Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 150 of 356
Found at i:48273252 original size:190 final size:190
Alignment explanation
Indices: 48272875--48273361 Score: 816
Period size: 190 Copynumber: 2.6 Consensus size: 190
48272865 CCCTTTGGGA
* * * * * * * * *
48272875 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
48272940 TTTCACATTCATCACATCGGCCATTAGGCCTTA-C-CACATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
48273003 TCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACATCGGACATTAGGC
*
48273063 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
48273128 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* *
48273193 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGATATTAGGC
131 TCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACATCGGACATTAGGC
*
48273253 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
48273318 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATA
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATA
48273362 CACTGTCTTG
Statistics
Matches: 280, Mismatches: 17, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
188 87 0.31
189 1 0.00
190 192 0.69
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACATCGGACATTAGGC
Found at i:48273288 original size:237 final size:235
Alignment explanation
Indices: 48272875--48273365 Score: 829
Period size: 237 Copynumber: 2.1 Consensus size: 235
48272865 CCCTTTGGGA
* * * * * *
48272875 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
48272940 TTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACATC
* *
48273005 GGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
131 GGACATTAGGCCTTACCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
48273070 CATATATACACTTTCACATTCATCACATCGGCTATTAGGC
196 CATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * * *
48273110 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAC--ATATATAC
*
48273175 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACA
* *
48273240 TCGGATATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
129 TCGGACATTAGGCCTTACCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
48273305 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
194 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
48273347 CTTATCACATATATACACT
1 CTTATCACATATATACACT
48273366 GTCTTGGTTG
Statistics
Matches: 239, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
235 45 0.19
237 194 0.81
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (235 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACATC
GGACATTAGGCCTTACCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:48276391 original size:43 final size:42
Alignment explanation
Indices: 48276330--48276432 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 42
48276320 CAATGTCGAC
* * * * **
48276330 GTCCCGGACATGGTCTTACATGTAATTCA-ATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACG-AAATCAGATA-CGATACCGAT
*
48276373 GTCCCAGACAAGGTCTTACACGAAATCAGATACGATACCGAT
1 GTCCCAGACATGGTCTTACACGAAATCAGATACGATACCGAT
48276415 GTCCCAGACATGGTCTTA
1 GTCCCAGACATGGTCTTA
48276433 TACGTAAACC
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 29 0.57
43 22 0.43
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAATCAGATACGATACCGAT
Found at i:48277011 original size:27 final size:29
Alignment explanation
Indices: 48276948--48277012 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 29
48276938 CATACAACAT
48276948 GTTCAA-TTCACAATTTAGTCCCCAAAAC
1 GTTCAATTTCACAATTTAGTCCCCAAAAC
* *
48276976 ATT-ATTTTCACAATTTA-T-CCCAAATA-
1 GTTCAATTTCACAATTTAGTCCCCAAA-AC
48277002 GTTCAATTTCA
1 GTTCAATTTCA
48277013 TCAAAATTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
26 8 0.27
27 9 0.30
28 13 0.43
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (29 bp):
GTTCAATTTCACAATTTAGTCCCCAAAAC
Found at i:48281425 original size:79 final size:80
Alignment explanation
Indices: 48281324--48281506 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 80
48281314 TACTCGTTCA
* * *
48281324 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
48281387 ATTTAGTAAC-TCGCAC
64 ATATAGTAACTTAGCAC
* **
48281403 AATTGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AA-TGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
48281467 TATGGTCACTTAGCAC
65 TATAGTAACTTAGCAC
*
48281483 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
48281507 CATCATTCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 56 0.64
80 29 0.33
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:48281439 original size:39 final size:40
Alignment explanation
Indices: 48281326--48281506 Score: 208
Period size: 40 Copynumber: 4.5 Consensus size: 40
48281316 CTCGTTCAAA
*
48281326 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAT
1 TGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAT
*
48281366 TGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAT
1 TGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAT
* * *
48281406 TGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAT
* * * * *
48281445 TGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAA-
1 TGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAT
*
48281485 AGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAGCCCGGA
48281507 CATCATTCAA
Statistics
Matches: 121, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 75 0.62
41 12 0.10
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAT
Found at i:48289276 original size:40 final size:40
Alignment explanation
Indices: 48289239--48289422 Score: 171
Period size: 40 Copynumber: 4.6 Consensus size: 40
48289229 GCTACTCGTT
48289239 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
* * * *
48289279 CAATTGCCTTCGGAACATAACCCGGATT-TACTAACTCGCA
1 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
* * *
48289319 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAACTCGCA
* * * * * *
48289358 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAGCCCGGTTATAGTAAC-TCGCA
*
48289399 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACATAGCCCGG
48289423 ACATCATTCA
Statistics
Matches: 118, Mismatches: 18, Indels: 16
0.78 0.12 0.11
Matches are distributed among these distances:
38 2 0.02
39 29 0.25
40 73 0.62
41 14 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
Found at i:48289383 original size:79 final size:82
Alignment explanation
Indices: 48289239--48289423 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 82
48289229 GCTACTCGTT
* * *
48289239 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGAACATAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGAACATAACCCG
* *
48289303 GATTTACTAAC-TCGCA
66 GATATACTAACTTAGCA
* * * **
48289319 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGAACATAACCCG
** *
48289382 GATATGGTCACTTAGCA
66 GATATACTAACTTAGCA
48289399 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48289424 CATCATTCAA
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
79 55 0.62
80 34 0.38
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGAACATAACCCG
GATATACTAACTTAGCA
Found at i:48292720 original size:40 final size:40
Alignment explanation
Indices: 48292483--48292739 Score: 351
Period size: 40 Copynumber: 6.5 Consensus size: 40
48292473 CGGATGATAA
* * * *
48292483 CCGGGCAAAGTCCCGAAGGCACTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
48292523 CCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48292562 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48292602 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48292642 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
48292682 CCGGGCTAAGCCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
48292722 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48292740 TACTTGGTTT
Statistics
Matches: 196, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 48 0.24
40 148 0.76
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48292720 original size:120 final size:119
Alignment explanation
Indices: 48292479--48292745 Score: 362
Period size: 119 Copynumber: 2.2 Consensus size: 119
48292469 TATTCGGATG
*
48292479 ATAACCGGGCAAAGTCCCGAAGGCACTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
* * * * *
48292544 TTGTGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGTGCGAGTTACTATAACCGGGCTAAGCCCCGAAGGCATTTGAGCAAGTTACT
* *
48292598 ATAACCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACT-ATATCCGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCT-AGTGACTAAT-TCCGGGCTAAG-CCCGAAGG
48292661 CATTTGTGCGAGTTACTATAACCGGGCTAAGCCCCGAAGGCATTTGAGCAAG-TAGCT
63 CATTTGTGCGAGTTACTATAACCGGGCTAAGCCCCGAAGGCATTTGAGCAAGTTA-CT
* * * *
48292718 ATATCC-GGCTAAATTCCGAAGGTACTTG
1 ATAACCGGGCTAAGTCCCGAAGGCACTTG
48292746 GTTTGGGAAT
Statistics
Matches: 131, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
118 3 0.02
119 66 0.50
120 62 0.47
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACTATAACCGGGCTAAGCCCCGAAGGCATTTGAGCAAGTTACT
Found at i:48301558 original size:19 final size:19
Alignment explanation
Indices: 48301534--48301575 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
48301524 GCTATAATGA
48301534 GAAATTTAATACATTACTT
1 GAAATTTAATACATTACTT
48301553 GAAATTTAATACATTACTT
1 GAAATTTAATACATTACTT
48301572 GAAA
1 GAAA
48301576 AAGTAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (19 bp):
GAAATTTAATACATTACTT
Found at i:48306554 original size:49 final size:48
Alignment explanation
Indices: 48306487--48306795 Score: 217
Period size: 48 Copynumber: 6.5 Consensus size: 48
48306477 ATTAAAGTCA
* *
48306487 ATGCGTGTCCCAGACAGGTCTTACACTAACTTACATATATCGAGGTTG
1 ATGCATGTCCCAGACAGGTCTTACACTAACTTACATATATCGAGGTCG
* ** *
48306535 ATGCAATATCCCAGACAGGTCTTACACTGGCTCT-CATCTATCG-GTGTCG
1 ATGC-ATGTCCCAGACAGGTCTTACACTAACT-TACATATATCGAG-GTCG
* * * *
48306584 ATGTCATGTCCCAGGCAGGTCTTACACTGACTTTCATTTAT-G-GTGTCG
1 ATG-CATGTCCCAGACAGGTCTTACACTAACTTACATATATCGAG-GTCG
* * * *
48306632 ATGCCATGTCCCAGACAGGTCTTACACTGAC--ACACA-A-CAAGCT-G
1 ATG-CATGTCCCAGACAGGTCTTACACTAACTTACATATATCGAGGTCG
* ** **
48306676 ATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCCCGAGGTCG
1 ATG-CATGTCCCAGACAGGTCTTACACTAACTTACATATATCGAGGTCG
* * * * * * * * *
48306725 ACGCATGTCCCAGACATGTCTTACACTAGC-T-CTTGTCTCAATGCCG
1 ATGCATGTCCCAGACAGGTCTTACACTAACTTACATATATCGAGGTCG
*
48306771 ATGCATGTCCCAGACATGTCTTACA
1 ATGCATGTCCCAGACAGGTCTTACA
48306796 TTGGCTCACA
Statistics
Matches: 214, Mismatches: 35, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
44 30 0.14
45 2 0.01
46 37 0.17
47 1 0.00
48 72 0.34
49 70 0.33
50 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
ATGCATGTCCCAGACAGGTCTTACACTAACTTACATATATCGAGGTCG
Found at i:48306645 original size:48 final size:49
Alignment explanation
Indices: 48306492--48306751 Score: 220
Period size: 49 Copynumber: 5.4 Consensus size: 49
48306482 AGTCAATGCG
* * * *
48306492 TGTCCCAGACAGGTCTTACACTAACTTACATATATCGAG-GTTGATGCAA
1 TGTCCCAGACAGGTCTTACACTGACTTTCATATATCG-GTGTCGATGCCA
* * * * *
48306541 TATCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATGTCA
1 TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGGTGTCGATGCCA
* *
48306590 TGTCCCAGGCAGGTCTTACACTGACTTTCATTTAT-GGTGTCGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGGTGTCGATGCCA
* * **
48306638 TGTCCCAGACAGGTCTTACACTGAC--ACACA-A-C-AAG-CTGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGGTGTC-GATGCCA
** *
48306682 TGTCCCAGACAGGTCTTACACT-AGCTTGT-ATATCCCGAG-GTCGACG-CA
1 TGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATCG-GTGTCGATGCCA
*
48306730 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACAGGTCTTACACT
48306752 AGCTCTTGTC
Statistics
Matches: 172, Mismatches: 27, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
43 2 0.01
44 31 0.18
45 1 0.01
46 4 0.02
48 61 0.35
49 72 0.42
50 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (49 bp):
TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGGTGTCGATGCCA
Found at i:48306685 original size:97 final size:98
Alignment explanation
Indices: 48306492--48306751 Score: 239
Period size: 92 Copynumber: 2.7 Consensus size: 98
48306482 AGTCAATGCG
*
48306492 TGTCCCAGACAGGTCTTACACTAACTTACATATATCGAGGTTGATGCAATATCCCAGACAGGTCT
1 TGTCCCAGACAGGTCTTACACTAACTTACATATATCGAGGTCGATGCAATATCCCAGACAGGTCT
* * * * * * * *
48306557 TACACTGGCTCTCATCTATCGGTGTCGATGTCA
66 TACACTGACACACAACAAGCGATGTCCATGTCA
* * * * * *
48306590 TGTCCCAGGCAGGTCTTACACTGACTTTCATTTAT-G-GTGTCGATGCCATGTCCCAGACAGGTC
1 TGTCCCAGACAGGTCTTACACTAACTTACATATATCGAG-GTCGATGCAATATCCCAGACAGGTC
*
48306653 TTACACTGACACACAACAAGC--TG---ATGCCA
65 TTACACTGACACACAACAAGCGATGTCCATGTCA
* ** ** * * *
48306682 TGTCCCAGACAGGTCTTACACTAGCTTGTATATCCCGAGGTCGACGC-ATGTCCCAGACATGTCT
1 TGTCCCAGACAGGTCTTACACTAACTTACATATATCGAGGTCGATGCAATATCCCAGACAGGTCT
48306746 TACACT
66 TACACT
48306752 AGCTCTTGTC
Statistics
Matches: 135, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
92 54 0.40
93 8 0.06
94 1 0.01
95 2 0.01
96 1 0.01
97 38 0.28
98 31 0.23
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (98 bp):
TGTCCCAGACAGGTCTTACACTAACTTACATATATCGAGGTCGATGCAATATCCCAGACAGGTCT
TACACTGACACACAACAAGCGATGTCCATGTCA
Found at i:48306788 original size:46 final size:48
Alignment explanation
Indices: 48306675--48306795 Score: 147
Period size: 46 Copynumber: 2.5 Consensus size: 48
48306665 ACAACAAGCT
* * * *
48306675 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCCCGAGGTC
1 GATG-CATGTCCCAGACATGTCTTACACTAGCTTCTATATCCCAAGGCC
* * * *
48306724 GACGCATGTCCCAGACATGTCTTACACTAGC-TCT-TGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTCTATATCCCAAGGCC
48306770 GATGCATGTCCCAGACATGTCTTACA
1 GATGCATGTCCCAGACATGTCTTACA
48306796 TTGGCTCACA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
46 32 0.51
47 2 0.03
48 26 0.41
49 3 0.05
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTCTATATCCCAAGGCC
Found at i:48310555 original size:49 final size:48
Alignment explanation
Indices: 48310439--48310612 Score: 172
Period size: 49 Copynumber: 3.6 Consensus size: 48
48310429 ACATTAAAGC
* * * * *
48310439 CGATGCCGTGTCCCAGACAGGTCTTACACT-AACTTTTATATATTGAG-GT
1 CGATGCCATGTCCCAGACAGGTCTTACAATGAA-TCTCATCTA-TG-GTGT
* * **
48310488 CGATGCCATATCCCAGACAGGTCTTACAGTGGCTCTCATCTATCGGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACAATGAATCTCATCTAT-GGTGT
* * ** *
48310537 TGATGTCATGTCTGAGACAGGTCTTACAATGAATTTCATCTATGGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACAATGAATCTCATCTATGGTGT
48310585 CGATGCCATGTCCCAGACAGGTCTTACA
1 CGATGCCATGTCCCAGACAGGTCTTACA
48310613 CTGACACACA
Statistics
Matches: 101, Mismatches: 21, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
48 31 0.31
49 70 0.69
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACAGGTCTTACAATGAATCTCATCTATGGTGT
Found at i:48310742 original size:46 final size:45
Alignment explanation
Indices: 48310627--48310803 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 45
48310617 CACACAACAA
* * * *
48310627 GCTGATGCCATGTCCCAGACAGGGCTTACACTAGCTTGTATATCTCGAA-
1 GCTGATG-CATGTCCCAGACATGTCTTACACTAGC---TCTCTCTC-AAT
* *
48310676 GCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTC-TCTCAAT
* *
48310722 GCTGATGCATGTCCCAGACATGTCTTACACTGGCTCTC-AT-AATGT
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCTCTCAA--T
*
48310767 GCCTGATGCATGTCCCAGACATGTCTTACACTGGCTC
1 G-CTGATGCATGTCCCAGACATGTCTTACACTAGCTC
48310804 ACGTACCACC
Statistics
Matches: 113, Mismatches: 10, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
43 2 0.02
44 1 0.01
45 6 0.05
46 74 0.65
48 24 0.21
49 6 0.05
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (45 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCTCTCAAT
Found at i:48312268 original size:43 final size:42
Alignment explanation
Indices: 48312221--48312374 Score: 152
Period size: 43 Copynumber: 3.7 Consensus size: 42
48312211 TGTGTTCTTG
**
48312221 TGTAAGACCACGTCTGGGATGTTGGCATCGATATGTGATTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATT-CA
* * * ** *
48312264 TGTAAGA-CATGTTTAGGACATCAGCATCG-TATTTGATTCA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTCA
* *
48312304 TGTAAGACC-CTGTCTGGGACAGTGGCATCGATATGTTATTGCA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGATATGTGATT-CA
* *
48312347 TGTACGACCACATCTGGGACATTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
48312375 TATATGATAT
Statistics
Matches: 87, Mismatches: 19, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
40 9 0.10
41 23 0.26
42 22 0.25
43 32 0.37
44 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTCA
Found at i:48312324 original size:41 final size:42
Alignment explanation
Indices: 48312245--48312350 Score: 110
Period size: 41 Copynumber: 2.5 Consensus size: 42
48312235 TGGGATGTTG
*
48312245 GCATCGATATGTGATTACATGTAAGACATGTTTAGGACATCA
1 GCATCGATATGTGATTACATGTAAGACATGTCTAGGACATCA
* * * *
48312287 GCATCG-TATTTGATT-CATGTAAGACCCTGTCTGGGACAGT-G
1 GCATCGATATGTGATTACATGTAAGA-CATGTCTAGGACA-TCA
* *
48312328 GCATCGATATGTTATTGCATGTA
1 GCATCGATATGTGATTACATGTA
48312351 CGACCACATC
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
40 9 0.17
41 24 0.45
42 14 0.26
43 6 0.11
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (42 bp):
GCATCGATATGTGATTACATGTAAGACATGTCTAGGACATCA
Found at i:48315653 original size:57 final size:57
Alignment explanation
Indices: 48315590--48315706 Score: 182
Period size: 57 Copynumber: 2.1 Consensus size: 57
48315580 GGAAATAGTG
* *
48315590 AAATGGAGAATAGGAAAT-ATTTGGAAATAACTATGGTTTTCTTCAAAATGAAAATGA
1 AAATGGAGAA-AGGAAATCATTTGGAAATAAATATGGTTTTCTCCAAAATGAAAATGA
* *
48315647 AAATGGAGAAATGAAATCATTTGTAAATAAATATGGTTTTCTCCAAAATGAAAATGA
1 AAATGGAGAAAGGAAATCATTTGGAAATAAATATGGTTTTCTCCAAAATGAAAATGA
48315704 AAA
1 AAA
48315707 AAAAAGAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 6 0.11
57 49 0.89
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.29
Consensus pattern (57 bp):
AAATGGAGAAAGGAAATCATTTGGAAATAAATATGGTTTTCTCCAAAATGAAAATGA
Found at i:48318833 original size:43 final size:42
Alignment explanation
Indices: 48318730--48318841 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 42
48318720 TGTGTTATTG
* * *
48318730 TGTAAGACCACGTCTGGGAC-GTTGGCATCGTATATGATTTCA
1 TGTAAGACCATGTCTGGGACAG-TGGCATCATATATGATTACA
* *
48318772 TGTAAGACCCTGTCTGGGACAGTGGCATCAATATTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATC-ATATATGATTACA
* * *
48318815 TGTAAGACTATGTTTGGGACATTGGCA
1 TGTAAGACCATGTCTGGGACAGTGGCA
48318842 ATGTACGAGC
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 25 0.42
43 34 0.58
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCATATATGATTACA
Found at i:48324072 original size:43 final size:43
Alignment explanation
Indices: 48324011--48324094 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
48324001 GGAATTAAGA
* *
48324011 AATCCGAGCTCGTTGAGTGGTCCGAGTTCGTGATATATGTGAG
1 AATCCGAACTCGTTGAGTGGTCCAAGTTCGTGATATATGTGAG
*
48324054 AATCCGAACTTGTTGAGTGGTCCAAGTTCGTGATATATGTG
1 AATCCGAACTCGTTGAGTGGTCCAAGTTCGTGATATATGTG
48324095 CTATCTGAGC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (43 bp):
AATCCGAACTCGTTGAGTGGTCCAAGTTCGTGATATATGTGAG
Found at i:48324226 original size:51 final size:51
Alignment explanation
Indices: 48324139--48324238 Score: 119
Period size: 51 Copynumber: 2.0 Consensus size: 51
48324129 TGGATGCGAG
* * * *
48324139 CATTTGAGCTCGTTGAGTGGTCCAAGGTCATAATGGATGCGATACATGTAA
1 CATTCGAGCTCATTGAGAGGGCCAAGGTCATAATGGATGCGATACATGTAA
* * * * *
48324190 CATTCGAGCTCATTGAGAGGGCCGAGTTCATTATGGATGTGTTACATGT
1 CATTCGAGCTCATTGAGAGGGCCAAGGTCATAATGGATGCGATACATGT
48324239 TATAAGGTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (51 bp):
CATTCGAGCTCATTGAGAGGGCCAAGGTCATAATGGATGCGATACATGTAA
Found at i:48339796 original size:40 final size:40
Alignment explanation
Indices: 48339702--48339846 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
48339692 TACTTGAATG
*
48339702 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
48339743 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
48339783 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
48339823 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
48339847 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:48352264 original size:14 final size:14
Alignment explanation
Indices: 48352247--48352290 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
48352237 GAAAAGAGAA
*
48352247 ATGAGATGTGAGGG
1 ATGAGAGGTGAGGG
*
48352261 ATGAGGGGTGAGGG
1 ATGAGAGGTGAGGG
48352275 ATGAG-GGATGAGGG
1 ATGAGAGG-TGAGGG
48352289 AT
1 AT
48352291 TAAGAGAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 2 0.07
14 25 0.93
ACGTcount: A:0.27, C:0.00, G:0.55, T:0.18
Consensus pattern (14 bp):
ATGAGAGGTGAGGG
Found at i:48352265 original size:7 final size:7
Alignment explanation
Indices: 48352255--48352290 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
48352245 AAATGAGATG
48352255 TGAGGGA
1 TGAGGGA
*
48352262 TGAGGGG
1 TGAGGGA
48352269 TGAGGGA
1 TGAGGGA
48352276 TGAGGGA
1 TGAGGGA
48352283 TGAGGGA
1 TGAGGGA
48352290 T
1 T
48352291 TAAGAGAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.25, C:0.00, G:0.58, T:0.17
Consensus pattern (7 bp):
TGAGGGA
Found at i:48355075 original size:40 final size:40
Alignment explanation
Indices: 48355020--48355200 Score: 290
Period size: 40 Copynumber: 4.5 Consensus size: 40
48355010 GATGATAACT
* *
48355020 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCC
1 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTACATCC
*
48355060 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTATTACATCC
1 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTACATCC
* * *
48355100 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTACATCC
*
48355140 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTACATCC
*
48355180 GGGCTATGTCCCGAAGGCATT
1 GGGCTAAGTCCCGAAGGCATT
48355201 AAGCGAGTAG
Statistics
Matches: 133, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 133 1.00
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTACATCC
Found at i:48360950 original size:7 final size:7
Alignment explanation
Indices: 48360872--48360970 Score: 58
Period size: 7 Copynumber: 14.1 Consensus size: 7
48360862 TATTATTTTT
*
48360872 CTAAACT
1 CTAAACC
*
48360879 CTAAACT
1 CTAAACC
*
48360886 CTAAACT
1 CTAAACC
48360893 CTAAACC
1 CTAAACC
*
48360900 CTCAACC
1 CTAAACC
*
48360907 CCAAACC
1 CTAAACC
*
48360914 CTTACACC
1 C-TAAACC
*
48360922 TTAAACTC
1 CTAAAC-C
48360930 C--AACC
1 CTAAACC
**
48360935 CTAGCCC
1 CTAAACC
48360942 CTAAACC
1 CTAAACC
*
48360949 CTAAAAC
1 CTAAACC
* *
48360956 ATAATCC
1 CTAAACC
48360963 CTAAACC
1 CTAAACC
48360970 C
1 C
48360971 ATAATTCATC
Statistics
Matches: 69, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
5 2 0.03
6 3 0.04
7 59 0.86
8 5 0.07
ACGTcount: A:0.38, C:0.41, G:0.01, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:48361039 original size:21 final size:21
Alignment explanation
Indices: 48361013--48361092 Score: 78
Period size: 21 Copynumber: 3.9 Consensus size: 21
48361003 ACTCCTAAAC
*
48361013 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
*
48361034 CTTAAACCATAGTTAA-C-T-CAT
1 CTTAAACCATA---AACCATATAT
*
48361055 -TTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
48361075 CTTAAACCATAAACCATA
1 CTTAAACCATAAACCATA
48361093 AACTATAATG
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
17 2 0.04
18 1 0.02
19 1 0.02
20 11 0.23
21 28 0.60
22 1 0.02
23 1 0.02
24 2 0.04
ACGTcount: A:0.44, C:0.26, G:0.01, T:0.29
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:48361307 original size:40 final size:39
Alignment explanation
Indices: 48361257--48361352 Score: 111
Period size: 41 Copynumber: 2.4 Consensus size: 39
48361247 GTTATATGAC
* *
48361257 TTTTAACGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTACCAAAA-CGCCGCTAATGCTCTGT
* * *
48361297 TTTTCGCGGCGTTTTTTACTAAAACGCCGCTATTGCTCTGT
1 TTTTAGCGGCG--TTTTACCAAAACGCCGCTAATGCTCTGT
*
48361338 TTTTAGTGGCGTTTT
1 TTTTAGCGGCGTTTT
48361353 TGGTAAAACG
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
39 4 0.09
40 9 0.19
41 25 0.53
42 9 0.19
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.41
Consensus pattern (39 bp):
TTTTAGCGGCGTTTTACCAAAACGCCGCTAATGCTCTGT
Found at i:48361334 original size:41 final size:40
Alignment explanation
Indices: 48361257--48361383 Score: 139
Period size: 40 Copynumber: 3.1 Consensus size: 40
48361247 GTTATATGAC
* * * *
48361257 TTTTAACGGCG-TTTTGCCAAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTTACTAAAA-CGCCGCTATTGCTCTGT
*
48361297 TTTTCGCGGCGTTTTTTACTAAAACGCCGCTATTGCTCTGT
1 TTTTAGCGGCG-TTTTTACTAAAACGCCGCTATTGCTCTGT
* ** *
48361338 TTTTAGTGGCGTTTTTGGTAAAACGCCGCTATTGCTATGT
1 TTTTAGCGGCGTTTTTACTAAAACGCCGCTATTGCTCTGT
48361378 ATTTTA
1 -TTTTA
48361384 CAATTTTTGC
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
40 35 0.47
41 30 0.41
42 9 0.12
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.40
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTTACTAAAACGCCGCTATTGCTCTGT
Found at i:48361364 original size:40 final size:41
Alignment explanation
Indices: 48361275--48361383 Score: 139
Period size: 41 Copynumber: 2.6 Consensus size: 41
48361265 GCGTTTTGCC
* *
48361275 AAAAGCGCCGCTAATGCTCTGTTTTTCGCGGCGTTTTTTACT
1 AAAA-CGCCGCTATTGCTCTGTTTTTAGCGGCGTTTTTTACT
* **
48361317 AAAACGCCGCTATTGCTCTGTTTTTAGTGGCG-TTTTTGGT
1 AAAACGCCGCTATTGCTCTGTTTTTAGCGGCGTTTTTTACT
*
48361357 AAAACGCCGCTATTGCTATGTATTTTA
1 AAAACGCCGCTATTGCTCTGT-TTTTA
48361384 CAATTTTTGC
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
40 26 0.43
41 30 0.50
42 4 0.07
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.39
Consensus pattern (41 bp):
AAAACGCCGCTATTGCTCTGTTTTTAGCGGCGTTTTTTACT
Found at i:48364523 original size:18 final size:17
Alignment explanation
Indices: 48364496--48364530 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48364486 CATTAGGTTA
*
48364496 AATTAGATTAGTTAATTT
1 AATTAAATTA-TTAATTT
48364514 AATTAAATTATTAATTT
1 AATTAAATTATTAATTT
48364531 GGATCCAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (17 bp):
AATTAAATTATTAATTT
Found at i:48365682 original size:80 final size:80
Alignment explanation
Indices: 48365549--48365707 Score: 282
Period size: 80 Copynumber: 2.0 Consensus size: 80
48365539 TTTTAGGACT
*
48365549 ACAATTTCGATGATTGAATTATTATTATATTATTTATTTAATGTCTACAAGAATATATTAGGGTT
1 ACAATTTCGAAGATTGAATTATTATTATATTATTTATTTAATGTCTACAAGAATATATTAGGGTT
48365614 ATATTAAAATTTCAC
66 ATATTAAAATTTCAC
* * *
48365629 ACAATTTCGAAGATTGAATTATTATTCTATTATTTATTTAATGTCTACGAGAATATGTTAGGGTT
1 ACAATTTCGAAGATTGAATTATTATTATATTATTTATTTAATGTCTACAAGAATATATTAGGGTT
48365694 ATATTAAAATTTCA
66 ATATTAAAATTTCA
48365708 TTAAGAAATT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 75 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (80 bp):
ACAATTTCGAAGATTGAATTATTATTATATTATTTATTTAATGTCTACAAGAATATATTAGGGTT
ATATTAAAATTTCAC
Found at i:48377845 original size:49 final size:47
Alignment explanation
Indices: 48377735--48377915 Score: 143
Period size: 49 Copynumber: 3.7 Consensus size: 47
48377725 TAATGCTGAT
* * *
48377735 GCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATTAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATCAATTAAGTCGAC
** * * *
48377782 GCCAACTCCTAGACATGTTCTTACACTGACT-ATCAAAATTGAGGTCGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATC--AATT-AAGTCGAC
** *
48377831 GCCATGTCCCAGACATGGTCTTACACT-AGCTC-TCACATATCTGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGA-CTCATCA-AT-TAAGT--CGAC
* * *
48377881 GCCATGTCCCTGACATAGTCTTACACTGACACATC
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATC
48377916 TCGTAGCCGA
Statistics
Matches: 105, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
46 3 0.03
47 27 0.26
48 8 0.08
49 34 0.32
50 30 0.29
51 3 0.03
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTCATCAATTAAGTCGAC
Found at i:48379974 original size:23 final size:24
Alignment explanation
Indices: 48379946--48379992 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
48379936 TTTAAAAGTA
48379946 GTGTTTTT-GAGGTTAAAAA-TTGG
1 GTGTTTTTAGA-GTTAAAAAGTTGG
48379969 GTGTTTTTAGAGTTAAAAAGTTGG
1 GTGTTTTTAGAGTTAAAAAGTTGG
48379993 TTTGTGCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.43
Consensus pattern (24 bp):
GTGTTTTTAGAGTTAAAAAGTTGG
Found at i:48381304 original size:60 final size:60
Alignment explanation
Indices: 48381204--48381327 Score: 169
Period size: 60 Copynumber: 2.1 Consensus size: 60
48381194 GGAATGGGAA
* * * *
48381204 TGAT-CCTGGTTTCAATGATAATTTGAATGGTCAATATGCTAATCCTCCTGTTTGTAGGG
1 TGATACCTGGTATCAATGATAATTTGAATGGTCAAGATGCTAATCCTCATGTTCGTAGGG
* * * *
48381263 TGATACCTGGTATGAATGATAATTTGAATGGTCAGGGTGCTAATCCTCATGTTCGTGGGG
1 TGATACCTGGTATCAATGATAATTTGAATGGTCAAGATGCTAATCCTCATGTTCGTAGGG
48381323 TGATA
1 TGATA
48381328 GATGACCAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
59 4 0.07
60 52 0.93
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (60 bp):
TGATACCTGGTATCAATGATAATTTGAATGGTCAAGATGCTAATCCTCATGTTCGTAGGG
Found at i:48389714 original size:43 final size:42
Alignment explanation
Indices: 48389658--48389780 Score: 158
Period size: 42 Copynumber: 2.9 Consensus size: 42
48389648 TACCATACCA
* * *
48389658 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* * *
48389700 GTGCCAATAGCCCAGGTATGGTCTTACACG-AAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAA-TCTCATATCG
*
48389743 ATGCCATATCCCAGATATGGTCTTACACGTATTCTCAT
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCAT
48389781 TAATCCTAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 34 0.50
43 34 0.50
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:48390697 original size:24 final size:24
Alignment explanation
Indices: 48390662--48390713 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
48390652 TTTGTCCACT
* *
48390662 AACTTAATAAATGCTATAGTTACC
1 AACTTAAAAAATGCTATAATTACC
*
48390686 AACTTAAAAAATGGTATAATTACC
1 AACTTAAAAAATGCTATAATTACC
48390710 AACT
1 AACT
48390714 AAGTACCTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (24 bp):
AACTTAAAAAATGCTATAATTACC
Found at i:48395440 original size:16 final size:17
Alignment explanation
Indices: 48395419--48395452 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
48395409 GTTAAGTTAC
48395419 GAAAAC-ATAGTGTTTT
1 GAAAACAATAGTGTTTT
*
48395435 GAAAACAATATTGTTTT
1 GAAAACAATAGTGTTTT
48395452 G
1 G
48395453 GAATATTGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (17 bp):
GAAAACAATAGTGTTTT
Found at i:48403414 original size:3 final size:3
Alignment explanation
Indices: 48403406--48403431 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
48403396 TGTCGGATGT
48403406 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
48403432 TTGGCTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:48404384 original size:16 final size:16
Alignment explanation
Indices: 48404365--48404405 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
48404355 AAGAATTTTT
*
48404365 AAAATTATAAAAAATG
1 AAAAATATAAAAAATG
*
48404381 AAAAATATAAAAAATT
1 AAAAATATAAAAAATG
*
48404397 AATAATATA
1 AAAAATATA
48404406 GAAATAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (16 bp):
AAAAATATAAAAAATG
Found at i:48404776 original size:10 final size:9
Alignment explanation
Indices: 48404744--48404836 Score: 80
Period size: 10 Copynumber: 9.7 Consensus size: 9
48404734 ATAAAAAAAT
48404744 ATTTTTAT-
1 ATTTTTATA
*
48404752 ATTTTCATA
1 ATTTTTATA
*
48404761 GTTTTTATATA
1 -ATTTT-TATA
48404772 ATTTTTCATA
1 ATTTTT-ATA
*
48404782 ATTTTCTATT
1 ATTTT-TATA
48404792 ATTTTTCAGTA
1 ATTTTT-A-TA
48404803 ATTTTTATA
1 ATTTTTATA
*
48404812 ATTTTTTTCA
1 ATTTTTAT-A
48404822 ATTTTTATA
1 ATTTTTATA
48404831 ATTTTT
1 ATTTTT
48404837 GAAAAGTTAT
Statistics
Matches: 69, Mismatches: 8, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
8 7 0.10
9 18 0.26
10 33 0.48
11 11 0.16
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (9 bp):
ATTTTTATA
Found at i:48404778 original size:21 final size:20
Alignment explanation
Indices: 48404745--48404836 Score: 88
Period size: 21 Copynumber: 4.7 Consensus size: 20
48404735 TAAAAAAATA
*
48404745 TTTT-TATA-TTTTCATAGT
1 TTTTATATATTTTTCATAAT
48404763 TTTTATATAATTTTTCATAAT
1 TTTTATAT-ATTTTTCATAAT
48404784 TTTCTAT-TATTTTTCAGTAAT
1 TTT-TATATATTTTTCA-TAAT
*
48404805 TTTTATA-ATTTTT-TTCAAT
1 TTTTATATATTTTTCAT-AAT
48404824 TTTTATA-ATTTTT
1 TTTTATATATTTTT
48404837 GAAAAGTTAT
Statistics
Matches: 65, Mismatches: 2, Indels: 13
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.08
19 19 0.29
20 18 0.28
21 20 0.31
22 3 0.05
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTATATATTTTTCATAAT
Found at i:48404786 original size:20 final size:19
Alignment explanation
Indices: 48404744--48404836 Score: 93
Period size: 20 Copynumber: 4.8 Consensus size: 19
48404734 ATAAAAAAAT
48404744 ATTTTTAT-A-TTTTCATA
1 ATTTTTATAATTTTTCATA
*
48404761 GTTTTTATATAATTTTTCATA
1 -ATTTT-TATAATTTTTCATA
*
48404782 ATTTTCTATTATTTTTCAGTA
1 ATTTT-TATAATTTTTCA-TA
*
48404803 ATTTTTATAATTTTT-TTCA
1 ATTTTTATAATTTTTCAT-A
48404822 ATTTTTATAATTTTT
1 ATTTTTATAATTTTT
48404837 GAAAAGTTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
18 5 0.08
19 19 0.30
20 25 0.39
21 15 0.23
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTTTATAATTTTTCATA
Found at i:48406437 original size:45 final size:46
Alignment explanation
Indices: 48406373--48406465 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
48406363 TATAGACCAA
*
48406373 TTTTAATTAATTAACCAAT-ATTTTATTTTGATGCTATATGAAGGT
1 TTTTAATTAATTAACCAATAATTTTATGTTGATGCTATATGAAGGT
48406418 TTTTAATTAATTAACCAATAATTTTATGTTGATGCTATATGAAGGT
1 TTTTAATTAATTAACCAATAATTTTATGTTGATGCTATATGAAGGT
48406464 TT
1 TT
48406466 ATCAAGTACA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 19 0.41
46 27 0.59
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (46 bp):
TTTTAATTAATTAACCAATAATTTTATGTTGATGCTATATGAAGGT
Found at i:48406832 original size:13 final size:14
Alignment explanation
Indices: 48406801--48406830 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
48406791 GTATTCATAA
*
48406801 TTTAATTTAATTTT
1 TTTATTTTAATTTT
48406815 TTTATTTTAATTTT
1 TTTATTTTAATTTT
48406829 TT
1 TT
48406831 ATATATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTTTAATTTT
Found at i:48407119 original size:20 final size:20
Alignment explanation
Indices: 48407094--48407135 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
48407084 ATTTTAACCA
*
48407094 AAAAAATAAATTACAAGTAT
1 AAAAAACAAATTACAAGTAT
*
48407114 AAAAAACAAATTATAAGTAT
1 AAAAAACAAATTACAAGTAT
48407134 AA
1 AA
48407136 TGTTTGCTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.24
Consensus pattern (20 bp):
AAAAAACAAATTACAAGTAT
Found at i:48408225 original size:21 final size:21
Alignment explanation
Indices: 48408201--48408256 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
48408191 TTAAAAAATG
48408201 ATAATAGTAATAAAAATAAAA
1 ATAATAGTAATAAAAATAAAA
* * *
48408222 ATAATAGTGATAATAATAATA
1 ATAATAGTAATAAAAATAAAA
48408243 ATAACTAGTAATAA
1 ATAA-TAGTAATAA
48408257 TACTACATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 22 0.73
22 8 0.27
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (21 bp):
ATAATAGTAATAAAAATAAAA
Found at i:48408237 original size:3 final size:3
Alignment explanation
Indices: 48408201--48408258 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
48408191 TTAAAAAATG
* * * * *
48408201 ATA ATA GTA ATA AAA ATA AAA ATA ATA GTG ATA ATA ATA ATA ATA ACTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
*
48408250 GTA ATA ATA
1 ATA ATA ATA
48408259 CTACATTAAT
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
3 40 0.95
4 2 0.05
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:48408546 original size:3 final size:3
Alignment explanation
Indices: 48408538--48409060 Score: 116
Period size: 3 Copynumber: 174.3 Consensus size: 3
48408528 AAAAACCATG
* *
48408538 ATA ATA ATA ATA GTA ATT ATA ATA A-A AGTA ATA ATA ATA A-A TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA -ATA
* * * * * * *
48408583 ACA ATA GTA ATA TTA GTG ATA A-A A-A ATA ATA GCT- ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* ** * * * * *
48408626 AAA ATA ATA ACC ATG ACA ATAA AGA ATA ATG GTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
* **
48408672 ATGA A-A ATA A-A AGTA ATA TTA ATA ATA CATTA A-A ATA A-A ATA GCA
1 AT-A ATA ATA ATA A-TA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA
* * * * * * * * *
48408717 A-A ATA ATA ATA ATA ATA ATA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * * * *
48408764 AGA AGA AGA AGA AGA AGA A-A ATA AAA ATA ACA ATA TTA AT- GTA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
48408810 AGTT ACA ATA CTA A-A ATA ATA ATA ATG ATA ATG ATA AT- ATA TTA
1 A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** * *
48408854 GATA ACG ATA GTA A-A ATA ATA TGTA ATA ATA ATA AGGT- ATAA ATA
1 -ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA A--TA AT-A ATA
* * * * *
48408899 ATA GTA GTG ATGA A-A ATA ATG ACA AGTA ATA ATA ATA ATA ATA A-A
1 ATA ATA ATA AT-A ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
* * *
48408944 AGTA ATA ATA ATA ATA ATA ATA AT- ATA TTG ATA ATAA ACA ATA ATA
1 A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
* * * * * * *
48408990 A-A AGGA ACA AAA ATA ATA GTA ATA ATA AGA ATA TTTA ATA ATA GTA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
*
48409036 ATA ATA ACA ATA AT- ATAA ATA ATA A
1 ATA ATA ATA ATA ATA AT-A ATA ATA A
48409061 CATATTCACG
Statistics
Matches: 385, Mismatches: 94, Indels: 82
0.69 0.17 0.15
Matches are distributed among these distances:
2 38 0.10
3 310 0.81
4 34 0.09
5 3 0.01
ACGTcount: A:0.61, C:0.03, G:0.10, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:48410226 original size:18 final size:19
Alignment explanation
Indices: 48410193--48410228 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
48410183 GCATTAAAAA
*
48410193 AATTTTAAAAATAAATTAT
1 AATTATAAAAATAAATTAT
48410212 AATTATAAAAA-AAATTA
1 AATTATAAAAATAAATTA
48410229 CCTTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AATTATAAAAATAAATTAT
Found at i:48413924 original size:46 final size:45
Alignment explanation
Indices: 48413791--48413957 Score: 174
Period size: 46 Copynumber: 3.6 Consensus size: 45
48413781 TGATATGTGT
* *
48413791 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GCCTCGA-GATGAGA
* * * * *
48413837 GCCAGTGTAAGACATGTCTGGTACATGCAACGACATTGAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCG-CCTCGAGATGAGA
* *
48413883 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GCCTCGAGAT-GA-GA
* *
48413931 GCTAGTGTAAGACCTGTATGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
48413958 GTGTCAGCTT
Statistics
Matches: 100, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
45 1 0.01
46 70 0.70
47 3 0.03
48 26 0.26
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGCCTCGAGATGAGA
Found at i:48421532 original size:46 final size:46
Alignment explanation
Indices: 48421482--48421572 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
48421472 GCCACATTAT
* *
48421482 GAGAGCCAGCGTAAGACATGTCAGGGTCATGCACCAGCATTGAGAC
1 GAGAGCCAGCGTAAGACATGTCAGGGACACGCACCAGCATTGAGAC
* * * * *
48421528 GAGAGCTAGTGTAAGACATGTCTGGGACACGCATCAGCCTTGAGA
1 GAGAGCCAGCGTAAGACATGTCAGGGACACGCACCAGCATTGAGA
48421573 TATACAAGCT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.30, C:0.22, G:0.31, T:0.18
Consensus pattern (46 bp):
GAGAGCCAGCGTAAGACATGTCAGGGACACGCACCAGCATTGAGAC
Found at i:48421762 original size:49 final size:49
Alignment explanation
Indices: 48421624--48421762 Score: 179
Period size: 49 Copynumber: 2.8 Consensus size: 49
48421614 CTTGTTGTGT
* * *
48421624 GTCAATGTAAGACCTATCTGGGACATGGCATCGACATCGATAAATGAGA
1 GTCAATGTAAGACCTGTCTGGGACATGGCATCGACATTGATAAATGAAA
* * * * *
48421673 GTCAATGTAAGACCTGTCTAGGACACGGAATCGACCTTGATATATGAAA
1 GTCAATGTAAGACCTGTCTGGGACATGGCATCGACATTGATAAATGAAA
* * *
48421722 TTCAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGAT
1 GTCAATGTAAGACCTGTCTGGGACATGGCATCGACATTGAT
48421763 GTGCTAGTCA
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
49 76 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (49 bp):
GTCAATGTAAGACCTGTCTGGGACATGGCATCGACATTGATAAATGAAA
Found at i:48425602 original size:37 final size:37
Alignment explanation
Indices: 48425551--48425629 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
48425541 CTTATTACGA
* *
48425551 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
* *
48425588 GGTCTTACCCGGACAAAATTCCCACACGTAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
48425625 AGTCT
1 AGTCT
48425630 GTAGAGCTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 34 0.94
38 2 0.06
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:48426018 original size:49 final size:47
Alignment explanation
Indices: 48425749--48426193 Score: 676
Period size: 47 Copynumber: 9.4 Consensus size: 47
48425739 CCCTTCGGGA
* * * * * * * *
48425749 CTTATCACCTTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48425796 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48425843 CTTATCACATATATACACTTTAACATTCATCACATCGGCCA-TAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48425889 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48425936 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48425983 TTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48426032 TTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48426081 TTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48426128 TTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48426175 CTTATCACATATATACACT
1 CTTATCACATATATACACT
48426194 GTCTTGGCTG
Statistics
Matches: 372, Mismatches: 23, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
46 44 0.12
47 235 0.63
49 93 0.25
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48426135 original size:192 final size:189
Alignment explanation
Indices: 48425764--48426189 Score: 667
Period size: 192 Copynumber: 2.2 Consensus size: 189
48425754 CACCTTTATG
* * * * * * *
48425764 CACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATACACTTTCACATTCATC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
48425827 ACATCGGCCATTAGGCCTTATCACATATATACACTTTAACATTCATCACATCGGCCATAGGCCTT
66 ACATCGGCCATTAGGCCTTATCACATATATACACTTTAACATTCATCACATCGGCCATAGGCCTT
*
48425892 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATA
131 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATA
*
48425951 CACTTTCACATTCATCACATCGGCCATTAGGCTTTATCACATATATATACACTTTCACATTCATC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
* * *
48426016 ACATTGGCCATTAGGCTTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTAACATTCATCACATCGGCCA-TAGGC
* * *
48426081 TTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCTTTATCACATATATA
128 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATA
*
48426143 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
48426190 CACTGTCTTG
Statistics
Matches: 217, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
187 32 0.15
189 45 0.21
191 32 0.15
192 108 0.50
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (189 bp):
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
ACATCGGCCATTAGGCCTTATCACATATATACACTTTAACATTCATCACATCGGCCATAGGCCTT
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATA
Found at i:48437706 original size:37 final size:37
Alignment explanation
Indices: 48437663--48437770 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
48437653 GCTCGGACGT
* *
48437663 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
48437700 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
48437737 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
48437771 ATATATTTCC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:48437985 original size:47 final size:47
Alignment explanation
Indices: 48437933--48438165 Score: 340
Period size: 47 Copynumber: 5.0 Consensus size: 47
48437923 TTTCACACTA
* * * ** *
48437933 GCCATTCGGCTTTACCGCATATATGCATTTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCACCACATTG
* *
48437980 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCACCACATTG
* *
48438027 GCCATTCGGCCTTATCACATATATGCATGCTCACATTTATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCACCACATTG
* *
48438074 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCACCACATTG
* *
48438121 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCACCACAT
48438166 AAAATCCTAA
Statistics
Matches: 168, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 168 1.00
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGCTCACATTCACCACATTG
Found at i:48450826 original size:20 final size:20
Alignment explanation
Indices: 48450801--48450851 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
48450791 GTGCGGTCAC
*
48450801 ACATGCTCGTGCGGCTCGGG
1 ACATGCTCGTGCGGCTCAGG
*
48450821 ACATGCCCGTGCGGCTCAGG
1 ACATGCTCGTGCGGCTCAGG
*
48450841 ACACGCTCGTG
1 ACATGCTCGTG
48450852 TAACTCTCTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.14, C:0.33, G:0.35, T:0.18
Consensus pattern (20 bp):
ACATGCTCGTGCGGCTCAGG
Found at i:48459152 original size:13 final size:13
Alignment explanation
Indices: 48459136--48459161 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48459126 ATATGTTTTA
48459136 TGATTGTTTTGGT
1 TGATTGTTTTGGT
48459149 TGATTGTTTTGGT
1 TGATTGTTTTGGT
48459162 ATGGGTTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (13 bp):
TGATTGTTTTGGT
Found at i:48464210 original size:40 final size:40
Alignment explanation
Indices: 48464148--48464394 Score: 244
Period size: 40 Copynumber: 6.2 Consensus size: 40
48464138 CGGATGATAA
* *
48464148 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAAT-T
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-GCTAATAT
* * *
48464188 CCGGGCTAAGTCCTGAAGGCATTCGTGCGAGCTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTAATAT
*
48464228 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGA--GCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTA--ATAT
*
48464268 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT--TATTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATAT
* * *
48464306 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTAATAT
* *
48464347 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-GCTAATAT
48464387 CC-GGCTAA
1 CCGGGCTAA
48464395 ACTCCGAAGG
Statistics
Matches: 176, Mismatches: 18, Indels: 27
0.80 0.08 0.12
Matches are distributed among these distances:
37 2 0.01
38 3 0.02
39 39 0.22
40 126 0.72
41 5 0.03
42 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATAT
Found at i:48464351 original size:79 final size:79
Alignment explanation
Indices: 48464147--48464371 Score: 292
Period size: 80 Copynumber: 2.8 Consensus size: 79
48464137 TCGGATGATA
* * ** *
48464147 ACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGTCCTGAAGGCAT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCAT
*
48464210 TCGTGCGAGCTACTAT
64 TTGTGCGAGCTACTAT
* * * *
48464226 ATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATATCCGGGCTAAGTCCCGAAGGCATT
1 A-CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
* *
48464291 TGTGCGAGTTATTAT
65 TGTGCGAGCTACTAT
*
48464306 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
48464371 G
66 G
48464372 AGCTAGTGGC
Statistics
Matches: 127, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
79 61 0.48
80 63 0.50
81 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGCTACTAT
Found at i:48464360 original size:119 final size:120
Alignment explanation
Indices: 48464148--48464371 Score: 317
Period size: 119 Copynumber: 1.9 Consensus size: 120
48464138 CGGATGATAA
* * * *
48464148 CCGGGCTAAGTCCCGAGAGCATTTGAGCTAGTGGCTAATTCCGGGCTAAGTCCTGAAGGCATTCG
1 CCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTCG
* * *
48464213 TGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATAT
66 TGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAT
* * * *
48464268 CCGGGCTAAGTCCCGA-AGGCATTTGTGCGAGT-TATTATACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAGA-GCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTC
*
48464331 GTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
65 GTGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
48464372 AGCTAGTGGC
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
119 63 0.69
120 28 0.31
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTCG
TGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAT
Found at i:48464404 original size:79 final size:79
Alignment explanation
Indices: 48464188--48464394 Score: 274
Period size: 79 Copynumber: 2.6 Consensus size: 79
48464178 GTGGCTAATT
* * *
48464188 CCGGGCTAAGTCCTGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* * *
48464253 TGCGAGCTATTATAT
65 TGCAAGCTACTATAA
*
48464268 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
48464332 TGCAAGTTACTATAA
65 TGCAAGCTACTATAA
* * *
48464347 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATATCCGGGCTAA
48464395 ACTCCGAAGG
Statistics
Matches: 112, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
78 1 0.01
79 74 0.66
80 37 0.33
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCAAGCTACTATAA
Found at i:48466307 original size:24 final size:25
Alignment explanation
Indices: 48466276--48466322 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
48466266 TTATAACATG
* *
48466276 AAAATGACTATT-TTCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
48466300 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
48466323 GTTTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:48466391 original size:20 final size:20
Alignment explanation
Indices: 48466368--48466424 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
48466358 AACATGGTAT
48466368 GTATGATATGCACATGACAC
1 GTATGATATGCACATGACAC
* *
48466388 GTATGATATGCACATGATAT
1 GTATGATATGCACATGACAC
48466408 GTATGATATGCACATGA
1 GTATGATATGCACATGA
48466425 GGTATTCATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (20 bp):
GTATGATATGCACATGACAC
Found at i:48466503 original size:24 final size:24
Alignment explanation
Indices: 48466475--48466618 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
48466465 GAGGAAGTGC
48466475 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
48466499 CAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
48466523 GAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
48466547 AAAAGGGGTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
48466571 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
48466595 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
48466619 ATGATAAAGC
Statistics
Matches: 106, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
24 95 0.90
25 11 0.10
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:48474298 original size:25 final size:25
Alignment explanation
Indices: 48474269--48474316 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
48474259 TTATAACATG
* *
48474269 AAAATGACCATTTTTCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
48474294 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
48474317 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:48474393 original size:20 final size:20
Alignment explanation
Indices: 48474370--48474426 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
48474360 AACATGGTAT
48474370 GTATGATATGCACATGACAC
1 GTATGATATGCACATGACAC
* *
48474390 GTATGATATGCACATGATAT
1 GTATGATATGCACATGACAC
48474410 GTATGATATGCACATGA
1 GTATGATATGCACATGA
48474427 GGTATTCATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (20 bp):
GTATGATATGCACATGACAC
Found at i:48474504 original size:24 final size:24
Alignment explanation
Indices: 48474477--48474671 Score: 242
Period size: 24 Copynumber: 8.4 Consensus size: 24
48474467 GAGGAAGTGC
*
48474477 AAAAGGGCTTATGCCCCAGTGATT
1 AAAAGGGCTTATGCCCCAGTTATT
48474501 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * *
48474525 AAAAGGGCTTATTCCCCATTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
* *
48474549 AAAAGGGATTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
48474573 GAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
48474597 GAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
48474621 AAAAGGGCTTA-G---C---TATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
48474638 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
48474662 GAAAGAGGCT
1 AAAAG-GGCT
48474672 AGGCCTCTAG
Statistics
Matches: 148, Mismatches: 15, Indels: 15
0.83 0.08 0.08
Matches are distributed among these distances:
17 14 0.09
18 1 0.01
20 1 0.01
21 1 0.01
23 1 0.01
24 126 0.85
25 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:48474655 original size:41 final size:42
Alignment explanation
Indices: 48474593--48474671 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 42
48474583 ATGCCCCAGT
*
48474593 TATTGAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTAGC
1 TATTAAAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTTAGC
* *
48474634 TATTAAAAGGGCTTTTGCCCCAGTTATTGAAAGAGGCT
1 TATTAAAAGGGCTTATGCCCCAGTTATTAAAAGAGGCT
48474672 AGGCCTCTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
41 30 0.88
42 4 0.12
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (42 bp):
TATTAAAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTTAGC
Found at i:48474701 original size:65 final size:63
Alignment explanation
Indices: 48474564--48474685 Score: 156
Period size: 65 Copynumber: 1.9 Consensus size: 63
48474554 GGATTATGCC
* * *
48474564 CTAGTTATTGAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTATGCCCCAGTTATTAAAAGGG
1 CTAGCTATTAAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTAGGCCCCAGTTATTAAAA-GG
* *
48474628 CTTAGCTATTAAAAGGGCTTTTGCCCCAGTTATTGAAAGAGGC-TAGGCCTCTAGTTAT
1 C-TAGCTATTAAAAGGGCTTATGCCCCAGTTATTGAAAG-GGCTTAGGCC-CCAGTTAT
48474686 ATGATAAAGC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
64 1 0.02
65 39 0.78
66 10 0.20
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (63 bp):
CTAGCTATTAAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTAGGCCCCAGTTATTAAAAGG
Found at i:48475812 original size:46 final size:46
Alignment explanation
Indices: 48475748--48475878 Score: 138
Period size: 46 Copynumber: 2.8 Consensus size: 46
48475738 CATCCCGTGG
* **
48475748 CGATGCATGTACCAGACATGTCTTACACTGGCTCTCGTCTTAAT-GC
1 CGATGCATGTACCAGACATGTCTTACACTGGCTCTCATAAT-ATGGC
* * * * * *
48475794 CGATGCAAGTTCCAGACATATCTTACTCTGACTCTCATAATGTGGC
1 CGATGCATGTACCAGACATGTCTTACACTGGCTCTCATAATATGGC
* * *
48475840 CAATGCATGTCCCAGACATGTCTTACACTGGCTCACATA
1 CGATGCATGTACCAGACATGTCTTACACTGGCTCTCATA
48475879 CCACCCAATG
Statistics
Matches: 68, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
45 1 0.01
46 67 0.99
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
CGATGCATGTACCAGACATGTCTTACACTGGCTCTCATAATATGGC
Found at i:48484046 original size:41 final size:42
Alignment explanation
Indices: 48484001--48484213 Score: 202
Period size: 45 Copynumber: 4.9 Consensus size: 42
48483991 TTTTATCAAA
* ** *
48484001 TCACCGGCATTCAGCCTGCTAGGTTTTAAACCCGAAT-TCAT
1 TCACCGGCATTCAGCCTGCTAGGCTCGAAGCCCGAATATCAT
*
48484042 TCACCGGCATTTC-GCCTGCTAGGCTCGAAGCCTG-ATATCATT
1 TCACCGGCA-TTCAGCCTGCTAGGCTCGAAGCCCGAATATCA-T
*
48484084 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-AT
1 TCACCGGCATT-CAGCCTGCTAGGCTCGAA-GCCCGAATA-TCAT
*
48484128 CTCACCGGCATTCTAGCCTGCTAGGCTCAAAGGCCCGAATAGT-AT
1 -TCACCGGCATTC-AGCCTGCTAGGCTCGAA-GCCCGAATA-TCAT
* *
48484173 ATCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 -TCACCGGCATT-CAGCCTGCTAGGCTCGAA-GCCCGAATA
48484214 GTACTGTACG
Statistics
Matches: 150, Mismatches: 11, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
40 2 0.01
41 30 0.20
42 13 0.09
43 16 0.11
44 5 0.03
45 83 0.55
46 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (42 bp):
TCACCGGCATTCAGCCTGCTAGGCTCGAAGCCCGAATATCAT
Found at i:48484146 original size:45 final size:44
Alignment explanation
Indices: 48484040--48484216 Score: 245
Period size: 45 Copynumber: 4.0 Consensus size: 44
48484030 ACCCGAATTC
* * *
48484040 ATTCACCGGCATT-TCGCCTGCTAGGCTCGAA-GCCTG-ATA-T
1 ATTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
*
48484080 CATTTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT
1 -A-TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
*
48484126 ATCTCACCGGCATTCTAGCCTGCTAGGCTCAAAGGCCCGAATAGT
1 AT-TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
48484171 ATATCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
1 AT-TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
48484216 A
1 A
48484217 CTGTACGATA
Statistics
Matches: 124, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
41 1 0.01
42 12 0.10
43 17 0.14
44 5 0.04
45 88 0.71
46 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (44 bp):
ATTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
Found at i:48484186 original size:90 final size:87
Alignment explanation
Indices: 48483994--48484216 Score: 262
Period size: 90 Copynumber: 2.6 Consensus size: 87
48483984 TTTAGACTTT
* * * *
48483994 TATCAAATCACCGGCATT-CAGCCTGCTAGGTTTTAAA--CCCGAAT--TCAT-TCACCGGCATT
1 TATCATATCACCGGCATTATAGCCTGCTAGG-CTCAAAGGCCCGAATAGT-ATCTCACCGGCATT
* * *
48484053 TCGCCTGCTAGGCTCGAAGCCTGA
64 TAGCCTGCTAGGCTCAAAGCCCGA
* *
48484077 TATCATTTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATCTCACCGGCATTCT
1 TATCATATCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATT-T
48484142 AGCCTGCTAGGCTCAAAGGCCCGAA
65 AGCCTGCTAGGCTCAAA-GCCCG-A
48484167 TAGT-ATATCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 TA-TCATATCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
48484217 CTGTACGATA
Statistics
Matches: 119, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
83 19 0.16
84 11 0.09
85 7 0.06
86 2 0.02
87 12 0.10
88 16 0.13
89 4 0.03
90 47 0.39
91 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (87 bp):
TATCATATCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTTA
GCCTGCTAGGCTCAAAGCCCGA
Found at i:48484338 original size:19 final size:20
Alignment explanation
Indices: 48484301--48484338 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
48484291 ATCATCCTAC
**
48484301 ATTTTATTCACTTTTATTTT
1 ATTTTATTCACTTACATTTT
48484321 ATTTTA-TCACTTACATTT
1 ATTTTATTCACTTACATTT
48484339 ATCATTTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTTATTCACTTACATTTT
Found at i:48485066 original size:25 final size:25
Alignment explanation
Indices: 48485038--48485109 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
48485028 GTAACATATT
* *
48485038 CGGAAATAATAAGGGCAAATTTAAC
1 CGGAAATATTAAGAGCAAATTTAAC
*
48485063 CGGAAATATTAAGAGCAAATTTAAT
1 CGGAAATATTAAGAGCAAATTTAAC
*
48485088 CGGAATTATTAAGAGC-AATTTA
1 CGGAAATATTAAGAGCAAATTTA
48485110 TCAAGCTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 6 0.14
25 37 0.86
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (25 bp):
CGGAAATATTAAGAGCAAATTTAAC
Found at i:48489712 original size:15 final size:15
Alignment explanation
Indices: 48489679--48489711 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
48489669 CAAAAATTTG
48489679 AAAA-AAAAAGAAAT
1 AAAATAAAAAGAAAT
48489693 AAAATAAAAAGATAAT
1 AAAATAAAAAGA-AAT
48489709 AAA
1 AAA
48489712 TTAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 7 0.41
16 6 0.35
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (15 bp):
AAAATAAAAAGAAAT
Found at i:48494648 original size:48 final size:48
Alignment explanation
Indices: 48494523--48494903 Score: 324
Period size: 48 Copynumber: 7.9 Consensus size: 48
48494513 AGGGTAAGAT
* * * * * *
48494523 GCCGATGTCATCTCCCAGACATGGTCTTACACTGGCTCTCATATATC-GG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCT-T-ACATATCAAG
* *
48494572 TGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTTACATATCGAG
1 -GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTTACATATCAAG
* * * * *
48494621 GCTGATGCCATGTCCCAGACATAGTCTTACACTAG-TTCTCATATCAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTT-ACATATCAAG
* * * * * * * *
48494669 CCCAATGCCATGTTCCAAACATGGTCTTATATTGGCTCACATATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTTACATATCAAG
* *
48494717 GCCAATGCCATGT-CCAAGACATGGTCTTACACTAGCTCT-CATATCAAT
1 GCCGATGCCATGTCCCAA-ACATGGTCTTACACTAGCT-TACATATCAAG
* * * *
48494765 GTCGATGCGATGTTCCAAACATGGTCTTACACT-GACTCACATATCAAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAG-CTTACATATCAAG
* * * *
48494813 GCCGATGCCATATCCCAGACATGATCTTACACTAGCTCT-CATATCAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCT-TACATATCAAG
* * * * *
48494861 GTCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTTACATA
48494904 ACCCTAGCAT
Statistics
Matches: 265, Mismatches: 55, Indels: 24
0.77 0.16 0.07
Matches are distributed among these distances:
47 7 0.03
48 218 0.82
49 8 0.03
50 32 0.12
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTTACATATCAAG
Found at i:48494711 original size:96 final size:96
Alignment explanation
Indices: 48494523--48494903 Score: 528
Period size: 96 Copynumber: 3.9 Consensus size: 96
48494513 AGGGTAAGAT
* * * ** *
48494523 GCCGATGTCATCTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGCCGATGCCATGTTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC--ATATCAATGCCAATGCCATGTTC
* *
48494588 CAAACATGGTCTTACACTAGCTTACATATCGAG
64 CAAACATGGTCTTACACTGGCTCACATATCGAG
* * * *
48494621 GCTGATGCCATGTCCCAGACATAGTCTTACACTAGTTCTCATATCAATCCCAATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCAATGCCATGTTCCA
* *
48494686 AACATGGTCTTATATTGGCTCACATATCGAG
66 AACATGGTCTTACACTGGCTCACATATCGAG
* * * * *
48494717 GCCAATGCCATGTCCAAGACATGGTCTTACACTAGCTCTCATATCAATGTCGATGCGATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCAATGCCATGTTCCA
* *
48494782 AACATGGTCTTACACTGACTCACATATCAAG
66 AACATGGTCTTACACTGGCTCACATATCGAG
* * *
48494813 GCCGATGCCATATCCCAGACATGATCTTACACTAGCTCTCATATCAATGTCAATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCAATGCCATGTTCCA
48494878 AACATGGTCTTACACTGGCTCACATA
66 AACATGGTCTTACACTGGCTCACATA
48494904 ACCCTAGCAT
Statistics
Matches: 249, Mismatches: 34, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
96 215 0.86
98 34 0.14
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCAATGCCATGTTCCA
AACATGGTCTTACACTGGCTCACATATCGAG
Found at i:48494808 original size:144 final size:144
Alignment explanation
Indices: 48494535--48494903 Score: 397
Period size: 144 Copynumber: 2.5 Consensus size: 144
48494525 CGATGTCATC
* * *
48494535 TCCCAGACATGGTCTTACACTGGCTCTCATATATCG-GTGCCGATGCCATGTTCCAAACATGGTC
1 TCCCAAACATGGTCTTACACTGG--CTCACATATCGAG-GCCAATGCCATGTTCCAAACATGGTC
* * * *
48494599 TTACACTAGCT-TACATATCGAGGCTGATGCCATGTCCCAGACATAGTCTTACACTAGTTCTCAT
63 TTACACTAGCTCT-CATATCAAGGCTGATGCCATGTCCCAAACATAGTCTTACACTAGCTCACAT
* *
48494663 ATCAATCCCAATGCCATG
127 ATCAAGCCCAATGCCATA
* * *
48494681 TTCCAAACATGGTCTTATATTGGCTCACATATCGAGGCCAATGCCATG-TCCAAGACATGGTCTT
1 TCCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCAATGCCATGTTCCAA-ACATGGTCTT
* * * *
48494745 ACACTAGCTCTCATATCAATG-TCGATGCGATGTTCCAAACATGGTCTTACACT-GACTCACATA
65 ACACTAGCTCTCATATCAAGGCT-GATGCCATGTCCCAAACATAGTCTTACACTAG-CTCACATA
* *
48494808 TCAAGGCCGATGCCATA
128 TCAAGCCCAATGCCATA
* * * * * * *
48494825 TCCCAGACATGATCTTACACTAGCTCTCATATCAATGTCAATGCCATGTTCCAAACATGGTCTTA
1 TCCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCAATGCCATGTTCCAAACATGGTCTTA
* *
48494890 CACTGGCTCACATA
66 CACTAGCTCTCATA
48494904 ACCCTAGCAT
Statistics
Matches: 187, Mismatches: 30, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
143 7 0.04
144 154 0.82
145 7 0.04
146 19 0.10
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.28
Consensus pattern (144 bp):
TCCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCAATGCCATGTTCCAAACATGGTCTTA
CACTAGCTCTCATATCAAGGCTGATGCCATGTCCCAAACATAGTCTTACACTAGCTCACATATCA
AGCCCAATGCCATA
Found at i:48497264 original size:93 final size:93
Alignment explanation
Indices: 48497151--48497322 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
48497141 GCCCATAAGT
* * *
48497151 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48497216 CGAGCTCAGATGCCTAGTTACATCTCTC
66 CGAGCTCAGATGCCTAGTTACATCTCTC
*
48497244 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
48497309 CGAGTTCGGATGCC
66 CGAGCTCAGATGCC
48497323 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:48497318 original size:46 final size:46
Alignment explanation
Indices: 48497143--48497318 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
48497133 TGTAACCCGC
* * *
48497143 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
48497189 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC--AGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
48497235 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
48497282 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
48497319 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.63
47 30 0.28
49 5 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:48499835 original size:17 final size:17
Alignment explanation
Indices: 48499815--48499848 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
48499805 TTAAAAGAAC
* *
48499815 CATAACGTATAAAGTAA
1 CATAAAGTAGAAAGTAA
48499832 CATAAAGTAGAAAGTAA
1 CATAAAGTAGAAAGTAA
48499849 AGTCATCTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.09, G:0.15, T:0.21
Consensus pattern (17 bp):
CATAAAGTAGAAAGTAA
Found at i:48502621 original size:40 final size:40
Alignment explanation
Indices: 48502575--48502799 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
48502565 CTTGCGCAAG
* * *
48502575 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
48502615 GCCTTCGGGACTTAGCCCAGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
48502655 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
48502695 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
48502735 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
48502776 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
48502800 CATTCGAATA
Statistics
Matches: 157, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 127 0.81
41 29 0.18
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:48502670 original size:80 final size:80
Alignment explanation
Indices: 48502539--48502799 Score: 294
Period size: 80 Copynumber: 3.3 Consensus size: 80
48502529 CTCAAGTAAT
* * * * * * * *
48502539 CTTCGGGATTTAG-CCGGATATAACTACTTGCGC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
48502602 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* * * *
48502617 CTTCGGGACTTAGCCCAGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
48502681 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
48502697 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
48502762 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
48502778 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
48502800 CATTCGAATA
Statistics
Matches: 152, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
78 12 0.08
79 14 0.09
80 93 0.61
81 33 0.22
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:48507158 original size:22 final size:22
Alignment explanation
Indices: 48507124--48507173 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
48507114 GTAATTTCTC
48507124 AATTTTTTCAGAATATTTTTAAA
1 AATTTTTTCAGAATATTTTT-AA
48507147 AATTTTTT-AGAATATTTTTAA
1 AATTTTTTCAGAATATTTTTAA
48507168 AATTTT
1 AATTTT
48507174 ACCTTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 8 0.30
22 11 0.41
23 8 0.30
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (22 bp):
AATTTTTTCAGAATATTTTTAA
Found at i:48507163 original size:12 final size:12
Alignment explanation
Indices: 48507125--48507165 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
48507115 TAATTTCTCA
48507125 ATTTTTTCAGAAT
1 ATTTTTT-AGAAT
*
48507138 A-TTTTTA-AAA
1 ATTTTTTAGAAT
48507148 ATTTTTTAGAAT
1 ATTTTTTAGAAT
48507160 ATTTTT
1 ATTTTT
48507166 AAAATTTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
10 3 0.12
11 7 0.29
12 13 0.54
13 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (12 bp):
ATTTTTTAGAAT
Found at i:48508698 original size:19 final size:19
Alignment explanation
Indices: 48508671--48508707 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
48508661 TCAACATTAA
*
48508671 TATTTTAATAATAAATATT
1 TATTATAATAATAAATATT
*
48508690 TATTATAATTATAAATAT
1 TATTATAATAATAAATAT
48508708 ATTAATAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTATAATAATAAATATT
Found at i:48509808 original size:19 final size:19
Alignment explanation
Indices: 48509773--48509810 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
48509763 ATTTCAAAAA
*
48509773 ATTTAGAATTTTTTATATT
1 ATTTAGAATTTTATATATT
48509792 ATTTA-AATTTATATATATT
1 ATTTAGAATTT-TATATATT
48509811 TTGTTGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (19 bp):
ATTTAGAATTTTATATATT
Found at i:48513661 original size:43 final size:43
Alignment explanation
Indices: 48513614--48513751 Score: 138
Period size: 44 Copynumber: 3.2 Consensus size: 43
48513604 CCCAGACCTA
* * *
48513614 GTCTTACATATAATCAAATATCGATGCCACTATCCCTGACAGG
1 GTCTTACACATAATCAAATATCGATGCCAATATCCCAGACAGG
* *
48513657 GTCTTACACGA-AATCAAATA-CGATGCCAATGTCCCAGACATG
1 GTCTTACAC-ATAATCAAATATCGATGCCAATATCCCAGACAGG
* ** * *
48513699 GTCTTACACATAAATCTCAA-ATCGATGCCAACGTCCCAAACATG
1 GTCTTACACAT-AATC-AAATATCGATGCCAATATCCCAGACAGG
48513743 GTCTTACAC
1 GTCTTACAC
48513752 GAAAACACAT
Statistics
Matches: 82, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
41 1 0.01
42 27 0.33
43 22 0.27
44 32 0.39
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.25
Consensus pattern (43 bp):
GTCTTACACATAATCAAATATCGATGCCAATATCCCAGACAGG
Found at i:48513735 original size:44 final size:44
Alignment explanation
Indices: 48513594--48513751 Score: 157
Period size: 42 Copynumber: 3.7 Consensus size: 44
48513584 AGCTCGTACA
* * * *
48513594 ATGCCAACGTCCCAGACCTAGTCTTACATAT-AATC-AAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACATAAATCTCAA-ATCG
* * * *
48513637 ATGCC-ACTATCCCTGACAGGGTCTTACAC-GAAA--TCAAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACATAAATCTCAAAT-CG
*
48513679 ATGCCAATGTCCCAGACATGGTCTTACACATAAATCTCAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACATAAATCTCAAATCG
*
48513723 ATGCCAACGTCCCAAACATGGTCTTACAC
1 ATGCCAACGTCCCAGACATGGTCTTACAC
48513752 GAAAACACAT
Statistics
Matches: 92, Mismatches: 15, Indels: 15
0.75 0.12 0.12
Matches are distributed among these distances:
41 2 0.02
42 29 0.32
43 26 0.28
44 29 0.32
45 6 0.07
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.23
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACATGGTCTTACACATAAATCTCAAATCG
Found at i:48513755 original size:86 final size:85
Alignment explanation
Indices: 48513594--48513755 Score: 202
Period size: 86 Copynumber: 1.9 Consensus size: 85
48513584 AGCTCGTACA
* * **
48513594 ATGCCAACGTCCCAGACCTAGTCTTACATATAATCAAATATCGATGCCACTATCCCTGACAGGGT
1 ATGCCAACGTCCCAGACATAGTCTTACACATAATCAAATATCGATGCCACTATCCCAAACAGGGT
48513659 CTTACACGAAATCAAATACG
66 CTTACACGAAATCAAATACG
* * * * *
48513679 ATGCCAATGTCCCAGACATGGTCTTACACATAAATCTCAA-ATCGATGCCAAC-GTCCCAAACAT
1 ATGCCAACGTCCCAGACATAGTCTTACACAT-AATC-AAATATCGATGCC-ACTATCCCAAACAG
48513742 GGTCTTACACGAAA
63 GGTCTTACACGAAA
48513756 ACACATATTG
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
85 27 0.42
86 34 0.52
87 4 0.06
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACATAGTCTTACACATAATCAAATATCGATGCCACTATCCCAAACAGGGT
CTTACACGAAATCAAATACG
Found at i:48521317 original size:43 final size:42
Alignment explanation
Indices: 48521269--48521408 Score: 131
Period size: 44 Copynumber: 3.3 Consensus size: 42
48521259 TCCCAGAGGT
* **
48521269 GGTCTTACATGTAATCAAATATCGATGCCACTATCCTTGACAG
1 GGTCTTACATGTAATCAAATA-CGATGCCAATATCCCAGACAG
* * *
48521312 GGTCTTACATGAAATCAAATACGATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAATCAAATACGATGCCAATATCCCAGACAG
* * **
48521354 GGTCTTACACGTAAATCTCAAAT-CAATGCCAACGTCCCAGAC-G
1 GGTCTTACATGT-AA--TCAAATACGATGCCAATATCCCAGACAG
48521397 TGGTCTTACATG
1 -GGTCTTACATG
48521409 AAAACACAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
42 26 0.32
43 22 0.27
44 27 0.33
45 6 0.07
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATACGATGCCAATATCCCAGACAG
Found at i:48521391 original size:44 final size:44
Alignment explanation
Indices: 48521251--48521408 Score: 148
Period size: 42 Copynumber: 3.7 Consensus size: 44
48521241 GCTCGTACAG
** *
48521251 TGCCAACGTCCCAGAGGTGGTCTTACATGT-AATC-AAATATCGA
1 TGCCAACGTCCCAGACATGGTCTTACATGTAAATCTCAA-ATCGA
* ** *
48521294 TGCC-ACTATCCTTGACAGGGTCTTACATG-AAA--TCAAATACGA
1 TGCCAAC-GTCCCAGACATGGTCTTACATGTAAATCTCAAAT-CGA
* * *
48521336 TGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCAA
1 TGCCAACGTCCCAGACATGGTCTTACATGTAAATCTCAAATCGA
*
48521380 TGCCAACGTCCCAGACGTGGTCTTACATG
1 TGCCAACGTCCCAGACATGGTCTTACATG
48521409 AAAACACAAA
Statistics
Matches: 90, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
41 2 0.02
42 28 0.31
43 26 0.29
44 28 0.31
45 6 0.07
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (44 bp):
TGCCAACGTCCCAGACATGGTCTTACATGTAAATCTCAAATCGA
Found at i:48524843 original size:79 final size:78
Alignment explanation
Indices: 48524712--48524872 Score: 295
Period size: 79 Copynumber: 2.1 Consensus size: 78
48524702 GTGGAAGATG
*
48524712 GAAAGGGAAAGGGCCATGAAAGCTAATTAAACCAATAAGTTGAAAGTTAAAGAAAAATAAAGAAT
1 GAAAGGGAAAGGGCCATGAAAGCTAATTAAACCAAAAAGTTGAAAGTTAAAGAAAAA-AAAGAAT
*
48524777 GAAATAGCAATATA
65 GAAATAACAATATA
48524791 GAAAGGGAAAGGGCCATGAAAGCTAATTAAACCAAAAAGTTGAAAGTTAAAGAAAAAAAAGAATG
1 GAAAGGGAAAGGGCCATGAAAGCTAATTAAACCAAAAAGTTGAAAGTTAAAGAAAAAAAAGAATG
48524856 AAATAACAATATA
66 AAATAACAATATA
48524869 GAAA
1 GAAA
48524873 AGTGATGCAG
Statistics
Matches: 80, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
78 24 0.30
79 56 0.70
ACGTcount: A:0.57, C:0.07, G:0.20, T:0.16
Consensus pattern (78 bp):
GAAAGGGAAAGGGCCATGAAAGCTAATTAAACCAAAAAGTTGAAAGTTAAAGAAAAAAAAGAATG
AAATAACAATATA
Found at i:48525047 original size:36 final size:36
Alignment explanation
Indices: 48525002--48525077 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
48524992 TAGATTTTTC
* *
48525002 CTAAGTATTATCACTAAATAATTTTAAATATTATCA
1 CTAACTATTATCACTAAATAATTCTAAATATTATCA
48525038 CTAACTATTATCACTAAATAATTCTAAATATTATCA
1 CTAACTATTATCACTAAATAATTCTAAATATTATCA
48525074 CTAA
1 CTAA
48525078 ATAATTAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.39
Consensus pattern (36 bp):
CTAACTATTATCACTAAATAATTCTAAATATTATCA
Found at i:48525069 original size:23 final size:23
Alignment explanation
Indices: 48525038--48525083 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
48525028 AATATTATCA
*
48525038 CTAACTATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
48525061 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
48525084 AAAAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:48525079 original size:13 final size:13
Alignment explanation
Indices: 48525002--48525080 Score: 73
Period size: 13 Copynumber: 6.5 Consensus size: 13
48524992 TAGATTTTTC
*
48525002 CTAAGTATTATCA
1 CTAAATATTATCA
48525015 CTAAATAATT-T--
1 CTAAAT-ATTATCA
48525026 -TAAATATTATCA
1 CTAAATATTATCA
*
48525038 CTAACTATTATCA
1 CTAAATATTATCA
*
48525051 CTAAATA--AT-T
1 CTAAATATTATCA
48525061 CTAAATATTATCA
1 CTAAATATTATCA
48525074 CTAAATA
1 CTAAATA
48525081 ATTAAAAATT
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
9 3 0.06
10 13 0.25
11 2 0.04
12 2 0.04
13 30 0.57
14 3 0.06
ACGTcount: A:0.46, C:0.14, G:0.01, T:0.39
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:48525089 original size:23 final size:23
Alignment explanation
Indices: 48525043--48525089 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
48525033 TATCACTAAC
**
48525043 TATTATCACTAAATAATTCTAAA
1 TATTATCACTAAATAATTAAAAA
48525066 TATTATCACTAAATAATTAAAAA
1 TATTATCACTAAATAATTAAAAA
48525089 T
1 T
48525090 TTAAAAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (23 bp):
TATTATCACTAAATAATTAAAAA
Found at i:48533840 original size:93 final size:93
Alignment explanation
Indices: 48533716--48533920 Score: 275
Period size: 93 Copynumber: 2.2 Consensus size: 93
48533706 TTCTAAAGTT
* * * *
48533716 TCGCCATAAAGGTTGTCCTTTACATCCAGTACTCGCCACAAAAGCTTTCCTATTTAGAGTTTTGC
1 TCGCCACAAAGGCTGTCTTTTACATCCAGTACTCGCCACAAAAGCTTTCCTATCTAGAGTTTTGC
*
48533781 TACAAAGGTTGCCCTTTACATCCAATAC
66 CACAAAGGTTGCCCTTTACATCCAATAC
* * * * * *
48533809 TGGCCACAAAGGCTGTCTTTTACATCTAGTACTTGCCATAAAGGCTTTCCTATCTAGAGTTTTTC
1 TCGCCACAAAGGCTGTCTTTTACATCCAGTACTCGCCACAAAAGCTTTCCTATCTAGAGTTTTGC
**
48533874 CACAAAGGTTGTTCTTTACATCCAATAC
66 CACAAAGGTTGCCCTTTACATCCAATAC
* *
48533902 TCACCACAAAGGCTTTCTT
1 TCGCCACAAAGGCTGTCTT
48533921 GTCCAGAGTT
Statistics
Matches: 96, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 96 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (93 bp):
TCGCCACAAAGGCTGTCTTTTACATCCAGTACTCGCCACAAAAGCTTTCCTATCTAGAGTTTTGC
CACAAAGGTTGCCCTTTACATCCAATAC
Found at i:48533892 original size:61 final size:61
Alignment explanation
Indices: 48533811--48534074 Score: 307
Period size: 61 Copynumber: 4.3 Consensus size: 61
48533801 TCCAATACTG
* ** *
48533811 GCCACAAAGGCTG-TCTTTTACATCTAGTACTTGCCATAAAGGCTTTCCTATCTAGAGTTTT
1 GCCACAAAGGCTGTTC-TTTACATCTAATACTCACCACAAAGGCTTTCCTATCTAGAGTTTT
* * * * * *
48533872 TCCACAAAGGTTGTTCTTTACATCCAATACTCACCACAAAGGCTTTCTTGTCCAGAGTTTT
1 GCCACAAAGGCTGTTCTTTACATCTAATACTCACCACAAAGGCTTTCCTATCTAGAGTTTT
* * *
48533933 GCCACAAAGGCTGTTCTTTACATCTAATACTCACGACAAAGGCTTTTCTATTTAGAGTTTT
1 GCCACAAAGGCTGTTCTTTACATCTAATACTCACCACAAAGGCTTTCCTATCTAGAGTTTT
* * * * *
48533994 GCCACAAAGGCTG-TCATTTCCATCTAGTACTCACTACAAAGGCTTTCCTGTTTAGAGTTTT
1 GCCACAAAGGCTGTTC-TTTACATCTAATACTCACCACAAAGGCTTTCCTATCTAGAGTTTT
* * *
48534055 GCCATAAAGGTTGTCCTTTA
1 GCCACAAAGGCTGTTCTTTA
48534075 ACTGGTGTTT
Statistics
Matches: 172, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
60 2 0.01
61 167 0.97
62 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (61 bp):
GCCACAAAGGCTGTTCTTTACATCTAATACTCACCACAAAGGCTTTCCTATCTAGAGTTTT
Found at i:48535179 original size:85 final size:85
Alignment explanation
Indices: 48535036--48535205 Score: 340
Period size: 85 Copynumber: 2.0 Consensus size: 85
48535026 GCATGAATAT
48535036 GTGTGTTAGAGAACAACATATTGGACTGACCCGCTATGAGTATGTTTCTTAGATTATTATGTAAT
1 GTGTGTTAGAGAACAACATATTGGACTGACCCGCTATGAGTATGTTTCTTAGATTATTATGTAAT
48535101 TGTCACAACATTACTCATAG
66 TGTCACAACATTACTCATAG
48535121 GTGTGTTAGAGAACAACATATTGGACTGACCCGCTATGAGTATGTTTCTTAGATTATTATGTAAT
1 GTGTGTTAGAGAACAACATATTGGACTGACCCGCTATGAGTATGTTTCTTAGATTATTATGTAAT
48535186 TGTCACAACATTACTCATAG
66 TGTCACAACATTACTCATAG
48535206 TGATTAATAT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (85 bp):
GTGTGTTAGAGAACAACATATTGGACTGACCCGCTATGAGTATGTTTCTTAGATTATTATGTAAT
TGTCACAACATTACTCATAG
Found at i:48536036 original size:33 final size:33
Alignment explanation
Indices: 48535994--48536059 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
48535984 AAACATTATT
48535994 ATATTTATTTGAATGATAATTATTATGTTCAGA
1 ATATTTATTTGAATGATAATTATTATGTTCAGA
48536027 ATATTTATTTGAATGATAATTATTATGTTCAGA
1 ATATTTATTTGAATGATAATTATTATGTTCAGA
48536060 TTAACTTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.48
Consensus pattern (33 bp):
ATATTTATTTGAATGATAATTATTATGTTCAGA
Found at i:48536072 original size:30 final size:31
Alignment explanation
Indices: 48536000--48536072 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 31
48535990 TATTATATTT
*
48536000 ATTTGAATGATAATTATTATGTTCAGAATATTT
1 ATTTGAATGATAATTATTATGTTCAG-A-ATTA
48536033 ATTTGAATGATAATTATTATGTTCAG-ATTA
1 ATTTGAATGATAATTATTATGTTCAGAATTA
48536063 ACTTT-AATGA
1 A-TTTGAATGA
48536073 ATTAAAATTC
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
30 9 0.24
31 3 0.08
33 26 0.68
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.47
Consensus pattern (31 bp):
ATTTGAATGATAATTATTATGTTCAGAATTA
Found at i:48542483 original size:29 final size:28
Alignment explanation
Indices: 48542447--48542524 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
48542437 TCATGAGATT
48542447 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
48542477 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
48542504 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
48542525 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:48542742 original size:174 final size:174
Alignment explanation
Indices: 48542477--48542804 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
48542467 AAATTGTACA
*
48542477 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
48542542 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
48542607 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * *
48542651 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGGTTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
48542716 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
48542781 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
48542805 ACCTTGAGTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:48550612 original size:29 final size:28
Alignment explanation
Indices: 48550576--48550653 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
48550566 TCATGAGATT
48550576 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
48550606 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
48550633 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
48550654 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:48550871 original size:174 final size:174
Alignment explanation
Indices: 48550606--48550933 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
48550596 AAATTGTACA
*
48550606 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
48550671 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
48550736 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
48550780 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
48550845 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
48550910 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
48550934 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:48556531 original size:37 final size:37
Alignment explanation
Indices: 48556458--48556531 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
48556448 GATATGGTCT
* *
48556458 TACACTAGCTCTCACATATCTGTGCCGGTGCTATGTC
1 TACACTAGCTCTCACATATCTGTGCCGATGCCATGTC
* *
48556495 TACACTATCTCTCACATATCTGTGCTGATGCCATGTC
1 TACACTAGCTCTCACATATCTGTGCCGATGCCATGTC
48556532 CCAAACGTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.34
Consensus pattern (37 bp):
TACACTAGCTCTCACATATCTGTGCCGATGCCATGTC
Found at i:48566967 original size:43 final size:44
Alignment explanation
Indices: 48566861--48566980 Score: 140
Period size: 43 Copynumber: 2.8 Consensus size: 44
48566851 ACATATCGAT
* * * *
48566861 CCAATGTCCCAAACATGGTCTTATACGAAAT--C-ATATAATGA
1 CCAATGTCCCAGACATGGTCTTACACGTAATCACAATACAATGA
*
48566902 TCCAATGTCCTAGACATGGTCTTACACGTAATCACAATACAATG-
1 -CCAATGTCCCAGACATGGTCTTACACGTAATCACAATACAATGA
* *
48566946 CCAATGTCCCAGACATTGTCTTACATGTAATCACA
1 CCAATGTCCCAGACATGGTCTTACACGTAATCACA
48566981 TCTTGATAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
42 27 0.40
43 32 0.48
44 1 0.01
45 7 0.10
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (44 bp):
CCAATGTCCCAGACATGGTCTTACACGTAATCACAATACAATGA
Found at i:48569823 original size:32 final size:33
Alignment explanation
Indices: 48569779--48569870 Score: 93
Period size: 32 Copynumber: 2.8 Consensus size: 33
48569769 TTGAAAAAAC
* *
48569779 TGGGCCTAAGCCCATATCAATCGCA-TATCAGTG
1 TGGGCCTTAGCCCATATCAATAGCAGTAT-AGTG
* *
48569812 T-GGCCTTAGCCCA-ATACAGTATCAGTATAGTG
1 TGGGCCTTAGCCCATAT-CAATAGCAGTATAGTG
*
48569844 TGGGCCTTAGCCCATCTCAATA-CAGTA
1 TGGGCCTTAGCCCATATCAATAGCAGTA
48569871 GCATAAATGT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
31 2 0.04
32 26 0.53
33 20 0.41
34 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (33 bp):
TGGGCCTTAGCCCATATCAATAGCAGTATAGTG
Found at i:48597530 original size:27 final size:27
Alignment explanation
Indices: 48597500--48597713 Score: 277
Period size: 27 Copynumber: 8.0 Consensus size: 27
48597490 CCCTAATTGA
*
48597500 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
*
48597527 TAAAATGATTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* *
48597554 TAAAATGATTGTTTTGCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
*
48597581 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* *
48597608 TAAAATGACTATTTTGCCCTTATGTGA
1 TAAAATGACTGTTTTGCCCTTATGTGG
** *
48597635 TAAAATGTTTGTTTTTCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
** **
48597662 TAAGTTGACTGTTTTGCCCTTACATGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* *
48597689 TAAGATGATTGTTTTGCCC-TATGTG
1 TAAAATGACTGTTTTGCCCTTATGTG
48597714 ATGTATTTAT
Statistics
Matches: 164, Mismatches: 23, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 4 0.02
27 160 0.98
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGTGG
Found at i:48597639 original size:81 final size:81
Alignment explanation
Indices: 48597500--48597715 Score: 317
Period size: 81 Copynumber: 2.7 Consensus size: 81
48597490 CCCTAATTGA
*
48597500 TAAAATGACTATTTTGCCCTTATGTGGTAAAATGATTGTTTTGCCCTTATGTGGTAAAATGATTG
1 TAAAATGACTATTTTGCCCTTATGTGGTAAAATGATTGTTTTGCCCTTATGTGATAAAATGATTG
48597565 TTTTGCCCTTATATGG
66 TTTTGCCCTTATATGG
* * *
48597581 TAAAATGACTATTTTGCCCTTATGTGGTAAAATGACTATTTTGCCCTTATGTGATAAAATGTTTG
1 TAAAATGACTATTTTGCCCTTATGTGGTAAAATGATTGTTTTGCCCTTATGTGATAAAATGATTG
* *
48597646 TTTTTCCCTTATGTGG
66 TTTTGCCCTTATATGG
** * ** *
48597662 TAAGTTGACTGTTTTGCCCTTACATGGTAAGATGATTGTTTTGCCC-TATGTGAT
1 TAAAATGACTATTTTGCCCTTATGTGGTAAAATGATTGTTTTGCCCTTATGTGAT
48597716 GTATTTATAT
Statistics
Matches: 121, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 8 0.07
81 113 0.93
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (81 bp):
TAAAATGACTATTTTGCCCTTATGTGGTAAAATGATTGTTTTGCCCTTATGTGATAAAATGATTG
TTTTGCCCTTATATGG
Found at i:48601299 original size:27 final size:27
Alignment explanation
Indices: 48601258--48601471 Score: 216
Period size: 27 Copynumber: 8.0 Consensus size: 27
48601248 CGCTAATTGA
* * *
48601258 TAAAATTACTATTTTTCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
*
48601285 TAAAATGACTGTTTTGCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * *
48601312 TAATATGACTGTCTTGCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
** *
48601339 TAAAATGACTGTTTTGCTTTTATGTTG
1 TAAAATGACTGTTTTGCCCTTATGTGG
*
48601366 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * * * *
48601393 TAAGATGATTGTTTTACCTTTATGTAG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * **
48601420 TAAAATGACTATGTTT-CCCCTACATGG
1 TAAAATGACTGT-TTTGCCCTTATGTGG
*
48601447 TAAGATGACTGTTTTGCCC-TATGTG
1 TAAAATGACTGTTTTGCCCTTATGTG
48601472 ATGTATATAT
Statistics
Matches: 151, Mismatches: 34, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
26 7 0.05
27 141 0.93
28 3 0.02
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGTGG
Found at i:48601819 original size:24 final size:24
Alignment explanation
Indices: 48601787--48601862 Score: 98
Period size: 24 Copynumber: 3.2 Consensus size: 24
48601777 AGGACTTGTA
* *
48601787 TACTATTACTGCATTGATTACCGT
1 TACTATTACTGCACTGATTACTGT
*
48601811 TACTATTACTGCACTGATTATTGT
1 TACTATTACTGCACTGATTACTGT
* * *
48601835 TACTGTTACTACACTGATTTCTGT
1 TACTATTACTGCACTGATTACTGT
48601859 TACT
1 TACT
48601863 GTACTGTTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.45
Consensus pattern (24 bp):
TACTATTACTGCACTGATTACTGT
Found at i:48601839 original size:18 final size:18
Alignment explanation
Indices: 48601837--48601883 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
48601827 ATTATTGTTA
*
48601837 CTGTTACTACACTGATTT
1 CTGTTACTGCACTGATTT
*
48601855 CTGTTACTGTACTG-TTT
1 CTGTTACTGCACTGATTT
*
48601872 ATTGTTACTGCA
1 -CTGTTACTGCA
48601884 ATAGGCCAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (18 bp):
CTGTTACTGCACTGATTT
Done.