Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 147 of 343
Found at i:48766461 original size:40 final size:40
Alignment explanation
Indices: 48766404--48766620 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
48766394 CAGATGATAA
* *
48766404 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
48766444 CCGGGCTATGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
48766484 CCGGGCT-AGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
48766523 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
48766563 CCGGGCTAACTCCTGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
48766603 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48766621 TACTTTGGTT
Statistics
Matches: 163, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 53 0.33
40 109 0.67
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48766505 original size:79 final size:80
Alignment explanation
Indices: 48766404--48766620 Score: 316
Period size: 79 Copynumber: 2.7 Consensus size: 80
48766394 CAGATGATAA
* * *
48766404 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTATGTCTCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCGGGCTAAGTCCCGAAGGCATTT
48766468 GTGCGAGTTACTATAT
65 GTGCGAGTTACTATAT
*
48766484 CCGGGCT-AGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
48766548 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
* * * *
48766563 CCGGGCTAACTCCTGAAGGCATTTGAGCGAGT-AGCTATATCC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATATCCGGGCTAAGTCCCGAAGG
48766621 TACTTTGGTT
Statistics
Matches: 126, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
79 89 0.71
80 37 0.29
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAT
Found at i:48766616 original size:119 final size:119
Alignment explanation
Indices: 48766404--48766620 Score: 316
Period size: 119 Copynumber: 1.8 Consensus size: 119
48766394 CAGATGATAA
* **
48766404 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTATGTCTCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAACTCTCGAAGGCATTTG
* *
48766469 TGCGAGTTACTATATCCGGGCTAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
66 AGCGAGTTACTATATCCGGGCTAATCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48766523 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTAACTC-CTGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAACTCTC-GAAGGCATT
48766586 TGAGCGAG-TAGCTATATCC-GGCTAAATCCCGAAGG
64 TGAGCGAGTTA-CTATATCCGGGCT-AATCCCGAAGG
48766621 TACTTTGGTT
Statistics
Matches: 88, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
118 9 0.10
119 79 0.90
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAACTCTCGAAGGCATTTG
AGCGAGTTACTATATCCGGGCTAATCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48769765 original size:15 final size:15
Alignment explanation
Indices: 48769745--48769787 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
48769735 AAATTCATGC
48769745 TTCAATCACCATGTT
1 TTCAATCACCATGTT
*
48769760 TTCAATAACCATGTT
1 TTCAATCACCATGTT
48769775 TTCAATCACCATG
1 TTCAATCACCATG
48769788 ACATCACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (15 bp):
TTCAATCACCATGTT
Found at i:48776226 original size:16 final size:16
Alignment explanation
Indices: 48776205--48776256 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
48776195 TTTGGTTCGC
48776205 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
48776221 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
48776237 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
48776253 TGTA
1 TGTA
48776257 ATGAAAAAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:48776528 original size:18 final size:17
Alignment explanation
Indices: 48776507--48776541 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48776497 TTATTATTAA
*
48776507 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
48776525 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
48776542 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:48776678 original size:16 final size:16
Alignment explanation
Indices: 48776641--48776682 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
48776631 TTAATCATAT
*
48776641 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
48776657 TT-AAATATATTATAA
1 TTAAAATATATTATAA
48776672 TTAAAATATAT
1 TTAAAATATAT
48776683 AATTTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:48776680 original size:154 final size:156
Alignment explanation
Indices: 48776394--48776691 Score: 546
Period size: 154 Copynumber: 1.9 Consensus size: 156
48776384 TAGAATACCC
48776394 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
48776459 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
48776524 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAATAA
* *
48776551 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
48776614 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
48776679 ATATAATTTAATA
131 ATATAATTTAATA
48776692 TGAATTTACT
Statistics
Matches: 138, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 77 0.56
155 1 0.01
157 60 0.43
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAATAA
Found at i:48776689 original size:14 final size:15
Alignment explanation
Indices: 48776650--48776784 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 15
48776640 TTTAAACATA
*
48776650 ATTATTATTAAATAT
1 ATTATAATTAAATAT
48776665 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
48776679 A-TATAATTTAATAT
1 ATTATAATTAAATAT
*
48776693 GAATTTACTCAAATCATAATAT
1 --A-TTA-T--AATTA-AATAT
* *
48776715 ATGATACTGTAAA-AT
1 ATTATAAT-TAAATAT
48776730 A-TA-AATTAACATA-
1 ATTATAATTAA-ATAT
*
48776743 ATTATTATTAAATAT
1 ATTATAATTAAATAT
48776758 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
48776772 A-TATAATTTAATA
1 ATTATAATTAAATA
48776785 AAATTCTTAA
Statistics
Matches: 92, Mismatches: 12, Indels: 33
0.67 0.09 0.24
Matches are distributed among these distances:
12 3 0.03
13 22 0.24
14 16 0.17
15 30 0.33
16 5 0.05
17 1 0.01
18 3 0.03
19 3 0.03
20 1 0.01
21 3 0.03
22 5 0.05
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:48776748 original size:154 final size:155
Alignment explanation
Indices: 48776433--48776748 Score: 401
Period size: 154 Copynumber: 2.0 Consensus size: 155
48776423 ATTGTTATTG
48776433 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATAATTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTA-TATTATCAATAATAAATAATTTAATCATATTTAAACATAAT
* *
48776498 TATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCATAAATT
65 TATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA-TAGCATAAATA
** * * *** **
48776563 TGTTTTGGTAAATTATTATTGTTATTG
129 TGTACTGGTAAAATATAATTAACATAA
48776590 TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAACATAATT
1 TTATTTAAATTTTAATAAGATTATATTATCAATAATAAATAATTTAATCATATTTAAACATAATT
* * *
48776653 ATTATTAAATATATTATAATTAAAATATATAATTTAATATGAA-T-TTACTCAA-ATCATAATAT
66 ATTATTAAATATATTATAATTAAAATATATAATTTAATA-AAATTCTTAAT-AATAGCATAA-AT
48776715 ATGATACT-GTAAAATATAAATTAACATAA
128 ATG-TACTGGTAAAATAT-AATTAACATAA
48776744 TTATT
1 TTATT
48776749 ATTAAATATA
Statistics
Matches: 140, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
152 6 0.04
153 16 0.11
154 92 0.66
155 3 0.02
157 23 0.16
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (155 bp):
TTATTTAAATTTTAATAAGATTATATTATCAATAATAAATAATTTAATCATATTTAAACATAATT
ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATAGCATAAATATG
TACTGGTAAAATATAATTAACATAA
Found at i:48776799 original size:44 final size:43
Alignment explanation
Indices: 48776710--48776800 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
48776700 CTCAAATCAT
* * *
48776710 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
48776753 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
48776797 AATA
1 AATA
48776801 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:48776825 original size:120 final size:119
Alignment explanation
Indices: 48776690--48776908 Score: 345
Period size: 120 Copynumber: 1.8 Consensus size: 119
48776680 TATAATTTAA
* * *
48776690 TATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-TT-AACATAATTATTATTA
1 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTTCAA-ATAATTAATATTA
48776753 AATAT-ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
64 AATATGATT-TAATT-AAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
48776810 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATTAAA
1 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATTAAA
*
48776875 TATGATTTAATTAAATATATGATTTAATAAAATT
66 TATGATTTAATTAAATATATAATTTAATAAAATT
48776909 TAAAATTATT
Statistics
Matches: 92, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
119 24 0.26
120 63 0.68
121 5 0.05
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (119 bp):
TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATTAAA
TATGATTTAATTAAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
Found at i:48776889 original size:15 final size:15
Alignment explanation
Indices: 48776869--48776907 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
48776859 AATAATTAAT
48776869 ATTAAATATGATTTA
1 ATTAAATATGATTTA
48776884 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
48776901 ATAAAAT
1 ATTAAAT
48776908 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:48776894 original size:17 final size:17
Alignment explanation
Indices: 48776874--48776907 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
48776864 TTAATATTAA
*
48776874 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
48776891 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
48776908 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:48777050 original size:93 final size:92
Alignment explanation
Indices: 48776940--48777134 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
48776930 GATTATAGTT
* * *
48776940 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
48777003 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
48777033 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
48777098 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
48777125 TATGAATTTA
1 TATGAATTTA
48777135 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:48778546 original size:11 final size:11
Alignment explanation
Indices: 48778532--48778558 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
48778522 AAAAATCAAT
48778532 ACAAAAGTTTC
1 ACAAAAGTTTC
48778543 ACAAAAGTTTC
1 ACAAAAGTTTC
48778554 ACAAA
1 ACAAA
48778559 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:48790707 original size:17 final size:17
Alignment explanation
Indices: 48790687--48790720 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
48790677 CTATAAGCCC
48790687 AATTAAACAAGTTAAAT
1 AATTAAACAAGTTAAAT
*
48790704 AATTAAGCAAGTTAAAT
1 AATTAAACAAGTTAAAT
48790721 GGCTGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.29
Consensus pattern (17 bp):
AATTAAACAAGTTAAAT
Found at i:48806643 original size:2 final size:2
Alignment explanation
Indices: 48806636--48806676 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
48806626 CCTCTCATTT
48806636 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
48806677 TTTTCCATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:48810771 original size:46 final size:46
Alignment explanation
Indices: 48810682--48810812 Score: 169
Period size: 46 Copynumber: 2.8 Consensus size: 46
48810672 TGTAACCCGC
* *
48810682 CCATAAGTGAACTCGGACTCAAA-TCAACGA-TCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACT-AAACTCAATGAGT-TC-GGACATTCGCAT
48810728 CCATAAGTGAACTCGGACTAAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTAAACTCAATGAGTTCGGACATTCGCAT
*
48810774 CCATAAGTGAACTCGGACTCAACTCAATGCGAGTTCGGA
1 CCATAAGTGAACTCGGACTAAACTCAAT--GAGTTCGGA
48810813 TGCCCAAACA
Statistics
Matches: 77, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
45 5 0.06
46 62 0.81
47 1 0.01
48 9 0.12
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTAAACTCAATGAGTTCGGACATTCGCAT
Found at i:48813036 original size:30 final size:30
Alignment explanation
Indices: 48813001--48813080 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
48812991 CAAGAAAATC
*
48813001 GAATAAAGAAATCCAAGATAGAGAAACCCA
1 GAATAAAGAAATCCAAGATAAAGAAACCCA
* *
48813031 GAATAAAGAAATCC-AGAATAAAGAGATCCA
1 GAATAAAGAAATCCAAG-ATAAAGAAACCCA
* *
48813061 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
48813081 TGATACTATG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 2 0.05
30 39 0.91
31 2 0.05
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.11
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAACCCA
Found at i:48813040 original size:15 final size:15
Alignment explanation
Indices: 48813001--48813071 Score: 90
Period size: 15 Copynumber: 4.7 Consensus size: 15
48812991 CAAGAAAATC
48813001 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
* *
48813016 -AGATAGAGAAACCCA
1 GA-ATAAAGAAATCCA
48813031 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
48813046 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
48813061 GGATAAAGAAA
1 GAATAAAGAAA
48813072 CCCAAGATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
14 1 0.02
15 45 0.96
16 1 0.02
ACGTcount: A:0.58, C:0.13, G:0.18, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:48813080 original size:15 final size:15
Alignment explanation
Indices: 48813003--48813080 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
48812993 AGAAAATCGA
48813003 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
48813018 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
48813032 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
48813047 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
48813063 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
48813078 ATA
1 ATA
48813081 TGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:48816083 original size:46 final size:46
Alignment explanation
Indices: 48816013--48816138 Score: 173
Period size: 46 Copynumber: 2.7 Consensus size: 46
48816003 TGTAACCCGC
* * * * * *
48816013 CCATAAGTGAAATCAGACTTAACTCAACGA-TCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT-TCAGACATTCGCAT
48816059 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
*
48816105 CCATAAGTGAACTCGGACTCAACTCAATGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
48816139 GGATGCCCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
46 71 0.99
47 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
Found at i:48817501 original size:28 final size:29
Alignment explanation
Indices: 48817442--48817534 Score: 161
Period size: 29 Copynumber: 3.2 Consensus size: 29
48817432 CACAATTTCT
*
48817442 TTCATATGGCCCATTAGGCCCAAATCACA
1 TTCATATGGCCCATTAGGCCCAAATCAAA
48817471 TTCATATGGCCCATTAGG-CCAAATCAAA
1 TTCATATGGCCCATTAGGCCCAAATCAAA
*
48817499 TTCATATGGCCCATTAGGCCCAAATCATA
1 TTCATATGGCCCATTAGGCCCAAATCAAA
48817528 TTCATAT
1 TTCATAT
48817535 TCATGCTTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
28 27 0.44
29 34 0.56
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (29 bp):
TTCATATGGCCCATTAGGCCCAAATCAAA
Found at i:48837425 original size:26 final size:26
Alignment explanation
Indices: 48837389--48837440 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
48837379 TGAGAGTTAA
48837389 GGCAGTCTGTACTTCGGGAAGCTTAT
1 GGCAGTCTGTACTTCGGGAAGCTTAT
48837415 GGCAGTCTGTACTTCGGGAAGCTTAT
1 GGCAGTCTGTACTTCGGGAAGCTTAT
48837441 AGTAGCCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (26 bp):
GGCAGTCTGTACTTCGGGAAGCTTAT
Found at i:48846290 original size:30 final size:30
Alignment explanation
Indices: 48846244--48846303 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
48846234 TTCCCGAGCC
*
48846244 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
48846274 TAGGGGTAAAAATGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
48846304 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:48854939 original size:80 final size:80
Alignment explanation
Indices: 48854775--48854996 Score: 268
Period size: 80 Copynumber: 2.8 Consensus size: 80
48854765 TATTCGAATG
* * * *
48854775 ATATCC-GGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
48854839 ATTCGTACGAGTTGCT
65 ATTCGTACGAGTCGCT
* ** * *
48854855 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTAGCAATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
48854920 TTTGTGCTAG-CGACT
66 TTCGTACGAGTCG-CT
* * *
48854935 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAG
48854997 ACCTTGCGCA
Statistics
Matches: 119, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
79 1 0.01
80 93 0.78
81 25 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTACGAGTCGCT
Found at i:48854994 original size:40 final size:40
Alignment explanation
Indices: 48854775--48854996 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
48854765 TATTCGAATG
* *
48854775 ATATCC-GGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * * * *
48854815 ATAACCGGACTAAGATCCGAAGGCATTCGTACGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* * ** *
48854855 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTAGCAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
48854895 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
48854935 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
48854975 ACATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
48854997 ACCTTGCGCA
Statistics
Matches: 148, Mismatches: 31, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
40 126 0.85
41 22 0.15
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:48854996 original size:120 final size:120
Alignment explanation
Indices: 48854775--48854996 Score: 270
Period size: 120 Copynumber: 1.9 Consensus size: 120
48854765 TATTCGAATG
** * *
48854775 ATATCCGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGCA
1 ATATCCGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGCA
* * * * *
48854840 TTCGTACGAGTTGCTATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTAGCAATT
66 TTCATACGAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAATT
* *
48854895 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCC-GGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* * *
48854958 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAG
64 CATTCATACGAGTTG-CCACATCCGGGCTAAGACCCGAAG
48854997 ACCTTGCGCA
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
119 3 0.04
120 58 0.68
121 24 0.28
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (120 bp):
ATATCCGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGCA
TTCATACGAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAATT
Found at i:48862311 original size:40 final size:40
Alignment explanation
Indices: 48862187--48862409 Score: 223
Period size: 40 Copynumber: 5.5 Consensus size: 40
48862177 TATTCGAATG
* * *
48862187 ATATCCGAGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * * ** *
48862228 ATAACCGGACTAAGATCCAAAGGCATTCATGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* * *
48862268 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
48862308 ATATCCGGGATAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * *
48862348 ATATCTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
48862388 ACATCCGGGCTAAGGCCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
48862410 ACCTTGCGCA
Statistics
Matches: 148, Mismatches: 32, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
39 1 0.01
40 121 0.82
41 26 0.18
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:48880725 original size:46 final size:46
Alignment explanation
Indices: 48880563--48880734 Score: 152
Period size: 46 Copynumber: 3.7 Consensus size: 46
48880553 TATAACCCGC
* * * * *
48880563 CCATAAGCAAACTCGGACTCAACTGAACAAGCTCGGCCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGAAT
* * * * *
48880609 CCATAAGTGAACTCTGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-TTCG--A-AT
* * *
48880659 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACGTTCGAAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGAAT
* *
48880702 CCATAAGTGAACTCGGACTCAACTAAACGAGCT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCT
48880735 TAAATGCCTA
Statistics
Matches: 97, Mismatches: 22, Indels: 14
0.73 0.17 0.11
Matches are distributed among these distances:
43 2 0.02
44 2 0.02
45 2 0.02
46 57 0.59
47 29 0.30
48 2 0.02
49 1 0.01
50 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGAAT
Found at i:48880731 original size:93 final size:93
Alignment explanation
Indices: 48880572--48880833 Score: 362
Period size: 93 Copynumber: 2.8 Consensus size: 93
48880562 CCCATAAGCA
* * * * *
48880572 AACTCGGACTCAACTGAACAAGCTCGGCCGTTCGCATCCATAAGTGAACTCTGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
48880637 GAGCTCGGATGCCTAGTTACATCTCACG
66 GAGCTCGGATGCCTAGTTACATCTCACG
* * *
48880665 AACTCGGACTCAACTCAACGAGTTTGGACGTTCGAATCCATAAGTGAACTCGGACTCAACTAAAC
1 AACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*** *
48880730 GAGCTTAAATGCCTAGTTACGTCTCACG
66 GAGCTCGGATGCCTAGTTACATCTCACG
** * * *
48880758 AACTTAGACTCAACTCAAGGAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCAAT
1 AACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
48880823 GAGTTCGGATG
66 GAGCTCGGATG
48880834 TCCAAATATC
Statistics
Matches: 145, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 145 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCACG
Found at i:48882943 original size:6 final size:6
Alignment explanation
Indices: 48882927--48882991 Score: 51
Period size: 6 Copynumber: 10.3 Consensus size: 6
48882917 AAGCATAAGC
* * **
48882927 AAAATA GAAAATAA AAAATA ACAAATA AAAATA ACAATA ATAATA ATAAAGG
1 AAAATA -AAAAT-A AAAATA A-AAATA AAAATA AAAATA AAAATA A-AAATA
48882979 AAAAT- AAAATA AA
1 AAAATA AAAATA AA
48882992 TAGCTAACTA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
5 5 0.10
6 23 0.48
7 19 0.40
8 1 0.02
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:48882946 original size:14 final size:14
Alignment explanation
Indices: 48882935--48882963 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
48882925 GCAAAATAGA
48882935 AAATAAAAAATAAC
1 AAATAAAAAATAAC
48882949 AAAT-AAAAATAAC
1 AAATAAAAAATAAC
48882962 AA
1 AA
48882964 TAATAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (14 bp):
AAATAAAAAATAAC
Found at i:48882993 original size:25 final size:25
Alignment explanation
Indices: 48882911--48882993 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
48882901 AATCAAAGAT
*
48882911 AATAATAAGCATAAGCAAAATAGAAAATA
1 AATAATAA-CA-AAG-AAAA-ATAAAATA
* *
48882940 AAAAATAACAAATAAAAATAACAAT-
1 AATAATAACAAAGAAAAATAA-AATA
* *
48882965 AATAATAATAAAGGAAAATAAAATA
1 AATAATAACAAAGAAAAATAAAATA
48882990 AATA
1 AATA
48882994 GCTAACTAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
24 3 0.07
25 24 0.53
26 7 0.16
27 2 0.04
28 2 0.04
29 7 0.16
ACGTcount: A:0.71, C:0.05, G:0.06, T:0.18
Consensus pattern (25 bp):
AATAATAACAAAGAAAAATAAAATA
Found at i:48883297 original size:12 final size:13
Alignment explanation
Indices: 48883280--48883309 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
48883270 TCCAACAGGA
48883280 AAAAGGGAA-GGG
1 AAAAGGGAATGGG
48883292 AAAAGGGAATGGG
1 AAAAGGGAATGGG
48883305 AAAAG
1 AAAAG
48883310 CCGAAGAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.53, C:0.00, G:0.43, T:0.03
Consensus pattern (13 bp):
AAAAGGGAATGGG
Found at i:48885819 original size:40 final size:41
Alignment explanation
Indices: 48885703--48885992 Score: 269
Period size: 40 Copynumber: 7.3 Consensus size: 41
48885693 ACCCAAGTAT
* * * *
48885703 CTTCGGGATTTAG-CCGGATA-TAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATTAGCAACTCGCACAAATGC
* * * * *
48885741 CTTCGGGTCTTAGCCCGGATA-TGGTC-TCTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATTAG-CAACTCGCACAAATGC
*
48885781 CTTCGGGTCTTAGCCCGGATA-TAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAGCAACTCGCACAAATGC
* * * *
48885821 CTTCGAGACTTAGCTCGGA-ATTAGTAACTCGCACCAATGC
1 CTTCGGGACTTAGCCCGGATATTAGCAACTCGCACAAATGC
* * *
48885861 CTTCGGGACTTAGCTC-GAAATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAGCAACTCGCACAAATGC
* *
48885901 CTTCGGGACTCAGCCCGGA-ATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAGCAACTCGCACAAATGC
* * * *
48885941 CTTCGGGACTCAGCCCGGA-ATTAATC-ACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATATT-AGCAACTCGCACAAATGC
*
48885981 CTTTGGGACTTA
1 CTTCGGGACTTA
48885993 ACCCCGTTAG
Statistics
Matches: 217, Mismatches: 27, Indels: 14
0.84 0.10 0.05
Matches are distributed among these distances:
38 11 0.05
39 17 0.08
40 186 0.86
41 3 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
CTTCGGGACTTAGCCCGGATATTAGCAACTCGCACAAATGC
Found at i:48885960 original size:120 final size:120
Alignment explanation
Indices: 48885775--48885992 Score: 312
Period size: 120 Copynumber: 1.8 Consensus size: 120
48885765 TCTCTAGCAT
* * * *
48885775 AAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGACTTAGCTCGGA
1 AAATGCCTTCGGGACTCAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGACTCAGCCCGGA
* * *
48885840 ATTAGTAACTCGCACCAATGCCTTCGGGACTTAGCTCGAAATTAGTAACTCGCAC
66 ATTAATAACTAGCACAAATGCCTTCGGGACTTAGCTCGAAATTAGTAACTCGCAC
* *
48885895 AAATGCCTTCGGGACTCAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTCAGCCCGG
1 AAATGCCTTCGGGACTCAGCCCGGATA-TAGCAACTCGCACAAATGCCTTCGAGACTCAGCCCGG
* * *
48885959 AATTAATCACTAGCACAAATGTCTTTGGGACTTA
65 AATTAATAACTAGCACAAATGCCTTCGGGACTTA
48885993 ACCCCGTTAG
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
119 1 0.01
120 84 0.99
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (120 bp):
AAATGCCTTCGGGACTCAGCCCGGATATAGCAACTCGCACAAATGCCTTCGAGACTCAGCCCGGA
ATTAATAACTAGCACAAATGCCTTCGGGACTTAGCTCGAAATTAGTAACTCGCAC
Found at i:48887396 original size:13 final size:13
Alignment explanation
Indices: 48887378--48887402 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48887368 ACATGAGAAC
48887378 CTTTTTTTCTTCT
1 CTTTTTTTCTTCT
48887391 CTTTTTTTCTTC
1 CTTTTTTTCTTC
48887403 ATCATTTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
CTTTTTTTCTTCT
Found at i:48894006 original size:39 final size:40
Alignment explanation
Indices: 48893963--48894186 Score: 310
Period size: 40 Copynumber: 5.7 Consensus size: 40
48893953 GGATATAACC
* * * *
48893963 ACTCGCAC-AAGGCCATCGGGTCTTAGCCCGG-ATATAGCA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
48894002 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
48894042 ACTCGCAC-AATGCCTTCGGGACTTAGCTCGAAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
48894081 ACTCGCACAAATGCCTTCGGGACTCAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
48894121 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
48894161 ACTAGCACAAATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
48894187 ACCCCGTTAG
Statistics
Matches: 167, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 45 0.27
40 120 0.72
41 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:48894033 original size:40 final size:40
Alignment explanation
Indices: 48893938--48894186 Score: 285
Period size: 40 Copynumber: 6.3 Consensus size: 40
48893928 AACCAAGTAT
* * * *
48893938 CTTCGGGATTTAG-CCGG-ATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGAAT-TAGCAACTCGCACAAATGC
* *
48893976 CATCGGGTCTTAGCCCGG-ATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGAAT-TAGCAACTCGCACAAATGC
*
48894016 CTTCGGGACTTAGCCCGGAATTAGTAACTCGCAC-AATGC
1 CTTCGGGACTTAGCCCGGAATTAGCAACTCGCACAAATGC
* * *
48894055 CTTCGGGACTTAGCTCGAAATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGAATTAGCAACTCGCACAAATGC
* *
48894095 CTTCGGGACTCAGCCCGGAATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGAATTAGCAACTCGCACAAATGC
* * * *
48894135 CTTCGGGACTTAGCCCAGAATTAATC-ACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGAATT-AGCAACTCGCACAAATGC
48894175 CTTCGGGACTTA
1 CTTCGGGACTTA
48894187 ACCCCGTTAG
Statistics
Matches: 186, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
38 10 0.05
39 55 0.30
40 118 0.63
41 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGAATTAGCAACTCGCACAAATGC
Found at i:48894068 original size:79 final size:78
Alignment explanation
Indices: 48893963--48894186 Score: 306
Period size: 79 Copynumber: 2.8 Consensus size: 78
48893953 GGATATAACC
* * * *
48893963 ACTCGCACAAGGCCATCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGAAT-TAGCAACTCGCACAAATGCCTTCGGGACTTA
48894028 GCCCGGAATTAGTA
65 GCCCGGAATTAGTA
* * *
48894042 ACTCGCACAATGCCTTCGGGACTTAGCTCGAAATTAGTAACTCGCACAAATGCCTTCGGGACTCA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCG-AATTAGCAACTCGCACAAATGCCTTCGGGACTTA
48894107 GCCCGGAATTAGTA
65 GCCCGGAATTAGTA
* * *
48894121 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAATC-ACTAGCACAAATGTCTTCGGGACT
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCC-GAATT-AGCAACTCGCACAAATGCCTTCGGGACT
48894185 TA
63 TA
48894187 ACCCCGTTAG
Statistics
Matches: 128, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
79 77 0.60
80 49 0.38
81 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (78 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGAATTAGCAACTCGCACAAATGCCTTCGGGACTTAG
CCCGGAATTAGTA
Found at i:48895627 original size:26 final size:27
Alignment explanation
Indices: 48895575--48895628 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
48895565 TGAGAACCTT
* * * *
48895575 TTTTTCTTTTCTTTTTTTTCTTCATCA
1 TTTTCCTTTTCATTATTTTATTCATCA
48895602 TTTTCCTTTTCATTATTTTATT-ATCA
1 TTTTCCTTTTCATTATTTTATTCATCA
48895628 T
1 T
48895629 GCTCCTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTTCCTTTTCATTATTTTATTCATCA
Found at i:48903797 original size:40 final size:40
Alignment explanation
Indices: 48903678--48903776 Score: 180
Period size: 40 Copynumber: 2.5 Consensus size: 40
48903668 GATGATAACT
*
48903678 GGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
48903718 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
48903758 GGGCTAAGTCCCAAAGGCA
1 GGGCTAAGTCCCGAAGGCA
48903777 GTTGAGTGAG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:48907505 original size:28 final size:28
Alignment explanation
Indices: 48907442--48907592 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
48907432 ATATTAAGTC
*
48907442 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
48907469 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
48907497 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
48907525 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
48907553 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
48907582 CGCACACTTAG
1 CGCACACTTAG
48907593 CGCCAATCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:48915176 original size:40 final size:40
Alignment explanation
Indices: 48915121--48915298 Score: 252
Period size: 40 Copynumber: 4.5 Consensus size: 40
48915111 CGGATGATAA
*
48915121 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
48915161 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48915201 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
48915241 CCGAGCTAAGTCTCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
48915281 CC-GGCTAAATCCTGAAGG
1 CCGGGCTAAGTCCCGAAGG
48915299 TACTTGGTTT
Statistics
Matches: 124, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 14 0.11
40 110 0.89
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48925408 original size:43 final size:43
Alignment explanation
Indices: 48925361--48925455 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
48925351 TCATAGATAA
*
48925361 GGTCTTACACGAAATCAT-AATACGATCCCAATGTCCCAAACAT
1 GGTCTTACACGAAATC-TCAATACAATCCCAATGTCCCAAACAT
* * * * *
48925404 GGTCTTATATGCAATCTCAATACAATGCTAATGTCCCAAACAT
1 GGTCTTACACGAAATCTCAATACAATCCCAATGTCCCAAACAT
*
48925447 GATCTTACA
1 GGTCTTACA
48925456 TGTAATCACA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 1 0.02
43 42 0.98
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGAAATCTCAATACAATCCCAATGTCCCAAACAT
Found at i:48933831 original size:21 final size:20
Alignment explanation
Indices: 48933789--48933847 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
48933779 GTCTTTTAAG
* *
48933789 AAAATGATAAATAAAGACAA
1 AAAATGAAAAATAAAAACAA
*
48933809 AAAATGCAAAAAT-AAAA-AT
1 AAAATG-AAAAATAAAAACAA
*
48933828 AAAAT-AAAAAGAAAAACAA
1 AAAATGAAAAATAAAAACAA
48933847 A
1 A
48933848 TCAAAATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
17 5 0.16
18 4 0.13
19 8 0.26
20 9 0.29
21 5 0.16
ACGTcount: A:0.76, C:0.05, G:0.07, T:0.12
Consensus pattern (20 bp):
AAAATGAAAAATAAAAACAA
Found at i:48941944 original size:118 final size:119
Alignment explanation
Indices: 48941763--48941984 Score: 299
Period size: 118 Copynumber: 1.9 Consensus size: 119
48941753 TCCTCGTTCA
*
48941763 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
48941828 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * **
48941882 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
48941944 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
48941985 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
117 4 0.04
118 66 0.73
119 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:48941984 original size:40 final size:40
Alignment explanation
Indices: 48941761--48941984 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
48941751 GCTCCTCGTT
* *
48941761 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
48941801 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
48941841 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
48941881 C-AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
48941919 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
48941960 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48941985 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 24 0.15
39 21 0.13
40 107 0.65
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:48946889 original size:26 final size:27
Alignment explanation
Indices: 48946860--48946919 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
48946850 GCACATATAT
*
48946860 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
48946886 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
48946913 ATATCTG
1 ATATCTG
48946920 GCAGCTTTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:48956336 original size:30 final size:30
Alignment explanation
Indices: 48956280--48956337 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
48956270 CACGGCCATG
* *
48956280 ACACACGGGCATGTGGTCTACTCGTGTGTC
1 ACACACGGACATGTGGTCTACCCGTGTGTC
*
48956310 ACACACGGACGTGTGGATC-ACCCGTGTG
1 ACACACGGACATGTGG-TCTACCCGTGTG
48956338 GAAGTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.19, C:0.28, G:0.31, T:0.22
Consensus pattern (30 bp):
ACACACGGACATGTGGTCTACCCGTGTGTC
Found at i:48964351 original size:16 final size:15
Alignment explanation
Indices: 48964327--48964356 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
48964317 AACTGTTTTA
48964327 TTACAAATTTCACTC
1 TTACAAATTTCACTC
48964342 TTACATAATTTCACT
1 TTACA-AATTTCACT
48964357 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:48964625 original size:49 final size:49
Alignment explanation
Indices: 48964561--48964735 Score: 181
Period size: 51 Copynumber: 3.5 Consensus size: 49
48964551 CTGGTACGCA
*
48964561 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCAGGTACACG
* * ** * * *
48964610 TAGTAGCCTGCACTTAGTACTACACACGTGATTGAAACTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA--CCAACAATCAGGTACACG
* * * ** *
48964661 TAATAGCCTGTACTTAGTACTACACATGCGACCTAACCATTTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCAGGTACACG
*
48964711 TAGTATCCTGCACTTAG-ACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
48964736 CGTGACCTAA
Statistics
Matches: 100, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
49 37 0.37
50 24 0.24
51 39 0.39
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCAGGTACACG
Found at i:48964678 original size:51 final size:50
Alignment explanation
Indices: 48964542--48964691 Score: 167
Period size: 49 Copynumber: 3.0 Consensus size: 50
48964532 TTACCACAAC
* * *
48964542 TGAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA
1 TGAAACTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA
** * * * * *
48964592 -CCAACAATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
1 TGAAACTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA
* * *
48964641 TTGAAACTATCAGGTACGCATAATAGCCTGTACTTAGTACTACACATGCGA
1 -TGAAACTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA
48964692 CCTAACCATT
Statistics
Matches: 79, Mismatches: 19, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
49 40 0.51
51 39 0.49
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (50 bp):
TGAAACTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA
Found at i:48964732 original size:100 final size:100
Alignment explanation
Indices: 48964542--48964740 Score: 301
Period size: 100 Copynumber: 2.0 Consensus size: 100
48964532 TTACCACAAC
* * *
48964542 TGAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTAC
1 TGAAACTATCAGGTACGCATAATAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTAC
48964607 ACGTAGTAGCCTGCACTTAGTACTACACACGTGAT
66 ACGTAGTAGCCTGCACTTAGTACTACACACGTGAT
* * **
48964642 TGAAACTATCAGGTACGCATAATAGCCTGTACTTAGTACTACACATGCGACCTAACCATTTGGTA
1 TGAAACTATCAGGTACGCATAATAGCCTGCACTTAGTACTACACATGCGACC-AACAATCCGGTA
* *
48964707 CATGTAGTATCCTGCACTTAG-ACTACACACGTGA
65 CACGTAGTAGCCTGCACTTAGTACTACACACGTGA
48964741 CCTAAAACCA
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
100 61 0.69
101 28 0.31
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (100 bp):
TGAAACTATCAGGTACGCATAATAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTAC
ACGTAGTAGCCTGCACTTAGTACTACACACGTGAT
Found at i:48964743 original size:49 final size:50
Alignment explanation
Indices: 48964561--48964745 Score: 187
Period size: 49 Copynumber: 3.7 Consensus size: 50
48964551 CTGGTACGCA
* *
48964561 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCAGGTACACG
* * * * *
48964610 TAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAACTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCT--AACAATCAGGTACACG
* * * * ** *
48964661 TAATAGCCTGTACTTAGTACTACACATGCGACCTAACCATTTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCAGGTACACG
* *
48964711 TAGTATCCTGCACTTAG-ACTACACACGTGACCTAA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
48964746 AACCATTTTA
Statistics
Matches: 109, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
49 45 0.41
50 24 0.22
51 39 0.36
52 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCAGGTACACG
Found at i:48964787 original size:101 final size:100
Alignment explanation
Indices: 48964559--48964789 Score: 275
Period size: 101 Copynumber: 2.3 Consensus size: 100
48964549 ATCTGGTACG
48964559 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAGTAGCCTGCACT
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAGTAGCCTGCACT
* * * ** *
48964624 TAGTACTACACACGTGATTGAAACTATCAGGTACG
66 TAGTACTACACACGTGACTAAAACCATCAGAAACA
* * * ** * *
48964659 CATAATAGCCTGTACTTAGTACTACACATGCGACCTAACCATTTGGTACATGTAGTATCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCCGGTACACGTAGTAGCCTGCAC
***
48964724 TTAG-ACTACACACGTGACCTAAAACCATTTTAAACA
65 TTAGTACTACACACGTGA-CTAAAACCATCAGAAACA
* *
48964760 CATAGTAGCTTGCACATAGTACTACACATG
1 CATAGTAGCCTGCACTTAGTACTACACATG
48964790 TGTTCTCACA
Statistics
Matches: 109, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
100 46 0.42
101 63 0.58
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (100 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAGTAGCCTGCACT
TAGTACTACACACGTGACTAAAACCATCAGAAACA
Found at i:48967784 original size:15 final size:15
Alignment explanation
Indices: 48967744--48967809 Score: 69
Period size: 15 Copynumber: 4.3 Consensus size: 15
48967734 TCTAAAATAT
*
48967744 AGATAAAAGAAAACCA
1 AGAT-AAAGAAATCCA
* * *
48967760 GGATTAAGAAGTCCA
1 AGATAAAGAAATCCA
*
48967775 AGATAGAGAAATCCA
1 AGATAAAGAAATCCA
*
48967790 AAATAAAGAAATCCA
1 AGATAAAGAAATCCA
48967805 AGATA
1 AGATA
48967810 CAATATCATA
Statistics
Matches: 39, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
15 36 0.92
16 3 0.08
ACGTcount: A:0.58, C:0.12, G:0.17, T:0.14
Consensus pattern (15 bp):
AGATAAAGAAATCCA
Found at i:48971769 original size:56 final size:56
Alignment explanation
Indices: 48971693--48971900 Score: 249
Period size: 56 Copynumber: 3.7 Consensus size: 56
48971683 GATGACATGA
* *
48971693 TACATGCTAGGTCCGAGAGCTTGTGTAGCCCCATTGAGAGACATGTAATTATGTGG
1 TACATGCTAGGTCCGGGAGCTTATGTAGCCCCATTGAGAGACATGTAATTATGTGG
*
48971749 TACATGCTAGTTCCGGGAGCTTATGTAGCCCCATTGAGAGACATGTAATTATGTGG
1 TACATGCTAGGTCCGGGAGCTTATGTAGCCCCATTGAGAGACATGTAATTATGTGG
* * ** * * ** *
48971805 TACACGCTAGGTCTGGGAGCTTATGTAGCCCTGTTAAGAGGC--GTGGTTATGTGA
1 TACATGCTAGGTCCGGGAGCTTATGTAGCCCCATTGAGAGACATGTAATTATGTGG
* **
48971859 TACATGCTAGGTCCGGGTGTTCTTATGTAGCCTTATTGAGAG
1 TACATGCTAGGTCCGGGAG--CTTATGTAGCCCCATTGAGAG
48971901 GCGTGCTATG
Statistics
Matches: 131, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
54 25 0.19
56 106 0.81
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (56 bp):
TACATGCTAGGTCCGGGAGCTTATGTAGCCCCATTGAGAGACATGTAATTATGTGG
Found at i:48975288 original size:50 final size:50
Alignment explanation
Indices: 48975172--48975460 Score: 256
Period size: 50 Copynumber: 5.7 Consensus size: 50
48975162 AACCGAAGCT
* * ** *
48975172 ATCTGGTACACATAGTAGCTTGCACTTAGTACTACACATGCAACC-AACA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* *
48975221 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTATACACGTGACCTAACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * ** *
48975271 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCTAACC
* * * * * * * *
48975322 ACCCGGTACGCATAGAAGCTTGCACTTAGTACTATACATGCGACCTAACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
** * * * *
48975372 ATCTGGTACATGTAGTATCCTGCATTTTGTACTACACACGTGATCTAAAACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACC
* *** * *
48975424 ATTTTAAACATATAGTAGCCTGCACATAGTACTACAC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACAC
48975461 TTGTGTTTTC
Statistics
Matches: 188, Mismatches: 48, Indels: 5
0.78 0.20 0.02
Matches are distributed among these distances:
49 39 0.21
50 80 0.43
51 37 0.20
52 32 0.17
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (50 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:48975374 original size:101 final size:100
Alignment explanation
Indices: 48975172--48975416 Score: 296
Period size: 101 Copynumber: 2.5 Consensus size: 100
48975162 AACCGAAGCT
* * * * * * *
48975172 ATCTGGTACACATAGTAGCTTGCACTTAGTACTACACA--TGCAACCAACAATCTGGTACACGTA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTG-ATCAAACAACCCGGTACACATA
* *
48975235 GTAGCCTGCACTTAGTACTATACACGTGACCTAACC
65 GAAGCCTGCACTTAGTACTATACACGCGACCTAACC
* * *
48975271 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTACCCGGTACGCATA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-AAACAACCCGGTACACATA
* *
48975336 GAAGCTTGCACTTAGTACTATACATGCGACCTAACC
65 GAAGCCTGCACTTAGTACTATACACGCGACCTAACC
* * * *
48975372 ATCTGGTACATGTAGTATCCTGCATTTTGTACTACACACGTGATC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC
48975417 TAAAACCATT
Statistics
Matches: 124, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
99 35 0.28
100 2 0.02
101 87 0.70
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (100 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAACAACCCGGTACACATAG
AAGCCTGCACTTAGTACTATACACGCGACCTAACC
Found at i:48976240 original size:33 final size:33
Alignment explanation
Indices: 48976193--48976285 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 33
48976183 CATGGCTAGC
* * *
48976193 CTATGGCATTCTGATGAGAAGATCATAGTTGGG
1 CTATGGCATCCTGATGAGAAGACCATAGCTGGG
* * *
48976226 CTATGGTATCCTGATTATAAGACCATAGCTGGG
1 CTATGGCATCCTGATGAGAAGACCATAGCTGGG
* * * *
48976259 GTATGGCATTCTGCTGATAAGACCATA
1 CTATGGCATCCTGATGAGAAGACCATA
48976286 ACCCGGTTAT
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (33 bp):
CTATGGCATCCTGATGAGAAGACCATAGCTGGG
Found at i:48982050 original size:26 final size:24
Alignment explanation
Indices: 48982012--48982092 Score: 65
Period size: 26 Copynumber: 3.2 Consensus size: 24
48982002 TGGCTATCCA
*
48982012 GAGC-TCCTGATTAAAGGCTCTTCGT
1 GAGCTTCCTAATTAAA-GCTCTT-GT
*
48982037 GAGCTTCCTAATTAAAAGTTCTTTGT
1 GAGCTTCCTAATT-AAAGCTC-TTGT
* * * *
48982063 GAACTTTCTAATTATAGCTCTTAT
1 GAGCTTCCTAATTAAAGCTCTTGT
48982087 GAGCTT
1 GAGCTT
48982093 TCTATTATAT
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
24 8 0.18
25 9 0.20
26 23 0.51
27 5 0.11
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.40
Consensus pattern (24 bp):
GAGCTTCCTAATTAAAGCTCTTGT
Found at i:48986689 original size:39 final size:39
Alignment explanation
Indices: 48986645--48986916 Score: 436
Period size: 39 Copynumber: 7.0 Consensus size: 39
48986635 ATTATATTAT
* * *
48986645 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATCTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
48986684 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
48986723 CAGCATGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
48986762 CAGCACGAAGCCTGCGGGACTTTAGTCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
48986801 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
48986840 CAGCACGAAGCCTGCGGAACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
48986879 CAGCACGAAGCCTGCGGGACTTTAGCCTGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
48986917 TCAGTGTCTT
Statistics
Matches: 215, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 215 1.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:48990007 original size:52 final size:52
Alignment explanation
Indices: 48989939--48990041 Score: 179
Period size: 52 Copynumber: 2.0 Consensus size: 52
48989929 GGGAAAACTC
48989939 ATGATTTCGGCAATTGAGAGCATTTTTGGTAAAACCAATCATAAAACTTTTT
1 ATGATTTCGGCAATTGAGAGCATTTTTGGTAAAACCAATCATAAAACTTTTT
* * *
48989991 ATGATTTTGGCAATTGATAGCATTTTTGGTAAAACCAGTCATAAAACTTTT
1 ATGATTTCGGCAATTGAGAGCATTTTTGGTAAAACCAATCATAAAACTTTT
48990042 CCCTTCTCTA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.38
Consensus pattern (52 bp):
ATGATTTCGGCAATTGAGAGCATTTTTGGTAAAACCAATCATAAAACTTTTT
Found at i:48993937 original size:27 final size:26
Alignment explanation
Indices: 48993893--48993944 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
48993883 CTTGCTGTAA
*
48993893 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
48993920 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
48993945 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:48997118 original size:105 final size:105
Alignment explanation
Indices: 48996936--48997308 Score: 606
Period size: 105 Copynumber: 3.6 Consensus size: 105
48996926 TTGTATATAA
** * *
48996936 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTAATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
48997001 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* ** *
48997041 AGGGGTTGATGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
48997106 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
48997146 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
*
48997210 TTGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCTCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
48997250 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
48997309 ATAACGGTTA
Statistics
Matches: 254, Mismatches: 12, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
104 83 0.33
105 170 0.67
106 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:48997265 original size:27 final size:26
Alignment explanation
Indices: 48997224--48997276 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
48997214 AATGTGAAAG
*
48997224 GGGGTTGCTATGTGCTGATTCTCCCGA
1 GGGGTTGCTAAGTGCTGATTC-CCCGA
48997251 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
48997277 TTCAGCGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.13, C:0.23, G:0.34, T:0.30
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:49000347 original size:26 final size:26
Alignment explanation
Indices: 49000318--49000368 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
49000308 CTTTATACTG
* *
49000318 ATTACTGGCAGCTTTGCTGCGATACC
1 ATTACTGGCAGCTCTACTGCGATACC
*
49000344 ATTACTTGCAGCTCTACTGCGATAC
1 ATTACTGGCAGCTCTACTGCGATAC
49000369 TGATATTGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (26 bp):
ATTACTGGCAGCTCTACTGCGATACC
Found at i:49009431 original size:48 final size:47
Alignment explanation
Indices: 49009358--49009580 Score: 205
Period size: 48 Copynumber: 4.6 Consensus size: 47
49009348 ATTGAAATAC
* * * * *
49009358 GTGTAAGACCATGTTTGGGACATGGCATCAGCGTTGATATGTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGATACGAGAGCTA
* * *** *
49009406 GGGTAAGACCATGTCTGGGACATGGCATTGGCCCACATTACGAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGG-CTTGA-TACGAGAGCTA
* * * * *
49009455 CTGTAAGACCATGCCTGGGACATGGCATCGGCAATGAGACAAGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGATACGAGAGCTA
* * * *
49009503 GTGTAAGACCATGTTTGGGACATGGCATCGACTTCA-ACATGTGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATAC--GAGAGCTA
49009551 GTGTAAGACCATGTCTGGGACATGGCATCG
1 GTGTAAGACCATGTCTGGGACATGGCATCG
49009581 ACATTTTACC
Statistics
Matches: 140, Mismatches: 30, Indels: 10
0.78 0.17 0.06
Matches are distributed among these distances:
46 2 0.01
47 2 0.01
48 100 0.71
49 36 0.26
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATACGAGAGCTA
Found at i:49010370 original size:15 final size:15
Alignment explanation
Indices: 49010350--49010379 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
49010340 GTATAGTACC
49010350 GTATTTTGGATATTT
1 GTATTTTGGATATTT
49010365 GTATTTTGGATATTT
1 GTATTTTGGATATTT
49010380 CCTATCATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (15 bp):
GTATTTTGGATATTT
Found at i:49013085 original size:39 final size:40
Alignment explanation
Indices: 49013023--49013115 Score: 134
Period size: 39 Copynumber: 2.4 Consensus size: 40
49013013 AGCTAAATGT
* * *
49013023 GGCATTTAGTATGCGGTTCGAGATAGCTTCAGCTATGTAC
1 GGCACTTAGTGTGCGATTCGAGATAGCTTCAGCTATGTAC
* *
49013063 -GCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATGTAC
1 GGCACTTAGTGTGCGATTCGAGATAGCTTCAGCTATGTAC
49013102 GGCACTTAGTGTGC
1 GGCACTTAGTGTGC
49013116 AAGATATTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 34 0.72
40 13 0.28
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.32
Consensus pattern (40 bp):
GGCACTTAGTGTGCGATTCGAGATAGCTTCAGCTATGTAC
Found at i:49013152 original size:28 final size:28
Alignment explanation
Indices: 49013121--49013213 Score: 111
Period size: 28 Copynumber: 3.4 Consensus size: 28
49013111 TGTGCAAGAT
49013121 ATTGAGTATGGCACTTAGTGTACGGAAC
1 ATTGAGTATGGCACTTAGTGTACGGAAC
* *
49013149 ATTGAGAATGGCACTTAGTGT--GTGAGAT
1 ATTGAGTATGGCACTTAGTGTACG-GA-AC
*
49013177 GTTGAGTATGGCACTTAGTGTACGG-AC
1 ATTGAGTATGGCACTTAGTGTACGGAAC
*
49013204 ATTGAATATG
1 ATTGAGTATG
49013214 CAACAGTATT
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
26 1 0.02
27 11 0.20
28 40 0.74
29 1 0.02
30 1 0.02
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.31
Consensus pattern (28 bp):
ATTGAGTATGGCACTTAGTGTACGGAAC
Found at i:49013188 original size:56 final size:55
Alignment explanation
Indices: 49013102--49013208 Score: 178
Period size: 56 Copynumber: 1.9 Consensus size: 55
49013092 GGCTATGTAC
49013102 GGCACTTAGTGTGCAAGATATTGAGTATGGCACTTAGTGTACGGAACATTGAGAAT
1 GGCACTTAGTGTGCAAGATATTGAGTATGGCACTTAGTGTACGG-ACATTGAGAAT
** *
49013158 GGCACTTAGTGTGTGAGATGTTGAGTATGGCACTTAGTGTACGGACATTGA
1 GGCACTTAGTGTGCAAGATATTGAGTATGGCACTTAGTGTACGGACATTGA
49013209 ATATGCAACA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 7 0.15
56 41 0.85
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.30
Consensus pattern (55 bp):
GGCACTTAGTGTGCAAGATATTGAGTATGGCACTTAGTGTACGGACATTGAGAAT
Found at i:49026565 original size:45 final size:45
Alignment explanation
Indices: 49026481--49026641 Score: 204
Period size: 45 Copynumber: 3.6 Consensus size: 45
49026471 CTGGCATTTC
* * *
49026481 GCCTGCTAGGATCGAA-GCCCG-ATA-TCATTTCACCGGTATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCACCGGTATTATA
* *
49026524 GCGTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCAGTATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGTATTATA
* * *
49026569 GCCTGTTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATCATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGTATTATA
*
49026614 GCCTGCTAGGCTCAAA-GCCCAAATAGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
49026642 CCGTACAATA
Statistics
Matches: 103, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
43 13 0.13
44 16 0.16
45 73 0.71
46 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGTATTATA
Found at i:49030498 original size:27 final size:27
Alignment explanation
Indices: 49030395--49030516 Score: 93
Period size: 27 Copynumber: 4.6 Consensus size: 27
49030385 ATAAATACCT
* *
49030395 CACATAGGGGCAAAACAGTCAATTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
** ****
49030422 CATGTAAGGGCGTTTCAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * * *
49030449 CAAAT-AGGGGAAAACTGTTATTTTTC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
49030475 CACATAAGGGCAAAACAGTCATTTCAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
49030502 CTCATAAGGGAAAAA
1 CACATAAGGGCAAAA
49030517 TAGACATTCT
Statistics
Matches: 68, Mismatches: 26, Indels: 2
0.71 0.27 0.02
Matches are distributed among these distances:
26 17 0.25
27 51 0.75
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:49040497 original size:15 final size:16
Alignment explanation
Indices: 49040465--49040498 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
49040455 TTAAGTCACG
*
49040465 AAATTTTCACAAATAT
1 AAATTTCCACAAATAT
49040481 AAATTTCCACAAA-AT
1 AAATTTCCACAAATAT
49040496 AAA
1 AAA
49040499 CACATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATTTCCACAAATAT
Found at i:49052006 original size:49 final size:48
Alignment explanation
Indices: 49051845--49052118 Score: 182
Period size: 49 Copynumber: 5.7 Consensus size: 48
49051835 CATTGGATGG
* * *
49051845 TATGCGAGCCAGTGTAACACATGTCTGGGACATGCATCAACATTG--A
1 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAACATCGATA
* * * * * * *
49051891 GACGAGAGCTAGTGTAAGACATGTCTGGGGCATGCATCGACCTCGAGA
1 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAACATCGATA
* * * *
49051939 TAT-ACAAGCTAGTGTAAGACTTGTCTGGGACATGGCATCAATATCGATA
1 TATGA-GAGCCAGTGTAAGACATGTCTGGGACAT-GCATCAACATCGATA
* * * ** *
49051988 AATGAGAGCCAGTGTAAGACCTGTTTGGGACATAGCATCGGCCTCGATA
1 TATGAGAGCCAGTGTAAGACATGTCTGGGACAT-GCATCAACATCGATA
* * * * * *
49052037 TATGAAAGTCAGTGTAAGATC-TTTCTGGGACATGACATCGA-TTCTA-A
1 TATGAGAGCCAGTGTAAGA-CATGTCTGGGACATG-CATCAACATCGATA
* ** *
49052084 TGTGCTAGCCAGTGTAAGACCATGACTGGGACATG
1 TATGAGAGCCAGTGTAAGA-CATGTCTGGGACATG
49052119 GCGTCGGCAT
Statistics
Matches: 177, Mismatches: 43, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
46 36 0.20
47 18 0.10
48 42 0.24
49 79 0.45
50 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAACATCGATA
Found at i:49052051 original size:98 final size:94
Alignment explanation
Indices: 49051854--49052075 Score: 243
Period size: 98 Copynumber: 2.3 Consensus size: 94
49051844 GTATGCGAGC
* * * * *
49051854 CAGTGTAACACATGTCTGGGACAT-GCATCAACATTGAGACGAGAGCTAGTGTAAGACATGTCTG
1 CAGTGTAAGACTTGTCTGGGACATGGCATCAACATCGAAACGAGAGCCAGTGTAAGACATGTCTG
*
49051918 GGGCATGCATCGACCTCGAGATATACAAG
66 GGACATGCATCGACCTCGAGATATACAAG
* * *
49051947 CTAGTGTAAGACTTGTCTGGGACATGGCATCAATATCGATAAATGAGAGCCAGTGTAAGACCTGT
1 C-AGTGTAAGACTTGTCTGGGACATGGCATCAACATCG--AAACGAGAGCCAGTGTAAGACATGT
* * *
49052012 TTGGGACATAGCATCGGCCTCGATATATGA-AAG
63 CTGGGACAT-GCATCGACCTCGAGATAT-ACAAG
*
49052045 TCAGTGTAAGATCTT-TCTGGGACATGACATC
1 -CAGTGTAAGA-CTTGTCTGGGACATGGCATC
49052076 GATTCTAATG
Statistics
Matches: 108, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
93 1 0.01
94 21 0.19
95 10 0.09
97 28 0.26
98 43 0.40
99 5 0.05
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (94 bp):
CAGTGTAAGACTTGTCTGGGACATGGCATCAACATCGAAACGAGAGCCAGTGTAAGACATGTCTG
GGACATGCATCGACCTCGAGATATACAAG
Found at i:49056003 original size:42 final size:41
Alignment explanation
Indices: 49055893--49056019 Score: 123
Period size: 42 Copynumber: 3.0 Consensus size: 41
49055883 ATATCGTACA
* * *
49055893 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCACATGTCG
1 ATGCCAACGTCCCAGAC-TGGTCTTACACG-AATCACATATCG
*
49055936 ATGCC-ACTATCCCAGA-TAGGATCTTACACGAATCACATATCG
1 ATGCCAAC-GTCCCAGACT-GG-TCTTACACGAATCACATATCG
* *
49055978 ATGCCAACGTCCCAGACCTGGTCTTAAACGAGAACACATATC
1 ATGCCAACGTCCCAGA-CTGGTCTTACACGA-ATCACATATC
49056020 AAAAATCCTA
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
41 1 0.01
42 36 0.51
43 32 0.46
44 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (41 bp):
ATGCCAACGTCCCAGACTGGTCTTACACGAATCACATATCG
Found at i:49056658 original size:30 final size:30
Alignment explanation
Indices: 49056622--49056681 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
49056612 TGTAAAAACA
49056622 GCAGTTGAATGAAAAGCCGGTTTATCAATC
1 GCAGTTGAATGAAAAGCCGGTTTATCAATC
49056652 GCAGTTGAATGAAAAGCCGGTTTATCAATC
1 GCAGTTGAATGAAAAGCCGGTTTATCAATC
49056682 TTTAGGCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (30 bp):
GCAGTTGAATGAAAAGCCGGTTTATCAATC
Found at i:49067810 original size:28 final size:27
Alignment explanation
Indices: 49067710--49067810 Score: 78
Period size: 28 Copynumber: 3.5 Consensus size: 27
49067700 TTAGTGTTAA
* *
49067710 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
* *
49067738 CTGGGCCATAGCCCTTA-CAGTAACAGAGTGT
1 CTGGGCC-TAGCCCATATCAGTATCA-A---T
*
49067769 AATGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
49067797 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
49067811 TATTACAAGT
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
27 11 0.19
28 23 0.40
31 10 0.18
32 13 0.23
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:49067882 original size:19 final size:20
Alignment explanation
Indices: 49067839--49067884 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
49067829 ATTGGGTCTT
49067839 GCCCATATTAACACAGCTAG
1 GCCCATATTAACACAGCTAG
* * *
49067859 GCCCATTTTAATACAG-TTG
1 GCCCATATTAACACAGCTAG
49067878 GCCCATA
1 GCCCATA
49067885 ATAAAACAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (20 bp):
GCCCATATTAACACAGCTAG
Found at i:49067893 original size:19 final size:19
Alignment explanation
Indices: 49067839--49067894 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
49067829 ATTGGGTCTT
*
49067839 GCCCATATTAACACAGCTAG
1 GCCCATATTAAAACAG-TAG
* * *
49067859 GCCCATTTTAATACAGTTG
1 GCCCATATTAAAACAGTAG
*
49067878 GCCCATAATAAAACAGT
1 GCCCATATTAAAACAGT
49067895 CTCATATGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (19 bp):
GCCCATATTAAAACAGTAG
Found at i:49072475 original size:19 final size:20
Alignment explanation
Indices: 49072421--49072475 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
49072411 ATTGGGTCTT
* *
49072421 GCCCATATTAACACAGTTGG
1 GCCCATATTAAAACAGATGG
* *
49072441 GCCCATTTTAATACAGAT-G
1 GCCCATATTAAAACAGATGG
*
49072460 GCCCATAATAAAACAG
1 GCCCATATTAAAACAG
49072476 TCTCATATGA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (20 bp):
GCCCATATTAAAACAGATGG
Found at i:49075739 original size:16 final size:17
Alignment explanation
Indices: 49075718--49075751 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
49075708 ATTAAATTAA
49075718 TTTTAATTAATT-ATTT
1 TTTTAATTAATTAATTT
49075734 TTTTAATTAATTAATTT
1 TTTTAATTAATTAATTT
49075751 T
1 T
49075752 CTCAATCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTAATTAATTAATTT
Found at i:49082456 original size:40 final size:39
Alignment explanation
Indices: 49082412--49082555 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
49082402 GCCACTAGCT
* *
49082412 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
49082452 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
* *
49082491 TAAATGCCTTCGGGACTTAGCTCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
*
49082530 CGAATGCCTTCGGGACTTAGCCCGGT
1 CAAATGCCTTCGGGACTTAGCCCGGT
49082556 TATCAACCGA
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 72 0.74
40 25 0.26
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
Found at i:49089258 original size:23 final size:23
Alignment explanation
Indices: 49089227--49089275 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
49089217 AATTTAAATA
*
49089227 TTTTATTTAT-TTAATTGTTCTAT
1 TTTTATTTATCTTAATT-ATCTAT
*
49089250 TTTTTTTTATCTTAATTATCTAT
1 TTTTATTTATCTTAATTATCTAT
49089273 TTT
1 TTT
49089276 AATTGTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTTATTTATCTTAATTATCTAT
Found at i:49091934 original size:40 final size:39
Alignment explanation
Indices: 49091876--49091960 Score: 91
Period size: 39 Copynumber: 2.2 Consensus size: 39
49091866 ACTTAATTCA
* * *
49091876 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCTGCGGGACTCT-AACCCAGATACAATC
* *
49091916 CCAGCATGAAG-CTAGCGGGTCTCTAACCTAGATACAATC
1 CCAGCATGAAGCCT-GCGGGACTCTAACCCAGATACAATC
*
49091955 TCAGCA
1 CCAGCA
49091961 CAATTCATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
39 20 0.53
40 18 0.47
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (39 bp):
CCAGCATGAAGCCTGCGGGACTCTAACCCAGATACAATC
Found at i:49092145 original size:47 final size:46
Alignment explanation
Indices: 49092034--49092154 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 46
49092024 TGCACACTTT
* *
49092034 TCACAATTGGTCATTCGGCCTTATCACA-TATTCACGTACACATATA
1 TCAC-ATTGGCCATTCGGCCTTATCACATTATGCACGTACACATATA
** * * *
49092080 TCACATTAACCATCCGGCCTTATCACATGTATGCACTTCCACAT-TCA
1 TCACATTGGCCATTCGGCCTTATCACAT-TATGCACGTACACATAT-A
49092127 TCACATTGGCCATTCGGCCTTATCACAT
1 TCACATTGGCCATTCGGCCTTATCACAT
49092155 ATCATGGCCA
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
45 19 0.31
46 5 0.08
47 38 0.61
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.31
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCTTATCACATTATGCACGTACACATATA
Found at i:49095888 original size:40 final size:40
Alignment explanation
Indices: 49095838--49096195 Score: 592
Period size: 40 Copynumber: 8.9 Consensus size: 40
49095828 GAATACACAT
* * *
49095838 CACCAGCACGAATGCTCTTCGGGACCTAGCCCGAATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
* *
49095878 CACCAGCACGAATGCTCTTCGAGACTTAGCACGAATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
* * *
49095918 CACCAACACGAAAGCTCTTCGAGACTTAGCCCGAATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
*
49095958 CACCAGCACGAATGCTCTTCGAGACTAAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
49095998 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
*
49096038 CACCAGCATGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
*
49096078 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
49096118 CACCAGCACGAATGCTCTTC-AGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGA-GACTTAGCCCGGATATAA
*
49096158 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATAT
49096196 CTAACTCTCA
Statistics
Matches: 300, Mismatches: 16, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
40 300 1.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.20
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
Found at i:49098566 original size:40 final size:39
Alignment explanation
Indices: 49098508--49098592 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 39
49098498 ACTTAATTCA
* * * *
49098508 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCT-AACCCAGATACAATC
* *
49098548 CCAGCATGAAGCCAGCGGGTCTCTAACCTAGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAACCCAGATACAATC
*
49098587 TCAGCA
1 CCAGCA
49098593 CAATTCATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 18 0.47
40 20 0.53
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.19
Consensus pattern (39 bp):
CCAGCATGAAGCCAGCGGGACTCTAACCCAGATACAATC
Found at i:49098777 original size:47 final size:46
Alignment explanation
Indices: 49098666--49098786 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 46
49098656 TGCACACTTT
* *
49098666 TCACAATTGGTCATTCGGCCTTATCACA-TATTCACGTACACATATA
1 TCAC-ATTGGCCATTCGGCCTTATCACATTATGCACGTACACATATA
** * * *
49098712 TCACATTAACCATCCGGCCTTATCACATGTATGCACTTCCACAT-TCA
1 TCACATTGGCCATTCGGCCTTATCACAT-TATGCACGTACACATAT-A
49098759 TCACATTGGCCATTCGGCCTTATCACAT
1 TCACATTGGCCATTCGGCCTTATCACAT
49098787 ATCATGGCCA
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
45 19 0.31
46 5 0.08
47 38 0.61
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.31
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCTTATCACATTATGCACGTACACATATA
Found at i:49102531 original size:40 final size:40
Alignment explanation
Indices: 49102485--49102802 Score: 546
Period size: 40 Copynumber: 8.0 Consensus size: 40
49102475 GAATACACAT
* *
49102485 CACCAGCATGAATGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
49102525 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
49102565 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
49102605 CACCAACACGAATGCTCTTCGAGACTTAGCTCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
49102645 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
49102685 CACGAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
49102725 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
49102765 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
49102803 CTAACTCTCA
Statistics
Matches: 264, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 264 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:49106159 original size:89 final size:90
Alignment explanation
Indices: 49106053--49106218 Score: 282
Period size: 89 Copynumber: 1.9 Consensus size: 90
49106043 GCCCATAAGT
**
49106053 GAACTCGGACTCAACTCAACGAGCTCGG-GGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCAA
49106117 CGAG-TCGGATGCCTAGTTACATCTC
65 CGAGTTCGGATGCCTAGTTACATCTC
*
49106142 GAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTGCATCCATAAGTGAACTCGGACTCAACTCAAC
49106207 GAGTTCGGATGC
66 GAGTTCGGATGC
49106219 TCAACATCCT
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
89 62 0.86
90 10 0.14
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.21
Consensus pattern (90 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTC
Found at i:49106215 original size:45 final size:43
Alignment explanation
Indices: 49106045--49106216 Score: 204
Period size: 45 Copynumber: 3.9 Consensus size: 43
49106035 TGTAACCCGC
* *
49106045 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGATT-GCAT
*
49106090 CCATAAGTGAACTCGGACTCAACTCAACGAG-TCGGA-TGCCT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATTGCAT
*** *
49106131 AGTTACATCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTGCAT
1 CCATA-A-GT-GAACTCGGACTCAACTCAACGAGTTCGG--ATTGCAT
49106179 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
49106217 GCTCAACATC
Statistics
Matches: 109, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
41 5 0.05
42 2 0.02
43 5 0.05
44 25 0.23
45 63 0.58
46 1 0.01
47 2 0.02
48 6 0.06
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (43 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATTGCAT
Found at i:49108598 original size:15 final size:15
Alignment explanation
Indices: 49108570--49108631 Score: 72
Period size: 15 Copynumber: 4.2 Consensus size: 15
49108560 AGAAAACCGA
*
49108570 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
49108585 ATAGAGAAACCCAA-
1 ATAAAGAAACCCAAG
* * *
49108599 ATAAAGAGATCCAGG
1 ATAAAGAAACCCAAG
49108614 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
49108629 ATA
1 ATA
49108632 CGATACTATG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
14 10 0.27
15 27 0.73
ACGTcount: A:0.56, C:0.16, G:0.16, T:0.11
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:49108601 original size:29 final size:29
Alignment explanation
Indices: 49108559--49108627 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 29
49108549 CAAAGATAAC
* *
49108559 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCAAATAAAGAAATCCAAGATA
* * *
49108588 GAGAAACCCAAATAAAGAGATCCAGGATA
1 AAGAAACCCAAATAAAGAAATCCAAGATA
49108617 AAGAAACCCAA
1 AAGAAACCCAA
49108628 GATACGATAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.58, C:0.17, G:0.16, T:0.09
Consensus pattern (29 bp):
AAGAAACCCAAATAAAGAAATCCAAGATA
Found at i:49111659 original size:93 final size:93
Alignment explanation
Indices: 49111547--49111718 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
49111537 GCCCATAAGT
* *
49111547 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
49111612 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
49111640 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
49111705 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
49111719 AAAATCCTAG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:49111714 original size:46 final size:46
Alignment explanation
Indices: 49111539--49111714 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
49111529 TGTAACCCGC
* *
49111539 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
49111585 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
49111631 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
49111678 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
49111715 TGCCAAAATC
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:49113272 original size:47 final size:46
Alignment explanation
Indices: 49113161--49113281 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 46
49113151 TGCACACTTT
* *
49113161 TCACAATTGGTCATTCGGCCTTATCACA-TATTCACGTACACATATA
1 TCAC-ATTGGCCATTCGGCCTTATCACATTATGCACGTACACATATA
** * * *
49113207 TCACATTAACCATCCGGCCTTATCACATGTATGCACTTCCACAT-TCA
1 TCACATTGGCCATTCGGCCTTATCACAT-TATGCACGTACACATAT-A
49113254 TCACATTGGCCATTCGGCCTTATCACAT
1 TCACATTGGCCATTCGGCCTTATCACAT
49113282 ATCATGGCCA
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
45 19 0.31
46 5 0.08
47 38 0.61
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.31
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCTTATCACATTATGCACGTACACATATA
Found at i:49116621 original size:39 final size:39
Alignment explanation
Indices: 49116537--49116695 Score: 175
Period size: 39 Copynumber: 4.1 Consensus size: 39
49116527 CTAAAGATCT
* * * *
49116537 GAAGGCATTCGTGCGAGTTGCTAT-TCCGGGCTATG-TCC
1 GAAGGCATTTGTGCGAGTTGTTATAT-CGGGCTAAGACCC
* *
49116575 GAAGGCATTTATGCTAG-TGATTATATCGGGCTAAGACCC
1 GAAGGCATTTGTGCGAGTTG-TTATATCGGGCTAAGACCC
*
49116614 GAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAG-CCC
1 GAAGGCATTTGTGCGAGTTGTTATAT-CGGGCTAAGACCC
*
49116653 GAAGGCATTTGTGCGAGTTGTTATATCCGGCTAA-ATCCC
1 GAAGGCATTTGTGCGAGTTGTTATATCGGGCTAAGA-CCC
49116692 GAAG
1 GAAG
49116696 ATACTTGGTT
Statistics
Matches: 103, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
37 2 0.02
38 32 0.31
39 58 0.56
40 11 0.11
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (39 bp):
GAAGGCATTTGTGCGAGTTGTTATATCGGGCTAAGACCC
Found at i:49116677 original size:78 final size:77
Alignment explanation
Indices: 49116537--49116695 Score: 223
Period size: 78 Copynumber: 2.1 Consensus size: 77
49116527 CTAAAGATCT
* * *
49116537 GAAGGCATTCGTGCGAGTTGCTATTCCGGGCTATGTCCGAAGGCATTTATGCTAGTGATTATATC
1 GAAGGCATTCGTGCGAGTTGCTATTCCGGGCTAAGCCCGAAGGCATTTATGCGAGTGATTATATC
*
49116602 GGGCTAAGA-CCC
66 CGGCTAA-ATCCC
* *
49116614 GAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTG-TTATA
1 GAAGGCATTCGTGCGAGTTGCTAT-TCCGGGCTAAGCCCGAAGGCATTTATGCGAG-TGATTATA
49116678 TCCGGCTAAATCCC
64 TCCGGCTAAATCCC
49116692 GAAG
1 GAAG
49116696 ATACTTGGTT
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
77 24 0.33
78 47 0.64
79 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (77 bp):
GAAGGCATTCGTGCGAGTTGCTATTCCGGGCTAAGCCCGAAGGCATTTATGCGAGTGATTATATC
CGGCTAAATCCC
Found at i:49124780 original size:40 final size:40
Alignment explanation
Indices: 49124717--49124858 Score: 173
Period size: 40 Copynumber: 3.6 Consensus size: 40
49124707 TATCCGGATG
* *
49124717 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* * *
49124757 A-ATTCCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
*
49124797 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CT
* *
49124837 ATATCC-GGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
49124859 TACTTGGTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
39 17 0.19
40 71 0.80
41 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:49143030 original size:16 final size:16
Alignment explanation
Indices: 49143009--49143039 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49142999 GAAATTGCCA
49143009 TTCATGAATGCTTGAG
1 TTCATGAATGCTTGAG
*
49143025 TTCATGAATGTTTGA
1 TTCATGAATGCTTGA
49143040 TGATGGAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (16 bp):
TTCATGAATGCTTGAG
Found at i:49147582 original size:30 final size:28
Alignment explanation
Indices: 49147528--49147586 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
49147518 CACATGAGAG
*
49147528 AGAAAAAAGAAAATAAAAGTGAAAAAGAA
1 AGAAAAAAGAAAATAAAAGAG-AAAAGAA
**
49147557 AGAAAAGAAGAAAATATGAGAGAAAAGAA
1 AGAAAA-AAGAAAATAAAAGAGAAAAGAA
49147586 A
1 A
49147587 ATGAGTTGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (28 bp):
AGAAAAAAGAAAATAAAAGAGAAAAGAA
Found at i:49159482 original size:13 final size:13
Alignment explanation
Indices: 49159464--49159488 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49159454 ACAAACAATA
49159464 AAATTTTCACACG
1 AAATTTTCACACG
49159477 AAATTTTCACAC
1 AAATTTTCACAC
49159489 ATATCAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:49193327 original size:30 final size:28
Alignment explanation
Indices: 49193273--49193331 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
49193263 CACATGAGAG
*
49193273 AGAAAAAAGAAAATAAAAGTGAAAAAGAA
1 AGAAAAAAGAAAATAAAAGAG-AAAAGAA
**
49193302 AGAAAAGAAGAAAATATGAGAGAAAAGAA
1 AGAAAA-AAGAAAATAAAAGAGAAAAGAA
49193331 A
1 A
49193332 ACGAGTTGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (28 bp):
AGAAAAAAGAAAATAAAAGAGAAAAGAA
Found at i:49205215 original size:47 final size:47
Alignment explanation
Indices: 49205152--49205542 Score: 599
Period size: 47 Copynumber: 8.3 Consensus size: 47
49205142 CCCTTCGGGA
* * *
49205152 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
*
49205199 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
49205246 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
49205293 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
49205340 CTTATCACACATACT-CATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATA-TACATGTTCACATTCATCACATTGGCCATTCGGC
* *
49205387 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
49205434 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
49205481 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
49205528 CTTATCACATATATA
1 CTTATCACATATATA
49205543 TATACACTTT
Statistics
Matches: 321, Mismatches: 20, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
46 2 0.01
47 319 0.99
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:49205406 original size:141 final size:141
Alignment explanation
Indices: 49205173--49205541 Score: 661
Period size: 141 Copynumber: 2.6 Consensus size: 141
49205163 TATACACTTC
* *
49205173 CACATCCATCACATTGGCCATTCGGCCTTATCACATATA-TACACT-TTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACT-CA-TGTTCACATTCATCACATTG
*
49205236 GCCATTCGACCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
64 GCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
49205301 ACATACACATGTT
129 ACATACACATGTT
49205314 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACTCATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACTCATGTTCACATTCATCACATTGGC
49205379 CATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
66 CATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
49205444 ATACACATGTT
131 ATACACATGTT
*
49205455 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACTCATGTTCACATTCATCACATTGGC
*
49205520 CATTCGGCCTTATCACATATAT
66 CATTCGGCCTTATCTCATATAT
49205542 ATATACACTT
Statistics
Matches: 221, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
140 1 0.00
141 219 0.99
142 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.32
Consensus pattern (141 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACACATACTCATGTTCACATTCATCACATTGGC
CATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
ATACACATGTT
Found at i:49207004 original size:56 final size:56
Alignment explanation
Indices: 49206937--49207056 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
49206927 TATTAGTTTA
49206937 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
49206993 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
49207049 TTGCCCAT
1 TTGCCCAT
49207057 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:49209280 original size:13 final size:13
Alignment explanation
Indices: 49209262--49209286 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49209252 ACAGACAATA
49209262 AAATTTTCACACG
1 AAATTTTCACACG
49209275 AAATTTTCACAC
1 AAATTTTCACAC
49209287 ATATCAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:49216042 original size:43 final size:42
Alignment explanation
Indices: 49215993--49216095 Score: 111
Period size: 43 Copynumber: 2.4 Consensus size: 42
49215983 TCCCAAATGT
49215993 GGTCTTACATGAAATCACATATCGATG-CCACTGTCCCAA-ACAA
1 GGTCTTACATGAAATCACATAT-GATGTCCA-TGT-CCAAGACAA
* * * * *
49216036 GGTCTTACACGAACTCATATATGATGTCGATGTCCAAGACAT
1 GGTCTTACATGAAATCACATATGATGTCCATGTCCAAGACAA
49216078 GGTCTTACATGCAAATCA
1 GGTCTTACATG-AAATCA
49216096 AAAATTGATG
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
41 4 0.08
42 20 0.40
43 26 0.52
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (42 bp):
GGTCTTACATGAAATCACATATGATGTCCATGTCCAAGACAA
Found at i:49216082 original size:42 final size:43
Alignment explanation
Indices: 49215981--49216095 Score: 110
Period size: 43 Copynumber: 2.7 Consensus size: 43
49215971 ACAGTTCCAA
** *
49215981 TGTCCCAAATGTGGTCTTACATGAAATCACATATCGATGCCAC
1 TGTCCCAAACATGGTCTTACACGAAATCACATATCGATGCCAC
* * * *
49216024 TGTCCCAAACAAGGTCTTACACGAACTCATATAT-GATGTCGA-
1 TGTCCCAAACATGGTCTTACACGAAATCACATATCGATG-CCAC
*
49216066 TGT-CCAAGACATGGTCTTACATGCAAATCA
1 TGTCCCAA-ACATGGTCTTACACG-AAATCA
49216096 AAAATTGATG
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
41 4 0.07
42 20 0.34
43 35 0.59
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
TGTCCCAAACATGGTCTTACACGAAATCACATATCGATGCCAC
Found at i:49221431 original size:48 final size:47
Alignment explanation
Indices: 49221354--49221531 Score: 212
Period size: 48 Copynumber: 3.7 Consensus size: 47
49221344 AGGGTAATGA
*
49221354 GAGCTAGTGTAAGACCATGTCTGGCACATGGCATTGGCCTCGATATGT
1 GAGCTAGTGTAAGACCATGTCTGGAACATGGCATTGGCCTC-ATATGT
* * * * * *
49221402 GAGCCAGTGTAAGATCATGTTTGGAACATGGCATTGGCATTCATAAGA
1 GAGCTAGTGTAAGACCATGTCTGGAACATGGCATTGGC-CTCATATGT
* ** *
49221450 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAACATGT
1 GAGCTAGTGTAAGACCATGTCTGGAACATGGCATTGGCCTC-ATATGT
* *
49221498 GCGCTAGTGTAAGACCATGTTTGGAACATGGCAT
1 GAGCTAGTGTAAGACCATGTCTGGAACATGGCAT
49221532 CAGCACCAAT
Statistics
Matches: 108, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
47 2 0.02
48 104 0.96
49 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTGGAACATGGCATTGGCCTCATATGT
Found at i:49221517 original size:96 final size:98
Alignment explanation
Indices: 49221350--49221582 Score: 310
Period size: 96 Copynumber: 2.4 Consensus size: 98
49221340 TACTAGGGTA
* ** * *
49221350 ATGAGAGCTAGTGTAAGACCATGTCTGGCACATGGCATTGGCCTCGATATGTGAGCCAGTGTAAG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAACATGTGAGCCAGTGTAAG
* ** *
49221415 ATCATGTTTGGAACATGGCATTGGCATTC-ATA-
66 ACCATGTTTGGAACATGGCATCAGCA-CCAATAT
* *
49221447 A-GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAACATGTGCGCTAGTGTAAG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAACATGTGAGCCAGTGTAAG
49221511 ACCATGTTTGGAACATGGCATCAGCACCAATAT
66 ACCATGTTTGGAACATGGCATCAGCACCAATAT
* **
49221544 ATGAGAGCCAGTGTAAGACCATGTCTAAGACATGGCATC
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
49221583 GGCATCTTAC
Statistics
Matches: 119, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
95 1 0.01
96 82 0.69
97 2 0.02
98 34 0.29
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (98 bp):
ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAACATGTGAGCCAGTGTAAG
ACCATGTTTGGAACATGGCATCAGCACCAATAT
Found at i:49221532 original size:48 final size:47
Alignment explanation
Indices: 49221349--49221582 Score: 204
Period size: 48 Copynumber: 4.9 Consensus size: 47
49221339 ATACTAGGGT
* * **
49221349 AATGAGAGCTAGTGTAAGACCATGTCTGGCACATGGCATTGGCCTCGA
1 AATGTGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCCTC-A
* * * * ** *
49221397 TATGTGAGCCAGTGTAAGATCATGTTTGGAACATGGCATTGGCATTCA
1 AATGTGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGC-CTCA
* *
49221445 TAA-GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCA
1 -AATGTGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCA
* *
49221492 ACATGTGCGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCAC-CAA
1 A-ATGTGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGC-CTC-A
* * *
49221541 TATATGAGAGCCAGTGTAAGACCATGTCT-AAGACATGGCATC
1 -A-ATGTGAGCTAGTGTAAGACCATGTCTGGA-ACATGGCATC
49221583 GGCATCTTAC
Statistics
Matches: 152, Mismatches: 26, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
46 1 0.01
47 4 0.03
48 108 0.71
49 6 0.04
50 33 0.22
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.24
Consensus pattern (47 bp):
AATGTGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCA
Found at i:49223029 original size:19 final size:19
Alignment explanation
Indices: 49223005--49223042 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
49222995 GTATACATGT
49223005 GTTTAAATCTAGTAACGCC
1 GTTTAAATCTAGTAACGCC
49223024 GTTTAAATCTAGTAACGCC
1 GTTTAAATCTAGTAACGCC
49223043 TCGTACACTG
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:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (19 bp):
GTTTAAATCTAGTAACGCC
Found at i:49224584 original size:42 final size:43
Alignment explanation
Indices: 49224474--49224568 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
49224464 AGCTCATACA
** *
49224474 ATGCCAACATCCCAAAC-GAGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAAACAG-GGTCTTACATGAAATCAAATATCG
* *
49224517 ATGCCACTGTCCCAAACAGGGTCTTACATGAAATCATATA-CG
1 ATGCCAATGTCCCAAACAGGGTCTTACATGAAATCAAATATCG
*
49224559 ATGTCAATGT
1 ATGCCAATGT
49224569 TCTAGACATG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
42 10 0.23
43 33 0.75
44 1 0.02
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACAGGGTCTTACATGAAATCAAATATCG
Done.