Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001900.1 Hibiscus syriacus cultivar Beakdansim tig00003850_pilon, whole genome shotgun sequence
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: 74322
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Found at i:4007 original size:162 final size:162
Alignment explanation
Indices: 3739--4075 Score: 505
Period size: 162 Copynumber: 2.1 Consensus size: 162
3729 TATACTTATT
3739 AAAGTATCGATACCTTCAACATATCCGATAGCACTTTACCAGGTTTTGGCATAATGAAACCAATT
1 AAAGTATCGATACCTTCAACATATCCGATAGCACTTTACCAGGTTTTGGCATAATGAAACCAATT
* * * * *
3804 TTGTCATATTTTTACTTGTTATATTGTTATGTATTGATACATGTTTATAAAGTGTCGATACTTTA
66 TTGTCATATTTTAACCTGATATATTGTTATGTATCGATACATGTTTATAAAGTATCGATACTTTA
*
3869 TATGCGCTATTATTGCTTTTCTTTTAAATTCCA
131 TAGGCGCTATTATTG-TTTTCTTTTAAATTCCA
* * * * * * *
3902 AAAGTATTGATACCTTCAACATATCCGGTAGCTCTTTACC-GGTTTTGTCATATTGAACCCGATT
1 AAAGTATCGATACCTTCAACATATCCGATAGCACTTTACCAGGTTTTGGCATAATGAAACCAATT
* *
3966 TTGTCATGTTTTAACCTGATATATTGTTATGTATCGATACATGTTTATAAAGTATTGATACTTTA
66 TTGTCATATTTTAACCTGATATATTGTTATGTATCGATACATGTTTATAAAGTATCGATACTTTA
*
4031 TAGGCGCTATTATTGTTTTTTTTTAAATTCCA
131 TAGGCGCTATTATTGTTTTCTTTTAAATTCCA
*
4063 AAAGTATCAATAC
1 AAAGTATCGATAC
4076 TAATTTGAAT
Statistics
Matches: 156, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
161 27 0.17
162 92 0.59
163 37 0.24
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (162 bp):
AAAGTATCGATACCTTCAACATATCCGATAGCACTTTACCAGGTTTTGGCATAATGAAACCAATT
TTGTCATATTTTAACCTGATATATTGTTATGTATCGATACATGTTTATAAAGTATCGATACTTTA
TAGGCGCTATTATTGTTTTCTTTTAAATTCCA
Found at i:4217 original size:182 final size:183
Alignment explanation
Indices: 3910--4317 Score: 615
Period size: 182 Copynumber: 2.2 Consensus size: 183
3900 CAAAAGTATT
* *
3910 GATACCTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATATTGAACCCGATTTTGTCATGT
1 GATACCTTCAACATATCCGGTAGCTCTTTACCAGTTTTGTCATATTGAACCCGATTTTGTCATAT
* *
3975 TTTAACCTGATATATTGTTATGTATCGATACATGTTTATAAAGTATTGATACTTTATAGGCGCTA
66 TTTAACCTGATATATTGTTATGTATCAATACATGTTTATAAAGTATCGATACTTTATAGGCGCTA
* *
4040 TTATTG-TTTTTTTTTAAATTCCAAAAGTATCAATAC-TAATTTGAATGATATC
131 TTATTGCTTTTCTTTTAAATTCCAAAAGTATCAATACAT-ATTTAAATGATATC
* * * * *
4092 GATACCTTCAACATATCTGGTAGCTATTTACCAGTTTTGTTATATTGAACCTGGTTTTGTCATAT
1 GATACCTTCAACATATCCGGTAGCTCTTTACCAGTTTTGTCATATTGAACCCGATTTTGTCATAT
* *
4157 TTTTACCTGATATATTGTTATGTCTCAATACATGTTTATAAAGTATCGATACTTTATAGGCGCTA
66 TTTAACCTGATATATTGTTATGTATCAATACATGTTTATAAAGTATCGATACTTTATAGGCGCTA
* * * *
4222 TTATTGCTTTTCTTTTAAATTCCAAAAGTGTCGATACATATTTAAATGGTATT
131 TTATTGCTTTTCTTTTAAATTCCAAAAGTATCAATACATATTTAAATGATATC
*
4275 GATACCTTCAACATATCCGGTAG-TGCTTTACTAGTTTTGTCAT
1 GATACCTTCAACATATCCGGTAGCT-CTTTACCAGTTTTGTCAT
4318 TTTTTTACAT
Statistics
Matches: 202, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
182 126 0.62
183 75 0.37
184 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (183 bp):
GATACCTTCAACATATCCGGTAGCTCTTTACCAGTTTTGTCATATTGAACCCGATTTTGTCATAT
TTTAACCTGATATATTGTTATGTATCAATACATGTTTATAAAGTATCGATACTTTATAGGCGCTA
TTATTGCTTTTCTTTTAAATTCCAAAAGTATCAATACATATTTAAATGATATC
Found at i:7285 original size:13 final size:13
Alignment explanation
Indices: 7267--7293 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7257 TAGTTAACCT
7267 TGTCATAACATTA
1 TGTCATAACATTA
7280 TGTCATAACATTA
1 TGTCATAACATTA
7293 T
1 T
7294 CTTTCTCCAC
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:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TGTCATAACATTA
Found at i:9990 original size:44 final size:44
Alignment explanation
Indices: 9834--10168 Score: 206
Period size: 44 Copynumber: 7.6 Consensus size: 44
9824 AGTGACAACA
** * *
9834 TTGATCCACCTCCTTCTGTGATGGAATCAAAC-ATAATGTTAGTG
1 TTGATCCACCTCCTTCTGTGATGGAATTGAGCGA-AATGTAAGTG
* * * * * * * * *
9878 CTGATCTACCTCATTCTATGATAGAATCGAGCAAAAAGT-TGATG
1 TTGATCCACCTCCTTCTGTGATGGAATTGAGCGAAATGTAAG-TG
* ** ** * * *
9922 TTGATCCAACTCCTTAAGCAATGGATTTGAGCGAAATGAAAATG
1 TTGATCCACCTCCTTCTGTGATGGAATTGAGCGAAATGTAAGTG
* * * *
9966 GTGATCCACCTCCTTCTGTGATGGAATTGAACGAAATGTCAGTT
1 TTGATCCACCTCCTTCTGTGATGGAATTGAGCGAAATGTAAGTG
** * ** * * *
10010 TTGATATACCTCCTTATGTGACAGAATTGAGCAAAAAGTTAGTG
1 TTGATCCACCTCCTTCTGTGATGGAATTGAGCGAAATGTAAGTG
* * ** * * * *
10054 TTGATCCAACTCCTTATGCAATGGATTTGAGTGAAATGAAAATG
1 TTGATCCACCTCCTTCTGTGATGGAATTGAGCGAAATGTAAGTG
* * ** *
10098 TTGATTCACCTCCTTCTGTGATGGAATCGAAAGAAATGTTAGTG
1 TTGATCCACCTCCTTCTGTGATGGAATTGAGCGAAATGTAAGTG
* *
10142 TTGATCTACCTCCTTCTGTGATAGAAT
1 TTGATCCACCTCCTTCTGTGATGGAAT
10169 CAAACAAAAA
Statistics
Matches: 210, Mismatches: 78, Indels: 6
0.71 0.27 0.02
Matches are distributed among these distances:
43 1 0.00
44 208 0.99
45 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (44 bp):
TTGATCCACCTCCTTCTGTGATGGAATTGAGCGAAATGTAAGTG
Found at i:10075 original size:132 final size:132
Alignment explanation
Indices: 9834--10254 Score: 551
Period size: 132 Copynumber: 3.2 Consensus size: 132
9824 AGTGACAACA
* * * *
9834 TTGATCCACCTCCTTCTGTGATGGAATCAAAC-ATAATGTTAGTGCTGATCTACCTCATTCTATG
1 TTGATCCACCTCCTTCTGTGATGGAATCGAACGA-AATGTTAGTGTTGATCTACCTCCTTCTGTG
*
9898 ATAGAATCGAGCAAAAAGTTGATGTTGATCCAACTCCTTAAGCAATGGATTTGAGCGAAATGAAA
65 ATAGAATCGAGCAAAAAGTTGATGTTGATCCAACTCCTTATGCAATGGATTTGAGCGAAATGAAA
9963 ATG
130 ATG
* * * * * *
9966 GTGATCCACCTCCTTCTGTGATGGAATTGAACGAAATGTCAGTTTTGATATACCTCCTTATGTGA
1 TTGATCCACCTCCTTCTGTGATGGAATCGAACGAAATGTTAGTGTTGATCTACCTCCTTCTGTGA
* * *
10031 CAGAATTGAGCAAAAAGTT-AGTGTTGATCCAACTCCTTATGCAATGGATTTGAGTGAAATGAAA
66 TAGAATCGAGCAAAAAGTTGA-TGTTGATCCAACTCCTTATGCAATGGATTTGAGCGAAATGAAA
10095 ATG
130 ATG
* *
10098 TTGATTCACCTCCTTCTGTGATGGAATCGAAAGAAATGTTAGTGTTGATCTACCTCCTTCTGTGA
1 TTGATCCACCTCCTTCTGTGATGGAATCGAACGAAATGTTAGTGTTGATCTACCTCCTTCTGTGA
* * ** * * **
10163 TAGAATCAAACAAAAAGTTGATACTGAGT-CAACTCCTTATACGATGGATTTGAGCGAAATGATG
66 TAGAATCGAGCAAAAAGTTGATGTTGA-TCCAACTCCTTATGCAATGGATTTGAGCGAAATGAAA
10227 ATG
130 ATG
* * *
10230 TTGATCCAACTCCTTATCTGATGGA
1 TTGATCCACCTCCTTCTGTGATGGA
10255 TGAGAAAAAT
Statistics
Matches: 248, Mismatches: 37, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
131 1 0.00
132 244 0.98
133 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (132 bp):
TTGATCCACCTCCTTCTGTGATGGAATCGAACGAAATGTTAGTGTTGATCTACCTCCTTCTGTGA
TAGAATCGAGCAAAAAGTTGATGTTGATCCAACTCCTTATGCAATGGATTTGAGCGAAATGAAAA
TG
Found at i:10810 original size:139 final size:139
Alignment explanation
Indices: 10269--10810 Score: 723
Period size: 139 Copynumber: 3.9 Consensus size: 139
10259 AAAAATTTGG
* * * *
10269 TGTTG-TTCCAACTCCTTATGTGATGGAAACAAGTTAAGGTTGAACAAGTTCTTCTCATTATGAA
1 TGTTGATT-CAACTCCATATGTGAT-GAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAA
* * * * *
10333 CTTTTTCTCCCTTATCGGATGAGTTATTCTCATTATGAAAGCTC-CCATTGGAAATTTTGATCCC
64 CTTCTTCTCCCTCATCGGATGAGTTATTCTCATTATG-AA-CTCTCCACTAGAAATGTTGATCCC
10397 TCGAGTGAGGTGT
127 TCGAGTGAGGTGT
** * *
10410 TGTTGATTTGACTCCATATGTGATGAATCGAGTTAAGGTTGAACAAGTTTTTCTCATTATGAACT
1 TGTTGATTCAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACT
* * * * *
10475 TCTTCTCCCTCATCGGATGAGTTCTTCTCCTTATGAACTCTCCACTAGAAATGTTTATCCATTGA
66 TCTTCTCCCTCATCGGATGAGTTATTCTCATTATGAACTCTCCACTAGAAATGTTGATCCCTCGA
10540 GTGAGGTGT
131 GTGAGGTGT
* **
10549 TGCTGATTCAACTCCATATGTGATGAATCGAGCTAATATTGAACAAGTTCTTCTCATTGA-GAAC
1 TGTTGATTCAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATT-ATGAAC
* * * *
10613 TTCTTCTCCATCATCGAATGCGTTA-TCGTCATTATGAACTCTCCACTGGAAATGTTGATCCCTC
65 TTCTTCTCCCTCATCGGATGAGTTATTC-TCATTATGAACTCTCCACTAGAAATGTTGATCCCTC
10677 GAGTGAGGTGT
129 GAGTGAGGTGT
* * * *
10688 TGTTGAATCAACTCCATATGTGATCAATCGAGCTAAGGTTAAACAAGTTCTTTTCATTATGAACT
1 TGTTGATTCAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACT
* *
10753 TCTTCTCCCTCATCGGATGAGTTATTCTCATTATGAACTCTCTACTAGAAATATTGAT
66 TCTTCTCCCTCATCGGATGAGTTATTCTCATTATGAACTCTCCACTAGAAATGTTGAT
10811 TGTTTTACCC
Statistics
Matches: 350, Mismatches: 45, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
138 6 0.02
139 252 0.72
140 72 0.21
141 18 0.05
142 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (139 bp):
TGTTGATTCAACTCCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACT
TCTTCTCCCTCATCGGATGAGTTATTCTCATTATGAACTCTCCACTAGAAATGTTGATCCCTCGA
GTGAGGTGT
Found at i:11355 original size:20 final size:19
Alignment explanation
Indices: 11329--11379 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
11319 GAAAACATCT
* *
11329 TGCCCGAAGGTCTTATGGA
1 TGCCCGAAGGACTTATAGA
11348 TAGCCCGAAGGACTTATAGA
1 T-GCCCGAAGGACTTATAGA
11368 TGACCCGAAGGA
1 TG-CCCGAAGGA
11380 TTTAATCATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (19 bp):
TGCCCGAAGGACTTATAGA
Found at i:11604 original size:53 final size:53
Alignment explanation
Indices: 11494--12089 Score: 432
Period size: 53 Copynumber: 10.8 Consensus size: 53
11484 ATCATAAAAA
* * * * *
11494 AAACCCCTTAAAAATTAGGCTTAGCTTTTTTAAAAATTCATTTGAAAATATCAAG
1 AAACCCC-TGAAAATCAGGCTTAGCTTCTTT-CAAATTCATTTGAAAACATCAAG
* *
11549 AAACCCTTGAAAATCAGGCTTAGCTTCTTTCAAATTCATTTGAAAACATTAAG
1 AAACCCCTGAAAATCAGGCTTAGCTTCTTTCAAATTCATTTGAAAACATCAAG
* * * *
11602 AAACCCCTAAAAATCAGACGTAGCTTCTTTCAAATTCATTTGAAAATATCAAG
1 AAACCCCTGAAAATCAGGCTTAGCTTCTTTCAAATTCATTTGAAAACATCAAG
* *
11655 AAACCCCT-AAAATTTAGGCTTAGCTTCTTTCAAATTCACTTGAAAACATCAAG
1 AAACCCCTGAAAA-TCAGGCTTAGCTTCTTTCAAATTCATTTGAAAACATCAAG
* ** * * * * * *
11708 AAACCCTTGAAAATCAGGCTTAATTTCTTTGAAAGCTGATCTAAAAATAATCAAG
1 AAACCCCTGAAAATCAGGCTTAGCTTCTTTCAAA-TTCATTTGAAAA-CATCAAG
** * *
11763 AAA-CTTTCGAAAATC-GGACTTAGTTTCTTTCAAATCCATTTGAAAACATCAAG
1 AAACCCCT-GAAAATCAGG-CTTAGCTTCTTTCAAATTCATTTGAAAACATCAAG
* * ** * *
11816 AAACCCCTAAAAATCTGTATTAACTTCTTTGAAAATTCATTTGAAAATTCATTTGAAAATAACCA
1 AAACCCCTGAAAATCAGGCTTAGCTTCTTT-CAAATTCATTTGAAAA--C--------AT---CA
11881 AG
52 AG
*** * * *
11883 AAACTTATGAAAATCAGAGACTTAGTTTCTTTCAAAACTAATTTGAAAACATCAAG
1 AAACCCCTGAAAATCAG-G-CTTAGCTTCTTTC-AAATTCATTTGAAAACATCAAG
* * * *
11939 AAA-CCCT-ATAAATTATGCTTAACTTCTTTGAAAAATT-ATTTGAAAACATCAAG
1 AAACCCCTGA-AAATCAGGCTTAGCTTCTTT--CAAATTCATTTGAAAACATCAAG
* * *
11992 AGACCCCT-AAAATATAGGCTTAGCTTCTTTTAAATTCATTTGAAAACATCAAG
1 AAACCCCTGAAAAT-CAGGCTTAGCTTCTTTCAAATTCATTTGAAAACATCAAG
* * * * *
12045 AAACCCCTGAAAAGCAGGCCTAACTTCTTTAAAAATTCTTTTGAA
1 AAACCCCTGAAAATCAGGCTTAGCTTCTTT-CAAATTCATTTGAA
12090 GAAACTTCCG
Statistics
Matches: 429, Mismatches: 79, Indels: 67
0.75 0.14 0.12
Matches are distributed among these distances:
52 9 0.02
53 226 0.53
54 101 0.24
55 42 0.10
56 8 0.02
59 2 0.00
64 2 0.00
67 17 0.04
69 22 0.05
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (53 bp):
AAACCCCTGAAAATCAGGCTTAGCTTCTTTCAAATTCATTTGAAAACATCAAG
Found at i:11654 original size:106 final size:107
Alignment explanation
Indices: 11494--12089 Score: 540
Period size: 106 Copynumber: 5.4 Consensus size: 107
11484 ATCATAAAAA
* * *
11494 AAACCCCTTAAAAATTAGGCTTAGCTTTTTTAAAAATTCATTTGAAAATATCAAGAAACCCTTGA
1 AAACCCC-TAAAAATCAGGCTTAACTTCTTTAAAAATTCATTTGAAAATATCAAGAAACCCTTGA
*
11559 AAATCAGGCTTAGCTTCTTTCAAATTCATTTGAAAACATTAAG
65 AAATCAGGCTTAGCTTCTTTCAAATTCATTTGAAAACATCAAG
* * * * *
11602 AAACCCCTAAAAATCAGACGTAGCTTCTTT-CAAATTCATTTGAAAATATCAAGAAACCCCT-AA
1 AAACCCCTAAAAATCAGGCTTAACTTCTTTAAAAATTCATTTGAAAATATCAAGAAACCCTTGAA
* *
11665 AATTTAGGCTTAGCTTCTTTCAAATTCACTTGAAAACATCAAG
66 AA-TCAGGCTTAGCTTCTTTCAAATTCATTTGAAAACATCAAG
* * * * ** * * * *
11708 AAACCCTTGAAAATCAGGCTTAATTTCTTTGAAAGCTGATCTAAAAATAATCAAGAAA-CTTTCG
1 AAACCCCTAAAAATCAGGCTTAACTTCTTTAAAAATTCATTTGAAAAT-ATCAAGAAACCCTT-G
* *
11772 AAAATC-GGACTTAGTTTCTTTCAAATCCATTTGAAAACATCAAG
64 AAAATCAGG-CTTAGCTTCTTTCAAATTCATTTGAAAACATCAAG
* ** * * *
11816 AAACCCCTAAAAATCTGTATTAACTTCTTTGAAAATTCATTTGAAAATTCATTTGAAAATAACCA
1 AAACCCCTAAAAATCAGGCTTAACTTCTTTAAAAATTCATTTGAAAA-T-A--TCAAGA-AACC-
* * *
11881 AGAAACTTATGAAAATCAGAGACTTAGTTTCTTTCAAAACTAATTTGAAAACATCAAG
60 -----C-T-TGAAAATCAG-G-CTTAGCTTCTTTC-AAATTCATTTGAAAACATCAAG
* * * * * *
11939 AAA-CCCTATAAATTATGCTTAACTTCTTTGAAAAATT-ATTTGAAAACATCAAGAGACCCCT-A
1 AAACCCCTAAAAATCAGGCTTAACTTCTTT-AAAAATTCATTTGAAAATATCAAGAAACCCTTGA
* *
12001 AAATATAGGCTTAGCTTCTTTTAAATTCATTTGAAAACATCAAG
65 AAAT-CAGGCTTAGCTTCTTTCAAATTCATTTGAAAACATCAAG
* * * *
12045 AAACCCCTGAAAAGCAGGCCTAACTTCTTTAAAAATTCTTTTGAA
1 AAACCCCTAAAAATCAGGCTTAACTTCTTTAAAAATTCATTTGAA
12090 GAAACTTCCG
Statistics
Matches: 393, Mismatches: 69, Indels: 53
0.76 0.13 0.10
Matches are distributed among these distances:
105 4 0.01
106 120 0.31
107 71 0.18
108 91 0.23
109 9 0.02
111 5 0.01
112 2 0.01
113 1 0.00
117 3 0.01
118 4 0.01
120 9 0.02
121 2 0.01
122 44 0.11
123 28 0.07
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (107 bp):
AAACCCCTAAAAATCAGGCTTAACTTCTTTAAAAATTCATTTGAAAATATCAAGAAACCCTTGAA
AATCAGGCTTAGCTTCTTTCAAATTCATTTGAAAACATCAAG
Found at i:11860 original size:12 final size:12
Alignment explanation
Indices: 11843--11875 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
11833 TATTAACTTC
11843 TTTGAAAATTCA
1 TTTGAAAATTCA
11855 TTTGAAAATTCA
1 TTTGAAAATTCA
11867 TTTGAAAAT
1 TTTGAAAAT
11876 AACCAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (12 bp):
TTTGAAAATTCA
Found at i:11964 original size:122 final size:120
Alignment explanation
Indices: 11751--11984 Score: 332
Period size: 122 Copynumber: 1.9 Consensus size: 120
11741 AGCTGATCTA
* * *
11751 AAAATAATCAAGAAACTTTCGAAAATCGGACTTAGTTTCTTTCAAATCCATTTGAAAACATCAAG
1 AAAATAACCAAGAAACTTTCGAAAATCGGACTTAGTTTCTTTCAAAACAATTTGAAAACATCAAG
*
11816 AAACCCCTAAAAATCTGTATTAACTTCTTTG-AAAATTCATTTGAAAATTCATTTG
66 AAACCCCTAAAAATATGTATTAACTTCTTTGAAAAATT-ATTTGAAAATTCATTTG
11871 AAAATAACCAAGAAACTTAT-GAAAATCAGAGACTTAGTTTCTTTCAAAACTAATTTGAAAACAT
1 AAAATAACCAAGAAACTT-TCGAAAATC-G-GACTTAGTTTCTTTCAAAAC-AATTTGAAAACAT
* *
11935 CAAGAAA-CCCTATAAATTATG-CTTAACTTCTTTGAAAAATTATTTGAAAA
62 CAAGAAACCCCTA-AAAATATGTATTAACTTCTTTGAAAAATTATTTGAAAA
11985 CATCAAGAGA
Statistics
Matches: 102, Mismatches: 6, Indels: 10
0.86 0.05 0.08
Matches are distributed among these distances:
120 24 0.24
121 2 0.02
122 45 0.44
123 31 0.30
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (120 bp):
AAAATAACCAAGAAACTTTCGAAAATCGGACTTAGTTTCTTTCAAAACAATTTGAAAACATCAAG
AAACCCCTAAAAATATGTATTAACTTCTTTGAAAAATTATTTGAAAATTCATTTG
Found at i:11982 original size:337 final size:325
Alignment explanation
Indices: 11526--12137 Score: 802
Period size: 337 Copynumber: 1.8 Consensus size: 325
11516 AGCTTTTTTA
* * *
11526 AAAATTCATTTGAAAATATCAAGAAACCCTTGAAAATCAGGCTTAGCTTCTTTCAAATTCATTTG
1 AAAATTCATTTGAAAATACCAAGAAACCCTTGAAAATCAGGCTTAGCTTCTTTCAAACTAATTTG
* * * *
11591 AAAACATTAAGAAACCCCTAAAAATCAGACGTAGCTTCTTTCAAATTCATTTGAAAATATCAAGA
66 AAAACATCAAGAAACCCCTAAAAATCAGACGTAACTTCTTTAAAATTCATTTGAAAACATCAAGA
* *
11656 AACCCCTAAAATTTAGGCTTAGCTTCTTTCAAATTCACTTGAAAACATCAAGAAACCCTTGAAAA
131 AACCCCTAAAATATAGGCTTAGCTTCTTTCAAATTCACTTGAAAACATCAAGAAACCCCTGAAAA
* * * ** *
11721 TCAGGCTTAATTTCTTTGAAAGCTGATCTAAAAATAATCAAGAAACTTTCGAAAATCGGACTTAG
196 GCAGGCCTAACTTCTTT-AAAAAT--TCT-----T-ATCAAGAAACTTCCGAAAATCGGACTTAG
*
11786 TTTCTTTCAAATC-CATTTGAAAACATCAAGAAACCCCTAAAAATCTGTATTAACTTCTTTGAAA
252 TTTCTTTCAAAACTCATTTGAAAACATCAAGAAACCCCTAAAAATCTGTATTAACTTCTTTGAAA
11850 ATTCATTTG
317 ATTCATTTG
* *
11859 AAAATTCATTTGAAAATAACCAAGAAA-CTTATGAAAATCAGAGACTTAGTTTCTTTCAAAACTA
1 AAAATTCATTTGAAAAT-ACCAAGAAACCCT-TGAAAATCAG-G-CTTAGCTTCTTTC-AAACTA
* * *
11923 ATTTGAAAACATCAAGAAA-CCCTATAAATTATG-CTTAACTTCTTTGAAAAATT-ATTTGAAAA
61 ATTTGAAAACATCAAGAAACCCCTAAAAATCA-GACGTAACTTCTTT--AAAATTCATTTGAAAA
* * *
11985 CATCAAGAGACCCCTAAAATATAGGCTTAGCTTCTTTTAAATTCATTTGAAAACATCAAGAAACC
123 CATCAAGAAACCCCTAAAATATAGGCTTAGCTTCTTTCAAATTCACTTGAAAACATCAAGAAACC
* *
12050 CCTGAAAAGCAGGCCTAACTTCTTTAAAAATTCTTTTGAAGAAACTTCCGAAAATCGGACTTAGT
188 CCTGAAAAGCAGGCCTAACTTCTTTAAAAATTCTTATCAAGAAACTTCCGAAAATCGGACTTAGT
12115 TTCTTTCAAAACTCATTTGAAAA
253 TTCTTTCAAAACTCATTTGAAAA
12138 TTGTCAAGAA
Statistics
Matches: 244, Mismatches: 26, Indels: 22
0.84 0.09 0.08
Matches are distributed among these distances:
328 38 0.16
329 11 0.05
333 19 0.08
334 21 0.09
335 1 0.00
336 36 0.15
337 113 0.46
338 5 0.02
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (325 bp):
AAAATTCATTTGAAAATACCAAGAAACCCTTGAAAATCAGGCTTAGCTTCTTTCAAACTAATTTG
AAAACATCAAGAAACCCCTAAAAATCAGACGTAACTTCTTTAAAATTCATTTGAAAACATCAAGA
AACCCCTAAAATATAGGCTTAGCTTCTTTCAAATTCACTTGAAAACATCAAGAAACCCCTGAAAA
GCAGGCCTAACTTCTTTAAAAATTCTTATCAAGAAACTTCCGAAAATCGGACTTAGTTTCTTTCA
AAACTCATTTGAAAACATCAAGAAACCCCTAAAAATCTGTATTAACTTCTTTGAAAATTCATTTG
Found at i:12195 original size:58 final size:56
Alignment explanation
Indices: 12088--12264 Score: 203
Period size: 58 Copynumber: 3.1 Consensus size: 56
12078 AATTCTTTTG
* * * * **
12088 AAGAAACTTCCGAAAATCGGACTTAGTTTCTTTCAAAA-CTCATTTGAAAATTGTC
1 AAGAAACTTCTGAAAATCAGACTTAGTTTTTTTTAAAAGCTCATTTGAAAATAATC
*
12143 AAGAAACTTCTGAAAATCAGAATTAGTTTTTTTTTTAAAAGCTCATTTGAAAATAATC
1 AAGAAACTTCTGAAAATCAGACTTAG--TTTTTTTTAAAAGCTCATTTGAAAATAATC
* * * * * * *
12201 AAGAAACTCCTGAAAATTATACTTAGTTTTTTTTGAAAGGTCATTTAAAAATCATC
1 AAGAAACTTCTGAAAATCAGACTTAGTTTTTTTTAAAAGCTCATTTGAAAATAATC
12257 AAGAAACT
1 AAGAAACT
12265 CCTTGAAATA
Statistics
Matches: 104, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
55 23 0.22
56 34 0.33
57 10 0.10
58 37 0.36
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (56 bp):
AAGAAACTTCTGAAAATCAGACTTAGTTTTTTTTAAAAGCTCATTTGAAAATAATC
Found at i:12282 original size:56 final size:56
Alignment explanation
Indices: 12088--12282 Score: 180
Period size: 56 Copynumber: 3.5 Consensus size: 56
12078 AATTCTTTTG
** * * * **
12088 AAGAAACTTCC-GAAAATCGGACTTAGTTTCTTTCAAAA-CTCATTTGAAAATTGTC
1 AAGAAAC-TCCTGAAAATAAGACTTAGTTTTTTTTAAAAGCTCATTTAAAAATAATC
* * * *
12143 AAGAAACTTCTGAAAATCAGAATTAGTTTTTTTTTTAAAAGCTCATTTGAAAATAATC
1 AAGAAACTCCTGAAAATAAGACTTAG--TTTTTTTTAAAAGCTCATTTAAAAATAATC
* * * * *
12201 AAGAAACTCCTGAAAATTATACTTAGTTTTTTTTGAAAGGTCATTTAAAAATCATC
1 AAGAAACTCCTGAAAATAAGACTTAGTTTTTTTTAAAAGCTCATTTAAAAATAATC
*
12257 AAGAAACTCCTTG-AAATAAGGCTTAG
1 AAGAAACTCC-TGAAAATAAGACTTAG
12283 ATTCTAAAAA
Statistics
Matches: 117, Mismatches: 18, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
54 2 0.02
55 20 0.17
56 46 0.39
57 12 0.10
58 37 0.32
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.34
Consensus pattern (56 bp):
AAGAAACTCCTGAAAATAAGACTTAGTTTTTTTTAAAAGCTCATTTAAAAATAATC
Found at i:14294 original size:23 final size:21
Alignment explanation
Indices: 14241--14295 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 21
14231 TGTTTGATAA
14241 TTTTCTCTTTTTTTCTCTATTT
1 TTTTCT-TTTTTTTCTCTATTT
14263 TTTTACTTTTTTCTTCTCT-TCTT
1 TTTT-CTTTTTT-TTCTCTAT-TT
14286 TCTTTCTTTT
1 T-TTTCTTTT
14296 ATCTAATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 10 0.34
23 16 0.55
24 3 0.10
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTCTTTTTTTTCTCTATTT
Found at i:17968 original size:35 final size:35
Alignment explanation
Indices: 17929--18030 Score: 116
Period size: 35 Copynumber: 2.9 Consensus size: 35
17919 ATTGGTGGTT
* * *
17929 ATATAGACGTTAAATGGTGATAGAAGATGGTAATG
1 ATATAGGCGTAAAATGGTGATGGAAGATGGTAATG
* * *
17964 ATATAGGCG-AGCAATGGTAATGGAAGATGGTGATG
1 ATATAGGCGTA-AAATGGTGATGGAAGATGGTAATG
*
17999 TTATAGGCGTGAAAATGGTGATGGAAGATGGT
1 ATATAGGCGT-AAAATGGTGATGGAAGATGGT
18031 GATGTTTAGG
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
35 36 0.65
36 18 0.33
37 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.34, T:0.26
Consensus pattern (35 bp):
ATATAGGCGTAAAATGGTGATGGAAGATGGTAATG
Found at i:18023 original size:36 final size:35
Alignment explanation
Indices: 17940--18040 Score: 132
Period size: 35 Copynumber: 2.9 Consensus size: 35
17930 TATAGACGTT
* * *
17940 AAATGGTGATAGAAGATGGTAATGATATAGGCGAG
1 AAATGGTGATGGAAGATGGTGATGTTATAGGCGAG
* * *
17975 CAATGGTAATGGAAGATGGTGATGTTATAGGCGTG
1 AAATGGTGATGGAAGATGGTGATGTTATAGGCGAG
18010 AAAATGGTGATGGAAGATGGTGATGTT-TAGG
1 -AAATGGTGATGGAAGATGGTGATGTTATAGG
18041 TAGTATCTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
35 33 0.58
36 24 0.42
ACGTcount: A:0.34, C:0.03, G:0.37, T:0.27
Consensus pattern (35 bp):
AAATGGTGATGGAAGATGGTGATGTTATAGGCGAG
Found at i:27156 original size:68 final size:68
Alignment explanation
Indices: 27015--27578 Score: 248
Period size: 68 Copynumber: 8.0 Consensus size: 68
27005 GAAATAATTT
* * **
27015 TTTTTTATCTCATTTGAGATAGTTTTCCTTAAAACAAATCTCATCTCACTCGAGATA---CCT-T
1 TTTTTTATCTCACTTGAGATAGTTTT-CTTAAAA-AAATTTTGTCTCACTCGAGATAGTTCCTCT
27076 TGGAAA
64 T-GAAA
*
27082 TTTTTTTATCTCACTTGAGATAGTTTTGCTTAAAACAAATTTTGTCTCTCTCGAGATAGTTCCTC
1 -TTTTTTATCTCACTTGAGATAGTTTT-CTTAAAA-AAATTTTGTCTCACTCGAGATAGTTCCTC
*
27147 TTGAAT
63 TTGAAA
* ** ** ** *
27153 TTTTTTTTCTTGCTTGAGATAGTTTTCTCT-TGAATTTTTTGTCTCACTCGAGATAGTTTCTCTT
1 TTTTTTATCTCACTTGAGATAGTTTTCT-TAAAAAAATTTTGTCTCACTCGAGATAGTTCCTCTT
27217 GAAATAAA
65 G----AAA
* ** * *
27225 TTTTTTTATCTCACTTGAGATAGTTTTATTTTGAAATATTTTGTCTCACTCGAGATAGTTTCTCT
1 -TTTTTTATCTCACTTGAGATAGTTTT-CTTAAAAAAATTTTGTCTCACTCGAGATAGTTCCTCT
*
27290 AGAAACAAA
64 TG----AAA
* * * ** * * * *
27299 ATTTTTATTTCGGC-TGAGATAGTTTTCTCT-TGAAAA-TTTGTCTCACTCAAGACAGTTTCACT
1 TTTTTTATCTC-ACTTGAGATAGTTTTCT-TAAAAAAATTTTGTCTCACTCGAGATAGTTCCTCT
27361 TGAAACAAA
64 TG----AAA
** ** * *
27370 AATTTTATCTCACTTGAGATAGTTTTCTCT-TGAAAATTTTCGTCTCACTCAAGACAGTTTCTCT
1 TTTTTTATCTCACTTGAGATAGTTTTCT-TAAAAAAATTTT-GTCTCACTCGAGATAG-TTC-CT
***
27434 CAAACAAA
62 C-TTGAAA
*** * ** * *
27442 AACTTTATCTCACTTGAGATAGTTTTATCTT-GAAATTTTTTGTCTCACTCGAGATAGTTTCTCA
1 TTTTTTATCTCACTTGAGATAG-TTT-TCTTAAAAAAATTTTGTCTCACTCGAGATAGTTCCTCT
*
27506 CGAAA
64 TGAAA
**** * * * ** * *
27511 AGAATTATCTCACTTGAGATATTTTATTTTGAAATAAATTTCATCTCACTCGAGAAAGTTTCTCT
1 TTTTTTATCTCACTTGAGATAGTTT-TCTT-AAAAAAATTTTGTCTCACTCGAGATAGTTCCTCT
27576 TGA
64 TGA
27579 GACAAAAACT
Statistics
Matches: 403, Mismatches: 69, Indels: 46
0.78 0.13 0.09
Matches are distributed among these distances:
68 86 0.21
69 25 0.06
70 55 0.14
71 70 0.17
72 49 0.12
73 72 0.18
74 44 0.11
75 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (68 bp):
TTTTTTATCTCACTTGAGATAGTTTTCTTAAAAAAATTTTGTCTCACTCGAGATAGTTCCTCTTG
AAA
Found at i:27176 original size:34 final size:33
Alignment explanation
Indices: 27121--27504 Score: 151
Period size: 35 Copynumber: 10.8 Consensus size: 33
27111 TTAAAACAAA
* *
27121 TTTTGTCTCTCTCGAGATAGTTCCTCTTGAATTT
1 TTTTGTCTCACTCGAGATAGTTTCTCTTGAA-TT
* ** *
27155 TTTTTTCTTGCTTGAGATAGTTTTCTCTTGAATT
1 TTTTGTCTCACTCGAGATAG-TTTCTCTTGAATT
27189 TTTTGTCTCACTCGAGATAGTTTCTCTTGAAATAAATTT
1 TTTTGTCTCACTCGAGATAGTTTCTCTTG-----AA-TT
* * * * *
27228 TTTTATCTCACTTGAGATAGTTTTATTTTGAAATA
1 TTTTGTCTCACTCGAGATAG-TTTCTCTTG-AATT
* *
27263 TTTTGTCTCACTCGAGATAGTTTCTCTAGAAACAAAAT
1 TTTTGTCTCACTCGAGATAGTTTCTCTTG-----AATT
* * * *
27301 TTTTATTTCGGCT-GAGATAGTTTTCTCTTGAA-A
1 TTTTGTCTC-ACTCGAGATAG-TTTCTCTTGAATT
* * * * **
27334 ATTTGTCTCACTCAAGACAGTTTCACTTGAAACAAAAA
1 TTTTGTCTCACTCGAGATAGTTTCTCTTG-----AATT
* * *
27372 TTTTATCTCACTTGAGATAGTTTTCTCTTGAAAAT
1 TTTTGTCTCACTCGAGATAG-TTTCTCTTG-AATT
* * * ** **
27407 TTTCGTCTCACTCAAGACAGTTTCTCTCAAACAAAAA
1 TTTTGTCTCACTCGAGATAGTTTCTCT----TGAATT
* * * *
27444 CTTTATCTCACTTGAGATAGTTTTATCTTGAAATT
1 TTTTGTCTCACTCGAGATAG-TTTCTCTTG-AATT
27479 TTTTGTCTCACTCGAGATAGTTTCTC
1 TTTTGTCTCACTCGAGATAGTTTCTC
27505 ACGAAAAGAA
Statistics
Matches: 259, Mismatches: 63, Indels: 56
0.69 0.17 0.15
Matches are distributed among these distances:
32 10 0.04
33 20 0.08
34 54 0.21
35 67 0.26
36 3 0.01
37 19 0.07
38 41 0.16
39 38 0.15
40 7 0.03
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.45
Consensus pattern (33 bp):
TTTTGTCTCACTCGAGATAGTTTCTCTTGAATT
Found at i:27253 original size:20 final size:20
Alignment explanation
Indices: 27228--27285 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
27218 AAATAAATTT
27228 TTTTATCTCACTTGAGATAG
1 TTTTATCTCACTTGAGATAG
*
27248 TTTTAT-T---TTGAAATA-
1 TTTTATCTCACTTGAGATAG
* *
27263 TTTTGTCTCACTCGAGATAG
1 TTTTATCTCACTTGAGATAG
27283 TTT
1 TTT
27286 CTCTAGAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
15 5 0.17
16 8 0.28
19 7 0.24
20 9 0.31
ACGTcount: A:0.24, C:0.12, G:0.14, T:0.50
Consensus pattern (20 bp):
TTTTATCTCACTTGAGATAG
Found at i:27259 original size:40 final size:39
Alignment explanation
Indices: 27187--27304 Score: 111
Period size: 39 Copynumber: 3.1 Consensus size: 39
27177 TTCTCTTGAA
* *
27187 TTTTTTGTCTCACTCGAGATAGTTTCTCTTGAAATAAAT
1 TTTTTTATCTCACTCGAGATAGTTTATCTTGAAATAAAT
* *
27226 TTTTTTATCTCACTTGAGATAGTTTTATTTTGAAAT--A-
1 TTTTTTATCTCACTCGAGATAG-TTTATCTTGAAATAAAT
* * * * *
27263 --TTTTGTCTCACTCGAGATAGTTTCTCTAGAAACAAAA
1 TTTTTTATCTCACTCGAGATAGTTTATCTTGAAATAAAT
27300 TTTTT
1 TTTTT
27305 ATTTCGGCTG
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
34 9 0.14
35 18 0.29
36 1 0.02
38 1 0.02
39 23 0.37
40 11 0.17
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (39 bp):
TTTTTTATCTCACTCGAGATAGTTTATCTTGAAATAAAT
Found at i:27305 original size:73 final size:73
Alignment explanation
Indices: 27084--27713 Score: 545
Period size: 73 Copynumber: 8.8 Consensus size: 73
27074 TTTGGAAATT
** * * *
27084 TTTTTATCTCACTTGAGATAGTTTTGCT-TAAAACAAATTTTGTCTCTCTCGAGATAGTTCCTCT
1 TTTTTATCTCACTTGAGATAGTTTT-CTCTTGAA-ATATTTTGTCTCACTCGAGATAGTTTCTCT
**
27148 TG----AATT
64 TGAAACAAAA
* ** *
27154 TTTTTTTCTTGCTTGAGATAGTTTTCTCTTG-AATTTTTTGTCTCACTCGAGATAGTTTCTCTTG
1 TTTTTATCTCACTTGAGATAGTTTTCTCTTGAAATATTTTGTCTCACTCGAGATAGTTTCTCTTG
* *
27218 AAATAAATT
66 AAACAAA-A
* * *
27227 TTTTTATCTCACTTGAGATAGTTTTATTTTGAAATATTTTGTCTCACTCGAGATAGTTTCTCTAG
1 TTTTTATCTCACTTGAGATAGTTTTCTCTTGAAATATTTTGTCTCACTCGAGATAGTTTCTCTTG
27292 AAACAAAA
66 AAACAAAA
* * * * *
27300 TTTTTATTTCGGC-TGAGATAGTTTTCTCTTGAAA-A-TTTGTCTCACTCAAGACAGTTTCACTT
1 TTTTTATCTC-ACTTGAGATAGTTTTCTCTTGAAATATTTTGTCTCACTCGAGATAGTTTCTCTT
27362 GAAACAAAA
65 GAAACAAAA
* * *
27371 ATTTTATCTCACTTGAGATAGTTTTCTCTTGAAA-ATTTTCGTCTCACTCAAGACAGTTTCTC-T
1 TTTTTATCTCACTTGAGATAGTTTTCTCTTGAAATATTTT-GTCTCACTCGAGATAGTTTCTCTT
*
27434 CAAACAAAA
65 GAAACAAAA
** * * **
27443 ACTTTATCTCACTTGAGATAGTTTTATCTTGAAATTTTTTGTCTCACTCGAGATAGTTTCTCACG
1 TTTTTATCTCACTTGAGATAGTTTTCTCTTGAAATATTTTGTCTCACTCGAGATAGTTTCTCTTG
*
27508 AAA-AGAA
66 AAACAAAA
* * ** *
27515 ---TTATCTCACTTGAGATA-TTTTATTTTGAAATAAATTTCATCTCACTCGAGAAAGTTTCTCT
1 TTTTTATCTCACTTGAGATAGTTTTCTCTTGAAAT--ATTTTGTCTCACTCGAGATAGTTTCTCT
*
27576 TGAGACAAAA
64 TGAAACAAAA
** * * * * *
27586 ACTTTAT-T-ACCTTTGAGATAGCTTTCTCTTGAAA-ATTGTT-TCCTAACTCAAGACAGTTTAT
1 TTTTTATCTCA-C-TTGAGATAGTTTTCTCTTGAAATATT-TTGT-CTCACTCGAGATAGTTTCT
27647 CTCT-AAAC-AAA
62 CT-TGAAACAAAA
* * *
27658 TTTTTAACTTACTTGAGATA-TTTTCTCTTG-AAT-TTTTTTCTCACTCGAGATAGTTT
1 TTTTTATCTCACTTGAGATAGTTTTCTCTTGAAATATTTTGTCTCACTCGAGATAGTTT
27714 TTGAAAATAA
Statistics
Matches: 466, Mismatches: 65, Indels: 59
0.79 0.11 0.10
Matches are distributed among these distances:
68 41 0.09
69 36 0.08
70 55 0.12
71 74 0.16
72 90 0.19
73 108 0.23
74 52 0.11
75 10 0.02
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (73 bp):
TTTTTATCTCACTTGAGATAGTTTTCTCTTGAAATATTTTGTCTCACTCGAGATAGTTTCTCTTG
AAACAAAA
Found at i:27383 original size:38 final size:38
Alignment explanation
Indices: 27331--27455 Score: 111
Period size: 38 Copynumber: 3.4 Consensus size: 38
27321 TTTTCTCTTG
* *
27331 AAAA-TTTGTCTCACTCAAGACAGTTTCACTTGAAACA
1 AAAATTTTATCTCACTCAAGACAGTTTCTCTTGAAACA
** *
27368 AAAATTTTATCTCACTTGAGATAGTTTTCTCTTG-----
1 AAAATTTTATCTCACTCAAGACAG-TTTCTCTTGAAACA
* *
27402 AAAATTTTCGTCTCACTCAAGACAGTTTCTC-TCAAACA
1 AAAATTTT-ATCTCACTCAAGACAGTTTCTCTTGAAACA
*
27440 AAAACTTTATCTCACT
1 AAAATTTTATCTCACT
27456 TGAGATAGTT
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
33 1 0.01
34 14 0.21
35 12 0.18
37 11 0.16
38 22 0.32
39 8 0.12
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.36
Consensus pattern (38 bp):
AAAATTTTATCTCACTCAAGACAGTTTCTCTTGAAACA
Found at i:27460 original size:72 final size:71
Alignment explanation
Indices: 27165--27713 Score: 487
Period size: 72 Copynumber: 7.7 Consensus size: 71
27155 TTTTTTCTTG
** * * **
27165 CTTGAGATAGTTTTCTCTTGAATTTTTTGTCTCACTCGAGATAGTTTCTCTTGAAATAAATTTTT
1 CTTGAGATAGTTTTCTCTTGAAAATTTTGTCTCACTCGAGACAGTTTCTC-TGAAACAAA-AATT
27230 TTATCTCA
64 TTATCTCA
* * * *
27238 CTTGAGATAGTTTTATTTTGAAATATTTTGTCTCACTCGAGATAGTTTCTCTAGAAACAAAATTT
1 CTTGAGATAGTTTTCTCTTGAAA-ATTTTGTCTCACTCGAGACAGTTTCTCT-GAAACAAAAATT
* *
27303 TTATTTCGG
64 TTATCTC-A
* *
27312 C-TGAGATAGTTTTCTCTTGAAAA-TTTGTCTCACTCAAGACAGTTTCACTTGAAACAAAAATTT
1 CTTGAGATAGTTTTCTCTTGAAAATTTTGTCTCACTCGAGACAGTTTCTC-TGAAACAAAAATTT
27375 TATCTCA
65 TATCTCA
* * *
27382 CTTGAGATAGTTTTCTCTTGAAAATTTTCGTCTCACTCAAGACAGTTTCTCTCAAACAAAAACTT
1 CTTGAGATAGTTTTCTCTTGAAAATTTT-GTCTCACTCGAGACAGTTTCTCTGAAACAAAAATTT
27447 TATCTCA
65 TATCTCA
* * * * *
27454 CTTGAGATAGTTTTATCTTGAAATTTTTTGTCTCACTCGAGATAGTTTCTCACG-AA-AAGAA--
1 CTTGAGATAGTTTTCTCTTGAAA-ATTTTGTCTCACTCGAGACAGTTTCTC-TGAAACAAAAATT
27515 TTATCTCA
64 TTATCTCA
* * ** * *
27523 CTTGAGATA-TTTTATTTTGAAATAAATTTCATCTCACTCGAGAAAGTTTCTCTTGAGACAAAAA
1 CTTGAGATAGTTTTCTCTTG--A-AAATTTTGTCTCACTCGAGACAGTTTCTC-TGAAACAAAAA
*
27587 CTTTAT-T-A
62 TTTTATCTCA
* * *
27595 CCTTTGAGATAGCTTTCTCTTGAAAATTGTT-TCCTAACTCAAGACAGTTTATCTCT-AAAC-AA
1 -C-TTGAGATAGTTTTCTCTTGAAAATT-TTGT-CTCACTCGAGACAG-TT-TCTCTGAAACAAA
* * *
27657 ATTTTTAACTTA
60 AATTTTATCTCA
* * *
27669 CTTGAGATA-TTTTCTCTTG-AATTTTTTTCTCACTCGAGATAGTTT
1 CTTGAGATAGTTTTCTCTTGAAAATTTTGTCTCACTCGAGACAGTTT
27714 TTGAAAATAA
Statistics
Matches: 399, Mismatches: 51, Indels: 58
0.79 0.10 0.11
Matches are distributed among these distances:
67 1 0.00
68 11 0.03
69 30 0.08
70 31 0.08
71 77 0.19
72 94 0.24
73 94 0.24
74 50 0.13
75 11 0.03
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (71 bp):
CTTGAGATAGTTTTCTCTTGAAAATTTTGTCTCACTCGAGACAGTTTCTCTGAAACAAAAATTTT
ATCTCA
Found at i:27466 original size:37 final size:36
Alignment explanation
Indices: 27228--27467 Score: 107
Period size: 38 Copynumber: 6.7 Consensus size: 36
27218 AAATAAATTT
* **** *
27228 TTTTATCTCACTTGAGATAGTTTTAT-TTTGAAATA
1 TTTTATCTCACTTGAGATAGTTTTCTCAAACAAAAA
* * * *
27263 TTTTGTCTCACTCGAGATAGTTTCTCTAGAAACAAAAT
1 TTTTATCTCACTTGAGATAGTTT-TCT-CAAACAAAAA
* * ***
27301 TTTTATTTCGGC-TGAGATAGTTTTCTC--TTGAAAA
1 TTTTATCTC-ACTTGAGATAGTTTTCTCAAACAAAAA
* ** * * *
27335 -TTTGTCTCACTCAAGACAGTTTCACTTGAAACAAAAA
1 TTTTATCTCACTTGAGATAGTTT-TC-TCAAACAAAAA
***
27372 TTTTATCTCACTTGAGATAGTTTTCTC--TTGAAAA
1 TTTTATCTCACTTGAGATAGTTTTCTCAAACAAAAA
* ** *
27406 TTTTCGTCTCACTCAAGACAGTTTCTCTCAAACAAAAA
1 TTTT-ATCTCACTTGAGATAGTTT-TCTCAAACAAAAA
*
27444 CTTTATCTCACTTGAGATAGTTTT
1 TTTTATCTCACTTGAGATAGTTTT
27468 ATCTTGAAAT
Statistics
Matches: 141, Mismatches: 50, Indels: 27
0.65 0.23 0.12
Matches are distributed among these distances:
32 1 0.01
33 14 0.10
34 12 0.09
35 37 0.26
36 8 0.06
37 23 0.16
38 45 0.32
39 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (36 bp):
TTTTATCTCACTTGAGATAGTTTTCTCAAACAAAAA
Found at i:27550 original size:143 final size:143
Alignment explanation
Indices: 27165--27619 Score: 488
Period size: 143 Copynumber: 3.2 Consensus size: 143
27155 TTTTTTCTTG
27165 CTTGAGATAGTTTTCTCTTG-AATTTTTTGTCTCACTCGAGATAGTTTCTCTTGAAATAAATTTT
1 CTTGAGATAGTTTTCTCTTGAAATTTTTTGTCTCACTCGAGATAGTTTCTCTTGAAA-AAA----
*
27229 TTTATCTCACTTGAGATAGTTTTATTTTGAAAT--ATTTT-GTCTCACTCGAGATAGTTTCTCTA
61 TTTATCTCACTTGAGATAGTTTTATTTTGAAATAAATTTTCGTCTCACTCGAGAAAGTTTCTCT-
** *
27291 GAAACAAAATTTTTATTTCGG
125 GAAACAAAAACTTTA-TTC-A
* * * *
27312 C-TGAGATAGTTTTCTCTTGAAA--ATTTGTCTCACTCAAGACAGTTTCACTTGAAACAAAAATT
1 CTTGAGATAGTTTTCTCTTGAAATTTTTTGTCTCACTCGAGATAGTTTCTCTTG--A-AAAAA-T
* * * * *
27374 TTATCTCACTTGAGATAGTTTTCTCTTG--A-AAATTTTCGTCTCACTCAAGACAGTTTCTCTCA
62 TTATCTCACTTGAGATAGTTTTATTTTGAAATAAATTTTCGTCTCACTCGAGAAAGTTTCTCTGA
27436 AACAAAAACTTTATCTCA
127 AACAAAAACTTTAT-TCA
* **
27454 CTTGAGATAGTTTTATCTTGAAATTTTTTGTCTCACTCGAGATAGTTTCTCACGAAAAGAA-TTA
1 CTTGAGATAGTTTTCTCTTGAAATTTTTTGTCTCACTCGAGATAGTTTCTCTTGAAAA-AATTTA
* *
27518 TCTCACTTGAGATA-TTTTATTTTGAAATAAA-TTTCATCTCACTCGAGAAAGTTTCTCTTGAGA
65 TCTCACTTGAGATAGTTTTATTTTGAAATAAATTTTCGTCTCACTCGAGAAAGTTTCTC-TGAAA
27581 CAAAAACTTTATT-A
129 CAAAAACTTTATTCA
*
27595 CCTTTGAGATAGCTTTCTCTTGAAA
1 -C-TTGAGATAGTTTTCTCTTGAAA
27620 ATTGTTTCCT
Statistics
Matches: 262, Mismatches: 28, Indels: 40
0.79 0.08 0.12
Matches are distributed among these distances:
140 8 0.03
141 18 0.07
142 32 0.12
143 80 0.31
144 49 0.19
145 48 0.18
146 18 0.07
147 7 0.03
148 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (143 bp):
CTTGAGATAGTTTTCTCTTGAAATTTTTTGTCTCACTCGAGATAGTTTCTCTTGAAAAAATTTAT
CTCACTTGAGATAGTTTTATTTTGAAATAAATTTTCGTCTCACTCGAGAAAGTTTCTCTGAAACA
AAAACTTTATTCA
Found at i:29517 original size:16 final size:16
Alignment explanation
Indices: 29496--29565 Score: 122
Period size: 16 Copynumber: 4.4 Consensus size: 16
29486 AAGATTACAT
29496 GGGCAAAGTTATAAAA
1 GGGCAAAGTTATAAAA
29512 GGGCAAAGTTATAAAA
1 GGGCAAAGTTATAAAA
*
29528 TGGCAAAGTTATAAAA
1 GGGCAAAGTTATAAAA
*
29544 GGGAAAAGTTATAAAA
1 GGGCAAAGTTATAAAA
29560 GGGCAA
1 GGGCAA
29566 GATTTTTGGT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.50, C:0.06, G:0.26, T:0.19
Consensus pattern (16 bp):
GGGCAAAGTTATAAAA
Found at i:35962 original size:64 final size:65
Alignment explanation
Indices: 35894--36055 Score: 254
Period size: 65 Copynumber: 2.5 Consensus size: 65
35884 GGTGCACTAA
* * *
35894 GTGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAT-AAGCCTAAGTTCATCGATGCATGGT
1 GTGTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAAACCTAAGTGCATCGATGCATGGT
* * *
35958 GTGTGCATCGATGCAAAAAATGCATTCGATGTTTTCATTAAAACCTGAGTGCATCGATGCATGGT
1 GTGTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAAACCTAAGTGCATCGATGCATGGT
*
36023 ATGTGCATCGATGCATAAAATGCATTCGATGTT
1 GTGTGCATCGATGCATAAAATGCATTCGATGTT
36056 CAATTTATTC
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
64 36 0.40
65 53 0.60
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (65 bp):
GTGTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAAACCTAAGTGCATCGATGCATGGT
Found at i:36094 original size:65 final size:63
Alignment explanation
Indices: 35896--36095 Score: 180
Period size: 65 Copynumber: 3.1 Consensus size: 63
35886 TGCACTAAGT
** *
35896 GTGCATCGATGCATAAAATGCATTCGATGTTTTGAA-TAAGCCTAA--GTTCATCGATGCATGG-
1 GTGCATCGATGCATAAAATGCATTCGATG--TT-AATTAATTC-AACGGTGCATCGATGCATGGA
35957 TG
62 TG
* * *
35959 TGTGCATCGATGCAAAAAATGCATTCGATGTT--TTCATTAAAACCTGAGTGCATCGATGCATGG
1 -GTGCATCGATGCATAAAATGCATTCGATGTTAATTAATT-CAA-C-G-GTGCATCGATGCATGG
36022 TAT-
61 -ATG
*
36025 GTGCATCGATGCATAAAATGCATTCGATGTTCAATTTATTCAACGGTGCATCGATGCATGGATCG
1 GTGCATCGATGCATAAAATGCATTCGATGTT-AATTAATTCAACGGTGCATCGATGCATGGAT-G
36090 GTGCAT
1 GTGCAT
36096 TGGTGCATTC
Statistics
Matches: 113, Mismatches: 9, Indels: 27
0.76 0.06 0.18
Matches are distributed among these distances:
60 4 0.04
62 2 0.02
63 2 0.02
64 44 0.39
65 52 0.46
66 1 0.01
67 3 0.03
68 5 0.04
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (63 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTAATTAATTCAACGGTGCATCGATGCATGGATG
Found at i:44261 original size:916 final size:916
Alignment explanation
Indices: 42916--44704 Score: 3443
Period size: 916 Copynumber: 2.0 Consensus size: 916
42906 GATTGGGTCA
*
42916 TTCTCTTTTGGTTCATTTTTAAGTCTTCATTTCGTTTGAATTTTCTTCCTCGGTTAGACCTCATC
1 TTCTCTTTTGGTTCATTTTTAAGTCATCATTTCGTTTGAATTTTCTTCCTCGGTTAGACCTCATC
42981 ATTTTTCTGAACCGTTTGGCAAACAATGCCATTTCCTCATCATCATCATCGTAATCTGAATCACT
66 ATTTTTCTGAACCGTTTGGCAAACAATGCCATTTCCTCATCATCATCATCGTAATCTGAATCACT
43046 CTCATCTTTTATAGATTTGAGAGCAACTCCAATGTTTTTCTTCTTCTCCTTCTCATTTGGTGTCT
131 CTCATCTTTTATAGATTTGAGAGCAACTCCAATGTTTTTCTTCTTCTCCTTCTCATTTGGTGTCT
43111 TGTCAATCTTATCGAGGTCCACCTCATCTTCAAGCATCATTTCATGAGTGAGGAGGGAACCCATT
196 TGTCAATCTTATCGAGGTCCACCTCATCTTCAAGCATCATTTCATGAGTGAGGAGGGAACCCATT
* *
43176 AGCTCTTCAAGAGTTAAGGACTTTAGGTTCTTAGCTTCGATGATTGTCGTCTTCTTTGATTGCCA
261 AGCTCTTCAAGAGTTAAGGACTTTAGGTTCTTAGCCTCGATGATTATCGTCTTCTTTGATTGCCA
*
43241 TGATTTTAGAAGTGAGTAAACTAACTTCCTCATAAGTTTTTCGTTTGGAATGATCTCTCTGTATG
326 TGATTTTAGAAGTGAGTAAACTAACTTCCTCATAAGTTTTTCGTTTGGAATGATCTCTCCGTATG
43306 ATTTGAGACCATTGAACATCGTTAAAAATCTATCCGTCATAGCTTTGATATCTTTATTTGGTTTC
391 ATTTGAGACCATTGAACATCGTTAAAAATCTATCCGTCATAGCTTTGATATCTTTATTTGGTTTC
*
43371 ATCTTGAAATTTTCATAGCTATACGTTAGAAGACTAATTTTAGATTCTTTTACCTCGTTCGTACC
456 ATCTTGAAATTTTCATAGCTATACGTTAGAAGAATAATTTTAGATTCTTTTACCTCGTTCGTACC
*
43436 TTCATGAGTGACTTGTAGTTTATCCCATATTTCTTTAGTGGTTGTACAAGATGAAACTTTTCCAT
521 TTCATGAGTGACTTGTAGTTTATCCCATATTTCTTTAATGGTTGTACAAGATGAAACTTTTCCAT
43501 ATTCATCTAGTCCAAGAGCATAAAATATTATATGAATGGCTTTGGAGTTAAGCTGGAACATTCTT
586 ATTCATCTAGTCCAAGAGCATAAAATATTATATGAATGGCTTTGGAGTTAAGCTGGAACATTCTT
43566 GTCTCTCCTTCACTCAACAATCTTGGATGAGTGAGAGGATTGATATATTCATCTTCAATGATATT
651 GTCTCTCCTTCACTCAACAATCTTGGATGAGTGAGAGGATTGATATATTCATCTTCAATGATATT
43631 CCATGATTCCATTTCACTTGCTCGAATGAAATACATCGTACTATTCTTCCAATAGGCATAGTTAG
716 CCATGATTCCATTTCACTTGCTCGAATGAAATACATCGTACTATTCTTCCAATAGGCATAGTTAG
* *
43696 CTCCATTGAAGAAAGGAGGCTTGTTGACGGGCATCGAATCGAGACCAGATTCGAAGTTTGAAGTG
781 CTCCATTGAAGAAAGGAGGCTTGTTGACGGGCATCGAATCGAGACCAGATTCGAACTTTAAAGTG
43761 GAGGCCATTGATGACTTGATTATCGATGAAATACATCGTCCTATTCTTCCAATAGGCATAGTTAG
846 GAGGCCATTGATGACTTGATTATCGATGAAATACATCGTCCTATTCTTCCAATAGGCATAGTTAG
43826 CTCCAT
911 CTCCAT
43832 TTCTCTTTTGGTTCATTTTTAAGTCATCATTTCGTTTGAATTTTCTTCCTCGGTTAGACCTCATC
1 TTCTCTTTTGGTTCATTTTTAAGTCATCATTTCGTTTGAATTTTCTTCCTCGGTTAGACCTCATC
*
43897 ATTTTTCTGAACCGTTTGGCAAACAATGCCATTTCCTCATCATCGTCATCGTAATCTGAATCACT
66 ATTTTTCTGAACCGTTTGGCAAACAATGCCATTTCCTCATCATCATCATCGTAATCTGAATCACT
43962 CTCATCTTTTATAGATTTGAGAGCAACTCCAATGTTTTTCTTCTTCTCCTTCTCATTTGGTGTCT
131 CTCATCTTTTATAGATTTGAGAGCAACTCCAATGTTTTTCTTCTTCTCCTTCTCATTTGGTGTCT
44027 TGTCAATCTTATCGAGGTCCACCTCATCTTCAAGCATCATTTCATGAGTGAGGAGGGAACCCATT
196 TGTCAATCTTATCGAGGTCCACCTCATCTTCAAGCATCATTTCATGAGTGAGGAGGGAACCCATT
44092 AGCTCTTCAAGAGTTAAGGACTTTAGGTTCTTAGCCTCGATGATTATCGTCTTCTTTGATTGCCA
261 AGCTCTTCAAGAGTTAAGGACTTTAGGTTCTTAGCCTCGATGATTATCGTCTTCTTTGATTGCCA
44157 TGATTTTAGAAGTGAGTAAACTAACTTCCTCATAAGTTTTTCGTTTGGAATGATCTCTCCGTATG
326 TGATTTTAGAAGTGAGTAAACTAACTTCCTCATAAGTTTTTCGTTTGGAATGATCTCTCCGTATG
*
44222 ATTTGAGACCATTGAACATCGTTGAAAATCTATCCGTCATAGCTTTGATATCTTTATTTGGTTTC
391 ATTTGAGACCATTGAACATCGTTAAAAATCTATCCGTCATAGCTTTGATATCTTTATTTGGTTTC
*
44287 ATCTTGAAATTTTCATAGCTATGCGTTAGAAGAATAATTTTAGATTCTTTTACCTCGTTCGTACC
456 ATCTTGAAATTTTCATAGCTATACGTTAGAAGAATAATTTTAGATTCTTTTACCTCGTTCGTACC
44352 TTCATGAGTGACTTGTAGTTTATCCCATATTTCTTTAATGGTTGTACAAGATGAAACTTTTCCAT
521 TTCATGAGTGACTTGTAGTTTATCCCATATTTCTTTAATGGTTGTACAAGATGAAACTTTTCCAT
* *
44417 ATTCATCTAGTCCAAGAGCATAAAATATTGTATGAATGGCTTTGGAGTTGAGCTGGAACATTCTT
586 ATTCATCTAGTCCAAGAGCATAAAATATTATATGAATGGCTTTGGAGTTAAGCTGGAACATTCTT
*
44482 GTCTCTCTTTCACTCAACAATCTTGGATGAGTGAGAGGATTGATATATTCATCTTCAATGATATT
651 GTCTCTCCTTCACTCAACAATCTTGGATGAGTGAGAGGATTGATATATTCATCTTCAATGATATT
*
44547 CCATGATTCCATTTCACTTGCTCGAATGAAATACATCGTCCTATTCTTCCAATAGGCATAGTTAG
716 CCATGATTCCATTTCACTTGCTCGAATGAAATACATCGTACTATTCTTCCAATAGGCATAGTTAG
44612 CTCCATTGAAGAAAGGAGGCTTGTTGACGGGCATCGAATCGAGACCAGATTCGAACTTTAAAGTG
781 CTCCATTGAAGAAAGGAGGCTTGTTGACGGGCATCGAATCGAGACCAGATTCGAACTTTAAAGTG
44677 GAGGCCATTGATGACTTGATTATCGATG
846 GAGGCCATTGATGACTTGATTATCGATG
44705 TAACTCTTCC
Statistics
Matches: 858, Mismatches: 15, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
916 858 1.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.38
Consensus pattern (916 bp):
TTCTCTTTTGGTTCATTTTTAAGTCATCATTTCGTTTGAATTTTCTTCCTCGGTTAGACCTCATC
ATTTTTCTGAACCGTTTGGCAAACAATGCCATTTCCTCATCATCATCATCGTAATCTGAATCACT
CTCATCTTTTATAGATTTGAGAGCAACTCCAATGTTTTTCTTCTTCTCCTTCTCATTTGGTGTCT
TGTCAATCTTATCGAGGTCCACCTCATCTTCAAGCATCATTTCATGAGTGAGGAGGGAACCCATT
AGCTCTTCAAGAGTTAAGGACTTTAGGTTCTTAGCCTCGATGATTATCGTCTTCTTTGATTGCCA
TGATTTTAGAAGTGAGTAAACTAACTTCCTCATAAGTTTTTCGTTTGGAATGATCTCTCCGTATG
ATTTGAGACCATTGAACATCGTTAAAAATCTATCCGTCATAGCTTTGATATCTTTATTTGGTTTC
ATCTTGAAATTTTCATAGCTATACGTTAGAAGAATAATTTTAGATTCTTTTACCTCGTTCGTACC
TTCATGAGTGACTTGTAGTTTATCCCATATTTCTTTAATGGTTGTACAAGATGAAACTTTTCCAT
ATTCATCTAGTCCAAGAGCATAAAATATTATATGAATGGCTTTGGAGTTAAGCTGGAACATTCTT
GTCTCTCCTTCACTCAACAATCTTGGATGAGTGAGAGGATTGATATATTCATCTTCAATGATATT
CCATGATTCCATTTCACTTGCTCGAATGAAATACATCGTACTATTCTTCCAATAGGCATAGTTAG
CTCCATTGAAGAAAGGAGGCTTGTTGACGGGCATCGAATCGAGACCAGATTCGAACTTTAAAGTG
GAGGCCATTGATGACTTGATTATCGATGAAATACATCGTCCTATTCTTCCAATAGGCATAGTTAG
CTCCAT
Found at i:45530 original size:64 final size:64
Alignment explanation
Indices: 45460--45604 Score: 195
Period size: 64 Copynumber: 2.2 Consensus size: 64
45450 TGGAACACTT
* * *
45460 AGTGCATCGGTGCACTAAG-TGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAT-AAGCCT
1 AGTGCATCGATGCA-T-AGTTGTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAAACCT
45523 A
64 A
* * *
45524 AGTGCATCGATGCATGGTTTGTGCATCGATGCATAAAATGTATTCGATGTTTTCATTAAAACCTA
1 AGTGCATCGATGCATAG-TTGTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAAACCTA
45589 AGTGCATCGATGCATA
1 AGTGCATCGATGCATA
45605 AAATGCATTC
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 48 0.68
65 21 0.30
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (64 bp):
AGTGCATCGATGCATAGTTGTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAAACCTA
Found at i:45617 original size:64 final size:63
Alignment explanation
Indices: 45481--45618 Score: 170
Period size: 64 Copynumber: 2.2 Consensus size: 63
45471 GCACTAAGTG
* * ****
45481 TGCATCGATGCATAAAATGCATTCGATGTTTTGAATAAGCCTAAGTGCATCGATGCATGGTTTG
1 TGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAACCTAAGTGCATCGATGCAT-GAAAA
* *
45545 TGCATCGATGCATAAAATGTATTCGATGTTTTCATTAAAACCTAAGTGCATCGATGCAT-AAAA
1 TGCATCGATGCATAAAATGCATTCGATGTTTTCAAT-AAACCTAAGTGCATCGATGCATGAAAA
45608 TGCATTCGATG
1 TGCA-TCGATG
45619 TTCAATTTAT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
63 4 0.06
64 39 0.61
65 21 0.33
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (63 bp):
TGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAACCTAAGTGCATCGATGCATGAAAA
Found at i:58329 original size:137 final size:137
Alignment explanation
Indices: 58079--58329 Score: 299
Period size: 137 Copynumber: 1.8 Consensus size: 137
58069 ATAAATGGGA
* * *
58079 TATAAAGGTTATCGATCGATTTTTTTAAAGGATAACGGTGCATTTTCGTATCAGTACTATGTGTA
1 TATAAAAGTTATCGATCGATTTTTTTAAAGCATAACAGTGCATTTTCGTATCAGTACTATGTGTA
* * * ** * *
58144 CTTTTGGCACTAAATGTGCAATCATGGTATTCATAATGAGTTTGTGAATTACCATTTTGATATAT
66 CTTTCGGCACTAAATGTGCAACCACGAAATTCATAATAAGTTTATGAATTACCATTTTGATATAT
58209 AATTATG
131 AATTATG
* * * *
58216 TATAAAAGTTATCGATCGATTTTGTTTAATGCATAACAGTTCA-TTTCGTATCAGTACTCTTTGT
1 TATAAAAGTTATCGATCGATTTT-TTTAAAGCATAACAGTGCATTTTCGTATCAGTACTATGTGT
** * * *
58280 AC-TTCGGCACTATGTGTGTGACCCACGAAATTGATAATAAGTTTATGAAT
65 ACTTTCGGCACTAAATGTG-CAACCACGAAATTCATAATAAGTTTATGAAT
58330 AACCGTATCA
Statistics
Matches: 93, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
136 13 0.14
137 65 0.70
138 15 0.16
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.40
Consensus pattern (137 bp):
TATAAAAGTTATCGATCGATTTTTTTAAAGCATAACAGTGCATTTTCGTATCAGTACTATGTGTA
CTTTCGGCACTAAATGTGCAACCACGAAATTCATAATAAGTTTATGAATTACCATTTTGATATAT
AATTATG
Found at i:58545 original size:54 final size:54
Alignment explanation
Indices: 58287--58538 Score: 348
Period size: 54 Copynumber: 4.7 Consensus size: 54
58277 TGTACTTCGG
** * *
58287 CACTATGTGTGTGACCCAC-GAAATTGATAATAAGTTTATGAATAACCGTATC-A
1 CACTATGTGTGCAACCCACAG-AATTCATAATGAGTTTATGAATAACCGTATCGA
*
58340 GCACTATGTGTGCAACCCAC-GAAATTCATAATGAGTTTATGAATAACCGTATCGG
1 -CACTATGTGTGCAACCCACAG-AATTCATAATGAGTTTATGAATAACCGTATCGA
* * *
58395 TACTATATGTGCAACCCACAGAATACATAATGAGTTTATGAATAACCGTATCGA
1 CACTATGTGTGCAACCCACAGAATTCATAATGAGTTTATGAATAACCGTATCGA
58449 CACTATGTGTGCAACCCACAGAATTCATAATGAGTTTATGAATAACCGTATCGA
1 CACTATGTGTGCAACCCACAGAATTCATAATGAGTTTATGAATAACCGTATCGA
* ** *
58503 CACTATGTGTGCAATCCATGGAATTCATAATAAGTT
1 CACTATGTGTGCAACCCACAGAATTCATAATGAGTT
58539 CGTGAATTTC
Statistics
Matches: 180, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
54 179 0.99
55 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (54 bp):
CACTATGTGTGCAACCCACAGAATTCATAATGAGTTTATGAATAACCGTATCGA
Found at i:62200 original size:90 final size:90
Alignment explanation
Indices: 62038--62216 Score: 304
Period size: 90 Copynumber: 2.0 Consensus size: 90
62028 TTGGGAAGTT
* * *
62038 GAGAAAAGTTGAGGATAAAATCTTAAATATGGAAACGTTGGGAACTCAAATGAAAGTGTTATGTA
1 GAGAAAAGTTGAGGATAAAATATTAAATATGGAAAAGTTGGGAACTCAAATGAAAGTGTAATGTA
62103 AAATTTGGATAAATTGGATAGAAAG
66 AAATTTGGATAAATTGGATAGAAAG
* *
62128 GAGAAAAGTTGAGGATAAAATATTAAATATGGAAAAGTTGGGAACTTAAATGAAAGTGTAATGTG
1 GAGAAAAGTTGAGGATAAAATATTAAATATGGAAAAGTTGGGAACTCAAATGAAAGTGTAATGTA
*
62193 AAGTTTGGATAAATTGGATAGAAA
66 AAATTTGGATAAATTGGATAGAAA
62217 TGAGTTGGAA
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 83 1.00
ACGTcount: A:0.45, C:0.03, G:0.25, T:0.27
Consensus pattern (90 bp):
GAGAAAAGTTGAGGATAAAATATTAAATATGGAAAAGTTGGGAACTCAAATGAAAGTGTAATGTA
AAATTTGGATAAATTGGATAGAAAG
Found at i:64633 original size:37 final size:37
Alignment explanation
Indices: 64573--64649 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
64563 TATATTTTTG
* *
64573 TTATTTTTTTATTTTTCTAATTTATATATTTATTAC-T
1 TTATTTTGTTATTTTTCTAATTTAAATATTT-TTACAT
*
64610 TTATTTTGTTATTTTTAGT-ATTTAAATATTTTTACAT
1 TTATTTTGTTATTTTT-CTAATTTAAATATTTTTACAT
64647 TTA
1 TTA
64650 ATGTTCATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 4 0.11
37 30 0.86
38 1 0.03
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.68
Consensus pattern (37 bp):
TTATTTTGTTATTTTTCTAATTTAAATATTTTTACAT
Found at i:66287 original size:2 final size:2
Alignment explanation
Indices: 66282--66330 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
66272 TTCCCCGAAT
* * *
66282 GA GA GA GA TA TA GA GA GA GA GA TA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
66324 GA GA GA G
1 GA GA GA G
66331 TAATAGCTCT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.45, T:0.06
Consensus pattern (2 bp):
GA
Found at i:66301 original size:14 final size:14
Alignment explanation
Indices: 66282--66330 Score: 80
Period size: 14 Copynumber: 3.5 Consensus size: 14
66272 TTCCCCGAAT
*
66282 GAGAGAGATATAGA
1 GAGAGAGATAGAGA
66296 GAGAGAGATAGAGA
1 GAGAGAGATAGAGA
*
66310 GAGAGAGAGAGAGA
1 GAGAGAGATAGAGA
66324 GAGAGAG
1 GAGAGAG
66331 TAATAGCTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.45, T:0.06
Consensus pattern (14 bp):
GAGAGAGATAGAGA
Found at i:66674 original size:19 final size:19
Alignment explanation
Indices: 66650--66695 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
66640 TCTCTCTCTC
66650 TCCCCTTTTGAAAAAGGTT
1 TCCCCTTTTGAAAAAGGTT
*
66669 TCCCCTTTTGAAAATGGTT
1 TCCCCTTTTGAAAAAGGTT
*
66688 TCCTCTTT
1 TCCCCTTT
66696 CTTTGGTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (19 bp):
TCCCCTTTTGAAAAAGGTT
Found at i:66704 original size:16 final size:17
Alignment explanation
Indices: 66683--66716 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
66673 CTTTTGAAAA
*
66683 TGGTTTC-CTCTTTCTT
1 TGGTTTCTCTCTTCCTT
66699 TGGTTTCTCTCTTCCTT
1 TGGTTTCTCTCTTCCTT
66716 T
1 T
66717 TCTGTTCCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.00, C:0.26, G:0.12, T:0.62
Consensus pattern (17 bp):
TGGTTTCTCTCTTCCTT
Found at i:67217 original size:3 final size:3
Alignment explanation
Indices: 67202--67267 Score: 105
Period size: 3 Copynumber: 21.7 Consensus size: 3
67192 AATGTAAAAT
* *
67202 ATA ATA ATT ATA ATA ATA ATA GTAA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
67248 ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
67268 TTAAAACCCT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
3 56 0.97
4 2 0.03
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:67733 original size:139 final size:138
Alignment explanation
Indices: 67477--68182 Score: 666
Period size: 139 Copynumber: 5.1 Consensus size: 138
67467 TTCTACCTGG
* * * * * * * * *
67477 TGAGAAAGTCTGGTTATCTGAGGATGACGTTGTTCATACGTGTTAAGGACATCTGCTCGGTGGAC
1 TGAGGAAGTCTGATTATCTGAGGATGACGTTGCTCCTACGTGTTGAGGAGATATG-TCAGTGGAT
* * * *
67542 GGCATTGTTCCTACGTGATGAGGACGTCTAGCCATCTTTAGGGATAATTTGGAGACAACATGGTT
65 GACATTGTTCCTACGTGATGAGGACGTCTAGTCGTCTTTAAGGATAATTTGGAGACAACATGGTT
67607 CCTACGTAA
130 CCTACGTAA
* * * * * *
67616 TGAGGAAGTCTGATTATATGAGGATGGCATTGCTCCTGCGCGTTAAGGAGATATAGTCAGTGGAT
1 TGAGGAAGTCTGATTATCTGAGGATGACGTTGCTCCTACGTGTTGAGGAGATAT-GTCAGTGGAT
* * * * *
67681 GGCATTCTTCCTACGTGATGAGGATGTCTA-TCCGTCTTTAAAGATAAATTGGAGACAACATGGT
65 GACATTGTTCCTACGTGATGAGGACGTCTAGT-CGTCTTTAAGGATAATTTGGAGACAACATGGT
67745 TCCTACG-AGA
129 TCCTACGTA-A
* * * * *
67755 TGAGGAAGTCTGGTTATCTGATGATGACGCTGCTCCTACGTGTTGAGGAGATGTGATCACTGGAT
1 TGAGGAAGTCTGATTATCTGAGGATGACGTTGCTCCTACGTGTTGAGGAGATATG-TCAGTGGAT
* * * * *
67820 GACATTGTTCTTACGTGACGAGGACTTCTAGTCGTCTTTAAGGATAATTTGGAGACCACAAGGTT
65 GACATTGTTCCTACGTGATGAGGACGTCTAGTCGTCTTTAAGGATAATTTGGAGACAACATGGTT
* *
67885 CCTATGTGA
130 CCTACGTAA
* * *
67894 TAAGGAAGT-TCGATT-TCCTAAGGATGACGTTGCTCCTACGTGTTGAGGAGATATGGTCGGTGG
1 TGAGGAAGTCT-GATTAT-CTGAGGATGACGTTGCTCCTACGTGTTGAGGAGATAT-GTCAGTGG
* * * * * **
67957 ATGACATTGTTCCTACGTTATTATGACCTCTAGTCGTCTTTAGGGATAATTTGGAGACAACACAG
63 ATGACATTGTTCCTACGTGATGAGGACGTCTAGTCGTCTTTAAGGATAATTTGGAGACAACATGG
*
68022 TTCCTACGTGA
128 TTCCTACGTAA
* ** * * * * * * *
68033 TGAGAAAGTCTGATTGCCTAAGGATGACGCTACTCCTACGTGTTGAGGATATCTAGTCGGTGGAC
1 TGAGGAAGTCTGATTATCTGAGGATGACGTTGCTCCTACGTGTTGAGGAGATAT-GTCAGTGGAT
* * * ** * ** **
68098 GACATTATTCCTAAC-TGATAAGGACATCTAACCATCTTTCTGGATAATTTGGAGACAACACAGT
65 GACATTGTTCCT-ACGTGATGAGGACGTCTAGTCGTCTTTAAGGATAATTTGGAGACAACATGGT
*
68162 TCCTACGTGA
129 TCCTACGTAA
*
68172 TGAGGACGTCT
1 TGAGGAAGTCT
68183 AGCCGTCTTT
Statistics
Matches: 472, Mismatches: 83, Indels: 24
0.82 0.14 0.04
Matches are distributed among these distances:
138 4 0.01
139 462 0.98
140 6 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (138 bp):
TGAGGAAGTCTGATTATCTGAGGATGACGTTGCTCCTACGTGTTGAGGAGATATGTCAGTGGATG
ACATTGTTCCTACGTGATGAGGACGTCTAGTCGTCTTTAAGGATAATTTGGAGACAACATGGTTC
CTACGTAA
Found at i:67997 original size:278 final size:278
Alignment explanation
Indices: 67477--68169 Score: 741
Period size: 278 Copynumber: 2.5 Consensus size: 278
67467 TTCTACCTGG
* * * * * **
67477 TGAGAAAGTCTGGTTATCTGAGGATGACGTTGTTCATACGTGTTAAGGACATCTGCTCGGTGGAC
1 TGAGAAAGTCTGGTTATCTGAGGATGACGCTGCTCCTACGTGTTGAGGACATCTGATCACTGGAC
* * * *
67542 GGCATTGTTCCTACGTGATGAGGACGTCTAGCCATCTTTAGGGATAATTTGGAGACAACATGGTT
66 GACATTGTTCCTACGTGACGAGGACGTCTAGCCATCTTTAAGGATAATTTGGAGACAACAAGGTT
* * * *
67607 CCTACGTAATGAGGAAGTCTGATTATATGAGGATGGCATTGCTCCTGCGCGTTAAGGAGATATAG
131 CCTACGTAATAAGGAAGTCTGATTATATAAGGATGACATTGCTCCTACGCGTTAAGGAGATATAG
* **
67672 TCAGTGGATGGCATTCTTCCTACGTGATGAGGATGTCTATCCGTCTTTAAAGATAAATTGGAGAC
196 TCAGTGGATGACATTCTTCCTACGTGATGAGGACCTCTATCCGTCTTTAAAGATAAATTGGAGAC
**
67737 AACATGGTTCCTACGAGA
261 AACACAGTTCCTACGAGA
* * * * *
67755 TGAGGAAGTCTGGTTATCTGATGATGACGCTGCTCCTACGTGTTGAGGAGATGTGATCACTGGAT
1 TGAGAAAGTCTGGTTATCTGAGGATGACGCTGCTCCTACGTGTTGAGGACATCTGATCACTGGAC
* * * * *
67820 GACATTGTTCTTACGTGACGAGGACTTCTAGTCGTCTTTAAGGATAATTTGGAGACCACAAGGTT
66 GACATTGTTCCTACGTGACGAGGACGTCTAGCCATCTTTAAGGATAATTTGGAGACAACAAGGTT
* * * * * *
67885 CCTATGTGATAAGGAAGT-TCGATT-TCCTAAGGATGACGTTGCTCCTACGTGTTGAGGAGATAT
131 CCTACGTAATAAGGAAGTCT-GATTAT-ATAAGGATGACATTGCTCCTACGCGTTAAGGAGATAT
* * * * * * ** *
67948 GGTCGGTGGATGACATTGTTCCTACGTTATTATGACCTCTAGT-CGTCTTTAGGGATAATTTGGA
194 AGTCAGTGGATGACATTCTTCCTACGTGATGAGGACCTCTA-TCCGTCTTTAAAGATAAATTGGA
*
68012 GACAACACAGTTCCTACGTGA
258 GACAACACAGTTCCTACGAGA
* ** * * * **
68033 TGAGAAAGTCTGATTGCCTAAGGATGACGCTACTCCTACGTGTTGAGGATATCT-AGTCGGTGGA
1 TGAGAAAGTCTGGTTATCTGAGGATGACGCTGCTCCTACGTGTTGAGGACATCTGA-TCACTGGA
* ** * * **
68097 CGACATTATTCCTAAC-TGATAAGGACATCTAACCATCTTTCTGGATAATTTGGAGACAACACA-
65 CGACATTGTTCCT-ACGTGACGAGGACGTCTAGCCATCTTTAAGGATAATTTGGAGACAACA-AG
68160 GTTCCTACGT
128 GTTCCTACGT
68170 GATGAGGACG
Statistics
Matches: 339, Mismatches: 70, Indels: 12
0.81 0.17 0.03
Matches are distributed among these distances:
277 3 0.01
278 332 0.98
279 4 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (278 bp):
TGAGAAAGTCTGGTTATCTGAGGATGACGCTGCTCCTACGTGTTGAGGACATCTGATCACTGGAC
GACATTGTTCCTACGTGACGAGGACGTCTAGCCATCTTTAAGGATAATTTGGAGACAACAAGGTT
CCTACGTAATAAGGAAGTCTGATTATATAAGGATGACATTGCTCCTACGCGTTAAGGAGATATAG
TCAGTGGATGACATTCTTCCTACGTGATGAGGACCTCTATCCGTCTTTAAAGATAAATTGGAGAC
AACACAGTTCCTACGAGA
Found at i:68192 original size:56 final size:56
Alignment explanation
Indices: 68104--68238 Score: 164
Period size: 56 Copynumber: 2.4 Consensus size: 56
68094 GGACGACATT
* * **
68104 ATTCCTAAC-TGATAAGGACATCTAACCATCTTTCTGGATAATTTGGAGACAACACA
1 ATTCCT-ACGTGATGAGGACGTCTAACCATCTTTAGGGATAATTTGGAGACAACACA
* * * *
68160 GTTCCTACGTGATGAGGACGTCTAGCCGTCTTTAGGGATAATTTGGAGCCAACACA
1 ATTCCTACGTGATGAGGACGTCTAACCATCTTTAGGGATAATTTGGAGACAACACA
* *
68216 ATTCCTATGTGATGAGGAAGTCT
1 ATTCCTACGTGATGAGGACGTCT
68239 GGTTATCTAA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
55 2 0.03
56 65 0.97
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (56 bp):
ATTCCTACGTGATGAGGACGTCTAACCATCTTTAGGGATAATTTGGAGACAACACA
Found at i:68215 original size:195 final size:195
Alignment explanation
Indices: 67965--68356 Score: 514
Period size: 195 Copynumber: 2.0 Consensus size: 195
67955 GGATGACATT
* * * * *
67965 GTTCCTACGTTATTATGACCTCTAGTCGTCTTTAGGGATAATTTGGAGACAACACAGTTCCTACG
1 GTTCCTACGTGATGAGGACCTCTAGCCGTCTTTAGGGATAATTTGGAGACAACACAATTCCTACG
* * ** * *
68030 TGATGAGAAAGTCTGATTGCCTAAGGATGACGCTACTCCTACGTGTTGAGGATATCTAGTCGGTG
66 TGATGAGAAAGTCTGATTACCTAAGGATGAAGCTACTCCTACGCATTGAGGAGATCTAGTCAGTG
* * ** *
68095 GACGACATTATTCCTAACTGATAAGGACATCTAACCATCTTTCTGGATAATTTGGAGACAACACA
131 GACAACATTATTCCTAACTAATAAGGACATCTAACCATCTTTAGGGATAATTCGGAGACAACACA
* * *
68160 GTTCCTACGTGATGAGGACGTCTAGCCGTCTTTAGGGATAATTTGGAGCCAACACAATTCCTATG
1 GTTCCTACGTGATGAGGACCTCTAGCCGTCTTTAGGGATAATTTGGAGACAACACAATTCCTACG
* * * * * *
68225 TGATGAGGAAGTCTGGTTATCTAAGGATGAAGCTACTCCTATGCATTTAGGAGATCTGGTCAGTG
66 TGATGAGAAAGTCTGATTACCTAAGGATGAAGCTACTCCTACGCATTGAGGAGATCTAGTCAGTG
** * * *
68290 GACAACATTATTCCTATGTAATGAGGACATCTAGCCATCTTTAGGGATAATTCGGAGAGAACACA
131 GACAACATTATTCCTAACTAATAAGGACATCTAACCATCTTTAGGGATAATTCGGAGACAACACA
68355 GT
1 GT
68357 ATTTACGTGA
Statistics
Matches: 167, Mismatches: 30, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
195 167 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (195 bp):
GTTCCTACGTGATGAGGACCTCTAGCCGTCTTTAGGGATAATTTGGAGACAACACAATTCCTACG
TGATGAGAAAGTCTGATTACCTAAGGATGAAGCTACTCCTACGCATTGAGGAGATCTAGTCAGTG
GACAACATTATTCCTAACTAATAAGGACATCTAACCATCTTTAGGGATAATTCGGAGACAACACA
Found at i:68366 original size:334 final size:334
Alignment explanation
Indices: 67826--68516 Score: 793
Period size: 334 Copynumber: 2.1 Consensus size: 334
67816 GGATGACATT
* * * * *
67826 GTTCTTACGTGACGAGGACTTCTAGTCGTCTTTAAGGATAATTTGGAGACCACAAGGTTCCTATG
1 GTTCCTACGTGATGAGGACGTCTAGCCGTCTTTAAGGATAATTTGGAGACCACAAGATTCCTATG
* * * ** *
67891 TGATAAGGAAGTTCGATTTCCTAAGGATGACGTTGCTCCTACGTGTTGAGGAGATATGGTCGGTG
66 TGATAAGGAAGTTCGATTTCCTAAGGATGAAGCTACTCCTACGCATTGAGGAGATATGGTCAGTG
** * * * * * * * *
67956 GATGACATTGTTCCTACGTTATTATGACCTCTAGTCGTCTTTAGGGATAATTTGGAGACAACACA
131 GACAACATTATTCCTACGTAATGAGGACATCTAGCCATCTTTAGGGATAATTCGGAGACAACACA
* * * *
68021 GTTCCTACGTGATGAGAAAGTC-TGATTGCCTAAGGATGACGCTACTCCTACGTGTTGAGGATAT
196 GTTCCTACGTGATAAGAAAGTCTTG-TTACCTAAGGATGACGCTACTCCTACGTGTTAAGGAGAT
* * ** *
68085 CTAGTCGGTGGACGACATTATTCCTA-ACTGATAAGGACATCTAACCATCTTTCTGGATAATTTG
260 ATAGTCAGTGGACGACATTATTCCTACA-TGATAAGGACATCTAACCATCTTTAGGGATAACTTG
68149 GAGACAACACA
324 GAGACAACACA
*
68160 GTTCCTACGTGATGAGGACGTCTAGCCGTCTTTAGGGATAATTTGGAG-CCAACACA-ATTCCTA
1 GTTCCTACGTGATGAGGACGTCTAGCCGTCTTTAAGGATAATTTGGAGACC-ACA-AGATTCCTA
* * * * *
68223 TGTGATGAGGAAG-TCTGGTTAT-CTAAGGATGAAGCTACTCCTATGCATTTAGGAGATCTGGTC
64 TGTGATAAGGAAGTTC-GATT-TCCTAAGGATGAAGCTACTCCTACGCATTGAGGAGATATGGTC
* *
68286 AGTGGACAACATTATTCCTATGTAATGAGGACATCTAGCCATCTTTAGGGATAATTCGGAGAGAA
127 AGTGGACAACATTATTCCTACGTAATGAGGACATCTAGCCATCTTTAGGGATAATTCGGAGACAA
* * * * * *
68351 CACAGTAT-TTACGTGATAAGGAAGTCTTGTTATCTGAGGATTACGCTGCTCCTACGTGTTAAGG
192 CACAGT-TCCTACGTGATAAGAAAGTCTTGTTACCTAAGGATGACGCTACTCCTACGTGTTAAGG
* * * ** *
68415 AGATATGGTCAGTGGACGACGTTATTCCTACATGATGAGGATGTCTAGCCATCTTTAGGGATAAC
256 AGATATAGTCAGTGGACGACATTATTCCTACATGATAAGGACATCTAACCATCTTTAGGGATAAC
*
68480 TTGGAGACAACACG
321 TTGGAGACAACACA
* *
68494 GTACCTACGTGATGAGGAAGTCT
1 GTTCCTACGTGATGAGGACGTCT
68517 GATTTCCAGG
Statistics
Matches: 297, Mismatches: 53, Indels: 14
0.82 0.15 0.04
Matches are distributed among these distances:
333 4 0.01
334 287 0.97
335 6 0.02
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (334 bp):
GTTCCTACGTGATGAGGACGTCTAGCCGTCTTTAAGGATAATTTGGAGACCACAAGATTCCTATG
TGATAAGGAAGTTCGATTTCCTAAGGATGAAGCTACTCCTACGCATTGAGGAGATATGGTCAGTG
GACAACATTATTCCTACGTAATGAGGACATCTAGCCATCTTTAGGGATAATTCGGAGACAACACA
GTTCCTACGTGATAAGAAAGTCTTGTTACCTAAGGATGACGCTACTCCTACGTGTTAAGGAGATA
TAGTCAGTGGACGACATTATTCCTACATGATAAGGACATCTAACCATCTTTAGGGATAACTTGGA
GACAACACA
Found at i:68491 original size:473 final size:473
Alignment explanation
Indices: 67688--68655 Score: 1151
Period size: 473 Copynumber: 2.0 Consensus size: 473
67678 GATGGCATTC
* * ***
67688 TTCCTACGTGATGAGGATGTCTATCCGTCTTTAAAGATAAATTGGAGACAACATGGTTCCTACGA
1 TTCCTACGTGATGAGGAAGTCTAGCCGTCTTTAAAGATAAATTGGAGACAACACAATTCCTACGA
* * * * ** *
67753 GATGAGGAAGTCTGGTTATCTGATGATGACGCTGCTCCTACGTGTTGAGGAGATGTGATCACTGG
66 GATGAGGAAGTCTGGTTATCTAAGGATGAAGCTACTCCTACGCATTGAGGAGATCTGATCACTGG
** * * * * * * * *
67818 ATGACATTGTTCTTACGTGACGAGGACTTCTAGTCGTCTTTAAGGATAATTTGGAGACCACAAGG
131 ACAACATTATTCCTACGTAACGAGGACATCTAGCCATCTTTAAGGATAATTCGGAGACAACAAGG
* * *
67883 TTCCTATGTGATAAGGAAGTTCGATTTCCTAAGGATGACGTTGCTCCTACGTGTTGAGGAGATAT
196 TTCCTACGTGATAAGGAAGTTCGATTTCCTAAGGATGACGCTGCTCCTACGTGTTAAGGAGATAT
* * * * * * * * * *
67948 GGTCGGTGGATGACATTGTTCCTACGTTATTATGACCTCTAGTCGTCTTTAGGGATAATTTGGAG
261 GGTCAGTGGACGACATTATTCCTACATGATGAGGACCTCTAGCCATCTTTAGGGATAACTTGGAG
*
68013 ACAACACAGTTCCTACGTGATGAGAAAGTCTGATTGCCTA-AGGATGACGCTACTCCTACGTGTT
326 ACAACACAGTACCTACGTGATGAGAAAGTCTGATTGCC-AGAGGATGACGCTACTCCTACGTGTT
* * **
68077 GAGGATATCTAGTCGGTGGACGACATTATTCCTA-ACTGATAAGGACATCTAACC-ATCTTTCTG
390 AAGGAGATCTAGTCGGTGGACGACATTATTCCTACA-TGATAAGGACATCTAACCGA-CTTTAGG
*
68140 GATAATTTGGAGACAACAC-A
453 GATAATTTAGAGACAACACGA
* ** * * *
68160 GTTCCTACGTGATGAGGACGTCTAGCCGTCTTTAGGGATAATTTGGAGCCAACACAATTCCTATG
1 -TTCCTACGTGATGAGGAAGTCTAGCCGTCTTTAAAGATAAATTGGAGACAACACAATTCCTACG
* * * * *
68225 TGATGAGGAAGTCTGGTTATCTAAGGATGAAGCTACTCCTATGCATTTAGGAGATCTGGTCAGTG
65 AGATGAGGAAGTCTGGTTATCTAAGGATGAAGCTACTCCTACGCATTGAGGAGATCTGATCACTG
* * * *
68290 GACAACATTATTCCTATGTAATGAGGACATCTAGCCATCTTTAGGGATAATTCGGAGAGAACACA
130 GACAACATTATTCCTACGTAACGAGGACATCTAGCCATCTTTAAGGATAATTCGGAGACAACA-A
* * * *
68355 -GTAT-TTACGTGATAAGGAAGTCTTG-TTAT-CTGAGGATTACGCTGCTCCTACGTGTTAAGGA
194 GGT-TCCTACGTGATAAGGAAGT-TCGATT-TCCTAAGGATGACGCTGCTCCTACGTGTTAAGGA
* **
68416 GATATGGTCAGTGGACGACGTTATTCCTACATGATGAGGATGTCTAGCCATCTTTAGGGATAACT
256 GATATGGTCAGTGGACGACATTATTCCTACATGATGAGGACCTCTAGCCATCTTTAGGGATAACT
* * * * *
68481 TGGAGACAACACGGTACCTACGTGATGAGGAAGTCTGATTTCCAGGGGATGACGCTGCTCCTACG
321 TGGAGACAACACAGTACCTACGTGATGAGAAAGTCTGATTGCCAGAGGATGACGCTACTCCTACG
* * * *
68546 TGTTAAGGAGATCTAGTCGGTGGACGACATTGTTCGTACATGATGAGGACATCTAGCCGACTTTA
386 TGTTAAGGAGATCTAGTCGGTGGACGACATTATTCCTACATGATAAGGACATCTAACCGACTTTA
68611 GGGATAATTTAGAGACAACACGA
451 GGGATAATTTAGAGACAACACGA
*
68634 TTCCTACATGATGAGGAAGTCT
1 TTCCTACGTGATGAGGAAGTCT
68656 GGTTATCTGA
Statistics
Matches: 414, Mismatches: 73, Indels: 16
0.82 0.15 0.03
Matches are distributed among these distances:
472 1 0.00
473 405 0.98
474 8 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (473 bp):
TTCCTACGTGATGAGGAAGTCTAGCCGTCTTTAAAGATAAATTGGAGACAACACAATTCCTACGA
GATGAGGAAGTCTGGTTATCTAAGGATGAAGCTACTCCTACGCATTGAGGAGATCTGATCACTGG
ACAACATTATTCCTACGTAACGAGGACATCTAGCCATCTTTAAGGATAATTCGGAGACAACAAGG
TTCCTACGTGATAAGGAAGTTCGATTTCCTAAGGATGACGCTGCTCCTACGTGTTAAGGAGATAT
GGTCAGTGGACGACATTATTCCTACATGATGAGGACCTCTAGCCATCTTTAGGGATAACTTGGAG
ACAACACAGTACCTACGTGATGAGAAAGTCTGATTGCCAGAGGATGACGCTACTCCTACGTGTTA
AGGAGATCTAGTCGGTGGACGACATTATTCCTACATGATAAGGACATCTAACCGACTTTAGGGAT
AATTTAGAGACAACACGA
Found at i:68699 original size:139 final size:139
Alignment explanation
Indices: 68161--68699 Score: 627
Period size: 139 Copynumber: 3.9 Consensus size: 139
68151 GACAACACAG
* * * * * *
68161 TTCCTACGTGATGAGGACGTCTAGCCGTCTTTAGGGATAATTTGGAGCCAACACAATTCCTATGT
1 TTCCTACATGATGAGGACATCTAGCCATCTTTAGGGATAATTTGGAGACAACACGATTCCTACGT
* * * * * * *
68226 GATGAGGAAGTCTGGTTATCTAAGGATGAAGCTACTCCTATGCATTTAGGAGATCTGGTCAGTGG
66 GATGAGGAAGTCTGGTTATCTGAGGATGACGCTGCTCCTACGCGTTAAGGAGATCTAGTCAGTGG
*
68291 ACAACATTA
131 ACGACATTA
** * * *
68300 TTCCTATGTAATGAGGACATCTAGCCATCTTTAGGGATAATTCGGAGAGAACACAGTATT--TAC
1 TTCCTACATGATGAGGACATCTAGCCATCTTTAGGGATAATTTGGAGACAACAC-G-ATTCCTAC
* * * * * *
68363 GTGATAAGGAAGTCTTGTTATCTGAGGATTACGCTGCTCCTACGTGTTAAGGAGATATGGTCAGT
64 GTGATGAGGAAGTCTGGTTATCTGAGGATGACGCTGCTCCTACGCGTTAAGGAGATCTAGTCAGT
*
68428 GGACGACGTTA
129 GGACGACATTA
** * * *
68439 TTCCTACATGATGAGGATGTCTAGCCATCTTTAGGGATAACTTGGAGACAACACGGTACCTACGT
1 TTCCTACATGATGAGGACATCTAGCCATCTTTAGGGATAATTTGGAGACAACACGATTCCTACGT
* * * * *
68504 GATGAGGAAGTCTGATT-TCCAGGGGATGACGCTGCTCCTACGTGTTAAGGAGATCTAGTCGGTG
66 GATGAGGAAGTCTGGTTAT-CTGAGGATGACGCTGCTCCTACGCGTTAAGGAGATCTAGTCAGTG
*
68568 GACGACATTG
130 GACGACATTA
* * *
68578 TTCGTACATGATGAGGACATCTAGCCGA-CTTTAGGGATAATTTAGAGACAACACGATTCCTACA
1 TTCCTACATGATGAGGACATCTAGCC-ATCTTTAGGGATAATTTGGAGACAACACGATTCCTACG
* * *
68642 TGATGAGGAAGTCTGGTTATCTGAGGATGATGCTGCTCCTATGCGTTGAGGAGATCTA
65 TGATGAGGAAGTCTGGTTATCTGAGGATGACGCTGCTCCTACGCGTTAAGGAGATCTA
68700 TTCGATTACC
Statistics
Matches: 335, Mismatches: 58, Indels: 14
0.82 0.14 0.03
Matches are distributed among these distances:
137 1 0.00
138 2 0.01
139 327 0.98
140 2 0.01
141 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (139 bp):
TTCCTACATGATGAGGACATCTAGCCATCTTTAGGGATAATTTGGAGACAACACGATTCCTACGT
GATGAGGAAGTCTGGTTATCTGAGGATGACGCTGCTCCTACGCGTTAAGGAGATCTAGTCAGTGG
ACGACATTA
Found at i:69076 original size:51 final size:51
Alignment explanation
Indices: 68997--69098 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 51
68987 CGAAACTTTG
* *
68997 TTTCGAGAGAAACGATCTCAAAGATTTATGTTTCAAGAGAAATTGTCTCAA
1 TTTCGAGAGAAACAATCTCAAAGATTTATGTTTCAAGAGAAACTGTCTCAA
*
69048 TTTCGAGAGAAACAATCTCAAAGTTTTATGTTTCAAGAGAAACTGTCTCAA
1 TTTCGAGAGAAACAATCTCAAAGATTTATGTTTCAAGAGAAACTGTCTCAA
69099 GCGAGACAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (51 bp):
TTTCGAGAGAAACAATCTCAAAGATTTATGTTTCAAGAGAAACTGTCTCAA
Found at i:69126 original size:67 final size:67
Alignment explanation
Indices: 69052--69259 Score: 276
Period size: 67 Copynumber: 3.1 Consensus size: 67
69042 TCTCAATTTC
*
69052 GAGAGAAACAATCTCAAAGTTTTATGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAACTTTGTT
1 GAGAGAAACAATCTCAAAGATTTATGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAACTTTGTT
69117 TA
66 TA
* *
69119 GAGAGAAACAATCTCAAAGATTTATGTTTCAAGAGAATCTGTCTCAAGCGAGACAAAACTTTTTT
1 GAGAGAAACAATCTCAAAGATTTATGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAACTTTGTT
*
69184 TC
66 TA
* * * * * * *
69186 GAGAAAAACAATCTCAAAGGTTTATGTTT-ATATAGAAAATGTCTTAAGCGGGATAAAA-TTTGT
1 GAGAGAAACAATCTCAAAGATTTATGTTTCA-AGAGAAACTGTCTCAAGCGAGACAAAACTTTGT
*
69249 TTT
65 TTA
*
69252 TAGAGAAA
1 GAGAGAAA
69260 ATATATTAAG
Statistics
Matches: 124, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
66 13 0.10
67 111 0.90
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (67 bp):
GAGAGAAACAATCTCAAAGATTTATGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAACTTTGTT
TA
Found at i:69387 original size:94 final size:94
Alignment explanation
Indices: 69221--69645 Score: 334
Period size: 99 Copynumber: 4.3 Consensus size: 94
69211 GTTTATATAG
* * * * * * *
69221 AAAATGTCTTAAGCGGGATAAAATTTGTTTTTAGAGAAAATATATTAAGTGAGATCAATTTTGTT
1 AAAATGTCTCAAGCGAGACAAAATTTG-TTTT-GAGAACA-ATCTCAAGTGAGATAAATTTTGTT
*
69286 TCGAGTGAAACAATTTCAAAATT-TG-T-AGA
63 TCAAGTGAAACAATTTCAAAATTGTGTTAAGA
* *
69315 AAAATGTCTCAGGCGAGACAAAATTTGTTTTGAGAAAAACAATCTCAATTGAGATAAATTTTGTT
1 AAAATGTCTCAAGCGAGACAAAATTTGTTTTGAG---AACAATCTCAAGTGAGATAAATTTTGTT
* *
69380 TCAAGTGAAACAATTTTAGAATTTGTGTTTCAAAGA
63 TCAAGTGAAACAATTTCA-AAATTGTG-TT--AAGA
* * * * * *
69416 AAAACTATCTCAAGTGAGACGAAATTTATTTTGAGAACAATCCCAAGTGAGATAAATTTTGTATC
1 AAAA-TGTCTCAAGCGAGACAAAATTTGTTTTGAGAACAATCTCAAGTGAGATAAATTTTGTTTC
* ** *
69481 AAGTGAAATAATTTCAAAATTTGTGTTTCTTGGGG
65 AAGTGAAACAATTTCAAAA-TTGTG----TTAAGA
* ** * * * **
69516 AAACTGTCTCAAGTTAGACGAAATTTGTTTTGAGAACAATCTTAAGTTAGATAAATTTTGTTTTG
1 AAAATGTCTCAAGCGAGACAAAATTTGTTTTGAGAACAATCTCAAGTGAGATAAATTTTGTTTCA
* *
69581 AGTGAAACAATTTCAAAATTTGTATTTATAGGGG
66 AGTGAAACAATTTCAAAA-TTGT-GTTA-A--GA
* *
69615 AAATTGTCTCAAGTGAGACAAAATTTGTTTT
1 AAAATGTCTCAAGCGAGACAAAATTTGTTTT
69646 TAAGAAAAAA
Statistics
Matches: 268, Mismatches: 44, Indels: 33
0.78 0.13 0.10
Matches are distributed among these distances:
92 3 0.01
93 4 0.01
94 59 0.22
95 7 0.03
96 4 0.01
98 3 0.01
99 150 0.56
100 4 0.01
101 7 0.03
102 27 0.10
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.36
Consensus pattern (94 bp):
AAAATGTCTCAAGCGAGACAAAATTTGTTTTGAGAACAATCTCAAGTGAGATAAATTTTGTTTCA
AGTGAAACAATTTCAAAATTGTGTTAAGA
Found at i:69486 original size:99 final size:99
Alignment explanation
Indices: 69267--69645 Score: 398
Period size: 99 Copynumber: 3.9 Consensus size: 99
69257 AAAATATATT
* *
69267 AAGTGAGATCAATTTTGTTTCGAGTGAAACAATTTCAAAA-TT-TG--T---AGAAAAA-TGTCT
1 AAGTGAGATAAATTTTGTTTCAAGTGAAACAATTTCAAAATTTGTGTTTCAAAGAAAAACTGTCT
* * *
69324 CAGGCGAGACAAAATTTGTTTTGAGAAAAACAATCTC
66 CAAGTGAGACGAAATTTGTTTTGAG---AACAATCTC
* * * *
69361 AATTGAGATAAATTTTGTTTCAAGTGAAACAATTTTAGAATTTGTGTTTCAAAGAAAAACTATCT
1 AAGTGAGATAAATTTTGTTTCAAGTGAAACAATTTCAAAATTTGTGTTTCAAAGAAAAACTGTCT
* *
69426 CAAGTGAGACGAAATTTATTTTGAGAACAATCCC
66 CAAGTGAGACGAAATTTGTTTTGAGAACAATCTC
* * *** **
69460 AAGTGAGATAAATTTTGTATCAAGTGAAATAATTTCAAAATTTGTGTTTCTTGGGGAAACTGTCT
1 AAGTGAGATAAATTTTGTTTCAAGTGAAACAATTTCAAAATTTGTGTTTCAAAGAAAAACTGTCT
* *
69525 CAAGTTAGACGAAATTTGTTTTGAGAACAATCTT
66 CAAGTGAGACGAAATTTGTTTTGAGAACAATCTC
* ** * * ** *
69559 AAGTTAGATAAATTTTGTTTTGAGTGAAACAATTTCAAAATTTGTATTT-ATAGGGGAAATTGTC
1 AAGTGAGATAAATTTTGTTTCAAGTGAAACAATTTCAAAATTTGTGTTTCA-AAGAAAAACTGTC
*
69623 TCAAGTGAGACAAAATTTGTTTT
65 TCAAGTGAGACGAAATTTGTTTT
69646 TAAGAAAAAA
Statistics
Matches: 239, Mismatches: 37, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
94 35 0.15
95 2 0.01
96 2 0.01
98 1 0.00
99 167 0.70
101 7 0.03
102 25 0.10
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (99 bp):
AAGTGAGATAAATTTTGTTTCAAGTGAAACAATTTCAAAATTTGTGTTTCAAAGAAAAACTGTCT
CAAGTGAGACGAAATTTGTTTTGAGAACAATCTC
Done.