Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 120 of 250
Found at i:38664078 original size:13 final size:13
Alignment explanation
Indices: 38664056--38664097 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
38664046 CGGCCTAGCA
*
38664056 CACGGGTGTGTGG
1 CACGGCTGTGTGG
38664069 CACGGCTGTGTGG
1 CACGGCTGTGTGG
38664082 CACGGCTGTGTGG
1 CACGGCTGTGTGG
38664095 CAC
1 CAC
38664098 ATGTAACGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.10, C:0.24, G:0.45, T:0.21
Consensus pattern (13 bp):
CACGGCTGTGTGG
Found at i:38665399 original size:29 final size:28
Alignment explanation
Indices: 38665356--38665463 Score: 128
Period size: 29 Copynumber: 3.8 Consensus size: 28
38665346 CATGATTATG
* * *
38665356 AATGTGACTGGGCCTCATGGGCCAAATA
1 AATGTGATTGGGCCTAATGGGCCATATA
38665384 AATGTGATTTGGGCCTAATGGGCCATATA
1 AATGTGA-TTGGGCCTAATGGGCCATATA
*
38665413 CAA-GTGATTTGGGCCTAATGGGCCATATG
1 -AATGTGA-TTGGGCCTAATGGGCCATATA
* *
38665442 AATATGATTGGGCTTAATGGGC
1 AATGTGATTGGGCCTAATGGGC
38665464 TAGATACAGG
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.32
29 46 0.65
30 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATA
Found at i:38668313 original size:25 final size:24
Alignment explanation
Indices: 38668266--38668322 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
38668256 AGTTAGTAAT
*
38668266 AAAGAAATGGAGAAAAAAAAAAGA
1 AAAGAAAAGGAGAAAAAAAAAAGA
*
38668290 GAAAGAAAAGGATG-AAAACAAAAGA
1 -AAAGAAAAGGA-GAAAAAAAAAAGA
*
38668315 AAAAAAAA
1 AAAGAAAA
38668323 TGTGTCCATC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 7 0.25
25 20 0.71
26 1 0.04
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.04
Consensus pattern (24 bp):
AAAGAAAAGGAGAAAAAAAAAAGA
Found at i:38669667 original size:39 final size:40
Alignment explanation
Indices: 38669620--38669751 Score: 169
Period size: 40 Copynumber: 3.3 Consensus size: 40
38669610 AGACTAAGAT
*
38669620 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
1 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTC
* * * *
38669659 CCGAAGGCATTGGTACGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTC
* * *
38669699 CCGAAGGCATGTGTGCGAGTTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGCTAAGTC
38669739 CCGAAGGCATTTG
1 CCGAAGGCATTTG
38669752 AACGAGTAGC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 34 0.44
40 44 0.56
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTC
Found at i:38669714 original size:79 final size:79
Alignment explanation
Indices: 38669620--38669774 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
38669610 AGACTAAGAT
* * *
38669620 CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGTACGAGTTA-C
1 CCGAAGGCATGTGTGCGAGATACTATA-ACCGGGCTAAGTCCCGAAGGCATTGGAACGAG-TAGC
38669682 TAAATCCGGGTTAAGTC
64 TAAATCC-GGTTAAGTC
* * *
38669699 CCGAAGGCATGTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTA
1 CCGAAGGCATGTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTGGAACGAGTAGCTA
*
38669764 TATCCGGTTAA
66 AATCCGGTTAA
38669775 ATTCCAAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
79 40 0.61
80 26 0.39
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATGTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTGGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:38669765 original size:40 final size:40
Alignment explanation
Indices: 38669568--38669758 Score: 158
Period size: 40 Copynumber: 4.8 Consensus size: 40
38669558 CGAATGATGT
* * * * * *
38669568 CCGGGCTAAGTCCTGAAGGC-TTTGTCCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTATAA
* * * * *
38669608 CCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTATA-A
*
38669648 CCGGGCTAAG-CCCGAAGGCATTGGTACGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
* * *
38669686 TCCGGGTTAAGTCCCGAAGGCATGTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
* *
38669727 CCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGT
38669759 AGCTATATCC
Statistics
Matches: 121, Mismatches: 23, Indels: 14
0.77 0.15 0.09
Matches are distributed among these distances:
39 33 0.27
40 79 0.65
41 9 0.07
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
Found at i:38676294 original size:11 final size:10
Alignment explanation
Indices: 38676277--38676315 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 10
38676267 AAGAAATGGA
38676277 AAAAAAAGAG
1 AAAAAAAGAG
38676287 AAAGAAAAGATG
1 AAA-AAAAGA-G
38676299 AAAAAAAGA-
1 AAAAAAAGAG
38676308 AAAAAAAG
1 AAAAAAAG
38676316 TGTCATCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.30
10 3 0.11
11 12 0.44
12 4 0.15
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:38677691 original size:40 final size:40
Alignment explanation
Indices: 38677551--38677732 Score: 207
Period size: 39 Copynumber: 4.7 Consensus size: 40
38677541 TCGAATGATG
* * * *
38677551 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
38677590 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAG-TACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38677629 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38677668 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38677709 --CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38677733 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 18 0.15
39 61 0.49
40 36 0.29
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38677754 original size:78 final size:78
Alignment explanation
Indices: 38677603--38677765 Score: 197
Period size: 78 Copynumber: 2.1 Consensus size: 78
38677593 GGACTAAGAT
** **
38677603 CCGAAGGCATTTGTGCGAGTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGAAGGCATTTGTGCGAGTACTAATAACGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
*
38677668 TCCGGGTTAAGTC
66 TCCGGGTTAAATC
* *
38677681 CCGAAGGCATTTGTGCGAGTTACT-ATAACGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CCGAAGGCATTTGTGCGAG-TACTAATAACGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CT
* *
38677744 ATATCC-GGTTAAATT
63 AAATCCGGGTTAAATC
38677759 CCGAAGG
1 CCGAAGG
38677766 TACGTGATTC
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 45 0.62
79 28 0.38
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTACTAATAACGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
TCCGGGTTAAATC
Found at i:38694760 original size:13 final size:12
Alignment explanation
Indices: 38694744--38694794 Score: 57
Period size: 13 Copynumber: 4.1 Consensus size: 12
38694734 TAAAGAAATG
38694744 GAGAAAAAAAATA
1 GAGAAAAAAAA-A
* *
38694757 GAGAAAGAAAAG
1 GAGAAAAAAAAA
38694769 GATGAAAAAAAAA
1 GA-GAAAAAAAAA
*
38694782 AAGAAAAAAAAA
1 GAGAAAAAAAAA
38694794 G
1 G
38694795 TGTCATCCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
12 12 0.39
13 19 0.61
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (12 bp):
GAGAAAAAAAAA
Found at i:38694786 original size:25 final size:25
Alignment explanation
Indices: 38694735--38694792 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
38694725 AGTTAGTAAT
* *
38694735 AAAGAAATGGAGAAAAAAAATAGAG
1 AAAGAAAAGGAGAAAAAAAATAAAG
38694760 AAAGAAAAGGATGAAAAAAAA-AAAG
1 AAAGAAAAGGA-GAAAAAAAATAAAG
*
38694785 AAAAAAAA
1 AAAGAAAA
38694793 AGTGTCATCC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (25 bp):
AAAGAAAAGGAGAAAAAAAATAAAG
Found at i:38696165 original size:79 final size:81
Alignment explanation
Indices: 38696029--38696211 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
38696019 TCGAATGATG
* *
38696029 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
38696093 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
38696108 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
38696170 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
38696188 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
38696212 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:38696227 original size:40 final size:40
Alignment explanation
Indices: 38696030--38696213 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
38696020 CGAATGATGT
* * * *
38696030 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
38696070 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
38696110 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
38696148 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
38696189 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
38696214 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:38696235 original size:79 final size:79
Alignment explanation
Indices: 38696082--38696246 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
38696072 GGACTAAGAT
* **
38696082 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
38696147 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
38696161 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
38696224 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
38696240 CCGAAGG
1 CCGAAGG
38696247 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:38701111 original size:42 final size:42
Alignment explanation
Indices: 38701063--38701224 Score: 229
Period size: 42 Copynumber: 3.9 Consensus size: 42
38701053 TTAGGGTTAC
*
38701063 TGAGATTACGTGTAAGACCATATCTGGGATATGACATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
*
38701105 TGAGATTTA-GTGTAAGACCATATCTGGGATATGGCATGGATA
1 TGAGA-TTACGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
38701147 TGAGACT-CGTGTAAGACCATAACTGGGTTATTGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* *
38701189 CGAGATTACATGTAAGACCATATCTGGGATATGGCA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCA
38701225 CTGGTACGGC
Statistics
Matches: 105, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
41 21 0.20
42 61 0.58
43 23 0.22
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.28
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:38704258 original size:44 final size:43
Alignment explanation
Indices: 38704154--38704298 Score: 211
Period size: 43 Copynumber: 3.4 Consensus size: 43
38704144 GTTACTGAGG
* *
38704154 TTTCGTATAAGACCATATCTAGGATATGGCATCGGTATGTGAT
1 TTTCGTATAAGACCATATCTGGGAAATGGCATCGGTATGTGAT
38704197 TTTCGTATAAGACCATATCTGGGAAATGGCATCGGTATGTGAAT
1 TTTCGTATAAGACCATATCTGGGAAATGGCATCGGTATGTG-AT
* * * *
38704241 TTTCTTATAAGACCATATTTGGGAAATGGAATCAGTATGTGA-
1 TTTCGTATAAGACCATATCTGGGAAATGGCATCGGTATGTGAT
*
38704283 TTTCGTATAAAACCAT
1 TTTCGTATAAGACCAT
38704299 GTCAGAGACA
Statistics
Matches: 93, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
42 14 0.15
43 40 0.43
44 39 0.42
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.34
Consensus pattern (43 bp):
TTTCGTATAAGACCATATCTGGGAAATGGCATCGGTATGTGAT
Found at i:38705418 original size:3 final size:3
Alignment explanation
Indices: 38705410--38705460 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
38705400 AGTAGATTTA
* * * * *
38705410 ATT ATT ATT ATT AGT AGT AGT ATT ATA ACT A-T ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
38705457 ATT A
1 ATT A
38705461 AATAAATTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (3 bp):
ATT
Found at i:38706644 original size:15 final size:14
Alignment explanation
Indices: 38706623--38706669 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
38706613 ATTACTATAA
38706623 TTTAAGTTATTTAT
1 TTTAAGTTATTTAT
*
38706637 TATTAAG-TATTAAT
1 T-TTAAGTTATTTAT
*
38706651 TTTAAATTTATTTAT
1 TTT-AAGTTATTTAT
38706666 TTTA
1 TTTA
38706670 TAGTAAGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
13 2 0.07
14 11 0.41
15 14 0.52
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (14 bp):
TTTAAGTTATTTAT
Found at i:38720094 original size:43 final size:41
Alignment explanation
Indices: 38719994--38720110 Score: 119
Period size: 42 Copynumber: 2.8 Consensus size: 41
38719984 GTAATTTGAT
*
38719994 ATCGATGCCTCTGTCCCAGACAGGGTCTTACATAAAATCAG
1 ATCGATGCCTGTGTCCCAGACAGGGTCTTACATAAAATCAG
* * * *
38720035 ATACGATGCCGGTGTCCCAGACATGGTCTTATACGTAAATCTCA-
1 AT-CGATGCCTGTGTCCCAGACAGGGTC-T-TACATAAA-ATCAG
* **
38720079 ATCGAGGCCTGTGTCCCAGACACAGTCTTACA
1 ATCGATGCCTGTGTCCCAGACAGGGTCTTACA
38720111 CGATGTCTCA
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
41 5 0.08
42 23 0.37
43 22 0.35
44 9 0.15
45 3 0.05
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (41 bp):
ATCGATGCCTGTGTCCCAGACAGGGTCTTACATAAAATCAG
Found at i:38726520 original size:41 final size:41
Alignment explanation
Indices: 38726463--38726544 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
38726453 TACGAAAGTG
38726463 CATTCAAACTTGGAGGACTGCAGGTTTTT-CCTGTTATTGTT
1 CATTCAAACTTGGAGGACTGCA-GTTTTTCCCTGTTATTGTT
38726504 CATTCAAACTTGGAGGACTGCAGTTTTTCCCTGTTATTGTT
1 CATTCAAACTTGGAGGACTGCAGTTTTTCCCTGTTATTGTT
38726545 TTTCCATAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
40 6 0.15
41 34 0.85
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (41 bp):
CATTCAAACTTGGAGGACTGCAGTTTTTCCCTGTTATTGTT
Found at i:38726731 original size:36 final size:36
Alignment explanation
Indices: 38726673--38726898 Score: 292
Period size: 36 Copynumber: 6.3 Consensus size: 36
38726663 TAAGAATTTT
* * *
38726673 TATTTTAAAAATACAAATGATTGCATTAGGTTTAAAA
1 TATTTT-AAATTAAAAATGATTGCATTAGGTATAAAA
* *
38726710 TATTTTAAATTAAAAATGATTGTATTAGGAATAAAA
1 TATTTTAAATTAAAAATGATTGCATTAGGTATAAAA
* * **
38726746 TATTTTAAATTAAAATTGATTGTATTAGGTATAAGG
1 TATTTTAAATTAAAAATGATTGCATTAGGTATAAAA
* *
38726782 TATTTTAAATTAAATATGATTGCAATAGGTATAAAA
1 TATTTTAAATTAAAAATGATTGCATTAGGTATAAAA
* *
38726818 TATTTTAAATTAATAATGATTGCATTAAGTATAAAA
1 TATTTTAAATTAAAAATGATTGCATTAGGTATAAAA
* **
38726854 TATTTTAAATTAAAAAT-ACTGTGTTAGGTATAAAA
1 TATTTTAAATTAAAAATGATTGCATTAGGTATAAAA
38726889 TATTTTAAAT
1 TATTTTAAAT
38726899 CAATTTATAA
Statistics
Matches: 165, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
35 24 0.15
36 135 0.82
37 6 0.04
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.41
Consensus pattern (36 bp):
TATTTTAAATTAAAAATGATTGCATTAGGTATAAAA
Found at i:38727248 original size:18 final size:16
Alignment explanation
Indices: 38727225--38727297 Score: 58
Period size: 18 Copynumber: 4.4 Consensus size: 16
38727215 TGTTTTAGAT
38727225 TTTTTTTCAAATTTTATA
1 TTTTTTT-AAATTTTA-A
* *
38727243 TTTTTTTAAAATATAA
1 TTTTTTTAAATTTTAA
38727259 TTTTTTTAAAATTTATAA
1 TTTTTTT-AAATTT-TAA
* * *
38727277 ATTTTTT-ATTTTTTA
1 TTTTTTTAAATTTTAA
38727292 TTTTTT
1 TTTTTT
38727298 ATTTTTTATT
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
15 7 0.16
16 12 0.27
17 10 0.22
18 16 0.36
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTTTAAATTTTAA
Found at i:38727261 original size:16 final size:17
Alignment explanation
Indices: 38727225--38727284 Score: 68
Period size: 18 Copynumber: 3.5 Consensus size: 17
38727215 TGTTTTAGAT
* *
38727225 TTTTTTTCAAATTTTATA
1 TTTTTTTAAAATTATA-A
38727243 TTTTTTTAAAA-TATAA
1 TTTTTTTAAAATTATAA
38727259 TTTTTTTAAAATTTATAA
1 TTTTTTTAAAA-TTATAA
*
38727277 ATTTTTTA
1 TTTTTTTA
38727285 TTTTTTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
16 12 0.32
17 3 0.08
18 22 0.59
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTTTTAAAATTATAA
Found at i:38727287 original size:7 final size:7
Alignment explanation
Indices: 38727277--38727317 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
38727267 AAATTTATAA
38727277 ATTTTTT
1 ATTTTTT
38727284 ATTTTTT
1 ATTTTTT
38727291 ATTTTTT
1 ATTTTTT
38727298 ATTTTTT
1 ATTTTTT
38727305 ATTTTTT
1 ATTTTTT
38727312 ATTTTT
1 ATTTTT
38727318 GAAAATTATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:38728899 original size:23 final size:23
Alignment explanation
Indices: 38728870--38728923 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
38728860 ACCCCACATG
*
38728870 GTGTGTAGGGATGGTCGGAGATT
1 GTGTGTAGGGATGGTCAGAGATT
38728893 GTGTGTAGGGATGGTCAGAGATT
1 GTGTGTAGGGATGGTCAGAGATT
38728916 GTGTGTAG
1 GTGTGTAG
38728924 AGGCTGGCGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.19, C:0.04, G:0.46, T:0.31
Consensus pattern (23 bp):
GTGTGTAGGGATGGTCAGAGATT
Found at i:38732997 original size:46 final size:46
Alignment explanation
Indices: 38732927--38733099 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
38732917 TTGGGCATCT
*
38732927 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
* * * * *
38732973 GAACTCATTGAGTTGAGTCTGAGTTCA-TGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCC
* * * *
38733020 GAGCTCTTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
* *
38733066 GAGCTCGTTGAGTTGAGTCCGAGTTCAGTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38733100 GTGGGTTACA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 59 0.57
47 28 0.27
48 3 0.03
50 6 0.06
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
Found at i:38733079 original size:93 final size:93
Alignment explanation
Indices: 38732920--38733092 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
38732910 CGGATATTTG
* * *
38732920 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
*
38732985 TTGAGTCTGAGTTCATGAGATGTAACTA
66 TTGAGTCCGAGTTCATGAGATGTAACTA
* * * * *
38733013 GGCATCCGAGCTCTTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
38733078 TTGAGTCCGAGTTCA
66 TTGAGTCCGAGTTCA
38733093 GTTATGGGTG
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):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCATGAGATGTAACTA
Found at i:38735633 original size:46 final size:48
Alignment explanation
Indices: 38735561--38735663 Score: 156
Period size: 46 Copynumber: 2.2 Consensus size: 48
38735551 GACAGGACAG
* * *
38735561 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
*
38735607 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
38735655 GACAGGAAT
1 GACAGGAAT
38735664 AATTCATGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 27 0.53
47 1 0.02
48 23 0.45
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:38736946 original size:23 final size:23
Alignment explanation
Indices: 38736920--38736963 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
38736910 GGTGACGGTT
* *
38736920 TCGAGCGTGGGGGTGTTACAGTC
1 TCGAGCATGGGGGCGTTACAGTC
*
38736943 TCGAGTATGGGGGCGTTACAG
1 TCGAGCATGGGGGCGTTACAG
38736964 AAAGAGGGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.16, C:0.16, G:0.43, T:0.25
Consensus pattern (23 bp):
TCGAGCATGGGGGCGTTACAGTC
Found at i:38737881 original size:57 final size:57
Alignment explanation
Indices: 38737820--38737964 Score: 195
Period size: 57 Copynumber: 2.5 Consensus size: 57
38737810 CACATACCTG
* * * *
38737820 TATATGGCCCACTAGGCCCAATCTC-TTTCATATGGCCCATGAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAATCACATTT-ATATAGACCATGAGGCCCAAATCACATT
*
38737877 TATATGGCCCATTAGGCCCAAATCACATTTATATAGACCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCC-AATCACATTTATATAGACCATGAGGCCCAAATCACATT
*
38737935 CATATGG-CCATTAGGCCCAAATCACATTTA
1 TATATGGCCCATTAGGCCC-AATCACATTTA
38737965 CAGTCACGCT
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
57 41 0.51
58 36 0.45
59 3 0.04
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (57 bp):
TATATGGCCCATTAGGCCCAATCACATTTATATAGACCATGAGGCCCAAATCACATT
Found at i:38737882 original size:29 final size:29
Alignment explanation
Indices: 38737820--38737964 Score: 206
Period size: 29 Copynumber: 5.1 Consensus size: 29
38737810 CACATACCTG
* *
38737820 TATATGGCCCACTAGGCCC-AATCTC-TT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
38737847 TCATATGGCCCATGAGGCCCAAATCACATT
1 T-ATATGGCCCATTAGGCCCAAATCACATT
38737877 TATATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
38737906 TATATAGACCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
38737935 CATATGG-CCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
38737963 TA
1 TA
38737965 CAGTCACGCT
Statistics
Matches: 106, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.01
28 38 0.36
29 64 0.60
30 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:38738203 original size:16 final size:16
Alignment explanation
Indices: 38738179--38738213 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
38738169 GTAGCCAAAC
*
38738179 TTTCGGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
*
38738195 TTTCAGCTTTTCGGGA
1 TTTCAGCTTTTCGGCA
38738211 TTT
1 TTT
38738214 GCCGATCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.20, G:0.23, T:0.49
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:38738967 original size:40 final size:40
Alignment explanation
Indices: 38738912--38738991 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
38738902 AAGAAAAGAA
38738912 GAGATGGTACACGACTGAAGCACACAAAAACAACAAATGC
1 GAGATGGTACACGACTGAAGCACACAAAAACAACAAATGC
38738952 GAGATGGTACACGACTGAAGCACACAAAAACAACAAATGC
1 GAGATGGTACACGACTGAAGCACACAAAAACAACAAATGC
38738992 CCTTACTTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (40 bp):
GAGATGGTACACGACTGAAGCACACAAAAACAACAAATGC
Found at i:38745042 original size:24 final size:25
Alignment explanation
Indices: 38745010--38745058 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
38745000 AGAAGAGAAT
*
38745010 GGAAAAT-AAAGAAAAAAAGTTAAA
1 GGAAAATAAAAGAAAAAAAATTAAA
*
38745034 GGAACATAAAAGAAAAAAAATTAAA
1 GGAAAATAAAAGAAAAAAAATTAAA
38745059 TTGCTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.71, C:0.02, G:0.14, T:0.12
Consensus pattern (25 bp):
GGAAAATAAAAGAAAAAAAATTAAA
Found at i:38745626 original size:25 final size:25
Alignment explanation
Indices: 38745597--38745661 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
38745587 TATTATTTAC
* *
38745597 AAAAACAATTATAT-TAATTTAATA
1 AAAAACAAATATATATAATTGAATA
*
38745621 TAAAAATAAATATATATAATTGAATA
1 -AAAAACAAATATATATAATTGAATA
38745647 AAAATA-AAATATATA
1 AAAA-ACAAATATATA
38745662 AAAGATAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 25 0.71
26 10 0.29
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (25 bp):
AAAAACAAATATATATAATTGAATA
Found at i:38748368 original size:26 final size:27
Alignment explanation
Indices: 38748332--38748384 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
38748322 TGTCAGCTAG
* *
38748332 TGAAATTTTAA-TGTTCGAATGTATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
*
38748358 TGAATTTTTAAGTGTCCGAATGCATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
38748385 CAGAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TGAAATTTTAAGTGTCCGAATGCATGC
Found at i:38750167 original size:40 final size:40
Alignment explanation
Indices: 38750118--38750237 Score: 204
Period size: 40 Copynumber: 3.0 Consensus size: 40
38750108 GTAACAACTA
* *
38750118 GCACAAATGCCTTCGGGACTTAACCCGGTTATAATAACCT
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAGTAACCT
* *
38750158 GCACGAATGCCTTCGGGACTTAACCCAGTTATAGTAACCC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAGTAACCT
38750198 GCACGAATGCCTTCGGGACTTAACCCGGTTATAGTAACCT
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAGTAACCT
38750238 ATTTATCATT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGACTTAACCCGGTTATAGTAACCT
Found at i:38757577 original size:40 final size:39
Alignment explanation
Indices: 38757528--38757680 Score: 261
Period size: 40 Copynumber: 3.8 Consensus size: 39
38757518 GTAACAACTA
* *
38757528 GCACAAATGCCTTCGGGACTTAACCCGGTTATAATAACC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAGTAACC
38757567 TGCACGAATGCCTTCGGGACTTAACCCGGTTATAGTAATCC
1 -GCACGAATGCCTTCGGGACTTAACCCGGTTATAGTAA-CC
38757608 GCACGAATGCCTTCGGGACTTAACCCGGTTATAGTAACCC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAGTAA-CC
38757648 GCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATA
38757681 TTTTTTTTCC
Statistics
Matches: 109, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
40 107 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
GCACGAATGCCTTCGGGACTTAACCCGGTTATAGTAACC
Found at i:38760341 original size:17 final size:19
Alignment explanation
Indices: 38760319--38760361 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
38760309 CTAATGTGAA
38760319 ATATGT-AT-GAGCCATGC
1 ATATGTGATAGAGCCATGC
*
38760336 ATATGTGGTAGAGCCATGC
1 ATATGTGATAGAGCCATGC
38760355 ATATGTG
1 ATATGTG
38760362 GTAAATCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 16 0.70
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (19 bp):
ATATGTGATAGAGCCATGC
Found at i:38760351 original size:19 final size:19
Alignment explanation
Indices: 38760327--38760364 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
38760317 AAATATGTAT
38760327 GAGCCATGCATATGTGGTA
1 GAGCCATGCATATGTGGTA
38760346 GAGCCATGCATATGTGGTA
1 GAGCCATGCATATGTGGTA
38760365 AATCCAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (19 bp):
GAGCCATGCATATGTGGTA
Found at i:38762374 original size:40 final size:40
Alignment explanation
Indices: 38762320--38762475 Score: 251
Period size: 40 Copynumber: 3.9 Consensus size: 40
38762310 TTCAGTATAT
*
38762320 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
* *
38762360 TATATCTGGGCTAAGTCCTGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
*
38762400 TGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
* *
38762440 TGTATCCGGGCTAAGCCCCGAAG-GCATTCGTGCTGG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
38762476 GAAAAAATCC
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.12
40 96 0.88
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
Found at i:38762865 original size:57 final size:58
Alignment explanation
Indices: 38762755--38762865 Score: 152
Period size: 57 Copynumber: 1.9 Consensus size: 58
38762745 CGAATGATTA
* * *
38762755 GAGGCACTGTGTGTGCAAATTCTTTTAACTGAGCACTATGTGTGTGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTCTTTCAACCGAGCACTATGTGTGCGAAATCGGTAATT
** * *
38762813 GAGGCACTGTGTGTGTGAGTTC-TTCAACCGAGCACTATGTGTGCGAGATCGGT
1 GAGGCACTGTGTGTGCAAATTCTTTCAACCGAGCACTATGTGTGCGAAATCGGT
38762866 CAGTGGGCAC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 27 0.59
58 19 0.41
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.32
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCAAATTCTTTCAACCGAGCACTATGTGTGCGAAATCGGTAATT
Found at i:38765286 original size:26 final size:27
Alignment explanation
Indices: 38765250--38765302 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
38765240 TGTCAGCTAG
* *
38765250 TGAAATTTTAA-TGTTCGAATGTATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
*
38765276 TGAATTTTTAAGTGTCCGAATGCATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
38765303 CAGAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TGAAATTTTAAGTGTCCGAATGCATGC
Found at i:38766634 original size:17 final size:19
Alignment explanation
Indices: 38766612--38766654 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
38766602 CTAATGTGAA
38766612 ATATGT-AT-GAGCCATGC
1 ATATGTGATAGAGCCATGC
*
38766629 ATATGTGGTAGAGCCATGC
1 ATATGTGATAGAGCCATGC
38766648 ATATGTG
1 ATATGTG
38766655 GTAAATCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 16 0.70
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (19 bp):
ATATGTGATAGAGCCATGC
Found at i:38766644 original size:19 final size:19
Alignment explanation
Indices: 38766620--38766657 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
38766610 AAATATGTAT
38766620 GAGCCATGCATATGTGGTA
1 GAGCCATGCATATGTGGTA
38766639 GAGCCATGCATATGTGGTA
1 GAGCCATGCATATGTGGTA
38766658 AATCCAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (19 bp):
GAGCCATGCATATGTGGTA
Found at i:38772125 original size:15 final size:15
Alignment explanation
Indices: 38772105--38772133 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
38772095 CTTGAGATTT
38772105 TATAGATTTGATATA
1 TATAGATTTGATATA
38772120 TATAGATTTGATAT
1 TATAGATTTGATAT
38772134 TATTAAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (15 bp):
TATAGATTTGATATA
Found at i:38777642 original size:11 final size:11
Alignment explanation
Indices: 38777626--38777655 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
38777616 GATACTCTAG
38777626 TAATTAATTTC
1 TAATTAATTTC
*
38777637 TAATTAAATTC
1 TAATTAATTTC
38777648 TAATTAAT
1 TAATTAAT
38777656 GATAAGCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (11 bp):
TAATTAATTTC
Found at i:38778722 original size:12 final size:12
Alignment explanation
Indices: 38778705--38778729 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38778695 AAAATAGGGC
38778705 TTTAGTGGCGTT
1 TTTAGTGGCGTT
38778717 TTTAGTGGCGTT
1 TTTAGTGGCGTT
38778729 T
1 T
38778730 GGACAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.32, T:0.52
Consensus pattern (12 bp):
TTTAGTGGCGTT
Found at i:38778832 original size:41 final size:41
Alignment explanation
Indices: 38778776--38779107 Score: 407
Period size: 41 Copynumber: 8.1 Consensus size: 41
38778766 GTCTGCAAGA
*
38778776 AAACGCCG-TAAAAAACTGAGCAATAGCTGCGTTTTTGGTCC
1 AAACGCCGCT-AAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* *
38778817 AAACACCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCT
1 AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* *
38778858 AAATGCCG-TAAAAAACTGAGCAATAGCGGCGTTTTTAGTCC
1 AAACGCCGCT-AAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * *
38778899 AAACGCCACTAAAAATTGAGCAATAGCGGCGTTTTTGGTTC
1 AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * * *
38778940 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTAGTTC
1 AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * * *
38778981 AAACGCTGCTAAAAACTGAGCAATAGCGGCGTTTCTAGTTC
1 AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * *
38779022 AAATGCCGCTAAAAACTGAGCAATAGTGGCATTTTTGGTCC
1 AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * * * * *
38779063 AAACACCACTAAAAACTAAGCAATAGTGGTGTTTCTGGTCC
1 AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
38779104 AAAC
1 AAAC
38779108 ACTGTAAAAA
Statistics
Matches: 257, Mismatches: 31, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
40 1 0.00
41 254 0.99
42 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (41 bp):
AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
Found at i:38779453 original size:7 final size:7
Alignment explanation
Indices: 38779393--38779453 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
38779383 CTTTCTCTAT
38779393 ACCCTAA
1 ACCCTAA
*
38779400 ACCTTAA
1 ACCCTAA
*
38779407 ACCTTAA
1 ACCCTAA
38779414 ACCCTAA
1 ACCCTAA
*
38779421 ACACTAA
1 ACCCTAA
* *
38779428 TCCATAA
1 ACCCTAA
*
38779435 ACCCCAAA
1 A-CCCTAA
38779443 ACCCTAA
1 ACCCTAA
38779450 ACCC
1 ACCC
38779454 CTCAAAAATT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
7 38 0.88
8 5 0.12
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.16
Consensus pattern (7 bp):
ACCCTAA
Found at i:38779676 original size:21 final size:21
Alignment explanation
Indices: 38779636--38779676 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
38779626 TTAAGTTTAT
*
38779636 GGTTTAGGGTTTGTTATTTTG
1 GGTTTAGGGTTTGATATTTTG
38779657 GGTTTAGGGTTT-ATAGTTTT
1 GGTTTAGGGTTTGATA-TTTT
38779677 AAAGTTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.12, C:0.00, G:0.32, T:0.56
Consensus pattern (21 bp):
GGTTTAGGGTTTGATATTTTG
Found at i:38779732 original size:22 final size:21
Alignment explanation
Indices: 38779687--38779733 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
38779677 AAAGTTTGTT
*
38779687 GTTTGGGGTTTAATGTTTAGG
1 GTTTAGGGTTTAATGTTTAGG
* *
38779708 GTTTAGGGTCTTAGTGTTTATG
1 GTTTAGGGT-TTAATGTTTAGG
38779730 GTTT
1 GTTT
38779734 TAAGGGTTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.13, C:0.02, G:0.34, T:0.51
Consensus pattern (21 bp):
GTTTAGGGTTTAATGTTTAGG
Found at i:38779750 original size:8 final size:7
Alignment explanation
Indices: 38779687--38779757 Score: 54
Period size: 7 Copynumber: 9.7 Consensus size: 7
38779677 AAAGTTTGTT
*
38779687 GTTTGGG
1 GTTTAGG
**
38779694 GTTTAAT
1 GTTTAGG
38779701 GTTTAGG
1 GTTTAGG
38779708 GTTTAGG
1 GTTTAGG
*
38779715 GTCTTAGT
1 GT-TTAGG
38779723 GTTTATGG
1 GTTTA-GG
*
38779731 TTTTAAGG
1 GTTT-AGG
38779739 G-TTAGG
1 GTTTAGG
38779745 GTGTTAGG
1 GT-TTAGG
38779753 GTTTA
1 GTTTA
38779758 ACGGCTAAGG
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
6 4 0.08
7 26 0.52
8 19 0.38
9 1 0.02
ACGTcount: A:0.15, C:0.01, G:0.37, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:38782584 original size:9 final size:9
Alignment explanation
Indices: 38782570--38782686 Score: 107
Period size: 9 Copynumber: 13.0 Consensus size: 9
38782560 CATATCATGT
38782570 CATAACTTA
1 CATAACTTA
38782579 CATAACTTA
1 CATAACTTA
38782588 -ATAACTTA
1 CATAACTTA
* *
38782596 TATATATCATA
1 CATA-A-CTTA
*
38782607 TCATAACTCA
1 -CATAACTTA
38782617 CATAACTTA
1 CATAACTTA
38782626 CATAACTTA
1 CATAACTTA
38782635 CATAACTTA
1 CATAACTTA
38782644 CATAA--TA
1 CATAACTTA
*
38782651 CATAA-ATA
1 CATAACTTA
* * *
38782659 TATATCATA
1 CATAACTTA
38782668 TCATAACTTA
1 -CATAACTTA
38782678 CATAACTTA
1 CATAACTTA
38782687 ATTGTACTTA
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
7 7 0.08
8 13 0.14
9 55 0.60
10 9 0.10
11 4 0.04
12 3 0.03
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:38782600 original size:43 final size:44
Alignment explanation
Indices: 38782553--38782688 Score: 139
Period size: 47 Copynumber: 2.8 Consensus size: 44
38782543 ACTTGACCTG
*
38782553 TATATATCATATCATGTCATAACTTACATAACTTAATAACTT-A
1 TATATATCATATCATATCATAACTTACATAACTTAATAACTTAA
38782596 TATATATCATATCATAACTCACATAACTTACATAACTTACATAACTTACA
1 TATATATCATATCAT-A-T--CATAACTTACATAACTTA-ATAACTTA-A
*
38782646 TAATACATAAATATATATCATATCATAACTTACATAACTTAAT
1 T-AT--AT--AT-CATATCATATCATAACTTACATAACTTAAT
38782689 TGTACTTATA
Statistics
Matches: 78, Mismatches: 2, Indels: 18
0.80 0.02 0.18
Matches are distributed among these distances:
43 15 0.19
45 1 0.01
47 18 0.23
48 7 0.09
50 2 0.03
51 4 0.05
52 18 0.23
53 2 0.03
54 1 0.01
55 3 0.04
56 7 0.09
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.37
Consensus pattern (44 bp):
TATATATCATATCATATCATAACTTACATAACTTAATAACTTAA
Found at i:38782611 original size:38 final size:40
Alignment explanation
Indices: 38782555--38782634 Score: 128
Period size: 38 Copynumber: 2.0 Consensus size: 40
38782545 TTGACCTGTA
* *
38782555 TATATCATATCATGTCATAACTTACATAACTTA-ATAACT
1 TATATCATATCATATCATAACTCACATAACTTACATAACT
38782594 TATAT-ATATCATATCATAACTCACATAACTTACATAACT
1 TATATCATATCATATCATAACTCACATAACTTACATAACT
38782633 TA
1 TA
38782635 CATAACTTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 25 0.66
39 13 0.34
ACGTcount: A:0.42, C:0.19, G:0.01, T:0.38
Consensus pattern (40 bp):
TATATCATATCATATCATAACTCACATAACTTACATAACT
Found at i:38782664 original size:56 final size:52
Alignment explanation
Indices: 38782570--38782686 Score: 148
Period size: 56 Copynumber: 2.2 Consensus size: 52
38782560 CATATCATGT
* *
38782570 CATAACTTACATAACTTAATAACTTATATATATCATATCATAACTCACATAACTTA
1 CATAACTTACATAACTTAATAACTCATAAATATCATATCAT-A-T--CATAACTTA
38782626 CATAACTTACATAACTTACATAA-TACATAAATAT-ATATCATATCATAACTTA
1 CATAACTTACATAACTTA-ATAACT-CATAAATATCATATCATATCATAACTTA
38782678 CATAACTTA
1 CATAACTTA
38782687 ATTGTACTTA
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
52 18 0.32
54 1 0.02
55 1 0.02
56 26 0.46
57 11 0.19
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (52 bp):
CATAACTTACATAACTTAATAACTCATAAATATCATATCATATCATAACTTA
Found at i:38788571 original size:43 final size:43
Alignment explanation
Indices: 38788523--38788714 Score: 190
Period size: 43 Copynumber: 4.5 Consensus size: 43
38788513 GCTCCATTAG
* *
38788523 AGGTCATGTTCTTAAGCGCCATTTGTATGAAAAG-AGCCGCTAA
1 AGGTCATGTTCTTTAGCGGCATTTGTATGAAAAGCA-CCGCTAA
** * ** * * **
38788566 AGGTCACATTCTTTAGCTGTGTTTTTAAGAAAAGCACTACTAA
1 AGGTCATGTTCTTTAGCGGCATTTGTATGAAAAGCACCGCTAA
* * * * *
38788609 AGGTCATGTTCTTTAGTGGCGTTTTTGTG-AAAGACGCCGCTAA
1 AGGTCATGTTCTTTAGCGGCATTTGTATGAAAAG-CACCGCTAA
* *
38788652 AGGTCATGTTCTTTAGCGGCATTTGTGTAAAAAGCACCGCTAA
1 AGGTCATGTTCTTTAGCGGCATTTGTATGAAAAGCACCGCTAA
38788695 AGGTCATGTTCTTTAGCGGC
1 AGGTCATGTTCTTTAGCGGC
38788715 GCTTTCTTAA
Statistics
Matches: 120, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
42 4 0.03
43 111 0.93
44 5 0.04
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (43 bp):
AGGTCATGTTCTTTAGCGGCATTTGTATGAAAAGCACCGCTAA
Found at i:38788640 original size:86 final size:86
Alignment explanation
Indices: 38788509--38788715 Score: 222
Period size: 86 Copynumber: 2.4 Consensus size: 86
38788499 GCGTTTTTAT
* * * * * *
38788509 AAAAGCTCCATTAGAGGTCATGTTCTTAAGCGCCATTTGTATGAAAAGA-GCCGCTAAAGGTCAC
1 AAAAGCACCACTAAAGGTCATGTTCTTTAGCGGCGTTTGTATG-AAAGACGCCGCTAAAGGTCAC
* **
38788573 ATTCTTTAGCTGTGTTT-T-TAA
65 ATTCTTTAGCGGCATTTGTGT-A
* * * * *
38788594 GAAAAGCACTACTAAAGGTCATGTTCTTTAGTGGCGTTTTTGTGAAAGACGCCGCTAAAGGTCAT
1 -AAAAGCACCACTAAAGGTCATGTTCTTTAGCGGCGTTTGTATGAAAGACGCCGCTAAAGGTCAC
*
38788659 GTTCTTTAGCGGCATTTGTGTA
65 ATTCTTTAGCGGCATTTGTGTA
*
38788681 AAAAGCACCGCTAAAGGTCATGTTCTTTAGCGGCG
1 AAAAGCACCACTAAAGGTCATGTTCTTTAGCGGCG
38788716 CTTTCTTAAA
Statistics
Matches: 100, Mismatches: 18, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
85 5 0.05
86 92 0.92
87 2 0.02
88 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (86 bp):
AAAAGCACCACTAAAGGTCATGTTCTTTAGCGGCGTTTGTATGAAAGACGCCGCTAAAGGTCACA
TTCTTTAGCGGCATTTGTGTA
Found at i:38788726 original size:43 final size:42
Alignment explanation
Indices: 38788491--38788751 Score: 188
Period size: 43 Copynumber: 6.1 Consensus size: 42
38788481 AGAACATGAC
* * * ** *
38788491 CTTTAGCAGCGTTTTTATAAAAGCTCCATTAGAGGTCATGTT
1 CTTTAGCGGCGTTTTTAAAAAAGCACCGCTAAAGGTCATGTT
* * * * * **
38788533 CTTAAGCGCCATTTGTATGAAAAG-AGCCGCTAAAGGTCACATT
1 CTTTAGCGGCGTTTTTA-AAAAAGCA-CCGCTAAAGGTCATGTT
* * **
38788576 CTTTAGCTGTGTTTTTAAGAAAAGCACTACTAAAGGTCATGTT
1 CTTTAGCGGCGTTTTTAA-AAAAGCACCGCTAAAGGTCATGTT
* *** *
38788619 CTTTAGTGGCGTTTTTGTGAAAGACGCCGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTTTTAAAAAAG-CACCGCTAAAGGTCATGTT
*
38788662 CTTTAGCGGCATTTGTGT-AAAAAGCACCGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTT-T-TAAAAAAGCACCGCTAAAGGTCATGTT
* * *
38788705 CTTTAGCGGCGCTTTCTTAAAAATG--TCGCTAAAAGTCATGTT
1 CTTTAGCGGCG-TTT-TTAAAAAAGCACCGCTAAAGGTCATGTT
38788747 CTTTA
1 CTTTA
38788752 ATGGTGTTTT
Statistics
Matches: 168, Mismatches: 42, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
42 36 0.21
43 116 0.69
44 15 0.09
45 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (42 bp):
CTTTAGCGGCGTTTTTAAAAAAGCACCGCTAAAGGTCATGTT
Found at i:38788763 original size:129 final size:128
Alignment explanation
Indices: 38788523--38788762 Score: 299
Period size: 129 Copynumber: 1.9 Consensus size: 128
38788513 GCTCCATTAG
* * *
38788523 AGGTCATGTTCTTAAGCGCCATTTGTATGAAAAGAGCCGCTAAAGGTCACATTCTTTAGCTGTGT
1 AGGTCATGTTCTTAAGCGCCATTTGTATAAAAAGAGCCGCTAAAGGTCACATTCTTTAGCGGCGT
*
38788588 TTTTAAGAAAAGCACTACTAAAGGTCATGTTCTTTAGTGGCGTTTTTGTGAAAGACGCCGCTAA
66 TTTTAAGAAAAGCACTAC-AAAGGTCATGTTCTTTAATGGCGTTTTTGTGAAAGACGCCGCTAA
* * * **
38788652 AGGTCATGTTCTTTAGCGGCATTTGTGTAAAAAGCA-CCGCTAAAGGTCATGTTCTTTAGCGGCG
1 AGGTCATGTTCTTAAGCGCCATTTGTATAAAAAG-AGCCGCTAAAGGTCACATTCTTTAGCGGCG
* * *
38788716 CTTTCTTAA-AAATGTCGCTA-AAA-GTCATGTTCTTTAATGGTGTTTTT
65 -TTT-TTAAGAAAAG-CACTACAAAGGTCATGTTCTTTAATGGCGTTTTT
38788763 TTACGTAAAT
Statistics
Matches: 95, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
128 22 0.23
129 57 0.60
130 8 0.08
131 8 0.08
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (128 bp):
AGGTCATGTTCTTAAGCGCCATTTGTATAAAAAGAGCCGCTAAAGGTCACATTCTTTAGCGGCGT
TTTTAAGAAAAGCACTACAAAGGTCATGTTCTTTAATGGCGTTTTTGTGAAAGACGCCGCTAA
Found at i:38802688 original size:89 final size:89
Alignment explanation
Indices: 38802537--38802709 Score: 321
Period size: 89 Copynumber: 1.9 Consensus size: 89
38802527 TTATAAATCA
*
38802537 ATATCATTAAACCGAATTTAACAAATCTCAATCACATGTACATTCATTATACTTATAAATTCATA
1 ATATCATTAAACCAAATTTAACAAATCTCAATCACATGTACATTCATTATACTTATAAATTCATA
38802602 GAACCACATTAAATAACTCGATTT
66 GAACCACATTAAATAACTCGATTT
38802626 ATATCATTAAACCAAATTTAACAAATCTCAATCACATGTACATTCATTATACTTA-AACATTCAT
1 ATATCATTAAACCAAATTTAACAAATCTCAATCACATGTACATTCATTATACTTATAA-ATTCAT
38802690 AGAACCACATTAAATAACTC
65 AGAACCACATTAAATAACTC
38802710 CACTTATCTT
Statistics
Matches: 82, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
88 2 0.02
89 80 0.98
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.32
Consensus pattern (89 bp):
ATATCATTAAACCAAATTTAACAAATCTCAATCACATGTACATTCATTATACTTATAAATTCATA
GAACCACATTAAATAACTCGATTT
Found at i:38803387 original size:43 final size:42
Alignment explanation
Indices: 38803339--38803481 Score: 180
Period size: 43 Copynumber: 3.3 Consensus size: 42
38803329 TTCAACGAAC
* *
38803339 TCGCACATTGAGTGCTAATTAATTAACCAAAGCTATAATTGTA
1 TCGCACATT-AGTGCTAATTAATTAGCCGAAGCTATAATTGTA
* *
38803382 TCGCACACTTAGTGCCGAA-TAATTAGCTGAAGCTATAATTGTA
1 TCGCACA-TTAGTG-CTAATTAATTAGCCGAAGCTATAATTGTA
*
38803425 TTGCACTATTAGTGCTAATTAATTAGCCGAAGCTATAATTGTA
1 TCGCAC-ATTAGTGCTAATTAATTAGCCGAAGCTATAATTGTA
*
38803468 TCGCATACTTAGTG
1 TCGCACA-TTAGTG
38803482 TCATTATATT
Statistics
Matches: 86, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
42 4 0.05
43 76 0.88
44 6 0.07
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Consensus pattern (42 bp):
TCGCACATTAGTGCTAATTAATTAGCCGAAGCTATAATTGTA
Found at i:38809916 original size:43 final size:43
Alignment explanation
Indices: 38809855--38809991 Score: 184
Period size: 43 Copynumber: 3.2 Consensus size: 43
38809845 GAACTCACAT
* * * *
38809855 ACTTAGTTCTAATTAATTAACCGAAGCTATAATTCTATCGCAC
1 ACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATCGCAC
* *
38809898 ACTTAGTGCCAATTAATTAGCTGAAGCTATAATTGTATTGCAC
1 ACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATCGCAC
** *
38809941 TGTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATCGTAC
1 ACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATCGCAC
*
38809984 AGTTAGTG
1 ACTTAGTG
38809992 TCATTATATT
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 82 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (43 bp):
ACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATCGCAC
Found at i:38811428 original size:13 final size:13
Alignment explanation
Indices: 38811410--38811435 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38811400 GTTTGAGTTG
38811410 GTTCGTATGTGAT
1 GTTCGTATGTGAT
38811423 GTTCGTATGTGAT
1 GTTCGTATGTGAT
38811436 AGATGGTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.31, T:0.46
Consensus pattern (13 bp):
GTTCGTATGTGAT
Found at i:38821800 original size:24 final size:24
Alignment explanation
Indices: 38821751--38821810 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
38821741 ACCGAATTTT
* * *
38821751 CACACATAGTGCTAATTACACTCG
1 CACACATAGTGCCAAGTAAACTCG
38821775 CACACATAGTGCCATAGTAAAC-CG
1 CACACATAGTGCCA-AGTAAACTCG
*
38821799 CACACAAAGTGC
1 CACACATAGTGC
38821811 ATTGGATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 26 0.84
25 5 0.16
ACGTcount: A:0.37, C:0.30, G:0.15, T:0.18
Consensus pattern (24 bp):
CACACATAGTGCCAAGTAAACTCG
Found at i:38833190 original size:25 final size:25
Alignment explanation
Indices: 38833144--38833195 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
38833134 CCCTTATAAT
* *
38833144 GTGAAAATGACCTTTTTGCCCCTAG
1 GTGAAAATGACCTTTATACCCCTAG
38833169 GTGAAAATGA-CTATTATACCCCTAG
1 GTGAAAATGACCT-TTATACCCCTAG
38833194 GT
1 GT
38833196 TTATGTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (25 bp):
GTGAAAATGACCTTTATACCCCTAG
Found at i:38833249 original size:10 final size:10
Alignment explanation
Indices: 38833234--38833292 Score: 82
Period size: 10 Copynumber: 5.8 Consensus size: 10
38833224 CTAATTTGTA
38833234 CATAATATGC
1 CATAATATGC
38833244 CATAATATGC
1 CATAATATGC
38833254 CATAATATGC
1 CATAATATGC
*
38833264 CATGATATGC
1 CATAATATGC
*
38833274 ACATGATATGC
1 -CATAATATGC
*
38833285 CATGATAT
1 CATAATAT
38833293 ATATATGCAT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
10 37 0.79
11 10 0.21
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.31
Consensus pattern (10 bp):
CATAATATGC
Found at i:38833259 original size:20 final size:21
Alignment explanation
Indices: 38833238--38833292 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
38833228 TTTGTACATA
*
38833238 ATATGC-CATAATATGCCATA
1 ATATGCACATAATATGCCATG
*
38833258 ATATGC-CATGATATGCACATG
1 ATATGCACATAATATGC-CATG
*
38833279 ATATGC-CATGATAT
1 ATATGCACATAATAT
38833293 ATATATGCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (21 bp):
ATATGCACATAATATGCCATG
Found at i:38833405 original size:24 final size:25
Alignment explanation
Indices: 38833335--38833403 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
38833325 AGGAAGTGCT
* * *
38833335 AAAGGGCTATGCCCCAGTTTACCGA
1 AAAGGGCTTTGCCCCAGTTTATCAA
*
38833360 AAAGAGCTTTGCCCCAGTTTATCAA
1 AAAGGGCTTTGCCCCAGTTTATCAA
*
38833385 AAAGGGCTTTACCCCAGTT
1 AAAGGGCTTTGCCCCAGTT
38833404 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (25 bp):
AAAGGGCTTTGCCCCAGTTTATCAA
Found at i:38833416 original size:24 final size:25
Alignment explanation
Indices: 38833346--38833416 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
38833336 AAGGGCTATG
* *
38833346 CCCCAGTTTACCGAAAAGA-GCTTTG
1 CCCCAGTTTATC-AAAAGAGGCTTTA
38833371 CCCCAGTTTATCAAAA-AGGGCTTTA
1 CCCCAGTTTATCAAAAGA-GGCTTTA
*
38833396 CCCCAG-TTATTAAAAGAGGCT
1 CCCCAGTTTATCAAAAGAGGCT
38833417 AGGCCTCCAG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 1 0.03
24 16 0.40
25 23 0.57
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (25 bp):
CCCCAGTTTATCAAAAGAGGCTTTA
Found at i:38835035 original size:30 final size:30
Alignment explanation
Indices: 38834989--38835049 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
38834979 TTCCCGAGCC
38834989 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* *
38835019 TAGGGGCAAAAA-TGTAATTTTGCCAAAGTT
1 TAGGGG-AAAAAGTGTAATTATGCAAAAGTT
38835049 T
1 T
38835050 GTATTAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:38843921 original size:10 final size:10
Alignment explanation
Indices: 38843906--38843964 Score: 82
Period size: 10 Copynumber: 5.8 Consensus size: 10
38843896 CTGATTTGTA
38843906 CATAATATGC
1 CATAATATGC
38843916 CATAATATGC
1 CATAATATGC
38843926 CATAATATGC
1 CATAATATGC
*
38843936 CATGATATGC
1 CATAATATGC
*
38843946 ACATGATATGC
1 -CATAATATGC
*
38843957 CATGATAT
1 CATAATAT
38843965 ATATATATGC
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
10 37 0.79
11 10 0.21
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.31
Consensus pattern (10 bp):
CATAATATGC
Found at i:38843931 original size:20 final size:21
Alignment explanation
Indices: 38843910--38843964 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
38843900 TTTGTACATA
*
38843910 ATATGC-CATAATATGCCATA
1 ATATGCACATAATATGCCATG
*
38843930 ATATGC-CATGATATGCACATG
1 ATATGCACATAATATGC-CATG
*
38843951 ATATGC-CATGATAT
1 ATATGCACATAATAT
38843965 ATATATATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (21 bp):
ATATGCACATAATATGCCATG
Found at i:38844079 original size:24 final size:25
Alignment explanation
Indices: 38844009--38844077 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
38843999 AGGAAGTGCT
* *
38844009 AAAGGGCTATGCCCCAGTTTACCG-A
1 AAAGGGCTTTGCCCCAGTTTA-TGAA
38844034 AAAGGGCTTTGCCCCAGTTTATGAA
1 AAAGGGCTTTGCCCCAGTTTATGAA
38844059 AAAGGGCTTTGCCCCAGTT
1 AAAGGGCTTTGCCCCAGTT
38844078 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (25 bp):
AAAGGGCTTTGCCCCAGTTTATGAA
Found at i:38844090 original size:24 final size:24
Alignment explanation
Indices: 38844009--38844104 Score: 81
Period size: 25 Copynumber: 3.9 Consensus size: 24
38843999 AGGAAGTGCT
* *
38844009 AAAG-GGCTATGCCCCAGTTTACCGA
1 AAAGAGGCTTTGCCCCAG-TTA-TGA
38844034 AAAG-GGCTTTGCCCCAGTTTATGA
1 AAAGAGGCTTTGCCCCAG-TTATGA
*
38844058 AAA-AGGGCTTTGCCCCAGTTATTA
1 AAAGA-GGCTTTGCCCCAGTTATGA
**
38844082 AAAGAGGCTAGGCCTCCAGTTAT
1 AAAGAGGCTTTGCC-CCAGTTAT
38844105 ATGATAAAGT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
24 20 0.32
25 42 0.68
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (24 bp):
AAAGAGGCTTTGCCCCAGTTATGA
Found at i:38844333 original size:31 final size:31
Alignment explanation
Indices: 38844298--38844376 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
38844288 CATTTACAGT
*
38844298 AAAGGCTTTGGCCCAGTGGTATGAATAATGA
1 AAAGGCTTCGGCCCAGTGGTATGAATAATGA
*
38844329 AAAGGCTTCGGCCCAGTGGTATGAATAATGT
1 AAAGGCTTCGGCCCAGTGGTATGAATAATGA
38844360 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
38844377 ATATGCTGAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGGTATGAATAATGA
Found at i:38847544 original size:43 final size:42
Alignment explanation
Indices: 38847454--38847566 Score: 122
Period size: 43 Copynumber: 2.6 Consensus size: 42
38847444 GATTACATGC
* * *
38847454 AAGACCATGTTTGGGACATTGGCATTGTATTGAGATTATGTGT
1 AAGACCATGTATGGGACATTGGCATCGTATT-AGATTATGTGA
*
38847497 AAGACCATGTCTGGGACATTGGCATCGTTAATT-GATT-TCGTGA
1 AAGACCATGTATGGGACATTGGCATCG-T-ATTAGATTAT-GTGA
* *
38847540 AAGACCTTGTATGGGACAATGGCATCG
1 AAGACCATGTATGGGACATTGGCATCG
38847567 ATATGTGTTA
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
42 1 0.02
43 56 0.92
44 1 0.02
45 3 0.05
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (42 bp):
AAGACCATGTATGGGACATTGGCATCGTATTAGATTATGTGA
Found at i:38852242 original size:27 final size:27
Alignment explanation
Indices: 38852212--38852873 Score: 814
Period size: 27 Copynumber: 24.6 Consensus size: 27
38852202 TAGTTTACCA
* * *
38852212 AATTACTAAAATATCCCTATAAGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
* *** *
38852239 AATTACCGAAATACCCCCAAAAGGTTG
1 AATTACTGAAATACCCCTGTAAGGTAG
38852266 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
*
38852293 AATTACTTAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
* *
38852320 AATTACCGAAATACCCCTGTATGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
38852347 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
** * *
38852374 AATTACCAAAATACCCTTGTATGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
* *
38852401 AATTACTAAAATACCCTTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
*
38852428 AATTACTGAAATACCCCTGTAATGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
*
38852455 AATTACT-AAGATACCCTTGTAAGGTAG
1 AATTACTGAA-ATACCCCTGTAAGGTAG
* * * *
38852482 AATTACCGAAATACCCGTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAAGGTAG
38852509 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
* * *
38852536 AATTACCGAAATACCTCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
*
38852563 AATTACTGAAATA-CCCTATAAGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
* * * * *
38852589 AATTACCGAAATATCTCTATAATGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
*
38852616 AATTACTAAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
*
38852643 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
* *
38852670 AATTATTGAAATACCCCTGTAAAGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
*
38852697 AATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAAGGTAG
38852724 AATTACTGAAATA-CCCTCGTAAGGTAG
1 AATTACTGAAATACCCCT-GTAAGGTAG
* * *
38852751 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
* *
38852778 AATTACTGAAATACCCCCGTAGGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
* *
38852805 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAAGGTAG
* *
38852832 AAATACTG-AATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAAGGTAG
* *
38852858 AATTACCGAGATACCC
1 AATTACTGAAATACCC
38852874 TCGTGGGGCA
Statistics
Matches: 552, Mismatches: 73, Indels: 20
0.86 0.11 0.03
Matches are distributed among these distances:
26 53 0.10
27 491 0.89
28 8 0.01
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAAGGTAG
Found at i:38853191 original size:20 final size:20
Alignment explanation
Indices: 38853174--38853226 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
38853164 CGAAGGCTGT
38853174 GTGCCGTTATTGTGGGCTTC
1 GTGCCGTTATTGTGGGCTTC
** *
38853194 GTATCGATATTGTGGGCTTC
1 GTGCCGTTATTGTGGGCTTC
38853214 GTGCCGATTATTG
1 GTGCCG-TTATTG
38853227 ACCCGTTATC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.11, C:0.17, G:0.32, T:0.40
Consensus pattern (20 bp):
GTGCCGTTATTGTGGGCTTC
Found at i:38853509 original size:27 final size:26
Alignment explanation
Indices: 38853454--38853559 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 26
38853444 ATTCTATTAA
*
38853454 GTGGCTTTGCCAC-A-ATCTGATTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
*
38853479 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
*
38853506 GTGGCTCTACCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* * *
38853533 GTGACTCTGTCATAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
38853559 G
1 G
38853560 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
25 12 0.17
26 14 0.20
27 39 0.56
28 5 0.07
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:38853706 original size:6 final size:6
Alignment explanation
Indices: 38853677--38853761 Score: 75
Period size: 6 Copynumber: 13.8 Consensus size: 6
38853667 TTGCATTCAC
* * * *
38853677 ATTCTG ATTTTG ATTCTA ATTCTG ATTCTG -TCACCTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
*
38853726 ATTCTG ATTCT- ATCACTTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCT
38853762 CGTTTTGATT
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
5 3 0.05
6 52 0.83
7 5 0.08
8 3 0.05
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:38853719 original size:19 final size:18
Alignment explanation
Indices: 38853695--38853756 Score: 55
Period size: 19 Copynumber: 3.7 Consensus size: 18
38853685 TTTGATTCTA
38853695 ATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGTCA-CTG
38853714 ATTCTGA-T-T-T---TG
1 ATTCTGATTCTGTCACTG
*
38853726 ATTCTGATTCTATCACTTG
1 ATTCTGATTCTGTCAC-TG
38853745 ATTCTGATTCTG
1 ATTCTGATTCTG
38853757 ATTCTCGTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 14
0.70 0.02 0.28
Matches are distributed among these distances:
12 9 0.26
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 20 0.57
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (18 bp):
ATTCTGATTCTGTCACTG
Found at i:38853722 original size:31 final size:31
Alignment explanation
Indices: 38853680--38853761 Score: 119
Period size: 31 Copynumber: 2.6 Consensus size: 31
38853670 CATTCACATT
* * *
38853680 CTGATTTTGATTCTAATTCTGATTCTGTCAC
1 CTGATTCTGATTCTGATTCTGATTCTATCAC
*
38853711 CTGATTCTGATTTTGATTCTGATTCTATCAC
1 CTGATTCTGATTCTGATTCTGATTCTATCAC
*
38853742 TTGATTCTGATTCTGATTCT
1 CTGATTCTGATTCTGATTCT
38853762 CGTTTTGATT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.18, C:0.18, G:0.13, T:0.50
Consensus pattern (31 bp):
CTGATTCTGATTCTGATTCTGATTCTATCAC
Found at i:38859241 original size:20 final size:20
Alignment explanation
Indices: 38859216--38859255 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
38859206 CTAAAGATCA
38859216 AACGGAGCTCGGTAATTGTC
1 AACGGAGCTCGGTAATTGTC
*
38859236 AACGGAGCTTGGTAATTGTC
1 AACGGAGCTCGGTAATTGTC
38859256 GAAGGTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (20 bp):
AACGGAGCTCGGTAATTGTC
Found at i:38867441 original size:39 final size:39
Alignment explanation
Indices: 38867398--38867564 Score: 262
Period size: 39 Copynumber: 4.3 Consensus size: 39
38867388 GGTCTTTAAC
* ** *
38867398 CCGGATATTTTTCCAGTACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
** *
38867437 CCGGATAAATTTCTAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
38867476 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
38867515 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
38867554 CTGGATATTTT
1 CCGGATATTTT
38867565 CAATCTCATA
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 117 1.00
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:38870290 original size:48 final size:44
Alignment explanation
Indices: 38870206--38870330 Score: 137
Period size: 47 Copynumber: 2.7 Consensus size: 44
38870196 TTCCGAGGCA
* *
38870206 GATGCATGTCCCAGATACGTCTTACACTAGCACTCATCTCAATGT-C
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCA--T-AATGTCC
*
38870252 GATGCCATGTCCCAGACATGGTCTTACACT-GTCTCTCATAATGTCGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAG-CACTCATAATGT--CC
38870300 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
38870331 CCACAATAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 14
0.80 0.03 0.16
Matches are distributed among these distances:
45 5 0.07
46 16 0.23
47 28 0.41
48 20 0.29
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCATAATGTCC
Found at i:38870316 original size:140 final size:142
Alignment explanation
Indices: 38870020--38870330 Score: 334
Period size: 140 Copynumber: 2.2 Consensus size: 142
38870010 TTGCCGATAC
* * * *
38870020 CATGTCCCAGACATGGTCTTACACTGGCTATTACCACTGAGGCTGATGCCATGTCTCAGACATGG
1 CATGTCCCAGACAT-GTCTTACACTAGCTATTACCACTGAGGCAGATGCCATGTCCCAGACATCG
* ** *
38870085 TCTTACACTAGCTCTCACATATCGGTGCCGACGCCATGTCCCAGACATGTTCTTACACTGATACA
65 TCTTACACTAGCACT-ACATATCAATGCCGACGCCATGTCCCAGACATGGTCTTACACTGATACA
* *
38870150 TTTCGTAGCCCGTG
129 TCTCATAGCCCGTG
* * *
38870164 CATGTTCCAGACATGTCTTACACTAGCTTATGT-TC-C-GAGGCAGATG-CATGTCCCAGATA-C
1 CATGTCCCAGACATGTCTTACACTAGC-TAT-TACCACTGAGGCAGATGCCATGTCCCAGACATC
* * *
38870224 GTCTTACACTAGCACT-CATCTCAATGTCGATGCCATGTCCCAGACATGGTCTTACACTG-T-C-
64 GTCTTACACTAGCACTACATATCAATGCCGACGCCATGTCCCAGACATGGTCTTACACTGATACA
38870285 TCTCATAATGTCGCCGATG
129 TCTCAT-A-G-C-CCG-TG
38870304 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
38870331 CCACAATAAT
Statistics
Matches: 143, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
135 4 0.03
136 2 0.01
137 2 0.01
138 38 0.27
139 3 0.02
140 43 0.30
141 11 0.08
142 9 0.06
143 13 0.09
144 17 0.12
145 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (142 bp):
CATGTCCCAGACATGTCTTACACTAGCTATTACCACTGAGGCAGATGCCATGTCCCAGACATCGT
CTTACACTAGCACTACATATCAATGCCGACGCCATGTCCCAGACATGGTCTTACACTGATACATC
TCATAGCCCGTG
Found at i:38874505 original size:37 final size:37
Alignment explanation
Indices: 38874446--38874592 Score: 231
Period size: 37 Copynumber: 4.0 Consensus size: 37
38874436 AGCTCAGACG
* * *
38874446 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGAAA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAA
* *
38874483 AAATCTCCACCCGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAA
*
38874520 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAA
*
38874557 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGAA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAA
38874593 TATATTTCCA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAA
Found at i:38874862 original size:47 final size:47
Alignment explanation
Indices: 38874800--38875090 Score: 393
Period size: 47 Copynumber: 6.1 Consensus size: 47
38874790 ACACGTTTCG
* * * **
38874800 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * * *
38874847 CATTGGCCATTCGGCCTCATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
38874894 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
38874941 CATTGGCCATTTGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
38874988 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
*
38875041 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
38875088 CAT
1 CAT
38875091 AAAATCCTAA
Statistics
Matches: 218, Mismatches: 20, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
47 174 0.80
49 1 0.00
51 1 0.00
53 42 0.19
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:38874941 original size:25 final size:25
Alignment explanation
Indices: 38874912--38874989 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 25
38874902 ATTCGGCCTT
38874912 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
** ** *
38874937 AT--CACATTGGCCAT-TTGGCCTT-
1 ATCACACATACG-CATGTTCACATTC
38874959 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
38874984 ATCACA
1 ATCACA
38874990 TTGGCCATTC
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 2 0.05
23 14 0.37
24 14 0.37
25 8 0.21
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.29
Consensus pattern (25 bp):
ATCACACATACGCATGTTCACATTC
Found at i:38875067 original size:147 final size:141
Alignment explanation
Indices: 38874800--38875090 Score: 429
Period size: 147 Copynumber: 2.0 Consensus size: 141
38874790 ACACGTTTCG
* **
38874800 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTC
1 CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTC
* * *
38874865 ATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
66 AGCTCATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
*
38874930 CACATTCATCA
131 CACATCCATCA
* * *
38874941 CATTGGCCATTTGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCC--
*
38875006 ATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
64 -TCA-GC-T-CATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
38875071 CATGTTCACATCCATCA
125 CATGTTCACATCCATCA
38875088 CAT
1 CAT
38875091 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
141 57 0.43
144 3 0.02
145 1 0.01
146 1 0.01
147 71 0.53
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (141 bp):
CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTC
AGCTCATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
CACATCCATCA
Found at i:38877158 original size:85 final size:85
Alignment explanation
Indices: 38877029--38877207 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
38877019 TATTTTATTG
*
38877029 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
38877094 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
38877114 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
38877179 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
38877199 CCCATGCTC
1 CCCATGCTC
38877208 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:38878725 original size:57 final size:58
Alignment explanation
Indices: 38878653--38878761 Score: 166
Period size: 57 Copynumber: 1.9 Consensus size: 58
38878643 GCCCACTGAT
* *
38878653 CGATCTCGCACACATAGTGCTTGGTT-GAAGAACTCGCACACACAGTGCCTCAATTAC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATTAC
* * *
38878710 CGATTTCGCACACATAGTGCTCGGTTAAAAGAATTTGCACACACAGTGCCTC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTC
38878762 TAATCATTCG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 24 0.52
58 22 0.48
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (58 bp):
CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATTAC
Found at i:38879005 original size:40 final size:40
Alignment explanation
Indices: 38878973--38879404 Score: 720
Period size: 40 Copynumber: 10.8 Consensus size: 40
38878963 CCAGCATGAT
* * *
38878973 TGCTCCTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * ** *
38879013 TGCTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
38879053 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
38879093 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
38879133 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
38879173 TGCTCCTCGGGACTTAGCCCCGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
38879213 TGCTCCTCGGGACTTAGCCCGGATATGTCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
38879253 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
38879293 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
38879333 TGCTCCTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
38879373 TGCTCTTCTGGACTTAGCCCGGATATATCACT
1 TGCTCCTCGGGACTTAGCCCGGATATATCACT
38879405 CTCAATTCTC
Statistics
Matches: 367, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 367 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:38880722 original size:37 final size:37
Alignment explanation
Indices: 38880681--38880804 Score: 221
Period size: 37 Copynumber: 3.4 Consensus size: 37
38880671 GAAGTTATCA
*
38880681 GGTCTTACCCGGACAAAATCTCCACACATAGTCATCG
1 GGTCTTACCCGGACAAAATCTCCACACGTAGTCATCG
38880718 GGTCTTACCCGGACAAAATCTCCACACGTAGTCATCG
1 GGTCTTACCCGGACAAAATCTCCACACGTAGTCATCG
* *
38880755 GGTCTTACCCGGACATAATCTCCACATGTAGTCATCG
1 GGTCTTACCCGGACAAAATCTCCACACGTAGTCATCG
38880792 GGTCTTACCCGGA
1 GGTCTTACCCGGA
38880805 ATATATTTCC
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 84 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
GGTCTTACCCGGACAAAATCTCCACACGTAGTCATCG
Found at i:38881075 original size:47 final size:47
Alignment explanation
Indices: 38881013--38881303 Score: 402
Period size: 47 Copynumber: 6.1 Consensus size: 47
38881003 ACACGTTTCG
* * * **
38881013 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
38881060 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
38881107 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
38881154 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * ** *
38881201 CATTGGCCATCCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
*
38881254 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
38881301 CAT
1 CAT
38881304 AAAATCCTAA
Statistics
Matches: 220, Mismatches: 18, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
47 177 0.80
49 1 0.00
51 1 0.00
53 41 0.19
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:38881284 original size:147 final size:141
Alignment explanation
Indices: 38881013--38881303 Score: 438
Period size: 147 Copynumber: 2.0 Consensus size: 141
38881003 ACACGTTTCG
* ** *
38881013 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATCCGGCCTT
* *
38881078 ATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
66 ATCTCATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
*
38881143 CACATTCATCA
131 CACATCCATCA
* *
38881154 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATCCGGCCTT
1 CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATCCGGCCTT
*
38881219 ATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
66 AT----C-T-CATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
38881284 CATGTTCACATCCATCA
125 CATGTTCACATCCATCA
38881301 CAT
1 CAT
38881304 AAAATCCTAA
Statistics
Matches: 134, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
141 61 0.46
145 1 0.01
146 1 0.01
147 71 0.53
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (141 bp):
CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATCCGGCCTT
ATCTCATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
CACATCCATCA
Found at i:38883374 original size:85 final size:86
Alignment explanation
Indices: 38883245--38883424 Score: 344
Period size: 85 Copynumber: 2.1 Consensus size: 86
38883235 TATTTTATTG
*
38883245 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATG-TTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
38883309 TTAGCCATAACATCTTGTCCA
66 TTAGCCATAACATCTTGTCCA
38883330 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
38883395 TTAGCCATAACATCTTGTCCA
66 TTAGCCATAACATCTTGTCCA
38883416 CCCATGCTC
1 CCCATGCTC
38883425 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
85 60 0.65
86 33 0.35
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.38
Consensus pattern (86 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TTAGCCATAACATCTTGTCCA
Found at i:38889452 original size:21 final size:21
Alignment explanation
Indices: 38889413--38889453 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
38889403 AATAATTTGA
** *
38889413 ATAAATTTTATGTATTTTAAT
1 ATAAATTTTATAAAATTTAAT
38889434 ATAAATTTTATAAAATTTAA
1 ATAAATTTTATAAAATTTAA
38889454 AAATTTTCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATAAATTTTATAAAATTTAAT
Found at i:38889519 original size:18 final size:18
Alignment explanation
Indices: 38889492--38889526 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38889482 AATATTTTTA
38889492 TAATTCTTTATAAATTTC
1 TAATTCTTTATAAATTTC
* *
38889510 TAATTTTTTATGAATTT
1 TAATTCTTTATAAATTT
38889527 TATAATTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (18 bp):
TAATTCTTTATAAATTTC
Found at i:38889624 original size:32 final size:30
Alignment explanation
Indices: 38889579--38889661 Score: 76
Period size: 32 Copynumber: 2.7 Consensus size: 30
38889569 TTCTTTTACT
* *
38889579 TAAATAATAAATTAAGCCCTCATAAAATAA
1 TAAAAAATCAATTAAGCCCTCATAAAATAA
** * **
38889609 CTAAAAAAATCAATTAAATCATTGTAAAATAA
1 -T-AAAAAATCAATTAAGCCCTCATAAAATAA
*
38889641 TGAAAAATCAATTAAGCCCTC
1 TAAAAAATCAATTAAGCCCTC
38889662 CACACCAATC
Statistics
Matches: 39, Mismatches: 12, Indels: 3
0.72 0.22 0.06
Matches are distributed among these distances:
30 15 0.38
31 2 0.05
32 22 0.56
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (30 bp):
TAAAAAATCAATTAAGCCCTCATAAAATAA
Found at i:38892770 original size:29 final size:29
Alignment explanation
Indices: 38892738--38892795 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
38892728 CATCTGATAG
38892738 TTAACTTGCAATAAAGTGAGATCTTTTTT
1 TTAACTTGCAATAAAGTGAGATCTTTTTT
*
38892767 TTAACTTGTAATAAAGTGAGATCTTTTTT
1 TTAACTTGCAATAAAGTGAGATCTTTTTT
38892796 GAACTTTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.47
Consensus pattern (29 bp):
TTAACTTGCAATAAAGTGAGATCTTTTTT
Found at i:38893182 original size:98 final size:98
Alignment explanation
Indices: 38893013--38893205 Score: 323
Period size: 98 Copynumber: 2.0 Consensus size: 98
38893003 CAACTTTATT
* * *
38893013 TAAGGATTCACTCATTTTTTTGCGTTGTGGTGGAGCAATTGGAACATATACACATATGCAAAAAT
1 TAAGGATTCACTCATCTTTGTGCGTTGTGATGGAGCAATTGGAACATATACACATATGCAAAAAT
*
38893078 TTACTGTCAATGTTACACGGTCTAGGCTATTTA
66 TTACTGTCAATGTTACACAGTCTAGGCTATTTA
*
38893111 TAAGGATTCACTCATCTTTGTGTGTTGTGATGGAGCAATTGGAACATATACACATATGCAAAAAT
1 TAAGGATTCACTCATCTTTGTGCGTTGTGATGGAGCAATTGGAACATATACACATATGCAAAAAT
* *
38893176 TTACTGTCGATGTTACACAGTGTAGGCTAT
66 TTACTGTCAATGTTACACAGTCTAGGCTAT
38893206 GTAGGCTGTG
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 88 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (98 bp):
TAAGGATTCACTCATCTTTGTGCGTTGTGATGGAGCAATTGGAACATATACACATATGCAAAAAT
TTACTGTCAATGTTACACAGTCTAGGCTATTTA
Found at i:38896553 original size:14 final size:14
Alignment explanation
Indices: 38896536--38896565 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
38896526 AATGAAACGT
38896536 ATGGTTTGAAATAA
1 ATGGTTTGAAATAA
38896550 ATGGTTTGAAATAA
1 ATGGTTTGAAATAA
38896564 AT
1 AT
38896566 TAATAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (14 bp):
ATGGTTTGAAATAA
Found at i:38900165 original size:15 final size:16
Alignment explanation
Indices: 38900145--38900175 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
38900135 CTCACTTTTC
38900145 TTTATTTAA-TAATTA
1 TTTATTTAATTAATTA
38900160 TTTATTTAATTAATTA
1 TTTATTTAATTAATTA
38900176 AATCAATGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTATTTAATTAATTA
Found at i:38904183 original size:14 final size:14
Alignment explanation
Indices: 38904164--38904192 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
38904154 ACTATAACAA
38904164 TAGTCACTAACCTT
1 TAGTCACTAACCTT
38904178 TAGTCACTAACCTT
1 TAGTCACTAACCTT
38904192 T
1 T
38904193 GGTAAACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.38
Consensus pattern (14 bp):
TAGTCACTAACCTT
Found at i:38905080 original size:85 final size:85
Alignment explanation
Indices: 38904937--38905111 Score: 341
Period size: 85 Copynumber: 2.1 Consensus size: 85
38904927 GGCCATGAGA
38904937 ATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATGTAA
1 ATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATGTAA
38905002 GGATTAATAAAATAAAGAGC
66 GGATTAATAAAATAAAGAGC
38905022 ATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATGTAA
1 ATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATGTAA
*
38905087 GGATTAATAAAATAAAGGGC
66 GGATTAATAAAATAAAGAGC
38905107 ATGGG
1 ATGGG
38905112 CAATAAAATA
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 89 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.27
Consensus pattern (85 bp):
ATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATGTAA
GGATTAATAAAATAAAGAGC
Found at i:38906415 original size:47 final size:47
Alignment explanation
Indices: 38906364--38906854 Score: 613
Period size: 47 Copynumber: 10.1 Consensus size: 47
38906354 TTAGGATTTT
* *
38906364 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
38906411 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
* *
38906462 ATGTGATGAATGTGAACATGCGTATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
38906509 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
* *
38906560 ATGTGATGAATGTGAACATGCGTATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** * * *
38906607 ATGTGATGAATGTGAACCTGTATATATATATATATGCGTGATAAGGTCGAATGGCCT
1 ATGTGATGAATGTGAA-C---------ATGCATATGTGTGATAAGGCCGAATGGCCA
*
38906664 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
38906711 ATGTGATGAATGTGAACATGCCTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
38906758 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
38906805 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
38906852 ATG
1 ATG
38906855 CGAAACGTGT
Statistics
Matches: 391, Mismatches: 35, Indels: 36
0.85 0.08 0.08
Matches are distributed among these distances:
47 259 0.66
48 1 0.00
49 4 0.01
51 85 0.22
56 1 0.00
57 41 0.10
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:38906475 original size:98 final size:98
Alignment explanation
Indices: 38906364--38906854 Score: 728
Period size: 98 Copynumber: 5.0 Consensus size: 98
38906354 TTAGGATTTT
*
38906364 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
38906429 CGTATATATATGTGTGATAAGGCCGAATGGCCA
66 CGTATATATATGTGTGATAAGGCCGAATGGCCA
*
38906462 ATGTGATGAATGTGAACATGCGTATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
38906527 CGTATATATATGTGTGATAAGGCCGAATGGCCA
66 CGTATATATATGTGTGATAAGGCCGAATGGCCA
*
38906560 ATGTGATGAATGTGAACATGCGTATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
* * * *
38906625 TGTATATATATATATATGCGTGATAAGGTCGAATGGCCT
66 CG------TATATATATGTGTGATAAGGCCGAATGGCCA
38906664 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
***
38906727 C--ATGCCTATGTGTGATAAGGCCGAATGGCCA
66 CGTATATATATGTGTGATAAGGCCGAATGGCCA
* * * *
38906758 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
* *
38906823 TG-A-ATATATGTG-G-TAAGGCCGAATGGCTA
66 CGTATATATATGTGTGATAAGGCCGAATGGCCA
38906852 ATG
1 ATG
38906855 CGAAACGTGT
Statistics
Matches: 362, Mismatches: 22, Indels: 22
0.89 0.05 0.05
Matches are distributed among these distances:
94 102 0.28
95 1 0.00
96 6 0.02
97 1 0.00
98 162 0.45
104 90 0.25
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (98 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
CGTATATATATGTGTGATAAGGCCGAATGGCCA
Found at i:38906669 original size:22 final size:22
Alignment explanation
Indices: 38906644--38906764 Score: 61
Period size: 23 Copynumber: 5.2 Consensus size: 22
38906634 ATATATATGC
38906644 GTGATAAGGTCGAATGGCCTAT
1 GTGATAAGGTCGAATGGCCTAT
* *
38906666 GTGATGAATGT-GAACAT-GCGTATGT
1 GTGAT-AAGGTCG-A-ATGGCCTA--T
* *
38906691 GTGATAAGGCCGAATGGCCAAT
1 GTGATAAGGTCGAATGGCCTAT
*
38906713 GTGATGAATGT-GAACAT-GCCTATGT
1 GTGAT-AAGGTCG-A-ATGGCCTA--T
* *
38906738 GTGATAAGGCCGAATGGCCAAT
1 GTGATAAGGTCGAATGGCCTAT
38906760 GTGAT
1 GTGAT
38906765 GAATGTGAAC
Statistics
Matches: 73, Mismatches: 12, Indels: 28
0.65 0.11 0.25
Matches are distributed among these distances:
22 19 0.26
23 21 0.29
24 19 0.26
25 14 0.19
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.26
Consensus pattern (22 bp):
GTGATAAGGTCGAATGGCCTAT
Found at i:38906722 original size:151 final size:153
Alignment explanation
Indices: 38906484--38906854 Score: 493
Period size: 151 Copynumber: 2.5 Consensus size: 153
38906474 TGAACATGCG
*
38906484 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGG
1 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-CCG-ATACATATGTGTGATAAGG
*
38906549 CCGAATGGCCAATGTGATGAATGTGAACATGCGTATGCGTGATAAGGCCGAATGGCCAATGTGAT
64 CCGAATGGCCAATGTGATGAATGTGAACATGCCTATGCGTGATAAGGCCGAATGGCCAATGTGAT
* *
38906614 GAATGTGAACCTGTATATATATATA
129 GAATGTGAACATGCATATATATATA
* * * *
38906639 TATGCGTGATAAGGTCGAATGGCCTATGTGATGAATGTGAA-C-ATGCGTATGTGTGATAAGGCC
1 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCGATACATATGTGTGATAAGGCC
*
38906702 GAATGGCCAATGTGATGAATGTGAACATGCCTATGTGTGATAAGGCCGAATGGCCAATGTGATGA
66 GAATGGCCAATGTGATGAATGTGAACATGCCTATGCGTGATAAGGCCGAATGGCCAATGTGATGA
38906767 ATGTGAACATGC--------ATA
131 ATGTGAACATGCATATATATATA
* * *
38906782 TAT--GAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C-ATGA-ATATATGTGGTAAGGC
1 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCGAT-ACATATGTGTGATAAGGC
*
38906842 CGAATGGCTAATG
65 CGAATGGCCAATG
38906855 CGAAACGTGT
Statistics
Matches: 198, Mismatches: 17, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
141 61 0.31
143 6 0.03
151 91 0.46
153 1 0.01
155 39 0.20
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (153 bp):
TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCGATACATATGTGTGATAAGGCC
GAATGGCCAATGTGATGAATGTGAACATGCCTATGCGTGATAAGGCCGAATGGCCAATGTGATGA
ATGTGAACATGCATATATATATA
Found at i:38906738 original size:23 final size:23
Alignment explanation
Indices: 38906660--38906738 Score: 65
Period size: 23 Copynumber: 3.4 Consensus size: 23
38906650 AGGTCGAATG
38906660 GCCTATGTGATGAATGTGAACAT
1 GCCTATGTGATGAATGTGAACAT
* * *
38906683 GCGTATGTG-TGATAAG-G-CCGAAT
1 GCCTATGTGATGA-ATGTGAAC--AT
*
38906706 GGCCAATGTGATGAATGTGAACAT
1 -GCCTATGTGATGAATGTGAACAT
38906730 GCCTATGTG
1 GCCTATGTG
38906739 TGATAAGGCC
Statistics
Matches: 41, Mismatches: 8, Indels: 14
0.65 0.13 0.22
Matches are distributed among these distances:
21 1 0.02
22 4 0.10
23 20 0.49
24 11 0.27
25 4 0.10
26 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (23 bp):
GCCTATGTGATGAATGTGAACAT
Found at i:38906917 original size:46 final size:46
Alignment explanation
Indices: 38906828--38906918 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
38906818 GAACATGAAT
* * * *
38906828 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
38906874 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
38906919 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:38906925 original size:141 final size:140
Alignment explanation
Indices: 38906364--38906903 Score: 483
Period size: 151 Copynumber: 3.7 Consensus size: 140
38906354 TTAGGATTTT
* ** * * *
38906364 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAA--
** * * * ** *
38906429 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGCGTGAT
63 C--ATGCATATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGAGAT
38906494 AAGGCCGAATGGCCA
126 AAGGCCGAATGGCCA
** * *
38906509 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAACATG-A-ATATA--TGTGATAAGGCCGAATGGCCAATGCGA-GAACGTG
* * * * **
38906574 AACATGCGTATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATATA
61 AACATGCATATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAA-C-------ATGCATA
* * *
38906639 TATGCGTGATAAGGTCGAATGGCCT
118 TAT--GAGATAAGGCCGAATGGCCA
** * * *
38906664 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAACA
* * *
38906729 TGCCTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGG
65 TGCATATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGG
38906794 CCGAATGGCCA
130 CCGAATGGCCA
* *
38906805 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAATGCGA-AACGTGTATGA
1 ATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTG-A--A
* * *
38906869 GATGGATATGTG-G-TAAAGCCAAATGGCTAATGTGA
63 CATGCATATGTGTGATAAAGCCAAATGGCCAATGTGA
38906904 GATATGTACG
Statistics
Matches: 336, Mismatches: 42, Indels: 39
0.81 0.10 0.09
Matches are distributed among these distances:
139 5 0.01
140 20 0.06
141 65 0.19
142 10 0.03
143 8 0.02
145 59 0.18
146 1 0.00
147 4 0.01
149 37 0.11
150 1 0.00
151 82 0.24
153 8 0.02
155 36 0.11
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (140 bp):
ATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTGAACAT
GCATATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGC
CGAATGGCCA
Found at i:38907111 original size:37 final size:37
Alignment explanation
Indices: 38907061--38907206 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
38907051 GGAAATATAT
*
38907061 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
38907098 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
38907135 TCCGGGTAAGACCCGATGATTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
38907172 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
38907207 CGTCTGAGCT
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:38910162 original size:18 final size:18
Alignment explanation
Indices: 38910141--38910185 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
38910131 TGCTTTCCTG
38910141 GTCAAAATTATAATGGTA
1 GTCAAAATTATAATGGTA
*
38910159 GTCAAAATTATAATGGTG
1 GTCAAAATTATAATGGTA
38910177 GTCAAAATT
1 GTCAAAATT
38910186 GCTCTCTGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (18 bp):
GTCAAAATTATAATGGTA
Found at i:38927777 original size:17 final size:17
Alignment explanation
Indices: 38927751--38927790 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
38927741 TTTTAAACAA
*
38927751 TATATTTTATTATTT-AT
1 TATATATTATT-TTTAAT
38927768 TATATATTATTTTTAAT
1 TATATATTATTTTTAAT
38927785 TATATA
1 TATATA
38927791 CCTATGTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATATATTATTTTTAAT
Found at i:38937092 original size:20 final size:20
Alignment explanation
Indices: 38937067--38937114 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
38937057 GTAATTTGTC
*
38937067 AAATAATGAAATTTTTATGA
1 AAATAAAGAAATTTTTATGA
*
38937087 AAATAAAGGAATTTTTATGA
1 AAATAAAGAAATTTTTATGA
38937107 AAATAAAG
1 AAATAAAG
38937115 TTATTTTGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.33
Consensus pattern (20 bp):
AAATAAAGAAATTTTTATGA
Found at i:38937701 original size:14 final size:14
Alignment explanation
Indices: 38937682--38937709 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
38937672 GGAATATATA
38937682 TGAATTTGATGGGC
1 TGAATTTGATGGGC
38937696 TGAATTTGATGGGC
1 TGAATTTGATGGGC
38937710 CGTGGCCCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.36, T:0.36
Consensus pattern (14 bp):
TGAATTTGATGGGC
Done.