Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006893.1 Hibiscus syriacus cultivar Beakdansim tig00017595_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: 155410
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:4357 original size:15 final size:15
Alignment explanation
Indices: 4339--4383 Score: 81
Period size: 15 Copynumber: 3.0 Consensus size: 15
4329 TTTGAATTAC
*
4339 TGAATTACTGGAATT
1 TGAATTACTGGAACT
4354 TGAATTACTGGAACT
1 TGAATTACTGGAACT
4369 TGAATTACTGGAACT
1 TGAATTACTGGAACT
4384 AGAAAATGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (15 bp):
TGAATTACTGGAACT
Found at i:4641 original size:28 final size:26
Alignment explanation
Indices: 4591--4642 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
4581 AAACTTAATA
4591 TTATTTTAAAATATTAAATAATTTAT
1 TTATTTTAAAATATTAAATAATTTAT
**
4617 TTATTATTAAATATATTTTATAATTT
1 TTATT-TTAAA-ATATTAAATAATTT
4643 TATTAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 5 0.23
28 12 0.55
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
TTATTTTAAAATATTAAATAATTTAT
Found at i:4771 original size:11 final size:10
Alignment explanation
Indices: 4733--4917 Score: 51
Period size: 10 Copynumber: 19.5 Consensus size: 10
4723 ATATATTTAA
4733 AAATATTATT
1 AAATATTATT
*
4743 -AGTATT-TT
1 AAATATTATT
4751 AAATATTTATT
1 AAATA-TTATT
4762 AAAATATTATTT
1 -AAATATTA-TT
4774 AAATA-TA-T
1 AAATATTATT
*
4782 AAATAATATT
1 AAATATTATT
*
4792 --TTATTATT
1 AAATATTATT
4800 AAA-A-TA-T
1 AAATATTATT
* *
4807 AAATTTTTTT
1 AAATATTATT
*
4817 ATATATTATT
1 AAATATTATT
*
4827 AAA-A-TA-A
1 AAATATTATT
*
4834 AAATAATATCT
1 AAATATTAT-T
*
4845 -TATATTATT
1 AAATATTATT
*
4854 ATAATATAATT
1 A-AATATTATT
* *
4865 GATTATT-TT
1 AAATATTATT
* *
4874 ATATAATATT
1 AAATATTATT
*
4884 AAA-AATA-T
1 AAATATTATT
*
4892 AATTATATATT
1 AAATAT-TATT
*
4903 AAATATTAAT
1 AAATATTATT
4913 AAATA
1 AAATA
4918 AATAAATAAT
Statistics
Matches: 124, Mismatches: 29, Indels: 44
0.63 0.15 0.22
Matches are distributed among these distances:
7 7 0.06
8 22 0.18
9 26 0.21
10 39 0.31
11 23 0.19
12 7 0.06
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (10 bp):
AAATATTATT
Found at i:4796 original size:27 final size:25
Alignment explanation
Indices: 4766--4862 Score: 95
Period size: 27 Copynumber: 3.6 Consensus size: 25
4756 TTTATTAAAA
4766 TATTATTTAAATATATAAATAATATTT
1 TATTA-TTAAA-ATATAAATAATATTT
** *
4793 TATTATTAAAATATAAATTTTTTTAT
1 TATTATTAAAATATAAATAATATT-T
*
4819 ATATTATTAAAATAAAAATAATATCTT
1 -TATTATTAAAATATAAATAATAT-TT
*
4846 ATATTATTATAATATAA
1 -TATTATTAAAATATAA
4863 TTGATTATTT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
25 11 0.19
26 6 0.10
27 40 0.69
28 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (25 bp):
TATTATTAAAATATAAATAATATTT
Found at i:4804 original size:19 final size:19
Alignment explanation
Indices: 4757--4805 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
4747 TTTTAAATAT
*
4757 TTATTAAAATATTATTTAA
1 TTATTAAAATAATATTTAA
* *
4776 ATA-TATAAATAATATTTTA
1 TTATTA-AAATAATATTTAA
4795 TTATTAAAATA
1 TTATTAAAATA
4806 TAAATTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
18 2 0.08
19 20 0.83
20 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATTAAAATAATATTTAA
Found at i:5199 original size:40 final size:41
Alignment explanation
Indices: 5099--5210 Score: 181
Period size: 40 Copynumber: 2.7 Consensus size: 41
5089 ATGAATTACA
* *
5099 TTCCGGAAAACCAATTACGTTAAACAAACATGGGAAAACATT
1 TTCCGGAAAACGAATTACG-TAAACAAACACGGGAAAACATT
5141 TTCCGGAAAACGAATTACGTAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTAAACAAACACGGGAAAACATT
*
5182 TT-CGGAAAACGAATTACGTGAACAAACAC
1 TTCCGGAAAACGAATTACGTAAACAAACAC
5211 AAGAATTCAG
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
40 26 0.39
41 23 0.34
42 18 0.27
ACGTcount: A:0.46, C:0.20, G:0.16, T:0.19
Consensus pattern (41 bp):
TTCCGGAAAACGAATTACGTAAACAAACACGGGAAAACATT
Found at i:9079 original size:75 final size:74
Alignment explanation
Indices: 8977--9127 Score: 257
Period size: 75 Copynumber: 2.0 Consensus size: 74
8967 CTAACGTAAG
* * *
8977 GAGTAGCAGTTCCGTGTTGACTCATATCATACAACTTTTGTAGTTTGGTTGCATTTCAATTGTAC
1 GAGTAGCAATTCCGTGTTGACTCATATCATACAACTTTTGTAGTTTGATTGCATTTCAATTATAC
9042 AAATAAAAA
66 AAATAAAAA
*
9051 GAGTAGCAATTCCGTTGTTGACTCATATCATACAACTTTTGTTGTTTGATTGCATTTCAATTATA
1 GAGTAGCAATTCCG-TGTTGACTCATATCATACAACTTTTGTAGTTTGATTGCATTTCAATTATA
9116 CAAATAAAAA
65 CAAATAAAAA
9126 GA
1 GA
9128 ATTCGGTTCA
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
74 13 0.18
75 59 0.82
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (74 bp):
GAGTAGCAATTCCGTGTTGACTCATATCATACAACTTTTGTAGTTTGATTGCATTTCAATTATAC
AAATAAAAA
Found at i:12542 original size:75 final size:75
Alignment explanation
Indices: 12419--12568 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
12409 TTCATTGAAG
12419 CACGAATTAAGAATGGTCATATTTGGATCATCGGGATTAGGATTAGGAAATTGTTAGATAGGAGG
1 CACGAATTAAGAATGGTCATATTTGGATCATCGGGATTAGGATTAGGAAATTGTTAGATAGGAGG
12484 TGGATTTGGA
66 TGGATTTGGA
12494 CACGAATTAAGAATGGTCATATTTGGATCATCGGGATTAGGATTAGGAAATTGTTAGATAGGAGG
1 CACGAATTAAGAATGGTCATATTTGGATCATCGGGATTAGGATTAGGAAATTGTTAGATAGGAGG
12559 TGGATTTGGA
66 TGGATTTGGA
12569 GGTGAGTTTG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.31
Consensus pattern (75 bp):
CACGAATTAAGAATGGTCATATTTGGATCATCGGGATTAGGATTAGGAAATTGTTAGATAGGAGG
TGGATTTGGA
Found at i:17178 original size:22 final size:21
Alignment explanation
Indices: 17136--17175 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17126 AAGACTATTT
17136 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
17157 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
17176 ATAAAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:19201 original size:18 final size:19
Alignment explanation
Indices: 19155--19196 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
19145 AAACCATTCA
*
19155 GGGGGAATCGGTTCCCCCTT
1 GGGGAAATCGGTT-CCCCTT
*
19175 GGGGAAATCGGTTCCCTTT
1 GGGGAAATCGGTTCCCCTT
19194 GGG
1 GGG
19197 CAATCTGCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.12, C:0.24, G:0.38, T:0.26
Consensus pattern (19 bp):
GGGGAAATCGGTTCCCCTT
Found at i:21371 original size:19 final size:19
Alignment explanation
Indices: 21347--21390 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
21337 TTAACAATCT
21347 GGTCAAAATCAATGGTTTG
1 GGTCAAAATCAATGGTTTG
** *
21366 GGTCAAGGTTAATGGTTTG
1 GGTCAAAATCAATGGTTTG
21385 GGTCAA
1 GGTCAA
21391 GGTCAATGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.32, T:0.32
Consensus pattern (19 bp):
GGTCAAAATCAATGGTTTG
Found at i:21391 original size:19 final size:19
Alignment explanation
Indices: 21355--21399 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
21345 CTGGTCAAAA
21355 TCAATGGTTTGGGTCAAGG
1 TCAATGGTTTGGGTCAAGG
*
21374 TTAATGGTTTGGGTCAAGG
1 TCAATGGTTTGGGTCAAGG
21393 TCAATGG
1 TCAATGG
21400 GTTAGACCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.22, C:0.09, G:0.36, T:0.33
Consensus pattern (19 bp):
TCAATGGTTTGGGTCAAGG
Found at i:23127 original size:72 final size:72
Alignment explanation
Indices: 23006--23143 Score: 199
Period size: 72 Copynumber: 1.9 Consensus size: 72
22996 TGGAGATATA
23006 AGAAATCAAAACAGAATTCAGATCAAATATCATAACAGAATCCAAATCAGAAATCAGAACAAAAT
1 AGAAATCAAAACAGAATTCAGATCAAATATCATAACAGAATCCAAATCAGAAATCAGAACAAAAT
23071 TTAGATC
66 TTAGATC
* * * * *
23078 AGAAAT-AAGAACATAATTCAGATCAGAA-ATTATAACATAATTCAGATCAGAAATCAGAACAAA
1 AGAAATCAA-AACAGAATTCAGATCA-AATATCATAACAGAATCCAAATCAGAAATCAGAACAAA
23141 ATT
64 ATT
23144 CAAATCGAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
71 2 0.03
72 55 0.93
73 2 0.03
ACGTcount: A:0.54, C:0.14, G:0.10, T:0.21
Consensus pattern (72 bp):
AGAAATCAAAACAGAATTCAGATCAAATATCATAACAGAATCCAAATCAGAAATCAGAACAAAAT
TTAGATC
Found at i:23157 original size:24 final size:24
Alignment explanation
Indices: 23006--23153 Score: 156
Period size: 24 Copynumber: 6.2 Consensus size: 24
22996 TGGAGATATA
* *
23006 AGAAATCAAAACAGAATTCAGATC
1 AGAAATCAGAACAAAATTCAGATC
* * * *
23030 A-AATATCATAACAGAATCCAAATC
1 AGAA-ATCAGAACAAAATTCAGATC
*
23054 AGAAATCAGAACAAAATTTAGATC
1 AGAAATCAGAACAAAATTCAGATC
* *
23078 AGAAATAAGAACATAATTCAGATC
1 AGAAATCAGAACAAAATTCAGATC
* * *
23102 AGAAATTATAACATAATTCAGATC
1 AGAAATCAGAACAAAATTCAGATC
*
23126 AGAAATCAGAACAAAATTCAAATC
1 AGAAATCAGAACAAAATTCAGATC
23150 -GAAA
1 AGAAA
23154 ATCATATAAA
Statistics
Matches: 105, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
23 6 0.06
24 97 0.92
25 2 0.02
ACGTcount: A:0.55, C:0.15, G:0.10, T:0.20
Consensus pattern (24 bp):
AGAAATCAGAACAAAATTCAGATC
Found at i:27060 original size:29 final size:29
Alignment explanation
Indices: 27027--27109 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
27017 TTTTGTCTAC
*
27027 TGGCTAAAATATAAGTTTTGAAAGTTTAG
1 TGGCTAAAATATAAATTTTGAAAGTTTAG
* *
27056 TGGCTAAATTATAAACTTTGATAAGTTTAG
1 TGGCTAAAATATAAATTTTGA-AAGTTTAG
* *
27086 -GGATCAAAATTATAATTTTTGAAA
1 TGGCT-AAAA-TATAAATTTTGAAA
27110 ATAATATATT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
29 21 0.48
30 13 0.30
31 10 0.23
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.39
Consensus pattern (29 bp):
TGGCTAAAATATAAATTTTGAAAGTTTAG
Found at i:28260 original size:2 final size:2
Alignment explanation
Indices: 28253--28290 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
28243 TAACCGACTT
28253 TA TA TA TA TA TA TA TA TA CT- TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
28291 ACTATAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 32 0.94
3 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:50847 original size:29 final size:29
Alignment explanation
Indices: 50796--50876 Score: 76
Period size: 28 Copynumber: 2.9 Consensus size: 29
50786 CATTTTACAC
** *
50796 AAATAGCA-CCTTTTTAAAATAATTAACA
1 AAATAGCACCCTTTTCGAATTAATTAACA
**
50824 AAATAGCACCCTTTTCGAATTAATTCCCA
1 AAATAGCACCCTTTTCGAATTAATTAACA
***
50853 AAA-AGCACTAATTTCGAATTAATT
1 AAATAGCACCCTTTTCGAATTAATT
50877 CTAAGAATAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 26 0.59
29 18 0.41
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (29 bp):
AAATAGCACCCTTTTCGAATTAATTAACA
Found at i:50944 original size:29 final size:29
Alignment explanation
Indices: 50796--50977 Score: 126
Period size: 29 Copynumber: 6.3 Consensus size: 29
50786 CATTTTACAC
** * **
50796 AAATAGCACCT-TTTTAAAATAATTAACA
1 AAATAGCACCTATTTCGAATTAATTCCCA
50824 AAATAGCACCCT-TTTCGAATTAATTCCCA
1 AAATAGCA-CCTATTTCGAATTAATTCCCA
*
50853 AAA-AGCA-CTAATTTCGAATTAATT-CTA
1 AAATAGCACCT-ATTTCGAATTAATTCCCA
* * * ** *
50880 AGAATATCA-CTTTTTCAAAAAAAATTACCA
1 A-AATAGCACCTATTTC-GAATTAATTCCCA
50910 AAATAGCACCTATTTCGAATTAATTCCCA
1 AAATAGCACCTATTTCGAATTAATTCCCA
* ***
50939 GAATAGCACC-AAAACTGAATTAATTCCCA
1 AAATAGCACCTATTTC-GAATTAATTCCCA
50968 AAATAGCACC
1 AAATAGCACC
50978 GGTCAACGGT
Statistics
Matches: 122, Mismatches: 23, Indels: 17
0.75 0.14 0.10
Matches are distributed among these distances:
26 2 0.02
27 3 0.02
28 33 0.27
29 75 0.61
30 9 0.07
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.29
Consensus pattern (29 bp):
AAATAGCACCTATTTCGAATTAATTCCCA
Found at i:57989 original size:29 final size:28
Alignment explanation
Indices: 57938--58058 Score: 109
Period size: 29 Copynumber: 4.3 Consensus size: 28
57928 CATTTTACAC
**
57938 AAATAGCACCTTTTTTAAATAATTACCA
1 AAATAGCACCTTTTCGAAATAATTACCA
* *
57966 AAATAGCACCCTTTTCGAATTAATTTCCA
1 AAATAGCA-CCTTTTCGAAATAATTACCA
* * * *
57995 AAGTAGCACCACTTTCGAATTAATTCCCA
1 AAATAGCACC-TTTTCGAAATAATTACCA
* * * *
58024 CAATATCA-TTTTTTGAAATAATTACCA
1 AAATAGCACCTTTTCGAAATAATTACCA
58051 AAATAGCA
1 AAATAGCA
58059 TTCATTTGGA
Statistics
Matches: 74, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
27 20 0.27
28 10 0.14
29 44 0.59
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.33
Consensus pattern (28 bp):
AAATAGCACCTTTTCGAAATAATTACCA
Found at i:58204 original size:11 final size:10
Alignment explanation
Indices: 58181--58217 Score: 58
Period size: 11 Copynumber: 3.7 Consensus size: 10
58171 TCGGGTCATG
58181 ACCGGTTAAA
1 ACCGGTTAAA
58191 ACCGGTTCAAA
1 ACCGGTT-AAA
58202 ACCGGTT-AA
1 ACCGGTTAAA
58211 ACCGGTT
1 ACCGGTT
58218 TCTAGATTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.35
10 7 0.27
11 10 0.38
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (10 bp):
ACCGGTTAAA
Found at i:61003 original size:19 final size:21
Alignment explanation
Indices: 60981--61019 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
60971 CATTAAACTT
60981 ATCA-AAC-TATTATAAAATG
1 ATCATAACATATTATAAAATG
*
61000 ATCATTACATATTATAAAAT
1 ATCATAACATATTATAAAAT
61020 AGTGATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 2 0.12
21 11 0.65
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (21 bp):
ATCATAACATATTATAAAATG
Found at i:61846 original size:27 final size:27
Alignment explanation
Indices: 61808--61862 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
61798 ACCTTCAAAA
61808 TTCATTACAACCAACTACTGCTATCAT
1 TTCATTACAACCAACTACTGCTATCAT
61835 TTCATTACAACCAACTACTGCTATCAT
1 TTCATTACAACCAACTACTGCTATCAT
61862 T
1 T
61863 ATAAAACTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.35
Consensus pattern (27 bp):
TTCATTACAACCAACTACTGCTATCAT
Found at i:78239 original size:17 final size:17
Alignment explanation
Indices: 78213--78245 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
78203 CAACTTTGTC
78213 ATGAAAGATGATTGGTG
1 ATGAAAGATGATTGGTG
*
78230 ATGAACGATGATTGGT
1 ATGAAAGATGATTGGT
78246 TGTCAACGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.03, G:0.33, T:0.30
Consensus pattern (17 bp):
ATGAAAGATGATTGGTG
Found at i:81109 original size:14 final size:14
Alignment explanation
Indices: 81090--81146 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 14
81080 CAAAGAGATC
*
81090 GTTCGTTCGTTTAT
1 GTTCGTTCATTTAT
81104 GTTCGTTCATTTA-
1 GTTCGTTCATTTAT
81117 --T-GTTCATTTAT
1 GTTCGTTCATTTAT
* *
81128 ATTCGTTTATTTAT
1 GTTCGTTCATTTAT
81142 GTTCG
1 GTTCG
81147 AACAGAGGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 9 0.25
11 1 0.03
13 1 0.03
14 25 0.69
ACGTcount: A:0.14, C:0.12, G:0.16, T:0.58
Consensus pattern (14 bp):
GTTCGTTCATTTAT
Found at i:81126 original size:24 final size:24
Alignment explanation
Indices: 81094--81145 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
81084 GAGATCGTTC
* *
81094 GTTCGTTTATGTTCGTTCATTTAT
1 GTTCATTTATATTCGTTCATTTAT
*
81118 GTTCATTTATATTCGTTTATTTAT
1 GTTCATTTATATTCGTTCATTTAT
81142 GTTC
1 GTTC
81146 GAACAGAGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.15, C:0.12, G:0.13, T:0.60
Consensus pattern (24 bp):
GTTCATTTATATTCGTTCATTTAT
Found at i:82075 original size:23 final size:23
Alignment explanation
Indices: 82033--82076 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
82023 TTGTTTGTGT
**
82033 TGTTCGTTTATGTTTGTTTATTG
1 TGTTCGTTTATGTTCATTTATTG
82056 TGTTCGTTTATGTTCATTTAT
1 TGTTCGTTTATGTTCATTTAT
82077 AACATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.11, C:0.07, G:0.18, T:0.64
Consensus pattern (23 bp):
TGTTCGTTTATGTTCATTTATTG
Found at i:83573 original size:15 final size:15
Alignment explanation
Indices: 83555--83584 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
83545 AAAACCATGT
83555 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
83570 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
83585 GAAATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (15 bp):
TAGATAAAAAGGTAA
Found at i:83591 original size:15 final size:15
Alignment explanation
Indices: 83558--83592 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
83548 ACCATGTTAG
* *
83558 ATAAAAAGGTAATAG
1 ATAAAAAGGTAAGAA
83573 ATAAAAAGGTAAGAA
1 ATAAAAAGGTAAGAA
83588 ATAAA
1 ATAAA
83593 TTAATTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAAAAGGTAAGAA
Found at i:83711 original size:8 final size:9
Alignment explanation
Indices: 83687--83712 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
83677 ATAAAAAATA
83687 AAGAAAAAG
1 AAGAAAAAG
83696 AAGAAAAAG
1 AAGAAAAAG
83705 AAGAAAAA
1 AAGAAAAA
83713 ATATAGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (9 bp):
AAGAAAAAG
Found at i:83761 original size:29 final size:30
Alignment explanation
Indices: 83728--83803 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 30
83718 GAAATAAAAC
83728 AAATAAATAAAATA-AT-AATAAAAAAGTAA
1 AAATAAATAAAATATATAAATAAAAAA-TAA
*
83757 AAAT-AAT-ATATATATAAATAAAAAATAA
1 AAATAAATAAAATATATAAATAAAAAATAA
83785 AAA-AAAGTAAATATATATA
1 AAATAAA-TAAA-ATATATA
83804 TATATAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 4 0.10
28 13 0.33
29 14 0.36
30 1 0.03
31 7 0.18
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (30 bp):
AAATAAATAAAATATATAAATAAAAAATAA
Found at i:84307 original size:34 final size:34
Alignment explanation
Indices: 84253--84321 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
84243 GAATCCTAGC
*
84253 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
1 AAAATTATATCATATCTTTAGGAGTTTGAATCCT
* *
84287 AAAATTATATCCTATTTTTAGGAGTTTGAATCCT
1 AAAATTATATCATATCTTTAGGAGTTTGAATCCT
84321 A
1 A
84322 GTAGGACGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (34 bp):
AAAATTATATCATATCTTTAGGAGTTTGAATCCT
Found at i:85086 original size:98 final size:98
Alignment explanation
Indices: 84917--85175 Score: 277
Period size: 98 Copynumber: 2.6 Consensus size: 98
84907 TGGAACCGGA
* * * *
84917 AAATTGTTTGTTGACAACCATCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCA
1 AAATTGTTTGTTGACAACCAGCCACCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCA
* * *
84982 ATATCCTTCGTTGTGAAGTTGAGATTGGCTCCG
66 ATATCCTCCGCTGTGAAGTTGAAATTGGCTCCG
** * * * *
85015 AAATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGTCCA
1 AAATTGTTTGTTGACAACCAGCCACCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCA
85080 ATATCCTCCGCTGTGAAGTTGAAATTGGC-CCTG
66 ATATCCTCCGCTGTGAAGTTGAAATTGGCTCC-G
* ** * *
85113 AAACTAGGAAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC
1 AAA-T-TG----T-TTGTTGACAACCAGCCACCCCTTCGCTGTGAAGTTGAACTTGTGCTGTC
85176 ATAGGTAGCA
Statistics
Matches: 133, Mismatches: 20, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
97 2 0.02
98 85 0.64
99 1 0.01
100 1 0.01
104 1 0.01
105 43 0.32
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.34
Consensus pattern (98 bp):
AAATTGTTTGTTGACAACCAGCCACCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCA
ATATCCTCCGCTGTGAAGTTGAAATTGGCTCCG
Found at i:85169 original size:105 final size:102
Alignment explanation
Indices: 84917--85309 Score: 316
Period size: 105 Copynumber: 3.8 Consensus size: 102
84907 TGGAACCGGA
* * * *
84917 AAATTGTTTGTTGACAACCATCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-CC
1 AAATTG-TTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTACC
* * ** * ** ** **
84981 A-ATATCCTTCGTTGT-GAAGTTGAG-ATTG-GCTCCG
65 AGATATCCTCCGTCGTGGAAAATCAGCCCTGAAATAGG
** * * * *
85015 AAATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGT-CC
1 AAATTG-TTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTACC
* **
85079 A-ATATCCTCCG-CTGTGAAGTTGAAATTGGCCCTGAAACTAGG
65 AGATATCCTCCGTC-GTG--G--AAAATCAGCCCTGAAA-TAGG
* * *
85121 AAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCATAGGTAGCA
1 AAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTACCA
** *
85186 TGATATCCTCCGTCGTGGAAAATCAGCTTTGAAATTGG
66 -GATATCCTCCGTCGTGGAAAATCAGCCCTGAAATAGG
* **
85224 AAAGTTGTTCGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTGG
1 AAA-TTGTT-GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTAC
*
85289 CACGATATCCTCCATCGTGGA
64 CA-GATATCCTCCGTCGTGGA
85310 GTTGAAATCA
Statistics
Matches: 236, Mismatches: 44, Indels: 23
0.78 0.15 0.08
Matches are distributed among these distances:
98 66 0.28
101 1 0.00
103 9 0.04
104 18 0.08
105 117 0.50
106 11 0.05
108 13 0.06
109 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (102 bp):
AAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTACCA
GATATCCTCCGTCGTGGAAAATCAGCCCTGAAATAGG
Found at i:86014 original size:31 final size:31
Alignment explanation
Indices: 85979--86106 Score: 82
Period size: 31 Copynumber: 3.9 Consensus size: 31
85969 ATGAAATAAA
85979 CTCAAAG-ATTTTGTGTTTCAAGAGAAACTGT
1 CTCAAAGAATTTTGTGTTTCAAGAGAAACT-T
** * *
86010 CTCAAGGGAGACAAAATT-TGTTTCAAGGGAAACAAT
1 CTCAA---AG--AATTTTGTGTTTCAAGAGAAAC-TT
*
86046 CTCAAAG-GTTTTGTGTTTCAAGAGAAACATT
1 CTCAAAGAATTTTGTGTTTCAAGAGAAAC-TT
* **
86077 TTCAAAGGTTTTTTGTGTTTCAAGAGAAAC
1 CTCAAA-GAATTTTGTGTTTCAAGAGAAAC
86107 AATTTCAAAG
Statistics
Matches: 76, Mismatches: 11, Indels: 18
0.72 0.10 0.17
Matches are distributed among these distances:
30 2 0.03
31 26 0.34
32 1 0.01
33 22 0.29
34 2 0.03
36 20 0.26
37 3 0.04
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.33
Consensus pattern (31 bp):
CTCAAAGAATTTTGTGTTTCAAGAGAAACTT
Found at i:86064 original size:67 final size:67
Alignment explanation
Indices: 85881--86073 Score: 224
Period size: 67 Copynumber: 2.8 Consensus size: 67
85871 GTCTTAAAAA
* * * * * *
85881 AGACAAAATTAGTTTCAAGGGAAACGATCTTAAAGATATATGTTGTTTTATGAGAAACGGCCTCA
1 AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGAT-TTTG-TGTTTCAAGAGAAACGGCCTCA
85946 AGGG
64 AGGG
* * ** * * * *
85950 AGATAAAATTTTGTTTTAAATGAAATAAACTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAA
1 AGACAAAA-TTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACGGCCTCAA
86015 GGG
65 GGG
*
86018 AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTTGTGTTTCAAGAGAAAC
1 AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAAC
86074 ATTTTCAAAG
Statistics
Matches: 102, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
67 42 0.41
68 29 0.28
69 10 0.10
70 21 0.21
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (67 bp):
AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACGGCCTCAAG
GG
Found at i:86133 original size:36 final size:33
Alignment explanation
Indices: 86028--86142 Score: 162
Period size: 33 Copynumber: 3.5 Consensus size: 33
86018 AGACAAAATT
* *
86028 TGTTTCAAGGGAAACAATCTCAAAGG--TTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
*
86059 TGTTTCAAGAGAAACATTTTCAAAGGTTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
86092 TGTTTCAAGAGAAACAATTTCAAAGGTTTCTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGG--T-TTTTTG
86128 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
86143 TGTATCAAGG
Statistics
Matches: 75, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
31 23 0.31
33 30 0.40
35 1 0.01
36 21 0.28
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.37
Consensus pattern (33 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
Found at i:86224 original size:37 final size:37
Alignment explanation
Indices: 86183--86625 Score: 172
Period size: 37 Copynumber: 13.0 Consensus size: 37
86173 CAAGGATTGA
*
86183 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* * * *
86220 TGTTTTAAGAAAAACATGTCTTAAGATAGACAAAA-TT
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATTT
*
86257 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
*
86293 TGTTT-AATGTA-AAACATAT-TC-A-A-AG-----ATTT
1 TGTTTCAA-G-AGAAAC-TGTCTCAAGAGAGACAAAATTT
* * *
86322 TGTTTCAAGGGAAACTATTTTC-A-A-AG------TTT
1 TGTTTCAAGAGAAACT-GTCTCAAGAGAGACAAAATTT
*
86351 ATGTTTCAATAGAAACTGTCTCAA-AGGAGACAAAA-TT
1 -TGTTTCAAGAGAAACTGTCTCAAGA-GAGACAAAATTT
* *
86388 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
** * * *
86424 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATTT
* *
86452 ATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* *
86490 TGTTTCAAGGGAAACTATCTCAAGAGAGAC--AA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* * * *
86524 TATTTCAAGGGAAA-TGCTTTC-A-A-TG------TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATTT
* *
86552 ATGTTTCAAGAGAAACTGTCTCAAGGGAGATAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
* * *
86590 TGTTTCAAGGGAAATTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
86626 CATTTCAAGG
Statistics
Matches: 311, Mismatches: 49, Indels: 92
0.69 0.11 0.20
Matches are distributed among these distances:
28 6 0.02
29 48 0.15
30 30 0.10
31 1 0.00
32 5 0.02
33 5 0.02
34 20 0.06
35 7 0.02
36 76 0.24
37 91 0.29
38 22 0.07
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.31
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:86292 original size:36 final size:36
Alignment explanation
Indices: 86183--86639 Score: 173
Period size: 36 Copynumber: 13.4 Consensus size: 36
86173 CAAGGATTGA
*
86183 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * *
86220 TGTTTTAAGAAAAACATGTCTTAAGATAGACAAAATT
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT
*
86257 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
86293 TGTTT-AATGTA-AAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAA-G-AGAAAC-TGTCTCAAGAGAGACAAAATT
* * * *
86322 TGTTTCAAGGGAAACTATTTTC-A-A-AG-----TTT
1 TGTTTCAAGAGAAACT-GTCTCAAGAGAGACAAAATT
*
86351 ATGTTTCAATAGAAACTGTCTCAA-AGGAGACAAAATT
1 -TGTTTCAAGAGAAACTGTCTCAAGA-GAGACAAAATT
* *
86388 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** * * * *
86424 CATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
* *
86452 ATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
86490 TGTTTCAAGGGAAACTATCTCAAGAGAGAC--AATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * * *
86524 TATTTCAAGGGAAA-TGCTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
* *
86552 ATGTTTCAAGAGAAACTGTCTCAAGGGAGATAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * *
86590 TGTTTCAAGGGAAATTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** *
86626 CATTTCAAGGGAAA
1 TGTTTCAAGAGAAA
86640 TGTTTTCAAT
Statistics
Matches: 321, Mismatches: 57, Indels: 85
0.69 0.12 0.18
Matches are distributed among these distances:
28 5 0.02
29 49 0.15
30 30 0.09
31 1 0.00
32 5 0.02
33 5 0.02
34 20 0.06
35 7 0.02
36 90 0.28
37 89 0.28
38 20 0.06
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.31
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:86366 original size:30 final size:30
Alignment explanation
Indices: 86311--86367 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
86301 GTAAAACATA
*
86311 TTCAAAGATTTTGTTTCAAGGGAAACTATT
1 TTCAAAGATTTTGTTTCAAGAGAAACTATT
*
86341 TTCAAAG-TTTATGTTTCAATAGAAACT
1 TTCAAAGATTT-TGTTTCAAGAGAAACT
86368 GTCTCAAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 21 0.88
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (30 bp):
TTCAAAGATTTTGTTTCAAGAGAAACTATT
Found at i:86515 original size:102 final size:102
Alignment explanation
Indices: 86324--86728 Score: 627
Period size: 102 Copynumber: 4.0 Consensus size: 102
86314 AAAGATTTTG
* * * *
86324 TTTCAAGGGAAACTATTTTCAAAGTTTATGTTTCAATAGAAACTGTCTCAAAGGAGACAAAA-TT
1 TTTCAAGGGAAA-TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
86388 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
65 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
*
86426 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
*
86491 GTTTCAAGGGAAACTATCTCAAGAGAGAC--AATTTA
66 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
* *
86526 TTTCAAGGGAAATGCTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGATAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
*
86591 GTTTCAAGGGAAATTATCTCAAGAGAGACAAAATTCA
66 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
* *
86628 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTAAAGAGAAACTGTCTCAAGTGAGACAAAACTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTT
* * * *
86693 CTGTTTCGAGGGAAATTATCTCAAGCGAGATAAAAT
65 -TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
86729 CTTGTTTTAA
Statistics
Matches: 280, Mismatches: 18, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
100 95 0.34
101 44 0.16
102 106 0.38
103 3 0.01
104 32 0.11
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (102 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
Found at i:86611 original size:202 final size:204
Alignment explanation
Indices: 86324--86722 Score: 651
Period size: 202 Copynumber: 2.0 Consensus size: 204
86314 AAAGATTTTG
* *
86324 TTTCAAGGGAAACTATTTTCAAAGTTTATGTTTCAATAGAAACTGTCTCAAAGGAGACAAAATTT
1 TTTCAAGGGAAACTACTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTT
86389 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTAT
66 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTAT
* *
86454 GTTTCAAGAGAAATTGTCTCAAGGGAGACAAAA-TTT-TGTTTCAAGGGAAACTATCTCAAGAGA
131 GTTTAAAGAGAAACTGTCTCAAGGGAGACAAAACTTTCTGTTTCAAGGGAAACTATCTCAAGAGA
86517 GACAATTTA
196 GACAATTTA
* * * *
86526 TTTCAAGGGAAA-TGCTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGATAAAATTT
1 TTTCAAGGGAAACTACTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAA-TT
*
86590 TGTTTCAAGGGAAATTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
65 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* * * *
86655 TGTTTAAAGAGAAACTGTCTCAAGTGAGACAAAACTTTCTGTTTCGAGGGAAATTATCTCAAGCG
130 TGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAACTTTCTGTTTCAAGGGAAACTATCTCAAGAG
86720 AGA
195 AGA
86723 TAAAATCTTG
Statistics
Matches: 181, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
201 43 0.24
202 109 0.60
203 3 0.02
204 26 0.14
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (204 bp):
TTTCAAGGGAAACTACTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTT
GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTAT
GTTTAAAGAGAAACTGTCTCAAGGGAGACAAAACTTTCTGTTTCAAGGGAAACTATCTCAAGAGA
GACAATTTA
Found at i:86640 original size:36 final size:37
Alignment explanation
Indices: 86555--86640 Score: 102
Period size: 37 Copynumber: 2.4 Consensus size: 37
86545 AATGTTTATG
* * * * * **
86555 TTTCAAGAGAAACTGTCTCAAGGGAGATAAAATTTTG
1 TTTCAAGGGAAATTATCTCAAGAGAGACAAAATTTCA
86592 TTTCAAGGGAAATTATCTCAAGAGAGACAAAA-TTCA
1 TTTCAAGGGAAATTATCTCAAGAGAGACAAAATTTCA
86628 TTTCAAGGGAAAT
1 TTTCAAGGGAAAT
86641 GTTTTCAATG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 15 0.36
37 27 0.64
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.28
Consensus pattern (37 bp):
TTTCAAGGGAAATTATCTCAAGAGAGACAAAATTTCA
Found at i:88234 original size:183 final size:183
Alignment explanation
Indices: 87926--88275 Score: 637
Period size: 183 Copynumber: 1.9 Consensus size: 183
87916 GGTTTAACTA
87926 AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
1 AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
* ** *
87991 AGTGTCCGAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAGTCAGGGCTTTCGAGTTTCCT
66 AGTGTCCGAGCAATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
88056 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTG
131 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTG
*
88109 AAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
1 AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
*
88174 AGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
66 AGTGTCCGAGCAATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
*
88239 CTATAACCAATTGCCTTAGTGGAATAGCTTAGCTTTA
131 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
88276 CGGATTTAAT
Statistics
Matches: 160, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 160 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (183 bp):
AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
AGTGTCCGAGCAATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTG
Found at i:92191 original size:15 final size:15
Alignment explanation
Indices: 92173--92202 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
92163 AAAACCATGT
*
92173 TAGATAAAAATGTAA
1 TAGATAAAAAGGTAA
92188 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
92203 GAAATAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (15 bp):
TAGATAAAAAGGTAA
Found at i:92333 original size:8 final size:9
Alignment explanation
Indices: 92309--92334 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
92299 ATAAAAAATA
92309 AAGAAAAAG
1 AAGAAAAAG
92318 AAGAAAAAG
1 AAGAAAAAG
92327 AAGAAAAA
1 AAGAAAAA
92335 AATATAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (9 bp):
AAGAAAAAG
Found at i:92383 original size:29 final size:28
Alignment explanation
Indices: 92351--92419 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 28
92341 GAAATAAAAC
92351 AAATAAATA-AAATAATAATAAAAAAGTAA
1 AAATAAATATAAATAA-AATAAAAAA-TAA
*
92380 AAATAATATATATATAAAATAAAAAATAA
1 AAATAA-ATATAAATAAAATAAAAAATAA
92409 AAATAAATATA
1 AAATAAATATA
92420 TATATATATA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
28 5 0.14
29 15 0.41
30 12 0.32
31 5 0.14
ACGTcount: A:0.74, C:0.00, G:0.01, T:0.25
Consensus pattern (28 bp):
AAATAAATATAAATAAAATAAAAAATAA
Found at i:92403 original size:30 final size:31
Alignment explanation
Indices: 92351--92444 Score: 108
Period size: 30 Copynumber: 3.1 Consensus size: 31
92341 GAAATAAAAC
92351 AAATAAATA-A-A-ATAATAATAAAAAAGTAA
1 AAATAAATATATATATAATAATAAAAAA-TAA
92380 AAAT-AATATATATATAA-AATAAAAAATAA
1 AAATAAATATATATATAATAATAAAAAATAA
*
92409 AAATAAATATATATATATATATATAAATTAATAA
1 AAATAAATATATATATA-ATA-ATAAA-AAATAA
92443 AA
1 AA
92445 CTGATAATAA
Statistics
Matches: 56, Mismatches: 1, Indels: 11
0.82 0.01 0.16
Matches are distributed among these distances:
28 4 0.07
29 12 0.21
30 22 0.39
31 5 0.09
32 1 0.02
33 5 0.09
34 7 0.12
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (31 bp):
AAATAAATATATATATAATAATAAAAAATAA
Found at i:92404 original size:6 final size:6
Alignment explanation
Indices: 92290--92415 Score: 53
Period size: 6 Copynumber: 19.3 Consensus size: 6
92280 AATAGTAAGT
* * *
92290 AAAATA AATATAA AAAATA AAGAA-A AAGAAGA AAAAGA AGAAA-A AAATATA
1 AAAATA AAAAT-A AAAATA AA-AATA AA-AATA AAAATA A-AAATA AAA-ATA
* *
92341 GAAATA AAACA-A ATAAAT- AAAATA ATAATAA AAAAGTA AAAATA ATATATATA
1 AAAATA AAA-ATA A-AAATA AAAATA AAAAT-A AAAA-TA AAAATA A-A-A-ATA
92394 TAAAATAA AAAATA AAAATA AA
1 -AAAAT-A AAAATA AAAATA AA
92416 TATATATATA
Statistics
Matches: 97, Mismatches: 6, Indels: 34
0.71 0.04 0.25
Matches are distributed among these distances:
5 6 0.06
6 46 0.47
7 36 0.37
8 4 0.04
9 4 0.04
10 1 0.01
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:92411 original size:36 final size:36
Alignment explanation
Indices: 92357--92436 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 36
92347 AAACAAATAA
*
92357 ATAAAATAATAATAAAAAAGTAAAAATA-ATATATAT
1 ATAAAATAAAAATAAAAAA-TAAAAATATATATATAT
*
92393 ATAAAATAAAAA-ATAAAAATAAATATATATATATAT
1 ATAAAATAAAAATA-AAAAATAAAAATATATATATAT
92429 ATATAAAT
1 ATA-AAAT
92437 TAATAAAACT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
35 8 0.21
36 27 0.69
37 4 0.10
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (36 bp):
ATAAAATAAAAATAAAAAATAAAAATATATATATAT
Found at i:92418 original size:24 final size:24
Alignment explanation
Indices: 92330--92419 Score: 69
Period size: 24 Copynumber: 3.5 Consensus size: 24
92320 GAAAAAGAAG
92330 AAAA-AAATATAGAAATAAAACAA-A
1 AAAATAAATATA-AAATAAAA-AATA
*
92354 TAAATAAA-ATAATAATAAAAAAGTAAA
1 AAAATAAATATAA-AATAAAAAA-T--A
92381 AATAATATATATATAAAATAAAAAATA
1 AA-AATA-A-ATATAAAATAAAAAATA
92408 AAAATAAATATA
1 AAAATAAATATA
92420 TATATATATA
Statistics
Matches: 54, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
23 3 0.06
24 18 0.33
25 4 0.07
26 4 0.07
27 5 0.09
28 4 0.07
29 2 0.04
30 10 0.19
31 4 0.07
ACGTcount: A:0.74, C:0.01, G:0.02, T:0.22
Consensus pattern (24 bp):
AAAATAAATATAAAATAAAAAATA
Found at i:92454 original size:40 final size:38
Alignment explanation
Indices: 92357--92491 Score: 118
Period size: 40 Copynumber: 3.6 Consensus size: 38
92347 AAACAAATAA
*
92357 ATAAAAT-AATAATAAAAA-AGTAAA-AATA-ATATATAT
1 ATAAAATAAAAAATAAAAATA--AAATAATATATATATAT
92393 ATAAAATAAAAAATAAAAAT-AAATATATATATATATAT
1 ATAAAATAAAAAATAAAAATAAAATA-ATATATATATAT
* * * *
92431 ATAAATTAATAAAACTGATAATAAAATAATATATTTATAT
1 ATAAAATAA-AAAA-TAAAAATAAAATAATATATATATAT
** *
92471 ATAATCTAAAAAAAAAAAATA
1 ATAAAATAAAAAATAAAAATA
92492 TATACTAAAG
Statistics
Matches: 81, Mismatches: 10, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
35 3 0.04
36 8 0.10
37 13 0.16
38 21 0.26
39 8 0.10
40 23 0.28
41 5 0.06
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (38 bp):
ATAAAATAAAAAATAAAAATAAAATAATATATATATAT
Found at i:92918 original size:34 final size:34
Alignment explanation
Indices: 92864--92932 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
92854 GAATCCTAGC
*
92864 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
1 AAAATTATATCATATCTTTAGGAGTTTGAATCCT
* *
92898 AAAATTATATCCTATTTTTAGGAGTTTGAATCCT
1 AAAATTATATCATATCTTTAGGAGTTTGAATCCT
92932 A
1 A
92933 GTAGGACGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (34 bp):
AAAATTATATCATATCTTTAGGAGTTTGAATCCT
Found at i:93782 original size:16 final size:16
Alignment explanation
Indices: 93763--93794 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
93753 TAGTTATAAT
93763 TATAAAAAAATTAAAA
1 TATAAAAAAATTAAAA
*
93779 TATAAGAAAATTAAAA
1 TATAAAAAAATTAAAA
93795 AAAAATCTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (16 bp):
TATAAAAAAATTAAAA
Found at i:100348 original size:22 final size:22
Alignment explanation
Indices: 100320--100368 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
100310 AATTGAGTTA
100320 CGAAATTGGCGAATCCGAATTG
1 CGAAATTGGCGAATCCGAATTG
* *
100342 CGAAATTGGCGAATTCGAGTTG
1 CGAAATTGGCGAATCCGAATTG
100364 CGAAA
1 CGAAA
100369 ACGAAATTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (22 bp):
CGAAATTGGCGAATCCGAATTG
Found at i:100871 original size:15 final size:15
Alignment explanation
Indices: 100853--100899 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
100843 GTATTAATTA
100853 TTTTATTATTTTATT
1 TTTTATTATTTTATT
100868 TTTTATTATTTTA--
1 TTTTATTATTTTATT
*
100881 TTTAATTATTTTATT
1 TTTTATTATTTTATT
100896 TTTT
1 TTTT
100900 TGCAGTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 12 0.43
15 16 0.57
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTATTATTTTATT
Found at i:100882 original size:28 final size:27
Alignment explanation
Indices: 100837--100899 Score: 90
Period size: 28 Copynumber: 2.3 Consensus size: 27
100827 AATTTAATCA
* *
100837 TATTTTGTATTAATTATTTTATTATTT
1 TATTTTTTATTAATTATTTAATTATTT
*
100864 TATTTTTTATTATTTTATTTAATTATTT
1 TATTTTTTATTA-ATTATTTAATTATTT
100892 TATTTTTT
1 TATTTTTT
100900 TGCAGTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 11 0.34
28 21 0.66
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (27 bp):
TATTTTTTATTAATTATTTAATTATTT
Found at i:100889 original size:23 final size:23
Alignment explanation
Indices: 100849--100892 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
100839 TTTTGTATTA
*
100849 ATTATTTTATTATTTTATTTTTT
1 ATTATTTTATTATATTATTTTTT
100872 ATTATTTTATT-TAATTATTTT
1 ATTATTTTATTAT-ATTATTTT
100893 ATTTTTTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (23 bp):
ATTATTTTATTATATTATTTTTT
Found at i:100891 original size:8 final size:8
Alignment explanation
Indices: 100849--100882 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
100839 TTTTGTATTA
100849 ATTATTTT
1 ATTATTTT
100857 ATTATTTT
1 ATTATTTT
100865 ATT-TTTT
1 ATTATTTT
100872 ATTATTTT
1 ATTATTTT
100880 ATT
1 ATT
100883 TAATTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
ATTATTTT
Found at i:101210 original size:21 final size:19
Alignment explanation
Indices: 101150--101211 Score: 67
Period size: 16 Copynumber: 3.3 Consensus size: 19
101140 TATAACTGCA
*
101150 AAAAAAATAATAATTAAAT
1 AAAATAATAATAATTAAAT
101169 AAAATAATAA-AA--AAAT
1 AAAATAATAATAATTAAAT
*
101185 TAAATAATACAATAATTAAAT
1 AAAATAAT--AATAATTAAAT
101206 AAAATA
1 AAAATA
101212 CTAACAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
16 11 0.31
18 4 0.11
19 11 0.31
21 9 0.26
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAATAATAATAATTAAAT
Found at i:115614 original size:16 final size:16
Alignment explanation
Indices: 115555--115614 Score: 66
Period size: 16 Copynumber: 3.8 Consensus size: 16
115545 TAATAAATAA
**
115555 ACGAACATAAATGAAC
1 ACGAACATAAACAAAC
* *
115571 ACGTACATATACAAAC
1 ACGAACATAAACAAAC
* *
115587 ACGAATAAAAACAAAC
1 ACGAACATAAACAAAC
115603 ACGAACATAAAC
1 ACGAACATAAAC
115615 GGACATAAAC
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.58, C:0.22, G:0.08, T:0.12
Consensus pattern (16 bp):
ACGAACATAAACAAAC
Found at i:116751 original size:24 final size:24
Alignment explanation
Indices: 116690--116740 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
116680 GATTGGGTTA
**
116690 AACATAAATGAACGAACATAAACG
1 AACATAACCGAACGAACATAAACG
*
116714 AACATAACCGAACGAACATAATCG
1 AACATAACCGAACGAACATAAACG
116738 AAC
1 AAC
116741 GTTCACGAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.55, C:0.22, G:0.12, T:0.12
Consensus pattern (24 bp):
AACATAACCGAACGAACATAAACG
Found at i:122846 original size:21 final size:20
Alignment explanation
Indices: 122760--122917 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
122750 AAATGACCAA
**
122760 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
122779 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
122799 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
122819 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
122840 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
122861 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
122881 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
122902 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
122918 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:122927 original size:20 final size:20
Alignment explanation
Indices: 122884--123077 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
122874 CGATTTTCCA
* ** *
122884 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
122904 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
122924 AAATCGCAACTCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
122944 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
122964 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
122984 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
123004 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
123024 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
123044 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
123065 AAATCGCAACGCG
1 AAATCGCAACGCG
123078 ATATTTAAAG
Statistics
Matches: 144, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 124 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:122968 original size:60 final size:60
Alignment explanation
Indices: 122884--123077 Score: 237
Period size: 60 Copynumber: 3.2 Consensus size: 60
122874 CGATTTTCCA
* ** * *
122884 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACTCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACTCGTATCCGT
* * ***
122944 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAA-TGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACT-CGTATCCGT
* ** *
123004 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACTCGTATCCGT
123065 AAATCGCAACGCG
1 AAATCGCAACGCG
123078 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 20, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
59 1 0.01
60 80 0.72
61 30 0.27
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACTCGTATCCGT
Found at i:123499 original size:33 final size:33
Alignment explanation
Indices: 123460--123530 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
123450 TTCACTTAGA
*
123460 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
123493 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
123526 TTTCA
1 TTTCA
123531 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:123666 original size:41 final size:41
Alignment explanation
Indices: 123608--123685 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
123598 TTGCAGAAGA
*
123608 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
* *
123649 GTCGCAACGAGAGAAATGACAATCGTAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
123686 CGCAACGCGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.44, C:0.17, G:0.26, T:0.14
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
Found at i:123682 original size:21 final size:21
Alignment explanation
Indices: 123609--123684 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
123599 TGCAGAAGAG
* *
123609 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGACAA
**
123630 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGACAA
123650 TCGCAACGAGAGAAATGACAA
1 TCGCAACGAGAGAAATGACAA
*
123671 TCGTAACGAGAGAA
1 TCGCAACGAGAGAA
123685 TCGCAACGCG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.45, C:0.17, G:0.25, T:0.13
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGACAA
Found at i:123712 original size:33 final size:33
Alignment explanation
Indices: 123664--123728 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
123654 AACGAGAGAA
* * *
123664 ATGACAATCGTAACGAGAGAATCGCAACGCGAT
1 ATGAAAATCGCAACGAGAAAATCGCAACGCGAT
123697 ATGAAAATCGCAACGAGAAAATCGCAACGCGA
1 ATGAAAATCGCAACGAGAAAATCGCAACGCGA
123729 AACCAAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (33 bp):
ATGAAAATCGCAACGAGAAAATCGCAACGCGAT
Found at i:123718 original size:14 final size:14
Alignment explanation
Indices: 123699--123730 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
123689 AACGCGATAT
123699 GAAAATCGCAACGA
1 GAAAATCGCAACGA
*
123713 GAAAATCGCAACGC
1 GAAAATCGCAACGA
123727 GAAA
1 GAAA
123731 CCAAAATCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.22, G:0.22, T:0.06
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:123737 original size:33 final size:33
Alignment explanation
Indices: 123669--123741 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
123659 GAGAAATGAC
* * * **
123669 AATCGTAACGAGAGAATCGCAACGCGATATGAA
1 AATCGCAACGAGAAAATCGCAACGCGAAACCAA
123702 AATCGCAACGAGAAAATCGCAACGCGAAACCAA
1 AATCGCAACGAGAAAATCGCAACGCGAAACCAA
123735 AATCGCA
1 AATCGCA
123742 TTGCAATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.45, C:0.23, G:0.21, T:0.11
Consensus pattern (33 bp):
AATCGCAACGAGAAAATCGCAACGCGAAACCAA
Found at i:123778 original size:14 final size:14
Alignment explanation
Indices: 123759--123848 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
123749 TTTCATTTCG
123759 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
123773 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
123792 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
123806 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
123825 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
123839 CGTTGCGATT
1 CGTTGCGATT
123849 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 20 0.32
ACGTcount: A:0.09, C:0.24, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:123789 original size:33 final size:33
Alignment explanation
Indices: 123742--123856 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
123732 CAAAATCGCA
*
123742 TTGCAATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
123775 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
123808 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
123841 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
123857 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.10, C:0.23, G:0.20, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:123797 original size:19 final size:19
Alignment explanation
Indices: 123737--123834 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
123727 GAAACCAAAA
* *
123737 TCGCATTGCAATTTTCATT
1 TCGCGTTGCGATTTTCATT
123756 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
123770 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
123789 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
123803 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
123822 TCGCGTTGCGATT
1 TCGCGTTGCGATT
123835 CTCTCGTTGC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 31 0.50
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:125714 original size:93 final size:93
Alignment explanation
Indices: 125555--125797 Score: 477
Period size: 93 Copynumber: 2.6 Consensus size: 93
125545 TAGATTGCTT
*
125555 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
125620 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
125648 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
125713 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
125741 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG
125798 TATTCTTTGG
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 149 1.00
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:127545 original size:14 final size:14
Alignment explanation
Indices: 127526--127561 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
127516 ATTGTTTAAT
127526 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
127540 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
127554 TGATTTGT
1 TGATTTGT
127562 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:127684 original size:19 final size:19
Alignment explanation
Indices: 127668--127765 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
127658 AAAAATGACT
127668 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
127687 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
127706 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
127720 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
127739 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
127759 ATCGCAA
1 ATCGCAA
127766 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:127797 original size:53 final size:53
Alignment explanation
Indices: 127668--127783 Score: 225
Period size: 53 Copynumber: 2.2 Consensus size: 53
127658 AAAAATGACT
127668 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
127720 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
127773 ATCGCAATGCG
1 ATCGCAATGCG
127784 TTTATAATTT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:127827 original size:33 final size:33
Alignment explanation
Indices: 127790--128080 Score: 243
Period size: 33 Copynumber: 8.5 Consensus size: 33
127780 TGCGTTTATA
127790 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
* * * *
127823 ATTTCGCATTGCGATT-T-TCATTTCGCATTGTG
1 ATTTCGCATTGCGATTCTCTCGTTGCG-ATTTTC
* * *
127855 ATTCTCTCTTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATT-TCGCATTGCGA--TTC-TCTCG--TTGCGATTTTC
127894 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
127927 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * * * *
127967 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
127998 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
* *
128031 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTC
1 ATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTC
*
128065 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
128081 GTAATTTCCG
Statistics
Matches: 208, Mismatches: 28, Indels: 44
0.74 0.10 0.16
Matches are distributed among these distances:
31 15 0.07
32 13 0.06
33 87 0.42
34 29 0.14
35 12 0.06
36 7 0.03
37 3 0.01
38 19 0.09
39 10 0.05
40 13 0.06
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:127836 original size:19 final size:19
Alignment explanation
Indices: 127812--128080 Score: 282
Period size: 19 Copynumber: 15.4 Consensus size: 19
127802 GATTCTCTCG
127812 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
127831 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* * *
127850 TTGTGA--TTC---TCTCT
1 TTGCGATTTTCATTTCGCA
127864 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
127883 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
127902 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
127916 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
127935 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
127954 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
127968 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
127987 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
128006 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
128020 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
128040 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
128054 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
128073 TTGCGATT
1 TTGCGATT
128081 GTAATTTCCG
Statistics
Matches: 210, Mismatches: 14, Indels: 52
0.76 0.05 0.19
Matches are distributed among these distances:
14 37 0.18
16 26 0.12
17 23 0.11
18 3 0.01
19 109 0.52
20 12 0.06
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:127847 original size:52 final size:52
Alignment explanation
Indices: 127790--128052 Score: 499
Period size: 52 Copynumber: 5.0 Consensus size: 52
127780 TGCGTTTATA
127790 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
127842 ATTTCGCATTGTGATTCTCTCTTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
127894 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
127946 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
127998 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
128051 AT
1 AT
128053 GTTGGGATTT
Statistics
Matches: 206, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
52 189 0.92
53 17 0.08
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.47
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:130378 original size:12 final size:12
Alignment explanation
Indices: 130361--130385 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
130351 TCTTCGGGGA
130361 CTTTTTCTTCTT
1 CTTTTTCTTCTT
130373 CTTTTTCTTCTT
1 CTTTTTCTTCTT
130385 C
1 C
130386 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:130593 original size:24 final size:24
Alignment explanation
Indices: 130559--130605 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
130549 CTGAAACATC
130559 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
130583 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
130606 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:131316 original size:20 final size:20
Alignment explanation
Indices: 131288--131517 Score: 228
Period size: 20 Copynumber: 11.5 Consensus size: 20
131278 AAATTTCAGT
* * *
131288 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
131308 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
131328 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
131348 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
131368 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
131388 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
131408 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
131428 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
131448 GTTGCGATTTACGGATACGA
1 GTTGCGATTTACGGATTCGC
*
131468 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
131488 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
131508 GTTGCGATTT
1 GTTGCGATTT
131518 TGGAAAATCG
Statistics
Matches: 180, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 179 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:131534 original size:21 final size:21
Alignment explanation
Indices: 131504--131586 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
131494 ATTTTCATAT
*
131504 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
131525 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
131546 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
131567 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
131587 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:131577 original size:42 final size:43
Alignment explanation
Indices: 131484--131582 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
131474 ATTTATGTGT
* *
131484 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
131525 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
131567 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
131583 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:143436 original size:41 final size:41
Alignment explanation
Indices: 143342--143422 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
143332 AATGTCACCA
143342 AATTTCATTTCTTCACCAGTAATGGTTTAAAAGATTGAAGC
1 AATTTCATTTCTTCACCAGTAATGGTTTAAAAGATTGAAGC
*
143383 AATTCCATTTCTTCACCAGTAATGG-TTAAAAGATTGAAGC
1 AATTTCATTTCTTCACCAGTAATGGTTTAAAAGATTGAAGC
143423 TTTTTTTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 15 0.38
41 24 0.62
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (41 bp):
AATTTCATTTCTTCACCAGTAATGGTTTAAAAGATTGAAGC
Found at i:148018 original size:36 final size:36
Alignment explanation
Indices: 147952--148023 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
147942 ACATCTACCA
*
147952 AAATTTTACCAAACTTTGAAAAAT-ATTTTTCAAAG
1 AAATTTTACCAAACTTTGAAAAATAATTTTCCAAAG
147987 AAATATTTACCAAACTTTGAAAAA-ACATTTTCCAAAG
1 AAAT-TTTACCAAACTTTGAAAAATA-ATTTTCCAAAG
148024 TTGGTTGCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
35 4 0.12
36 19 0.58
37 10 0.30
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (36 bp):
AAATTTTACCAAACTTTGAAAAATAATTTTCCAAAG
Found at i:148023 original size:37 final size:35
Alignment explanation
Indices: 147952--148023 Score: 108
Period size: 37 Copynumber: 2.0 Consensus size: 35
147942 ACATCTACCA
* *
147952 AAATTTTACCAAACTTTGAAAAATATTTTTCAAAG
1 AAATTTTACCAAACTTTGAAAAACATTTTCCAAAG
147987 AAATATTTACCAAACTTTGAAAAAACATTTTCCAAAG
1 AAAT-TTTACCAAACTTTG-AAAAACATTTTCCAAAG
148024 TTGGTTGCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 4 0.12
36 14 0.42
37 15 0.45
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (35 bp):
AAATTTTACCAAACTTTGAAAAACATTTTCCAAAG
Done.