Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold141
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: 2772588
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 118404 characters in sequence are not A, C, G, or T
File 5 of 18
Found at i:858406 original size:16 final size:16
Alignment explanation
Indices: 858385--858443 Score: 84
Period size: 16 Copynumber: 3.6 Consensus size: 16
858375 TAACATATTA
858385 TATTTTATATTTTAAT
1 TATTTTATATTTTAAT
858401 TATTTTA-ATTTTAAAT
1 TATTTTATATTTT-AAT
*
858417 TATATTATATTTTAAT
1 TATTTTATATTTTAAT
858433 TATTTTTATAT
1 TA-TTTTATAT
858444 AATTTATTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
15 5 0.13
16 21 0.55
17 12 0.32
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTTTATATTTTAAT
Found at i:859090 original size:20 final size:21
Alignment explanation
Indices: 859061--859101 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
859051 AATTTTTTAT
* *
859061 TAAAAGTTATAGA-ATTAAAA
1 TAAAAATTATAAATATTAAAA
859081 TAAAAATTATAAATATTAAAA
1 TAAAAATTATAAATATTAAAA
859102 ATTAAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (21 bp):
TAAAAATTATAAATATTAAAA
Found at i:859102 original size:16 final size:16
Alignment explanation
Indices: 859081--859114 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
859071 AGAATTAAAA
859081 TAAAAATTATAA-ATAT
1 TAAAAATTA-AATATAT
859097 TAAAAATTAAATATAT
1 TAAAAATTAAATATAT
859113 TA
1 TA
859115 TTTTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 15 0.88
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAAAATTAAATATAT
Found at i:859997 original size:104 final size:106
Alignment explanation
Indices: 859880--860092 Score: 304
Period size: 104 Copynumber: 2.0 Consensus size: 106
859870 TCGTCATATA
* *
859880 TATATATAAAGTTATAAATTAATCTGAAATCTCTATTAAATCAATTTAAAATACTATATTTTTTA
1 TATATATAAAGTTATAAATTAATCTGAAATCTCTATTAAATCAATCTAAAATACTATATTTGTTA
* * * *
859945 A-TTT-TTTTATATTGAAGAAATGGTTAAATATTTTTTAAT
66 ATTTTCTTTTACATTGAAGAAAGGGTTAAATATCTTTCAAT
** ** * *
859984 TATATATAAAGTTATAAATTAATCTGATGTCTCTATTAAATTTATCTAGAATACTGTATTTGTTA
1 TATATATAAAGTTATAAATTAATCTGAAATCTCTATTAAATCAATCTAAAATACTATATTTGTTA
860049 ATTTTCTTTTACATTGAAGAAAGGGTTAAATATCTTTCAAT
66 ATTTTCTTTTACATTGAAGAAAGGGTTAAATATCTTTCAAT
860090 TAT
1 TAT
860093 TCTAAATTTG
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
104 58 0.61
105 3 0.03
106 34 0.36
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (106 bp):
TATATATAAAGTTATAAATTAATCTGAAATCTCTATTAAATCAATCTAAAATACTATATTTGTTA
ATTTTCTTTTACATTGAAGAAAGGGTTAAATATCTTTCAAT
Found at i:860233 original size:22 final size:22
Alignment explanation
Indices: 860205--860253 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
860195 ATTTAATTAC
*
860205 ATATATATAAATCTGTGTATAT
1 ATATATATAAATATGTGTATAT
* * *
860227 ATATATATATATATTTTTATAT
1 ATATATATAAATATGTGTATAT
860249 ATATA
1 ATATA
860254 AATTTGTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (22 bp):
ATATATATAAATATGTGTATAT
Found at i:860247 original size:16 final size:16
Alignment explanation
Indices: 860228--860263 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
860218 TGTGTATATA
* *
860228 TATATATATATATTTT
1 TATATATATAAATTTG
860244 TATATATATAAATTTG
1 TATATATATAAATTTG
860260 TATA
1 TATA
860264 AAGTTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TATATATATAAATTTG
Found at i:860988 original size:35 final size:34
Alignment explanation
Indices: 860921--860992 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 34
860911 ACTGACGTAA
* *
860921 TTATCTTTAAATATTTTAGGTAATTTATTTATTT
1 TTATATTTAAATATTTTAGGTAATTTAATTATTT
*
860955 TTATATTTAAATATTTTTATGT-ATTATAATTATTT
1 TTATATTTAAATA-TTTTAGGTAATT-TAATTATTT
860990 TTA
1 TTA
860993 AAGTATTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 15 0.45
35 18 0.55
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (34 bp):
TTATATTTAAATATTTTAGGTAATTTAATTATTT
Found at i:860998 original size:20 final size:19
Alignment explanation
Indices: 860949--861002 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
860939 GGTAATTTAT
860949 TTATTTTT-A-TATT-TAA
1 TTATTTTTAAGTATTATAA
* *
860965 ATATTTTTATGTATTATAA
1 TTATTTTTAAGTATTATAA
860984 TTATTTTTAAAGTATTATA
1 TTATTTTT-AAGTATTATA
861003 TGTTTATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
16 7 0.23
18 4 0.13
19 10 0.33
20 9 0.30
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (19 bp):
TTATTTTTAAGTATTATAA
Found at i:861004 original size:29 final size:28
Alignment explanation
Indices: 860955--861010 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
860945 TTATTTATTT
*
860955 TTATATTTAAATATTTTTATGTATTATAA
1 TTATATTTAAATATTTATATGT-TTATAA
*
860984 TTATTTTTAAAGTA-TTATATGTTTATA
1 TTATATTTAAA-TATTTATATGTTTATA
861011 TAAATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.21
29 17 0.71
30 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (28 bp):
TTATATTTAAATATTTATATGTTTATAA
Found at i:862728 original size:32 final size:32
Alignment explanation
Indices: 862692--862752 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
862682 TATGTGTGTG
862692 TGTGTGTGAAAAATATGTAAGGTTTATATATA
1 TGTGTGTGAAAAATATGTAAGGTTTATATATA
862724 TGTGTGTGAAAAATATGTAAGGTTTATAT
1 TGTGTGTGAAAAATATGTAAGGTTTATAT
862753 TGTGATGGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (32 bp):
TGTGTGTGAAAAATATGTAAGGTTTATATATA
Found at i:866358 original size:20 final size:19
Alignment explanation
Indices: 866326--866366 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
866316 ATCTAATTTG
*
866326 AAATAGTATTTTTTAATTA
1 AAATAATATTTTTTAATTA
*
866345 AAATAATATATTTTTATTTA
1 AAATAATAT-TTTTTAATTA
866365 AA
1 AA
866367 TTTAATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
AAATAATATTTTTTAATTA
Found at i:866367 original size:19 final size:19
Alignment explanation
Indices: 866319--866367 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
866309 TAGTTTGATC
*
866319 TAATTTGAAATAGTATTTTT
1 TAATTT-AAATAATATTTTT
*
866339 TAATTAAAATAATATATTTT
1 TAATTTAAATAATAT-TTTT
866359 T-ATTTAAAT
1 TAATTTAAAT
866368 TTAATTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (19 bp):
TAATTTAAATAATATTTTT
Found at i:866387 original size:21 final size:22
Alignment explanation
Indices: 866363--866403 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
866353 TATTTTTATT
866363 TAAAT-TTAAT-TATAAAATATA
1 TAAATATTAATGTA-AAAATATA
866384 TAAATATTAATGTAAAAATA
1 TAAATATTAATGTAAAAATA
866404 ATTTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 11 0.61
23 2 0.11
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
TAAATATTAATGTAAAAATATA
Found at i:867639 original size:145 final size:144
Alignment explanation
Indices: 867294--867688 Score: 434
Period size: 145 Copynumber: 2.7 Consensus size: 144
867284 AAGTACTTTG
* * * * * *
867294 TTAACAAATTGATTAATAGATTTAGTATGCATGTAAAGCTTTGAATAA-TTTAATATTTATTTCA
1 TTAATAAATTAATTGATAAATTTACTATGCATGTAAAGTTTTGAA-AAGTTTAATATTTATTTCA
** * * * ** *
867358 TATCAATAGAAAATATAAATTTTTATATAATTAACAATTAATTAGTTAAATAATTTTATAATTTT
65 CGTCGATA-AAAATATAATTTTTTATATATTTAATGATTAATTAGTTAAATAATTTTATAACTTT
867423 GAATATGATTGATATT
129 GAATATGATTGATATT
* * * * * *
867439 TTAATAAATTAATTGATAGATTTACTGTGCACGTAAAGTTTT-ACATAGATCAATATTTATTTCA
1 TTAATAAATTAATTGATAAATTTACTATGCATGTAAAGTTTTGA-AAAGTTTAATATTTATTTCA
* * * ** *
867503 CGTCGATCAATAATATCATTTTTTATATATTTAATGTTTAATTAGTTACCTAATTTTCTAACTTT
65 CGTCGAT-AAAAATATAATTTTTTATATATTTAATGATTAATTAGTTAAATAATTTTATAACTTT
867568 GAATATGATTGATATT
129 GAATATGATTGATATT
** * *
867584 TTAATAAATTAATTGATAAATTTTTTATGCATGTAAAGTTTTGAAAAGTTTAATATATATTTTAC
1 TTAATAAATTAATTGATAAATTTACTATGCATGTAAAGTTTTGAAAAGTTTAATATTTATTTCAC
* * *
867649 GTCGATTAAAAATATTATTTTTTTTATATTTAATGGTTAA
66 GTCGA-TAAAAATATAATTTTTTATATATTTAATGATTAA
867689 AAATCATTTA
Statistics
Matches: 207, Mismatches: 38, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
144 2 0.01
145 202 0.98
146 3 0.01
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (144 bp):
TTAATAAATTAATTGATAAATTTACTATGCATGTAAAGTTTTGAAAAGTTTAATATTTATTTCAC
GTCGATAAAAATATAATTTTTTATATATTTAATGATTAATTAGTTAAATAATTTTATAACTTTGA
ATATGATTGATATT
Found at i:867887 original size:2 final size:2
Alignment explanation
Indices: 867880--867904 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
867870 CTGAATCTTT
867880 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
867905 TGAAGTCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:869494 original size:12 final size:13
Alignment explanation
Indices: 869477--869506 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
869467 TTATCTTTCA
869477 AAAAATA-TTTTT
1 AAAAATATTTTTT
869489 AAAAATATTTTTT
1 AAAAATATTTTTT
869502 AAAAA
1 AAAAA
869507 AATTATATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AAAAATATTTTTT
Found at i:871142 original size:20 final size:21
Alignment explanation
Indices: 871103--871143 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
871093 ATATATATAA
**
871103 ATGATTTTTTACTGGTTTAAT
1 ATGATTTTTTACTGAATTAAT
871124 ATGATTTTTTACT-AATTAAT
1 ATGATTTTTTACTGAATTAAT
871144 TAAATAGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.56
Consensus pattern (21 bp):
ATGATTTTTTACTGAATTAAT
Found at i:874126 original size:2 final size:2
Alignment explanation
Indices: 874119--874163 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
874109 CCCAAAGAAT
874119 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
874161 TA T
1 TA T
874164 TACCCAAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:874237 original size:8 final size:8
Alignment explanation
Indices: 874214--874247 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
874204 TCCACATCCC
*
874214 ATCTATGA
1 ATCTATAA
*
874222 ATCCATAA
1 ATCTATAA
874230 ATCTATAA
1 ATCTATAA
874238 ATCTATAA
1 ATCTATAA
874246 AT
1 AT
874248 TAAACTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (8 bp):
ATCTATAA
Found at i:875134 original size:9 final size:9
Alignment explanation
Indices: 875095--875153 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
875085 ATACATTTAA
*
875095 AAATAACAT
1 AAATAATAT
875104 AACATAA-A-
1 AA-ATAATAT
*
875112 AAATGATAT
1 AAATAATAT
*
875121 GAATAATAT
1 AAATAATAT
*
875130 AAATACATAA
1 AAATA-ATAT
875140 AAATAATAT
1 AAATAATAT
875149 AAATA
1 AAATA
875154 TGATATGAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
7 3 0.08
8 3 0.08
9 22 0.55
10 12 0.30
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.25
Consensus pattern (9 bp):
AAATAATAT
Found at i:875153 original size:28 final size:28
Alignment explanation
Indices: 875068--875153 Score: 77
Period size: 28 Copynumber: 3.0 Consensus size: 28
875058 TTTATATGAC
* *
875068 ATAAACATAAAATAAAAATACATTTAAA-A
1 ATAAA-ATAACATAAAAATA-ATATAAATA
* * *
875097 ATAACATAACATAAAAAATGATATGAATA
1 ATAAAATAACAT-AAAAATAATATAAATA
875126 ATATAAAT-ACATAAAAATAATATAAATA
1 ATA-AAATAACATAAAAATAATATAAATA
875154 TGATATGAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
28 25 0.54
29 18 0.39
30 3 0.07
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (28 bp):
ATAAAATAACATAAAAATAATATAAATA
Found at i:876569 original size:2 final size:2
Alignment explanation
Indices: 876564--876629 Score: 114
Period size: 2 Copynumber: 33.0 Consensus size: 2
876554 TGCATGTGTG
876564 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
876606 TA TA TA TA TA TA AA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
876630 CTGTTAAAGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:878302 original size:28 final size:27
Alignment explanation
Indices: 878253--878306 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
878243 AAACGTGAGT
878253 CTGAAAGTGTAGGGCCTAGA-AAATAAGC
1 CTGAAAGTGTAGGG-C-AGAGAAATAAGC
*
878281 CTGAAAGTGTAGGGCAGGGAAATAAG
1 CTGAAAGTGTAGGGCAGAGAAATAAG
878307 GGCCGTCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 2 0.08
27 8 0.33
28 14 0.58
ACGTcount: A:0.39, C:0.11, G:0.33, T:0.17
Consensus pattern (27 bp):
CTGAAAGTGTAGGGCAGAGAAATAAGC
Found at i:881345 original size:23 final size:22
Alignment explanation
Indices: 881319--881379 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
881309 AAGTTCCCTT
*
881319 CAAAATGACAAAAAAGTCAAAAA
1 CAAAA-GACAAAAAAATCAAAAA
*
881342 CAAAAG-CATAAAAAATGAAAAAA
1 CAAAAGACA-AAAAAAT-CAAAAA
*
881365 AAAAAGACAAAAAAA
1 CAAAAGACAAAAAAA
881380 GTGCCAAGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
21 2 0.06
22 7 0.22
23 21 0.66
24 2 0.06
ACGTcount: A:0.75, C:0.10, G:0.08, T:0.07
Consensus pattern (22 bp):
CAAAAGACAAAAAAATCAAAAA
Found at i:882844 original size:30 final size:29
Alignment explanation
Indices: 882773--882938 Score: 86
Period size: 30 Copynumber: 5.6 Consensus size: 29
882763 AGTAAAGTAA
* * *
882773 CCTTTTAAAAGTCCACGACTTATTGGCAT
1 CCTTTTCAAAGTCCACGACTCAATGGCAT
* *
882802 CCTATCTTCAAAGTTCGCGACTCAATGGCAT
1 CCT-T-TTCAAAGTCCACGACTCAATGGCAT
* * * *
882833 CCCTTTTCAAAGTCTATGACTTAGTGGCAT
1 -CCTTTTCAAAGTCCACGACTCAATGGCAT
* * * *
882863 CCATATTT-AAAGTCCA-AACTTAGTGGTAT
1 CC-T-TTTCAAAGTCCACGACTCAATGGCAT
* * *
882892 CCCTTCTCCAAGTCCATGACTCAATGGCATT
1 -CCTTTTCAAAGTCCACGACTCAATGGCA-T
*
882923 GCTTCTT-AAAGTCCAC
1 CCTT-TTCAAAGTCCAC
882939 AACTTTGTGG
Statistics
Matches: 103, Mismatches: 24, Indels: 19
0.71 0.16 0.13
Matches are distributed among these distances:
28 2 0.02
29 24 0.23
30 48 0.47
31 26 0.25
32 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.33
Consensus pattern (29 bp):
CCTTTTCAAAGTCCACGACTCAATGGCAT
Found at i:882911 original size:59 final size:58
Alignment explanation
Indices: 882780--882988 Score: 163
Period size: 59 Copynumber: 3.5 Consensus size: 58
882770 TAACCTTTTA
* * * * * * * *
882780 AAAGTCCACGACTTATTGGCATCCTATCTTCAAAGTTCGCGACTCAATGGCATCCCTTTTC
1 AAAGTCTATGACTTAGTGGCATCCT-TCTT-AAAGTCCACAACTTAGTGGCATCCC-TTTC
*
882841 AAAGTCTATGACTTAGTGGCATCCATAT-TTAAAGTCCA-AACTTAGTGGTATCCCTTCTC
1 AAAGTCTATGACTTAGTGGCATCC-T-TCTTAAAGTCCACAACTTAGTGGCATCCCTT-TC
* * * * * *
882900 CAAGTCCATGACTCAATGGCATTGCTTCTTAAAGTCCACAACTTTGTGGCATCCCTTT-
1 AAAGTCTATGACTTAGTGGCA-TCCTTCTTAAAGTCCACAACTTAGTGGCATCCCTTTC
* * * *
882958 TAAGTCTATAACTTCGTGGCATCCTTTTTAA
1 AAAGTCTATGACTTAGTGGCATCCTTCTTAA
882989 GTCTAAAACT
Statistics
Matches: 119, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
57 8 0.07
58 18 0.15
59 43 0.36
60 24 0.20
61 23 0.19
62 3 0.03
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (58 bp):
AAAGTCTATGACTTAGTGGCATCCTTCTTAAAGTCCACAACTTAGTGGCATCCCTTTC
Found at i:882970 original size:28 final size:29
Alignment explanation
Indices: 882827--882988 Score: 130
Period size: 30 Copynumber: 5.5 Consensus size: 29
882817 CGCGACTCAA
* *
882827 TGGCATCCCTTTTCAAAGTCTATGACTTAG
1 TGGCATCCCTTTT-AAAGTCCATAACTTAG
*
882857 TGGCATCCATATTTAAAGTCCA-AACTTAG
1 TGGCATCCCT-TTTAAAGTCCATAACTTAG
* ** * * *
882886 TGGTATCCCTTCTCCAAGTCCATGACTCAA
1 TGGCATCCCTT-TTAAAGTCCATAACTTAG
** * *
882916 TGGCATTGCTTCTTAAAGTCCACAACTTTG
1 TGGCATCCCTT-TTAAAGTCCATAACTTAG
* *
882946 TGGCATCCCTTTT-AAGTCTATAACTTCG
1 TGGCATCCCTTTTAAAGTCCATAACTTAG
*
882974 TGGCATCCTTTTTAA
1 TGGCATCCCTTTTAA
882989 GTCTAAAACT
Statistics
Matches: 102, Mismatches: 26, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
28 25 0.25
29 25 0.25
30 49 0.48
31 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (29 bp):
TGGCATCCCTTTTAAAGTCCATAACTTAG
Found at i:882989 original size:28 final size:28
Alignment explanation
Indices: 882939--883006 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
882929 TAAAGTCCAC
* *
882939 AACTTTGTGGCATCCCTTTTAAGTCTAT
1 AACTTCGTGGCATCCCTTTTAAGTCTAA
*
882967 AACTTCGTGGCATCCTTTTTAAGTCTAA
1 AACTTCGTGGCATCCCTTTTAAGTCTAA
*
882995 AACTCCGTGGCA
1 AACTTCGTGGCA
883007 CCCATCTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (28 bp):
AACTTCGTGGCATCCCTTTTAAGTCTAA
Found at i:883150 original size:59 final size:59
Alignment explanation
Indices: 882928--883207 Score: 189
Period size: 59 Copynumber: 4.7 Consensus size: 59
882918 GCATTGCTTC
*** * * *
882928 TTAAAGTCCACAACTTTGTGGCATCC-CTTTT-AAGTCTATAACT-TCGTGGCA-TCCTTT
1 TTAAAGTCCACAACTCCATGGCA-CCTCTTTTAAAGTCCACAACTCT-GTGGCACCCCTTT
* * * * *
882985 TT-AAGTCTAAAACTCCGTGGCACCCATCTTTTTTAAAGTCCACAACTTTGTGGTA-CCC-TT
1 TTAAAGTCCACAACTCCATGGCA-CC-TC--TTTTAAAGTCCACAACTCTGTGGCACCCCTTT
* * * * *
883045 TT-AAGCCCACAACACCATGGCACCTTTTTCTTCAAAGTGCATAACTCTGTGGCACCCCTTT
1 TTAAAGTCCACAACTCCATGGCACC-TCTT-TT-AAAGTCCACAACTCTGTGGCACCCCTTT
* * **
883106 TTAAAATCCACAACTCCATGGCATCTCTTTTAAAGTCCACAACTCTGTGGCACCTTTTT
1 TTAAAGTCCACAACTCCATGGCACCTCTTTTAAAGTCCACAACTCTGTGGCACCCCTTT
** *
883165 CTTCAAAGTCCACAACTCTGTGGCACCCCTTTTTAAAGTCCAC
1 -TT-AAAGTCCACAACTCCATGGCACCTC-TTTTAAAGTCCAC
883208 CTCTCATGGC
Statistics
Matches: 175, Mismatches: 34, Indels: 23
0.75 0.15 0.10
Matches are distributed among these distances:
56 18 0.10
57 4 0.02
58 3 0.02
59 44 0.25
60 30 0.17
61 44 0.25
62 32 0.18
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.33
Consensus pattern (59 bp):
TTAAAGTCCACAACTCCATGGCACCTCTTTTAAAGTCCACAACTCTGTGGCACCCCTTT
Found at i:883178 original size:32 final size:30
Alignment explanation
Indices: 882928--883257 Score: 200
Period size: 32 Copynumber: 11.0 Consensus size: 30
882918 GCATTGCTTC
*
882928 TTAAAGTCCACAACTTTGTGGCATCCC--TT
1 TTAAAGTCCACAACTCTGTGGCA-CCCTTTT
* * *
882957 TT-AAGTCTATAACT-TCGTGGCATCC-TTT
1 TTAAAGTCCACAACTCT-GTGGCACCCTTTT
* * *
882985 TT-AAGTCTAAAACTCCGTGGCACCCATCTTTT
1 TTAAAGTCCACAACTCTGTGGCA-CC--CTTTT
* *
883017 TTAAAGTCCACAACTTTGTGGTACCC--TT
1 TTAAAGTCCACAACTCTGTGGCACCCTTTT
* * ** *
883045 TT-AAGCCCACAACACCATGGCACCTTTTT
1 TTAAAGTCCACAACTCTGTGGCACCCTTTT
* * *
883074 CTTCAAAGTGCATAACTCTGTGGCACCCCTTT
1 -TT-AAAGTCCACAACTCTGTGGCACCCTTTT
* ** * *
883106 TTAAAATCCACAACTCCATGGCA-TCTCTT
1 TTAAAGTCCACAACTCTGTGGCACCCTTTT
*
883135 TTAAAGTCCACAACTCTGTGGCACCTTTTT
1 TTAAAGTCCACAACTCTGTGGCACCCTTTT
*
883165 CTTCAAAGTCCACAACTCTGTGGCACCCCTTT
1 -TT-AAAGTCCACAACTCTGTGGCACCCTTTT
* *
883197 TTAAAGTCCAC--CTCTCATGGCACCTTTTT
1 TTAAAGTCCACAACTCT-GTGGCACCCTTTT
* *
883226 CTTCAAAG-CCTACAAGTCAGTGGCACCCTTTT
1 -TT-AAAGTCC-ACAACTCTGTGGCACCCTTTT
883258 AAAGCTCATA
Statistics
Matches: 230, Mismatches: 49, Indels: 41
0.72 0.15 0.13
Matches are distributed among these distances:
27 19 0.08
28 45 0.20
29 38 0.17
30 35 0.15
31 13 0.06
32 63 0.27
33 17 0.07
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.33
Consensus pattern (30 bp):
TTAAAGTCCACAACTCTGTGGCACCCTTTT
Found at i:883197 original size:61 final size:60
Alignment explanation
Indices: 883078--883261 Score: 191
Period size: 61 Copynumber: 3.1 Consensus size: 60
883068 CTTTTTCTTC
* * ** * *
883078 AAAGTGCATAACTCTGTGGCACCCCTTT-TT-AAAATCCACAACTCCA-TGGCATCTCTTTT
1 AAAGTCCACAACTCTGTGGCACCTTTTTCTTCAAAGTCCACAACT-CAGTGGCA-CCCTTTT
*
883137 AAAGTCCACAACTCTGTGGCACCTTTTTCTTCAAAGTCCACAACTCTGTGGCACCCCTTTTT
1 AAAGTCCACAACTCTGTGGCACCTTTTTCTTCAAAGTCCACAACTCAGTGGCA-CCC-TTTT
* *
883199 AAAGTCCAC--CTCTCATGGCACCTTTTTCTTCAAAG-CCTACAAGTCAGTGGCACCCTTTT
1 AAAGTCCACAACTCT-GTGGCACCTTTTTCTTCAAAGTCC-ACAACTCAGTGGCACCCTTTT
883258 AAAG
1 AAAG
883262 CTCATAGGTC
Statistics
Matches: 108, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
59 32 0.30
60 12 0.11
61 51 0.47
62 13 0.12
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (60 bp):
AAAGTCCACAACTCTGTGGCACCTTTTTCTTCAAAGTCCACAACTCAGTGGCACCCTTTT
Found at i:883272 original size:28 final size:28
Alignment explanation
Indices: 883230--883613 Score: 281
Period size: 28 Copynumber: 13.4 Consensus size: 28
883220 CTTTTTCTTC
*
883230 AAAGCCTACAAGTCAGTGGCACCCTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
* * * *
883258 AAAGCTCATAGGTCAATGGCACCTCTTTT
1 AAAGCCCACAAGTCAGTGGCACC-CTTTT
* * * **
883287 AAAGCCCATAGGTTAGTGGCACCTCTTCC
1 AAAGCCCACAAGTCAGTGGCACC-CTTTT
* * * *
883316 AAAGCTCACAAGTCATTGGCATCTTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
* * *
883344 AAAGCCCACAAGTTACTAGCACCCTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
* *
883372 AAAGCCCACAGGTCAGTGGCA-TCTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
*
883399 CAAAGCCCACAAGTCAGTGACA-CCTTTT
1 -AAAGCCCACAAGTCAGTGGCACCCTTTT
* *
883427 TATGACCCACAAGTCAGTGGCA-CCTTTT
1 AAAG-CCCACAAGTCAGTGGCACCCTTTT
* *
883455 GAAGCCCACAAGTTAGTGGCATCCCTTTTT
1 AAAGCCCACAAGTCAGTGGCA-CCC-TTTT
* ** *
883485 AAAGCCCACAAGTCAATAACATCCTTTT
1 AAAGCCCACAAGTCAGTGGCACCCTTTT
* * **
883513 -AAGCCAACAAGTTAGTGGCACCCTTCCA
1 AAAGCCCACAAGTCAGTGGCACCCTT-TT
* * *
883541 AAAGCCCACATAAATCGGTGGCAACCCTCTCT
1 AAAGCCCAC--AAGTCAGTGGC-ACCCT-TTT
* *
883573 AAAGCCCACATAAGTCAATGGCAACCTTTTT
1 AAAGCCCAC--AAGTCAGTGGC-ACCCTTTT
883604 AAAGCCCACA
1 AAAGCCCACA
883614 CAAGTTAGTG
Statistics
Matches: 281, Mismatches: 63, Indels: 23
0.77 0.17 0.06
Matches are distributed among these distances:
27 42 0.15
28 111 0.40
29 58 0.21
30 20 0.07
31 19 0.07
32 30 0.11
33 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTT
Found at i:883278 original size:150 final size:150
Alignment explanation
Indices: 882974--883257 Score: 330
Period size: 152 Copynumber: 1.9 Consensus size: 150
882964 TATAACTTCG
* * *
882974 TGGCATC-CTTTTTAAGTCTAAAACTCCGTGGCACCCATCTTTTTTAAAGTCCACAACTTTGTGG
1 TGGCATCTCTTTTAAAGTCCAAAACTCCGTGGCACCCATCTTTTTTAAAGTCCACAACTCTGTGG
* * * *
883038 TACCCTTTTAAGCCCACAACACCATGGCACCTTTTTCTTCAAAGTGCATAACTCTGTGGCACCCC
66 CACCCTTTTAAGCCCAC-ACACCATGGCACCTTTTTCTTCAAAGTCCACAACTCAGTGGCACCCC
*
883103 TTTTTAAAATCCACAACTCCA
130 TTTTTAAAATCCACAACTCAA
* *
883124 TGGCATCTCTTTTAAAGTCCACAACTCTGTGGCA-CC-T-TTTTCTTCAAAGTCCACAACTCTGT
1 TGGCATCTCTTTTAAAGTCCAAAACTCCGTGGCACCCATCTTTT-TT-AAAGTCCACAACTCTGT
* * *
883186 GGCACCCCTTTTTAAAGTCCAC-CTCTCATGGCACCTTTTTCTTCAAAG-CCTACAAGTCAGTGG
64 GGCA-CCC-TTTT-AAGCCCACACAC-CATGGCACCTTTTTCTTCAAAGTCC-ACAACTCAGTGG
883249 CA-CCCTTTT
124 CACCCCTTTT
883258 AAAGCTCATA
Statistics
Matches: 114, Mismatches: 12, Indels: 15
0.81 0.09 0.11
Matches are distributed among these distances:
148 4 0.04
149 3 0.03
150 28 0.25
151 35 0.31
152 37 0.32
153 7 0.06
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.33
Consensus pattern (150 bp):
TGGCATCTCTTTTAAAGTCCAAAACTCCGTGGCACCCATCTTTTTTAAAGTCCACAACTCTGTGG
CACCCTTTTAAGCCCACACACCATGGCACCTTTTTCTTCAAAGTCCACAACTCAGTGGCACCCCT
TTTTAAAATCCACAACTCAA
Found at i:883393 original size:56 final size:56
Alignment explanation
Indices: 883230--883537 Score: 298
Period size: 57 Copynumber: 5.5 Consensus size: 56
883220 CTTTTTCTTC
* * * * * *
883230 AAAGCCTACAAGTCAGTGGCACCCTTTTAAAGCTCATAGGTCAATGGCACCTCTTTT
1 AAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCACAAGTCAATGGCATCT-TTTT
* * ** * *
883287 AAAGCCCATAGGTTAGTGGCACCTCTTCCAAAGCTCACAAGTCATTGGCATCTTTTT
1 AAAGCCCACAAGTTAGTGGCACC-CTTTTAAAGCCCACAAGTCAATGGCATCTTTTT
* * * * *
883344 AAAGCCCACAAGTTACTAGCACCCTTTTAAAGCCCACAGGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCACAAGTCAATGGCATCTTTTT
* * * * * *
883400 AAAGCCCACAAGTCAGTGACA-CCTTTTTATGACCCACAAGTCAGTGGCA-CCTTTT
1 AAAGCCCACAAGTTAGTGGCACCCTTTTAAAG-CCCACAAGTCAATGGCATCTTTTT
* ** *
883455 GAAGCCCACAAGTTAGTGGCATCCCTTTTTAAAGCCCACAAGTCAATAACATCCTTTT
1 AAAGCCCACAAGTTAGTGGCA-CCC-TTTTAAAGCCCACAAGTCAATGGCATCTTTTT
*
883513 -AAGCCAACAAGTTAGTGGCACCCTT
1 AAAGCCCACAAGTTAGTGGCACCCTT
883538 CCAAAAGCCC
Statistics
Matches: 207, Mismatches: 38, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
55 32 0.15
56 63 0.30
57 77 0.37
58 35 0.17
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (56 bp):
AAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCACAAGTCAATGGCATCTTTTT
Found at i:883577 original size:32 final size:31
Alignment explanation
Indices: 883541--883613 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 31
883531 CACCCTTCCA
**
883541 AAAGCCCACATAAATCGGTGGCAACCCTCTCT
1 AAAGCCCACATAAATCAATGGCAA-CCTCTCT
* * *
883573 AAAGCCCACATAAGTCAATGGCAACCTTTTT
1 AAAGCCCACATAAATCAATGGCAACCTCTCT
883604 AAAGCCCACA
1 AAAGCCCACA
883614 CAAGTTAGTG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 15 0.42
32 21 0.58
ACGTcount: A:0.36, C:0.32, G:0.14, T:0.19
Consensus pattern (31 bp):
AAAGCCCACATAAATCAATGGCAACCTCTCT
Found at i:883864 original size:51 final size:52
Alignment explanation
Indices: 883630--883947 Score: 275
Period size: 52 Copynumber: 5.9 Consensus size: 52
883620 AGTGGCATCT
* * *
883630 TCTTCTAAGTCCAATGTCGTTGGCCTTGAATCAACACATTGGCA-CTTGTAAAACCA
1 TCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-T---ATCA
* * * * * *
883686 TCTCTTTCGAAGTCTAATGTTGCTAGCCTTGAATCAACACATTGGCA-TTCTTCTCA
1 --TCTTT--AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT-TTATCA
* * * * *
883742 TCTTTAAGTTCAATGTCGCTGGCCTTGAATCAACACATTAGCGCCTTTGTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCA
* * * *
883794 TCTTTAAGTCTAATATCGCTAGCCTTGAATCAGCATATTGGCACC-TTATCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCA
* *
883845 TCTTTAAGTCCAATGTCGCTGGCCTTGAA-CTAGCACATTGACACCTTTATCCTT
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATC-AGCACATTGGCACCTTTAT-C-A
* **
883899 TTTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCTTATTGGCACTCTTT
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC-CTTT
883948 TTATTCTTAT
Statistics
Matches: 216, Mismatches: 34, Indels: 23
0.79 0.12 0.08
Matches are distributed among these distances:
50 1 0.00
51 43 0.20
52 78 0.36
53 2 0.01
54 43 0.20
55 5 0.02
56 2 0.01
57 1 0.00
58 4 0.02
59 36 0.17
60 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.36
Consensus pattern (52 bp):
TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCA
Found at i:883882 original size:103 final size:105
Alignment explanation
Indices: 883630--883942 Score: 330
Period size: 103 Copynumber: 2.9 Consensus size: 105
883620 AGTGGCATCT
* * * *
883630 TCTTCTAAGTCCAATGTCGTTGGCCTTGAATCAACACATTGGCA-CTTGTAAAACCATCTCTTTC
1 TCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGACACCTT-T--ATCC-TATCTTT-
* * * * *
883694 GAAGTCTAATGTTGCTAGCCTTGAATCAACACATTGGCATTCTTCTCA
60 -AAGTCTAATGTCGCTAGCCTTGAATCAGCATATTGGCA-CCTTATCA
* * *
883742 TCTTTAAGTTCAATGTCGCTGGCCTTGAATCAACACATT-AGCGCCTTTGT-C-ATCTTTAAGTC
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGA-CACCTTTATCCTATCTTTAAGTC
*
883804 TAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTATCA
65 TAATGTCGCTAGCCTTGAATCAGCATATTGGCACCTTATCA
* * *
883845 TCTTTAAGTCCAATGTCGCTGGCCTTGAA-CTAGCACATTGACACCTTTATCCTTTTTTTAAGTC
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATC-AACACATTGACACCTTTATCCTATCTTTAAGTC
* * *
883909 CAATGTCGCTGGCCTTGAATCAGCTTATTGGCAC
65 TAATGTCGCTAGCCTTGAATCAGCATATTGGCAC
883943 TCTTTTTATT
Statistics
Matches: 172, Mismatches: 23, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
102 1 0.01
103 48 0.28
104 36 0.21
105 39 0.23
106 5 0.03
108 1 0.01
111 35 0.20
112 7 0.04
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (105 bp):
TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGACACCTTTATCCTATCTTTAAGTCT
AATGTCGCTAGCCTTGAATCAGCATATTGGCACCTTATCA
Found at i:886394 original size:163 final size:162
Alignment explanation
Indices: 885893--886397 Score: 527
Period size: 164 Copynumber: 3.1 Consensus size: 162
885883 TTCAAACACA
* * * * * * *
885893 AAAATTCTTCAAATATTATCAATTAATCTCTATA-TAAAATTAATTTTGAAAAATTCTTTCATTT
1 AAAATTCATCAAATATTAT-TATTTAT-TTTATAGT-AAATAAATTTTCAAAAATTCATTCATTT
* * * ** *
885957 TGATGAGGTTTTGATTTTTTCCTTTAAATTCCCATTTTTTCGAAATACGGAGTTTCCTACTCCGT
63 TCATGA-ATTTTGATTTTTTCCTTGAAATTCCC-TTTTTTCGAAATACCAAGTTTTCTACTCCGT
* *
886022 AAATTTTTTTGGAGAGATTATTCTTGGTTTTTAATTTTT
126 AAATTTTTTTGGGGA-ATTTTTCTT-GTTTTTAATTTTT
* * * * * *
886061 AAAATTTATTAAATATTATTATTTATTTTATATTAAATCAGTTCTCAAAAATTCATTCATTTTCA
1 AAAATTCATCAAATATTATTATTTATTTTATAGTAAATAAATTTTCAAAAATTCATTCATTTTCA
* * *
886126 TTAAATTTTGATTTTTTCCTTGAAATTCCCTTTTTTTGAAATA-CAGAG-TTTCTACTCTGTAAA
66 -TGAATTTTGATTTTTTCCTTGAAATTCCCTTTTTTCGAAATACCA-AGTTTTCTACTCCGTAAA
*
886189 TTTTTTTGAGGGGATTGTTT-TTCGTTTTTAATTTTT
129 TTTTTTTG-GGGAATT-TTTCTT-GTTTTTAATTTTT
* *
886225 AAAATTCATCAAATATTATTATTTATTTTATAGT-AATGAAATTTTTAAAAATTCATTCATTTCC
1 AAAATTCATCAAATATTATTATTTATTTTATAGTAAAT-AAATTTTCAAAAATTCATTCATTTTC
* * * * *
886289 ATGAATTTTGAATTTTT-CTTGAAATTCTCTTTCTTCGAAAAACCAAGTTTTCTACTCCATAAAT
65 ATGAATTTTGATTTTTTCCTTGAAATTCCCTTTTTTCGAAATACCAAGTTTTCTACTCCGTAAAT
**
886353 TTTTTTGGTGGAATTTTTCTTGATTTAAAATTTTT
130 TTTTTTGG-GGAATTTTTCTTG-TTTTTAATTTTT
886388 AAAATTCATC
1 AAAATTCATC
886398 TAATGTTGTC
Statistics
Matches: 283, Mismatches: 43, Indels: 27
0.80 0.12 0.08
Matches are distributed among these distances:
162 28 0.10
163 67 0.24
164 92 0.33
165 18 0.06
166 54 0.19
167 8 0.03
168 16 0.06
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (162 bp):
AAAATTCATCAAATATTATTATTTATTTTATAGTAAATAAATTTTCAAAAATTCATTCATTTTCA
TGAATTTTGATTTTTTCCTTGAAATTCCCTTTTTTCGAAATACCAAGTTTTCTACTCCGTAAATT
TTTTTGGGGAATTTTTCTTGTTTTTAATTTTT
Found at i:887674 original size:170 final size:170
Alignment explanation
Indices: 887447--888162 Score: 1011
Period size: 170 Copynumber: 4.2 Consensus size: 170
887437 CTTAAGTGGT
* * *
887447 TAAGGACTAAAATGCAAATATCCAAAGTTTAGGGACTTGTATGCAAAACCAATTTTTCTCTAGAA
1 TAAGGACAAAAATGCAAATAT-CAAAGTTTAGGGACTTGTATGTAAAACCGATTTTTCTCTAGAA
* * *
887512 ATGTTGTACTTGGCCAAACCCAAGATATTTCTTTGCTGTATTTTTGCTGCTATTGTTGAGCTGAT
65 ATGTTGTACATGGCCGAACCCAAGATATTTCTTTGCTGTATTTTTGCTGCCATTGTTGAGCTGAT
*
887577 TTCATGCTTTAAATGATGTGTTCCCATGTTATTTTGATGTA
130 TTCATGCTTTAAATGATGAGTTCCCATGTTATTTTGATGTA
887618 TAAGGACAAAAATGCAAATATCAAAGTTTAGGGACTTGTATGTAAAACCGATTTTTCTCTAGAAA
1 TAAGGACAAAAATGCAAATATCAAAGTTTAGGGACTTGTATGTAAAACCGATTTTTCTCTAGAAA
* ** **
887683 TGTTGCACATGTTCGAACCCAAGATATTTCTTTGCTGTATTTTTGCTGCTGTTGTTGAGCTGATT
66 TGTTGTACATGGCCGAACCCAAGATATTTCTTTGCTGTATTTTTGCTGCCATTGTTGAGCTGATT
*
887748 TCATGCTTTAAATGATGTGTTCCCATGTTATTTTGATGTA
131 TCATGCTTTAAATGATGAGTTCCCATGTTATTTTGATGTA
*
887788 TAAGGACAAAAATGCAAATATCAAAGTTTAGAGACTTGTATGTAAAACCGATTTTTCTCTAGAAA
1 TAAGGACAAAAATGCAAATATCAAAGTTTAGGGACTTGTATGTAAAACCGATTTTTCTCTAGAAA
** *
887853 TGTTGTACATGTTCGAACCTAAGATATTTCTTTGCTGTATTTTTGCTGCCATTGTTGAGCTGATT
66 TGTTGTACATGGCCGAACCCAAGATATTTCTTTGCTGTATTTTTGCTGCCATTGTTGAGCTGATT
* *
887918 TCATGCTTTAAATGATGAGTTTCGATGTTATTTTGATGTA
131 TCATGCTTTAAATGATGAGTTCCCATGTTATTTTGATGTA
* * * * ** *
887958 TAGGGACCAAAATGCAAATATCCAAAGTTTAAGGACTTGTATGAAAAATTGATTTTTCTTTAGAA
1 TAAGGACAAAAATGCAAATAT-CAAAGTTTAGGGACTTGTATGTAAAACCGATTTTTCTCTAGAA
*** *** * * *
888023 ATGTTGTGTTTGGCCGAATTTAAGATGTTTCTTGGCTG-AATTTTGCTGCCATTGTTGAGCTGAT
65 ATGTTGTACATGGCCGAACCCAAGATATTTCTTTGCTGTATTTTTGCTGCCATTGTTGAGCTGAT
* *
888087 TTCATGCTTTAAATGATGAGTTCCGATGTTATTTTGATGTG
130 TTCATGCTTTAAATGATGAGTTCCCATGTTATTTTGATGTA
* * * * *
888128 TAGGGACCAAAGTGCATATACCAAAAAGTTTAGGG
1 TAAGGACAAAAATGCAAATATC--AAAGTTTAGGG
888163 CCATTTAGCA
Statistics
Matches: 501, Mismatches: 41, Indels: 6
0.91 0.07 0.01
Matches are distributed among these distances:
169 1 0.00
170 404 0.81
171 96 0.19
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (170 bp):
TAAGGACAAAAATGCAAATATCAAAGTTTAGGGACTTGTATGTAAAACCGATTTTTCTCTAGAAA
TGTTGTACATGGCCGAACCCAAGATATTTCTTTGCTGTATTTTTGCTGCCATTGTTGAGCTGATT
TCATGCTTTAAATGATGAGTTCCCATGTTATTTTGATGTA
Found at i:889814 original size:13 final size:13
Alignment explanation
Indices: 889796--889822 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
889786 ACATTATGCT
889796 TTGTATCGATACA
1 TTGTATCGATACA
889809 TTGTATCGATACA
1 TTGTATCGATACA
889822 T
1 T
889823 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:889831 original size:19 final size:20
Alignment explanation
Indices: 889807--889862 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
889797 TGTATCGATA
*
889807 CATTGTATCGATACATG-TT
1 CATTGTATCGATACATGCAT
889826 CATTGTATCGATACATGCAT
1 CATTGTATCGATACATGCAT
* *
889846 AATTGTATCAATACATG
1 CATTGTATCGATACATG
889863 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (20 bp):
CATTGTATCGATACATGCAT
Found at i:889852 original size:20 final size:19
Alignment explanation
Indices: 889803--889863 Score: 77
Period size: 20 Copynumber: 3.1 Consensus size: 19
889793 GCTTTGTATC
889803 GATACATTGTATCGATACAT
1 GATA-ATTGTATCGATACAT
* *
889823 GTTCATTGTATCGATACAT
1 GATAATTGTATCGATACAT
*
889842 GCATAATTGTATCAATACAT
1 G-ATAATTGTATCGATACAT
889862 GA
1 GA
889864 AACTGGCAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 17 0.49
20 18 0.51
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (19 bp):
GATAATTGTATCGATACAT
Found at i:889930 original size:13 final size:13
Alignment explanation
Indices: 889912--889936 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
889902 CATGGCACAT
889912 TGTATCGATACAA
1 TGTATCGATACAA
889925 TGTATCGATACA
1 TGTATCGATACA
889937 TGATGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:898780 original size:20 final size:20
Alignment explanation
Indices: 898757--898850 Score: 73
Period size: 20 Copynumber: 5.0 Consensus size: 20
898747 CACATTGTAT
898757 TGATACAATGTATCGATACA
1 TGATACAATGTATCGATACA
898777 TGATA-AACTGTATCGATACA
1 TGATACAA-TGTATCGATACA
* *
898797 T--TGCACA--T-T-G-TA-T
1 TGATACA-ATGTATCGATACA
898810 TGATACAATGTATCGATACA
1 TGATACAATGTATCGATACA
898830 TGATA-AACTGTATCGATACA
1 TGATACAA-TGTATCGATACA
898850 T
1 T
898851 TGCTTCAAAC
Statistics
Matches: 58, Mismatches: 4, Indels: 24
0.67 0.05 0.28
Matches are distributed among these distances:
13 1 0.02
14 3 0.05
15 4 0.07
16 2 0.03
17 2 0.03
18 2 0.03
19 7 0.12
20 37 0.64
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
TGATACAATGTATCGATACA
Found at i:898810 original size:53 final size:53
Alignment explanation
Indices: 898732--898853 Score: 226
Period size: 53 Copynumber: 2.3 Consensus size: 53
898722 TACCACTGTT
* *
898732 TGTATCGATAGATGGCACATTGTATTGATACAATGTATCGATACATGATAAAC
1 TGTATCGATACATTGCACATTGTATTGATACAATGTATCGATACATGATAAAC
898785 TGTATCGATACATTGCACATTGTATTGATACAATGTATCGATACATGATAAAC
1 TGTATCGATACATTGCACATTGTATTGATACAATGTATCGATACATGATAAAC
898838 TGTATCGATACATTGC
1 TGTATCGATACATTGC
898854 TTCAAACGGC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 67 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (53 bp):
TGTATCGATACATTGCACATTGTATTGATACAATGTATCGATACATGATAAAC
Found at i:898909 original size:19 final size:20
Alignment explanation
Indices: 898885--898922 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
898875 ATAATTTCAA
898885 ATGAA-TGTATCGATACATT
1 ATGAATTGTATCGATACATT
898904 ATGAATTGTATCGATACAT
1 ATGAATTGTATCGATACAT
898923 AGCTACGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (20 bp):
ATGAATTGTATCGATACATT
Found at i:903308 original size:22 final size:22
Alignment explanation
Indices: 903273--903329 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
903263 TTCTTTGCTT
* * *
903273 TTGCTTGCTATTTCTTCTTTCT
1 TTGCTTGATGTTTCTTCTTTCC
* *
903295 TTGTTTGTTGTTTCTTCTTTCC
1 TTGCTTGATGTTTCTTCTTTCC
903317 TTGCTTGATGTTT
1 TTGCTTGATGTTT
903330 TGGTTTTGCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.04, C:0.18, G:0.14, T:0.65
Consensus pattern (22 bp):
TTGCTTGATGTTTCTTCTTTCC
Found at i:903369 original size:23 final size:22
Alignment explanation
Indices: 903316--903371 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
903306 TTCTTCTTTC
* *
903316 CTTGCTTGATGTTTTGGTTTTG
1 CTTGCTTGCTGTTTCGGTTTTG
903338 CTTGCTTGCTGTTTCGGTTTTG
1 CTTGCTTGCTGTTTCGGTTTTG
903360 CTTTGCTTGCTG
1 C-TTGCTTGCTG
903372 GAGTGTTGCG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 21 0.68
23 10 0.32
ACGTcount: A:0.02, C:0.16, G:0.27, T:0.55
Consensus pattern (22 bp):
CTTGCTTGCTGTTTCGGTTTTG
Found at i:904670 original size:8 final size:8
Alignment explanation
Indices: 904626--904720 Score: 59
Period size: 8 Copynumber: 11.2 Consensus size: 8
904616 TTTTAATTGG
*
904626 TTTTATTT
1 TTTTATTA
904634 TTTTAATTA
1 TTTT-ATTA
* *
904643 ATTAATTAA
1 TTTTATT-A
*
904652 TTATTACTA
1 TT-TTATTA
904661 TTTTATTA
1 TTTTATTA
904669 TTATTA-TA
1 TT-TTATTA
904677 TTATTATTA
1 TT-TTATTA
*
904686 TATTATTA
1 TTTTATTA
904694 TATTT-TTA
1 T-TTTATTA
*
904702 TTTTTATTT
1 -TTTTATTA
904711 TTTTATTA
1 TTTTATTA
904719 TT
1 TT
904721 CATGTTAAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 16
0.72 0.12 0.17
Matches are distributed among these distances:
8 44 0.65
9 21 0.31
10 3 0.04
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.69
Consensus pattern (8 bp):
TTTTATTA
Found at i:904670 original size:14 final size:13
Alignment explanation
Indices: 904651--904719 Score: 60
Period size: 14 Copynumber: 5.6 Consensus size: 13
904641 TAATTAATTA
904651 ATTATTACTATTTT
1 ATTATTA-TATTTT
*
904665 ATTATTATTATATT
1 ATTATTA-TATTTT
904679 ATTATTATA--TT
1 ATTATTATATTTT
904690 ATTA-TAT-TTTT
1 ATTATTATATTTT
904701 ATT-TT-TATTTT
1 ATTATTATATTTT
*
904712 TTTATTAT
1 ATTATTAT
904720 TCATGTTAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
10 4 0.09
11 18 0.39
12 2 0.04
13 3 0.07
14 19 0.41
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTATTATATTTT
Found at i:904703 original size:11 final size:11
Alignment explanation
Indices: 904653--904694 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
904643 ATTAATTAAT
* *
904653 TATTACTATTT
1 TATTATTATTA
904664 TATTATTATTA
1 TATTATTATTA
904675 TATTATTATTA
1 TATTATTATTA
904686 TATTATTAT
1 TATTATTAT
904695 ATTTTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTATTATTA
Found at i:905392 original size:43 final size:43
Alignment explanation
Indices: 905302--905453 Score: 123
Period size: 43 Copynumber: 3.6 Consensus size: 43
905292 AAAAGTCTCT
* * * * *
905302 AGGGTCAAAG-TCGACAGGCAAACTTAAGTGTAAAGAAGTC-TC
1 AGGGTCAAAGCT-GACAAGCAAACTTGAGGGTAAGGAAGGCTTC
*
905344 TAGGGTCAAAGCTGACAAGCATACTTGAGGGTAAGGAAGGCTTC
1 -AGGGTCAAAGCTGACAAGCAAACTTGAGGGTAAGGAAGGCTTC
* * * * * * *
905388 AGGGTCAAAGCTGATAGGCAGACTTGA-GATGAGG-CGGTCTAC
1 AGGGTCAAAGCTGACAAGCAAACTTGAGGGTAAGGAAGG-CTTC
*
905430 AGGGTCAAAGCTGACAAACAAACT
1 AGGGTCAAAGCTGACAAGCAAACT
905454 AAAGGTAAGA
Statistics
Matches: 89, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.02
42 28 0.31
43 56 0.63
44 3 0.03
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (43 bp):
AGGGTCAAAGCTGACAAGCAAACTTGAGGGTAAGGAAGGCTTC
Found at i:905520 original size:84 final size:84
Alignment explanation
Indices: 905338--905798 Score: 419
Period size: 84 Copynumber: 5.5 Consensus size: 84
905328 AGTGTAAAGA
* * * * * * * * *
905338 AGTCTCTAGGGTCAAAGCTGACAAGCATACTTGAGGGTAAGGAAGGCTTCAGGGTCAAAGCTGAT
1 AGTCTCTAGGGTCAAAGCTGACAAGCAGAC-TAAAGGTAAGAAAGTCTCCAAGGTCAAAACTGAC
* *
905403 AGGCAGACTTGAGATGAGGC
65 AGGCAAACTTCAGATGAGGC
* * * *
905423 GGTCTAC-AGGGTCAAAGCTGACAAACAAACTAAAGGTAAGAAAGTCTCCAAGGTTAAAACTGAC
1 AGTCT-CTAGGGTCAAAGCTGACAAGCAGACTAAAGGTAAGAAAGTCTCCAAGGTCAAAACTGAC
* *
905487 ATGTAAACTTCAGATGAGGC
65 AGGCAAACTTCAGATGAGGC
* * * * * *
905507 AATCTCCAAGGTCAAAGCTGACAAGCAGATTAAAAGGTAAGAAAGTCTCCAGGGTC-AAAGTCGA
1 AGTCTCTAGGGTCAAAGCTGACAAGCAGACT-AAAGGTAAGAAAGTCTCCAAGGTCAAAACT-GA
* * * *
905571 CAGGCAGACTTGAGATAAGGT
64 CAGGCAAACTTCAGATGAGGC
* * * * * *
905592 AGCCTCTAGGGTCAAAG-TCGATAGGCAGACTGAAGGTAAGAAAGTCTCTAAGGTCAAAGCTGAC
1 AGTCTCTAGGGTCAAAGCT-GACAAGCAGACTAAAGGTAAGAAAGTCTCCAAGGTCAAAACTGAC
* *
905656 AGGCAAACTTAAGATAAGGC
65 AGGCAAACTTCAGATGAGGC
* * * * * * *
905676 AATCTCTAAGGTCAAAG-TCGAGAAGTAGACTGAAGGTAAGAAAGTCTCCAAGGTCAAAGCCGAC
1 AGTCTCTAGGGTCAAAGCT-GACAAGCAGACTAAAGGTAAGAAAGTCTCCAAGGTCAAAACTGAC
* *
905740 AGGTAGACTTCAGATGAGGC
65 AGGCAAACTTCAGATGAGGC
*
905760 AGTCTCTAGGGTCAAAACTGAC-AGACAGACTAAAGGTAA
1 AGTCTCTAGGGTCAAAGCTGACAAG-CAGACTAAAGGTAA
905799 AAAAATTCAA
Statistics
Matches: 304, Mismatches: 64, Indels: 17
0.79 0.17 0.04
Matches are distributed among these distances:
83 3 0.01
84 210 0.69
85 90 0.30
86 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (84 bp):
AGTCTCTAGGGTCAAAGCTGACAAGCAGACTAAAGGTAAGAAAGTCTCCAAGGTCAAAACTGACA
GGCAAACTTCAGATGAGGC
Found at i:905609 original size:42 final size:42
Alignment explanation
Indices: 905294--905775 Score: 207
Period size: 42 Copynumber: 11.4 Consensus size: 42
905284 AAAGGTGGAA
* * * * *
905294 AAGTCTCTAGGGTCAAAGTCGACAGGCAAACTTAAGTGTAAAG
1 AAGTCTCTAAGGTCAAAGTCGACAGGCAGACTTGAG-ATAAGG
* * * *
905337 AAGTCTCTAGGGTCAAAG-CTGACAAGCATACTTGAGGGTAAGG
1 AAGTCTCTAAGGTCAAAGTC-GACAGGCAGACTTGA-GATAAGG
* * * *
905380 AAGGCT-TCAGGGTCAAAG-CTGATAGGCAGACTTGAGATGAGG
1 AAGTCTCT-AAGGTCAAAGTC-GACAGGCAGACTTGAGATAAGG
** * ** * ** * *
905422 CGGTCTAC-AGGGTCAAAG-CTGACAAACAAACTAAAGGTAAGA
1 AAGTCT-CTAAGGTCAAAGTC-GACAGGCAGACTTGAGATAAGG
* * * * * * * *
905464 AAGTCTCCAAGGTTAAA-ACTGACATGTAAACTTCAGATGAGG
1 AAGTCTCTAAGGTCAAAGTC-GACAGGCAGACTTGAGATAAGG
* * * * *
905506 CAA-TCTCCAAGGTCAAAG-CTGACAAGCAGA-TTAAAAGGTAAGA
1 -AAGTCTCTAAGGTCAAAGTC-GACAGGCAGACTT--GAGATAAGG
* *
905549 AAGTCTCCAGGGTCAAAGTCGACAGGCAGACTTGAGATAAGG
1 AAGTCTCTAAGGTCAAAGTCGACAGGCAGACTTGAGATAAGG
* * * * * *
905591 TAGCCTCTAGGGTCAAAGTCGATAGGCAGAC-TGAAGGTAAGA
1 AAGTCTCTAAGGTCAAAGTCGACAGGCAGACTTG-AGATAAGG
* *
905633 AAGTCTCTAAGGTCAAAG-CTGACAGGCAAACTTAAGATAAGG
1 AAGTCTCTAAGGTCAAAGTC-GACAGGCAGACTTGAGATAAGG
* * * * *
905675 CAA-TCTCTAAGGTCAAAGTCGAGAAGTAGAC-TGAAGGTAAGA
1 -AAGTCTCTAAGGTCAAAGTCGACAGGCAGACTTG-AGATAAGG
* * * * *
905717 AAGTCTCCAAGGTCAAAGCCGACAGGTAGACTTCAGATGAGG
1 AAGTCTCTAAGGTCAAAGTCGACAGGCAGACTTGAGATAAGG
* *
905759 CAGTCTCTAGGGTCAAA
1 AAGTCTCTAAGGTCAAA
905776 ACTGACAGAC
Statistics
Matches: 338, Mismatches: 79, Indels: 45
0.73 0.17 0.10
Matches are distributed among these distances:
41 9 0.03
42 226 0.67
43 99 0.29
44 4 0.01
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.19
Consensus pattern (42 bp):
AAGTCTCTAAGGTCAAAGTCGACAGGCAGACTTGAGATAAGG
Found at i:905630 original size:169 final size:167
Alignment explanation
Indices: 905314--905798 Score: 519
Period size: 169 Copynumber: 2.9 Consensus size: 167
905304 GGTCAAAGTC
* * * * * *
905314 GACAGGCAAACTTAAGTGTAAAG-AAGTCTCTAGGGTCAAAGCTGACAAGCATACTTGAGGGTAA
1 GACAGGCAAACTTAAG-ATAAGGCAA-TCTCCAAGGTCAAAGCTGACAAGCAGA-TTGAAGGTAA
* * * * *
905378 GGAAGGCTTCAGGGTCAAAGCTGATAGGCAGACTTGAGATGAGGCGGTCTAC-AGGGTCAAAGCT
63 GAAAGTCTCCAGGGTCAAAGC-GACAGGCAGACTTGAGATGAGGCAGTCT-CTAGGGTCAAAGCT
*
905442 GACAAACAAACTAAAGGTAAGAAAGTCTCCAAGGTTAAAACT
126 GACAAACAAACTAAAGGTAAGAAAGTCTCCAAGGTCAAAACT
* * * * *
905484 GACATGTAAACTTCAGATGAGGCAATCTCCAAGGTCAAAGCTGACAAGCAGATTAAAAGGTAAGA
1 GACAGGCAAACTTAAGATAAGGCAATCTCCAAGGTCAAAGCTGACAAGCAGATT-GAAGGTAAGA
* * *
905549 AAGTCTCCAGGGTCAAAGTCGACAGGCAGACTTGAGATAAGGTAGCCTCTAGGGTCAAAG-TCGA
65 AAGTCTCCAGGGTCAAAG-CGACAGGCAGACTTGAGATGAGGCAGTCTCTAGGGTCAAAGCT-GA
* ** * * * *
905613 TAGGCAGACTGAAGGTAAGAAAGTCTCTAAGGTCAAAGCT
128 CAAACAAACTAAAGGTAAGAAAGTCTCCAAGGTCAAAACT
* * * *
905653 GACAGGCAAACTTAAGATAAGGCAATCTCTAAGGTCAAAG-TCGAGAAGTAGACTGAAGGTAAGA
1 GACAGGCAAACTTAAGATAAGGCAATCTCCAAGGTCAAAGCT-GACAAGCAGATTGAAGGTAAGA
* * * *
905717 AAGTCTCCAAGGTCAAAGCCGACAGGTAGACTTCAGATGAGGCAGTCTCTAGGGTCAAAACTGAC
65 AAGTCTCCAGGGTCAAAG-CGACAGGCAGACTTGAGATGAGGCAGTCTCTAGGGTCAAAGCTGAC
* *
905782 AGACAGACTAAAGGTAA
129 AAACAAACTAAAGGTAA
905799 AAAAATTCAA
Statistics
Matches: 261, Mismatches: 47, Indels: 16
0.81 0.15 0.05
Matches are distributed among these distances:
168 83 0.32
169 162 0.62
170 16 0.06
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.18
Consensus pattern (167 bp):
GACAGGCAAACTTAAGATAAGGCAATCTCCAAGGTCAAAGCTGACAAGCAGATTGAAGGTAAGAA
AGTCTCCAGGGTCAAAGCGACAGGCAGACTTGAGATGAGGCAGTCTCTAGGGTCAAAGCTGACAA
ACAAACTAAAGGTAAGAAAGTCTCCAAGGTCAAAACT
Found at i:905764 original size:126 final size:127
Alignment explanation
Indices: 905455--905783 Score: 306
Period size: 126 Copynumber: 2.6 Consensus size: 127
905445 AAACAAACTA
* * * * * * *
905455 AAGGTAAGAAAGTCTCCAAGGTTAAAACTGACATGTAAACTTCAGATGAGGCAATCTCCAAGGTC
1 AAGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGTAGACTTCAGATGAGGCAGTCTCTAAGGTC
* * * * *
905520 AAAGCTGACAAGCAGATTAAAAGGTAAGAAAGTCTCCAGGGTCAAAGTCGACAGGCAGACTTG
66 AAAGCTGACAGGCAAATT-AAAGATAAGAAAGTCTCCAAGGTCAAAGTCGACAAGCAGACTTG
* ** * * * * * * ** * * **
905583 -AGATAAGGTAGCCTCTAGGGTCAAAGTCGATAGGCAGACTGAAGGTAAGAAAGTCTCTAAGGTC
1 AAGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGTAGACTTCAGATGAGGCAGTCTCTAAGGTC
* * * *
905647 AAAGCTGACAGGCAAACTT-AAGATAAGGCAA-TCTCTAAGGTCAAAGTCGAGAAGTAGAC-TG
66 AAAGCTGACAGGCAAA-TTAAAGATAA-GAAAGTCTCCAAGGTCAAAGTCGACAAGCAGACTTG
*
905708 AAGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGTAGACTTCAGATGAGGCAGTCTCTAGGGTC
1 AAGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGTAGACTTCAGATGAGGCAGTCTCTAAGGTC
*
905773 AAAACTGACAG
66 AAAGCTGACAG
905784 ACAGACTAAA
Statistics
Matches: 150, Mismatches: 48, Indels: 8
0.73 0.23 0.04
Matches are distributed among these distances:
125 2 0.01
126 87 0.58
127 59 0.39
128 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.19
Consensus pattern (127 bp):
AAGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGTAGACTTCAGATGAGGCAGTCTCTAAGGTC
AAAGCTGACAGGCAAATTAAAGATAAGAAAGTCTCCAAGGTCAAAGTCGACAAGCAGACTTG
Found at i:905999 original size:44 final size:44
Alignment explanation
Indices: 905951--906039 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
905941 AGAGGATTTG
*
905951 ACTAGGGTGGTAACTAGACATCAAATCAGAATAAGAAAAATCTA
1 ACTAGGGTGGTAACCAGACATCAAATCAGAATAAGAAAAATCTA
* * * *
905995 ACTAGGGTGGTAACCATACGTCAAATTAGAATGAGAAAAATCTA
1 ACTAGGGTGGTAACCAGACATCAAATCAGAATAAGAAAAATCTA
906039 A
1 A
906040 AATGATGGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.21
Consensus pattern (44 bp):
ACTAGGGTGGTAACCAGACATCAAATCAGAATAAGAAAAATCTA
Found at i:906071 original size:43 final size:44
Alignment explanation
Indices: 905971--906060 Score: 119
Period size: 44 Copynumber: 2.1 Consensus size: 44
905961 TAACTAGACA
* * * *
905971 TCAAATCAGAATAAGAAAAATCTAACTAGGGTGGTAACCATACG
1 TCAAATGAGAATGAGAAAAATCTAACAAGGATGGTAACCATACG
* *
906015 TCAAATTAGAATGAGAAAAATCTAA-AATGATGGTAACCATACG
1 TCAAATGAGAATGAGAAAAATCTAACAAGGATGGTAACCATACG
906058 TCA
1 TCA
906061 GGCTGAAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 18 0.44
44 23 0.56
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.22
Consensus pattern (44 bp):
TCAAATGAGAATGAGAAAAATCTAACAAGGATGGTAACCATACG
Found at i:910701 original size:613 final size:613
Alignment explanation
Indices: 909536--910764 Score: 2386
Period size: 613 Copynumber: 2.0 Consensus size: 613
909526 GCCTTTTCGC
*
909536 TATCCAGACTAAGGCACAACATATTTTCTCTACTGAGGATTACTTTACCTCATAGTCCAGAAACT
1 TATCCAGACTAAGGCACAACATATTTTCTCTACTGAGGAGTACTTTACCTCATAGTCCAGAAACT
909601 TCTTACTAAGGTAATAAATTGCCTACTCTTTCTTTCCCGTATCATTATGTTGTCCTAGCATACAA
66 TCTTACTAAGGTAATAAATTGCCTACTCTTTCTTTCCCGTATCATTATGTTGTCCTAGCATACAA
*
909666 CCCATGGATCTTTTAAATACTGGCAAGTACAAGATCAAAGGTCACCCTGGAGTAGGTGGTACCAA
131 CCCATGGATCTTTTAAATACTGGCAAGTACAAGATCAAAGGTCACCCTAGAGTAGGTGGTACCAA
*
909731 TACTAGTGGATTGGAGAGATATTGTTTGACCCTTTCAAAGGTGTTTTGGCAATCATCATCCTATT
196 TACTAGTGGATTGGAGAGATATTGTTTGACCCTTTCAAAGGTGTTTTGGCAATCATCATCCCATT
909796 CTCCCGGATTATGCTTTCGAAAGAGGTGAAAGATTGGATCACATTAGTTCGTAAGATGAGAAATA
261 CTCCCGGATTATGCTTTCGAAAGAGGTGAAAGATTGGATCACATTAGTTCGTAAGATGAGAAATA
909861 AAACGGGCAATGTAATTCAATCTTCCAAGGAAACTTCTTATTTCCTTCTGGGTTTGAGGAGGTGG
326 AAACGGGCAATGTAATTCAATCTTCCAAGGAAACTTCTTATTTCCTTCTGGGTTTGAGGAGGTGG
909926 TAACTCCTAAATGGCTCTGATCTTGTCGAGATCAACCTCAATTCCTTTTTCACTACCACAAAACC
391 TAACTCCTAAATGGCTCTGATCTTGTCGAGATCAACCTCAATTCCTTTTTCACTACCACAAAACC
* *
909991 CAGTAATTTCCCTGATCTTGCTCCAAATGTACATTTTGCTGGGTTCAACTTCAGCTGGTATTTCC
456 CAGTAATTCCCCTGATCTTGCTCCAAATGTACATTTTGCTGGGTTCAACATCAGCTGGTATTTCC
910056 TCAATCTTTTAAATAACTTTCGGAGATTTGCCACATGACTTTCTTCATTAGAAGACTTGGCATTC
521 TCAATCTTTTAAATAACTTTCGGAGATTTGCCACATGACTTTCTTCATTAGAAGACTTGGCATTC
910121 ATGTCATCGACATATACTTCTATCTCTT
586 ATGTCATCGACATATACTTCTATCTCTT
910149 TATCCAGACTAAGGCACAACATATTTTCTCTACTGAGGAGTACTTTACCTCATAGTCCAGAAACT
1 TATCCAGACTAAGGCACAACATATTTTCTCTACTGAGGAGTACTTTACCTCATAGTCCAGAAACT
910214 TCTTACTAAGGTAATAAATTGCCTACTCTTTCTTTCCCGTATCATTATGTTGTCCTAGCATACAA
66 TCTTACTAAGGTAATAAATTGCCTACTCTTTCTTTCCCGTATCATTATGTTGTCCTAGCATACAA
*
910279 CCCATGGATCTTTTAAATATTGGCAAGTACAAGATCAAAGGTCACCCTAGAGTAGGTGGTACCAA
131 CCCATGGATCTTTTAAATACTGGCAAGTACAAGATCAAAGGTCACCCTAGAGTAGGTGGTACCAA
910344 TACTAGTGGATTGGAGAGATATTGTTTGACCCTTTCAAAGGTGTTTTGGCAATCATCATCCCATT
196 TACTAGTGGATTGGAGAGATATTGTTTGACCCTTTCAAAGGTGTTTTGGCAATCATCATCCCATT
*
910409 CTCTCGGATTATGCTTTCGAAAGAGGTGAAAGATTGGATCACATTAGTTCGTAAGATGAGAAATA
261 CTCCCGGATTATGCTTTCGAAAGAGGTGAAAGATTGGATCACATTAGTTCGTAAGATGAGAAATA
910474 AAACGGGCAATGTAATTCAATCTTCCAAGGAAACTTCTTATTTCCTTCTGGGTTTGAGGAGGTGG
326 AAACGGGCAATGTAATTCAATCTTCCAAGGAAACTTCTTATTTCCTTCTGGGTTTGAGGAGGTGG
*
910539 TAACTCCTAAATGGCTCTGATCTTGTCGAGATCAACCTCAATTCCTTTTTCGCTACCACAAAACC
391 TAACTCCTAAATGGCTCTGATCTTGTCGAGATCAACCTCAATTCCTTTTTCACTACCACAAAACC
910604 CAGTAATTCCCCTGATCTTGCTCCAAATGTACATTTTGCTGGGTTCAACATCAGCTGGTATTTCC
456 CAGTAATTCCCCTGATCTTGCTCCAAATGTACATTTTGCTGGGTTCAACATCAGCTGGTATTTCC
910669 TCAATCTTTTAAATAACTTTCGGAGATTTGCCACATGACTTTCTTCATTAGAAGACTTGGCATTC
521 TCAATCTTTTAAATAACTTTCGGAGATTTGCCACATGACTTTCTTCATTAGAAGACTTGGCATTC
910734 ATGTCATCGACATATACTTCTATCTCTT
586 ATGTCATCGACATATACTTCTATCTCTT
910762 TAT
1 TAT
910765 GCATTAGGTT
Statistics
Matches: 608, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
613 608 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (613 bp):
TATCCAGACTAAGGCACAACATATTTTCTCTACTGAGGAGTACTTTACCTCATAGTCCAGAAACT
TCTTACTAAGGTAATAAATTGCCTACTCTTTCTTTCCCGTATCATTATGTTGTCCTAGCATACAA
CCCATGGATCTTTTAAATACTGGCAAGTACAAGATCAAAGGTCACCCTAGAGTAGGTGGTACCAA
TACTAGTGGATTGGAGAGATATTGTTTGACCCTTTCAAAGGTGTTTTGGCAATCATCATCCCATT
CTCCCGGATTATGCTTTCGAAAGAGGTGAAAGATTGGATCACATTAGTTCGTAAGATGAGAAATA
AAACGGGCAATGTAATTCAATCTTCCAAGGAAACTTCTTATTTCCTTCTGGGTTTGAGGAGGTGG
TAACTCCTAAATGGCTCTGATCTTGTCGAGATCAACCTCAATTCCTTTTTCACTACCACAAAACC
CAGTAATTCCCCTGATCTTGCTCCAAATGTACATTTTGCTGGGTTCAACATCAGCTGGTATTTCC
TCAATCTTTTAAATAACTTTCGGAGATTTGCCACATGACTTTCTTCATTAGAAGACTTGGCATTC
ATGTCATCGACATATACTTCTATCTCTT
Found at i:915533 original size:15 final size:15
Alignment explanation
Indices: 915513--915557 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
915503 AGACCAAACT
915513 CTCCCATCGGGTTGA
1 CTCCCATCGGGTTGA
* *
915528 CTCCCATCAGGTTCA
1 CTCCCATCGGGTTGA
* *
915543 CTCCTATTGGGTTGA
1 CTCCCATCGGGTTGA
915558 TTTGTCTTTG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.16, C:0.31, G:0.22, T:0.31
Consensus pattern (15 bp):
CTCCCATCGGGTTGA
Found at i:918437 original size:13 final size:13
Alignment explanation
Indices: 918419--918445 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
918409 TTTTTATAAT
918419 TTGTATCGATACA
1 TTGTATCGATACA
918432 TTGTATCGATACA
1 TTGTATCGATACA
918445 T
1 T
918446 AAGTTTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:919353 original size:14 final size:14
Alignment explanation
Indices: 919330--919379 Score: 70
Period size: 13 Copynumber: 3.7 Consensus size: 14
919320 TAATTAATAC
919330 TATTTT-ATTATTA
1 TATTTTGATTATTA
919343 TATTTTGATTATTA
1 TATTTTGATTATTA
919357 TATTTTGATT-TT-
1 TATTTTGATTATTA
919369 TGATTTTGATT
1 T-ATTTTGATT
919380 TTTTTATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
12 1 0.03
13 17 0.49
14 17 0.49
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (14 bp):
TATTTTGATTATTA
Found at i:920847 original size:20 final size:20
Alignment explanation
Indices: 920816--920872 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
920806 GTTAAAACCC
*
920816 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
920836 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* *
920856 TGCATTGTATCGATACA
1 TGAAATGTATCGATACA
920873 TTGTATCAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:921776 original size:91 final size:91
Alignment explanation
Indices: 921621--921805 Score: 361
Period size: 91 Copynumber: 2.0 Consensus size: 91
921611 CAAGCTTTTC
*
921621 TTCCTTAATCCCTTTTTCATTTCGAATTGTTTTGTTCCAAATTTGTTCAAAACTCGAAAATTCGA
1 TTCCTTAATCCCTTTTTCATTTCGAATTGTTTTGTTCCAAATTTGTTCAAAACCCGAAAATTCGA
921686 AAAGAACCAATTCACCCCCCTCTTGG
66 AAAGAACCAATTCACCCCCCTCTTGG
921712 TTCCTTAATCCCTTTTTCATTTCGAATTGTTTTGTTCCAAATTTGTTCAAAACCCGAAAATTCGA
1 TTCCTTAATCCCTTTTTCATTTCGAATTGTTTTGTTCCAAATTTGTTCAAAACCCGAAAATTCGA
921777 AAAGAACCAATTCACCCCCCTCTTGG
66 AAAGAACCAATTCACCCCCCTCTTGG
921803 TTC
1 TTC
921806 GTTATTCCTT
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 93 1.00
ACGTcount: A:0.27, C:0.26, G:0.10, T:0.37
Consensus pattern (91 bp):
TTCCTTAATCCCTTTTTCATTTCGAATTGTTTTGTTCCAAATTTGTTCAAAACCCGAAAATTCGA
AAAGAACCAATTCACCCCCCTCTTGG
Found at i:926655 original size:13 final size:13
Alignment explanation
Indices: 926637--926662 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
926627 TACAGCAAGT
926637 ATGTATCGATACA
1 ATGTATCGATACA
926650 ATGTATCGATACA
1 ATGTATCGATACA
926663 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:928911 original size:21 final size:21
Alignment explanation
Indices: 928878--928922 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
928868 TTGCAAGTTG
*
928878 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
928900 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
928920 AAA
1 AAA
928923 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:930746 original size:15 final size:15
Alignment explanation
Indices: 930726--930756 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
930716 TAAAAATGTC
*
930726 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
930741 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
930756 C
1 C
930757 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:932838 original size:20 final size:20
Alignment explanation
Indices: 932769--932848 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
932759 AATGTCCAAA
* *
932769 ATGTATCGAAACATGTTTCT
1 ATGTATCGATACATTTTTCT
*
932789 GTGTATCGATACATTTGGAAATTCT
1 ATGTATCGATACATTT-----TTCT
932814 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
932834 TTGTATCGATACATT
1 ATGTATCGATACATT
932849 GTATCGATAC
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
20 31 0.62
25 19 0.38
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:932852 original size:13 final size:13
Alignment explanation
Indices: 932834--932898 Score: 112
Period size: 13 Copynumber: 5.0 Consensus size: 13
932824 ACATTTTTCT
932834 TTGTATCGATACA
1 TTGTATCGATACA
932847 TTGTATCGATACA
1 TTGTATCGATACA
*
932860 CTGTATCGATACA
1 TTGTATCGATACA
932873 TTGTATCGATACA
1 TTGTATCGATACA
*
932886 CTGTATCGATACA
1 TTGTATCGATACA
932899 GGGTGATTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.35
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:932871 original size:26 final size:26
Alignment explanation
Indices: 932835--932898 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
932825 CATTTTTCTT
932835 TGTATCGATACATTGTATCGATACAC
1 TGTATCGATACATTGTATCGATACAC
932861 TGTATCGATACATTGTATCGATACAC
1 TGTATCGATACATTGTATCGATACAC
932887 TGTATCGATACA
1 TGTATCGATACA
932899 GGGTGATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (26 bp):
TGTATCGATACATTGTATCGATACAC
Found at i:933043 original size:21 final size:21
Alignment explanation
Indices: 933019--933065 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
933009 AAATCTTTTG
933019 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
933040 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
933060 CAAAAT
1 CAAAAT
933066 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:933062 original size:20 final size:19
Alignment explanation
Indices: 933021--933063 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
933011 ATCTTTTGCA
933021 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
933041 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
933061 AAA
1 AAA
933064 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:936122 original size:28 final size:28
Alignment explanation
Indices: 936082--936136 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
936072 GTATTTGGAC
936082 CGAACCTCTATAAATATCTTGTGTCAAT
1 CGAACCTCTATAAATATCTTGTGTCAAT
936110 CGAACCTCTATAAATATCTTGTGTCAA
1 CGAACCTCTATAAATATCTTGTGTCAA
936137 ATTTTTCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.35
Consensus pattern (28 bp):
CGAACCTCTATAAATATCTTGTGTCAAT
Found at i:937399 original size:20 final size:20
Alignment explanation
Indices: 937364--937404 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
937354 CAAATTTCTT
937364 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
937386 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
937405 AACAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:937742 original size:19 final size:19
Alignment explanation
Indices: 937674--937752 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 19
937664 AATGTCCAAA
*
937674 ATGTATCGAAACATGTTTCT
1 ATGTATCGATACAT-TTTCT
*
937694 GTGTATCGATACATTTGGAAATTCT
1 ATGTATCGATACA-TT-----TTCT
937719 ATGTATCGATACATTTTCT
1 ATGTATCGATACATTTTCT
*
937738 TTGTATCGATACATT
1 ATGTATCGATACATT
937753 GTATCGATAC
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
19 18 0.37
20 12 0.24
21 1 0.02
24 2 0.04
25 16 0.33
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (19 bp):
ATGTATCGATACATTTTCT
Found at i:937756 original size:13 final size:13
Alignment explanation
Indices: 937738--937802 Score: 112
Period size: 13 Copynumber: 5.0 Consensus size: 13
937728 TACATTTTCT
937738 TTGTATCGATACA
1 TTGTATCGATACA
937751 TTGTATCGATACA
1 TTGTATCGATACA
*
937764 CTGTATCGATACA
1 TTGTATCGATACA
937777 TTGTATCGATACA
1 TTGTATCGATACA
*
937790 CTGTATCGATACA
1 TTGTATCGATACA
937803 GGGTGATTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.35
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:937775 original size:26 final size:26
Alignment explanation
Indices: 937739--937802 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
937729 ACATTTTCTT
937739 TGTATCGATACATTGTATCGATACAC
1 TGTATCGATACATTGTATCGATACAC
937765 TGTATCGATACATTGTATCGATACAC
1 TGTATCGATACATTGTATCGATACAC
937791 TGTATCGATACA
1 TGTATCGATACA
937803 GGGTGATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (26 bp):
TGTATCGATACATTGTATCGATACAC
Found at i:937947 original size:21 final size:21
Alignment explanation
Indices: 937923--937969 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
937913 AAATCTTTTG
937923 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
937944 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
937964 CAAAAT
1 CAAAAT
937970 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:937966 original size:20 final size:19
Alignment explanation
Indices: 937925--937967 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
937915 ATCTTTTGCA
937925 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
937945 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
937965 AAA
1 AAA
937968 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:941026 original size:28 final size:28
Alignment explanation
Indices: 940986--941040 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
940976 GTATTTGGAC
940986 CGAACCTCTATAAATATCTTGTGTCAAT
1 CGAACCTCTATAAATATCTTGTGTCAAT
941014 CGAACCTCTATAAATATCTTGTGTCAA
1 CGAACCTCTATAAATATCTTGTGTCAA
941041 ATTTTTCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.35
Consensus pattern (28 bp):
CGAACCTCTATAAATATCTTGTGTCAAT
Found at i:942303 original size:20 final size:20
Alignment explanation
Indices: 942268--942308 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
942258 CAAATTTCTT
942268 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
942290 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
942309 AACAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:944021 original size:22 final size:21
Alignment explanation
Indices: 943996--944039 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
943986 CGAAATTGTC
*
943996 AAATTATTTTACTAAGGGGGAG
1 AAATT-TTTGACTAAGGGGGAG
*
944018 AAATTTTTGATTAAGGGGGAG
1 AAATTTTTGACTAAGGGGGAG
944039 A
1 A
944040 GAAAAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.36, C:0.02, G:0.30, T:0.32
Consensus pattern (21 bp):
AAATTTTTGACTAAGGGGGAG
Found at i:944575 original size:20 final size:20
Alignment explanation
Indices: 944544--944600 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
944534 GTCAAAACCC
*
944544 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
944564 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* *
944584 TGCATTGTATCGATACA
1 TGAAATGTATCGATACA
944601 TTGTATCGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:944604 original size:13 final size:13
Alignment explanation
Indices: 944586--944614 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
944576 ATACAGATTG
944586 CATTGTATCGATA
1 CATTGTATCGATA
944599 CATTGTATCGATA
1 CATTGTATCGATA
944612 CAT
1 CAT
944615 GACCAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:944627 original size:20 final size:21
Alignment explanation
Indices: 944602--944654 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
944592 ATCGATACAT
**
944602 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
* *
944622 TGTATCAATACTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
944643 TGTATCGATACA
1 TGTATCGATACA
944655 AGTCATTGGC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:947509 original size:122 final size:123
Alignment explanation
Indices: 947357--947588 Score: 306
Period size: 122 Copynumber: 1.9 Consensus size: 123
947347 GATGCTATTG
* * * *
947357 CTGGAGTGCTCGAGCTACAAGTGCTTGTGGAAGGTGCTGCTACCGTGGATACTGGAAGAAACTCG
1 CTGGAGTGCTCAAGCTACAAGTGCTCGTGGAAGCTGCTGCTACCGTGGATACTGGAAGAAACTCC
* *
947422 AGCTACTAGTT-TCGGTGCTTTGTTAGAGCTAGAAGCTGTTGTTGGTGGATACTGCTA
66 AACTACTAGTTGTCGGTGCTTTGTTAGAGCTAGAAGCTGCTGTTGGTGGATACTGCTA
* **
947479 CTGGAGTGCTCAAGC-AGCAAGTGCTCGTGGAAGCTGCTGCTACCGTGGGTGTTGGAAGAAACTC
1 CTGGAGTGCTCAAGCTA-CAAGTGCTCGTGGAAGCTGCTGCTACCGTGGATACTGGAAGAAACTC
* * * * * *
947543 CAATTTCTAGTTGTGGGTGCTTTGTTGGAGTTGGAAGCTGCTGTTG
65 CAACTACTAGTTGTCGGTGCTTTGTTAGAGCTAGAAGCTGCTGTTG
947589 ATTCCCTTTT
Statistics
Matches: 93, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
121 1 0.01
122 64 0.69
123 28 0.30
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (123 bp):
CTGGAGTGCTCAAGCTACAAGTGCTCGTGGAAGCTGCTGCTACCGTGGATACTGGAAGAAACTCC
AACTACTAGTTGTCGGTGCTTTGTTAGAGCTAGAAGCTGCTGTTGGTGGATACTGCTA
Found at i:948207 original size:19 final size:19
Alignment explanation
Indices: 948183--948219 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
948173 CATGATGATT
948183 TTTTTACTATTATTTTATC
1 TTTTTACTATTATTTTATC
*
948202 TTTTTACTTTTATTTTAT
1 TTTTTACTATTATTTTAT
948220 TTTATATCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTTACTATTATTTTATC
Found at i:950717 original size:43 final size:43
Alignment explanation
Indices: 950670--951441 Score: 730
Period size: 43 Copynumber: 18.1 Consensus size: 43
950660 TGGATGAGGC
* * *
950670 AGTCTTCAGGGTCAAAGCCGATAGGCAGACTTAGGGATAGAAA
1 AGTCTTCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * *
950713 AGTCTCCAGGGTCAAAGCCGACAAGCAGACTAAGGGATAAGAA
1 AGTCTTCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * * *
950756 AATCTAT-AAGGTCAAAGCCGATAGGCAAACTAAGGGATATGAA
1 AGTCT-TCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * *
950799 AGTCTTTAGGGTCAAAGCCGACAAGCAGACTAA-GGAAAGGAT
1 AGTCTTCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
** *
950841 AGTC-TCTAGGGTCAAATTCGACAGGCAAACTAAGGGATAGGAA
1 AGTCTTC-AGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * * *
950884 AGTC-TCTAGGATCAAATCTGACAGGTACACTAAGGGA-AGGAA
1 AGTCTTC-AGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* *
950926 AGTC-TCTAGGGTCAAAGCCGACAAGCAGACTAAGGGATAGAAA
1 AGTCTTC-AGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* *
950969 AGTCTCCAGGGTCAAAACCGACAGGCAGACTAAGGGATAGGAA
1 AGTCTTCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * * * *
951012 AGTCTCCAAGGTTAAAGTCGATAGGTAGACTAAGGGATAGGAA
1 AGTCTTCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * * *
951055 AGTCTCCAAGGTCAAAGTCGATAGGCAAACTAAGGGA-AGGAA
1 AGTCTTCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * *
951097 AGCCTCCAGGGTCAAAGCCGACGGGCAGACTAAGAGATAGGAA
1 AGTCTTCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* *
951140 AGTC-TCTAAGGTCAAAGTCGACAGGCAGACTAAGGGA-AGGAA
1 AGTCTTC-AGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* ** *
951182 AGTCTCCAAAGTCAAAGCCGATAGGCAGACTAAGGGATAGGAA
1 AGTCTTCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * *
951225 AGTC-TCTAGGGTCAAAGTCGATAGGCAGACTAAGGGA-AAGAA
1 AGTCTTC-AGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * **
951267 AGTCTCCAAGGTCAAAGCTAACAGGCAGACTAAGGGATAGGAA
1 AGTCTTCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * ** *
951310 AGTC-TCTAAGGTGAAAGTTGACAGGCAGACTAAGGGA-AGAAA
1 AGTCTTC-AGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * *
951352 AGT-TTCTAGGGTCAAAGCCGGCAGACAAACTAAGGGATAGAAA
1 AGTCTTC-AGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * * *
951395 AGTC-TCTAAGGTCAAAGTCGATAAGCAGACTAAGGGA-AGAAA
1 AGTCTTC-AGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
951437 AGTCT
1 AGTCT
951442 CCAGAAGTTT
Statistics
Matches: 610, Mismatches: 101, Indels: 36
0.82 0.14 0.05
Matches are distributed among these distances:
41 1 0.00
42 218 0.36
43 390 0.64
44 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.29, T:0.16
Consensus pattern (43 bp):
AGTCTTCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
Found at i:950854 original size:128 final size:128
Alignment explanation
Indices: 950670--951444 Score: 824
Period size: 128 Copynumber: 6.1 Consensus size: 128
950660 TGGATGAGGC
* * * * *
950670 AGTCTTCAGGGTCAAAGCCGATAGGCAGACTTAGGGATAGAAAAGTCTCCAGGGTCAAAGCCGAC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TAAGGAAAGAAAAGTCTCCAGGGTCAAAGCCGAC
* * * * * *
950735 AAGCAGACTAAGGGATAAGAAAATCTATAAGGTCAAAGCCGATAGGCAAACTAAGGGATATGAA
65 AGGCAGACTAAGGGATAAGAAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
** * * * * * **
950799 AGTCTTTAGGGTCAAAGCCGACAAGCAGACTAAGGAAAGGATAGTCTCTAGGGTCAAATTCGACA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * * * * *
950864 GGCAAACTAAGGGATAGGAAAGTCTCT-AGGATCAAATCTGACAGGTACACTAAGGGA-AGGAA
66 GGCAGACTAAGGGATAAGAAAGTCTCTAAGG-TCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * * *
950926 AGTCTCTAGGGTCAAAGCCGACAAGCAGACTAAGGGATAGAAAAGTCTCCAGGGTCAAAACCGAC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAA-GGAAAGAAAAGTCTCCAGGGTCAAAGCCGAC
* * * * * *
950991 AGGCAGACTAAGGGATAGGAAAGTCTCCAAGGTTAAAGTCGATAGGTAGACTAAGGGATAGGAA
65 AGGCAGACTAAGGGATAAGAAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * * * * *
951055 AGTCTCCAAGGTCAAAGTCGATAGGCAAACTAAGGGAAGGAAAGCCTCCAGGGTCAAAGCCGACG
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * *
951120 GGCAGACTAAGAGATAGGAAAGTCTCTAAGGTCAAAGTCGACAGGCAGACTAAGGGA-AGGAA
66 GGCAGACTAAGGGATAAGAAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * * * * *
951182 AGTCTCCAAAGTCAAAGCCGATAGGCAGACTAAGGGATAGGAAAGTCTCTAGGGTCAAAGTCGAT
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAA-GGAAAGAAAAGTCTCCAGGGTCAAAGCCGAC
* **
951247 AGGCAGACTAAGGGA-AAGAAAGTCTCCAAGGTCAAAGCTAACAGGCAGACTAAGGGATAGGAA
65 AGGCAGACTAAGGGATAAGAAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * ** * * * *
951310 AGTCTCTAAGGTGAAAGTTGACAGGCAGACTAAGGGAAGAAAAGTTTCTAGGGTCAAAGCCGGCA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * * * * *
951375 GACAAACTAAGGGAT-AGAAAAGTCTCTAAGGTCAAAGTCGATAAGCAGACTAAGGGA-AGAAA
66 GGCAGACTAAGGGATAAG-AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
951437 AGTCTCCA
1 AGTCTCCA
951445 GAAGTTTAAT
Statistics
Matches: 546, Mismatches: 92, Indels: 18
0.83 0.14 0.03
Matches are distributed among these distances:
127 161 0.29
128 323 0.59
129 62 0.11
ACGTcount: A:0.39, C:0.17, G:0.29, T:0.16
Consensus pattern (128 bp):
AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACA
GGCAGACTAAGGGATAAGAAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
Found at i:950899 original size:85 final size:84
Alignment explanation
Indices: 950670--951445 Score: 811
Period size: 85 Copynumber: 9.1 Consensus size: 84
950660 TGGATGAGGC
* * * * * *
950670 AGTCTTCAGGGTCAAAGCCGATAGGCAGACTTAGGGATAGAAAAGTCTCCAGGGTCAAAGCCGAC
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCTA-GGTCAAAGTCGAC
*
950735 AAGCAGACTAAGGGATAA-GAA
65 AGGCAGACTAA-GGA-AAGGAA
* ** * * * * * *
950756 AATCTATAAGGTCAAAGCCGATAGGCAAACTAAGGGATATGAAAGTCTTTAGGGTCAAAGCCGAC
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCTA-GGTCAAAGTCGAC
* *
950821 AAGCAGACTAAGGAAAGGAT
65 AGGCAGACTAAGGAAAGGAA
* ** *
950841 AGTCTCTAGGGTCAAATTCGACAGGCAAACTAAGGGATAGGAAAGTCTCTAGGATCAAA-TCTGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCTAGG-TCAAAGTC-GA
* * *
950905 CAGGTACACTAAGGGAAGGAA
64 CAGGCAGACTAAGGAAAGGAA
* * * * **
950926 AGTCTCTAGGGTCAAAGCCGACAAGCAGACTAAGGGATAGAAAAGTCTCCAGGGTCAAAACCGAC
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCTA-GGTCAAAGTCGAC
*
950991 AGGCAGACTAAGGGATAGGAA
65 AGGCAGACTAA-GGAAAGGAA
* * * * * * *
951012 AGTCTCCAAGGTTAAAGTCGATAGGTAGACTAAGGGATAGGAAAGTCTCCAAGGTCAAAGTCGAT
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCT-CTAGGTCAAAGTCGAC
* *
951077 AGGCAAACTAAGGGAAGGAA
65 AGGCAGACTAAGGAAAGGAA
* * *
951097 AGCCTCCAGGGTCAAAGCCGACGGGCAGACTAAGAGATAGGAAAGTCTCTAAGGTCAAAGTCGAC
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCT-AGGTCAAAGTCGAC
*
951162 AGGCAGACTAAGGGAAGGAA
65 AGGCAGACTAAGGAAAGGAA
** * *
951182 AGTCTCCAAAGTCAAAGCCGATAGGCAGACTAAGGGATAGGAAAGTCTCTAGGGTCAAAGTCGAT
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCTA-GGTCAAAGTCGAC
951247 AGGCAGACTAAGGGAAA-GAA
65 AGGCAGACTAA-GGAAAGGAA
* ** * *
951267 AGTCTCCAAGGTCAAAGCTAACAGGCAGACTAAGGGATAGGAAAGTCTCTAAGGTGAAAGTTGAC
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCT-AGGTCAAAGTCGAC
* *
951332 AGGCAGACTAAGGGAAGAAA
65 AGGCAGACTAAGGAAAGGAA
* * * * * * *
951352 AGTTTCTAGGGTCAAAGCCGGCAGACAAACTAAGGGATAGAAAAGTCTCTAAGGTCAAAGTCGAT
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCT-AGGTCAAAGTCGAC
* * *
951417 AAGCAGACTAAGGGAAGAAA
65 AGGCAGACTAAGGAAAGGAA
951437 AGTCTCCAG
1 AGTCTCCAG
951446 AAGTTTAATG
Statistics
Matches: 584, Mismatches: 94, Indels: 25
0.83 0.13 0.04
Matches are distributed among these distances:
84 11 0.02
85 430 0.74
86 141 0.24
87 2 0.00
ACGTcount: A:0.39, C:0.17, G:0.29, T:0.16
Consensus pattern (84 bp):
AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCTAGGTCAAAGTCGACA
GGCAGACTAAGGAAAGGAA
Found at i:954945 original size:13 final size:13
Alignment explanation
Indices: 954927--954951 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
954917 CATAAAGTGT
954927 TGTATCGATACAA
1 TGTATCGATACAA
954940 TGTATCGATACA
1 TGTATCGATACA
954952 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:954962 original size:32 final size:33
Alignment explanation
Indices: 954907--954972 Score: 125
Period size: 32 Copynumber: 2.0 Consensus size: 33
954897 TTCAACGATT
954907 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
954940 TGTATCGATACAT-AAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
954972 T
1 T
954973 ATAAGCTACT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 20 0.61
33 13 0.39
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:955031 original size:13 final size:13
Alignment explanation
Indices: 955013--955037 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
955003 ATTACTCAAA
955013 TGTATCGATACAT
1 TGTATCGATACAT
955026 TGTATCGATACA
1 TGTATCGATACA
955038 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:955090 original size:52 final size:52
Alignment explanation
Indices: 955046--955174 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
955036 CACTGATCTT
955046 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
955098 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
955150 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
955175 TCATATTTCG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:962118 original size:13 final size:13
Alignment explanation
Indices: 962102--962134 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
962092 CAAAAGTAAA
962102 AAAAAAAAGAGTC
1 AAAAAAAAGAGTC
962115 -AAAAAAA-AGTC
1 AAAAAAAAGAGTC
962126 AAAAAAAAG
1 AAAAAAAAG
962135 TACAAAGGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.76, C:0.06, G:0.12, T:0.06
Consensus pattern (13 bp):
AAAAAAAAGAGTC
Found at i:962140 original size:12 final size:11
Alignment explanation
Indices: 962103--962140 Score: 58
Period size: 11 Copynumber: 3.3 Consensus size: 11
962093 AAAAGTAAAA
962103 AAAAAAAGAGTC
1 AAAAAAA-AGTC
962115 AAAAAAAAGTC
1 AAAAAAAAGTC
962126 AAAAAAAAGTAC
1 AAAAAAAAGT-C
962138 AAA
1 AAA
962141 GGCAAAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.74, C:0.08, G:0.11, T:0.08
Consensus pattern (11 bp):
AAAAAAAAGTC
Found at i:962396 original size:17 final size:15
Alignment explanation
Indices: 962369--962428 Score: 68
Period size: 15 Copynumber: 3.8 Consensus size: 15
962359 TGTTCTTTTC
962369 CAAAAAAGAAACAAAA
1 CAAAAAAGAAA-AAAA
962385 CAAAAAAGGAAAGAAAA
1 CAAAAAA-GAAA-AAAA
962402 -AGAAAAAGAAAAAAA
1 CA-AAAAAGAAAAAAA
*
962417 CAAAACAGAAAA
1 CAAAAAAGAAAA
962429 TCTAGGTGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
15 13 0.33
16 13 0.33
17 13 0.33
ACGTcount: A:0.80, C:0.08, G:0.12, T:0.00
Consensus pattern (15 bp):
CAAAAAAGAAAAAAA
Found at i:963502 original size:32 final size:32
Alignment explanation
Indices: 963432--963647 Score: 293
Period size: 32 Copynumber: 6.9 Consensus size: 32
963422 ATACCTTTTT
963432 AAAGTCCACGACTCAGTGGCAAT--TTCTTC-TC
1 AAAGTCCACGACTCAGTGGC-ATCCTT-TTCTTC
963463 AAAGTCCACGACTCAGTGGCATCCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCCTTTTCTTC
*
963495 AAAGTCCACGACTCAGTGGCATCCTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATCCTTTTCTTC
*
963527 AAAGTCCATGACTCAGTGGCAT--TTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATCCTTT-TCTTC
*
963557 AAAGTCCACGACTCAGTGGCAT-TTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCCTTTTCTTC
963588 AAAGTCCACGACTCAGTGGCATCCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCCTTTTCTTC
* * * *
963620 AAAGCCCACAACTCCGTGGCACCCTTTT
1 AAAGTCCACGACTCAGTGGCATCCTTTT
963648 AAGTCCACAA
Statistics
Matches: 169, Mismatches: 9, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
30 29 0.17
31 52 0.31
32 88 0.52
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
AAAGTCCACGACTCAGTGGCATCCTTTTCTTC
Found at i:963684 original size:125 final size:126
Alignment explanation
Indices: 963425--963684 Score: 336
Period size: 125 Copynumber: 2.1 Consensus size: 126
963415 TCTTCAAATA
*
963425 CCTTTTTAAAGTCCACGACTCAGTGGCAATTTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTT
1 CCTTTTCAAAGTCCACGACTCAGTGGCAATTTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTT
* * ** *
963490 TCTTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTTAAAGTCCATGACTCAGTGGCATTTTGT
66 TCTTCAAAGCCCACAACTCAGTGGCATCC---TCTTTAAAGTCCACAACTCAGTGGCATTTTCT
*
963554 -C---TCAAAGTCCACGACTCAGTGGC-ATTTTTTCTTCAAAGTCCACGACTCAGTGGCATCCTT
1 CCTTTTCAAAGTCCACGACTCAGTGGCAATTTCTTC-TCAAAGTCCACGACTCAGTGGCATCCTT
* * *
963614 TTCTTCAAAGCCCACAACTCCGTGGCA-CC-CTTTTAAGTCCACAACTCCGTGGCATCTTTCT
65 TTCTTCAAAGCCCACAACTCAGTGGCATCCTCTTTAAAGTCCACAACTCAGTGGCAT-TTTCT
963675 CCTTTTCAAA
1 CCTTTTCAAA
963685 AGCCCACACA
Statistics
Matches: 115, Mismatches: 10, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
120 22 0.19
121 4 0.03
122 1 0.01
124 9 0.08
125 78 0.68
128 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (126 bp):
CCTTTTCAAAGTCCACGACTCAGTGGCAATTTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTT
TCTTCAAAGCCCACAACTCAGTGGCATCCTCTTTAAAGTCCACAACTCAGTGGCATTTTCT
Found at i:963720 original size:33 final size:33
Alignment explanation
Indices: 963683--963803 Score: 199
Period size: 33 Copynumber: 3.7 Consensus size: 33
963673 CTCCTTTTCA
**
963683 AAAGCCCACACAAGAAGGTGGCAACCCTTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
963716 AAAGCCCACACAAGTCGGTGGCAACCC-TCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
*
963748 AAAGCCCACACAAGTCGGTGGCAACCATTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
*
963781 AAAGCCCACACAAGTTGGTGGCA
1 AAAGCCCACACAAGTCGGTGGCA
963804 TCTTCCTTTA
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
32 31 0.37
33 52 0.63
ACGTcount: A:0.31, C:0.33, G:0.20, T:0.16
Consensus pattern (33 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
Found at i:963925 original size:43 final size:43
Alignment explanation
Indices: 963861--964598 Score: 562
Period size: 43 Copynumber: 16.0 Consensus size: 43
963851 CCTTTGTCTT
* *
963861 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAACTC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTC
* * *
963904 CAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCACCCTTC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CC-TC
* *
963949 TAAGTCCAATATAGCTAGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTC
* * *
963992 TAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCATCATC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C--C-TC
* *
964039 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAACTC
1 --TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTC
* * * *
964084 CAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TC
* * * * ** *
964128 TTATTTAAGTCCAATGTAGCTGGCCTTGAATAAACACATCT-TCTTCTT
1 -----TAAGTCCAATATAGCTGGCCTTGAATCAGCACAT-TGGCACCTC
* *
964176 TAAGTCCAATATAGCTGGCCTTCAATCAGCATATTGGCACCTTCTTC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C--C-TC
* *
964223 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
1 --TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTC
*
964268 TAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTGGCACCATCATC
1 TAAGTCCAATAT-AGCTGGCCTTGAATCAGCACATTGGCA-C--C-TC
* *
964315 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAACTC
1 --TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTC
* * **
964360 CAAGTCCAATATCGCTGGCCTTGAATCAGCATTTTGGCACCCTCATC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA--C-C-TC
** * * *
964407 TTTTAAACCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 ---TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTC
* * * *
964453 TAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCGCCTTTGTCATC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGC-AC-----C-TC
* *
964503 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGACTTTGTCATC
1 --TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGC-AC-----C-TC
* *
964555 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT
1 --TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
964599 TCATCTTTAA
Statistics
Matches: 573, Mismatches: 76, Indels: 90
0.78 0.10 0.12
Matches are distributed among these distances:
42 1 0.00
43 238 0.42
44 9 0.02
45 45 0.08
46 9 0.02
47 6 0.01
48 4 0.01
49 138 0.24
50 35 0.06
51 2 0.00
52 86 0.15
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (43 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTC
Found at i:964075 original size:92 final size:92
Alignment explanation
Indices: 963808--964608 Score: 1036
Period size: 92 Copynumber: 8.6 Consensus size: 92
963798 GTGGCATCTT
* * **
963808 CCTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
963873 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* ** * * * *
963900 ACTCCAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCACC--C-T-TCTAAGTCCAATAT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
963961 AGCTAGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
963988 CCTTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCATCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
964053 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* ** * * *
964080 ACTCCAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCTTATTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
* * * *
964145 AGCTGGCCTTGAATAAACACATCT-TCT
66 AGCTGGCCTTGAATCAGCACAT-TGGCA
* * * *
964172 TCTTTAAGTCCAATATAGCTGGCCTTCAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
964237 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
964264 CCTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCATCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
964329 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* ** * * **
964356 ACTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATTTTGGCACCCTCATCTTTTAAACCCAATG
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC-TTTAAGTCCAATG
*
964421 TCGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
* *
964449 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCGCCTTTGTCATCTTTAAGTCCAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTTTAAGTCCAA
* * *
964514 TATCGCTGGCCTTGAATCAGCATATTGGCGA
63 TGTAGCTGGCCTTGAATCAGCACATTGGC-A
* *
964545 CTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
1 ------C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAA
964609 CATTCCTAAG
Statistics
Matches: 617, Mismatches: 73, Indels: 29
0.86 0.10 0.04
Matches are distributed among these distances:
88 77 0.12
89 1 0.00
90 1 0.00
91 2 0.00
92 364 0.59
93 78 0.13
95 36 0.06
96 6 0.01
101 10 0.02
102 2 0.00
104 40 0.06
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:964528 original size:52 final size:52
Alignment explanation
Indices: 964450--964599 Score: 255
Period size: 52 Copynumber: 2.9 Consensus size: 52
964440 ACATTGGCAC
*
964450 CTTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
*
964502 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGACTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
* * *
964554 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTT
964600 CATCTTTAAC
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 92 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
Found at i:977783 original size:33 final size:33
Alignment explanation
Indices: 977734--977798 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
977724 TTATTCCTTT
* * *
977734 CTTTTTTTCTCCTCTCCTACTTGTCGTGAGTTG
1 CTTTGTTTCTCCTCTCCCACTTGCCGTGAGTTG
*
977767 CTTTGTTTCTCTTCTCCCACTTGCCGTGAGTT
1 CTTTGTTTCTCCTCTCCCACTTGCCGTGAGTT
977799 ACCTTTCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.06, C:0.29, G:0.15, T:0.49
Consensus pattern (33 bp):
CTTTGTTTCTCCTCTCCCACTTGCCGTGAGTTG
Found at i:978333 original size:8 final size:8
Alignment explanation
Indices: 978320--978380 Score: 50
Period size: 8 Copynumber: 6.9 Consensus size: 8
978310 TTTTTTACTA
978320 TTATTTTT
1 TTATTTTT
978328 TTATTTTT
1 TTATTTTT
978336 TTACTTTTATT
1 TTA--TTT-TT
*
978347 TTATTATT
1 TTATTTTT
*
978355 TTATTATT
1 TTATTTTT
978363 TTACTTTTAT
1 TTA-TTTT-T
978373 TCTATTTT
1 T-TATTTT
978381 ATATTGAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
8 24 0.53
9 5 0.11
10 9 0.20
11 7 0.16
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (8 bp):
TTATTTTT
Found at i:978336 original size:22 final size:22
Alignment explanation
Indices: 978309--978373 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
978299 TCATGATGAT
*
978309 TTTTTTTACTATTATTTTTTTA
1 TTTTTTTACTATTATTTTATTA
*
978331 TTTTTTTACTTTTATTTTATTA
1 TTTTTTTACTATTATTTTATTA
* *
978353 TTTTATTA-TTTTACTTTTATT
1 TTTTTTTACTATTA-TTTTATT
978374 CTATTTTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
21 5 0.13
22 34 0.87
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTTTTACTATTATTTTATTA
Found at i:978343 original size:14 final size:14
Alignment explanation
Indices: 978326--978373 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 14
978316 ACTATTATTT
978326 TTTTATTTTTTTAC
1 TTTTATTTTTTTAC
*
978340 TTTTATTTTATTA-
1 TTTTATTTTTTTAC
*
978353 TTTTATTATTTTAC
1 TTTTATTTTTTTAC
978367 TTTTATT
1 TTTTATT
978374 CTATTTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 11 0.37
14 19 0.63
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATTTTTTTAC
Found at i:978356 original size:27 final size:27
Alignment explanation
Indices: 978320--978378 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
978310 TTTTTTACTA
* *
978320 TTATTTTTTTATTTTTTTACTTTTATT
1 TTATTATTTTATTATTTTACTTTTATT
978347 TTATTATTTTATTATTTTACTTTTATT
1 TTATTATTTTATTATTTTACTTTTATT
*
978374 CTATT
1 TTATT
978379 TTATATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (27 bp):
TTATTATTTTATTATTTTACTTTTATT
Found at i:980812 original size:50 final size:51
Alignment explanation
Indices: 980758--980937 Score: 223
Period size: 50 Copynumber: 3.7 Consensus size: 51
980748 TTCATCCTTT
* *
980758 GTTTGACTATATTGGCATTA-AACCTGGTCAAACTCTCTTTTTTCACTCTC
1 GTTTGACTATATTGGCATTAGGACCTGGTCAAACTCTCTTTTTCCACTCTC
* * *
980808 GTTTGACTGTATTGGCGTTAGG-CCTGGTCAAACTCTC-TTTTCCAC-CTT
1 GTTTGACTATATTGGCATTAGGACCTGGTCAAACTCTCTTTTTCCACTCTC
* **
980856 GTTTGACTATATTGGCATTAGGACCTGGTCAAACGC-CTTTCACCA-T-TC
1 GTTTGACTATATTGGCATTAGGACCTGGTCAAACTCTCTTTTTCCACTCTC
*
980904 -TTTGACTGTATTGGCATTAGGACCTGGTCAAACT
1 GTTTGACTATATTGGCATTAGGACCTGGTCAAACT
980938 TTTCTCACCA
Statistics
Matches: 113, Mismatches: 13, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
47 32 0.28
48 24 0.21
49 24 0.21
50 33 0.29
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (51 bp):
GTTTGACTATATTGGCATTAGGACCTGGTCAAACTCTCTTTTTCCACTCTC
Found at i:980916 original size:47 final size:47
Alignment explanation
Indices: 980759--980988 Score: 218
Period size: 47 Copynumber: 4.8 Consensus size: 47
980749 TCATCCTTTG
* ***
980759 TTTGACTATATTGGCATTA-AACCTGGTCAAACTCTCTTTTTTCACTCTC
1 TTTGACTATATTGGCATTAGGACCTGGTCAAACTC-CTTTCACCA-T-TC
* * *
980808 GTTTGACTGTATTGGCGTTAGG-CCTGGTCAAACTCTCTTTTCCACC-TTG
1 -TTTGACTATATTGGCATTAGGACCTGGTCAAACTC-C-TTT-CACCATTC
*
980857 TTTGACTATATTGGCATTAGGACCTGGTCAAACGCCTTTCACCATTC
1 TTTGACTATATTGGCATTAGGACCTGGTCAAACTCCTTTCACCATTC
* * *
980904 TTTGACTGTATTGGCATTAGGACCTGGTCAAACT-TTTCTCACCATTT
1 TTTGACTATATTGGCATTAGGACCTGGTCAAACTCCTT-TCACCATTC
* * * *
980951 TTTGACTATGTCGGCATTA-GCCCTAGTCAAACTCCTTT
1 TTTGACTATATTGGCATTAGGACCTGGTCAAACTCCTTT
980989 TCATTTTGCC
Statistics
Matches: 152, Mismatches: 21, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
46 19 0.12
47 63 0.41
48 20 0.13
49 13 0.09
50 33 0.22
51 3 0.02
52 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (47 bp):
TTTGACTATATTGGCATTAGGACCTGGTCAAACTCCTTTCACCATTC
Found at i:981206 original size:84 final size:84
Alignment explanation
Indices: 981064--981416 Score: 372
Period size: 84 Copynumber: 4.2 Consensus size: 84
981054 TTTTTCATCT
* ** * ** * *
981064 TTGTTTACCTATTGGCTCAGTCCCTGGTAAACTTATTACCCTTATGGTGACCTGTCAGCTCAATC
1 TTGTTTACCCATCAGCTTAGTCCCTGGTAAACCCATTACCCTTATGGTGACCTATCAGCTCAGTC
981129 TCTGGTCAACCTTCATCCA
66 TCTGGTCAACCTTCATCCA
* *
981148 TTGTTTACCCGTCAGCTTAGTCCTTGGTAAACCCATTACCCTTATGGTGACCTATCAGCTCAGTC
1 TTGTTTACCCATCAGCTTAGTCCCTGGTAAACCCATTACCCTTATGGTGACCTATCAGCTCAGTC
* * * *
981213 TCCGATCATCCTTTATCCA
66 TCTGGTCAACCTTCATCCA
* ** * * * * * * *
981232 TTATTTACCTGTCGGCTCAAT-CCTCGGTAAACCCCTTTTCTCC-T-TGGTGACCTGTCAGCCCA
1 TTGTTTACCCATCAGCTTAGTCCCT-GGTAAA-CCCATTAC-CCTTATGGTGACCTATCAGCTCA
*
981294 GTCT-TCGGTCAACTTTCATCCA
63 GTCTCT-GGTCAACCTTCATCCA
* * * *
981316 TTGTTTACCTATCGGTTTAGTCCCTGGTAAACCCATTACCCTTATGGTGATCTATCAGCTCAGTC
1 TTGTTTACCCATCAGCTTAGTCCCTGGTAAACCCATTACCCTTATGGTGACCTATCAGCTCAGTC
*
981381 TCTGGTCAACCTCCATCCA
66 TCTGGTCAACCTTCATCCA
981400 TTGTTTACCCATCAGCT
1 TTGTTTACCCATCAGCT
981417 CAATCCTCGA
Statistics
Matches: 217, Mismatches: 44, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
82 2 0.01
83 9 0.04
84 193 0.89
85 11 0.05
86 2 0.01
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.35
Consensus pattern (84 bp):
TTGTTTACCCATCAGCTTAGTCCCTGGTAAACCCATTACCCTTATGGTGACCTATCAGCTCAGTC
TCTGGTCAACCTTCATCCA
Found at i:981490 original size:168 final size:168
Alignment explanation
Indices: 981108--981510 Score: 492
Period size: 168 Copynumber: 2.4 Consensus size: 168
981098 ATTACCCTTA
* * * ** * *
981108 TGGTGACCTGTCAGCTCAAT-CTCTGGTCAACCTTCATCCATTGTTTACCCGTCAGCTTAGTCCT
1 TGGTGACCTGTCAGCCCAGTCCTC-GGTCAACCTTTATCCATTGTTTACCAATCGGCTTAGTCCC
* **
981172 TGGTAAACCCATTACCCTTATGGTGACCTATCAGCTCAGTCTCCGATCATCCTTTATCCATTATT
65 TGGTAAACCCATTACCCTTATGGTGACCTATCAGCTCAGTCTCCGATCAACCTCCATCCATTATT
** * *
981237 TACCTGTCGGCTCAATCCTCGGTAAACCCCTTTTCTCCT
130 TACCCATCAGCTCAATCCTCGATAAACCCCTTTTCTCCT
* * *
981276 TGGTGACCTGTCAGCCCAGTCTTCGGTCAA-CTTTCATCCATTGTTTACCTATCGGTTTAGTCCC
1 TGGTGACCTGTCAGCCCAGTCCTCGGTCAACCTTT-ATCCATTGTTTACCAATCGGCTTAGTCCC
* * * *
981340 TGGTAAACCCATTACCCTTATGGTGATCTATCAGCTCAGTCTCTGGTCAACCTCCATCCATTGTT
65 TGGTAAACCCATTACCCTTATGGTGACCTATCAGCTCAGTCTCCGATCAACCTCCATCCATTATT
981405 TACCCATCAGCTCAATCCTCGATAAA-CCC-TTTCTTCCT
130 TACCCATCAGCTCAATCCTCGATAAACCCCTTTTC-TCCT
** * * *
981443 TGGTGACCTGTC-GACTTAGTCCTCGGTCAACCCTTTATCCCTTGTTTACCAACCGGCTCAGTCC
1 TGGTGACCTGTCAG-CCCAGTCCTCGGTCAA-CCTTTATCCATTGTTTACCAATCGGCTTAGTCC
981507 CTGG
64 CTGG
981511 AGAACTCCTT
Statistics
Matches: 201, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
166 5 0.02
167 35 0.17
168 155 0.77
169 6 0.03
ACGTcount: A:0.19, C:0.32, G:0.15, T:0.34
Consensus pattern (168 bp):
TGGTGACCTGTCAGCCCAGTCCTCGGTCAACCTTTATCCATTGTTTACCAATCGGCTTAGTCCCT
GGTAAACCCATTACCCTTATGGTGACCTATCAGCTCAGTCTCCGATCAACCTCCATCCATTATTT
ACCCATCAGCTCAATCCTCGATAAACCCCTTTTCTCCT
Found at i:982997 original size:151 final size:152
Alignment explanation
Indices: 982709--983000 Score: 362
Period size: 151 Copynumber: 1.9 Consensus size: 152
982699 TTTTATGAAG
* ** *
982709 TTTTGATTTTTTTTTGAAATTTTCTTTTTTTCGAAATATGAATTTTTTCACTCTGTAAATTTTTT
1 TTTTGATTTTTTTTTGAAATTTTATTTTTTTCGAAATATGAATTTCCTCACTCCGTAAATTTTTT
* * *
982774 CGGAGAGATTTTTCTTGGTTTTTAATTTTTAAATTCATAAAATATTATTATTTATTTAATATTAA
66 CGAAGAGATTTTTCTTGATTTTTAATTTTTAAATTCATAAAATATTATTATTTATTTAATAGTAA
*
982839 ATCAGTTCTCACTTTCATAAAA
131 ATAAGTTCTCACTTTCATAAAA
* *
982861 TTTTGATTTTTTCTTTTAAATTCTTATTTTTTT-GAAATATGAAGTTTCCT-ATTCCGTAAATTT
1 TTTTGATTTTTT-TTTGAAATT-TTATTTTTTTCGAAATATGAA-TTTCCTCACTCCGTAAATTT
* ** **
982924 TTTC-AATGGGA-TTTT-TT-ATTTTTAATTTTTAAAATTCATCTAATATTATTATTTATTTCCT
63 TTTCGAA-GAGATTTTTCTTGATTTTTAATTTTT-AAATTCATAAAATATTATTATTTATTTAAT
982985 AGTAAATAAGTTCTCA
126 AGTAAATAAGTTCTCA
983001 AAAATTCATT
Statistics
Matches: 120, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
150 12 0.10
151 42 0.35
152 17 0.14
153 36 0.30
154 13 0.11
ACGTcount: A:0.28, C:0.09, G:0.08, T:0.55
Consensus pattern (152 bp):
TTTTGATTTTTTTTTGAAATTTTATTTTTTTCGAAATATGAATTTCCTCACTCCGTAAATTTTTT
CGAAGAGATTTTTCTTGATTTTTAATTTTTAAATTCATAAAATATTATTATTTATTTAATAGTAA
ATAAGTTCTCACTTTCATAAAA
Found at i:984372 original size:171 final size:171
Alignment explanation
Indices: 984114--984552 Score: 605
Period size: 171 Copynumber: 2.6 Consensus size: 171
984104 CTAGACATAT
* * *
984114 TTCTTTACTGTATTTTTGCTGCTGTTGTTGAGCTAATTTCATGCTTTAAATGATGTGTTCCCATG
1 TTCTTTGCTGTATTTTTGCTACTGTTGTTGAGCTGATTTCATGCTTTAAATGATGTGTTCCCATG
*
984179 TTATTTTGATGTATAAGGACCAAAATGCAAATATCCAAAGTTTAAGGACTTATATGCAAAATTGA
66 TTATTTTGATGTATAGGGACCAAAATGCAAATATCCAAAGTTTAAGGACTTATATGCAAAATTGA
**
984244 TCTTT-CTCTAGAAATGTTGTAG-ATGGTCGAACCCAAGATAC
131 TCTTTCCT-TAGAAATGTTGT-GTATGACCGAACCCAAGATAC
* * * *
984285 TTCTTTGCTGTATTTTTTCTACTGTTGTTAAGCTGATTTGATGCTTTAAATGATGTGTTCCCAAG
1 TTCTTTGCTGTATTTTTGCTACTGTTGTTGAGCTGATTTCATGCTTTAAATGATGTGTTCCCATG
* *
984350 TTATTTTGATGTATAGGGACCAAAATGCAAATATCCAAAGTTTAAGGAGTTGTATGCAAAATTGA
66 TTATTTTGATGTATAGGGACCAAAATGCAAATATCCAAAGTTTAAGGACTTATATGCAAAATTGA
* * *** **
984415 TTTTTCCTTAGAAATGTTGTGTTTGACCGAATTTAAGATGT
131 TCTTTCCTTAGAAATGTTGTGTATGACCGAACCCAAGATAC
* * * * * *
984456 TTCCTAGGTG-AATTTTGCTACTATTGTTGAGCTGATTTCATGCTTTAAATGATGAGTTCCCATG
1 TTCTTTGCTGTATTTTTGCTACTGTTGTTGAGCTGATTTCATGCTTTAAATGATGTGTTCCCATG
*
984520 TTATTTTGATGTATAGGGACCAAAGTGCAAATA
66 TTATTTTGATGTATAGGGACCAAAATGCAAATA
984553 CGAAAAAGCT
Statistics
Matches: 236, Mismatches: 30, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
170 80 0.34
171 154 0.65
172 2 0.01
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (171 bp):
TTCTTTGCTGTATTTTTGCTACTGTTGTTGAGCTGATTTCATGCTTTAAATGATGTGTTCCCATG
TTATTTTGATGTATAGGGACCAAAATGCAAATATCCAAAGTTTAAGGACTTATATGCAAAATTGA
TCTTTCCTTAGAAATGTTGTGTATGACCGAACCCAAGATAC
Found at i:995217 original size:21 final size:21
Alignment explanation
Indices: 995184--995233 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
995174 TTGCAAGTTG
*
995184 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
995206 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
995227 AAATAAA
1 AAATAAA
995234 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:996121 original size:32 final size:30
Alignment explanation
Indices: 996085--996143 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 30
996075 GAAATCAAAT
996085 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-AT-ACAATATGA
996117 ACAAAAGCTCTAGAAAAATATACAATA
1 ACAAAAGCTCTAGAAAAATATACAATA
996144 CATTGATCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 6 0.23
31 6 0.23
32 14 0.54
ACGTcount: A:0.59, C:0.12, G:0.10, T:0.19
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATACAATATGA
Found at i:996442 original size:13 final size:13
Alignment explanation
Indices: 996424--996449 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
996414 ATATTTTTTG
996424 TGTATCGATACAT
1 TGTATCGATACAT
996437 TGTATCGATACAT
1 TGTATCGATACAT
996450 ATTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:996460 original size:32 final size:33
Alignment explanation
Indices: 996403--996467 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
996393 TACAAGCCAA
996403 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATCGATACAT
996437 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
996468 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.55
34 14 0.45
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:996461 original size:19 final size:19
Alignment explanation
Indices: 996403--996467 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
996393 TACAAGCCAA
996403 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
996424 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
996437 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
996456 TGTATCGATACA
1 TGTATCGATACA
996468 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:998512 original size:21 final size:20
Alignment explanation
Indices: 998483--998525 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
998473 GACTAGTGTG
* *
998483 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
998504 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
998524 GG
1 GG
998526 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Done.