Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 41 of 345
Found at i:11996424 original size:37 final size:37
Alignment explanation
Indices: 11996374--11996447 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
11996364 ATTAAGGAAG
11996374 AAGATAGCTGAAATCGTTGCATATGGACATAAATTTT
1 AAGATAGCTGAAATCGTTGCATATGGACATAAATTTT
11996411 AAGATAGCTGAAATCGTTGCATATGGACATAAATTTT
1 AAGATAGCTGAAATCGTTGCATATGGACATAAATTTT
11996448 CTTTTAATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (37 bp):
AAGATAGCTGAAATCGTTGCATATGGACATAAATTTT
Found at i:11998406 original size:18 final size:18
Alignment explanation
Indices: 11998380--11998421 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
11998370 GAAAAGTGTT
*
11998380 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
11998398 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
11998416 -TTATAT
1 TTTATAT
11998422 TTTAAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:11998496 original size:22 final size:20
Alignment explanation
Indices: 11998458--11998497 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
11998448 ATGACTTATT
11998458 TATAAATAAATCAAATTAAA
1 TATAAATAAATCAAATTAAA
*
11998478 TATAGAATAATATTAAATTA
1 TATA-AATAA-ATCAAATTA
11998498 TTAAGCTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 5 0.29
22 8 0.47
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (20 bp):
TATAAATAAATCAAATTAAA
Found at i:11999978 original size:21 final size:21
Alignment explanation
Indices: 11999952--11999993 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
11999942 AACATATAAA
*
11999952 TTGTCTCTCTTGCAAGAAGTT
1 TTGTCTCTCTTGCAAAAAGTT
11999973 TTGTCTCTCTTGCAAAAAGTT
1 TTGTCTCTCTTGCAAAAAGTT
11999994 CAGGATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (21 bp):
TTGTCTCTCTTGCAAAAAGTT
Found at i:12001402 original size:18 final size:18
Alignment explanation
Indices: 12001374--12001458 Score: 81
Period size: 18 Copynumber: 4.8 Consensus size: 18
12001364 CGAATGAGCA
12001374 AATAGATATTAATAATGAG
1 AATA-ATATTAATAATGAG
12001393 AATAATATTAATAATGAG
1 AATAATATTAATAATGAG
*
12001411 CAAATAA-ATTAA-AA--AA
1 --AATAATATTAATAATGAG
* *
12001427 AAT-GTGTTAATAATGAG
1 AATAATATTAATAATGAG
12001444 AATAATATTAATAAT
1 AATAATATTAATAAT
12001459 AAGAGAAATT
Statistics
Matches: 53, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
14 7 0.13
15 2 0.04
16 1 0.02
17 4 0.08
18 25 0.47
19 9 0.17
20 5 0.09
ACGTcount: A:0.56, C:0.01, G:0.11, T:0.32
Consensus pattern (18 bp):
AATAATATTAATAATGAG
Found at i:12001700 original size:3 final size:3
Alignment explanation
Indices: 12001694--12002114 Score: 130
Period size: 3 Copynumber: 141.7 Consensus size: 3
12001684 TACTACTACC
* * * * *
12001694 AAT AAT AAT AAT AGTT AA- AAA AAT AAT AAT ACT AGT AAT AGT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * ** * * *
12001739 TAC AAC AAT GAT AAT AGC AAT AA- AAT AA- GAT GAT AAT AAT AAT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
12001785 AAT AAT AAT AA- AAGT AA- AA- AAT AA- AAT AGT AAT AAT AGT AAA
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** * * * *
12001827 AAT AAT AAT AGC AAT AAT AAGT -AT ATT AAT AAT AGT AAG AAT AAC
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
*
12001872 AAT AAT ACA- AAT AAT AAT ATAT ATAT GAAT AAT AAT AGTT AGA- AAT
1 AAT AAT A-AT AAT AAT AAT A-AT A-AT -AAT AAT AAT A-AT A-AT AAT
* ** * *
12001918 AA- AA- AAT AAT AGA- AGT AAT AAT AAT AAT GGT -AT TAG AAT AA-
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** *
12001959 AAT AA- ATAT AAGT ACA- AGT -AT AAT AAT AAT AAT GGT AAT AAA AAT
1 AAT AAT A-AT AA-T A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
12002004 AAA AAT AAT AGT AAT AAT AAT ACGTT AAGT TAT AAT AGT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT A--AT AA-T AAT AAT AAT AAT AAT AAT
* * * * *
12002051 AAA AAT TAT AAT AAT AAA AAT -AT ATT ATAT AAT AAT AGT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
*
12002095 AAT AAT AGT AA- ATAT AAT AA
1 AAT AAT AAT AAT A-AT AAT AA
12002115 CATTAAACCA
Statistics
Matches: 302, Mismatches: 80, Indels: 72
0.67 0.18 0.16
Matches are distributed among these distances:
2 32 0.11
3 240 0.79
4 26 0.09
5 4 0.01
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:12002052 original size:47 final size:47
Alignment explanation
Indices: 12001984--12002099 Score: 135
Period size: 47 Copynumber: 2.4 Consensus size: 47
12001974 AAGTATAATA
* * * * *
12001984 ATAATAATGGTAATAAAAATAAAAATAATAGTAATAATAATACGTTA-
1 ATAATAATAGTAA-AATAATAAAAATAATAATAATAAAAATACATTAT
* * *
12002031 AGTTATAATAGTAAAATAATAAAAATTATAATAATAAAAATATATTAT
1 A-TAATAATAGTAAAATAATAAAAATAATAATAATAAAAATACATTAT
12002079 ATAATAATAGTAAAATAATAA
1 ATAATAATAGTAAAATAATAA
12002100 TAGTAAATAT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
47 47 0.81
48 11 0.19
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (47 bp):
ATAATAATAGTAAAATAATAAAAATAATAATAATAAAAATACATTAT
Found at i:12004414 original size:14 final size:14
Alignment explanation
Indices: 12004395--12004421 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12004385 AGAAAAGGCT
12004395 GAAAAGCTTTTACG
1 GAAAAGCTTTTACG
12004409 GAAAAGCTTTTAC
1 GAAAAGCTTTTAC
12004422 AAGTAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (14 bp):
GAAAAGCTTTTACG
Found at i:12005217 original size:3 final size:3
Alignment explanation
Indices: 12005209--12005236 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
12005199 TTAAACCTAT
12005209 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
12005237 CATACCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:12006631 original size:22 final size:22
Alignment explanation
Indices: 12006606--12006650 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
12006596 CTAGCCAAAG
12006606 TTAGGCCAAACTAAGGTAGCTT
1 TTAGGCCAAACTAAGGTAGCTT
12006628 TTAGGCCAAACTAAGGTAGCTT
1 TTAGGCCAAACTAAGGTAGCTT
12006650 T
1 T
12006651 AATTCTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (22 bp):
TTAGGCCAAACTAAGGTAGCTT
Found at i:12007744 original size:26 final size:26
Alignment explanation
Indices: 12007707--12007816 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
12007697 TGATACAAGT
*
12007707 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
12007733 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
12007759 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
12007785 TGATAATGGGTTAGGTAAATATTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
12007811 TGATAA
1 TGATAA
12007817 GAATTTCATG
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:12009840 original size:137 final size:136
Alignment explanation
Indices: 12009595--12009880 Score: 518
Period size: 137 Copynumber: 2.1 Consensus size: 136
12009585 GAGTAGTCTC
* *
12009595 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCTTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
12009660 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
12009725 CTGTTA
131 CTGTTA
*
12009731 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCCTAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
12009796 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
12009861 ACTGTTA
130 ACTGTTA
**
12009868 CCTGAATGGGCTT
1 CCCAAATGGGCTT
12009881 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 20 0.14
137 124 0.86
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:12013458 original size:253 final size:253
Alignment explanation
Indices: 12013000--12013468 Score: 674
Period size: 253 Copynumber: 1.9 Consensus size: 253
12012990 GTGAATATTG
* * *
12013000 AGATTCTCTTATTTCGAAGAAATAAAACATCATATCCAGCACGTAGGACACAACGTTTCAAACCT
1 AGATTCTCTTATTTCGAAGAAATAAAACACCACATCCAGCACGTAGGACACAACATTTCAAACCT
* * *
12013065 TCGTTATCAAAATCGTCTCATAATTCCCAAAATTTATGCATTGAAAATTTAAAAAGGATATTCGA
66 TCGATATCAAAATCATCTCATAATTCCCAAAACTTATGCATTGAAAATTTAAAAAGGATATTCGA
* * *
12013130 TCGTTCGGTCAAACGATAAATCGAAACCCAACACGTAGGGCACAATTTCTCGAAATTTCTAAACA
131 TCGTTCGGCCAAACGATAAATCGAAACCCAACACGTACGGCACAATTTCTCGAAATTTCCAAACA
12013195 CAAAATATTGCCTTGTCTAAAAAGTCTTGAATAAAAATGCAATAGTATGAAACGATTA
196 CAAAATATTGCCTTGTCTAAAAAGTCTTGAATAAAAATGCAATAGTATGAAACGATTA
* * * ** *
12013253 AGATTCTCTTATTTTGAAGAAATAAAATACCACATCCTGCACGTAGGACATGATATTTCAAACCT
1 AGATTCTCTTATTTCGAAGAAATAAAACACCACATCCAGCACGTAGGACACAACATTTCAAACCT
* * *
12013318 TCGATA-CGAAAATCATCTCATAATTTCCAAAACTTATGCGTTGAAATTTTAAAAAGGATATTCG
66 TCGATATC-AAAATCATCTCATAATTCCCAAAACTTATGCATTGAAAATTTAAAAAGGATATTCG
* * * *
12013382 GTTGTTTGGCCAAATGATAAATCGAAACCCAACACGTACGGCACAATTTTCTCG-AATTTCCAAA
130 ATCGTTCGGCCAAACGATAAATCGAAACCCAACACGTACGGCACAA-TTTCTCGAAATTTCCAAA
* *
12013446 CA-AGAGATATTGCCTTGTTTAAA
194 CACA-AAATATTGCCTTGTCTAAA
12013469 GAATCTTTTT
Statistics
Matches: 189, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
252 2 0.01
253 180 0.95
254 7 0.04
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (253 bp):
AGATTCTCTTATTTCGAAGAAATAAAACACCACATCCAGCACGTAGGACACAACATTTCAAACCT
TCGATATCAAAATCATCTCATAATTCCCAAAACTTATGCATTGAAAATTTAAAAAGGATATTCGA
TCGTTCGGCCAAACGATAAATCGAAACCCAACACGTACGGCACAATTTCTCGAAATTTCCAAACA
CAAAATATTGCCTTGTCTAAAAAGTCTTGAATAAAAATGCAATAGTATGAAACGATTA
Found at i:12014050 original size:3 final size:3
Alignment explanation
Indices: 12014038--12014141 Score: 124
Period size: 3 Copynumber: 34.7 Consensus size: 3
12014028 AAAAAAGGAA
* * *
12014038 AAT AAT -AT AAT AAT AAT AAT AAT AGT AAT ACGAT AGT GAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT AAT
*
12014084 AAT AAC AA- AAT AGA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12014128 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
12014142 CCTAAACTTT
Statistics
Matches: 88, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
2 5 0.06
3 79 0.90
4 1 0.01
5 3 0.03
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:12014367 original size:3 final size:3
Alignment explanation
Indices: 12014350--12014388 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
12014340 CAAATGGACG
* *
12014350 AAT AA- AAT GAT AAT AAT AAT ACT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
12014389 TTGAAAGGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:12020019 original size:40 final size:40
Alignment explanation
Indices: 12019955--12020181 Score: 330
Period size: 40 Copynumber: 5.7 Consensus size: 40
12019945 CAATTGAGGA
* *
12019955 TTATATCCTGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
12019995 CTATTTTCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
12020035 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
12020075 TTATTTCCGGGTTAAGCCCCGAAGGCATTCGTGCTGGTCG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
12020115 CTATTTCCGGGTTAAGTCCCGAAGGCATTTGTGTTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
12020155 TTACATT-CGGGCTAAATCCCGAAGGCA
1 TTA-TTTCCGGGTTAAGTCCCGAAGGCA
12020182 ATTGGGTTGG
Statistics
Matches: 169, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 167 0.99
41 2 0.01
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:12023152 original size:35 final size:35
Alignment explanation
Indices: 12023125--12023215 Score: 164
Period size: 35 Copynumber: 2.6 Consensus size: 35
12023115 CATGGCAAAG
* *
12023125 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGATATGTAGGTATGGTATCATCCATACTAAGT
12023160 TGTGATATGTAGGTATGGTATCATCCATACTAAGT
1 TGTGATATGTAGGTATGGTATCATCCATACTAAGT
12023195 TGTGATATGTAGGTATGGTAT
1 TGTGATATGTAGGTATGGTAT
12023216 TATCAAATCC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.27, C:0.09, G:0.26, T:0.37
Consensus pattern (35 bp):
TGTGATATGTAGGTATGGTATCATCCATACTAAGT
Found at i:12023215 original size:40 final size:40
Alignment explanation
Indices: 12023136--12023252 Score: 131
Period size: 40 Copynumber: 3.0 Consensus size: 40
12023126 GTGAAATGTA
12023136 GGTATGGTATCATCCATACTGAGTTGTGATA--T--GTA-
1 GGTATGGTATCATCCATACTGAGTTGTGATATGTAGGTAT
*
12023171 GGTATGGTATCATCCATACTAAGTTGTGATATGTAGGTAT
1 GGTATGGTATCATCCATACTGAGTTGTGATATGTAGGTAT
** *
12023211 GGTAT--TATCAAATCCATACTGAGTTAAGAAATGTAGGTAT
1 GGTATGGTATC--ATCCATACTGAGTTGTGATATGTAGGTAT
12023251 GG
1 GG
12023253 CATTGCCCAT
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
35 30 0.43
37 1 0.01
38 4 0.06
39 3 0.04
40 32 0.46
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (40 bp):
GGTATGGTATCATCCATACTGAGTTGTGATATGTAGGTAT
Found at i:12023246 original size:75 final size:75
Alignment explanation
Indices: 12023125--12023295 Score: 201
Period size: 75 Copynumber: 2.4 Consensus size: 75
12023115 CATGGCAAAG
** * * *
12023125 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGATATGTAGGTATGGTATCATC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATCACC
*
12023185 CATACTAAGT
66 CATACCAAGT
* **
12023195 TGTGATATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTGCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATCACC
*
12023260 CATACCGAGT
66 CATACCAAGT
*
12023270 TGTAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
12023296 TGAGGAAAAC
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
70 17 0.20
73 4 0.05
74 4 0.05
75 59 0.70
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATCACC
CATACCAAGT
Found at i:12024514 original size:1 final size:1
Alignment explanation
Indices: 12024508--12024552 Score: 90
Period size: 1 Copynumber: 45.0 Consensus size: 1
12024498 CCCTAAATGT
12024508 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
12024553 CCTATTTGAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:12024700 original size:37 final size:39
Alignment explanation
Indices: 12024644--12024727 Score: 127
Period size: 37 Copynumber: 2.2 Consensus size: 39
12024634 TGAACAGTTA
*
12024644 TATATAATAAAAGACAGTCAGTCAATAAGTGAT-AGTAT
1 TATATAATAAAAGACAGTCAGTCAACAAGTGATGAGTAT
*
12024682 TATATAAT-AAAGACAGTCAGTCAACAAGTGATGAGTGT
1 TATATAATAAAAGACAGTCAGTCAACAAGTGATGAGTAT
12024720 TATGATAA
1 TAT-ATAA
12024728 AATACATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
37 23 0.55
38 15 0.36
39 4 0.10
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (39 bp):
TATATAATAAAAGACAGTCAGTCAACAAGTGATGAGTAT
Found at i:12027615 original size:42 final size:43
Alignment explanation
Indices: 12027514--12027660 Score: 111
Period size: 43 Copynumber: 3.4 Consensus size: 43
12027504 AAAAACGCCG
* * * ** *
12027514 CTAAAGACCATGACCTTTAACGGTACTTTTTTTACAAATGACA
1 CTAAAAACCATAACCTTTAGCGACACTTTTTTTACAAACGACA
* * *
12027557 CTAAAAACCATGACCTTTAGCGACACTTTTTTTACAAACGCCG
1 CTAAAAACCATAACCTTTAGCGACACTTTTTTTACAAACGACA
* * * *** *
12027600 CTACAAAA-CA-AACCTTTAGTGGCGCTTTTCCCACAAACGCCA
1 CTA-AAAACCATAACCTTTAGCGACACTTTTTTTACAAACGACA
12027642 CTAAAGAA-CATAACCTTTA
1 CTAAA-AACCATAACCTTTA
12027661 AAAAAATATA
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
41 2 0.02
42 31 0.36
43 49 0.57
44 4 0.05
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (43 bp):
CTAAAAACCATAACCTTTAGCGACACTTTTTTTACAAACGACA
Found at i:12029125 original size:168 final size:168
Alignment explanation
Indices: 12028847--12029181 Score: 634
Period size: 168 Copynumber: 2.0 Consensus size: 168
12028837 GCATGTAACC
*
12028847 ACATTGCACCAATCTCGTTCCCTGATTTCATCTTTTTTATTGAAAGAGAGAGCCAAACTTAGATC
1 ACATTGCACCAATCTCGTTCCCTGATTTCAGCTTTTTTATTGAAAGAGAGAGCCAAACTTAGATC
12028912 ACTTTGACATAACAAAAGAACATACCACCATGCAAAATCAGACAGTTTGCAAATTTTCATTTAAG
66 ACTTTGACATAACAAAAGAACATACCACCATGCAAAATCAGACAGTTTGCAAATTTTCATTTAAG
*
12028977 TTTAATCGATAAAAGAGCATATAGCAGAAGATCATACT
131 TTTAAACGATAAAAGAGCATATAGCAGAAGATCATACT
* *
12029015 ACATTGCACCAATCTCGTTCCTTGGTTTCAGCTTTTTTATTGAAAGAGAGAGCCAAACTTAGATC
1 ACATTGCACCAATCTCGTTCCCTGATTTCAGCTTTTTTATTGAAAGAGAGAGCCAAACTTAGATC
12029080 ACTTTGACATAACAAAAGAACATACCACCATGCAAAATCAGACAGTTTGCAAATTTTCATTTAAG
66 ACTTTGACATAACAAAAGAACATACCACCATGCAAAATCAGACAGTTTGCAAATTTTCATTTAAG
12029145 TTTAAACGATAAAAGAGCATATAGCAGAAGATCATAC
131 TTTAAACGATAAAAGAGCATATAGCAGAAGATCATAC
12029182 CACAATCAAA
Statistics
Matches: 163, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
168 163 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (168 bp):
ACATTGCACCAATCTCGTTCCCTGATTTCAGCTTTTTTATTGAAAGAGAGAGCCAAACTTAGATC
ACTTTGACATAACAAAAGAACATACCACCATGCAAAATCAGACAGTTTGCAAATTTTCATTTAAG
TTTAAACGATAAAAGAGCATATAGCAGAAGATCATACT
Found at i:12033613 original size:14 final size:14
Alignment explanation
Indices: 12033596--12033658 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
12033586 CCTTAAACCC
12033596 TAAACCATATATCT
1 TAAACCATATATCT
*
12033610 TAAACC--ATA-GT
1 TAAACCATATATCT
* *
12033621 T-AACTCATAAACCT
1 TAAAC-CATATATCT
12033635 TAAACCCATATATCT
1 TAAA-CCATATATCT
12033650 TAAACCATA
1 TAAACCATA
12033659 AACCTTTAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
10 3 0.08
11 3 0.08
12 3 0.08
13 2 0.05
14 13 0.34
15 13 0.34
16 1 0.03
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.30
Consensus pattern (14 bp):
TAAACCATATATCT
Found at i:12033667 original size:15 final size:15
Alignment explanation
Indices: 12033626--12033664 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
12033616 ATAGTTAACT
12033626 CATAAACCTTAAACC
1 CATAAACCTTAAACC
* *
12033641 CATATATCTTAAA-C
1 CATAAACCTTAAACC
12033655 CATAAACCTT
1 CATAAACCTT
12033665 TAACTATAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (15 bp):
CATAAACCTTAAACC
Found at i:12033886 original size:40 final size:41
Alignment explanation
Indices: 12033831--12033916 Score: 129
Period size: 40 Copynumber: 2.1 Consensus size: 41
12033821 GTTATATGAC
* *
12033831 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAGTGCTCTGT-
1 TTTTAGCGACGTTTTACCAAAAACGCCGCTAGTGCTCTGTG
* *
12033871 TTTTAGCGACGTTTTACCAAAAACGCTGCTATTGCTCTGTG
1 TTTTAGCGACGTTTTACCAAAAACGCCGCTAGTGCTCTGTG
12033912 TTTTA
1 TTTTA
12033917 CAATTTTTGC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 36 0.88
41 5 0.12
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (41 bp):
TTTTAGCGACGTTTTACCAAAAACGCCGCTAGTGCTCTGTG
Found at i:12035338 original size:20 final size:20
Alignment explanation
Indices: 12035300--12035337 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
12035290 TGTTGTAATA
*
12035300 TTATAATAATTATAAAAAAG
1 TTATAAAAATTATAAAAAAG
12035320 TTATAAAAA-TATAAAAAA
1 TTATAAAAATTATAAAAAA
12035338 AAATTATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (20 bp):
TTATAAAAATTATAAAAAAG
Found at i:12035427 original size:28 final size:27
Alignment explanation
Indices: 12035396--12035465 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
12035386 TAAATAAAAT
12035396 TTAATATTTTATA-TACTTTATATATATA
1 TTAATATTTTATACTACTTTA-ATA-ATA
* * *
12035424 TTAAAATTTTCTACTATTTTAATAATA
1 TTAATATTTTATACTACTTTAATAATA
12035451 TGTAATAGTTTTATA
1 T-TAATA-TTTTATA
12035466 ATTTTCTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
27 4 0.12
28 18 0.53
29 12 0.35
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (27 bp):
TTAATATTTTATACTACTTTAATAATA
Found at i:12038084 original size:2 final size:2
Alignment explanation
Indices: 12038079--12038107 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12038069 AGAAAAAAGA
12038079 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 A
12038108 AATAAACGGC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12040491 original size:25 final size:25
Alignment explanation
Indices: 12040463--12040572 Score: 75
Period size: 24 Copynumber: 4.5 Consensus size: 25
12040453 GAAAAAAAGT
*
12040463 TTAAAATACATAATATATAAAAATA
1 TTAAAATAAATAATATATAAAAATA
* *
12040488 TTAAAGTAAATAATGTATAAAAAT-
1 TTAAAATAAATAATATATAAAAATA
* * ** * *
12040512 TTGAAATGAGCATTATATAAAAA-G
1 TTAAAATAAATAATATATAAAAATA
* * *
12040536 CTAAAATAGATAATA-ACAAAAA-A
1 TTAAAATAAATAATATATAAAAATA
12040559 TGTAAAATAAATAA
1 T-TAAAATAAATAA
12040573 ATAAATAGAA
Statistics
Matches: 62, Mismatches: 21, Indels: 5
0.70 0.24 0.06
Matches are distributed among these distances:
23 6 0.10
24 35 0.56
25 21 0.34
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (25 bp):
TTAAAATAAATAATATATAAAAATA
Found at i:12040675 original size:15 final size:15
Alignment explanation
Indices: 12040651--12040696 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
12040641 ATATAAATAG
*
12040651 AAATAAAAATATAAT
1 AAATAGAAATATAAT
12040666 AAATAGAAATATAAT
1 AAATAGAAATATAAT
12040681 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
12040697 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:12040697 original size:29 final size:29
Alignment explanation
Indices: 12040664--12040780 Score: 85
Period size: 29 Copynumber: 4.0 Consensus size: 29
12040654 TAAAAATATA
*
12040664 ATAAATAGAAATATAATAATAGTAGAAAT
1 ATAAATAGAAATATAATAATAATAGAAAT
* * * *
12040693 ATAAATAGATAA-ATAAAAATTAGATAAAT
1 ATAAATAGA-AATATAATAATAATAGAAAT
* * * * * *
12040722 A-ATAATAGTATTAGAATAACAAAATAAAT
1 ATA-AATAGAAATATAATAATAATAGAAAT
* *
12040751 ATAAATAGAAACATAATAATAATAGCAAT
1 ATAAATAGAAATATAATAATAATAGAAAT
12040780 A
1 A
12040781 ATATATTAAA
Statistics
Matches: 64, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
28 2 0.03
29 59 0.92
30 3 0.05
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (29 bp):
ATAAATAGAAATATAATAATAATAGAAAT
Found at i:12040699 original size:44 final size:44
Alignment explanation
Indices: 12040645--12040731 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
12040635 ATTAGTATAT
12040645 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
12040689 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
12040732 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:12040716 original size:15 final size:14
Alignment explanation
Indices: 12040643--12040759 Score: 62
Period size: 15 Copynumber: 8.1 Consensus size: 14
12040633 ATATTAGTAT
*
12040643 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
12040656 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
12040672 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
12040686 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
12040701 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
12040716 ATAAATAATAATAG
1 ATAAATAAAAATAG
*
12040730 TATTAGAATAACAA-A-
1 -A-TA-AATAAAAATAG
*
12040745 ATAAATATAAATAG
1 ATAAATAAAAATAG
12040759 A
1 A
12040760 AACATAATAA
Statistics
Matches: 82, Mismatches: 11, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
12 6 0.07
13 6 0.07
14 22 0.27
15 35 0.43
16 6 0.07
17 7 0.09
ACGTcount: A:0.65, C:0.01, G:0.08, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:12045005 original size:18 final size:19
Alignment explanation
Indices: 12044969--12045006 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
12044959 CGATTTGGGG
* *
12044969 TTTTTTTTCATATTATTTA
1 TTTTTTTTAATAATATTTA
12044988 TTTTTTTTAATAAT-TTTA
1 TTTTTTTTAATAATATTTA
12045006 T
1 T
12045007 ATTTAATTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTTTTAATAATATTTA
Found at i:12045588 original size:25 final size:25
Alignment explanation
Indices: 12045532--12045588 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
12045522 ATATATTTCT
* *
12045532 AAATTATAAAAAAAATCAATTTTAA
1 AAATTATAAAAAAAATCAAATATAA
*
12045557 AACATTATAAAAAATAT-AAATATAA
1 AA-ATTATAAAAAAAATCAAATATAA
12045582 ATAATTA
1 A-AATTA
12045589 AGATACATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 13 0.48
26 14 0.52
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (25 bp):
AAATTATAAAAAAAATCAAATATAA
Found at i:12045639 original size:9 final size:9
Alignment explanation
Indices: 12045622--12045766 Score: 69
Period size: 9 Copynumber: 15.4 Consensus size: 9
12045612 AAATAGGAAT
12045622 AAATATATA
1 AAATATATA
*
12045631 AAATCTATA
1 AAATATATA
*
12045640 AAATATATGT
1 AAATATAT-A
*
12045650 AAATATCTA
1 AAATATATA
12045659 AAA-ATATA
1 AAATATATA
* *
12045667 AAAAAGTATC
1 AAATA-TATA
*
12045677 AAATATGTA
1 AAATATATA
* *
12045686 TAAATTTTTAA
1 -AAATATAT-A
*
12045697 AAAAATTATA
1 AAATA-TATA
*
12045707 AAA-ATAGAA
1 AAATATA-TA
12045716 AAATATATA
1 AAATATATA
* *
12045725 AAATCTTAAA
1 AAAT-ATATA
*
12045735 AAATGTATA
1 AAATATATA
**
12045744 TAAATCCATA
1 -AAATATATA
12045754 AAATATATA
1 AAATATATA
12045763 AAAT
1 AAAT
12045767 TCTAAATTAA
Statistics
Matches: 101, Mismatches: 25, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
8 9 0.09
9 45 0.45
10 44 0.44
11 3 0.03
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (9 bp):
AAATATATA
Found at i:12045690 original size:37 final size:38
Alignment explanation
Indices: 12045622--12045772 Score: 116
Period size: 37 Copynumber: 4.0 Consensus size: 38
12045612 AAATAGGAAT
* *
12045622 AAATATATAAAATCTATAAAATATATGTAAATATCTAA
1 AAATATATAAAAACTATAAAATATATATAAATATCTAA
* * * * *
12045660 AAATATA-AAAAAGTATCAAATATGTATAAATTTTTAA
1 AAATATATAAAAACTATAAAATATATATAAATATCTAA
* *
12045697 AAAAATTATAAAAA-TAGAAAA-ATATATAAA-ATCTTAAA
1 AAATA-TATAAAAACTATAAAATATATATAAATATC-T-AA
* * *
12045735 AAATGTATATAAATCCATAAAATATATA-AAAT-TCTAA
1 AAATATATA-AAAACTATAAAATATATATAAATATCTAA
12045772 A
1 A
12045773 TTAAATAAAT
Statistics
Matches: 87, Mismatches: 18, Indels: 17
0.71 0.15 0.14
Matches are distributed among these distances:
36 1 0.01
37 43 0.49
38 23 0.26
39 15 0.17
40 5 0.06
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (38 bp):
AAATATATAAAAACTATAAAATATATATAAATATCTAA
Found at i:12045755 original size:21 final size:19
Alignment explanation
Indices: 12045622--12045766 Score: 72
Period size: 19 Copynumber: 7.7 Consensus size: 19
12045612 AAATAGGAAT
12045622 AAATATATAAAATCTATAAA
1 AAATATATAAAATC-ATAAA
* *
12045642 ATATATGTAAATATC-T-AA
1 AAATATATAAA-ATCATAAA
* *
12045660 AAATATAAAAAAGT-ATCAA
1 AAATATATAAAA-TCATAAA
* * * **
12045679 ATATGTATAAATTTTTAAA
1 AAATATATAAAATCATAAA
12045698 AAA-ATTATAAAA--ATAGAA
1 AAATA-TATAAAATCATA-AA
*
12045716 AAATATATAAAATCTTAAA
1 AAATATATAAAATCATAAA
*
12045735 AAATGTATATAAATCCAT--A
1 AAATATATA-AAAT-CATAAA
12045754 AAATATATAAAAT
1 AAATATATAAAAT
12045767 TCTAAATTAA
Statistics
Matches: 94, Mismatches: 19, Indels: 26
0.68 0.14 0.19
Matches are distributed among these distances:
17 3 0.03
18 29 0.31
19 42 0.45
20 15 0.16
21 5 0.05
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (19 bp):
AAATATATAAAATCATAAA
Found at i:12045782 original size:16 final size:16
Alignment explanation
Indices: 12045763--12045797 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
12045753 AAAATATATA
12045763 AAATTCTAAA-TTAAAT
1 AAATT-TAAATTTAAAT
12045779 AAATTTAAATTTAAAT
1 AAATTTAAATTTAAAT
12045795 AAA
1 AAA
12045798 AACAGAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATTTAAATTTAAAT
Found at i:12047364 original size:12 final size:13
Alignment explanation
Indices: 12047349--12047401 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 13
12047339 AATAGGGGTG
12047349 ATAATAATA-ATA
1 ATAATAATACATA
12047361 ATAATAATACA-A
1 ATAATAATACATA
*
12047373 ACAATAATACAT-
1 ATAATAATACATA
*
12047385 AT-AT-ATATATA
1 ATAATAATACATA
12047396 ATAATA
1 ATAATA
12047402 GTAGTCAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
10 5 0.15
11 4 0.12
12 23 0.70
13 1 0.03
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATAATACATA
Found at i:12047498 original size:12 final size:12
Alignment explanation
Indices: 12047474--12047544 Score: 65
Period size: 12 Copynumber: 5.8 Consensus size: 12
12047464 GAGAGGGTAT
12047474 ATATAATATAATA
1 ATATAA-ATAATA
12047487 ATATAAATAATA
1 ATATAAATAATA
* *
12047499 ATATATACATGAGA
1 ATATA-A-ATAATA
12047513 A-AT-AATAATA
1 ATATAAATAATA
12047523 ATATAAATAATA
1 ATATAAATAATA
* *
12047535 GTAAAAATAA
1 ATATAAATAA
12047545 AAAAATAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
10 5 0.10
11 3 0.06
12 26 0.54
13 9 0.19
14 5 0.10
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:12047543 original size:24 final size:24
Alignment explanation
Indices: 12047474--12047553 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 24
12047464 GAGAGGGTAT
* *
12047474 ATATAATATAATAATATAAATAATA
1 ATATAA-ATAATAGTAAAAATAATA
12047499 ATAT--ATACATGAG-AAATAATAATA
1 ATATAAATA-AT-AGTAAA-AATAATA
*
12047523 ATATAAATAATAGTAAAAATAAAA
1 ATATAAATAATAGTAAAAATAATA
*
12047547 AAATAAA
1 ATATAAA
12047554 ACAAAGCTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
22 3 0.07
23 4 0.09
24 26 0.58
25 9 0.20
26 3 0.07
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (24 bp):
ATATAAATAATAGTAAAAATAATA
Found at i:12048084 original size:30 final size:30
Alignment explanation
Indices: 12048050--12048135 Score: 136
Period size: 30 Copynumber: 2.9 Consensus size: 30
12048040 ATTTGATGGT
*
12048050 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
* *
12048080 GTAGGTACAAGTGGGAGGTAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
*
12048110 GTAGGTGCAAGTAGGAGGCAAGGTGG
1 GTAGGTGCAAGTGGGAGGCAAGGTGG
12048136 CTAGGGTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.27, C:0.06, G:0.50, T:0.17
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
Found at i:12048761 original size:87 final size:87
Alignment explanation
Indices: 12048658--12049617 Score: 1188
Period size: 87 Copynumber: 11.2 Consensus size: 87
12048648 TTCAGCTTGG
* * * *
12048658 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTTCCTTACTGCTTAGGGTGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
12048723 AAGATCTGTAAATTTAGCCTGT
66 AAGATCTGTAAATTTAGCCTGT
* *** *
12048745 TACCCTACTGTTTAGGGG-TTAAGGCTTGTCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGGGG-T
12048809 TAAGATCTGTAAATCTTCAGCCTGT
65 TAAGATCTGTAAAT-TT-AGCCTGT
*** *
12048834 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGTTTCCCTACTGTTTA---GG--
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
*
12048894 --G-TCTGTAAATTTAACCTGT
66 AAGATCTGTAAATTTAGCCTGT
** ** * * *
12048913 TACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATTTGTTTCCCTATTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* *
12048978 AAGATCTGTAAATTCAGCTTGT
66 AAGATCTGTAAATTTAGCCTGT
* *
12049000 TACCCTACTGCTTAAGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
12049065 AAGATCTGTAAATCTTCAGCCTGT
66 AAGATCTGTAAAT-TT-AGCCTGT
*** *
12049089 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGTTTCCCTACTGTTTA---GG--
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
*
12049149 --G-TCTGTAAATTTAACCTGT
66 AAGATCTGTAAATTTAGCCTGT
** ** * * *
12049168 TACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTGTTTCCCTATTGCTTAAGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
*
12049233 AAGATCTGTAAATTCAGCCTGT
66 AAGATCTGTAAATTTAGCCTGT
* *
12049255 TACCCTACTGCTTAAGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTATTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
*
12049320 AAGATCTGTAAATTCAGCCTGT
66 AAGATCTGTAAATTTAGCCTGT
* * * *
12049342 TACCCTACTGCTTAGGGG-TTAAGGTCCATCGCCTTTGATCTGTTTCCCTACTGCTTAAGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* *
12049406 AAGATCTGTAAATTCAACCTGT
66 AAGATCTGTAAATTTAGCCTGT
* *
12049428 TACCCTACTGCTTAGGGGTTTAAGCCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
**
12049493 AAGATCTGTAAATTTAGCCTAC
66 AAGATCTGTAAATTTAGCCTGT
* * * *
12049515 TACCCTACTGCTTAAGAGG-TTAAGG-CCATCGCCTTCGATCTG-CTCCACTACTGTTTAGGGGG
1 TACCCTACTGCTT-AGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCC-CTACTGCTTAGGGGG
* * *
12049577 ATAAGATCTATAAATTCAGCCTGT
64 TTAAGATCTGTAAATTTAGCCTGT
12049601 TACCCTACTGCTTAGGG
1 TACCCTACTGCTTAGGG
12049618 AGATAAGATC
Statistics
Matches: 767, Mismatches: 81, Indels: 52
0.85 0.09 0.06
Matches are distributed among these distances:
79 115 0.15
80 4 0.01
81 18 0.02
82 6 0.01
85 6 0.01
86 183 0.24
87 309 0.40
88 7 0.01
89 82 0.11
90 37 0.05
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (87 bp):
TACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
AAGATCTGTAAATTTAGCCTGT
Found at i:12048893 original size:44 final size:44
Alignment explanation
Indices: 12048658--12050134 Score: 421
Period size: 44 Copynumber: 34.4 Consensus size: 44
12048648 TTCAGCTTGG
*** * *
12048658 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTAT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCAACTTCGATCTGT
* * * * * * *
12048702 TTCCTTACTGCTTA-GGGTGTTAA-GATCTGTAAATTTAG-CCTGT
1 TACCCTACTGCTTAGGGGT-TTAAGGCT-TGTCAACTTCGATCTGT
* *
12048745 TACCCTACTGTTTAGGGG-TTAAGGCTTGTCATCTTCGATCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCAACTTCGATCTGT
* * * *
12048788 TTCCCTACTGCTTAGGGGGTTTAA-GATCTGTAAATCTTC-AGCCTGT
1 TACCCTACTGCTTA-GGGGTTTAAGGCT-TGTCAA-CTTCGA-TCTGT
*
12048834 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCAACTTCGATCTGT
* * * ** *
12048878 TTCCCTACTGTTTA-GGG--T----C-TGT-AAATTTAACCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCAACTTCGATCTGT
* ** * *
12048913 TACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATTTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCAACTTCGATCTGT
* * * * * *
12048957 TTCCCTATTGCTTAGGGGGTTAA-GATCTGT-AAATTC-AGCTTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCT-TGTCAACTTCGATC-TGT
* *** **
12049000 TACCCTACTGCTTAAGGGTTTAAGGCCCATCGCCTTCGATCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCAACTTCGATCTGT
* * * * *
12049044 TTCCCTACTGCTTAGGGGGTTAA-GATCTGTAAATCTTC-AGCCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCT-TGTCAA-CTTCGA-TCTGT
*
12049089 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCAACTTCGATCTGT
* * * ** *
12049133 TTCCCTACTGTTTA-GGG--T----C-TGT-AAATTTAACCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCAACTTCGATCTGT
* ** *
12049168 TACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCAACTTCGATCTGT
* * * * *
12049212 TTCCCTATTGCTTAAGGGG-TTAA-GATCTGT-AAATTC-AGCCTGT
1 TACCCTACTGCTT-AGGGGTTTAAGGCT-TGTCAACTTCGA-TCTGT
* *** *
12049255 TACCCTACTGCTTAAGGGTTTAAGGCCCATCACCTTCGATCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCAACTTCGATCTGT
* * * * * *
12049299 TTCCCTATTGCTTAGGGGGTTAA-GATCTGT-AAATTC-AGCCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCT-TGTCAACTTCGA-TCTGT
** ** *
12049342 TACCCTACTGCTTAGGGG-TTAAGG-TCCATCGCCTTTGATCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCT-TGTCAACTTCGATCTGT
* * * * *
12049385 TTCCCTACTGCTTAAGGGG-TTAA-GATCTGT-AAATTCAACCTGT
1 TACCCTACTGCTT-AGGGGTTTAAGGCT-TGTCAACTTCGATCTGT
* *** *
12049428 TACCCTACTGCTTAGGGGTTTAAGCCCCATCATCTTCGATCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCAACTTCGATCTGT
* * * * * * * **
12049472 TTCCCTACTGCTTAGGGGGTTAA-GATCTGTAAATTTAG-CCTAC
1 TACCCTACTGCTTAGGGGTTTAAGGCT-TGTCAACTTCGATCTGT
* ** ** *
12049515 TACCCTACTGCTTAAGAGG-TTAAGGC-CATCGCCTTCGATCTGC
1 TACCCTACTGCTT-AGGGGTTTAAGGCTTGTCAACTTCGATCTGT
* ** * * * *
12049558 T-CCACTACTGTTTAGGGGGATAA-GATCTAT-AAATTC-AGCCTGT
1 TACC-CTACTGCTTAGGGGTTTAAGGCT-TGTCAACTTCGA-TCTGT
* * * * *
12049601 TACCCTACTGCTTAGGGAG-ATAA-GATCT-ACAA-TTTGGTCTGT
1 TACCCTACTGCTTAGGG-GTTTAAGGCT-TGTCAACTTCGATCTGT
* * **
12049643 TACCCTACTGCTTAGGGGTTTAAGACCCT-TCGCCTTCGATCTGT
1 TACCCTACTGCTTAGGGGTTTAAG-GCTTGTCAACTTCGATCTGT
* * * * ** * * *
12049687 TTCCCTACTGCATAGGGGGTTAA-GATCTGGAAATTTAG-CCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCT-TGTCAACTTCGATCTGT
* *** * *
12049730 TACCCTACTGCTTAGGGGTTTAAGGCCCT-TCGTTTTTGATCTGC
1 TACCCTACTGCTTAGGGGTTTAAGG-CTTGTCAACTTCGATCTGT
* * * * *
12049774 T-CCACTACTGCTTAGGGAG-ATAA-GATCTG-C-AGTTTGGTCTGT
1 TACC-CTACTGCTTAGGG-GTTTAAGGCT-TGTCAACTTCGATCTGT
* * ** *
12049816 TACCCTACTGCTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTGC
1 TACCCTACTGCTTAGGGGTTTAAG-GCTTGTCAACTTCGATCTGT
* * * *
12049860 T-CCACTACTGCTTAGGGAG-ATAA-GATCTG-CAA-TTTGGTCTGT
1 TACC-CTACTGCTTAGGG-GTTTAAGGCT-TGTCAACTTCGATCTGT
* * ** *
12049902 TACCCTACTGCTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTGC
1 TACCCTACTGCTTAGGGGTTTAAG-GCTTGTCAACTTCGATCTGT
* * * *
12049946 T-CCACTACTGCTTAGGGAG-ATAA-GATCTG-CAA-TTTGGTCTGT
1 TACC-CTACTGCTTAGGG-GTTTAAGGCT-TGTCAACTTCGATCTGT
* * ** * *
12049988 TACCCTACTGCTTAGGGGTTTAAGACCCT-TCGTCTTCAATCTGC
1 TACCCTACTGCTTAGGGGTTTAAG-GCTTGTCAACTTCGATCTGT
*** * *
12050032 T-CCACTACTGCTTAGGGAAATAA-GATCTG-CAA-TTCGGTCTGT
1 TACC-CTACTGCTTAGGGGTTTAAGGCT-TGTCAACTTCGATCTGT
* * *** * *
12050074 TACCCTGCTGCTTAGGAGTTTAAGGCCCATCAACCTCGATTTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCAACTTCGATCTGT
*
12050118 TTCCCTACTGCTTAGGG
1 TACCCTACTGCTTAGGG
12050135 AGATAAGATC
Statistics
Matches: 1002, Mismatches: 315, Indels: 232
0.65 0.20 0.15
Matches are distributed among these distances:
35 40 0.04
36 12 0.01
37 2 0.00
38 2 0.00
41 6 0.01
42 165 0.16
43 297 0.30
44 385 0.38
45 68 0.07
46 25 0.02
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (44 bp):
TACCCTACTGCTTAGGGGTTTAAGGCTTGTCAACTTCGATCTGT
Found at i:12049109 original size:255 final size:253
Alignment explanation
Indices: 12048658--12049617 Score: 1374
Period size: 255 Copynumber: 3.8 Consensus size: 253
12048648 TTCAGCTTGG
* * *
12048658 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTTCCTTACTGCTTAGGGTGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* * * *** *
12048723 AAGATCTGTAAATTTAGCCTGTTACCCTACTG-TTTAGGGGTTAAGGCTTGTCATCTTCGATCTG
66 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCACCTTCGATCTG
12048787 TTTCCCTACTGCTTAGGGGGTTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGG
131 TTTCCCTACTGCTTAGGGGG-TTAAGATCTGTAAA--TTCAGCCTGTTACCCTACTGCTTAGGGG
12048852 TTTAAGGCTTGTCACCTTCGATCTGTTTCCCTACTGTTTAGGGTCTGTAAATTTAACCTGT
193 TTTAAGGCTTGTCACCTTCGATCTGTTTCCCTACTGTTTAGGGTCTGTAAATTTAACCTGT
** * * * *
12048913 TACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATTTGTTTCCCTATTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* *
12048978 AAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCGCCTTCGATCTG
66 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCACCTTCGATCTG
12049043 TTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGT
131 TTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA--TTCAGCCTGTTACCCTACTGCTTAGGGGT
12049108 TTAAGGCTTGTCACCTTCGATCTGTTTCCCTACTGTTTAGGGTCTGTAAATTTAACCTGT
194 TTAAGGCTTGTCACCTTCGATCTGTTTCCCTACTGTTTAGGGTCTGTAAATTTAACCTGT
** * * * *
12049168 TACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTGTTTCCCTATTGCTTAAGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
12049233 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCACCTTCGATCTG
66 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCACCTTCGATCTG
*
12049298 TTTCCCTATTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG-TT
131 TTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTT
** * * * *
12049362 AAGG-TCCATCGCCTTTGATCTGTTTCCCTACTGCTTAAGGGGTTAAGATCTGTAAATTCAACCT
196 AAGGCT-TGTCACCTTCGATCTGTTTCCCTACTG-TTTA--GG----G-TCTGTAAATTTAACCT
12049426 GT
252 GT
*
12049428 TACCCTACTGCTTAGGGGTTTAAGCCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* ** *
12049493 AAGATCTGTAAATTTAGCCTACTACCCTACTGCTTAAGAGG-TTAAGG-CCATCGCCTTCGATCT
66 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAAG-GGTTTAAGGCCCATCACCTTCGATCT
* * * *
12049556 G-CTCCACTACTGTTTAGGGGGATAAGATCTATAAATTCAGCCTGTTACCCTACTGCTTAGGG
130 GTTTCC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGG
12049618 AGATAAGATC
Statistics
Matches: 648, Mismatches: 45, Indels: 20
0.91 0.06 0.03
Matches are distributed among these distances:
251 1 0.00
252 29 0.04
253 31 0.05
255 352 0.54
256 45 0.07
258 3 0.00
259 69 0.11
260 116 0.18
261 2 0.00
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (253 bp):
TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCACCTTCGATCTG
TTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTT
AAGGCTTGTCACCTTCGATCTGTTTCCCTACTGTTTAGGGTCTGTAAATTTAACCTGT
Found at i:12049432 original size:173 final size:173
Alignment explanation
Indices: 12048648--12049617 Score: 1226
Period size: 173 Copynumber: 5.7 Consensus size: 173
12048638 AGTTGTAATT
* * ** * *
12048648 TTCAGCTTGGTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTTCCTTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGG-CCATCGCCTTCGATCTGTTTCCCTACTGC
* * *
12048713 TT-AGGGTGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGTTTAGGGG-TTAAGGCTTGTCA
65 TTAAGGG-GTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTATCA
12048776 TCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTTAAGATCTGTAAA
129 TCTTCGATCTGTTTCCCTACTGCTTAGGGGG-TTAAGATCTGTAAA
** *
12048822 TCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGTTTCCCTACT
1 --TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC-CATCGCCTTCGATCTGTTTCCCTACT
* * *
12048887 G-TTTA--GG----G-TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTATC
63 GCTTAAGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTATC
* * * *
12048944 GTCTTTGATTTGTTTCCCTATTGCTTAGGGGGTTAAGATCTGTAAA
128 ATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
* *
12048990 TTCAGCTTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGG-CCATCGCCTTCGATCTGTTTCCCTACTGC
* *
12049055 TTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTC
65 TTAAGGGGTTAAGATCTGTAAA--TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTATC
* *
12049120 ACCTTCGATCTGTTTCCCTACTGTTTA---GG----G-TCTGTAAA
128 ATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
* * * * * *
12049158 TTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTGTTTCCCTATTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC-CATCGCCTTCGATCTGTTTCCCTACTGC
* ** *
12049223 TTAAGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATCAC
65 TTAAGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTATCAT
*
12049288 CTTCGATCTGTTTCCCTATTGCTTAGGGGGTTAAGATCTGTAAA
130 CTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
*
12049332 TTCAGCCTGTTACCCTACTGCTTAGGGG-TTAAGGTCCATCGCCTTTGATCTGTTTCCCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGG-CCATCGCCTTCGATCTGTTTCCCTACTGC
* * **
12049396 TTAAGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGCCCCATCAT
65 TTAAGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTATCAT
12049461 CTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
130 CTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
* ** * *
12049505 TTTAGCCTACTACCCTACTGCTTAAGAGG-TTAAGGCCATCGCCTTCGATCTG-CTCCACTACTG
1 TTCAGCCTGTTACCCTACTGCTT-AGGGGTTTAAGGCCATCGCCTTCGATCTGTTTCC-CTACTG
* * * *
12049568 TTTAGGGGGATAAGATCTATAAATTCAGCCTGTTACCCTACTGCTTAGGG
64 CTTAAGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGG
12049618 AGATAAGATC
Statistics
Matches: 702, Mismatches: 66, Indels: 55
0.85 0.08 0.07
Matches are distributed among these distances:
166 119 0.17
167 4 0.01
168 132 0.19
169 45 0.06
172 3 0.00
173 227 0.32
174 54 0.08
175 3 0.00
176 115 0.16
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (173 bp):
TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCATCGCCTTCGATCTGTTTCCCTACTGCT
TAAGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTATCATC
TTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
Found at i:12049682 original size:215 final size:215
Alignment explanation
Indices: 12049424--12049832 Score: 597
Period size: 215 Copynumber: 1.9 Consensus size: 215
12049414 TAAATTCAAC
* * *
12049424 CTGTTACCCTACTGCTTAGGGGTTTAAGCCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCATCACCTTCGATCTGTTTCCCTACTGCATAGGG
*
12049489 GGTTAAGATCTGTAAATTTAGCCTACTACCCTACTGCTTAAGAGG-TTAAGG-CCATCGCCTTCG
66 GGTTAAGATCTGGAAATTTAGCCTACTACCCTACTGCTT-AGAGGTTTAAGGCCCATCGCCTTCG
* * *
12049552 ATCTGCTCCACTACTGTTTAGGGGGATAAGATCTATAAATTCAGCCTGTTACCCTACTGCTTAGG
130 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GAAATTCAGCCTGTTACCCTACTGCTTAGG
12049617 GAGATAAGATCTACAATTTGGT
194 GAGATAAGATCTACAATTTGGT
* *
12049639 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGCCTTCGATCTGTTTCCCTACTGCATAGGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCATCACCTTCGATCTGTTTCCCTACTGCATAGGG
** * * ** *
12049704 GGTTAAGATCTGGAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTTTTTGA
66 GGTTAAGATCTGGAAATTTAGCCTACTACCCTACTGCTTAGAGGTTTAAGGCCCATCGCCTTCGA
* * ** *
12049769 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAGTTTGGTCTGTTACCCTACTGCTTAGGG
131 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTCAGCCTGTTACCCTACTGCTTAGGG
12049833 GTTTAAGACC
Statistics
Matches: 171, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
214 4 0.02
215 127 0.74
216 40 0.23
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (215 bp):
CTGTTACCCTACTGCTTAGGGGTTTAAGACCCATCACCTTCGATCTGTTTCCCTACTGCATAGGG
GGTTAAGATCTGGAAATTTAGCCTACTACCCTACTGCTTAGAGGTTTAAGGCCCATCGCCTTCGA
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTCAGCCTGTTACCCTACTGCTTAGGGA
GATAAGATCTACAATTTGGT
Found at i:12049687 original size:86 final size:86
Alignment explanation
Indices: 12049605--12050149 Score: 824
Period size: 86 Copynumber: 6.3 Consensus size: 86
12049595 GCCTGTTACC
*
12049605 CTACTGCTTAGGGAGATAAGATCTACAATTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACC
1 CTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACC
* *
12049670 CTTCGCCTTCGATCTGTTTCC-
66 CTTCGTCTTCGATCTG-CTCCA
* * * * * * *
12049691 CTACTGCATAGGGGGTTAAGATCTGGAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
1 CTACTGCTTAGGGAGATAAGATCT-GCAATTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGAC
* *
12049756 CCTTCGTTTTTGATCTGCTCCA
65 CCTTCGTCTTCGATCTGCTCCA
*
12049778 CTACTGCTTAGGGAGATAAGATCTGCAGTTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACC
1 CTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACC
12049843 CTTCGTCTTCGATCTGCTCCA
66 CTTCGTCTTCGATCTGCTCCA
12049864 CTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACC
1 CTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACC
12049929 CTTCGTCTTCGATCTGCTCCA
66 CTTCGTCTTCGATCTGCTCCA
12049950 CTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACC
1 CTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACC
*
12050015 CTTCGTCTTCAATCTGCTCCA
66 CTTCGTCTTCGATCTGCTCCA
* * * * *
12050036 CTACTGCTTAGGGAAATAAGATCTGCAATTCGGTCTGTTACCCTGCTGCTTAGGAGTTTAAGGCC
1 CTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACC
* ** * * *
12050101 CATCAACCTCGATTTGTTTCC-
66 CTTCGTCTTCGATCTG-CTCCA
12050122 CTACTGCTTAGGGAGATAAGATCTGCAA
1 CTACTGCTTAGGGAGATAAGATCTGCAA
12050150 ATTCACTGAT
Statistics
Matches: 419, Mismatches: 37, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
86 346 0.83
87 73 0.17
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (86 bp):
CTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACC
CTTCGTCTTCGATCTGCTCCA
Found at i:12049910 original size:215 final size:215
Alignment explanation
Indices: 12049428--12049926 Score: 532
Period size: 215 Copynumber: 2.3 Consensus size: 215
12049418 TTCAACCTGT
* * * *
12049428 TACCCTACTGCTTAGGGGTTTAAGCCCCATCATC-TTCGATCTGTTTCCCTACTGCTTAGGGGGT
1 TACCCTACTGCTTAGGGGTATAAGACCCTTC-GCATTCGATCTGTTTCCCTACTGCTTAGGGGGT
*
12049492 TAAGATCTGTAAATTTAGCCTACTACCCTACTGCTTAAGAGGTTAAGGCCATCGCCTTCGATCTG
65 TAAGATCTGGAAATTTAGCCTACTACCCTACTGCTTAAGAGGTTAAGGCCATCGCCTTCGATCTG
* * *
12049557 CTCCACTACTGTTTAGGGGGATAAGATCTATAAATTCAGCCTGTTACCCTACTGCTTAGGGAGAT
130 CTCCACTACTGCTTAGGGAGATAAGATCTAGAAATTCAGCCTGTTACCCTACTGCTTAGGGAGAT
* * *
12049622 AAGATCTACAATTTGGTCTGT
195 AAGACCTACAATTTGATCTGC
* * *
12049643 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGCCTTCGATCTGTTTCCCTACTGCATAGGGGGTT
1 TACCCTACTGCTTAGGGGTATAAGACCCTTCGCATTCGATCTGTTTCCCTACTGCTTAGGGGGTT
** * * ** *
12049708 AAGATCTGGAAATTTAGCCTGTTACCCTACTGCTT-AGGGGTTTAAGGCCCTTCGTTTTTGATCT
66 AAGATCTGGAAATTTAGCCTACTACCCTACTGCTTAAGAGG-TTAAGG-CCATCGCCTTCGATCT
* * ** *
12049772 GCTCCACTACTGCTTAGGGAGATAAGATCT-GCAGTTTGGTCTGTTACCCTACTGCTTAGGG-GT
129 GCTCCACTACTGCTTAGGGAGATAAGATCTAGAAATTCAGCCTGTTACCCTACTGCTTAGGGAG-
* * *
12049835 TTAAGACCCTTC-GTCTTCGATCTGC
193 ATAAGA-CCTACAAT-TT-GATCTGC
* * * *
12049860 T-CCACTACTGCTTAGGGAG-ATAAGA-TC-T-GCAATTTGGTCTGTTACCCTACTGCTTAGGGG
1 TACC-CTACTGCTTAGGG-GTATAAGACCCTTCGC-ATTCGATCTGTTTCCCTACTGCTTAGGGG
*
12049920 TTTAAGA
63 GTTAAGA
12049927 CCCTTCGTCT
Statistics
Matches: 240, Mismatches: 34, Indels: 20
0.82 0.12 0.07
Matches are distributed among these distances:
214 8 0.03
215 159 0.66
216 48 0.20
217 24 0.10
218 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.33
Consensus pattern (215 bp):
TACCCTACTGCTTAGGGGTATAAGACCCTTCGCATTCGATCTGTTTCCCTACTGCTTAGGGGGTT
AAGATCTGGAAATTTAGCCTACTACCCTACTGCTTAAGAGGTTAAGGCCATCGCCTTCGATCTGC
TCCACTACTGCTTAGGGAGATAAGATCTAGAAATTCAGCCTGTTACCCTACTGCTTAGGGAGATA
AGACCTACAATTTGATCTGC
Found at i:12058188 original size:24 final size:25
Alignment explanation
Indices: 12058148--12058194 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
12058138 TAATGTAAAT
*
12058148 AATGCAATGCAATGCAAATGCATGA
1 AATGCAATGCAAAGCAAATGCATGA
12058173 AATG-AATGCAAAGCAAATGCAT
1 AATGCAATGCAAAGCAAATGCAT
12058195 TGATTCTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (25 bp):
AATGCAATGCAAAGCAAATGCATGA
Found at i:12060099 original size:14 final size:14
Alignment explanation
Indices: 12060080--12060111 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
12060070 ATAATAATAC
12060080 TATATATAAATATA
1 TATATATAAATATA
*
12060094 TATATATAAATGTA
1 TATATATAAATATA
12060108 TATA
1 TATA
12060112 ATAGAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (14 bp):
TATATATAAATATA
Found at i:12060224 original size:12 final size:12
Alignment explanation
Indices: 12060202--12060244 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
12060192 AATAAAAAAC
12060202 AATACTATATATA
1 AATA-TATATATA
12060215 AATATATATATA
1 AATATATATATA
* * *
12060227 TATATACATAAA
1 AATATATATATA
12060239 AATATA
1 AATATA
12060245 CACTAATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
12 22 0.85
13 4 0.15
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (12 bp):
AATATATATATA
Found at i:12060357 original size:3 final size:3
Alignment explanation
Indices: 12060349--12060408 Score: 77
Period size: 3 Copynumber: 19.0 Consensus size: 3
12060339 AATAGGGGTG
12060349 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CA-A ATA ATA ATA CATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA
12060395 TATA TATA ATA ATA
1 -ATA -ATA ATA ATA
12060409 GTAGTCAGAA
Statistics
Matches: 53, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
2 1 0.02
3 41 0.77
4 11 0.21
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12060505 original size:12 final size:12
Alignment explanation
Indices: 12060481--12060560 Score: 74
Period size: 12 Copynumber: 6.6 Consensus size: 12
12060471 GAGAGGGTAT
12060481 ATATAATATAATA
1 ATATAA-ATAATA
12060494 ATATAAATAATA
1 ATATAAATAATA
* *
12060506 ATATATACATGAGA
1 ATATA-A-ATAATA
12060520 A-AT-AATAATA
1 ATATAAATAATA
12060530 ATATAAATAATA
1 ATATAAATAATA
* *
12060542 GTAAAAATAATA
1 ATATAAATAATA
*
12060554 AAATAAA
1 ATATAAA
12060561 AAAAATAAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
10 5 0.09
11 3 0.06
12 32 0.59
13 9 0.17
14 5 0.09
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:12060556 original size:9 final size:9
Alignment explanation
Indices: 12060490--12060568 Score: 54
Period size: 9 Copynumber: 8.6 Consensus size: 9
12060480 TATATAATAT
*
12060490 AATAATATA
1 AATAATAAA
12060499 AATAATAATA
1 AATAATAA-A
* *
12060509 TATACATGAGA
1 AATA-AT-AAA
*
12060520 AATAATAAT
1 AATAATAAA
12060529 AAT-ATAAA
1 AATAATAAA
*
12060537 TAATAGTAAA
1 -AATAATAAA
12060547 AATAAT-AA
1 AATAATAAA
*
12060555 AATAAAAAA
1 AATAATAAA
12060564 AATAA
1 AATAA
12060569 AACAAAGCTC
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
8 11 0.20
9 26 0.48
10 10 0.19
11 6 0.11
12 1 0.02
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (9 bp):
AATAATAAA
Found at i:12061102 original size:30 final size:30
Alignment explanation
Indices: 12061063--12061148 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
12061053 ATTTGATGGT
* *
12061063 GTAGTTGCAAGTGGGAGACAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
12061093 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
12061123 GTAGGTGCAAGTGGGAGGCAAGGTGG
1 GTAGGTGCAAGTGGGAGGCAAGGTGG
12061149 CTAGGGTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.24, C:0.07, G:0.51, T:0.17
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
Found at i:12061116 original size:18 final size:18
Alignment explanation
Indices: 12061095--12061147 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
12061085 GTGGTGGAGT
12061095 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
*
12061113 AGGTG---GT-GGA-G-T
1 AGGTGCAAGTGGGAGGCA
12061125 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
12061143 AGGTG
1 AGGTG
12061148 GCTAGGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 5 0.19
13 1 0.04
14 3 0.11
15 4 0.15
16 3 0.11
17 1 0.04
18 10 0.37
ACGTcount: A:0.25, C:0.08, G:0.53, T:0.15
Consensus pattern (18 bp):
AGGTGCAAGTGGGAGGCA
Found at i:12063437 original size:3 final size:3
Alignment explanation
Indices: 12063400--12063425 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
12063390 TTTTGTTGTG
12063400 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
12063426 TAATCTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:12064290 original size:25 final size:27
Alignment explanation
Indices: 12064242--12064293 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
12064232 TAAATAAAAA
* *
12064242 ATTTCAAAAATATAATAAATCAAATAT
1 ATTTAAAAAACATAATAAATCAAATAT
12064269 ATTTAAAAAACATAA-AAA-CAAATAT
1 ATTTAAAAAACATAATAAATCAAATAT
12064294 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
26 3 0.13
27 13 0.57
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (27 bp):
ATTTAAAAAACATAATAAATCAAATAT
Found at i:12064305 original size:22 final size:22
Alignment explanation
Indices: 12064271--12064322 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
12064261 TCAAATATAT
12064271 TTAAAA-AACATAAAAACAAATA
1 TTAAAACAACATAAAAA-AAATA
*
12064293 TTAAAACAA-ATAAAAATAATA
1 TTAAAACAACATAAAAAAAATA
*
12064314 CTAAAACAA
1 TTAAAACAA
12064323 TTTTTAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 12 0.44
22 13 0.48
23 2 0.07
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (22 bp):
TTAAAACAACATAAAAAAAATA
Found at i:12064307 original size:21 final size:20
Alignment explanation
Indices: 12064275--12064322 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
12064265 ATATATTTAA
* *
12064275 AAAACATAAAAACA-AATATT
1 AAAACA-AAAAAAATAATACT
12064295 AAAACAAATAAAAATAATACT
1 AAAACAAA-AAAAATAATACT
12064316 AAAACAA
1 AAAACAA
12064323 TTTTTAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 10 0.42
21 12 0.50
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAACAAAAAAAATAATACT
Found at i:12066265 original size:11 final size:11
Alignment explanation
Indices: 12066249--12066273 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12066239 TTTCGTTAAG
12066249 AAATAATATAA
1 AAATAATATAA
12066260 AAATAATATAA
1 AAATAATATAA
12066271 AAA
1 AAA
12066274 CAAATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATAATATAA
Found at i:12070430 original size:17 final size:19
Alignment explanation
Indices: 12070389--12070430 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
12070379 TGTATTTTAG
12070389 CATATATTTTGCTACGATA
1 CATATATTTTGCTACGATA
12070408 -ATATATTTTG-TAC-ATA
1 CATATATTTTGCTACGATA
12070424 CATATAT
1 CATATAT
12070431 ATTTCGCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 3 0.14
17 9 0.41
18 10 0.45
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (19 bp):
CATATATTTTGCTACGATA
Found at i:12070694 original size:3 final size:3
Alignment explanation
Indices: 12070686--12070733 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
12070676 TTTAATTAAA
12070686 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12070734 TTTGAATGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:12072022 original size:132 final size:130
Alignment explanation
Indices: 12071544--12072027 Score: 370
Period size: 131 Copynumber: 3.7 Consensus size: 130
12071534 AGATTTGATA
* * * * * * * * * *
12071544 TTTGGCAATTCGCGGAATAGTGCCCTAACATGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAAT
1 TTTGGCAATTCGGGGAATAGTACCCTATCGTGCTGGGTCGCAATTTCTCATTTGATCAAAACAAT
* * * * * * * *
12071609 CAAATATCCCTTCAAAATTTCATTCATGTCTTCTAAAAATCATTTAAAACGAAGGCAATATTTGG
66 CGAATATCCCTTCGAAATTTCATTCATGTTTTCTAAAAA-CCTTTAAAACGAAAG-AATGTTCGA
**
12071674 CA
129 TG
* * * ** *
12071676 TTTGACAATTCGGGG-ATCA-TGCCCTATCGTGCTGGGTTGTGATCTCTCATTTGATCAAAACAA
1 TTTGGCAATTCGGGGAAT-AGTACCCTATCGTGCTGGGTCGCAATTTCTCATTTGATCAAAACAA
* * ** * * *
12071739 TCGAATATTCCTT-TAGGTTTTCACTCATGTTTAT-TAAAAACCTTTCAAAA-TAAAGGATGTTC
65 TCGAATATCCCTTCGA-AATTTCATTCATGTTT-TCTAAAAACCTTT-AAAACGAAAGAATGTTC
12071801 GATG
127 GATG
* * * * * * * *
12071805 TTTGGCGATT-TGAGAATCGTACCCTATCGTGCTGGGTTGCGC-TTTTTTCCATTTGTTCTAAAC
1 TTTGGCAATTCGGGGAATAGTACCCTATCGTGCTGGG-T-CGCAATTTCT-CATTTGATCAAAAC
* * *
12071868 AATCGAAGATCCCTTCGGAATTTCATTCACGTTTTCTAAAAACCCTTTAAAACGAAAGAAGTGTT
63 AATCGAATATCCCTTCGAAATTTCATTCATGTTTTCTAAAAA-CCTTTAAAACGAAAGAA-TGTT
12071933 CGATG
126 CGATG
* * * * *
12071938 TTTGGCAGTTCGGGGAATAGTACCCTATTGTGCTGGGTCGCAATTTCTCGTTTGGTCAAAATAAT
1 TTTGGCAATTCGGGGAATAGTACCCTATCGTGCTGGGTCGCAATTTCTCATTTGATCAAAACAAT
*
12072003 CGAATATCTCTTCGAAATTTCATTC
66 CGAATATCCCTTCGAAATTTCATTC
12072028 GTATTTTTTA
Statistics
Matches: 270, Mismatches: 66, Indels: 32
0.73 0.18 0.09
Matches are distributed among these distances:
128 2 0.01
129 31 0.11
130 13 0.05
131 117 0.43
132 63 0.23
133 22 0.08
134 22 0.08
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (130 bp):
TTTGGCAATTCGGGGAATAGTACCCTATCGTGCTGGGTCGCAATTTCTCATTTGATCAAAACAAT
CGAATATCCCTTCGAAATTTCATTCATGTTTTCTAAAAACCTTTAAAACGAAAGAATGTTCGATG
Found at i:12073872 original size:17 final size:19
Alignment explanation
Indices: 12073837--12073873 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
12073827 AAGGACAAAA
*
12073837 TTCTATTTTTCACAGTTTT
1 TTCTATTTTTCACACTTTT
12073856 TTCT-TTTTT-ACACTTTT
1 TTCTATTTTTCACACTTTT
12073873 T
1 T
12073874 GATTTTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 5 0.29
19 4 0.24
ACGTcount: A:0.14, C:0.16, G:0.03, T:0.68
Consensus pattern (19 bp):
TTCTATTTTTCACACTTTT
Found at i:12077846 original size:32 final size:31
Alignment explanation
Indices: 12077776--12077848 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
12077766 CATTAAATTC
* * *
12077776 CAACCAAATACAACAAATATAGTATAAAATG
1 CAACCAAAAACAACAAATATAGCATAAAATA
* * *
12077807 CAGCCAAAAACAGCAAATTTAGCATAAAAATA
1 CAACCAAAAACAACAAATATAGCAT-AAAATA
12077839 CAACCAAAAA
1 CAACCAAAAA
12077849 ATTAATTCTA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
31 20 0.59
32 14 0.41
ACGTcount: A:0.59, C:0.19, G:0.07, T:0.15
Consensus pattern (31 bp):
CAACCAAAAACAACAAATATAGCATAAAATA
Found at i:12078609 original size:46 final size:46
Alignment explanation
Indices: 12078551--12078645 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
12078541 TGATGAATTG
*
12078551 AATTAAACAATTATAATTAAAGATTATAAATATTTAGAATAAATCA
1 AATTAAAAAATTATAATTAAAGATTATAAATATTTAGAATAAATCA
*
12078597 AATTAAAAAATTATCATTAAAGATTATAAATATTTAGAATAAATCA
1 AATTAAAAAATTATAATTAAAGATTATAAATATTTAGAATAAATCA
12078643 AAT
1 AAT
12078646 ATTATTAAGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (46 bp):
AATTAAAAAATTATAATTAAAGATTATAAATATTTAGAATAAATCA
Found at i:12083790 original size:9 final size:9
Alignment explanation
Indices: 12083778--12083836 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
12083768 TCCGTAAGTT
*
12083778 GTTATGTAC
1 GTTATGTAA
*
12083787 GTTATGTGA
1 GTTATGTAA
12083796 GTTATGTAA
1 GTTATGTAA
*
12083805 ATTATGTAA
1 GTTATGTAA
*
12083814 GTTATGTGA
1 GTTATGTAA
12083823 GTTATGTAA
1 GTTATGTAA
12083832 GTTAT
1 GTTAT
12083837 TTTTTAAGAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.46
Consensus pattern (9 bp):
GTTATGTAA
Found at i:12083810 original size:27 final size:27
Alignment explanation
Indices: 12083779--12083836 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
12083769 CCGTAAGTTG
*
12083779 TTATGTACGTTATGTGAGTTATGTAAA
1 TTATGTAAGTTATGTGAGTTATGTAAA
*
12083806 TTATGTAAGTTATGTGAGTTATGTAAG
1 TTATGTAAGTTATGTGAGTTATGTAAA
12083833 TTAT
1 TTAT
12083837 TTTTTAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATGTGAGTTATGTAAA
Found at i:12086918 original size:38 final size:39
Alignment explanation
Indices: 12086847--12086955 Score: 166
Period size: 38 Copynumber: 2.8 Consensus size: 39
12086837 AAAAATTACT
12086847 TTTTGCGGCGTTTTAATCATAAACGCCGCTATTGATTGCC
1 TTTTGCGGCGTTTT-ATCATAAACGCCGCTATTGATTGCC
* * *
12086887 TTTTGCGGCGTTTTAT-ATAAACGCCGTTATTGCTTGTC
1 TTTTGCGGCGTTTTATCATAAACGCCGCTATTGATTGCC
12086925 TTTTGCGGCGTTTTTATCATAAACGCCGCTA
1 TTTTGCGGCG-TTTTATCATAAACGCCGCTA
12086956 ATTTTTGACT
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
38 29 0.46
39 8 0.13
40 26 0.41
ACGTcount: A:0.18, C:0.21, G:0.20, T:0.40
Consensus pattern (39 bp):
TTTTGCGGCGTTTTATCATAAACGCCGCTATTGATTGCC
Found at i:12086968 original size:40 final size:40
Alignment explanation
Indices: 12086847--12086968 Score: 160
Period size: 38 Copynumber: 3.1 Consensus size: 40
12086837 AAAAATTACT
* *
12086847 TTTTGCGGCGTTTTAATCATAAACGCCGCTATTGATTGCC
1 TTTTGCGGCGTTTTTATCATAAACGCCGCTATTGATTGAC
* * *
12086887 TTTTGCGGCG-TTTTAT-ATAAACGCCGTTATTGCTTGTC
1 TTTTGCGGCGTTTTTATCATAAACGCCGCTATTGATTGAC
*
12086925 TTTTGCGGCGTTTTTATCATAAACGCCGCTAATT-TTTGAC
1 TTTTGCGGCGTTTTTATCATAAACGCCGCT-ATTGATTGAC
12086965 TTTT
1 TTTT
12086969 TTATAATTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
38 29 0.40
39 11 0.15
40 29 0.40
41 3 0.04
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.43
Consensus pattern (40 bp):
TTTTGCGGCGTTTTTATCATAAACGCCGCTATTGATTGAC
Found at i:12086991 original size:22 final size:21
Alignment explanation
Indices: 12086966--12087023 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
12086956 ATTTTTGACT
12086966 TTTTTATAATTTTTATATTGAA
1 TTTTTATAATTTTTATATT-AA
12086988 TTTTTAT-ATCTTTTATATTAA
1 TTTTTATAAT-TTTTATATTAA
*
12087009 TTTTAAATAATTTTT
1 TTTT-TATAATTTTT
12087024 TTTAAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 8 0.25
22 22 0.69
23 2 0.06
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTTTATAATTTTTATATTAA
Found at i:12087423 original size:2 final size:2
Alignment explanation
Indices: 12087416--12087447 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
12087406 AAATTTATTA
12087416 AT AT AT AT AT -T 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 AT A
12087448 AAGTAAACTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12087646 original size:28 final size:28
Alignment explanation
Indices: 12087594--12087659 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
12087584 CCAGAAAAGT
*
12087594 AAATCATTTTCCATAAATCATTTTTCAAG
1 AAATCATTTTCCAGAAATCATTTTTC-AG
* *
12087623 AAATTATTTT-CAGAAATTATTTTTCAG
1 AAATCATTTTCCAGAAATCATTTTTCAG
*
12087650 AAAACATTTT
1 AAATCATTTT
12087660 ACCTGCAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 10 0.31
28 13 0.41
29 9 0.28
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (28 bp):
AAATCATTTTCCAGAAATCATTTTTCAG
Found at i:12087658 original size:14 final size:14
Alignment explanation
Indices: 12087594--12087659 Score: 71
Period size: 14 Copynumber: 4.7 Consensus size: 14
12087584 CCAGAAAAGT
* *
12087594 AAATCATTTTCCAT
1 AAATCATTTTTCAG
12087608 AAATCATTTTTCAAG
1 AAATCATTTTTC-AG
*
12087623 AAATTA-TTTTCAG
1 AAATCATTTTTCAG
*
12087636 AAATTATTTTTCAG
1 AAATCATTTTTCAG
*
12087650 AAAACATTTT
1 AAATCATTTT
12087660 ACCTGCAAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
13 8 0.18
14 31 0.69
15 6 0.13
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (14 bp):
AAATCATTTTTCAG
Found at i:12087826 original size:7 final size:7
Alignment explanation
Indices: 12087800--12087932 Score: 63
Period size: 7 Copynumber: 18.7 Consensus size: 7
12087790 AATCATACAA
12087800 CATAACC
1 CATAACC
* *
12087807 CTTAAATC
1 CAT-AACC
12087815 CATAACC
1 CATAACC
12087822 CATAACC
1 CATAACC
*
12087829 CCTAACC
1 CATAACC
12087836 CATAACC
1 CATAACC
*
12087843 CCTAACAC
1 CATAAC-C
*
12087851 C-TAAAC
1 CATAACC
*
12087857 CTTAAACC
1 CAT-AACC
*
12087865 C-CAACC
1 CATAACC
* *
12087871 CTTAAAC
1 CATAACC
*
12087878 CATAAAC
1 CATAACC
** *
12087885 TGTAAAC
1 CATAACC
*
12087892 CATAATC
1 CATAACC
12087899 CATAAACC
1 CAT-AACC
*
12087907 CATAATC
1 CATAACC
*
12087914 CATAATC
1 CATAACC
*
12087921 CATAATC
1 CATAACC
12087928 CATAA
1 CATAA
12087933 ACCTTAAAAT
Statistics
Matches: 100, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
6 7 0.07
7 76 0.76
8 17 0.17
ACGTcount: A:0.43, C:0.36, G:0.01, T:0.20
Consensus pattern (7 bp):
CATAACC
Found at i:12087884 original size:21 final size:20
Alignment explanation
Indices: 12087803--12087882 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 20
12087793 CATACAACAT
*
12087803 AACCCTTAAATCCATAACCCAT
1 AACCCTTAAA-CCATAACCC-C
* *
12087825 AACCCCTAACCCATAACCCC
1 AACCCTTAAACCATAACCCC
*
12087845 TAACACC-TAAACCTTAAACCCC
1 -AAC-CCTTAAACCAT-AACCCC
12087867 AACCCTTAAACCATAA
1 AACCCTTAAACCATAA
12087883 ACTGTAAACC
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 4 0.08
21 28 0.58
22 16 0.33
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.17
Consensus pattern (20 bp):
AACCCTTAAACCATAACCCC
Found at i:12087904 original size:14 final size:14
Alignment explanation
Indices: 12087873--12087935 Score: 81
Period size: 14 Copynumber: 4.4 Consensus size: 14
12087863 CCCCAACCCT
* **
12087873 TAAACCATAAACTG
1 TAAACCATAATCCA
12087887 TAAACCATAATCCA
1 TAAACCATAATCCA
12087901 TAAACCCATAATCCA
1 TAAA-CCATAATCCA
*
12087916 TAATCCATAATCCA
1 TAAACCATAATCCA
12087930 TAAACC
1 TAAACC
12087936 TTAAAATAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
14 30 0.70
15 13 0.30
ACGTcount: A:0.48, C:0.29, G:0.02, T:0.22
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:12088249 original size:24 final size:24
Alignment explanation
Indices: 12088222--12088268 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
12088212 TTAAAATAAC
*
12088222 AATTAATTTTTATATAGACTTTTA
1 AATTAATTTTTATATAAACTTTTA
12088246 AATTAATTTTTATATAAACTTTT
1 AATTAATTTTTATATAAACTTTT
12088269 GATAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.55
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:12088945 original size:41 final size:41
Alignment explanation
Indices: 12088888--12089104 Score: 303
Period size: 41 Copynumber: 5.3 Consensus size: 41
12088878 AGTTATATGA
12088888 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* *
12088929 CTTTTAGCGGCGTTTTACCCAAAGCGCCGTTAATGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* * *
12088970 CTTTTAGCGGCGTTTTGCCAAAAGCGTCGCTAAAT-TTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCT-AATGCTCTGT
* * * *
12089011 CTTTTAGTGGCGTTTTGCCAAAAGCGCCGCTAAAGCTCTAT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* * *
12089052 CTTTTAGCGGCGTTTTACCAAAAGCGCTGCTATTGCTCAGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
12089093 -TTTTAGCGGCGT
1 CTTTTAGCGGCGT
12089105 ACCAAAAACG
Statistics
Matches: 155, Mismatches: 19, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
40 14 0.09
41 138 0.89
42 3 0.02
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (41 bp):
CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
Found at i:12089174 original size:12 final size:12
Alignment explanation
Indices: 12089159--12089184 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12089149 GTTTTTTGAT
12089159 AAAACGCCGCTA
1 AAAACGCCGCTA
12089171 AAAACGCCGCTA
1 AAAACGCCGCTA
12089183 AA
1 AA
12089185 GCCCTATTTT
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:12093954 original size:15 final size:14
Alignment explanation
Indices: 12093898--12094014 Score: 80
Period size: 15 Copynumber: 8.1 Consensus size: 14
12093888 TTATTATGTT
*
12093898 TCTATTTATATTTA
1 TCTATTTTTATTTA
*
12093912 T-T-TTGTTATTCTAA
1 TCTATTTTTATT-T-A
*
12093926 TACTATTATTATTTA
1 T-CTATTTTTATTTA
12093941 TCTAATTTTTATTTA
1 TCT-ATTTTTATTTA
* *
12093956 TCTATTTATATTTC
1 TCTATTTTTATTTA
12093970 TACTATTTTTATATT-
1 T-CTATTTTTAT-TTA
12093985 TCTATTTATTATATT-
1 TCTATTT-TTAT-TTA
*
12094000 TCTATTTCTATTTA
1 TCTATTTTTATTTA
12094014 T
1 T
12094015 ATACTAATAT
Statistics
Matches: 85, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
12 6 0.07
13 4 0.05
14 25 0.29
15 39 0.46
16 4 0.05
17 7 0.08
ACGTcount: A:0.26, C:0.09, G:0.01, T:0.65
Consensus pattern (14 bp):
TCTATTTTTATTTA
Found at i:12093960 original size:29 final size:27
Alignment explanation
Indices: 12093928--12094041 Score: 81
Period size: 29 Copynumber: 3.9 Consensus size: 27
12093918 TATTCTAATA
12093928 CTATTATTATTTATCTAATTTTTATTTAT
1 CTATTATTATTT-TCT-ATTTTTATTTAT
12093957 CTATT-TATATTTCTACTATTTTTATATT-T
1 CTATTAT-TATTT-T-CTATTTTTAT-TTAT
*
12093986 CTATTTATTATATTTCTATTTCTATTTATAT
1 CTA-TTATTAT-TTTCTATTTTTA-TT-TAT
* *
12094017 ACTAATATTATTTTC-ATTATTATTT
1 -CTATTATTATTTTCTATTTTTATTT
12094042 TTCTTATATA
Statistics
Matches: 70, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
27 1 0.01
28 3 0.04
29 37 0.53
30 16 0.23
31 10 0.14
32 3 0.04
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (27 bp):
CTATTATTATTTTCTATTTTTATTTAT
Found at i:12093974 original size:44 final size:44
Alignment explanation
Indices: 12093926--12094045 Score: 108
Period size: 44 Copynumber: 2.8 Consensus size: 44
12093916 GTTATTCTAA
12093926 TACTATTATTAT-TTATCTAATTT-TTAT-TTATCTATTTATATTTC
1 TACTATTATTATATT-TCT-ATTTATTATATT-TCTATTTATATTTC
* * *
12093970 TACTATTTTTATATTTCTATTTATTATATTTCTATTTCTATTTATA
1 TACTATTATTATATTTCTATTTATTATATTTCTATTTATA-TT-TC
* *
12094016 TACTAATATTAT-TTTC-A-TTATTATTTTTCT
1 TACTATTATTATATTTCTATTTATTATATTTCT
12094046 TATATATGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
43 16 0.25
44 28 0.43
45 10 0.15
46 11 0.17
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (44 bp):
TACTATTATTATATTTCTATTTATTATATTTCTATTTATATTTC
Found at i:12094180 original size:25 final size:25
Alignment explanation
Indices: 12094152--12094200 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
12094142 CTCATTTCAA
* *
12094152 ATTTTTATACATTATTTACTTTAAT
1 ATTTTCATACATTATGTACTTTAAT
* *
12094177 ATTTTCATATATTATGTATTTTAA
1 ATTTTCATACATTATGTACTTTAA
12094201 ACTTTTTTTG
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:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (25 bp):
ATTTTCATACATTATGTACTTTAAT
Found at i:12097106 original size:40 final size:40
Alignment explanation
Indices: 12097048--12097131 Score: 123
Period size: 40 Copynumber: 2.1 Consensus size: 40
12097038 AGTAAACTAC
* *
12097048 TTTTTGTATTCAGATTTTAGTTCATTCTTCTTTAGTTTAG
1 TTTTTGTATTCAGATTTTAATTCATTCTTCTCTAGTTTAG
* * *
12097088 TTTTTGTATTCTGGTTTTAATTCCTTCTTCTCTAGTTTAG
1 TTTTTGTATTCAGATTTTAATTCATTCTTCTCTAGTTTAG
12097128 TTTT
1 TTTT
12097132 CTTTCTGCAG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.14, C:0.12, G:0.12, T:0.62
Consensus pattern (40 bp):
TTTTTGTATTCAGATTTTAATTCATTCTTCTCTAGTTTAG
Found at i:12098041 original size:61 final size:60
Alignment explanation
Indices: 12097965--12098081 Score: 182
Period size: 61 Copynumber: 1.9 Consensus size: 60
12097955 TTTAGTTACT
*
12097965 CAACTATGAAAAATTACAAAATAATCACTTAACTATTAATAATTTTTCTTTTTTGGTCACCC
1 CAACTATGAAAAATTACAAAATAATCACTTAACTATT-AT-ATTTTTCCTTTTTGGTCACCC
* *
12098027 CAAC-ATGAAAAATTACAAAATAGTCACTTAACTATTCTATTTTTCCTTTTTGGTC
1 CAACTATGAAAAATTACAAAATAATCACTTAACTATTATATTTTTCCTTTTTGGTC
12098082 TCCAACTTGC
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 16 0.31
60 1 0.02
61 31 0.60
62 4 0.08
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (60 bp):
CAACTATGAAAAATTACAAAATAATCACTTAACTATTATATTTTTCCTTTTTGGTCACCC
Found at i:12099182 original size:54 final size:54
Alignment explanation
Indices: 12099123--12099233 Score: 222
Period size: 54 Copynumber: 2.1 Consensus size: 54
12099113 TTTTTCTTTT
12099123 CTTCTTTTTAAATCGGAGCTTTGCACAAATTCAGGCAAGCTTTGCATACTTGGA
1 CTTCTTTTTAAATCGGAGCTTTGCACAAATTCAGGCAAGCTTTGCATACTTGGA
12099177 CTTCTTTTTAAATCGGAGCTTTGCACAAATTCAGGCAAGCTTTGCATACTTGGA
1 CTTCTTTTTAAATCGGAGCTTTGCACAAATTCAGGCAAGCTTTGCATACTTGGA
12099231 CTT
1 CTT
12099234 TAGTGTGTTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTCTTTTTAAATCGGAGCTTTGCACAAATTCAGGCAAGCTTTGCATACTTGGA
Found at i:12106196 original size:46 final size:46
Alignment explanation
Indices: 12106129--12106224 Score: 192
Period size: 46 Copynumber: 2.1 Consensus size: 46
12106119 TTTCTTGCTC
12106129 TAACACTATCCCTATATATACATTTCCCGTTTCCGGGAATCCGAGT
1 TAACACTATCCCTATATATACATTTCCCGTTTCCGGGAATCCGAGT
12106175 TAACACTATCCCTATATATACATTTCCCGTTTCCGGGAATCCGAGT
1 TAACACTATCCCTATATATACATTTCCCGTTTCCGGGAATCCGAGT
12106221 TAAC
1 TAAC
12106225 TTTTTCTCTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.32
Consensus pattern (46 bp):
TAACACTATCCCTATATATACATTTCCCGTTTCCGGGAATCCGAGT
Found at i:12108869 original size:4 final size:4
Alignment explanation
Indices: 12108862--12108886 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
12108852 CACCCTTTCT
12108862 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
12108887 AACTACAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:12110863 original size:2 final size:2
Alignment explanation
Indices: 12110856--12110880 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12110846 AAATAAAGAT
12110856 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
12110881 CTACGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12113207 original size:29 final size:27
Alignment explanation
Indices: 12113177--12113244 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 27
12113167 AATGGACCTA
12113177 AAATTTTAAATTCAAAAAT-TAAAGAATT
1 AAATTTTAAATT-AAAAATATAAA-AATT
*
12113205 AAATTCTTAAAAATAAAAATATAAAAATT
1 AAATT-TT-AAATTAAAAATATAAAAATT
*
12113234 AAATTCTAAAT
1 AAATTTTAAAT
12113245 ATATAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 3 0.09
28 6 0.18
29 17 0.50
30 8 0.24
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (27 bp):
AAATTTTAAATTAAAAATATAAAAATT
Found at i:12113243 original size:14 final size:14
Alignment explanation
Indices: 12113196--12113243 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
12113186 ATTCAAAAAT
12113196 TAAAGAATTAAATTC
1 TAAA-AATTAAATTC
* * *
12113211 TTAAAAATAAAAATA
1 -TAAAAATTAAATTC
12113226 TAAAAATTAAATTC
1 TAAAAATTAAATTC
12113240 TAAA
1 TAAA
12113244 TATATAAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 15 0.58
15 7 0.27
16 4 0.15
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (14 bp):
TAAAAATTAAATTC
Found at i:12113246 original size:20 final size:20
Alignment explanation
Indices: 12113218--12113267 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
12113208 TTCTTAAAAA
* *
12113218 TAAAAATATAAAAATTAAATT
1 TAAATATATAAAAA-AAAATT
12113239 CTAAATATATAAAAAAAAATT
1 -TAAATATATAAAAAAAAATT
12113260 TAAATATA
1 TAAATATA
12113268 CTGTAACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 8 0.31
21 5 0.19
22 13 0.50
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAATATATAAAAAAAAATT
Found at i:12113252 original size:29 final size:29
Alignment explanation
Indices: 12113190--12113253 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
12113180 TTTTAAATTC
12113190 AAAAAT-TAAAGAATTAAATTCTTAAAAAT
1 AAAAATATAAA-AATTAAATTCTTAAAAAT
12113219 AAAAATATAAAAATTAAATTC-TAAATATAT
1 AAAAATATAAAAATTAAATTCTTAAA-A-AT
12113249 AAAAA
1 AAAAA
12113254 AAAATTTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
28 4 0.12
29 17 0.53
30 11 0.34
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.30
Consensus pattern (29 bp):
AAAAATATAAAAATTAAATTCTTAAAAAT
Found at i:12114355 original size:17 final size:17
Alignment explanation
Indices: 12114315--12114347 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12114305 GTTTTATATT
*
12114315 ATTTTTACTCTTTTTAG
1 ATTTTTAATCTTTTTAG
12114332 ATTTTTAATCTTTTTA
1 ATTTTTAATCTTTTTA
12114348 ATTATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.09, G:0.03, T:0.67
Consensus pattern (17 bp):
ATTTTTAATCTTTTTAG
Found at i:12117460 original size:2 final size:2
Alignment explanation
Indices: 12117455--12117479 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12117445 TTTTTTCAAC
12117455 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 A
12117480 ATGTTGATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12119154 original size:30 final size:30
Alignment explanation
Indices: 12119107--12119172 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
12119097 AATTAGTAAA
*
12119107 AATAAAATTATACTTTAA-CTCTCTAAAAAT
1 AATAAAATTATAATTTAATC-CTCTAAAAAT
*
12119137 AATAAGAATT-TAATTTAATCCTTTAAAAAT
1 AATAA-AATTATAATTTAATCCTCTAAAAAT
*
12119167 GATAAA
1 AATAAA
12119173 GATATAGGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 1 0.03
30 25 0.81
31 5 0.16
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (30 bp):
AATAAAATTATAATTTAATCCTCTAAAAAT
Found at i:12130330 original size:15 final size:15
Alignment explanation
Indices: 12130310--12130339 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12130300 TATGTTTTAT
*
12130310 TTGTAAGACATAATG
1 TTGTAAGACACAATG
12130325 TTGTAAGACACAATG
1 TTGTAAGACACAATG
12130340 CTATCGGTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (15 bp):
TTGTAAGACACAATG
Found at i:12142073 original size:2 final size:2
Alignment explanation
Indices: 12142068--12142099 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
12142058 AAGAGATAAT
*
12142068 GA GA GA GA GA GA TA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
12142100 TTGATTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (2 bp):
GA
Found at i:12142080 original size:16 final size:16
Alignment explanation
Indices: 12142059--12142095 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
12142049 ATATATATAA
12142059 AGAGATA-ATGAGAGAG
1 AGAGATAGA-GAGAGAG
12142075 AGAGATAGAGAGAGAG
1 AGAGATAGAGAGAGAG
12142091 AGAGA
1 AGAGA
12142096 GAGATTGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 19 0.95
17 1 0.05
ACGTcount: A:0.51, C:0.00, G:0.41, T:0.08
Consensus pattern (16 bp):
AGAGATAGAGAGAGAG
Found at i:12142307 original size:46 final size:46
Alignment explanation
Indices: 12142240--12142332 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
12142230 AAAAAAAAAG
12142240 AACTTAATTTAGAAGAAAAAGAATAGCACACTTCTATCAAGTATCA
1 AACTTAATTTAGAAGAAAAAGAATAGCACACTTCTATCAAGTATCA
12142286 AACTTAATTTAGAAGAAAAAGAATAGCACACTTCTATCAAGTATCA
1 AACTTAATTTAGAAGAAAAAGAATAGCACACTTCTATCAAGTATCA
12142332 A
1 A
12142333 CCCAAACAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (46 bp):
AACTTAATTTAGAAGAAAAAGAATAGCACACTTCTATCAAGTATCA
Found at i:12143357 original size:16 final size:17
Alignment explanation
Indices: 12143336--12143369 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
12143326 AAATTTTTCG
*
12143336 TATTGT-TTTATAATTA
1 TATTGTATTTAAAATTA
12143352 TATTGTATTTAAAATTA
1 TATTGTATTTAAAATTA
12143369 T
1 T
12143370 CAGAATTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
TATTGTATTTAAAATTA
Found at i:12148279 original size:52 final size:52
Alignment explanation
Indices: 12148220--12148323 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
12148210 ATTAAATTAT
12148220 CTAAAATTGGATGGAAAAATTAGTCTTTGTTAATTTTATTACATAACATACA
1 CTAAAATTGGATGGAAAAATTAGTCTTTGTTAATTTTATTACATAACATACA
12148272 CTAAAATTGGATGGAAAAATTAGTCTTTGTTAATTTTATTACATAACATACA
1 CTAAAATTGGATGGAAAAATTAGTCTTTGTTAATTTTATTACATAACATACA
12148324 TGTAGATTAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (52 bp):
CTAAAATTGGATGGAAAAATTAGTCTTTGTTAATTTTATTACATAACATACA
Found at i:12149202 original size:15 final size:16
Alignment explanation
Indices: 12149182--12149215 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
12149172 AATAACTCCA
12149182 TTTAAG-AAATATAAT
1 TTTAAGCAAATATAAT
12149197 TTTAAGCAAATATAAT
1 TTTAAGCAAATATAAT
12149213 TTT
1 TTT
12149216 TTTATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (16 bp):
TTTAAGCAAATATAAT
Found at i:12154429 original size:29 final size:29
Alignment explanation
Indices: 12154387--12154455 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
12154377 TTAGTTTGTA
12154387 CGGTGGTTATGCTTGAAATAAAGGGAGTG
1 CGGTGGTTATGCTTGAAATAAAGGGAGTG
* *
12154416 CGGTGGTTATGCTTGAAGTAAAGGTAGTG
1 CGGTGGTTATGCTTGAAATAAAGGGAGTG
12154445 CGGTGGTTATG
1 CGGTGGTTATG
12154456 GGGAAATGAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.23, C:0.07, G:0.39, T:0.30
Consensus pattern (29 bp):
CGGTGGTTATGCTTGAAATAAAGGGAGTG
Found at i:12156790 original size:2 final size:2
Alignment explanation
Indices: 12156783--12156810 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12156773 CAAACTAAGC
12156783 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
12156811 CAAAAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12159646 original size:46 final size:46
Alignment explanation
Indices: 12159579--12159760 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
12159569 AGTGTGCTCT
*
12159579 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
12159625 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
12159671 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
12159717 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
12159761 TCATGTCAAA
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 123 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:12168861 original size:27 final size:28
Alignment explanation
Indices: 12168804--12168873 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
12168794 AAATTTGTAC
**
12168804 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
12168832 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
12168859 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
12168874 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:12168882 original size:27 final size:27
Alignment explanation
Indices: 12168804--12168885 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
12168794 AAATTTGTAC
* *
12168804 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
12168832 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
12168859 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
12168886 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:12176937 original size:27 final size:28
Alignment explanation
Indices: 12176880--12176949 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
12176870 AAATTTGTAC
**
12176880 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
12176908 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
12176935 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
12176950 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:12176958 original size:27 final size:27
Alignment explanation
Indices: 12176880--12176959 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 27
12176870 AAATTTGTAC
* *
12176880 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
12176908 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
12176935 AGCACTAAGTGTGCGGACTTATTAT
1 AGCACTAAGTGTGCGGACTTATTAT
12176960 GCTTTTGCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
27 28 0.64
28 16 0.36
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:12183141 original size:16 final size:17
Alignment explanation
Indices: 12183120--12183153 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
12183110 TAAATTTTTT
*
12183120 TATTGT-TTTATAATTA
1 TATTGTATTTAAAATTA
12183136 TATTGTATTTAAAATTA
1 TATTGTATTTAAAATTA
12183153 T
1 T
12183154 CAGATTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
TATTGTATTTAAAATTA
Found at i:12186952 original size:26 final size:25
Alignment explanation
Indices: 12186904--12186964 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 25
12186894 ATTATCGCAG
*
12186904 TTTTGTCCACACTTTGTAG-TTTTA
1 TTTTGTCCACAATTTGTAGTTTTTA
* *
12186928 TTTTGTCCACATTATTTGTGGTTTTTG
1 TTTTGTCCACA--ATTTGTAGTTTTTA
12186955 TTTTGTCCAC
1 TTTTGTCCAC
12186965 TCTGTTTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.35
26 6 0.19
27 14 0.45
ACGTcount: A:0.13, C:0.16, G:0.15, T:0.56
Consensus pattern (25 bp):
TTTTGTCCACAATTTGTAGTTTTTA
Found at i:12187432 original size:20 final size:20
Alignment explanation
Indices: 12187409--12187458 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
12187399 AAATCCAAAT
12187409 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
*
12187429 TAAAATCCTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
12187449 TAAGAATACT
1 TAA-AATACT
12187459 GATATGGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:12189721 original size:2 final size:2
Alignment explanation
Indices: 12189714--12189744 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
12189704 ATTACATGAA
12189714 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
12189745 GAGAGAGAGA
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:12190448 original size:14 final size:14
Alignment explanation
Indices: 12190429--12190458 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12190419 AAAATTCAAT
12190429 AAAAAACAAAAAGA
1 AAAAAACAAAAAGA
*
12190443 AAAAAAGAAAAAGA
1 AAAAAACAAAAAGA
12190457 AA
1 AA
12190459 CCATAAGCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAACAAAAAGA
Done.