Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 127 of 290
Found at i:43238093 original size:94 final size:91
Alignment explanation
Indices: 43237867--43238136 Score: 271
Period size: 94 Copynumber: 2.9 Consensus size: 91
43237857 ACACAGGGTA
* * *
43237867 TAATGCCGATGCCATGTCTCAGACATAGTCTTACACTAGCTCTCACATATCTGTGCCGATGCCAT
1 TAATGCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCT-T-ACATA-C-GGGCCGATG-CAT
43237932 GTCCCAGACATGGTCTTACACTAACACATCTCG
60 GTCCCAGACAT-GTCTTACACTAACACATCTCG
* *
43237965 TAA--CTGATG-CATGTCCCAGA-ATGTCTTACACTGGCTTACGTCACGAGGCCGATGCATGTCC
1 TAATGCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACAT-ACG-GGCCGATGCATGTCC
* * * * *
43238026 TAAACATGTCTTACACTATCTC-TCGTCT
64 CAGACATGTCTTACACTAACACATC-TCG
** *
43238054 TAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTTATAATGTGGCCGATGCATGTC
1 TAATGCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTACAT-ACG-GGCCGATGCATGTC
43238119 CCAGACATGTCTTACACT
63 CCAGACATGTCTTACACT
43238137 GGCACACAAA
Statistics
Matches: 145, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
88 2 0.01
89 18 0.12
90 13 0.09
91 16 0.11
92 13 0.09
93 15 0.10
94 50 0.34
95 10 0.07
96 5 0.03
98 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (91 bp):
TAATGCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATACGGGCCGATGCATGTCCCA
GACATGTCTTACACTAACACATCTCG
Found at i:43241602 original size:15 final size:15
Alignment explanation
Indices: 43241582--43241613 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
43241572 TTTATTGAGC
43241582 TTGGCATATAATTGT
1 TTGGCATATAATTGT
43241597 TTGGCATATAATTGT
1 TTGGCATATAATTGT
43241612 TT
1 TT
43241614 ATCTCTCAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (15 bp):
TTGGCATATAATTGT
Found at i:43243096 original size:7 final size:7
Alignment explanation
Indices: 43243084--43243114 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
43243074 CATGTGTTAT
43243084 CAACTTG
1 CAACTTG
43243091 CAACTTG
1 CAACTTG
43243098 CAACTTG
1 CAACTTG
43243105 CAACTTG
1 CAACTTG
43243112 CAA
1 CAA
43243115 GTTGTAGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (7 bp):
CAACTTG
Found at i:43247243 original size:24 final size:25
Alignment explanation
Indices: 43247215--43247280 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 25
43247205 AAGTTCAAGT
43247215 GAGCCAT-ATCGGGAAGCTCACAAA
1 GAGCCATAATCGGGAAGCTCACAAA
*
43247239 GAGCCAATTAAT-AGGAAGCTCACAAA
1 GAGCC-A-TAATCGGGAAGCTCACAAA
43247265 GAGCCATAATCGGGAA
1 GAGCCATAATCGGGAA
43247281 ACTTATACGA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
24 9 0.25
25 6 0.17
26 19 0.53
27 2 0.06
ACGTcount: A:0.41, C:0.21, G:0.24, T:0.14
Consensus pattern (25 bp):
GAGCCATAATCGGGAAGCTCACAAA
Found at i:43249115 original size:45 final size:45
Alignment explanation
Indices: 43249051--43249161 Score: 179
Period size: 45 Copynumber: 2.5 Consensus size: 45
43249041 AATGGTAGCA
*
43249051 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTC-GAATCG
* *
43249096 GTAACAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAATCG
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCG
43249141 GTAACAGTAACAGTAACAGTA
1 GTAACAGTAACAGTAACAGTA
43249162 ACAATGTTCG
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
45 60 0.98
46 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAATCG
Found at i:43250274 original size:3 final size:3
Alignment explanation
Indices: 43250266--43250296 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
43250256 TATTAACTTT
43250266 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
43250297 ATATCTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:43250570 original size:26 final size:26
Alignment explanation
Indices: 43250541--43250612 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
43250531 TTAATTTATT
43250541 TTTAATAATAAT-AATAATAATCATAA
1 TTTAATAATAATAAATAATAAT-ATAA
* *
43250567 TTTAATAAT-ATAAATTATAATTTAA
1 TTTAATAATAATAAATAATAATATAA
**
43250592 TAGAATAATAATAAATAATAA
1 TTTAATAATAATAAATAATAA
43250613 ATATCTATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
25 12 0.31
26 27 0.69
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (26 bp):
TTTAATAATAATAAATAATAATATAA
Found at i:43250572 original size:20 final size:20
Alignment explanation
Indices: 43250549--43250603 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 20
43250539 TTTTTAATAA
43250549 TAATAATAATAATCATAATT
1 TAATAATAATAATCATAATT
*
43250569 TAATAAT-ATAAATTATAATT
1 TAATAATAAT-AATCATAATT
43250589 TAATAGAATAATAAT
1 TAAT--AATAATAAT
43250604 AAATAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.07
20 20 0.67
22 6 0.20
23 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TAATAATAATAATCATAATT
Found at i:43252314 original size:13 final size:13
Alignment explanation
Indices: 43252296--43252347 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
43252286 AGGGGCACAC
43252296 GCCCGTGTGGCCA
1 GCCCGTGTGGCCA
*
43252309 GCCCGTGGGGATCCTA
1 GCCCGTGTGG--CC-A
*
43252325 TGGCCGTGTGGCCA
1 -GCCCGTGTGGCCA
43252339 GCCCGTGTG
1 GCCCGTGTG
43252348 AAATTCTGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
13 17 0.55
14 1 0.03
15 4 0.13
16 1 0.03
17 8 0.26
ACGTcount: A:0.08, C:0.33, G:0.40, T:0.19
Consensus pattern (13 bp):
GCCCGTGTGGCCA
Found at i:43252403 original size:13 final size:13
Alignment explanation
Indices: 43252382--43252413 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
43252372 GTATCAGAGA
*
43252382 GGCATACGACCTG
1 GGCACACGACCTG
43252395 GGCACACGACCTG
1 GGCACACGACCTG
43252408 GGCACA
1 GGCACA
43252414 TGCCCATGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.25, C:0.34, G:0.31, T:0.09
Consensus pattern (13 bp):
GGCACACGACCTG
Found at i:43253401 original size:33 final size:33
Alignment explanation
Indices: 43253352--43253462 Score: 105
Period size: 33 Copynumber: 3.4 Consensus size: 33
43253342 ATGGACTTTT
* * * * *
43253352 CCTTTTCTAGTTGTACACTCGAGGTGCACATTC
1 CCTTTTCAAGTGGTACACTCGAAGTGAACATAC
* *
43253385 CCTTTTCAAGTGGTACACACGAAGTGTACATAC
1 CCTTTTCAAGTGGTACACTCGAAGTGAACATAC
* * ** * *
43253418 CTTTTTCAATTTATACACTCAAAGTGAACATAA
1 CCTTTTCAAGTGGTACACTCGAAGTGAACATAC
43253451 CCTTTTCAAGTG
1 CCTTTTCAAGTG
43253463 TATACATATA
Statistics
Matches: 61, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.34
Consensus pattern (33 bp):
CCTTTTCAAGTGGTACACTCGAAGTGAACATAC
Found at i:43253513 original size:33 final size:33
Alignment explanation
Indices: 43253451--43253624 Score: 212
Period size: 33 Copynumber: 5.3 Consensus size: 33
43253441 GTGAACATAA
* * *
43253451 CCTTTTCAAGT-GTATACATATAGTGTACCTTT
1 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
*
43253483 CTTTTTCAAGTGGTATACACAAAGTATACCTTT
1 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
*
43253516 CCTTTTCATA-TGGTATTCACAAAGTATACCTTT
1 CCTTTTCA-AGTGGTATACACAAAGTATACCTTT
43253549 CCTTTTCATA-TGGTATACACAAAGTATACCTTT
1 CCTTTTCA-AGTGGTATACACAAAGTATACCTTT
* * * **
43253582 CCTTTTCAAGT-GTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
43253614 CCTTTTCAAGT
1 CCTTTTCAAGT
43253625 TGTACCATTT
Statistics
Matches: 127, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
32 38 0.30
33 88 0.69
34 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (33 bp):
CCTTTTCAAGTGGTATACACAAAGTATACCTTT
Found at i:43253620 original size:98 final size:96
Alignment explanation
Indices: 43253385--43253622 Score: 241
Period size: 98 Copynumber: 2.4 Consensus size: 96
43253375 GTGCACATTC
* *
43253385 CCTTTTCAAGTGGTACACACGAAGTGTACATACCTTTTTCAATTTATACACTCAAAGTGAACATA
1 CCTTTTCAAGTGGTACACACAAAGTGTACATACC-TTTTCAATGTATACAC-CAAAGTGAACATA
* * *
43253450 ACCTTTTCAAGTGTATACATATAGTGTACCTTT
64 ACCTTTTCAAGTGTATACACAAAGTATACCTTT
* * * * * * *
43253483 CTTTTTCAAGTGGTATACACAAAGTATACCTTTCCTTTTCATATGGTATTCA-CAAAGT-ATACC
1 CCTTTTCAAGTGGTACACACAAAGTGTA-CATACCTTTTCA-AT-GTATACACCAAAGTGA-ACA
**
43253546 TTTCCTTTTCATA-TGGTATACACAAAGTATACCTTT
62 TAACCTTTTCA-AGT-GTATACACAAAGTATACCTTT
43253582 CCTTTTCAAGT-GTACACACAAAGTGTACATAACCTTTTCAA
1 CCTTTTCAAGTGGTACACACAAAGTGTACAT-ACCTTTTCAA
43253623 GTTGTACCAT
Statistics
Matches: 114, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
97 4 0.04
98 70 0.61
99 35 0.31
100 5 0.04
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (96 bp):
CCTTTTCAAGTGGTACACACAAAGTGTACATACCTTTTCAATGTATACACCAAAGTGAACATAAC
CTTTTCAAGTGTATACACAAAGTATACCTTT
Found at i:43254341 original size:19 final size:22
Alignment explanation
Indices: 43254300--43254346 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
43254290 TGTAAAAGTG
43254300 ATTTATCTATCAATAATCTTTC
1 ATTTATCTATCAATAATCTTTC
43254322 ATTT-TCTATCAA-AA-CTTTC
1 ATTTATCTATCAATAATCTTTC
43254341 AATTTA
1 -ATTTA
43254347 CAGCATACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 5 0.22
20 6 0.26
21 8 0.35
22 4 0.17
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTTATCTATCAATAATCTTTC
Found at i:43261539 original size:18 final size:18
Alignment explanation
Indices: 43261516--43261563 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
43261506 AACTACTAGA
43261516 ATTCAACTTT-GACATTTT
1 ATTCAA-TTTAGACATTTT
*
43261534 ATTCAATTTAGTCATTTT
1 ATTCAATTTAGACATTTT
43261552 -TTCAA-TTAGACA
1 ATTCAATTTAGACA
43261564 CATAATTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 6 0.22
17 8 0.30
18 13 0.48
ACGTcount: A:0.31, C:0.15, G:0.06, T:0.48
Consensus pattern (18 bp):
ATTCAATTTAGACATTTT
Found at i:43273624 original size:42 final size:41
Alignment explanation
Indices: 43273563--43273669 Score: 117
Period size: 42 Copynumber: 2.6 Consensus size: 41
43273553 TAGCTCAGCT
* * *
43273563 ATGGTCTTACACGATTCTCAT-ATCGATGCCATGTCCTAAAC
1 ATGGTCTTACACGAATCTCATAAT-GATGCCATATCCCAAAC
* * *
43273604 ATGGTCTTACATGAAATCTCATAATGATGCCATATCCCAGAT
1 ATGGTCTTACACG-AATCTCATAATGATGCCATATCCCAAAC
*
43273646 ATGGTCTTACACGTAAACTCATAA
1 ATGGTCTTACACG-AATCTCATAA
43273670 CCCTAATGTC
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
41 12 0.22
42 41 0.75
43 2 0.04
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (41 bp):
ATGGTCTTACACGAATCTCATAATGATGCCATATCCCAAAC
Found at i:43275729 original size:18 final size:17
Alignment explanation
Indices: 43275702--43275757 Score: 62
Period size: 16 Copynumber: 3.3 Consensus size: 17
43275692 AGAAAAATCC
* *
43275702 AAAGACTAAAGAAGAAAA
1 AAAGAATAAA-AATAAAA
43275720 AAAGAATAAAAATAAAA
1 AAAGAATAAAAATAAAA
43275737 ATAA-AAT-AAAATAAAA
1 A-AAGAATAAAAATAAAA
43275753 AAAGA
1 AAAGA
43275758 TGATAAAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
15 2 0.06
16 11 0.32
17 10 0.29
18 11 0.32
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.11
Consensus pattern (17 bp):
AAAGAATAAAAATAAAA
Found at i:43285536 original size:20 final size:18
Alignment explanation
Indices: 43285512--43285547 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
43285502 ATGTTCTGGG
43285512 TGTGTGTGAGGGGTCCCA
1 TGTGTGTGAGGGGTCCCA
43285530 TGTGTGTGAGGGGTCCCA
1 TGTGTGTGAGGGGTCCCA
43285548 AGTTCAAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.17, G:0.44, T:0.28
Consensus pattern (18 bp):
TGTGTGTGAGGGGTCCCA
Found at i:43286345 original size:17 final size:18
Alignment explanation
Indices: 43286323--43286356 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43286313 GAATTGGGCC
*
43286323 GTGTGGG-CCATACGGGA
1 GTGTGGGTCCACACGGGA
43286340 GTGTGGGTCCACACGGG
1 GTGTGGGTCCACACGGG
43286357 TAGTCCACAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.15, C:0.21, G:0.47, T:0.18
Consensus pattern (18 bp):
GTGTGGGTCCACACGGGA
Found at i:43292946 original size:22 final size:22
Alignment explanation
Indices: 43292921--43292970 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
43292911 TCATTGAGAA
*
43292921 TGAATTGATT-TTTTATTATTTT
1 TGAATTGATTCATTT-TTATTTT
*
43292943 TGAATTGATTCATTTTTCTTTT
1 TGAATTGATTCATTTTTATTTT
43292965 TGAATT
1 TGAATT
43292971 TTATGAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.22, C:0.04, G:0.10, T:0.64
Consensus pattern (22 bp):
TGAATTGATTCATTTTTATTTT
Found at i:43297188 original size:21 final size:23
Alignment explanation
Indices: 43297155--43297196 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
43297145 TATTTTAATT
*
43297155 TACAGATATTAAA-TTTATTTTC
1 TACAGATAATAAAGTTTATTTTC
43297177 TACAGA-AATAAAGTTTATTT
1 TACAGATAATAAAGTTTATTT
43297197 GGTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (23 bp):
TACAGATAATAAAGTTTATTTTC
Found at i:43304729 original size:44 final size:45
Alignment explanation
Indices: 43304664--43304754 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
43304654 ACCTCTATTC
* * *
43304664 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
43304708 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
43304753 CA
1 CA
43304755 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:43308023 original size:39 final size:39
Alignment explanation
Indices: 43307980--43308119 Score: 271
Period size: 39 Copynumber: 3.6 Consensus size: 39
43307970 TTTTCCATTA
*
43307980 TACTATTACACCTCTATTCCATTCAACCAAACACAAGAT
1 TACTATTACGCCTCTATTCCATTCAACCAAACACAAGAT
43308019 TACTATTACGCCTCTATTCCATTCAACCAAACACAAGAT
1 TACTATTACGCCTCTATTCCATTCAACCAAACACAAGAT
43308058 TACTATTACGCCTCTATTCCATTCAACCAAACACAAGAT
1 TACTATTACGCCTCTATTCCATTCAACCAAACACAAGAT
43308097 TACTATTACGCCTCTATTCCATT
1 TACTATTACGCCTCTATTCCATT
43308120 ACATTCAACC
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 100 1.00
ACGTcount: A:0.34, C:0.31, G:0.04, T:0.31
Consensus pattern (39 bp):
TACTATTACGCCTCTATTCCATTCAACCAAACACAAGAT
Found at i:43308169 original size:16 final size:16
Alignment explanation
Indices: 43308148--43308249 Score: 186
Period size: 16 Copynumber: 6.2 Consensus size: 16
43308138 GATTAGCTAT
43308148 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
43308164 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
43308181 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
43308197 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
43308214 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
43308230 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
43308246 TACA
1 TACA
43308250 GCGAACCAAA
Statistics
Matches: 84, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
16 52 0.62
17 32 0.38
ACGTcount: A:0.37, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:43308190 original size:33 final size:33
Alignment explanation
Indices: 43308148--43308249 Score: 197
Period size: 33 Copynumber: 3.1 Consensus size: 33
43308138 GATTAGCTAT
43308148 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCCAA
43308181 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCCAA
43308214 TACACCTCTAATCCAATACACCTCTAAT-CCAA
1 TACACCTCTAATCCAATACACCTCTAATCCCAA
43308246 TACA
1 TACA
43308250 GCGAACCAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
32 8 0.12
33 61 0.88
ACGTcount: A:0.37, C:0.38, G:0.00, T:0.25
Consensus pattern (33 bp):
TACACCTCTAATCCAATACACCTCTAATCCCAA
Found at i:43308230 original size:49 final size:49
Alignment explanation
Indices: 43308148--43308249 Score: 188
Period size: 49 Copynumber: 2.1 Consensus size: 49
43308138 GATTAGCTAT
43308148 TACACCTCTAATCCAATACACCTCTAATCCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCCAATACACCTCTAATCCAA
43308197 TACACCTCTAATCCCAATACACCTCTAAT-CCAATACACCTCTAATCCAA
1 TACACCTCTAAT-CCAATACACCTCTAATCCCAATACACCTCTAATCCAA
43308246 TACA
1 TACA
43308250 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
49 36 0.69
50 16 0.31
ACGTcount: A:0.37, C:0.38, G:0.00, T:0.25
Consensus pattern (49 bp):
TACACCTCTAATCCAATACACCTCTAATCCCAATACACCTCTAATCCAA
Found at i:43309429 original size:7 final size:7
Alignment explanation
Indices: 43309413--43309511 Score: 78
Period size: 7 Copynumber: 13.9 Consensus size: 7
43309403 ATTTAATCTC
*
43309413 TTTAATT
1 TTTAAAT
43309420 TTTAAAT
1 TTTAAAT
*
43309427 TTTAAAA
1 TTTAAAT
43309434 TTTAAA-
1 TTTAAAT
*
43309440 TTTAACT
1 TTTAAAT
*
43309447 ATTAATATT
1 TTTAA-A-T
43309456 TTTAAATT
1 TTTAAA-T
43309464 TTTAAA-
1 TTTAAAT
43309470 TTTAAA-
1 TTTAAAT
*
43309476 TTTAACT
1 TTTAAAT
*
43309483 ATTAATATT
1 TTTAA-A-T
43309492 TTTAAAT
1 TTTAAAT
43309499 TTTAAAT
1 TTTAAAT
43309506 TTTAAA
1 TTTAAA
43309512 ATGTCATATA
Statistics
Matches: 76, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
6 16 0.21
7 40 0.53
8 10 0.13
9 10 0.13
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (7 bp):
TTTAAAT
Found at i:43309444 original size:36 final size:36
Alignment explanation
Indices: 43309417--43309511 Score: 172
Period size: 36 Copynumber: 2.6 Consensus size: 36
43309407 AATCTCTTTA
43309417 ATTTTTAAATTTTAAAATTTAAATTTAACTATTAAT
1 ATTTTTAAATTTTAAAATTTAAATTTAACTATTAAT
*
43309453 ATTTTTAAATTTTTAAATTTAAATTTAACTATTAAT
1 ATTTTTAAATTTTAAAATTTAAATTTAACTATTAAT
*
43309489 ATTTTTAAATTTTAAATTTTAAA
1 ATTTTTAAATTTTAAAATTTAAA
43309512 ATGTCATATA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (36 bp):
ATTTTTAAATTTTAAAATTTAAATTTAACTATTAAT
Found at i:43311245 original size:12 final size:12
Alignment explanation
Indices: 43311228--43311253 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
43311218 AAAACATTTA
43311228 TTATTAATATAT
1 TTATTAATATAT
43311240 TTATTAATATAT
1 TTATTAATATAT
43311252 TT
1 TT
43311254 TAAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATTAATATAT
Found at i:43315977 original size:25 final size:27
Alignment explanation
Indices: 43315940--43315992 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
43315930 TCAAACATGC
43315940 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
43315966 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
43315992 A
1 A
43315993 AAATTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:43320856 original size:12 final size:12
Alignment explanation
Indices: 43320839--43320866 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
43320829 ATTACCTCGA
43320839 CCTCGACCACGG
1 CCTCGACCACGG
43320851 CCTCGACCACGG
1 CCTCGACCACGG
43320863 CCTC
1 CCTC
43320867 TTTCCCGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.54, G:0.21, T:0.11
Consensus pattern (12 bp):
CCTCGACCACGG
Found at i:43324089 original size:26 final size:26
Alignment explanation
Indices: 43324053--43324136 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
43324043 CATGAAATTC
43324053 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
43324079 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
43324105 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
43324131 TTATCA
1 TTATCA
43324137 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:43325131 original size:20 final size:20
Alignment explanation
Indices: 43325106--43325143 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
43325096 ATAATTTCAA
*
43325106 ATATAAAATATTCATTAATT
1 ATATAAAATACTCATTAATT
43325126 ATATAAAATACTCATTAA
1 ATATAAAATACTCATTAA
43325144 CAAAGTCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (20 bp):
ATATAAAATACTCATTAATT
Found at i:43325221 original size:48 final size:47
Alignment explanation
Indices: 43325161--43325258 Score: 178
Period size: 48 Copynumber: 2.1 Consensus size: 47
43325151 CATAAATAGA
*
43325161 AATACACTATTTAATAAATTTAAAATTAACAAGAAAAAAAAGTTGAAC
1 AATACACTATTTAATAAATTCAAAATTAACAAG-AAAAAAAGTTGAAC
43325209 AATACACTATTTAATAAATTCAAAATTAACAAGAAAAAAAGTTGAAC
1 AATACACTATTTAATAAATTCAAAATTAACAAGAAAAAAAGTTGAAC
43325256 AAT
1 AAT
43325259 GAGTGGGTTT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 17 0.35
48 32 0.65
ACGTcount: A:0.58, C:0.09, G:0.06, T:0.27
Consensus pattern (47 bp):
AATACACTATTTAATAAATTCAAAATTAACAAGAAAAAAAGTTGAAC
Found at i:43328097 original size:42 final size:43
Alignment explanation
Indices: 43327989--43328151 Score: 170
Period size: 43 Copynumber: 3.8 Consensus size: 43
43327979 AGCTCGTACA
* * * * *
43327989 ATGCCAACGTCCCAGACGA-GGTCTTACATGTAATTAAATATCG
1 ATGCCAATGTCCCAGAC-ATGGTCTTACACGAAATCATATATCG
* * *
43328032 ATGCCACTGTCCCATACAAGGTCTTACACGAAATCATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCATATATCG
* *
43328074 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATC-TCAAATGG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATCAT-ATATCG
* *
43328118 ATGCCAATGTCCCAAATATGGTCTTACACGAAAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAAT
43328152 TACATACCGG
Statistics
Matches: 102, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
42 31 0.30
43 42 0.41
44 29 0.28
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCATATATCG
Found at i:43328147 original size:86 final size:85
Alignment explanation
Indices: 43327989--43328151 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 85
43327979 AGCTCGTACA
* * *
43327989 ATGCCAACGTCCCAGACGAGGTCTTACATGTAATTAAATATCGATGCCACTGTCCCATACAAGGT
1 ATGCCAACGTCCCAGACGAGGTCTTACACGTAATTAAATATCGATGCCAATGTCCCAAACAAGGT
43328054 CTTACACGAAATCATATACG
66 CTTACACGAAATCATATACG
* * * * *
43328074 ATGCCAATGTCCCAGAC-ATGGTCTTACACGTAAATCTCAA-ATGGATGCCAATGTCCCAAATAT
1 ATGCCAACGTCCCAGACGA-GGTCTTACACGT-AAT-TAAATATCGATGCCAATGTCCCAAACAA
43328137 GGTCTTACACGAAAT
63 GGTCTTACACGAAAT
43328152 TACATACCGG
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
84 1 0.01
85 27 0.40
86 36 0.54
87 3 0.04
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACGAGGTCTTACACGTAATTAAATATCGATGCCAATGTCCCAAACAAGGT
CTTACACGAAATCATATACG
Found at i:43336071 original size:42 final size:42
Alignment explanation
Indices: 43335963--43336088 Score: 155
Period size: 42 Copynumber: 3.0 Consensus size: 42
43335953 AGCTCGTACA
* * *
43335963 ATGCCAATGTCCCAGACGAGGTCTTACATGTAATTAAATATCG
1 ATGCCAATGTCCCAGACGAGGTCTTACACGAAATCAAATA-CG
* * *
43336006 ATGCCACTGTCCAAGA-GAGGGTCTTACACGAAATCATATACG
1 ATGCCAATGTCCCAGACGA-GGTCTTACACGAAATCAAATACG
* *
43336048 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCACATAC
1 ATGCCAATGTCCCAGACGAGGTCTTACACGAAATCAAATAC
43336089 CGGAATCCAT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
42 39 0.55
43 32 0.45
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGAGGTCTTACACGAAATCAAATACG
Found at i:43337382 original size:23 final size:21
Alignment explanation
Indices: 43337320--43337388 Score: 93
Period size: 21 Copynumber: 3.2 Consensus size: 21
43337310 CCTAAAACGT
* *
43337320 CACACGAGGTACCTGATATGA
1 CACACGAGGTGCCTGATACGA
*
43337341 CACACGAGGTGCTTGATACGA
1 CACACGAGGTGCCTGATACGA
43337362 CACACGAGGTGCCTGAAATACGA
1 CACACGAGGTGCCTG--ATACGA
43337385 CACA
1 CACA
43337389 TAAAGTGCCT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 32 0.76
23 10 0.24
ACGTcount: A:0.33, C:0.26, G:0.25, T:0.16
Consensus pattern (21 bp):
CACACGAGGTGCCTGATACGA
Found at i:43337396 original size:23 final size:23
Alignment explanation
Indices: 43337356--43337400 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
43337346 GAGGTGCTTG
* *
43337356 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
43337379 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
43337401 TCGATAAAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:43337742 original size:18 final size:19
Alignment explanation
Indices: 43337716--43337754 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
43337706 TTTCAATTCA
43337716 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
43337735 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
43337753 AT
1 AT
43337755 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:43339080 original size:5 final size:5
Alignment explanation
Indices: 43339070--43339119 Score: 66
Period size: 5 Copynumber: 10.0 Consensus size: 5
43339060 TTACTTATTT
* *
43339070 ATATA ATATA ATATA ATATA CTATA ATATA ATAATA ATTTA ATAT- ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA ATATA
43339120 TTTTAACACA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
4 4 0.10
5 30 0.77
6 5 0.13
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:43341303 original size:29 final size:29
Alignment explanation
Indices: 43341258--43341373 Score: 119
Period size: 29 Copynumber: 4.0 Consensus size: 29
43341248 TACCTGTATC
* *
43341258 TGGCCCATTAAGCCC-AATCATATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* * * *
43341286 TGGCCCCTTTAGGCCCAAATCACCTATAGA
1 TGG-CCCATTAGGCCCAAATCACATTTATA
*
43341316 TGGCCCATTAGACCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* * *
43341345 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
43341373 T
1 T
43341374 TCATGCTTAC
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
28 15 0.21
29 44 0.62
30 12 0.17
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:43341605 original size:16 final size:17
Alignment explanation
Indices: 43341584--43341628 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
43341574 ATAGCCAAAC
43341584 TTTCGGCTTTTCGA-CA
1 TTTCGGCTTTTCGAGCA
43341600 TTTCGGCTTTTC-AGCA
1 TTTCGGCTTTTCGAGCA
*
43341616 TTTCGGCATTTCG
1 TTTCGGCTTTTCG
43341629 GCTTTTGCCG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 1 0.04
16 25 0.96
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (17 bp):
TTTCGGCTTTTCGAGCA
Found at i:43341629 original size:8 final size:8
Alignment explanation
Indices: 43341584--43341630 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
43341574 ATAGCCAAAC
*
43341584 TTTCGGCT
1 TTTCGGCA
*
43341592 TTTCGACA
1 TTTCGGCA
*
43341600 TTTCGGCT
1 TTTCGGCA
*
43341608 TTTCAGCA
1 TTTCGGCA
43341616 TTTCGGCA
1 TTTCGGCA
43341624 TTTCGGC
1 TTTCGGC
43341631 TTTTGCCGAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.11, C:0.26, G:0.21, T:0.43
Consensus pattern (8 bp):
TTTCGGCA
Found at i:43344196 original size:17 final size:18
Alignment explanation
Indices: 43344174--43344213 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
43344164 AGTTCTTTCT
43344174 ATTAAT-ATAGAAATTAA
1 ATTAATAATAGAAATTAA
43344191 ATTAATAATAGAAATTAA
1 ATTAATAATAGAAATTAA
*
43344209 TTTAA
1 ATTAA
43344214 AATCAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
ATTAATAATAGAAATTAA
Found at i:43350714 original size:22 final size:24
Alignment explanation
Indices: 43350674--43350717 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
43350664 AAAAAGCAAA
43350674 AAGAAGAACACAAGAACAAAAACC
1 AAGAAGAACACAAGAACAAAAACC
43350698 AAGAAGAA-AC-AGAACAAAAA
1 AAGAAGAACACAAGAACAAAAA
43350718 ATCACGTGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.50
23 2 0.10
24 8 0.40
ACGTcount: A:0.70, C:0.16, G:0.14, T:0.00
Consensus pattern (24 bp):
AAGAAGAACACAAGAACAAAAACC
Found at i:43355775 original size:40 final size:41
Alignment explanation
Indices: 43355730--43355817 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 41
43355720 GTATAAACTA
*
43355730 TAATTCATTC-A-AATAACTAGTAGTTCATCTGTAT-AACCAG
1 TAATTCATTCAATAATAAC-AGTAATTCATCTGTATCAA-CAG
* *
43355770 TAATTCA-TCAATAATAACAGTAATTTATTTGTATCAACAG
1 TAATTCATTCAATAATAACAGTAATTCATCTGTATCAACAG
43355810 TAATTCAT
1 TAATTCAT
43355818 CCGTATCTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
39 2 0.05
40 31 0.76
41 8 0.20
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.38
Consensus pattern (41 bp):
TAATTCATTCAATAATAACAGTAATTCATCTGTATCAACAG
Found at i:43355818 original size:40 final size:41
Alignment explanation
Indices: 43355741--43355818 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 41
43355731 AATTCATTCA
*
43355741 AATAACTAGTAGTTCATCTGTATAACCAGTAATTCATCAAT
1 AATAACTAGTAATTCATCTGTATAACCAGTAATTCATCAAT
* *
43355782 AATAAC-AGTAATTTATTTGTATCAA-CAGTAATTCATC
1 AATAACTAGTAATTCATCTGTAT-AACCAGTAATTCATC
43355819 CGTATCTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 25 0.76
41 8 0.24
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (41 bp):
AATAACTAGTAATTCATCTGTATAACCAGTAATTCATCAAT
Found at i:43355823 original size:20 final size:19
Alignment explanation
Indices: 43355742--43355837 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 19
43355732 ATTCATTCAA
*
43355742 ATAACTAGTAGTTCATCTGT
1 ATAAC-AGTAATTCATCTGT
**
43355762 ATAACCAGTAATTCATCAAT
1 ATAA-CAGTAATTCATCTGT
* *
43355782 AATAACAGTAATTTATTTGT
1 -ATAACAGTAATTCATCTGT
*
43355802 ATCAACAGTAATTCATCCGT
1 AT-AACAGTAATTCATCTGT
* *
43355822 ATCTATAGTAATTCAT
1 AT-AACAGTAATTCAT
43355838 TCATTTCAAC
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
19 2 0.03
20 54 0.89
21 5 0.08
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
ATAACAGTAATTCATCTGT
Found at i:43356034 original size:25 final size:24
Alignment explanation
Indices: 43356003--43356117 Score: 87
Period size: 23 Copynumber: 4.9 Consensus size: 24
43355993 AAGCTCCTTC
*
43356003 TGAGCTGATAAACAGTAAGCTTTAT
1 TGAGCTGA-AAACAGTAAGCTCTAT
*
43356028 TGAGCTG-AAACGGTAAGCTCTAT
1 TGAGCTGAAAACAGTAAGCTCTAT
*
43356051 CGAGCTG--AACAGTAAGCTC-AT
1 TGAGCTGAAAACAGTAAGCTCTAT
* * * * *
43356072 ACGAGCT-AAATCGGTAAGCTCCAA
1 -TGAGCTGAAAACAGTAAGCTCTAT
* *
43356096 TGAGCTAAAAATAGTAAGCTCT
1 TGAGCTGAAAACAGTAAGCTCT
43356118 TAGTAGCTAA
Statistics
Matches: 73, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
21 2 0.03
22 17 0.23
23 35 0.48
24 12 0.16
25 7 0.10
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (24 bp):
TGAGCTGAAAACAGTAAGCTCTAT
Found at i:43378248 original size:22 final size:21
Alignment explanation
Indices: 43378196--43378252 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
43378186 TTAATTTTTT
*
43378196 AAAAT-TAAAAA-A-TTCAAA
1 AAAATATAAAAATATTTCTAA
*
43378214 AAAATATATAAATCATTTCTAA
1 AAAATATAAAAAT-ATTTCTAA
*
43378236 AAAATTTAAAAATATTT
1 AAAATATAAAAATATTT
43378253 TTGGATTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
18 5 0.16
19 5 0.16
21 5 0.16
22 16 0.52
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATATAAAAATATTTCTAA
Found at i:43378726 original size:3 final size:3
Alignment explanation
Indices: 43378718--43378769 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
43378708 ATATATTTCT
* * * * * *
43378718 TCA TCA TCA TCA TGA TAA TCA TCA TCA CCA TCA CCA TCA CCT TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
43378766 TCA T
1 TCA T
43378770 ATTATTATTA
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.33, C:0.35, G:0.02, T:0.31
Consensus pattern (3 bp):
TCA
Found at i:43378775 original size:3 final size:3
Alignment explanation
Indices: 43378769--43378800 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
43378759 TTCATCATCA
43378769 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
43378801 CTTTTTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:43379868 original size:43 final size:42
Alignment explanation
Indices: 43379789--43379886 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 42
43379779 TTAATTAATA
* * *
43379789 TAATAATAAATTTAATTTTTAATATTTTACATTTTATCAATT
1 TAATAATAAATTTAATCTCTAATATTTTACATTTTATCAATC
*
43379831 TAATCAATAAATTTAA-CTCTACATATTTATACA-TTTATTAATC
1 TAAT-AATAAATTTAATCTCTA-ATATTT-TACATTTTATCAATC
43379874 TAAT-ATCAAATTT
1 TAATAAT-AAATTT
43379887 GCAGATTCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
41 2 0.04
42 13 0.27
43 29 0.60
44 4 0.08
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (42 bp):
TAATAATAAATTTAATCTCTAATATTTTACATTTTATCAATC
Found at i:43380448 original size:23 final size:24
Alignment explanation
Indices: 43380422--43380471 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 24
43380412 AATTGGACTT
* *
43380422 AAATTTTTAAATTTATAAAG-TAA
1 AAATTATTAAATTCATAAAGATAA
*
43380445 AAA-TATTAAATTCCTAAAGATAA
1 AAATTATTAAATTCATAAAGATAA
43380468 AAAT
1 AAAT
43380472 AATAAACTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (24 bp):
AAATTATTAAATTCATAAAGATAA
Found at i:43380453 original size:22 final size:23
Alignment explanation
Indices: 43380428--43380477 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
43380418 ACTTAAATTT
*
43380428 TTAAATTTATAAAG-TAAAAATA
1 TTAAATTCATAAAGATAAAAATA
*
43380450 TTAAATTCCTAAAGATAAAAATA
1 TTAAATTCATAAAGATAAAAATA
*
43380473 ATAAA
1 TTAAA
43380478 CTAAATTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (23 bp):
TTAAATTCATAAAGATAAAAATA
Found at i:43381387 original size:8 final size:7
Alignment explanation
Indices: 43381364--43381397 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
43381354 TTTTATAAAA
*
43381364 AAAAATA
1 AAAAATT
43381371 AAAAATT
1 AAAAATT
43381378 AAAAAGTT
1 AAAAA-TT
43381386 AAAAATT
1 AAAAATT
43381393 AAAAA
1 AAAAA
43381398 CTTTTAACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (7 bp):
AAAAATT
Found at i:43381668 original size:20 final size:19
Alignment explanation
Indices: 43381639--43381678 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
43381629 TATTATAATT
43381639 TTTCTATTTTTAATTTAAA
1 TTTCTATTTTTAATTTAAA
43381658 TTTCATATTTTTAATTTAAA
1 TTTC-TATTTTTAATTTAAA
43381678 T
1 T
43381679 AAATCTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTCTATTTTTAATTTAAA
Found at i:43383738 original size:71 final size:71
Alignment explanation
Indices: 43383622--43383763 Score: 257
Period size: 71 Copynumber: 2.0 Consensus size: 71
43383612 TTATTTATTT
* *
43383622 TTTGAAAAAATAATTTTTATGTTCGAATTATGTTTGACATAAGAGTTAACAATATTGAGAGAGAG
1 TTTGAAAAAATAATTCTTATGTTCAAATTATGTTTGACATAAGAGTTAACAATATTGAGAGAGAG
43383687 AAAGAG
66 AAAGAG
43383693 TTTGAAAAAATAATTCTTATGTTCAAATTATGTTTGACATAAGAGTTAACAATATTGAGAGAGAG
1 TTTGAAAAAATAATTCTTATGTTCAAATTATGTTTGACATAAGAGTTAACAATATTGAGAGAGAG
*
43383758 AGAGAG
66 AAAGAG
43383764 AGAGAGAGAG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (71 bp):
TTTGAAAAAATAATTCTTATGTTCAAATTATGTTTGACATAAGAGTTAACAATATTGAGAGAGAG
AAAGAG
Found at i:43383756 original size:2 final size:2
Alignment explanation
Indices: 43383749--43383779 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
43383739 TAACAATATT
43383749 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
43383780 GTGAATGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:43383909 original size:114 final size:114
Alignment explanation
Indices: 43383785--43384010 Score: 443
Period size: 114 Copynumber: 2.0 Consensus size: 114
43383775 GAGAGGTGAA
43383785 TGAGTGAGAGTGCAAAGAGAAACGGTAAGAAGATATTAGAACATAAATTTGGAAGAGATATTGGA
1 TGAGTGAGAGTGCAAAGAGAAACGGTAAGAAGATATTAGAACATAAATTTGGAAGAGATATTGGA
43383850 AGCATAAGTTAATTTTGGTCATGGTACTACGAAATGAAATCCTAGAGAG
66 AGCATAAGTTAATTTTGGTCATGGTACTACGAAATGAAATCCTAGAGAG
*
43383899 TGAGTGAGAGTGCAAAGAGAAACGGTAAGAAGATATTGGAACATAAATTTGGAAGAGATATTGGA
1 TGAGTGAGAGTGCAAAGAGAAACGGTAAGAAGATATTAGAACATAAATTTGGAAGAGATATTGGA
43383964 AGCATAAGTTAATTTTGGTCATGGTACTACGAAATGAAATCCTAGAG
66 AGCATAAGTTAATTTTGGTCATGGTACTACGAAATGAAATCCTAGAG
43384011 TGGCGCCATA
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 111 1.00
ACGTcount: A:0.41, C:0.08, G:0.27, T:0.25
Consensus pattern (114 bp):
TGAGTGAGAGTGCAAAGAGAAACGGTAAGAAGATATTAGAACATAAATTTGGAAGAGATATTGGA
AGCATAAGTTAATTTTGGTCATGGTACTACGAAATGAAATCCTAGAGAG
Found at i:43386430 original size:20 final size:22
Alignment explanation
Indices: 43386396--43386440 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
43386386 CAATTGCATA
*
43386396 TATAATAGTTATAAA-A-TTGT
1 TATAATAATTATAAATAGTTGT
*
43386416 TATAATAATTGTAAATAGTTGT
1 TATAATAATTATAAATAGTTGT
43386438 TAT
1 TAT
43386441 CTAAAACATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 1 0.05
22 7 0.33
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (22 bp):
TATAATAATTATAAATAGTTGT
Found at i:43391757 original size:5 final size:5
Alignment explanation
Indices: 43391747--43391786 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
43391737 ATAAAATATA
43391747 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
43391787 TATAATTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:43391864 original size:21 final size:19
Alignment explanation
Indices: 43391824--43391871 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
43391814 TAGAAACGGG
*
43391824 AAAGAAACAAAGAAACGAA
1 AAAGAAAGAAAGAAACGAA
43391843 ATAGAGAAAGAATAGAAA-GAA
1 A-A-AGAAAGAA-AGAAACGAA
43391864 AAAGAAAG
1 AAAGAAAG
43391872 GAGAAAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 7 0.28
20 2 0.08
21 11 0.44
22 5 0.20
ACGTcount: A:0.71, C:0.04, G:0.21, T:0.04
Consensus pattern (19 bp):
AAAGAAAGAAAGAAACGAA
Found at i:43391885 original size:26 final size:27
Alignment explanation
Indices: 43391801--43391885 Score: 79
Period size: 26 Copynumber: 3.3 Consensus size: 27
43391791 ATTAAAGAAT
*
43391801 AAAAGAAATAAAATAGAAACGG-GAAAG
1 AAAAGAAAGAAAA-AGAAACGGAGAAAG
* * **
43391828 -AAACAAAG-AAACGAAATAGAGAAAG
1 AAAAGAAAGAAAAAGAAACGGAGAAAG
*
43391853 AATAGAAAGAAAAAGAAA-GGAGAAAG
1 AAAAGAAAGAAAAAGAAACGGAGAAAG
43391879 AAAAGAA
1 AAAAGAA
43391886 GGAGAATTAG
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
24 5 0.11
25 8 0.18
26 25 0.56
27 7 0.16
ACGTcount: A:0.69, C:0.04, G:0.22, T:0.05
Consensus pattern (27 bp):
AAAAGAAAGAAAAAGAAACGGAGAAAG
Found at i:43391887 original size:15 final size:17
Alignment explanation
Indices: 43391856--43391891 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
43391846 GAGAAAGAAT
43391856 AGAAAGAAAAAGAAAGG
1 AGAAAGAAAAAGAAAGG
43391873 AGAAAG-AAAAG-AAGG
1 AGAAAGAAAAAGAAAGG
43391888 AGAA
1 AGAA
43391892 TTAGGGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.42
16 5 0.26
17 6 0.32
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAAAGAAAGG
Found at i:43393044 original size:20 final size:20
Alignment explanation
Indices: 43393007--43393045 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
43392997 AATAGGTTCA
*
43393007 TGAAATGATTATTGTTGTAG
1 TGAAATGATTATTATTGTAG
43393027 TGAAATGA-TATGTATTGTA
1 TGAAATGATTAT-TATTGTA
43393046 ACACCCCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.44
Consensus pattern (20 bp):
TGAAATGATTATTATTGTAG
Found at i:43394755 original size:40 final size:40
Alignment explanation
Indices: 43394559--43394743 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
43394549 ATTCTCACAT
* * * *
43394559 ACTAAATGCCAATACATAGCCGAAGCTATTTTAATCTCA-CAC
1 ACTAAGTGCC-ATACATAGCCGAAGCTATCTCAA-AT-AGCAC
* *
43394601 ACTAAGTGCCATACATAGCCGAAGCTATCTCGAATTGCAC
1 ACTAAGTGCCATACATAGCCGAAGCTATCTCAAATAGCAC
* *
43394641 ACTAAGTGTCATACCTAGCCGAAGCTATCTCAAATAGCAC
1 ACTAAGTGCCATACATAGCCGAAGCTATCTCAAATAGCAC
* *
43394681 ACTAAGTGCCATACATGGCCGAAGCTATCTCAAATCGCAC
1 ACTAAGTGCCATACATAGCCGAAGCTATCTCAAATAGCAC
* *
43394721 ACTAAGTGTCATACATAGTCGAA
1 ACTAAGTGCCATACATAGCCGAA
43394744 TTGTCGTCAA
Statistics
Matches: 125, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
40 96 0.77
41 20 0.16
42 9 0.07
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.23
Consensus pattern (40 bp):
ACTAAGTGCCATACATAGCCGAAGCTATCTCAAATAGCAC
Found at i:43394756 original size:80 final size:80
Alignment explanation
Indices: 43394570--43394743 Score: 251
Period size: 80 Copynumber: 2.2 Consensus size: 80
43394560 CTAAATGCCA
* * * *
43394570 ATACATAGCCGAAGCTATTTTAATCTCA-CACACTAAGTGCCATACATAGCCGAAGCTATCTCGA
1 ATACATAGCCGAAGCTATCTCAA-AT-AGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAA
*
43394634 ATTGCACACTAAGTGTC
64 ATCGCACACTAAGTGTC
* *
43394651 ATACCTAGCCGAAGCTATCTCAAATAGCACACTAAGTGCCATACATGGCCGAAGCTATCTCAAAT
1 ATACATAGCCGAAGCTATCTCAAATAGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAAT
43394716 CGCACACTAAGTGTC
66 CGCACACTAAGTGTC
*
43394731 ATACATAGTCGAA
1 ATACATAGCCGAA
43394744 TTGTCGTCAA
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
79 1 0.01
80 62 0.75
81 20 0.24
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (80 bp):
ATACATAGCCGAAGCTATCTCAAATAGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAAT
CGCACACTAAGTGTC
Found at i:43400710 original size:22 final size:22
Alignment explanation
Indices: 43400677--43400743 Score: 64
Period size: 24 Copynumber: 3.0 Consensus size: 22
43400667 TTATCGATTC
43400677 AGCTCGAA-AGAGCTTACTGTTA
1 AGCTC-AATAGAGCTTACTGTTA
* *
43400699 AGCTCAATAGAGCTTACCGTTTTC
1 AGCTCAATAGAGCTTA-C-TGTTA
* *
43400723 AGCTTAATAAAGCTTACTGTT
1 AGCTCAATAGAGCTTACTGTT
43400744 TATCAGCTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
21 2 0.05
22 16 0.43
23 2 0.05
24 17 0.46
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (22 bp):
AGCTCAATAGAGCTTACTGTTA
Found at i:43400731 original size:24 final size:25
Alignment explanation
Indices: 43400699--43400767 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 25
43400689 CTTACTGTTA
*
43400699 AGCTCAATAGAGCTTACCGTTT-TC
1 AGCTCAATAAAGCTTACCGTTTATC
* *
43400723 AGCTTAATAAAGCTTACTGTTTATC
1 AGCTCAATAAAGCTTACCGTTTATC
43400748 AGCTC-ATGAAGAGCTTACCG
1 AGCTCAAT-AA-AGCTTACCG
43400768 ACCATGTCTC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 21 0.57
25 8 0.22
26 8 0.22
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (25 bp):
AGCTCAATAAAGCTTACCGTTTATC
Found at i:43405591 original size:40 final size:40
Alignment explanation
Indices: 43405493--43405677 Score: 246
Period size: 40 Copynumber: 4.6 Consensus size: 40
43405483 CGAATTCTCA
* ** *
43405493 CACACTAAGTGCCAATACATAGCCGAAGCTAT-TTTAATCT
1 CACACTAAGTGCC-ATACATAGCCAAAGCTATCTCGAATCG
*
43405533 CATACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATCG
1 C--ACACTAAGTGCCATACATAGCCAAAGCTATCTCGAATCG
* *
43405575 CACACTAAGTGCCATACCTAGCCGAAGCTATCTCGAATCG
1 CACACTAAGTGCCATACATAGCCAAAGCTATCTCGAATCG
*
43405615 CACACTAAGTGCCATACATAGTCAAAGCTATCTCGAATCG
1 CACACTAAGTGCCATACATAGCCAAAGCTATCTCGAATCG
* *
43405655 TACATTAAGTGCCATACATAGCC
1 CACACTAAGTGCCATACATAGCC
43405678 GAATTTTCGT
Statistics
Matches: 129, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
40 94 0.73
41 17 0.13
42 18 0.14
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCAAAGCTATCTCGAATCG
Found at i:43406917 original size:16 final size:16
Alignment explanation
Indices: 43406879--43406917 Score: 55
Period size: 14 Copynumber: 2.5 Consensus size: 16
43406869 TAAGAGATAA
43406879 GAATTGATAGTGTTAT
1 GAATTGATAGTGTTAT
43406895 GAA-TGATA-TGTTAT
1 GAATTGATAGTGTTAT
43406909 GAAATTGAT
1 G-AATTGAT
43406918 TATTTGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
15 7 0.33
16 7 0.33
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (16 bp):
GAATTGATAGTGTTAT
Found at i:43413659 original size:62 final size:62
Alignment explanation
Indices: 43413586--43413702 Score: 234
Period size: 62 Copynumber: 1.9 Consensus size: 62
43413576 GTTTGAAATA
43413586 TTACGTTTTAATCATTTACATTATCGTTTTGTTACAAAGTAGTCACTCTACTCAGAAGTATG
1 TTACGTTTTAATCATTTACATTATCGTTTTGTTACAAAGTAGTCACTCTACTCAGAAGTATG
43413648 TTACGTTTTAATCATTTACATTATCGTTTTGTTACAAAGTAGTCACTCTACTCAG
1 TTACGTTTTAATCATTTACATTATCGTTTTGTTACAAAGTAGTCACTCTACTCAG
43413703 TTACCTCTCT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (62 bp):
TTACGTTTTAATCATTTACATTATCGTTTTGTTACAAAGTAGTCACTCTACTCAGAAGTATG
Found at i:43414046 original size:22 final size:22
Alignment explanation
Indices: 43414013--43414066 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
43414003 TATTTTTATA
43414013 GTTTCCCCTTACTTTTCTCCACG
1 GTTT-CCCTTACTTTTCTCCACG
*
43414036 GTTTCCCTTACTTTTCTCCATG
1 GTTTCCCTTACTTTTCTCCACG
43414058 GTTTCCCTT
1 GTTTCCCTT
43414067 TGTAGTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.07, C:0.35, G:0.09, T:0.48
Consensus pattern (22 bp):
GTTTCCCTTACTTTTCTCCACG
Found at i:43414846 original size:10 final size:10
Alignment explanation
Indices: 43414820--43414873 Score: 60
Period size: 9 Copynumber: 5.5 Consensus size: 10
43414810 TTTGAATGTT
43414820 ATTTTTAATA
1 ATTTTTAATA
43414830 TATTTTTTAATA
1 -A-TTTTTAATA
43414842 A-TTTTAATA
1 ATTTTTAATA
43414851 ATTTTT-AT-
1 ATTTTTAATA
*
43414859 ATTTTTTATA
1 ATTTTTAATA
43414869 ATTTT
1 ATTTT
43414874 GTATAGGTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
8 6 0.15
9 13 0.33
10 9 0.23
11 2 0.05
12 9 0.23
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:43415259 original size:14 final size:14
Alignment explanation
Indices: 43415240--43415268 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
43415230 TTCAAAGAAG
43415240 AAATGCAATCCGGC
1 AAATGCAATCCGGC
43415254 AAATGCAATCCGGC
1 AAATGCAATCCGGC
43415268 A
1 A
43415269 GGGGCAATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.28, G:0.21, T:0.14
Consensus pattern (14 bp):
AAATGCAATCCGGC
Found at i:43416577 original size:10 final size:10
Alignment explanation
Indices: 43416564--43416591 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
43416554 TTTTATAAAA
43416564 AAATATTTTT
1 AAATATTTTT
43416574 AAATATTTTT
1 AAATATTTTT
43416584 AAATATTT
1 AAATATTT
43416592 ATTTTATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
AAATATTTTT
Found at i:43416594 original size:24 final size:23
Alignment explanation
Indices: 43416533--43416596 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
43416523 TTTTTCAAAA
43416533 TTTAAAT-TATATATTTTAAAATT
1 TTTAAATATATAT-TTTTAAAATT
* *
43416556 TTATAAAAAAATATTTTTAAATATT
1 TT-TAAATATATATTTTTAAA-ATT
*
43416581 TTTAAATATTTATTTT
1 TTTAAATATATATTTT
43416597 ATCAATATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
23 2 0.06
24 22 0.67
25 9 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTAAATATATATTTTTAAAATT
Found at i:43416972 original size:28 final size:28
Alignment explanation
Indices: 43416936--43416996 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
43416926 TGTAATGAAA
*
43416936 TAAATTCTTTAGAATTGTATGTTAAAGT
1 TAAAATCTTTAGAATTGTATGTTAAAGT
43416964 TAAAATCTTTAGAATTGTATGTTAAAGT
1 TAAAATCTTTAGAATTGTATGTTAAAGT
43416992 TAAAA
1 TAAAA
43416997 GTGAGAGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.43
Consensus pattern (28 bp):
TAAAATCTTTAGAATTGTATGTTAAAGT
Found at i:43420429 original size:27 final size:27
Alignment explanation
Indices: 43420373--43420446 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
43420363 GCAGTTGGCC
* *
43420373 CTTTGGATCATCATTCTCCACCTCAGG
1 CTTTGGATCATCACTCTCCAACTCAGG
* * *
43420400 CTTTGGATCATCAGTCTCGAACT-GGAG
1 CTTTGGATCATCACTCTCCAACTCAG-G
* *
43420427 CTTAGGATCCTCACTCTCCA
1 CTTTGGATCATCACTCTCCA
43420447 CTTTGATATC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
26 1 0.03
27 37 0.97
ACGTcount: A:0.20, C:0.31, G:0.18, T:0.31
Consensus pattern (27 bp):
CTTTGGATCATCACTCTCCAACTCAGG
Found at i:43422250 original size:9 final size:9
Alignment explanation
Indices: 43422232--43422261 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
43422222 GAACATTATC
43422232 AATATTTAA
1 AATATTTAA
*
43422241 AATATGTAA
1 AATATTTAA
43422250 AATATTTAA
1 AATATTTAA
43422259 AAT
1 AAT
43422262 GACATTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (9 bp):
AATATTTAA
Found at i:43425880 original size:27 final size:27
Alignment explanation
Indices: 43425850--43425964 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 27
43425840 GCAGCTGGCC
* * *
43425850 CTTTGGATCATCATTCTCCCCCTCAGG
1 CTTTGGACCCTCATTCTCCACCTCAGG
* * *
43425877 CTTTAGACCCTCACTCTCCACCTCGGG
1 CTTTGGACCCTCATTCTCCACCTCAGG
* * *
43425904 CTTTGAACCCTCATTTTCCAACTCAGG
1 CTTTGGACCCTCATTCTCCACCTCAGG
*
43425931 CTTTGGACCCTCATTCTCCAACCT-GGG
1 CTTTGGACCCTCATTCTCC-ACCTCAGG
43425958 CTTTGGA
1 CTTTGGA
43425965 TCATCAGTCT
Statistics
Matches: 71, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
27 68 0.96
28 3 0.04
ACGTcount: A:0.17, C:0.37, G:0.16, T:0.31
Consensus pattern (27 bp):
CTTTGGACCCTCATTCTCCACCTCAGG
Found at i:43425918 original size:54 final size:54
Alignment explanation
Indices: 43425860--43425962 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
43425850 CTTTGGATCA
**
43425860 TCATTCTCCCCCTCAGGCTTTAGACCCTCACTCTCC-ACCTCGGGCTTTGAACCC
1 TCATTCTCCAACTCAGGCTTTAGACCCTCACTCTCCAACCT-GGGCTTTGAACCC
* * *
43425914 TCATTTTCCAACTCAGGCTTTGGACCCTCATTCTCCAACCTGGGCTTTG
1 TCATTCTCCAACTCAGGCTTTAGACCCTCACTCTCCAACCTGGGCTTTG
43425963 GATCATCAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
54 39 0.91
55 4 0.09
ACGTcount: A:0.16, C:0.39, G:0.15, T:0.31
Consensus pattern (54 bp):
TCATTCTCCAACTCAGGCTTTAGACCCTCACTCTCCAACCTGGGCTTTGAACCC
Found at i:43429073 original size:27 final size:26
Alignment explanation
Indices: 43429026--43429077 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
43429016 GGTAAGCATT
*
43429026 AATTAAAAATAAATCGGTAAAATTATA
1 AATTAAAAATAAATCAGT-AAATTATA
*
43429053 AATTATAAAAT-AATCATTAAATTAT
1 AATTA-AAAATAAATCAGTAAATTAT
43429078 TTTAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 7 0.32
27 10 0.45
28 5 0.23
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (26 bp):
AATTAAAAATAAATCAGTAAATTATA
Found at i:43433250 original size:14 final size:14
Alignment explanation
Indices: 43433219--43433252 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
43433209 TAATAAACTG
* *
43433219 AAAATTTAAGTGTT
1 AAAATTTAAGTATC
43433233 AAAATTTAAGTATC
1 AAAATTTAAGTATC
43433247 AAAATT
1 AAAATT
43433253 GTTTTATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (14 bp):
AAAATTTAAGTATC
Found at i:43434840 original size:39 final size:35
Alignment explanation
Indices: 43434793--43434870 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 35
43434783 TTGAAAAGTA
*
43434793 TTTATATTAAAAAAACACTACTATAAATATAATAATTTT
1 TTTATATT-AAAAAACA-TA-AATAAATATAAT-ATTTT
*
43434832 TTTATATTAAAATACATAAATAAATATAATATTTT
1 TTTATATTAAAAAACATAAATAAATATAATATTTT
43434867 TTTA
1 TTTA
43434871 CTGTATTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
35 9 0.24
36 11 0.30
37 2 0.05
38 7 0.19
39 8 0.22
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (35 bp):
TTTATATTAAAAAACATAAATAAATATAATATTTT
Found at i:43435030 original size:29 final size:30
Alignment explanation
Indices: 43434986--43435045 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
43434976 TAGTGATTTA
*
43434986 ATATAAATATATATAAT-TTTTATTTAACAT
1 ATATAAATATATATAATATTTT-TATAACAT
*
43435016 ATATAATTA-ATATAATATTTTTATAACAT
1 ATATAAATATATATAATATTTTTATAACAT
43435045 A
1 A
43435046 ATATTCTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (30 bp):
ATATAAATATATATAATATTTTTATAACAT
Found at i:43438019 original size:30 final size:33
Alignment explanation
Indices: 43437962--43438024 Score: 78
Period size: 34 Copynumber: 2.0 Consensus size: 33
43437952 AAATCAACAA
*
43437962 CTAAATTAAATAAATTGGAAAATATGTCTAAAGG
1 CTAAATTAAATAAATTGG-AAATATGTCAAAAGG
*
43437996 CTAAATTGAATAAATT-G-AA-ATGTCAAAAG
1 CTAAATTAAATAAATTGGAAATATGTCAAAAG
43438025 CCATGATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 9 0.33
31 2 0.07
33 1 0.04
34 15 0.56
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (33 bp):
CTAAATTAAATAAATTGGAAATATGTCAAAAGG
Found at i:43438909 original size:149 final size:144
Alignment explanation
Indices: 43438643--43438911 Score: 342
Period size: 144 Copynumber: 1.8 Consensus size: 144
43438633 AGTTAAATTA
* *
43438643 AATTATTTTAAATTAACCCCATAATTAATTGAATATAACCTAATTAGTGTTAATTATACTAGAAC
1 AATTATTTTAAATTAACCCCATAATTAATTCAATATAACCTAATTAGTGTTAATTATACAAGAAC
* * * *
43438708 TAAAAACTAAAATGAAACTAATCTAAATTATGTTTCCCTTCGAATAAACCTTAACTTTATTCTAA
66 CAAAAACTAAAATGAAACTAATCTAAATCATATTTCCCTTAGAATAAACCTTAACTTTATTCTAA
43438773 GATCCAACTACATC
131 GATCCAACTACATC
* ** *
43438787 AATTATTTTAACTTAAGTCCATAATTAATTCAATCTAACCTAATTAGTGTTAATTGGATTTTACA
1 AATTATTTTAAATTAACCCCATAATTAATTCAATATAACCTAATTAGTGTTAATT--A---TACA
* * * * *
43438852 AGACCCAAAAACTAACATTAGACTAATCTAAATCCTATTT-CCTATAGAATAAACCTTAAC
61 AGAACCAAAAACTAAAATGAAACTAATCTAAATCATATTTCCCT-TAGAATAAACCTTAAC
43438912 AATATAATTA
Statistics
Matches: 104, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
144 50 0.48
146 1 0.01
148 3 0.03
149 50 0.48
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (144 bp):
AATTATTTTAAATTAACCCCATAATTAATTCAATATAACCTAATTAGTGTTAATTATACAAGAAC
CAAAAACTAAAATGAAACTAATCTAAATCATATTTCCCTTAGAATAAACCTTAACTTTATTCTAA
GATCCAACTACATC
Found at i:43441719 original size:44 final size:44
Alignment explanation
Indices: 43441669--43441916 Score: 149
Period size: 44 Copynumber: 5.5 Consensus size: 44
43441659 ATCCACTTCG
* * * * ** *
43441669 CTGCAACTTTAGGGAGATAAAACTTGTAGCTTTAATTTGCTCCA
1 CTGCAACTTCAGGGAGATAAAACTCGTAACTTCAACCTACTCCA
*
43441713 CTGCAACTTCAGGGAGATAAGACTCGTAACTTCAACCTACTCCA
1 CTGCAACTTCAGGGAGATAAAACTCGTAACTTCAACCTACTCCA
* * * *
43441757 CTGCAACTTCAGGGAGATAAGGTTTGTAATTTGTAGCTTCAATCC-GCTCCA
1 CTGCAACTTCAGGGAGATAA-------AACTCGTAACTTCAA-CCTACTCCA
* * * * * ** * *
43441808 CTGCAACTTTAGGAAAATAAGA-TGCGTTATCTTCAGTCTGCTCTA
1 CTGCAACTTCAGGGAGATAAAACT-CG-TAACTTCAACCTACTCCA
** * * *
43441853 CTGCAACTTCAGGGAGATAGGACTCGTAACTTCACCCTGCCCCA
1 CTGCAACTTCAGGGAGATAAAACTCGTAACTTCAACCTACTCCA
*
43441897 CTGCAACTTCAGGGGGATAA
1 CTGCAACTTCAGGGAGATAA
43441917 GGTTGATAGC
Statistics
Matches: 159, Mismatches: 33, Indels: 24
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 90 0.57
45 32 0.20
46 1 0.01
51 33 0.21
52 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAAACTCGTAACTTCAACCTACTCCA
Found at i:43441828 original size:95 final size:96
Alignment explanation
Indices: 43441692--43441871 Score: 238
Period size: 95 Copynumber: 1.9 Consensus size: 96
43441682 GAGATAAAAC
* ** * *
43441692 TTGTAGCTTTAATTTGCTCCACTGCAACTTCAGGGAGATAAGACT-CG-TAACTTCAACCTACTC
1 TTGTAGCTTCAATCCGCTCCACTGCAACTTCAGGAAAATAAGA-TGCGTTAACTTCAACCTACTC
43441755 CACTGCAACTTCAGGGAGATAAGGTTTGTAAT
65 CACTGCAACTTCAGGGAGATAAGGTTTGTAAT
* * ** * *
43441787 TTGTAGCTTCAATCCGCTCCACTGCAACTTTAGGAAAATAAGATGCGTTATCTTCAGTCTGCTCT
1 TTGTAGCTTCAATCCGCTCCACTGCAACTTCAGGAAAATAAGATGCGTTAACTTCAACCTACTCC
43441852 ACTGCAACTTCAGGGAGATA
66 ACTGCAACTTCAGGGAGATA
43441872 GGACTCGTAA
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
94 1 0.01
95 39 0.54
96 32 0.44
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (96 bp):
TTGTAGCTTCAATCCGCTCCACTGCAACTTCAGGAAAATAAGATGCGTTAACTTCAACCTACTCC
ACTGCAACTTCAGGGAGATAAGGTTTGTAAT
Found at i:43441996 original size:45 final size:44
Alignment explanation
Indices: 43441785--43441998 Score: 137
Period size: 45 Copynumber: 4.8 Consensus size: 44
43441775 AAGGTTTGTA
*
43441785 ATTTGTAGCTTCAATCCGCTCCACTGCAACTTTAGGAAA-ATAAG
1 ATTTGTAGCTTCAATCCGCTCCACTGCAACTTCA-GAAAGATAAG
** * * * * ** *
43441829 ATGCGTTATCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAGG
1 ATTTG-TAGCTTCAATCCGCTCCACTGCAACTTCAGAAAGATAAG
* * * * * ***
43441874 ACTCGTAACTTC-ACCCTGCCCCACTGCAACTTCAGGGGGATAAG
1 ATTTGTAGCTTCAATCC-GCTCCACTGCAACTTCAGAAAGATAAG
* * ** * *
43441918 -GTTGATAGCTTTAATCTACTCTACTGTAACTTCAGAAAGATAAG
1 ATTTG-TAGCTTCAATCCGCTCCACTGCAACTTCAGAAAGATAAG
*
43441962 ATTTGCTATCTTCAATCCGCTCCACTGCAACTTCAGA
1 ATTTG-TAGCTTCAATCCGCTCCACTGCAACTTCAGA
43441999 GAGACAGGAC
Statistics
Matches: 123, Mismatches: 41, Indels: 11
0.70 0.23 0.06
Matches are distributed among these distances:
43 3 0.02
44 59 0.48
45 61 0.50
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
ATTTGTAGCTTCAATCCGCTCCACTGCAACTTCAGAAAGATAAG
Found at i:43442011 original size:133 final size:136
Alignment explanation
Indices: 43441707--43442027 Score: 398
Period size: 133 Copynumber: 2.4 Consensus size: 136
43441697 GCTTTAATTT
* * * *
43441707 GCTCCACTGCAACTTCAGGGAGATAAGACTCGTAACTTCAACCTACTCCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGACTCGTAACTTCACCCTGCCCCACTGCAACTTCAGGGA
* * *
43441772 GATAAGGTTTGTAATTTGTAGCTTCAATCCGCTCCACTGCAACTTTAGGAAAATAAGATGCGTTA
66 GATAAGGTTTG-AA--T-TAGCTTCAATCCACTCCACTGCAACTTCAGGAAAATAAGATGCGCTA
* *
43441837 TCTTCAGTCT
127 TCTTCAATCC
* *
43441847 GCTCTACTGCAACTTCAGGGAGATAGGACTCGTAACTTCACCCTGCCCCACTGCAACTTCAGGGG
1 GCTCCACTGCAACTTCAGGGAGATAGGACTCGTAACTTCACCCTGCCCCACTGCAACTTCAGGGA
* * * * **
43441912 GATAAGG-TTG-A-TAGCTTTAATCTACTCTACTGTAACTTCA-GAAAGATAAGATTTGCTATCT
66 GATAAGGTTTGAATTAGCTTCAATCCACTCCACTGCAACTTCAGGAAA-ATAAGATGCGCTATCT
43441973 TCAATCC
130 TCAATCC
* *
43441980 GCTCCACTGCAACTTCAGAGAGACAGGACTCGTAACTTCACCCTGCCC
1 GCTCCACTGCAACTTCAGGGAGATAGGACTCGTAACTTCACCCTGCCC
43442028 TTGTGACAGC
Statistics
Matches: 160, Mismatches: 20, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
132 4 0.03
133 86 0.54
137 1 0.01
139 3 0.02
140 66 0.41
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (136 bp):
GCTCCACTGCAACTTCAGGGAGATAGGACTCGTAACTTCACCCTGCCCCACTGCAACTTCAGGGA
GATAAGGTTTGAATTAGCTTCAATCCACTCCACTGCAACTTCAGGAAAATAAGATGCGCTATCTT
CAATCC
Found at i:43443771 original size:27 final size:28
Alignment explanation
Indices: 43443687--43443784 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
43443677 CATGAGATTG
* * * *
43443687 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
43443716 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
43443744 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
43443771 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
43443785 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:43443795 original size:27 final size:27
Alignment explanation
Indices: 43443715--43443797 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
43443705 TAAATTGTAC
* *
43443715 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
43443743 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
43443770 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
43443797 A
1 A
43443798 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:43443798 original size:29 final size:27
Alignment explanation
Indices: 43443687--43443798 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
43443677 CATGAGATTG
** * *
43443687 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
43443716 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
43443744 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
43443771 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
43443799 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:43452882 original size:14 final size:14
Alignment explanation
Indices: 43452863--43452893 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
43452853 TTGATTTTTG
*
43452863 AAAACATAAATTGA
1 AAAACAGAAATTGA
43452877 AAAACAGAAATTGA
1 AAAACAGAAATTGA
43452891 AAA
1 AAA
43452894 TACCTCAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.06, G:0.10, T:0.16
Consensus pattern (14 bp):
AAAACAGAAATTGA
Found at i:43452941 original size:86 final size:86
Alignment explanation
Indices: 43452769--43452966 Score: 258
Period size: 86 Copynumber: 2.3 Consensus size: 86
43452759 AAAGACAGAA
*
43452769 TTTT-AAAAGCATAAATTGAAAAAACAAAAATTAAAAATACCTCAGCGTGCGAGCCGAGGCTCAA
1 TTTTGAAAA-CATAAATTG-AAAAACAAAAATTAAAAATACCTCAGCATGC--GCCGAGGCTCAA
43452833 CTCCCCTCTCGCAATATGAGTTGAT
62 CTCCCCTCTCGCAATATGAGTTGAT
* * *
43452858 TTTTGAAAACATAAATTGAAAAACAGAAATTGAAAATACCTCAGCATGTC-CTGAGGCTCAACTC
1 TTTTGAAAACATAAATTGAAAAACAAAAATTAAAAATACCTCAGCATG-CGCCGAGGCTCAACTC
* *
43452922 TCCTCTCGCAGTATGAGTTGAT
65 CCCTCTCGCAATATGAGTTGAT
43452944 TTTTGACAAACA-ATAATTGAAAA
1 TTTTGA-AAACATA-AATTGAAAA
43452967 TACCTCAGCA
Statistics
Matches: 99, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
86 40 0.40
87 14 0.14
88 27 0.27
89 14 0.14
90 4 0.04
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.26
Consensus pattern (86 bp):
TTTTGAAAACATAAATTGAAAAACAAAAATTAAAAATACCTCAGCATGCGCCGAGGCTCAACTCC
CCTCTCGCAATATGAGTTGAT
Found at i:43453079 original size:159 final size:159
Alignment explanation
Indices: 43452790--43454069 Score: 395
Period size: 178 Copynumber: 7.4 Consensus size: 159
43452780 TAAATTGAAA
* * * *
43452790 AAACAAAAATTAAAAATACCTCAGCGTGCGAGCCGAGGCTCAACTCCCCTCTCGCAATATGAGTT
1 AAACAAAAATTAAAAATACCTCAGCATGC-ACCCGAGGCTCAACTCACCTCTCACAATATGAGTT
* * * *
43452855 GATTTTTGAAAACATAAATTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAAC
65 GA-TTTTGAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAACATGGCCTAAGGCTCAAC
* *
43452920 TCTCCTCTCGCAGTATGAGTTGATTTTTGAC
129 TCACCTCTCGCAATATGAGTTGATTTTTGAC
* *
43452951 AAACAATAATTGAAAATACCTCAGCATGC-CCCGAGGCTCAACTCACCTCTCACAATTATGAGTT
1 AAACAAAAATTAAAAATACCTCAGCATGCACCCGAGGCTCAACTCACCTCTCACAA-TATGAGTT
*
43453015 GA-TTT-AAAA-AGAAGATAT-AAAAACAGAAATTGAAAGTGA-CTCAACACGTGAGCC-AAGGC
65 GATTTTGAAAACAGAA-AT-TGAAAAACAGAAATTGAAAAT-ACCTCAACA--TG-GCCTAAGGC
**
43453074 TCAACTCACCTCTCGCAATATGAGTTGACTCTTAAAAAAACAGAC
124 TCAACTCACCTCTCGCAATATGAGTTGA-T-TT-------TTGAC
* * * * * *
43453119 ATTAAAACAGAAATTAAAAATAGCTCAGCACGTG-AGCCAATGCTCAACTCACCTCTCGCAATAT
1 ----AAACAAAAATTAAAAATACCTCAGCA--TGCACCCGAGGCTCAACTCACCTCTCACAATAT
** * * *
43453183 GAGTTTTTTTTAAAACACAGAAATTAAAAAAAAACAGAATTTAAAAATAGAATTTGAAAAGACCT
60 GAGTTGATTTTGAAA-ACAGAAATT---GAAAAACAG-----------A-AA-TTGAAAATACCT
*** * ** **
43453248 TGGCGTGTGGCCCGAGATTCAACTCACCTCTCGCAATATGAGTTGATTATTAAAAAGCATAAATT
108 CAAC--ATGGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTG---ATT--------T---TT
43453313 GA-
157 GAC
* * * * * **
43453315 AAAGCATAAATTGAAAATACCTCAACGT-C-CCCTGAGGCTCAACTCAACTCTTGCAATATGAGT
1 AAA-CAAAAATTAAAAATACCTCAGCATGCACCC-GAGGCTCAACTCACCTCTCACAATATGAGT
* **
43453378 TGATTTTTTTGAAACACAGAAATTAAAAAAACAGAAATTAAAGACAAAATTTTAAAAGACCTCGG
64 TGA---TTTTGAAA-ACAGAAATT-GAAAAACAGAAATT---G--AAAA---T-----ACCTCAA
* ** * * * * * *
43453443 CGTGTGGCCCGAGACTCAACTGACCTCTCGTAATATGACTTGATTATT-AA
111 C--ATGGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
* * * * * * **
43453493 AAAGCATAAATTGAAAATACCTCAACGTGC-CCTGAGGCTCAACTCAACTCTTGCAATATGAGTT
1 AAA-CAAAAATTAAAAATACCTCAGCATGCACCCGAGGCTCAACTCACCTCTCACAATATGAGTT
* * **
43453557 GATTTTTTGAAACACAGAAATTAAAAAAAACAGAAATTAAAGACGGAATTTGAAAAGACCTCGGC
65 GA--TTTTGAAA-ACAGAAATT--GAAAAAC---------AGA---AA-TTGAAAATACCTCAAC
* ** * *
43453622 TTGTGGCCCGAGACTCAACTCACCTATCGCAATATGAGTTGATTTTTGA-
112 --ATGGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
* * * ** ** * * ***
43453671 AAAGTAGAAATTGAAAACGCCTCAGTGTGTGACCCGAGGCTTAACTCACCTCTTGTAATATGAGT
1 AAA-CAAAAATTAAAAATACCTCAGCATG-CACCCGAGGCTCAACTCACCTCTCACAATATGAGT
* * * * **
43453736 TGATTCTTTAGAAAAGTAGAAATTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCCCGAGGCT
64 TGA-T-TTT-GAAAA-CAGAAATTGAAAAACAGAAATTGAAAATACCTCAACATGGCCTAAGGCT
* * *
43453801 CAACTCACCTCTCACAATGTGAGTTGATTTTTTTTTGAT
125 CAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAC
* * * *
43453840 AAA-AATAGAATTTGAAAATACCTCAGCGTG-TCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAACAA-A-AA-TTAAAAATACCTCAGCATGCACCCGAGGCTCAACTCACCTCTCACAATATGAG
* * * *
43453903 TTGATTTTGACGAATAGAAATTGAAAAACAGAAATT-AAAAGTACCTCAGCACGTGAGCC-GAGG
63 TTGATTTTGA-AAACAGAAATTGAAAAACAGAAATTGAAAA-TACCTCA--ACATG-GCCTAAGG
*
43453966 CTCAACTCACCTCTCGCGATATGAGTTGATTTTTGAC
123 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
* * * * * *
43454003 AAACAGAAATTGAAATTACCTCAGCGTGTCA--TGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAACAAAAATTAAAAATACCTCAGCATG-CACCCGAGGCTCAACTCACCTCTCACAATATGAGTT
43454066 GATT
65 GATT
43454070 AAAAAAAACA
Statistics
Matches: 898, Mismatches: 105, Indels: 232
0.73 0.09 0.19
Matches are distributed among these distances:
156 3 0.00
157 30 0.03
158 5 0.01
159 55 0.06
160 13 0.01
161 81 0.09
162 2 0.00
163 11 0.01
164 40 0.04
165 30 0.03
166 18 0.02
167 39 0.04
168 46 0.05
169 5 0.01
170 19 0.02
172 22 0.02
173 8 0.01
174 27 0.03
175 4 0.00
176 3 0.00
177 25 0.03
178 143 0.16
179 21 0.02
180 38 0.04
181 12 0.01
182 1 0.00
184 4 0.00
186 4 0.00
187 3 0.00
188 1 0.00
189 3 0.00
190 5 0.01
191 36 0.04
192 97 0.11
193 19 0.02
194 18 0.02
195 1 0.00
197 5 0.01
201 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (159 bp):
AAACAAAAATTAAAAATACCTCAGCATGCACCCGAGGCTCAACTCACCTCTCACAATATGAGTTG
ATTTTGAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAACATGGCCTAAGGCTCAACTC
ACCTCTCGCAATATGAGTTGATTTTTGAC
Found at i:43453151 original size:88 final size:85
Alignment explanation
Indices: 43452984--43453187 Score: 284
Period size: 88 Copynumber: 2.4 Consensus size: 85
43452974 GCATGCCCCG
* * * *
43452984 AGGCTCAACTCACCTCTCACAATTATGAGTTGATTTAAAAAGAAGATATAAAAACAGAAATTGAA
1 AGGCTCAACTCACCTCTCGCAA-TATGAGTTGATTTAAAAAAAAGACATAAAAACAGAAATTAAA
*
43453049 AGTGACTCAACACGTGAGCCA
65 AATGACTCAACACGTGAGCCA
*
43453070 AGGCTCAACTCACCTCTCGCAATATGAGTTGACTCTTAAAAAAACAGACATTAAAACAGAAATTA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-T-TTAAAAAAA-AGACATAAAAACAGAAATTA
*
43453135 AAAAT-AGCTCAGCACGTGAGCCA
63 AAAATGA-CTCAACACGTGAGCCA
*
43453158 ATGCTCAACTCACCTCTCGCAATATGAGTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTT
43453188 TTTTTTAAAA
Statistics
Matches: 106, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
85 10 0.09
86 22 0.21
87 9 0.08
88 65 0.61
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (85 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAAAAAGACATAAAAACAGAAATTAAAA
ATGACTCAACACGTGAGCCA
Found at i:43453219 original size:17 final size:17
Alignment explanation
Indices: 43453194--43453229 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
43453184 AGTTTTTTTT
*
43453194 AAAACACAGAAATTAAA
1 AAAAAACAGAAATTAAA
*
43453211 AAAAAACAGAATTTAAA
1 AAAAAACAGAAATTAAA
43453228 AA
1 AA
43453230 TAGAATTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.06, T:0.14
Consensus pattern (17 bp):
AAAAAACAGAAATTAAA
Found at i:43453319 original size:14 final size:14
Alignment explanation
Indices: 43453300--43453331 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
43453290 TTGATTATTA
43453300 AAAAGCATAAATTG
1 AAAAGCATAAATTG
43453314 AAAAGCATAAATTG
1 AAAAGCATAAATTG
43453328 AAAA
1 AAAA
43453332 TACCTCAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.19
Consensus pattern (14 bp):
AAAAGCATAAATTG
Found at i:43453408 original size:192 final size:192
Alignment explanation
Indices: 43453073--43453687 Score: 739
Period size: 178 Copynumber: 3.3 Consensus size: 192
43453063 TGAGCCAAGG
* * * * * *
43453073 CTCAACTCACCTCTCGCAATATGAGTTGACTCTTAAAAAAACAGACATTAAAA-CAGAAATTAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTATT-AAAAAGCAGAAATTAAAAGCATAAATTGAA
* * * * * * *
43453137 AATAGCTCAGCACGTGAGCC-AATGCTCAACTCACCTCTCGCAATATGAG-T--TTTTTTTAAAA
65 AATACCTCA--ACGT-ACCCTGAGGCTCAACTCAACTCTTGCAATATGAGTTGATTTTTTTGAAA
* * * *
43453198 CACAGAAATTAAAAAAAAACAGAATTTAAAAATAGAATTTGAAAAGACCTTGGCGTGTGGCCCGA
127 CACAGAAATT-AAAAAAAACAGAAATTAAAGACAGAATTTGAAAAGACCTCGGCGTGTGGCCCGA
43453263 GA
191 GA
* *
43453265 TTCAACTCACCTCTCGCAATATGAGTTGATTATTAAAAAGCATAAATTGAAAAGCATAAATTGAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTATTAAAAAGCAGAAATT-AAAAGCATAAATTGAA
*
43453330 AATACCTCAACGTCCCCTGAGGCTCAACTCAACTCTTGCAATATGAGTTGATTTTTTTGAAACAC
65 AATACCTCAACGTACCCTGAGGCTCAACTCAACTCTTGCAATATGAGTTGATTTTTTTGAAACAC
* *
43453395 AGAAATT-AAAAAAACAGAAATTAAAGACAAAATTTTAAAAGACCTCGGCGTGTGGCCCGAGA
130 AGAAATTAAAAAAAACAGAAATTAAAGACAGAATTTGAAAAGACCTCGGCGTGTGGCCCGAGA
* * *
43453457 CTCAACTGACCTCTCGTAATATGACTTGATTATT-----------A--AAAAGCATAAATTGAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTATTAAAAAGCAGAAATTAAAAGCATAAATTGAAA
*
43453509 ATACCTCAACGTGCCCTGAGGCTCAACTCAACTCTTGCAATATGAGTTGA-TTTTTTGAAACACA
66 ATACCTCAACGTACCCTGAGGCTCAACTCAACTCTTGCAATATGAGTTGATTTTTTTGAAACACA
* *
43453573 GAAATTAAAAAAAACAGAAATTAAAGACGGAATTTGAAAAGACCTCGGCTTGTGGCCCGAGA
131 GAAATTAAAAAAAACAGAAATTAAAGACAGAATTTGAAAAGACCTCGGCGTGTGGCCCGAGA
* * * *
43453635 CTCAACTCACCTATCGCAATATGAGTTGATTTTTGAAAAGTAGAAATTGAAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTATTAAAAAGCAGAAATT-AAAA
43453688 CGCCTCAGTG
Statistics
Matches: 366, Mismatches: 36, Indels: 42
0.82 0.08 0.09
Matches are distributed among these distances:
177 20 0.05
178 146 0.40
181 1 0.00
189 1 0.00
190 2 0.01
191 40 0.11
192 119 0.33
193 17 0.05
194 20 0.05
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (192 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTATTAAAAAGCAGAAATTAAAAGCATAAATTGAAA
ATACCTCAACGTACCCTGAGGCTCAACTCAACTCTTGCAATATGAGTTGATTTTTTTGAAACACA
GAAATTAAAAAAAACAGAAATTAAAGACAGAATTTGAAAAGACCTCGGCGTGTGGCCCGAGA
Found at i:43453615 original size:178 final size:177
Alignment explanation
Indices: 43453314--43453749 Score: 622
Period size: 178 Copynumber: 2.4 Consensus size: 177
43453304 GCATAAATTG
*
43453314 AAAAGCATAAATTGAAAATACCTCAACGTCCCCTGAGGCTCAACTCAACTCTTGCAATATGAGTT
1 AAAAGCATAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCAACTCTTGCAATATGAGTT
*
43453379 GATTTTTTTGAAACACAGAAATTAAAAAAACAGAAATTAAAGACAAAATTTTAAAAGACCTCGGC
66 GA-TTTTTTGAAACACAGAAATTAAAAAAACAGAAATTAAAGACAAAATTTGAAAAGACCTCGGC
* * *
43453444 GTGTGGCCCGAGACTCAACTGACCTCTCGTAATATGACTTGATTATTA
130 GTGTGGCCCGAGACTCAACTCACCTATCGCAATATGACTTGATTATTA
43453492 AAAAGCATAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCAACTCTTGCAATATGAGTT
1 AAAAGCATAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCAACTCTTGCAATATGAGTT
**
43453557 GATTTTTTGAAACACAGAAATTAAAAAAAACAGAAATTAAAGACGGAATTTGAAAAGACCTCGGC
66 GATTTTTTGAAACACAGAAATT-AAAAAAACAGAAATTAAAGACAAAATTTGAAAAGACCTCGGC
* * * *
43453622 TTGTGGCCCGAGACTCAACTCACCTATCGCAATATGAGTTGATTTTTG
130 GTGTGGCCCGAGACTCAACTCACCTATCGCAATATGACTTGATTATTA
* * ** ** * * *
43453670 AAAAGTAGAAATTGAAAACGCCTCAGTGTGTGACCC-GAGGCTTAACTCACCTCTTGTAATATGA
1 AAAAGCATAAATTGAAAATACCTCA--ACGTG-CCCTGAGGCTCAACTCAACTCTTGCAATATGA
*
43453734 GTTGATTCTTTAGAAA
63 GTTGATT-TTTTGAAA
43453750 AGTAGAAATT
Statistics
Matches: 232, Mismatches: 21, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
177 20 0.09
178 167 0.72
180 35 0.15
181 10 0.04
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (177 bp):
AAAAGCATAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCAACTCTTGCAATATGAGTT
GATTTTTTGAAACACAGAAATTAAAAAAACAGAAATTAAAGACAAAATTTGAAAAGACCTCGGCG
TGTGGCCCGAGACTCAACTCACCTATCGCAATATGACTTGATTATTA
Found at i:43453731 original size:75 final size:77
Alignment explanation
Indices: 43453623--43453764 Score: 216
Period size: 75 Copynumber: 1.9 Consensus size: 77
43453613 GACCTCGGCT
*
43453623 TGTGGCCCGAGACTCAACTCACCTATCGCAATATGAGTTGATT-TTT-GAAAAGTAGAAATTGAA
1 TGTGACCCGAGACTCAACTCACCTATCGCAATATGAGTTGATTCTTTAGAAAAGTAGAAATTGAA
43453686 AACGCCTCAGTG
66 AACGCCTCAGTG
* * * * *
43453698 TGTGACCCGAGGCTTAACTCACCTCTTGTAATATGAGTTGATTCTTTAGAAAAGTAGAAATTGAA
1 TGTGACCCGAGACTCAACTCACCTATCGCAATATGAGTTGATTCTTTAGAAAAGTAGAAATTGAA
43453763 AA
66 AA
43453765 GCAGAAATTG
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
75 37 0.63
76 3 0.05
77 19 0.32
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (77 bp):
TGTGACCCGAGACTCAACTCACCTATCGCAATATGAGTTGATTCTTTAGAAAAGTAGAAATTGAA
AACGCCTCAGTG
Found at i:43453765 original size:14 final size:14
Alignment explanation
Indices: 43453746--43453778 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
43453736 TGATTCTTTA
*
43453746 GAAAAGTAGAAATT
1 GAAAAGCAGAAATT
43453760 GAAAAGCAGAAATT
1 GAAAAGCAGAAATT
43453774 GAAAA
1 GAAAA
43453779 TACCTCAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.61, C:0.03, G:0.21, T:0.15
Consensus pattern (14 bp):
GAAAAGCAGAAATT
Found at i:43453903 original size:79 final size:79
Alignment explanation
Indices: 43453761--43453910 Score: 246
Period size: 79 Copynumber: 1.9 Consensus size: 79
43453751 GTAGAAATTG
* * * *
43453761 AAAAGCAGAAATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCACAATGTGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
43453826 GATTTTTTTTTGAT
66 GATTTTTTTTTGAT
* *
43453840 AAAAATAGAATTTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
43453905 GATTTT
66 GATTTT
43453911 GACGAATAGA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 65 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (79 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTTTGAT
Found at i:43454054 original size:161 final size:159
Alignment explanation
Indices: 43453628--43454823 Score: 557
Period size: 161 Copynumber: 7.7 Consensus size: 159
43453618 CGGCTTGTGG
* * **
43453628 CCCGAGACTCAACTCACCTATCGCAATATGAGTTGATTTTTGAAAAGTAGAAATTGAAAACGCCT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-TAGAAATTGAAAATACCT
* * * *
43453693 CAGTGTGTGACCCGAGGCTTAACTCACCTCTTGTAATATGAGTTGATTCTTTAGAAAAGTAGAAA
65 CAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T-TTTAGAAAAGTAGAAA
* *
43453758 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGT
126 TTGAAAAACAGAAATTGAAAATACCTCAACGTGA
* * *
43453792 CCCGAGGCTCAACTCACCTCTCACAATGTGAGTTGATTTTTTTTTGATAAAAATAGAATTTGAAA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTG---AAAATAGAAATTGAAA
*
43453857 ATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-GACGAA-TAG
59 ATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGA-AAAGTAG
43453920 AAATTGAAAAACAGAAATT-AAAAGTACCTCAGCACGTGA
123 AAATTGAAAAACAGAAATTGAAAA-TACCTCA--ACGTGA
* * * *
43453959 GCCGAGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAATAGAAATTGAAAATACCT
** * * ** *
43454024 CAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTAAAAAAAACAGACA-T-A
65 CAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAAAGTAGAAATTGA
*
43454086 AAAACACG----TG-----AGC-CAA-G-G-
130 AAAACA-GAAATTGAAAATACCTCAACGTGA
* * * *
43454104 CTC-A-ACT-----CACCTCTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAATAGAAATTGAAAATACC
** * * *
43454162 TTTGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATTATGAGTTGA-TTTA-AAAAGCAGATA-T
64 TCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAA-TATGAGTTGATTTTAGAAAAGTAGAAATT
* *
43454224 -AAAAACAGAAATTGAAAGTGA-CTCAACACATGA
128 GAAAAACAGAAATTGAAAAT-ACCTC-A-ACGTGA
* * * * *
43454257 GCCAAGACTCAACTCACCTCTCGCAATATGAGTTGACTCTTAAAAAAGACATTAAAAACAGAAAT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T-TT----------TTGAAAATAGAAAT
* * * * * * *
43454322 TGAAAATAGCTCAGCGTGTGAGCCAAGGCTCAACTCACTTCTCGCGATATGAGTTGGTTTTTTTG
54 TGAAAATACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTAG
* * * * * ** * *
43454387 -AAACT-TAATTTGAAAAGCTGATTTTGAAATTACCTCGACATGTGA
115 AAAAGTAGAAATTGAAAAACAGAAATTGAAAATACCTC-A-ACGTGA
* * * * * *
43454432 CCCGAGGCTCAACTCAACTATCGCAATATGAATTAATTTTTGAAAA-A-ACA--G-AAAT---TA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAAATTGAAAATACCTC
**
43454489 AAAG-GT--------TCAACTCACCTCTCGCAATATGAGTTGA--TT-------T-----TTGAA
66 AGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAAAGTAGAAATTGAA
* *
43454531 AAACAGAAATTGAAAATAGCTCAGCGCGTGA
131 AAACAGAAATTGAAAATACCTCA--ACGTGA
* * * *
43454562 GCCAAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAATAGAAATTGAAATTACC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAATAGAAATTGAAAATACC
* ** ** *
43454627 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTAAATTTT-------T-----TT
64 TCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-GATTTTAGAAAAGTAGAAATT
*
43454680 G-AAAACAGAAATTGAAAATACCTCAACGTGT
128 GAAAAACAGAAATTGAAAATACCTCAACGTGA
** * * * * *
43454711 CTTGAGGCTTAACTCACTTCTTGCAGTATGAGTTGAATTTTTTTGAAAGACAGAAAATTGAAAAT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A--TTTTTGAAA-ATAG-AAATTGAAAAT
* ** * * *
43454776 ACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGA
61 ACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
43454824 ATTCTTTTGA
Statistics
Matches: 813, Mismatches: 131, Indels: 189
0.72 0.12 0.17
Matches are distributed among these distances:
129 1 0.00
130 55 0.07
132 10 0.01
133 1 0.00
134 3 0.00
136 1 0.00
137 3 0.00
138 22 0.03
139 63 0.08
140 26 0.03
141 2 0.00
142 2 0.00
143 3 0.00
144 25 0.03
145 1 0.00
146 1 0.00
147 2 0.00
148 3 0.00
149 55 0.07
150 16 0.02
151 29 0.04
152 60 0.07
153 1 0.00
154 3 0.00
155 6 0.01
156 1 0.00
158 4 0.00
159 9 0.01
160 31 0.04
161 67 0.08
162 1 0.00
163 12 0.01
164 36 0.04
165 30 0.04
166 5 0.01
167 38 0.05
168 39 0.05
170 47 0.06
171 12 0.01
172 23 0.03
173 3 0.00
174 9 0.01
175 52 0.06
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (159 bp):
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAAATTGAAAATACCTC
AGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAAAGTAGAAATTGAA
AAACAGAAATTGAAAATACCTCAACGTGA
Found at i:43454226 original size:139 final size:138
Alignment explanation
Indices: 43453952--43454230 Score: 391
Period size: 139 Copynumber: 2.0 Consensus size: 138
43453942 AGTACCTCAG
* *
43453952 CACGTGAGCCGAGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTTGACAAACAGAAATTGAA
1 CACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAA
* * *
43454017 ATTACCTCAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAAAAACAGA
66 AATACCTCAGCGTGCCACGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAAAAACAGA
43454082 CATAAAAA
131 CATAAAAA
** *
43454090 CACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAGTAGAATTTG
1 CACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAACAGAAATTG
** * * *
43454154 AAAATACCTTTGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATTATGAGTTGATT-TAAAAAGC
64 AAAATACCTCAGCGTGCCACGAGGCTCAACTCACCTCTCGCAA-TATGAGTTGATTAAAAAAAAC
*
43454218 AGATATAAAAA
128 AGACATAAAAA
43454229 CA
1 CA
43454231 GAAATTGAAA
Statistics
Matches: 124, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
138 41 0.33
139 64 0.52
140 19 0.15
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (138 bp):
CACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAA
AATACCTCAGCGTGCCACGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAAAAACAGA
CATAAAAA
Found at i:43454323 original size:86 final size:85
Alignment explanation
Indices: 43454178--43454377 Score: 253
Period size: 86 Copynumber: 2.3 Consensus size: 85
43454168 TGCCCCGAGG
* *
43454178 CTCAACTCACCTCTCGCAATTATGAGTTGATTTAAAAAGCAGATATAAAAACAGAAATTGAAAGT
1 CTCAACTCACCTCTCGCAA-TATGAGTTGATTTAAAAAGCACATATAAAAACAGAAATTGAAAAT
43454243 -GACTCAACACATGAGCCAAGA
65 AG-CTCAACACATGAGCCAAGA
43454264 CTCAACTCACCTCTCGCAATATGAGTTGACTCTTAAAAAAG-ACAT-TAAAAACAGAAATTGAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGA-T-TT-AAAAAGCACATATAAAAACAGAAATTGAAA
* *** *
43454327 ATAGCTCAGCGTGTGAGCCAAGG
63 ATAGCTCAACACATGAGCCAAGA
* *
43454350 CTCAACTCACTTCTCGCGATATGAGTTG
1 CTCAACTCACCTCTCGCAATATGAGTTG
43454378 GTTTTTTTGA
Statistics
Matches: 101, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
85 10 0.10
86 79 0.78
87 6 0.06
88 6 0.06
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (85 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAAGCACATATAAAAACAGAAATTGAAAATA
GCTCAACACATGAGCCAAGA
Found at i:43454511 original size:55 final size:55
Alignment explanation
Indices: 43454440--43454546 Score: 162
Period size: 55 Copynumber: 1.9 Consensus size: 55
43454430 GACCCGAGGC
43454440 TCAACTCAACTATCGCAATATGAATTAATTTTTGAAAAAACAGAAATT-AAAAGGT
1 TCAACTCAACTATCGCAATATGAATTAATTTTTG-AAAAACAGAAATTGAAAAGGT
* * * *
43454495 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAA
1 TCAACTCAACTATCGCAATATGAATTAATTTTTGAAAAACAGAAATTGAAAA
43454547 TAGCTCAGCG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
54 13 0.28
55 34 0.72
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (55 bp):
TCAACTCAACTATCGCAATATGAATTAATTTTTGAAAAACAGAAATTGAAAAGGT
Found at i:43454886 original size:76 final size:75
Alignment explanation
Indices: 43454495--43454902 Score: 520
Period size: 75 Copynumber: 5.4 Consensus size: 75
43454485 ATTAAAAGGT
* * *
43454495 TCAACTCACCTCTCGCAATATGAGTTG-A--TTTTTGAAAAACAGAAATTGAAAATAGCTCAGCG
1 TCAACTCACTTCTCGCAATATGAGTTGAATTTTTTTG-AAAACAGAAATTGAAAATACCTCA--A
* **
43454557 CGTGAGC-CAAGGC
63 CGTG-TCTTGAGGC
* * * *
43454570 TCAACTCACCTCTCGCAATATAAGTTG-ATTTTTTTGAAAATAGAAATTGAAATTACCTCAACGT
1 TCAACTCACTTCTCGCAATATGAGTTGAATTTTTTTGAAAACAGAAATTGAAAATACCTCAACGT
43454634 GTCTTGAGGC
66 GTCTTGAGGC
* *
43454644 TCAACTCATTTCTCGCAATATGAGTTAAATTTTTTTGAAAACAGAAATTGAAAATACCTCAACGT
1 TCAACTCACTTCTCGCAATATGAGTTGAATTTTTTTGAAAACAGAAATTGAAAATACCTCAACGT
43454709 GTCTTGAGGC
66 GTCTTGAGGC
* * *
43454719 TTAACTCACTTCTTGCAGTATGAGTTGAATTTTTTTGAAAGACAGAAAATTGAAAATACCTCAAC
1 TCAACTCACTTCTCGCAATATGAGTTGAATTTTTTTGAAA-ACAG-AAATTGAAAATACCTCAAC
43454784 GTGTCTTGAGGC
64 GTGTCTTGAGGC
* * *
43454796 TCAACTCACTTCTTGCAGTATGAGTTGAATTCTTTTGAAAGACAGAAATTGAAAATACCTCAACG
1 TCAACTCACTTCTCGCAATATGAGTTGAATTTTTTTGAAA-ACAGAAATTGAAAATACCTCAACG
*
43454861 TGTCTTGAGAC
65 TGTCTTGAGGC
* * *
43454872 TCAACTCACTTCTTGCAGTATGAATTGAATT
1 TCAACTCACTTCTCGCAATATGAGTTGAATT
43454903 ATGAAACAGA
Statistics
Matches: 304, Mismatches: 23, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
73 1 0.00
74 31 0.10
75 107 0.35
76 85 0.28
77 80 0.26
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (75 bp):
TCAACTCACTTCTCGCAATATGAGTTGAATTTTTTTGAAAACAGAAATTGAAAATACCTCAACGT
GTCTTGAGGC
Found at i:43454921 original size:153 final size:151
Alignment explanation
Indices: 43454607--43454921 Score: 454
Period size: 152 Copynumber: 2.1 Consensus size: 151
43454597 ATTTTTTTGA
* * *
43454607 AAATAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTAA
1 AAATAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTAA
* * *
43454672 ATTTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACTTCTTGCAG
66 ATTCTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGACTCAACTCACTTCTTGCAG
* *
43454737 TATGAGTTGAATTTTTTTGAAAG
131 TATGAATTGAA--TTTATGAAAG
* * * * *
43454760 ACA-GAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGA
1 AAATAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTAA
43454824 ATTCTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGACTCAACTCACTTCTTGCA
66 ATTCTTTTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGACTCAACTCACTTCTTGCA
43454889 GTATGAATTGAA-TTATGAAACAG
130 GTATGAATTGAATTTATG-AA-AG
43454912 AAATAAAAAT
1 AAATAAAAAT
43454922 CAGAATACCA
Statistics
Matches: 143, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
150 4 0.03
151 2 0.01
152 69 0.48
153 68 0.48
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.32
Consensus pattern (151 bp):
AAATAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTAA
ATTCTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGACTCAACTCACTTCTTGCAG
TATGAATTGAATTTATGAAAG
Found at i:43461598 original size:16 final size:15
Alignment explanation
Indices: 43461577--43461624 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
43461567 GATGTGAATA
43461577 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
43461593 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
43461608 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
43461624 A
1 A
43461625 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:43461600 original size:24 final size:24
Alignment explanation
Indices: 43461573--43461628 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
43461563 TAATGATGTG
*
43461573 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
43461597 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
43461621 AATAATAA
1 AATAATAA
43461629 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:43461607 original size:8 final size:8
Alignment explanation
Indices: 43461573--43461624 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
43461563 TAATGATGTG
*
43461573 AATAATAA
1 AATATTAA
43461581 AATATATAA
1 AATAT-TAA
43461590 AATA-TAA
1 AATATTAA
43461597 AATATTAA
1 AATATTAA
*
43461605 AATATCAA
1 AATATTAA
*
43461613 AATATTAG
1 AATATTAA
43461621 AATA
1 AATA
43461625 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:43461841 original size:22 final size:24
Alignment explanation
Indices: 43461778--43461842 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
43461768 CGTGATAATA
*
43461778 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
43461803 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
43461826 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
43461843 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:43461889 original size:25 final size:25
Alignment explanation
Indices: 43461856--43461917 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
43461846 AACATGTAAA
* *
43461856 AAAAAATATATAAATAATATAATAT
1 AAAAGATATATAAATAAAATAATAT
* * *
43461881 TAAAGATATATACATAAAATAGTAT
1 AAAAGATATATAAATAAAATAATAT
*
43461906 AAAATATATATA
1 AAAAGATATATA
43461918 TACGTAATAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (25 bp):
AAAAGATATATAAATAAAATAATAT
Found at i:43462547 original size:30 final size:30
Alignment explanation
Indices: 43462469--43462571 Score: 111
Period size: 30 Copynumber: 3.4 Consensus size: 30
43462459 TAGGTACAAG
* *
43462469 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAATGTGTGGCTAGTGGAGT
* ** * *
43462499 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAATGTGTGGCTAGTGGAGT
43462529 TGGTGGTGGAAAATGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAATGTGTGGCTAGTGGAGT
43462559 TGGTGGTGGAAAA
1 TGGTGGTGGAAAA
43462572 GGCTAAGATT
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.22, C:0.04, G:0.46, T:0.28
Consensus pattern (30 bp):
TGGTGGTGGAAAATGTGTGGCTAGTGGAGT
Done.