Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 46 of 433
Found at i:12440570 original size:27 final size:27
Alignment explanation
Indices: 12440536--12440621 Score: 172
Period size: 27 Copynumber: 3.2 Consensus size: 27
12440526 ATTCAAGAAT
12440536 AAGAAAAATTCTTCAGGGAAGTAGACG
1 AAGAAAAATTCTTCAGGGAAGTAGACG
12440563 AAGAAAAATTCTTCAGGGAAGTAGACG
1 AAGAAAAATTCTTCAGGGAAGTAGACG
12440590 AAGAAAAATTCTTCAGGGAAGTAGACG
1 AAGAAAAATTCTTCAGGGAAGTAGACG
12440617 AAGAA
1 AAGAA
12440622 CAGAGAAAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.47, C:0.10, G:0.26, T:0.17
Consensus pattern (27 bp):
AAGAAAAATTCTTCAGGGAAGTAGACG
Found at i:12447906 original size:25 final size:25
Alignment explanation
Indices: 12447858--12447922 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
12447848 AATTTTTTTT
* *
12447858 GATAGTATATCCTGACACTGCTATA
1 GATAGTATATACTGACACTACTATA
*
12447883 GGTAGTATATACTG-CGACTACTATA
1 GATAGTATATACTGAC-ACTACTATA
* *
12447908 GATAGTCTGTACTGA
1 GATAGTATATACTGA
12447923 AAACACTCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
24 1 0.03
25 31 0.97
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (25 bp):
GATAGTATATACTGACACTACTATA
Found at i:12453813 original size:2 final size:2
Alignment explanation
Indices: 12453806--12453841 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
12453796 TGTTTGACTG
12453806 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12453842 TTACATGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12456509 original size:49 final size:49
Alignment explanation
Indices: 12456393--12456533 Score: 205
Period size: 49 Copynumber: 2.9 Consensus size: 49
12456383 CCCCAGATTA
*
12456393 CTCAACAATAATGATTTTCTCAA-TCCAACCAATCTGTCA-CCTGGGTTG
1 CTCAACAATAATGATTTTCTCAACT-CAACCAATCTGTCACCCCGGGTTG
* *
12456441 CTCGACAATAATGATTTTCTCAACTCAACCAATCTGTCACCCCGTGTTG
1 CTCAACAATAATGATTTTCTCAACTCAACCAATCTGTCACCCCGGGTTG
* * *
12456490 CTCAACAACAATGATTTTCTCAACTTAACCAATCTATCACCCCG
1 CTCAACAATAATGATTTTCTCAACTCAACCAATCTGTCACCCCG
12456534 AGTTACTCCA
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
48 36 0.43
49 48 0.57
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.30
Consensus pattern (49 bp):
CTCAACAATAATGATTTTCTCAACTCAACCAATCTGTCACCCCGGGTTG
Found at i:12460231 original size:29 final size:29
Alignment explanation
Indices: 12460189--12460248 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
12460179 AACCTTAAAG
* *
12460189 TAAGAGTCTTTAAGTGGTAATTAGAGCAT
1 TAAGAGTCCTTAAGTGGTAATTAGACCAT
*
12460218 TAAGATTCCTTAAGTGGTAATTAGACCAT
1 TAAGAGTCCTTAAGTGGTAATTAGACCAT
12460247 TA
1 TA
12460249 TAATGGTGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (29 bp):
TAAGAGTCCTTAAGTGGTAATTAGACCAT
Found at i:12471858 original size:42 final size:43
Alignment explanation
Indices: 12471810--12471898 Score: 171
Period size: 42 Copynumber: 2.1 Consensus size: 43
12471800 AATAATAAAG
12471810 ATTAAATAATCCCTTACAAACATAAGGTTTAAATCTAATTAT-
1 ATTAAATAATCCCTTACAAACATAAGGTTTAAATCTAATTATC
12471852 ATTAAATAATCCCTTACAAACATAAGGTTTAAATCTAATTATC
1 ATTAAATAATCCCTTACAAACATAAGGTTTAAATCTAATTATC
12471895 ATTA
1 ATTA
12471899 TAAGTAAGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 42 0.91
43 4 0.09
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (43 bp):
ATTAAATAATCCCTTACAAACATAAGGTTTAAATCTAATTATC
Found at i:12474751 original size:13 final size:14
Alignment explanation
Indices: 12474735--12474767 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
12474725 TATATTTTTC
12474735 TTTATATAT-AATA
1 TTTATATATAAATA
12474748 TTTATATATCAAATA
1 TTTATATAT-AAATA
12474763 TTTAT
1 TTTAT
12474768 TTCTCCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
15 9 0.50
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTATATATAAATA
Found at i:12480457 original size:3 final size:3
Alignment explanation
Indices: 12480451--12480482 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
12480441 TATTATTATT
*
12480451 ATC ATC ATT ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
12480483 TATTGTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:12480494 original size:3 final size:3
Alignment explanation
Indices: 12480481--12480510 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
12480471 CATCATCATC
*
12480481 ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12480511 CATATTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:12481216 original size:14 final size:14
Alignment explanation
Indices: 12481197--12481224 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12481187 GGTCGATCTC
12481197 CAACATTTACAACT
1 CAACATTTACAACT
12481211 CAACATTTACAACT
1 CAACATTTACAACT
12481225 AACTCAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (14 bp):
CAACATTTACAACT
Found at i:12485055 original size:44 final size:44
Alignment explanation
Indices: 12484937--12485032 Score: 192
Period size: 44 Copynumber: 2.2 Consensus size: 44
12484927 AAGATTAGCC
12484937 GAAGCTATAATAATTCTACACACTTAGTGCCATTTCAATTAACT
1 GAAGCTATAATAATTCTACACACTTAGTGCCATTTCAATTAACT
12484981 GAAGCTATAATAATTCTACACACTTAGTGCCATTTCAATTAACT
1 GAAGCTATAATAATTCTACACACTTAGTGCCATTTCAATTAACT
12485025 GAAGCTAT
1 GAAGCTAT
12485033 CTCGGTATCT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.33
Consensus pattern (44 bp):
GAAGCTATAATAATTCTACACACTTAGTGCCATTTCAATTAACT
Found at i:12487172 original size:14 final size:13
Alignment explanation
Indices: 12487114--12487275 Score: 93
Period size: 13 Copynumber: 12.3 Consensus size: 13
12487104 CCAATGTTCC
12487114 ATTTCATA-ATCT
1 ATTTCATATATCT
*
12487126 ATTTCCATATAACT
1 ATTT-CATATATCT
* *
12487140 GA-TTCATATAACC
1 -ATTTCATATATCT
12487153 ATTTCATATATCAT
1 ATTTCATATATC-T
*
12487167 ATTTCATATAATCG
1 ATTTCATAT-ATCT
* *
12487181 A-TTCATATAACC
1 ATTTCATATATCT
12487193 ATTTCATATATCAT
1 ATTTCATATATC-T
*
12487207 TTTTCATATAAT-T
1 ATTTCATAT-ATCT
* * *
12487220 GA-TTCGTATAACC
1 -ATTTCATATATCT
*
12487233 ATTTCATATATTT
1 ATTTCATATATCT
* *
12487246 ATTTTCATATAACC
1 A-TTTCATATATCT
12487260 ATTTCATATATC-
1 ATTTCATATATCT
12487272 ATTT
1 ATTT
12487276 TTTTCACCCG
Statistics
Matches: 115, Mismatches: 22, Indels: 26
0.71 0.13 0.16
Matches are distributed among these distances:
12 14 0.12
13 62 0.54
14 33 0.29
15 6 0.05
ACGTcount: A:0.35, C:0.17, G:0.02, T:0.46
Consensus pattern (13 bp):
ATTTCATATATCT
Found at i:12487172 original size:27 final size:27
Alignment explanation
Indices: 12487142--12487273 Score: 107
Period size: 27 Copynumber: 4.9 Consensus size: 27
12487132 ATATAACTGA
12487142 TTCATATAACCATTTCATATATCATAT
1 TTCATATAACCATTTCATATATCATAT
* * *
12487169 TTCATATAATCGA-TTCATATAAC-CAT
1 TTCATATAA-CCATTTCATATATCATAT
*
12487195 TTCATAT-ATCATTTTTCATATA--AT-T
1 TTCATATAACCA--TTTCATATATCATAT
* *
12487220 GATTCGTATAACCATTTCATATAT-TTATT
1 --TTCATATAACCATTTCATATATCATA-T
12487249 TTCATATAACCATTTCATATATCAT
1 TTCATATAACCATTTCATATATCAT
12487274 TTTTTTCACC
Statistics
Matches: 82, Mismatches: 11, Indels: 23
0.71 0.09 0.20
Matches are distributed among these distances:
24 1 0.01
25 2 0.02
26 18 0.22
27 54 0.66
28 6 0.07
29 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.02, T:0.46
Consensus pattern (27 bp):
TTCATATAACCATTTCATATATCATAT
Found at i:12487184 original size:40 final size:40
Alignment explanation
Indices: 12487112--12487257 Score: 201
Period size: 40 Copynumber: 3.7 Consensus size: 40
12487102 ATCCAATGTT
12487112 CCATTTCATA-ATC-TATTTCCATATAA-CTGATTCATATAA
1 CCATTTCATATATCATATTT-CATATAATC-GATTCATATAA
12487151 CCATTTCATATATCATATTTCATATAATCGATTCATATAA
1 CCATTTCATATATCATATTTCATATAATCGATTCATATAA
* * *
12487191 CCATTTCATATATCATTTTTCATATAATTGATTCGTATAA
1 CCATTTCATATATCATATTTCATATAATCGATTCATATAA
*
12487231 CCATTTCATATAT-TTATTTTCATATAA
1 CCATTTCATATATCATA-TTTCATATAA
12487258 CCATTTCATA
Statistics
Matches: 98, Mismatches: 5, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
39 11 0.11
40 81 0.83
41 6 0.06
ACGTcount: A:0.35, C:0.17, G:0.03, T:0.45
Consensus pattern (40 bp):
CCATTTCATATATCATATTTCATATAATCGATTCATATAA
Found at i:12491470 original size:21 final size:20
Alignment explanation
Indices: 12491438--12491486 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
12491428 GCTCCCACAC
*
12491438 CCGTGTCGCTAAGGCACACGA
1 CCGTGT-GCTAAAGCACACGA
* *
12491459 CCGTGTGTCTAAAGCACATGC
1 CCGTGTG-CTAAAGCACACGA
12491480 CCGTGTG
1 CCGTGTG
12491487 AAAAATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.20, C:0.31, G:0.29, T:0.20
Consensus pattern (20 bp):
CCGTGTGCTAAAGCACACGA
Found at i:12497978 original size:18 final size:18
Alignment explanation
Indices: 12497957--12497996 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
12497947 TCAAAAGGTA
12497957 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
12497975 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
12497993 TAAT
1 TAAT
12497997 CAAAAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:12498149 original size:20 final size:20
Alignment explanation
Indices: 12498114--12498151 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12498104 TGACCATTTC
12498114 GTAACAAAACGATAACATAA
1 GTAACAAAACGATAACATAA
12498134 GTAACTAAAACG-TAACAT
1 GTAAC-AAAACGATAACAT
12498152 TTCAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.55, C:0.16, G:0.11, T:0.18
Consensus pattern (20 bp):
GTAACAAAACGATAACATAA
Found at i:12502147 original size:14 final size:14
Alignment explanation
Indices: 12502130--12502159 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
12502120 TTATATAGTA
12502130 TTATTTATTTATTT
1 TTATTTATTTATTT
12502144 TTATTTATTTATTT
1 TTATTTATTTATTT
12502158 TT
1 TT
12502160 TTCTTCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTATTTATTTATTT
Found at i:12502401 original size:15 final size:16
Alignment explanation
Indices: 12502381--12502419 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
12502371 TCATTTCTAA
*
12502381 ATTATTACTT-GTATT
1 ATTATTACTTAATATT
12502396 ATTATTA-TTAATATT
1 ATTATTACTTAATATT
12502411 ATTATTACT
1 ATTATTACT
12502420 ATTACTATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 18 0.86
16 1 0.05
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (16 bp):
ATTATTACTTAATATT
Found at i:12509115 original size:31 final size:31
Alignment explanation
Indices: 12509077--12509140 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
12509067 CCTTTTCATA
12509077 TTTCATATTTCATAATACTGGGCCGAAACCT
1 TTTCATATTTCATAATACTGGGCCGAAACCT
* *
12509108 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAACCT
12509139 TT
1 TT
12509141 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAACCT
Found at i:12509415 original size:47 final size:47
Alignment explanation
Indices: 12509332--12509497 Score: 219
Period size: 47 Copynumber: 3.5 Consensus size: 47
12509322 GCTTTATCAT
* * *
12509332 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTAGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTT-A
*
12509381 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
* * *
12509427 ATAACTGGGGCATAAGCCCTTTTGATAAGTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC-TTTA
12509475 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
12509498 GCACTTCCTC
Statistics
Matches: 108, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
46 23 0.21
47 38 0.35
48 35 0.32
49 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
Found at i:12509498 original size:24 final size:24
Alignment explanation
Indices: 12509332--12509498 Score: 232
Period size: 24 Copynumber: 7.0 Consensus size: 24
12509322 GCTTTATCAT
* *
12509332 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* * **
12509357 ATAACTAGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
12509381 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
12509404 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
12509427 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
12509451 ATAAGTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
12509475 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
12509499 CACTTCCTCC
Statistics
Matches: 131, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
23 46 0.35
24 74 0.56
25 11 0.08
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:12509571 original size:20 final size:20
Alignment explanation
Indices: 12509543--12509607 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
12509533 GCATTTATGA
*
12509543 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
12509563 ACATATCATGTGTATATCAT
1 ACATATCATGTGCATATCAT
* *
12509583 ACATGTCATGTGCATCTCAT
1 ACATATCATGTGCATATCAT
12509603 ACATA
1 ACATA
12509608 CCATATTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:12509691 original size:24 final size:24
Alignment explanation
Indices: 12509650--12509696 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
12509640 ATACATAAAC
* * *
12509650 CCTAGGGGTATAATGGTCATTTTA
1 CCTAGGGGCAAAACGGTCATTTTA
12509674 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
12509697 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:12516226 original size:31 final size:31
Alignment explanation
Indices: 12516188--12516251 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
12516178 CCTTTTCATA
12516188 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
12516219 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
12516250 TT
1 TT
12516252 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:12516494 original size:24 final size:24
Alignment explanation
Indices: 12516443--12516584 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
12516433 GCTTTATCAT
*
12516443 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
12516468 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
12516492 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
12516515 ATAACT-GGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
12516538 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
12516562 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
12516585 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
22 16 0.15
23 12 0.11
24 69 0.63
25 12 0.11
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:12516531 original size:46 final size:48
Alignment explanation
Indices: 12516443--12516583 Score: 198
Period size: 46 Copynumber: 3.0 Consensus size: 48
12516433 GCTTTATCAT
* *
12516443 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
12516492 ATAACTGGGGCATAAGCCCTTTT-ATAACT-GGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
12516538 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
12516584 TTCACTTCCT
Statistics
Matches: 85, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
46 37 0.44
47 12 0.14
48 24 0.28
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:12516657 original size:20 final size:20
Alignment explanation
Indices: 12516632--12516692 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
12516622 ATTTATGAAC
12516632 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
12516652 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
12516672 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
12516692 A
1 A
12516693 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:12516767 original size:25 final size:25
Alignment explanation
Indices: 12516735--12516782 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
12516725 ATACATAAAC
* * *
12516735 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
12516760 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
12516783 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:12524691 original size:45 final size:45
Alignment explanation
Indices: 12524620--12524816 Score: 186
Period size: 45 Copynumber: 4.4 Consensus size: 45
12524610 GATCTTATCT
* *
12524620 CCCTAAGCAGTAGTGG-AGCAGATTGAAGATTGACAAACCTTAACC
1 CCCTAAACAGTAG-GGAAACAGATTGAAGATTGACAAACCTTAACC
* * * * * *
12524665 CCCTAAACAGTAGGGTAACAGGTTG-A-ATTCACAGATCTTAACG
1 CCCTAAACAGTAGGGAAACAGATTGAAGATTGACAAACCTTAACC
* ** * * *
12524708 CCCTAAGCAGTAGGGAAACAGATCAAAG-GTGACAAGCCTTAAAC
1 CCCTAAACAGTAGGGAAACAGATTGAAGATTGACAAACCTTAACC
* ** * *
12524752 CCCTAAACAGTAGGGTAACAGGCTGAAGATTGACGAATCTTAACC
1 CCCTAAACAGTAGGGAAACAGATTGAAGATTGACAAACCTTAACC
12524797 CCCTAAACAGTAGGGAAACA
1 CCCTAAACAGTAGGGAAACA
12524817 TAGCAGAAGT
Statistics
Matches: 117, Mismatches: 31, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
43 33 0.28
44 35 0.30
45 49 0.42
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (45 bp):
CCCTAAACAGTAGGGAAACAGATTGAAGATTGACAAACCTTAACC
Found at i:12524719 original size:43 final size:41
Alignment explanation
Indices: 12524405--12524772 Score: 199
Period size: 44 Copynumber: 8.5 Consensus size: 41
12524395 GACCTTAAAT
* *
12524405 CCCTAAGCAGTAGGGTAACAG-GCTGAATTTACAGATATTAACC
1 CCCTAAGCAGTAGGGTAACAGATC-GAA-TTACAGATCTTAA-C
* * * *
12524448 CCCTAAGCAGTAGGGAAACGGATCGAAGATGA-AGGGTCTTAAAC
1 CCCTAAGCAGTAGGGTAACAGATCG-A-ATTACA-GATCTT-AAC
* * * *
12524492 CCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATC
1 CCCTAAGCAGTAGGGTAACAGATCGAATTACAGATCTTAAC
* * * *
12524533 TCCTTAAGCAGTAGTGG-AGCAGATCGAA-GACGAAGGGTCTTAAAC
1 -CCCTAAGCAGTAG-GGTAACAGATCGAATTAC--A-GATCTT-AAC
* * * *
12524578 CCCTAGGCAGTAGGGTAACAGACCAAATTACAGATCTTATC
1 CCCTAAGCAGTAGGGTAACAGATCGAATTACAGATCTTAAC
* * * *
12524619 TCCCTAAGCAGTAGTGG-AGCAGATTGAAGATTGACAAACCTTAACC
1 -CCCTAAGCAGTAG-GGTAACAGATCG-A-ATT-ACAGATCTTAA-C
* * *
12524665 CCCTAAACAGTAGGGTAACAGGTTGAATTCACAGATCTTAAC
1 CCCTAAGCAGTAGGGTAACAGATCGAATT-ACAGATCTTAAC
* * * *
12524707 GCCCTAAGCAGTAGGGAAACAGATCAAAGGTGACA-AGCCTTAAAC
1 -CCCTAAGCAGTAGGGTAACAGATCGAA--TTACAGA-TCTT-AAC
*
12524752 CCCTAAACAGTAGGGTAACAG
1 CCCTAAGCAGTAGGGTAACAG
12524773 GCTGAAGATT
Statistics
Matches: 246, Mismatches: 53, Indels: 51
0.70 0.15 0.15
Matches are distributed among these distances:
41 5 0.02
42 50 0.20
43 67 0.27
44 85 0.35
45 38 0.15
46 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (41 bp):
CCCTAAGCAGTAGGGTAACAGATCGAATTACAGATCTTAAC
Found at i:12524741 original size:87 final size:86
Alignment explanation
Indices: 12524397--12524856 Score: 419
Period size: 86 Copynumber: 5.3 Consensus size: 86
12524387 ATGCACCAGA
* *
12524397 CCTTAAATCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATATTAACCCCCTAAGCAGTAGG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAA-TTACAGATCTTAACCCCCTAAGCAGTAGG
* *
12524462 GAAACGGATCGAAGATGAAGGG
65 GAAACAGATCGAAGATGAAGAG
* * ** * * * *
12524484 TCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCTTAAGCAGTAGTG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTAACCCCCTAAGCAGTAG-G
* * *
12524549 G-AGCAGATCGAAGACGAAGGG
65 GAAACAGATCGAAGATGAAGAG
* * * ** * *
12524570 TCTTAAACCCCTAGGCAGTAGGGTAACAGACCAAATTACAGATCTTATCTCCCTAAGCAGTAGTG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTAACCCCCTAAGCAGTAG-G
* * *
12524635 G-AGCAGATTGAAGATTGACA-AA
65 GAAACAGATCGAAGA-TGA-AGAG
* * * *
12524657 CCTTAACCCCCTAAACAGTAGGGTAACAGGTTGAATTCACAGATCTTAACGCCCTAAGCAGTAGG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATT-ACAGATCTTAACCCCCTAAGCAGTAGG
* *
12524722 GAAACAGATCAAAGGTGACA-AG
65 GAAACAGATCGAAGATGA-AGAG
* *
12524744 CCTTAAACCCCTAAACAGTAGGGTAACAGGCTGAAGATTGAC-GAATCTTAACCCCCTAAACAGT
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTG-A-ATT-ACAG-ATCTTAACCCCCTAAGCAGT
* * * *
12524808 AGGGAAACATAGCAGAAG-TGATGGG
62 AGGGAAACAGATC-GAAGATGAAGAG
* *
12524833 CCTTAAACTCCTAAGCAATAGGGT
1 CCTTAAACCCCTAAGCAGTAGGGT
12524857 CATAGGCAGG
Statistics
Matches: 315, Mismatches: 48, Indels: 18
0.83 0.13 0.05
Matches are distributed among these distances:
86 115 0.37
87 102 0.32
88 36 0.11
89 59 0.19
90 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (86 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTAACCCCCTAAGCAGTAGGG
AAACAGATCGAAGATGAAGAG
Found at i:12525328 original size:14 final size:15
Alignment explanation
Indices: 12525311--12525351 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
12525301 AATAACCTAA
*
12525311 CCCAAAC-CTAAAAC
1 CCCAAACACAAAAAC
12525325 CCCAAACACAAAAAC
1 CCCAAACACAAAAAC
*
12525340 ACCAAACA-AAAA
1 CCCAAACACAAAA
12525352 CTACAAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.61, C:0.37, G:0.00, T:0.02
Consensus pattern (15 bp):
CCCAAACACAAAAAC
Found at i:12526872 original size:2 final size:2
Alignment explanation
Indices: 12526859--12526892 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
12526849 TTTTAACATC
*
12526859 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12526893 TTTTAATTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:12526974 original size:10 final size:10
Alignment explanation
Indices: 12526961--12527001 Score: 75
Period size: 10 Copynumber: 4.2 Consensus size: 10
12526951 GTATTATTTA
12526961 TTTATTTATT
1 TTTATTTATT
12526971 TTTATTTATT
1 TTTATTTATT
12526981 TTTATTTATT
1 TTTATTTATT
12526991 TTTATTT-TT
1 TTTATTTATT
12527000 TT
1 TT
12527002 CTTCTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 4 0.13
10 27 0.87
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTATTTATT
Found at i:12526974 original size:14 final size:15
Alignment explanation
Indices: 12526952--12526991 Score: 66
Period size: 14 Copynumber: 2.8 Consensus size: 15
12526942 CTTTATATAG
12526952 TATTATTTATTTATT
1 TATTATTTATTTATT
12526967 TATT-TTTATTTATT
1 TATTATTTATTTATT
12526981 T-TTATTTATTT
1 TATTATTTATTT
12526992 TTATTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 2 0.08
14 18 0.75
15 4 0.17
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TATTATTTATTTATT
Found at i:12532110 original size:2 final size:2
Alignment explanation
Indices: 12532103--12532141 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
12532093 AGTGTCGACT
12532103 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12532142 GTTAAGCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12533364 original size:11 final size:12
Alignment explanation
Indices: 12533329--12533400 Score: 51
Period size: 13 Copynumber: 5.8 Consensus size: 12
12533319 ATAAAACTTT
12533329 ATATAAAAAATTAA
1 ATAT-AAAAA-TAA
12533343 ATATAAAAATAA
1 ATATAAAAATAA
*
12533355 A-ATAAGAATATAT
1 ATATAA-AA-ATAA
12533368 ATATAAAAAATAA
1 ATAT-AAAAATAA
*
12533381 ATA-AATAAAT-G
1 ATATAA-AAATAA
12533392 ATATAAAAA
1 ATATAAAAA
12533401 ATAACTAACA
Statistics
Matches: 49, Mismatches: 3, Indels: 15
0.73 0.04 0.22
Matches are distributed among these distances:
11 12 0.24
12 12 0.24
13 15 0.31
14 8 0.16
15 2 0.04
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (12 bp):
ATATAAAAATAA
Found at i:12533382 original size:25 final size:24
Alignment explanation
Indices: 12533343--12533404 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 24
12533333 AAAAAATTAA
*
12533343 ATAT-AAAAATAAAATAAGAATATAT-
1 ATATAAAAAAT-AAAT-A-AATAAATG
12533368 ATATAAAAAATAAATAAATAAATG
1 ATATAAAAAATAAATAAATAAATG
12533392 ATATAAAAAATAA
1 ATATAAAAAATAA
12533405 CTAACAAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
23 6 0.18
24 14 0.41
25 8 0.24
26 6 0.18
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (24 bp):
ATATAAAAAATAAATAAATAAATG
Found at i:12536568 original size:93 final size:93
Alignment explanation
Indices: 12536458--12536628 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
12536448 GCCCCTAAGT
* *
12536458 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
12536523 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
12536551 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
12536616 CGAGTTCGGATGC
66 CGAGTTCGGATGC
12536629 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:12536625 original size:46 final size:46
Alignment explanation
Indices: 12536453--12536625 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
12536443 AACCTGCCCC
* * * *
12536453 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
12536499 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
12536547 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
12536592 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
12536626 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:12543911 original size:2 final size:2
Alignment explanation
Indices: 12543904--12543932 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12543894 AGTGTCGGCT
12543904 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12543933 GTGTGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12543937 original size:2 final size:2
Alignment explanation
Indices: 12543932--12543968 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
12543922 TATATATATA
12543932 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
12543969 TAAGCTTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:12561228 original size:16 final size:16
Alignment explanation
Indices: 12561207--12561238 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12561197 TGTTGTTTTA
12561207 ATATAAATGAATCAAT
1 ATATAAATGAATCAAT
*
12561223 ATATAAATGTATCAAT
1 ATATAAATGAATCAAT
12561239 GCTATGATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (16 bp):
ATATAAATGAATCAAT
Found at i:12564327 original size:27 final size:27
Alignment explanation
Indices: 12564277--12564417 Score: 171
Period size: 27 Copynumber: 5.2 Consensus size: 27
12564267 GTGACGAAGT
12564277 CACCAGATACAGATAT-TGTGGCAGAGC
1 CACCAGA-ACAGATATATGTGGCAGAGC
*
12564304 CACTAGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
12564331 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGAACAGATATA-TGTGGCAGAGC
* *
12564358 CACCAGGACAGATATATGTGGCAAAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
12564385 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGAACAGATATA-TGTGGCAGAGC
12564412 CACCAG
1 CACCAG
12564418 GACGCTTCCT
Statistics
Matches: 100, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
26 10 0.10
27 89 0.89
28 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCAGAGC
Found at i:12564418 original size:54 final size:54
Alignment explanation
Indices: 12564259--12564420 Score: 238
Period size: 54 Copynumber: 3.0 Consensus size: 54
12564249 GCGAGGCTGC
* * * * * *
12564259 CAGATAT-TGTGACGAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACTAGAA
1 CAGATATATGTGGCAAAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
*
12564312 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
12564366 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
12564420 C
1 C
12564421 GCTTCCTCCA
Statistics
Matches: 99, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
53 12 0.12
54 87 0.88
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:12566062 original size:26 final size:26
Alignment explanation
Indices: 12566031--12566138 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
12566021 TGAAATGCCC
*
12566031 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
12566057 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
12566083 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
12566109 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
12566135 ATCA
1 ATCA
12566139 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:12573845 original size:13 final size:13
Alignment explanation
Indices: 12573827--12573854 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
12573817 ATTTAATTAT
12573827 TAAAAGATATTTA
1 TAAAAGATATTTA
12573840 TAAAAGATATTTA
1 TAAAAGATATTTA
12573853 TA
1 TA
12573855 TGATAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (13 bp):
TAAAAGATATTTA
Found at i:12574200 original size:18 final size:17
Alignment explanation
Indices: 12574179--12574215 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
12574169 ACAGCAAGGG
*
12574179 AGAAAAAGAAAGAAATAA
1 AGAAAAAAAAAGAAA-AA
12574197 AGAAAAAAAAAGAAAAA
1 AGAAAAAAAAAGAAAAA
12574214 AG
1 AG
12574216 GGAAAATTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (17 bp):
AGAAAAAAAAAGAAAAA
Found at i:12574221 original size:18 final size:19
Alignment explanation
Indices: 12574180--12574221 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
12574170 CAGCAAGGGA
12574180 GAAAAAGAAAGAAATAAA-
1 GAAAAAGAAAGAAATAAAG
*
12574198 GAAAAAAAAAGAAA-AAAG
1 GAAAAAGAAAGAAATAAAG
*
12574216 GGAAAA
1 GAAAAA
12574222 TTGGGGGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (19 bp):
GAAAAAGAAAGAAATAAAG
Found at i:12605798 original size:21 final size:21
Alignment explanation
Indices: 12605751--12605792 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
12605741 TCGTGGTAAC
12605751 GAGTTCAACCACTGTTTAGCT
1 GAGTTCAACCACTGTTTAGCT
12605772 GAGTTCAACCACTGTTTAGCT
1 GAGTTCAACCACTGTTTAGCT
12605793 TTGTTCTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (21 bp):
GAGTTCAACCACTGTTTAGCT
Found at i:12607904 original size:43 final size:43
Alignment explanation
Indices: 12607856--12608021 Score: 167
Period size: 43 Copynumber: 3.9 Consensus size: 43
12607846 GTTACCGAGA
* *
12607856 TGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
12607899 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAA
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAT
** * * * * *
12607943 T-CAATTTCGTGTAAGACCCTGTTTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
12607984 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
12608022 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 89 0.89
44 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.33
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:12611402 original size:25 final size:25
Alignment explanation
Indices: 12611354--12611402 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
12611344 CCAAGATAAT
* *
12611354 TAATGGAAAGCTCCTCTGATCTGAA
1 TAATGGAAAGCTCATCTGAGCTGAA
* *
12611379 TAATGGTAAGCTCATGTGAGCTGA
1 TAATGGAAAGCTCATCTGAGCTGA
12611403 TTATTAGTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (25 bp):
TAATGGAAAGCTCATCTGAGCTGAA
Found at i:12615536 original size:15 final size:17
Alignment explanation
Indices: 12615516--12615548 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
12615506 CAAAGTTTAT
12615516 AATAAAT-AAT-ATAAA
1 AATAAATCAATAATAAA
12615531 AATAAATCAATAATAAA
1 AATAAATCAATAATAAA
12615548 A
1 A
12615549 CATGAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 3 0.19
17 6 0.38
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AATAAATCAATAATAAA
Found at i:12617206 original size:25 final size:26
Alignment explanation
Indices: 12617170--12617234 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 26
12617160 GTGTATTCTT
* *
12617170 TGAAGCTAGTGTTAACAGCA-TCGTAC
1 TGAAGCTAGTGTTAACAACATTAGT-C
*
12617196 T-AAGCTAGTGTTAGCAACATTAGTC
1 TGAAGCTAGTGTTAACAACATTAGTC
12617221 TGAAGCTAGTGTTA
1 TGAAGCTAGTGTTA
12617235 GCAATCTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 18 0.53
26 16 0.47
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (26 bp):
TGAAGCTAGTGTTAACAACATTAGTC
Found at i:12617233 original size:26 final size:26
Alignment explanation
Indices: 12617170--12617238 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
12617160 GTGTATTCTT
* * *
12617170 TGAAGCTAGTGTTAACAGCATCGTAC
1 TGAAGCTAGTGTTAGCAACATAGTAC
12617196 T-AAGCTAGTGTTAGCAACATTAGT-C
1 TGAAGCTAGTGTTAGCAACA-TAGTAC
12617221 TGAAGCTAGTGTTAGCAA
1 TGAAGCTAGTGTTAGCAA
12617239 TCTGAATATG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 18 0.47
26 20 0.53
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (26 bp):
TGAAGCTAGTGTTAGCAACATAGTAC
Found at i:12619559 original size:46 final size:46
Alignment explanation
Indices: 12619400--12619573 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
12619390 AGTTGAGCAT
* *
12619400 CCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG-
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *** * * * *
12619445 TCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAACGC
*
12619490 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
12619538 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
12619574 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 11
0.78 0.13 0.08
Matches are distributed among these distances:
44 2 0.02
45 27 0.26
46 46 0.44
47 27 0.26
48 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:12622674 original size:40 final size:40
Alignment explanation
Indices: 12622630--12622706 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
12622620 AGTGTCGGAC
12622630 ATAGCCAAAGCTATCTCAAATCGCACACTAAGTGCCATAT
1 ATAGCCAAAGCTATCTCAAATCGCACACTAAGTGCCATAT
* * ** *
12622670 ATAGCCGAAGCTATGTTGACTCGCACACTAAGTGCCA
1 ATAGCCAAAGCTATCTCAAATCGCACACTAAGTGCCA
12622707 CAAATAGTCG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (40 bp):
ATAGCCAAAGCTATCTCAAATCGCACACTAAGTGCCATAT
Found at i:12628508 original size:20 final size:20
Alignment explanation
Indices: 12628444--12628582 Score: 89
Period size: 20 Copynumber: 7.1 Consensus size: 20
12628434 ATAACTACGT
* *
12628444 AACATTTAAGCATATATCAC
1 AACATTCAAGTATATATCAC
* *
12628464 AATACTC-A-TATA-ATCAC
1 AACATTCAAGTATATATCAC
*
12628481 ATAACATTCAAGAATATATCAC
1 --AACATTCAAGTATATATCAC
12628503 AACATTC-A-TATA-ATCAC
1 AACATTCAAGTATATATCAC
*
12628520 ATAACATTCAAGTATATATCAT
1 --AACATTCAAGTATATATCAC
*
12628542 AACACTC-A-TATA-ATCAC
1 AACATTCAAGTATATATCAC
*
12628559 ATAACATTCAAGCATATATCAC
1 --AACATTCAAGTATATATCAC
12628581 AA
1 AA
12628583 TACTCAAAGT
Statistics
Matches: 91, Mismatches: 13, Indels: 30
0.68 0.10 0.22
Matches are distributed among these distances:
17 14 0.15
18 10 0.11
19 21 0.23
20 22 0.24
21 10 0.11
22 14 0.15
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.29
Consensus pattern (20 bp):
AACATTCAAGTATATATCAC
Found at i:12628527 original size:19 final size:19
Alignment explanation
Indices: 12628469--12628568 Score: 100
Period size: 19 Copynumber: 5.2 Consensus size: 19
12628459 ATCACAATAC
12628469 TCATATAATCACATAACAT
1 TCATATAATCACATAACAT
*
12628488 TCAAGAATATATCAC--AACAT
1 TC-A-TATA-ATCACATAACAT
12628508 TCATATAATCACATAACAT
1 TCATATAATCACATAACAT
*
12628527 TCA-AGTATAT-ATCATAACAC
1 TCATA-TA-ATCA-CATAACAT
12628547 TCATATAATCACATAACAT
1 TCATATAATCACATAACAT
12628566 TCA
1 TCA
12628569 AGCATATATC
Statistics
Matches: 67, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
17 5 0.07
18 4 0.06
19 26 0.39
20 23 0.34
21 4 0.06
22 5 0.07
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (19 bp):
TCATATAATCACATAACAT
Found at i:12628588 original size:39 final size:39
Alignment explanation
Indices: 12628412--12628588 Score: 239
Period size: 39 Copynumber: 4.5 Consensus size: 39
12628402 ATTCACTTTT
* * * * *
12628412 AAGCATATGTCACATTACACATATAA-CTACGTAACATTT
1 AAGCATATATCACAATACTCATATAATC-ACATAACATTC
12628451 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * *
12628490 AAGAATATATCACAACATTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * *
12628529 AAGTATATATCATAACACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
12628568 AAGCATATATCACAATACTCA
1 AAGCATATATCACAATACTCA
12628589 AAGTCATGTT
Statistics
Matches: 123, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
39 122 0.99
40 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:12629109 original size:167 final size:167
Alignment explanation
Indices: 12628833--12629172 Score: 547
Period size: 167 Copynumber: 2.0 Consensus size: 167
12628823 AAATCATATA
* * *
12628833 ACATATAAGTAAGAACTCACAATCCTATAGCGTGCCAACTATATCCAACAGTTTCAAGAATCACA
1 ACATATAAGTAAGAACTCAAAATCCTATAGCGTACCAACTATATCCAACAGTTTCAAGAATCAAA
12628898 AGGCCAAAATATCTGTCATTAAACACACATATATTACTTACCGATTTAGC-ATTCACTATCACTG
66 AGGCCAAAATATCTGTCATTAAACACACATATATTACTTACCGATTTA-CTATTCACTATCACTG
12628962 CATAATTATCACTGTCACTTGGCATGTTTGACATGCCT
130 CATAATTATCACTGTCACTTGGCATGTTTGACATGCCT
* * * * *
12629000 ACATATAAGTGAGGACTCAAAATTCTATAGCGTACCAGCTATATCCAGCAGTTTCAAGAATCAAA
1 ACATATAAGTAAGAACTCAAAATCCTATAGCGTACCAACTATATCCAACAGTTTCAAGAATCAAA
* * * * *
12629065 AGGCCAAAATATCTTTCATTAAGCATACATATATTACTTACCGATTTACTGTTCACTATCATTGC
66 AGGCCAAAATATCTGTCATTAAACACACATATATTACTTACCGATTTACTATTCACTATCACTGC
12629130 ATAATTATCACTGTCACTTGGCATGTTTGACATGCCT
131 ATAATTATCACTGTCACTTGGCATGTTTGACATGCCT
12629167 ACATAT
1 ACATAT
12629173 GCACTTTCAC
Statistics
Matches: 159, Mismatches: 13, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
166 1 0.01
167 158 0.99
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (167 bp):
ACATATAAGTAAGAACTCAAAATCCTATAGCGTACCAACTATATCCAACAGTTTCAAGAATCAAA
AGGCCAAAATATCTGTCATTAAACACACATATATTACTTACCGATTTACTATTCACTATCACTGC
ATAATTATCACTGTCACTTGGCATGTTTGACATGCCT
Found at i:12630654 original size:20 final size:21
Alignment explanation
Indices: 12630626--12630675 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
12630616 GAAGACCTAG
12630626 GTATCAATACCT-T-GAGGCAT
1 GTATCAATACCTCTAGA-GCAT
*
12630646 GTATAAATACCTCTAGAGCAT
1 GTATCAATACCTCTAGAGCAT
12630667 GTATCAATA
1 GTATCAATA
12630676 TCTCATGAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 11 0.42
21 13 0.50
22 2 0.08
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (21 bp):
GTATCAATACCTCTAGAGCAT
Found at i:12630668 original size:21 final size:20
Alignment explanation
Indices: 12630626--12630675 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
12630616 GAAGACCTAG
12630626 GTATCAATACCTTGAGGCAT
1 GTATCAATACCTTGAGGCAT
*
12630646 GTATAAATACCTCT-AGAGCAT
1 GTATCAATACCT-TGAG-GCAT
12630667 GTATCAATA
1 GTATCAATA
12630676 TCTCATGAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (20 bp):
GTATCAATACCTTGAGGCAT
Found at i:12632937 original size:6 final size:5
Alignment explanation
Indices: 12632903--12632936 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
12632893 ATATGAAGGG
*
12632903 TTTCTT TTTCT TTTCT TTTCT TTTTT TTTCT TTT
1 TTTC-T TTTCT TTTCT TTTCT TTTCT TTTCT TTT
12632937 TTCGGTTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (5 bp):
TTTCT
Found at i:12633434 original size:56 final size:53
Alignment explanation
Indices: 12633356--12633474 Score: 150
Period size: 56 Copynumber: 2.2 Consensus size: 53
12633346 AGCTCAACAA
*
12633356 TTTTACTTCCCCACAAACCCCCAAACTTTTTTTTCCTTTTAGTTTTCCCCAAAAAC
1 TTTTACTTCCCCACAAACCCCCAAA-ATTTTTTTCCTTTT-GTTTTCCCC-AAAAC
* * * *
12633412 TTTTACTTCTCC-CAATCTCCCCAAAATTTTTTTCCTTTTGTTTTTCCCTAAAC
1 TTTTACTTCCCCACAAAC-CCCCAAAATTTTTTTCCTTTTGTTTTCCCCAAAAC
12633465 TTTTACTTCC
1 TTTTACTTCC
12633475 TTCTAAACCC
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
53 13 0.23
54 8 0.14
55 17 0.30
56 18 0.32
ACGTcount: A:0.21, C:0.32, G:0.02, T:0.45
Consensus pattern (53 bp):
TTTTACTTCCCCACAAACCCCCAAAATTTTTTTCCTTTTGTTTTCCCCAAAAC
Found at i:12639974 original size:14 final size:14
Alignment explanation
Indices: 12639955--12640000 Score: 65
Period size: 14 Copynumber: 3.1 Consensus size: 14
12639945 TATAAAAACC
12639955 TTCATTTTGTTATA
1 TTCATTTTGTTATA
12639969 TTCATTTTGTTATA
1 TTCATTTTGTTATA
12639983 TGTGTCATTTTGTTATA
1 --T-TCATTTTGTTATA
12640000 T
1 T
12640001 GTTATGTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 14 0.48
15 1 0.03
16 1 0.03
17 13 0.45
ACGTcount: A:0.20, C:0.07, G:0.11, T:0.63
Consensus pattern (14 bp):
TTCATTTTGTTATA
Found at i:12639992 original size:17 final size:16
Alignment explanation
Indices: 12639955--12640003 Score: 75
Period size: 17 Copynumber: 3.1 Consensus size: 16
12639945 TATAAAAACC
12639955 TTCATTTTGTTATA--
1 TTCATTTTGTTATATG
12639969 TTCATTTTGTTATATG
1 TTCATTTTGTTATATG
12639985 TGTCATTTTGTTATATG
1 T-TCATTTTGTTATATG
12640002 TT
1 TT
12640004 ATGTTAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 14 0.44
16 2 0.06
17 16 0.50
ACGTcount: A:0.18, C:0.06, G:0.12, T:0.63
Consensus pattern (16 bp):
TTCATTTTGTTATATG
Found at i:12640054 original size:41 final size:41
Alignment explanation
Indices: 12640009--12640090 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
12639999 ATGTTATGTT
*
12640009 AATTTATTTTGTATATGGCTATGAGATATGGCCATTATTAA
1 AATTTATTTTGTATATGGCTATGAGATATGACCATTATTAA
12640050 AATTTATTTTGTATATGGCTATGAGATATGACCATTATTAA
1 AATTTATTTTGTATATGGCTATGAGATATGACCATTATTAA
12640091 TGTGGGTTGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (41 bp):
AATTTATTTTGTATATGGCTATGAGATATGACCATTATTAA
Found at i:12641475 original size:21 final size:21
Alignment explanation
Indices: 12641413--12641519 Score: 72
Period size: 21 Copynumber: 5.1 Consensus size: 21
12641403 CCGAAGGCTA
* * *
12641413 AACAGAAGCACATAAGTGTTA
1 AACAGAAGCCCATAAGAGTTG
* * *
12641434 AACAGAAACCCGTAAGGGTTG
1 AACAGAAGCCCATAAGAGTTG
*
12641455 AACAGAAGCTCATAAGAGTTG
1 AACAGAAGCCCATAAGAGTTG
* * *
12641476 AAC-GGAGACCCATAAGACTTA
1 AACAGAAG-CCCATAAGAGTTG
* ** *
12641497 AACAAAAGCTGAGAAGAGTTG
1 AACAGAAGCCCATAAGAGTTG
12641518 AA
1 AA
12641520 TGGAAACCTA
Statistics
Matches: 64, Mismatches: 20, Indels: 4
0.73 0.23 0.05
Matches are distributed among these distances:
20 3 0.05
21 59 0.92
22 2 0.03
ACGTcount: A:0.45, C:0.16, G:0.23, T:0.16
Consensus pattern (21 bp):
AACAGAAGCCCATAAGAGTTG
Found at i:12644001 original size:52 final size:52
Alignment explanation
Indices: 12643920--12644023 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
12643910 ACTGGGATAA
12643920 AATGTCCCGACTTAGTCAATCTGTCAACAATCACCCAAATCGAATCTTTCTT
1 AATGTCCCGACTTAGTCAATCTGTCAACAATCACCCAAATCGAATCTTTCTT
*
12643972 AATGTCCCGACTTAGTCAATCTGTTAACAATCACCCAAATCGAATCTTTCTT
1 AATGTCCCGACTTAGTCAATCTGTCAACAATCACCCAAATCGAATCTTTCTT
12644024 TCTTGGAGTC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.32
Consensus pattern (52 bp):
AATGTCCCGACTTAGTCAATCTGTCAACAATCACCCAAATCGAATCTTTCTT
Found at i:12648610 original size:21 final size:21
Alignment explanation
Indices: 12648586--12648644 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
12648576 ATAAGTGCTA
*
12648586 AACAGAAACCCGTAAGGGTTG
1 AACAGAAACCCATAAGGGTTG
* * *
12648607 AACAGAAGCTCATAAGAGTTG
1 AACAGAAACCCATAAGGGTTG
*
12648628 AACGGAAACCCATAAGG
1 AACAGAAACCCATAAGG
12648645 CTTAAACAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.42, C:0.19, G:0.25, T:0.14
Consensus pattern (21 bp):
AACAGAAACCCATAAGGGTTG
Found at i:12648622 original size:42 final size:42
Alignment explanation
Indices: 12648568--12648692 Score: 128
Period size: 42 Copynumber: 3.0 Consensus size: 42
12648558 AAGGCTAAAT
* * *
12648568 AGAAGCAT-ATAAGTGCTAAACAGAAACCCGTAAGGGTTGAAC
1 AGAAGC-TCATAAGTGCTGAACGGAAACCCATAAGGGTTGAAC
* * * *
12648610 AGAAGCTCATAAGAGTTGAACGGAAACCCATAAGGCTTAAAC
1 AGAAGCTCATAAGTGCTGAACGGAAACCCATAAGGGTTGAAC
* * *
12648652 AAAAGCTCAGAA-TAGCTGAATGGAAACCCATAAGGGTTGAA
1 AGAAGCTCATAAGT-GCTGAACGGAAACCCATAAGGGTTGAA
12648693 TGGGAACTCA
Statistics
Matches: 67, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
41 1 0.01
42 66 0.99
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (42 bp):
AGAAGCTCATAAGTGCTGAACGGAAACCCATAAGGGTTGAAC
Found at i:12664889 original size:29 final size:29
Alignment explanation
Indices: 12664857--12664991 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
12664847 ATACCCTCCG
** * *
12664857 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
12664886 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
12664915 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
12664944 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
12664973 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
12664992 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:12664924 original size:58 final size:58
Alignment explanation
Indices: 12664803--12664992 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
12664793 TACTCGATTT
* * * *** *
12664803 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
12664861 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
12664919 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
12664977 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
12664993 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:12668546 original size:44 final size:44
Alignment explanation
Indices: 12668483--12668572 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
12668473 TTGTGAAGTA
12668483 TGTTTTGTGATGTATATATATTTAGCCATCAGCTAATTTGAGTT
1 TGTTTTGTGATGTATATATATTTAGCCATCAGCTAATTTGAGTT
12668527 TGTTTTGTGATGTATATATATTTAGCCATCAGCTAATTTGAGTT
1 TGTTTTGTGATGTATATATATTTAGCCATCAGCTAATTTGAGTT
12668571 TG
1 TG
12668573 ATCTTATGGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.24, C:0.09, G:0.19, T:0.48
Consensus pattern (44 bp):
TGTTTTGTGATGTATATATATTTAGCCATCAGCTAATTTGAGTT
Found at i:12672134 original size:30 final size:29
Alignment explanation
Indices: 12672100--12672163 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
12672090 ATGATTCGGA
12672100 AGCTTTGGCACTAAGTGTGAGATTTAAACT
1 AGCTTTGGCACTAAGTGTGAGATTT-AACT
*
12672130 AGCTTTGGCACTAAGTGTGCGATTTAACT
1 AGCTTTGGCACTAAGTGTGAGATTTAACT
12672159 AGCTT
1 AGCTT
12672164 CAGCTACTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.27
30 24 0.73
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGAGATTTAACT
Found at i:12683508 original size:68 final size:68
Alignment explanation
Indices: 12683304--12683515 Score: 237
Period size: 68 Copynumber: 3.1 Consensus size: 68
12683294 AACCTTCAAA
* * * *
12683304 ACAACTAGCGGACCTACGCTCCCAACTGATACTCTAAGAGCTCATAAAGTTAAGCTCACA-ACTC
1 ACAACTAGCGGACCTACGCTCCCAGCTGATACTCTAAGAGCTCACAGAGTTAAGCTCATAGA-TC
12683368 CAAC
65 CAAC
* * * * * * * *
12683372 ACAGCTAGCGGACCTACGCTCCCGGCTAATACTCTAAAAGCTCACAGAGTTAAACTCGTAGCTTC
1 ACAACTAGCGGACCTACGCTCCCAGCTGATACTCTAAGAGCTCACAGAGTTAAGCTCATAGATCC
12683437 AAC
66 AAC
* * * * * *
12683440 ATAACTAGCGGACCTACGCTCTCAGCTGAGACTCTAAGAGCTCGCGGAGCTAAGCTCATAGATCC
1 ACAACTAGCGGACCTACGCTCCCAGCTGATACTCTAAGAGCTCACAGAGTTAAGCTCATAGATCC
12683505 AAC
66 AAC
*
12683508 ACATCTAG
1 ACAACTAG
12683516 GTAATTGATT
Statistics
Matches: 115, Mismatches: 28, Indels: 2
0.79 0.19 0.01
Matches are distributed among these distances:
68 115 1.00
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.20
Consensus pattern (68 bp):
ACAACTAGCGGACCTACGCTCCCAGCTGATACTCTAAGAGCTCACAGAGTTAAGCTCATAGATCC
AAC
Found at i:12689115 original size:32 final size:32
Alignment explanation
Indices: 12689073--12689144 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
12689063 CCTCTGCTAG
* * *
12689073 GTATCAATCTGGTATCAATACTTTTCATAAAA
1 GTATCGATCTGGTATCAATAATTTCCATAAAA
* *
12689105 GTATCGATCTGGTATCGATAATTTCCTTAAAA
1 GTATCGATCTGGTATCAATAATTTCCATAAAA
12689137 GTATCGAT
1 GTATCGAT
12689145 AATTCTTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (32 bp):
GTATCGATCTGGTATCAATAATTTCCATAAAA
Found at i:12690536 original size:31 final size:31
Alignment explanation
Indices: 12690498--12690560 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
12690488 CTTTTCATAA
12690498 TTCATATTTCATAACACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
**
12690529 TTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
12690560 T
1 T
12690561 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTCATATTTCATAACACTGGGCCGAAGCCTT
Found at i:12690802 original size:24 final size:24
Alignment explanation
Indices: 12690751--12690870 Score: 143
Period size: 24 Copynumber: 5.0 Consensus size: 24
12690741 GCTTTATCAT
*
12690751 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
12690776 ATAACTGGGGAAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
*
12690800 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
12690824 ATAATTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
12690848 ATAACTGAGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
12690871 TCACTTCATC
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
24 71 0.86
25 12 0.14
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:12690946 original size:20 final size:20
Alignment explanation
Indices: 12690921--12690980 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
12690911 TATGATTACC
12690921 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
12690941 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
12690961 TCATGTGCATCTCATACATA
1 TCATGTGCATATCATACATA
12690981 CCATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:12691055 original size:25 final size:25
Alignment explanation
Indices: 12691023--12691070 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
12691013 ATACATAAAC
* * *
12691023 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
12691048 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
12691071 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:12698883 original size:24 final size:24
Alignment explanation
Indices: 12698832--12698974 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
12698822 GCTTTATCAT
*
12698832 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
12698857 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
12698881 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
* *
12698904 ATAACTGAGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
12698928 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
12698952 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
12698975 TCACTTCATC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 22 0.20
24 75 0.69
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:12698921 original size:47 final size:48
Alignment explanation
Indices: 12698832--12698973 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 48
12698822 GCTTTATCAT
* *
12698832 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
* **
12698881 ATAACTGGGGCATAAGCCCTTTT-ATAACTGAGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
12698928 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
12698974 TTCACTTCAT
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
47 43 0.51
48 30 0.35
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:12698932 original size:71 final size:72
Alignment explanation
Indices: 12698831--12698974 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
12698821 TGCTTTATCA
*
12698831 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
12698896 GCCCTTT
66 GCCCTTT
* * **
12698903 TATAACT-GAGGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
12698966 AGCCCTTT
65 AGCCCTTT
12698974 T
1 T
12698975 TCACTTCATC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 55 0.83
72 11 0.17
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:12699050 original size:20 final size:20
Alignment explanation
Indices: 12699025--12699084 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
12699015 TATGATTACC
*
12699025 TCATGTGCATAACATACATA
1 TCATGTGCATATCATACATA
*
12699045 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
12699065 TCATGTGCATCTCATACATA
1 TCATGTGCATATCATACATA
12699085 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:12699159 original size:25 final size:25
Alignment explanation
Indices: 12699127--12699174 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
12699117 ATACATAAAC
* * *
12699127 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
12699152 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
12699175 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:12711535 original size:5 final size:5
Alignment explanation
Indices: 12711525--12711556 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
12711515 TGTGTGTTCA
12711525 TTATT TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TT
12711557 TTCATAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:12716975 original size:22 final size:22
Alignment explanation
Indices: 12716947--12716993 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
12716937 AAATAAATTA
12716947 AACTTAATTAAATTCTTTTCTC
1 AACTTAATTAAATTCTTTTCTC
12716969 AACTTAATTAAATTCTTTTCTC
1 AACTTAATTAAATTCTTTTCTC
12716991 AAC
1 AAC
12716994 CTATTTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (22 bp):
AACTTAATTAAATTCTTTTCTC
Found at i:12718100 original size:31 final size:31
Alignment explanation
Indices: 12718065--12718125 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
12718055 TCAACAACCG
* *
12718065 AGTGACTTAAATAAAAATTTTTGAATAGTTA
1 AGTGACTTAAATAAAAACTTTGGAATAGTTA
* *
12718096 AGTGATTTAAATGAAAACTTTGGAATAGTT
1 AGTGACTTAAATAAAAACTTTGGAATAGTT
12718126 TGGTGACCGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTGGAATAGTTA
Found at i:12721717 original size:34 final size:34
Alignment explanation
Indices: 12721657--12721742 Score: 120
Period size: 34 Copynumber: 2.5 Consensus size: 34
12721647 CCATCTCAGT
* *
12721657 ACAGTATCAAATATGGAGTAGGGCCTTAGCCCATC
1 ACAGTATC-AGTATGCAGTAGGGCCTTAGCCCATC
*
12721692 ACAGTATCAGTATGCATTAGGGCCTTAGCCCATC
1 ACAGTATCAGTATGCAGTAGGGCCTTAGCCCATC
*
12721726 ATAGTATCAGTA-GCAGT
1 ACAGTATCAGTATGCAGT
12721743 CATGCAGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 4 0.09
34 34 0.74
35 8 0.17
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (34 bp):
ACAGTATCAGTATGCAGTAGGGCCTTAGCCCATC
Found at i:12722221 original size:18 final size:17
Alignment explanation
Indices: 12722198--12722233 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
12722188 CATGTGGCCT
12722198 GCCCGTATGGGCCCACAC
1 GCCCGTAT-GGCCCACAC
*
12722216 GCCCGTGTGGCCCACAC
1 GCCCGTATGGCCCACAC
12722233 G
1 G
12722234 GCCTAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.14, C:0.44, G:0.31, T:0.11
Consensus pattern (17 bp):
GCCCGTATGGCCCACAC
Found at i:12724222 original size:2 final size:2
Alignment explanation
Indices: 12724215--12724245 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
12724205 TCATTAGACC
12724215 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12724246 CCAAATATAC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12724955 original size:42 final size:43
Alignment explanation
Indices: 12724846--12725002 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
12724836 AGCTCGTACA
* *** *
12724846 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCGAATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACAAAATCAAATATCG
* *
12724889 ATGCCACTGTCCCAGATAGGGTCTTACACAAAATCAAATAT-G
1 ATGCCACTGTCCCAGACATGGTCTTACACAAAATCAAATATCG
* * *
12724931 ATGCCGA-TGTCCCAGACATAGTCTTACACGTAAATCTCAA-ATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACAC-AAAATC-AAATATCG
*
12724975 ATGCCAAC-GTCCCAGACGTGGTCTTACA
1 ATGCC-ACTGTCCCAGACATGGTCTTACA
12725003 TGAAATAACA
Statistics
Matches: 93, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
42 27 0.29
43 39 0.42
44 27 0.29
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACACAAAATCAAATATCG
Found at i:12731631 original size:34 final size:34
Alignment explanation
Indices: 12731590--12731677 Score: 133
Period size: 34 Copynumber: 2.6 Consensus size: 34
12731580 GCAGTAAGGT
*
12731590 CTTAGCCCATCATAGTATCAGTATGCATTAGGG-
1 CTTAGCCCATCATAGTATCAGTACGCATTAGGGC
*
12731623 CTTCAGCCCATCACAGTATCAGTACGCATTAGGGC
1 CTT-AGCCCATCATAGTATCAGTACGCATTAGGGC
*
12731658 CTTAGACCATCATAGTATCA
1 CTTAGCCCATCATAGTATCA
12731678 ATAGCAGTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
33 3 0.06
34 43 0.88
35 3 0.06
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (34 bp):
CTTAGCCCATCATAGTATCAGTACGCATTAGGGC
Found at i:12747241 original size:44 final size:44
Alignment explanation
Indices: 12747178--12747265 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
12747168 TACACAGAAA
12747178 AATGCCAATATACAGGAATACTATTAAGATCAGCTGAAAATGAG
1 AATGCCAATATACAGGAATACTATTAAGATCAGCTGAAAATGAG
12747222 AATGCCAATATACAGGAATACTATTAAGATCAGCTGAAAATGAG
1 AATGCCAATATACAGGAATACTATTAAGATCAGCTGAAAATGAG
12747266 TGTCGACTGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.23
Consensus pattern (44 bp):
AATGCCAATATACAGGAATACTATTAAGATCAGCTGAAAATGAG
Found at i:12757378 original size:16 final size:17
Alignment explanation
Indices: 12757347--12757400 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
12757337 ACAGAACCCG
* *
12757347 AATACAAAAACAAAAAA
1 AATACAAAATCGAAAAA
*
12757364 AATACAAAA-GGAAAAA
1 AATACAAAATCGAAAAA
* *
12757380 AAAAGAAAATCGAAAAA
1 AATACAAAATCGAAAAA
12757397 AATA
1 AATA
12757401 TGTTGAAAGC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 12 0.40
17 18 0.60
ACGTcount: A:0.78, C:0.07, G:0.07, T:0.07
Consensus pattern (17 bp):
AATACAAAATCGAAAAA
Found at i:12757686 original size:22 final size:23
Alignment explanation
Indices: 12757642--12757686 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
12757632 AGGAAATAAG
*
12757642 AATGAGAAGATAAAAGAAAAGGA
1 AATGAGAACATAAAAGAAAAGGA
*
12757665 AATGAGAACATCAAA-AAAAGGA
1 AATGAGAACATAAAAGAAAAGGA
12757687 TTTAGTTAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.64, C:0.04, G:0.22, T:0.09
Consensus pattern (23 bp):
AATGAGAACATAAAAGAAAAGGA
Found at i:12758034 original size:35 final size:31
Alignment explanation
Indices: 12757984--12758074 Score: 83
Period size: 35 Copynumber: 2.7 Consensus size: 31
12757974 TAGGCTTGAA
*
12757984 TAAAAAAATGGGATTAAAGGGTTTCGATCATGGTT
1 TAAAAAAA--GGATTAAAGGGTTT-GATCA-GGGT
* * *
12758019 TGAAAAAAAGAGATTAGAGGGCTTTGTTTAGGGT
1 T-AAAAAAAG-GATTAAAGGG-TTTGATCAGGGT
12758053 TAAAAAAAGGATTAAAGGGTTT
1 TAAAAAAAGGATTAAAGGGTTT
12758075 TGTTTGGGGT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
31 3 0.06
32 9 0.19
33 8 0.17
34 5 0.10
35 13 0.27
36 10 0.21
ACGTcount: A:0.40, C:0.03, G:0.27, T:0.30
Consensus pattern (31 bp):
TAAAAAAAGGATTAAAGGGTTTGATCAGGGT
Found at i:12758089 original size:33 final size:34
Alignment explanation
Indices: 12757984--12758093 Score: 109
Period size: 32 Copynumber: 3.2 Consensus size: 34
12757974 TAGGCTTGAA
* * * *
12757984 TAAAAAAATGGGATTAAAGGG-TTTCGATCATGGTT
1 TAAAAAAA-GAGATTAAAGGGCTTT-GTTTAGGGTT
*
12758019 TGAAAAAAAGAGATTAGAGGGCTTTGTTTAGGG-T
1 T-AAAAAAAGAGATTAAAGGGCTTTGTTTAGGGTT
* *
12758053 TAAAAAAAG-GATTAAAGGGTTTTGTTTGGGGTT
1 TAAAAAAAGAGATTAAAGGGCTTTGTTTAGGGTT
12758086 TAAAAAAA
1 TAAAAAAA
12758094 TATCAAAAGA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
32 19 0.30
33 17 0.27
34 2 0.03
35 16 0.25
36 10 0.16
ACGTcount: A:0.39, C:0.03, G:0.27, T:0.31
Consensus pattern (34 bp):
TAAAAAAAGAGATTAAAGGGCTTTGTTTAGGGTT
Found at i:12758136 original size:37 final size:35
Alignment explanation
Indices: 12758041--12758142 Score: 113
Period size: 37 Copynumber: 2.9 Consensus size: 35
12758031 ATTAGAGGGC
* *
12758041 TTTGTTTAGGG-TTAAAAAAAGGAT-TAAAG-GG-T
1 TTTGTTTAGGGTTTAAAAAAA-AATCAAAAGAGGAT
* *
12758073 TTTGTTTGGGGTTTAAAAAAATATCAAAAGAGGAT
1 TTTGTTTAGGGTTTAAAAAAAAATCAAAAGAGGAT
12758108 TTTGTTTAGGGTCTTAACAAAAAAATCAAAAGAGG
1 TTTGTTTAGGGT-TTAA-AAAAAAATCAAAAGAGG
12758143 TAATTTTTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
32 12 0.20
33 13 0.22
34 2 0.03
35 12 0.20
36 4 0.07
37 16 0.27
ACGTcount: A:0.40, C:0.04, G:0.24, T:0.32
Consensus pattern (35 bp):
TTTGTTTAGGGTTTAAAAAAAAATCAAAAGAGGAT
Found at i:12758632 original size:14 final size:13
Alignment explanation
Indices: 12758610--12758659 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
12758600 AACTATTTAG
*
12758610 TATTTTTGTAATGA
1 TATTATTGTAAT-A
*
12758624 TATTATTGTACTA
1 TATTATTGTAATA
12758637 TATTTATTGTAATA
1 TA-TTATTGTAATA
12758651 T-TTATTGTA
1 TATTATTGTA
12758660 TTACATTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 8 0.25
13 3 0.09
14 21 0.66
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (13 bp):
TATTATTGTAATA
Found at i:12758653 original size:12 final size:12
Alignment explanation
Indices: 12758610--12758659 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
12758600 AACTATTTAG
12758610 TATTT-TTGTAA
1 TATTTATTGTAA
12758621 TGATATTATTGTACTA
1 T-AT-TTATTGTA--A
12758637 TATTTATTGTAA
1 TATTTATTGTAA
12758649 TATTTATTGTA
1 TATTTATTGTA
12758660 TTACATTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 1 0.03
12 14 0.41
13 2 0.06
14 13 0.38
15 2 0.06
16 2 0.06
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (12 bp):
TATTTATTGTAA
Found at i:12758658 original size:26 final size:28
Alignment explanation
Indices: 12758610--12758668 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 28
12758600 AACTATTTAG
12758610 TATTT-TTGTAATGATATTATTGTACTA
1 TATTTATTGTAATGATATTATTGTACTA
*
12758637 TATTTATTGTAAT-AT-TTATTGTATTA
1 TATTTATTGTAATGATATTATTGTACTA
*
12758663 CATTTA
1 TATTTA
12758669 GGTGATTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 15 0.52
27 7 0.24
28 7 0.24
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (28 bp):
TATTTATTGTAATGATATTATTGTACTA
Found at i:12760397 original size:50 final size:51
Alignment explanation
Indices: 12760145--12760462 Score: 208
Period size: 46 Copynumber: 6.7 Consensus size: 51
12760135 TTATTTGTGT
* * * *
12760145 GCTAGTGTAAGA-CATGTCTGGAACAT-GCATCAGC--CACAT-TATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACAGATATGTGAGA
* * *
12760191 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTA-AG--A--CGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC--TACAGATATGTGAGA
* * *
12760239 GCTAGTGTAAGA-TATGTCTAGGACAT-GCATCGACCT-CGAGATA--T-A-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG-GCTAC-AGATATGTGAGA
* * *
12760285 GCCAGTGTAACA-CATGTCTGGGACAT-GCATCGGCTACA-AGATGT--G-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACAGATATGTGAGA
*
12760330 TC-AGTGTAAGACCATGTCTGGGACATGGCATCGG-TACAGATATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACAGATATGTGAGA
* * * *
12760379 GCTAGTGTAAAACCATGTCTGGGACATGGCGTCGGCCT-C-GAT-TTTGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTACAGATATGTGAGA
*
12760428 G-TCAGTGTAAGACCATGTTTGGGACATGGCATCGG
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGG
12760463 TATTATACCC
Statistics
Matches: 219, Mismatches: 27, Indels: 49
0.74 0.09 0.17
Matches are distributed among these distances:
44 10 0.05
45 23 0.11
46 61 0.28
47 27 0.12
48 26 0.12
49 36 0.16
50 33 0.15
51 2 0.01
52 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (51 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACAGATATGTGAGA
Found at i:12762737 original size:35 final size:35
Alignment explanation
Indices: 12762697--12762767 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
12762687 GAGAAAGCAT
*
12762697 GTAAGGCCGAGGAATTGGCCAAAGAGAAGAGAAAA
1 GTAAGGCCGAGGAATTAGCCAAAGAGAAGAGAAAA
12762732 GTAAGGCCGAGGAATTAGCCAAAGAGAAGAGAAAA
1 GTAAGGCCGAGGAATTAGCCAAAGAGAAGAGAAAA
12762767 G
1 G
12762768 CTAAAATTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.11, G:0.34, T:0.08
Consensus pattern (35 bp):
GTAAGGCCGAGGAATTAGCCAAAGAGAAGAGAAAA
Found at i:12765503 original size:50 final size:51
Alignment explanation
Indices: 12765384--12765516 Score: 153
Period size: 52 Copynumber: 2.6 Consensus size: 51
12765374 GTTGTGAGAA
* **
12765384 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAAATGG-TTTAGGT
* * *
12765436 CACGTGTGTAGTACTAAGTGCAGGCTACTACT-TGTACCAGATGG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTA-TGTGTACAAAATGGTTTAGGT
* * *
12765486 CGCATGTGTAGTACTAAGTACAGACTACTAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTAT
12765517 ACGTACCCGA
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
49 1 0.01
50 32 0.46
52 36 0.51
53 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAAATGGTTTAGGT
Found at i:12765615 original size:51 final size:51
Alignment explanation
Indices: 12765545--12765666 Score: 133
Period size: 51 Copynumber: 2.4 Consensus size: 51
12765535 ATCACATGTC
* * * *
12765545 TGGTACTAAGTGCAAGCCACTATGTGTAA-AAGATAGCCTTGGTC-ACAAGTG
1 TGGTACTATGTGCAGGCCACTATGTG-AAGAAGATAG-CTTGGACTACAAGGG
* * *
12765596 TGGTACTATGTG-AGGGCCACTTTGTGAAGAAGGTAGCTTTGACTACAAGGG
1 TGGTACTATGTGCA-GGCCACTATGTGAAGAAGATAGCTTGGACTACAAGGG
12765647 TGGTACTATGTGCAGGCCAC
1 TGGTACTATGTGCAGGCCAC
12765667 CGGGCATCCG
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
50 8 0.13
51 51 0.85
52 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (51 bp):
TGGTACTATGTGCAGGCCACTATGTGAAGAAGATAGCTTGGACTACAAGGG
Found at i:12777580 original size:33 final size:33
Alignment explanation
Indices: 12777538--12777603 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
12777528 TACCTTCAGC
12777538 CCCATTACCACCGCAGTACTCCACTCCTCTCGG
1 CCCATTACCACCGCAGTACTCCACTCCTCTCGG
*
12777571 CCCATTACCACTGCAGTACTCCACTCCTCTCGG
1 CCCATTACCACCGCAGTACTCCACTCCTCTCGG
12777604 GTAAACGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.18, C:0.47, G:0.12, T:0.23
Consensus pattern (33 bp):
CCCATTACCACCGCAGTACTCCACTCCTCTCGG
Found at i:12785486 original size:39 final size:39
Alignment explanation
Indices: 12785368--12785550 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
12785358 TCGTTCAAAC
* * ** * **
12785368 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
12785408 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
12785448 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
12785487 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
12785526 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
12785551 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:12788418 original size:29 final size:28
Alignment explanation
Indices: 12788385--12788515 Score: 145
Period size: 29 Copynumber: 4.6 Consensus size: 28
12788375 GTGACGAGAT
12788385 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCT-GAAATATA
*
12788414 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCT-GAAATATA
* ***
12788443 TGGCACTAAGTGTGCGAGCTGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGAAATATA
* * * **
12788471 TGGCACTATGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGAAAT-ATA
12788500 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
12788516 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 25 0.28
29 63 0.72
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGTGCTGAAATATA
Found at i:12788485 original size:57 final size:58
Alignment explanation
Indices: 12788385--12788516 Score: 151
Period size: 57 Copynumber: 2.3 Consensus size: 58
12788375 GTGACGAGAT
* * * *
12788385 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTGGAAAGATATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * * * * *
12788443 TGGCACTAAGTGTGCGAGCT-GAAGGGTATGGCACTATGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTGGAAAGATATGGCACTAAGTGTGCAGGCTGAAATCACA
12788500 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
12788517 AATCGAGTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
56 4 0.06
57 40 0.63
58 19 0.30
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.26
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTGGAAAGATATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:12791787 original size:40 final size:40
Alignment explanation
Indices: 12791742--12791909 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
12791732 CGGAATACAA
*
12791742 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
12791782 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* **
12791822 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
12791862 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTATTAGC
12791902 CCGGATAT
1 CCGGATAT
12791910 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
Found at i:12791882 original size:80 final size:80
Alignment explanation
Indices: 12791742--12791909 Score: 232
Period size: 80 Copynumber: 2.1 Consensus size: 80
12791732 CGGAATACAA
* * *
12791742 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
*
12791807 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
12791822 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACG--ACTAGCACAAA
*
12791885 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
12791902 CCGGATAT
1 CCGGATAT
12791910 CATTCAATTG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 75 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:12795811 original size:93 final size:93
Alignment explanation
Indices: 12795652--12795823 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
12795642 GCCCATAAGT
* * *
12795652 GAACTCGGACTCAACTTAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
12795717 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
12795745 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
12795810 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
12795824 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:12795819 original size:46 final size:46
Alignment explanation
Indices: 12795644--12795819 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
12795634 TGTAACCTGC
* * *
12795644 CCATAAGTGAACTCGGACTCAACTTAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
12795690 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
12795736 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
12795783 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
12795820 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:12797699 original size:40 final size:40
Alignment explanation
Indices: 12797572--12797701 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
12797562 ATGCTGGAAA
* *
12797572 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
12797612 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
12797652 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
12797692 TTATATCCGG
1 TTATATCCGG
12797702 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:12805684 original size:40 final size:40
Alignment explanation
Indices: 12805557--12805686 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
12805547 ATGCTGGAAA
* *
12805557 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
12805597 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
12805637 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
12805677 TTATATCCGG
1 TTATATCCGG
12805687 TTGTAGTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:12808325 original size:136 final size:135
Alignment explanation
Indices: 12808152--12808424 Score: 420
Period size: 136 Copynumber: 2.0 Consensus size: 135
12808142 TTATGCATAA
* * *
12808152 AATTTCTTCACGAAATTTTCACACAATCATGAAATCATATCATAGACCTCAAAATAATCATAAAA
1 AATTTCATCACGAAATTTTCACACAATCATGAAATCATATCATAAACATCAAAATAATCATAAAA
*
12808217 TAATTATTTCTAGCTCGGATTTTGTGGTCACGAAACCGCTATTCCGACTAGGCCCAAAATCAGGA
66 TAATTATTTCTAGCTCGGATTTT-TGGTCACGAAACCACTATTCCGACTAGGCCCAAAATCAGGA
12808282 TATTAC
130 TATTAC
* * *
12808288 AATTTCATCACGAAATTTTCATACAATCATGCAATCATATCATAAACATCAAAATAATTATAAAA
1 AATTTCATCACGAAATTTTCACACAATCATGAAATCATATCATAAACATCAAAATAATCATAAAA
* * * * * *
12808353 TAATTATTTCTATCTTGGATTTTTGGTCACGAAACCACTATTCCGATTAGGCCCTAATTCGGGAT
66 TAATTATTTCTAGCTCGGATTTTTGGTCACGAAACCACTATTCCGACTAGGCCCAAAATCAGGAT
12808418 ATTAC
131 ATTAC
12808423 AA
1 AA
12808425 CCACAACAAT
Statistics
Matches: 124, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
135 44 0.35
136 80 0.65
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (135 bp):
AATTTCATCACGAAATTTTCACACAATCATGAAATCATATCATAAACATCAAAATAATCATAAAA
TAATTATTTCTAGCTCGGATTTTTGGTCACGAAACCACTATTCCGACTAGGCCCAAAATCAGGAT
ATTAC
Done.