Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001609.1 Hibiscus syriacus cultivar Beakdansim tig00003193_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: 159306
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:4078 original size:24 final size:24
Alignment explanation
Indices: 4051--4145 Score: 84
Period size: 24 Copynumber: 4.0 Consensus size: 24
4041 AAACGGAGAT
* *
4051 ATCAAAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* * * * *
4075 ATCAGATATCATAGCAGAATCCAT
1 ATCAGAAATCAGAACAGAATTCAG
*
4099 ATCAGAAATCAGAACAAAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* *
4123 GTCATG-TATCAGAACAGAATTCA
1 ATCA-GAAATCAGAACAGAATTCA
4146 AGTCGGAAAT
Statistics
Matches: 55, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
24 54 0.98
25 1 0.02
ACGTcount: A:0.48, C:0.18, G:0.13, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:4133 original size:48 final size:48
Alignment explanation
Indices: 4049--4142 Score: 118
Period size: 48 Copynumber: 2.0 Consensus size: 48
4039 GTAAACGGAG
* * *
4049 ATATCAAAAATCAAAACAGAATTCAGATCAGATATCATAGCAGAATCC
1 ATATCAAAAATCAAAACAAAATTCAGATCAGATATCAGAACAGAATCC
* * *
4097 ATATCAGAAATCAGAACAAAATTCAGGTCATG-TATCAGAACAGAAT
1 ATATCAAAAATCAAAACAAAATTCAGATCA-GATATCAGAACAGAAT
4143 TCAAGTCGGA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 38 0.97
49 1 0.03
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (48 bp):
ATATCAAAAATCAAAACAAAATTCAGATCAGATATCAGAACAGAATCC
Found at i:4157 original size:24 final size:25
Alignment explanation
Indices: 4103--4157 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
4093 ATCCATATCA
* *
4103 GAAATCAGAACAAAATTCAGGTCAT
1 GAAATCAGAACAAAATTCAAGTCAG
* *
4128 G-TATCAGAACAGAATTCAAGTC-G
1 GAAATCAGAACAAAATTCAAGTCAG
4151 GAAATCA
1 GAAATCA
4158 AATAAAACAT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
23 1 0.04
24 22 0.92
25 1 0.04
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.20
Consensus pattern (25 bp):
GAAATCAGAACAAAATTCAAGTCAG
Found at i:5037 original size:447 final size:448
Alignment explanation
Indices: 4202--5100 Score: 1523
Period size: 447 Copynumber: 2.0 Consensus size: 448
4192 TGTTTATAGA
* *
4202 TATTATTCAGAGACACTTGATAATCTTATCAAGCAGAGAAATAAGGATCTTCCGTGTACCGATAG
1 TATTATTCAGAGACACTGGATAATCTTATCAAGCAGAGAAACAAGGATCTTCCGTGTACCGATAG
* * *
4267 AATTCCGAAAGTTAGAATCACTATTGTAAAAGTTCATTAACTGACAAAATCATCAGTTATGCAGA
66 AATTCCGAAAGTTAGAATCACTATTGGAAAAGTTCATTAACTGAAAAAATCATCAATTATGCAGA
* * *
4332 ATACGATTTCAGCTGATAAGGAAGAAACGAGAATTCAATCTATTTCGATTAATCGGATTATCGAA
131 ATACGATTTCAACTGATAAGGAAGAAACGAGAATTCAATCTATGTCGATTAATCAGATTATCGAA
* *
4397 CAACTCCCAGAATTTATGCTTGTCGACTGGTTAATTCATTGTCCTGACATGGTATTTACTCTTTA
196 CAACTCCCAGAACTTATGCTTATCGACTGGTTAATTCATTGTCCTGACATGGTATTTACTCTTTA
4462 ATACCAAAAATTCTTATCCATAGATCATCTTCAGAATCATCATTGAATAAATCTTCCAATATTCT
261 ATACCAAAAATTCTTATCCATAGATCATCTTCAGAATCATCATTGAATAAATCTTCCAATATTCT
4527 TTATTTAATTTCCACGCCTCCATGATATCATGAAATGATGACGTGCTTGATTTATAGTTCATGAC
326 TTATTTAATTTCCACGCCTCCATGATATCATGAAATGATGACGTGCTTGATTTATAGTTCATGAC
4592 CCATAAGAACATTACATCATGTATGTTCATTAATGTTTCCAGACTCATCCAAATCACT
391 CCATAAGAACATTACATCATGTATGTTCATTAATGTTTCCAGACTCATCCAAATCACT
* * *
4650 TATTATTCAGAGACACTGGATAATCTTATCAGGTAGAGAAACAAGGATCTTTCGTGTACCGATAG
1 TATTATTCAGAGACACTGGATAATCTTATCAAGCAGAGAAACAAGGATCTTCCGTGTACCGATAG
* * * *
4715 AATTTCGGAAGTTAGAATCACTATTGGAAGAGTTCATTAATTGAAAAAATCATCAATTATGCAGA
66 AATTCCGAAAGTTAGAATCACTATTGGAAAAGTTCATTAACTGAAAAAATCATCAATTATGCAGA
* * * *
4780 ATGCGATTTCAACTGATAAGGAAGAAATGATAATTCAATCTATGTCGATTGATCAGATTATCGAA
131 ATACGATTTCAACTGATAAGGAAGAAACGAGAATTCAATCTATGTCGATTAATCAGATTATCGAA
*
4845 CAACT-CCAGAACTTATGCTTATCGACTGGTTAATTCATTGTCCT-TCTATGGTATTTACTCTTT
196 CAACTCCCAGAACTTATGCTTATCGACTGGTTAATTCATTGTCCTGAC-ATGGTATTTACTCTTT
* * * *
4908 AATACCAAAAATTCTTATCCATATATCATCTTCAGAATCATCGTTGAATAGATCTTCCAATGTTC
260 AATACCAAAAATTCTTATCCATAGATCATCTTCAGAATCATCATTGAATAAATCTTCCAATATTC
*
4973 TTTATTTAATTTCCACGCCTCCATGATATCATGAAATGATGACGTGCTTGATTTGTAGTTCATGA
325 TTTATTTAATTTCCACGCCTCCATGATATCATGAAATGATGACGTGCTTGATTTATAGTTCATGA
*
5038 CCCATAAGAACATTACATCATGTATGTTCATTAATGTTTCCAGACTTATCCAAATCACT
390 CCCATAAGAACATTACATCATGTATGTTCATTAATGTTTCCAGACTCATCCAAATCACT
5097 TATT
1 TATT
5101 TAATCCTAAG
Statistics
Matches: 422, Mismatches: 28, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
446 1 0.00
447 240 0.57
448 181 0.43
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (448 bp):
TATTATTCAGAGACACTGGATAATCTTATCAAGCAGAGAAACAAGGATCTTCCGTGTACCGATAG
AATTCCGAAAGTTAGAATCACTATTGGAAAAGTTCATTAACTGAAAAAATCATCAATTATGCAGA
ATACGATTTCAACTGATAAGGAAGAAACGAGAATTCAATCTATGTCGATTAATCAGATTATCGAA
CAACTCCCAGAACTTATGCTTATCGACTGGTTAATTCATTGTCCTGACATGGTATTTACTCTTTA
ATACCAAAAATTCTTATCCATAGATCATCTTCAGAATCATCATTGAATAAATCTTCCAATATTCT
TTATTTAATTTCCACGCCTCCATGATATCATGAAATGATGACGTGCTTGATTTATAGTTCATGAC
CCATAAGAACATTACATCATGTATGTTCATTAATGTTTCCAGACTCATCCAAATCACT
Found at i:6957 original size:14 final size:14
Alignment explanation
Indices: 6938--6974 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
6928 GATCAACAGT
6938 AAACGGCTCGACTC
1 AAACGGCTCGACTC
*
6952 AAACGGCTCGCCTC
1 AAACGGCTCGACTC
6966 AAACGGCTC
1 AAACGGCTC
6975 CCTAGGCTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.27, C:0.38, G:0.22, T:0.14
Consensus pattern (14 bp):
AAACGGCTCGACTC
Found at i:8526 original size:26 final size:26
Alignment explanation
Indices: 8490--8543 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
8480 ACTGAAGTAC
*
8490 TAATACACATAAGGTCGTGCCCACCA
1 TAATACACATAAGGTCATGCCCACCA
8516 TAATACACATAAGGTCATGCCCACCA
1 TAATACACATAAGGTCATGCCCACCA
8542 TA
1 TA
8544 TGCACTAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.37, C:0.30, G:0.13, T:0.20
Consensus pattern (26 bp):
TAATACACATAAGGTCATGCCCACCA
Found at i:23101 original size:17 final size:17
Alignment explanation
Indices: 23076--23119 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
23066 AATAGATAAA
*
23076 ATATATTATCTATTAAT
1 ATATTTTATCTATTAAT
*
23093 ATATTTTATCTATTATT
1 ATATTTTATCTATTAAT
23110 ATTATTTTAT
1 A-TATTTTAT
23120 TGTTAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (17 bp):
ATATTTTATCTATTAAT
Found at i:23128 original size:18 final size:18
Alignment explanation
Indices: 23075--23133 Score: 59
Period size: 17 Copynumber: 3.3 Consensus size: 18
23065 TAATAGATAA
* *
23075 AATATATTATCTATTAAT
1 AATATTTTATCTATTATT
23093 -ATATTTTATCTATTATT
1 AATATTTTATCTATTATT
* *
23110 ATTATTTTAT-TGTTAATT
1 AATATTTTATCTATT-ATT
23128 AATATT
1 AATATT
23134 CAAGTTGGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
17 18 0.53
18 16 0.47
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (18 bp):
AATATTTTATCTATTATT
Found at i:23736 original size:29 final size:28
Alignment explanation
Indices: 23645--23742 Score: 83
Period size: 29 Copynumber: 3.3 Consensus size: 28
23635 AAGAATTTGG
*
23645 GGATGAAATTAGAATGTTCAAAAGTTTAA
1 GGATG-AATTAGAATATTCAAAAGTTTAA
* *
23674 GGACT-AATTTAGAATGATATTC-ATAGTTTGA
1 GGA-TGAA-TTAG-A--ATATTCAAAAGTTTAA
23705 GGATGAGATTAGAATATTCAAAAGTTTAA
1 GGATGA-ATTAGAATATTCAAAAGTTTAA
*
23734 GGATCAATT
1 GGATGAATT
23743 TAAAATAAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
28 11 0.20
29 19 0.35
30 4 0.07
31 15 0.27
32 6 0.11
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.34
Consensus pattern (28 bp):
GGATGAATTAGAATATTCAAAAGTTTAA
Found at i:28252 original size:32 final size:32
Alignment explanation
Indices: 28216--28310 Score: 91
Period size: 32 Copynumber: 3.0 Consensus size: 32
28206 CAATCTAAAG
**
28216 GAGTATCTTGGGGCCTGGGAGCCTAACCAAGA
1 GAGTATCTTGGGGCCTAAGAGCCTAACCAAGA
* * * *
28248 GAGTACCTTAGGGCCTAAGAGCCTACCCAAGT
1 GAGTATCTTGGGGCCTAAGAGCCTAACCAAGA
* * * * *
28280 GAATATCTTGGGACTTTAGAGCCTACCCAAG
1 GAGTATCTTGGGGCCTAAGAGCCTAACCAAG
28311 GAAATGCCTT
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.21
Consensus pattern (32 bp):
GAGTATCTTGGGGCCTAAGAGCCTAACCAAGA
Found at i:28322 original size:32 final size:31
Alignment explanation
Indices: 28265--28343 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 31
28255 TTAGGGCCTA
**
28265 AGAGCCTACCCAAGTGAATATCTTGGGACTTT
1 AGAGCCTACCCAAG-GAATATCTTGGGACGAT
*
28297 AGAGCCTACCCAAGGAA-ATGCCTTGGGGCGAT
1 AGAGCCTACCCAAGGAATAT--CTTGGGACGAT
28329 AGAGCCTACCCAAGG
1 AGAGCCTACCCAAGG
28344 TCACCTTAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 2 0.05
31 3 0.07
32 37 0.88
ACGTcount: A:0.29, C:0.25, G:0.27, T:0.19
Consensus pattern (31 bp):
AGAGCCTACCCAAGGAATATCTTGGGACGAT
Found at i:29255 original size:22 final size:22
Alignment explanation
Indices: 29204--29263 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
29194 ATGTGAAATT
29204 TGTCCCGAAGGACCTCATGTATA
1 TGTCCCGAAGGACCT-ATGTATA
*
29227 --TCCCGAATGACCTATGTATA
1 TGTCCCGAAGGACCTATGTATA
29247 TGTCCCGAAGGACCTAT
1 TGTCCCGAAGGACCTAT
29264 ATAACCCTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 7 0.21
21 12 0.36
22 14 0.42
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (22 bp):
TGTCCCGAAGGACCTATGTATA
Found at i:36189 original size:20 final size:20
Alignment explanation
Indices: 36166--36225 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
36156 GTTAATTGAC
36166 TAGGGGTATCGGTACCTC-TA
1 TAGGGGTATCGGTACC-CATA
36186 TAGGGGTATCGGTACCCATA
1 TAGGGGTATCGGTACCCATA
*
36206 TGGGGGTATCGGTACCCATA
1 TAGGGGTATCGGTACCCATA
36226 GAGCATTCTA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 1 0.03
20 37 0.97
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.27
Consensus pattern (20 bp):
TAGGGGTATCGGTACCCATA
Found at i:36509 original size:13 final size:14
Alignment explanation
Indices: 36493--36522 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
36483 AATTTAATCG
36493 AATATAAAA-TTAA
1 AATATAAAACTTAA
36506 AATATAAAACTTAA
1 AATATAAAACTTAA
36520 AAT
1 AAT
36523 TCATTAACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (14 bp):
AATATAAAACTTAA
Found at i:36679 original size:19 final size:19
Alignment explanation
Indices: 36655--36692 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
36645 TTGTCTTAAT
36655 CCCCTTACTATAACACTTC
1 CCCCTTACTATAACACTTC
36674 CCCCTTACTATAACACTTC
1 CCCCTTACTATAACACTTC
36693 TTTCCCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.42, G:0.00, T:0.32
Consensus pattern (19 bp):
CCCCTTACTATAACACTTC
Found at i:42357 original size:22 final size:21
Alignment explanation
Indices: 42315--42354 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
42305 AAGATTATTT
42315 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
42336 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
42355 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:44468 original size:17 final size:16
Alignment explanation
Indices: 44437--44470 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
44427 CAGGTGAGGA
44437 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
44453 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
44470 T
1 T
44471 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:50860 original size:19 final size:21
Alignment explanation
Indices: 50823--50865 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
50813 TAACTTTTTC
50823 TTTTATCTTTCATTATTAA-T
1 TTTTATCTTTCATTATTAACT
* *
50843 TTTTCTCTTTCA-TCTTAACT
1 TTTTATCTTTCATTATTAACT
50863 TTT
1 TTT
50866 ACCTTTTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.19, C:0.16, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTATCTTTCATTATTAACT
Found at i:50871 original size:19 final size:20
Alignment explanation
Indices: 50822--50871 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
50812 TTAACTTTTT
*
50822 CTTTTATCTTTCATTATTAA
1 CTTTTACCTTTCATTATTAA
* *
50842 -TTTTTCTCTTTCA-TCTTAA
1 CTTTTAC-CTTTCATTATTAA
50861 CTTTTACCTTT
1 CTTTTACCTTT
50872 TCTCTTTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.18, C:0.20, G:0.00, T:0.62
Consensus pattern (20 bp):
CTTTTACCTTTCATTATTAA
Found at i:54680 original size:17 final size:16
Alignment explanation
Indices: 54649--54682 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
54639 CACGTGAGGA
54649 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
54665 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
54682 T
1 T
54683 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:58688 original size:32 final size:34
Alignment explanation
Indices: 58621--58705 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 34
58611 GGGCCGGATA
58621 TATATATATATATTTAAATTAAATATATAAATAT
1 TATATATATATATTTAAATTAAATATATAAATAT
* * *
58655 TATATATATTTTTTAATTTAAATTAAATTTATTAATAT
1 TATATATA---TAT-ATTTAAATTAAATATATAAATAT
58693 TATATATATATAT
1 TATATATATATAT
58706 AAAATAATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
34 10 0.23
35 2 0.05
37 2 0.05
38 29 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (34 bp):
TATATATATATATTTAAATTAAATATATAAATAT
Found at i:58825 original size:35 final size:36
Alignment explanation
Indices: 58786--58861 Score: 109
Period size: 35 Copynumber: 2.1 Consensus size: 36
58776 CGTCCCCGTT
* *
58786 CCCGTCCCCGTTTAGCATAAATAG-TTTTCCCCATC
1 CCCGTCCCCGTTTAGAATAAACAGTTTTTCCCCATC
* *
58821 CCCGTCCCTGTTTAGAATAAACAGTTTTTCCCCGTC
1 CCCGTCCCCGTTTAGAATAAACAGTTTTTCCCCATC
58857 CCCGT
1 CCCGT
58862 TTAATTCAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 21 0.58
36 15 0.42
ACGTcount: A:0.18, C:0.37, G:0.13, T:0.32
Consensus pattern (36 bp):
CCCGTCCCCGTTTAGAATAAACAGTTTTTCCCCATC
Found at i:60525 original size:20 final size:21
Alignment explanation
Indices: 60500--60540 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
60490 TTGTTTGGCT
60500 CTGAATG-GAACCATTCAGCG
1 CTGAATGTGAACCATTCAGCG
*
60520 CTGAATGTTGAACCGTTCAGC
1 CTGAATG-TGAACCATTCAGC
60541 ATTCAGCGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (21 bp):
CTGAATGTGAACCATTCAGCG
Found at i:60732 original size:15 final size:16
Alignment explanation
Indices: 60694--60734 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
60684 ACAGATCATC
*
60694 TGAATCATTCAGCATT
1 TGAATCATTCAGCACT
*
60710 TGAATCATTCAGCGCT
1 TGAATCATTCAGCACT
60726 T-AATCATTC
1 TGAATCATTC
60735 TGAAGTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (16 bp):
TGAATCATTCAGCACT
Found at i:61648 original size:2 final size:2
Alignment explanation
Indices: 61641--61666 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
61631 TAAAATTATC
61641 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
61667 TTGTTAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62614 original size:14 final size:15
Alignment explanation
Indices: 62587--62621 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
62577 GTATTAATTA
62587 TTTTTCTTTATTTTC
1 TTTTTCTTTATTTTC
62602 TTTTTCTTT-TTTTC
1 TTTTTCTTTATTTTC
62616 TGTTTT
1 T-TTTT
62622 TAAATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTTCTTTATTTTC
Found at i:66952 original size:27 final size:27
Alignment explanation
Indices: 66922--66978 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
66912 CTCATCGATG
*
66922 AAATAAATTTGTTATTTAAAGATATTT
1 AAATAAATTTGTTAATTAAAGATATTT
66949 AAATAAATTTGTTAATTAAAGATATTT
1 AAATAAATTTGTTAATTAAAGATATTT
66976 AAA
1 AAA
66979 AAAAAATTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (27 bp):
AAATAAATTTGTTAATTAAAGATATTT
Found at i:85200 original size:58 final size:58
Alignment explanation
Indices: 85133--85247 Score: 167
Period size: 58 Copynumber: 2.0 Consensus size: 58
85123 ACTATATCTT
* * *
85133 TTATATTAAATTGGTCCTTAAACATTTAAATATTCCAATTTCATCTCTATACTATGAC
1 TTATATTAAATTAGTCCTTAAACATTTAAATATTCCAATTTCATCCCTAAACTATGAC
* * * *
85191 TTATTTTAAATTAGTCCTTCAACTTTTAAATATTCTAATTTCATCCCTAAACTATGA
1 TTATATTAAATTAGTCCTTAAACATTTAAATATTCCAATTTCATCCCTAAACTATGA
85248 TCCACTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.34, C:0.17, G:0.04, T:0.44
Consensus pattern (58 bp):
TTATATTAAATTAGTCCTTAAACATTTAAATATTCCAATTTCATCCCTAAACTATGAC
Found at i:85293 original size:59 final size:58
Alignment explanation
Indices: 85139--85296 Score: 158
Period size: 58 Copynumber: 2.7 Consensus size: 58
85129 TCTTTTATAT
* ** * * * * *
85139 TAAATTGGTCCTTAAACATTTAAATATTCCAATTTCATCTCTATACTATGACTTATTT
1 TAAATTAGTCCTCCAACTTTTAAATATTCCAATTTCATCCCTAAACTATGACTCATTC
* *
85197 TAAATTAGTCCTTCAACTTTTAAATATTCTAATTTCATCCCTAAACTATGA-TCCACTTCC
1 TAAATTAGTCCTCCAACTTTTAAATATTCCAATTTCATCCCTAAACTATGACT-CA-TT-C
* * *
85257 TAAATTGGT-CTCCAATTTTTTAATATTCCAATTTCATCCC
1 TAAATTAGTCCTCCAACTTTTAAATATTCCAATTTCATCCC
85297 CAAATTCATC
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
57 1 0.01
58 46 0.55
59 29 0.35
60 8 0.10
ACGTcount: A:0.31, C:0.22, G:0.04, T:0.43
Consensus pattern (58 bp):
TAAATTAGTCCTCCAACTTTTAAATATTCCAATTTCATCCCTAAACTATGACTCATTC
Found at i:87842 original size:60 final size:60
Alignment explanation
Indices: 87710--87843 Score: 139
Period size: 60 Copynumber: 2.2 Consensus size: 60
87700 AGAATGAAGG
* * * * * *
87710 TCATGGTTTGGGGATGAAATTGAAATTTTCAAAAGTTTGAAGACTAATTTGGAATAATAG
1 TCATAGTTTAGGGATGAAATTGAAAATTTCAAAAGTTTGAAGACTAATTTGAAATAAGAC
* *
87770 TCATA-TTATAGGGATTAAATTGAAACATTT-GAAAGTTT-AAGAACTAATTTGAAATAAGAC
1 TCATAGTT-TAGGGATGAAATTGAAA-ATTTCAAAAGTTTGAAG-ACTAATTTGAAATAAGAC
*
87830 TTATAGTTTAGGGA
1 TCATAGTTTAGGGA
87844 CACATGATGC
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
59 5 0.08
60 51 0.84
61 5 0.08
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.35
Consensus pattern (60 bp):
TCATAGTTTAGGGATGAAATTGAAAATTTCAAAAGTTTGAAGACTAATTTGAAATAAGAC
Found at i:88448 original size:23 final size:23
Alignment explanation
Indices: 88405--88449 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
88395 ATATATTAGG
**
88405 TAGCGCTTATATAATGCAATAGA
1 TAGCGCTTATATAATAAAATAGA
*
88428 TAGCGCTTTTATAATAAAATAG
1 TAGCGCTTATATAATAAAATAG
88450 GCATTTAACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (23 bp):
TAGCGCTTATATAATAAAATAGA
Found at i:88930 original size:200 final size:199
Alignment explanation
Indices: 88509--89221 Score: 899
Period size: 200 Copynumber: 3.6 Consensus size: 199
88499 TATATTGACT
* * ** * *
88509 TATTTTCTAACT-AAACCGGTATATTTATACCAATAACATT-ACAAATTTACTTATTACATTATA
1 TATTTTCTAA-TAAAATCGGTATATTTCTACCGGTTACATTGA-AAATTTACCTATTACATTATA
* * * * * *
88572 ATTATCGGTTTCGATGTTTTCGGAATCGATACAATTT--TAAATGTATCAACATTTTCTGCGTGC
64 ATTATCGGTTTCGATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGC
* *
88635 ACCTCG-TTGGACATTCATTCTGGAAAAATGTATCGACAC-AATCTTAAAAAGTGTCGATACATT
128 ACCCCGTTTGG-CATTCATTCTGGAAAAATGTATCGACACAAAT-TTAAAAAGTGTCGATAAATT
*
88698 ATGTAGACG
191 ATGTAGACA
* * * * * *
88707 TATTTTCTCATAAAATCGGTATATTTCTACTGGGTATATTGTAAATTTACCTATTACATTGTAAT
1 TATTTTCTAATAAAATCGGTATATTTCTACCGGTTACATTGAAAATTTACCTATTACATTATAAT
*
88772 TATCGGTTTCGATGTTTTTGGGATCGATA-TTGTTAATAAATGTATCGACACTTTATGTGTGCAC
66 TATCGGTTTCGATGTTTTTGGGATCGATACTT-TTAATAAATGTATCGACACTTTATGCGTGCAC
** * *
88836 AGCGTTTGGCATTCATTCTGGACAAAATGTATCGACACAAATTTAAAAAGTGTTGATATATTATG
130 CCCGTTTGGCATTCATTCTGGA-AAAATGTATCGACACAAATTTAAAAAGTGTCGATAAATTATG
* *
88901 TTGACT
194 TAGACA
* * *
88907 TATTCTCTTATAAAATAGGTATATTTCTACCGGTTACATTGAAAATTTACCTATTACATTATAAT
1 TATTTTCTAATAAAATCGGTATATTTCTACCGGTTACATTGAAAATTTACCTATTACATTATAAT
**
88972 TATTTGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACC
66 TATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACC
* *
89037 CCGTTTGACATTCATTCTGGATAAAAAGTATCGACACAAATTTAAAAAGTGTCGATAAATTATGT
131 CCGTTTGGCATTCATTCTGGA-AAAATGTATCGACACAAATTTAAAAAGTGTCGATAAATTATGT
*
89102 AGGCA
195 AGACA
* * * * *
89107 TGTTTTCTAAT-TAACCGGTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATCA-
1 TATTTTCTAATAAAATCGGTATATTTCTACCGGTTACATTGAAAATTTACCTATTACATTATAAT
*
89170 TAT--GTTTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTT
66 TATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTT
89222 TGTTTACATG
Statistics
Matches: 451, Mismatches: 55, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
196 49 0.11
197 3 0.01
198 80 0.18
199 86 0.19
200 228 0.51
201 5 0.01
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (199 bp):
TATTTTCTAATAAAATCGGTATATTTCTACCGGTTACATTGAAAATTTACCTATTACATTATAAT
TATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACC
CCGTTTGGCATTCATTCTGGAAAAATGTATCGACACAAATTTAAAAAGTGTCGATAAATTATGTA
GACA
Found at i:92179 original size:3 final size:3
Alignment explanation
Indices: 92171--92220 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
92161 ACTTGTTTGG
* * * * *
92171 ATC ATC ATC ATC ATC ATC ATC TTC ATC TTC ATC TTC ATC GTC ATC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
92219 AT
1 AT
92221 TGACCGCTTG
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.24, C:0.32, G:0.02, T:0.42
Consensus pattern (3 bp):
ATC
Found at i:92182 original size:6 final size:6
Alignment explanation
Indices: 92175--92220 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
92165 GTTTGGATCA
* * *
92175 TCATCA TCATCA TCATCT TCATCT TCATCT TCATCG TCATCT TCAT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCAT
92221 TGACCGCTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.22, C:0.33, G:0.02, T:0.43
Consensus pattern (6 bp):
TCATCT
Found at i:92188 original size:12 final size:12
Alignment explanation
Indices: 92171--92220 Score: 73
Period size: 12 Copynumber: 4.2 Consensus size: 12
92161 ACTTGTTTGG
*
92171 ATCATCATCATC
1 ATCATCATCTTC
92183 ATCATCATCTTC
1 ATCATCATCTTC
*
92195 ATCTTCATCTTC
1 ATCATCATCTTC
*
92207 ATCGTCATCTTC
1 ATCATCATCTTC
92219 AT
1 AT
92221 TGACCGCTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.24, C:0.32, G:0.02, T:0.42
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:94198 original size:201 final size:200
Alignment explanation
Indices: 93694--95042 Score: 1571
Period size: 200 Copynumber: 6.8 Consensus size: 200
93684 CGCGAAATTT
** * ** * * *
93694 AAAAAGGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTA-ACCGCTTTTCTAATTAAA
1 AAAAA-GTATCGACACAAATTCCACAAGTGTCGATACATTATG-TAGACCTATTCTCTCATAAAA
* * * * *
93758 TCGATATATTTATACCGATTACATTGTAAATTTACTTATTACATTGTAATTATCGGTTTCGATGT
64 CCGATATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
* *
93823 TTTTGGGATCGATACTTTTTATAAATGTATCGATACTTTATGCGTGCA-CCTTGTTGGGCATTGA
129 TTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCTT-TTGGGCATTCA
*
93887 TTCTGGAT
193 TTCTGGAC
* ** * * * ** * * * *
93895 AAAAAATATCGACACAAATTTGAAAAGTGTCGATATATTATGTTGACCGCTTTTCTGATTAAACT
1 AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
* * * * *
93960 GGTATACTTATACCGGTTACATTGGAAATTTACCTATTACATTATAATGATCGGTTTTGATGTTT
66 GATATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
*
94025 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACTCTTTTTGGGCATTCATT
131 TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCAC-CCTTTTGGGCATTCATT
*
94090 CTGTAC
195 CTGGAC
* * * * ** * * *
94096 AAAAAGTATCGACAAAAATTCAACAAGTATCGATACATTATGTTGACCGCTTTTCTAATTAAACC
1 AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
* * * * *
94161 GACATATTTATACCGGTTATATT-AGAAATTTACCTATTATATTATAATTATCGGTTTTGATATT
66 GATATATTTATACCGGTTACATTGA-AAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* *
94225 TTTGGGATCGATACTTTTTATAAATGTATCGACACGTTATGTGTGCACCCTTTTGGGCATTCATT
130 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATT
*
94290 ATGGAC
195 CTGGAC
*
94296 AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAATC
1 AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
* * *
94361 GGTATATTTATACTGGTTACATTGAAAAATTACCTATTACATTATAATTAT-GTGTTTCGATGTT
66 GATATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCG-GTTTCGATGTT
* *** *
94425 TTTGGGATCAATACTTTTTATAAATGTATTTTCACTTTATGCGTGCACCCTTTTAGGCATTC-TA
130 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCAT-
94489 TCTGGAC
194 TCTGGAC
* * * * *
94496 AAAAAGTATCAACACAAATTCCATAAGTGTCAATACA-TATATAGACTTATTCTCTCATAAAACC
1 AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
* *
94560 -AGTATATTTATACCGATTACATTGAAAA--AACCTA-TACA-TATAATTA------T--A-G--
66 GA-TATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* * *** *
94609 GTT--GATCAATACTTTTTATAAATGTATTTTCACTTTATGCGTGCACCCTTTTAGGCATTC-TA
130 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCAT-
94671 TCTGGAC
194 TCTGGAC
* * * * *
94678 AAAAAGTATCAACACAAATTCCATAAGTGTCAATACATTATATAGACTTATTCTCTCATAAAACC
1 AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
* * *
94743 -AGTATATTTATACCGATTACATTGAAAAATTACCTATTACATTATAATTATAGGTTTCGATGTT
66 GA-TATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* *
94807 CTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACTCCTTTTGGGCATTCAT
130 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCAC-CCTTTTGGGCATTCAT
94872 TCTGGAC
194 TCTGGAC
* * *
94879 AAAAAGTATCGACATAAATTCCACAAGTGTCGATACATTATGTAGACATATTCTCTCATAAAACT
1 AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
* * * *
94944 GTTATATTTATACCGGTTACATTGAAAATTTACATATTACATTATAATTATGGGGTTCGATGTTT
66 GATATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* * *
95009 TTGGGATCAATACATTTTATAATTGTATCGACAC
131 TTGGGATCGATACTTTTTATAAATGTATCGACAC
95043 CTCTGTTAAC
Statistics
Matches: 1014, Mismatches: 105, Indels: 58
0.86 0.09 0.05
Matches are distributed among these distances:
182 103 0.10
183 55 0.05
184 2 0.00
185 5 0.00
186 5 0.00
187 9 0.01
189 1 0.00
193 1 0.00
195 9 0.01
196 5 0.00
197 5 0.00
198 2 0.00
199 51 0.05
200 413 0.41
201 344 0.34
202 4 0.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (200 bp):
AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
GATATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
TTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTC
TGGAC
Found at i:94443 original size:401 final size:400
Alignment explanation
Indices: 93694--95042 Score: 1607
Period size: 401 Copynumber: 3.4 Consensus size: 400
93684 CGCGAAATTT
* * * * *
93694 AAAAAGGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTA-ACCGCTTTTCTAATTAAA
1 AAAAA-GTATCGACACAAATTCAACAAGTGTCGATACATTATG-TAGACCGATTCTCTAATAAAA
* * * *
93758 TCGATATATTTATACCGATTACATTGTAAATTTACTTATTACATTGTAATTATCGGTTTCGATGT
64 CCGATATATTTATACCGATTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
* * *
93823 TTTTGGGATCGATACTTTTTATAAATGTATCGATACTTTATGCGTGCA-CCTTGTTGGGCATTGA
129 TTTTGGGATCAATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCTT-TTGGGCATTCA
* * ** * * ** * *
93887 TTCTGGATAAAAAATATCGACACAAATTTGAAAAGTGTCGATATATTATGTTGACCGCTTTTCTG
193 TTCTGGACAAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCTC
* * * * * *
93952 ATTAAACTGGTATACTTATACCGGTTACATTGGAAATTTACCTATTACATTATAATGATCGGTTT
258 ATAAAAC-GGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATAGGTTT
* *
94017 TGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACTCTTTTTGGG
322 CGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACTCCTTTTGGG
*
94082 CATTCATTCTGTAC
387 CATTCATTCTGGAC
* * * * * *
94096 AAAAAGTATCGACAAAAATTCAACAAGTATCGATACATTATGTTGACCGCTTTTCTAATTAAACC
1 AAAAAGTATCGACACAAATTCAACAAGTGTCGATACATTATGTAGACCGATTCTCTAATAAAACC
* * * * * *
94161 GACATATTTATACCGGTTATATT-AGAAATTTACCTATTATATTATAATTATCGGTTTTGATATT
66 GATATATTTATACCGATTACATTGA-AAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* * *
94225 TTTGGGATCGATACTTTTTATAAATGTATCGACACGTTATGTGTGCACCCTTTTGGGCATTCATT
130 TTTGGGATCAATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATT
* *
94290 ATGGACAAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAGACCTATTCTCTCAT
195 CTGGACAAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCTCAT
*
94355 AAAATCGGTATATTTATACTGGTTACATTGAAAAATTACCTATTACATTATAATTAT-GTGTTTC
260 AAAA-CGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATAG-GTTTC
* *** *
94419 GATGTTTTTGGGATCAATACTTTTTATAAATGTATTTTCACTTTATGCGTGCAC-CCTTTTAGGC
323 GATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACTCCTTTTGGGC
94483 ATTC-TATCTGGAC
388 ATTCAT-TCTGGAC
* * * * * ** *
94496 AAAAAGTATCAACACAAATTCCATAAGTGTCAATACA-TATATAGACTTATTCTCTCATAAAACC
1 AAAAAGTATCGACACAAATTCAACAAGTGTCGATACATTATGTAGACCGATTCTCTAATAAAACC
*
94560 -AGTATATTTATACCGATTACATTGAAAA--AACCTA-TACA-TATAATTA------T--A-G--
66 GA-TATATTTATACCGATTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* *** *
94609 GTT--GATCAATACTTTTTATAAATGTATTTTCACTTTATGCGTGCACCCTTTTAGGCATTC-TA
130 TTTGGGATCAATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCAT-
* * * * *
94671 TCTGGACAAAAAGTATCAACACAAATTCCATAAGTGTCAATACATTATATAGACTTATTCTCTCA
194 TCTGGACAAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCTCA
* *
94736 TAAAACCAGTATATTTATACCGATTACATTGAAAAATTACCTATTACATTATAATTATAGGTTTC
259 TAAAA-CGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATAGGTTTC
* *
94801 GATGTTCTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACTCCTTTTGGGC
323 GATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACTCCTTTTGGGC
94866 ATTCATTCTGGAC
388 ATTCATTCTGGAC
* * ** * *
94879 AAAAAGTATCGACATAAATTCCACAAGTGTCGATACATTATGTAGACATATTCTCTCATAAAACT
1 AAAAAGTATCGACACAAATTCAACAAGTGTCGATACATTATGTAGACCGATTCTCTAATAAAACC
* * * * *
94944 GTTATATTTATACCGGTTACATTGAAAATTTACATATTACATTATAATTATGGGGTTCGATGTTT
66 GATATATTTATACCGATTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* *
95009 TTGGGATCAATACATTTTATAATTGTATCGACAC
131 TTGGGATCAATACTTTTTATAAATGTATCGACAC
95043 CTCTGTTAAC
Statistics
Matches: 809, Mismatches: 107, Indels: 63
0.83 0.11 0.06
Matches are distributed among these distances:
381 1 0.00
382 216 0.27
383 54 0.07
384 52 0.06
386 4 0.00
387 5 0.01
388 8 0.01
389 1 0.00
394 1 0.00
395 8 0.01
396 4 0.00
397 6 0.01
398 1 0.00
399 43 0.05
400 52 0.06
401 343 0.42
402 10 0.01
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (400 bp):
AAAAAGTATCGACACAAATTCAACAAGTGTCGATACATTATGTAGACCGATTCTCTAATAAAACC
GATATATTTATACCGATTACATTGAAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
TTGGGATCAATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTC
TGGACAAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATA
AAACGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATAGGTTTCGAT
GTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACTCCTTTTGGGCATT
CATTCTGGAC
Found at i:95380 original size:18 final size:19
Alignment explanation
Indices: 95359--95401 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
95349 TACATTCACG
*
95359 TACAAAATTGT-AATCGTA
1 TACAAAATTATAAATCGTA
95377 TACAAAATTATAAATCGTA
1 TACAAAATTATAAATCGTA
95396 TACAAA
1 TACAAA
95402 TTTCTCCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (19 bp):
TACAAAATTATAAATCGTA
Found at i:96968 original size:18 final size:18
Alignment explanation
Indices: 96945--96981 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
96935 CCTCATTTCC
96945 TCCATCTTTTCTTCTTCA
1 TCCATCTTTTCTTCTTCA
*
96963 TCCATCTTTTCTTTTTCA
1 TCCATCTTTTCTTCTTCA
96981 T
1 T
96982 ATTTTTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.30, G:0.00, T:0.59
Consensus pattern (18 bp):
TCCATCTTTTCTTCTTCA
Found at i:97395 original size:18 final size:18
Alignment explanation
Indices: 97372--97406 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
97362 TTCCTTCTCC
97372 TCTGCCTCCA-CTACCTCA
1 TCTGCCT-CATCTACCTCA
97390 TCTGCCTCATCTACCTC
1 TCTGCCTCATCTACCTC
97407 CTTGCCAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.14, C:0.49, G:0.06, T:0.31
Consensus pattern (18 bp):
TCTGCCTCATCTACCTCA
Found at i:99860 original size:182 final size:182
Alignment explanation
Indices: 99622--100284 Score: 955
Period size: 182 Copynumber: 3.7 Consensus size: 182
99612 TTTATTACAC
*
99622 ATACTTAT--TAAAGTATCGACACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTC
1 ATACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTC
* * *
99685 GAGACTGATTTTGTCATATTTTTACCTATTATATTGTTAAGTG-TCGATACATTTTTATAAAGTA
66 GAGACCGATTTTATCATATTTTTACCTGTTATATTGTTAAG-GATCGATACATTTTTATAAAGTA
* *
99749 TCGATACTTTATAGGTGCTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTCG
130 TCGACACTTTATAGGCGCTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTCG
* **
99802 ATACTTACAATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACTTGTTTTGTCATTT-
1 ATACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTC
* * * *
99866 GATACCGATTTTATTATATTTTTACATGTTATA-TG-TATGGATCGATACATTTTTATAAAGTAT
66 GAGACCGATTTTATCATATTTTTACCTGTTATATTGTTAAGGATCGATACATTTTTATAAAGTAT
* * * *
99929 CGACACTTTGTAGGCGCTATTACT-ATTTGTCTTTTAAATTCCAAAATTATCG
131 CGACACTTTATAGGCGCTATTACTGCTTT-TCTTTTAAATTCCAAAAGTGTCG
* *
99981 ATACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTT
1 ATACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTC
*
100046 GAGACCGGTTTTATCATATTTTTACCTGTTATATTGTTATA-GATCGATACATTTTTATAAAGTA
66 GAGACCGATTTTATCATATTTTTACCTGTTATATTGTTA-AGGATCGATACATTTTTATAAAGTA
*
100110 TCGACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCG
130 TCGACACTTTATAGGCGCTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTCG
** * *** *
100163 ATGTTTATATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACTTATTTGGTCATTTC
1 ATACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTC
* * * *
100228 GAGACCGGTTTTGTCATATTTTTACCTGTTATATTGCTATGGATCGATACATTTTTA
66 GAGACCGATTTTATCATATTTTTACCTGTTATATTGTTAAGGATCGATACATTTTTA
100285 ATGAGAAAAT
Statistics
Matches: 430, Mismatches: 43, Indels: 18
0.88 0.09 0.04
Matches are distributed among these distances:
178 4 0.01
179 127 0.30
180 38 0.09
181 29 0.07
182 230 0.53
183 2 0.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (182 bp):
ATACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTC
GAGACCGATTTTATCATATTTTTACCTGTTATATTGTTAAGGATCGATACATTTTTATAAAGTAT
CGACACTTTATAGGCGCTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTCG
Found at i:100474 original size:21 final size:21
Alignment explanation
Indices: 100448--100519 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
100438 CGCAACGCGA
100448 ATAGTCCAAGTTCGCGTTGCG
1 ATAGTCCAAGTTCGCGTTGCG
*
100469 ATAGTCGAAGTTCGCGTTGCGG
1 ATAGTCCAAGTTCGCGTTGC-G
* * *
100491 TTTATTCCAAATT--CGTTGCG
1 -ATAGTCCAAGTTCGCGTTGCG
100511 ATAGTCCAA
1 ATAGTCCAA
100520 AATCGCAACG
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
19 7 0.17
20 1 0.02
21 25 0.60
22 1 0.02
23 8 0.19
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (21 bp):
ATAGTCCAAGTTCGCGTTGCG
Found at i:101387 original size:21 final size:21
Alignment explanation
Indices: 101363--101404 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
101353 TGGAATAAAC
101363 CGCAACGCGAACTTCGACTAT
1 CGCAACGCGAACTTCGACTAT
*
101384 CGCAACGCGAACTTGGACTAT
1 CGCAACGCGAACTTCGACTAT
101405 TCGCGTTGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (21 bp):
CGCAACGCGAACTTCGACTAT
Found at i:110640 original size:21 final size:21
Alignment explanation
Indices: 110608--110686 Score: 52
Period size: 21 Copynumber: 3.5 Consensus size: 21
110598 TAAAATCCCT
110608 ATTGTT-TCCATGTTCGGGATC
1 ATTGTTAT-CATGTTCGGGATC
**
110629 ATTGTTATCATGAATTCTCAGATCCC
1 ATTGTTATCATG--TTC-GGGAT--C
* *
110655 TATTGTTTTCATGCTCGGGATC
1 -ATTGTTATCATGTTCGGGATC
110677 ATTGTTATCA
1 ATTGTTATCA
110687 CAAATTCTCA
Statistics
Matches: 44, Mismatches: 7, Indels: 14
0.68 0.11 0.22
Matches are distributed among these distances:
21 19 0.43
22 2 0.05
23 3 0.07
24 6 0.14
25 2 0.05
26 1 0.02
27 11 0.25
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.43
Consensus pattern (21 bp):
ATTGTTATCATGTTCGGGATC
Found at i:110658 original size:48 final size:48
Alignment explanation
Indices: 110602--110706 Score: 174
Period size: 48 Copynumber: 2.2 Consensus size: 48
110592 GCGAGTTAAA
* **
110602 ATCCCTATTGTTTCCATGTTCGGGATCATTGTTATCATGAATTCTCAG
1 ATCCCTATTGTTTCCATGCTCGGGATCATTGTTATCACAAATTCTCAG
*
110650 ATCCCTATTGTTTTCATGCTCGGGATCATTGTTATCACAAATTCTCAG
1 ATCCCTATTGTTTCCATGCTCGGGATCATTGTTATCACAAATTCTCAG
110698 ATCCCTATT
1 ATCCCTATT
110707 ATCCTTTTCC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (48 bp):
ATCCCTATTGTTTCCATGCTCGGGATCATTGTTATCACAAATTCTCAG
Found at i:113020 original size:29 final size:29
Alignment explanation
Indices: 112988--113081 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 29
112978 AAATTGGTCA
112988 TTAAACTTTTAAATATATTAATTTCATCT
1 TTAAACTTTTAAATATATTAATTTCATCT
* ** * * **
113017 TTAAA-TTATGACCTTCATTTTAAATTGGTCT
1 TTAAACTT-TTA-AAT-ATATTAATTTCATCT
113048 TTAAACTTTTAAATATATTAATTTCATCT
1 TTAAACTTTTAAATATATTAATTTCATCT
113077 TTAAA
1 TTAAA
113082 TTATTACTCT
Statistics
Matches: 47, Mismatches: 14, Indels: 8
0.68 0.20 0.12
Matches are distributed among these distances:
28 2 0.04
29 23 0.49
30 2 0.04
31 18 0.38
32 2 0.04
ACGTcount: A:0.36, C:0.11, G:0.03, T:0.50
Consensus pattern (29 bp):
TTAAACTTTTAAATATATTAATTTCATCT
Found at i:113063 original size:60 final size:60
Alignment explanation
Indices: 112970--113085 Score: 223
Period size: 60 Copynumber: 1.9 Consensus size: 60
112960 TATATCGACA
112970 TTCATTTTAAATTGGTCATTAAACTTTTAAATATATTAATTTCATCTTTAAATTATGACC
1 TTCATTTTAAATTGGTCATTAAACTTTTAAATATATTAATTTCATCTTTAAATTATGACC
*
113030 TTCATTTTAAATTGGTCTTTAAACTTTTAAATATATTAATTTCATCTTTAAATTAT
1 TTCATTTTAAATTGGTCATTAAACTTTTAAATATATTAATTTCATCTTTAAATTAT
113086 TACTCTCGTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.34, C:0.10, G:0.04, T:0.51
Consensus pattern (60 bp):
TTCATTTTAAATTGGTCATTAAACTTTTAAATATATTAATTTCATCTTTAAATTATGACC
Found at i:113977 original size:29 final size:30
Alignment explanation
Indices: 113940--114000 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 30
113930 TATGTTGTTT
113940 TTTTAGTTTAGTGCCTAACGTTT-ATTTTG
1 TTTTAGTTTAGTGCCTAACGTTTCATTTTG
113969 TTTTAGTTTAGTGCCTAACGTTTCATTTTG
1 TTTTAGTTTAGTGCCTAACGTTTCATTTTG
113999 TT
1 TT
114001 ACTCAAAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 23 0.74
30 8 0.26
ACGTcount: A:0.16, C:0.11, G:0.16, T:0.56
Consensus pattern (30 bp):
TTTTAGTTTAGTGCCTAACGTTTCATTTTG
Found at i:114670 original size:29 final size:30
Alignment explanation
Indices: 114625--114681 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
114615 CATTTTGAGT
*
114625 AACGAAATGAAACGTTAGGCACCAAACTAG
1 AACGAAATGAAACGTTAGACACCAAACTAG
*
114655 AACGAAAT-AAACGTTAGACACTAAACT
1 AACGAAATGAAACGTTAGACACCAAACT
114682 GAAAAACGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.49, C:0.19, G:0.16, T:0.16
Consensus pattern (30 bp):
AACGAAATGAAACGTTAGACACCAAACTAG
Found at i:128417 original size:24 final size:24
Alignment explanation
Indices: 128390--128449 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
128380 AAGCATCTGC
*
128390 AGATGTTCACCAATCTGCCAATAA
1 AGATGTTCACCAACCTGCCAATAA
** * *
128414 AGATGCCCACCAGCCTGCCAATGA
1 AGATGTTCACCAACCTGCCAATAA
*
128438 AGAGGTTCACCA
1 AGATGTTCACCA
128450 GCCAGCCGCT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.18
Consensus pattern (24 bp):
AGATGTTCACCAACCTGCCAATAA
Found at i:131329 original size:23 final size:23
Alignment explanation
Indices: 131302--131345 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
131292 AACACAATTT
*
131302 AATTTGCCAAGACATTTCCATCC
1 AATTTGCCAAGACATATCCATCC
*
131325 AATTTGCCACGACATATCCAT
1 AATTTGCCAAGACATATCCAT
131346 TTGCTACCAT
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:0.32, C:0.30, G:0.09, T:0.30
Consensus pattern (23 bp):
AATTTGCCAAGACATATCCATCC
Found at i:134376 original size:58 final size:59
Alignment explanation
Indices: 134306--134485 Score: 222
Period size: 59 Copynumber: 3.1 Consensus size: 59
134296 GTCCTTAAAT
* * *
134306 TATAATTCTCATTTTAAATTAGTCCCTAAACTTTTAAACATTTCAATTTCAT-CCTAAC
1 TATAATTTTCATTATAAATTAGTCCCTAAACTTTTAAACATTTCAATTTCATCCCAAAC
* *
134364 TATAATTTTCATTATAAATTAAT-CCTCAAAATTTTAAACATTTCAATTTCATCCCAAAC
1 TATAATTTTCATTATAAATTAGTCCCT-AAACTTTTAAACATTTCAATTTCATCCCAAAC
* * * * * *
134423 TATGACTTTCATTGTAAATTAG-CCCCAAACTTTTTAAACATTTTAATTCCATCCCAAAC
1 TATAATTTTCATTATAAATTAGTCCCTAAAC-TTTTAAACATTTCAATTTCATCCCAAAC
134482 TATA
1 TATA
134486 CATATATACT
Statistics
Matches: 104, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
57 3 0.03
58 47 0.45
59 54 0.52
ACGTcount: A:0.37, C:0.21, G:0.02, T:0.41
Consensus pattern (59 bp):
TATAATTTTCATTATAAATTAGTCCCTAAACTTTTAAACATTTCAATTTCATCCCAAAC
Found at i:134417 original size:29 final size:29
Alignment explanation
Indices: 134337--134421 Score: 72
Period size: 29 Copynumber: 3.0 Consensus size: 29
134327 GTCCCTAAAC
*
134337 TTTTAAACATTTCAATTTCATCCTAACTATAA
1 TTTTAAACATTTCAATTTCATCCT--C-AAAA
* *
134369 TTTT---CATTAT-AAATTAATCCTCAAAA
1 TTTTAAACATT-TCAATTTCATCCTCAAAA
134395 TTTTAAACATTTCAATTTCATCC-CAAA
1 TTTTAAACATTTCAATTTCATCCTCAAA
134422 CTATGACTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
26 7 0.16
27 1 0.02
28 5 0.12
29 25 0.58
30 1 0.02
32 4 0.09
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (29 bp):
TTTTAAACATTTCAATTTCATCCTCAAAA
Found at i:135982 original size:15 final size:15
Alignment explanation
Indices: 135934--135983 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
135924 GTGGTTGTGC
*
135934 AGGAGGTGTTGGAGG
1 AGGAGGAGTTGGAGG
*
135949 AGGAGG-G--GAAGG
1 AGGAGGAGTTGGAGG
135961 AGGAGGAGTTGGAGG
1 AGGAGGAGTTGGAGG
135976 AGGAGGAG
1 AGGAGGAG
135984 GTATGTCACA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 10 0.33
13 1 0.03
14 1 0.03
15 18 0.60
ACGTcount: A:0.28, C:0.00, G:0.62, T:0.10
Consensus pattern (15 bp):
AGGAGGAGTTGGAGG
Found at i:144528 original size:15 final size:16
Alignment explanation
Indices: 144496--144537 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
144486 CAATTATTTA
*
144496 ATATTATTTTAATTAAT
1 ATATTATTTCAA-TAAT
144513 ATATTATTTCAA-AAT
1 ATATTATTTCAATAAT
144528 ATAATTATTT
1 AT-ATTATTT
144538 ATAAAATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.22
16 7 0.30
17 11 0.48
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
ATATTATTTCAATAAT
Found at i:149631 original size:12 final size:12
Alignment explanation
Indices: 149614--149638 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
149604 GATCATAAGA
149614 GATAAAATATAT
1 GATAAAATATAT
149626 GATAAAATATAT
1 GATAAAATATAT
149638 G
1 G
149639 TGAAAGTGAT
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:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (12 bp):
GATAAAATATAT
Found at i:156209 original size:42 final size:42
Alignment explanation
Indices: 156150--156242 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
156140 AGTTGTTAGA
*
156150 GCTTCAGAACTCTCTGGTTCTTGTTCATCATATGCTGGTTTT
1 GCTTCAGAACTCTCTGGTTCTTGTTCATCATATGCTGGTTCT
* *
156192 GCTTCAGAGCTCTCTGGTTCTTGTTCATCATGTGCTGGTTCT
1 GCTTCAGAACTCTCTGGTTCTTGTTCATCATATGCTGGTTCT
156234 GCTTCAGAA
1 GCTTCAGAA
156243 TAATCTCCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.14, C:0.23, G:0.22, T:0.42
Consensus pattern (42 bp):
GCTTCAGAACTCTCTGGTTCTTGTTCATCATATGCTGGTTCT
Found at i:156239 original size:21 final size:21
Alignment explanation
Indices: 156163--156233 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
156153 TCAGAACTCT
*
156163 CTGGTTCTTGTTCATCATATG
1 CTGGTTCTTGTTCATCATGTG
* *
156184 CTGGTT-TTGCTTCA-GA-GCTCT
1 CTGGTTCTTG-TTCATCATG-T-G
156205 CTGGTTCTTGTTCATCATGTG
1 CTGGTTCTTGTTCATCATGTG
156226 CTGGTTCT
1 CTGGTTCT
156234 GCTTCAGAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
20 5 0.13
21 28 0.72
22 5 0.13
23 1 0.03
ACGTcount: A:0.10, C:0.21, G:0.23, T:0.46
Consensus pattern (21 bp):
CTGGTTCTTGTTCATCATGTG
Found at i:159185 original size:73 final size:71
Alignment explanation
Indices: 159062--159205 Score: 270
Period size: 73 Copynumber: 2.0 Consensus size: 71
159052 AATCCCTCTT
159062 CTCCATTTTGGTTTATTTCTCATTTGGTTAGTAATAAATATAGCAATCACAAATGCTTCCTTCAT
1 CTCCATTTTGGTTTATTTCTCATTTGGTTAGTAATAAATATAGCAATCACAAATGCTTCCTTCAT
159127 TCCTTC
66 TCCTTC
159133 CTCCATTTTTGGTTTATTTCTCATTTGGTTTAGTAATAAATATAGCAATCACAAATGCTTCCTTC
1 CTCCA-TTTTGGTTTATTTCTCATTTGG-TTAGTAATAAATATAGCAATCACAAATGCTTCCTTC
159198 ATTCCTTC
64 ATTCCTTC
159206 TAGACAGTGA
Statistics
Matches: 71, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
71 5 0.07
72 22 0.31
73 44 0.62
ACGTcount: A:0.25, C:0.21, G:0.10, T:0.44
Consensus pattern (71 bp):
CTCCATTTTGGTTTATTTCTCATTTGGTTAGTAATAAATATAGCAATCACAAATGCTTCCTTCAT
TCCTTC
Done.