Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_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: 6601124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 33
Found at i:4102151 original size:21 final size:21
Alignment explanation
Indices: 4102126--4102190 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
4102116 CCCCTTATGC
* *
4102126 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
4102147 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
4102168 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
4102189 CT
1 CT
4102191 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:4104447 original size:20 final size:20
Alignment explanation
Indices: 4104419--4104456 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4104409 GGTATCATTT
4104419 TACCAGTTTTATCATTTTGA
1 TACCAGTTTTATCATTTTGA
*
4104439 TACCGGTTTTATCATTTT
1 TACCAGTTTTATCATTTT
4104457 TTACCTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.16, G:0.11, T:0.53
Consensus pattern (20 bp):
TACCAGTTTTATCATTTTGA
Found at i:4104470 original size:19 final size:19
Alignment explanation
Indices: 4104416--4104461 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
4104406 TCCGGTATCA
4104416 TTTTACCAGTTTTATCATT
1 TTTTACCAGTTTTATCATT
* *
4104435 TTGATACCGGTTTTATCATT
1 TT-TTACCAGTTTTATCATT
4104455 TTTTACC
1 TTTTACC
4104462 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.20, C:0.17, G:0.09, T:0.54
Consensus pattern (19 bp):
TTTTACCAGTTTTATCATT
Found at i:4104641 original size:20 final size:19
Alignment explanation
Indices: 4104596--4104642 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
4104586 TCCGGTAACG
4104596 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
4104615 TTGTTACCGGTTTTATTATAT
1 TT-TTACCGGTTTTATCAT-T
4104636 TTTTACC
1 TTTTACC
4104643 TGGTATATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.17, C:0.15, G:0.11, T:0.57
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:4104717 original size:181 final size:181
Alignment explanation
Indices: 4104383--4104854 Score: 689
Period size: 182 Copynumber: 2.6 Consensus size: 181
4104373 CATACTTACG
* *
4104383 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCAGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCAGTTTTATCATTTTGATACCGGTTT
*
4104448 TATCAT-TTTTTACCTGTTATATCGTTGTGGATCGATATATATTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATAT-TTTTTAAAGTATCGACACATTAT
4104512 AGGCACTAAAACTGCTTCTCTTTTAAATTCACAAAGTGGCGATCCTTATA-T
130 AGGCACTAAAACTGCTTCTCTTTTAAATTCACAAAGTGGCGATCCTTATATT
* *
4104563 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCAGTTTTATCATTTTGATACCGGTTT
* * *
4104628 TATTATATTTTTACCTGGTATATCGTTTTGGATCGATATATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTTT-AAAGTATCGACACATTAT
* * *
4104693 AGG-ATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 AGGCA-CTAAAACTGCTTCTCTTTTAAATTCACAAAGTGGCGATCCTTATATT
* * * * * **
4104745 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCAGTTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCAGTTTTATCATTTTGATACCGGTTT
* * * * *
4104810 TGTCATAGTTTTACCTCTTATATCGTTTTGGATCGACACATTTTT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTT
4104855 AATTTGGATC
Statistics
Matches: 261, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
180 72 0.28
181 94 0.36
182 95 0.36
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (181 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCAGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTTTAAAGTATCGACACATTATA
GGCACTAAAACTGCTTCTCTTTTAAATTCACAAAGTGGCGATCCTTATATT
Found at i:4104856 original size:181 final size:180
Alignment explanation
Indices: 4104383--4104856 Score: 682
Period size: 181 Copynumber: 2.6 Consensus size: 180
4104373 CATACTTACG
* *
4104383 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCAGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCAGTTTTATCATTTTGATACCGGTTT
* *
4104448 TATCAT-TTTTTACCTGTTATATCGTTGTGGATCGATATATATTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATAT-TTTTAAAAGTATCGACACATTAT
4104512 AGGCACTAAAACTGCTTCTCTTTTAAATTCACAAAGTGGCGATCCTTATAT
130 AGGCACTAAAACTGCTTCTCTTTTAAATTCACAAAGTGGCGATCCTTATAT
* *
4104563 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCAGTTTTATCATTTTGATACCGGTTT
* * *
4104628 TATTATATTTTTACCTGGTATATCGTTTTGGATCGATATATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATA-TTTTTAAAAGTATCGACACATTAT
* * *
4104693 AGG-ATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 AGGCA-CTAAAACTGCTTCTCTTTTAAATTCACAAAGTGGCGATCCTTATA-T
* * * * * **
4104745 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCAGTTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCAGTTTTATCATTTTGATACCGGTTT
* * * * *
4104810 TGTCATAGTTTTACCTCTTATATCGTTTTGGATCGACACATTTTTAA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTTAA
4104857 TTTGGATCGA
Statistics
Matches: 262, Mismatches: 28, Indels: 7
0.88 0.09 0.02
Matches are distributed among these distances:
180 67 0.26
181 104 0.40
182 91 0.35
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (180 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCAGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTTAAAAGTATCGACACATTATA
GGCACTAAAACTGCTTCTCTTTTAAATTCACAAAGTGGCGATCCTTATAT
Found at i:4105024 original size:11 final size:11
Alignment explanation
Indices: 4105008--4105032 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4104998 ATCCGATAAC
4105008 ACCGTATATTA
1 ACCGTATATTA
4105019 ACCGTATATTA
1 ACCGTATATTA
4105030 ACC
1 ACC
4105033 CGCATTTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (11 bp):
ACCGTATATTA
Found at i:4105747 original size:4 final size:4
Alignment explanation
Indices: 4105738--4105763 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
4105728 GTTTGGGGTT
4105738 CTCC CTCC CTCC CTCC CTCC CTCC CT
1 CTCC CTCC CTCC CTCC CTCC CTCC CT
4105764 TAACCGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.73, G:0.00, T:0.27
Consensus pattern (4 bp):
CTCC
Found at i:4106105 original size:17 final size:17
Alignment explanation
Indices: 4106083--4106116 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4106073 ATGACTTCAG
4106083 GTTTTTCTTGTTTCTGA
1 GTTTTTCTTGTTTCTGA
4106100 GTTTTTCTTGTTTCTGA
1 GTTTTTCTTGTTTCTGA
4106117 AATTGATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.18, T:0.65
Consensus pattern (17 bp):
GTTTTTCTTGTTTCTGA
Found at i:4109822 original size:58 final size:59
Alignment explanation
Indices: 4109730--4109861 Score: 187
Period size: 58 Copynumber: 2.3 Consensus size: 59
4109720 CGAGACCTTG
* *
4109730 CTTAAGAGATAAAATACTTAAAGAGATAAAGAGCTAATAATAAAATTTCAGAACAATATA
1 CTTAA-AGAGAAAATACTTAAAGAGATAAAGAGCTAATAATAAAATTCCAGAACAATATA
* * * *
4109790 CTTAAAGAGAAAATAC-TCAAGAGATCAAGAGCTAATAATAAAATTCCATAACAATATG
1 CTTAAAGAGAAAATACTTAAAGAGATAAAGAGCTAATAATAAAATTCCAGAACAATATA
4109848 CTT-AAGAGAAAATA
1 CTTAAAGAGAAAATA
4109862 TATATTAAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
57 11 0.17
58 40 0.61
59 10 0.15
60 5 0.08
ACGTcount: A:0.54, C:0.11, G:0.12, T:0.23
Consensus pattern (59 bp):
CTTAAAGAGAAAATACTTAAAGAGATAAAGAGCTAATAATAAAATTCCAGAACAATATA
Found at i:4112105 original size:17 final size:17
Alignment explanation
Indices: 4112078--4112110 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4112068 AATTAAAAAA
4112078 TAAGAATAAAAATAAAGT
1 TAAGAATAAAAA-AAAGT
4112096 TAAG-ATAAAAAAAAG
1 TAAGAATAAAAAAAAG
4112111 GAAGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.18
Consensus pattern (17 bp):
TAAGAATAAAAAAAAGT
Found at i:4112244 original size:50 final size:50
Alignment explanation
Indices: 4112144--4112244 Score: 132
Period size: 50 Copynumber: 2.0 Consensus size: 50
4112134 ATTAAAAGAG
* * * *
4112144 AAATAAATAAAAAATGAAGAAAATTTTAAATTTTAAAAGAAATTTAAAAT
1 AAATAAAAAAAAAATGAAAAAAATGTTAAATTTTAAAAGAAATTCAAAAT
* *
4112194 AAATAATAAAAAAAATGAAAAAAATGTT-AATTTTAAAATAAATTCGAAAT
1 AAATAA-AAAAAAAATGAAAAAAATGTTAAATTTTAAAAGAAATTCAAAAT
4112244 A
1 A
4112245 CAAAAGAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
50 26 0.59
51 18 0.41
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (50 bp):
AAATAAAAAAAAAATGAAAAAAATGTTAAATTTTAAAAGAAATTCAAAAT
Found at i:4112359 original size:52 final size:50
Alignment explanation
Indices: 4112239--4112363 Score: 125
Period size: 50 Copynumber: 2.5 Consensus size: 50
4112229 AAATAAATTC
* *
4112239 GAAATACAA-AAGAAAATATTAATTTTTAAAAGAAATAAAAATAAAATAAA
1 GAAATA-AAGAAGAAAATGTTAAATTTTAAAAGAAATAAAAATAAAATAAA
*
4112289 GAAATAAAGAA-ATAAATGTTAAATTTTAGAAG-AATAAAAATAATAAATTTAAA
1 GAAATAAAGAAGA-AAATGTTAAATTTTAAAAGAAATAAAAAT-A-AAA--TAAA
4112342 -AAA-AAATGAAGAAAATGTTAAA
1 GAAATAAA-GAAGAAAATGTTAAA
4112364 GGATCAAATT
Statistics
Matches: 64, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
49 12 0.19
50 25 0.39
51 6 0.09
52 16 0.25
53 5 0.08
ACGTcount: A:0.66, C:0.01, G:0.09, T:0.25
Consensus pattern (50 bp):
GAAATAAAGAAGAAAATGTTAAATTTTAAAAGAAATAAAAATAAAATAAA
Found at i:4113407 original size:23 final size:26
Alignment explanation
Indices: 4113355--4113499 Score: 112
Period size: 25 Copynumber: 5.8 Consensus size: 26
4113345 AAAACAAAAC
* *
4113355 TAAATATATAAT-ATAA-AATGATACA
1 TAAATATA-AATAATAATAATAATATA
* *
4113380 AAAATATAAATAATACT-AT-ATA-A
1 TAAATATAAATAATAATAATAATATA
4113403 TAAATATAAAT-ATAATAATAATATA
1 TAAATATAAATAATAATAATAATATA
*
4113428 TAAATATAAATAATAATAAATAACAT-
1 TAAATATAAATAATAAT-AATAATATA
*
4113454 T-AATATGATATAAATAATAAT-ATATA
1 TAAATAT-AAAT-AATAATAATAATATA
* *
4113480 TAAA-AGAAATAATATTAATA
1 TAAATATAAATAATAATAATA
4113500 TAAAATAATA
Statistics
Matches: 98, Mismatches: 10, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
22 4 0.04
23 13 0.13
24 17 0.17
25 35 0.36
26 14 0.14
27 15 0.15
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (26 bp):
TAAATATAAATAATAATAATAATATA
Found at i:4113433 original size:48 final size:47
Alignment explanation
Indices: 4113355--4113517 Score: 145
Period size: 48 Copynumber: 3.4 Consensus size: 47
4113345 AAAACAAAAC
* * * *
4113355 TAAATATATAATATAA-AATGATACAAAAATATAAATAATACTATATAA
1 TAAATATA-AATATAATAATAATATATAAATATAAATAATAATA-ATAA
4113403 TAAATATAAATATAATAATAATATATAAATATAAATAATAATAAATAACA
1 TAAATATAAATATAATAATAATATATAAATATAAATAATAAT-AAT-A-A
* * * * *
4113453 TTAATAT-GATATAAATAATAATATATATAAAAGAAATAATATTAAT-A
1 TAAATATAAATAT-AATAATAATATATA-AATATAAATAATAATAATAA
4113500 TAAA-ATAATATATAATAA
1 TAAATATAA-ATATAATAA
4113518 AAACTATAAT
Statistics
Matches: 96, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
46 2 0.02
47 16 0.17
48 36 0.38
49 6 0.06
50 24 0.25
51 12 0.12
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (47 bp):
TAAATATAAATATAATAATAATATATAAATATAAATAATAATAATAA
Found at i:4113465 original size:36 final size:39
Alignment explanation
Indices: 4113425--4113516 Score: 100
Period size: 41 Copynumber: 2.4 Consensus size: 39
4113415 TAATAATAAT
* *
4113425 ATATAAATATAA-ATA-AT-AATAAATAACATTAATATG
1 ATATAAATATAATATATATAAAGAAATAACATTAATATA
*
4113461 ATATAAATAATAATATATATAAAAGAAATAATATTAATATA
1 ATATAAAT-ATAATATATAT-AAAGAAATAACATTAATATA
*
4113502 AAATAATATATAATA
1 ATATAA-ATATAATA
4113517 AAAACTATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
36 8 0.17
37 4 0.09
38 3 0.07
39 2 0.04
41 27 0.59
42 2 0.04
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (39 bp):
ATATAAATATAATATATATAAAGAAATAACATTAATATA
Found at i:4113489 original size:21 final size:20
Alignment explanation
Indices: 4113465--4113517 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
4113455 AATATGATAT
4113465 AAATAATAATATATATAAAAG
1 AAATAATAATA-ATATAAAAG
*
4113486 AAATAATATTAATATAAAA-
1 AAATAATAATAATATAAAAG
*
4113505 TAATATATAATAA
1 AAATA-ATAATAA
4113518 AAACTATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 4 0.14
20 14 0.50
21 10 0.36
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
AAATAATAATAATATAAAAG
Found at i:4113609 original size:36 final size:34
Alignment explanation
Indices: 4113564--4113849 Score: 151
Period size: 36 Copynumber: 8.1 Consensus size: 34
4113554 AATTATATAT
*
4113564 TATATATGTTTCCAAAAGATCGTTTTTTAAAAACTA
1 TATATATGTTTTCAAAA-ATCG-TTTTTAAAAACTA
*
4113600 TATATATGTTTTCAAAATAT-G-TTTTCAAAACTA
1 TATATATGTTTTCAAAA-ATCGTTTTTAAAAACTA
* *
4113633 TATTATGTACGTTTTCAAAAAAACGTTTTT-AAAACTA
1 TA-TA--TATGTTTTC-AAAAATCGTTTTTAAAAACTA
* *
4113670 TATATTATAATTTTTC-AAAATCGTGTTTTCAAAAC--
1 TATA-TAT--GTTTTCAAAAATCGT-TTTTAAAAACTA
* *
4113705 TATATATGTTTT-AAAACAT-GTTTTGAAAATC-A
1 TATATATGTTTTCAAAA-ATCGTTTTTAAAAACTA
* *
4113737 TATTATATATTTTCAAAAACCGATTTTTTAAAAACTA
1 TA-TATATGTTTTCAAAAATCG--TTTTTAAAAACTA
* * * *
4113774 TATATTATATAATTTCAAAAAACGTCTTCTAAAATAATA
1 TATA-TATGT--TTTCAAAAATCGT-TTTTAAAA-ACTA
* * * *
4113813 TATTATATGTTTTAAAAAAT-ATTTTCAAAAATTA
1 TA-TATATGTTTTCAAAAATCGTTTTTAAAAACTA
4113847 TAT
1 TAT
4113850 TATTAAATCC
Statistics
Matches: 198, Mismatches: 27, Indels: 53
0.71 0.10 0.19
Matches are distributed among these distances:
31 7 0.04
32 11 0.06
33 26 0.13
34 15 0.08
35 20 0.10
36 45 0.23
37 41 0.21
38 11 0.06
39 20 0.10
40 2 0.01
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (34 bp):
TATATATGTTTTCAAAAATCGTTTTTAAAAACTA
Found at i:4113621 original size:13 final size:13
Alignment explanation
Indices: 4113603--4113629 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4113593 AAAACTATAT
4113603 ATATGTTTTCAAA
1 ATATGTTTTCAAA
4113616 ATATGTTTTCAAA
1 ATATGTTTTCAAA
4113629 A
1 A
4113630 CTATATTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (13 bp):
ATATGTTTTCAAA
Found at i:4113685 original size:37 final size:37
Alignment explanation
Indices: 4113545--4113854 Score: 131
Period size: 37 Copynumber: 8.6 Consensus size: 37
4113535 AAAAAAATAT
* * * *
4113545 GTTTTCAAAAATTATATATTATATATGTTTCCAAAAGATC
1 GTTTTTAAAAACTATATATTATA-A-GTTTTCAAAA-AAC
* *
4113585 GTTTTTTAAAAACTATATA-TAT--GTTTTCAAAATAT
1 G-TTTTTAAAAACTATATATTATAAGTTTTCAAAAAAC
* * *
4113620 G-TTTTCAAAACTATAT-TATGTACGTTTTCAAAAAAAC
1 GTTTTTAAAAACTATATAT-TATAAGTTTTC-AAAAAAC
* *
4113657 GTTTTT-AAAACTATATATTATAATTTTTC-AAAATC
1 GTTTTTAAAAACTATATATTATAAGTTTTCAAAAAAC
* * *
4113692 GTGTTTTCAAAAC--TATA-TAT--GTTTT-AAAACAT
1 GT-TTTTAAAAACTATATATTATAAGTTTTCAAAAAAC
* * *
4113724 G-TTTTGAAAA-T-CATATTATATA-TTTTCAAAAACC
1 GTTTTTAAAAACTATATATTATA-AGTTTTCAAAAAAC
*
4113758 GATTTTTTAAAAACTATATATTATATA-ATTTCAAAAAAC
1 G--TTTTTAAAAACTATATATTATA-AGTTTTCAAAAAAC
* * *
4113797 GTCTTCT-AAAA-TAATATATTATATGTTTT-AAAAAAT
1 GT-TTTTAAAAACT-ATATATTATAAGTTTTCAAAAAAC
* * *
4113833 ATTTTCAAAAATTATATTATTA
1 GTTTTTAAAAACTATA-TATTA
4113855 AATCCGGACG
Statistics
Matches: 208, Mismatches: 34, Indels: 59
0.69 0.11 0.20
Matches are distributed among these distances:
30 11 0.05
31 3 0.01
32 8 0.04
33 18 0.09
34 10 0.05
35 14 0.07
36 34 0.16
37 61 0.29
38 9 0.04
39 21 0.10
40 4 0.02
41 15 0.07
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (37 bp):
GTTTTTAAAAACTATATATTATAAGTTTTCAAAAAAC
Found at i:4113790 original size:104 final size:107
Alignment explanation
Indices: 4113517--4113852 Score: 284
Period size: 104 Copynumber: 3.1 Consensus size: 107
4113507 ATATATAATA
* * * *
4113517 AAAACTATA--ATATA--TTTCAAAAAAATATGTTTTCAAAAATTATATATTATATATGTTTCCA
1 AAAACTATATTATATACTTTTC-AAAAAA-ACGTTTTTAAAAACTATATATTATATATATTT-C-
* *
4113578 AAAGATCGTTTTTTAAAAACTATATATATGTTTTCAAAATATGTTTTC
62 AAA-ATCGTGTTTTAAAAAC-ATATATATGTTTTCAAAACATGTTTTC
* *
4113626 AAAACTATATTATGTACGTTTTCAAAAAAACGTTTTT-AAAACTATATATTATA-ATTTTTCAAA
1 AAAACTATATTATATAC-TTTTCAAAAAAACGTTTTTAAAAACTATATATTATATATATTTCAAA
* *
4113689 ATCGTGTTTTCAAAAC-TATATATGTTTT-AAAACATGTTTTG
65 ATCGTGTTTTAAAAACATATATATGTTTTCAAAACATGTTTTC
*
4113730 AAAA-TCATATTATATA-TTTTC-AAAAACCGATTTTTTAAAAACTATATATTATATA-ATTTCA
1 AAAACT-ATATTATATACTTTTCAAAAAAACG--TTTTTAAAAACTATATATTATATATATTTC-
* * * * * *
4113791 AAAAACGTCTTCTAAAATAATATATTATATGTTTT-AAAAAATATTTTC
62 AAAATCGTGTT-TTAAA-AACATA-TATATGTTTTCAAAACATGTTTTC
*
4113839 AAAAATTATATTAT
1 -AAAACTATATTAT
4113853 TAAATCCGGA
Statistics
Matches: 190, Mismatches: 20, Indels: 33
0.78 0.08 0.14
Matches are distributed among these distances:
101 7 0.04
102 5 0.03
103 6 0.03
104 44 0.23
105 22 0.12
106 3 0.02
107 16 0.08
108 5 0.03
109 30 0.16
110 16 0.08
111 20 0.11
112 6 0.03
113 6 0.03
114 4 0.02
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (107 bp):
AAAACTATATTATATACTTTTCAAAAAAACGTTTTTAAAAACTATATATTATATATATTTCAAAA
TCGTGTTTTAAAAACATATATATGTTTTCAAAACATGTTTTC
Found at i:4113815 original size:39 final size:39
Alignment explanation
Indices: 4113736--4113820 Score: 102
Period size: 39 Copynumber: 2.2 Consensus size: 39
4113726 TTTGAAAATC
* * * * *
4113736 ATATTATATATTTTCAAAAACCGATTTTTTAAAAACTAT
1 ATATTATATAATTTCAAAAAACGATCTTCTAAAAAATAT
*
4113775 ATATTATATAATTTCAAAAAACG-TCTTCTAAAATA-AT
1 ATATTATATAATTTCAAAAAACGATCTTCTAAAAAATAT
4113812 ATATTATAT
1 ATATTATAT
4113821 GTTTTAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
37 11 0.28
38 8 0.20
39 21 0.52
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.42
Consensus pattern (39 bp):
ATATTATATAATTTCAAAAAACGATCTTCTAAAAAATAT
Found at i:4128782 original size:12 final size:12
Alignment explanation
Indices: 4128765--4128792 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
4128755 TAGGAAGTGA
4128765 TCGATATATTTC
1 TCGATATATTTC
4128777 TCGATATATTTC
1 TCGATATATTTC
4128789 TCGA
1 TCGA
4128793 AACAAACGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.18, G:0.11, T:0.46
Consensus pattern (12 bp):
TCGATATATTTC
Found at i:4132640 original size:37 final size:37
Alignment explanation
Indices: 4132590--4132674 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 37
4132580 TTCACCCTAA
4132590 ACCCGACCCGACCCGAATATCACACTTAAAAAACCCG
1 ACCCGACCCGACCCGAATATCACACTTAAAAAACCCG
*
4132627 ACCCGACTCGACCCGAATATCACACTTAAAAAACCCG
1 ACCCGACCCGACCCGAATATCACACTTAAAAAACCCG
* *
4132664 CCCCGCCCCGA
1 ACCCGACCCGA
4132675 ACAAAATAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.34, C:0.44, G:0.12, T:0.11
Consensus pattern (37 bp):
ACCCGACCCGACCCGAATATCACACTTAAAAAACCCG
Found at i:4133125 original size:27 final size:27
Alignment explanation
Indices: 4133092--4133151 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
4133082 CTCCAACAAG
4133092 GGAATTGAATTCCATCCATTCTTGGAT
1 GGAATTGAATTCCATCCATTCTTGGAT
4133119 GGAATTGAATTCCATCCATTCTTGGAT
1 GGAATTGAATTCCATCCATTCTTGGAT
4133146 GGAATT
1 GGAATT
4133152 CACTTTCCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (27 bp):
GGAATTGAATTCCATCCATTCTTGGAT
Found at i:4135118 original size:2 final size:2
Alignment explanation
Indices: 4135111--4135187 Score: 56
Period size: 2 Copynumber: 39.5 Consensus size: 2
4135101 TGAAACAAAA
* * *
4135111 AT AT AT AT AT GT AT CAT AA AT A- AT AT GT A- AT A- AT AT AT A-
1 AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
4135150 AT GT AT AT AT ACT GAT AT A- AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT A-T -AT AT AT AT AT AT AT AT AT AT AT AT A
4135188 ATGTAAATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
1 5 0.08
2 49 0.83
3 4 0.07
4 1 0.02
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (2 bp):
AT
Found at i:4135169 original size:19 final size:19
Alignment explanation
Indices: 4135145--4135197 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
4135135 ATGTAATAAT
4135145 ATATAATGTATATATACT-G
1 ATATAATGTATATATA-TAG
* *
4135164 ATATAATATATATATATAT
1 ATATAATGTATATATATAG
*
4135183 ATATAATGTAAATAT
1 ATATAATGTATATAT
4135198 GCTATTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 1 0.03
19 28 0.97
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (19 bp):
ATATAATGTATATATATAG
Found at i:4135264 original size:12 final size:12
Alignment explanation
Indices: 4135243--4135293 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
4135233 ATATACCCAC
* *
4135243 TATATCATATAG
1 TATATTATATAA
4135255 TATATTATATAA
1 TATATTATATAA
** *
4135267 TATGGTATGT-A
1 TATATTATATAA
4135278 TATATTATATAA
1 TATATTATATAA
4135290 TATA
1 TATA
4135294 AACATAATAT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
11 8 0.27
12 22 0.73
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (12 bp):
TATATTATATAA
Found at i:4135304 original size:18 final size:19
Alignment explanation
Indices: 4135283--4135330 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
4135273 ATGTATATAT
4135283 TATATAATATA-AACATAA
1 TATATAATATACAACATAA
4135301 TATATATATTATACAACATAA
1 TATATA-A-TATACAACATAA
4135322 -ATA-AATATA
1 TATATAATATA
4135331 TAGTCATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 4 0.15
18 7 0.26
19 2 0.07
20 7 0.26
21 7 0.26
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (19 bp):
TATATAATATACAACATAA
Found at i:4135313 original size:27 final size:26
Alignment explanation
Indices: 4135276--4135332 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
4135266 ATATGGTATG
* *
4135276 TATATATTATATAATATAAACATAATA
1 TATATATTATACAACATAAACA-AATA
*
4135303 TATATATTATACAACATAAATAAATA
1 TATATATTATACAACATAAACAAATA
4135329 TATA
1 TATA
4135333 GTCATATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (26 bp):
TATATATTATACAACATAAACAAATA
Found at i:4135324 original size:22 final size:20
Alignment explanation
Indices: 4135283--4135331 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
4135273 ATGTATATAT
*
4135283 TATATAATATAAACATAATA
1 TATATATTATAAACATAATA
4135303 TATATATTATACAACATAAATA
1 TATATATTATA-AACAT-AATA
*
4135325 AATATAT
1 TATATAT
4135332 AGTCATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.40
21 5 0.20
22 10 0.40
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (20 bp):
TATATATTATAAACATAATA
Found at i:4144178 original size:21 final size:21
Alignment explanation
Indices: 4144154--4144200 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
4144144 CAAATATTCC
4144154 GTGTGTAATTGGGACAAACTG
1 GTGTGTAATTGGGACAAACTG
* *
4144175 GTGTGTAGTTGGGACAAATTG
1 GTGTGTAATTGGGACAAACTG
4144196 GTGTG
1 GTGTG
4144201 CCCCATACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.06, G:0.38, T:0.32
Consensus pattern (21 bp):
GTGTGTAATTGGGACAAACTG
Found at i:4146763 original size:21 final size:21
Alignment explanation
Indices: 4146737--4146797 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
4146727 ATCAAATTGT
4146737 CCAGGGGGTACAGATTCCCCC
1 CCAGGGGGTACAGATTCCCCC
*
4146758 CCAGGGGGAACAGATT-CCCC
1 CCAGGGGGTACAGATTCCCCC
4146778 CCAGGGGGTATC-GATTCCCC
1 CCAGGGGGTA-CAGATTCCCC
4146798 GGGAACAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.47
21 19 0.53
ACGTcount: A:0.20, C:0.36, G:0.30, T:0.15
Consensus pattern (21 bp):
CCAGGGGGTACAGATTCCCCC
Found at i:4146793 original size:20 final size:20
Alignment explanation
Indices: 4146737--4146797 Score: 88
Period size: 20 Copynumber: 3.0 Consensus size: 20
4146727 ATCAAATTGT
4146737 CCAGGGGGTACAGATTCCCCC
1 CCAGGGGGTACAGATT-CCCC
*
4146758 CCAGGGGGAACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
4146778 CCAGGGGGTATC-GATTCCCC
1 CCAGGGGGTA-CAGATTCCCC
4146798 GGGAACAGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 21 0.57
21 16 0.43
ACGTcount: A:0.20, C:0.36, G:0.30, T:0.15
Consensus pattern (20 bp):
CCAGGGGGTACAGATTCCCC
Found at i:4146825 original size:34 final size:35
Alignment explanation
Indices: 4146763--4146847 Score: 138
Period size: 34 Copynumber: 2.5 Consensus size: 35
4146753 CCCCCCCAGG
*
4146763 GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
1 GGGAACAGATTTCCCCCAGGGGGTATCGATTCCCC
4146798 GGGAACAGATTTCCCCCA-GGGGTATCGATTCCCC
1 GGGAACAGATTTCCCCCAGGGGGTATCGATTCCCC
*
4146832 GGGTACAGA-TTCCCCC
1 GGGAACAGATTTCCCCC
4146848 TGCATGGTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
33 7 0.15
34 24 0.50
35 17 0.35
ACGTcount: A:0.20, C:0.34, G:0.27, T:0.19
Consensus pattern (35 bp):
GGGAACAGATTTCCCCCAGGGGGTATCGATTCCCC
Found at i:4146842 original size:15 final size:15
Alignment explanation
Indices: 4146790--4146846 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 15
4146780 AGGGGGTATC
*
4146790 GATTCCCCGGGAACA
1 GATTCCCCGGGTACA
4146805 GATTTCCCCCAGGGGTATC-
1 GA-TT-CCCC--GGGTA-CA
4146824 GATTCCCCGGGTACA
1 GATTCCCCGGGTACA
4146839 GATTCCCC
1 GATTCCCC
4146847 CTGCATGGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
14 1 0.03
15 15 0.43
16 2 0.06
17 8 0.23
18 2 0.06
19 6 0.17
20 1 0.03
ACGTcount: A:0.19, C:0.35, G:0.25, T:0.21
Consensus pattern (15 bp):
GATTCCCCGGGTACA
Found at i:4146985 original size:21 final size:21
Alignment explanation
Indices: 4146959--4147000 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4146949 TATTTGAATA
*
4146959 TTATGAAGGGGTATCGATTCC
1 TTATGAAGGGGTACCGATTCC
4146980 TTATGAAGGGGTACCGATTCC
1 TTATGAAGGGGTACCGATTCC
4147001 CCCCATTCTG
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:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (21 bp):
TTATGAAGGGGTACCGATTCC
Found at i:4147063 original size:21 final size:21
Alignment explanation
Indices: 4147030--4147069 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
4147020 TTTTTGCAAA
*
4147030 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
4147052 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
4147070 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:4147322 original size:34 final size:32
Alignment explanation
Indices: 4147284--4147353 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
4147274 TTTCGTAAAT
*
4147284 GGGAAAGGTTATAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTATAGCTTAGCCCG-G-AAAAACTA
* * *
4147318 GGGAAATGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTATAGCTTAGCCCGGAAAAACTA
4147350 GGGA
1 GGGA
4147354 GTTTGTAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 11 0.34
33 1 0.03
34 20 0.62
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTATAGCTTAGCCCGGAAAAACTA
Found at i:4149848 original size:12 final size:12
Alignment explanation
Indices: 4149827--4149877 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
4149817 ATAGACCCAC
* *
4149827 TATATCATATAG
1 TATATTATATAA
4149839 TATATTATATAA
1 TATATTATATAA
** *
4149851 TATGGTATGT-A
1 TATATTATATAA
4149862 TATATTATATAA
1 TATATTATATAA
4149874 TATA
1 TATA
4149878 AACATAATAT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
11 8 0.27
12 22 0.73
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (12 bp):
TATATTATATAA
Found at i:4149888 original size:18 final size:19
Alignment explanation
Indices: 4149867--4149914 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
4149857 ATGTATATAT
4149867 TATATAATATA-AACATAA
1 TATATAATATACAACATAA
4149885 TATATATACTATACAACATAA
1 TATATA-A-TATACAACATAA
4149906 -ATA-AATATA
1 TATATAATATA
4149915 TAGTCATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 4 0.15
18 7 0.26
19 2 0.07
20 7 0.26
21 7 0.26
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (19 bp):
TATATAATATACAACATAA
Found at i:4149905 original size:27 final size:26
Alignment explanation
Indices: 4149860--4149916 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
4149850 ATATGGTATG
* * *
4149860 TATATATTATATAATATAAACATAATA
1 TATATACTATACAACATAAACA-AATA
*
4149887 TATATACTATACAACATAAATAAATA
1 TATATACTATACAACATAAACAAATA
4149913 TATA
1 TATA
4149917 GTCATATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (26 bp):
TATATACTATACAACATAAACAAATA
Found at i:4149908 original size:22 final size:20
Alignment explanation
Indices: 4149867--4149905 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4149857 ATGTATATAT
4149867 TATATAATATAAACATAATA
1 TATATAATATAAACATAATA
*
4149887 TATATACTATACAACATAA
1 TATATAATATA-AACATAA
4149906 ATAAATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (20 bp):
TATATAATATAAACATAATA
Found at i:4149913 original size:22 final size:20
Alignment explanation
Indices: 4149868--4149914 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
4149858 TGTATATATT
*
4149868 ATATAATATAAACATAATAT
1 ATATAATATAAACATAATAA
*
4149888 ATATACTATACAACATAAATAA
1 ATATAATATA-AACAT-AATAA
4149910 ATATA
1 ATATA
4149915 TAGTCATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 9 0.39
21 5 0.22
22 9 0.39
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.32
Consensus pattern (20 bp):
ATATAATATAAACATAATAA
Found at i:4156248 original size:2 final size:2
Alignment explanation
Indices: 4156236--4156300 Score: 116
Period size: 2 Copynumber: 33.5 Consensus size: 2
4156226 TAGGTCATTA
4156236 AT AT AT A- AT AT AT AT 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 AT AT AT AT AT AT AT AT
4156277 AT AT AT AT AT AT AT A- AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4156301 AAGAATGTAA
Statistics
Matches: 61, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 59 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4158452 original size:169 final size:165
Alignment explanation
Indices: 4158119--4158453 Score: 609
Period size: 169 Copynumber: 2.0 Consensus size: 165
4158109 TCTTTTTTAT
4158119 TATGACTTTAGAATATGGTCCCAACTTTTTTGTGTAGCTTAGCCAAGTATATGTCATCTTTGACT
1 TATGACTTTAGAATATGGTCCCAACTTTTTTGTGTAGCTTAGCCAAGTATATGTCATCTTTGACT
4158184 TGAAAATTTTGTGTGTATATAATATAGCCAACATATATGATCGTTTTAAAATATCATGGCTATTA
66 TGAAAATTTTGTGTGTATATAATATAGCCAACATATATGATCGTTTTAAAATATCATGGCTATTA
4158249 TCTTTTGTAAGTCTGAACATTGTACAATCTTTTGA
131 TCTTTTGTAAGTCTGAACATTGTACAATCTTTTGA
4158284 TATGACTTTAGAATATGGTCCCAACTTTTTTGTGTAGCTTAGCCAAGTATATGTCAATCTTTTGA
1 TATGACTTTAGAATATGGTCCCAACTTTTTTGTGTAGCTTAGCCAAGTATATGTC-ATC-TTTGA
*
4158349 CTTGAAAATTTTTGTGTGTATATAATATAGCCAACATATATGGTTACG-TTTAAAATATCATGGC
64 CTTGAAAA-TTTTGTGTGTATATAATATAGCCAACATATAT-GAT-CGTTTTAAAATATCATGGC
4158413 TATTATCTTTTGTAAGTCTGAACATTGTACAATCTTTTGA
126 TATTATCTTTTGTAAGTCTGAACATTGTACAATCTTTTGA
4158453 T
1 T
4158454 GGTTAATGTT
Statistics
Matches: 164, Mismatches: 1, Indels: 6
0.96 0.01 0.04
Matches are distributed among these distances:
165 55 0.34
166 3 0.02
167 13 0.08
168 32 0.20
169 59 0.36
170 2 0.01
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (165 bp):
TATGACTTTAGAATATGGTCCCAACTTTTTTGTGTAGCTTAGCCAAGTATATGTCATCTTTGACT
TGAAAATTTTGTGTGTATATAATATAGCCAACATATATGATCGTTTTAAAATATCATGGCTATTA
TCTTTTGTAAGTCTGAACATTGTACAATCTTTTGA
Found at i:4159066 original size:13 final size:13
Alignment explanation
Indices: 4159048--4159096 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
4159038 AAATTTCAGT
4159048 ATAAATTAATGAG
1 ATAAATTAATGAG
4159061 ATAAATAATAATGAG
1 ATAAAT--TAATGAG
*
4159076 ATAAA-TAATAATG
1 ATAAATTAATGA-G
4159089 ATAAATTA
1 ATAAATTA
4159097 TGCAGAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 5 0.16
13 12 0.39
14 2 0.06
15 12 0.39
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (13 bp):
ATAAATTAATGAG
Found at i:4159074 original size:15 final size:15
Alignment explanation
Indices: 4159054--4159089 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
4159044 CAGTATAAAT
4159054 TAATGAGATAAATAA
1 TAATGAGATAAATAA
4159069 TAATGAGATAAATAA
1 TAATGAGATAAATAA
4159084 TAATGA
1 TAATGA
4159090 TAAATTATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.14, T:0.28
Consensus pattern (15 bp):
TAATGAGATAAATAA
Found at i:4164635 original size:75 final size:75
Alignment explanation
Indices: 4164550--4164704 Score: 301
Period size: 75 Copynumber: 2.1 Consensus size: 75
4164540 CAATACGAGC
4164550 CGATGATGAGCTCGATCCCCAAATAATCTCATTAATCCAAACGGAGATTATCAAAAATCTTTTGG
1 CGATGATGAGCTCGATCCCCAAATAATCTCATTAATCCAAACGGAGATTATCAAAAATCTTTTGG
4164615 AGGTCAACTT
66 AGGTCAACTT
4164625 CGATGATGAGCTCGATCCCCAAATAATCTCATTAATCCAAACGGAGATTATCAAAAATCTTTTGG
1 CGATGATGAGCTCGATCCCCAAATAATCTCATTAATCCAAACGGAGATTATCAAAAATCTTTTGG
4164690 AGGTCAACTT
66 AGGTCAACTT
*
4164700 TGATG
1 CGATG
4164705 GCAATCCATC
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 79 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (75 bp):
CGATGATGAGCTCGATCCCCAAATAATCTCATTAATCCAAACGGAGATTATCAAAAATCTTTTGG
AGGTCAACTT
Found at i:4166103 original size:12 final size:12
Alignment explanation
Indices: 4166082--4166139 Score: 73
Period size: 12 Copynumber: 4.8 Consensus size: 12
4166072 ACGGAGATAT
*
4166082 CAGAAATCAGAA
1 CAGAATTCAGAA
4166094 CAGAATTCAGAA
1 CAGAATTCAGAA
* *
4166106 CAGAATCCAGAT
1 CAGAATTCAGAA
4166118 CAGAAATT-AGAA
1 CAG-AATTCAGAA
4166130 CAGAATTCAG
1 CAGAATTCAG
4166140 GTCATATATC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
11 4 0.10
12 32 0.82
13 3 0.08
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.16
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:4166153 original size:24 final size:24
Alignment explanation
Indices: 4166082--4166162 Score: 81
Period size: 24 Copynumber: 3.4 Consensus size: 24
4166072 ACGGAGATAT
* * *
4166082 CAGAAATCAGAACAGAATTCAGAA
1 CAGAATTCAGATCAGAAATCAGAA
* *
4166106 CAGAATCCAGATCAGAAATTAGAA
1 CAGAATTCAGATCAGAAATCAGAA
* * *
4166130 CAGAATTCAGGTCATATATCAGAA
1 CAGAATTCAGATCAGAAATCAGAA
*
4166154 CAAAATTCA
1 CAGAATTCA
4166163 AGTCGAAAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.19
Consensus pattern (24 bp):
CAGAATTCAGATCAGAAATCAGAA
Found at i:4166174 original size:24 final size:24
Alignment explanation
Indices: 4166121--4166176 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
4166111 TCCAGATCAG
* * *
4166121 AAATTAGAACAGAATTCAGGTCAT
1 AAATCAGAACAAAATTCAAGTCAT
*
4166145 ATATCAGAACAAAATTCAAGTCGA-
1 AAATCAGAACAAAATTCAAGTC-AT
4166169 AAATCAGA
1 AAATCAGA
4166177 TAAAATATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (24 bp):
AAATCAGAACAAAATTCAAGTCAT
Found at i:4179160 original size:94 final size:97
Alignment explanation
Indices: 4178972--4179167 Score: 281
Period size: 94 Copynumber: 2.0 Consensus size: 97
4178962 TTTGTTTTAC
*
4178972 GTAAAACAAAACTCAATAAGAAATCATGTGCATATGTGGGACCTTGGAGCTTAGAACCAAACACA
1 GTAAAACAAAACTCAATAAGAAATCATGTGCATA-GT--GA-CTGGGAGCTTAGAACCAAACACA
*
4179037 GTAAGAAATCATGTATGCACATATGCACATGATTCA
62 ATAAGAAATCATGTATGCACATATGCACATGATTCA
* * *
4179073 GTAAAACAAAACTCAGTAAGAAATCATGTGCATA-T-A-TGGGAGCTTGGAACCAAACATAATAA
1 GTAAAACAAAACTCAATAAGAAATCATGTGCATAGTGACTGGGAGCTTAGAACCAAACACAATAA
*
4179135 GAAATTATGTATGCACATATGCACATGATTCA
66 GAAATCATGTATGCACATATGCACATGATTCA
4179167 G
1 G
4179168 CTGTCGTAAA
Statistics
Matches: 89, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
94 54 0.61
96 1 0.01
99 1 0.01
101 33 0.37
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.23
Consensus pattern (97 bp):
GTAAAACAAAACTCAATAAGAAATCATGTGCATAGTGACTGGGAGCTTAGAACCAAACACAATAA
GAAATCATGTATGCACATATGCACATGATTCA
Found at i:4180947 original size:22 final size:23
Alignment explanation
Indices: 4180911--4180953 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
4180901 AATTTATCTG
* *
4180911 TCTATGTTTGTTTTTTTAATATA
1 TCTATATTTGTTTTTTAAATATA
4180934 TCTATATTTG-TTTTTAAATA
1 TCTATATTTGTTTTTTAAATA
4180954 ATAATAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.63
Consensus pattern (23 bp):
TCTATATTTGTTTTTTAAATATA
Found at i:4183852 original size:95 final size:95
Alignment explanation
Indices: 4183689--4183879 Score: 382
Period size: 95 Copynumber: 2.0 Consensus size: 95
4183679 GAAAATAAGA
4183689 CCTTACTGGCAACCCTTTCCCTTGGAACCGGCAACGCTTCATGATAGACAGAGGTTTCTCCTTTC
1 CCTTACTGGCAACCCTTTCCCTTGGAACCGGCAACGCTTCATGATAGACAGAGGTTTCTCCTTTC
4183754 ATAATTCCTACATCCCTTGTATGGTAATCT
66 ATAATTCCTACATCCCTTGTATGGTAATCT
4183784 CCTTACTGGCAACCCTTTCCCTTGGAACCGGCAACGCTTCATGATAGACAGAGGTTTCTCCTTTC
1 CCTTACTGGCAACCCTTTCCCTTGGAACCGGCAACGCTTCATGATAGACAGAGGTTTCTCCTTTC
4183849 ATAATTCCTACATCCCTTGTATGGTAATCT
66 ATAATTCCTACATCCCTTGTATGGTAATCT
4183879 C
1 C
4183880 TCAAGTTTTT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 96 1.00
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (95 bp):
CCTTACTGGCAACCCTTTCCCTTGGAACCGGCAACGCTTCATGATAGACAGAGGTTTCTCCTTTC
ATAATTCCTACATCCCTTGTATGGTAATCT
Found at i:4188614 original size:36 final size:36
Alignment explanation
Indices: 4188572--4188669 Score: 164
Period size: 36 Copynumber: 2.8 Consensus size: 36
4188562 TGAGTATTAT
4188572 CAGCTTTGGTACATTCGTGTATCAATGTTATCATAG
1 CAGCTTTGGTACATTCGTGTATCAATGTTATCATAG
* *
4188608 CAGCTTTGGTACATTCGTGTATCAATGTTATCCTAT
1 CAGCTTTGGTACATTCGTGTATCAATGTTATCATAG
4188644 CAGCTTTGGT--ATTCGTGTATCAATGT
1 CAGCTTTGGTACATTCGTGTATCAATGT
4188670 CCAGCACCGT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
34 16 0.27
36 44 0.73
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.41
Consensus pattern (36 bp):
CAGCTTTGGTACATTCGTGTATCAATGTTATCATAG
Found at i:4192945 original size:102 final size:103
Alignment explanation
Indices: 4192770--4192971 Score: 365
Period size: 102 Copynumber: 2.0 Consensus size: 103
4192760 AGGCATAAGA
4192770 GGGCCACGAACAAGAGGTTCCTGAGGGAAACCGGTAGTGGGAGTAGTAAGAGGTAGAGCACGTAC
1 GGGCCACGAACAAGAGGTTCCTGAGGGAAACCGGTAGTGGGAGTAGTAAGAGGTAGAGCACGTAC
4192835 CCCAACGTCA-GGAGAACAGGTA-CACAGGAAGTAGAC
66 CCCAACGTCAGGGAGAACAGGTACCACAGGAAGTAGAC
4192871 GGGCCACCGAACAAGAGGTTCCTGAGGG-AACCGGTAGTGGGAGTAGTAACGAGGTAGAGCACGT
1 GGGCCA-CGAACAAGAGGTTCCTGAGGGAAACCGGTAGTGGGAGTAGTAA-GAGGTAGAGCACGT
4192935 ACCCCAACGTCAGGGAGAACAGGTACCACAGGAAGTA
64 ACCCCAACGTCAGGGAGAACAGGTACCACAGGAAGTA
4192972 CCGGCTCCAG
Statistics
Matches: 97, Mismatches: 0, Indels: 5
0.95 0.00 0.05
Matches are distributed among these distances:
101 27 0.28
102 47 0.48
103 12 0.12
104 11 0.11
ACGTcount: A:0.33, C:0.21, G:0.35, T:0.12
Consensus pattern (103 bp):
GGGCCACGAACAAGAGGTTCCTGAGGGAAACCGGTAGTGGGAGTAGTAAGAGGTAGAGCACGTAC
CCCAACGTCAGGGAGAACAGGTACCACAGGAAGTAGAC
Found at i:4199875 original size:37 final size:36
Alignment explanation
Indices: 4199799--4199901 Score: 181
Period size: 37 Copynumber: 2.9 Consensus size: 36
4199789 GTTTGAGTAT
4199799 TATCAGCTTTGGTACATTCGTGTA-CAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
*
4199834 TATCAGCTTTGGTACATTCGTGTAATCAATGTTATCC
1 TATCAGCTTTGGTACATTCGTGT-ATCAATGTTATCA
4199871 TATCAGCTTTGGTACATTCGTGTATCAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
4199902 CCAGCACCGT
Statistics
Matches: 65, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
35 23 0.35
36 9 0.14
37 33 0.51
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:4200304 original size:75 final size:73
Alignment explanation
Indices: 4200162--4200309 Score: 278
Period size: 75 Copynumber: 2.0 Consensus size: 73
4200152 ATTCCGGTCT
4200162 CAGTGAAGAAATCGACTTGGATAAGTTGGTTTGCCATTTAATGTTTTAAGTTGAATTATTTTATT
1 CAGTGAAGAAATCGACTTGGATAAGTTGGTTTGCCATTTAATGTTTTAAGTTGAATTATTTTATT
4200227 TATGTTTA
66 TATGTTTA
4200235 CAGTGAAGAAATCGACTTGGATAAGTTGGTTTTGCCAGTTTAATGTTTTAAGTTGAATTATTTTA
1 CAGTGAAGAAATCGACTTGGATAAGTTGG-TTTGCCA-TTTAATGTTTTAAGTTGAATTATTTTA
4200300 TTTATGTTTA
64 TTTATGTTTA
4200310 TGCTATTTTC
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
73 29 0.40
74 7 0.10
75 37 0.51
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (73 bp):
CAGTGAAGAAATCGACTTGGATAAGTTGGTTTGCCATTTAATGTTTTAAGTTGAATTATTTTATT
TATGTTTA
Found at i:4209125 original size:36 final size:36
Alignment explanation
Indices: 4209083--4209185 Score: 188
Period size: 36 Copynumber: 2.9 Consensus size: 36
4209073 AGTTGAGTAT
4209083 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
*
4209119 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCC
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
*
4209155 TATCAGCTTTAGTACATTCGTGTATCAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
4209186 CCAGCACCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 65 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:4226158 original size:15 final size:16
Alignment explanation
Indices: 4226138--4226168 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4226128 GTGTTTGTTG
4226138 AAGCTG-AGGCAAATA
1 AAGCTGCAGGCAAATA
4226153 AAGCTGCAGGCAAATA
1 AAGCTGCAGGCAAATA
4226169 TGATAATGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.45, C:0.16, G:0.26, T:0.13
Consensus pattern (16 bp):
AAGCTGCAGGCAAATA
Found at i:4232231 original size:53 final size:51
Alignment explanation
Indices: 4232069--4232271 Score: 187
Period size: 53 Copynumber: 3.8 Consensus size: 51
4232059 TTCTGGTTAC
* * *
4232069 TTAATTTCTTAATTCACTGCCCAAGAACACTAAATCCAATAAACTCTGG-TTAA
1 TTAAGTTCTTAATTCACTGCCCAA-AACCCTAAATCCAAT-AAC-CTGGATTGA
* * * * *
4232122 ATAAGTTCCTAATTTACTTCCCCAAAACCCTAAATCCAATATAGCCT-GA-AGAA
1 TTAAGTTCTTAATTCAC-TGCCCAAAACCCTAAATCCAATA-A-CCTGGATTG-A
* * *
4232175 TTAAATTCTAAATTCACTGCCCAAGAACTCTAAATCCAATAACCGTGGATTGA
1 TTAAGTTCTTAATTCACTGCCCAA-AACCCTAAATCCAATAACC-TGGATTGA
*
4232228 TTAAGTTCTTAATTCACTGCACATAAACCCTAAATCCAATAACC
1 TTAAGTTCTTAATTCACTGCCCA-AAACCCTAAATCCAATAACC
4232272 CAAAACCTCA
Statistics
Matches: 120, Mismatches: 20, Indels: 20
0.75 0.12 0.12
Matches are distributed among these distances:
51 2 0.02
52 10 0.08
53 99 0.82
54 9 0.08
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.29
Consensus pattern (51 bp):
TTAAGTTCTTAATTCACTGCCCAAAACCCTAAATCCAATAACCTGGATTGA
Found at i:4232264 original size:106 final size:106
Alignment explanation
Indices: 4232069--4232268 Score: 271
Period size: 106 Copynumber: 1.9 Consensus size: 106
4232059 TTCTGGTTAC
* *
4232069 TTAATTTCTTAATTCACTGCCCAAGAACACTAAATCCAATAAACTCTGGTTAAATAAGTTCCTAA
1 TTAAATTCTAAATTCACTGCCCAAGAACACTAAATCCAATAAACTCTGGTTAAATAAGTTCCTAA
* *
4232134 TTTACTTCCCCAAAACCCTAAATCCAATATAGCCTGAAGAA
66 TTCACTTCCACAAAACCCTAAATCCAATATAGCCTGAAGAA
* * * *
4232175 TTAAATTCTAAATTCACTGCCCAAGAACTCTAAATCCAAT-AAC-CGTGGATTGATTAAGTTCTT
1 TTAAATTCTAAATTCACTGCCCAAGAACACTAAATCCAATAAACTC-TGG-TTAAATAAGTTCCT
*
4232238 AATTCAC-TGCACATAAACCCTAAATCCAATA
64 AATTCACTTCCACA-AAACCCTAAATCCAATA
4232269 ACCCAAAACC
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
104 1 0.01
105 10 0.12
106 71 0.87
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (106 bp):
TTAAATTCTAAATTCACTGCCCAAGAACACTAAATCCAATAAACTCTGGTTAAATAAGTTCCTAA
TTCACTTCCACAAAACCCTAAATCCAATATAGCCTGAAGAA
Found at i:4233355 original size:60 final size:60
Alignment explanation
Indices: 4233230--4233355 Score: 135
Period size: 60 Copynumber: 2.1 Consensus size: 60
4233220 AGTCAGATGA
* * * * * *
4233230 TCATTTTGTAACTTTTAATAGTTAAGGGACTCAACAAAGCAATATCCTACAATAATAGGG
1 TCATTTTGTAACTTTTAACAGTTAAGAGACTCAACAAAACAATACCCTACAATAAGAGAG
* * * * * * *
4233290 CCATTTTGTAACTTTTAACAGTTGAGAGACTCAATAAAATAGTACCCTATAATAGGAGAG
1 TCATTTTGTAACTTTTAACAGTTAAGAGACTCAACAAAACAATACCCTACAATAAGAGAG
4233350 TCATTT
1 TCATTT
4233356 GTATAATTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (60 bp):
TCATTTTGTAACTTTTAACAGTTAAGAGACTCAACAAAACAATACCCTACAATAAGAGAG
Found at i:4233852 original size:2 final size:2
Alignment explanation
Indices: 4233845--4233869 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4233835 CTTACTTCTA
4233845 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4233870 AATGTTTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4238039 original size:38 final size:33
Alignment explanation
Indices: 4237997--4238076 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 33
4237987 TATATAAAAT
4237997 TAATTTAAATATATATAAGTTTATTTATTTTTATGTAA
1 TAATTTAAATA-AT-T-A-TTT-TTTATTTTTATGTAA
*
4238035 TAATTGATTAATAATTATTTTTTATTTTTATGTAA
1 TAATT--TAAATAATTATTTTTTATTTTTATGTAA
4238070 TAATTTA
1 TAATTTA
4238077 TTGATATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
33 1 0.03
35 20 0.53
36 3 0.08
37 1 0.03
38 6 0.16
39 2 0.05
40 5 0.13
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (33 bp):
TAATTTAAATAATTATTTTTTATTTTTATGTAA
Found at i:4238078 original size:18 final size:18
Alignment explanation
Indices: 4238019--4238078 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
4238009 ATATAAGTTT
4238019 ATTTATTTTTATGTAATA
1 ATTTATTTTTATGTAATA
* * * *
4238037 ATTGATTAATAAT-T-ATT
1 ATTTATT-TTTATGTAATA
*
4238054 TTTTATTTTTATGTAATA
1 ATTTATTTTTATGTAATA
4238072 ATTTATT
1 ATTTATT
4238079 GATATTTTAA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 3 0.10
17 8 0.28
18 15 0.52
19 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
ATTTATTTTTATGTAATA
Found at i:4238101 original size:15 final size:16
Alignment explanation
Indices: 4238081--4238123 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
4238071 AATTTATTGA
4238081 TATTTTAAATA-TAAT
1 TATTTTAAATATTAAT
4238096 TATTTTAAATATTAAT
1 TATTTTAAATATTAAT
*
4238112 AATTTT-AATATT
1 TATTTTAAATATT
4238124 TTATATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 17 0.65
16 9 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTTAAATATTAAT
Found at i:4238150 original size:16 final size:15
Alignment explanation
Indices: 4238115--4238151 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
4238105 TATTAATAAT
4238115 TTTA-ATATTTTATA
1 TTTATATATTTTATA
4238129 TTTATATATTTT-TA
1 TTTATATATTTTATA
*
4238143 CTTATATAT
1 TTTATATAT
4238152 GATTTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTATATATTTTATA
Found at i:4238342 original size:13 final size:13
Alignment explanation
Indices: 4238324--4238349 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4238314 AGCCTAGTTA
4238324 TAATATTATAAAT
1 TAATATTATAAAT
4238337 TAATATTATAAAT
1 TAATATTATAAAT
4238350 CTTTTTGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATATTATAAAT
Found at i:4238821 original size:12 final size:12
Alignment explanation
Indices: 4238804--4238828 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4238794 GTTTACCCTT
4238804 ATATATATATAC
1 ATATATATATAC
4238816 ATATATATATAC
1 ATATATATATAC
4238828 A
1 A
4238829 CCAGATAGTC
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATATATATAC
Found at i:4245023 original size:175 final size:175
Alignment explanation
Indices: 4244717--4245039 Score: 522
Period size: 175 Copynumber: 1.8 Consensus size: 175
4244707 ATTGTTTTGT
* *
4244717 TATATTGTTATATATCGATACATTTTTATAAAGTATCGATACTTTATAGACGCTATTACTACTTT
1 TATATTATTATATATCGATACATTTTTATAAAATATCGATACTTTATAGACGCTATTACTACTTT
* * *
4244782 TCTTTTAAATTCCAAAAGTATCTATACTTATTTAAATTGAATCGATACTTTCAACATATTCGGTA
66 TCTTTTAAATTCCAAAAGTATCGATACTTATTTAAATGGAATCGATACTTTCAACATATCCGGTA
*
4244847 GCGTTTTACCGATTTTGTTATAATAAAACCGATTTTGTCATATTC
131 GCGCTTTACCGATTTTGTTATAATAAAACCGATTTTGTCATATTC
* * * *
4244892 TATATTATTATGTATCGATACATTTTTATAAAATATCGATCCTTTATAGGA-GCTATTATTGCTT
1 TATATTATTATATATCGATACATTTTTATAAAATATCGATACTTTATA-GACGCTATTACTACTT
*
4244956 TTCTTTTAAATTCCAAAAGTGTCGATACTTATTTAAATGGAATCGATACTTTCAACATATCCGGT
65 TTCTTTTAAATTCCAAAAGTATCGATACTTATTTAAATGGAATCGATACTTTCAACATATCCGGT
*
4245021 AGCGCTTTACCGGTTTTGT
130 AGCGCTTTACCGATTTTGT
4245040 CATATTTTTA
Statistics
Matches: 135, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
175 133 0.99
176 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (175 bp):
TATATTATTATATATCGATACATTTTTATAAAATATCGATACTTTATAGACGCTATTACTACTTT
TCTTTTAAATTCCAAAAGTATCGATACTTATTTAAATGGAATCGATACTTTCAACATATCCGGTA
GCGCTTTACCGATTTTGTTATAATAAAACCGATTTTGTCATATTC
Found at i:4245326 original size:74 final size:74
Alignment explanation
Indices: 4245124--4245636 Score: 750
Period size: 73 Copynumber: 7.0 Consensus size: 74
4245114 TGTTATAATG
* * * *
4245124 AAACCGATAGGTAATTTAATGTAATATGTAGCGCCTA-TTTTTTTACCGTTTACATTATTAGCAA
1 AAACCGGTAGATATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAA
4245188 CCTTAAAAA
66 CCTTAAAAA
* * * * * * *
4245197 AAATCAGTAGGTAATTGAATGAAATAAGTAGCGCCTA-TTTTTTTACCGTTTACATTATTAGCAA
1 AAACCGGTAGATATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAA
4245261 CCTTAAAAA
66 CCTTAAAAA
* *
4245270 AAACCAGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAA
1 AAACCGGTAGATATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAA
* *
4245335 CATTCAAAA
66 CCTTAAAAA
* ** * *
4245344 AAACCGGTAGATAGTTTAATGTAATAAATAGCGCCTATTTTTTTTACTGTTTATATTATTAGCAA
1 AAACCGGTAGATATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAA
4245409 CCTT-AAAA
66 CCTTAAAAA
* *
4245417 AAACCGGTAGATATTTTAATGTAATAGGTAACGCCTATTTTTTATA-CGTTTACATTATTAGCAA
1 AAACCGGTAGATATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAA
4245481 CCTT-AAAA
66 CCTTAAAAA
*
4245489 AAACCGGTAGATATTTTAATGTAATAGGTAGCGTCTATTTTTTTT-CCGTTTACATTATTAGCAA
1 AAACCGGTAGATATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAA
4245553 CCTTAAAAA
66 CCTTAAAAA
* *
4245562 AAACCGGTAGATATTTTAATGTAATAGATAGCGTCTATTTTTTTTACCGTTTACATTATTAGCAA
1 AAACCGGTAGATATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAA
*
4245627 CTTTAAAAA
66 CCTTAAAAA
4245636 A
1 A
4245637 CCGATATTTT
Statistics
Matches: 403, Mismatches: 33, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
72 88 0.22
73 192 0.48
74 123 0.31
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (74 bp):
AAACCGGTAGATATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCGTTTACATTATTAGCAA
CCTTAAAAA
Found at i:4249839 original size:31 final size:31
Alignment explanation
Indices: 4249804--4249868 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
4249794 TTTCTGTTTC
4249804 TTCCAAAATATACTTTTAAGATTAATATTAA
1 TTCCAAAATATACTTTTAAGATTAATATTAA
4249835 TTCCAAAATATACTTTTAAGATTAATATTAA
1 TTCCAAAATATACTTTTAAGATTAATATTAA
4249866 TTC
1 TTC
4249869 TCATACTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (31 bp):
TTCCAAAATATACTTTTAAGATTAATATTAA
Found at i:4255494 original size:31 final size:29
Alignment explanation
Indices: 4255451--4255508 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
4255441 ATTAAAGTGG
*
4255451 AGAAAAATTAATAATATAGATATTAAAAT
1 AGAAAAATTAATAATATAGATACTAAAAT
* *
4255480 AGAATAAATGTAATACTTTAGATACTAAA
1 AGAA-AAAT-TAATAATATAGATACTAAA
4255509 CATGTAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.17
30 4 0.17
31 16 0.67
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.31
Consensus pattern (29 bp):
AGAAAAATTAATAATATAGATACTAAAAT
Found at i:4256010 original size:20 final size:20
Alignment explanation
Indices: 4255985--4256030 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
4255975 GTAAAAATAT
*
4255985 GACAAAACCGGTCTCTAAAG
1 GACAAAACCGATCTCTAAAG
*
4256005 GACAAAATCGATCTCTAAAG
1 GACAAAACCGATCTCTAAAG
4256025 GA-AAAA
1 GACAAAA
4256031 AGCAGTATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.48, C:0.20, G:0.17, T:0.15
Consensus pattern (20 bp):
GACAAAACCGATCTCTAAAG
Found at i:4256170 original size:202 final size:202
Alignment explanation
Indices: 4255848--4256213 Score: 624
Period size: 202 Copynumber: 1.8 Consensus size: 202
4255838 GCGCTACCGG
* * * * *
4255848 ATATATTGAAAGTGTTGATACTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGATAAGCAG
1 ATATATTAAAAGTGTCGATACTTTAATATAAGTATCGACACATTATGAATTTAAAAGAGAAGCAG
* *
4255913 TTTTAGCGCCTACAAAGTGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAAGTA
66 TTTTAGCGCCTACAAAGTGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAAGCA
*
4255978 AAAATATGACAAAACCGGTCTCTAAAGGACAAAATCGATCTCTAAAGGAAAAAAGCAGTATAGAG
131 AAAATATGACAAAACCGGTCTCGAAAGGACAAAATCGATCTCTAAAGGAAAAAAGCAGTATAGAG
4256043 CGACTGA
196 CGACTGA
4256050 ATATATTAAAAGTGTCGATACTTTAATATAAGTATCGACACATTATGAATTTAAAAGAGAAGCAG
1 ATATATTAAAAGTGTCGATACTTTAATATAAGTATCGACACATTATGAATTTAAAAGAGAAGCAG
* * *
4256115 TTTTAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACGATATAACAGGCA
66 TTTTAGCGCCTACAAAGTGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAAGCA
*
4256180 AAAATATGACAAAACCGGTCTCGAAATGACAAAA
131 AAAATATGACAAAACCGGTCTCGAAAGGACAAAA
4256214 CCGGTAAAGA
Statistics
Matches: 152, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
202 152 1.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.27
Consensus pattern (202 bp):
ATATATTAAAAGTGTCGATACTTTAATATAAGTATCGACACATTATGAATTTAAAAGAGAAGCAG
TTTTAGCGCCTACAAAGTGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAAGCA
AAAATATGACAAAACCGGTCTCGAAAGGACAAAATCGATCTCTAAAGGAAAAAAGCAGTATAGAG
CGACTGA
Found at i:4258678 original size:21 final size:21
Alignment explanation
Indices: 4258654--4258697 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
4258644 AAGATAATCA
4258654 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
*
4258675 AGAGTCGAAGAGACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
4258696 AG
1 AG
4258698 GCATAAGGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.11, G:0.34, T:0.14
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:4258995 original size:18 final size:18
Alignment explanation
Indices: 4258972--4259010 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
4258962 GAAAAAATAT
4258972 GAAGAAGAAAAGAAGGAG
1 GAAGAAGAAAAGAAGGAG
*
4258990 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGAAGGAG
4259008 GAA
1 GAA
4259011 ATGAGGAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (18 bp):
GAAGAAGAAAAGAAGGAG
Found at i:4260926 original size:15 final size:15
Alignment explanation
Indices: 4260906--4260943 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
4260896 TCCAGTATGA
4260906 TTCCCAAACGTAAAG
1 TTCCCAAACGTAAAG
4260921 TTCCCAAACGTAAAG
1 TTCCCAAACGTAAAG
*
4260936 TTTCCAAA
1 TTCCCAAA
4260944 AAATAGGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.39, C:0.26, G:0.11, T:0.24
Consensus pattern (15 bp):
TTCCCAAACGTAAAG
Found at i:4261315 original size:200 final size:199
Alignment explanation
Indices: 4260960--4262097 Score: 1334
Period size: 200 Copynumber: 5.7 Consensus size: 199
4260950 GTAAGCAGAT
* *
4260960 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* ** * * *
4261025 GATAATTTTGTAATATAACCGGTATAAGTATACCAGTTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAATTTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTACATAATGT
* * * * * *
4261090 ATCGACACTTTTGAAATTGGTGTCGATATTTTTTGTCCAGAATGAATGCTCAAAATGATGAACGC
131 ATCGACAC-TTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACAC
4261155 ATAAA
195 ATAAA
* *
4261160 GTGTCAATACATTTATAAAAAGTATCGATCCCAGAAATATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
4261225 GGTAAATTTACAATGTAACCGGTATAACTACACCGGTTTTATGAGAGAATATGTCTACATAATGT
66 GGTAATTTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTACATAATGT
* * * *
4261290 ATCGACACTTCTGGAATTTGTGTCGATA-TTGTTTGTCCAGAATGAATGCTCAAAAGGGTGCACT
131 ATCGACACTT-TGAAATTTGTGTCGATACTT-TTTGTCCAGAATGAATGCCCAAAATGGTGCACA
4261354 CATAAA
194 CATAAA
* * * * * *
4261360 GTGTCGATACATTTTTTAAAAGTGTCGATCCCAGAGACATTGAAACCCGTAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
** ** * *
4261425 GGTAATTTTGTAATGTAACCGGTATAAATATATTAGTTTTATGTGAGAATAGATCTACATAATGT
66 GGTAATTTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTACATAATGT
* * * * *
4261490 ATCGACACAATTGAAATTAGTATCTATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACAC
131 ATCGACAC-TTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACAC
4261555 ATAAA
195 ATAAA
* * * * * * * *
4261560 GTGTCGATACGTTTTTTAAAAGTGTCGATCCTAGAGACATCAAAACCCATAGTTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * *
4261625 GGTAATTTTAAAATGTAACCGATATAAATATACCGGTTTTAT-ATGAGAGTAGGTCTACATAATG
66 GGTAATTTTACAATGTAACCGGTATAAATATACCAGTTTTATGA-GAGAATAGGTCTACATAATG
* * * *
4261689 TATCGATACTTTTTAATTTTGTGTCGATACATTTTGTCCAGAATGAATGCCCAAAAAAATGGTGC
130 TATCGACAC-TTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCC---AAAATGGTGC
*
4261754 ACGCATAAA
191 ACACATAAA
* * * * * *
4261763 GTGTCGACACATTTATAAAAAATATCAATCCTAGAAACATCGAAACCCATGATTATAATTTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * *** * * * *
4261828 TGTAATTTTTCAATGTAACCGGTATAAATATATTGGTTTTATGCGAGCATAGGTCTAAAAAATGT
66 GGTAATTTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTACATAATGT
* * *
4261893 ATCGACACTTATGGAATTTGTGTCGATACTTTTTGTCCAGAA-GGATG-CCAAAAGGGTGCACAC
131 ATCGACACTT-TGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACAC
*
4261956 ATTAA
195 ATAAA
* * * * *
4261961 GTGTCGATACATTTTTAAAATGTGTCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
4262026 GGTAAATTT-CTAATGTAACCTGTATAAATATACCAGTTTTATGAGAAAATAGGTC-AGCAAAAA
66 GGTAATTTTAC-AATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTA-CATAAT
4262089 GTATCGACA
129 GTATCGACA
4262098 ATTGTTAAAT
Statistics
Matches: 798, Mismatches: 128, Indels: 26
0.84 0.13 0.03
Matches are distributed among these distances:
197 2 0.00
198 127 0.16
199 4 0.01
200 497 0.62
201 5 0.01
202 6 0.01
203 157 0.20
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (199 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTACATAATGT
ATCGACACTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACACA
TAAA
Found at i:4263645 original size:6 final size:6
Alignment explanation
Indices: 4263605--4263644 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
4263595 CAAGAGGTCA
* * *
4263605 ATGAAG ATGAAG ATGACG ATGAAG ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
4263645 TCCAAATAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.42, C:0.03, G:0.33, T:0.23
Consensus pattern (6 bp):
ATGAAG
Found at i:4264966 original size:24 final size:25
Alignment explanation
Indices: 4264939--4264993 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
4264929 TTTCAAATTC
*
4264939 ATTTCATATGT-AATTGGAGTTTGA
1 ATTTCAAATGTCAATTGGAGTTTGA
* *
4264963 ATTT-AAATTTCAATTTGAGTTTGA
1 ATTTCAAATGTCAATTGGAGTTTGA
*
4264987 GTTTCAA
1 ATTTCAA
4264994 TATAAATTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 4 0.16
24 19 0.76
25 2 0.08
ACGTcount: A:0.31, C:0.05, G:0.16, T:0.47
Consensus pattern (25 bp):
ATTTCAAATGTCAATTGGAGTTTGA
Found at i:4265001 original size:24 final size:24
Alignment explanation
Indices: 4264950--4265002 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
4264940 TTTCATATGT
* * *
4264950 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
* *
4264974 AATTTGAGTTTGAGTTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
4264998 AATTT
1 AATTT
4265003 CGACTCCACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:4266711 original size:179 final size:179
Alignment explanation
Indices: 4266349--4266917 Score: 452
Period size: 179 Copynumber: 3.1 Consensus size: 179
4266339 ACATGTTTAA
* *
4266349 AAAGTATCGATCCCAAAAACATCGAAACCAAAAATTATAATGTAATAGGTAAATTTACAATGTAA
1 AAAGTATCGATCCCAAAAACATCGAAACCAAAAATTATAATATAATAGGTAAATTTACAATATAA
* *
4266414 CCGGTATAAATATATCAGTTTTTTGAGAAACTAGATACACATAATGCATCGACACTTGTGGAAAT
66 CAGATATAAATATATCAGTTTTTTGAGAAACTAGATACACATAATGCATCGACACTTGTGGAAAT
* * *
4266479 TGTGTCGATACTTTTTGTCCAAAATGAATGCCAAACGTGGTGCACATAT
131 TGTGTCGATACTTTTTGTCCAAAATGAATGCCAAACATGGTGAACACAT
* * * **
4266528 AAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATATAATAGGTAATTTTGTAATATAA
1 AAAGTATCGATCCCAAAAACATCGAAACCAAAAATTATAATATAATAGGTAAATTTACAATATAA
* * * ** * *
4266593 CATATATAAATATATTAGTTTTATGTGAG-AA-TAGGT-CTACATAATGTGTCGACAGTT-TTGA
66 CAGATATAAATATATCAGTTTT-T-TGAGAAACTAGATAC-ACATAATGCATCGACACTTGTGGA
* * * *
4266654 ATTTTGTGTCGATACTTTTTGTCCAGAATGATTGGCCAAA-ATGGTGAACGCAT
128 A-ATTGTGTCGATACTTTTTGTCCAAAATGAAT-GCCAAACATGGTGAACACAT
* ** * * *
4266707 AAAGTGTCGATACATTTATAAAAAGTATTGATCCCAGAAACATCAAAACCCATAATTATAATGTA
1 AAAGTATCGAT-C-----CCAAAA--A--CAT--C-GAAAC--CAAAA---ATTA---TAATATA
* * * * * * *
4266772 ATAGGTAAATTTACAATGTAACCGGTATAACTATATCGGTTTTATGAGATAA-TAGGT-CTACAT
45 ATAGGTAAATTTACAATATAACAGATATAAATATATCAGTTTTTTGAGA-AACTAGATAC-ACAT
* * * *
4266835 AATGTATTGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAA-AGGGTT
108 AATGCATCGACACTTGTGGAAATTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAACATGG-T
*
4266899 GCACACAT
172 GAACACAT
4266907 AAAGTATCGAT
1 AAAGTATCGAT
4266918 ACATTTTTAA
Statistics
Matches: 308, Mismatches: 52, Indels: 39
0.77 0.13 0.10
Matches are distributed among these distances:
178 5 0.02
179 143 0.46
180 10 0.03
181 4 0.01
185 4 0.01
187 1 0.00
189 2 0.01
191 1 0.00
192 5 0.02
194 3 0.01
197 3 0.01
198 4 0.01
199 9 0.03
200 110 0.36
201 4 0.01
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (179 bp):
AAAGTATCGATCCCAAAAACATCGAAACCAAAAATTATAATATAATAGGTAAATTTACAATATAA
CAGATATAAATATATCAGTTTTTTGAGAAACTAGATACACATAATGCATCGACACTTGTGGAAAT
TGTGTCGATACTTTTTGTCCAAAATGAATGCCAAACATGGTGAACACAT
Found at i:4266871 original size:200 final size:197
Alignment explanation
Indices: 4266528--4267271 Score: 889
Period size: 200 Copynumber: 3.7 Consensus size: 197
4266518 GTGCACATAT
* * * ** *
4266528 AAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATATAATAGGTAATTTTGTAATATAA
1 AAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAA
** ** * * * * *
4266593 CATATATAAATATATTAGTTTTATGTGAGAATAGGTCTACATAATGTGTCGACAGTTTTGAATTT
66 CCGATATAAATATACCAATTTTATGAGAGAATAGGTCAACATAATGTATCGACACTTTTGAA-TT
* * * *
4266658 TGTGTCGATACTTTTTGTCCAGAATGATTGGCCAAAATGGTGAACGCATAAAGTGTCGATACATT
130 TGTGTCGATACTTTTTGTCCAGAATGAAT-GCCAAAAGGGTGCACGCATAAAGTATCGATACATT
4266723 TATAA
194 T-TAA
* *
4266728 AAAGTATTGATCCCAGAAACATCAAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAA
1 AAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAA
* * * ** * * * *
4266793 CCGGTATAACTATATCGGTTTTATGAGATAATAGGTCTACATAATGTATTGACACTTGTGGAATT
66 CCGATATAAATATACCAATTTTATGAGAGAATAGGTCAACATAATGTATCGACACTT-TTGAATT
* *
4266858 TGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAGGGTTGCACACATAAAGTATCGATACATT
130 TGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGGG-TGCACGCATAAAGTATCGATACA-T
4266923 TTTAA
193 TTTAA
* * *
4266928 AAAGTATCGATCCCAAAAACATCGAAACCGATCATTATAATGTAATAGGTAAATTTACAATGTAA
1 AAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAA
* * * * *
4266993 CCGGTATAAATTTACCGATTTTATGAGA-ACATATGTGAACATAATGTATCGACACGTTTT-AGA
66 CCGATATAAATATACCAATTTTATGAGAGA-ATAGGTCAACATAATGTATCGACAC-TTTTGA-A
* * * *
4267056 TTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACGGGGTGCAGGCAGAAAGTATCGATACA
128 TTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAA-AGGGTGCACGCATAAAGTATCGATACA
4267121 TTTTAA
192 TTTTAA
** * * * * * * *
4267127 ATTGTATTGATCCAAAAAATATCAAAACCGATAATTATAACGCAATAGATAAATTTACAATGTAA
1 AAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAA
* *
4267192 TCGATATAAATATACCAATTTTATGAGAGAATAGGTCAACATAATGTATCGACACTTTTAAATTT
66 CCGATATAAATATACCAATTTTATGAGAGAATAGGTCAACATAATGTATCGACACTTTTGAATTT
4267257 GTGTCGATACTTTTT
131 GTGTCGATACTTTTT
4267272 AAATAACATG
Statistics
Matches: 472, Mismatches: 63, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
198 22 0.05
199 120 0.25
200 318 0.67
201 12 0.03
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (197 bp):
AAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAA
CCGATATAAATATACCAATTTTATGAGAGAATAGGTCAACATAATGTATCGACACTTTTGAATTT
GTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGGGTGCACGCATAAAGTATCGATACATTTT
AA
Found at i:4268873 original size:19 final size:19
Alignment explanation
Indices: 4268849--4268897 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
4268839 AATGTAGGAT
*
4268849 TAATTTTGTATAATATTTA
1 TAATTTTGTATAAGATTTA
** *
4268868 TAATTTTACATACGATTTA
1 TAATTTTGTATAAGATTTA
4268887 TAATTTTGTAT
1 TAATTTTGTAT
4268898 GTGAATGTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:4271808 original size:200 final size:197
Alignment explanation
Indices: 4271375--4272070 Score: 799
Period size: 200 Copynumber: 3.5 Consensus size: 197
4271365 ACCTAAATAT
* *
4271375 GTGTCGATACATTTTCTAAAAGTATCGA-CCCAAAAAACATCGAAACCAATAATTATAATGTAAT
1 GTGTCGATACATTTT-TAAAAGTATAGATCCCAAAAAACATCGAAACCGATAATTATAATGTAAT
* * * * *
4271439 AGGTAAATTAACAATGTAACCGATATAAATATACC-GGTTAATTAGAAAACATGTCAACATAATG
65 AGGTAAATTTACAATGTAACCGATATAAATATACCAGTTTTATAAGAAAATATGTC-ACATAATG
* **
4271503 TATAGACACTTGTGCAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAAACGAGGTGCAC
129 TATCGACACTTGTTAAATTTGTGTCGATACTT-TTGTCCAGAATGAATG-CCAAA-GAGGTGCAC
*
4271568 ACATAAA
191 GCATAAA
* * *
4271575 GTATCGATACATTTATTAAAAGTATCGATCCCAATAAA-ATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTT-TTAAAAGTATAGATCCCAAAAAACATCGAAACCGATAATTATAATGTAAT
* * * * *
4271639 ATGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAAAATAGGTCAGCATAAAG
65 AGGTAAATTTACAATGTAACCGATATAAATATACCAGTTTTATAAGAAAATATGTCA-CATAATG
* * *
4271704 TATCGACACTTGTTAAATTTGCGTCGATACATTTTGTCCATAATGAATGCCAAAGGGGTGCACGC
129 TATCGACACTTGTTAAATTTGTGTCGATAC-TTTTGTCCAGAATGAATGCCAAAGAGGTGCACGC
4271769 ATAAA
193 ATAAA
* * *
4271774 GTGTCGATACATTTATTAAAAGTATAGTATCCC-AAAAACATCGAAACTGATAATTACAATGTGA
1 GTGTCGATACATTT-TTAAAAGTATAG-ATCCCAAAAAACATCGAAACCGATAATTATAATGTAA
* * * *
4271838 TAGG------TACAATGTACCCGATAGAAATATACCTGTTTTATAAGAAAATATGTCTAAATAAT
64 TAGGTAAATTTACAATGTAACCGATATAAATATACCAGTTTTATAAGAAAATATGTC-ACATAAT
* * * * *
4271897 GTATCAACACTTTTTAAGTTTGTGTCGATACTTTCT-TCTAGAATGAATGCGCAACGAGGTGCAC
128 GTATCGACACTTGTTAAATTTGTGTCGATACTTT-TGTCCAGAATGAATGC-CAAAGAGGTGCAC
4271961 GCATAAA
191 GCATAAA
* *
4271968 GTGTCGATACA-TTTCAAATTA-TATTGAT-CCAAAAAACATCGAAACCGATAATTATAATGTAA
1 GTGTCGATACATTTTTAAA--AGTATAGATCCCAAAAAACATCGAAACCGATAATTATAATGTAA
** * *
4272030 TAGGTAAATTTGTAATGTTACCGGTATAAATATACCAGTTT
64 TAGGTAAATTTACAATGTAACCGATATAAATATACCAGTTT
4272071 ACTTATAAAA
Statistics
Matches: 423, Mismatches: 54, Indels: 40
0.82 0.10 0.08
Matches are distributed among these distances:
191 2 0.00
192 38 0.09
193 21 0.05
194 103 0.24
195 1 0.00
198 24 0.06
199 43 0.10
200 118 0.28
201 71 0.17
202 2 0.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (197 bp):
GTGTCGATACATTTTTAAAAGTATAGATCCCAAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGATATAAATATACCAGTTTTATAAGAAAATATGTCACATAATGTA
TCGACACTTGTTAAATTTGTGTCGATACTTTTGTCCAGAATGAATGCCAAAGAGGTGCACGCATA
AA
Found at i:4272193 original size:87 final size:87
Alignment explanation
Indices: 4272088--4272250 Score: 281
Period size: 87 Copynumber: 1.9 Consensus size: 87
4272078 AAATTGGTCA
* * * *
4272088 ATATAAGCGCTACCTATTACATTATATTAGCGCTGCCTAATATGTTATTGTACTTAATAATATTT
1 ATATAAGCACTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTAATAATATTT
4272153 CCAGTTAAATGCCTATTTTATT
66 CCAGTTAAATGCCTATTTTATT
4272175 ATATAAGCACTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTAATAATATTT
1 ATATAAGCACTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTAATAATATTT
*
4272240 CCGGTTAAATG
66 CCAGTTAAATG
4272251 ATATACCATA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.40
Consensus pattern (87 bp):
ATATAAGCACTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTAATAATATTT
CCAGTTAAATGCCTATTTTATT
Found at i:4272222 original size:23 final size:23
Alignment explanation
Indices: 4272172--4272216 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4272162 TGCCTATTTT
*
4272172 ATTATATAAGCACTACATATTAC
1 ATTATATAAGCACTACATAATAC
* *
4272195 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCACTACATAATA
4272217 TGTTATTGTA
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:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCACTACATAATAC
Found at i:4276680 original size:20 final size:20
Alignment explanation
Indices: 4276655--4276693 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4276645 GTAGATTGAT
* *
4276655 CTCTTTTGTAATAATGAAAA
1 CTCTTTTGGAAGAATGAAAA
4276675 CTCTTTTGGAAGAATGAAA
1 CTCTTTTGGAAGAATGAAA
4276694 CTTTTTCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (20 bp):
CTCTTTTGGAAGAATGAAAA
Found at i:4276750 original size:7 final size:7
Alignment explanation
Indices: 4276731--4276761 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
4276721 AATCGATACC
4276731 TTTTGCA
1 TTTTGCA
4276738 -TTTGCA
1 TTTTGCA
4276744 TTTTGCA
1 TTTTGCA
4276751 TTTTGCA
1 TTTTGCA
4276758 TTTT
1 TTTT
4276762 TACATTCGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.13, C:0.13, G:0.13, T:0.61
Consensus pattern (7 bp):
TTTTGCA
Found at i:4284117 original size:13 final size:13
Alignment explanation
Indices: 4284099--4284125 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4284089 AACTCTCATG
4284099 AGAGACTTGAGAC
1 AGAGACTTGAGAC
4284112 AGAGACTTGAGAC
1 AGAGACTTGAGAC
4284125 A
1 A
4284126 AAATGATAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.30, T:0.15
Consensus pattern (13 bp):
AGAGACTTGAGAC
Found at i:4285294 original size:193 final size:192
Alignment explanation
Indices: 4284775--4285459 Score: 757
Period size: 186 Copynumber: 3.6 Consensus size: 192
4284765 TTTTTGAATG
* ** * * * * * *
4284775 AAATCATCTCCAGATTGACCTGATTTCCTCAACGCGAAGGAAAAGTGTCATAATTTATCGAAAAT
1 AAATTATCTCCAGATTGACCCAATTTCCTCATCACGAAAGAACAGTATCAT-A---ATCGAAAAC
* * * ** *
4284840 GACCCGATCTCTTCAACACGGATGAGCAGTGACGTCTTCAACATCAAATTGACCCGATCTCCTCA
62 GACCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACATCAAACCGACCAGATCTCCTCA
* ** * *
4284905 ACACGAAGGAGCAGTGTCTTCCTCAGACAATCAGACTTCCTCATCACGAAGGAACCGTATTGTCC
127 TCACGAAGGAGCAGTGTCACCCTCAGACAATAAGACTTCCTCATCACGAA-GAACCATATTGTCC
4284970 CC
191 CC
* * * * * *
4284972 -AA--AT-T---GA-T---CCGATTTCCTCAACGCGAAGGAACAATGTCA-CAATTTATCAAAAA
1 AAATTATCTCCAGATTGACCCAATTTCCTCATCACGAAAGAAC-A-GT-ATC-A-TAATCGAAAA
* * * * *
4285025 CGACCTGATCTCTTCAACACGGATGAGCAGTGTCATCTTCAACAACAAACCGACCAGATCTCCTC
61 CGACCCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACATCAAACCGACCAGATCTCCTC
* * *
4285090 ATCATGAAGGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCATCACGAAGGAACCGTATTGTC
126 ATCACGAAGGAGCAGTGTCACCCTCAGACAATAAGACTTCCTCATCACGAA-GAACCATATTGTC
*
4285155 CCT
190 CCC
* * *
4285158 AAATTATCTCCAGATTGACCCAATTTCCTCATCATGAAGGAACA-TCATCATACTCGAAAACGAC
1 AAATTATCTCCAGATTGACCCAATTTCCTCATCACGAAAGAACAGT-ATCATAATCGAAAACGAC
*
4285222 CCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTTAACATCAAACCGACCAGATCTCCTCATCA
65 CCGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACATCAAACCGACCAGATCTCCTCATCA
*
4285287 CGAAGGAGTAGTGTCACCCTCAGACAATAAGACTTCCTCATCACGAAGAACCATATTGTCCCC
130 CGAAGGAGCAGTGTCACCCTCAGACAATAAGACTTCCTCATCACGAAGAACCATATTGTCCCC
** * * *
4285350 AAATTATCTCTTGATTGACCCGATTTCCTCATCACGAAAGAACAGTGTCATAATCGAAAGCGACC
1 AAATTATCTCCAGATTGACCCAATTTCCTCATCACGAAAGAACAGTATCATAATCGAAAACGACC
*
4285415 CGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAATATCAAAC
66 CGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACATCAAAC
4285460 GATTAATCGA
Statistics
Matches: 424, Mismatches: 46, Indels: 41
0.83 0.09 0.08
Matches are distributed among these distances:
186 149 0.35
187 3 0.01
188 3 0.01
189 4 0.01
190 4 0.01
192 112 0.26
193 118 0.28
194 7 0.02
195 1 0.00
196 3 0.01
197 20 0.05
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.24
Consensus pattern (192 bp):
AAATTATCTCCAGATTGACCCAATTTCCTCATCACGAAAGAACAGTATCATAATCGAAAACGACC
CGATCTCTTCATCGCGGATGAGCAGTGTCGTCTTCAACATCAAACCGACCAGATCTCCTCATCAC
GAAGGAGCAGTGTCACCCTCAGACAATAAGACTTCCTCATCACGAAGAACCATATTGTCCCC
Found at i:4285682 original size:30 final size:30
Alignment explanation
Indices: 4285648--4285754 Score: 151
Period size: 30 Copynumber: 3.3 Consensus size: 30
4285638 ACTATCCACT
4285648 CCAGCACATGCTCCACTCTCCACACCAGCA
1 CCAGCACATGCTCCACTCTCCACACCAGCA
4285678 CCAGCACATGCTCCACTCTCCACACCAGCA
1 CCAGCACATGCTCCACTCTCCACACCAGCA
4285708 CCAGCACATGCTCCAGCACATGCTCCACTTACCAGCA
1 CCAGCACATGCT-C--CAC-T-CTCCAC--ACCAGCA
4285745 CCAGCACATG
1 CCAGCACATG
4285755 TGGCTGCACA
Statistics
Matches: 70, Mismatches: 0, Indels: 7
0.91 0.00 0.09
Matches are distributed among these distances:
30 42 0.60
31 1 0.01
33 3 0.04
34 1 0.01
35 6 0.09
37 17 0.24
ACGTcount: A:0.27, C:0.47, G:0.12, T:0.14
Consensus pattern (30 bp):
CCAGCACATGCTCCACTCTCCACACCAGCA
Found at i:4285705 original size:24 final size:24
Alignment explanation
Indices: 4285635--4285708 Score: 76
Period size: 30 Copynumber: 2.8 Consensus size: 24
4285625 CTATACAATT
* *
4285635 TCCACTATCCACTCCAGCACATGC
1 TCCACTCTCCACACCAGCACATGC
4285659 TCCACTCTCCACACCAGCACCAGCACATGC
1 TCCACTCT-----CCA-CACCAGCACATGC
4285689 TCCACTCTCCACACCAGCAC
1 TCCACTCTCCACACCAGCAC
4285709 CAGCACATGC
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
24 16 0.38
25 3 0.07
29 3 0.07
30 20 0.48
ACGTcount: A:0.26, C:0.50, G:0.08, T:0.16
Consensus pattern (24 bp):
TCCACTCTCCACACCAGCACATGC
Found at i:4285725 original size:12 final size:12
Alignment explanation
Indices: 4285708--4285734 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4285698 CACACCAGCA
4285708 CCAGCACATGCT
1 CCAGCACATGCT
4285720 CCAGCACATGCT
1 CCAGCACATGCT
4285732 CCA
1 CCA
4285735 CTTACCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.44, G:0.15, T:0.15
Consensus pattern (12 bp):
CCAGCACATGCT
Found at i:4286746 original size:22 final size:23
Alignment explanation
Indices: 4286721--4286763 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
4286711 GCACAAATGT
4286721 TTTATTCAA-TAATTTTATTAGC
1 TTTATTCAATTAATTTTATTAGC
* *
4286743 TTTATTTAATTATTTTTATTA
1 TTTATTCAATTAATTTTATTA
4286764 TTTATTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (23 bp):
TTTATTCAATTAATTTTATTAGC
Found at i:4288273 original size:18 final size:18
Alignment explanation
Indices: 4288250--4288288 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
4288240 TGCTGGTAAG
4288250 TGGAGCATGTGCTGGTGC
1 TGGAGCATGTGCTGGTGC
4288268 TGGAGCATGTGCTGGTGC
1 TGGAGCATGTGCTGGTGC
4288286 TGG
1 TGG
4288289 TGTGGAGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.10, C:0.15, G:0.46, T:0.28
Consensus pattern (18 bp):
TGGAGCATGTGCTGGTGC
Found at i:4288304 original size:30 final size:30
Alignment explanation
Indices: 4288268--4288342 Score: 150
Period size: 30 Copynumber: 2.5 Consensus size: 30
4288258 GTGCTGGTGC
4288268 TGGAGCATGTGCTGGTGCTGGTGTGGAGAG
1 TGGAGCATGTGCTGGTGCTGGTGTGGAGAG
4288298 TGGAGCATGTGCTGGTGCTGGTGTGGAGAG
1 TGGAGCATGTGCTGGTGCTGGTGTGGAGAG
4288328 TGGAGCATGTGCTGG
1 TGGAGCATGTGCTGG
4288343 AGTGGATAGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.13, C:0.11, G:0.49, T:0.27
Consensus pattern (30 bp):
TGGAGCATGTGCTGGTGCTGGTGTGGAGAG
Found at i:4288309 original size:24 final size:24
Alignment explanation
Indices: 4288230--4288355 Score: 98
Period size: 24 Copynumber: 5.0 Consensus size: 24
4288220 TGTGCAGCCA
4288230 CATGTGCTGGTGCTGGTA-AGTGGAG
1 CATGTGCTGGTG-TGG-AGAGTGGAG
*
4288255 CATGTGCTGGTGCTGGAGCA-T-GTG
1 CATGTGCTGGTG-TGGAG-AGTGGAG
4288279 C-TGGTGCTGGTGTGGAGAGTGGAG
1 CAT-GTGCTGGTGTGGAGAGTGGAG
4288303 CATGTGCTGGTGCTGGTGTGGAGAGTGGAG
1 CA-----T-GTGCTGGTGTGGAGAGTGGAG
* *
4288333 CATGTGCTGGAGTGGATAGTGGA
1 CATGTGCTGGTGTGGAGAGTGGA
4288356 AATTGTACAG
Statistics
Matches: 86, Mismatches: 4, Indels: 23
0.76 0.04 0.20
Matches are distributed among these distances:
22 1 0.01
23 7 0.08
24 34 0.40
25 18 0.21
26 1 0.01
30 25 0.29
ACGTcount: A:0.15, C:0.11, G:0.47, T:0.27
Consensus pattern (24 bp):
CATGTGCTGGTGTGGAGAGTGGAG
Found at i:4293321 original size:20 final size:20
Alignment explanation
Indices: 4293293--4293330 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4293283 CTCACAACGC
4293293 GAATATGTAAATCGCAATGT
1 GAATATGTAAATCGCAATGT
* *
4293313 GAATTTGTAATTCGCAAT
1 GAATATGTAAATCGCAAT
4293331 ACAGAAGTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (20 bp):
GAATATGTAAATCGCAATGT
Found at i:4293344 original size:20 final size:20
Alignment explanation
Indices: 4293321--4293369 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
4293311 GTGAATTTGT
*
4293321 AATTCGCAATACAGAAGTCA
1 AATTCGCAACACAGAAGTCA
* * *
4293341 AATTCACAACACATAAGTTA
1 AATTCGCAACACAGAAGTCA
4293361 AATTCGCAA
1 AATTCGCAA
4293370 AGAGCATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.47, C:0.20, G:0.10, T:0.22
Consensus pattern (20 bp):
AATTCGCAACACAGAAGTCA
Found at i:4293662 original size:25 final size:28
Alignment explanation
Indices: 4293624--4293674 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
4293614 ACCGAGGGTT
*
4293624 AATTTTTTTAATTATT-TT-TATTTTGA
1 AATTTTTGTAATTATTATTATATTTTGA
4293650 AATTTTTGT-ATTATTATTATATTTT
1 AATTTTTGTAATTATTATTATATTTT
4293675 CCATATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 10 0.45
27 6 0.27
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (28 bp):
AATTTTTGTAATTATTATTATATTTTGA
Found at i:4293904 original size:20 final size:20
Alignment explanation
Indices: 4293881--4293939 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
4293871 TTTGAAACTT
4293881 AAATTCGCAACACGAAAATG
1 AAATTCGCAACACGAAAATG
*
4293901 AAATTTGCAACACGAAAATG
1 AAATTCGCAACACGAAAATG
*
4293921 AAATTCGCAACACGGAAAT
1 AAATTCGCAACACGAAAAT
4293940 CGCAACGCGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.49, C:0.19, G:0.15, T:0.17
Consensus pattern (20 bp):
AAATTCGCAACACGAAAATG
Found at i:4293999 original size:20 final size:20
Alignment explanation
Indices: 4293949--4293999 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
4293939 TCGCAACGCG
*
4293949 ATTTTAGTTTCGCGTTGCGA
1 ATTTAAGTTTCGCGTTGCGA
*** *
4293969 ATTTCCTTTTCGTGTTGCGA
1 ATTTAAGTTTCGCGTTGCGA
4293989 ATTTAAGTTTC
1 ATTTAAGTTTC
4294000 AAAAACTACT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.16, C:0.16, G:0.20, T:0.49
Consensus pattern (20 bp):
ATTTAAGTTTCGCGTTGCGA
Found at i:4295369 original size:42 final size:42
Alignment explanation
Indices: 4295310--4295408 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
4295300 ACCCCCACTT
* * *
4295310 CGAGAGCAATCACCTGATCGAGCCGATTCTACAGC-TCGACAC
1 CGAGAGCCATCACCTGATCGAGCCGATTATACA-CATCCACAC
4295352 CGAGAGCCATCACCTGATCGAGCCGATTATACACATCCACAC
1 CGAGAGCCATCACCTGATCGAGCCGATTATACACATCCACAC
4295394 CGAGAGCCATCACCT
1 CGAGAGCCATCACCT
4295409 ATTCCATCAC
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
41 1 0.02
42 52 0.98
ACGTcount: A:0.29, C:0.35, G:0.19, T:0.16
Consensus pattern (42 bp):
CGAGAGCCATCACCTGATCGAGCCGATTATACACATCCACAC
Found at i:4296161 original size:18 final size:18
Alignment explanation
Indices: 4296138--4296173 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4296128 AAGCCGGTTG
4296138 TGATTGGGATTTTGATTT
1 TGATTGGGATTTTGATTT
*
4296156 TGATTGTGATTTTGATTT
1 TGATTGGGATTTTGATTT
4296174 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.25, T:0.58
Consensus pattern (18 bp):
TGATTGGGATTTTGATTT
Found at i:4299463 original size:20 final size:20
Alignment explanation
Indices: 4299401--4299488 Score: 63
Period size: 20 Copynumber: 4.4 Consensus size: 20
4299391 CGAAAATCGA
4299401 GTTGCGAAAATA-AAATTCGT
1 GTTGCGAAAA-AGAAATTCGT
* *** * *
4299421 GTTACGATTTAGAAAATCTT
1 GTTGCGAAAAAGAAATTCGT
*
4299441 GTTGCGAAAAGGAAACTT-GT
1 GTTGCGAAAAAGAAA-TTCGT
* *
4299461 GTTGCAAAAAAGAAATTCGC
1 GTTGCGAAAAAGAAATTCGT
4299481 GTTGCGAA
1 GTTGCGAA
4299489 TTCAGAAATC
Statistics
Matches: 48, Mismatches: 17, Indels: 6
0.68 0.24 0.08
Matches are distributed among these distances:
19 3 0.06
20 44 0.92
21 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (20 bp):
GTTGCGAAAAAGAAATTCGT
Found at i:4299531 original size:20 final size:20
Alignment explanation
Indices: 4299472--4299532 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
4299462 TTGCAAAAAA
* **
4299472 GAAATTCGCGTTGCGAATTCA
1 GAAA-TCGCATTGCGAATTTG
*
4299493 GAAATCGAATTGCGAATTTG
1 GAAATCGCATTGCGAATTTG
4299513 GAAATCGCATTGCGAATTTG
1 GAAATCGCATTGCGAATTTG
4299533 AAAAATCGTG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
20 31 0.89
21 4 0.11
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (20 bp):
GAAATCGCATTGCGAATTTG
Found at i:4299580 original size:20 final size:20
Alignment explanation
Indices: 4299555--4299595 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4299545 GCAATTACAA
*
4299555 AAACTGAGTTACGAATTTGG
1 AAACTGAGTTACGAAATTGG
* *
4299575 AAACTGTGTTGCGAAATTGG
1 AAACTGAGTTACGAAATTGG
4299595 A
1 A
4299596 GTTCACGTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (20 bp):
AAACTGAGTTACGAAATTGG
Found at i:4300740 original size:24 final size:24
Alignment explanation
Indices: 4300713--4300760 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4300703 AGCCATAAGG
* *
4300713 AACGTGTCACAAGAGCAGAGAAAA
1 AACGTGCCACAAGAGCAAAGAAAA
*
4300737 AACGTGCCACAAGAGTAAAGAAAA
1 AACGTGCCACAAGAGCAAAGAAAA
4300761 GAATGTTACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.52, C:0.17, G:0.23, T:0.08
Consensus pattern (24 bp):
AACGTGCCACAAGAGCAAAGAAAA
Found at i:4303188 original size:5 final size:5
Alignment explanation
Indices: 4303164--4303213 Score: 64
Period size: 5 Copynumber: 9.8 Consensus size: 5
4303154 TTTTCACCTC
* * *
4303164 TTTTCA TTTCA TTTTA TTTTA TTTTG TTTTA TTTTA GTTTA TTTTA TTTT
1 TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
4303214 TGTGGAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
5 35 0.92
6 3 0.08
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:4304053 original size:20 final size:20
Alignment explanation
Indices: 4304028--4304096 Score: 120
Period size: 20 Copynumber: 3.5 Consensus size: 20
4304018 GGGTTTTGGG
*
4304028 TATCGATACTGGATTAACAA
1 TATCGATACTGGATGAACAA
*
4304048 TATCGATACTAGATGAACAA
1 TATCGATACTGGATGAACAA
4304068 TATCGATACTGGATGAACAA
1 TATCGATACTGGATGAACAA
4304088 TATCGATAC
1 TATCGATAC
4304097 CATATGGCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (20 bp):
TATCGATACTGGATGAACAA
Found at i:4304900 original size:23 final size:22
Alignment explanation
Indices: 4304850--4304914 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 22
4304840 CTACGTAGTC
* * *
4304850 CTTCGGGACAATTATACGTGGT
1 CTTCGGGACATTTCTATGTGGT
4304872 CATTCGGGACATTTCTATGTGGT
1 C-TTCGGGACATTTCTATGTGGT
4304895 ACTTCGGTG-CAATTTCTATG
1 -CTTCGG-GAC-ATTTCTATG
4304915 CGACACTTCG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 1 0.03
23 24 0.67
24 11 0.31
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (22 bp):
CTTCGGGACATTTCTATGTGGT
Found at i:4308468 original size:183 final size:183
Alignment explanation
Indices: 4308160--4308519 Score: 639
Period size: 183 Copynumber: 2.0 Consensus size: 183
4308150 GACATTGATT
* *
4308160 GGGTACTTGGCAATTCGGTGTTTGCTCCATTGTGATTGTCAAGTGAAAGACTTTGTGATGACATG
1 GGGTACTTGGCAATTCGGTGTTTGCTCCATTATGATTGTCAAGTCAAAGACTTTGTGATGACATG
*
4308225 AATCCTTCAGCTAGCCAAAAAAAGGCAATTTTAAAACATATGTGTACAATAAAGCTGAATTCAGC
66 AATCCTTCAGCTAGCCAAAAAAAGGCAATTTTAAAACATATATGTACAATAAAGCTGAATTCAGC
*
4308290 TAGCCAAACAAAGGTAAATTAAATCAAATTTACTAAATAAAGAGTTTCGGATC
131 TAGCCAAACAAAGGCAAATTAAATCAAATTTACTAAATAAAGAGTTTCGGATC
*
4308343 GGGTACTTGGTAATTCGGTGTTTGCTCCATTATGATTGTCAAGTCAAAGACTTTGTGATGACATG
1 GGGTACTTGGCAATTCGGTGTTTGCTCCATTATGATTGTCAAGTCAAAGACTTTGTGATGACATG
* * *
4308408 AATCCTTCAGTTAGCCAAATAAAGGCAATTTTCAAACATATATGTACAATAAAGCTGAATTCAGC
66 AATCCTTCAGCTAGCCAAAAAAAGGCAATTTTAAAACATATATGTACAATAAAGCTGAATTCAGC
*
4308473 TAGCCAAACAAAGGCAAATTAAATCGAATTTACTAAATAAAGAGTTT
131 TAGCCAAACAAAGGCAAATTAAATCAAATTTACTAAATAAAGAGTTT
4308520 TGGTGAAGAT
Statistics
Matches: 168, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
183 168 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (183 bp):
GGGTACTTGGCAATTCGGTGTTTGCTCCATTATGATTGTCAAGTCAAAGACTTTGTGATGACATG
AATCCTTCAGCTAGCCAAAAAAAGGCAATTTTAAAACATATATGTACAATAAAGCTGAATTCAGC
TAGCCAAACAAAGGCAAATTAAATCAAATTTACTAAATAAAGAGTTTCGGATC
Found at i:4309800 original size:73 final size:66
Alignment explanation
Indices: 4309669--4309856 Score: 189
Period size: 73 Copynumber: 2.7 Consensus size: 66
4309659 CTATATGTCA
* ** * **
4309669 CCTTAGAGATTGTTTCTCCCCGAAACAAAGTTTCATCTCGTTTGAGACAATTTTTCTTGAAACAA
1 CCTT-GAGATTGTTTCT-CTCGAAACAAA-TTTTGTCTCGCTTGAGACAATTCCTCTTGAAACAA
4309734 AATTGAT
63 AA---AT
4309741 CTCAATTGAGATTGTTT-TCTCTGAAAACAAATTTTGTCTCGCTTGAGACAATTCCTCTTGAAAC
1 C-C--TTGAGATTGTTTCTCTC-G-AAACAAATTTTGTCTCGCTTGAGACAATTCCTCTTGAAAC
**
4309805 ACGAAT
61 AAAAAT
*
4309811 CCTTGAGATTGTTTCTCTCGAAACGAATTTTGTCTCGCTTGAGACA
1 CCTTGAGATTGTTTCTCTCGAAACAAATTTTGTCTCGCTTGAGACA
4309857 TTTTTCCCCA
Statistics
Matches: 101, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
66 25 0.25
67 13 0.13
68 4 0.04
69 1 0.01
70 3 0.03
72 3 0.03
73 33 0.33
74 17 0.17
75 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.36
Consensus pattern (66 bp):
CCTTGAGATTGTTTCTCTCGAAACAAATTTTGTCTCGCTTGAGACAATTCCTCTTGAAACAAAAA
T
Found at i:4310666 original size:220 final size:216
Alignment explanation
Indices: 4310157--4311230 Score: 977
Period size: 220 Copynumber: 5.0 Consensus size: 216
4310147 TGGCAATTAT
* * * * * * * **
4310157 GACCAGATCTCTTCATCACAGATGAGCAGTGTCGTCCTCAACATCAAATTTTTTCCAGATCAACC
1 GACCAGATCTCTTTAACACGGATGAGCAGTGTCATCTTCAACATCAAATTATCTCCAGATTGACC
* * * * * *
4310222 TGATCTCCTCAACACGAAGAAGCAGTGTCATCCTCAGACAATCAGACTTTCTCAACACAAAGGAA
66 CGATCTCCTCAACGCGAAG-AG-AGTGTCATCCTCAGATAATCAGACTTCCTCAACGCGAAGGAA
* * * * * *
4310287 CCGTGTTGTCTTCAAATTATCTCTAGATTGACCTAATTTCCTAAACGAGAAGGAACATCGTTATC
129 TCGTG-TGTCTCCAAATTATCTCCAGATTGACC-AATTTCCTCAACGAGAAGGAACAACGTCATC
* * * *
4310352 ACCA-CAAACAATTTACCTAAAAAT
192 TCTAGCAAACAATTTACCTGAAAAC
* ** * *
4310376 GACCAGATCTCTTCAACACGGATGAGCAGTGTTGTCTTCAACATCAAATTATCTCCAAATTGATC
1 GACCAGATCTCTTTAACACGGATGAGCAGTGTCATCTTCAACATCAAATTATCTCCAGATTGACC
* * *
4310441 CGATCTCCTCAACGCGAATGAGATGTGTCTTCCTCAGATAATCATACTTCCTCAATGCGAAGGAA
66 CGATCTCCTCAACGCGAA-GAGA-GTGTCATCCTCAGATAATCAGACTTCCTCAACGCGAAGGAA
* * *
4310506 TCGTCGTGTCTCCAAATTATCCCCAAATTGACTCAATTTCCTCAACGAGAAGGAACAACGTAATC
129 TCGT-GTGTCTCCAAATTATCTCCAGATTGAC-CAATTTCCTCAACGAGAAGGAACAACGTCATC
*
4310571 TCTAGTAAACAATTTACCTGAAAAC
192 TCTAGCAAACAATTTACCTGAAAAC
* * *
4310596 GACAAGATCTCTTTAACATGGATGAACAGTGTCATCTTCAACATCAAATTATCTCCAGATTGACC
1 GACCAGATCTCTTTAACACGGATGAGCAGTGTCATCTTCAACATCAAATTATCTCCAGATTGACC
* * * * * *
4310661 CGATCTCCTCAACGTGAAGGATCAGTGTCATCCTAAGACAATCAGA----C-GAA--C---TG--
66 CGATCTCCTCAACGCGAA-GA-GAGTGTCATCCTCAGATAATCAGACTTCCTCAACGCGAAGGAA
* * ** *
4310714 T-GT-TATCTCCAAATTATC-CTTAGATCAACCCGATTTCCTCAACGAGAAGGAACAACGTCATC
129 TCGTGTGTCTCCAAATTATCTC-CAGATTGA-CCAATTTCCTCAACGAGAAGGAACAACGTCATC
* * ***
4310776 TGC-AACAAATAATTTACCTGAAGGT
192 T-CTAGCAAACAATTTACCTGAAAAC
* * * * * *
4310801 GACCAGACCTC-TTAACACGGATAAGCAGCGTCATCTTTAACACCAAATTATCTCTAGATTGACC
1 GACCAGATCTCTTTAACACGGATGAGCAGTGTCATCTTCAACATCAAATTATCTCCAGATTGACC
* * * * *
4310865 CGATCTCCTCAACACTAAGGAGAAGTGTCATTCTCAGATAACCAGACTTCCTCAACGCGAATGAA
66 CGATCTCCTCAACGCGAA-GAG-AGTGTCATCCTCAGATAATCAGACTTCCTCAACGCGAAGGAA
* * * *
4310930 CCGAAT-TGTCTCCAAATTATCTCCAGATTGACCTGATTTCCTCAACGAGAAAGAACAACATCAT
129 TCG--TGTGTCTCCAAATTATCTCCAGATTGACC-AATTTCCTCAACGAGAAGGAACAACGTCAT
*
4310994 CTCTAGTAAACAATTTACCT-AAAAGC
191 CTCTAGCAAACAATTTACCTGAAAA-C
* * * * * * *
4311020 GACCATATCTCTTTAACACAGATGAGTAGTGTCATCTTCAACACCAAATTATTTTCAGATTAACC
1 GACCAGATCTCTTTAACACGGATGAGCAGTGTCATCTTCAACATCAAATTATCTCCAGATTGACC
* * * *
4311085 TGATCTCCTCAACGCGAAGCAGCAGTGTCATCCTCAGATAATTAGGCTTCCTAAACGCGAAGGAA
66 CGATCTCCTCAACGCGAAG-AG-AGTGTCATCCTCAGATAATCAGACTTCCTCAACGCGAAGGAA
* * * * *
4311150 TTC-TATTGTCACCAAATTATTTCCAGATTGACACAACTTCTTCAACGAGAA-GAAGCAACGTCA
129 -TCGT-GTGTCTCCAAATTATCTCCAGATTGAC-CAATTTCCTCAACGAGAAGGAA-CAACGTCA
4311213 TCTCTAGCAAACAATTTA
190 TCTCTAGCAAACAATTTA
4311231 TTTCAAAATA
Statistics
Matches: 697, Mismatches: 122, Indels: 71
0.78 0.14 0.08
Matches are distributed among these distances:
204 84 0.12
205 74 0.11
206 2 0.00
207 2 0.00
208 2 0.00
209 2 0.00
210 1 0.00
211 1 0.00
213 1 0.00
214 2 0.00
215 2 0.00
216 1 0.00
217 1 0.00
218 7 0.01
219 238 0.34
220 274 0.39
221 3 0.00
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (216 bp):
GACCAGATCTCTTTAACACGGATGAGCAGTGTCATCTTCAACATCAAATTATCTCCAGATTGACC
CGATCTCCTCAACGCGAAGAGAGTGTCATCCTCAGATAATCAGACTTCCTCAACGCGAAGGAATC
GTGTGTCTCCAAATTATCTCCAGATTGACCAATTTCCTCAACGAGAAGGAACAACGTCATCTCTA
GCAAACAATTTACCTGAAAAC
Found at i:4311092 original size:424 final size:424
Alignment explanation
Indices: 4310322--4311118 Score: 1071
Period size: 424 Copynumber: 1.9 Consensus size: 424
4310312 GATTGACCTA
* * * *
4310322 ATTTCCTAAACGAGAAGGAACATCGTTATCACCACAAACAATTTACCTAAAAATGACCAGATCTC
1 ATTTCCTAAACGAGAAGGAACAACGTCATCACAACAAACAATTTACCTAAAAATGACCAGACCTC
* * ** * *
4310387 TTCAACACGGATGAGCAGTGTTGTCTTCAACATCAAATTATCTCCAAATTGATCCGATCTCCTCA
66 TTCAACACGGATAAGCAGCGTCATCTTCAACACCAAATTATCTCCAAATTGACCCGATCTCCTCA
* * * * * * * **
4310452 ACGCGAATGAGATGTGTCTTCCTCAGATAATCATACTTCCTCAATGCGAAGGAATCGTCGTGTCT
131 ACACGAAGGAGAAGTGTCTTCCTCAGATAACCAGACTTCCTCAACGCGAAGGAACCGAAGTGTCT
* *
4310517 CCAAATTATCCCCAAATTGACTCAATTTCCTCAACGAGAAGGAACAACGTAATCTCTAGTAAACA
196 CCAAATTATCCCCAAATTGACTCAATTTCCTCAACGAGAAAGAACAACATAATCTCTAGTAAACA
** *
4310582 ATTTACCTGAAAACGACAAGATCTCTTTAACATGGATGAACAGTGTCATCTTCAACATCAAATTA
261 ATTTACCTGAAAACGACAAGATCTCTTTAACACAGATGAACAGTGTCATCTTCAACACCAAATTA
* * * *
4310647 TCTCCAGATTGACCCGATCTCCTCAACGTGAAGGATCAGTGTCATCCTAAGACAATCAGACGAAC
326 TCTCCAGATTAACCCGATCTCCTCAACGCGAAGCAGCAGTGTCATCCTAAGACAATCAGACGAAC
4310712 TGTGTTATCTCCAAATTATCCTTAGATCAACCCG
391 TGTGTTATCTCCAAATTATCCTTAGATCAACCCG
* * * * **
4310746 ATTTCCTCAACGAGAAGGAACAACGTCATCTGCAACAAATAATTTACCTGAAGGTGACCAGACCT
1 ATTTCCTAAACGAGAAGGAACAACGTCATC-ACAACAAACAATTTACCTAAAAATGACCAGACCT
* * *
4310811 CTT-AACACGGATAAGCAGCGTCATCTTTAACACCAAATTATCTCTAGATTGACCCGATCTCCTC
65 CTTCAACACGGATAAGCAGCGTCATCTTCAACACCAAATTATCTCCAAATTGACCCGATCTCCTC
* * *
4310875 AACACTAAGGAGAAGTGTCATT-CTCAGATAACCAGACTTCCTCAACGCGAATGAACCGAATTGT
130 AACACGAAGGAGAAGTGTC-TTCCTCAGATAACCAGACTTCCTCAACGCGAAGGAACCGAAGTGT
* * * *
4310939 CTCCAAATTATCTCCAGATTGAC-CTGATTTCCTCAACGAGAAAGAACAACATCATCTCTAGTAA
194 CTCCAAATTATCCCCAAATTGACTC-AATTTCCTCAACGAGAAAGAACAACATAATCTCTAGTAA
* * **
4311003 ACAATTTACCT-AAAAGCGACCATATCTCTTTAACACAGATGAGTAGTGTCATCTTCAACACCAA
258 ACAATTTACCTGAAAA-CGACAAGATCTCTTTAACACAGATGAACAGTGTCATCTTCAACACCAA
* * *
4311067 ATTATTTTCAGATTAACCTGATCTCCTCAACGCGAAGCAGCAGTGTCATCCT
322 ATTATCTCCAGATTAACCCGATCTCCTCAACGCGAAGCAGCAGTGTCATCCT
4311119 CAGATAATTA
Statistics
Matches: 318, Mismatches: 51, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
423 5 0.02
424 281 0.88
425 32 0.10
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.26
Consensus pattern (424 bp):
ATTTCCTAAACGAGAAGGAACAACGTCATCACAACAAACAATTTACCTAAAAATGACCAGACCTC
TTCAACACGGATAAGCAGCGTCATCTTCAACACCAAATTATCTCCAAATTGACCCGATCTCCTCA
ACACGAAGGAGAAGTGTCTTCCTCAGATAACCAGACTTCCTCAACGCGAAGGAACCGAAGTGTCT
CCAAATTATCCCCAAATTGACTCAATTTCCTCAACGAGAAAGAACAACATAATCTCTAGTAAACA
ATTTACCTGAAAACGACAAGATCTCTTTAACACAGATGAACAGTGTCATCTTCAACACCAAATTA
TCTCCAGATTAACCCGATCTCCTCAACGCGAAGCAGCAGTGTCATCCTAAGACAATCAGACGAAC
TGTGTTATCTCCAAATTATCCTTAGATCAACCCG
Found at i:4317567 original size:44 final size:44
Alignment explanation
Indices: 4317516--4317611 Score: 174
Period size: 44 Copynumber: 2.2 Consensus size: 44
4317506 ACAATATAAA
4317516 CAAAAGATAAAGAAATTAAAAATAAAGTATGATAATCAAGAAAT
1 CAAAAGATAAAGAAATTAAAAATAAAGTATGATAATCAAGAAAT
* *
4317560 CAAAAGATAAATAACTTAAAAATAAAGTATGATAATCAAGAAAT
1 CAAAAGATAAAGAAATTAAAAATAAAGTATGATAATCAAGAAAT
4317604 CAAAAGAT
1 CAAAAGAT
4317612 CTTCCTTGTG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.62, C:0.06, G:0.10, T:0.21
Consensus pattern (44 bp):
CAAAAGATAAAGAAATTAAAAATAAAGTATGATAATCAAGAAAT
Done.