Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1006
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: 154985
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 2
Found at i:1002 original size:21 final size:21
Alignment explanation
Indices: 969--1013 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
959 TTGCAAGTTG
*
969 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
991 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1011 AAA
1 AAA
1014 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:4944 original size:13 final size:13
Alignment explanation
Indices: 4926--4951 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4916 ACATTTTTCT
4926 TTGTATCGATACA
1 TTGTATCGATACA
4939 TTGTATCGATACA
1 TTGTATCGATACA
4952 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:7502 original size:13 final size:13
Alignment explanation
Indices: 7484--7509 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7474 TACAGCAAGT
7484 ATGTATCGATACA
1 ATGTATCGATACA
7497 ATGTATCGATACA
1 ATGTATCGATACA
7510 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:18100 original size:20 final size:20
Alignment explanation
Indices: 18053--18110 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
18043 AGTGCCAAAA
*
18053 AAATAAAAAACAAATAAAG--
1 AAATAAAAACCAAA-AAAGTC
18072 AAA-AAAAACCAAAAAAGTC
1 AAATAAAAACCAAAAAAGTC
*
18091 AAATAAAAACC-TAAAAGTC
1 AAATAAAAACCAAAAAAGTC
18110 A
1 A
18111 TCTGATTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 4 0.12
18 9 0.26
19 14 0.41
20 7 0.21
ACGTcount: A:0.72, C:0.12, G:0.05, T:0.10
Consensus pattern (20 bp):
AAATAAAAACCAAAAAAGTC
Found at i:19883 original size:66 final size:66
Alignment explanation
Indices: 19730--19889 Score: 171
Period size: 66 Copynumber: 2.4 Consensus size: 66
19720 GTCCTATTTG
* * * *
19730 TATGATTTCATCTCGACCAACCCCTTTTTGACTTAGGTTTTGCCCTGATCACCCTTTCTTAGTTT
1 TATGGTTTCATCTCGACCAACCCTTTTTTGACTTAGGTTTTGCCCTGATCACCATTTCTTAGTTC
19795 A
66 A
* * ** * * * * *
19796 TATGGTCTCAT-TGTGTTCAACCTTTTTTTGACTTAGGTTTTGCCTTGGA-GACCATTTGTTTGT
1 TATGGTTTCATCT-CGACCAACCCTTTTTTGACTTAGGTTTTGCCCT-GATCACCATTTCTTAGT
19859 TCA
64 TCA
19862 TATGGTTTCATCTCGACCAACCCTTTTT
1 TATGGTTTCATCTCGACCAACCCTTTTT
19890 CAATTTAGGT
Statistics
Matches: 73, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
65 1 0.01
66 69 0.95
67 3 0.04
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.45
Consensus pattern (66 bp):
TATGGTTTCATCTCGACCAACCCTTTTTTGACTTAGGTTTTGCCCTGATCACCATTTCTTAGTTC
A
Found at i:19996 original size:66 final size:66
Alignment explanation
Indices: 19926--20098 Score: 177
Period size: 66 Copynumber: 2.6 Consensus size: 66
19916 TTGTTGGCTT
* * * * * * *
19926 ATATGGTTTTGTCCTGGCTAACCTCTTTTCAACTTAAGTTCCATCTTAGTCACCCTTTGTTGGTC
1 ATATGGTTTTGTCCTAGCCAACCCCTTTTCAACTTAAGTTCCACCCTAGTCACCCGTTATTGGTC
19991 C
66 C
** * * * *
19992 ATATGGTTTCATCCTAGCCACCCCCTTTTCAACTTAGGTTTCGCCCTAGTCACCCGTTATTGGTC
1 ATATGGTTTTGTCCTAGCCAACCCCTTTTCAACTTAAGTTCCACCCTAGTCACCCGTTATTGGTC
20057 C
66 C
* * * *
20058 GTATTGTTTTGT-CTCAACCAACCCCTTTTCAACTTAGGTTC
1 ATATGGTTTTGTCCT-AGCCAACCCCTTTTCAACTTAAGTTC
20099 TGCCTTGTAG
Statistics
Matches: 86, Mismatches: 20, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
65 2 0.02
66 84 0.98
ACGTcount: A:0.17, C:0.29, G:0.14, T:0.39
Consensus pattern (66 bp):
ATATGGTTTTGTCCTAGCCAACCCCTTTTCAACTTAAGTTCCACCCTAGTCACCCGTTATTGGTC
C
Found at i:21032 original size:167 final size:168
Alignment explanation
Indices: 20790--21130 Score: 497
Period size: 168 Copynumber: 2.0 Consensus size: 168
20780 TTTTTTCTGG
* * * * *
20790 TTTTTTTAATATTCATCAAATTTTATTATTTATTTCATATTAACCAGTTTTCAAAAATTCATTCA
1 TTTTTTTAATAATCATCAAATATTATTATTTATTTCACATTAACCACTTTACAAAAATTCATTCA
* * **
20855 TTTTCATTAGTTTTTGAA-TTTTTCCTTGAAATTTTCCTGTTTTCGAAATATGGAGTTTTCTACT
66 TTTTCATTAGTTTTTGAATTTTTTCCTTAAAATTCTCCTGTTTTCGAAATACAGAGTTTTCTACT
* * * * *
20919 CCGTAATTTTTTTCGGGGGGATTTTTCTTGGTTTTTAT
131 CCGTAAATTTTTTCGAGGAGATTTTTCTTAGTTTTTAA
* *
20957 TTTTTTTAA-AATCATCAAATATTATTATTTATTTCACATTAAATCACTTTACAAAAATTCTTTC
1 TTTTTTTAATAATCATCAAATATTATTATTTATTTCACATT-AACCACTTTACAAAAATTCATTC
* *
21021 ATTTTCATTAGTTTTTGAATTTTTTCCTTAAAATTCTCGTGTTTTTGAAATACAGAGTTTTCTAC
65 ATTTTCATTAGTTTTTGAATTTTTTCCTTAAAATTCTCCTGTTTTCGAAATACAGAGTTTTCTAC
21086 TCCGTAAATTTTTTCGAGGAGATTTTTCTTAGTTTTTAA
130 TCCGTAAATTTTTTCGAGGAGATTTTTCTTAGTTTTTAA
21125 TTTTTT
1 TTTTTT
21131 AAATTTATTA
Statistics
Matches: 154, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
166 28 0.18
167 47 0.31
168 79 0.51
ACGTcount: A:0.26, C:0.12, G:0.09, T:0.53
Consensus pattern (168 bp):
TTTTTTTAATAATCATCAAATATTATTATTTATTTCACATTAACCACTTTACAAAAATTCATTCA
TTTTCATTAGTTTTTGAATTTTTTCCTTAAAATTCTCCTGTTTTCGAAATACAGAGTTTTCTACT
CCGTAAATTTTTTCGAGGAGATTTTTCTTAGTTTTTAA
Found at i:21269 original size:142 final size:143
Alignment explanation
Indices: 20994--21276 Score: 306
Period size: 142 Copynumber: 2.0 Consensus size: 143
20984 TTTATTTCAC
* * *
20994 ATTAAATCACTTTACAAAAATTCTTTCATTTTCATTAGTTTTTGAATTTTTTCCTTAAAATTCTC
1 ATTAAATCACTTTACAAAAATTCATTCATATTCATGAGTTTTTGAATTTTTTCCTTAAAATTCTC
* * * * * **
21059 GTGTTTTTGAAATACAGAGTTTTCTACTCCGTAAATTTTTTCGAGGAGATTTTTCTTAGTTTTTA
66 GTGTTTTTAAAAAACAGAGTTTTCTACTCCATAAATATTTTCGAGGAGATTTTTCTTAGTCTAAA
*
21124 ATTTTTTAAATTT
131 ATTTTTAAAATTT
* * * * *
21137 ATTAAATTAGTTTTCAAAAATTCATTCATATTCATGAG-TTTTGGATTTTTTCTTTAAAA-TCT-
1 ATTAAATCACTTTACAAAAATTCATTCATATTCATGAGTTTTTGAATTTTTTCCTTAAAATTCTC
* * * * *
21199 TTTTTTTTCCAAAAAACTGAGTTTTCTATTCCATAAATATTTTCGAGG-GCA-TTTTCTTTGGTC
66 GTGTTTTT--AAAAAACAGAGTTTTCTACTCCATAAATATTTTCGAGGAG-ATTTTTC-TTAGTC
21262 TAAAATTTTTAAAAT
127 TAAAATTTTTAAAAT
21277 GTTTCTAATA
Statistics
Matches: 115, Mismatches: 21, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
140 6 0.05
141 9 0.08
142 68 0.59
143 32 0.28
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (143 bp):
ATTAAATCACTTTACAAAAATTCATTCATATTCATGAGTTTTTGAATTTTTTCCTTAAAATTCTC
GTGTTTTTAAAAAACAGAGTTTTCTACTCCATAAATATTTTCGAGGAGATTTTTCTTAGTCTAAA
ATTTTTAAAATTT
Found at i:21518 original size:16 final size:17
Alignment explanation
Indices: 21497--21531 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
21487 GTTTTTTAAA
*
21497 TTTATTTTATTTA-TTT
1 TTTATTTAATTTAGTTT
21513 TTTATTTAATTTAGTTT
1 TTTATTTAATTTAGTTT
21530 TT
1 TT
21532 GTAGCCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (17 bp):
TTTATTTAATTTAGTTT
Found at i:21839 original size:9 final size:9
Alignment explanation
Indices: 21825--21874 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 9
21815 GTTCAGCTGA
21825 AAAAAAAAG
1 AAAAAAAAG
21834 -AAAAAAAG
1 AAAAAAAAG
* *
21842 -AGAGAAAG
1 AAAAAAAAG
*
21850 AAAAGAAAG
1 AAAAAAAAG
21859 AAAAAAAAG
1 AAAAAAAAG
*
21868 AAGAAAA
1 AAAAAAA
21875 TAGGGTGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
8 14 0.40
9 21 0.60
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:21853 original size:13 final size:11
Alignment explanation
Indices: 21823--21874 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 11
21813 AAGTTCAGCT
21823 GAAAAAAA-AA
1 GAAAAAAAGAA
21833 GAAAAAAAGAGA
1 GAAAAAAAGA-A
21845 GAAAGAAAAGAAA
1 GAAA-AAAAG-AA
21858 GAAAAAAAAGAA
1 G-AAAAAAAGAA
21870 GAAAA
1 GAAAA
21875 TAGGGTGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
10 8 0.22
11 5 0.14
12 8 0.22
13 12 0.32
14 4 0.11
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
GAAAAAAAGAA
Found at i:21858 original size:25 final size:25
Alignment explanation
Indices: 21825--21873 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
21815 GTTCAGCTGA
21825 AAAAAAAAG-AAAAAAAGAGAGAAAG
1 AAAAAAAAGAAAAAAAAGA-AGAAAG
*
21850 AAAAGAAAGAAAAAAAAGAAGAAA
1 AAAAAAAAGAAAAAAAAGAAGAAA
21874 ATAGGGTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (25 bp):
AAAAAAAAGAAAAAAAAGAAGAAAG
Found at i:21871 original size:21 final size:21
Alignment explanation
Indices: 21829--21874 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
21819 AGCTGAAAAA
* *
21829 AAAAGAAAAAAAGAGAGAAAG
1 AAAAGAAAAAAAAAAAGAAAG
21850 AAAAGAAAGAAAAAAAAG-AAG
1 AAAAGAAA-AAAAAAAAGAAAG
21871 AAAA
1 AAAA
21875 TAGGGTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (21 bp):
AAAAGAAAAAAAAAAAGAAAG
Found at i:23246 original size:138 final size:138
Alignment explanation
Indices: 22991--23347 Score: 493
Period size: 138 Copynumber: 2.6 Consensus size: 138
22981 TTTTCTAATC
* * * *
22991 TTTT-ATATTCCTATGGGCATCCTTAGGGGTATTAAAAGAT-TTCAAAACTTCTCGTATCTTTTC
1 TTTTAATATTCCTATGGGCATCCGTAGGGGTAAT-AAAG-TCTTAAAAACTTTTCGTATCTTTTC
* *
23054 GGGCTTCCGTTAAGGTATGAGATGAATTTTAAAATAGATAATAATAAAGATTTTTTTTACATTAG
64 GGGCTTCCGTTGAGGTACGAGATGAATTTTAAAATAGATAATAATAAAGATTTTTTTTACATTAG
23119 TAATTAAGGA
129 TAATTAAGGA
*
23129 TTTTAATATTCCTATGAGCATCCGTAGGGGTAATAAAGTCTTAAAAACTTTTCGTATCTTTTCGG
1 TTTTAATATTCCTATGGGCATCCGTAGGGGTAATAAAGTCTTAAAAACTTTTCGTATCTTTTCGG
* *** *
23194 GCTTCTGTTGAGGTACGAGATGAATTTTAAAATAGATAATAATAATTTTTTTTTTTACATTTGTA
66 GCTTCCGTTGAGGTACGAGATGAATTTTAAAATAGATAATAATAAAGATTTTTTTTACATTAGTA
23259 ATTAAGGA
131 ATTAAGGA
* *** * * * *
23267 TTTTAATATTCCTATGGGCATTCGTAGAATTAATAAAGTCCTAAAAATTTTTCATATCTTTTTGG
1 TTTTAATATTCCTATGGGCATCCGTAGGGGTAATAAAGTCTTAAAAACTTTTCGTATCTTTTCGG
*
23332 GCTTCCATTGAGGTAC
66 GCTTCCGTTGAGGTAC
23348 AAAATGATTT
Statistics
Matches: 194, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
137 1 0.01
138 167 0.86
139 26 0.13
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.41
Consensus pattern (138 bp):
TTTTAATATTCCTATGGGCATCCGTAGGGGTAATAAAGTCTTAAAAACTTTTCGTATCTTTTCGG
GCTTCCGTTGAGGTACGAGATGAATTTTAAAATAGATAATAATAAAGATTTTTTTTACATTAGTA
ATTAAGGA
Found at i:23919 original size:153 final size:152
Alignment explanation
Indices: 23629--24032 Score: 427
Period size: 153 Copynumber: 2.6 Consensus size: 152
23619 GCTGAAGGTA
*
23629 GATATTTAGGATAGGTTCATCCCATCTATTATCCTTTTTTAAGTCCTTTAGGGGTATCGGGTACT
1 GATATTTAGGATAGGTTCAT-CCATCTA-AAT-CTTTTTTAAGTCCTTTAGGGGTATCGGGTACT
* * * * *
23694 TTTATGTCGAAGGTATCCCTTAGGGGCATTCTTGTAATTTTATAAAATCAACTTCTAGGCTATAA
63 TTTATGTCAAAGGTATCCCCTAGGGGCATTTTTGTAATTTTATAAAACCAACTTCTAGACTATAA
** * *
23759 TTGGGTCCGTTTTGATGCCAAAAGT
128 TCAGGTCCGCTTTAATGCCAAAAGT
* * * * * *
23784 GGATATTTAGGATAGGTTCATGCATCTAAATCGTTTTTAGGTGCTTTAGGTGTATCGGGTACTTC
1 -GATATTTAGGATAGGTTCATCCATCTAAATCTTTTTTAAGTCCTTTAGGGGTATCGGGTACTTT
* * * * * *
23849 TATGTCAAAGGTATCCCCTAGGGGTATTTTTGTAATTTTTTAAAACCAA-GTCTTAGATTGTCAT
65 TATGTCAAAGGTATCCCCTAGGGGCATTTTTGTAATTTTATAAAACCAACTTC-TAGACTATAAT
* * *
23913 CAGGTCCGCTTTAATGTCGAAGGT
129 CAGGTCCGCTTTAATGCCAAAAGT
* * *
23937 GAGTATTTCA-GATAGGTTCATCCTTTTTAAAAT-TTTTTTAAGTCCTTTAGGGGTATCAGGTAC
1 GA-TATTT-AGGATAGGTTCATCC-ATCT-AAATCTTTTTTAAGTCCTTTAGGGGTATCGGGTAC
* * *
24000 TTTTACGTCACAGGTATCCTCTAGGGGCATTTT
62 TTTTATGTCAAAGGTATCCCCTAGGGGCATTTT
24033 CATTTTTTTT
Statistics
Matches: 205, Mismatches: 38, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
152 4 0.02
153 113 0.55
154 58 0.28
155 10 0.05
156 20 0.10
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (152 bp):
GATATTTAGGATAGGTTCATCCATCTAAATCTTTTTTAAGTCCTTTAGGGGTATCGGGTACTTTT
ATGTCAAAGGTATCCCCTAGGGGCATTTTTGTAATTTTATAAAACCAACTTCTAGACTATAATCA
GGTCCGCTTTAATGCCAAAAGT
Found at i:25338 original size:66 final size:66
Alignment explanation
Indices: 25185--25361 Score: 200
Period size: 65 Copynumber: 2.7 Consensus size: 66
25175 CGTAATGACA
25185 TGCCTTAGTCACCCTTTGTTGGTT-TGTATGGTTTCATCCTAGCCAAACATTTTTCACCTTAGGT
1 TGCCTTAGTCACCCTTTGTTGGTTCT-TATGGTTTCATCCTAGCCAAACATTTTTCACCTTAGGT
*
25249 TT
65 TC
* * * * * * *
25251 TG-CTTGGTCACCTTTTGTTGGTTCTTATGGTTTCAT-CTTGACTAAGTCCTTTTTGA-CTTAGG
1 TGCCTTAGTCACCCTTTGTTGGTTCTTATGGTTTCATCCTAG-CCAA-ACATTTTTCACCTTAGG
25313 TTC
64 TTC
* * *
25316 TGCCCTAGTCACCCTTTGTTGGTTCTTATAGTTTTATCCTAGCCAA
1 TGCCTTAGTCACCCTTTGTTGGTTCTTATGGTTTCATCCTAGCCAA
25362 CCCCTTTTTT
Statistics
Matches: 91, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
64 3 0.03
65 43 0.47
66 42 0.46
67 3 0.03
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (66 bp):
TGCCTTAGTCACCCTTTGTTGGTTCTTATGGTTTCATCCTAGCCAAACATTTTTCACCTTAGGTT
C
Found at i:25368 original size:66 final size:66
Alignment explanation
Indices: 25185--25370 Score: 200
Period size: 66 Copynumber: 2.8 Consensus size: 66
25175 CGTAATGACA
*
25185 TGCCTTAGTCACCCTTTGTTGGTT-TGTATGGTTTCATCCTAGCCAAACATTTTTCACCTTAGGT
1 TGCCTTAGTCACCCTTTGTTGGTTCT-TATGGTTTCATCCTAGCCAAACCTTTTTCACCTTAGGT
*
25249 TT
65 TC
* * * * * *
25251 TG-CTTGGTCACCTTTTGTTGGTTCTTATGGTTTCAT-CTTGACTAAGTCCTTTTTGA-CTTAGG
1 TGCCTTAGTCACCCTTTGTTGGTTCTTATGGTTTCATCCTAG-CCAA-ACCTTTTTCACCTTAGG
25313 TTC
64 TTC
* * * *
25316 TGCCCTAGTCACCCTTTGTTGGTTCTTATAGTTTTATCCTAGCCAACCCCTTTTT
1 TGCCTTAGTCACCCTTTGTTGGTTCTTATGGTTTCATCCTAGCCAA-ACCTTTTT
25371 TACTCAAGTT
Statistics
Matches: 98, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
64 3 0.03
65 43 0.44
66 49 0.50
67 3 0.03
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.46
Consensus pattern (66 bp):
TGCCTTAGTCACCCTTTGTTGGTTCTTATGGTTTCATCCTAGCCAAACCTTTTTCACCTTAGGTT
C
Found at i:27583 original size:28 final size:29
Alignment explanation
Indices: 27552--27612 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 29
27542 TTTTAATCTT
* * *
27552 TTTAGGGTCTTTTTAT-AATTTTAAAAAG
1 TTTAGGGTCTGTTTATAAATATTAAAAAA
27580 TTTAGGGTCTGTTTATAAATATTAAAAAA
1 TTTAGGGTCTGTTTATAAATATTAAAAAA
27609 TTTA
1 TTTA
27613 TTCCAAAGCC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 15 0.52
29 14 0.48
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.48
Consensus pattern (29 bp):
TTTAGGGTCTGTTTATAAATATTAAAAAA
Found at i:28398 original size:20 final size:20
Alignment explanation
Indices: 28323--28399 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
28313 AACATTTTAG
*
28323 ATGTATCAATACATTTTTCA
1 ATGTATCAATACATTCTTCA
* *
28343 ATGTATCAATACATGT-ATGA
1 ATGTATCAATACAT-TCTTCA
* *
28363 CTGTATCGATACATTCTTCA
1 ATGTATCAATACATTCTTCA
*
28383 ATGTATCGATACATTCT
1 ATGTATCAATACATTCT
28400 GTCTTTTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.40
Consensus pattern (20 bp):
ATGTATCAATACATTCTTCA
Found at i:38653 original size:17 final size:16
Alignment explanation
Indices: 38631--38694 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 16
38621 CCTTCATACC
38631 CAAAAACAAAAAAAAGA
1 CAAAAACAAAAAAAA-A
38648 CAAAAAACCAAAAAAATAA
1 C-AAAAA-CAAAAAAA-AA
* *
38667 -AAAAACCAAGAAAAA
1 CAAAAACAAAAAAAAA
*
38682 -AATAACAAAAAAA
1 CAAAAACAAAAAAA
38695 CCGAAAGGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
15 12 0.31
16 6 0.15
17 6 0.15
18 5 0.13
19 9 0.23
20 1 0.03
ACGTcount: A:0.81, C:0.12, G:0.03, T:0.03
Consensus pattern (16 bp):
CAAAAACAAAAAAAAA
Found at i:40009 original size:32 final size:31
Alignment explanation
Indices: 39914--40418 Score: 410
Period size: 32 Copynumber: 16.8 Consensus size: 31
39904 CGTTCATCTC
* * *
39914 TTCAAAG-CC-CATAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACACAAGTCGGTGGCACTCAT
**
39942 TTCAAAG-CC-CACAAGTCAATGGCA-TCAT
1 TTCAAAGCCCACACAAGTCGGTGGCACTCAT
*
39970 TTCAAAGCCTACACAAGTCGGTGGCAACTCAT
1 TTCAAAGCCCACACAAGTCGGTGGC-ACTCAT
* *
40002 TTGAAAG-CCACACAAGTCAGTGGCA-TCAT
1 TTCAAAGCCCACACAAGTCGGTGGCACTCAT
*
40031 TTCAAAGCCCACACAAGTCGATGGCAACTCAT
1 TTCAAAGCCCACACAAGTCGGTGGC-ACTCAT
* *
40063 TTGAAAGCCCACACAAGTTGGTGGCAAC-CTAT
1 TTCAAAGCCCACACAAGTCGGTGGC-ACTC-AT
* * * *
40095 TTCAAAGCCCAAACAGGTTGGTGGCAACCCAT
1 TTCAAAGCCCACACAAGTCGGTGGC-ACTCAT
* *
40127 TTCAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAGCCCACACAAGTCGGTGGC-ACTCAT
* * *
40159 TTCAAAGCCCATACAAGTCAGTGGCACT-GT
1 TTCAAAGCCCACACAAGTCGGTGGCACTCAT
* *
40189 TTCAAAG-CC-CACAAGTTGGTGGCA-TCTT
1 TTCAAAGCCCACACAAGTCGGTGGCACTCAT
* *
40217 TTCAAAG-CC-CACAAGTCGGCGGCA-TCTT
1 TTCAAAGCCCACACAAGTCGGTGGCACTCAT
* *
40245 TTCAAAGCCCACA-AA-TCTGTGGCA-TCTT
1 TTCAAAGCCCACACAAGTCGGTGGCACTCAT
* * *
40273 TTCAAAG-CC-CACAAGTCAGTGGCATTCTT
1 TTCAAAGCCCACACAAGTCGGTGGCACTCAT
** **
40302 TTCAAAG-CC-CACAAGTTAGTGGCACTGTT
1 TTCAAAGCCCACACAAGTCGGTGGCACTCAT
* *
40331 TTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACACAAGTCGGTGGC-ACTCAT
** * *
40363 TTCAAAGCCCACACAAGTTAGCGGCAC-CTT
1 TTCAAAGCCCACACAAGTCGGTGGCACTCAT
* *
40393 TTAAAAGCCCACGCAAGTCGGTGGCA
1 TTCAAAGCCCACACAAGTCGGTGGCA
40419 ACCTTTTTCA
Statistics
Matches: 408, Mismatches: 50, Indels: 36
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.00
27 5 0.01
28 103 0.25
29 54 0.13
30 64 0.16
31 33 0.08
32 146 0.36
33 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (31 bp):
TTCAAAGCCCACACAAGTCGGTGGCACTCAT
Found at i:40122 original size:64 final size:63
Alignment explanation
Indices: 39941--40420 Score: 452
Period size: 64 Copynumber: 8.0 Consensus size: 63
39931 AGTGGCACCC
* * * *
39941 TTTCAAAG-CC-CACAAGTCAATGGCATC-ATTTCAAAGCCTACACAAGTCGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTTAGTGGCACCTATTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * * *
40001 TTTGAAAG-CCACACAAGTCAGTGGCATC-ATTTCAAAGCCCACACAAGTCGATGGCAACTCA
1 TTTCAAAGCCCACACAAGTTAGTGGCACCTATTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * * * * *
40062 TTTGAAAGCCCACACAAGTTGGTGGCAACCTATTTCAAAGCCCAAACAGGTTGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTTAGTGGC-ACCTATTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * * * *
40126 TTTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCATACAAGTCAGTGGC-ACT-G
1 TTTCAAAGCCCACACAAGTTAGTGGC-ACCTATTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * * *
40188 TTTCAAAG-CC-CACAAGTTGGTGGCATCT-TTTCAAAG-CC-CACAAGTCGGCGGC-A-TCT
1 TTTCAAAGCCCACACAAGTTAGTGGCACCTATTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * * *
40244 TTTCAAAGCCCACA-AA-TCT-GTGGCATCT-TTTCAAAG-CC-CACAAGTCAGTGGC-ATTCT
1 TTTCAAAGCCCACACAAGT-TAGTGGCACCTATTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * *
40301 TTTCAAAG-CC-CACAAGTTAGTGGCA-CTGTTTTCAAAGCCCACACGAGTCGGTGGCAACTCT
1 TTTCAAAGCCCACACAAGTTAGTGGCACCT-ATTTCAAAGCCCACACAAGTCGGTGGCAACTCA
* * *
40362 TTTCAAAGCCCACACAAGTTAGCGGCACCT-TTTAAAAGCCCACGCAAGTCGGTGGCAAC
1 TTTCAAAGCCCACACAAGTTAGTGGCACCTATTTCAAAGCCCACACAAGTCGGTGGCAAC
40421 CTTTTTCAAA
Statistics
Matches: 365, Mismatches: 35, Indels: 38
0.83 0.08 0.09
Matches are distributed among these distances:
55 3 0.01
56 60 0.16
57 25 0.07
58 18 0.05
59 4 0.01
60 35 0.10
61 69 0.19
62 51 0.14
63 18 0.05
64 82 0.22
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (63 bp):
TTTCAAAGCCCACACAAGTTAGTGGCACCTATTTCAAAGCCCACACAAGTCGGTGGCAACTCA
Found at i:40547 original size:49 final size:49
Alignment explanation
Indices: 40485--40615 Score: 217
Period size: 49 Copynumber: 2.7 Consensus size: 49
40475 CCTTTATTAG
*
40485 CCCAATGTCGCTGGCCTTAAATCAGCACATTGGTCCACTTTTCCCTTAA
1 CCCAATGTCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAA
* *
40534 CCCAATGTTGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAG
1 CCCAATGTCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAA
* *
40583 CCCAATGTCGCAGGCCTTGAATTAGCACATTGG
1 CCCAATGTCGCTGGCCTTGAATCAGCACATTGG
40616 CACTCCTCTT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 76 1.00
ACGTcount: A:0.21, C:0.31, G:0.18, T:0.30
Consensus pattern (49 bp):
CCCAATGTCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAA
Found at i:41205 original size:20 final size:20
Alignment explanation
Indices: 41153--41218 Score: 80
Period size: 20 Copynumber: 3.3 Consensus size: 20
41143 GGCAGAGGAT
41153 CATTCTTCAATGTATTGATA
1 CATTCTTCAATGTATTGATA
* ** *
41173 CATGT-ATGGATGTATCGATA
1 CAT-TCTTCAATGTATTGATA
41193 CATTCTTCAATGTATTGATA
1 CATTCTTCAATGTATTGATA
41213 CATTCT
1 CATTCT
41219 ATCTTTTTTC
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 1 0.03
20 34 0.94
21 1 0.03
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (20 bp):
CATTCTTCAATGTATTGATA
Found at i:41261 original size:20 final size:20
Alignment explanation
Indices: 41236--41398 Score: 112
Period size: 20 Copynumber: 7.6 Consensus size: 20
41226 TTCCCTGATA
*
41236 TATCGATATATTTTTCAATG
1 TATCGATACATTTTTCAATG
* *
41256 TATCGATACATGTAT-AACTG
1 TATCGATACATTTTTCAA-TG
* *
41276 TATCGATGCATTCTTCAATG
1 TATCGATACATTTTTCAATG
*
41296 TATTGATACATTCTATCTTTTTACCCAAATG
1 TATCGAT--A--C-A--TTTTT---C-AATG
41327 TATCGATACATTTTTCAATG
1 TATCGATACATTTTTCAATG
* * * *
41347 TATCGATACATGTATGACTG
1 TATCGATACATTTTTCAATG
*
41367 TATCGATACATTCTTCAATG
1 TATCGATACATTTTTCAATG
41387 TATCGATACATT
1 TATCGATACATT
41399 CTATCTTTTT
Statistics
Matches: 110, Mismatches: 20, Indels: 26
0.71 0.13 0.17
Matches are distributed among these distances:
19 2 0.02
20 80 0.73
21 3 0.03
24 6 0.05
25 1 0.01
26 1 0.01
27 5 0.05
29 1 0.01
30 1 0.01
31 10 0.09
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.42
Consensus pattern (20 bp):
TATCGATACATTTTTCAATG
Found at i:41313 original size:91 final size:91
Alignment explanation
Indices: 41158--41442 Score: 464
Period size: 91 Copynumber: 3.1 Consensus size: 91
41148 AGGATCATTC
*
41158 TTCAATGTATTGATACATGTATGGA-TGTATCGATACATTCTTCAATGTATTGATACATTCTATC
1 TTCAATGTATCGATACATGTAT-GACTGTATCGATACATTCTTCAATGTATTGATACATTCTATC
*
41222 TTTTTTCCCTGATATATCGATATATTT
65 TTTTTTCCCAGATATATCGATATATTT
* *
41249 TTCAATGTATCGATACATGTATAACTGTATCGATGCATTCTTCAATGTATTGATACATTCTATCT
1 TTCAATGTATCGATACATGTATGACTGTATCGATACATTCTTCAATGTATTGATACATTCTATCT
* * * *
41314 TTTTACCCAAATGTATCGATACATTT
66 TTTTTCCCAGATATATCGATATATTT
*
41340 TTCAATGTATCGATACATGTATGACTGTATCGATACATTCTTCAATGTATCGATACATTCTATCT
1 TTCAATGTATCGATACATGTATGACTGTATCGATACATTCTTCAATGTATTGATACATTCTATC-
41405 TTTTTTCCCAGATATATCGATATATTT
65 TTTTTTCCCAGATATATCGATATATTT
41432 TTCAATGTATC
1 TTCAATGTATC
41443 TAGTTAAAAT
Statistics
Matches: 177, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
90 1 0.01
91 142 0.80
92 34 0.19
ACGTcount: A:0.28, C:0.16, G:0.11, T:0.44
Consensus pattern (91 bp):
TTCAATGTATCGATACATGTATGACTGTATCGATACATTCTTCAATGTATTGATACATTCTATCT
TTTTTCCCAGATATATCGATATATTT
Found at i:46771 original size:20 final size:19
Alignment explanation
Indices: 46749--46836 Score: 67
Period size: 18 Copynumber: 4.6 Consensus size: 19
46739 GAAGGATGAT
*
46749 AGGAGGAGAGATAGTAGGA
1 AGGAGGAGAGATAATAGGA
46768 TAGGAGG-GATGATAGA-AGGA
1 -AGGAGGAGA-GATA-ATAGGA
* *
46788 GAGATAGGAGAGATAACA-GA
1 -AG-GAGGAGAGATAATAGGA
*
46808 AAGAGGAGAGATAATAGG-
1 AGGAGGAGAGATAATAGGA
46826 AGGAGGAGAGA
1 AGGAGGAGAGA
46837 AAAAGATGGA
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
18 22 0.40
19 4 0.07
20 19 0.35
21 8 0.15
22 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.43, T:0.10
Consensus pattern (19 bp):
AGGAGGAGAGATAATAGGA
Found at i:53863 original size:19 final size:18
Alignment explanation
Indices: 53838--53900 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 18
53828 TTGTATTAAT
53838 ACATTGTATCGATACATG
1 ACATTGTATCGATACATG
53856 ATCATTGTATCGATACATGG
1 A-CATTGTATCGATACAT-G
53876 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
*
53895 AAATTG
1 ACATTG
53901 GCAGTAGCTA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
18 5 0.12
19 19 0.46
20 17 0.41
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.33
Consensus pattern (18 bp):
ACATTGTATCGATACATG
Found at i:53884 original size:20 final size:20
Alignment explanation
Indices: 53839--53894 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
53829 TGTATTAATA
53839 CATTGTATCGATACAT-GAT
1 CATTGTATCGATACATGGAT
53858 CATTGTATCGATACATGGA-
1 CATTGTATCGATACATGGAT
53877 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
53895 AAATTGGCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 17 0.49
20 18 0.51
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (20 bp):
CATTGTATCGATACATGGAT
Found at i:53960 original size:13 final size:13
Alignment explanation
Indices: 53939--53991 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
53929 CAATACATGG
*
53939 TACAATGTATCGA
1 TACATTGTATCGA
53952 TACATTGTATCGA
1 TACATTGTATCGA
53965 TACA-TG-AT-G-
1 TACATTGTATCGA
53974 -A-ATTGTATCGA
1 TACATTGTATCGA
53985 TACATTG
1 TACATTG
53992 CTTGTAACGG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:53968 original size:33 final size:33
Alignment explanation
Indices: 53923--53991 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
53913 TTACCACTGT
*
53923 TTGTATCAATACATGGT-ACAATGTATCGATACA
1 TTGTATCAATACATGATGA-AATGTATCGATACA
* *
53956 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCAATACATGATGAAATGTATCGATACA
53989 TTG
1 TTG
53992 CTTGTAACGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.36
Consensus pattern (33 bp):
TTGTATCAATACATGATGAAATGTATCGATACA
Found at i:59825 original size:132 final size:132
Alignment explanation
Indices: 59629--59866 Score: 333
Period size: 133 Copynumber: 1.8 Consensus size: 132
59619 AGTGTTCTGA
59629 AAGTAAAAAGGGGTCGGAGTATCCTTCAAAAATGGCGAGGTTGGAGTATCCCCTGAAATGAAAAA
1 AAGTAAAAAGGGGTCGGAGTATCCTTCAAAAATGGCGAGGTTGGAGTATCCCCTGAAATGAAAAA
* **
59694 AATT-GATTTTTGGAAAATGAAAACGGGGTTGGAGTATCCCCTGAGATGAAGATTTTGATGTTTT
66 AATTCAATTTTTGGAAAATGAAAACAAGGTTGGAGTATCCCCTGAGATGAAGATTTTGATGTTTT
59758 AT
131 AT
* * *
59760 AAGTAAAAAGGGGTTGGAGTATTCCCTTGGAAATAAT-G-G-GGTTGGAGTAT-CCTTGAAGATG
1 AAGTAAAAAGGGGTCGGAGTA-T-CCTT-CAAA-AATGGCGAGGTTGGAGTATCCCCTGAA-ATG
*
59821 AAAAAAATTCAATTTTTGGGAAATGAAAACAAGGTTGGAGTATCCC
61 AAAAAAATTCAATTTTTGGAAAATGAAAACAAGGTTGGAGTATCCC
59867 TTCAGAAATT
Statistics
Matches: 94, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
131 26 0.28
132 24 0.26
133 37 0.39
134 4 0.04
135 3 0.03
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.28
Consensus pattern (132 bp):
AAGTAAAAAGGGGTCGGAGTATCCTTCAAAAATGGCGAGGTTGGAGTATCCCCTGAAATGAAAAA
AATTCAATTTTTGGAAAATGAAAACAAGGTTGGAGTATCCCCTGAGATGAAGATTTTGATGTTTT
AT
Found at i:62446 original size:52 final size:51
Alignment explanation
Indices: 62371--62500 Score: 143
Period size: 52 Copynumber: 2.5 Consensus size: 51
62361 AATAGCTTGC
* * *
62371 ATGTATCGATACATTGAAGAATGTATAAATATAATTAGGCCAAAAATCCAGA
1 ATGTATCGATACAAT-AAAAATGTATAAATACAATTAGGCCAAAAATCCAGA
** * * *
62423 ATGTATCGATACAATAAATAATGTATCGATACATTTAGGTCAAAAATCTAGA
1 ATGTATCGATACAATAAA-AATGTATAAATACAATTAGGCCAAAAATCCAGA
**
62475 ATGTATTAATACAATGAAAAATGTAT
1 ATGTATCGATACAAT-AAAAATGTAT
62501 CGATACATGT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
51 2 0.03
52 61 0.92
53 3 0.05
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.30
Consensus pattern (51 bp):
ATGTATCGATACAATAAAAATGTATAAATACAATTAGGCCAAAAATCCAGA
Found at i:62501 original size:52 final size:52
Alignment explanation
Indices: 62405--62508 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 52
62395 ATAAATATAA
*
62405 TTAGGCCAAAAATCCAGAATGTATCGATACAATAAATAATGTATCGATACAT
1 TTAGGCCAAAAATCCAGAATGTATCAATACAATAAATAATGTATCGATACAT
* * *
62457 TTAGGTCAAAAATCTAGAATGTATTAATACAATGAAA-AATGTATCGATACAT
1 TTAGGCCAAAAATCCAGAATGTATCAATACAAT-AAATAATGTATCGATACAT
62509 GTTCTTTCTA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
52 44 0.94
53 3 0.06
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.29
Consensus pattern (52 bp):
TTAGGCCAAAAATCCAGAATGTATCAATACAATAAATAATGTATCGATACAT
Found at i:65409 original size:20 final size:21
Alignment explanation
Indices: 65384--65437 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 21
65374 TTGTTCTTAT
*
65384 TATCGATACAT-GCTTCATTG
1 TATCGATACATGGCCTCATTG
*
65404 TATCGATACTTATGGCCTCTTTG
1 TATCGATAC--ATGGCCTCATTG
65427 TATCGATACAT
1 TATCGATACAT
65438 AATGATATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 9 0.31
21 2 0.07
22 2 0.07
23 16 0.55
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (21 bp):
TATCGATACATGGCCTCATTG
Found at i:66634 original size:25 final size:25
Alignment explanation
Indices: 66600--66647 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
66590 AAGTTCATGC
66600 TGGCTCCAGTAGATGGAGAACAATA
1 TGGCTCCAGTAGATGGAGAACAATA
66625 TGGCTCCAGTAGATGGAGAACAA
1 TGGCTCCAGTAGATGGAGAACAA
66648 CATGAACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (25 bp):
TGGCTCCAGTAGATGGAGAACAATA
Found at i:67810 original size:87 final size:85
Alignment explanation
Indices: 67705--67897 Score: 262
Period size: 86 Copynumber: 2.2 Consensus size: 85
67695 AAATTTTTGA
* * * *
67705 CTTTAGGAAAACTTCATCCCTGCTGTTCCGAGGGGATACTAC-AATCCCACTCTAACAAAAATTC
1 CTTTAGG-AAACTCCATCCCAG-TATTCCGAGGGGATA-TACTAACCCCACTCTAACAAAAATTC
67769 AAATTTACTTTGTGGAATTTTAC
63 AAATTTACTTTGTGGAATTTTAC
* * *
67792 CTTTAAGGAAACTCCATCCCAGTATTCTGAGGGGATATTCTAACCCCGCTCTAACAAAAATTCAA
1 CTTT-AGGAAACTCCATCCCAGTATTCCGAGGGGATATACTAACCCCACTCTAACAAAAATTCAA
67857 ATTTACTTTGTGGAATTTTAC
65 ATTTACTTTGTGGAATTTTAC
*
67878 CTTTGGGGAAACTCCATCCC
1 CTTT-AGGAAACTCCATCCC
67898 CACTCCTCTG
Statistics
Matches: 95, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
85 2 0.02
86 74 0.78
87 16 0.17
88 3 0.03
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (85 bp):
CTTTAGGAAACTCCATCCCAGTATTCCGAGGGGATATACTAACCCCACTCTAACAAAAATTCAAA
TTTACTTTGTGGAATTTTAC
Found at i:68047 original size:65 final size:65
Alignment explanation
Indices: 67912--68056 Score: 168
Period size: 65 Copynumber: 2.2 Consensus size: 65
67902 CCTCTGGGGA
* *
67912 GATACTCCAACCCCATTTTTACACTAAAATTCAATTTATAAAAATTTTAAATTGTTATCTTTGAG
1 GATACTCCAACCCCATTTTTACACTAAAATTCAATTTATAAAAATTATAAATTGTTATCTCTGAG
* * ** * * * *
67977 GATACTCCAACCTCGTTTTTGTACTAAAATTCGATTTATGAAAA-TATCAATTTTTCATCTCT-A
1 GATACTCCAACCCCATTTTTACACTAAAATTCAATTTATAAAAATTATAAATTGTT-ATCTCTGA
68040 G
65 G
68041 GAATACTCCAACCCCA
1 G-ATACTCCAACCCCA
68057 CCATCTTCGA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
64 11 0.17
65 55 0.83
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (65 bp):
GATACTCCAACCCCATTTTTACACTAAAATTCAATTTATAAAAATTATAAATTGTTATCTCTGAG
Found at i:68140 original size:26 final size:28
Alignment explanation
Indices: 68111--68174 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
68101 ACCAAATTTT
*
68111 CCATC-TC-AAAGGATACTCCAACCCCA
1 CCATCTTCGAAAGGACACTCCAACCCCA
* *
68137 CCATCTTCGAGAGGACACTCCAACTCCA
1 CCATCTTCGAAAGGACACTCCAACCCCA
*
68165 -CTTCTTCGAA
1 CCATCTTCGAA
68175 TTTCTTCCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 5 0.16
27 10 0.32
28 16 0.52
ACGTcount: A:0.30, C:0.39, G:0.11, T:0.20
Consensus pattern (28 bp):
CCATCTTCGAAAGGACACTCCAACCCCA
Found at i:68157 original size:28 final size:27
Alignment explanation
Indices: 68120--68173 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
68110 TCCATCTCAA
*
68120 AGGATACTCCAACCCCACCATCTTCGAG
1 AGGACACTCCAACCCCA-CATCTTCGAG
* *
68148 AGGACACTCCAACTCCACTTCTTCGA
1 AGGACACTCCAACCCCACATCTTCGA
68174 ATTTCTTCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.28, C:0.39, G:0.13, T:0.20
Consensus pattern (27 bp):
AGGACACTCCAACCCCACATCTTCGAG
Found at i:70693 original size:10 final size:11
Alignment explanation
Indices: 70674--70699 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
70664 TAATCATGAA
70674 TTTTCTTTTTT
1 TTTTCTTTTTT
70685 TTTTCTTTTTT
1 TTTTCTTTTTT
70696 TTTT
1 TTTT
70700 GTCTTTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:77364 original size:1 final size:1
Alignment explanation
Indices: 77360--77434 Score: 60
Period size: 1 Copynumber: 75.0 Consensus size: 1
77350 AAAAGTGATG
* * * * * * * * *
77360 AAAAAAAAAAAAAAAAACAAACAAAAAAAACACACAAAAAAAAAACAGAAAAACAAAAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
77425 CAAAAAAAAA
1 AAAAAAAAAA
77435 TGCAAAGGCA
Statistics
Matches: 54, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.87, C:0.12, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:77402 original size:31 final size:31
Alignment explanation
Indices: 77362--77434 Score: 110
Period size: 31 Copynumber: 2.3 Consensus size: 31
77352 AAGTGATGAA
* *
77362 AAAAAAAAAAAAAAACAAACAAAAAAAACACAC
1 AAAAAAAAAACAGAA-AAACAAAAAAAA-ACAC
77395 AAAAAAAAAACAGAAAAACAAAAAAAAACAC
1 AAAAAAAAAACAGAAAAACAAAAAAAAACAC
77426 AAAAAAAAA
1 AAAAAAAAA
77435 TGCAAAGGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 13 0.34
32 12 0.32
33 13 0.34
ACGTcount: A:0.86, C:0.12, G:0.01, T:0.00
Consensus pattern (31 bp):
AAAAAAAAAACAGAAAAACAAAAAAAAACAC
Found at i:77440 original size:12 final size:12
Alignment explanation
Indices: 77360--77434 Score: 70
Period size: 12 Copynumber: 6.6 Consensus size: 12
77350 AAAAGTGATG
77360 AAAAAAA-A-AA
1 AAAAAAACACAA
*
77370 AAAAAAACAAACA
1 AAAAAAACACA-A
*
77383 AAAAAAACACAC
1 AAAAAAACACAA
77395 AAAAAAA-A-AA
1 AAAAAAACACAA
* *
77405 CAGAAAA-ACAA
1 AAAAAAACACAA
77416 AAAAAAACACAA
1 AAAAAAACACAA
77428 AAAAAAA
1 AAAAAAA
77435 TGCAAAGGCA
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
10 14 0.26
11 9 0.17
12 19 0.36
13 11 0.21
ACGTcount: A:0.87, C:0.12, G:0.01, T:0.00
Consensus pattern (12 bp):
AAAAAAACACAA
Found at i:77695 original size:17 final size:17
Alignment explanation
Indices: 77674--77705 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
77664 TCTTTTCCAA
77674 AAAAAAG-AAACAAAAC
1 AAAAAAGAAAACAAAAC
77690 AAAAAAGAAAACAAAA
1 AAAAAAGAAAACAAAA
77706 GAGGAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.84, C:0.09, G:0.06, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAACAAAAC
Found at i:78732 original size:62 final size:63
Alignment explanation
Indices: 78666--78838 Score: 237
Period size: 62 Copynumber: 2.8 Consensus size: 63
78656 ATAAAAAAAA
*
78666 TCCACGACTCAGTGGCAAT-CTCTTC-TCAAAGTCCACGACTCAGTGGCAATCTCTG-CTCAAAG
1 TCCACGACTCAGTGGC-ATCCTTTTCTTCAAAGTCCACGACTCAGTGGCAAT-TCTGTCTCAAAG
* *
78728 TCCACGACGCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGC-ATTTTGTCTCAAAG
1 TCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGCAATTCTGTCTCAAAG
* * * *
78790 TCCACGACTTAGTGGCATCCTTTTCTTCAAAGCCCACAACTCCGTGGCA
1 TCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGCA
78839 CCTTTTTCTT
Statistics
Matches: 99, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
61 5 0.05
62 72 0.73
63 22 0.22
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.27
Consensus pattern (63 bp):
TCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGCAATTCTGTCTCAAAG
Found at i:78763 original size:32 final size:30
Alignment explanation
Indices: 78666--78844 Score: 207
Period size: 31 Copynumber: 5.8 Consensus size: 30
78656 ATAAAAAAAA
*
78666 TCCACGACTCAGTGGCAATCTCTTCTCAAAG
1 TCCACGACTCAGTGGC-ATCTTTTCTCAAAG
* *
78697 TCCACGACTCAGTGGCAATCTCTGCTCAAAG
1 TCCACGACTCAGTGGC-ATCTTTTCTCAAAG
*
78728 TCCACGACGCAGTGGCATCCTTTTCTTCAAAG
1 TCCACGACTCAGTGGCAT-CTTTTC-TCAAAG
78760 TCCACGACTCAGTGGCAT-TTTGTCTCAAAG
1 TCCACGACTCAGTGGCATCTTT-TCTCAAAG
*
78790 TCCACGACTTAGTGGCATCCTTTTCTTCAAAG
1 TCCACGACTCAGTGGCAT-CTTTTC-TCAAAG
* * * *
78822 CCCACAACTCCGTGGCACCTTTT
1 TCCACGACTCAGTGGCATCTTTT
78845 TCTTTTTAAA
Statistics
Matches: 131, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
30 28 0.21
31 58 0.44
32 45 0.34
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (30 bp):
TCCACGACTCAGTGGCATCTTTTCTCAAAG
Found at i:78861 original size:34 final size:34
Alignment explanation
Indices: 78818--79354 Score: 457
Period size: 33 Copynumber: 15.9 Consensus size: 34
78808 CCTTTTCTTC
78818 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
78852 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTT
*
78889 AAAGCCCACAACTCCGTGGCACTTTTTTC-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
78922 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTT
* * * **
78958 -AAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCT
1 AAAGCCCACAACTCCGTGGCACCTTT-T-TCTTTTT
* * * *
78993 AAAGCCCACACAAGTCGGTGGCAACCTTCTTCTTTTC
1 AAAG-CC-CACAACTCCGTGGC-ACCTTTTTCTTTTT
* *
79030 AAAGCCCACAAATCCGTGGCACCTTCTTC-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
** *
79063 AAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTC
1 AAAGCCCACAACTCCGTGGCAC-C-TTTTT-CTTTTT
79100 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* **** *
79133 AAAGCCCACAACTCTGTGGCACCTACGACTTTGT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * ** *
79167 ---G-GCAC-TCT-C-TTTC-CC--TTT-TTA--
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
**
79188 -AAGCCCACAACTCCGTGGCACCTTTTTCCGTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
79221 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTT
*
79258 AAAGCCCACAACTCCGTGGCACTTTTTTC-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
79291 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTT
* *
79327 -AAGTCCACAACTCCGTGGCATCTTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTC
79355 CTTCCCAAAG
Statistics
Matches: 407, Mismatches: 60, Indels: 73
0.75 0.11 0.14
Matches are distributed among these distances:
23 3 0.01
24 3 0.01
25 2 0.00
26 3 0.01
27 4 0.01
28 2 0.00
29 2 0.00
30 6 0.01
31 1 0.00
33 100 0.25
34 79 0.19
35 77 0.19
36 25 0.06
37 83 0.20
38 13 0.03
39 4 0.01
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.33
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
Found at i:78916 original size:71 final size:70
Alignment explanation
Indices: 78815--79354 Score: 635
Period size: 70 Copynumber: 7.5 Consensus size: 70
78805 CATCCTTTTC
78815 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTC-TTTTAAAGCCCACAACTCCGTGGCACTCTTTT
78880 TCCCTT
65 TCCCTT
*
78886 TTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
78951 CCCTT
66 CCCTT
* * * * * *
78956 TT--AAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAAC-
1 TTCAAAGCCCACAACTCCGTGGCACCTTT-T-TCTT-TTAAAG-CC-CACAACTCCGTGGC-ACT
*
79018 CTTCTT--CTT
60 CTTTTTCCCTT
* * **
79027 TTCAAAGCCCACAAATCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
*
79092 TCCTT
66 CCCTT
*
79097 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCTACGAC
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA-CT----C
*
79162 TTTGTGGCACTCTCT
61 TTT-T-TC-C-CT-T
*
79177 TTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCA
1 TT--C-----AAAGCCCACAACTCCGTGGCACCTTTTT-CTTTTAAAGCCCACAACTCCGTGGCA
79242 CTCTTTTTCCCTT
58 CTCTTTTTCCCTT
*
79255 TTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
79320 CCCTT
66 CCCTT
* *
79325 TT--AAGTCCACAACTCCGTGGCATCTTTTTC
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTC
79355 CTTCCCAAAG
Statistics
Matches: 408, Mismatches: 32, Indels: 61
0.81 0.06 0.12
Matches are distributed among these distances:
67 2 0.00
68 63 0.15
69 3 0.01
70 145 0.36
71 73 0.18
72 3 0.01
73 38 0.09
74 2 0.00
75 4 0.01
76 2 0.00
78 4 0.01
79 4 0.01
80 4 0.01
81 1 0.00
82 2 0.00
83 4 0.01
87 30 0.07
88 24 0.06
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.33
Consensus pattern (70 bp):
TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
CCCTT
Found at i:79311 original size:158 final size:157
Alignment explanation
Indices: 79024--79312 Score: 488
Period size: 158 Copynumber: 1.8 Consensus size: 157
79014 CAACCTTCTT
* **
79024 CTTTTCAAAGCCCACAAATCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTT
1 CTTTTCAAAGCCCACAAATCCGTGGCACCTTCTTCGTTTAAAGCCCACAACTCCGTGGCACTCTT
* *
79089 TTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCA
66 TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA
79154 CCTACGACTTTGTGGCACTCTCTTTCC
131 CCTACGACTTTGTGGCACTCTCTTTCC
* * *
79181 CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCT
1 CTTTTCAAAGCCCACAAATCCGTGGCACCTTCTT-CGTTTAAAGCCCACAACTCCGTGGCACTCT
*
79246 TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGC
65 TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGC
79311 AC
130 AC
79313 TCTTTTTCCC
Statistics
Matches: 122, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
157 31 0.25
158 91 0.75
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.33
Consensus pattern (157 bp):
CTTTTCAAAGCCCACAAATCCGTGGCACCTTCTTCGTTTAAAGCCCACAACTCCGTGGCACTCTT
TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA
CCTACGACTTTGTGGCACTCTCTTTCC
Found at i:79367 original size:228 final size:226
Alignment explanation
Indices: 78937--79370 Score: 590
Period size: 228 Copynumber: 1.9 Consensus size: 226
78927 CCACAACTCC
* * *
78937 GTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCTAAAGCCCAC
1 GTGGCACTCTCTTTCCCTTTTAAGCCCACAACTCCGTGGCACCTTTCTCCCTT-CTAAAGCCCAC
* *
79002 ACAAGTCGGTGGCAACCTTCTTCTTTTCAAAGCCCACAAATCCGTGGCACCTTCTTCTTTTAAAG
65 ACAACTCCGTGGCAACCTTCTTCTTTTCAAAGCCCACAAATCCGTGGCACCTTCTTCTTTTAAAG
** * *
79067 CCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
130 CCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCTTC
*
79132 TAAAGCCCACAACTCTGTGGCACCTACGACTTT
194 CAAAGCCCACAACTCTGTGGCACCTACGACTTT
* *
79165 GTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCGTT-TAAAG-CC-
1 GTGGCACTCTCTTTCCC-TTTT-AAGCCCACAACTCCGTGGCACCTTTCTCCCTTCTAAAGCCCA
* * * *
79227 CACAACTCCGTGGC-ACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTT
64 CACAACTCCGTGGCAAC-CTTCTT--CTTTTCAAAGCCCACAAATCCGTGGCACCTTCTTCTTTT
* *
79291 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCATCTTTTTC
126 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTT-
79355 CTTCCCAAAGCCCACA
190 CTT-CCAAAGCCCACA
79371 CAAGTCGGTG
Statistics
Matches: 181, Mismatches: 18, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
225 2 0.01
226 42 0.23
227 5 0.03
228 100 0.55
229 4 0.02
230 28 0.15
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (226 bp):
GTGGCACTCTCTTTCCCTTTTAAGCCCACAACTCCGTGGCACCTTTCTCCCTTCTAAAGCCCACA
CAACTCCGTGGCAACCTTCTTCTTTTCAAAGCCCACAAATCCGTGGCACCTTCTTCTTTTAAAGC
CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTCCA
AAGCCCACAACTCTGTGGCACCTACGACTTT
Found at i:79370 original size:35 final size:33
Alignment explanation
Indices: 79184--79357 Score: 233
Period size: 34 Copynumber: 5.1 Consensus size: 33
79174 TCTTTCCCTT
*
79184 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCC
1 TTTAAAGCCCACAACTCCGTGGCATCTTTTTCC
79217 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 -TTTAAAGCCCACAACTCCGTGGCA-TCTTTTT-CC
*
79253 TTTTCAAAGCCCACAACTCCGTGGCA-CTTTTTTCT
1 -TTT-AAAGCCCACAACTCCGTGGCATC-TTTTTCC
79288 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTTAAAGCCCACAACTCCGTGGCA-TCTTTTT-CC
* *
79323 TTTTAAGTCCACAACTCCGTGGCATCTTTTTCC
1 TTTAAAGCCCACAACTCCGTGGCATCTTTTTCC
79356 TT
1 TT
79358 CCCAAAGCCC
Statistics
Matches: 127, Mismatches: 6, Indels: 15
0.86 0.04 0.10
Matches are distributed among these distances:
33 25 0.20
34 39 0.31
35 32 0.25
36 10 0.08
37 21 0.17
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.34
Consensus pattern (33 bp):
TTTAAAGCCCACAACTCCGTGGCATCTTTTTCC
Found at i:79391 original size:32 final size:31
Alignment explanation
Indices: 79354--79451 Score: 160
Period size: 32 Copynumber: 3.1 Consensus size: 31
79344 GCATCTTTTT
79354 CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
*
79385 CTCTTCCTAAAGCCCACACAAGTCGGTGGCAA
1 C-CTTCCCAAAGCCCACACAAGTCGGTGGCAA
79417 CCTTCTTCCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTC--CCAAAGCCCACACAAGTCGGTGGCAA
79450 CC
1 CC
79452 CCTCTAAGCC
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
31 5 0.08
32 30 0.48
33 27 0.44
ACGTcount: A:0.28, C:0.38, G:0.18, T:0.16
Consensus pattern (31 bp):
CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
Found at i:79415 original size:104 final size:102
Alignment explanation
Indices: 79186--79402 Score: 271
Period size: 105 Copynumber: 2.1 Consensus size: 102
79176 TTTCCCTTTT
*
79186 TAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TAAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
** * *
79251 CCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTT
66 CCTTCCCAAAGCCCACAACTCCGTGGCAC-TTCTTC-TC
* *
79290 TAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA-TCTTTTT
1 TAAAGCCCACAACTCCGTGGCAC-CTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
* *
79354 -CCTTCCCAAAGCCCACACAAGTCGGTGGCAAC-TCTTC-C
65 CCCTTCCCAAAG-CC-CACAACTCCGTGGC-ACTTCTTCTC
79392 TAAAGCCCACA
1 TAAAGCCCACA
79403 CAAGTCGGTG
Statistics
Matches: 100, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
102 11 0.11
103 9 0.09
104 36 0.36
105 42 0.42
106 2 0.02
ACGTcount: A:0.22, C:0.35, G:0.13, T:0.29
Consensus pattern (102 bp):
TAAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
CCTTCCCAAAGCCCACAACTCCGTGGCACTTCTTCTC
Found at i:79435 original size:33 final size:32
Alignment explanation
Indices: 79359--79451 Score: 161
Period size: 33 Copynumber: 2.9 Consensus size: 32
79349 TTTTTCCTTC
79359 CCAAAGCCCACACAAGTCGGTGGCAA-CTCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
79390 CCTAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 CC-AAAGCCCACACAAGTCGGTGGCAACC-TCTT
79424 CCAAAGCCCACACAAGTCGGTGGCAACC
1 CCAAAGCCCACACAAGTCGGTGGCAACC
79452 CCTCTAAGCC
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
31 2 0.03
32 24 0.41
33 27 0.46
34 6 0.10
ACGTcount: A:0.29, C:0.37, G:0.19, T:0.15
Consensus pattern (32 bp):
CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
Found at i:79574 original size:49 final size:49
Alignment explanation
Indices: 79456--79738 Score: 395
Period size: 49 Copynumber: 5.7 Consensus size: 49
79446 GCAACCCCTC
* *
79456 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
79508 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
79557 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
79609 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
79658 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
79707 TAAGTTCAATGTAGCTGGCTTTGAATCAGCAC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCAC
79739 GTTGACATCC
Statistics
Matches: 208, Mismatches: 20, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
49 121 0.58
50 4 0.02
51 2 0.01
52 81 0.39
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:79636 original size:101 final size:101
Alignment explanation
Indices: 79456--79738 Score: 491
Period size: 101 Copynumber: 2.8 Consensus size: 101
79446 GCAACCCCTC
*
79456 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
79521 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
79557 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
79622 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * *
79658 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTTCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
* *
79720 GCTGGCTTTGAATCAGCAC
66 GCTGGCCTTGACTCAGCAC
79739 GTTGACATCC
Statistics
Matches: 176, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
98 35 0.20
99 3 0.02
101 138 0.78
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (101 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
Found at i:79805 original size:98 final size:93
Alignment explanation
Indices: 79603--79806 Score: 212
Period size: 98 Copynumber: 2.1 Consensus size: 93
79593 GCACCTTTTC
* * *
79603 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACACCTTCATCTTTAAGCCCAAT
* *
79668 ATCGCTGGCCTTGAATCAGCATATTGGCATCTT
66 ATCGCTGGCCATGAATCAACATATTGG-----T
* * * *
79701 CATCTTTAAGTTCAATGTAGCTGGCTTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGG
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACA-CC----T-TCATCTTTAAG
*
79766 CCCAATATCGTTGGCCATGAATCAACATATTGG-
60 CCCAATATCGCTGGCCATGAATCAACATATTGGT
79799 CATCTTTA
1 CATCTTTA
79807 TCACTTTTCT
Statistics
Matches: 90, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
98 48 0.53
99 2 0.02
103 1 0.01
104 39 0.43
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.35
Consensus pattern (93 bp):
CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACACCTTCATCTTTAAGCCCAAT
ATCGCTGGCCATGAATCAACATATTGGT
Found at i:80657 original size:33 final size:33
Alignment explanation
Indices: 80620--80686 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
80610 TTCAACGATT
80620 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
80653 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
80686 T
1 T
80687 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:80658 original size:13 final size:13
Alignment explanation
Indices: 80640--80664 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80630 CATAAAATGT
80640 TGTATCGATACAA
1 TGTATCGATACAA
80653 TGTATCGATACA
1 TGTATCGATACA
80665 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:80747 original size:13 final size:13
Alignment explanation
Indices: 80729--80753 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80719 ATTACTCACA
80729 TGTATCGATACAT
1 TGTATCGATACAT
80742 TGTATCGATACA
1 TGTATCGATACA
80754 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:80818 original size:52 final size:52
Alignment explanation
Indices: 80762--80886 Score: 216
Period size: 52 Copynumber: 2.4 Consensus size: 52
80752 CACTGATCTT
*
80762 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACA-TTTTATAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTA-AA
80814 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
*
80866 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
80887 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
52 66 0.94
53 4 0.06
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:85798 original size:28 final size:28
Alignment explanation
Indices: 85747--85800 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
85737 GTTTAAAAAC
**
85747 GGGGTTGGAGTATCCCCTCGGAATAATG
1 GGGGTTGGAGTATCCCCGAGGAATAATG
*
85775 GGGGTTGGAGTATCCCCGATGAATAA
1 GGGGTTGGAGTATCCCCGAGGAATAA
85801 AATTTGGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.24, C:0.17, G:0.35, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGAGGAATAATG
Found at i:87997 original size:20 final size:20
Alignment explanation
Indices: 87972--88040 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
87962 ATTTGCCTGC
*
87972 ATGTATCGATATATTGAATA
1 ATGTATCGATACATTGAATA
87992 ATG--T--ATACATTGAATA
1 ATGTATCGATACATTGAATA
* *
88008 ATGTATCAATACAATG-ATAA
1 ATGTATCGATACATTGAAT-A
88028 ATGTATCGATACA
1 ATGTATCGATACA
88041 AAACTTATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
16 14 0.34
18 2 0.05
19 2 0.05
20 23 0.56
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:89723 original size:21 final size:20
Alignment explanation
Indices: 89693--89731 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
89683 CACATTTTTG
89693 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
*
89713 TCTAGAATGTATCTATACA
1 TCTA-AATGTATCGATACA
89732 AGGTCCAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:89896 original size:33 final size:33
Alignment explanation
Indices: 89852--89917 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
89842 GCCAAGGAAA
* **
89852 TGTATCGATACATTTTTCAATGTATCGATACAT
1 TGTATCAATACATTGCTCAATGTATCGATACAT
**
89885 TGTATCAATACATTGCTCTTTGTATCGATACAT
1 TGTATCAATACATTGCTCAATGTATCGATACAT
89918 CCGAGAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (33 bp):
TGTATCAATACATTGCTCAATGTATCGATACAT
Found at i:91342 original size:172 final size:172
Alignment explanation
Indices: 91056--91389 Score: 650
Period size: 172 Copynumber: 1.9 Consensus size: 172
91046 CAATCTTGGG
*
91056 GTAAATTTAGTTTTCAGGTCTGGAATCATGATCAAATCAAGTCCAAAACTCTGATTTTTGAACCA
1 GTAAATTTAGTTTTCAGGTCTGGAATCATGATCAAATCAAGTCCAAAACTATGATTTTTGAACCA
91121 AAATGGACTTCCATCATCCTTAAAATATTTATGCTTTGTTTTGTGTCAAACCTTGAGTGGTATTG
66 AAATGGACTTCCATCATCCTTAAAATATTTATGCTTTGTTTTGTGTCAAACCTTGAGTGGTATTG
*
91186 ATCAACGGGCTGTTTCATCATCCCAAACTACTTCGGGATTGT
131 ATCAACGGGATGTTTCATCATCCCAAACTACTTCGGGATTGT
91228 GTAAATTTAGTTTTCAGGTCTGGAATCATGATCAAATCAAGTCCAAAACTATGATTTTTGAACCA
1 GTAAATTTAGTTTTCAGGTCTGGAATCATGATCAAATCAAGTCCAAAACTATGATTTTTGAACCA
91293 AAATGGACTTCCATCATCCTTAAAATATTTATGCTTTGTTTTGTGTCAAACCTTGAGTGGTATTG
66 AAATGGACTTCCATCATCCTTAAAATATTTATGCTTTGTTTTGTGTCAAACCTTGAGTGGTATTG
91358 ATCAACGGGATGTTTCATCATCCCAAACTACT
131 ATCAACGGGATGTTTCATCATCCCAAACTACT
91390 CTGAGATTGT
Statistics
Matches: 160, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
172 160 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (172 bp):
GTAAATTTAGTTTTCAGGTCTGGAATCATGATCAAATCAAGTCCAAAACTATGATTTTTGAACCA
AAATGGACTTCCATCATCCTTAAAATATTTATGCTTTGTTTTGTGTCAAACCTTGAGTGGTATTG
ATCAACGGGATGTTTCATCATCCCAAACTACTTCGGGATTGT
Found at i:97124 original size:17 final size:18
Alignment explanation
Indices: 97086--97125 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
97076 CCTCAAAAGT
97086 ACAAACACAACAAAGAAA
1 ACAAACACAACAAAGAAA
97104 ACAACACACAA-AAA-AAA
1 ACAA-ACACAACAAAGAAA
97121 ACAAA
1 ACAAA
97126 AGAAGTGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 1 0.05
17 7 0.33
18 7 0.33
19 6 0.29
ACGTcount: A:0.75, C:0.23, G:0.03, T:0.00
Consensus pattern (18 bp):
ACAAACACAACAAAGAAA
Found at i:97470 original size:14 final size:12
Alignment explanation
Indices: 97448--97492 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
97438 TAATCTTGGT
97448 AAAAAAAACAACA
1 AAAAAAAACAA-A
97461 AAACAAAAACAAA
1 AAA-AAAAACAAA
97474 AAAAAAATA-AAA
1 AAAAAAA-ACAAA
97486 AAAAAAA
1 AAAAAAA
97493 GGAGAGGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 14 0.47
13 8 0.27
14 8 0.27
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.02
Consensus pattern (12 bp):
AAAAAAAACAAA
Found at i:97490 original size:11 final size:11
Alignment explanation
Indices: 97448--97491 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
97438 TAATCTTGGT
97448 AAAAAAAACAAC
1 AAAAAAAA-AAC
*
97460 AAAACAAAAAC
1 AAAAAAAAAAC
*
97471 AAAAAAAAAAT
1 AAAAAAAAAAC
97482 AAAAAAAAAA
1 AAAAAAAAAA
97492 AGGAGAGGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 22 0.76
12 7 0.24
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.02
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:98549 original size:34 final size:33
Alignment explanation
Indices: 98447--99360 Score: 687
Period size: 34 Copynumber: 28.9 Consensus size: 33
98437 CTCTCTTCCC
* * * * *
98447 AAAGTCCACGACTCAGTGCCATC-TTTT-CTTC
1 AAAGTCCACAACTCTGTGGCACCTTTTTCCTTT
98478 AAAGTCCACAACTCTGTGGCA-C-----CCTTT
1 AAAGTCCACAACTCTGTGGCACCTTTTTCCTTT
* * * *
98505 TAAGTCCACAACTCTATGGCACCTTTTTCCCATC
1 AAAGTCCACAACTCTGTGGCACCTTTTT-CCTTT
98539 AAAGTCCACAACTCTGTGGCA-C-----CCTTT
1 AAAGTCCACAACTCTGTGGCACCTTTTTCCTTT
* *
98566 TAAGTCCACAACTCTGTGGCACCTTTTTCCCTTC
1 AAAGTCCACAACTCTGTGGCACCTTTTT-CCTTT
* *
98600 AAAGTGCACAACTCTATGGCA-C-----CCTTT
1 AAAGTCCACAACTCTGTGGCACCTTTTTCCTTT
* * *
98627 TAAGTTCGCAACTCTGTGGCACCTTTTTCCCTTT
1 AAAGTCCACAACTCTGTGGCACCTTTTT-CCTTT
* *
98661 AAAGCCCACAACTCTGTGGCACCTTTTTCCCTTC
1 AAAGTCCACAACTCTGTGGCACCTTTTT-CCTTT
98695 AAAGTCCACAACTCTGTGGCACCTTTTTCCCTTT
1 AAAGTCCACAACTCTGTGGCACCTTTTT-CCTTT
98729 AAAGTCCACAACTCTGTGGCA-C-----CCTTT
1 AAAGTCCACAACTCTGTGGCACCTTTTTCCTTT
* *
98756 TAAGTCCACAACTGTGTGGCACCTTTTTCCCTTT
1 AAAGTCCACAACTCTGTGGCACCTTTTT-CCTTT
* * *
98790 AAAGCCCACAACTCTATGGCACTCTTTTTTCTTT
1 AAAGTCCACAACTCTGTGGCAC-CTTTTTCCTTT
* * *
98824 TAAGTCCACAACTCCGTGGCACCTTGTTCCTTT
1 AAAGTCCACAACTCTGTGGCACCTTTTTCCTTT
* * *
98857 TAAGTCCACAACTCCGTGGCATCTTTTTCCTTT
1 AAAGTCCACAACTCTGTGGCACCTTTTTCCTTT
* *
98890 TAAGTCCACAACTCTGTGGCACCTTGTTCCTTT
1 AAAGTCCACAACTCTGTGGCACCTTTTTCCTTT
*
98923 TAAGTCCACAACTCTGTGGCA------TCCTTT
1 AAAGTCCACAACTCTGTGGCACCTTTTTCCTTT
* ** *
98950 TAAG-CCTACAACTCCATGGCATTCTTTTTCCTTT
1 AAAGTCC-ACAACTCTGTGGCA-CCTTTTTCCTTT
* * *
98984 TAAGTCCACAACTCCGTGGCACCTTGTTCCTTT
1 AAAGTCCACAACTCTGTGGCACCTTTTTCCTTT
*
99017 TAAGTCCACAACTCTGTGGCA------TCCTTT
1 AAAGTCCACAACTCTGTGGCACCTTTTTCCTTT
* *
99044 TAAG-CCGACAACTCCGTGGCACTCTTTTTCCTTT
1 AAAGTCC-ACAACTCTGTGGCAC-CTTTTTCCTTT
* * **
99078 TAAGTCCATAACTCCATGGCA-C-TTTTCCTTTT
1 AAAGTCCACAACTCTGTGGCACCTTTTTCC-TTT
* *
99110 AAAGCCCACAACT-TCATGGCACACTTTTTCCTTT
1 AAAGTCCACAACTCT-GTGGCAC-CTTTTTCCTTT
* *
99144 TAAGTCCACAACTCTGTGGTA-C-----CCTTT
1 AAAGTCCACAACTCTGTGGCACCTTTTTCCTTT
* * *
99171 TAAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGTCCACAACTCTGTGGCACCTTTTTC-CTTT
* *
99205 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTT
1 AAAGTCCACAACTCTGTGGCAC-CTTTTTCCTTT
* *
99239 TAAGTCCACAACTCTGTGGCATCTTTTTCCTTT
1 AAAGTCCACAACTCTGTGGCACCTTTTTCCTTT
* * *
99272 TAAGTGCACAACTCTATGGCA------TCCTTT
1 AAAGTCCACAACTCTGTGGCACCTTTTTCCTTT
* * *
99299 TAAGTCCACAACTCTGTGGCATCTTTCTCCTTT
1 AAAGTCCACAACTCTGTGGCACCTTTTTCCTTT
* * * * *
99332 TAAGCCCACAAGTCAGTGGCACCCTTTTC
1 AAAGTCCACAACTCTGTGGCACCTTTTTC
99361 AAAAGCCCAC
Statistics
Matches: 731, Mismatches: 84, Indels: 134
0.77 0.09 0.14
Matches are distributed among these distances:
26 4 0.01
27 184 0.25
28 5 0.01
30 1 0.00
31 24 0.03
32 21 0.03
33 184 0.25
34 284 0.39
35 24 0.03
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (33 bp):
AAAGTCCACAACTCTGTGGCACCTTTTTCCTTT
Found at i:98549 original size:61 final size:61
Alignment explanation
Indices: 98478--99044 Score: 620
Period size: 61 Copynumber: 8.9 Consensus size: 61
98468 TCTTTTCTTC
* * *
98478 AAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCTATGGCACCTTTTTCCCATC
1 AAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCCTTT
*
98539 AAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCCTTC
1 AAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCCTTT
* * * *
98600 AAAGTGCACAACTCTATGGCACCCTTTTAAGTTCGCAACTCTGTGGCACCTTTTTCCCTTT
1 AAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCCTTT
* *
98661 AAAGCCCACAACTCTGTGGCACCTTTTTCCCTTCAAAGTCCACAACTCTGTGGCACCTTTTTCCC
1 AAAGTCCACAACTCTGTGGCACC--CTT---TT--AAGTCCACAACTCTGTGGCACCTTTTTCCC
98726 TTT
59 TTT
*
98729 AAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTGTGTGGCACCTTTTTCCCTTT
1 AAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCCTTT
* * * *
98790 AAAGCCCACAACTCTATGGCACTCTTTTTTCTTTTAAGTCCACAACTCCGTGGCACCTTGTT-CC
1 AAAGTCCACAACTCTGTGGCAC-C------CTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCC
98854 TTT
59 TTT
* * *
98857 TAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTGTT-CCT
1 AAAGTCCACAACTCTGTGGCA-C-----CCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCCT
98921 TT
60 TT
* * ** *
98923 TAAGTCCACAACTCTGTGGCATCCTTTTAAG-CCTACAACTCCATGGCATTCTTTTT-CCTTT
1 AAAGTCCACAACTCTGTGGCACCCTTTTAAGTCC-ACAACTCTGTGGCA-CCTTTTTCCCTTT
* *
98984 TAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
1 AAAGTCCACAACTCTGTGGCA-C-----CCTTTTAAGTCCACAACTCTGTGGCA-CCTTTT
99045 AAGCCGACAA
Statistics
Matches: 441, Mismatches: 37, Indels: 50
0.84 0.07 0.09
Matches are distributed among these distances:
59 2 0.00
60 21 0.05
61 217 0.49
62 1 0.00
63 4 0.01
66 60 0.14
67 49 0.11
68 85 0.19
72 2 0.00
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (61 bp):
AAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCCTTT
Found at i:98622 original size:95 final size:93
Alignment explanation
Indices: 98479--99299 Score: 698
Period size: 95 Copynumber: 8.6 Consensus size: 93
98469 CTTTTCTTCA
*
98479 AAGTCCACAACTCTGTGGCA-C-----CCTTTTAAGTCCACAACTCTATGGCACCTTTTTCCCAT
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTATGGCACCTTTTT-CCTT
*
98538 CAAAGTCCACAACTCTGTGGCACCCTTTT
65 TAAAGTCCACAACTCTGTGGCACCCTTTT
** *
98567 AAGTCCACAACTCTGTGGCACCTTTTTCCCTTCAAAGTGCACAACTCTATGGCA-C-----CCTT
1 AAGTCCACAACTCTGTGGCACCTTTTT-CCTTTTAAGTCCACAACTCTATGGCACCTTTTTCCTT
* * * *
98626 TTAAGTTCGCAACTCTGTGGCACCTTTTTCCCTTTA
65 TAAAGTCCACAACTCTGTGGCA-------CCCTTTT
* ** *
98662 AAGCCCACAACTCTGTGGCACCTTTTTCCCTTCAAAGTCCACAACTCTGTGGCACCTTTTTCCCT
1 AAGTCCACAACTCTGTGGCACCTTTTT-CCTTTTAAGTCCACAACTCTATGGCACCTTTTT-CCT
98727 TTAAAGTCCACAACTCTGTGGCACCCTTTT
64 TTAAAGTCCACAACTCTGTGGCACCCTTTT
* * * *
98757 AAGTCCACAACTGTGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCTATGGCACTCTTTTTTCT
1 AAGTCCACAACTCTGTGGCACCTTTTT-CCTTTTAAGTCCACAACTCTATGGCAC-CTTTTTCCT
* *
98822 TTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
64 TTAAAGTCCACAACTCTGTGGCA-C-----CCTTTT
* * * *
98858 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTGTTCCTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTATGGCACCTTTTTCCTTT
* *
98923 TAAGTCCACAACTCTGTGGCATCCTTTT
66 AAAGTCCACAACTCTGTGGCACCCTTTT
** * ** *
98951 AAG-CCTACAACTCCATGGCATTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCT
1 AAGTCC-ACAACTCTGTGGCA-CCTTTTTCCTTTTAAGTCCACAACTCTATGGCACCTTTTTCCT
* *
99015 TTTAAGTCCACAACTCTGTGGCATCCTTTT
64 TTAAAGTCCACAACTCTGTGGCACCCTTTT
* * *
99045 AAG-CCGACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCATAACTCCATGGCA-C-TTTTCCT
1 AAGTCC-ACAACTCTGTGGCAC-CTTTTTCCTTTTAAGTCCACAACTCTATGGCACCTTTTTCC-
* *
99107 TTTAAAGCCCACAACTTCATG-GCACACTTTTTCCTTTT
63 TTTAAAGTCCACAAC-TC-TGTG-GCAC-----CCTTTT
* ** *
99145 AAGTCCACAACTCTGTGGTA-C-----CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTATGGCACCTTTTTC-CTT
* *
99204 TAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
65 TAAAGTCCACAACTCTGTGGCA--C-----CCTTTT
* *
99240 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTTAAGTGCACAACTCTATGGCATCCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTATGGCA-CCTTTT
99300 AAGTCCACAA
Statistics
Matches: 622, Mismatches: 57, Indels: 94
0.80 0.07 0.12
Matches are distributed among these distances:
88 41 0.07
89 1 0.00
92 7 0.01
93 63 0.10
94 128 0.21
95 214 0.34
96 9 0.01
98 1 0.00
99 29 0.05
100 45 0.07
101 55 0.09
102 29 0.05
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (93 bp):
AAGTCCACAACTCTGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTATGGCACCTTTTTCCTTT
AAAGTCCACAACTCTGTGGCACCCTTTT
Found at i:98781 original size:26 final size:27
Alignment explanation
Indices: 98723--99319 Score: 165
Period size: 33 Copynumber: 19.0 Consensus size: 27
98713 GCACCTTTTT
*
98723 CCCTTTAAAGTCCACAACTCTGTGGCA
1 CCCTTTTAAGTCCACAACTCTGTGGCA
*
98750 CCCTTTTAAGTCCACAACTGTGTGGCA
1 CCCTTTTAAGTCCACAACTCTGTGGCA
* * *
98777 CCTTTTTCCCTTTAAAGCCCACAACTCTATGGCA
1 -------CCCTTTTAAGTCCACAACTCTGTGGCA
*
98811 CTCTTTTTTCTTTTAAGTCCACAACTCCGTGGCA
1 C-C------CTTTTAAGTCCACAACTCTGTGGCA
*
98845 CCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA
1 -C-----CCTTTTAAGTCCACAACTCTGTGGCA
98878 TCTTTTTCCTTTTAAGTCCACAACTCTGTGGCA
1 -C-----CCTTTTAAGTCCACAACTCTGTGGCA
98911 CCTTGTTCCTTTTAAGTCCACAACTCTGTGGCA
1 -C-----CCTTTTAAGTCCACAACTCTGTGGCA
* **
98944 TCCTTTTAAG-CCTACAACTCCATGGCA
1 CCCTTTTAAGTCC-ACAACTCTGTGGCA
*
98971 TTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
1 --C-----CCTTTTAAGTCCACAACTCTGTGGCA
99005 CCTTGTTCCTTTTAAGTCCACAACTCTGTGGCA
1 -C-----CCTTTTAAGTCCACAACTCTGTGGCA
* *
99038 TCCTTTTAAG-CCGACAACTCCGTGGCA
1 CCCTTTTAAGTCC-ACAACTCTGTGGCA
* **
99065 CTCTTTTTCCTTTTAAGTCCATAACTCCATGGCA
1 --C-----CCTTTTAAGTCCACAACTCTGTGGCA
* *
99099 CTTTTCCTTTTAAAGCCCACAACTTCATG-GCACA
1 C----CCTTTT-AAGTCCACAAC-TC-TGTG-GCA
*
99133 CTTTTTCCTTTTAAGTCCACAACTCTGTGGTA
1 C-----CCTTTTAAGTCCACAACTCTGTGGCA
*
99165 CCCTTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCTGTGGCA
* *
99192 CCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCA
1 CC-----C-TTTT-AAGTCCACAACTCTGTGGCA
99226 CTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCA
1 --C-----CCTTTTAAGTCCACAACTCTGTGGCA
* *
99260 TCTTTTTCCTTTTAAGTGCACAACTCTATGGCA
1 -C-----CCTTTTAAGTCCACAACTCTGTGGCA
*
99293 TCCTTTTAAGTCCACAACTCTGTGGCA
1 CCCTTTTAAGTCCACAACTCTGTGGCA
99320 TCTTTCTCCT
Statistics
Matches: 467, Mismatches: 46, Indels: 114
0.74 0.07 0.18
Matches are distributed among these distances:
26 4 0.01
27 119 0.25
28 1 0.00
31 10 0.02
32 15 0.03
33 157 0.34
34 137 0.29
35 19 0.04
36 2 0.00
39 2 0.00
41 1 0.00
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.36
Consensus pattern (27 bp):
CCCTTTTAAGTCCACAACTCTGTGGCA
Found at i:99320 original size:27 final size:27
Alignment explanation
Indices: 99233--99321 Score: 106
Period size: 27 Copynumber: 3.1 Consensus size: 27
99223 GCACTCTTTT
99233 TCCTTTTAAGTCCACAACTCTGTGGCA
1 TCCTTTTAAGTCCACAACTCTGTGGCA
* *
99260 TCTTTTTCCTTTTAAGTGCACAACTCTATGGCA
1 ------TCCTTTTAAGTCCACAACTCTGTGGCA
99293 TCCTTTTAAGTCCACAACTCTGTGGCA
1 TCCTTTTAAGTCCACAACTCTGTGGCA
99320 TC
1 TC
99322 TTTCTCCTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
27 27 0.52
33 25 0.48
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.37
Consensus pattern (27 bp):
TCCTTTTAAGTCCACAACTCTGTGGCA
Found at i:99409 original size:29 final size:30
Alignment explanation
Indices: 99333--99457 Score: 143
Period size: 29 Copynumber: 4.3 Consensus size: 30
99323 TTCTCCTTTT
*
99333 AAGCCCACAAGTCAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCACCCCTTTCAA
*
99363 AAGCCCACAAGTCGGTGGCACCCCTTTC-A
1 AAGCCCACAAGTCAGTGGCACCCCTTTCAA
* *
99392 AAGCCCACAAGTTAGTGGCA-ACC-TTCAA
1 AAGCCCACAAGTCAGTGGCACCCCTTTCAA
* * *
99420 AAGCACACAAGT-TGAT-GCAACCCTTTCAA
1 AAGCCCACAAGTCAG-TGGCACCCCTTTCAA
99449 AAGCCCACA
1 AAGCCCACA
99458 CAAGTTGGTG
Statistics
Matches: 82, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
27 7 0.09
28 17 0.21
29 32 0.39
30 26 0.32
ACGTcount: A:0.33, C:0.33, G:0.17, T:0.18
Consensus pattern (30 bp):
AAGCCCACAAGTCAGTGGCACCCCTTTCAA
Found at i:99461 original size:59 final size:58
Alignment explanation
Indices: 99333--99457 Score: 164
Period size: 57 Copynumber: 2.2 Consensus size: 58
99323 TTCTCCTTTT
* * * * *
99333 AAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCGGTGGCACCCCTTTCA
1 AAGCCCACAAGTTAGTGGCAACC-TTTCAAAAGCACACAAGTCGATGGCAACCCTTTCA
*
99392 AAGCCCACAAGTTAGTGGCAACC-TTCAAAAGCACACAAGTTGAT-GCAACCCTTTCAA
1 AAGCCCACAAGTTAGTGGCAACCTTTCAAAAGCACACAAGTCGATGGCAACCCTTTC-A
99449 AAGCCCACA
1 AAGCCCACA
99458 CAAGTTGGTG
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
56 10 0.17
57 28 0.47
59 21 0.36
ACGTcount: A:0.33, C:0.33, G:0.17, T:0.18
Consensus pattern (58 bp):
AAGCCCACAAGTTAGTGGCAACCTTTCAAAAGCACACAAGTCGATGGCAACCCTTTCA
Found at i:99754 original size:87 final size:87
Alignment explanation
Indices: 99484--100808 Score: 1331
Period size: 87 Copynumber: 15.1 Consensus size: 87
99474 TCTTCTAAGT
* * *
99484 CCAATATCGCTGGCCTTGAATCAGTATATTAGCACCTTATCTTTAAGACCAATGTCGCTGGCCTA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
*
99549 GAATCAACACATTGGCACAAGA
66 GAATCAGCACATTGGCACAAGA
* * *
99571 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTATCTTTAAAACCAATG-CCCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
99635 GAATCAGCACATTGGCACAAGA
66 GAATCAGCACATTGGCACAAGA
* * * *
99657 CTAATATCGCTGACCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAACGTCGTTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
*
99722 GAATAAGCACATTGGCACAAGA
66 GAATCAGCACATTGGCACAAGA
* * *
99744 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
99809 GAATCAGCACATTGGCACAAGA
66 GAATCAGCACATTGGCACAAGA
* * *
99831 CCAATATCGCTAGCCTTAAATCAGCATACTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
* *
99896 GAATCAACATATTGGCACCTTATCATTATGA
66 GAATCAGCACATTGG---C--A-CA--A-GA
* * * *
99927 TCAATGTCGCTGGCCTTGAATCAGCACATTGG---C--A-C---AAGACCAATATCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
* *
99983 GAATCAGTATATTGGCACCTTATCTTTAAGA
66 GAATCAGCACATTGG---C--A-C---AAGA
* * * *
100014 CCAATGTCGTTGGCCTTGAATCAGCACATTGG---C--A-C---AAGACCAATATCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
*
100070 GAATCAGCATATTGGCACCTTATCTTCAAGA
66 GAATCAGCACATTGG---C--A----CAAGA
* * * *
100101 CCAATGTCGTTGGCCTTGAATCAGCACATTGG---C--A-C---AAGACCAATATCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
*
100157 GAATCAGCATATTGGCACCTTGTCTTTAAGA
66 GAATCAGCACATTGGCA------C---AAGA
* * * * * *
100188 CCAATGTCACTGGCCCTGAATCAGCACATTGG---C--A-C---AAGACCAATATCGCTAGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
* * *
100244 AAATCAGCATACTGGCACCTTATCTTTAAGA
66 GAATCAGCACATTGG---C--A-C---AAGA
* * * * *
100275 CCAATGTCGCTGGCCTTGAATCAACATATTGGCACCTTATCATTATGATCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
100340 GAATCAGCACATTGGCACAAGA
66 GAATCAGCACATTGGCACAAGA
* *
100362 CCAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTATCTTTAAGACCAATGTCACTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
100427 GAATCAGCACATTGGCACAAGA
66 GAATCAGCACATTGGCACAAGA
* *
100449 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTCAAGACCAATGTCGTTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
100514 GAATCAGCACATTGGCACAAGA
66 GAATCAGCACATTGGCACAAGA
* * *
100536 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGTCTTTAAGACCAATGTCGCTAGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
* **
100601 GAATCAGCACATTAGCGTAAGA
66 GAATCAGCACATTGGCACAAGA
* * * *
100623 CCAATATCACTAGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
*
100688 GAATCAGCACGTTGGCACAAG-
66 GAATCAGCACATTGGCACAAGA
* * * *
100709 CCTAATATCACTAGCCTTGAATTAGCATATTGGCACCCCTATCTTTAAGACCAATGTCGCTGGCC
1 CC-AATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTATCTTTAAGACCAATGTCGCTGGCC
*
100774 TTGAATCAGCACATTGGCACAAGT
64 TTGAATCAGCACATTGGCACAAGA
100798 CCAATATCGCT
1 CCAATATCGCT
100809 ACCCGCATAT
Statistics
Matches: 1104, Mismatches: 96, Indels: 75
0.87 0.08 0.06
Matches are distributed among these distances:
82 1 0.00
84 4 0.00
86 80 0.07
87 884 0.80
88 57 0.05
89 2 0.00
90 8 0.01
91 2 0.00
92 3 0.00
93 5 0.00
95 1 0.00
96 57 0.05
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
GAATCAGCACATTGGCACAAGA
Found at i:100532 original size:309 final size:309
Alignment explanation
Indices: 99653--100609 Score: 1437
Period size: 309 Copynumber: 3.1 Consensus size: 309
99643 ACATTGGCAC
* * *
99653 AAGACTAATATCGCTGACCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAACGTCGTTGG
1 AAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGTTGG
* *
99718 CCTTGAATAAGCACATTGGCACAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTG
66 CCTTGAATCAGCACATTGGCACAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTA
* *
99783 TCTTTAAGACCAATGTCACTGGCCCTGAATCAGCACATTGGCACAAGACCAATATCGCTAGCCTT
131 TCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACAAGACCAATATCGCTGGCCTT
* * * *
99848 AAATCAGCATACTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAACATATTGGCA
196 GAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG--
* * *
99913 CCTTATCATTATGATCAATGTCGCTGGCCTTGAATCAGCACATTGG---C--A-C---
259 -C--A-CA--A-GACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTT
*
99962 AAGACCAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTATCTTTAAGACCAATGTCGTTGG
1 AAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGTTGG
100027 CCTTGAATCAGCACATTGGCACAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTA
66 CCTTGAATCAGCACATTGGCACAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTA
* **
100092 TCTTCAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACAAGACCAATATCGCTGGCCTT
131 TCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACAAGACCAATATCGCTGGCCTT
* * *
100157 GAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCCTGAATCAGCACATTGGCA
196 GAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* * *
100222 CAAGACCAATATCGCTAGCCTTAAATCAGCATACTGGCACCTTATCTTT
261 CAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTT
* * * * * *
100271 AAGACCAATGTCGCTGGCCTTGAATCAACATATTGGCACCTTATCATTATGATCAATGTCGCTGG
1 AAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGTTGG
*
100336 CCTTGAATCAGCACATTGGCACAAGACCAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTA
66 CCTTGAATCAGCACATTGGCACAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTA
100401 TCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACAAGACCAATATCGCTGGCCTT
131 TCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACAAGACCAATATCGCTGGCCTT
* *
100466 GAATCAGCATATTGGCACCTTATCTTCAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCA
196 GAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* *
100531 CAAGACCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGTCTTT
261 CAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTT
* *
100580 AAGACCAATGTCGCTAGCCTTGAATCAGCA
1 AAGACCAATATCGCTGGCCTTGAATCAGCA
100610 CATTAGCGTA
Statistics
Matches: 592, Mismatches: 47, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
300 28 0.05
301 1 0.00
303 3 0.01
304 1 0.00
305 1 0.00
306 2 0.00
309 556 0.94
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (309 bp):
AAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGTTGG
CCTTGAATCAGCACATTGGCACAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTA
TCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACAAGACCAATATCGCTGGCCTT
GAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
CAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTT
Found at i:100705 original size:396 final size:396
Alignment explanation
Indices: 99474--100693 Score: 2127
Period size: 396 Copynumber: 3.1 Consensus size: 396
99464 GGTGGCGTCT
* * ** * * * *
99474 TCTTCTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTAGCACCTTATCTTTAAGACCAATGT
1 TCTT-TAAGACCAATGTCGCTGGCCTTGAATCAACATATTGGCACCTTATCATTATGATCAATGT
* * **
99539 CGCTGGCCTAGAATCAACACATTGGCACAAGACCAATATCGCTGGCCTTGAATCAACATATTGGC
65 CGCTGGCCTTGAATCAGCACATTGGCACAAGACCAATATCGCTGGCCTTGAATCAGTATATTGGC
* * *
99604 ACCTTATCTTTAAAACCAATG-CCCTGGCCTTGAATCAGCACATTGGCACAAGACTAATATCGCT
130 ACCTTATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACAAGACCAATATCGCT
* * * *
99668 GACCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAACGTCGTTGGCCTTGAATAAGCACA
195 GGCCTTGAATCAGCATATTGGCACCTTATCTTCAAGACCAATGTCGTTGGCCTTGAATCAGCACA
99733 TTGGCACAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATG
260 TTGGCACAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATG
99798 TCACTGGCCCTGAATCAGCACATTGGCACAAGACCAATATCGCTAGCCTTAAATCAGCATACTGG
325 TCACTGGCCCTGAATCAGCACATTGGCACAAGACCAATATCGCTAGCCTTAAATCAGCATACTGG
99863 CACCTTA
390 CACCTTA
99870 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAACATATTGGCACCTTATCATTATGATCAATGTC
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAACATATTGGCACCTTATCATTATGATCAATGTC
99935 GCTGGCCTTGAATCAGCACATTGGCACAAGACCAATATCGCTGGCCTTGAATCAGTATATTGGCA
66 GCTGGCCTTGAATCAGCACATTGGCACAAGACCAATATCGCTGGCCTTGAATCAGTATATTGGCA
**
100000 CCTTATCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACAAGACCAATATCGCTG
131 CCTTATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACAAGACCAATATCGCTG
100065 GCCTTGAATCAGCATATTGGCACCTTATCTTCAAGACCAATGTCGTTGGCCTTGAATCAGCACAT
196 GCCTTGAATCAGCATATTGGCACCTTATCTTCAAGACCAATGTCGTTGGCCTTGAATCAGCACAT
100130 TGGCACAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGT
261 TGGCACAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGT
100195 CACTGGCCCTGAATCAGCACATTGGCACAAGACCAATATCGCTAGCCTTAAATCAGCATACTGGC
326 CACTGGCCCTGAATCAGCACATTGGCACAAGACCAATATCGCTAGCCTTAAATCAGCATACTGGC
100260 ACCTTA
391 ACCTTA
100266 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAACATATTGGCACCTTATCATTATGATCAATGTC
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAACATATTGGCACCTTATCATTATGATCAATGTC
100331 GCTGGCCTTGAATCAGCACATTGGCACAAGACCAATATCGCTGGCCTTGAATCAGTATATTGGCA
66 GCTGGCCTTGAATCAGCACATTGGCACAAGACCAATATCGCTGGCCTTGAATCAGTATATTGGCA
100396 CCTTATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACAAGACCAATATCGCTG
131 CCTTATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACAAGACCAATATCGCTG
100461 GCCTTGAATCAGCATATTGGCACCTTATCTTCAAGACCAATGTCGTTGGCCTTGAATCAGCACAT
196 GCCTTGAATCAGCATATTGGCACCTTATCTTCAAGACCAATGTCGTTGGCCTTGAATCAGCACAT
*
100526 TGGCACAAGACCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGTCTTTAAGACCAATGT
261 TGGCACAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGT
* * * * ** * * *
100591 CGCTAGCCTTGAATCAGCACATTAGCGTAAGACCAATATCACTAGCCTTGAATCAGCATATTGGC
326 CACTGGCCCTGAATCAGCACATTGGCACAAGACCAATATCGCTAGCCTTAAATCAGCATACTGGC
* *
100656 ACTTTG
391 ACCTTA
100662 TCTTTAAGACCAATGTCGCTGGCCTTGAATCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCA
100694 GCACGTTGGC
Statistics
Matches: 789, Mismatches: 34, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
395 133 0.17
396 656 0.83
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (396 bp):
TCTTTAAGACCAATGTCGCTGGCCTTGAATCAACATATTGGCACCTTATCATTATGATCAATGTC
GCTGGCCTTGAATCAGCACATTGGCACAAGACCAATATCGCTGGCCTTGAATCAGTATATTGGCA
CCTTATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACAAGACCAATATCGCTG
GCCTTGAATCAGCATATTGGCACCTTATCTTCAAGACCAATGTCGTTGGCCTTGAATCAGCACAT
TGGCACAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGT
CACTGGCCCTGAATCAGCACATTGGCACAAGACCAATATCGCTAGCCTTAAATCAGCATACTGGC
ACCTTA
Found at i:104072 original size:13 final size:13
Alignment explanation
Indices: 104054--104078 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104044 CAAAGATCAG
104054 TGTATCGATACAA
1 TGTATCGATACAA
104067 TGTATCGATACA
1 TGTATCGATACA
104079 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:104145 original size:19 final size:19
Alignment explanation
Indices: 104121--104236 Score: 130
Period size: 19 Copynumber: 6.7 Consensus size: 19
104111 TAGCTTATAT
*
104121 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
104140 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
104153 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
104172 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
104191 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
104204 TGTATCGATACAACACTTTA
1 TGTATCGATACAACAC-TTA
104224 TGTATCGATACAA
1 TGTATCGATACAA
104237 ATCATTGAAA
Statistics
Matches: 83, Mismatches: 1, Indels: 25
0.76 0.01 0.23
Matches are distributed among these distances:
13 18 0.22
14 2 0.02
16 11 0.13
18 1 0.01
19 38 0.46
20 13 0.16
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:104158 original size:13 final size:13
Alignment explanation
Indices: 104140--104164 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104130 ACAAAACTTA
104140 TGTATCGATACAT
1 TGTATCGATACAT
104153 TGTATCGATACA
1 TGTATCGATACA
104165 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:104160 original size:32 final size:32
Alignment explanation
Indices: 104119--104183 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
104109 AGTAGCTTAT
104119 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
*
104151 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
104183 A
1 A
104184 ACACTTATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (32 bp):
ATTGTATCGATACAAAACTTATGTATCGATAC
Found at i:104190 original size:51 final size:52
Alignment explanation
Indices: 104121--104237 Score: 218
Period size: 51 Copynumber: 2.3 Consensus size: 52
104111 TAGCTTATAT
104121 TGTATCGATACAAAACTTATGTATCGATACATTGTATCGATACAACAC-TTA
1 TGTATCGATACAAAACTTATGTATCGATACATTGTATCGATACAACACTTTA
*
104172 TGTATCGATACAACACTTATGTATCGATACATTGTATCGATACAACACTTTA
1 TGTATCGATACAAAACTTATGTATCGATACATTGTATCGATACAACACTTTA
104224 TGTATCGATACAAA
1 TGTATCGATACAAA
104238 TCATTGAAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
51 47 0.75
52 16 0.25
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (52 bp):
TGTATCGATACAAAACTTATGTATCGATACATTGTATCGATACAACACTTTA
Found at i:104208 original size:32 final size:33
Alignment explanation
Indices: 104172--104235 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 33
104162 ACAACACTTA
104172 TGTATCGATACAACAC-TTATGTATCGATACAT
1 TGTATCGATACAACACTTTATGTATCGATACAT
104204 TGTATCGATACAACACTTTATGTATCGATACA
1 TGTATCGATACAACACTTTATGTATCGATACA
104236 AATCATTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAACACTTTATGTATCGATACAT
Found at i:104209 original size:13 final size:13
Alignment explanation
Indices: 104191--104215 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104181 ACAACACTTA
104191 TGTATCGATACAT
1 TGTATCGATACAT
104204 TGTATCGATACA
1 TGTATCGATACA
104216 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:105108 original size:58 final size:54
Alignment explanation
Indices: 105059--105199 Score: 191
Period size: 52 Copynumber: 2.7 Consensus size: 54
105049 GATGAAGGTT
*
105059 CCAATGTGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGAC-AA-AGACG
1 CCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGAGACG
* * * *
105111 CCAATATGCTGATTTAAGGCCAGCGATATTAGACTTAAAGATGACAAAG-G-CG
1 CCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGAGACG
* *
105163 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 CCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTA
105200 GAGTTGCCAA
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 77 0.96
53 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (54 bp):
CCAATATGCTGAGTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGAGACG
Found at i:105223 original size:43 final size:43
Alignment explanation
Indices: 105162--105569 Score: 413
Period size: 43 Copynumber: 8.9 Consensus size: 43
105152 TGACAAAGGC
* *
105162 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGTT
1 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAGAGGT
* *
105205 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGT
1 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A-GA-GGT
* *
105254 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAGAGGT
* *
105297 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----AG-AGGT
*
105346 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAGAGGT
* *
105389 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----AG-AGGT
* * *
105438 GCCAATATGCTGATTCAAGGACAGCTATATTGGACTCAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAGAGGT
* **
105481 GCCAATGTGCTGATTCAAGGCCAGCTACGTTGGACTTAAAGATGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A-G-AGGT
* *
105530 GCCAATATGTTGATTCAAGGCCAGCGATATTAGG-CTTAGA
1 GCCAATATGCTGATTCAAGGCCAGCTATATT-GGACTTAGA
105570 AGGGTTGCCA
Statistics
Matches: 306, Mismatches: 34, Indels: 50
0.78 0.09 0.13
Matches are distributed among these distances:
43 147 0.48
44 4 0.01
45 2 0.01
47 2 0.01
48 4 0.01
49 145 0.47
50 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (43 bp):
GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAGAGGT
Found at i:105289 original size:92 final size:92
Alignment explanation
Indices: 105110--105560 Score: 722
Period size: 92 Copynumber: 4.9 Consensus size: 92
105100 TGACAAAGAC
* * * * * *
105110 GCCAATATGCTGATTTAAGGCCAGCGATATTAGACTTAAAGATGACAAAGGCGCCAATATGCTGA
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG---AAGGTGCCAATATGCTGA
* *
105175 TTCAAGGCCAGCGATATTGGACTTAGAGTT
63 TTCAAGGCCAGCGATATTGGACTTAAAGGT
*
105205 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
105270 AAGGCCAGCGATATTGGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
*
105297 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
*
105362 AAGGCCAGCTATATTGGACTTAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
*
105389 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
* * *
105454 AAGGACAGCTATATTGGACTCAAAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
* *
105481 GCCAATGTGCTGATTCAAGGCCAGCTACGTTGGACTTAAAGATGAAGGTGCCAATATGTTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
105546 AAGGCCAGCGATATT
66 AAGGCCAGCGATATT
105561 AGGCTTAGAA
Statistics
Matches: 337, Mismatches: 19, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
92 298 0.88
95 39 0.12
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAAGGT
Found at i:105646 original size:32 final size:33
Alignment explanation
Indices: 105567--105695 Score: 208
Period size: 32 Copynumber: 4.0 Consensus size: 33
105557 TATTAGGCTT
*
105567 AGAAGGGTTGCCATCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
105600 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
105633 AG-AGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
105664 GGAAGGGTTGCCACCGACTTGTGTGGGCTTTA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTA
105696 AAAAAGGTGA
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
31 2 0.02
32 54 0.61
33 32 0.36
ACGTcount: A:0.17, C:0.18, G:0.36, T:0.29
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:105788 original size:31 final size:31
Alignment explanation
Indices: 105742--106087 Score: 263
Period size: 31 Copynumber: 10.7 Consensus size: 31
105732 AAGGAACAAA
105742 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
* * * * *
105773 GTGCTACGGAATTGTGGACTTAGAAGGAAAAAG
1 GTGCCACGGAGTTGTGGGCTTTGAA--AAGAAG
*
105806 AGTGCCACGGAGTTGTGGGC-TT-AAACG--G
1 -GTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
* * * *
105834 GTGCCACAGAGTTGTGGACTTAGAAGGAAAAAG
1 GTGCCACGGAGTTGTGGGCTTTGAA--AAGAAG
*
105867 AGTGCCACGGAGTTGTGAGCTTT-AAAAGGGAAAAAG
1 -GTGCCACGGAGTTGTGGGCTTTGAAAA--G---AAG
*
105903 AGTGTCACGGAGTTGTGGGCTTTGAAAAGAAG
1 -GTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
* * * ** *
105935 GTGCCACGGAGTCGTAGACTTAAAAGGAACAAG
1 GTGCCACGGAGTTGTGGGCTTTGAA--AAGAAG
*
105968 GTGCCACGGAGTTGTGGACTTT-AAAAGGGAAAAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAA--G---AAG
106003 AGTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
1 -GTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
*
106035 GTGCCACAGAGTTGTGGGCTTTGAAAAGAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
* * *
106066 GTGCCATGGAGTCGTGGACTTT
1 GTGCCACGGAGTTGTGGGCTTT
106088 AAGAAGGTAT
Statistics
Matches: 250, Mismatches: 40, Indels: 50
0.74 0.12 0.15
Matches are distributed among these distances:
27 17 0.07
28 2 0.01
29 2 0.01
30 3 0.01
31 91 0.36
32 10 0.04
33 33 0.13
34 34 0.14
35 5 0.02
36 45 0.18
37 8 0.03
ACGTcount: A:0.30, C:0.13, G:0.35, T:0.21
Consensus pattern (31 bp):
GTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
Found at i:105861 original size:61 final size:62
Alignment explanation
Indices: 105710--106051 Score: 284
Period size: 61 Copynumber: 5.2 Consensus size: 62
105700 AGGTGAAAGA
* *
105710 TGCCACGAAGTTGTGGACTTAAAAGGAACAA-AGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
1 TGCCACG-AGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTGAAAAG-AGG
* * *
105774 TGCTACGGAATTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT-AAACG-GG
1 TGCCAC-GAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTGAAAAGAGG
* *
105835 TGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGAGCTTTAAAAGGGAAA
1 TGCCAC-GAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTGAAAA--G---
105900 AAGAG
60 -AG-G
* * * * * * *
105905 TGTCACGGAGTTGTGGGCTTTGAA--AAGAAG-GTGCCACGGAGTCGTAGACTT-AAAAGGAACA
1 TGCCAC-GAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTGAAAA-G----
105966 AGG
60 AGG
*
105969 TGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 TGCCAC-GAGTTGTGGAC-TTAGAA-GGAAAAAGAGTGCCACGGAGTTGTGGGC-TTGAAAAG-A
106034 GG
61 GG
106036 TGCCACAGAGTTGTGG
1 TGCCAC-GAGTTGTGG
106052 GCTTTGAAAA
Statistics
Matches: 231, Mismatches: 29, Indels: 33
0.79 0.10 0.11
Matches are distributed among these distances:
61 52 0.23
62 3 0.01
63 4 0.02
64 45 0.19
65 32 0.14
66 4 0.02
67 36 0.16
68 10 0.04
69 17 0.07
70 24 0.10
71 4 0.02
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (62 bp):
TGCCACGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTGAAAAGAGG
Found at i:105934 original size:136 final size:130
Alignment explanation
Indices: 105710--106092 Score: 373
Period size: 131 Copynumber: 3.0 Consensus size: 130
105700 AGGTGAAAGA
* *
105710 TGCCAC-GAAGTTGTGGAC-TTAAAA-GGAACAA-AGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1 TGCCACAG-AGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGAGCTTTGAAAAGA
* * * * * * * * *
105771 AGGTGCTACGGAATTGTGGACTTAGAAGGAA-AAAGAGTGCCACGGAGTTGTGGGCTT-A-AAC-
65 AGGTGCCACAGAGTTGTGGGCTTTGAA-GAAGGAAG-GTGCCACGGAGTCGTAGACTTAAGAACA
*
105832 GGG
128 AGG
*
105835 TGCCACAGAGTTGTGGAC-TTAGAA-GGAAAAAGAGTGCCACGGAGTTGTGAGCTTT-AAAAGGG
1 TGCCACAGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGAGCTTTGAAAA--G
* *
105897 AAAAAGAGTGTCACGGAGTTGTGGGCTTTGAA-AA-GAAGGTGCCACGGAGTCGTAGACTTAAAA
64 ---AAG-GTGCCACAGAGTTGTGGGCTTTGAAGAAGGAAGGTGCCACGGAGTCGTAGACTT--AA
105960 GGAACAAGG
123 -GAACAAGG
* *
105969 TGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 TGCCACAGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGAGCTTTGAAAAGAA
* *
106034 GGTGCCACAGAGTTGTGGGCTTTGAA-AA-GAAGGTGCCATGGAGTCGTGGACTTTAAGAA
66 GGTGCCACAGAGTTGTGGGCTTTGAAGAAGGAAGGTGCCACGGAGTCGTAGAC-TTAAGAA
106093 GGTATTTGAA
Statistics
Matches: 220, Mismatches: 20, Indels: 32
0.81 0.07 0.12
Matches are distributed among these distances:
125 31 0.14
126 23 0.10
127 1 0.00
128 18 0.08
129 8 0.04
130 5 0.02
131 67 0.30
132 5 0.02
133 3 0.01
134 19 0.09
135 6 0.03
136 30 0.14
137 4 0.02
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (130 bp):
TGCCACAGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGAGCTTTGAAAAGAA
GGTGCCACAGAGTTGTGGGCTTTGAAGAAGGAAGGTGCCACGGAGTCGTAGACTTAAGAACAAGG
Found at i:105998 original size:100 final size:100
Alignment explanation
Indices: 105742--106094 Score: 431
Period size: 100 Copynumber: 3.6 Consensus size: 100
105732 AAGGAACAAA
* * * * * * *
105742 GTGCCACGGAGTTGTGGGCTTTGAA--AAGAAGGTGCTACGGAATTGTGGAC-TTAGAA-GGAAA
1 GTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAA
*
105803 AAGAGTGCCACGGAGTTGTGGGC-TT-AAACG--G
66 AAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
105834 GTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGT-GAGCTTTAAAAGGGA
1 GTGCCACAGAGTTGTGGACTTAGAAGGAAAAAG-GTGCCACGGAGTTGTGGA-CTTTAAAAGGGA
*
105898 AAAAGAGTGTCACGGAGTTGTGGGCTTTGAAAAGAAG
64 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
* * * * *
105935 GTGCCACGGAGTCGTAGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAA
1 GTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAA
106000 AAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
66 AAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
* * * * *
106035 GTGCCACAGAGTTGTGGGCTTTGAA--AAGAAGGTGCCATGGAGTCGTGGACTTTAAGAAGG
1 GTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTAA-AAGG
106095 TATTTGAAGA
Statistics
Matches: 225, Mismatches: 24, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
92 22 0.10
94 7 0.03
95 14 0.06
96 5 0.02
97 27 0.12
98 29 0.13
99 8 0.04
100 82 0.36
101 31 0.14
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (100 bp):
GTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAA
AAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
Found at i:107059 original size:15 final size:13
Alignment explanation
Indices: 107039--107095 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
107029 GGTTTTTCCC
*
107039 TTTTTTTTTGTGT
1 TTTTTTTTTTTGT
*
107052 GTTTTTTTTTTGT
1 TTTTTTTTTTTGT
107065 TTTTTTTTCTTT-T
1 TTTTTTTT-TTTGT
* * *
107078 TTGTTTTGTTTCT
1 TTTTTTTTTTTGT
107091 TTTTT
1 TTTTT
107096 GGAAAAGAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
12 3 0.08
13 30 0.83
14 3 0.08
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.86
Consensus pattern (13 bp):
TTTTTTTTTTTGT
Found at i:107060 original size:16 final size:16
Alignment explanation
Indices: 107039--107095 Score: 62
Period size: 15 Copynumber: 3.4 Consensus size: 16
107029 GGTTTTTCCC
*
107039 TTTTTTTTTGTGTG-T
1 TTTTTTTTTGTTTGTT
*
107054 TTTTTTTTTGTTTTTT
1 TTTTTTTTTGTTTGTT
107070 TTTCTTTTTTGTTTTGTT
1 TTT-TTTTTTG-TTTGTT
107088 TCTTTTTT
1 T-TTTTTT
107096 GGAAAAGAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
15 12 0.34
16 4 0.11
17 7 0.20
18 10 0.29
19 2 0.06
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.86
Consensus pattern (16 bp):
TTTTTTTTTGTTTGTT
Found at i:107070 original size:11 final size:11
Alignment explanation
Indices: 107040--107096 Score: 62
Period size: 11 Copynumber: 5.0 Consensus size: 11
107030 GTTTTTCCCT
107040 TTTTTTTTGTGTG
1 TTTTTTTT-T-TG
107053 TTTTTTTTTTG
1 TTTTTTTTTTG
107064 TTTTTTTTTCT-
1 TTTTTTTTT-TG
*
107075 TTTTTGTTTTG
1 TTTTTTTTTTG
*
107086 TTTCTTTTTTG
1 TTTTTTTTTTG
107097 GAAAAGAACA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
10 1 0.03
11 28 0.72
12 2 0.05
13 8 0.21
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:107096 original size:16 final size:16
Alignment explanation
Indices: 107042--107096 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
107032 TTTTCCCTTT
* *
107042 TTTTTTG-TGTGTTTT
1 TTTTTTGTTTTGTTTC
*
107057 TTTTTTGTTTTTTTTTC
1 TTTTTTG-TTTTGTTTC
107074 TTTTTTGTTTTGTTTC
1 TTTTTTGTTTTGTTTC
107090 TTTTTTG
1 TTTTTTG
107097 GAAAAGAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
15 7 0.21
16 15 0.44
17 12 0.35
ACGTcount: A:0.00, C:0.04, G:0.13, T:0.84
Consensus pattern (16 bp):
TTTTTTGTTTTGTTTC
Found at i:114351 original size:13 final size:13
Alignment explanation
Indices: 114333--114357 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
114323 CAAAGATCAG
114333 TGTATCGATACAA
1 TGTATCGATACAA
114346 TGTATCGATACA
1 TGTATCGATACA
114358 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:114424 original size:19 final size:18
Alignment explanation
Indices: 114400--114497 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
114390 TAGCTTATAT
114400 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
114419 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
114432 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
*
114451 TGTATAGATAC--A--T-
1 TGTATCGATACAAACTTA
114464 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
114484 TGTATCGATACAAA
1 TGTATCGATACAAA
114498 TCGTTGAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 23 0.36
20 13 0.20
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:114437 original size:13 final size:13
Alignment explanation
Indices: 114419--114475 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
114409 ACAAAACTTA
114419 TGTATCGATACAT
1 TGTATCGATACAT
114432 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
*
114450 ATGTATAGATACAT
1 -TGTATCGATACAT
114464 TGTATCGATACA
1 TGTATCGATACA
114476 ACACTTTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 20 0.56
14 1 0.03
16 6 0.17
18 1 0.03
19 8 0.22
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:114439 original size:32 final size:32
Alignment explanation
Indices: 114398--114495 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
114388 AGTAGCTTAT
*
114398 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
*
114430 ATTGTATCGATACAACACTTATGTATAGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
114462 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
114495 A
1 A
114496 AATCGTTGAA
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 48 0.77
33 14 0.23
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:117124 original size:13 final size:13
Alignment explanation
Indices: 117106--117130 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117096 ACAAAACTTA
117106 TGTATCGATACAT
1 TGTATCGATACAT
117119 TGTATCGATACA
1 TGTATCGATACA
117131 ATTTGTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:119225 original size:13 final size:13
Alignment explanation
Indices: 119207--119232 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
119197 CAATTTTTTG
119207 TGTATCGATACAT
1 TGTATCGATACAT
119220 TGTATCGATACAT
1 TGTATCGATACAT
119233 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:119318 original size:20 final size:20
Alignment explanation
Indices: 119293--119365 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
119283 ATCTTTTTTT
119293 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
119313 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
119334 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
119354 ATGTATCGATAC
1 ATGTATCGATAC
119366 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:119344 original size:41 final size:42
Alignment explanation
Indices: 119271--119365 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
119261 CTGCCAAGAA
*
119271 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
119313 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
119354 ATGTATCGATAC
1 ATGTATCGATAC
119366 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:120107 original size:116 final size:116
Alignment explanation
Indices: 119903--120136 Score: 468
Period size: 116 Copynumber: 2.0 Consensus size: 116
119893 TTTCCCTTAA
119903 AAGAACAAATTTTACGAATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCTT
1 AAGAACAAATTTTACGAATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCTT
119968 TATCTCCCCCATTTATTAATAAATCTCCCCCTTAATCAAGTAATTCATATC
66 TATCTCCCCCATTTATTAATAAATCTCCCCCTTAATCAAGTAATTCATATC
120019 AAGAACAAATTTTACGAATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCTT
1 AAGAACAAATTTTACGAATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCTT
120084 TATCTCCCCCATTTATTAATAAATCTCCCCCTTAATCAAGTAATTCATATC
66 TATCTCCCCCATTTATTAATAAATCTCCCCCTTAATCAAGTAATTCATATC
120135 AA
1 AA
120137 AATTTATTTC
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 118 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (116 bp):
AAGAACAAATTTTACGAATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCTT
TATCTCCCCCATTTATTAATAAATCTCCCCCTTAATCAAGTAATTCATATC
Found at i:120152 original size:17 final size:17
Alignment explanation
Indices: 120127--120165 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
120117 AATCAAGTAA
*
120127 TTCATATCAAAATTTAT
1 TTCACATCAAAATTTAT
120144 TTCACATCAAAATTTAT
1 TTCACATCAAAATTTAT
120161 TTCAC
1 TTCAC
120166 TTTTCTCTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.44
Consensus pattern (17 bp):
TTCACATCAAAATTTAT
Found at i:121959 original size:13 final size:13
Alignment explanation
Indices: 121941--121979 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
121931 ATAATCACCC
* *
121941 TGTATCGATATAG
1 TGTATCGATACAA
121954 TGTATCGATACAA
1 TGTATCGATACAA
121967 TGTATCGATACAA
1 TGTATCGATACAA
121980 CAAAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:124078 original size:15 final size:15
Alignment explanation
Indices: 124058--124088 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
124048 ATTTCGTTTG
*
124058 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
124073 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
124088 G
1 G
124089 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:127436 original size:13 final size:13
Alignment explanation
Indices: 127418--127443 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
127408 CAATTTTTTG
127418 TGTATCGATACAT
1 TGTATCGATACAT
127431 TGTATCGATACAT
1 TGTATCGATACAT
127444 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:127529 original size:20 final size:20
Alignment explanation
Indices: 127504--127576 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
127494 ATCTTTTTTT
127504 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
127524 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
127545 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
127565 ATGTATCGATAC
1 ATGTATCGATAC
127577 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:127555 original size:41 final size:42
Alignment explanation
Indices: 127482--127576 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
127472 CTGCCAAGAA
*
127482 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
127524 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
127565 ATGTATCGATAC
1 ATGTATCGATAC
127577 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:129973 original size:33 final size:33
Alignment explanation
Indices: 129935--130001 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
129925 GTTACAAGCT
129935 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTATAC--CATGTATCGATACA
129968 ATGTATCGATACATTATACCATGTATCGATACA
1 ATGTATCGATACATTATACCATGTATCGATACA
130001 A
1 A
130002 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTATACCATGTATCGATACA
Found at i:129986 original size:20 final size:20
Alignment explanation
Indices: 129963--130000 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
129953 TCATGTATCG
129963 ATACAATGTATCGATACATT
1 ATACAATGTATCGATACATT
*
129983 ATACCATGTATCGATACA
1 ATACAATGTATCGATACA
130001 AATAGTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (20 bp):
ATACAATGTATCGATACATT
Found at i:129999 original size:13 final size:13
Alignment explanation
Indices: 129955--129980 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
129945 ACATTTCTTC
129955 ATGTATCGATACA
1 ATGTATCGATACA
129968 ATGTATCGATACA
1 ATGTATCGATACA
129981 TTATACCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:130049 original size:13 final size:13
Alignment explanation
Indices: 130031--130057 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
130021 TGCTAGTTTC
130031 ATGTATCGATACA
1 ATGTATCGATACA
130044 ATGTATCGATACA
1 ATGTATCGATACA
130057 A
1 A
130058 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:130659 original size:40 final size:40
Alignment explanation
Indices: 130606--130719 Score: 201
Period size: 40 Copynumber: 2.9 Consensus size: 40
130596 TTTCTCCCTT
*
130606 AAAAAATTCTCCCCCTTAAACGATTATCTCCTCCTTTATA
1 AAAAAATTCTCCCCCTTAAACAATTATCTCCTCCTTTATA
*
130646 AAAAAATTCTCCCCCTTAAACAATTATCTCCTTCTTTATA
1 AAAAAATTCTCCCCCTTAAACAATTATCTCCTCCTTTATA
*
130686 AAAAAATTCTCCCCCTTAAACAATTATCTTCTCC
1 AAAAAATTCTCCCCCTTAAACAATTATCTCCTCC
130720 CCCTTTTGTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.34, C:0.30, G:0.01, T:0.35
Consensus pattern (40 bp):
AAAAAATTCTCCCCCTTAAACAATTATCTCCTCCTTTATA
Found at i:130662 original size:21 final size:21
Alignment explanation
Indices: 130632--130702 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
130622 TAAACGATTA
*
130632 TCTCCTCCTTTATAAAAAAAT
1 TCTCCCCCTTTATAAAAAAAT
* *
130653 TCTCCCCC--T-TAAACAATT
1 TCTCCCCCTTTATAAAAAAAT
**
130671 ATCTCCTTCTTTATAAAAAAAT
1 -TCTCCCCCTTTATAAAAAAAT
130693 TCTCCCCCTT
1 TCTCCCCCTT
130703 AAACAATTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
18 7 0.19
19 7 0.19
21 16 0.43
22 7 0.19
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (21 bp):
TCTCCCCCTTTATAAAAAAAT
Done.