGACTAA
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 5 0.06
31 74 0.94
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:48130483 original size:29 final size:29
Alignment explanation
Indices: 48130451--48130559 Score: 182
Period size: 29 Copynumber: 3.8 Consensus size: 29
48130441 TTCACATACT
*
48130451 TGTATCTGGCCCATTAGGCCCAAATCACC
1 TGTATATGGCCCATTAGGCCCAAATCACC
48130480 TGTATATGGCCCATTAGGCCCAAATCACC
1 TGTATATGGCCCATTAGGCCCAAATCACC
*
48130509 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACC
* *
48130538 TTTATATGGCCCGTTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
48130560 GTCACATTCA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 76 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACC
Found at i:48132792 original size:27 final size:27
Alignment explanation
Indices: 48132762--48132817 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
48132752 CTCTGAGAAA
**
48132762 ACTCACTCCCTTTGTGGAGCTATCAGT
1 ACTCACTCCCTCCGTGGAGCTATCAGT
*
48132789 ACTCGCTCCCTCCGTGGAGCTATCAGT
1 ACTCACTCCCTCCGTGGAGCTATCAGT
48132816 AC
1 AC
48132818 CCTGAAGCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.18, C:0.34, G:0.20, T:0.29
Consensus pattern (27 bp):
ACTCACTCCCTCCGTGGAGCTATCAGT
Found at i:48135090 original size:29 final size:29
Alignment explanation
Indices: 48135054--48135125 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
48135044 AAATTCATTG
* *
48135054 GCCCATTAGGCCCAAATCACCTGTATATG
1 GCCCATTAGGCCCAAATCACATGTATATC
* *
48135083 GTCCATTAGGCCCAAATCACATTTATATC
1 GCCCATTAGGCCCAAATCACATGTATATC
*
48135112 GCCCGTTAGGCCCA
1 GCCCATTAGGCCCA
48135126 GTCACATTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (29 bp):
GCCCATTAGGCCCAAATCACATGTATATC
Found at i:48135242 original size:19 final size:19
Alignment explanation
Indices: 48135215--48135259 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
48135205 CAGCCTATCG
* *
48135215 GGCCAATTTAGCCCATTCT
1 GGCCCATTTAGCCCATTCC
48135234 GGCCCATTTAGCCCATTCC
1 GGCCCATTTAGCCCATTCC
48135253 GGCCCAT
1 GGCCCAT
48135260 ATGGCCAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.18, C:0.38, G:0.18, T:0.27
Consensus pattern (19 bp):
GGCCCATTTAGCCCATTCC
Found at i:48135380 original size:16 final size:16
Alignment explanation
Indices: 48135359--48135397 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
48135349 CCAAACTTTT
* *
48135359 GGCTTTTCGGCATTTC
1 GGCTTTTCAGAATTTC
48135375 GGCTTTTCAGAATTTC
1 GGCTTTTCAGAATTTC
*
48135391 AGCTTTT
1 GGCTTTT
48135398 GCCGATACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.46
Consensus pattern (16 bp):
GGCTTTTCAGAATTTC
Found at i:48137605 original size:30 final size:30
Alignment explanation
Indices: 48137569--48137630 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
48137559 AGTAAGCTAT
48137569 TAAGCTTAGTAAGCTCGTATGGCTAATAAG
1 TAAGCTTAGTAAGCTCGTATGGCTAATAAG
48137599 TAAGCTTAGTAAGCTCGTATGGCTAATAAG
1 TAAGCTTAGTAAGCTCGTATGGCTAATAAG
48137629 TA
1 TA
48137631 CATCTTACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.31
Consensus pattern (30 bp):
TAAGCTTAGTAAGCTCGTATGGCTAATAAG
Found at i:48140960 original size:48 final size:48
Alignment explanation
Indices: 48140881--48140987 Score: 124
Period size: 48 Copynumber: 2.2 Consensus size: 48
48140871 TGTGATCTCG
* * * *
48140881 TGTAAGACCATGTTTATGACATGACATTGGCATTGACCTACGATCCTA
1 TGTAAGACCATGTTTAGGACATGACACTGGCATCGACATACGATCCTA
* ** * **
48140929 TGTAAGACCATGTTTGGGACATGGTACTGGCATCGATATGTGATCCTA
1 TGTAAGACCATGTTTAGGACATGACACTGGCATCGACATACGATCCTA
48140977 TGTAAGACCAT
1 TGTAAGACCAT
48140988 ATCTGGGATA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (48 bp):
TGTAAGACCATGTTTAGGACATGACACTGGCATCGACATACGATCCTA
Found at i:48142907 original size:45 final size:45
Alignment explanation
Indices: 48142826--48142998 Score: 251
Period size: 45 Copynumber: 3.9 Consensus size: 45
48142816 CCGAATTGAT
* * *
48142826 TCACCAGCATT-TCGCCTGCTAGGCTC-GAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
* *
48142869 TCACCGGTATTATAGCTTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
*
48142914 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
** *
48142959 TCACATGCATTATAGCCTGCTAGGCTCAAAGGGCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
48142999 GTACTGTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 9 0.08
44 13 0.11
45 94 0.81
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
Found at i:48145175 original size:40 final size:40
Alignment explanation
Indices: 48145120--48145337 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
48145110 CGTATGATAA
* * *
48145120 CCGGGCTAAGTCCCGAGGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
48145160 CCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
48145200 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
48145240 CTGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48145280 CCGGGCTAAGTCCCAAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
48145320 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48145338 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 16 0.10
40 144 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48147622 original size:452 final size:452
Alignment explanation
Indices: 48146774--48147687 Score: 1812
Period size: 452 Copynumber: 2.0 Consensus size: 452
48146764 CTTACCTCGA
48146774 ATAT-ATTTGAACAGTCTCGGATCGGCTACTCAACTACTTTCTCTTTTCCTCTGTCCAACCTTGG
1 ATATAATTTGAACAGTCTCGGATCGGCTACTCAACTACTTTCTCTTTTCCTCTGTCCAACCTTGG
48146838 TTCTCTATGCTCTTGAGCTAATTTAAACAAAAATTTAATTTATAAGGTCCCATCATGCTAGCTTA
66 TTCTCTATGCTCTTGAGCTAATTTAAACAAAAATTTAATTTATAAGGTCCCATCATGCTAGCTTA
*
48146903 TGACCGAATATGACAAGAAACTTAATAAATCATATAGCTACTTTTAGCTCAAATATAAAATGGTC
131 TGACCGAATATGACAAGAAACTTAATAAATCATATAGCTACTCTTAGCTCAAATATAAAATGGTC
48146968 ATACACATTTTTAATCACATTAAGCCATTTTATACAATTTATTTAACATTTCCTCATGTACATCT
196 ATACACATTTTTAATCACATTAAGCCATTTTATACAATTTATTTAACATTTCCTCATGTACATCT
48147033 TTATGATCGAATACATATATTAAATAAGTAACTTACCTTAACACATAATTCACATAGCCTAAGTA
261 TTATGATCGAATACATATATTAAATAAGTAACTTACCTTAACACATAATTCACATAGCCTAAGTA
48147098 CAATATAACCTTAATGACCAAATATGAACATTACCAAAATTCCTATGACTTAACCTATAACCTTC
326 CAATATAACCTTAATGACCAAATATGAACATTACCAAAATTCCTATGACTTAACCTATAACCTTC
48147163 ATAGCCGAATATTCATTTCATATTTAGCTCACATACACAAACATAAAACTTATAAGGCTGTT
391 ATAGCCGAATATTCATTTCATATTTAGCTCACATACACAAACATAAAACTTATAAGGCTGTT
48147225 ATATAATTTGAACAGTCTCGGATCGGCTACTCAACTACTTTCTCTTTTCCTCTGTCCAACCTTGG
1 ATATAATTTGAACAGTCTCGGATCGGCTACTCAACTACTTTCTCTTTTCCTCTGTCCAACCTTGG
48147290 TTCTCTATGCTCTTGAGCTAATTTAAACAAAAATTTAATTTATAAGGTCCCATCATGCTAGCTTA
66 TTCTCTATGCTCTTGAGCTAATTTAAACAAAAATTTAATTTATAAGGTCCCATCATGCTAGCTTA
48147355 TGACCGAATATGACAAGAAACTTAATAAATCATATAGCTACTCTTAGCTCAAATATAAAATGGTC
131 TGACCGAATATGACAAGAAACTTAATAAATCATATAGCTACTCTTAGCTCAAATATAAAATGGTC
48147420 ATACACATTTTTAATCACATTAAGCCATTTTATACAATTTATTTAACATTTCCTCATGTACATCT
196 ATACACATTTTTAATCACATTAAGCCATTTTATACAATTTATTTAACATTTCCTCATGTACATCT
48147485 TTATGATCGAATACATATATTAAATAAGTAACTTACCTTAACACATAATTCACATAGCCTAAGTA
261 TTATGATCGAATACATATATTAAATAAGTAACTTACCTTAACACATAATTCACATAGCCTAAGTA
48147550 CAATATAACCTTAATGACCAAATATGAACATTACCAAAATTCCTATGACTTAACCTATAACCTTC
326 CAATATAACCTTAATGACCAAATATGAACATTACCAAAATTCCTATGACTTAACCTATAACCTTC
48147615 ATAGCCGAATATTCATTTCATATTTAGCTCACATACACAAACATAAAACTTATAAGGCTGTT
391 ATAGCCGAATATTCATTTCATATTTAGCTCACATACACAAACATAAAACTTATAAGGCTGTT
48147677 ATATAATTTGA
1 ATATAATTTGA
48147688 TAAACAATCA
Statistics
Matches: 461, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
451 4 0.01
452 457 0.99
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (452 bp):
ATATAATTTGAACAGTCTCGGATCGGCTACTCAACTACTTTCTCTTTTCCTCTGTCCAACCTTGG
TTCTCTATGCTCTTGAGCTAATTTAAACAAAAATTTAATTTATAAGGTCCCATCATGCTAGCTTA
TGACCGAATATGACAAGAAACTTAATAAATCATATAGCTACTCTTAGCTCAAATATAAAATGGTC
ATACACATTTTTAATCACATTAAGCCATTTTATACAATTTATTTAACATTTCCTCATGTACATCT
TTATGATCGAATACATATATTAAATAAGTAACTTACCTTAACACATAATTCACATAGCCTAAGTA
CAATATAACCTTAATGACCAAATATGAACATTACCAAAATTCCTATGACTTAACCTATAACCTTC
ATAGCCGAATATTCATTTCATATTTAGCTCACATACACAAACATAAAACTTATAAGGCTGTT
Found at i:48149724 original size:20 final size:20
Alignment explanation
Indices: 48149658--48149724 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
48149648 ATTTTAGTAA
*
48149658 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
48149678 ACATGAAATGTATGCTATGC
1 ACATGATATGTATGATATGC
48149698 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
48149718 ACATGAT
1 ACATGAT
48149725 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:48149836 original size:23 final size:24
Alignment explanation
Indices: 48149773--48149855 Score: 132
Period size: 25 Copynumber: 3.4 Consensus size: 24
48149763 GGAGGAAGTG
48149773 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
48149797 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
48149822 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
48149845 TAAAAGAGGCT
1 TAAAAG-GGCT
48149856 AGGCCTTTAG
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
23 18 0.33
24 14 0.25
25 23 0.42
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:48150098 original size:31 final size:31
Alignment explanation
Indices: 48150063--48150125 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
48150053 CATTTACAGT
48150063 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
48150094 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
48150125 A
1 A
48150126 GTGTGAAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:48159498 original size:73 final size:73
Alignment explanation
Indices: 48159412--48159616 Score: 261
Period size: 73 Copynumber: 2.7 Consensus size: 73
48159402 GGACTAAGAT
*
48159412 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
48159477 TTCCGGGC
66 TTCCGGGC
*
48159485 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACT-A
* *
48159550 ATTCGGGTTAAGTT
65 ATTCCGG----G-C
* *
48159564 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCCGAAGGCATTTG
48159617 AACGAGGAGC
Statistics
Matches: 117, Mismatches: 6, Indels: 11
0.87 0.04 0.08
Matches are distributed among these distances:
73 61 0.52
74 7 0.06
78 4 0.03
79 31 0.26
80 14 0.12
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (73 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
TTCCGGGC
Found at i:48159568 original size:40 final size:39
Alignment explanation
Indices: 48159412--48159616 Score: 246
Period size: 39 Copynumber: 5.3 Consensus size: 39
48159402 GGACTAAGAT
*
48159412 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAAATTCGGGCTAAGC
*
48159451 CCGAAGGCATTTGTGCGAGATACT-AATTCCGG----GC
1 CCGAAGGCATTTGTGCGAGATACTAAATTCGGGCTAAGC
48159485 CCGAAGGCATTTGTGCGAGATACT-AATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAAATT-CGGGCTAAGC
* * *
48159524 CCGAAGGCATTTGTGCGAGTTACTAAATTCGGGTTAAGTT
1 CCGAAGGCATTTGTGCGAGATACTAAATTCGGGCTAAG-C
* *
48159564 CCGAAGGCATTTGTGCGA-ATTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTA-AATTCGGGCTAAG-C
48159604 CCGAAGGCATTTG
1 CCGAAGGCATTTG
48159617 AACGAGGAGC
Statistics
Matches: 146, Mismatches: 11, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
34 30 0.21
35 3 0.02
38 6 0.04
39 57 0.39
40 48 0.33
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAAATTCGGGCTAAGC
Found at i:48159638 original size:79 final size:79
Alignment explanation
Indices: 48159411--48159649 Score: 230
Period size: 73 Copynumber: 3.1 Consensus size: 79
48159401 CGGACTAAGA
** **
48159411 TCCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGCGAGAT-ACT
1 TCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAG-TGACT
*
48159475 -AATTCCGG-----G
65 AAATTCCGGTTAAAT
* * ** *
48159484 CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTA
* *
48159549 AATTCGGGTTAAGT
66 AATTCCGGTTAAAT
*
48159563 TCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GA
1 TCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA
*
48159625 GCTATA-TCCGGTTAAAT
63 -CTAAATTCCGGTTAAAT
48159642 TCCGAAGG
1 TCCGAAGG
48159650 TACGTGATTT
Statistics
Matches: 142, Mismatches: 13, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
72 1 0.01
73 60 0.42
74 7 0.05
78 3 0.02
79 49 0.35
80 22 0.15
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTA
AATTCCGGTTAAAT
Found at i:48163442 original size:25 final size:25
Alignment explanation
Indices: 48163385--48163447 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
48163375 CTTTTCTCTG
48163385 AGGATTT-ATTATGAGCATTGTTCT
1 AGGATTTCATTATGAGCATTGTTCT
*
48163409 AGGACTTTCATTATGA-TATTGTATCT
1 AGGA-TTTCATTATGAGCATTGT-TCT
* *
48163435 TGGATTTCTTTAT
1 AGGATTTCATTAT
48163448 CTTGGATTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
24 4 0.12
25 16 0.48
26 13 0.39
ACGTcount: A:0.24, C:0.10, G:0.17, T:0.49
Consensus pattern (25 bp):
AGGATTTCATTATGAGCATTGTTCT
Found at i:48163450 original size:15 final size:15
Alignment explanation
Indices: 48163430--48163479 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
48163420 TATGATATTG
48163430 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
48163445 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
* * *
48163460 TGTCCTGGACTTCTT
1 TATCTTGGATTTCTT
48163475 TATCT
1 TATCT
48163480 CGATTTTCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.12, C:0.18, G:0.14, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:48171467 original size:48 final size:48
Alignment explanation
Indices: 48171396--48171512 Score: 171
Period size: 48 Copynumber: 2.4 Consensus size: 48
48171386 TAGGGTAATG
* *
48171396 TACGATCCCATGTAAGACCATGTCTGAGACATGCCTTTGGCATCGACC
1 TACGATCCCATGTAAGACCATGTCTGAGACATGCCATTGGCATCGACA
* * *
48171444 TACGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
1 TACGATCCCATGTAAGACCATGTCTGAGACATGCCATTGGCATCGACA
**
48171492 TGTGATCCCATGTAAGACCAT
1 TACGATCCCATGTAAGACCAT
48171513 ATCCTACCAT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 62 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (48 bp):
TACGATCCCATGTAAGACCATGTCTGAGACATGCCATTGGCATCGACA
Found at i:48171808 original size:58 final size:58
Alignment explanation
Indices: 48171731--48171846 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
48171721 ATGTAAATGC
48171731 ATGACTGAAAATGTACCTATGATACTTGATGACATTGTGATAAATATTATTGTGTTAT
1 ATGACTGAAAATGTACCTATGATACTTGATGACATTGTGATAAATATTATTGTGTTAT
*
48171789 ATGACTTAAAATGTACCTATGATACTTGATGACATTGTGATAAATATTATTGTGTTAT
1 ATGACTGAAAATGTACCTATGATACTTGATGACATTGTGATAAATATTATTGTGTTAT
48171847 GTGTATAATA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (58 bp):
ATGACTGAAAATGTACCTATGATACTTGATGACATTGTGATAAATATTATTGTGTTAT
Found at i:48172524 original size:30 final size:30
Alignment explanation
Indices: 48172490--48172557 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
48172480 CACACGGATA
*
48172490 GGCACACGAGCGTGTGTCTAGGTCATGTGT
1 GGCACACGAACGTGTGTCTAGGTCATGTGT
*
48172520 GGCACACGAACGTGTGTCTAGGTCGTGTGT
1 GGCACACGAACGTGTGTCTAGGTCATGTGT
*
48172550 GACACACG
1 GGCACACG
48172558 GTCTGCCCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.19, C:0.22, G:0.35, T:0.24
Consensus pattern (30 bp):
GGCACACGAACGTGTGTCTAGGTCATGTGT
Found at i:48177929 original size:54 final size:54
Alignment explanation
Indices: 48177871--48178007 Score: 136
Period size: 54 Copynumber: 2.5 Consensus size: 54
48177861 AGGCTATCCC
*
48177871 TTCATGATT-CGCCACAAAGGCGTTCCTTTCAT-ATTTCGCCACAAA-GTTGTTACT
1 TTCAT-ATTACGCCACAAAGGCGTTCCTTTCATAATTT-GCCACAAAGGCT-TTACT
* * * ** * *
48177925 TTCATATTGCACCATAAAGATGTTCCTTTCATAATTTGTCACAAAGGCTTTCCT
1 TTCATATTACGCCACAAAGGCGTTCCTTTCATAATTTGCCACAAAGGCTTTACT
* *
48177979 TTCATATTATGCCACAAAGGCATTCCTTT
1 TTCATATTACGCCACAAAGGCGTTCCTTT
48178008 ATTGATGTGT
Statistics
Matches: 66, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
53 3 0.05
54 57 0.86
55 6 0.09
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.37
Consensus pattern (54 bp):
TTCATATTACGCCACAAAGGCGTTCCTTTCATAATTTGCCACAAAGGCTTTACT
Found at i:48178005 original size:27 final size:26
Alignment explanation
Indices: 48177854--48178007 Score: 123
Period size: 27 Copynumber: 5.7 Consensus size: 26
48177844 TGTAGGGTTC
* * *
48177854 GCCACAGAGGC-TATCCCTTCATGATTC
1 GCCACAAAGGCGT-TCCTTTCAT-ATTT
48177881 GCCACAAAGGCGTTCCTTTCATATTT
1 GCCACAAAGGCGTTCCTTTCATATTT
** *
48177907 CGCCACAAAGTTGTTACTTTCATA-TT
1 -GCCACAAAGGCGTTCCTTTCATATTT
* **
48177933 GCACCATAAAGATGTTCCTTTCATAATTT
1 G--CCACAAAGGCGTTCCTTTCAT-ATTT
* *
48177962 GTCACAAAGGCTTTCCTTTCATATTAT
1 GCCACAAAGGCGTTCCTTTCATATT-T
*
48177989 GCCACAAAGGCATTCCTTT
1 GCCACAAAGGCGTTCCTTT
48178008 ATTGATGTGT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
25 1 0.01
26 8 0.08
27 90 0.87
28 2 0.02
29 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (26 bp):
GCCACAAAGGCGTTCCTTTCATATTT
Found at i:48185516 original size:40 final size:39
Alignment explanation
Indices: 48185472--48185694 Score: 199
Period size: 40 Copynumber: 5.6 Consensus size: 39
48185462 GCTCCTCGTT
*
48185472 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAATTCGCA
* * *
48185512 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAATTCGCA
*
48185552 CAAATGCCTTCGGG-CTTAGCCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAG-CCCGGTA-TAGTAAT-TCGCA
* * *
48185592 CAAATGCCTTCGGG-CTTAGACCGGAATTAGT-ATCCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAAT-TCGCA
* * * *
48185631 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TATAGT-AATTCGCA
48185672 C-AA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
48185695 ACATCATTCA
Statistics
Matches: 156, Mismatches: 18, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
38 2 0.01
39 49 0.31
40 99 0.63
41 5 0.03
42 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAATTCGCA
Found at i:48185631 original size:39 final size:39
Alignment explanation
Indices: 48185472--48185643 Score: 206
Period size: 40 Copynumber: 4.3 Consensus size: 39
48185462 GCTCCTCGTT
* * *
48185472 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGACCGGAAT-TAGT-ATCTCGCA
* *
48185512 CAAATGCCTTCGGGACTTA-ACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGA-CCGGAATTAGTATCTCGCA
*
48185552 CAAATGCCTTCGGGCTTAGCCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAG-ACCGGAATTAGTATCTCGCA
*
48185592 CAAATGCCTTCGGGCTTAGACCGGAATTAGTATCCCGCA
1 CAAATGCCTTCGGGCTTAGACCGGAATTAGTATCTCGCA
48185631 CAAATGCCTTCGG
1 CAAATGCCTTCGG
48185644 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
39 36 0.30
40 81 0.68
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGACCGGAATTAGTATCTCGCA
Found at i:48185637 original size:79 final size:80
Alignment explanation
Indices: 48185472--48185695 Score: 239
Period size: 79 Copynumber: 2.8 Consensus size: 80
48185462 GCTCCTCGTT
*
48185472 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
48185537 ATTTAGTAACTCGCA
66 AATTAGTAACCCGCA
*
48185552 CAAATGCCTTCGGG-CTTAGCCCCGGA-ATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGA-
1 CAAATGCCTTCGGGACATAG-CCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTA-AC
*
48185612 CCGGAATTAGTATCCCGCA
62 CCGGAATTAGTAACCCGCA
* * * * * *
48185631 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGT-AATTCGCACAAATGCCTTCGGGACTTAACCC
48185693 GGA
64 GGA
48185696 CATCATTCAA
Statistics
Matches: 123, Mismatches: 10, Indels: 23
0.79 0.06 0.15
Matches are distributed among these distances:
78 11 0.09
79 57 0.46
80 54 0.44
81 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACCCGCA
Found at i:48193504 original size:79 final size:78
Alignment explanation
Indices: 48193402--48193624 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
48193392 GCTCCTCGTT
* *
48193402 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
48193467 ATTTAGTAACTCGCA
64 AATTAGTAACCCGCA
*
48193482 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
48193545 AATTAGTATCCCGCA
64 AATTAGTAACCCGCA
* * * * *
48193560 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
48193623 GA
63 GA
48193625 CATCATTCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
78 46 0.37
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACCCGCA
Found at i:48193519 original size:39 final size:40
Alignment explanation
Indices: 48193402--48193624 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
48193392 GCTCCTCGTT
* *
48193402 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
48193442 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
48193482 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
48193521 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
48193560 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
48193601 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48193625 CATCATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.01
39 88 0.54
40 64 0.39
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:48196394 original size:49 final size:47
Alignment explanation
Indices: 48196322--48196497 Score: 164
Period size: 49 Copynumber: 3.7 Consensus size: 47
48196312 AGGGTATAAT
* ** *
48196322 GCCGATGTCATGTCTTAGACATGGTCTTACACTGACTATCGAAATCGA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGACTATC-AAATCGA
* *
48196370 GGCCGATGCCATGTCCCAAACATGGTCTTACACT-AGCTCTCACATATCTGT
1 -GCCGATGCCATGTCCCAAACATGGTCTTACACTGA-CTATCA-A-ATC-GA
* * **
48196421 GCCGATGCAATGTCCCAGACATGGTCTTACACTGA-TA-CATCTCGTA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGACTATCAAATCG-A
48196467 GCCGATG-CATGTCCCAAACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACT
48196498 AGCACACAAA
Statistics
Matches: 107, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
44 10 0.09
45 13 0.12
46 9 0.08
48 4 0.04
49 35 0.33
50 34 0.32
51 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGACTATCAAATCGA
Found at i:48196436 original size:50 final size:47
Alignment explanation
Indices: 48196371--48196501 Score: 162
Period size: 50 Copynumber: 2.8 Consensus size: 47
48196361 CGAAATCGAG
*
48196371 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATCTGT-
1 GCCGATG-CATGTCCCAAACATGGTCTTACACTAGC-AT-ACATATC-GTA
* *
48196421 GCCGATGCAATGTCCCAGACATGGTCTTACACT-G-ATACATCTCGTA
1 GCCGATGC-ATGTCCCAAACATGGTCTTACACTAGCATACATATCGTA
48196467 GCCGATGCATGTCCCAAACAT-GTCTTACACTAGCA
1 GCCGATGCATGTCCCAAACATGGTCTTACACTAGCA
48196502 CACAAATAAC
Statistics
Matches: 73, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
44 10 0.14
45 15 0.21
46 15 0.21
47 1 0.01
49 2 0.03
50 30 0.41
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (47 bp):
GCCGATGCATGTCCCAAACATGGTCTTACACTAGCATACATATCGTA
Found at i:48203385 original size:12 final size:14
Alignment explanation
Indices: 48203356--48203400 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 14
48203346 TTTGAGTCCA
*
48203356 TTTATTTTTTATCT
1 TTTATTTTTCATCT
48203370 TTTATTTTTCA-C-
1 TTTATTTTTCATCT
48203382 TTTATTTTT-AT-T
1 TTTATTTTTCATCT
48203394 TTTATTT
1 TTTATTT
48203401 GTATTGTCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 1 0.04
12 16 0.57
13 1 0.04
14 10 0.36
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTATTTTTCATCT
Found at i:48206100 original size:69 final size:69
Alignment explanation
Indices: 48206014--48206242 Score: 377
Period size: 69 Copynumber: 3.3 Consensus size: 69
48206004 ATAGTTTTGA
* *
48206014 CTACAATATAGTGGTAGCTTTGGCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAACT
1 CTACAATACAGTGGTAGCTTTGGCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCT
48206079 TCGG
66 TCGG
* * * *
48206083 CTACAATATAGTGGTAGCTTCGGCTACATCTCAGTGGTAGCTTCGGCTGCAATATAGTGGTAGCT
1 CTACAATACAGTGGTAGCTTTGGCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCT
48206148 TCGG
66 TCGG
* *
48206152 CTACAATACAGTGGTAGCTTTGGCTACATCTCAATGGTAGCTTCGGCTATAATACAGTGGTAGCT
1 CTACAATACAGTGGTAGCTTTGGCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCT
*
48206217 TTGG
66 TCGG
48206221 CTACAATACAGTGGTAGCTTTG
1 CTACAATACAGTGGTAGCTTTG
48206243 ACTATATTAC
Statistics
Matches: 149, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 149 1.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (69 bp):
CTACAATACAGTGGTAGCTTTGGCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCT
TCGG
Found at i:48206256 original size:23 final size:23
Alignment explanation
Indices: 48206014--48206240 Score: 289
Period size: 23 Copynumber: 9.9 Consensus size: 23
48206004 ATAGTTTTGA
* *
48206014 CTACAATATAGTGGTAGCTTTGG
1 CTACAATACAGTGGTAGCTTCGG
*
48206037 CTAC-ATCTCAGTGGTAGCTTCGG
1 CTACAAT-ACAGTGGTAGCTTCGG
*
48206060 CTACAATACAGTGGTAACTTCGG
1 CTACAATACAGTGGTAGCTTCGG
*
48206083 CTACAATATAGTGGTAGCTTCGG
1 CTACAATACAGTGGTAGCTTCGG
*
48206106 CTAC-ATCTCAGTGGTAGCTTCGG
1 CTACAAT-ACAGTGGTAGCTTCGG
* *
48206129 CTGCAATATAGTGGTAGCTTCGG
1 CTACAATACAGTGGTAGCTTCGG
*
48206152 CTACAATACAGTGGTAGCTTTGG
1 CTACAATACAGTGGTAGCTTCGG
* *
48206175 CTAC-ATCTCAATGGTAGCTTCGG
1 CTACAAT-ACAGTGGTAGCTTCGG
* *
48206198 CTATAATACAGTGGTAGCTTTGG
1 CTACAATACAGTGGTAGCTTCGG
48206221 CTACAATACAGTGGTAGCTT
1 CTACAATACAGTGGTAGCTT
48206241 TGACTATATT
Statistics
Matches: 175, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
22 6 0.03
23 163 0.93
24 6 0.03
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (23 bp):
CTACAATACAGTGGTAGCTTCGG
Found at i:48218313 original size:21 final size:22
Alignment explanation
Indices: 48218287--48218328 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
48218277 TCCTAGCCAC
*
48218287 AGGGGC-ATATGCCCGTGTGAG
1 AGGGGCAACATGCCCGTGTGAG
48218308 AGGGGCAACATGCCCGTGTGA
1 AGGGGCAACATGCCCGTGTGA
48218329 CCAATTCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.21, C:0.21, G:0.40, T:0.17
Consensus pattern (22 bp):
AGGGGCAACATGCCCGTGTGAG
Found at i:48223224 original size:27 final size:27
Alignment explanation
Indices: 48223172--48223490 Score: 169
Period size: 27 Copynumber: 11.8 Consensus size: 27
48223162 CAAATTATTG
* * * *
48223172 AAATGCCCTCAATTTGTAAAAATACCA
1 AAATACCCTCGATTTATAAAATTACCA
* * *
48223199 AAGTACCCTCAATTTATAGAATTACCA
1 AAATACCCTCGATTTATAAAATTACCA
*** * **
48223226 TTTTACCCTCGATTTATAGAATTACTG
1 AAATACCCTCGATTTATAAAATTACCA
*** * *
48223253 TTTTACCCTCGATTTATAGAATTACCG
1 AAATACCCTCGATTTATAAAATTACCA
*** * * *
48223280 TTTTACCCTCAATTTACAGAATTACCA
1 AAATACCCTCGATTTATAAAATTACCA
*** * *
48223307 TTTTACCCTCGATTTAAAAAATTACTA
1 AAATACCCTCGATTTATAAAATTACCA
* * *
48223334 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTCGATTTATAAAATTACCA
*
48223361 AAATACCCTCGA-TTAGTAAAACTACCA
1 AAATACCCTCGATTTA-TAAAATTACCA
* *
48223388 AAATAACCCTAG-TTTGTAAAATTACCA
1 AAAT-ACCCTCGATTTATAAAATTACCA
** *
48223415 AAATACCC-CTGGCTTGTAAAATTACCA
1 AAATACCCTC-GATTTATAAAATTACCA
* * * * *
48223442 AAATACCC-CTAATTTGTGAAATTATCG
1 AAATACCCTC-GATTTATAAAATTACCA
* *
48223469 AAATACTCTCGATTTGTAAAAT
1 AAATACCCTCGATTTATAAAAT
48223491 ATCGAAATAC
Statistics
Matches: 242, Mismatches: 44, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
26 8 0.03
27 225 0.93
28 9 0.04
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (27 bp):
AAATACCCTCGATTTATAAAATTACCA
Found at i:48223261 original size:54 final size:54
Alignment explanation
Indices: 48223202--48223331 Score: 188
Period size: 54 Copynumber: 2.4 Consensus size: 54
48223192 AATACCAAAG
* * * **
48223202 TACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACCATTT
*
48223256 TACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTACAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACCATTT
* *
48223310 TACCCTCGATTTAAAAAATTAC
1 TACCCTCGATTTATAGAATTAC
48223332 TAAAATACCC
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACCATTT
Found at i:48223357 original size:81 final size:81
Alignment explanation
Indices: 48223202--48223359 Score: 217
Period size: 81 Copynumber: 2.0 Consensus size: 81
48223192 AATACCAAAG
* * * ****
48223202 TACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATT
1 TACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTAAAAAATTACTAAAATACCCTCGATT
* *
48223267 TATAGAATTACCGTTT
66 TACAAAATTACCGTTT
* *
48223283 TACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTAAAAAATTACTAAAATACCCTTGGTT
1 TACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTAAAAAATTACTAAAATACCCTCGATT
48223348 TACAAAATTACC
66 TACAAAATTACC
48223360 AAAATACCCT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (81 bp):
TACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTAAAAAATTACTAAAATACCCTCGATT
TACAAAATTACCGTTT
Found at i:48223368 original size:81 final size:81
Alignment explanation
Indices: 48223189--48223370 Score: 211
Period size: 81 Copynumber: 2.2 Consensus size: 81
48223179 CTCAATTTGT
* * * * * **
48223189 AAAAATACCAAAGTACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTGT
1 AAAATTACCAAAATACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTAAAAAATTACTAA
** *
48223254 TTTACCCTCGATTTAT
66 AATACCCTCGATTTAC
* ****
48223270 AGAATTACCGTTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTAAAAAATTACTAA
1 AAAATTACCAAAATACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTAAAAAATTACTAA
* *
48223335 AATACCCTTGGTTTAC
66 AATACCCTCGATTTAC
48223351 AAAATTACCAAAATACCCTC
1 AAAATTACCAAAATACCCTC
48223371 GATTAGTAAA
Statistics
Matches: 80, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.35
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTAAAAAATTACTAA
AATACCCTCGATTTAC
Found at i:48223473 original size:81 final size:81
Alignment explanation
Indices: 48223310--48223557 Score: 191
Period size: 81 Copynumber: 3.1 Consensus size: 81
48223300 ATTACCATTT
* ** * * * ** *
48223310 TACCCTCGATTTAAAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGAT
1 TACCCTAGATTTGTAAAATTACCAAAATACCCCTGGATTGTAAAATTACCAAAATACCCCT-AAT
48223374 TAGTAAAACTACCAAAA
65 TAGTAAAACTACCAAAA
*
48223391 TAACCCTAG-TTTGTAAAATTACCAAAATACCCCTGGCTTGTAAAATTACCAAAATACCCCTAAT
1 T-ACCCTAGATTTGTAAAATTACCAAAATACCCCTGGATTGTAAAATTACCAAAATACCCCTAAT
* * * * *
48223455 TTGTGAAATTATCGAAA
65 TAGTAAAACTACCAAAA
* * * * * ** * *
48223472 TACTCTCGATTTGTAAAA-TATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCT-A-T
1 TACCCTAGATTTGTAAAATTACCAAAATACCCCTGGATTGTAAAATTACCAAAATACCCCTAATT
* *
48223534 AGGGTAAAATTACCGAAA
66 A--GTAAAACTACCAAAA
48223552 TACCCT
1 TACCCT
48223558 TGTAGGGTAG
Statistics
Matches: 134, Mismatches: 28, Indels: 11
0.77 0.16 0.06
Matches are distributed among these distances:
78 1 0.01
79 1 0.01
80 57 0.43
81 65 0.49
82 10 0.07
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (81 bp):
TACCCTAGATTTGTAAAATTACCAAAATACCCCTGGATTGTAAAATTACCAAAATACCCCTAATT
AGTAAAACTACCAAAA
Found at i:48223531 original size:27 final size:27
Alignment explanation
Indices: 48223493--48223628 Score: 191
Period size: 27 Copynumber: 5.0 Consensus size: 27
48223483 TGTAAAATAT
48223493 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
48223520 CGAAATACCCCTATAGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
48223547 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
48223574 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * * *
48223601 AGAGATACCCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
48223628 C
1 C
48223629 ATTTTGCCCC
Statistics
Matches: 95, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 95 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:48223867 original size:25 final size:25
Alignment explanation
Indices: 48223833--48223927 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
48223823 AGGAAGTGCT
*
48223833 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
48223858 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
48223883 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
48223908 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
48223928 ATTAAAAGAG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 67 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:48223929 original size:24 final size:25
Alignment explanation
Indices: 48223833--48223952 Score: 154
Period size: 25 Copynumber: 4.8 Consensus size: 25
48223823 AGGAAGTGCT
* *
48223833 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCG
*
48223858 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCG
*
48223883 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCG
*
48223908 AAAAGGGCTTTGCCCCAG-TTAT-T
1 AAAAGGGCTTTGCCCCAGTTTATCG
*
48223931 AAAAGAGGCTATGCCTCCAGTT
1 AAAAG-GGCTTTGCC-CCAGTT
48223953 ATATGATAAA
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 5 0.06
24 12 0.14
25 69 0.79
26 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCG
Found at i:48230883 original size:25 final size:25
Alignment explanation
Indices: 48230841--48230889 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
48230831 CTTTATTATT
*
48230841 ATCATTATGAAGAATTATGTGATTA
1 ATCATTATGAAGAATTATATGATTA
* * *
48230866 ATCATTATTATGAGTTATATGATT
1 ATCATTATGAAGAATTATATGATT
48230890 GGTCCTCTGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (25 bp):
ATCATTATGAAGAATTATATGATTA
Found at i:48231016 original size:20 final size:20
Alignment explanation
Indices: 48230988--48231025 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48230978 CTAGGAACTA
48230988 TGTGATCTGAGCTCATGAGG
1 TGTGATCTGAGCTCATGAGG
* *
48231008 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAGCTCATGA
48231026 TATATGTGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.34, T:0.34
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGAGG
Found at i:48237671 original size:12 final size:12
Alignment explanation
Indices: 48237654--48237684 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
48237644 CTCAAGTTTT
48237654 CACACGGCCTAG
1 CACACGGCCTAG
*
48237666 CACACGGCCTGG
1 CACACGGCCTAG
48237678 CACACGG
1 CACACGG
48237685 GTGTTGGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.42, G:0.29, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:48238551 original size:17 final size:17
Alignment explanation
Indices: 48238529--48238564 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
48238519 AACTTGAGCC
48238529 TTTATTAATTTATTCAT
1 TTTATTAATTTATTCAT
* *
48238546 TTTATTTATTTATTTAT
1 TTTATTAATTTATTCAT
48238563 TT
1 TT
48238565 ATTTATAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTATTAATTTATTCAT
Found at i:48238555 original size:4 final size:4
Alignment explanation
Indices: 48238529--48238570 Score: 57
Period size: 4 Copynumber: 10.2 Consensus size: 4
48238519 AACTTGAGCC
* *
48238529 TTTA TTAA TTTA TTCA TTTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA T
48238571 AAGCAAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 30 0.91
5 3 0.09
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:48238555 original size:21 final size:21
Alignment explanation
Indices: 48238529--48238568 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48238519 AACTTGAGCC
48238529 TTTATTAATTTATTCATTTTA
1 TTTATTAATTTATTCATTTTA
* *
48238550 TTTATTTATTTATTTATTT
1 TTTATTAATTTATTCATTT
48238569 ATAAGCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTATTAATTTATTCATTTTA
Found at i:48241893 original size:18 final size:18
Alignment explanation
Indices: 48241870--48241904 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
48241860 CTCCTGAATA
*
48241870 TGTAACTTACTATTCTTC
1 TGTAACTTACGATTCTTC
48241888 TGTAACTTACGATTCTT
1 TGTAACTTACGATTCTT
48241905 ACCTGCAGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.20, G:0.09, T:0.49
Consensus pattern (18 bp):
TGTAACTTACGATTCTTC
Found at i:48245798 original size:49 final size:50
Alignment explanation
Indices: 48245743--48245869 Score: 154
Period size: 50 Copynumber: 2.6 Consensus size: 50
48245733 TCGAGTTGAT
*
48245743 GCCATGTCCTAGACATGGTCTTACACT-GACTATCATCATCGA-G-GCCGAC
1 GCCATGTCCTAGACATGGTCTTACACTAG-CTATCA-CATAGACGTGCCGAC
* * *
48245792 GCCATGT-CTCAGACATGGTCTTACACTAGCTCTCACATATACGTGCCGAT
1 GCCATGTCCT-AGACATGGTCTTACACTAGCTATCACATAGACGTGCCGAC
*
48245842 GCCATGTCCCAGACATGGTCTTACACTA
1 GCCATGTCCTAGACATGGTCTTACACTA
48245870 ACACATCTCG
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
48 6 0.09
49 30 0.44
50 31 0.46
51 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (50 bp):
GCCATGTCCTAGACATGGTCTTACACTAGCTATCACATAGACGTGCCGAC
Found at i:48245971 original size:46 final size:47
Alignment explanation
Indices: 48245740--48246011 Score: 229
Period size: 46 Copynumber: 5.7 Consensus size: 47
48245730 GTCTCGAGTT
* * *
48245740 GATGCCATGTCCTAGACATGGTCTTACACT-GACTATCATCATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTC-TC-TAGAGGCC
* * * *
48245789 GACGCCATGTCTCAGACATGGTCTTACACTAGCTCTCACATATACGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTC-TAGA-G-GCC
* * *
48245839 GATGCCATGTCCCAGACATGGTCTTACACTAACACATCTC--GTA-CCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCTCTAG-AGGCC
* * *
48245885 GATG-CATGTCCCAAACAT-GTCCTACACTGGCT-TACATCTAGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-C-TCTAGAGGCC
* * *
48245931 GATG-CATGTCTCAGACAT-GTCTTACACTAGCTCTCGTCTAGATGCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TCTAGAGGCC
*
48245977 GATGCCATGTCCCAAACATGGTCTTACACTAGCTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC
48246012 ATAATAACCC
Statistics
Matches: 181, Mismatches: 29, Indels: 27
0.76 0.12 0.11
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 12 0.07
45 14 0.08
46 50 0.28
47 13 0.07
48 19 0.10
49 33 0.18
50 35 0.19
51 3 0.02
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTCTAGAGGCC
Found at i:48255094 original size:18 final size:19
Alignment explanation
Indices: 48255056--48255094 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
48255046 AAATCATATT
*
48255056 TATTATTTTCATATCAAAA
1 TATTATTTTCATATAAAAA
*
48255075 TATTATTTTGATA-AAAAA
1 TATTATTTTCATATAAAAA
48255093 TA
1 TA
48255095 AAAAAGATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (19 bp):
TATTATTTTCATATAAAAA
Found at i:48255707 original size:24 final size:24
Alignment explanation
Indices: 48255679--48255727 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
48255669 CCAAAATAAC
48255679 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
48255703 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
48255727 A
1 A
48255728 CAAATATACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:48255725 original size:12 final size:12
Alignment explanation
Indices: 48255686--48255726 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
48255676 AACAATTAAT
48255686 TTTTATATAAAC
1 TTTTATATAAAC
* * *
48255698 TTTTAAATTAAT
1 TTTTATATAAAC
48255710 TTTTATATAAAC
1 TTTTATATAAAC
48255722 TTTTA
1 TTTTA
48255727 ACAAATATAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTTATATAAAC
Found at i:48256428 original size:41 final size:41
Alignment explanation
Indices: 48256144--48256427 Score: 392
Period size: 41 Copynumber: 6.9 Consensus size: 41
48256134 TTATATAACT
* *
48256144 TTTAGTGGCGTTTTACTAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
*
48256185 TTTAGCGGCGTTTTACCAAAAGCGTCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* * *
48256226 TTTAGCGCCGTTTTACCAGAAGCGCCGCTAGTGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* *
48256267 TTTAGCGTCGTTTTACCAGAAA-CGCCGCTAGTGCTCTGGTC
1 TTTAGCGGCGTTTTACCA-AAAGCGCCGCTAATGCTCTGGTC
* *
48256308 TTTAGCGGCGTTTTAACAAAAGCGCAGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* * *
48256349 TTTAGCGGCGTTTTACCAGAAGCGCCGTTAATGCTCT-GTT
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* * *
48256389 TTTAGCGGCGTTTTAACAAAAAACGCCGCTATTGCTCTG
1 TTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTG
48256428 TGTTTTACAA
Statistics
Matches: 216, Mismatches: 23, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
40 19 0.09
41 195 0.90
42 2 0.01
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (41 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
Found at i:48259027 original size:40 final size:40
Alignment explanation
Indices: 48258935--48259122 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
48258925 TAAATTCTCA
* * *
48258935 CACACTAAGTGTCAATACATAGTCGAAGCTAT-TTTAATCTCG
1 CACACTAAGTG-CCATACATAGCCGAAGCTATCTTGAA--TCG
* *
48258977 CACACTAAGTGCCTTACATAGCCAAAGCTATCTTGAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCG
* *
48259017 CACACTAAGTGCCATACATTGCTGAAGCTATCTTGAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCG
*
48259057 CACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCA
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCG
* *
48259097 TACACTAAGTGGCATACATAGCCGAA
1 CACACTAAGTGCCATACATAGCCGAA
48259123 TTGTCATCAA
Statistics
Matches: 131, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 100 0.76
41 16 0.12
42 15 0.11
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.26
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCG
Found at i:48266515 original size:28 final size:28
Alignment explanation
Indices: 48266484--48266562 Score: 131
Period size: 28 Copynumber: 2.8 Consensus size: 28
48266474 GAATCATTCG
*
48266484 ATATTTCACACACTAAGTGTCATTCTCA
1 ATATTTCACACACTAAGTGTCATCCTCA
* *
48266512 ATATCTCGCACACTAAGTGTCATCCTCA
1 ATATTTCACACACTAAGTGTCATCCTCA
48266540 ATATTTCACACACTAAGTGTCAT
1 ATATTTCACACACTAAGTGTCAT
48266563 ATTTGATGTC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.33
Consensus pattern (28 bp):
ATATTTCACACACTAAGTGTCATCCTCA
Found at i:48266638 original size:40 final size:40
Alignment explanation
Indices: 48266594--48266680 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
48266584 GTGTTGTATA
48266594 TAGCCGAAACTATC-TCAAA-TCGCACACTAAGTGCCAAATT
1 TAGCCGAAACTA-CATCAAACT-GCACACTAAGTGCCAAATT
* * *
48266634 TAGCCGAAGCTACATCGAACTGCACACTAAGTGCCATATT
1 TAGCCGAAACTACATCAAACTGCACACTAAGTGCCAAATT
48266674 TAGCCGA
1 TAGCCGA
48266681 TATGTCATCA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
39 1 0.02
40 40 0.95
41 1 0.02
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (40 bp):
TAGCCGAAACTACATCAAACTGCACACTAAGTGCCAAATT
Found at i:48266950 original size:43 final size:43
Alignment explanation
Indices: 48266896--48266981 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
48266886 TTACTTAATC
* *
48266896 ATTAATTCATTCAATTTAATAAAATTTACACATTTTGGCAAAA
1 ATTAATCCATTCAATTTAACAAAATTTACACATTTTGGCAAAA
*
48266939 ATTAATCCATTCAATTTAACACAATTTACACATTTTGGCAAAA
1 ATTAATCCATTCAATTTAACAAAATTTACACATTTTGGCAAAA
48266982 TTATACTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.43, C:0.15, G:0.05, T:0.37
Consensus pattern (43 bp):
ATTAATCCATTCAATTTAACAAAATTTACACATTTTGGCAAAA
Found at i:48271907 original size:41 final size:42
Alignment explanation
Indices: 48271845--48271989 Score: 125
Period size: 41 Copynumber: 3.5 Consensus size: 42
48271835 GCCACTTGCT
* * * ****
48271845 TCACCATATTGGTGGTAAAAAAAAT-AGAACTGATCTTTGTC
1 TCACCATGTTGGTGTTGAAAAAAATCAGAACTGATCTCCCCC
**
48271886 TCACCATGTTGGTGTTG-AAAAAATCAGAGTTGATCTCCCCC
1 TCACCATGTTGGTGTTGAAAAAAATCAGAACTGATCTCCCCC
* * * * *
48271927 TCACCATGTTGATGTTG-AAAAAATTAAAATTGATCTCCACC
1 TCACCATGTTGGTGTTGAAAAAAATCAGAACTGATCTCCCCC
* *
48271968 TCGCCATGTTGATGTTGAAAAA
1 TCACCATGTTGGTGTTGAAAAA
48271990 TAAATCAAAA
Statistics
Matches: 87, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
40 7 0.08
41 76 0.87
42 4 0.05
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (42 bp):
TCACCATGTTGGTGTTGAAAAAAATCAGAACTGATCTCCCCC
Found at i:48272020 original size:44 final size:44
Alignment explanation
Indices: 48271925--48272034 Score: 136
Period size: 44 Copynumber: 2.6 Consensus size: 44
48271915 TTGATCTCCC
* * * *
48271925 CCTCACCATGTTGATGTTG--AAA-AAATTAAAATTGATCTCCA
1 CCTCGCCATGTTGATGTTGAAAAATAAATCAAAATTAATCACCA
48271966 CCTCGCCATGTTGATGTTGAAAAATAAATCAAAATTAATCACCA
1 CCTCGCCATGTTGATGTTGAAAAATAAATCAAAATTAATCACCA
* * *
48272010 CCTCGTCATGTTGGTATTGAAAAAT
1 CCTCGCCATGTTGATGTTGAAAAAT
48272035 CAAAATTAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 18 0.31
43 3 0.05
44 38 0.64
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (44 bp):
CCTCGCCATGTTGATGTTGAAAAATAAATCAAAATTAATCACCA
Found at i:48278534 original size:5 final size:5
Alignment explanation
Indices: 48278524--48278548 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
48278514 TATAGGGGTT
48278524 GACAG GACAG GACAG GACAG GACAG
1 GACAG GACAG GACAG GACAG GACAG
48278549 AAATGAGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.40, T:0.00
Consensus pattern (5 bp):
GACAG
Found at i:48284732 original size:2 final size:2
Alignment explanation
Indices: 48284725--48284757 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
48284715 CTTATTACTT
48284725 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
48284758 TTCTTTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:48286255 original size:16 final size:16
Alignment explanation
Indices: 48286234--48286269 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
48286224 CTTTTTCTAG
*
48286234 AAAAAACTAAAATGAT
1 AAAAAAATAAAATGAT
48286250 AAAAAAATAAAATGAT
1 AAAAAAATAAAATGAT
48286266 AAAA
1 AAAA
48286270 TCACTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.17
Consensus pattern (16 bp):
AAAAAAATAAAATGAT
Found at i:48287663 original size:19 final size:19
Alignment explanation
Indices: 48287617--48287687 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
48287607 CATGCATCAA
* *
48287617 GATGCACCTCGTGTGCCAG
1 GATGCACTTCGTGTGCTAG
* * *
48287636 AATGGACTTTGTGTGCTAG
1 GATGCACTTCGTGTGCTAG
* *
48287655 GATGCACTTCATGTTCTAG
1 GATGCACTTCGTGTGCTAG
* *
48287674 TATGCACTTTGTGT
1 GATGCACTTCGTGT
48287688 TCCAGTGATG
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.35
Consensus pattern (19 bp):
GATGCACTTCGTGTGCTAG
Found at i:48287688 original size:19 final size:19
Alignment explanation
Indices: 48287641--48287689 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
48287631 GCCAGAATGG
*
48287641 ACTTTGTGTGCTAGGATGC
1 ACTTTGTGTTCTAGGATGC
** *
48287660 ACTTCATGTTCTAGTATGC
1 ACTTTGTGTTCTAGGATGC
48287679 ACTTTGTGTTC
1 ACTTTGTGTTC
48287690 CAGTGATGTG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.16, C:0.18, G:0.22, T:0.43
Consensus pattern (19 bp):
ACTTTGTGTTCTAGGATGC
Found at i:48294711 original size:55 final size:54
Alignment explanation
Indices: 48294616--48294765 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
48294606 CTACTTTGTT
* ** * *
48294616 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
48294670 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
48294725 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
48294766 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:48294728 original size:27 final size:27
Alignment explanation
Indices: 48294588--48294765 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
48294578 TAAATTGTAC
48294588 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
48294615 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
48294641 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
48294669 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
48294697 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
48294724 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
48294751 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48294766 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:48294729 original size:82 final size:81
Alignment explanation
Indices: 48294589--48294744 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
48294579 AAATTGTACA
* * * *
48294589 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
48294654 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
48294670 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
48294733 TGTGCGAGTTGA
63 TGTGCGAATTGA
48294745 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:48312092 original size:15 final size:15
Alignment explanation
Indices: 48312056--48312135 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
48312046 GTATCTTGGG
* *
48312056 TTTCTTTATCCTAGA
1 TTTCTTTATTCTGGA
*
48312071 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
48312086 TTCCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
48312101 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
48312116 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
48312130 TTTCTT
1 TTTCTT
48312136 GTTATCTTTG
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
14 10 0.19
15 40 0.77
16 2 0.04
ACGTcount: A:0.11, C:0.19, G:0.12, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:48314564 original size:46 final size:46
Alignment explanation
Indices: 48314511--48314686 Score: 164
Period size: 46 Copynumber: 3.8 Consensus size: 46
48314501 TATTTAGGCA
48314511 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
48314557 TCCGAACTCGTTGAGTTGAGTTCGAGTTCA---A-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* * * * *
48314602 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATTGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
48314650 CCCGAGCTCATTGAGTTGAGTCCGAGTTGACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48314687 GTGGGTTACA
Statistics
Matches: 105, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
45 1 0.01
46 61 0.58
47 27 0.26
48 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:48314664 original size:93 final size:93
Alignment explanation
Indices: 48314505--48314677 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
48314495 CTAGCATATT
* * * *
48314505 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTG
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTG
*
48314570 AGTTGAGTTCGAGTTCAAGAGATGTAAC
66 AGTTGAGTCCGAGTTCAAGAGATGTAAC
* * * *
48314598 TAGGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATTGATACGAACGCCCGAGCTCATTG
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTG
48314663 AGTTGAGTCCGAGTT
66 AGTTGAGTCCGAGTT
48314678 GACTTATGGG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTG
AGTTGAGTCCGAGTTCAAGAGATGTAAC
Found at i:48317857 original size:49 final size:47
Alignment explanation
Indices: 48317490--48318047 Score: 809
Period size: 47 Copynumber: 11.7 Consensus size: 47
48317480 ACAATTGCCC
* * * *
48317490 TTCGGACTTATCACATTTATACACTTCCACATCCATCACATTGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
48317537 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
* *
48317584 TTCGGCCTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCACATATATACACT-TTCACATTCATCACATTGGCCA
* *
48317631 TTCGGCCTTATCACACATACACA-TGTTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCACATATATACACT-TTCACATTCATCACATTGGCCA
* *
48317678 TTCGGCCTTATCACACATACACA-TGTTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCACATATATACACT-TTCACATTCATCACATTGGCCA
48317725 TTCGGCCTTATCACATATATATACAC-TTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCA
*
48317773 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
* *
48317820 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCA
1 TTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCA
* *
48317869 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCA
1 TTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCA
*
48317918 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCA
*
48317967 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCA
*
48318016 TTAGGCCTTATCACATATATACACTTTCACAT
1 TTCGGCCTTATCACATATATACACTTTCACAT
48318048 ATATTCAAAT
Statistics
Matches: 489, Mismatches: 15, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
46 11 0.02
47 242 0.49
48 36 0.07
49 200 0.41
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
Found at i:48317925 original size:98 final size:94
Alignment explanation
Indices: 48317490--48318047 Score: 809
Period size: 98 Copynumber: 5.8 Consensus size: 94
48317480 ACAATTGCCC
* * * * *
48317490 TTCGGACTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATAT
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATAT
48317555 ATACACTTTCACATTCATCACATTGGCCA
66 ATACACTTTCACATTCATCACATTGGCCA
* * * *
48317584 TTCGGCCTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
1 TTCGGCCTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTAGGCCTTATCACATA
*
48317648 TACACA-TGTTCACATTCATCACATTGGCCA
65 TATACACT-TTCACATTCATCACATTGGCCA
* * *
48317678 TTCGGCCTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATA
1 TTCGGCCTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTAGGCCTTATCAC--A
48317742 TATATACAC-TTCACATTCATCACATTGGCCA
63 TATATACACTTTCACATTCATCACATTGGCCA
*
48317773 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--AT
*
48317838 ATATACACTTTCACATTCATCACATCGGCCA
64 ATATACACTTTCACATTCATCACATTGGCCA
* *
48317869 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 TTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--
48317934 ATATATACACTTTCACATTCATCACATTGGCCA
62 ATATATACACTTTCACATTCATCACATTGGCCA
*
48317967 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAT
1 TTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAT
48318032 ATATACACTTTCACAT
64 ATATACACTTTCACAT
48318048 ATATTCAAAT
Statistics
Matches: 433, Mismatches: 22, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
93 2 0.00
94 139 0.32
95 89 0.21
96 60 0.14
98 143 0.33
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (94 bp):
TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATAT
ATACACTTTCACATTCATCACATTGGCCA
Found at i:48319573 original size:56 final size:57
Alignment explanation
Indices: 48319506--48319626 Score: 226
Period size: 57 Copynumber: 2.1 Consensus size: 57
48319496 TATTAGTTTA
48319506 TTGCCCATGCTTCTTATTTTA-TTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTCTTCCATTAACACAACATGTTTCATGACATGTT
*
48319562 TTGCCCATGCTTCTTATTTTATTTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTCTTCCATTAACACAACATGTTTCATGACATGTT
48319619 TTGCCCAT
1 TTGCCCAT
48319627 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 21 0.33
57 42 0.67
ACGTcount: A:0.22, C:0.23, G:0.09, T:0.45
Consensus pattern (57 bp):
TTGCCCATGCTTCTTATTTTATTTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:48326040 original size:40 final size:40
Alignment explanation
Indices: 48325956--48326139 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
48325946 TTGAATGCTG
* * * *
48325956 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
48325995 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
48326036 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
48326076 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
*
48326116 TCCGGGTTAAGTCTCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
48326140 GTATGAGTTA
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 2 0.02
40 112 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:48326093 original size:80 final size:81
Alignment explanation
Indices: 48325956--48326136 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
48325946 TTGAATGCTG
* *
48325956 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
48326020 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
48326036 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
48326097 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
*
48326116 TCCGGGTTAAGTCTCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
48326137 ATTGTATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:48326160 original size:39 final size:38
Alignment explanation
Indices: 48325957--48326176 Score: 165
Period size: 40 Copynumber: 5.6 Consensus size: 38
48325947 TGAATGCTGT
* * * * *
48325957 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTA-AA
** * *
48325997 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAATT
1 CCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
48326037 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAA-A
*
48326077 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACT-AAA
* **
48326116 TCCGGGTTAAGTCTCGAAGGCATTGTATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTA-AA
* *
48326156 CCGGGCTATGTCCCGAAGGCA
1 CCGGGTTAAGTCCCGAAGGCA
48326177 CTTGAACGAG
Statistics
Matches: 149, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
39 32 0.21
40 109 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:48333989 original size:40 final size:40
Alignment explanation
Indices: 48333905--48334088 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
48333895 TTGAATGCTG
* * * *
48333905 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
48333944 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
48333985 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
48334025 TCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
48334065 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
48334089 GTATGAGTTA
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 2 0.02
40 112 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:48334042 original size:80 final size:81
Alignment explanation
Indices: 48333905--48334085 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
48333895 TTGAATGCTG
* *
48333905 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
48333969 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
48333985 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
*
48334046 ATTCGTGTGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
48334065 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
48334086 ATTGTATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:48368040 original size:55 final size:55
Alignment explanation
Indices: 48367979--48368088 Score: 166
Period size: 55 Copynumber: 2.0 Consensus size: 55
48367969 CGTTCTTTAT
* *
48367979 TGCTTTCATATTTTCTTTGTTCTATATTCTATCCATCTCTCTCTATTTTATAACA
1 TGCTTTCATATTTTCTTTATTCTATACTCTATCCATCTCTCTCTATTTTATAACA
* * * *
48368034 TGCTTTCATATTTTCTTTATTCTTTACTCTCTCCGTCTCTCTTTATTTTATAACA
1 TGCTTTCATATTTTCTTTATTCTATACTCTATCCATCTCTCTCTATTTTATAACA
48368089 CGTTATCAGC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.18, C:0.23, G:0.04, T:0.55
Consensus pattern (55 bp):
TGCTTTCATATTTTCTTTATTCTATACTCTATCCATCTCTCTCTATTTTATAACA
Found at i:48382975 original size:17 final size:17
Alignment explanation
Indices: 48382953--48382988 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
48382943 TTGGGATGTA
*
48382953 AACTCATCAGCATTATC
1 AACTCATAAGCATTATC
48382970 AACTCATAAGCATTATC
1 AACTCATAAGCATTATC
48382987 AA
1 AA
48382989 GACGAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.28
Consensus pattern (17 bp):
AACTCATAAGCATTATC
Found at i:48386568 original size:19 final size:19
Alignment explanation
Indices: 48386544--48386580 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
48386534 AGACAGGGGG
*
48386544 CACGCCCGTGTACTCTAGA
1 CACGCCCATGTACTCTAGA
*
48386563 CACGCCCATGTCCTCTAG
1 CACGCCCATGTACTCTAG
48386581 CCGTGTAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.41, G:0.19, T:0.22
Consensus pattern (19 bp):
CACGCCCATGTACTCTAGA
Found at i:48388201 original size:44 final size:44
Alignment explanation
Indices: 48388138--48388244 Score: 153
Period size: 44 Copynumber: 2.4 Consensus size: 44
48388128 TCGCATCCAT
* *
48388138 TCGGACCAACTCAACGAGCTCAGATGCTCGCATCCATA-ATGAGC
1 TCGGACCAACTCAACGAGCTCAGATGC-CGCATACATACATGAAC
*
48388182 TCGGACCAACTCAACGAGCTCAGATGCCTCATACATATCATGAAC
1 TCGGACCAACTCAACGAGCTCAGATGCCGCATACATA-CATGAAC
*
48388227 CCGGACCAACTCAACGAG
1 TCGGACCAACTCAACGAG
48388245 TTTGGATTTC
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
43 8 0.14
44 27 0.47
45 22 0.39
ACGTcount: A:0.32, C:0.33, G:0.19, T:0.17
Consensus pattern (44 bp):
TCGGACCAACTCAACGAGCTCAGATGCCGCATACATACATGAAC
Found at i:48390383 original size:27 final size:27
Alignment explanation
Indices: 48390353--48390428 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 27
48390343 AAATAACTAA
*
48390353 AATACCCCCATAGGGTAAAATGACCGT
1 AATACCCCTATAGGGTAAAATGACCGT
** * * *
48390380 AATATGCCTATAAGGTATAATGACTGT
1 AATACCCCTATAGGGTAAAATGACCGT
* * *
48390407 AATTCCCTTGTAGGGTAAAATG
1 AATACCCCTATAGGGTAAAATG
48390429 GTTGTTAGTA
Statistics
Matches: 36, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.28
Consensus pattern (27 bp):
AATACCCCTATAGGGTAAAATGACCGT
Found at i:48393880 original size:26 final size:27
Alignment explanation
Indices: 48393824--48393886 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
48393814 CCCTTAATCG
*
48393824 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGATCGAAATACCCCCATAA
*
48393851 GGTAAAATGATCGAAATA-TCCCATAA
1 GGTAAAATGATCGAAATACCCCCATAA
*
48393877 GGTATAATGA
1 GGTAAAATGA
48393887 CTGTAATTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 15 0.45
27 18 0.55
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.22
Consensus pattern (27 bp):
GGTAAAATGATCGAAATACCCCCATAA
Found at i:48405778 original size:27 final size:26
Alignment explanation
Indices: 48405743--48405837 Score: 127
Period size: 27 Copynumber: 3.5 Consensus size: 26
48405733 AGCATGGCTG
* *
48405743 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
48405769 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
48405797 TCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
48405824 CCAGATCAGATAAT
1 CCAGAACAGATAAT
48405838 TTTGCACCTA
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
26 7 0.11
27 38 0.62
28 16 0.26
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:48405872 original size:27 final size:27
Alignment explanation
Indices: 48405834--48405894 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
48405824 CCAGATCAGA
48405834 TAATTTTGCACCTAGGGGGTATAACAG
1 TAATTTTGCACCTAGGGGGTATAACAG
*
48405861 TAATTTTTCACCTAGGGGGTATAACAG
1 TAATTTTGCACCTAGGGGGTATAACAG
48405888 TAATTTT
1 TAATTTT
48405895 CCATACATAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (27 bp):
TAATTTTGCACCTAGGGGGTATAACAG
Found at i:48407351 original size:26 final size:26
Alignment explanation
Indices: 48407321--48407376 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
48407311 TGAAATGCCC
48407321 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
48407347 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
48407373 ATCA
1 ATCA
48407377 ATTTTTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:48407383 original size:22 final size:23
Alignment explanation
Indices: 48407331--48407383 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 23
48407321 ATCATGGAAC
48407331 ATTTACCTAACCCATTATCATGGAAT
1 ATTTACCTAACCCATTATC---GAAT
48407357 ATTTACCTAACCCATTATC-AAT
1 ATTTACCTAACCCATTATCGAAT
*
48407379 TTTTA
1 ATTTA
48407384 TCAATTTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 7 0.27
26 19 0.73
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.40
Consensus pattern (23 bp):
ATTTACCTAACCCATTATCGAAT
Found at i:48410171 original size:49 final size:49
Alignment explanation
Indices: 48410105--48410220 Score: 144
Period size: 49 Copynumber: 2.3 Consensus size: 49
48410095 GGAATTGGGA
48410105 TTGTTTCATTCTACCATCCCAAATTACCCGACAATGA-TGACTTTTAGTAT
1 TTGTTT-ATTCTACCATCCCAAATTACCCGACAATGATTG-CTTTTAGTAT
* *** * * *
48410155 TTGTTTATTCTGCCATCCCGGGTTGCCCGGCAATGATTGTTTTTAGTAT
1 TTGTTTATTCTACCATCCCAAATTACCCGACAATGATTGCTTTTAGTAT
48410204 TTGTTTATTCTACCATC
1 TTGTTTATTCTACCATC
48410221 TTGGGTTGCC
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
49 49 0.86
50 8 0.14
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (49 bp):
TTGTTTATTCTACCATCCCAAATTACCCGACAATGATTGCTTTTAGTAT
Found at i:48410248 original size:49 final size:49
Alignment explanation
Indices: 48410136--48410254 Score: 127
Period size: 49 Copynumber: 2.4 Consensus size: 49
48410126 AATTACCCGA
* **
48410136 CAATGAT-GACTTTTAGTATTTGTTTATTCTGCCATCCCGGGTTGCCCGG
1 CAATGATCG-CTTTTAGTATTTGTTTATTCTACCATCCCGGGTTGCCAAG
* * **
48410185 CAATGATTGTTTTTAGTATTTGTTTATTCTACCATCTTGGGTTGCCTAAG
1 CAATGATCGCTTTTAGTATTTGTTTATTCTACCATCCCGGGTTGCC-AAG
48410235 -AATGA-CGCCTTTTAGTATTT
1 CAATGATCG-CTTTTAGTATTT
48410255 TATTATCCTG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
48 1 0.02
49 56 0.95
50 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.44
Consensus pattern (49 bp):
CAATGATCGCTTTTAGTATTTGTTTATTCTACCATCCCGGGTTGCCAAG
Found at i:48414704 original size:50 final size:52
Alignment explanation
Indices: 48414647--48414745 Score: 157
Period size: 50 Copynumber: 1.9 Consensus size: 52
48414637 TAAACCGCAA
* *
48414647 AATAATTAACTATTTAAATTTAAAT-ATTTAATAAT-TTTCCTTAACATCAT
1 AATAATTAACTAATTAAAATTAAATAATTTAATAATATTTCCTTAACATCAT
*
48414697 AATAATTAACTAATTAAAATTAAATAATTTAATAATATTTTCTTAACAT
1 AATAATTAACTAATTAAAATTAAATAATTTAATAATATTTCCTTAACAT
48414746 TTCTAATTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 23 0.52
51 10 0.23
52 11 0.25
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.44
Consensus pattern (52 bp):
AATAATTAACTAATTAAAATTAAATAATTTAATAATATTTCCTTAACATCAT
Found at i:48414880 original size:28 final size:28
Alignment explanation
Indices: 48414838--48414935 Score: 79
Period size: 28 Copynumber: 3.5 Consensus size: 28
48414828 AGAGTTTAGA
* * ** *
48414838 AAAAAATTAAAAATTGGGAATTTAGAAT
1 AAAAAATCAAGAATTGACAATTGAGAAT
*
48414866 AAAAAATCGAGAATTGACAATTGAGAAT
1 AAAAAATCAAGAATTGACAATTGAGAAT
* *** *
48414894 AAAACATCAAGAACAAACAATTGAGAAC
1 AAAAAATCAAGAATTGACAATTGAGAAT
* *
48414922 AAGAAATTAAGAAT
1 AAAAAATCAAGAAT
48414936 CAAATTGTGA
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.58, C:0.07, G:0.14, T:0.20
Consensus pattern (28 bp):
AAAAAATCAAGAATTGACAATTGAGAAT
Found at i:48416562 original size:30 final size:30
Alignment explanation
Indices: 48416526--48416591 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
48416516 TTGAAAAGAG
48416526 TTAGAAAGTTTTAAAGCAAACTAACAATTT
1 TTAGAAAGTTTTAAAGCAAACTAACAATTT
48416556 TTAGAAAGTTTTAAAGCAAACTAACAATTT
1 TTAGAAAGTTTTAAAGCAAACTAACAATTT
48416586 TT-GAAA
1 TTAGAAA
48416592 CAGGGGTCAC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 4 0.11
30 32 0.89
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (30 bp):
TTAGAAAGTTTTAAAGCAAACTAACAATTT
Found at i:48417816 original size:75 final size:76
Alignment explanation
Indices: 48417721--48417905 Score: 232
Period size: 76 Copynumber: 2.4 Consensus size: 76
48417711 GCGCCCAGCA
* *
48417721 CTAGTCGGATAAATAAAAGGTATCAAATGTGTGC-TAGCACCAGTCGGATAAAC-CAACAATGAG
1 CTAGTCGGATAAATCAAAGGTATCAAATGTGTGCTTAGCACCAATCGGATAAACTCAA-AATGAG
48417784 TTGCACCCAACG
65 TTGCACCCAACG
* * * * * *
48417796 TTAGTCTGATAAATCGAAGGTATCAAATGTGTGCTTAGCACTAATTGGATAAACTGAAAATGAGT
1 CTAGTCGGATAAATCAAAGGTATCAAATGTGTGCTTAGCACCAATCGGATAAACTCAAAATGAGT
48417861 TGCACCCAACG
66 TGCACCCAACG
* * *
48417872 CTAGTCGGATAGA-CTAACGATATCAAATGTGTGC
1 CTAGTCGGATAAATC-AAAGGTATCAAATGTGTGC
48417906 CTATCATTGT
Statistics
Matches: 93, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
75 31 0.33
76 60 0.65
77 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (76 bp):
CTAGTCGGATAAATCAAAGGTATCAAATGTGTGCTTAGCACCAATCGGATAAACTCAAAATGAGT
TGCACCCAACG
Done.