Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 99 of 290
Found at i:30404927 original size:176 final size:177
Alignment explanation
Indices: 30404580--30404951 Score: 595
Period size: 176 Copynumber: 2.1 Consensus size: 177
30404570 CGACGGAGAG
* *
30404580 CAAATCGAAGACATAGCAGATCTAACTTTCAGATGTTCTCACATCAAAGCAGATCCAAGATAATA
1 CAAATCGAAGACATAGCAGATCTAACTTTCAGATATTCTCACATCAAAGCAGATCCAAGATAACA
* *
30404645 GATCTGGCATCTCCATATTCAAATGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTTTT
66 GATCTGGCATCTCCATATTCAAATGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTAT
** *
30404710 ACTGAAGCAGATCCAAGATGATTTGGTGTTCTTGTGTTTACAAGGAGA
131 ACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGA-A
* * * *
30404758 -AAATCGAAGGCATAGCAGATCTGACTTTCAGATATTTTCATATCAAAGCAGATCCAAGATAACA
1 CAAATCGAAGACATAGCAGATCTAACTTTCAGATATTCTCACATCAAAGCAGATCCAAGATAACA
* * *
30404822 GATCTGGCGTCTCCATATTC-GATGGAGAGCAGACACATAGTAGATCTAACCTTCAGATGTTTAT
66 GATCTGGCATCTCCATATTCAAATGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTAT
30404886 ACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAA
131 ACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAA
30404933 CAAATCGAAGACATAGCAG
1 CAAATCGAAGACATAGCAG
30404952 GTTTGGCTTT
Statistics
Matches: 178, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
175 1 0.01
176 100 0.56
177 77 0.43
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (177 bp):
CAAATCGAAGACATAGCAGATCTAACTTTCAGATATTCTCACATCAAAGCAGATCCAAGATAACA
GATCTGGCATCTCCATATTCAAATGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTAT
ACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAA
Found at i:30405042 original size:43 final size:44
Alignment explanation
Indices: 30404994--30405115 Score: 133
Period size: 44 Copynumber: 2.8 Consensus size: 44
30404984 TCTAAGATGG
* *
30404994 TTTGGCATCTCTGTATTGTCAAGGAACAAATCGAAGA-AGCAAA
1 TTTGGCATCTCTGTATTGTCAAGGAGCAAATCAAAGATAGCAAA
* * * *
30405037 TTTGGCATCTCTATATTATCAGAGG-GCAGATCAAAGATAGCAGA
1 TTTGGCATCTCTGTATTGTCA-AGGAGCAAATCAAAGATAGCAAA
* *
30405081 TTTGACATC-CTTGTATTGTCAGGGAGCAAATCAAA
1 TTTGGCATCTC-TGTATTGTCAAGGAGCAAATCAAA
30405116 TATATCAACA
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
43 31 0.48
44 33 0.52
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (44 bp):
TTTGGCATCTCTGTATTGTCAAGGAGCAAATCAAAGATAGCAAA
Found at i:30412639 original size:6 final size:6
Alignment explanation
Indices: 30412621--30412661 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
30412611 TAAAACTCCA
*
30412621 AAATTT AAAATTT AAATTT GAAATTT AAATTT AACTTT AAA
1 AAATTT -AAATTT AAATTT -AAATTT AAATTT AAATTT AAA
30412662 AATTGAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
6 19 0.61
7 12 0.39
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (6 bp):
AAATTT
Found at i:30412639 original size:13 final size:13
Alignment explanation
Indices: 30412621--30412654 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
30412611 TAAAACTCCA
30412621 AAATTTAAAATTT
1 AAATTTAAAATTT
*
30412634 AAATTTGAAATTT
1 AAATTTAAAATTT
30412647 AAATTTAA
1 AAATTTAA
30412655 CTTTAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
AAATTTAAAATTT
Found at i:30417152 original size:27 final size:27
Alignment explanation
Indices: 30417116--30417193 Score: 86
Period size: 31 Copynumber: 2.7 Consensus size: 27
30417106 GCTTGACAAG
*
30417116 TTTTCTTTTTCTTTTATTTTCATATTTC
1 TTTTGTTTTTCTTTTATTTTCATA-TTC
30417144 TTTTGTTTTTTTTCTTTTATTTTCATATTC
1 TTTTG---TTTTTCTTTTATTTTCATATTC
30417174 TTTT-TTTTTACTTTTTATTT
1 TTTTGTTTTT-C-TTTTATTT
30417194 CATTTTGAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
26 5 0.11
27 1 0.02
28 12 0.27
30 7 0.16
31 19 0.43
ACGTcount: A:0.10, C:0.10, G:0.01, T:0.78
Consensus pattern (27 bp):
TTTTGTTTTTCTTTTATTTTCATATTC
Found at i:30417175 original size:30 final size:30
Alignment explanation
Indices: 30417116--30417182 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 30
30417106 GCTTGACAAG
*
30417116 TTTTCTTTTTCTTTTATTTTCATATTTCTT
1 TTTTTTTTTTCTTTTATTTTCATATTTCTT
30417146 TTGTTTTTTTTCTTTTATTTTCATA-TTCTT
1 TT-TTTTTTTTCTTTTATTTTCATATTTCTT
30417176 TTTTTTT
1 TTTTTTT
30417183 ACTTTTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
29 5 0.14
30 9 0.26
31 21 0.60
ACGTcount: A:0.09, C:0.10, G:0.01, T:0.79
Consensus pattern (30 bp):
TTTTTTTTTTCTTTTATTTTCATATTTCTT
Found at i:30417196 original size:27 final size:31
Alignment explanation
Indices: 30417125--30417193 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
30417115 GTTTTCTTTT
**
30417125 TCTTTTATTTTCATATTTCTTTTGTTTTTTT
1 TCTTTTATTTTCATATTTCTTTTGTTTTTAC
30417156 TCTTTTATTTTCATA-TTCTTTT-TTTTTAC
1 TCTTTTATTTTCATATTTCTTTTGTTTTTAC
30417185 T-TTTTATTT
1 TCTTTTATTT
30417194 CATTTTGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 8 0.22
29 6 0.17
30 7 0.19
31 15 0.42
ACGTcount: A:0.12, C:0.10, G:0.01, T:0.77
Consensus pattern (31 bp):
TCTTTTATTTTCATATTTCTTTTGTTTTTAC
Found at i:30417199 original size:21 final size:22
Alignment explanation
Indices: 30417153--30417199 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
30417143 CTTTTGTTTT
30417153 TTTTCTTTTATTTTCATATTC-
1 TTTTCTTTTATTTTCATATTCA
* *
30417174 TTTTTTTTTACTTTTTAT-TTCA
1 TTTTCTTTTA-TTTTCATATTCA
30417196 TTTT
1 TTTT
30417200 GAAAAGTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTCTTTTATTTTCATATTCA
Found at i:30417453 original size:20 final size:20
Alignment explanation
Indices: 30417425--30417471 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
30417415 CCAACTTTTC
30417425 AAAAA-TTAAAAA-AAAGTTA
1 AAAAATTTAAAAAGAAA-TTA
30417444 AAAAATTTAAAAAGAAATTA
1 AAAAATTTAAAAAGAAATTA
30417464 AAGAAATT
1 AA-AAATT
30417472 GTATTTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.20
20 12 0.48
21 8 0.32
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.23
Consensus pattern (20 bp):
AAAAATTTAAAAAGAAATTA
Found at i:30417542 original size:14 final size:14
Alignment explanation
Indices: 30417523--30417549 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30417513 AAAAATATGG
30417523 TTAATATTTAAAAA
1 TTAATATTTAAAAA
30417537 TTAATATTTAAAA
1 TTAATATTTAAAA
30417550 TTTTAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAATATTTAAAAA
Found at i:30417564 original size:37 final size:36
Alignment explanation
Indices: 30417523--30417676 Score: 138
Period size: 37 Copynumber: 4.3 Consensus size: 36
30417513 AAAAATATGG
30417523 TTAATATTTAAAAATTA-ATATTTAAAATTTTAAAAAA
1 TTAAT-TTTAAAAA-TACATATTTAAAATTTTAAAAAA
* * *
30417560 TTAATTTGAAAAATACATTTTTAAAATATATAAAAAA
1 TTAATTTTAAAAATACATATTTAAAAT-TTTAAAAAA
* * * * *
30417597 TTAATTTCACAAATATATATCT-AAA-GTTAAAAAA
1 TTAATTTTAAAAATACATATTTAAAATTTTAAAAAA
* * *
30417631 ATATTTTTAAAAATA-ATAATTAAAATTTTAAAAAA
1 TTAATTTTAAAAATACATATTTAAAATTTTAAAAAA
*
30417666 TT-ATTATAAAA
1 TTAATTTTAAAA
30417677 CATTTTAAAT
Statistics
Matches: 93, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
33 4 0.04
34 28 0.30
35 11 0.12
36 20 0.22
37 30 0.32
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (36 bp):
TTAATTTTAAAAATACATATTTAAAATTTTAAAAAA
Found at i:30417681 original size:23 final size:22
Alignment explanation
Indices: 30417628--30417685 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
30417618 TAAAGTTAAA
*
30417628 AAAATATTTTTAAAAATAATAAT
1 AAAA-ATTTTAAAAAATAATAAT
* * *
30417651 TAAAATTTTAAAAAATTATTAT
1 AAAAATTTTAAAAAATAATAAT
30417673 AAAACATTTTAAA
1 AAAA-ATTTTAAA
30417686 TATACATTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 18 0.62
23 11 0.38
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAAATTTTAAAAAATAATAAT
Found at i:30417764 original size:9 final size:9
Alignment explanation
Indices: 30417711--30417765 Score: 65
Period size: 9 Copynumber: 5.9 Consensus size: 9
30417701 TTTTAAAGTT
30417711 AATAATAAAA
1 AATAA-AAAA
30417721 AATAAAACAA
1 AATAAAA-AA
*
30417731 AATAAACAA
1 AATAAAAAA
*
30417740 AATGAAAAA
1 AATAAAAAA
*
30417749 AGTAAAAAA
1 AATAAAAAA
30417758 AATAAAAA
1 AATAAAAA
30417766 GACAATTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
9 25 0.66
10 13 0.34
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.13
Consensus pattern (9 bp):
AATAAAAAA
Found at i:30417810 original size:21 final size:22
Alignment explanation
Indices: 30417786--30417827 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
30417776 TAAGGAACAA
30417786 AATA-AAAAAGTAAAA-AAAAAG
1 AATATAAAAA-TAAAAGAAAAAG
*
30417807 AATATGAAAATAAAAGAAAAA
1 AATATAAAAATAAAAGAAAAA
30417828 AACAAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.12
Consensus pattern (22 bp):
AATATAAAAATAAAAGAAAAAG
Found at i:30417843 original size:30 final size:29
Alignment explanation
Indices: 30417784--30417867 Score: 118
Period size: 30 Copynumber: 2.9 Consensus size: 29
30417774 ATTAAGGAAC
30417784 AAAATAAAA-AAGTAAAAAAAAAG-AATATG
1 AAAATAAAAGAA--AAAAAAAAAGAAATATG
30417813 AAAATAAAAGAAAAAAACAAAAGAAATATG
1 AAAATAAAAGAAAAAAA-AAAAGAAATATG
*
30417843 AAAATAAAAGAAAAAGAAAAAGAAA
1 AAAATAAAAGAAAAAAAAAAAGAAA
30417868 ACGTGTCAGG
Statistics
Matches: 51, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
28 5 0.10
29 22 0.43
30 24 0.47
ACGTcount: A:0.79, C:0.01, G:0.11, T:0.10
Consensus pattern (29 bp):
AAAATAAAAGAAAAAAAAAAAGAAATATG
Found at i:30417855 original size:17 final size:16
Alignment explanation
Indices: 30417797--30417854 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
30417787 ATAAAAAAGT
*
30417797 AAAAAAAAAGAATATG
1 AAAATAAAAGAATATG
30417813 AAAATAAAAGAA-A--
1 AAAATAAAAGAATATG
*
30417826 AAAACAAAAGAAATATG
1 AAAATAAAAG-AATATG
30417843 AAAATAAAAGAA
1 AAAATAAAAGAA
30417855 AAAGAAAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
13 9 0.26
14 2 0.06
15 2 0.06
16 13 0.37
17 9 0.26
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATAAAAGAATATG
Found at i:30418867 original size:17 final size:17
Alignment explanation
Indices: 30418845--30418879 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
30418835 ATATAATTTT
30418845 ATTTTTACT-AAATTTAA
1 ATTTTTA-TAAAATTTAA
30418862 ATTTTTATAAAATTTAA
1 ATTTTTATAAAATTTAA
30418879 A
1 A
30418880 AGTATCTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 16 0.94
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTTTATAAAATTTAA
Found at i:30420340 original size:32 final size:31
Alignment explanation
Indices: 30420245--30420340 Score: 94
Period size: 32 Copynumber: 3.1 Consensus size: 31
30420235 AAACATTTGG
30420245 TTTTGTGAAATAATAACAAATATC-A-T-CA
1 TTTTGTGAAATAATAACAAATATCAACTACA
* *
30420273 TGTTGTGAAATCATAACAAAT-TACAACATTA-A
1 TTTTGTGAAATAATAACAAATAT-CAAC--TACA
*
30420305 TTTTGTGAAATGATAACAAATATCAACTACCA
1 TTTTGTGAAATAATAACAAATATCAACTA-CA
30420337 TTTT
1 TTTT
30420341 CTTAGATACA
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
27 1 0.02
28 20 0.36
29 1 0.02
30 2 0.04
32 30 0.55
33 1 0.02
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.35
Consensus pattern (31 bp):
TTTTGTGAAATAATAACAAATATCAACTACA
Found at i:30424279 original size:3 final size:3
Alignment explanation
Indices: 30424271--30424295 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
30424261 AAATCTTAAG
30424271 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
30424296 AGACCTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:30427039 original size:6 final size:6
Alignment explanation
Indices: 30427028--30427079 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
30427018 ATGCAGGCCT
* * *
30427028 AGAAAA AGAAAA AGAAAA AGGAAA GGAAAAA AGAAAAAA AGAAAA GGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AG-AAAA AG--AAAA AGAAAA AGAAAA
30427079 A
1 A
30427080 AGAGGCATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
6 27 0.71
7 4 0.11
8 7 0.18
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:30427068 original size:21 final size:21
Alignment explanation
Indices: 30427042--30427082 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
30427032 AAAGAAAAAG
*
30427042 AAAAAGGAAAGGAAAAAAGAA
1 AAAAAGAAAAGGAAAAAAGAA
30427063 AAAAAGAAAAGGAAAAAAGA
1 AAAAAGAAAAGGAAAAAAGA
30427083 GGCATAAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAAGGAAAAAAGAA
Found at i:30427080 original size:13 final size:13
Alignment explanation
Indices: 30427036--30427082 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
30427026 CTAGAAAAAG
30427036 AAAAAGAAAAAGGA
1 AAAAAG-AAAAGGA
* *
30427050 AAGGAA-AAAAGAA
1 AA-AAAGAAAAGGA
30427063 AAAAAGAAAAGGA
1 AAAAAGAAAAGGA
30427076 AAAAAGA
1 AAAAAGA
30427083 GGCATAAGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
12 2 0.07
13 21 0.78
14 2 0.07
15 2 0.07
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAGGA
Found at i:30436733 original size:22 final size:24
Alignment explanation
Indices: 30436707--30436751 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
30436697 GCTATCAAGA
30436707 AATCAAATC-TCT-AAGATTACAG
1 AATCAAATCTTCTAAAGATTACAG
*
30436729 AATCATATCTTCTAAAGATTACA
1 AATCAAATCTTCTAAAGATTACA
30436752 TTTAATGTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 3 0.15
24 9 0.45
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (24 bp):
AATCAAATCTTCTAAAGATTACAG
Found at i:30440084 original size:5 final size:5
Alignment explanation
Indices: 30440074--30440104 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
30440064 TAACCCAAGT
30440074 ACCCA ACCCA ACCCA ACCCA ACCCA ACCCA A
1 ACCCA ACCCA ACCCA ACCCA ACCCA ACCCA A
30440105 TTACCCCACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.58, G:0.00, T:0.00
Consensus pattern (5 bp):
ACCCA
Found at i:30440184 original size:20 final size:20
Alignment explanation
Indices: 30440146--30440185 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
30440136 ATTTAATAAA
* **
30440146 TAAAAATAAAAATCTAAAAC
1 TAAAAAGAAAAATAAAAAAC
30440166 TAAAAAGAAAAATAAAAAAC
1 TAAAAAGAAAAATAAAAAAC
30440186 AAATAATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.75, C:0.07, G:0.03, T:0.15
Consensus pattern (20 bp):
TAAAAAGAAAAATAAAAAAC
Found at i:30440217 original size:9 final size:9
Alignment explanation
Indices: 30440203--30440279 Score: 102
Period size: 9 Copynumber: 8.6 Consensus size: 9
30440193 TTTATACAAA
*
30440203 TAATTCAGT
1 TAATTCGGT
30440212 TAATTCGGT
1 TAATTCGGT
30440221 TAATTCGGT
1 TAATTCGGT
*
30440230 TAAATT-GGG
1 T-AATTCGGT
30440239 TAATTCGGT
1 TAATTCGGT
*
30440248 TAATTCGAT
1 TAATTCGGT
*
30440257 TAATTTGGT
1 TAATTCGGT
30440266 TAATTCGGT
1 TAATTCGGT
30440275 TAATT
1 TAATT
30440280 TTATACTTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
8 4 0.07
9 51 0.86
10 4 0.07
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.45
Consensus pattern (9 bp):
TAATTCGGT
Found at i:30448646 original size:16 final size:17
Alignment explanation
Indices: 30448625--30448657 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30448615 ATTCAATTGA
*
30448625 TAACTAG-TTATTTTTC
1 TAACTAGATAATTTTTC
30448641 TAACTAGATAATTTTTC
1 TAACTAGATAATTTTTC
30448658 AATTCAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.52
Consensus pattern (17 bp):
TAACTAGATAATTTTTC
Found at i:30449480 original size:13 final size:13
Alignment explanation
Indices: 30449462--30449488 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30449452 GGAGTAATCA
30449462 CACACGGGCGTGT
1 CACACGGGCGTGT
30449475 CACACGGGCGTGT
1 CACACGGGCGTGT
30449488 C
1 C
30449489 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:30454038 original size:19 final size:18
Alignment explanation
Indices: 30454016--30454082 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 18
30454006 TATTATACTC
*
30454016 TATAATATAATAATAGTTA
1 TATAATAT-ATAATACTTA
30454035 TAT-ATAT-TAATACTTA
1 TATAATATATAATACTTA
* *
30454051 TAAAATATATAATTTCATTA
1 TATAATATATAA-TAC-TTA
30454071 TATAATACTATA
1 TATAATA-TATA
30454083 TCACATACTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 10 0.26
17 4 0.10
18 7 0.18
19 5 0.13
20 9 0.23
21 4 0.10
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (18 bp):
TATAATATATAATACTTA
Found at i:30454045 original size:16 final size:16
Alignment explanation
Indices: 30454010--30454052 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
30454000 ATCTCTTATT
30454010 ATACTCTATAATATAATA
1 ATACT-TAT-ATATAATA
* *
30454028 ATAGTTATATATATTA
1 ATACTTATATATAATA
30454044 ATACTTATA
1 ATACTTATA
30454053 AAATATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 15 0.68
17 3 0.14
18 4 0.18
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (16 bp):
ATACTTATATATAATA
Found at i:30454204 original size:13 final size:13
Alignment explanation
Indices: 30454186--30454213 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30454176 ATTGGCAATG
30454186 CTTTTAAAAAGTA
1 CTTTTAAAAAGTA
30454199 CTTTTAAAAAGTA
1 CTTTTAAAAAGTA
30454212 CT
1 CT
30454214 GTGGAAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (13 bp):
CTTTTAAAAAGTA
Found at i:30455126 original size:22 final size:23
Alignment explanation
Indices: 30455081--30455131 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
30455071 TATTGAAATT
**
30455081 TATTTTAAATATATAATATGATA
1 TATTTTAAATATATAATACAATA
* *
30455104 T-TTTTAAATTTATATTACAATA
1 TATTTTAAATATATAATACAATA
30455126 TATTTT
1 TATTTT
30455132 GTATATTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
TATTTTAAATATATAATACAATA
Found at i:30456709 original size:47 final size:46
Alignment explanation
Indices: 30456655--30456803 Score: 122
Period size: 46 Copynumber: 3.2 Consensus size: 46
30456645 TTTAACAACA
*
30456655 TATCTGTTCTAGTAGCTTAACTGCAATTATAGTGG-TTCGACCACACG
1 TATCTGTTCTAGCAGCTTAACTGCAA-TATAGTGGCTT-GACCACACG
* * * * *
30456702 TATCTGTTTTGGCAGCTTGACTGTAATATAGTGGCTTGACCACATG
1 TATCTGTTCTAGCAGCTTAACTGCAATATAGTGGCTTGACCACACG
* * * * * **
30456748 TATCTGATT-TGGCAGTTTAACTACAACTCTAGTGGCATTGTCCACAAA
1 TATCTG-TTCTAGCAGCTTAACTGCAA-TATAGTGGC-TTGACCACACG
30456796 TATCTGTT
1 TATCTGTT
30456804 GGTGTGATTT
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
46 35 0.42
47 35 0.42
48 14 0.17
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (46 bp):
TATCTGTTCTAGCAGCTTAACTGCAATATAGTGGCTTGACCACACG
Found at i:30456743 original size:46 final size:47
Alignment explanation
Indices: 30456668--30456769 Score: 136
Period size: 46 Copynumber: 2.2 Consensus size: 47
30456658 CTGTTCTAGT
*
30456668 AGCTTAACTGCAATTATAGTGGTTCGACCACACGTATCTGTTTTGGC
1 AGCTTAACTGCAATTATAGTGGTTCGACCACACGTATCTGATTTGGC
* * *
30456715 AGCTTGACTGTAA-TATAGTGGCTT-GACCACATGTATCTGATTTGGC
1 AGCTTAACTGCAATTATAGTGG-TTCGACCACACGTATCTGATTTGGC
*
30456761 AGTTTAACT
1 AGCTTAACT
30456770 ACAACTCTAG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
46 35 0.73
47 13 0.27
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.35
Consensus pattern (47 bp):
AGCTTAACTGCAATTATAGTGGTTCGACCACACGTATCTGATTTGGC
Found at i:30459275 original size:31 final size:33
Alignment explanation
Indices: 30459206--30459277 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 33
30459196 ATTTAAGTAC
*
30459206 TATATTAAAACAAAAAACTTAAATATCAAATTAA
1 TATATTAAAAC-AAAAACTTAAATACCAAATTAA
* *
30459240 -ATATTAAAAC-TAAACTTAAATACCGAA-TAA
1 TATATTAAAACAAAAACTTAAATACCAAATTAA
30459270 TATATTAA
1 TATATTAA
30459278 CCAGGTGCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 3 0.09
31 21 0.62
33 10 0.29
ACGTcount: A:0.58, C:0.10, G:0.01, T:0.31
Consensus pattern (33 bp):
TATATTAAAACAAAAACTTAAATACCAAATTAA
Found at i:30464579 original size:16 final size:16
Alignment explanation
Indices: 30464558--30464591 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
30464548 AAGAGAATAT
30464558 TTCTTGGGTAAGTGCA
1 TTCTTGGGTAAGTGCA
30464574 TTCTTGGGTAAGTGCA
1 TTCTTGGGTAAGTGCA
30464590 TT
1 TT
30464592 GTAGTCTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.29, T:0.41
Consensus pattern (16 bp):
TTCTTGGGTAAGTGCA
Found at i:30466608 original size:158 final size:158
Alignment explanation
Indices: 30466320--30466632 Score: 511
Period size: 158 Copynumber: 2.0 Consensus size: 158
30466310 ATCGGATATT
*
30466320 CATGCTATGACATTTGGGTCACTTGTGTGAGCTAGTGTAAGACATGTCTAGGACATGCATTGGCC
1 CATGCTATGACATTTGGGTCACTTGTGTGAGCTAGTCTAAGACATGTCTAGGACATGCATTGGCC
* * *
30466385 ACATTATGAGAGCCAGTGCAAGACCATGTTTTGGACACGGTATCAGCATTGAGACGAGTGCTAGT
66 ACATTATGAGAGCCAGTGCAAGACCATGTTTGGGACACGGCATCAGCATTGAGACGAGCGCTAGT
*
30466450 GTAAGACATGTTTAGGG-CATGCATCGGC
131 GTAAGACATG-TCAGGGACATGCATCGGC
*
30466478 CATGCTATGACATTTGGGTCACTTGTGTGAGCTAGTCTAAGATATGTCTAGGACATGCATTGGCC
1 CATGCTATGACATTTGGGTCACTTGTGTGAGCTAGTCTAAGACATGTCTAGGACATGCATTGGCC
* * * * *
30466543 ACATTATGAGAGTCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACTAGCGCTAGT
66 ACATTATGAGAGCCAGTGCAAGACCATGTTTGGGACACGGCATCAGCATTGAGACGAGCGCTAGT
30466608 GTAAGACATGTCAGGGACATGCATC
131 GTAAGACATGTCAGGGACATGCATC
30466633 CCTCGAGACG
Statistics
Matches: 143, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
157 5 0.03
158 138 0.97
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.27
Consensus pattern (158 bp):
CATGCTATGACATTTGGGTCACTTGTGTGAGCTAGTCTAAGACATGTCTAGGACATGCATTGGCC
ACATTATGAGAGCCAGTGCAAGACCATGTTTGGGACACGGCATCAGCATTGAGACGAGCGCTAGT
GTAAGACATGTCAGGGACATGCATCGGC
Found at i:30466696 original size:44 final size:45
Alignment explanation
Indices: 30466554--30466717 Score: 124
Period size: 44 Copynumber: 3.6 Consensus size: 45
30466544 CATTATGAGA
* * * *
30466554 GTCAGTGTAAGACCATGTTTGGGACATGGCATCGGC-ATTGAGACTAGC
1 GTCAGTGTAAGACCATGTCTGGGACAT-GCATTGGCTA-CGAGA-T-GT
* ** *
30466602 G-CTAGTGTAAGA-CATGTCAGGGACATGCA-TCCCT-CGAGACGT
1 GTC-AGTGTAAGACCATGTCTGGGACATGCATTGGCTACGAGATGT
* *
30466644 AAGCCAGTGTAAGA-CATGTTTGGGACATGCATTGGCTACGAGATGT
1 --GTCAGTGTAAGACCATGTCTGGGACATGCATTGGCTACGAGATGT
*
30466690 GTCAGTGTAAAACCATGTCTGGGACATG
1 GTCAGTGTAAGACCATGTCTGGGACATG
30466718 GCATCGGTAC
Statistics
Matches: 92, Mismatches: 16, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
42 1 0.01
44 39 0.42
45 19 0.21
46 10 0.11
47 13 0.14
48 10 0.11
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (45 bp):
GTCAGTGTAAGACCATGTCTGGGACATGCATTGGCTACGAGATGT
Found at i:30475462 original size:17 final size:16
Alignment explanation
Indices: 30475423--30475454 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
30475413 GTGTCATGGC
30475423 CGTGTGAAAGACACGA
1 CGTGTGAAAGACACGA
30475439 CTGTGTGAAAGACACG
1 C-GTGTGAAAGACACG
30475455 GGCGTGTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.34, C:0.19, G:0.31, T:0.16
Consensus pattern (16 bp):
CGTGTGAAAGACACGA
Found at i:30476934 original size:45 final size:45
Alignment explanation
Indices: 30476857--30476943 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
30476847 TGAAATACGG
* ** *
30476857 GTAAGACAATAGCTGAAAGACGTTATGACATCACTATTCAAAAGA
1 GTAAGACAATAGCTAAAAGACGCAATGACATCACGATTCAAAAGA
* * *
30476902 GTAAGACCATAGCTAAAAGATGCAATGGCATCACGATTCAAA
1 GTAAGACAATAGCTAAAAGACGCAATGACATCACGATTCAAA
30476944 CGTGTAAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.44, C:0.17, G:0.18, T:0.21
Consensus pattern (45 bp):
GTAAGACAATAGCTAAAAGACGCAATGACATCACGATTCAAAAGA
Found at i:30478273 original size:21 final size:21
Alignment explanation
Indices: 30478247--30478294 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
30478237 GACAACATGA
30478247 GCATGTAGAGCAGCCACACAG
1 GCATGTAGAGCAGCCACACAG
* * *
30478268 GCATGTGGCGTAGCCACACAG
1 GCATGTAGAGCAGCCACACAG
*
30478289 CCATGT
1 GCATGT
30478295 TTGTTGCCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.29, G:0.29, T:0.15
Consensus pattern (21 bp):
GCATGTAGAGCAGCCACACAG
Found at i:30484586 original size:40 final size:40
Alignment explanation
Indices: 30484500--30484592 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 40
30484490 TCTCAGTATT
30484500 GCACACTTAGTGCTTCATATAGCCAAAACTATTCCAATTC
1 GCACACTTAGTGCTTCATATAGCCAAAACTATTCCAATTC
* * * **
30484540 GTACACTTAGTGCTAT-TTATAGCCGAAACTATTTTGAA-TC
1 GCACACTTAGTGCT-TCATATAGCCAAAACTA-TTCCAATTC
30484580 GCACACTTAGTGC
1 GCACACTTAGTGC
30484593 CGAACATGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 40 0.89
41 5 0.11
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (40 bp):
GCACACTTAGTGCTTCATATAGCCAAAACTATTCCAATTC
Found at i:30486043 original size:8 final size:8
Alignment explanation
Indices: 30486030--30486060 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
30486020 CTTACTCGTA
30486030 CTAACAAG
1 CTAACAAG
30486038 CTAACAAG
1 CTAACAAG
30486046 CTAACAAG
1 CTAACAAG
30486054 CTAACAA
1 CTAACAA
30486061 ACTTAACTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.52, C:0.26, G:0.10, T:0.13
Consensus pattern (8 bp):
CTAACAAG
Found at i:30486073 original size:50 final size:52
Alignment explanation
Indices: 30485990--30486091 Score: 147
Period size: 50 Copynumber: 2.0 Consensus size: 52
30485980 ATACATAACT
* *
30485990 CAAGCTAACAAACTCTAACAAATTCAACCTCTTACTCGTACTAACAAGCTAA
1 CAAGCTAACAAACGCTAACAAATTCAACCTCTTACTCCTACTAACAAGCTAA
*
30486042 CAAGCTAAC-AA-GCTAACAAACTT-AACTTCTTACTCCTACTAACAAGCTAA
1 CAAGCTAACAAACGCTAACAAA-TTCAACCTCTTACTCCTACTAACAAGCTAA
30486092 TAATCTCCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
50 33 0.72
51 4 0.09
52 9 0.20
ACGTcount: A:0.42, C:0.28, G:0.06, T:0.24
Consensus pattern (52 bp):
CAAGCTAACAAACGCTAACAAATTCAACCTCTTACTCCTACTAACAAGCTAA
Found at i:30486598 original size:3 final size:3
Alignment explanation
Indices: 30486590--30486617 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
30486580 TCAGATTTGG
30486590 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
30486618 ACCATTGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:30491678 original size:22 final size:21
Alignment explanation
Indices: 30491647--30491698 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
30491637 CAAAAAAAAA
* *
30491647 TTGCTATTTTTTTGTTGTTTTC
1 TTGCTTTTTTTTTATT-TTTTC
*
30491669 TTGCTTTTTTATTATTTTTTC
1 TTGCTTTTTTTTTATTTTTTC
30491690 TT--TTTTTTT
1 TTGCTTTTTTT
30491699 CACTATTTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 6 0.23
21 7 0.27
22 13 0.50
ACGTcount: A:0.06, C:0.08, G:0.08, T:0.79
Consensus pattern (21 bp):
TTGCTTTTTTTTTATTTTTTC
Found at i:30491697 original size:21 final size:21
Alignment explanation
Indices: 30491664--30491707 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
30491654 TTTTTTGTTG
* *
30491664 TTTTCTTGCTTTTTTATTATT
1 TTTTCTTGCTTTTTCACTATT
**
30491685 TTTTCTTTTTTTTTCACTATT
1 TTTTCTTGCTTTTTCACTATT
30491706 TT
1 TT
30491708 GCTACTATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTTCTTGCTTTTTCACTATT
Found at i:30492637 original size:29 final size:29
Alignment explanation
Indices: 30492595--30492656 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
30492585 TTTCAACTCG
30492595 AATATTAGGTTTTATGTTGTATTTTAATT
1 AATATTAGGTTTTATGTTGTATTTTAATT
30492624 AATATTAGGTTTTATGTTGTATTTTAATT
1 AATATTAGGTTTTATGTTGTATTTTAATT
30492653 AATA
1 AATA
30492657 ATTTAAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (29 bp):
AATATTAGGTTTTATGTTGTATTTTAATT
Found at i:30495940 original size:30 final size:30
Alignment explanation
Indices: 30495901--30495970 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
30495891 CCGTGTGCTA
* *
30495901 GACCATGTCTTTCACATGGATGAAACACAC
1 GACCGTGTCTTTCACACGGATGAAACACAC
*
30495931 GACCGTGTCTTTCACACGGCTGAAACACAC
1 GACCGTGTCTTTCACACGGATGAAACACAC
*
30495961 GGCCGTGTCT
1 GACCGTGTCT
30495971 CTGCCCGTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (30 bp):
GACCGTGTCTTTCACACGGATGAAACACAC
Found at i:30499771 original size:21 final size:21
Alignment explanation
Indices: 30499747--30499788 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
30499737 TAGAACCTAT
30499747 GCACAAGAATAAACAACCTTA
1 GCACAAGAATAAACAACCTTA
*
30499768 GCACGAGAATAAACAACCTTA
1 GCACAAGAATAAACAACCTTA
30499789 CGCTAAGTGA
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:0.50, C:0.24, G:0.12, T:0.14
Consensus pattern (21 bp):
GCACAAGAATAAACAACCTTA
Found at i:30522398 original size:71 final size:67
Alignment explanation
Indices: 30522308--30522438 Score: 174
Period size: 71 Copynumber: 1.9 Consensus size: 67
30522298 GAATAAGAAA
* * *
30522308 AGGCAAAACTACGTCGTTTTGATAAATGTTTACCTTTTCTAAAGTTAAAAAGTCAAAACCATTAA
1 AGGCAAAACTACGTCGTTTTCATAAATGTTTA-CTTAT-T-AAGTT-AAAAGGCAAAACCATTAA
30522373 GTTAAG
62 GTTAAG
*
30522379 AGGCAAAACTATGAT-GTTTTCATAAATGTTTACTTATTAAGTTAAAAGGCAAAACCATTA
1 AGGCAAAACTACG-TCGTTTTCATAAATGTTTACTTATTAAGTTAAAAGGCAAAACCATTA
30522439 TATTGTTTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
67 16 0.29
68 5 0.09
69 1 0.02
70 4 0.07
71 28 0.51
72 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (67 bp):
AGGCAAAACTACGTCGTTTTCATAAATGTTTACTTATTAAGTTAAAAGGCAAAACCATTAAGTTA
AG
Found at i:30534227 original size:42 final size:44
Alignment explanation
Indices: 30534169--30534275 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 44
30534159 TCAATGCCAC
* **
30534169 TGTCCCAGACAGGGTCTTACACG-AAATCA-AA-TACGATACTGA
1 TGTCCCAGACATGGTCTTACACGTAAATCATAAGT-CGATACCAA
* *
30534211 TGTCCCAGACATGGTCTTACATGTAAATCATAAGTCGATGCCAA
1 TGTCCCAGACATGGTCTTACACGTAAATCATAAGTCGATACCAA
* *
30534255 CGTCCCAGACGTGGTCTTACA
1 TGTCCCAGACATGGTCTTACA
30534276 TAAAAACACA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 21 0.38
43 6 0.11
44 27 0.49
45 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (44 bp):
TGTCCCAGACATGGTCTTACACGTAAATCATAAGTCGATACCAA
Found at i:30541436 original size:43 final size:43
Alignment explanation
Indices: 30541369--30541513 Score: 161
Period size: 43 Copynumber: 3.4 Consensus size: 43
30541359 AGCTCCTACA
* *
30541369 ATGCCAATGTCCCAGAT-GTTGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGATAG-GGTCTTACACGTAATCAAATATCG
* *
30541412 ATGCCACTGTCCCAGATAGGGTCTTACACGAAATCAAATA-CG
1 ATGCCAATGTCCCAGATAGGGTCTTACACGTAATCAAATATCG
* * * *
30541454 ATGCCAATGTCCTAGACATGGTCTTACACGTAAATCATAA-GTCG
1 ATGCCAATGTCCCAGATAGGGTCTTACACGT-AATCA-AATATCG
*
30541498 ATGCCAACGTCCCAGA
1 ATGCCAATGTCCCAGA
30541514 GGTGATCTTA
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
42 28 0.33
43 39 0.45
44 19 0.22
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGATAGGGTCTTACACGTAATCAAATATCG
Found at i:30541513 original size:86 final size:85
Alignment explanation
Indices: 30541369--30541530 Score: 197
Period size: 86 Copynumber: 1.9 Consensus size: 85
30541359 AGCTCCTACA
** * *
30541369 ATGCCAATGTCCCAGATGTTGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGATAGG-G
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAG--AGGTG
30541433 -TCTTACACGAAATCAAATACG
64 ATCTTACACGAAATCAAATACG
* *
30541454 ATGCCAATGTCCTAGACATGGTCTTACACGTAAATCATAA-GTCGATGCCAAC-GTCCCAGAGGT
1 ATGCCAATGTCCCAGACATGGTCTTACACGT-AATCA-AATATCGATGCC-ACTGTCCCAGAGGT
30541517 GATCTTACACGAAA
63 GATCTTACACGAAA
30541531 ACACATATTG
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
84 3 0.05
85 27 0.41
86 32 0.48
87 4 0.06
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (85 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGAGGTGAT
CTTACACGAAATCAAATACG
Found at i:30554809 original size:17 final size:17
Alignment explanation
Indices: 30554780--30554817 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
30554770 AAAATAATAA
30554780 AAAATAAATTAAAATTT
1 AAAATAAATTAAAATTT
30554797 AAAATCAAA-TAAAATTT
1 AAAAT-AAATTAAAATTT
30554814 AAAA
1 AAAA
30554818 GTGAAGTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATAAATTAAAATTT
Found at i:30571522 original size:43 final size:42
Alignment explanation
Indices: 30571417--30571526 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 42
30571407 AAAATGAGAT
* *
30571417 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGCATATGA
1 TTACATGTAAGACCATGTCTGGGACAGTGGCATCGCATATGA
* * * *
30571459 TTTCATGTAAGACCTTGTCTGGGATAGTGGCATCG-GTACTTGA
1 TTACATGTAAGACCATGTCTGGGACAGTGGCATCGCATA--TGA
*
30571502 TTACATGTAAGACCACGTCTGGGAC
1 TTACATGTAAGACCATGTCTGGGAC
30571527 GTTTTCATTG
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
41 2 0.04
42 30 0.54
43 24 0.43
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACAGTGGCATCGCATATGA
Found at i:30574911 original size:27 final size:27
Alignment explanation
Indices: 30574881--30575081 Score: 251
Period size: 27 Copynumber: 7.4 Consensus size: 27
30574871 TGAGTCCGCT
* * * *
30574881 CACTCAGTGCTATATAATCAACTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* *
30574908 CACTTAGTGCTACGTAATCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
30574935 CACTTAGTGCTACATAGTCAAACTCGCA
1 CACTTAGTGCTACATAGTCAAA-TCGCA
** * *
30574963 CACTTAGTGCCGCATGGTCAATTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* **
30574990 CACTTAGTGC-ATCATATTCATTTCGCA
1 CACTTAGTGCTA-CATAGTCAAATCGCA
*
30575017 CACTTAGTGCAACATAGTCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
30575044 CACTTAGTGCTACATAGTCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
30575071 CACTTAGTGCT
1 CACTTAGTGCT
30575082 GTACAATTTA
Statistics
Matches: 153, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 129 0.84
28 24 0.16
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (27 bp):
CACTTAGTGCTACATAGTCAAATCGCA
Found at i:30582017 original size:44 final size:44
Alignment explanation
Indices: 30581967--30582106 Score: 148
Period size: 42 Copynumber: 3.2 Consensus size: 44
30581957 TATGTAATTT
* *
30581967 CGTGTAAGACCACT-TCTGGGACATTGACATCGGTTTGA-GATTGA
1 CGTGTAAGACCACTGTCTGGGACATTGGCATCGGTAT-ATGATT-A
* * *
30582011 CGTGTAAGACCA-TGTCTGGGATATTGGCAT-TGTATATGATTT
1 CGTGTAAGACCACTGTCTGGGACATTGGCATCGGTATATGATTA
*
30582053 CGTGTAAGACC-CTGTCTGGGACATTGGCATCGATAGT-TGATTA
1 CGTGTAAGACCACTGTCTGGGACATTGGCATCGGTA-TATGATTA
*
30582096 CATGTAAGACC
1 CGTGTAAGACC
30582107 GCATTTGGGA
Statistics
Matches: 81, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
42 29 0.36
43 25 0.31
44 27 0.33
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (44 bp):
CGTGTAAGACCACTGTCTGGGACATTGGCATCGGTATATGATTA
Found at i:30582140 original size:86 final size:85
Alignment explanation
Indices: 30581963--30582137 Score: 191
Period size: 86 Copynumber: 2.0 Consensus size: 85
30581953 CCGATATGTA
* *
30581963 ATTTCGTGTAAGACCACTTCTGGGACATTGACATCGGTTTGAGATTGACGTGTAAGACCATGTCT
1 ATTTCGTGTAAGACCACTTCTGGGACATTGACATCGATTT-AGATTGACATGTAAGACCATGTCT
* *
30582028 GGGATATTGGCATTGTATATG
65 GGGACATTGGCATTGTAGATG
*
30582049 ATTTCGTGTAAGACC-CTGTCTGGGACATTGGCATCGATAGTT-GATT-ACATGTAAGACCGCAT
1 ATTTCGTGTAAGACCACT-TCTGGGACATTGACATCGAT--TTAGATTGACATGTAAGA-C-CAT
*
30582111 -T-TGGGACGTTGGCATTGTACGA-G
61 GTCTGGGACATTGGCATTGTA-GATG
30582134 ATTT
1 ATTT
30582138 TCGAGATATC
Statistics
Matches: 77, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
85 32 0.42
86 40 0.52
87 3 0.04
88 2 0.03
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (85 bp):
ATTTCGTGTAAGACCACTTCTGGGACATTGACATCGATTTAGATTGACATGTAAGACCATGTCTG
GGACATTGGCATTGTAGATG
Found at i:30584674 original size:53 final size:54
Alignment explanation
Indices: 30584594--30584800 Score: 200
Period size: 53 Copynumber: 3.8 Consensus size: 54
30584584 TTCCTTTTTA
* **
30584594 AACTTACCATTGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTAT-G
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
30584647 AACTCACCATTGTCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * * *
30584701 TAGTTTATCAGTGCCAGGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAG
1 -AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
30584756 AACTTACCAATGTCATGCTTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
30584801 AAACCCTAAT
Statistics
Matches: 118, Mismatches: 34, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
53 44 0.37
54 34 0.29
55 40 0.34
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (54 bp):
AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:30590669 original size:19 final size:19
Alignment explanation
Indices: 30590647--30590714 Score: 50
Period size: 19 Copynumber: 3.4 Consensus size: 19
30590637 TGATCTGAAC
30590647 TCATTGAATTGGTCTGAGT
1 TCATTGAATTGGTCTGAGT
*
30590666 TCA-TGATATATGTGACATCTGAGC
1 TCATTGA-AT-TG-G---TCTGAGT
*
30590690 TCATTGAGTTGGTCTGAGT
1 TCATTGAATTGGTCTGAGT
30590709 TC-TTGA
1 TCATTGA
30590715 TGTTTGTGAC
Statistics
Matches: 39, Mismatches: 3, Indels: 15
0.68 0.05 0.26
Matches are distributed among these distances:
18 7 0.18
19 13 0.33
20 2 0.05
21 1 0.03
22 1 0.03
23 2 0.05
24 10 0.26
25 3 0.08
ACGTcount: A:0.22, C:0.13, G:0.25, T:0.40
Consensus pattern (19 bp):
TCATTGAATTGGTCTGAGT
Found at i:30590693 original size:43 final size:43
Alignment explanation
Indices: 30590639--30590725 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
30590629 AAATTATATG
30590639 ATCTGAACTCATTGAATTGGTCTGAGTTCATGATATATGTGAC
1 ATCTGAACTCATTGAATTGGTCTGAGTTCATGATATATGTGAC
* * * * *
30590682 ATCTGAGCTCATTGAGTTGGTCTGAGTTCTTGATGTTTGTGAC
1 ATCTGAACTCATTGAATTGGTCTGAGTTCATGATATATGTGAC
30590725 A
1 A
30590726 CATGTAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (43 bp):
ATCTGAACTCATTGAATTGGTCTGAGTTCATGATATATGTGAC
Found at i:30599156 original size:18 final size:19
Alignment explanation
Indices: 30599135--30599174 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
30599125 ATAAAAATTC
* *
30599135 AGATTCATATTTAGATT-T
1 AGATCCATATTCAGATTAT
30599153 AGATCCATATTCAGATTAT
1 AGATCCATATTCAGATTAT
30599172 AGA
1 AGA
30599175 AACGAATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (19 bp):
AGATCCATATTCAGATTAT
Found at i:30603031 original size:50 final size:48
Alignment explanation
Indices: 30602925--30603019 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 48
30602915 AAGTAACTTC
30602925 TCATGAAGCTCTACTTAAGTTAGAATGATGGCCAAACATTAAATGATTAT
1 TCATGAAGCTCTACTTAAGTTAGAATGA--GCCAAACATTAAATGATTAT
30602975 TCATGAAGCTCTACTTAA-TT-G-ATGA-CCAAACATTAAATGATTAT
1 TCATGAAGCTCTACTTAAGTTAGAATGAGCCAAACATTAAATGATTAT
30603019 T
1 T
30603020 AGTACTTATG
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
44 20 0.44
47 4 0.09
48 1 0.02
49 2 0.04
50 18 0.40
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.34
Consensus pattern (48 bp):
TCATGAAGCTCTACTTAAGTTAGAATGAGCCAAACATTAAATGATTAT
Found at i:30610717 original size:25 final size:25
Alignment explanation
Indices: 30610688--30610762 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 25
30610678 TTCCCACCCT
30610688 AATTTTACCCCAATAAAATTTTGAC
1 AATTTTACCCCAATAAAATTTTGAC
*** *
30610713 AATTTTACTTTATTAAAATTTTGAC
1 AATTTTACCCCAATAAAATTTTGAC
* *
30610738 GATTTTACCCCTGATAAAATTTTGA
1 AATTTTACCCC-AATAAAATTTTGA
30610763 GAAAATTCAT
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
25 28 0.72
26 11 0.28
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.43
Consensus pattern (25 bp):
AATTTTACCCCAATAAAATTTTGAC
Found at i:30625834 original size:16 final size:16
Alignment explanation
Indices: 30625792--30625834 Score: 70
Period size: 16 Copynumber: 2.7 Consensus size: 16
30625782 GTAGATCGAA
30625792 AAAAGCTGAAATGTCG
1 AAAAGCTGAAATGTCG
30625808 AAAAG-TCGAAATGTCG
1 AAAAGCT-GAAATGTCG
30625824 AAAAGCTGAAA
1 AAAAGCTGAAA
30625835 GTTTGGCTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 1 0.04
16 23 0.92
17 1 0.04
ACGTcount: A:0.49, C:0.12, G:0.23, T:0.16
Consensus pattern (16 bp):
AAAAGCTGAAATGTCG
Found at i:30626127 original size:29 final size:28
Alignment explanation
Indices: 30626066--30626192 Score: 141
Period size: 29 Copynumber: 4.5 Consensus size: 28
30626056 ATTTGGTTTG
* *
30626066 GATGGACCATATAAATGAGATTGGGCCT
1 GATGGGCCATATGAATGAGATTGGGCCT
* * *
30626094 AATGGGCCATATGAATGTGAATTGGGGCT
1 GATGGGCCATATGAATGAG-ATTGGGCCT
*
30626123 GATGGGCCATATGAACGTGA-ATTGGGCCG
1 GATGGGCCATATGAA--TGAGATTGGGCCT
*
30626152 GATGGGCCATATAAATGAGATTGGGCCT
1 GATGGGCCATATGAATGAGATTGGGCCT
30626180 -AGTGGGCCATATG
1 GA-TGGGCCATATG
30626193 CGTGTATGTA
Statistics
Matches: 82, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
27 4 0.05
28 33 0.40
29 43 0.52
31 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.24
Consensus pattern (28 bp):
GATGGGCCATATGAATGAGATTGGGCCT
Found at i:30632944 original size:45 final size:45
Alignment explanation
Indices: 30632886--30633103 Score: 391
Period size: 45 Copynumber: 4.8 Consensus size: 45
30632876 TCATTTCAAT
*
30632886 GGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATATCACC
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATATCACC
*
30632931 GACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATATCACC
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATATCACC
30632976 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATATCACC
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATATCACC
*
30633021 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATACCACC
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATATCACC
* *
30633066 GGCATTATAGCCTACTAGGCTCAAAGGCCTGAATAGTA
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
30633104 CTGTACGATA
Statistics
Matches: 167, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 167 1.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (45 bp):
GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATATCACC
Found at i:30633928 original size:47 final size:47
Alignment explanation
Indices: 30633859--30634000 Score: 216
Period size: 47 Copynumber: 3.0 Consensus size: 47
30633849 CTAGTATCAA
*
30633859 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACGAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
* *
30633906 TTAACGACGTAACTTACCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACGAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
* *
30633953 TTAACTAAGTAACTTATCC-GAAATTATTAAGAGC-AATTTATCAAGC
1 TTAACGAAGTAACTTATCCGGAAA-TATTAAGAGCAAATTTAACAAGC
30633999 TT
1 TT
30634001 TAAATTTAAC
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
46 17 0.20
47 70 0.80
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (47 bp):
TTAACGAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
Found at i:30637036 original size:32 final size:33
Alignment explanation
Indices: 30636989--30637053 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
30636979 TACCCAAGTG
*
30636989 GTACAACTTGAAAAGGTTATGTACACTTCGTGT
1 GTACAACTTGAAAAGGTTAGGTACACTTCGTGT
* * *
30637022 GTAC-ACTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACAACTTGAAAAGGTTAGGTACACTTCGTGT
30637054 ATACCATATG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 24 0.86
33 4 0.14
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (33 bp):
GTACAACTTGAAAAGGTTAGGTACACTTCGTGT
Found at i:30639473 original size:19 final size:22
Alignment explanation
Indices: 30639440--30639479 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
30639430 AGTTTATTTA
30639440 TGTTATAATTGTTGC-AAAATG
1 TGTTATAATTGTTGCTAAAATG
30639461 TGTT-TAATT-TTGCTAAAAT
1 TGTTATAATTGTTGCTAAAAT
30639480 CTATTTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (22 bp):
TGTTATAATTGTTGCTAAAATG
Found at i:30673086 original size:20 final size:20
Alignment explanation
Indices: 30673057--30673097 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
30673047 AATGTACCTA
30673057 TCCCCATATCATCAGTCACC
1 TCCCCATATCATCAGTCACC
*
30673077 TCCCCGTATCATCAGTCACC
1 TCCCCATATCATCAGTCACC
30673097 T
1 T
30673098 TGACAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.44, G:0.07, T:0.27
Consensus pattern (20 bp):
TCCCCATATCATCAGTCACC
Found at i:30675020 original size:12 final size:11
Alignment explanation
Indices: 30674980--30675020 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
30674970 AGTTGAGCTA
30674980 TTTTTAA-AAT
1 TTTTTAATAAT
30674990 ATTTTT-ATAAT
1 -TTTTTAATAAT
30675001 TTTTTAATAAT
1 TTTTTAATAAT
30675012 TTATTTAAT
1 TT-TTTAAT
30675021 TGAACCAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 6 0.22
11 15 0.56
12 6 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTTAATAAT
Found at i:30681735 original size:60 final size:59
Alignment explanation
Indices: 30681614--30681760 Score: 138
Period size: 60 Copynumber: 2.5 Consensus size: 59
30681604 TCTTTTCAAC
* * * *
30681614 TTTTAGAATTAGAACTAAACTGAAAAATTTTATAAATGATCAAGGTTAAATCTATTGAATT
1 TTTTAGAATTAGATCTAAACTGATAAATTTTATAAAT-ATCAAGGATAAATCTATT-AAAT
* * * *
30681675 TTTTAGAATTAGATCTAAA-TGATAAATTTTATATACAT-TGAGGGATAAATTTGTTAAAT
1 TTTTAGAATTAGATCTAAACTGATAAATTTTATA-A-ATATCAAGGATAAATCTATTAAAT
* *
30681734 TTTTAGATTTAAGATC-AAATTGATAAA
1 TTTTAGAATT-AGATCTAAACTGATAAA
30681761 ATGTGTAAAC
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
59 15 0.21
60 37 0.51
61 19 0.26
62 2 0.03
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (59 bp):
TTTTAGAATTAGATCTAAACTGATAAATTTTATAAATATCAAGGATAAATCTATTAAAT
Found at i:30687855 original size:46 final size:46
Alignment explanation
Indices: 30687797--30687970 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
30687787 TTTGGGCATT
30687797 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGGTC
* * * **
30687843 CGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA--AGG--TC
* ***
30687890 CGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGGTC
* *
30687936 CGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30687971 GCAGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 5 0.05
45 5 0.05
46 59 0.57
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGGTC
Found at i:30687950 original size:93 final size:93
Alignment explanation
Indices: 30687791--30687963 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
30687781 GGGATATTTG
* * ***
30687791 GGCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGGTCCGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
30687856 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
30687884 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
30687949 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
30687964 CTTATGGGCA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:30692488 original size:15 final size:15
Alignment explanation
Indices: 30692470--30692520 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
30692460 TTATAGTGTA
30692470 TTTAATTGTATATAT
1 TTTAATTGTATATAT
*
30692485 TTTAAATT-TTTATA-
1 TTT-AATTGTATATAT
*
30692499 TTTAATTGTGTAATAT
1 TTTAATTGTAT-ATAT
30692515 TTTAAT
1 TTTAAT
30692521 AGTGTGCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 4 0.13
14 5 0.17
15 11 0.37
16 10 0.33
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (15 bp):
TTTAATTGTATATAT
Found at i:30702397 original size:6 final size:6
Alignment explanation
Indices: 30702386--30702457 Score: 94
Period size: 6 Copynumber: 11.8 Consensus size: 6
30702376 TTGAGTCCAA
*
30702386 TTATTT TTATTT TTATGT TTATGTT TATATTT TTA--T TTATTT TTATCTT
1 TTATTT TTATTT TTATTT TTAT-TT T-TATTT TTATTT TTATTT TTAT-TT
30702435 TTATTT TTATTT TTATTT TTATT
1 TTATTT TTATTT TTATTT TTATT
30702458 CTTCTTGTTA
Statistics
Matches: 59, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
4 4 0.07
6 41 0.69
7 11 0.19
8 3 0.05
ACGTcount: A:0.18, C:0.01, G:0.03, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:30702468 original size:18 final size:19
Alignment explanation
Indices: 30702422--30702468 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
30702412 ATATTTTTAT
* *
30702422 TTATTTTTATCTTTTATTT
1 TTATTGTTATCTTTTATTC
*
30702441 TTATTTTTAT-TTTTATTC
1 TTATTGTTATCTTTTATTC
*
30702459 TTCTTGTTAT
1 TTATTGTTAT
30702469 GTCTATTTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (19 bp):
TTATTGTTATCTTTTATTC
Found at i:30708117 original size:24 final size:24
Alignment explanation
Indices: 30708084--30708135 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
30708074 TTTCTAGAAG
* **
30708084 ATTTAGTATTTATGAGTATAATAT
1 ATTTAATATTTATGAACATAATAT
*
30708108 ATTTAATATTTATTAACATAATAT
1 ATTTAATATTTATGAACATAATAT
30708132 ATTT
1 ATTT
30708136 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (24 bp):
ATTTAATATTTATGAACATAATAT
Found at i:30718608 original size:22 final size:22
Alignment explanation
Indices: 30718544--30718610 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
30718534 TTAATTATAA
30718544 AATATTTTAATAT--TGTCGTTT
1 AATATTTTAATATCATGTC-TTT
* *
30718565 AATATTTTTATA-CAATGCCTTT
1 AATATTTTAATATC-ATGTCTTT
*
30718587 AATAATTTAATATCATGTCTTT
1 AATATTTTAATATCATGTCTTT
30718609 AA
1 AA
30718611 AAATACTTAG
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
21 11 0.30
22 22 0.59
23 4 0.11
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (22 bp):
AATATTTTAATATCATGTCTTT
Found at i:30723126 original size:16 final size:18
Alignment explanation
Indices: 30723087--30723124 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
30723077 GTTTTATGGG
30723087 TTATTTATTTTAAATTATTT
1 TTATTTATTTTAAA-TA-TT
30723107 TTATTTATTTTAAA-ATT
1 TTATTTATTTTAAATATT
30723124 T
1 T
30723125 ATATATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.17
18 1 0.06
20 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTTATTTTAAATATT
Found at i:30723203 original size:26 final size:27
Alignment explanation
Indices: 30723165--30723218 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
30723155 ATTGTTTAGA
30723165 TATATTATTTTAAATTATTTCATACAT
1 TATATTATTTTAAATTATTTCATACAT
* *
30723192 TATA-TATTTTAAATTGTTTTATACAT
1 TATATTATTTTAAATTATTTCATACAT
30723218 T
1 T
30723219 GTTTTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (27 bp):
TATATTATTTTAAATTATTTCATACAT
Found at i:30723437 original size:17 final size:16
Alignment explanation
Indices: 30723415--30723478 Score: 76
Period size: 17 Copynumber: 3.9 Consensus size: 16
30723405 AAACTTATTT
30723415 ATATATTATTATTTTAC
1 ATATATTATTATTTT-C
30723432 ATATATTACTTATTTTC
1 ATATATTA-TTATTTTC
* *
30723449 AT-TTTTATTTTTTTC
1 ATATATTATTATTTTC
30723464 ATATATTATCTATTT
1 ATATATTAT-TATTT
30723479 CAAACTTACA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
15 9 0.22
16 9 0.22
17 15 0.38
18 7 0.17
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (16 bp):
ATATATTATTATTTTC
Found at i:30724763 original size:20 final size:20
Alignment explanation
Indices: 30724743--30724858 Score: 87
Period size: 20 Copynumber: 5.7 Consensus size: 20
30724733 TCTATACATT
30724743 TTTTAGAATTTTTTAAAATT-
1 TTTT-GAATTTTTTAAAATTA
* *
30724763 TTTAT-AAATTTTAAAAATATAAA
1 TTT-TGAATTTTTTAAAAT-T--A
30724786 TTTTGGAA-TTTTTATAAA-TA
1 TTTT-GAATTTTTTA-AAATTA
*
30724806 CTTTGAATTTTTTAAAATTA
1 TTTTGAATTTTTTAAAATTA
* * *
30724826 TTTTCAACTTTTGAAAATTA
1 TTTTGAATTTTTTAAAATTA
30724846 TTTTGAATTTTTT
1 TTTTGAATTTTTT
30724859 TTTGTAATTT
Statistics
Matches: 75, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
19 17 0.23
20 42 0.56
21 1 0.01
22 2 0.03
23 8 0.11
24 5 0.07
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTTGAATTTTTTAAAATTA
Found at i:30724766 original size:19 final size:19
Alignment explanation
Indices: 30724742--30724780 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
30724732 CTCTATACAT
* *
30724742 TTTTTAGAATTTTTTAAAA
1 TTTTTAGAAATTTTAAAAA
*
30724761 TTTTTATAAATTTTAAAAA
1 TTTTTAGAAATTTTAAAAA
30724780 T
1 T
30724781 ATAAATTTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTTTAGAAATTTTAAAAA
Found at i:30727845 original size:13 final size:13
Alignment explanation
Indices: 30727806--30727845 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
30727796 GCTCGACAGG
* *
30727806 GACACGCCCATAT
1 GACATGCCCATGT
*
30727819 GACATGCCCGTGT
1 GACATGCCCATGT
30727832 GACATGCCCATGT
1 GACATGCCCATGT
30727845 G
1 G
30727846 CGATTACTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.23, C:0.33, G:0.25, T:0.20
Consensus pattern (13 bp):
GACATGCCCATGT
Found at i:30729944 original size:22 final size:23
Alignment explanation
Indices: 30729890--30729941 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
30729880 TATAAAACCT
30729890 AATAAAAA-TAAG-CTTAAAGAAA
1 AATAAAAAGT-AGTCTTAAAGAAA
* *
30729912 AATAAAAAGTAGTCTTAAAGTAG
1 AATAAAAAGTAGTCTTAAAGAAA
30729935 AATAAAA
1 AATAAAA
30729942 GTAAAAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.63, C:0.04, G:0.12, T:0.21
Consensus pattern (23 bp):
AATAAAAAGTAGTCTTAAAGAAA
Found at i:30732017 original size:55 final size:54
Alignment explanation
Indices: 30731958--30732101 Score: 164
Period size: 55 Copynumber: 2.6 Consensus size: 54
30731948 ATGAAGGTCT
* * *
30731958 ACGCCCGTGTTTTTTTGGCAGGTTCGTCCACGGTTGCTT-GGCACAGGCGTGTCAC
1 ACGCCAGTGTTATTTTGGCAGGTTCGCCCACGGTT--TTAGGCACAGGCGTGTCAC
* * * * *
30732013 ACGCCAGTGTCAATTTGACAGGTTCGGCCACGGTTTTAAGGCACAGGCGTGTCGC
1 ACGCCAGTGTTATTTTGGCAGGTTCGCCCACGGTTTT-AGGCACAGGCGTGTCAC
* *
30732068 ACGCCTGTGTTGTTTTGGCAGGTTCGCCCACGGT
1 ACGCCAGTGTTATTTTGGCAGGTTCGCCCACGGT
30732102 CATGTCGCAT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
53 2 0.03
55 72 0.97
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.28
Consensus pattern (54 bp):
ACGCCAGTGTTATTTTGGCAGGTTCGCCCACGGTTTTAGGCACAGGCGTGTCAC
Found at i:30741539 original size:18 final size:18
Alignment explanation
Indices: 30741516--30741550 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30741506 AATTCAAGAA
30741516 AAGCATCAAAATAGTTTC
1 AAGCATCAAAATAGTTTC
*
30741534 AAGCATGAAAATAGTTT
1 AAGCATCAAAATAGTTT
30741551 GGCACATCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (18 bp):
AAGCATCAAAATAGTTTC
Found at i:30742624 original size:42 final size:42
Alignment explanation
Indices: 30742543--30742624 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 42
30742533 GGTGCAAGAG
*
30742543 ACACACGGTCGGACCACATGCCCATGTGCTAATCCGTGTGTC
1 ACACACGGTCGGACCACATGCCCATGTGATAATCCGTGTGTC
* * *
30742585 ACACACGGTCATGA-CACATGCCCGTGT-ATATATCTGTGTG
1 ACACACGGTC-GGACCACATGCCCATGTGATA-ATCCGTGTG
30742625 GACGAAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
41 2 0.06
42 30 0.88
43 2 0.06
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.24
Consensus pattern (42 bp):
ACACACGGTCGGACCACATGCCCATGTGATAATCCGTGTGTC
Found at i:30748785 original size:68 final size:67
Alignment explanation
Indices: 30748713--30748862 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
30748703 CATCATGTGT
* * * *
30748713 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
30748775 ATGTAG
62 ATGTAG
** * *
30748781 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
30748846 AG
66 AG
30748848 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
30748863 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:30748818 original size:64 final size:64
Alignment explanation
Indices: 30748737--30748920 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
30748727 AGACATTATG
* *
30748737 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
30748801 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
30748866 AA
63 AA
* * * *
30748868 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
30748921 CGAGCTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:30754990 original size:86 final size:86
Alignment explanation
Indices: 30754841--30755010 Score: 313
Period size: 86 Copynumber: 2.0 Consensus size: 86
30754831 AGTAAACTCG
30754841 TATGAAATAAAATCAATCTTAACATAAATATACAAATCACCAATTTGAACATATCAACATGTAGT
1 TATGAAATAAAATCAATCTTAACATAAATATACAAATCACCAATTTGAACATATCAACATGTAGT
30754906 TATTAAACTAACAAACCTTCA
66 TATTAAACTAACAAACCTTCA
* * *
30754927 TATGAAATAAACTCAATCTTAACATAAATATACAAATCATCAATTTGAACATATCAACTTGTAGT
1 TATGAAATAAAATCAATCTTAACATAAATATACAAATCACCAATTTGAACATATCAACATGTAGT
30754992 TATTAAACTAACAAACCTT
66 TATTAAACTAACAAACCTT
30755011 TCACATTTTT
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 81 1.00
ACGTcount: A:0.48, C:0.17, G:0.05, T:0.31
Consensus pattern (86 bp):
TATGAAATAAAATCAATCTTAACATAAATATACAAATCACCAATTTGAACATATCAACATGTAGT
TATTAAACTAACAAACCTTCA
Found at i:30759449 original size:43 final size:43
Alignment explanation
Indices: 30759402--30759486 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
30759392 TAAAGCTTAG
*
30759402 TAAGCTCGTATAGTTAATAAGTAAAACTTAGCATTCATTCACT
1 TAAGCTCGTATAGTTAATAAGTAAAACTTACCATTCATTCACT
30759445 TAAGCTCGTATAGTTAATAAGTAAAACTTACCATTCATTCAC
1 TAAGCTCGTATAGTTAATAAGTAAAACTTACCATTCATTCAC
30759487 CATTCAAGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.34
Consensus pattern (43 bp):
TAAGCTCGTATAGTTAATAAGTAAAACTTACCATTCATTCACT
Found at i:30760916 original size:57 final size:57
Alignment explanation
Indices: 30760828--30760939 Score: 224
Period size: 57 Copynumber: 2.0 Consensus size: 57
30760818 TTTTATGTCT
30760828 ATAAATGTCCACCCACTATAAAAATGGTCTAATTACCACATAAGGACCTCCACTTCC
1 ATAAATGTCCACCCACTATAAAAATGGTCTAATTACCACATAAGGACCTCCACTTCC
30760885 ATAAATGTCCACCCACTATAAAAATGGTCTAATTACCACATAAGGACCTCCACTT
1 ATAAATGTCCACCCACTATAAAAATGGTCTAATTACCACATAAGGACCTCCACTT
30760940 TAAAGTTCTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.38, C:0.29, G:0.09, T:0.25
Consensus pattern (57 bp):
ATAAATGTCCACCCACTATAAAAATGGTCTAATTACCACATAAGGACCTCCACTTCC
Found at i:30765336 original size:36 final size:36
Alignment explanation
Indices: 30765283--30765384 Score: 168
Period size: 36 Copynumber: 2.8 Consensus size: 36
30765273 CGACACCACC
*
30765283 GATATCAAAGTGTTCCACCACTGATATGCATTAACT
1 GATATCAAAGTGTTCCACCACTGATATGCAATAACT
* * *
30765319 GATATCAAAATGATCCACCACTGATATGCAATAATT
1 GATATCAAAGTGTTCCACCACTGATATGCAATAACT
30765355 GATATCAAAGTGTTCCACCACTGATATGCA
1 GATATCAAAGTGTTCCACCACTGATATGCA
30765385 GTATCTCTCA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (36 bp):
GATATCAAAGTGTTCCACCACTGATATGCAATAACT
Found at i:30785567 original size:20 final size:20
Alignment explanation
Indices: 30785544--30785621 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
30785534 TACATGTTTG
*
30785544 GTATGATATGCACATGACAT
1 GTATGATATGCACATGATAT
* *
30785564 GTATAAAATGCACATGATAT
1 GTATGATATGCACATGATAT
30785584 GTATGATATGCACATGATAT
1 GTATGATATGCACATGATAT
* * *
30785604 GTATAAAATGCACGTGAT
1 GTATGATATGCACATGAT
30785622 GTATTCCTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (20 bp):
GTATGATATGCACATGATAT
Found at i:30785579 original size:40 final size:40
Alignment explanation
Indices: 30785544--30785621 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
30785534 TACATGTTTG
30785544 GTATGATATGCACATGACATGTATAAAATGCACATGATAT
1 GTATGATATGCACATGACATGTATAAAATGCACATGATAT
* *
30785584 GTATGATATGCACATGATATGTATAAAATGCACGTGAT
1 GTATGATATGCACATGACATGTATAAAATGCACATGAT
30785622 GTATTCCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (40 bp):
GTATGATATGCACATGACATGTATAAAATGCACATGATAT
Found at i:30785731 original size:25 final size:25
Alignment explanation
Indices: 30785670--30785742 Score: 119
Period size: 26 Copynumber: 2.9 Consensus size: 25
30785660 GGAGGAAGCG
*
30785670 CAAAAGGGCTTATGCCCTAGTTTAC
1 CAAAAGGGCTTATGCCCCAGTTTAC
30785695 CGAAAAGGGCTTATGCCCCAGTTTAC
1 C-AAAAGGGCTTATGCCCCAGTTTAC
*
30785721 CAAAAGGGCTTTTGCCCCAGTT
1 CAAAAGGGCTTATGCCCCAGTT
30785743 ATTAAAAGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
25 21 0.47
26 24 0.53
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (25 bp):
CAAAAGGGCTTATGCCCCAGTTTAC
Found at i:30793642 original size:20 final size:20
Alignment explanation
Indices: 30793609--30793698 Score: 114
Period size: 20 Copynumber: 4.6 Consensus size: 20
30793599 ATACATGGGA
30793609 TATGATAT--ACATGAT-TGG
1 TATGATATGCACATGATAT-G
*
30793627 TATGATATGCACATGACATG
1 TATGATATGCACATGATATG
* *
30793647 TATAAAATGCACATGATATG
1 TATGATATGCACATGATATG
30793667 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
30793687 TATGAAATGCAC
1 TATGATATGCAC
30793699 GTAATGTATT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.13
20 53 0.85
21 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:30793661 original size:40 final size:40
Alignment explanation
Indices: 30793617--30793698 Score: 130
Period size: 40 Copynumber: 2.0 Consensus size: 40
30793607 GATATGATAT
30793617 ACATGAT-TGGTATGATATGCACATGACATGTATAAAATGC
1 ACATGATAT-GTATGATATGCACATGACATGTATAAAATGC
* *
30793657 ACATGATATGTATGATATGCACATGATATGTATGAAATGC
1 ACATGATATGTATGATATGCACATGACATGTATAAAATGC
30793697 AC
1 AC
30793699 GTAATGTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
40 38 0.97
41 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (40 bp):
ACATGATATGTATGATATGCACATGACATGTATAAAATGC
Found at i:30793813 original size:25 final size:25
Alignment explanation
Indices: 30793752--30793824 Score: 119
Period size: 26 Copynumber: 2.9 Consensus size: 25
30793742 TGAGGAAGTG
30793752 CAAAAGGGCTTATGCCCCAGTTTAC
1 CAAAAGGGCTTATGCCCCAGTTTAC
*
30793777 CGAAAAGGGCTTATGCTCCAGTTTAC
1 C-AAAAGGGCTTATGCCCCAGTTTAC
*
30793803 CAAAAGGGCTTTTGCCCCAGTT
1 CAAAAGGGCTTATGCCCCAGTT
30793825 ATTAAAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
25 20 0.45
26 24 0.55
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (25 bp):
CAAAAGGGCTTATGCCCCAGTTTAC
Found at i:30803751 original size:23 final size:23
Alignment explanation
Indices: 30803721--30803787 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
30803711 TGAAGGTAGG
*
30803721 ATCTGAATCTGTATCTGTTATAC
1 ATCTGAATATGTATCTGTTATAC
* * *
30803744 ATCTGAATTTGTATCT-ATATGC
1 ATCTGAATATGTATCTGTTATAC
*
30803766 ATCTGAAATATGTATATGTTAT
1 ATCTG-AATATGTATCTGTTAT
30803788 GCATTTGTGT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
22 9 0.25
23 24 0.67
24 3 0.08
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (23 bp):
ATCTGAATATGTATCTGTTATAC
Found at i:30806482 original size:28 final size:28
Alignment explanation
Indices: 30806432--30806610 Score: 139
Period size: 28 Copynumber: 6.4 Consensus size: 28
30806422 TTACTTACAA
* * *
30806432 TTTAGGGTTTAATGTCTAGTATTTTAAG
1 TTTAGGGTTTAAGGTTTAGTATTTTAGG
* *
30806460 TTTATGGTTTAAGGTTT-GTTATTTTGGG
1 TTTAGGGTTTAAGGTTTAG-TATTTTAGG
* * * ** * *
30806488 TTTAGGGTATATGATATTAGGCTTTAAAG
1 TTTAGGGTTTAAGGT-TTAGTATTTTAGG
*
30806517 TTTAGGGTTTAATGTTTAGTATTTTAGG
1 TTTAGGGTTTAAGGTTTAGTATTTTAGG
* *
30806545 TTTAGGGGTTAAGATTT-GTTATTTTAGG
1 TTTAGGGTTTAAGGTTTAG-TATTTTAGG
* *
30806573 TTTGGGGTTTAAGGTTTA-TAATTTATGG
1 TTTAGGGTTTAAGGTTTAGTATTTTA-GG
*
30806601 TTTAGTGTTT
1 TTTAGGGTTT
30806611 TATAGTTAAG
Statistics
Matches: 114, Mismatches: 31, Indels: 12
0.73 0.20 0.08
Matches are distributed among these distances:
27 8 0.07
28 88 0.77
29 17 0.15
30 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.26, T:0.51
Consensus pattern (28 bp):
TTTAGGGTTTAAGGTTTAGTATTTTAGG
Found at i:30807193 original size:40 final size:40
Alignment explanation
Indices: 30807149--30807234 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
30807139 GCACTAGCAC
*
30807149 AAAAACGCCGCAATAGATCGAGAATTAGCAGCGCTTTTTG
1 AAAAACGCCGCAATAGATCGAGAATTAGCAGCACTTTTTG
* * *
30807189 AAAAATGCCGCTATAGATCGAGAATTAGCGGCACTTTTTG
1 AAAAACGCCGCAATAGATCGAGAATTAGCAGCACTTTTTG
30807229 AAAAAC
1 AAAAAC
30807235 TCCACAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (40 bp):
AAAAACGCCGCAATAGATCGAGAATTAGCAGCACTTTTTG
Found at i:30809274 original size:22 final size:23
Alignment explanation
Indices: 30809228--30809274 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
30809218 GGAAAGACAG
* *
30809228 TTTTCTATACTTATGTAAGTTCT
1 TTTTCTATACTTAGGTAAGTGCT
30809251 TTTTCTATACTTAGGTAAG-GCT
1 TTTTCTATACTTAGGTAAGTGCT
30809273 TT
1 TT
30809275 GATCCTCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.21, C:0.13, G:0.13, T:0.53
Consensus pattern (23 bp):
TTTTCTATACTTAGGTAAGTGCT
Found at i:30810177 original size:18 final size:18
Alignment explanation
Indices: 30810154--30810196 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
30810144 AATATTTAAA
*
30810154 GAATAAAAGATAACTTTG
1 GAATAAAACATAACTTTG
30810172 GAATAAAACATAACTTTG
1 GAATAAAACATAACTTTG
*
30810190 GTATAAA
1 GAATAAA
30810197 TGACTTCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.28
Consensus pattern (18 bp):
GAATAAAACATAACTTTG
Found at i:30810380 original size:9 final size:9
Alignment explanation
Indices: 30810341--30810443 Score: 79
Period size: 9 Copynumber: 11.4 Consensus size: 9
30810331 CTTTGGATCT
30810341 TAACTTA-A
1 TAACTTACA
*
30810349 TAACTTATA
1 TAACTTACA
*
30810358 TATATCATATCA
1 TA-A-CTTA-CA
30810370 TAACTTACA
1 TAACTTACA
*
30810379 TAACTCACA
1 TAACTTACA
30810388 TAACTTACA
1 TAACTTACA
30810397 TAACTTACA
1 TAACTTACA
30810406 TAA--TACA
1 TAACTTACA
* *
30810413 TAA-ATATA
1 TAACTTACA
* *
30810421 TACCATATCA
1 TAACTTA-CA
30810431 TAACTTACA
1 TAACTTACA
30810440 TAAC
1 TAAC
30810444 CTAATTATAC
Statistics
Matches: 78, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
7 7 0.09
8 12 0.15
9 42 0.54
10 10 0.13
11 4 0.05
12 3 0.04
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (9 bp):
TAACTTACA
Found at i:30810413 original size:34 final size:34
Alignment explanation
Indices: 30810375--30810442 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
30810365 TATCATAACT
* *
30810375 TACATAACTCACATAACTTA-CATAACTTACATAA
1 TACATAAAT-ACATAACATATCATAACTTACATAA
* *
30810409 TACATAAATATATACCATATCATAACTTACATAA
1 TACATAAATACATAACATATCATAACTTACATAA
30810443 CCTAATTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 7 0.24
34 22 0.76
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.31
Consensus pattern (34 bp):
TACATAAATACATAACATATCATAACTTACATAA
Found at i:30818200 original size:26 final size:26
Alignment explanation
Indices: 30818171--30818220 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
30818161 GACCAGTTCC
*
30818171 TATAAACATTTCACACAACCATTTTG
1 TATAAACAATTCACACAACCATTTTG
* * *
30818197 TATAACCAATTCATATAACCATTT
1 TATAAACAATTCACACAACCATTT
30818221 GTCATCTGGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.40, C:0.22, G:0.02, T:0.36
Consensus pattern (26 bp):
TATAAACAATTCACACAACCATTTTG
Found at i:30818203 original size:13 final size:13
Alignment explanation
Indices: 30818151--30818220 Score: 50
Period size: 13 Copynumber: 5.3 Consensus size: 13
30818141 TTGTACGTAT
*
30818151 ATTTCCATATGACC
1 ATTT-CATATAACC
* * *
30818165 AGTTCCTATAAAC
1 ATTTCATATAACC
* *
30818178 ATTTCACACAACC
1 ATTTCATATAACC
**
30818191 ATTTTGTATAACC
1 ATTTCATATAACC
*
30818204 AATTCATATAACC
1 ATTTCATATAACC
30818217 ATTT
1 ATTT
30818221 GTCATCTGGT
Statistics
Matches: 39, Mismatches: 17, Indels: 1
0.68 0.30 0.02
Matches are distributed among these distances:
13 36 0.92
14 3 0.08
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (13 bp):
ATTTCATATAACC
Found at i:30818378 original size:46 final size:46
Alignment explanation
Indices: 30818316--30818530 Score: 297
Period size: 46 Copynumber: 4.7 Consensus size: 46
30818306 GATGCCATAA
* * * * * *
30818316 TATCTTTCAACTATGGTCTTACTCGTTTTC-TGTCATGTTGCAATGG
1 TATCTTTCAACCATGGTCTTACAC-ATTTCATATCAGGTTGCCATGG
* ** * *
30818362 TATCTTTTAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
*
30818408 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTACCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
*
30818454 TATCTTTCAACTATGGTCTTACACATTTCATATCAGGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
30818500 TATCTTTCAACCATGGTCTTACACATTTCAT
1 TATCTTTCAACCATGGTCTTACACATTTCAT
30818531 TTTAGAGAGC
Statistics
Matches: 153, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.03
46 149 0.97
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.41
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
Found at i:30818940 original size:24 final size:23
Alignment explanation
Indices: 30818908--30818956 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
30818898 ATCAGGTAGT
*
30818908 TCACAAAGAACCATATCGTGAAGC
1 TCACAAAGAACC-TATCGGGAAGC
* *
30818932 TCACGAAGAGCCTATCGGGAAGC
1 TCACAAAGAACCTATCGGGAAGC
30818955 TC
1 TC
30818957 TGGATAGCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.35, C:0.27, G:0.22, T:0.16
Consensus pattern (23 bp):
TCACAAAGAACCTATCGGGAAGC
Found at i:30818953 original size:23 final size:23
Alignment explanation
Indices: 30818921--30819036 Score: 74
Period size: 23 Copynumber: 5.0 Consensus size: 23
30818911 CAAAGAACCA
*
30818921 TATCGTGAAGCTCACGAAGAGCC
1 TATCGGGAAGCTCACGAAGAGCC
* * *
30818944 TATCGGGAAGCTC-TGGATAGCC
1 TATCGGGAAGCTCACGAAGAGCC
* * *
30818966 ATATATCGGGAAGTTCAAG-CGAGCAC
1 ---TATCGGGAAGCTCACGAAGAGC-C
* * *
30818992 TATCGAGAGGCTCACAAAGAGCC
1 TATCGGGAAGCTCACGAAGAGCC
* *
30819015 TATCAGGAGGCTCACGAAGAGC
1 TATCGGGAAGCTCACGAAGAGC
30819037 TGTATTTCGG
Statistics
Matches: 70, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
22 6 0.09
23 43 0.61
24 4 0.06
25 15 0.21
26 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.17
Consensus pattern (23 bp):
TATCGGGAAGCTCACGAAGAGCC
Found at i:30821165 original size:18 final size:18
Alignment explanation
Indices: 30821117--30821165 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 18
30821107 ATAATATAAT
30821117 TATTTAATTAATAAATATC
1 TATTTAA-TAATAAATATC
*
30821136 TTTTATAAAATAATAAATATC
1 TATT-T--AATAATAAATATC
30821157 TATTTAATA
1 TATTTAATA
30821166 TCTAATACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
18 4 0.16
19 3 0.12
20 2 0.08
21 14 0.56
22 2 0.08
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTTAATAATAAATATC
Found at i:30822682 original size:13 final size:14
Alignment explanation
Indices: 30822666--30822694 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30822656 TTTTAAATAT
30822666 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
30822679 TTATAATGGTTTAA
1 TTATAATGGTTTAA
30822693 TT
1 TT
30822695 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:30823160 original size:21 final size:21
Alignment explanation
Indices: 30823131--30823180 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
30823121 TTACAACATA
* **
30823131 AAGCGGAGGCAGCATTGAGGG
1 AAGCAGAGGCAGCAGCGAGGG
30823152 AAGCAGAGGCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGGG
30823173 AAGCAGAG
1 AAGCAGAG
30823181 CAGAGCAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.16, G:0.46, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGGG
Found at i:30823565 original size:43 final size:43
Alignment explanation
Indices: 30823518--30823765 Score: 180
Period size: 43 Copynumber: 6.0 Consensus size: 43
30823508 CAACGATACT
*
30823518 TTTAGCAGCATTTGTGATAAAAGCGCCGCTAAAGGT-ACTGTTC
1 TTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCA-TGTTC
* * * * *
30823561 TTTAGTGGCATTTGT-AAAAAAACGCCGCTAAAAGTCATGCTC
1 TTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* **
30823603 -GT-G-GTG--TTTGTTTG-TAAAA-CGCTACTAAAGGTCATGTTC
1 TTTAGCG-GCATTTG--TGATAAAAGCGCCGCTAAAGGTCATGTTC
* * * * *
30823642 TTTAGCGACGTTTATGATAAAAGCGTCGCTAAAGGACATGTTC
1 TTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* ** *
30823685 TATAGCGGCATTTGT-A-AAAA-AACCGCTAAAGATCATGTTC
1 TTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* * *
30823725 TTTAGCGGCGTTTATGATAAAAGCGCCGCTAAAAGTC-TGTT
1 TTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTT
30823766 TTGCTACATC
Statistics
Matches: 155, Mismatches: 35, Indels: 31
0.70 0.16 0.14
Matches are distributed among these distances:
38 4 0.03
39 17 0.11
40 35 0.23
41 9 0.06
42 36 0.23
43 54 0.35
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:30824006 original size:21 final size:20
Alignment explanation
Indices: 30823955--30824019 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 20
30823945 ATATAATGTA
* *
30823955 AAAATATAATCCAATAATTAT
1 AAAATATAATCAAATAA-TAC
* *
30823976 AATATCTAATCAAATTAATAC
1 AAAATATAATCAAA-TAATAC
*
30823997 AAAATATAATAAAAATAAT-C
1 AAAATATAAT-CAAATAATAC
30824017 AAA
1 AAA
30824020 TAAAAATCGA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
20 4 0.11
21 25 0.71
22 6 0.17
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAATATAATCAAATAATAC
Done.