Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 143 of 144
Found at i:44275489 original size:145 final size:144
Alignment explanation
Indices: 44275295--44275599 Score: 513
Period size: 145 Copynumber: 2.1 Consensus size: 144
44275285 TACAAGGGAA
* * *
44275295 AAGGTATTGAACCAACCAGTTTGTTGTTGTCCAGATACAAATCTGTCAAGTTTGATAGAAATCCA
1 AAGGGATTGAACCAACCAGTTTGTTGTTGTACAGATACAAATATGTCAAGTTTGATAGAAATCCA
*
44275360 ACTTCAAATGGGATAGATCCATTAATTTT-GTTTTCCGAGAGACTTAAAGATTTGAGATTTAATA
66 ACTTCAAATGGGATAGATCCATTAATTTTGGTTCT-CGAGAGACTTAAAGATTTGAGATTTAATA
44275424 ACTGACCCAAAGCAG
130 ACTGACCCAAAGCAG
*
44275439 AAGGGATTGAACCAACCAGTTTTGTTGTTGTAGAGATACAAATATGTCAAGTTTGATAGAAATCC
1 AAGGGATTGAACCAACCAG-TTTGTTGTTGTACAGATACAAATATGTCAAGTTTGATAGAAATCC
*
44275504 AACTTCAAATGGGATAGATCCATTAATTTTGGTTCTCGAGAGACTTAAATATTTGAGATTTAATA
65 AACTTCAAATGGGATAGATCCATTAATTTTGGTTCTCGAGAGACTTAAAGATTTGAGATTTAATA
*
44275569 ACTGACCTAAAGCAG
130 ACTGACCCAAAGCAG
*
44275584 AAGGGATTGGACCAAC
1 AAGGGATTGAACCAAC
44275600 AATTCCACAA
Statistics
Matches: 151, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
144 18 0.12
145 129 0.85
146 4 0.03
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.30
Consensus pattern (144 bp):
AAGGGATTGAACCAACCAGTTTGTTGTTGTACAGATACAAATATGTCAAGTTTGATAGAAATCCA
ACTTCAAATGGGATAGATCCATTAATTTTGGTTCTCGAGAGACTTAAAGATTTGAGATTTAATAA
CTGACCCAAAGCAG
Found at i:44275590 original size:72 final size:70
Alignment explanation
Indices: 44275369--44275590 Score: 157
Period size: 72 Copynumber: 3.1 Consensus size: 70
44275359 AACTTCAAAT
* *
44275369 GGGATAGATCCATTAATTTTGTTTTCCGAGAGACTTAAAGATTTGAGATTTAATAACTGACCCAA
1 GGGATAGATCCATTAATTTTGTTCT-CGAGAGACTTAAATATTTGAGATTTAATAACTGA-CCAA
44275434 AGCAGAA
64 AGCAGAA
* * ** * * * * * * * *
44275441 GGGATTGAACCAACCAGTTTTGTTGTTGTAGAGA-TACAAATATGTCA-AGTTTGATAGA--AAT
1 GGGATAGATCC-ATTAATTTTGTTCTCG-AGAGACT-TAAATATTTGAGA-TTTAATA-ACTGA-
**
44275502 CCAACTTCA-AA
60 CCAA-AGCAGAA
44275513 TGGGATAGATCCATTAATTTTGGTTCTCGAGAGACTTAAATATTTGAGATTTAATAACTGACCTA
1 -GGGATAGATCCATTAATTTT-GTTCTCGAGAGACTTAAATATTTGAGATTTAATAACTGACC-A
44275578 AAGCAGAA
63 AAGCAGAA
44275586 GGGAT
1 GGGAT
44275591 TGGACCAACA
Statistics
Matches: 106, Mismatches: 30, Indels: 28
0.65 0.18 0.17
Matches are distributed among these distances:
71 1 0.01
72 53 0.50
73 51 0.48
74 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (70 bp):
GGGATAGATCCATTAATTTTGTTCTCGAGAGACTTAAATATTTGAGATTTAATAACTGACCAAAG
CAGAA
Found at i:44279948 original size:25 final size:25
Alignment explanation
Indices: 44279864--44279953 Score: 74
Period size: 25 Copynumber: 3.5 Consensus size: 25
44279854 CTAAAGTTTT
* * *
44279864 TAAAAAAAGATATATATAAATAATTA
1 TAAATAAA-ATATATATAAGTAAATA
* *
44279890 TATAATAATATATA-ATAAGACAAATA
1 TA-AATAAAATATATATAAG-TAAATA
** *
44279916 TATTTAAAATTTATATAAGTAAATA
1 TAAATAAAATATATATAAGTAAATA
44279941 TAAATAAAATATA
1 TAAATAAAATATA
44279954 GTAATAGTAA
Statistics
Matches: 48, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
25 26 0.54
26 18 0.38
27 4 0.08
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (25 bp):
TAAATAAAATATATATAAGTAAATA
Found at i:44279998 original size:7 final size:7
Alignment explanation
Indices: 44279986--44280014 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
44279976 ACAAAAAGAC
44279986 ATAATAA
1 ATAATAA
44279993 ATAATAA
1 ATAATAA
44280000 ATAATAA
1 ATAATAA
44280007 ATAATAA
1 ATAATAA
44280014 A
1 A
44280015 ATGATATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAATAA
Found at i:44281645 original size:33 final size:34
Alignment explanation
Indices: 44281608--44281673 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
44281598 AGCTTAAAAC
44281608 TTTTTT-AAATTTAAAAAATATT-TAAAAAAATAA
1 TTTTTTAAAATTTAAAAAAT-TTGTAAAAAAATAA
* *
44281641 TTTTTTAAAATTTTATAAATTTGTAAAAAAATA
1 TTTTTTAAAATTTAAAAAATTTGTAAAAAAATA
44281674 TTCAAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 8 0.28
34 21 0.72
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (34 bp):
TTTTTTAAAATTTAAAAAATTTGTAAAAAAATAA
Found at i:44282354 original size:88 final size:88
Alignment explanation
Indices: 44282101--44282446 Score: 500
Period size: 88 Copynumber: 4.0 Consensus size: 88
44282091 GGAAAATTTT
* * * *
44282101 TTTTCTTTCGATTTTTCCGTCTTTCCTACTAAGCACACATATGAAAAGAAAATTTATATTTTTCC
1 TTTTCTTTCAATTTTTCCATCTTTCCTACCAAGCACACATATGAAAAGAAAATTTA-AATTTTCC
* *
44282166 ATCTTTCTATTTTT-TTCCTTTTC
65 ATCTTTCTATTTTTCTACCCTTTC
* * *
44282189 TTTTCTTTCAATTTCTCTATCTTTCCTACTAAGCACAC--ATGAAAAGAAAATTTAAATTTTCCA
1 TTTTCTTTCAATTTTTCCATCTTTCCTACCAAGCACACATATGAAAAGAAAATTTAAATTTTCCA
44282252 TCTTTCTATTTTTCTACCCTTTC
66 TCTTTCTATTTTTCTACCCTTTC
* * *
44282275 TTTTCTTTCAATTTTTCCATCTTTCTTACCAAGCACACATATGGAAAGAAAATTTAAAATTTCCA
1 TTTTCTTTCAATTTTTCCATCTTTCCTACCAAGCACACATATGAAAAGAAAATTTAAATTTTCCA
**
44282340 TCTTTCTATTTTTCTACTATTTC
66 TCTTTCTATTTTTCTACCCTTTC
* * * *
44282363 TTTTCTTTCAAATTTTCCATCTTTCTTACCAAGCACACATATGGAAAGAAAATTTATATTTTCCA
1 TTTTCTTTCAATTTTTCCATCTTTCCTACCAAGCACACATATGAAAAGAAAATTTAAATTTTCCA
44282428 TCTTTCTATTTTTCTACCC
66 TCTTTCTATTTTTCTACCC
44282447 CTTCAATTTT
Statistics
Matches: 235, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
85 21 0.09
86 57 0.24
88 157 0.67
ACGTcount: A:0.26, C:0.22, G:0.05, T:0.47
Consensus pattern (88 bp):
TTTTCTTTCAATTTTTCCATCTTTCCTACCAAGCACACATATGAAAAGAAAATTTAAATTTTCCA
TCTTTCTATTTTTCTACCCTTTC
Found at i:44282399 original size:174 final size:175
Alignment explanation
Indices: 44282101--44282446 Score: 518
Period size: 174 Copynumber: 2.0 Consensus size: 175
44282091 GGAAAATTTT
* * * **
44282101 TTTTCTTTCGATTTTTCCGTCTTTCCTACTAAGCACACATATGAAAAGAAAATTTATATTTTTCC
1 TTTTCTTTCAATTTTTCCATCTTTCCTACCAAGCACACATATGAAAAGAAAATTTATAAATTTCC
* * * *
44282166 ATCTTTCTATTTTTTTCCTTTTCTTTTCTTTCAATTTCTCTATCTTTCCTACTAAGCACAC-ATG
66 ATCTTTCTATTTTTCTACTTTTCTTTTCTTTCAATTTCTCCATCTTTCCTACCAAGCACACAATG
44282230 AAAAGAAAATTTAAATTTTCCATCTTTCTATTTTTCTACCCTTTC
131 AAAAGAAAATTTAAATTTTCCATCTTTCTATTTTTCTACCCTTTC
* *
44282275 TTTTCTTTCAATTTTTCCATCTTTCTTACCAAGCACACATATGGAAAGAAAATTTA-AAATTTCC
1 TTTTCTTTCAATTTTTCCATCTTTCCTACCAAGCACACATATGAAAAGAAAATTTATAAATTTCC
*
44282339 ATCTTTCTATTTTTCTACTATTTCTTTTCTTTCAAATTT-TCCATCTTTCTTACCAAGCACACAT
66 ATCTTTCTATTTTTCTACT-TTTCTTTTCTTTC-AATTTCTCCATCTTTCCTACCAAGCACACA-
* *
44282403 ATGGAAAGAAAATTTATATTTTCCATCTTTCTATTTTTCTACCC
128 ATGAAAAGAAAATTTAAATTTTCCATCTTTCTATTTTTCTACCC
44282447 CTTCAATTTT
Statistics
Matches: 154, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
173 23 0.15
174 84 0.55
175 5 0.03
176 42 0.27
ACGTcount: A:0.26, C:0.22, G:0.05, T:0.47
Consensus pattern (175 bp):
TTTTCTTTCAATTTTTCCATCTTTCCTACCAAGCACACATATGAAAAGAAAATTTATAAATTTCC
ATCTTTCTATTTTTCTACTTTTCTTTTCTTTCAATTTCTCCATCTTTCCTACCAAGCACACAATG
AAAAGAAAATTTAAATTTTCCATCTTTCTATTTTTCTACCCTTTC
Found at i:44282543 original size:16 final size:17
Alignment explanation
Indices: 44282517--44282588 Score: 71
Period size: 16 Copynumber: 4.5 Consensus size: 17
44282507 TTTGGTTCAG
*
44282517 TGTAATGGAATA-AATC
1 TGTAATAGAATAGAATC
*
44282533 TATAATAGAATAGAA-C
1 TGTAATAGAATAGAATC
*
44282549 TGTAATGGAATAGAAT-
1 TGTAATAGAATAGAATC
*
44282565 TGTAATAGAACAGAA-C
1 TGTAATAGAATAGAATC
*
44282581 TGTTATAG
1 TGTAATAG
44282589 CAATTCAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
16 44 0.96
17 2 0.04
ACGTcount: A:0.46, C:0.06, G:0.19, T:0.29
Consensus pattern (17 bp):
TGTAATAGAATAGAATC
Found at i:44282558 original size:32 final size:32
Alignment explanation
Indices: 44282517--44282583 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
44282507 TTTGGTTCAG
*
44282517 TGTAATGGAATA-AATCTATAATAGAATAGAAC
1 TGTAATGGAATAGAAT-TATAATAGAACAGAAC
*
44282549 TGTAATGGAATAGAATTGTAATAGAACAGAAC
1 TGTAATGGAATAGAATTATAATAGAACAGAAC
44282581 TGT
1 TGT
44282584 TATAGCAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 29 0.91
33 3 0.09
ACGTcount: A:0.46, C:0.06, G:0.19, T:0.28
Consensus pattern (32 bp):
TGTAATGGAATAGAATTATAATAGAACAGAAC
Found at i:44283001 original size:12 final size:12
Alignment explanation
Indices: 44282971--44283005 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
44282961 TATATGTTAC
44282971 TTAAAGAATAAT
1 TTAAAGAATAAT
*
44282983 TTAAAAGAGTAAT
1 TT-AAAGAATAAT
44282996 TTAAAGAATA
1 TTAAAGAATA
44283006 TCTTGTCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.31
Consensus pattern (12 bp):
TTAAAGAATAAT
Found at i:44291809 original size:10 final size:10
Alignment explanation
Indices: 44291780--44291809 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
44291770 TTCTACAAAA
*
44291780 GATCCAATCA
1 GATCCAATCC
44291790 GATCCAATCC
1 GATCCAATCC
44291800 GATCCAATCC
1 GATCCAATCC
44291810 TTCAAACGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.33, C:0.37, G:0.10, T:0.20
Consensus pattern (10 bp):
GATCCAATCC
Found at i:44298164 original size:17 final size:18
Alignment explanation
Indices: 44298142--44298175 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
44298132 TTTACAATTT
44298142 TTTTAT-AATTTTTAAAC
1 TTTTATAAATTTTTAAAC
44298159 TTTTATAAATTTTTAAA
1 TTTTATAAATTTTTAAA
44298176 AAAATAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTATAAATTTTTAAAC
Found at i:44301393 original size:15 final size:15
Alignment explanation
Indices: 44301347--44301394 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
44301337 ACATAAAAGA
44301347 AAATAAAATAGAAAAT
1 AAATAAAATA-AAAAT
* * *
44301363 -AATATAATATATAT
1 AAATAAAATAAAAAT
44301377 AAATAAAATAAAAAT
1 AAATAAAATAAAAAT
44301392 AAA
1 AAA
44301395 ATTAGGTTTG
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
14 3 0.12
15 22 0.88
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (15 bp):
AAATAAAATAAAAAT
Found at i:44306803 original size:16 final size:17
Alignment explanation
Indices: 44306782--44306820 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
44306772 TTTTAAAATT
44306782 AAAAATAATAT-TTTTA
1 AAAAATAATATATTTTA
44306798 AAAAATAATATATTTTA
1 AAAAATAATATATTTTA
*
44306815 TAAAAT
1 AAAAAT
44306821 TTTATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAAATAATATATTTTA
Found at i:44306836 original size:18 final size:19
Alignment explanation
Indices: 44306815--44306880 Score: 73
Period size: 18 Copynumber: 3.5 Consensus size: 19
44306805 ATATATTTTA
*
44306815 TAAAATTTTATAA-AAATT
1 TAAAATATTATAATAAATT
* *
44306833 TAAAATATTATTAATATATA
1 TAAAATATTA-TAATAAATT
44306853 TAAAATATTA-AATAAATT
1 TAAAATATTATAATAAATT
*
44306871 TAAAAAATTA
1 TAAAATATTA
44306881 AAAATTAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
18 24 0.60
19 3 0.08
20 13 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAAAATATTATAATAAATT
Found at i:44308106 original size:18 final size:18
Alignment explanation
Indices: 44308085--44308152 Score: 66
Period size: 18 Copynumber: 3.7 Consensus size: 18
44308075 TTTATTAATT
*
44308085 TTTAATTTTTTAAATTTA
1 TTTAATATTTTAAATTTA
* *
44308103 TTTAATATTTTATATATA
1 TTTAATATTTTAAATTTA
44308121 TTAATAATATTTTAAATTT-
1 TT--TAATATTTTAAATTTA
*
44308140 TTATAAAATTTTA
1 TT-TAATATTTTA
44308153 TAAAATATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
18 27 0.64
19 2 0.05
20 13 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTAATATTTTAAATTTA
Found at i:44308121 original size:11 final size:10
Alignment explanation
Indices: 44308105--44308155 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
44308095 TAAATTTATT
44308105 TAATATTTTA
1 TAATATTTTA
*
44308115 T-ATATATTAA
1 TAATAT-TTTA
44308125 TAATATTTTA
1 TAATATTTTA
44308135 -AAT-TTTTA
1 TAATATTTTA
*
44308143 TAAAATTTTA
1 TAATATTTTA
44308153 TAA
1 TAA
44308156 AATATATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
8 5 0.15
9 9 0.26
10 16 0.47
11 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
TAATATTTTA
Found at i:44308169 original size:18 final size:17
Alignment explanation
Indices: 44308148--44308186 Score: 62
Period size: 16 Copynumber: 2.3 Consensus size: 17
44308138 TTTTATAAAA
44308148 TTTTATAAAATATATTAT
1 TTTTATAAAA-ATATTAT
44308166 TTTT-TAAAAATATTAT
1 TTTTATAAAAATATTAT
44308182 TTTTA
1 TTTTA
44308187 ATTTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 11 0.55
17 5 0.25
18 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTATAAAAATATTAT
Found at i:44308182 original size:19 final size:19
Alignment explanation
Indices: 44308147--44308196 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
44308137 TTTTTATAAA
44308147 ATTTTATAAAATATATTATT
1 ATTTTA-AAAATATATTATT
*
44308167 -TTTTAAAAATATTATTTTT
1 ATTTTAAAAATA-TATTATT
44308186 AATTTTAAAAA
1 -ATTTTAAAAA
44308197 AAATTTAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 6 0.23
19 11 0.42
21 9 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTAAAAATATATTATT
Found at i:44308704 original size:165 final size:160
Alignment explanation
Indices: 44308389--44308704 Score: 413
Period size: 165 Copynumber: 1.9 Consensus size: 160
44308379 CATTGTAATA
*
44308389 GTCAACATTAGTCAAAGGGCCTATTTAGCAAATTTTGTTAGTTCAGGGCAATTGGGTGCAAAAAG
1 GTCAACATTAGTCAAAGGGCCTATTTAGCAAATTTTGTTAGTTAAGGGCAATTGGGTGCAAAAAG
* *
44308454 TTCACAAGGGCTTAATTGATTTTTTGATAAAGTTCGAGGACCAAAAATACCATTAAACCCTTCTT
66 TTCACAAGGGCTTAATTGATTTTTTGATAAAGTTCGAGGA-CAAAAATACCAGTAAACCCTACTT
*
44308519 TAACTATTGGTATATCTTTTTCTAAGTATCG
130 TAACTATTGATATATCTTTTTCTAAGTATCG
* * * *
44308550 GTCAACATTAGTCAAATGGCTTATTTGGTC-AATTTTGTTAGTGTAAGGGCTTAGTTGGGTGCAA
1 GTCAACATTAGTCAAAGGGCCTATTTAG-CAAATTTTGTTAGT-TAAGGGC--AATTGGGTGCAA
* * * *
44308614 AAAGTTCGCAGGGGCTTAATTGATTTTTTCGA-AACAGTTCGACAGTA-AAAAATACCAGTAAGC
62 AAAGTTCACAAGGGCTTAATTGATTTTTT-GATAA-AGTTCG--AGGACAAAAATACCAGTAAAC
*
44308677 CCTACTTTAACTATTGATATGTCTTTTT
123 CCTACTTTAACTATTGATATATCTTTTT
44308705 TAATTAATTT
Statistics
Matches: 134, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
161 37 0.28
162 7 0.05
164 40 0.30
165 47 0.35
167 3 0.02
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.35
Consensus pattern (160 bp):
GTCAACATTAGTCAAAGGGCCTATTTAGCAAATTTTGTTAGTTAAGGGCAATTGGGTGCAAAAAG
TTCACAAGGGCTTAATTGATTTTTTGATAAAGTTCGAGGACAAAAATACCAGTAAACCCTACTTT
AACTATTGATATATCTTTTTCTAAGTATCG
Found at i:44310835 original size:22 final size:21
Alignment explanation
Indices: 44310805--44310853 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
44310795 GATAGTTAGA
*
44310805 CGTTCTTTTTTTCTTCTATCTT
1 CGTTTTTTTTTTCTT-TATCTT
*
44310827 CGTTTTTTTTTTCTTTTTCTT
1 CGTTTTTTTTTTCTTTATCTT
44310848 C-TTTTT
1 CGTTTTT
44310854 GCTTCGGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 5 0.20
21 6 0.24
22 14 0.56
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.76
Consensus pattern (21 bp):
CGTTTTTTTTTTCTTTATCTT
Found at i:44320777 original size:21 final size:21
Alignment explanation
Indices: 44320745--44320785 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
44320735 AGGCTCGAGG
44320745 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
44320766 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
44320786 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:44334120 original size:3 final size:3
Alignment explanation
Indices: 44334112--44334151 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
44334102 TATCAGTCAC
*
44334112 GAT GAT GAT GGT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
44334152 CAGAGTCATG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.00, G:0.38, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:44336953 original size:23 final size:22
Alignment explanation
Indices: 44336901--44336953 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
44336891 TCCACGTCTT
*
44336901 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
44336923 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
44336946 TTTCTTTT
1 TTTCTTTT
44336954 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:44343448 original size:176 final size:176
Alignment explanation
Indices: 44343141--44343575 Score: 528
Period size: 176 Copynumber: 2.5 Consensus size: 176
44343131 CATAAATCCT
*
44343141 ATCTCCCT-AGGCAGTAGTGGAGTAGGTTGAAAATAACAGATCTTGTCTTCCTGTATTGGCAGCA
1 ATCTCCCTGA-GCAGTAGTGGAGTAGGTTGAAAATAACAGATCTTGTCTTCCTGTATTGGCAGCG
* * *
44343205 AAGAAGATCGAAGAT-CTCAGCCTTATCTCCCTGAGCAGCAGTAGAGTAGGTTCAAAATAAAAGA
65 AAGTAGATCGAAGATAC-CAACCTTATCTCCCTAAGCAGCAGTAGAGTAGGTTCAAAATAAAAGA
* * * *
44343269 TCTTGTCTTTCTGTATTGGCAACGAAGTAAATCGAAGAC-CTTAGCCTTG
129 TCTTGTCTTCCTGTATTGGCAACGAAGTAAATCAAAAACAC-CAGCC-TG
* *
44343318 -TCTCCCTGAGCAGTAGTGGGGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGA
1 ATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAACAGATCTTGTCTTCCTGTATTGGCAGCGA
* *
44343382 AGTAGATCGAAGATACCAACCTTATCTCCCTAAGTAGCAGTGGAGTAGGTT-AAAA-AAAGTAGA
66 AGTAGATCGAAGATACCAACCTTATCTCCCTAAGCAGCAGTAGAGTAGGTTCAAAATAAA--AGA
** *
44343445 TCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAAACACCAGCCTG
129 TCTTGTCTTCCTGTATTGGCAACGAAGTAAATCAAAAACACCAGCCTG
* * ** *
44343493 ACCTCCCTGAGTTACAGCA-T--AGTAGACTGAAAATAACAGATCTTGTCTTCTTGTATTGGCAG
1 ATCTCCCTGAG---CAGTAGTGGAGTAGGTTGAAAATAACAGATCTTGTCTTCCTGTATTGGCAG
* *
44343555 TGAAGTAGATCGAAGACACCA
63 CGAAGTAGATCGAAGATACCA
44343576 GTCTTATCGC
Statistics
Matches: 225, Mismatches: 24, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
174 3 0.01
175 6 0.03
176 208 0.92
177 3 0.01
178 1 0.00
179 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (176 bp):
ATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAACAGATCTTGTCTTCCTGTATTGGCAGCGA
AGTAGATCGAAGATACCAACCTTATCTCCCTAAGCAGCAGTAGAGTAGGTTCAAAATAAAAGATC
TTGTCTTCCTGTATTGGCAACGAAGTAAATCAAAAACACCAGCCTG
Found at i:44343574 original size:88 final size:88
Alignment explanation
Indices: 44343160--44343576 Score: 457
Period size: 88 Copynumber: 4.7 Consensus size: 88
44343150 GGCAGTAGTG
* * *
44343160 GAGTAGGTTGAAAATAACAGATCTTGTCTTCCTGTATTGGCAGCAAAGAAGATCGAAGATC-TCA
1 GAGTAGGTTGAAAATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA-CACCA
* *
44343224 GCCTTATCTCCCTGAGCAGCAGTA
65 GCCTGATCTCCCTGAGTAGCAGTA
* * * * * *
44343248 GAGTAGGTTCAAAATAAAAGATCTTGTCTTTCTGTATTGGCAACGAAGTAAATCGAAGAC-CTTA
1 GAGTAGGTTGAAAATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACAC-CA
* * *
44343312 GCCTTG-TCTCCCTGAGCAGTAGTG
65 GCC-TGATCTCCCTGAGTAGCAGTA
* * * *
44343336 GGGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATACCAA
1 GAGTAGGTTGAAAATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACACCAG
* * *
44343401 CCTTATCTCCCTAAGTAGCAGTG
66 CCTGATCTCCCTGAGTAGCAGTA
* * * * *
44343424 GAGTAGGTT-AAAAAAAGTAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAAACACCA
1 GAGTAGGTTGAAAATAA-CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACACCA
* *
44343488 GCCTGACCTCCCTGAGTTA-CAGCA
65 GCCTGATCTCCCTGAG-TAGCAGTA
* ** * *
44343512 TAGTAGACTGAAAATAACAGATCTTGTCTTCTTGTATTGGCAGTGAAGTAGATCGAAGACACCAG
1 GAGTAGGTTGAAAATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACACCAG
44343577 TCTTATCGCC
Statistics
Matches: 274, Mismatches: 48, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
87 7 0.03
88 257 0.94
89 10 0.04
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (88 bp):
GAGTAGGTTGAAAATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACACCAG
CCTGATCTCCCTGAGTAGCAGTA
Found at i:44343873 original size:50 final size:50
Alignment explanation
Indices: 44343766--44343977 Score: 187
Period size: 50 Copynumber: 4.2 Consensus size: 50
44343756 ATTACAGTGG
* * **** *
44343766 AACAGATTGAAGCTACAATAGTGAATCTTACTT-CTCTGGTGGTGTAG-TA
1 AACAGATTGAAGCTACAACAGCGAATCTTACTTCCTC-GACATTGCAGTTA
* *
44343815 GAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCTCGACATTGCAATTA
1 -AACAGATTGAAGCTACAACAGCGAATCTTACTTCCTCGACATTGCAGTTA
* * * * ** * **
44343866 AATAGATTAAAGCTACAACAGCAAATCTTACTTCC-CTAGCGGTGCGGTGG
1 AACAGATTGAAGCTACAACAGCGAATCTTACTTCCTCGA-CATTGCAGTTA
*
44343916 AACAGATTGAAGCTACAACAACGAATCTTACTTCCTCGACATTGCAGTTA
1 AACAGATTGAAGCTACAACAGCGAATCTTACTTCCTCGACATTGCAGTTA
* *
44343966 AACGGACTGAAG
1 AACAGATTGAAG
44343978 ATGACAAATC
Statistics
Matches: 126, Mismatches: 32, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
49 2 0.02
50 117 0.93
51 7 0.06
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (50 bp):
AACAGATTGAAGCTACAACAGCGAATCTTACTTCCTCGACATTGCAGTTA
Found at i:44343919 original size:100 final size:100
Alignment explanation
Indices: 44343769--44343967 Score: 281
Period size: 100 Copynumber: 2.0 Consensus size: 100
44343759 ACAGTGGAAC
* * ** * * * *
44343769 AGATTGAAGCTACAATAGTGAATCTTACTTCTCTGGTGGTGTAGTAGAACAGATTGAAGCTACAA
1 AGATTAAAGCTACAACAGCAAATCTTACTTCCCTAGCGGTGCAGTAGAACAGATTGAAGCTACAA
* *
44343834 CAGCGAATCTTGCTTCCTCGACATTGCAATTAAAT
66 CAACGAATCTTACTTCCTCGACATTGCAATTAAAT
* *
44343869 AGATTAAAGCTACAACAGCAAATCTTACTTCCCTAGCGGTGCGGTGGAACAGATTGAAGCTACAA
1 AGATTAAAGCTACAACAGCAAATCTTACTTCCCTAGCGGTGCAGTAGAACAGATTGAAGCTACAA
*
44343934 CAACGAATCTTACTTCCTCGACATTGCAGTTAAA
66 CAACGAATCTTACTTCCTCGACATTGCAATTAAA
44343968 CGGACTGAAG
Statistics
Matches: 86, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
100 86 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (100 bp):
AGATTAAAGCTACAACAGCAAATCTTACTTCCCTAGCGGTGCAGTAGAACAGATTGAAGCTACAA
CAACGAATCTTACTTCCTCGACATTGCAATTAAAT
Found at i:44344081 original size:44 final size:44
Alignment explanation
Indices: 44343984--44344105 Score: 129
Period size: 44 Copynumber: 2.8 Consensus size: 44
44343974 GAAGATGACA
* * *
44343984 AATCTTATCTCTCTGAGGTTGCAGTGGAGCAGATTAAAGCCAGT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACAAGT
* * * *
44344028 AATCCTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAATAA-T
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACAAGT
* * * *
44344071 GGATCTTATCTCTTTAAAGTTGCAGTAGAGCAGAT
1 -AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT
44344106 CGCATCAAAC
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
43 1 0.02
44 62 0.98
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACAAGT
Found at i:44345709 original size:12 final size:12
Alignment explanation
Indices: 44345620--44345714 Score: 51
Period size: 12 Copynumber: 8.0 Consensus size: 12
44345610 TTAATTTAAC
44345620 ATTATTA-TTAT
1 ATTATTATTTAT
44345631 CATTATTATTT-T
1 -ATTATTATTTAT
*
44345643 CTT-TTATTTAT
1 ATTATTATTTAT
44345654 -TTATTTATTTACT
1 ATTA-TTATTTA-T
*
44345667 ATT-TTA-TTAA
1 ATTATTATTTAT
* *
44345677 ATTAATTTGTTTCAC
1 ATT-A-TTATTT-AT
44345692 ATTATTATTTAT
1 ATTATTATTTAT
44345704 ATTATT-TTTAT
1 ATTATTATTTAT
44345715 TTTTATATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 23
0.69 0.06 0.24
Matches are distributed among these distances:
10 11 0.17
11 11 0.17
12 25 0.38
13 10 0.15
14 5 0.08
15 4 0.06
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.65
Consensus pattern (12 bp):
ATTATTATTTAT
Found at i:44346472 original size:70 final size:70
Alignment explanation
Indices: 44346359--44346499 Score: 264
Period size: 70 Copynumber: 2.0 Consensus size: 70
44346349 TACGGGACGT
* *
44346359 AATTCTTTTTCTCGATTAATGAGAAAATATGGCTTTGTCTCAAAAATTCTCAATTTTTTGACAAA
1 AATTCTTTTTCTCGATTAATGAGAAAATATGGCTTTGTCTCAAAAATTATCAATGTTTTGACAAA
44346424 AGGTC
66 AGGTC
44346429 AATTCTTTTTCTCGATTAATGAGAAAATATGGCTTTGTCTCAAAAATTATCAATGTTTTGACAAA
1 AATTCTTTTTCTCGATTAATGAGAAAATATGGCTTTGTCTCAAAAATTATCAATGTTTTGACAAA
44346494 AGGTC
66 AGGTC
44346499 A
1 A
44346500 TTTTTTAAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (70 bp):
AATTCTTTTTCTCGATTAATGAGAAAATATGGCTTTGTCTCAAAAATTATCAATGTTTTGACAAA
AGGTC
Found at i:44346787 original size:73 final size:73
Alignment explanation
Indices: 44346701--44346845 Score: 254
Period size: 73 Copynumber: 2.0 Consensus size: 73
44346691 CCATTTTTCA
* * *
44346701 AGGTGGCCCGATCACGCCTCATCAAAAAAAGATTGGTGGTGACTCCCATACTCGTTTTATTTTTT
1 AGGTGGCCCGATCACACCTCATCAAAAAAAGATTGGTGGCGACTCCCATACTCGTTTTAGTTTTT
44346766 CAAAATCC
66 CAAAATCC
*
44346774 AGGTGGCCCGATCACACCTCATCAAAAAAAGATTGGTGGCGACTCTCATACTCGTTTTAGTTTTT
1 AGGTGGCCCGATCACACCTCATCAAAAAAAGATTGGTGGCGACTCCCATACTCGTTTTAGTTTTT
44346839 CAAAATC
66 CAAAATC
44346846 TAAGTCGATC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (73 bp):
AGGTGGCCCGATCACACCTCATCAAAAAAAGATTGGTGGCGACTCCCATACTCGTTTTAGTTTTT
CAAAATCC
Found at i:44351756 original size:81 final size:81
Alignment explanation
Indices: 44351662--44351823 Score: 315
Period size: 81 Copynumber: 2.0 Consensus size: 81
44351652 TTATATATAT
44351662 ATATAAGAGATTTGATTGTGAATAATTGTTGCCAAATTGCCACTTTGAAAGTTCACAAAAAAAAA
1 ATATAAGAGATTTGATTGTGAATAATTGTTGCCAAATTGCCACTTTGAAAGTTCACAAAAAAAAA
*
44351727 AAAAAAGTGCTGGTGA
66 AAAAAACTGCTGGTGA
44351743 ATATAAGAGATTTGATTGTGAATAATTGTTGCCAAATTGCCACTTTGAAAGTTCACAAAAAAAAA
1 ATATAAGAGATTTGATTGTGAATAATTGTTGCCAAATTGCCACTTTGAAAGTTCACAAAAAAAAA
44351808 AAAAAACTGCTGGTGA
66 AAAAAACTGCTGGTGA
44351824 CCCAACCAAC
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.28
Consensus pattern (81 bp):
ATATAAGAGATTTGATTGTGAATAATTGTTGCCAAATTGCCACTTTGAAAGTTCACAAAAAAAAA
AAAAAACTGCTGGTGA
Found at i:44367252 original size:23 final size:23
Alignment explanation
Indices: 44367226--44367276 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
44367216 TTACAAAAGT
44367226 CCCCCCTCTTTTTTTTGTTTCTC
1 CCCCCCTCTTTTTTTTGTTTCTC
* *
44367249 CCCCTCTTTTTTTTTTGTTTCTC
1 CCCCCCTCTTTTTTTTGTTTCTC
44367272 CCCCC
1 CCCCC
44367277 TGGTTCGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.00, C:0.41, G:0.04, T:0.55
Consensus pattern (23 bp):
CCCCCCTCTTTTTTTTGTTTCTC
Found at i:44367465 original size:35 final size:35
Alignment explanation
Indices: 44367420--44367488 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
44367410 GGGTGTGTGA
44367420 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
44367455 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
44367489 AGAGGCAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.20, C:0.12, G:0.51, T:0.17
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
Found at i:44368194 original size:43 final size:43
Alignment explanation
Indices: 44368017--44368757 Score: 256
Period size: 43 Copynumber: 17.1 Consensus size: 43
44368007 AAATCCGCCG
* ***
44368017 TCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
1 TCTTCGACCTACTCCACTATTGCTTAGGGAGAT-AGATCTACCA
* * * ** *
44368061 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCA
1 TCTTCGACCTACTCCACTATTGCTTAGGGAGATAGATCTACCA
* * ** * ** * * * ** *
44368104 GCTTCAATGTACTCCACT-GTAATCAGGGAGGTAAAATCCGCCG
1 TCTTCGACCTACTCCACTATTGCTTAGGGAGAT-AGATCTACCA
* * **
44368147 TCTTCAACCTGCTCCACTATTGCTTAGGGAGATAGATCTATAA
1 TCTTCGACCTACTCCACTATTGCTTAGGGAGATAGATCTACCA
* * * *
44368190 TCTTCGACCTATTCCACTGTTGCCTAGGGAGATAGAACTACCA
1 TCTTCGACCTACTCCACTATTGCTTAGGGAGATAGATCTACCA
* * ** ** * * * ** *
44368233 GCTTCAATGTACTCCACTA-TAATCAGGGAGGTAAAATCCGCCG
1 TCTTCGACCTACTCCACTATTGCTTAGGGAGAT-AGATCTACCA
* ** ***
44368276 TCTTCGACCTGCTCCACTATTTTTTAGGGAGATAAGATCTGTAA
1 TCTTCGACCTACTCCACTATTGCTTAGGGAGAT-AGATCTACCA
* * * * * * *
44368320 TCTTCAATCTATTCCACTGCCAAATAC--AGGGAGATAGAGT-TATCG
1 TCTTCGACCTACTCCACT----ATTGCTTAGGGAGATAGA-TCTACCA
* * ** * * * * * *
44368365 GCTTCAATGTACTCCACTGTAG-TCAGGGAGGTAAAATCTGCCA
1 TCTTCGACCTACTCCACTATTGCTTAGGGAGAT-AGATCTACCA
* **
44368408 TCTTCGACCTGCTCCACTATTGCTTAGGGAGATAGATCTATAA
1 TCTTCGACCTACTCCACTATTGCTTAGGGAGATAGATCTACCA
* * * *
44368451 TCTTCGACCTATTCCACTGTTGCCTAGGGAGATAGAACTACCA
1 TCTTCGACCTACTCCACTATTGCTTAGGGAGATAGATCTACCA
* * ** * ** * * ** *
44368494 GCTTCAATGTACTCCACT-GTAATTAGGGAGGTAAAATCCGCCG
1 TCTTCGACCTACTCCACTATTGCTTAGGGAGAT-AGATCTACCA
* **
44368537 TCTTCGACCTGCTCCACTATTGCTTAGGGAGATAGATCTATAA
1 TCTTCGACCTACTCCACTATTGCTTAGGGAGATAGATCTACCA
* * * *
44368580 TCTTCGACCTATTCCACTGTTGCCTAGGGAGATAGAACTACCA
1 TCTTCGACCTACTCCACTATTGCTTAGGGAGATAGATCTACCA
* * ** ** * * * ** *
44368623 GCTTCAATGTACTCCACTA-TAATCAGGGAGGTAAAATCCGCCG
1 TCTTCGACCTACTCCACTATTGCTTAGGGAGAT-AGATCTACCA
* ** ***
44368666 TCTTCGACCTGCTCCACTATTTTTTAGGGAGATAAGATCTGTAA
1 TCTTCGACCTACTCCACTATTGCTTAGGGAGAT-AGATCTACCA
* * * ** *
44368710 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCA
1 TCTTCGACCTACTCCACTATTGCTTAGGGAGATAGATCTACCA
*
44368753 GCTTC
1 TCTTC
44368758 AATGTACTCC
Statistics
Matches: 480, Mismatches: 199, Indels: 37
0.67 0.28 0.05
Matches are distributed among these distances:
42 42 0.09
43 284 0.59
44 123 0.26
45 20 0.04
46 9 0.02
48 2 0.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (43 bp):
TCTTCGACCTACTCCACTATTGCTTAGGGAGATAGATCTACCA
Found at i:44368256 original size:129 final size:130
Alignment explanation
Indices: 44367933--44368919 Score: 1487
Period size: 129 Copynumber: 7.6 Consensus size: 130
44367923 TGTTGTTTTT
44367933 TTCGATCTATTCCACTGTTGTCC-AGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAAT
1 TTCGATCTATTCCACTGTTG-CCTAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAAT
*
44367997 TAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAAT
65 CAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAAT
44368062 C
130 C
*
44368063 TTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATC
1 TTCGATCTATTCCACTGTTGCCTAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATC
* *
44368128 AGGGAGGTAAAATCCGCCGTCTTCAACCTGCTCCACTATTGCTTAGGGAGAT-AGATCTATAATC
66 AGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATC
* *
44368192 TTCGACCTATTCCACTGTTGCCTAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTATAATC
1 TTCGATCTATTCCACTGTTGCCTAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATC
**
44368257 AGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTTTTTAGGGAGATAAGATCTGTAATC
66 AGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATC
* ***** ** * * *
44368322 TTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAG
1 TTCGATCTATTCCACTGTTGCCT--AGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
* * *
44368387 TCAGGGAGGTAAAATCTGCCATCTTCGACCTGCTCCACTATTGCTTAGGGAGAT-AGATCTATAA
64 TCAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
44368451 TC
129 TC
* *
44368453 TTCGACCTATTCCACTGTTGCCTAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATT
1 TTCGATCTATTCCACTGTTGCCTAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATC
*
44368518 AGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGAT-AGATCTATAATC
66 AGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATC
* *
44368582 TTCGACCTATTCCACTGTTGCCTAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTATAATC
1 TTCGATCTATTCCACTGTTGCCTAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATC
**
44368647 AGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTTTTTAGGGAGATAAGATCTGTAATC
66 AGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATC
*
44368712 TTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATC
1 TTCGATCTATTCCACTGTTGCCTAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATC
* * * *
44368777 AGGGAGGTAAAATCCACCGTCTTCAACTTGCTCCACTATTGCTTCGGGAGATAAGATCTGTAATC
66 AGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATC
* ***** ** * * * *
44368842 TTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGTTTCAATGTACTCCACTGTAG
1 TTCGATCTATTCCACTGTTGCCT--AGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
44368907 TCAGGGAGGTAAA
64 TCAGGGAGGTAAA
44368920 CTCTGCCATA
Statistics
Matches: 780, Mismatches: 70, Indels: 12
0.90 0.08 0.01
Matches are distributed among these distances:
129 335 0.43
130 287 0.37
131 27 0.03
132 131 0.17
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (130 bp):
TTCGATCTATTCCACTGTTGCCTAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATC
AGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATC
Found at i:44368675 original size:390 final size:389
Alignment explanation
Indices: 44367955--44368919 Score: 1572
Period size: 390 Copynumber: 2.5 Consensus size: 389
44367945 CACTGTTGTC
*
44367955 CAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATTAGGGAGGTAAAATCCGCCGTCT
1 CAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCT
44368020 TCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTGTTGCC
66 TCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTGTTGCC
44368085 CAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCT
131 CAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCT
44368150 TCAACCTGCTCCACTATTGCTTAGGGAGATAGATCTATAATCTTCGACCTATTCCACTGTTGCCT
196 TCAACCTGCTCCACTATTGCTTAGGGAGATAGATCTATAATCTTCGACCTATTCCACTGTTGCCT
44368215 AGGGAGATAGAACTACCAGCTTCAATGTACTCCACTATAATCAGGGAGGTAAAATCCGCCGTCTT
261 AGGGAGATAGAACTACCAGCTTCAATGTACTCCACTATAATCAGGGAGGTAAAATCCGCCGTCTT
*
44368280 CGACCTGCTCCACTATTTTTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCAAAT
326 CGACCTGCTCCACTATTTTTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTG--AAAC
44368345 A
389 A
** * * * * *
44368346 CAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCT
1 CAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCT
* *
44368411 TCGACCTGCTCCACTATTGCTTAGGGAGAT-AGATCTATAATCTTCGACCTATTCCACTGTTGCC
66 TCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTGTTGCC
* *
44368475 TAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATTAGGGAGGTAAAATCCGCCGTCT
131 CAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCT
*
44368540 TCGACCTGCTCCACTATTGCTTAGGGAGATAGATCTATAATCTTCGACCTATTCCACTGTTGCCT
196 TCAACCTGCTCCACTATTGCTTAGGGAGATAGATCTATAATCTTCGACCTATTCCACTGTTGCCT
44368605 AGGGAGATAGAACTACCAGCTTCAATGTACTCCACTATAATCAGGGAGGTAAAATCCGCCGTCTT
261 AGGGAGATAGAACTACCAGCTTCAATGTACTCCACTATAATCAGGGAGGTAAAATCCGCCGTCTT
* *** *
44368670 CGACCTGCTCCACTATTTTTTAGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTGTTGCC
326 CGACCTGCTCCACTATTTTTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGAAACA
*
44368734 CAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCACCGTCT
1 CAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCT
* * * * ***
44368799 TCAACTTGCTCCACTATTGCTTCGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCAAA
66 TCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTG--TTG
** ** * * * *
44368864 TACAGGGAGATAGAGTTATCGGTTTCAATGTACTCCACTGTAGTCAGGGAGGTAAA
129 CCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAA
44368920 CTCTGCCATA
Statistics
Matches: 525, Mismatches: 46, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
388 84 0.16
389 26 0.05
390 282 0.54
391 133 0.25
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (389 bp):
CAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCT
TCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTGTTGCC
CAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCT
TCAACCTGCTCCACTATTGCTTAGGGAGATAGATCTATAATCTTCGACCTATTCCACTGTTGCCT
AGGGAGATAGAACTACCAGCTTCAATGTACTCCACTATAATCAGGGAGGTAAAATCCGCCGTCTT
CGACCTGCTCCACTATTTTTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGAAACA
Found at i:44368901 original size:45 final size:45
Alignment explanation
Indices: 44368842--44369229 Score: 130
Period size: 45 Copynumber: 8.4 Consensus size: 45
44368832 ATCTGTAATC
* *
44368842 TTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGT
1 TTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGAT
* * * * * *
44368887 TTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAACTCTGCCATATTCGAT
1 TTCAATCTACTCCACTGCCAAATACAGGGAGATAGA----G--TTA-TCGAT
* *
44368936 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGAC
1 -TTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGAT
* * * * * * *
44368982 TTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAAATT-TGCCAT
1 TTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTAT-CGAT
** * * * * ** * * *
44369024 CTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCA-AGATCTGCAAT
1 -TTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTAT-CGAT
* * **
44369070 CTTCAATCTATTCCACTGCTAAATACAGGGAGATAGAGTTATCGGC
1 -TTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGAT
* * * * * * *
44369116 TTCAATGTACTCCACTG--TAGTCACATGGAGGTAAAATCTGCCATCTTCGAT
1 TTCAATCTACTCCACTGCCAAAT-ACAGGGAGATAGAGT-T---A---TCGAT
* **
44369167 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGC
1 -TTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGAT
*
44369213 TTCAATGTACTCCACTG
1 TTCAATCTACTCCACTG
44369230 TAGTCAGGGA
Statistics
Matches: 239, Mismatches: 75, Indels: 58
0.64 0.20 0.16
Matches are distributed among these distances:
41 1 0.00
42 24 0.10
43 17 0.07
44 11 0.05
45 65 0.27
46 47 0.20
47 6 0.03
48 3 0.01
49 6 0.03
50 15 0.06
51 3 0.01
52 18 0.08
53 21 0.09
54 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (45 bp):
TTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGAT
Found at i:44368927 original size:520 final size:520
Alignment explanation
Indices: 44367933--44368934 Score: 1783
Period size: 520 Copynumber: 1.9 Consensus size: 520
44367923 TGTTGTTTTT
*
44367933 TTCGATCTATTCCACTGTTGTCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATT
1 TTCGACCTATTCCACTGTTGTCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATT
*
44367998 AGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATC
66 AGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTATAATC
* *
44368063 TTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATC
131 TTCGACCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTATAATC
44368128 AGGGAGGTAAAATCCGCCGTCTTCAACCTGCTCCACTATTGCTTAGGGAGATAGATCTATAATCT
196 AGGGAGGTAAAATCCGCCGTCTTCAACCTGCTCCACTATTGCTTAGGGAGATAGATCTATAATCT
*
44368193 TCGACCTATTCCACTGTTGCCTAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTATAATCA
261 TCGACCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTATAATCA
* * **
44368258 GGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTTTTTAGGGAGATAAGATCTGTAATCT
326 GGGAGGTAAAATCCACCGTCTTCAACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCT
44368323 TCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGT
391 TCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGT
*
44368388 CAGGGAGGTAAAATCTGCCATCTTCGACCTGCTCCACTATTGCTTAGGGAGATAGATCTATAATC
456 CAGGGAGGTAAAATCTGCCATATTCGACCTGCTCCACTATTGCTTAGGGAGATAGATCTATAATC
44368453 TTCGACCTATTCCACTGTTG-CCTAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAAT
1 TTCGACCTATTCCACTGTTGTCC-AGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAAT
44368517 TAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGAT-AGATCTATAAT
65 TAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTATAAT
*
44368581 CTTCGACCTATTCCACTGTTGCCTAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTATAAT
130 CTTCGACCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTATAAT
* ** *
44368646 CAGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTTTTTAGGGAGATAAGATCTGTAAT
195 CAGGGAGGTAAAATCCGCCGTCTTCAACCTGCTCCACTATTGCTTAGGGAGAT-AGATCTATAAT
* *
44368711 CTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAAT
259 CTTCGACCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTATAAT
* *
44368776 CAGGGAGGTAAAATCCACCGTCTTCAACTTGCTCCACTATTGCTTCGGGAGATAAGATCTGTAAT
324 CAGGGAGGTAAAATCCACCGTCTTCAACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAAT
*
44368841 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGTTTCAATGTACTCCACTGTA
389 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTA
*
44368906 GTCAGGGAGGTAAACTCTGCCATATTCGA
454 GTCAGGGAGGTAAAATCTGCCATATTCGA
44368935 TCTTCAATCT
Statistics
Matches: 459, Mismatches: 21, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
519 124 0.27
520 335 0.73
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (520 bp):
TTCGACCTATTCCACTGTTGTCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAATT
AGGGAGGTAAAATCCGCCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTATAATC
TTCGACCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTATAATC
AGGGAGGTAAAATCCGCCGTCTTCAACCTGCTCCACTATTGCTTAGGGAGATAGATCTATAATCT
TCGACCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTATAATCA
GGGAGGTAAAATCCACCGTCTTCAACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCT
TCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGT
CAGGGAGGTAAAATCTGCCATATTCGACCTGCTCCACTATTGCTTAGGGAGATAGATCTATAATC
Found at i:44368945 original size:95 final size:95
Alignment explanation
Indices: 44368839--44369032 Score: 334
Period size: 95 Copynumber: 2.0 Consensus size: 95
44368829 AAGATCTGTA
**
44368839 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGTTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTG
*
44368904 TAGTCAGGGAGGTAAACTCTGCCATATTCG
66 TAGTCAGGGAGGTAAAATCTGCCATATTCG
44368934 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTG
* * *
44368999 TAGTCAGGGAGGTAAAATTTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATATTCG
44369029 ATCT
1 ATCT
44369033 GCTTCGCTGC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATATTCG
Found at i:44369182 original size:97 final size:95
Alignment explanation
Indices: 44369068--44369260 Score: 350
Period size: 97 Copynumber: 2.0 Consensus size: 95
44369058 AAGATCTGCA
*
44369068 ATCTTCAATCTATTCCACTGCTAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
44369133 TAGTCACATGGAGGTAAAATCTGCCATCTTCG
66 TAGT--CAGGGAGGTAAAATCTGCCATCTTCG
44369165 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
44369230 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
44369260 A
1 A
44369261 CCTGCTCCAC
Statistics
Matches: 94, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
95 26 0.28
97 68 0.72
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTCG
Found at i:44369222 original size:231 final size:229
Alignment explanation
Indices: 44368829--44369266 Score: 768
Period size: 231 Copynumber: 1.9 Consensus size: 229
44368819 TTCGGGAGAT
* *
44368829 AAGATCTGTAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGTTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
*
44368894 TACTCCACTGTAGTCAGGGAGGTAAACTCTGCCATATTCGATCTTCAATCTATTCCACTGCCAAA
66 TACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATATTCGATCTTCAATCTATTCCACTGCCAAA
*
44368959 TACAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATTTGCCAT
131 TACAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCAT
* *
44369024 CTTTGATCTGCTTCGCTGCCAAATACAGGAAGGC
196 CTTCGACCTGCTTCGCTGCCAAATACAGGAAGGC
*
44369058 AAGATCTGCAATCTTCAATCTATTCCACTGCTAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
* *
44369123 TACTCCACTGTAGTCACATGGAGGTAAAATCTGCCATCTTCGATCTTCAATCTATTCCACTGCCA
66 TACTCCACTGTAGT--CAGGGAGGTAAAATCTGCCATATTCGATCTTCAATCTATTCCACTGCCA
*
44369188 AATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCC
129 AATACAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCC
44369253 ATCTTCGACCTGCT
194 ATCTTCGACCTGCT
44369267 CCACTATTGC
Statistics
Matches: 197, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
229 76 0.39
231 121 0.61
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (229 bp):
AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
TACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATATTCGATCTTCAATCTATTCCACTGCCAAA
TACAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCAT
CTTCGACCTGCTTCGCTGCCAAATACAGGAAGGC
Found at i:44369271 original size:43 final size:44
Alignment explanation
Indices: 44369220--44369519 Score: 126
Period size: 44 Copynumber: 6.9 Consensus size: 44
44369210 GGCTTCAATG
* * *
44369220 TACTCCACTGTAG-TCAGGGAGGTAAAATCTGCCATCTTCGACC
1 TACTCCACTGTAGCTCAGGGAGATAAAATCTACCATCTTCAACC
* * * * * *** * *
44369263 TGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCGATC
1 TACTCCACTGTAGCTCAGGGAGATAAAATCTACCATCTTCAACC
* * * * * **
44369307 TATTCCACTGTTGCCCAGGGAGATAGAA-CTACCAGCTTCAATG
1 TACTCCACTGTAGCTCAGGGAGATAAAATCTACCATCTTCAACC
* * * * *
44369350 TACTCCACTGTA-ATCAGGGAGGTAAAATCCACCGTCTTCAACT
1 TACTCCACTGTAGCTCAGGGAGATAAAATCTACCATCTTCAACC
* * * * *** *
44369393 TGCTCCACTATTGCTTC-GGGAGATAAGATCTGTAATCTTCAATC
1 TACTCCACTGTAGC-TCAGGGAGATAAAATCTACCATCTTCAACC
* ** * * * ** **
44369437 TATTCCACTGCTAAATACAGGGAGATAGAGT-TATCGGCTTCAATG
1 TACTCCACTG-TAGCT-CAGGGAGATAAAATCTACCATCTTCAACC
* *
44369482 TACTCCACTGTAG-TCAGGGAGGTAAAATCTGCCATCTT
1 TACTCCACTGTAGCTCAGGGAGATAAAATCTACCATCTT
44369520 TGATCTACTT
Statistics
Matches: 180, Mismatches: 69, Indels: 16
0.68 0.26 0.06
Matches are distributed among these distances:
42 22 0.12
43 54 0.30
44 73 0.41
45 22 0.12
46 9 0.05
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
TACTCCACTGTAGCTCAGGGAGATAAAATCTACCATCTTCAACC
Found at i:44369597 original size:134 final size:134
Alignment explanation
Indices: 44369165--44369661 Score: 586
Period size: 130 Copynumber: 3.7 Consensus size: 134
44369155 GCCATCTTCG
44369165 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
44369230 TAGTCAGGGAGGTAAAATCTGCCATCTTCGA-C--C-TGCTCCACTATTGCTTAGGGAGATAAGA
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTTGCTCCAC-ATTGC-TAGGGAGATAAGA
44369291 TCTGTA
129 TCTGTA
* ***** ** * *
44369297 ATCTTCGATCTATTCCACTG--TTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* ** * * *
44369360 TAATCAGGGAGGTAAAATCCACCGTC--T--TCAACTTGCTCCACTATTGCTTCGGGAGATAAGA
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTTGCTCCAC-ATTGC-TAGGGAGATAAGA
44369421 TCTGTA
129 TCTGTA
*
44369427 ATCTTCAATCTATTCCACTGCTAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* * * ** *
44369492 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTTCGCTGCCA-AATAC-AGGAAGGCAGGA
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTT-GCT-CCACATTGCTAGGGAGATAAGA
*
44369555 TCTGCA
129 TCTGTA
*
44369561 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTA
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
44369626 TAGTCACATGGAGGCAAAATCTGCCATCTTTGATCT
66 TAGT--CAGGGAGGTAAAATCTGCCATCTTTGATCT
44369662 TCAATCTATT
Statistics
Matches: 308, Mismatches: 43, Indels: 24
0.82 0.11 0.06
Matches are distributed among these distances:
127 1 0.00
129 1 0.00
130 108 0.35
132 75 0.24
134 80 0.26
136 37 0.12
137 3 0.01
138 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (134 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTTGCTCCACATTGCTAGGGAGATAAGATC
TGTA
Found at i:44369673 original size:97 final size:97
Alignment explanation
Indices: 44369561--44369853 Score: 527
Period size: 97 Copynumber: 3.0 Consensus size: 97
44369551 AGGATCTGCA
44369561 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTA
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTA
*
44369626 TAGTCACATGGAGGCAAAATCTGCCATCTTTG
66 TAGTCACATGGAGGTAAAATCTGCCATCTTTG
44369658 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTA
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTA
44369723 TAGTCACATGGAGGTAAAATCTGCCATCTTTG
66 TAGTCACATGGAGGTAAAATCTGCCATCTTTG
* *
44369755 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTTAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTA
* *
44369820 TAGT--CAGGGAGGTAAAATCTTCCATCTTTG
66 TAGTCACATGGAGGTAAAATCTGCCATCTTTG
44369850 ATCT
1 ATCT
44369854 GCTTTGCTGC
Statistics
Matches: 191, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
95 28 0.15
97 163 0.85
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (97 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTA
TAGTCACATGGAGGTAAAATCTGCCATCTTTG
Found at i:44370011 original size:44 final size:44
Alignment explanation
Indices: 44369875--44370016 Score: 123
Period size: 44 Copynumber: 3.3 Consensus size: 44
44369865 AAATACAGGA
* * *
44369875 AGGCAAGATCTGCTATATTCAACCTGCTCTGCTACAAACGAGAG
1 AGGCAAGATTTGCTATCTTCAACCTGCTCTGCTACAAACAAGAG
* * * * * *
44369919 AGGCAAGGTTTG---TCTTCGATCTGCT-TCGCTGTCAATGCAGGA-
1 AGGCAAGATTTGCTATCTTCAACCTGCTCT-GCT-ACAA-ACAAGAG
*
44369961 AGGCAAGATTTGCTATCTTCAACCAGCTCTGCTACAAACAAGAG
1 AGGCAAGATTTGCTATCTTCAACCTGCTCTGCTACAAACAAGAG
*
44370005 AGGCAAGGTTTG
1 AGGCAAGATTTG
44370017 TCTTTGATTT
Statistics
Matches: 73, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
40 1 0.01
41 13 0.18
42 14 0.19
43 7 0.10
44 24 0.33
45 13 0.18
46 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (44 bp):
AGGCAAGATTTGCTATCTTCAACCTGCTCTGCTACAAACAAGAG
Found at i:44370015 original size:86 final size:87
Alignment explanation
Indices: 44369844--44370020 Score: 275
Period size: 86 Copynumber: 2.0 Consensus size: 87
44369834 AAATCTTCCA
* * *
44369844 TCTTTGATCTGCTTTGCTGCCAAATACAGGAAGGCAAGATCTGCTATATTCAACCTGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCTATATTCAACCAGCTCTGCTA
*
44369909 CAAACGAGAGAGGCAAGGTTTG
66 CAAACAAGAGAGGCAAGGTTTG
* * * *
44369931 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATTTGCTATCTTCAACCAGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCTATATTCAACCAGCTCTGCTA
44369995 CAAACAAGAGAGGCAAGGTTTG
66 CAAACAAGAGAGGCAAGGTTTG
44370017 TCTT
1 TCTT
44370021 TGATTTTTAC
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
86 64 0.78
87 18 0.22
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (87 bp):
TCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCTATATTCAACCAGCTCTGCTA
CAAACAAGAGAGGCAAGGTTTG
Found at i:44377901 original size:72 final size:72
Alignment explanation
Indices: 44377784--44377928 Score: 281
Period size: 72 Copynumber: 2.0 Consensus size: 72
44377774 TTAAACCAAA
*
44377784 ACCAAGCTAGCCAAATTCTCTGCTATACATTGACAATCCATAACTATTGAAATTTCACAAGAATT
1 ACCAAGCTAGCCAAATCCTCTGCTATACATTGACAATCCATAACTATTGAAATTTCACAAGAATT
44377849 TCATGCT
66 TCATGCT
44377856 ACCAAGCTAGCCAAATCCTCTGCTATACATTGACAATCCATAACTATTGAAATTTCACAAGAATT
1 ACCAAGCTAGCCAAATCCTCTGCTATACATTGACAATCCATAACTATTGAAATTTCACAAGAATT
44377921 TCATGCT
66 TCATGCT
44377928 A
1 A
44377929 AATTTATTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.30
Consensus pattern (72 bp):
ACCAAGCTAGCCAAATCCTCTGCTATACATTGACAATCCATAACTATTGAAATTTCACAAGAATT
TCATGCT
Found at i:44378816 original size:13 final size:13
Alignment explanation
Indices: 44378800--44378825 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44378790 ATGTACAATG
44378800 CAACCAATTATTC
1 CAACCAATTATTC
44378813 CAACCAATTATTC
1 CAACCAATTATTC
44378826 TAACATACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (13 bp):
CAACCAATTATTC
Found at i:44379730 original size:7 final size:7
Alignment explanation
Indices: 44379718--44379751 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
44379708 ATCTAAAGTA
44379718 AAATTCC
1 AAATTCC
44379725 AAATTCC
1 AAATTCC
44379732 AAATTCC
1 AAATTCC
44379739 AAATTCC
1 AAATTCC
44379746 AAATTC
1 AAATTC
44379752 AATTTCAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.29
Consensus pattern (7 bp):
AAATTCC
Found at i:44383454 original size:20 final size:19
Alignment explanation
Indices: 44383420--44383462 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
44383410 TTAAAAACTT
44383420 ATATAATAATATATATACC
1 ATATAATAATATATATACC
* *
44383439 ATATAATGATTATATATATC
1 ATATAAT-AATATATATACC
44383459 ATAT
1 ATAT
44383463 GGTAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (19 bp):
ATATAATAATATATATACC
Found at i:44385730 original size:133 final size:133
Alignment explanation
Indices: 44385489--44385733 Score: 339
Period size: 133 Copynumber: 1.8 Consensus size: 133
44385479 TTAGGGAGAC
* * *
44385489 AAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTATTGGCTTCAATGTA
1 AAGATCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATATA
* * ** * *
44385554 CTCCACTGTAACCACAGGGAGGTAAAATCTGCCGCCTTCGATCTGCTTCGCTGTCTATGCAGGAA
66 CTCCACTGCAACCACAGAGAGGTAAAATCTAACACATTCGATCTGCTTCGCTGTCTATGCAGGAA
44385619 GGA
131 GGA
* *
44385622 AAGATCTAAAATCTTCAGTCTATTCCATTGCTGCCCAGGG-AGATAGAATTACTGGCTTCAATAT
1 AAGATCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCAATAT
** * *
44385686 ACTCCACTGCAACTTCAGAGAGGTAAAATCTAACATATTTGATCTGCT
65 ACTCCACTGCAACCACAGAGAGGTAAAATCTAACACATTCGATCTGCT
44385734 CCACTACTGC
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
132 2 0.02
133 94 0.98
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (133 bp):
AAGATCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATATA
CTCCACTGCAACCACAGAGAGGTAAAATCTAACACATTCGATCTGCTTCGCTGTCTATGCAGGAA
GGA
Found at i:44386163 original size:132 final size:133
Alignment explanation
Indices: 44385961--44386247 Score: 443
Period size: 132 Copynumber: 2.2 Consensus size: 133
44385951 TAATACATGA
** * *
44385961 AGACAAGATCTGTTTTC-TCGATCTATTCCACTGCCGACCAGGAAGATAGAATTACTGGCTTTAA
1 AGACAAGATCTGTAATCTTCAATCTATTCCACTGCCGACCAGGAAGATAGAATTACTGGCTTCAA
*
44386025 TATACTCCACTGCAACCTCAGGGAGGT-AAAATCTGCCATCTTTGATCTGCTCCACTACTGATTA
66 TATACTCCACTGCAACCTCAGGGAAGTAAAAATCTGCCATCTTTGATCTGCTCCACTACTGATTA
44386089 GGG
131 GGG
* * * * *
44386092 AGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAGTTACTGGCTTCAA
1 AGACAAGATCTGTAATCTTCAATCTATTCCACTGCCGACCAGGAAGATAGAATTACTGGCTTCAA
* * *
44386157 TGTACTCCACTGCAACCTCAGGGAAGTAAAAATCTGCTATCTTTGATCTGCTCCACTACTGCTTA
66 TATACTCCACTGCAACCTCAGGGAAGTAAAAATCTGCCATCTTTGATCTGCTCCACTACTGATTA
44386222 GGG
131 GGG
44386225 AGACAAGATCTGTAATCTTCAAT
1 AGACAAGATCTGTAATCTTCAAT
44386248 TTGTTCAACT
Statistics
Matches: 140, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
131 14 0.10
132 66 0.47
133 60 0.43
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (133 bp):
AGACAAGATCTGTAATCTTCAATCTATTCCACTGCCGACCAGGAAGATAGAATTACTGGCTTCAA
TATACTCCACTGCAACCTCAGGGAAGTAAAAATCTGCCATCTTTGATCTGCTCCACTACTGATTA
GGG
Found at i:44386259 original size:133 final size:132
Alignment explanation
Indices: 44385961--44386259 Score: 429
Period size: 133 Copynumber: 2.3 Consensus size: 132
44385951 TAATACATGA
** * * * * *
44385961 AGACAAGATCTGTTTTC-TCGATCTATTCCACTGCCGACCAGGAAGATAGAATTACTGGCTTTAA
1 AGACAAGATCTGTAATCTTCAATCTATTCAACTGCTGCCCAGGAAGATAGAATTACTGGCTTCAA
*
44386025 TATACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGATTAG
66 TATACTCCACTGCAACCTCAGGGAAGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGATTAG
44386090 GG
131 GG
* * * *
44386092 AGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAGTTACTGGCTTCAA
1 AGACAAGATCTGTAATCTTCAATCTATTCAACTGCTGCCCAGGAAGATAGAATTACTGGCTTCAA
* * *
44386157 TGTACTCCACTGCAACCTCAGGGAAGTAAAAATCTGCTATCTTTGATCTGCTCCACTACTGCTTA
66 TATACTCCACTGCAACCTCAGGGAAGT-AAAATCTGCCATCTTTGATCTGCTCCACTACTGATTA
44386222 GGG
130 GGG
* *
44386225 AGACAAGATCTGTAATCTTCAATTTGTTCAACTGC
1 AGACAAGATCTGTAATCTTCAATCTATTCAACTGC
44386260 AATGTCGGGG
Statistics
Matches: 149, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
131 14 0.09
132 66 0.44
133 69 0.46
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (132 bp):
AGACAAGATCTGTAATCTTCAATCTATTCAACTGCTGCCCAGGAAGATAGAATTACTGGCTTCAA
TATACTCCACTGCAACCTCAGGGAAGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGATTAG
GG
Found at i:44386321 original size:50 final size:49
Alignment explanation
Indices: 44386267--44386406 Score: 111
Period size: 50 Copynumber: 2.8 Consensus size: 49
44386257 TGCAATGTCG
* * *
44386267 GGGAAACCAGATTCGCTGTCGTAGCTTCAATCTGTTCCACCGTACCGTCA
1 GGGAAACCAGATTCGC-GTCGTAGCTTCAATCTGTTCCACCGCAACATCA
*** * * * ** ** *
44386317 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
1 GGGAAACCAGATTCG-CGTCGTAGCTTCAATCTGTTCCACCGCAACATCA
44386367 GGGAAACCAGATCTAC-CGTCGTAGCTTCAATCTGTTCCAC
1 GGGAAACCAGAT-T-CGCGTCGTAGCTTCAATCTGTTCCAC
44386407 TGCACTGCTA
Statistics
Matches: 64, Mismatches: 23, Indels: 6
0.69 0.25 0.06
Matches are distributed among these distances:
50 61 0.95
51 2 0.03
52 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29
Consensus pattern (49 bp):
GGGAAACCAGATTCGCGTCGTAGCTTCAATCTGTTCCACCGCAACATCA
Found at i:44386372 original size:100 final size:100
Alignment explanation
Indices: 44386257--44386525 Score: 339
Period size: 100 Copynumber: 2.7 Consensus size: 100
44386247 TTTGTTCAAC
* * * * *
44386257 TGCAATGTCGGGGAAACCAGATTCGCTGTCGTAGCTTCAATCTGTTCCACCGTACCG-TCAGGGA
1 TGCAATATCAGGGAAACCAGATTCGCTGTCGTAGCTTCAATCTGTTCCACCGCACCGCT-AAGAA
* *
44386321 AGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAT
65 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAG
* *
44386357 TGCAATATCAGGGAAACCAGATCTAC-C-GTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGA
1 TGCAATATCAGGGAAACCAGAT-T-CGCTGTCGTAGCTTCAATCTGTTCCACCGCACCGCTAAGA
44386420 AAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAG
64 AAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAG
* * * * * *
44386457 TGCAATATCAGGAAAACTAGATCCG-TCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGA
1 TGCAATATCAGGGAAACCAGATTCGCT-GTCGTAGCTTCAATCTGTTCCACCGCACCGCTAAGAA
44386521 AGTAA
65 AGTAA
44386526 AATCTATGGT
Statistics
Matches: 150, Mismatches: 13, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
98 1 0.01
100 145 0.97
101 3 0.02
102 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (100 bp):
TGCAATATCAGGGAAACCAGATTCGCTGTCGTAGCTTCAATCTGTTCCACCGCACCGCTAAGAAA
GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAG
Found at i:44386429 original size:50 final size:50
Alignment explanation
Indices: 44386375--44386525 Score: 135
Period size: 50 Copynumber: 3.0 Consensus size: 50
44386365 CAGGGAAACC
*
44386375 AGATCTACCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGAAAGTA
1 AGATCCACCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGAAAGTA
* * * * ** * * * * *
44386425 AGATCCGCCGTTGTGGCTTCAATCTTTTTAAGTGCAAT-ATCAGGAAAACT-
1 AGATCCACCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT-AAG-AAAGTA
** *
44386475 AGATCCGTCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
1 AGATCCACCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGAAAGTA
44386525 A
1 A
44386526 AATCTATGGT
Statistics
Matches: 73, Mismatches: 24, Indels: 8
0.70 0.23 0.08
Matches are distributed among these distances:
49 4 0.05
50 64 0.88
51 5 0.07
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (50 bp):
AGATCCACCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGAAAGTA
Found at i:44387806 original size:8 final size:7
Alignment explanation
Indices: 44387762--44387803 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
44387752 TTAGCCTCTC
44387762 CATTTTT
1 CATTTTT
44387769 -ACTTTTT
1 CA-TTTTT
44387776 CATTTTT
1 CATTTTT
44387783 CA-TTTT
1 CATTTTT
44387789 CATCTTTT
1 CAT-TTTT
44387797 CATTTTT
1 CATTTTT
44387804 TCACATCACT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 7 0.23
7 16 0.52
8 8 0.26
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:44398824 original size:28 final size:28
Alignment explanation
Indices: 44398763--44398817 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
44398753 AAAGCAACAC
* *
44398763 ACAAAAGAACAAAAAGGAAGAAAAGAAA
1 ACAAAAAAACAAAAAAGAAGAAAAGAAA
44398791 ACAAAAAAACAAAAAAAGAA-AAAAGAA
1 ACAAAAAAAC-AAAAAAGAAGAAAAGAA
44398818 CAGAAAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.80, C:0.07, G:0.13, T:0.00
Consensus pattern (28 bp):
ACAAAAAAACAAAAAAGAAGAAAAGAAA
Found at i:44400333 original size:26 final size:27
Alignment explanation
Indices: 44400303--44400353 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
44400293 TAGAATTTGT
44400303 TTGTTATTC-ATCAT-TTGCTTTGTATA
1 TTGTTATTCAATCATATTG-TTTGTATA
44400329 TTGTTATTCAATCATATTGTTTGTA
1 TTGTTATTCAATCATATTGTTTGTA
44400354 AGAATTGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 9 0.39
27 11 0.48
28 3 0.13
ACGTcount: A:0.22, C:0.10, G:0.12, T:0.57
Consensus pattern (27 bp):
TTGTTATTCAATCATATTGTTTGTATA
Found at i:44415355 original size:30 final size:30
Alignment explanation
Indices: 44415319--44415468 Score: 259
Period size: 30 Copynumber: 5.1 Consensus size: 30
44415309 TGTTTTGTAT
*
44415319 ATTGCCGAATTGATTTGTATATGAATATAC
1 ATTGCCGAATTGATTTGTATATGGATATAC
44415349 ATTGCCGAATTGATTTGTATATGGATATAC
1 ATTGCCGAATTGATTTGTATATGGATATAC
*
44415379 ATTGCCAAATTGATTTGTATATGGATATAC
1 ATTGCCGAATTGATTTGTATATGGATATAC
44415409 ATTGCCGAATTGATTTGTATATGGATATAC
1 ATTGCCGAATTGATTTGTATATGGATATAC
*
44415439 ATTACCGAATTGATTTGTATAT-G-TATAC
1 ATTGCCGAATTGATTTGTATATGGATATAC
44415467 AT
1 AT
44415469 ATATATTGTC
Statistics
Matches: 116, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
28 7 0.06
29 1 0.01
30 108 0.93
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (30 bp):
ATTGCCGAATTGATTTGTATATGGATATAC
Found at i:44417490 original size:27 final size:27
Alignment explanation
Indices: 44417459--44417663 Score: 216
Period size: 27 Copynumber: 7.6 Consensus size: 27
44417449 TAAATTGTAC
*
44417459 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
44417486 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
44417512 ATGCACTAAGTGTGCGAAATGAATATG-
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
44417539 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
44417567 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
44417595 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
44417622 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
44417649 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44417664 GGCTCAATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 23 0.15
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:44417654 original size:109 final size:108
Alignment explanation
Indices: 44417460--44417663 Score: 286
Period size: 109 Copynumber: 1.9 Consensus size: 108
44417450 AAATTGTACA
* *
44417460 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
44417525 GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
** *
44417568 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
** * *
44417632 GTGCGAGTTGATTAT-ATAGCACTGAGTGTGCG
64 GTGCGAAATGAATATGAT-GCACTAAGTGTGCG
44417664 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
108 18 0.21
109 66 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
Found at i:44425793 original size:30 final size:30
Alignment explanation
Indices: 44425748--44425870 Score: 156
Period size: 30 Copynumber: 4.1 Consensus size: 30
44425738 GTATATGTTT
* * *
44425748 TATATATTGCTGAATTGATTTATATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* * *
44425778 TATACATTGCCGAATTGATTTTTAAATTGA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
44425808 TATACATTGCCGAATTGGTTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* * *
44425838 TATACATTGCCAAATTAATTTGTATATTGA
1 TATACATTGCCGAATTGATTTGTATATGGA
44425868 TAT
1 TAT
44425871 GCATATATAT
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 80 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATGGA
Found at i:44425823 original size:60 final size:60
Alignment explanation
Indices: 44425748--44425870 Score: 174
Period size: 60 Copynumber: 2.0 Consensus size: 60
44425738 GTATATGTTT
* * * * *
44425748 TATATATTGCTGAATTGATTTATATATGGATATACATTGCCGAATTGATTTTTAAATTGA
1 TATACATTGCCGAATTGATTTATATATGGATATACATTGCCAAATTAATTTGTAAATTGA
* * *
44425808 TATACATTGCCGAATTGGTTTGTATATGGATATACATTGCCAAATTAATTTGTATATTGA
1 TATACATTGCCGAATTGATTTATATATGGATATACATTGCCAAATTAATTTGTAAATTGA
44425868 TAT
1 TAT
44425871 GCATATATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (60 bp):
TATACATTGCCGAATTGATTTATATATGGATATACATTGCCAAATTAATTTGTAAATTGA
Found at i:44427535 original size:12 final size:12
Alignment explanation
Indices: 44427515--44427561 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
44427505 GGACACAGGG
44427515 CCGTGTCCGTGC
1 CCGTGTCCGTGC
*
44427527 CCTTGTCCGTGC
1 CCGTGTCCGTGC
** *
44427539 CCGTGTCTATTC
1 CCGTGTCCGTGC
44427551 CCGTGTCCGTG
1 CCGTGTCCGTG
44427562 TAACTCACTG
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.02, C:0.38, G:0.28, T:0.32
Consensus pattern (12 bp):
CCGTGTCCGTGC
Found at i:44428568 original size:31 final size:32
Alignment explanation
Indices: 44428495--44428570 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 32
44428485 AGTCCATTAT
* * *
44428495 GACAGTGAACATAGAACAAAGATAGTTTGTTGG
1 GACAGTAAACATAGAAC-AAGATAGTTTGTCGA
* * *
44428528 GTCAATAAACATAGAAC-ATATAGTTTGTCGA
1 GACAGTAAACATAGAACAAGATAGTTTGTCGA
44428559 GACAGTAAACAT
1 GACAGTAAACAT
44428571 GGGTGAGTCT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
31 21 0.60
33 14 0.40
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (32 bp):
GACAGTAAACATAGAACAAGATAGTTTGTCGA
Found at i:44457943 original size:19 final size:21
Alignment explanation
Indices: 44457916--44457954 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
44457906 TTTATTTAAC
*
44457916 AATTTAAAT-ATAA-TAAAAA
1 AATTCAAATCATAATTAAAAA
44457935 AATTCAAATCATAATTAAAA
1 AATTCAAATCATAATTAAAA
44457955 CATTTATACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 4 0.24
21 5 0.29
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (21 bp):
AATTCAAATCATAATTAAAAA
Found at i:44463195 original size:18 final size:18
Alignment explanation
Indices: 44463169--44463217 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
44463159 CCGATTTTAT
*
44463169 TTTTA-TTTTGTTATATA
1 TTTTATTTTTATTATATA
* *
44463186 TTTTATTTTTATTTTCTA
1 TTTTATTTTTATTATATA
44463204 TTTTATTCTTTATT
1 TTTTATT-TTTATT
44463218 TTCTTGCATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 5 0.19
18 16 0.59
19 6 0.22
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTATTTTTATTATATA
Found at i:44463217 original size:19 final size:18
Alignment explanation
Indices: 44463184--44463221 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
44463174 TTTTGTTATA
44463184 TATTTTATTTTTATTTTC
1 TATTTTATTTTTATTTTC
44463202 TATTTTATTCTTTATTTTC
1 TATTTTATT-TTTATTTTC
44463221 T
1 T
44463222 TGCATGTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (18 bp):
TATTTTATTTTTATTTTC
Found at i:44463851 original size:5 final size:5
Alignment explanation
Indices: 44463841--44463865 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
44463831 ATTTCATTAA
44463841 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
44463866 CTAATGATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:44464195 original size:105 final size:105
Alignment explanation
Indices: 44464013--44464205 Score: 255
Period size: 105 Copynumber: 1.8 Consensus size: 105
44464003 ACAAAAAAAA
* *
44464013 GAGTGTGTTAGGCTGAATAACCTGGGTAGGGTGCTTGGGTTGTTATCCCACTTTGAGTCAAAAGG
1 GAGTGTGTTAGGCTGAATAACCTGGGTACGGTGCTTGGGTTGTCATCCCACTTTGAGTCAAAAGG
44464078 GCCAAAACATTCTTAACAAAAAATTATAATAATAAAATAG
66 GCCAAAACATTCTTAACAAAAAATTATAATAATAAAATAG
* * * * * * *
44464118 GAGTGTGTTGGGCTGAGTAA-CTAGGGTTCGGTGTTTGGGTTGTCATCCC-TTTTCGTGTCAAGA
1 GAGTGTGTTAGGCTGAATAACCT-GGGTACGGTGCTTGGGTTGTCATCCCACTTT-GAGTCAAAA
* *
44464181 GGGCCAATACATTCTTAAGAAAAAA
64 GGGCCAAAACATTCTTAACAAAAAA
44464206 AACTAAAAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
104 5 0.07
105 70 0.93
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (105 bp):
GAGTGTGTTAGGCTGAATAACCTGGGTACGGTGCTTGGGTTGTCATCCCACTTTGAGTCAAAAGG
GCCAAAACATTCTTAACAAAAAATTATAATAATAAAATAG
Found at i:44469620 original size:26 final size:26
Alignment explanation
Indices: 44469554--44469625 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
44469544 GAGTTATATC
44469554 AGAAAGCTC-CGAAGAGCCATTAATCA
1 AGAAA-CTCACGAAGAGCCATTAATCA
* * * * *
44469580 AGAAGCTAACAAAGAGCCTTTAATCG
1 AGAAACTCACGAAGAGCCATTAATCA
*
44469606 GGAAACTCACGAAGAGCCAT
1 AGAAACTCACGAAGAGCCAT
44469626 ATATCGGGAT
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
25 2 0.06
26 33 0.94
ACGTcount: A:0.42, C:0.22, G:0.21, T:0.15
Consensus pattern (26 bp):
AGAAACTCACGAAGAGCCATTAATCA
Found at i:44476584 original size:63 final size:62
Alignment explanation
Indices: 44476485--44476604 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 62
44476475 CACAGCTTGG
* *
44476485 ACACACGCCAGTGTCTCTGGCCCATGTGAACCTAATTCCAGAATAGTGAGTTACAAGGCCTAT
1 ACACACGCCAGTGTCTCTGGCCCATGTGAACCTAATTCCAAAACAGTGAGTTA-AAGGCCTAT
* * *
44476548 ACACACGCCTGTGTCTTTGGCCCATGT-TACTCTAATTCCAAAACAGTGAGTTAAAGG
1 ACACACGCCAGTGTCTCTGGCCCATGTGAAC-CTAATTCCAAAACAGTGAGTTAAAGG
44476605 GTTGCCACAC
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
62 6 0.12
63 45 0.88
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (62 bp):
ACACACGCCAGTGTCTCTGGCCCATGTGAACCTAATTCCAAAACAGTGAGTTAAAGGCCTAT
Found at i:44477578 original size:11 final size:11
Alignment explanation
Indices: 44477562--44477591 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
44477552 AATTAACTAT
*
44477562 AATAATTTATA
1 AATAATATATA
44477573 AATAATATATA
1 AATAATATATA
44477584 AATAATAT
1 AATAATAT
44477592 GTAGCAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATAATATATA
Found at i:44493746 original size:45 final size:46
Alignment explanation
Indices: 44493671--44493793 Score: 140
Period size: 46 Copynumber: 2.7 Consensus size: 46
44493661 GATTGGAGGG
* * *
44493671 TGCCATGGTGTCTTTCAAACATGGTCTTATTTATTCT-TGACTTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCTGACATGA
* * * * * *
44493716 TGTCATAGTGTCTTTCAACCATGGTTTTATTCATTTTCTGTCATGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCTGACATGA
* *
44493762 TGCCCTAGTGTCTTTCAACTATGGTCTTATTT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTT
44493794 GTTTGATTCG
Statistics
Matches: 63, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
45 31 0.49
46 32 0.51
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.47
Consensus pattern (46 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCTGACATGA
Found at i:44493859 original size:45 final size:45
Alignment explanation
Indices: 44493771--44493928 Score: 163
Period size: 45 Copynumber: 3.5 Consensus size: 45
44493761 TTGCCCTAGT
* * * * * * *
44493771 GTCTTTCAACTATGGTCTTATTTGTTTGATTCGTTATGCCATAAC
1 GTCTTTCAAATATGGTCTTACTCGATAGAATCGTGATGCCATAAC
** * * *
44493816 GTCTACCAACTATGGTCTTGCTCGATAGAATCGTGATGTCATAAC
1 GTCTTTCAAATATGGTCTTACTCGATAGAATCGTGATGCCATAAC
** * * *
44493861 GTCTTTCAGTTATGGTATTACTCGATGGAATCATGATGCCATAAC
1 GTCTTTCAAATATGGTCTTACTCGATAGAATCGTGATGCCATAAC
44493906 GTCTTTCAAATATGGTCTTACTC
1 GTCTTTCAAATATGGTCTTACTC
44493929 ATTTCTGGTA
Statistics
Matches: 91, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 91 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.39
Consensus pattern (45 bp):
GTCTTTCAAATATGGTCTTACTCGATAGAATCGTGATGCCATAAC
Found at i:44493955 original size:45 final size:45
Alignment explanation
Indices: 44493906--44494023 Score: 164
Period size: 45 Copynumber: 2.6 Consensus size: 45
44493896 ATGCCATAAC
* * *
44493906 GTCTTTCAAATATGGTCTTACTCATTTCTGGTATGGTGTTATAGT
1 GTCTTTCAAATATGGTCTTAATCATTTCTGGTATAGTGTCATAGT
* * *
44493951 GTCTTTCAATTATGGTCTTATTTATTTCTGGTATAGTGTCATAGT
1 GTCTTTCAAATATGGTCTTAATCATTTCTGGTATAGTGTCATAGT
* *
44493996 GTTTTTCAACTATGGTCTTAATCATTTC
1 GTCTTTCAAATATGGTCTTAATCATTTC
44494024 CTTCAAGCCA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.20, C:0.14, G:0.17, T:0.49
Consensus pattern (45 bp):
GTCTTTCAAATATGGTCTTAATCATTTCTGGTATAGTGTCATAGT
Found at i:44498403 original size:16 final size:15
Alignment explanation
Indices: 44498382--44498411 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
44498372 TGACTAGCTA
44498382 CTTTTTCTTTATTTTT
1 CTTTTTCTTT-TTTTT
44498398 CTTTTTCTTTTTTT
1 CTTTTTCTTTTTTT
44498412 GGGTTGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.83
Consensus pattern (15 bp):
CTTTTTCTTTTTTTT
Found at i:44500100 original size:3 final size:3
Alignment explanation
Indices: 44500094--44500124 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
44500084 AATAATACCC
*
44500094 ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
44500125 CAGCAGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:44506762 original size:125 final size:125
Alignment explanation
Indices: 44506566--44506917 Score: 661
Period size: 125 Copynumber: 2.8 Consensus size: 125
44506556 TTATTTCGAG
* * *
44506566 TTGACGTTTCT-AGTCAAATAGTATAAAATCGCTTTTACCAGGATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTGTACCAAGATTCTATTTGAGAAGAAATTGT
44506630 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
65 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
44506691 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTGTACCAAGATTCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTGTACCAAGATTCTATTTGAGAAGAAATTGTG
44506756 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
44506816 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTGTACCAAGATTCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTGTACCAAGATTCTATTTGAGAAGAAATTGTG
44506881 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
44506918 CAAGTTTGGG
Statistics
Matches: 223, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
125 221 0.99
126 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTGTACCAAGATTCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
Found at i:44510043 original size:10 final size:10
Alignment explanation
Indices: 44510028--44510052 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
44510018 CAAATCTAAC
44510028 ATTATGTAAA
1 ATTATGTAAA
44510038 ATTATGTAAA
1 ATTATGTAAA
44510048 ATTAT
1 ATTAT
44510053 TAAGCCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:44510144 original size:55 final size:55
Alignment explanation
Indices: 44510036--44510877 Score: 1571
Period size: 55 Copynumber: 15.3 Consensus size: 55
44510026 ACATTATGTA
44510036 AAATTATGTAAAATTATTAAG-CCAAAAAAAATT-TGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCC---AAAAATTGTGTTAATGGTTAGTAAAATTATC
*
44510092 AAATTATGTAAAATTATTAAGTCCGAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
44510147 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
*
44510202 AAATTATGTAAAATTATTAAGTCCGAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
44510257 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
*
44510312 AAATTATGTAAAATTATTAAGTCCGAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
44510367 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
*
44510422 AAATTATGTAAAATTATTAAGTCCGAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
44510477 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
*
44510532 AAATTATGTAAAATTATTAAGTCCGAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
44510587 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
*
44510642 AAATTATGTAAAATTATTAAGTCCGAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
44510697 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
*
44510752 AAATTATGTAAAATTATTAAGTCCGAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
*
44510807 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGATTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
44510862 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
44510878 GGTTAGGGTT
Statistics
Matches: 769, Mismatches: 15, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
54 6 0.01
55 740 0.96
56 21 0.03
57 2 0.00
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.38
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:44510914 original size:29 final size:29
Alignment explanation
Indices: 44510872--44512307 Score: 1340
Period size: 29 Copynumber: 50.6 Consensus size: 29
44510862 AAATTATGTA
44510872 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
44510901 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
44510930 AAGTTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* * * *
44510959 AAATTATGTTATGGTTTGGGTGTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
44510988 AAATTAGGTTAGGGTTA-GG-TTTT--TT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
44511013 AATTTAGGTTAAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* * *
44511042 AAATTAGGTTATGGTTAGAGTTTTAAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
44511071 -AA--A--TTA-GGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* * *
44511094 AAGTTA----A--GTTTGGGTGTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
44511117 AAATTAGGTTAGGGTTA-GG-TTTT--TT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
44511142 AATTTAGGTTAAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
44511171 AAATTATGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
44511200 AAGTTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* * * *
44511229 AAATTATGTTATGGTTTGGGTGTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
44511258 AAATTAGGTTAGGGTTA-GG-TTTT--TT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
44511283 AATTTAGGTTAAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
44511312 AAATTATGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
44511341 --A--A-GTTA-GGTTAGGGTTTTTAATC
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* ** * *** ** **
44511364 AAATAATATCA-AAATA---ACTCGAA--
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* * * * *
44511387 AACATT---TATA-TGTCTA--TTATATCAAAT
1 AA-ATTAGGT-TAGGGT-TAGGGT-TTTTAATT
** ** ***
44511414 AAACTTCTATTTTA---TTA-CATCAAATAATAT
1 AAA--T-TAGGTTAGGGTTAGGGT-TTTTAAT-T
* *** *** * *
44511444 CAAAATAACTCGAAAAAATTTCTATGCGTATTTAATT
1 --AAAT---TAG-GTTAGGGT-TA-GGGTTTTTAATT
* * *
44511481 AAGTTAAGTTAAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
44511510 AAATTAGGTTAAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* * * *
44511539 AAATTATGTTATGGTTTGGGTGTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
44511568 AAATTAGGTTAGGGTTA-GG-TTTT--TT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
44511593 AATTTAGGTTAAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
44511622 AAATTATGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
44511651 AAGTTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
44511680 AAATTAGGTTAAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
44511709 AAATTATGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
44511738 AAGTTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
44511767 AAATTAGGTTATGGTTAGGGTTTTAAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
44511796 AAGTTAGATTAGGGTTAGGG-TTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
44511824 AAGTTAAGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
44511853 AAGTTAGGTTATGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
44511882 AAATTAGGTTATGGTTAGGGTTTTCAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
44511911 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* * *
44511940 AAGTTAAGTTAAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
44511969 AAATTAGGTTAAGGTTAGGGTTTAGGGTTTTAATT
1 AAATTAGGTTAGGGTTAGGG--T----TTTTAATT
* *
44512004 AAGTTAAGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
44512033 AAGTTAGGTTATGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
44512062 AAATTAGGTTATGGTTAGGGTTTTAAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
44512091 AAGTTAGATTAGGGTTAGGG-TTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
44512119 AAGTTAAGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
44512148 AAGTTAGGTTATGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
44512177 AAATTAGGTTATGGTTAGGGTTTTAAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
44512206 AAGTTAGATTAGGGTTAGGG-TTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
44512234 AAGTTAAGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
44512263 AAGTTAGGTTATGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
44512292 AAATTAGGTTAGGGTT
1 AAATTAGGTTAGGGTT
44512308 TTTAATCAAG
Statistics
Matches: 1183, Mismatches: 159, Indels: 130
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.00
22 1 0.00
23 54 0.05
24 11 0.01
25 75 0.06
26 11 0.01
27 33 0.03
28 92 0.08
29 847 0.72
30 4 0.00
31 6 0.01
32 7 0.01
33 2 0.00
35 28 0.02
36 1 0.00
37 3 0.00
38 5 0.00
39 2 0.00
ACGTcount: A:0.29, C:0.01, G:0.25, T:0.45
Consensus pattern (29 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:44512433 original size:71 final size:71
Alignment explanation
Indices: 44512312--44512464 Score: 261
Period size: 71 Copynumber: 2.2 Consensus size: 71
44512302 AGGGTTTTTA
* * *
44512312 ATCAAGTAATATCAAAATAACTCGAAAACATTTCTATGCCTATTATATCAAATAAACTTCTATTT
1 ATCAAATAATATCAAAATAACTCGAAAAAATTTCTATGCCTATTACATCAAATAAACTTCTATTT
44512377 TATTAC
66 TATTAC
* *
44512383 ATCAAATAATATCAAAATAACTCGAAAAAATTTTTATGCGTATTACATCAAATAAACTTCTATTT
1 ATCAAATAATATCAAAATAACTCGAAAAAATTTCTATGCCTATTACATCAAATAAACTTCTATTT
44512448 TATTAC
66 TATTAC
44512454 ATCAAATAATA
1 ATCAAATAATA
44512465 AATTTAAATA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 77 1.00
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (71 bp):
ATCAAATAATATCAAAATAACTCGAAAAAATTTCTATGCCTATTACATCAAATAAACTTCTATTT
TATTAC
Found at i:44512529 original size:6 final size:6
Alignment explanation
Indices: 44512518--44512552 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
44512508 TCCACATGGC
44512518 GGTTAG GGTTAG GGTTAG GGTTAG GGTTAG GGTTA
1 GGTTAG GGTTAG GGTTAG GGTTAG GGTTAG GGTTA
44512553 TTAATTAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.49, T:0.34
Consensus pattern (6 bp):
GGTTAG
Found at i:44512575 original size:29 final size:28
Alignment explanation
Indices: 44512536--44512630 Score: 126
Period size: 29 Copynumber: 3.5 Consensus size: 28
44512526 TTAGGGTTAG
*
44512536 GGTTAGGGTTAGGGTTATTAATTAAGTTA
1 GGTTAGGGTTAGGGTT-TTAATTAAATTA
44512565 GGTTAGGGTTAGGGTTTTAAATTAAATTA
1 GGTTAGGGTTAGGGTTTT-AATTAAATTA
*
44512594 ---TA-AGTTAGGGTTTTAATTAAATTA
1 GGTTAGGGTTAGGGTTTTAATTAAATTA
44512618 GGTTAGGGTTAGG
1 GGTTAGGGTTAGG
44512631 TCCGGCGGGG
Statistics
Matches: 58, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
24 10 0.17
25 11 0.19
26 2 0.03
27 2 0.03
28 8 0.14
29 25 0.43
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.41
Consensus pattern (28 bp):
GGTTAGGGTTAGGGTTTTAATTAAATTA
Found at i:44512584 original size:24 final size:22
Alignment explanation
Indices: 44512571--44512627 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
44512561 GTTAGGTTAG
44512571 GGTTAGGGTTTTAAATTAAATTATA
1 GGTTAGGGTTTT-AATTAAA-T-TA
*
44512596 AGTTAGGGTTTTAATTAAATTA
1 GGTTAGGGTTTTAATTAAATTA
44512618 GGTTAGGGTT
1 GGTTAGGGTT
44512628 AGGTCCGGCG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 11 0.37
23 1 0.03
24 7 0.23
25 11 0.37
ACGTcount: A:0.32, C:0.00, G:0.25, T:0.44
Consensus pattern (22 bp):
GGTTAGGGTTTTAATTAAATTA
Found at i:44518376 original size:179 final size:179
Alignment explanation
Indices: 44518076--44518439 Score: 719
Period size: 179 Copynumber: 2.0 Consensus size: 179
44518066 AGAGGTGAAA
44518076 AAATAATTAAGCATCAAAAGTGCTTTTGAGAGAGAAAAAGCTAAAATTTTTAACTTCTCCTTTTT
1 AAATAATTAAGCATCAAAAGTGCTTTTGAGAGAGAAAAAGCTAAAATTTTTAACTTCTCCTTTTT
*
44518141 AGAAGTGCTTTTGAAGAGTACTTTTGAAAAACTAAAAATTTCAACCAAAAGCAGTTTATTCCGCA
66 AGAAGTGCTTTTAAAGAGTACTTTTGAAAAACTAAAAATTTCAACCAAAAGCAGTTTATTCCGCA
44518206 CAAATTTTTTTCCAAAAGAACTTTTGGAGTTAGAAGTATTTTTTTTAAG
131 CAAATTTTTTTCCAAAAGAACTTTTGGAGTTAGAAGTATTTTTTTTAAG
44518255 AAATAATTAAGCATCAAAAGTGCTTTTGAGAGAGAAAAAGCTAAAATTTTTAACTTCTCCTTTTT
1 AAATAATTAAGCATCAAAAGTGCTTTTGAGAGAGAAAAAGCTAAAATTTTTAACTTCTCCTTTTT
44518320 AGAAGTGCTTTTAAAGAGTACTTTTGAAAAACTAAAAATTTCAACCAAAAGCAGTTTATTCCGCA
66 AGAAGTGCTTTTAAAGAGTACTTTTGAAAAACTAAAAATTTCAACCAAAAGCAGTTTATTCCGCA
44518385 CAAATTTTTTTCCAAAAGAACTTTTGGAGTTAGAAGTATTTTTTTTAAG
131 CAAATTTTTTTCCAAAAGAACTTTTGGAGTTAGAAGTATTTTTTTTAAG
44518434 AAATAA
1 AAATAA
44518440 AGAACTGGCG
Statistics
Matches: 184, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
179 184 1.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.35
Consensus pattern (179 bp):
AAATAATTAAGCATCAAAAGTGCTTTTGAGAGAGAAAAAGCTAAAATTTTTAACTTCTCCTTTTT
AGAAGTGCTTTTAAAGAGTACTTTTGAAAAACTAAAAATTTCAACCAAAAGCAGTTTATTCCGCA
CAAATTTTTTTCCAAAAGAACTTTTGGAGTTAGAAGTATTTTTTTTAAG
Found at i:44527920 original size:19 final size:20
Alignment explanation
Indices: 44527904--44527945 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
44527894 TTCTATTTTT
*
44527904 TTTATTTTTCCCAATTTTCC
1 TTTATTCTTCCCAATTTTCC
*
44527924 TTTCTTCTTCCCAA-TTTCC
1 TTTATTCTTCCCAATTTTCC
44527943 TTT
1 TTT
44527946 TCTTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.12, C:0.29, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTATTCTTCCCAATTTTCC
Found at i:44534782 original size:13 final size:13
Alignment explanation
Indices: 44534764--44534788 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44534754 GAATTTACTT
44534764 GTGTGAAAATTTC
1 GTGTGAAAATTTC
44534777 GTGTGAAAATTT
1 GTGTGAAAATTT
44534789 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:44537564 original size:20 final size:19
Alignment explanation
Indices: 44537522--44537562 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
44537512 AAAAAAAAGG
* * *
44537522 AAAGGAAATTTGGAAGAAG
1 AAAGGAAAATTGGAAAAAA
44537541 AAAGGAAAATTGGAAAAAA
1 AAAGGAAAATTGGAAAAAA
44537560 AAA
1 AAA
44537563 AGAGAAACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.24, T:0.12
Consensus pattern (19 bp):
AAAGGAAAATTGGAAAAAA
Found at i:44540260 original size:21 final size:22
Alignment explanation
Indices: 44540231--44540282 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
44540221 GTCTAACTAA
*
44540231 GGTTTTTTTGTTCCA-TATAAG
1 GGTTCTTTTGTTCCATTATAAG
*
44540252 GGTTCTTTTGTTCCATTATGAG
1 GGTTCTTTTGTTCCATTATAAG
*
44540274 GTTTCTTTT
1 GGTTCTTTT
44540283 CTTATTTCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.13, C:0.12, G:0.19, T:0.56
Consensus pattern (22 bp):
GGTTCTTTTGTTCCATTATAAG
Found at i:44540279 original size:22 final size:21
Alignment explanation
Indices: 44540228--44540282 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
44540218 CTAGTCTAAC
44540228 TAAGGTTT-TTTTGTTCCATA
1 TAAGGTTTCTTTTGTTCCATA
*
44540248 TAAGGGTTCTTTTGTTCCATTA
1 TAAGGTTTCTTTTGTTCCA-TA
*
44540270 TGAGGTTTCTTTT
1 TAAGGTTTCTTTT
44540283 CTTATTTCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 7 0.23
21 10 0.33
22 13 0.43
ACGTcount: A:0.16, C:0.11, G:0.18, T:0.55
Consensus pattern (21 bp):
TAAGGTTTCTTTTGTTCCATA
Found at i:44545448 original size:3 final size:3
Alignment explanation
Indices: 44545433--44545502 Score: 54
Period size: 3 Copynumber: 23.7 Consensus size: 3
44545423 AAAAGGTATT
* * ** * **
44545433 TAA TAA TAT TAA TAA TGA TGC TAA TAA TAA TAA TAA TAG TTT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
44545481 TATA TAA TAA TAA -AA -AA TAA TA
1 TA-A TAA TAA TAA TAA TAA TAA TA
44545503 GCACATATTA
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
2 4 0.07
3 47 0.87
4 3 0.06
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:44545457 original size:21 final size:21
Alignment explanation
Indices: 44545433--44545492 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
44545423 AAAAGGTATT
44545433 TAATAATATTAATAAT-GATGC
1 TAATAATATTAATAATAG-TGC
* **
44545454 TAATAATAATAATAATAGTTT
1 TAATAATATTAATAATAGTGC
44545475 TAATAATATATAATAATA
1 TAATAATAT-TAATAATA
44545493 AAAAATAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 24 0.73
22 9 0.27
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (21 bp):
TAATAATATTAATAATAGTGC
Found at i:44554306 original size:25 final size:24
Alignment explanation
Indices: 44554278--44554365 Score: 72
Period size: 25 Copynumber: 3.5 Consensus size: 24
44554268 ACGAGCATGT
44554278 TAACGAGAAGCTCTTTCGAGCCATA
1 TAACGAGAAGCTCTTTCGAGCCA-A
* *
44554303 TAAC-AGGAAGCTCTTAT-TAGCTGAA
1 TAACGA-GAAGCTCTT-TCGAGC-CAA
* *
44554328 TAACGAGAAACTCTTGCGAGCCAAA
1 TAACGAGAAGCTCTTTCGAGCC-AA
*
44554353 TATCGAGAAGCTC
1 TAACGAGAAGCTC
44554366 AAACGAGTTG
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
24 1 0.02
25 45 0.92
26 3 0.06
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (24 bp):
TAACGAGAAGCTCTTTCGAGCCAA
Found at i:44554410 original size:25 final size:24
Alignment explanation
Indices: 44554378--44554425 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
44554368 ACGAGTTGTA
44554378 TAATGGGAAGCTCAAGAGAGCCAT
1 TAATGGGAAGCTCAAGAGAGCCAT
*
44554402 TAATCGGGAAGCTCATGAGAGCCA
1 TAAT-GGGAAGCTCAAGAGAGCCA
44554426 AATATTAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.35, C:0.19, G:0.29, T:0.17
Consensus pattern (24 bp):
TAATGGGAAGCTCAAGAGAGCCAT
Found at i:44555184 original size:24 final size:24
Alignment explanation
Indices: 44555157--44555267 Score: 81
Period size: 22 Copynumber: 4.6 Consensus size: 24
44555147 TTTTCACAAA
44555157 AAAATATTCTCTCAATTTCCTT-C
1 AAAATATTCTCTCAATTTCCTTCC
*
44555180 TAAA-ATTCTCTCAATTTCCTTCC
1 AAAATATTCTCTCAATTTCCTTCC
* *
44555203 AAAATTCTCTTAAACTCTCAAATTCCTTCC
1 AAAA---TATT---CTCTCAATTTCCTTCC
*
44555233 -AAA-ATCCTCTCAATTTCCTT-C
1 AAAATATTCTCTCAATTTCCTTCC
*
44555254 AAAA-AATCTCTCAA
1 AAAATATTCTCTCAA
44555268 ATCCATATTA
Statistics
Matches: 70, Mismatches: 9, Indels: 19
0.71 0.09 0.19
Matches are distributed among these distances:
21 1 0.01
22 41 0.59
23 7 0.10
25 1 0.01
27 2 0.03
29 3 0.04
30 15 0.21
ACGTcount: A:0.33, C:0.29, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAATATTCTCTCAATTTCCTTCC
Found at i:44555190 original size:22 final size:22
Alignment explanation
Indices: 44555162--44555212 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
44555152 ACAAAAAAAT
*
44555162 ATTCTCTCAATTTCCTTCTAAA
1 ATTCTCTCAATTTCCTTCCAAA
44555184 ATTCTCTCAATTTCCTTCCAAA
1 ATTCTCTCAATTTCCTTCCAAA
44555206 ATTCTCT
1 ATTCTCT
44555213 TAAACTCTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.29, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTCTCTCAATTTCCTTCCAAA
Found at i:44555222 original size:52 final size:52
Alignment explanation
Indices: 44555165--44555264 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
44555155 AAAAAATATT
* * * * *
44555165 CTCTCAATTTCCTTCTAAAATTCTCTCAATTTCCTTCCAAAATTCTCTTAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCTTAAA
44555217 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCT
1 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCT
44555265 CAAATCCATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.30, C:0.31, G:0.00, T:0.39
Consensus pattern (52 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCTTAAA
Found at i:44555349 original size:19 final size:20
Alignment explanation
Indices: 44555317--44555360 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
44555307 TTAGAGAAAG
* *
44555317 TTTT-AAAT-ATTTTTATTT
1 TTTTAAAATAATTTTAATAT
44555335 TTTTAAAATAATTTTAATAT
1 TTTTAAAATAATTTTAATAT
44555355 TTTTAA
1 TTTTAA
44555361 TATTTTCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.18
19 4 0.18
20 14 0.64
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTAAAATAATTTTAATAT
Found at i:44556461 original size:7 final size:7
Alignment explanation
Indices: 44556449--44556478 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
44556439 TGGATTGATG
44556449 TTTAGTA
1 TTTAGTA
44556456 TTTAGTA
1 TTTAGTA
44556463 TTTAGTA
1 TTTAGTA
44556470 TTTAGTA
1 TTTAGTA
44556477 TT
1 TT
44556479 ATGTATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (7 bp):
TTTAGTA
Found at i:44557153 original size:27 final size:27
Alignment explanation
Indices: 44557123--44557178 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
44557113 TGATGCCAGG
44557123 TATGTTTCCTAGCCCTTATATGTACCC
1 TATGTTTCCTAGCCCTTATATGTACCC
44557150 TATGTTTCCTAGCCCTTATATGTACCC
1 TATGTTTCCTAGCCCTTATATGTACCC
44557177 TA
1 TA
44557179 ACCCGTACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.20, C:0.29, G:0.11, T:0.41
Consensus pattern (27 bp):
TATGTTTCCTAGCCCTTATATGTACCC
Found at i:44557387 original size:24 final size:24
Alignment explanation
Indices: 44557360--44557415 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
44557350 GCATGGCTTT
* *
44557360 CAAACTCCGTCGCCGTTCATGATG
1 CAAACACCGTCGCCGTTCACGATG
44557384 CAAACACCGTCGCCGTTCACGATG
1 CAAACACCGTCGCCGTTCACGATG
44557408 CAAACACC
1 CAAACACC
44557416 TCCACATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.27, C:0.38, G:0.18, T:0.18
Consensus pattern (24 bp):
CAAACACCGTCGCCGTTCACGATG
Found at i:44557745 original size:29 final size:29
Alignment explanation
Indices: 44557701--44558358 Score: 727
Period size: 29 Copynumber: 22.5 Consensus size: 29
44557691 TATAATTTGT
*
44557701 TTAAAAACCC-AACCCTAACCTAATTAAA
1 TTAAAAACCCTAACCCTAACCTAATTTAA
**
44557729 TTAAAAACCCTAACCCTAATTTAATTTAA
1 TTAAAAACCCTAACCCTAACCTAATTTAA
* *
44557758 TTAAAAATCCTAAACCCTAACCTAATTAAA
1 TTAAAAACCCT-AACCCTAACCTAATTTAA
**
44557788 TTAAAAACCCTAACCCTAATTTAATTTAA
1 TTAAAAACCCTAACCCTAACCTAATTTAA
* *
44557817 TTAAAAATCCTAAACCCTAACCTAATTAAA
1 TTAAAAACCCT-AACCCTAACCTAATTTAA
**
44557847 TTAAAAACCCTAACCCTAATTTAATTTAA
1 TTAAAAACCCTAACCCTAACCTAATTTAA
44557876 TTAAAAACCCTAAACCCTAACCTAATTTAA
1 TTAAAAACCCT-AACCCTAACCTAATTTAA
* * *
44557906 TTAAAAACCTTAAACCATAACCTAATTAAA
1 TTAAAAACCCT-AACCCTAACCTAATTTAA
44557936 TTAAAAACCCTAACCCTAACCCTAATTTAA
1 TTAAAAACCCTAACCCTAA-CCTAATTTAA
* *
44557966 TTTTATTAAAA---AAACCCTAACCTAATTAAA
1 --TTA--AAAACCCTAACCCTAACCTAATTTAA
* * **
44557996 TTAAAAAACTTAACCCTAATTTAATTT-A
1 TTAAAAACCCTAACCCTAACCTAATTTAA
**
44558024 TTAAAAACCCTAACCCTAATTTAATTTAA
1 TTAAAAACCCTAACCCTAACCTAATTTAA
*
44558053 TTAAAAACCCTAAACCCTAACCTAATTAAA
1 TTAAAAACCCT-AACCCTAACCTAATTTAA
* * **
44558083 TTAAAAAACTTAACCCTAATTTAATTT-A
1 TTAAAAACCCTAACCCTAACCTAATTTAA
**
44558111 TTAAAAACCCTAACCCTAATTTAATTTAA
1 TTAAAAACCCTAACCCTAACCTAATTTAA
*
44558140 TTAAAAACCCTAAACCCTAACCTAATTAAA
1 TTAAAAACCCT-AACCCTAACCTAATTTAA
* * **
44558170 TTAAAAAACTTAACCCTAATTTAATTT-A
1 TTAAAAACCCTAACCCTAACCTAATTTAA
**
44558198 TTAAAAACCCTAACCCTAATTTAATTTAA
1 TTAAAAACCCTAACCCTAACCTAATTTAA
* *
44558227 TTAAAAACCCTAAACTCTAACCTAATTTTA
1 TTAAAAACCCT-AACCCTAACCTAATTTAA
* ** *
44558257 TTAAAAATCCTAACCCTAATTTAATTTTA
1 TTAAAAACCCTAACCCTAACCTAATTTAA
* **
44558286 TTAAAAACCTTAACCCTAATTTAATTTAA
1 TTAAAAACCCTAACCCTAACCTAATTTAA
* * *
44558315 TTAAAAGCCCTAACCCTAACCCATTTTAA
1 TTAAAAACCCTAACCCTAACCTAATTTAA
44558344 TTAAAAACCCTAACC
1 TTAAAAACCCTAACC
44558359 ATTAACAAAA
Statistics
Matches: 539, Mismatches: 73, Indels: 35
0.83 0.11 0.05
Matches are distributed among these distances:
26 4 0.01
28 91 0.17
29 236 0.44
30 193 0.36
31 8 0.01
32 3 0.01
34 4 0.01
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.31
Consensus pattern (29 bp):
TTAAAAACCCTAACCCTAACCTAATTTAA
Found at i:44557787 original size:59 final size:59
Alignment explanation
Indices: 44557701--44558356 Score: 755
Period size: 59 Copynumber: 11.2 Consensus size: 59
44557691 TATAATTTGT
44557701 TTAAAAACCC--AACCCTAACCTAATTAAATTAAAAACCCTAACCCTAATTTAATTTAA
1 TTAAAAACCCTAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTAATTTAATTTAA
*
44557758 TTAAAAATCCTAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTAATTTAATTTAA
1 TTAAAAACCCTAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTAATTTAATTTAA
*
44557817 TTAAAAATCCTAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTAATTTAATTTAA
1 TTAAAAACCCTAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTAATTTAATTTAA
* * * ** *
44557876 TTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCTTAAACCATAACCTAATTAAA
1 TTAAAAACCCTAAACCCTAACCTAATTAAATTAAAAACCCT-AACCCTAATTTAATTTAA
** *
44557936 TTAAAAACCCT-AACCCTAACCCTAATTTAATTTTATTAAAAA----AACCCTAACCTAATTAAA
1 TTAAAAACCCTAAACCCTAA-CCTAA-TTAA----ATTAAAAACCCTAACCCTAATTTAATTTAA
* * ** *
44557996 TTAAAAA-ACTTAACCCTAATTTAATT-TATTAAAAACCCTAACCCTAATTTAATTTAA
1 TTAAAAACCCTAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTAATTTAATTTAA
* *
44558053 TTAAAAACCCTAAACCCTAACCTAATTAAATTAAAAAACTTAACCCTAATTTAATTT-A
1 TTAAAAACCCTAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTAATTTAATTTAA
** * ** *
44558111 TTAAAAACCCT-AACCCTAATTTAATTTAATTAAAAACCCTAAACCCTAACCTAATTAAA
1 TTAAAAACCCTAAACCCTAACCTAATTAAATTAAAAACCCT-AACCCTAATTTAATTTAA
* * ** *
44558170 TTAAAAA-ACTTAACCCTAATTTAATT-TATTAAAAACCCTAACCCTAATTTAATTTAA
1 TTAAAAACCCTAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTAATTTAATTTAA
* ** * *
44558227 TTAAAAACCCTAAACTCTAACCTAATTTTATTAAAAATCCTAACCCTAATTTAATTTTA
1 TTAAAAACCCTAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTAATTTAATTTAA
* ** * * *** *
44558286 TTAAAAA-CCTTAACCCTAATTTAATTTAATTAAAAGCCCTAACCCTAACCCATTTTAA
1 TTAAAAACCCTAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTAATTTAATTTAA
44558344 TTAAAAACCCTAA
1 TTAAAAACCCTAA
44558357 CCATTAACAA
Statistics
Matches: 520, Mismatches: 57, Indels: 42
0.84 0.09 0.07
Matches are distributed among these distances:
53 8 0.02
57 77 0.15
58 116 0.22
59 246 0.47
60 62 0.12
61 3 0.01
65 8 0.02
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (59 bp):
TTAAAAACCCTAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTAATTTAATTTAA
Found at i:44557906 original size:35 final size:35
Alignment explanation
Indices: 44557851--44557977 Score: 132
Period size: 30 Copynumber: 3.9 Consensus size: 35
44557841 ATTAAATTAA
44557851 AAACCCTAACCCTAATTTAATTTAATTAAAAACCCT
1 AAACCCTAACCCTAA-TTAATTTAATTAAAAACCCT
*
44557887 AAACCCTAA-CC----TAATTTAATTAAAAACCTT
1 AAACCCTAACCCTAATTAATTTAATTAAAAACCCT
*
44557917 AAACCATAA-CCTAATT-A---AATTAAAAACCCT
1 AAACCCTAACCCTAATTAATTTAATTAAAAACCCT
*
44557947 -AACCCTAACCCTAATTTAATTTTATTAAAAA
1 AAACCCTAACCCTAA-TTAATTTAATTAAAAA
44557978 AACCCTAACC
Statistics
Matches: 76, Mismatches: 5, Indels: 21
0.75 0.05 0.21
Matches are distributed among these distances:
29 7 0.09
30 45 0.59
31 2 0.03
32 1 0.01
33 1 0.01
34 1 0.01
35 10 0.13
36 9 0.12
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (35 bp):
AAACCCTAACCCTAATTAATTTAATTAAAAACCCT
Found at i:44558082 original size:87 final size:87
Alignment explanation
Indices: 44557701--44558350 Score: 848
Period size: 87 Copynumber: 7.4 Consensus size: 87
44557691 TATAATTTGT
* *
44557701 TTAAAAACCC--AACCCTAACCTAATTAAATTAAAAACCCTAACCCTAATTTAATTTAATTAAAA
1 TTAAAAACCCTAAACCCTAACCTAATTAAATTAAAAAACTTAACCCTAATTTAATTT-ATTAAAA
* ** *
44557764 ATCCTAAACCCTAACCTAATTAAA
65 ACCCT-AACCCTAATTTAATTTAA
** * * * ** *
44557788 TTAAAAACCCT-AACCCTAATTTAATTTAATTAAAAATCCTAAACCCTAACCTAATTAAATTAAA
1 TTAAAAACCCTAAACCCTAACCTAATTAAATTAAAAA-ACTTAACCCTAATTTAATT-TATTAAA
44557852 AACCCTAACCCTAATTTAATTTAA
64 AACCCTAACCCTAATTTAATTTAA
* * * ** *
44557876 TTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCTTAAACCATAACCTAATTAAATTAAA
1 TTAAAAACCCTAAACCCTAACCTAATTAAATTAAAAAACTT-AACCCTAATTTAATT-TATTAAA
**
44557941 AACCCTAACCCTAACCCTAATTTAA
64 AACCCTAACCCTAA-TTTAATTTAA
44557966 TTTTATTAAAA----AAACCCTAACCTAATTAAATTAAAAAACTTAACCCTAATTTAATTTATTA
1 --TTA--AAAACCCTAAACCCTAACCTAATTAAATTAAAAAACTTAACCCTAATTTAATTTATTA
44558027 AAAACCCTAACCCTAATTTAATTTAA
62 AAAACCCTAACCCTAATTTAATTTAA
44558053 TTAAAAACCCTAAACCCTAACCTAATTAAATTAAAAAACTTAACCCTAATTTAATTTATTAAAAA
1 TTAAAAACCCTAAACCCTAACCTAATTAAATTAAAAAACTTAACCCTAATTTAATTTATTAAAAA
44558118 CCCTAACCCTAATTTAATTTAA
66 CCCTAACCCTAATTTAATTTAA
44558140 TTAAAAACCCTAAACCCTAACCTAATTAAATTAAAAAACTTAACCCTAATTTAATTTATTAAAAA
1 TTAAAAACCCTAAACCCTAACCTAATTAAATTAAAAAACTTAACCCTAATTTAATTTATTAAAAA
44558205 CCCTAACCCTAATTTAATTTAA
66 CCCTAACCCTAATTTAATTTAA
* ** * *
44558227 TTAAAAACCCTAAACTCTAACCTAATTTTATTAAAAATCCTAACCCTAATTTAATTTTATTAAAA
1 TTAAAAACCCTAAACCCTAACCTAATTAAATTAAAAAACTTAACCCTAATTTAA-TTTATTAAAA
*
44558292 ACCTTAACCCTAATTTAATTTAA
65 ACCCTAACCCTAATTTAATTTAA
* * * *
44558315 TTAAAAGCCCT-AACCCTAACCCATTTTAATTAAAAA
1 TTAAAAACCCTAAACCCTAACCTAATTAAATTAAAAA
44558351 CCCTAACCAT
Statistics
Matches: 511, Mismatches: 37, Indels: 30
0.88 0.06 0.05
Matches are distributed among these distances:
83 4 0.01
85 3 0.01
87 251 0.49
88 113 0.22
89 97 0.19
90 36 0.07
92 3 0.01
94 4 0.01
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.32
Consensus pattern (87 bp):
TTAAAAACCCTAAACCCTAACCTAATTAAATTAAAAAACTTAACCCTAATTTAATTTATTAAAAA
CCCTAACCCTAATTTAATTTAA
Found at i:44558460 original size:21 final size:22
Alignment explanation
Indices: 44558434--44558478 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
44558424 ATGTTTTGAC
44558434 TGGTACTAACA-TTTAAGAAAT
1 TGGTACTAACATTTTAAGAAAT
*
44558455 TGGTACTAACATTTTACGAAAT
1 TGGTACTAACATTTTAAGAAAT
44558477 TG
1 TG
44558479 TAGTAATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (22 bp):
TGGTACTAACATTTTAAGAAAT
Found at i:44571491 original size:24 final size:24
Alignment explanation
Indices: 44571464--44571510 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
44571454 TTCAGAATAA
44571464 CATAGTTTAATTTTAATAAAAATT
1 CATAGTTTAATTTTAATAAAAATT
44571488 CATAGTTTAATTTTAATAAAAAT
1 CATAGTTTAATTTTAATAAAAAT
44571511 ATCTAGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (24 bp):
CATAGTTTAATTTTAATAAAAATT
Found at i:44572204 original size:11 final size:11
Alignment explanation
Indices: 44572190--44572216 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
44572180 AAAATAAAAA
44572190 TAAAAGTATTT
1 TAAAAGTATTT
44572201 TAAAAGTATTT
1 TAAAAGTATTT
44572212 TAAAA
1 TAAAA
44572217 TTAAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (11 bp):
TAAAAGTATTT
Found at i:44580413 original size:16 final size:16
Alignment explanation
Indices: 44580394--44580425 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
44580384 AACTTTATCA
44580394 ACATCATTCTTTTCAT
1 ACATCATTCTTTTCAT
44580410 ACATCATTCTTTTCAT
1 ACATCATTCTTTTCAT
44580426 CCATGCGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (16 bp):
ACATCATTCTTTTCAT
Found at i:44585871 original size:23 final size:23
Alignment explanation
Indices: 44585845--44585895 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
44585835 ATCAAATTTT
* *
44585845 GAGTTAA-TCGATTCAAGTTATTC
1 GAGTTAACTCGAAT-AAGTAATTC
*
44585868 GAGTCAACTCGAATAAGTAATTC
1 GAGTTAACTCGAATAAGTAATTC
44585891 GAGTT
1 GAGTT
44585896 TTGAGTTCGA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (23 bp):
GAGTTAACTCGAATAAGTAATTC
Found at i:44586089 original size:20 final size:19
Alignment explanation
Indices: 44586053--44586092 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
44586043 AATTTATATT
*
44586053 TTTAAAAAAATTATAAAAA
1 TTTAAAAAAAATATAAAAA
*
44586072 TTTAAAAATAAATCTAAAAA
1 TTTAAAAA-AAATATAAAAA
44586092 T
1 T
44586093 AAATAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
TTTAAAAAAAATATAAAAA
Found at i:44593166 original size:52 final size:50
Alignment explanation
Indices: 44593089--44593216 Score: 145
Period size: 51 Copynumber: 2.5 Consensus size: 50
44593079 TTTTTCTCGT
*
44593089 ATTAATTTAAATTAATTAAGAGATAAATATTAAA-AATTTATATTATCATTA
1 ATTAA-TTAAATTAATTAAGAGATAAATATCAAATAA-TTATATTATCATTA
* * * * *
44593140 ATTAAAATTAAAATAATTAAGTGAT-AATATCAAATGATTATTTTATCTTTA
1 ATT--AATTAAATTAATTAAGAGATAAATATCAAATAATTATATTATCATTA
44593191 ATTAATTAAATTAA-TAAGAGATAAAT
1 ATTAATTAAATTAATTAAGAGATAAAT
44593217 GAAAAACAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
48 7 0.11
49 13 0.20
51 26 0.40
52 17 0.26
53 2 0.03
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.41
Consensus pattern (50 bp):
ATTAATTAAATTAATTAAGAGATAAATATCAAATAATTATATTATCATTA
Found at i:44610540 original size:8 final size:8
Alignment explanation
Indices: 44610522--44610560 Score: 69
Period size: 8 Copynumber: 4.8 Consensus size: 8
44610512 ACAGAATAAA
44610522 AAAAGTTAT
1 AAAA-TTAT
44610531 AAAATTAT
1 AAAATTAT
44610539 AAAATTAT
1 AAAATTAT
44610547 AAAATTAT
1 AAAATTAT
44610555 AAAATT
1 AAAATT
44610561 TTATTATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 26 0.87
9 4 0.13
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (8 bp):
AAAATTAT
Found at i:44612169 original size:24 final size:24
Alignment explanation
Indices: 44612140--44612201 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
44612130 GAATTCAGAT
*
44612140 GAGGATGGTATTGACGGTTCTAAG
1 GAGGATGGAATTGACGGTTCTAAG
*
44612164 GAGGATGGCATTGACGGTTCTAAG
1 GAGGATGGAATTGACGGTTCTAAG
44612188 GAGGATGGAATTGA
1 GAGGATGGAATTGA
44612202 TAGAACTGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.27, C:0.08, G:0.39, T:0.26
Consensus pattern (24 bp):
GAGGATGGAATTGACGGTTCTAAG
Found at i:44616948 original size:36 final size:36
Alignment explanation
Indices: 44616900--44616973 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
44616890 CATATAGCAG
* *
44616900 TTCTACCAAGTATGCTATTATCAATGATGGGGGAAA
1 TTCTACCAAGTATGCTATAATCAATAATGGGGGAAA
*
44616936 TTCTACCTAGTATGCTATAATCAATAATGGGGGAAA
1 TTCTACCAAGTATGCTATAATCAATAATGGGGGAAA
44616972 TT
1 TT
44616974 TTTTGTTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (36 bp):
TTCTACCAAGTATGCTATAATCAATAATGGGGGAAA
Done.