Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000761.1 Hibiscus syriacus cultivar Beakdansim tig00001478_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: 5609167
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 23
Found at i:4434303 original size:12 final size:12
Alignment explanation
Indices: 4434256--4434314 Score: 61
Period size: 12 Copynumber: 4.9 Consensus size: 12
4434246 AATCATAATA
4434256 TATATAATATTA-
1 TATATAATA-TAC
4434268 TAATATAATATA-
1 T-ATATAATATAC
4434280 TATAGT-ATATAC
1 TATA-TAATATAC
*
4434292 TGTATAATATAC
1 TATATAATATAC
4434304 TATATAATATA
1 TATATAATATA
4434315 TGATCGCTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
11 9 0.22
12 24 0.59
13 8 0.20
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (12 bp):
TATATAATATAC
Found at i:4446081 original size:7 final size:7
Alignment explanation
Indices: 4446069--4446192 Score: 91
Period size: 7 Copynumber: 17.6 Consensus size: 7
4446059 CGAAGTTATC
4446069 AATATAT
1 AATATAT
4446076 AATATA-
1 AATATAT
4446082 AATAATAT
1 AAT-ATAT
*
4446090 AAAATACT
1 AATATA-T
*
4446098 ATTTAATAT
1 A-AT-ATAT
*
4446107 ACTATAT
1 AATATAT
4446114 AATATAAT
1 AATAT-AT
4446122 ATATATAT
1 A-ATATAT
4446130 AATATAT
1 AATATAT
4446137 AATA-A-
1 AATATAT
4446142 AATAT-T
1 AATATAT
4446148 -ATATAT
1 AATATAT
4446154 AATATAT
1 AATATAT
4446161 AATATACT
1 AATATA-T
4446169 -ATA-AT
1 AATATAT
4446174 ATATATAT
1 A-ATATAT
*
4446182 AATATAA
1 AATATAT
4446189 AATA
1 AATA
4446193 AAAAAATTCC
Statistics
Matches: 96, Mismatches: 6, Indels: 30
0.73 0.05 0.23
Matches are distributed among these distances:
5 9 0.09
6 6 0.06
7 57 0.59
8 15 0.16
9 6 0.06
10 3 0.03
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (7 bp):
AATATAT
Found at i:4446082 original size:5 final size:5
Alignment explanation
Indices: 4446072--4446193 Score: 88
Period size: 5 Copynumber: 23.2 Consensus size: 5
4446062 AGTTATCAAT
* *
4446072 ATATA ATATA A-ATA ATATA AAATA CTATTTA ATATA CTATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA --ATATA ATATA --ATATA ATATA
* *
4446120 ATATA TATATA ATAT- ATAATA AAATA TTAT- ATATAA TATATA ATATA
1 ATATA -ATATA ATATA AT-ATA ATATA ATATA ATAT-A -ATATA ATATA
* *
4446167 CTATA ATATA TATATA ATATA AAATA A
1 ATATA ATATA -ATATA ATATA ATATA A
4446194 AAAAATTCCG
Statistics
Matches: 94, Mismatches: 11, Indels: 24
0.73 0.09 0.19
Matches are distributed among these distances:
4 9 0.10
5 61 0.65
6 12 0.13
7 12 0.13
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:4446157 original size:52 final size:49
Alignment explanation
Indices: 4446069--4446195 Score: 159
Period size: 52 Copynumber: 2.5 Consensus size: 49
4446059 CGAAGTTATC
4446069 AATATATAATATAA-ATAATATAAAATACTATTTAATATACT-ATATAATAT
1 AATATAT-ATATAATATAA-ATAAAATACTATTTAATATA-TAATATAATAT
* *
4446119 AATATATATATAATATATAATAAAATATTATATATAATATATAATATACTAT
1 AATATATATATAATATA-AATAAAATACTAT-T-TAATATATAATATAATAT
4446171 AATATATATATAATATAAAATAAAA
1 AATATATATATAATAT-AAATAAAA
4446196 AAATTCCGGA
Statistics
Matches: 69, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
49 6 0.09
50 21 0.30
51 3 0.04
52 38 0.55
53 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.39
Consensus pattern (49 bp):
AATATATATATAATATAAATAAAATACTATTTAATATATAATATAATAT
Found at i:4447584 original size:17 final size:17
Alignment explanation
Indices: 4447562--4447597 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
4447552 TGTTTTATCG
4447562 CCTTGATCCATGACCTT
1 CCTTGATCCATGACCTT
4447579 CCTTGATCCATGACCTT
1 CCTTGATCCATGACCTT
4447596 CC
1 CC
4447598 CGTGCATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.39, G:0.11, T:0.33
Consensus pattern (17 bp):
CCTTGATCCATGACCTT
Found at i:4447727 original size:39 final size:40
Alignment explanation
Indices: 4447699--4447825 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 40
4447689 CATCTTAGAC
* * **
4447699 CTTTTTTTATAGCGCCCTTTTTGAGTTTTCACTCTAAACA
1 CTTTTTTTAGAACGCCCTTTTCAAGTTTTCACTCTAAACA
4447739 CTTTTTTTAGAACGCCCTTTTCAAGTTTTCACTCTAAACA
1 CTTTTTTTAGAACGCCCTTTTCAAGTTTTCACTCTAAACA
* ** *
4447779 -ATTTTTTA-AAGCGCCAATTTCAGGTTTTCACTCTAAACA
1 CTTTTTTTAGAA-CGCCCTTTTCAAGTTTTCACTCTAAACA
*
4447818 CATTTTTT
1 CTTTTTTT
4447826 GAAAAACTTA
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
38 2 0.03
39 32 0.42
40 43 0.56
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.45
Consensus pattern (40 bp):
CTTTTTTTAGAACGCCCTTTTCAAGTTTTCACTCTAAACA
Found at i:4462747 original size:95 final size:94
Alignment explanation
Indices: 4462574--4462797 Score: 227
Period size: 95 Copynumber: 2.4 Consensus size: 94
4462564 ACCGAGCGAT
*
4462574 GTAGTATCGATACCATGGTAAGGGTATCGATACCAAGAAACATCGAACCTAATTATAGTATCAAT
1 GTAGTATCGATACCATGGT-AGGGTATCGATACTAAGAAACATCGAACCTAATTATAGTATCAAT
* * **
4462639 ACCGAAGGGGGGTATC-AGTACCTTAGCGTA
65 ACCGAAGGAGGGTATCGA-TACCATAGCACA
* ** * * * * * *
4462669 GTAGTATCGATACCATGGTGAGGGTATCGATACTAGGCTATATCGTAGCTAATTTTGGTATCGAT
1 GTAGTATCGATACCATGGT-AGGGTATCGATACTAAGAAACATCGAACCTAATTATAGTATCAAT
* *
4462734 ACTGGAA-GAGGGTATCGATACCATAGTACA
65 AC-CGAAGGAGGGTATCGATACCATAGCACA
* *
4462764 GTAGTATCGATACCATAGTAGGGGTATCAATACT
1 GTAGTATCGATACCATGGTA-GGGTATCGATACT
4462798 GAAAGGCCAG
Statistics
Matches: 107, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
94 1 0.01
95 102 0.95
96 4 0.04
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (94 bp):
GTAGTATCGATACCATGGTAGGGTATCGATACTAAGAAACATCGAACCTAATTATAGTATCAATA
CCGAAGGAGGGTATCGATACCATAGCACA
Found at i:4463334 original size:78 final size:79
Alignment explanation
Indices: 4463201--4463363 Score: 220
Period size: 78 Copynumber: 2.1 Consensus size: 79
4463191 AAAACGAATG
* * * *
4463201 TAAAAGAATAATACATATGGGTGCAATATTGGCATGAAAGTATGTCATAGCTGAAATGTATAT-G
1 TAAAAGAATAATACATATGGGTGCAATATTGGCATGAAAGGATGCCAGAGCTGAAATGCATATGG
*
4463265 GTACATTGTCAACA
66 GTACATTATCAACA
* * * *
4463279 TAAAAGAATAATGCATATGGTTGCATTATTGGCATGAAAGGATGCCAGAGTTGAAATGCATATGG
1 TAAAAGAATAATACATATGGGTGCAATATTGGCATGAAAGGATGCCAGAGCTGAAATGCATATGG
*
4463344 GTGCATTATCAACA
66 GTACATTATCAACA
*
4463358 GAAAAG
1 TAAAAG
4463364 TATGCTAGAG
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
78 55 0.75
79 18 0.25
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (79 bp):
TAAAAGAATAATACATATGGGTGCAATATTGGCATGAAAGGATGCCAGAGCTGAAATGCATATGG
GTACATTATCAACA
Found at i:4463352 original size:45 final size:45
Alignment explanation
Indices: 4463288--4463543 Score: 273
Period size: 45 Copynumber: 5.7 Consensus size: 45
4463278 ATAAAAGAAT
* * ** * *
4463288 AATGCATATGGTTGCATTATTGGCATG-AAAGGATGCCAGAGTTGA
1 AATGCATATGGGTACATTATTAACA-GAAAAGTATGCTAGAGTTGA
* * *
4463333 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAGAGTTTA
1 AATGCATATGGGTACATTATTAACAGAAAAGTATGCTAGAGTTGA
* *
4463378 AATGCATATGGGTACATTATCAAAAGAAAAGTATGCTAGAGTTGA
1 AATGCATATGGGTACATTATTAACAGAAAAGTATGCTAGAGTTGA
* * *
4463423 AATGTATATGGGTACATTATCAACAGAAAAGTATACTATG-GTTGA
1 AATGCATATGGGTACATTATTAACAGAAAAGTATGCTA-GAGTTGA
* * * * * *
4463468 GATGTATATGGGTACATTATCAACATAAAAGTATACTATAGTTGA
1 AATGCATATGGGTACATTATTAACAGAAAAGTATGCTAGAGTTGA
* * *
4463513 AATGCATATGGGTGCATTATCAATAGAAAAG
1 AATGCATATGGGTACATTATTAACAGAAAAG
4463544 ATGTTATAGT
Statistics
Matches: 187, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
44 1 0.01
45 185 0.99
46 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (45 bp):
AATGCATATGGGTACATTATTAACAGAAAAGTATGCTAGAGTTGA
Found at i:4463441 original size:90 final size:90
Alignment explanation
Indices: 4463315--4463558 Score: 330
Period size: 90 Copynumber: 2.7 Consensus size: 90
4463305 TATTGGCATG
* *
4463315 AAAGGATGCCAGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAGAGTTTAAA
1 AAAGTATGCTAGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAGAGTTTAAA
4463380 TGCATATGGGTACATTATCAAAAGA
66 TGCATATGGGTACATTATCAAAAGA
* * * * *
4463405 AAAGTATGCTAGAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTATG-GTTGAG
1 AAAGTATGCTAGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTA-GAGTTTAA
* * *
4463469 ATGTATATGGGTACATTATCAACATA
65 ATGCATATGGGTACATTATCAAAAGA
* * * * *
4463495 AAAGTATACTATAGTTGAAATGCATATGGGTGCATTATCAATAGAAAAG-ATGTTATAGTTTAAA
1 AAAGTATGCTAGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAGAGTTTAAA
4463559 GTGAATAATG
Statistics
Matches: 132, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
89 9 0.07
90 122 0.92
91 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (90 bp):
AAAGTATGCTAGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAGAGTTTAAA
TGCATATGGGTACATTATCAAAAGA
Found at i:4463577 original size:135 final size:134
Alignment explanation
Indices: 4463328--4463582 Score: 325
Period size: 135 Copynumber: 1.9 Consensus size: 134
4463318 GGATGCCAGA
* * *
4463328 GTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAGAGTTTAAATGCATATGGGTAC
1 GTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTAGAGTTGAAATGCATATGGGTAC
* * *
4463393 ATTATCAAAAGAAAAGTATGCTAGAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATA
66 ATTATCAAAAGAAAAGTATGCTAGAGTTGAAATGAATATGAGTA-ATTATAAACAGAAAAGTATA
4463458 CTATG
130 CTATG
* * * * *
4463463 GTTGAGATGTATATGGGTACATTATCAACATAAAAGTATACTATAGTTGAAATGCATATGGGTGC
1 GTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTAGAGTTGAAATGCATATGGGTAC
* * * *
4463528 ATTATCAATAGAAAAG-ATGTTATAGTTTAAAGTGAATAATGAAGT-ATTATAAACA
66 ATTATCAAAAGAAAAGTATGCTAGAGTTGAAA-TGAAT-ATG-AGTAATTATAAACA
4463583 TAAATGGAGG
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
134 12 0.12
135 85 0.83
136 3 0.03
137 2 0.02
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (134 bp):
GTTGAAATGCATATGGGTACATTATCAACAGAAAAGTATACTAGAGTTGAAATGCATATGGGTAC
ATTATCAAAAGAAAAGTATGCTAGAGTTGAAATGAATATGAGTAATTATAAACAGAAAAGTATAC
TATG
Found at i:4471454 original size:45 final size:45
Alignment explanation
Indices: 4471181--4471454 Score: 363
Period size: 45 Copynumber: 6.1 Consensus size: 45
4471171 TATTGGCATG
* *
4471181 AAAGGATGCCAGAG-TGTAAATGCATATGGGTGCATTATCAACAGA
1 AAAGTATGCTAGAGTTG-AAATGCATATGGGTGCATTATCAACAGA
* *
4471226 AACGTATGCTAGAGTTGAAATACATATGGGTGCATTATCAACAGA
1 AAAGTATGCTAGAGTTGAAATGCATATGGGTGCATTATCAACAGA
*
4471271 AGAGTATGCTAGAGTTGAAATGCATATGGGTGCATTATCAACAGA
1 AAAGTATGCTAGAGTTGAAATGCATATGGGTGCATTATCAACAGA
* * * * *
4471316 AAAGTATGTTAGAGTTTAAATGTATATGGGTACATTATCAACAAA
1 AAAGTATGCTAGAGTTGAAATGCATATGGGTGCATTATCAACAGA
* * * * *
4471361 AAAGTATACTATG-GTTGAGATGTATATGGGTACATTATCAACATA
1 AAAGTATGCTA-GAGTTGAAATGCATATGGGTGCATTATCAACAGA
* *
4471406 AAAGTATACTATAGTTGAAATGCATATGGGTGCATTATCAACAGA
1 AAAGTATGCTAGAGTTGAAATGCATATGGGTGCATTATCAACAGA
4471451 AAAG
1 AAAG
4471455 ATGTTATAGT
Statistics
Matches: 203, Mismatches: 23, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
45 200 0.99
46 3 0.01
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (45 bp):
AAAGTATGCTAGAGTTGAAATGCATATGGGTGCATTATCAACAGA
Found at i:4471497 original size:90 final size:88
Alignment explanation
Indices: 4471214--4471493 Score: 278
Period size: 90 Copynumber: 3.1 Consensus size: 88
4471204 ATATGGGTGC
* * *
4471214 ATTATCAACAGAAACGTATGCTAGAGTTGAAATACATATGGGTGCATTATCAACAGAAGAGTATG
1 ATTATCAACAGAAAAGTATGCTAGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATG
* *
4471279 CTAGAGTTGAAA-TGCATATGGGTGC
66 CTATAGTTGAAAGT-CATAT--GTGT
* * * * * *
4471304 ATTATCAACAGAAAAGTATGTTAGAGTTTAAATGTATATGGGTACATTATCAACAAAAAAGTATA
1 ATTATCAACAGAAAAGTATGCTAGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATG
* * *
4471369 CTATGGTTGAGATGT-ATATGGGT
66 CTATAGTTGA-AAGTCATATGTGT
* * *
4471392 ACATTATCAACATAAAAGTATACTATAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAG-A
1 --ATTATCAACAGAAAAGTATGCTAGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTA
* *
4471456 TGTTATAGTTTAAAGTCCATAATGATGT
64 TGCTATAGTTGAAAGT-CAT-ATG-TGT
*
4471484 ATTATAAACA
1 ATTATCAACA
4471494 TAAATGGAGG
Statistics
Matches: 153, Mismatches: 29, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
88 5 0.03
89 9 0.06
90 132 0.86
91 4 0.03
92 3 0.02
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (88 bp):
ATTATCAACAGAAAAGTATGCTAGAGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATG
CTATAGTTGAAAGTCATATGTGT
Found at i:4472848 original size:21 final size:20
Alignment explanation
Indices: 4472807--4472864 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
4472797 TGGACATGAA
* *
4472807 AAAAACAATATTA-ATAAAT
1 AAAAATAATAATATATAAAT
4472826 AAAAATAATAATATATAACAT
1 AAAAATAATAATATATAA-AT
* *
4472847 AATAATTATAATATATAA
1 AAAAATAATAATATATAA
4472865 TATTATAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.33
20 4 0.12
21 18 0.55
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAATAATAATATATAAAT
Found at i:4472861 original size:5 final size:5
Alignment explanation
Indices: 4472813--4473124 Score: 132
Period size: 5 Copynumber: 63.6 Consensus size: 5
4472803 TGAAAAAAAC
* * *
4472813 AATATT AATA- AATA- AAAAT AATA- ATATAT AACAT AATA- ATTAT AATAT
1 AATA-T AATAT AATAT AATAT AATAT A-ATAT AATAT AATAT AATAT AATAT
* *
4472861 -ATAAT ATTAT AATAT ATATAT ATATAT AGTAT -ATACT -ATAT AA-AT
1 AAT-AT AATAT AATAT A-ATAT A-ATAT AATAT AATA-T AATAT AATAT
* *
4472906 ACTAT -ATA- ATATAT AATAT AA-AT AATAT AA-AT AGTGTAT AATAT
1 AATAT AATAT A-ATAT AATAT AATAT AATAT AATAT A--ATAT AATAT
* * *
4472950 -ATACT -ATAT AATATAT AACAT AAAAT AATAT -ATAA AATAT -ATAT
1 AATA-T AATAT -A-ATAT AATAT AATAT AATAT AATAT AATAT AATAT
* *
4472994 TATAT AATAT AATA- AA-AT ACTAT AATAT -ATAAT ACTATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AAT-AT A--ATAT AATAT
* *
4473039 AATAT GCAATAT -ATAAT AAAAT AATAT -ATAT AATAT ATTAT -ATAT
1 AATAT --AATAT AAT-AT AATAT AATAT AATAT AATAT AATAT AATAT
* * * *
4473084 TATAT AA-AT ACTAT AATAT -ATAT AATAT AAAAT AAAAT AAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AAT
4473125 TCCATACGAA
Statistics
Matches: 238, Mismatches: 31, Indels: 75
0.69 0.09 0.22
Matches are distributed among these distances:
3 1 0.00
4 60 0.25
5 140 0.59
6 20 0.08
7 15 0.06
8 2 0.01
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:4472877 original size:2 final size:2
Alignment explanation
Indices: 4472853--4473112 Score: 130
Period size: 2 Copynumber: 141.0 Consensus size: 2
4472843 ACATAATAAT
4472853 TA TA -A TA TA TA -A TA T- TA TA -A TA TA TA TA TA TA TA TA GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* *
4472892 TA TA CTA TA TA AA TA CTA TA TA -A TA TA TA -A TA TA AA TA -A TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
4472933 TA AA TA GTG TA TA -A TA TA TA CTA TA TA -A TA TA TA -A CA TA -A
1 TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* *
4472973 AA TA -A TA TA TA -A AA TA TA TA T- TA TA TA -A TA TA -A TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
4473009 AA TA CTA TA -A TA TA TA -A TA CTA TA TA -A TA TA -A TA TG CA -A
1 TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
*
4473048 TA TA TA -A TA -A AA TA -A TA TA TA TA -A TA TA T- TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
4473084 TA TA TA AA TA CTA TA -A TA TA TA TA -A TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
4473113 AAATAAAATA
Statistics
Matches: 202, Mismatches: 18, Indels: 76
0.68 0.06 0.26
Matches are distributed among these distances:
1 30 0.15
2 157 0.78
3 15 0.07
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (2 bp):
TA
Found at i:4473112 original size:7 final size:7
Alignment explanation
Indices: 4472829--4473105 Score: 199
Period size: 7 Copynumber: 40.1 Consensus size: 7
4472819 AATAAATAAA
4472829 AATA-AT
1 AATATAT
4472835 AATATAT
1 AATATAT
*
4472842 AACATAAT
1 AATAT-AT
4472850 AAT-TAT
1 AATATAT
4472856 AATATAT
1 AATATAT
4472863 AATATTAT
1 AATA-TAT
4472871 AATATAT
1 AATATAT
4472878 -ATATAT
1 AATATAT
4472884 -ATATAGT
1 AATATA-T
4472891 -ATATACT
1 AATATA-T
*
4472898 ATATAAAT
1 A-ATATAT
*
4472906 ACTATAT
1 AATATAT
4472913 AATATAT
1 AATATAT
4472920 AATATA-
1 AATATAT
4472926 AATA-AT
1 AATATAT
*
4472932 -ATAAAT
1 AATATAT
* *
4472938 AGTGTAT
1 AATATAT
4472945 AATATAT
1 AATATAT
*
4472952 ACTATAT
1 AATATAT
4472959 AATATAT
1 AATATAT
* *
4472966 AACATAA
1 AATATAT
4472973 AATA-AT
1 AATATAT
*
4472979 -ATATAA
1 AATATAT
4472985 AATATAT
1 AATATAT
*
4472992 ATTATAT
1 AATATAT
4472999 AATATAAT
1 AATAT-AT
4473007 AAAATACTAT
1 --AATA-TAT
4473017 AATATAT
1 AATATAT
4473024 AATACTAT
1 AATA-TAT
4473032 -ATAATAT
1 AAT-ATAT
**
4473039 AATATGC
1 AATATAT
4473046 AATATAT
1 AATATAT
4473053 AATA-A-
1 AATATAT
4473058 AATA-AT
1 AATATAT
4473064 -ATATAT
1 AATATAT
4473070 AATATAT
1 AATATAT
*
4473077 TATATAT
1 AATATAT
*
4473084 TATATA-
1 AATATAT
4473090 AATACTAT
1 AATA-TAT
4473098 AATATAT
1 AATATAT
4473105 A
1 A
4473106 TAATATAAAA
Statistics
Matches: 219, Mismatches: 28, Indels: 47
0.74 0.10 0.16
Matches are distributed among these distances:
5 15 0.07
6 34 0.16
7 130 0.59
8 29 0.13
9 4 0.02
10 6 0.03
11 1 0.00
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (7 bp):
AATATAT
Found at i:4483545 original size:39 final size:39
Alignment explanation
Indices: 4483482--4483569 Score: 106
Period size: 39 Copynumber: 2.3 Consensus size: 39
4483472 CACATGTACT
* * *
4483482 CAAAGCAGAGGAGCATGTAGTAAGGGCTTA-CCTTGTGCA
1 CAAAGCAGAGGAGCATGCAGTAAGGACTTATCC-TATGCA
* * *
4483521 CAAAGAAGAGGAGCTTGCATTAAGGACTTATCCTATGCA
1 CAAAGCAGAGGAGCATGCAGTAAGGACTTATCCTATGCA
4483560 CAAAGCAGAG
1 CAAAGCAGAG
4483570 AAGTCTGGGG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 39 0.95
40 2 0.05
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.19
Consensus pattern (39 bp):
CAAAGCAGAGGAGCATGCAGTAAGGACTTATCCTATGCA
Found at i:4485819 original size:20 final size:21
Alignment explanation
Indices: 4485784--4485837 Score: 101
Period size: 20 Copynumber: 2.6 Consensus size: 21
4485774 TTGGCTAGAA
4485784 GTATCGATACTCATACAATGG
1 GTATCGATACTCATACAATGG
4485805 GTATCGATA-TCATACAATGG
1 GTATCGATACTCATACAATGG
4485825 GTATCGATACTCA
1 GTATCGATACTCA
4485838 CAAGGCGGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 20 0.62
21 12 0.38
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (21 bp):
GTATCGATACTCATACAATGG
Found at i:4485847 original size:20 final size:20
Alignment explanation
Indices: 4485784--4485850 Score: 84
Period size: 20 Copynumber: 3.3 Consensus size: 20
4485774 TTGGCTAGAA
4485784 GTATCGATACTCATACAATGG
1 GTATCGATACTCA-ACAATGG
4485805 GTATCGATA-TCATACAATGG
1 GTATCGATACTCA-ACAATGG
*
4485825 GTATCGATACTC-ACAAGGCG
1 GTATCGATACTCAACAATG-G
4485845 GTATCG
1 GTATCG
4485851 GTGTCAAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
19 5 0.12
20 27 0.63
21 11 0.26
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (20 bp):
GTATCGATACTCAACAATGG
Found at i:4488683 original size:10 final size:10
Alignment explanation
Indices: 4488668--4488695 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
4488658 TGTTATGGCA
4488668 AAATGTATGG
1 AAATGTATGG
4488678 AAATGTATGG
1 AAATGTATGG
4488688 AAATGTAT
1 AAATGTAT
4488696 TGGCAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.25, T:0.32
Consensus pattern (10 bp):
AAATGTATGG
Found at i:4489939 original size:30 final size:31
Alignment explanation
Indices: 4489874--4489939 Score: 107
Period size: 33 Copynumber: 2.1 Consensus size: 31
4489864 TTGCTAATCC
4489874 GTATGACACATAAGGTCGTGTCCACCAAAATTT
1 GTATGACACATAAGGTCGTGTCCACC--AATTT
4489907 GTATGACACATAAGGTCGTGTCCACC-ATTT
1 GTATGACACATAAGGTCGTGTCCACCAATTT
4489937 GTA
1 GTA
4489940 CTAGGTATCC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
30 7 0.21
33 26 0.79
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (31 bp):
GTATGACACATAAGGTCGTGTCCACCAATTT
Found at i:4500103 original size:31 final size:31
Alignment explanation
Indices: 4500030--4500219 Score: 179
Period size: 31 Copynumber: 6.1 Consensus size: 31
4500020 AGAGTCGAGG
*
4500030 GTATACCTATGTTCTACGGAACATATGGATA
1 GTATACCTATGTTCTACGGAACATATGGACA
* * *
4500061 GAATTACCTATGTTTTTC-GAGACATATGGACA
1 GTA-TACCTATGTTCTACGGA-ACATATGGACA
4500093 GTATACCTATGTTCTACGGAACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
* *** *
4500124 GAATTACCTATG-TCTTTTGAGACATATAGACA
1 GTA-TACCTATGTTCTACGGA-ACATATGGACA
* *
4500156 GTATACTTATGTTCTAAGGAACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
* * * *
4500187 GTTTACCTAGGTTC-ATCGGAACCTATAGACA
1 GTATACCTATGTTCTA-CGGAACATATGGACA
4500218 GT
1 GT
4500220 TACTGAGGAT
Statistics
Matches: 128, Mismatches: 24, Indels: 14
0.77 0.14 0.08
Matches are distributed among these distances:
30 1 0.01
31 76 0.59
32 51 0.40
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (31 bp):
GTATACCTATGTTCTACGGAACATATGGACA
Found at i:4500108 original size:63 final size:63
Alignment explanation
Indices: 4500030--4500195 Score: 264
Period size: 63 Copynumber: 2.7 Consensus size: 63
4500020 AGAGTCGAGG
* *
4500030 GTATACCTATGTTCTACGGAACATATGGATAGAATTACCTATGT-TTTTCGAGACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTT-GAGACATATAGACA
4500093 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTTGAGACATATAGACA
1 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTTGAGACATATAGACA
* * *
4500156 GTATACTTATGTTCTAAGGAACATATGGACAG-TTTACCTA
1 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTA
4500196 GGTTCATCGG
Statistics
Matches: 97, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
62 7 0.07
63 86 0.89
64 4 0.04
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (63 bp):
GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTTGAGACATATAGACA
Found at i:4504931 original size:54 final size:54
Alignment explanation
Indices: 4504800--4505206 Score: 618
Period size: 54 Copynumber: 7.5 Consensus size: 54
4504790 TTCTATGGTT
* * * * ** *
4504800 TTGCACACGTAGTGCCAATA-AGATAATTCACAAACTCATTATGAATTAGTTGGGG
1 TTGCACACATAGTGCCAATACGGA-AATTCATAAACTTATTATGAATTTCTT-AGG
* *
4504855 TTGCACACATAGTGCCAGTACGGAAATTCATAAACCTATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
* *
4504909 ATGCAAACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
*
4504963 TTGCACACATAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
** *
4505017 TTGCACACATAGTGCCAATACATAAATTCATAAACTTATTATGAATTACTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
* *
4505071 TTACACACATAGTGCCAATACGGAAATTCATAAATTTATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
4505125 TTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
*
4505179 TTGCACACATAGTGCCCATACGGTAAAT
1 TTGCACACATAGTGCCAATACGG-AAAT
4505207 ACAATACATA
Statistics
Matches: 324, Mismatches: 26, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
54 278 0.86
55 44 0.14
56 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (54 bp):
TTGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
Found at i:4511869 original size:54 final size:54
Alignment explanation
Indices: 4511748--4512089 Score: 427
Period size: 54 Copynumber: 6.3 Consensus size: 54
4511738 GGTTTTACAA
* * * * * * *
4511748 ACATAGTGCCGATA-TAATAATTCACAAACTCATTATGAATTACGTTGGGTTACAC
1 ACATAGTGCCAATACGAA-AATTCATAAACTTATTATGAATTTC-TTAGGTTGCAC
* * * * * *
4511803 ACATAGTGCCAATACAAAAATTCAAAAACTTAATATAAATTTCTTAGGTTACGC
1 ACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCAC
* * *
4511857 ACATAGTACCAATAC-AGAAATTCATACACTTATTATAAATTTCTTAGGTTGCAC
1 ACATAGTGCCAATACGA-AAATTCATAAACTTATTATGAATTTCTTAGGTTGCAC
4511911 ACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCAC
1 ACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCAC
**
4511965 ACATAGTATCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCAC
1 ACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCAC
* * * *
4512019 ACATAATGCCAATATGGAAATTTGATAAACTTATTATGAATTTCTTAGGTTGCAC
1 ACATAGTGCCAATA-CGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCAC
*
4512074 ACATAGTGCCCATACG
1 ACATAGTGCCAATACG
4512090 GTAAATGCAA
Statistics
Matches: 254, Mismatches: 29, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.00
54 168 0.66
55 83 0.33
56 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (54 bp):
ACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCAC
Found at i:4512065 original size:163 final size:164
Alignment explanation
Indices: 4511748--4512089 Score: 447
Period size: 163 Copynumber: 2.1 Consensus size: 164
4511738 GGTTTTACAA
* * * *
4511748 ACATAGTGCCGATA-TAATAATTCACAAACTCATTATGAATTACGTTGGGTTACACACATAGTGC
1 ACATAGTGCCAATACGAATAATTCACAAACTCATTATGAATTACGTTAGGTTACACACATAGTAC
* *
4511812 CAATACAAAAATTCAAAAACTTAATATAAATTTCTTAGGTTACGCACATAGTACCAATACAGAAA
66 CAATACAAAAATTCAAAAACTTAATATAAATTTCTTAGGTTACACACATAATACCAATACAGAAA
*
4511877 TTCATACACTTATTATAAATTTCTTAGGTTGCAC
131 TTCATAAACTTATTATAAATTTCTTAGGTTGCAC
* * * * *
4511911 ACATAGTGCCAATACGAA-AATTCATAAACTTATTATGAATTTC-TTAGGTTGCACACATAGTAT
1 ACATAGTGCCAATACGAATAATTCACAAACTCATTATGAATTACGTTAGGTTACACACATAGTAC
* * * * * * **
4511974 CAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAATGCCAATATGGAAA
66 CAATACAAAAATTCAAAAACTTAATATAAATTTCTTAGGTTACACACATAATACCAATACAGAAA
* *
4512039 TTTGATAAACTTATTATGAATTTCTTAGGTTGCAC
131 -TTCATAAACTTATTATAAATTTCTTAGGTTGCAC
*
4512074 ACATAGTGCCCATACG
1 ACATAGTGCCAATACG
4512090 GTAAATGCAA
Statistics
Matches: 154, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
162 71 0.46
163 81 0.53
164 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (164 bp):
ACATAGTGCCAATACGAATAATTCACAAACTCATTATGAATTACGTTAGGTTACACACATAGTAC
CAATACAAAAATTCAAAAACTTAATATAAATTTCTTAGGTTACACACATAATACCAATACAGAAA
TTCATAAACTTATTATAAATTTCTTAGGTTGCAC
Found at i:4517858 original size:57 final size:57
Alignment explanation
Indices: 4517770--4517889 Score: 231
Period size: 57 Copynumber: 2.1 Consensus size: 57
4517760 TACATAGATT
4517770 TTTTGTTTATAACTACTCGGAAAGAAATTCTTCTTCTTCTTCCATGAGTATGACTGAA
1 TTTT-TTTATAACTACTCGGAAAGAAATTCTTCTTCTTCTTCCATGAGTATGACTGAA
4517828 TTTTTTTATAACTACTCGGAAAGAAATTCTTCTTCTTCTTCCATGAGTATGACTGAA
1 TTTTTTTATAACTACTCGGAAAGAAATTCTTCTTCTTCTTCCATGAGTATGACTGAA
4517885 TTTTT
1 TTTTT
4517890 CTTTCTTTAG
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 58 0.94
58 4 0.06
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (57 bp):
TTTTTTTATAACTACTCGGAAAGAAATTCTTCTTCTTCTTCCATGAGTATGACTGAA
Found at i:4521671 original size:20 final size:20
Alignment explanation
Indices: 4521621--4521665 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
4521611 TAGAGTTATC
**
4521621 AAGTATCGATATACAAAGGT
1 AAGTATCGATAGCCAAAGGT
*
4521641 TAGTATCGATAGCCAAAGGT
1 AAGTATCGATAGCCAAAGGT
4521661 AAGTA
1 AAGTA
4521666 CTGATATTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.24
Consensus pattern (20 bp):
AAGTATCGATAGCCAAAGGT
Found at i:4525560 original size:25 final size:25
Alignment explanation
Indices: 4525532--4525579 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
4525522 ATCAAGGGAC
4525532 TTCA-AAAACAAAAAGAAGAAAAAAA
1 TTCAGAAAACAAAAA-AAGAAAAAAA
* *
4525557 TTCAGAAAAGAACAAAAGAAAAA
1 TTCAGAAAACAAAAAAAGAAAAA
4525580 GAAGAATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.73, C:0.08, G:0.10, T:0.08
Consensus pattern (25 bp):
TTCAGAAAACAAAAAAAGAAAAAAA
Found at i:4531077 original size:25 final size:25
Alignment explanation
Indices: 4531049--4531113 Score: 130
Period size: 25 Copynumber: 2.6 Consensus size: 25
4531039 ACCACATGAG
4531049 TAGTATCGGTACTACAACATAACCA
1 TAGTATCGGTACTACAACATAACCA
4531074 TAGTATCGGTACTACAACATAACCA
1 TAGTATCGGTACTACAACATAACCA
4531099 TAGTATCGGTACTAC
1 TAGTATCGGTACTAC
4531114 TATGTTGCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (25 bp):
TAGTATCGGTACTACAACATAACCA
Found at i:4534751 original size:22 final size:22
Alignment explanation
Indices: 4534726--4534770 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
4534716 AAGTGTTTTT
*
4534726 TTGCTTTCGAATAGTAAAATAA
1 TTGCTTTCGAATAGGAAAATAA
*
4534748 TTGCTTTCTAATAGGAAAATAA
1 TTGCTTTCGAATAGGAAAATAA
4534770 T
1 T
4534771 ACCTTCTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (22 bp):
TTGCTTTCGAATAGGAAAATAA
Found at i:4538303 original size:44 final size:44
Alignment explanation
Indices: 4538247--4538407 Score: 164
Period size: 44 Copynumber: 3.7 Consensus size: 44
4538237 ACTAACCTTT
*
4538247 AGCGGCGTTTGTATACTAAAAACGTCC-CTATATACCAGATCATC
1 AGCGGCGTTTGTATCCTAAAAACG-CCGCTATATACCAGATCATC
* * *
4538291 AGCGGCGTTTGTATCCT-AAAATGCCGCTATATACCAGATCTTT
1 AGCGGCGTTTGTATCCTAAAAACGCCGCTATATACCAGATCATC
* ** * * ** *
4538334 ATCTTCGTTTTTATCCTAAAAACGCCGCTATATACCAAATTTTT
1 AGCGGCGTTTGTATCCTAAAAACGCCGCTATATACCAGATCATC
* * *
4538378 AGCGGCGTTTTTATCTTAAAAACACCGCTA
1 AGCGGCGTTTGTATCCTAAAAACGCCGCTA
4538408 AATGTCAAAA
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
42 2 0.02
43 33 0.33
44 64 0.65
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (44 bp):
AGCGGCGTTTGTATCCTAAAAACGCCGCTATATACCAGATCATC
Found at i:4538321 original size:43 final size:44
Alignment explanation
Indices: 4538135--4538407 Score: 200
Period size: 43 Copynumber: 6.3 Consensus size: 44
4538125 TTTGTTACAA
* * * *
4538135 AAAAACGCCGCAATATATCATA-CATTTAGCGGCGTTTATAT-C-
1 AAAAACGCCGCTATATACCAGATC-TTTAGCGGCGTTTGTATCCT
* * ** * * * **
4538177 AAAACACGCCGCAAAATATTACATCTATAGCGGCGTTT-TTTGTT
1 AAAA-ACGCCGCTATATACCAGATCTTTAGCGGCGTTTGTATCCT
* * * * *
4538221 ACAAACGCTGCTATATACTA-ACCTTTAGCGGCGTTTGTATACT
1 AAAAACGCCGCTATATACCAGATCTTTAGCGGCGTTTGTATCCT
* *
4538264 AAAAACGTCC-CTATATACCAGATCATCAGCGGCGTTTGTATCCT
1 AAAAACG-CCGCTATATACCAGATCTTTAGCGGCGTTTGTATCCT
* * ** *
4538308 -AAAATGCCGCTATATACCAGATCTTTATCTTCGTTTTTATCCT
1 AAAAACGCCGCTATATACCAGATCTTTAGCGGCGTTTGTATCCT
* * * *
4538351 AAAAACGCCGCTATATACCAAATTTTTAGCGGCGTTTTTATCTT
1 AAAAACGCCGCTATATACCAGATCTTTAGCGGCGTTTGTATCCT
*
4538395 AAAAACACCGCTA
1 AAAAACGCCGCTA
4538408 AATGTCAAAA
Statistics
Matches: 184, Mismatches: 38, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
42 22 0.12
43 90 0.49
44 72 0.39
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (44 bp):
AAAAACGCCGCTATATACCAGATCTTTAGCGGCGTTTGTATCCT
Found at i:4538495 original size:85 final size:85
Alignment explanation
Indices: 4538396--4538556 Score: 286
Period size: 85 Copynumber: 1.9 Consensus size: 85
4538386 TTTTATCTTA
* *
4538396 AAAACACCGCTAAATGTCAAAACCTATTGCGGCATTTTTAATACAAACGTCGCTAAATGTCAAAA
1 AAAACACCGCTAAATGTCAAAACCTATTGCGGCATTTTTAACACAAACGCCGCTAAATGTCAAAA
4538461 TATATTGCGGCATTTTTAAG
66 TATATTGCGGCATTTTTAAG
*
4538481 AAAACGCCGCTAAATGTCAAAACCTATTGCGGCATTTTTAACACAAACGCCGCTAAATGTCAAAA
1 AAAACACCGCTAAATGTCAAAACCTATTGCGGCATTTTTAACACAAACGCCGCTAAATGTCAAAA
*
4538546 TCTATTGCGGC
66 TATATTGCGGC
4538557 GTTTAATATC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 72 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.27
Consensus pattern (85 bp):
AAAACACCGCTAAATGTCAAAACCTATTGCGGCATTTTTAACACAAACGCCGCTAAATGTCAAAA
TATATTGCGGCATTTTTAAG
Found at i:4538499 original size:42 final size:43
Alignment explanation
Indices: 4538397--4538556 Score: 250
Period size: 43 Copynumber: 3.7 Consensus size: 43
4538387 TTTATCTTAA
* *
4538397 AAACACCGCTAAATGTCAAAACCTATTGCGGCATTTTTAATAC
1 AAACGCCGCTAAATGTCAAAACCTATTGCGGCATTTTTAACAC
* ** *
4538440 AAACGTCGCTAAATGTCAAAATATATTGCGGCATTTTTAAGA-
1 AAACGCCGCTAAATGTCAAAACCTATTGCGGCATTTTTAACAC
4538482 AAACGCCGCTAAATGTCAAAACCTATTGCGGCATTTTTAACAC
1 AAACGCCGCTAAATGTCAAAACCTATTGCGGCATTTTTAACAC
*
4538525 AAACGCCGCTAAATGTCAAAATCTATTGCGGC
1 AAACGCCGCTAAATGTCAAAACCTATTGCGGC
4538557 GTTTAATATC
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 38 0.36
43 68 0.64
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAATGTCAAAACCTATTGCGGCATTTTTAACAC
Found at i:4539314 original size:54 final size:54
Alignment explanation
Indices: 4539248--4539359 Score: 179
Period size: 54 Copynumber: 2.1 Consensus size: 54
4539238 AGCTTTGTAA
* *
4539248 CCTAGGTGGGACAAGGAATATCCTTGATGAATTATTAAGACAAGAGAACAAAAG
1 CCTAAGTGGGACAAGGAATATCCTTGATGAATTATTAAGACAAGAGAAAAAAAG
* * *
4539302 CCTAAGTGGGACAAGGAATATCCTTTATGAATTATTATGACAAGAGAAAAAAAT
1 CCTAAGTGGGACAAGGAATATCCTTGATGAATTATTAAGACAAGAGAAAAAAAG
4539356 CCTA
1 CCTA
4539360 TAAGGTTGTC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (54 bp):
CCTAAGTGGGACAAGGAATATCCTTGATGAATTATTAAGACAAGAGAAAAAAAG
Found at i:4541875 original size:2 final size:2
Alignment explanation
Indices: 4541868--4541906 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4541858 TATAATCTTC
4541868 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4541907 TACAAGAGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4542779 original size:31 final size:29
Alignment explanation
Indices: 4542732--4542803 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 29
4542722 GTTAATAATT
* **
4542732 AGATTAAAATTATTAAATCTAAAAAAGTAAAG
1 AGATT-AAATTCTTAAAAATAAAAAA--AAAG
*
4542764 AGATTAAATTCTTAAAAATAAAAAAATAG
1 AGATTAAATTCTTAAAAATAAAAAAAAAG
4542793 AGATTAAATTC
1 AGATTAAATTC
4542804 CAAAGAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 14 0.39
31 17 0.47
32 5 0.14
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.29
Consensus pattern (29 bp):
AGATTAAATTCTTAAAAATAAAAAAAAAG
Found at i:4545793 original size:17 final size:17
Alignment explanation
Indices: 4545771--4545810 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
4545761 CCCACTAAAA
4545771 ATTTTAAA-ACTTCTTAT
1 ATTTTAAATA-TTCTTAT
*
4545788 ATTTTAAATATTTTTAT
1 ATTTTAAATATTCTTAT
4545805 ATTTTA
1 ATTTTA
4545811 TATAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 20 0.95
18 1 0.05
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTAAATATTCTTAT
Found at i:4546599 original size:15 final size:15
Alignment explanation
Indices: 4546579--4546612 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4546569 TTCAATGCTA
* *
4546579 AACGGTTTAGTAATT
1 AACGGTTCAATAATT
4546594 AACGGTTCAATAATT
1 AACGGTTCAATAATT
4546609 AACG
1 AACG
4546613 CTAAATGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (15 bp):
AACGGTTCAATAATT
Found at i:4548456 original size:67 final size:67
Alignment explanation
Indices: 4548348--4548480 Score: 230
Period size: 67 Copynumber: 2.0 Consensus size: 67
4548338 AACAGTTTCG
4548348 TACTGCCATCAACGTCCAGTTCATCATGGAAATCTTGCAGCCAGTACACTTCATGATGTTTAAAT
1 TACTGCCATCAACGTCCAGTTCATCATGGAAATCTTGCAGCCAGTACACTTCATGATGTTTAAAT
4548413 CA
66 CA
* * * *
4548415 TACTGCCATCAATGTCTAGTTCATCATGGAAATCTTGCAGCCAGTGCAGTTCATGATGTTTAAAT
1 TACTGCCATCAACGTCCAGTTCATCATGGAAATCTTGCAGCCAGTACACTTCATGATGTTTAAAT
4548480 C
66 C
4548481 CAGTCATGCT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.32
Consensus pattern (67 bp):
TACTGCCATCAACGTCCAGTTCATCATGGAAATCTTGCAGCCAGTACACTTCATGATGTTTAAAT
CA
Found at i:4548468 original size:30 final size:30
Alignment explanation
Indices: 4548364--4548468 Score: 77
Period size: 30 Copynumber: 3.3 Consensus size: 30
4548354 CATCAACGTC
*
4548364 CAGTTCATCATGGAAATCTTGCAGCCAGTA
1 CAGTTCATCATGGAAATCTTGCAGCCAGTG
* * * * *
4548394 CACTTCATGATGTTTAAATCATACTGCCA-TCAATG
1 CAGTTCATCATG--GAAATC-T--TG-CAGCCAGTG
4548429 TCTAGTTCATCATGGAAATCTTGCAGCCAGTG
1 -C-AGTTCATCATGGAAATCTTGCAGCCAGTG
4548461 CAGTTCAT
1 CAGTTCAT
4548469 GATGTTTAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 18
0.65 0.13 0.21
Matches are distributed among these distances:
30 17 0.31
31 3 0.05
32 11 0.20
33 1 0.02
34 1 0.02
35 10 0.18
36 3 0.05
37 9 0.16
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (30 bp):
CAGTTCATCATGGAAATCTTGCAGCCAGTG
Found at i:4560163 original size:190 final size:190
Alignment explanation
Indices: 4559840--4560220 Score: 744
Period size: 190 Copynumber: 2.0 Consensus size: 190
4559830 TGTCTTAAGG
*
4559840 TGTGTTCTTCGGGTTCGGAGGAGATTCATTTTTGGAAGAACATCATTTGGAGGGGACTGATGCCT
1 TGTGTTCTTCGGGTTCGGAGGAGATTCATTTTTGGAAGAACATCATTTGGAGGGGACTAATGCCT
*
4559905 CCTAAAGTGGAGTCTTTTATGTGGCAAGTTGTCCTTCAAAAGCTGACAGTAAAAATAGAATTGGC
66 CCTAAAGTGGAGTCTTTTATGTGGCAAGTTGTCCATCAAAAGCTGACAGTAAAAATAGAATTGGC
4559970 TAAAAGAGGGGTTTTGAGAAATGAAGATGTTTTATGCCCACTCTGTAGTTGGAGGAATCT
131 TAAAAGAGGGGTTTTGAGAAATGAAGATGTTTTATGCCCACTCTGTAGTTGGAGGAATCT
4560030 TGTGTTCTTCGGGTTCGGAGGAGATTCATTTTTGGAAGAACATCATTTGGAGGGGACTAATGCCT
1 TGTGTTCTTCGGGTTCGGAGGAGATTCATTTTTGGAAGAACATCATTTGGAGGGGACTAATGCCT
4560095 CCTAAAGTGGAGTCTTTTATGTGGCAAGTTGTCCATCAAAAGCTGACAGTAAAAATAGAATTGGC
66 CCTAAAGTGGAGTCTTTTATGTGGCAAGTTGTCCATCAAAAGCTGACAGTAAAAATAGAATTGGC
4560160 TAAAAGAGGGGTTTTGAGAAATGAAGATGTTTTATGCCCACTCTGTAGTTGGAGGAATCT
131 TAAAAGAGGGGTTTTGAGAAATGAAGATGTTTTATGCCCACTCTGTAGTTGGAGGAATCT
4560220 T
1 T
4560221 CCTCACATTT
Statistics
Matches: 189, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
190 189 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (190 bp):
TGTGTTCTTCGGGTTCGGAGGAGATTCATTTTTGGAAGAACATCATTTGGAGGGGACTAATGCCT
CCTAAAGTGGAGTCTTTTATGTGGCAAGTTGTCCATCAAAAGCTGACAGTAAAAATAGAATTGGC
TAAAAGAGGGGTTTTGAGAAATGAAGATGTTTTATGCCCACTCTGTAGTTGGAGGAATCT
Found at i:4561671 original size:40 final size:40
Alignment explanation
Indices: 4561616--4561733 Score: 236
Period size: 40 Copynumber: 3.0 Consensus size: 40
4561606 GATTTTAAAA
4561616 GTTATATCTTATTTCGTAAACCCTAGAGAGTTTGATGATT
1 GTTATATCTTATTTCGTAAACCCTAGAGAGTTTGATGATT
4561656 GTTATATCTTATTTCGTAAACCCTAGAGAGTTTGATGATT
1 GTTATATCTTATTTCGTAAACCCTAGAGAGTTTGATGATT
4561696 GTTATATCTTATTTCGTAAACCCTAGAGAGTTTGATGA
1 GTTATATCTTATTTCGTAAACCCTAGAGAGTTTGATGA
4561734 CTAACTTTGT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.42
Consensus pattern (40 bp):
GTTATATCTTATTTCGTAAACCCTAGAGAGTTTGATGATT
Found at i:4562035 original size:21 final size:21
Alignment explanation
Indices: 4562002--4562045 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4561992 AATATATATA
4562002 TATTATATTTTATTATTTATT
1 TATTATATTTTATTATTTATT
*
4562023 TATT-TATTATTATTATTTTTT
1 TATTATATT-TTATTATTTATT
4562044 TA
1 TA
4562046 GGCCCCATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (21 bp):
TATTATATTTTATTATTTATT
Found at i:4564164 original size:38 final size:37
Alignment explanation
Indices: 4564104--4564176 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 37
4564094 GTTTGAAATT
*
4564104 AGCATGCGGGATAGAGAGCATGTCTGGGTAGGAATTAA
1 AGCATGCGGGATAGAGAGCATGT-GGGGTAGGAATTAA
* * * *
4564142 AGCATGTGGGGTAGATATCATGTGGGGTAGGAATT
1 AGCATGCGGGATAGAGAGCATGTGGGGTAGGAATT
4564177 TTTATTTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 11 0.37
38 19 0.63
ACGTcount: A:0.29, C:0.08, G:0.38, T:0.25
Consensus pattern (37 bp):
AGCATGCGGGATAGAGAGCATGTGGGGTAGGAATTAA
Found at i:4564252 original size:20 final size:21
Alignment explanation
Indices: 4564222--4564268 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
4564212 TCTTACTAAC
*
4564222 ATTTTTCCTTTAATTT-TTATT
1 ATTTTTACTTT-ATTTATTATT
4564243 -TTTTTACTTTATTTATTATT
1 ATTTTTACTTTATTTATTATT
4564263 ATTTTT
1 ATTTTT
4564269 TTATTTTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 4 0.17
20 14 0.61
21 5 0.22
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (21 bp):
ATTTTTACTTTATTTATTATT
Found at i:4567434 original size:36 final size:35
Alignment explanation
Indices: 4567381--4567778 Score: 382
Period size: 36 Copynumber: 11.1 Consensus size: 35
4567371 AATTTACTCA
*
4567381 AAACAAAGTTTTGTCTCTCTTGAGAAAGTTTCTCTTT
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTC-CTTT
**
4567418 AAA-AAACAATTGTCTCTCTTGAGACAGTTTCCTTTT
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCC-TTT
* *
4567454 AAACAAATTTTGTCTCTCTCGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTT-CCTTT
* *
4567490 AAACAAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTC-CTTT
4567527 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCTTT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCTTT
* *
4567562 GAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 -AAACAAATTTTGTCTCTCTTGAGACAGTTT-CCTTT
* * * *
4567599 AAATAAA------ATCT-TTGA-ATCTGTTTTCCTTG
1 AAACAAATTTTGTCTCTCTTGAGA-CAG-TTTCCTTT
* * * *
4567628 GAACAAATTTTGTCTCCCTTGAGACAATTTCTTTT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCTTT
* * *
4567663 AGAACTAAGTTTTGTCTCTCTTAAGACAGTTTCTCTTA
1 A-AAC-AAATTTTGTCTCTCTTGAGACAGTTTC-CTTT
*
4567701 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTT-CCTTT
*
4567737 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTC-CTTT
4567774 AAACA
1 AAACA
4567779 CCAATCTTTG
Statistics
Matches: 304, Mismatches: 34, Indels: 46
0.79 0.09 0.12
Matches are distributed among these distances:
28 1 0.00
29 16 0.05
30 6 0.02
35 12 0.04
36 162 0.53
37 104 0.34
38 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (35 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCCTTT
Found at i:4567441 original size:73 final size:70
Alignment explanation
Indices: 4567356--4567778 Score: 289
Period size: 73 Copynumber: 5.9 Consensus size: 70
4567346 ACAAGGGGTC
* * *
4567356 GTCTCGCTTGAGACTAATTTACTCAAAACAAAGTTTTGTCTCTCTTGAGAAAGTTTCTCTTTAAA
1 GTCTCTCTTGAGACTAGTTT-CTCAAAACAAA-TTTTGTCTCTCTTGAGACAGTTTC-CTTTAAA
**
4567421 -AAACAATT
63 CAAA-TTTT
** * *
4567429 GTCTCTCTTGAGAC-AGTTTCCTTTTAAACAAATTTTGTCTCTCTCGAGACAGTTTCCCTTGAAA
1 GTCTCTCTTGAGACTAGTTT-C-TCAAAACAAATTTTGTCTCTCTTGAGACAGTTT-CCTTTAAA
4567493 CAAAGTTTT
63 CAAA-TTTT
*
4567502 GTCTCTCTTGAGA-TAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCTTTGAAA
1 GTCTCTCTTGAGACTAGTTTCTC--AAAACAAATTTTGTCTCTCTTGAGACAGTTTCCTTT-AAA
*
4567566 TAAATTTT
63 CAAATTTT
** * * * **
4567574 GTCTCTCTTGAGAC-AGTTTCCCTTGAAATAAA------ATCT-TTGA-ATCTGTTTTCCTTGGA
1 GTCTCTCTTGAGACTAGTTT--CTCAAAACAAATTTTGTCTCTCTTGAGA-CAG-TTTCCTTTAA
4567630 ACAAATTTT
62 ACAAATTTT
* * * * * * *
4567639 GTCTCCCTTGAGAC-AATTTCTTTTAGAACTAAGTTTTGTCTCTCTTAAGACAGTTTCTCTTAAA
1 GTCTCTCTTGAGACTAGTTTC--TCAAAAC-AAATTTTGTCTCTCTTGAGACAGTTTC-CTTTAA
4567703 ACAAATTTT
62 ACAAATTTT
** *
4567712 GTCTCTCTTGAGAC-AGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAA
1 GTCTCTCTTGAGACTAGTTT--CTCAAAACAAA-TTTTGTCTCTCTTGAGACAGTTTC-CTTTAA
4567776 ACA
62 ACA
4567779 CCAATCTTTG
Statistics
Matches: 282, Mismatches: 41, Indels: 54
0.75 0.11 0.14
Matches are distributed among these distances:
63 1 0.00
64 1 0.00
65 36 0.13
66 12 0.04
71 1 0.00
72 75 0.27
73 152 0.54
74 3 0.01
75 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (70 bp):
GTCTCTCTTGAGACTAGTTTCTCAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCTTTAAACAA
ATTTT
Found at i:4567545 original size:21 final size:21
Alignment explanation
Indices: 4567520--4567584 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
4567510 TGAGATAGTT
4567520 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
* *
4567541 TCTCTTGAGAC--A-GTT-TC
1 TCTCTTGAAACAAATTTTGTC
*
4567558 -CT-TTGAAATAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
4567577 TCTCTTGA
1 TCTCTTGA
4567585 GACAGTTTCC
Statistics
Matches: 33, Mismatches: 5, Indels: 12
0.66 0.10 0.24
Matches are distributed among these distances:
15 5 0.15
16 2 0.06
17 3 0.09
18 4 0.12
19 3 0.09
20 2 0.06
21 14 0.42
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:4567547 original size:109 final size:110
Alignment explanation
Indices: 4567381--4567768 Score: 462
Period size: 109 Copynumber: 3.6 Consensus size: 110
4567371 AATTTACTCA
* * **
4567381 AAACAAAGTTTTGTCTCTCTTGAGAAAGTTTCTCTTTAAA-AAACAATTGTCTCTCTTGAGACAG
1 AAACAAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAACTTTTGTCTCTCTTGAGACAG
*
4567445 TTTCCTTTTAAACAAATTTTGTCTCTCTCGAGACAGTTTCCCTTG
66 TTTCCTTTTAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
4567490 AAACAAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAA-TTTTGTCTCTCTTGAGACAG
1 AAACAAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAACTTTTGTCTCTCTTGAGACAG
* *
4567554 TTTCCTTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
66 TTTCCTTTTAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* * ** * *
4567599 AAATAAAATCTTTG--AATC-T--G-T--TTTC-CTTGGAACAAA-TTTTGTCTCCCTTGAGACA
1 AAACAAAGT-TTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAACTTTTGTCTCTCTTGAGACA
* * * * *
4567654 ATTT-CTTTTAGAACTAAGTTTTGTCTCTCTTAAGACAGTTTCTCTTA
65 GTTTCCTTTTA-AAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* * *
4567701 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAG
1 AAACAAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAACTTTTGTCTCTCTTGAGACAG
4567765 TTTC
66 TTTC
4567769 TCTTGAAACA
Statistics
Matches: 237, Mismatches: 27, Indels: 28
0.81 0.09 0.10
Matches are distributed among these distances:
100 9 0.04
101 34 0.14
102 40 0.17
103 1 0.00
104 1 0.00
105 2 0.01
107 1 0.00
108 6 0.03
109 115 0.49
110 28 0.12
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (110 bp):
AAACAAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAACTTTTGTCTCTCTTGAGACAG
TTTCCTTTTAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
Found at i:4567695 original size:138 final size:138
Alignment explanation
Indices: 4567356--4567739 Score: 388
Period size: 138 Copynumber: 2.7 Consensus size: 138
4567346 ACAAGGGGTC
* * * *
4567356 GTCTCGCTTGAGACTAATTTACTC--AAAACAAAGTTTTGTCTCTCTTGAGAAAGTTTCTCTTTA
1 GTCTCCCTTGAGAC-AATTT-CTCTTGAAACAAA-TTTTGTCTCTCTTAAGACAGTTTCTC-TTA
* * * * * *
4567419 AAA-AACA-ATTGTCTCTCTTGAGACAGTTTCCTTTTAAACAAATTTTGTCTCTCTCGAGA-CAG
62 AAACAA-ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAA----ATCT-T-T-GA-ATCTG
4567481 TTTCCCTTGAAACAAAGTTTT
118 TTTCCCTTGAAACAAAGTTTT
* * * * *
4567502 GTCTCTCTTGAGATAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC-CTTTGAAA
1 GTCTCCCTTGAGACAATTTCTCTTGAAACAAATTTTGTCTCTCTTAAGACAGTTTCTC-TTAAAA
* * *
4567566 TAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAAATCTTTGAATCTGTTTTCCTTGGAA
65 CAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAAATCTTTGAATCTGTTTCCCTTGAAA
4567631 CAAA-TTTT
130 CAAAGTTTT
* *
4567639 GTCTCCCTTGAGACAATTTCT-TTTAGAACTAAGTTTTGTCTCTCTTAAGACAGTTTCTCTTAAA
1 GTCTCCCTTGAGACAATTTCTCTTGA-AAC-AAATTTTGTCTCTCTTAAGACAGTTTCTCTTAAA
4567703 ACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAA
64 ACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAA
4567740 CAAAGTTTTG
Statistics
Matches: 208, Mismatches: 22, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
136 3 0.01
137 26 0.12
138 83 0.40
139 2 0.01
140 1 0.00
141 3 0.01
144 11 0.05
145 60 0.29
146 19 0.09
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (138 bp):
GTCTCCCTTGAGACAATTTCTCTTGAAACAAATTTTGTCTCTCTTAAGACAGTTTCTCTTAAAAC
AAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAAATCTTTGAATCTGTTTCCCTTGAAAC
AAAGTTTT
Found at i:4567841 original size:67 final size:68
Alignment explanation
Indices: 4567727--4568049 Score: 302
Period size: 67 Copynumber: 4.7 Consensus size: 68
4567717 TCTTGAGACA
* * * *
4567727 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAC-CAATCTTTGAA
1 GTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAACCTTTGAA
4567791 TAT
66 TAT
** *
4567794 GTTTTTCTTGAAACAAAATTTTGCCTCCCTTGAGACAGTTTCTCTTGAAACACAAAAAGAAACCT
1 GTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAC----A-AAACCT
4567859 TTGAA-ATT
61 TTGAATA-T
***** * *
4567867 GTTTCCCTTGAAACACAAA---AAAAACCTTTGA-AAATGTTTCTCTTGAAACACAAAACCTTTG
1 GTTTCCCTTGAAACA-AAATTTTGTCTCCCTTGAGACA-GTTTCTCTTGAAACACAAAACCTTTG
4567928 AGAT-T
64 A-ATAT
* * *
4567933 GTTTCCCTTGAAAC-AAATTTTGTCTCCCTTAAGACAGTTTCTCTTGAAACAAAAAATCTTTGAA
1 GTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAACCTTTGAA
*
4567997 TTT
66 TAT
* * * * *
4568000 ATTTCCCTTAAAACAAAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAA
1 GTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAA
4568050 AAACAAATAT
Statistics
Matches: 207, Mismatches: 32, Indels: 33
0.76 0.12 0.12
Matches are distributed among these distances:
64 3 0.01
66 27 0.13
67 93 0.45
68 33 0.16
70 2 0.01
71 22 0.11
72 1 0.00
73 23 0.11
74 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (68 bp):
GTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAACCTTTGAA
TAT
Found at i:4567899 original size:35 final size:35
Alignment explanation
Indices: 4567831--4567947 Score: 161
Period size: 35 Copynumber: 3.4 Consensus size: 35
4567821 CCTTGAGACA
*
4567831 GTTTCTCTTGAAACACAAAAAGAAACCTTTGAAATT
1 GTTTCCCTTGAAACACAAAAA-AAACCTTTGAAATT
*
4567867 GTTTCCCTTGAAACACAAAAAAAACCTTTGAAAAT
1 GTTTCCCTTGAAACACAAAAAAAACCTTTGAAATT
* *
4567902 GTTTCTCTTGAAACAC----AAAACCTTTGAGATT
1 GTTTCCCTTGAAACACAAAAAAAACCTTTGAAATT
4567933 GTTTCCCTTGAAACA
1 GTTTCCCTTGAAACA
4567948 AATTTTGTCT
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
31 27 0.36
35 28 0.37
36 20 0.27
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (35 bp):
GTTTCCCTTGAAACACAAAAAAAACCTTTGAAATT
Found at i:4570960 original size:91 final size:91
Alignment explanation
Indices: 4570840--4571052 Score: 250
Period size: 91 Copynumber: 2.3 Consensus size: 91
4570830 GTAACCATGC
* * * * *
4570840 AAATAAGCTTATGAGCTTACGGAATAATGGCAAGTATATTGGAAAAATAAGCTTATGAGCTTATG
1 AAATAAGCTTACGAGCTTATGGAAAAATGGCAAATATATTGGAAAAATAAGCTTACGAGCTTATG
*
4570905 GTA-TTAAATGGTAAATATATTGGTAA
66 GAATTTAAATGGTAAATATATTGGT-A
* * **
4570931 AAATAAGCTTA-GAGCTTATTGAACAAATGGTAAATATATTGTTAAAATAAGCTTACGAGCTTAT
1 AAATAAGCTTACGAGCTTATGGAA-AAATGGCAAATATATTGGAAAAATAAGCTTACGAGCTTAT
** *
4570995 GGAATTTAAATGGTACGTATTTTGGTA
65 GGAATTTAAATGGTAAATATATTGGTA
* *
4571022 AAATAAGCTTACAAGCTTATGGGATAAATGG
1 AAATAAGCTTACGAGCTTAT-GGAAAAATGG
4571053 TAAGAGATTT
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
90 10 0.10
91 60 0.58
92 31 0.30
93 2 0.02
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (91 bp):
AAATAAGCTTACGAGCTTATGGAAAAATGGCAAATATATTGGAAAAATAAGCTTACGAGCTTATG
GAATTTAAATGGTAAATATATTGGTA
Found at i:4571024 original size:47 final size:45
Alignment explanation
Indices: 4570840--4571055 Score: 247
Period size: 47 Copynumber: 4.8 Consensus size: 45
4570830 GTAACCATGC
* * * * *
4570840 AAATAAGCTTATGAGCTTACGGAAT-AATGGCAAGTATATTGGAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAATATATTGGTA
* *
4570884 AAATAAGCTTATGAGCTTATGGTATTAAATGGTAAATATATTGGTAA
1 AAATAAGCTTACGAGCTTATGG-AATAAATGGTAAATATATTGGT-A
* * *
4570931 AAATAAGCTTA-GAGCTTATTGAACAAATGGTAAATATATTGTTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAATATATTGGTA
** *
4570975 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTACGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAATATATTGGTA
* *
4571022 AAATAAGCTTACAAGCTTATGGGATAAATGGTAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAA
4571056 GAGATTTTAT
Statistics
Matches: 148, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
44 33 0.22
45 41 0.28
46 24 0.16
47 50 0.34
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.32
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAATATATTGGTA
Found at i:4571871 original size:3 final size:3
Alignment explanation
Indices: 4571856--4571899 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
4571846 CTACAAAAAA
4571856 ATT A-T ATT A-T ATT ATT ATTT ATT ATT ATT ATT ATT ATTT ATT AT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT A-TT ATT AT
4571900 CTTTTTGGCC
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 4 0.11
3 27 0.73
4 6 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4571878 original size:10 final size:10
Alignment explanation
Indices: 4571856--4571899 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
4571846 CTACAAAAAA
4571856 ATTA-TATTAT
1 ATTATTATT-T
4571866 ATTATTATTT
1 ATTATTATTT
4571876 ATTATTA-TT
1 ATTATTATTT
4571885 ATTATTATTT
1 ATTATTATTT
4571895 ATTAT
1 ATTAT
4571900 CTTTTTGGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.28
10 19 0.59
11 4 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
ATTATTATTT
Found at i:4571881 original size:13 final size:13
Alignment explanation
Indices: 4571856--4571899 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
4571846 CTACAAAAAA
4571856 ATTATATTA-TATT
1 ATTAT-TTATTATT
4571869 ATTATTTATTATT
1 ATTATTTATTATT
4571882 ATTA-TTATTATTT
1 ATTATTTATTA-TT
4571895 ATTAT
1 ATTAT
4571900 CTTTTTGGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.32
13 19 0.68
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTATTTATTATT
Found at i:4571886 original size:16 final size:15
Alignment explanation
Indices: 4571856--4571899 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
4571846 CTACAAAAAA
4571856 ATTA-TATTA-TATT
1 ATTATTATTATTATT
4571869 ATTATTTATTATTATT
1 ATTA-TTATTATTATT
4571885 ATTATTATTTATTAT
1 ATTATTA-TTATTAT
4571900 CTTTTTGGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 4 0.15
15 8 0.30
16 15 0.56
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTATTATTATTATT
Found at i:4571889 original size:19 final size:18
Alignment explanation
Indices: 4571860--4571899 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
4571850 AAAAAAATTA
4571860 TATTATATTATTATTTAT
1 TATTATATTATTATTTAT
4571878 TATTATTATTATTATTTAT
1 TATTA-TATTATTATTTAT
4571897 TAT
1 TAT
4571900 CTTTTTGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATATTATTATTTAT
Found at i:4574363 original size:15 final size:15
Alignment explanation
Indices: 4574343--4574378 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4574333 ATATATATAA
* *
4574343 TATTCGAGTATGTGT
1 TATTCGAATATATGT
4574358 TATTCGAATATATGT
1 TATTCGAATATATGT
4574373 TATTCG
1 TATTCG
4574379 GATCGGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.25, C:0.08, G:0.19, T:0.47
Consensus pattern (15 bp):
TATTCGAATATATGT
Found at i:4575261 original size:20 final size:21
Alignment explanation
Indices: 4575236--4575287 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
4575226 TTTTCCCAAT
*
4575236 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
4575256 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
4575277 TCGCAATGCGA
1 TCGCAATGCGA
4575288 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:4575301 original size:20 final size:20
Alignment explanation
Indices: 4575276--4575410 Score: 130
Period size: 20 Copynumber: 6.7 Consensus size: 20
4575266 AATTGGGAAA
4575276 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
4575296 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
4575316 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
4575337 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
4575357 TTCGCAATGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
4575377 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
4575397 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
4575411 TTTCAAAGCG
Statistics
Matches: 94, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
19 4 0.04
20 64 0.68
21 24 0.26
22 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:4575320 original size:61 final size:61
Alignment explanation
Indices: 4575273--4575404 Score: 192
Period size: 61 Copynumber: 2.2 Consensus size: 61
4575263 GCGAATTGGG
* * * *
4575273 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
* * *
4575334 AAAATCGCAACGAGATACTGACTTTCGCAATGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
*
4575395 ATAATCGCAA
1 AAAATCGCAA
4575405 TGCGATTTTC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
Found at i:4575599 original size:22 final size:22
Alignment explanation
Indices: 4575571--4575614 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4575561 CACTCTCTCA
4575571 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
* *
4575593 CCCATCTCTGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
4575615 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:4575885 original size:20 final size:20
Alignment explanation
Indices: 4575860--4575897 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
4575850 CGATTTTAGT
4575860 TTCGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
4575880 TTCGCGTTGCGATAGTCA
1 TTCGCGTTGCGATAGTCA
4575898 TTTTCGTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCAAA
Found at i:4575903 original size:20 final size:20
Alignment explanation
Indices: 4575859--4575909 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
4575849 GCGATTTTAG
4575859 TTTCGCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATAGTCAA
* *
4575879 ATTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAA
*
4575899 TTTCGTGTTGC
1 TTTCGCGTTGC
4575910 AATTTTCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.39
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAA
Found at i:4576113 original size:25 final size:24
Alignment explanation
Indices: 4576059--4576113 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
4576049 TGTTTATTAT
* *
4576059 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
4576083 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
4576109 TGTTT
1 TGTTT
4576114 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:4577256 original size:18 final size:18
Alignment explanation
Indices: 4577235--4577279 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
4577225 TCCACTTCGG
*
4577235 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
4577253 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
4577271 GAGCCATCA
1 GAGCCATCA
4577280 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:4577809 original size:19 final size:20
Alignment explanation
Indices: 4577755--4577821 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
4577745 TAGTTTACTT
* *
4577755 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
4577775 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
4577795 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
4577814 TCGCAACG
1 TCGCAACG
4577822 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:4577848 original size:19 final size:19
Alignment explanation
Indices: 4577755--4577857 Score: 72
Period size: 19 Copynumber: 5.6 Consensus size: 19
4577745 TAGTTTACTT
* **
4577755 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
4577775 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
4577795 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4577814 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
4577828 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4577847 TCGCAATGCGA
1 TCGCAACGCGA
4577858 TTTGTGTTTC
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
14 10 0.15
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 27 0.40
20 24 0.35
21 1 0.01
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:4577888 original size:14 final size:14
Alignment explanation
Indices: 4577869--4577925 Score: 60
Period size: 14 Copynumber: 3.8 Consensus size: 14
4577859 TTGTGTTTCG
*
4577869 CGTTGCAATTTTGT
1 CGTTGCGATTTTGT
*
4577883 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
4577899 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
4577915 CGTTGCGATTT
1 CGTTGCGATTT
4577926 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 19 0.53
16 8 0.22
18 9 0.25
ACGTcount: A:0.12, C:0.18, G:0.23, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:4577908 original size:18 final size:18
Alignment explanation
Indices: 4577885--4577941 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
4577875 AATTTTGTCG
4577885 TTGCGATTTCATTTCGCA
1 TTGCGATTTCATTTCGCA
*
4577903 TTGCGATTT--TGTCG--
1 TTGCGATTTCATTTCGCA
4577917 TTGCGATTTCATTTCGCA
1 TTGCGATTTCATTTCGCA
4577935 TTGCGAT
1 TTGCGAT
4577942 AGCCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 9 0.27
16 8 0.24
18 16 0.48
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.46
Consensus pattern (18 bp):
TTGCGATTTCATTTCGCA
Found at i:4577912 original size:32 final size:32
Alignment explanation
Indices: 4577864--4577941 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
4577854 GCGATTTGTG
* *
4577864 TTTCGCGTTGCAATTTTGTCGTTGCGATTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTCA
4577896 TTTCGCATTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTCA
4577928 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
4577942 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.46
Consensus pattern (32 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTCA
Found at i:4580048 original size:20 final size:20
Alignment explanation
Indices: 4580023--4580114 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
4580013 TTGAAGATGA
4580023 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
4580043 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
* **
4580063 TTGCGATTTTGTATTATCTCG
1 TTGCGATTTT-CAGAATCTCG
** * * *
4580084 TTGCGATAGTCAGTATCACA
1 TTGCGATTTTCAGAATCTCG
4580104 TTGCGATTTTC
1 TTGCGATTTTC
4580115 CAAATTCGCA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:4580128 original size:21 final size:20
Alignment explanation
Indices: 4580102--4580150 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
4580092 GTCAGTATCA
*
4580102 CATTGCGATTTTCCAAATTCG
1 CATTGCGA-TTTACAAATTCG
**
4580123 CATTGCGATTTACTTATTCG
1 CATTGCGATTTACAAATTCG
4580143 CATTGCGA
1 CATTGCGA
4580151 ATTAGGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (20 bp):
CATTGCGATTTACAAATTCG
Found at i:4580942 original size:24 final size:24
Alignment explanation
Indices: 4580915--4580968 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
4580905 GTATTCGAAA
*
4580915 TTTGATCTTGGTCAAAACCCGGAC
1 TTTGATATTGGTCAAAACCCGGAC
* *
4580939 TTTGATATTGGTCAAAACTCGGAT
1 TTTGATATTGGTCAAAACCCGGAC
4580963 TTTGAT
1 TTTGAT
4580969 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (24 bp):
TTTGATATTGGTCAAAACCCGGAC
Found at i:4583408 original size:33 final size:33
Alignment explanation
Indices: 4583366--4583492 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
4583356 GGAAATTACT
4583366 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* **
4583399 ATCGCAATGCGAAATGAAAATCGAAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
4583431 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
4583465 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
4583493 CGAATTTAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
32 1 0.01
33 81 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:4583473 original size:66 final size:66
Alignment explanation
Indices: 4583367--4583499 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
4583357 GAAATTACTA
*
4583367 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGAAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGAAACGCGAAT
4583432 T
66 T
* *
4583433 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGAAACGCGAAT
4583498 T
66 T
4583499 T
1 T
4583500 AATTTCGCGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGAAACGCGAAT
T
Found at i:4583545 original size:19 final size:19
Alignment explanation
Indices: 4583521--4583567 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
4583511 ACGATTCTCT
4583521 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
4583540 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
4583559 CATTGCGAT
1 CGTTGCGAT
4583568 AGTACTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:4583694 original size:14 final size:14
Alignment explanation
Indices: 4583675--4583711 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4583665 CATCAATTAA
4583675 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
4583689 ACAAATCACCTTTT
1 ACAAATCAACTTTT
4583703 ACAAATCAA
1 ACAAATCAA
4583712 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:4585132 original size:21 final size:21
Alignment explanation
Indices: 4585066--4585132 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
4585056 GTGAATCGGG
*
4585066 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
4585086 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
4585108 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
4585129 CTCT
1 CTCT
4585133 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:4585582 original size:91 final size:90
Alignment explanation
Indices: 4585406--4585590 Score: 282
Period size: 91 Copynumber: 2.0 Consensus size: 90
4585396 ATTTCAAATT
*
4585406 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
*
4585471 AGAATTGGCAGCAATCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
*
4585499 TTCAACCAAAAGGCAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
4585563 GTATTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
4585590 T
1 T
4585591 AAGCAATCTA
Statistics
Matches: 86, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
91 41 0.48
93 18 0.21
95 27 0.31
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:4586736 original size:22 final size:22
Alignment explanation
Indices: 4586708--4586752 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
4586698 CGAGTAAAAC
4586708 CATCTTTCTTATTAAACAATTT
1 CATCTTTCTTATTAAACAATTT
4586730 CATCTTTCTTATTAAACAATTT
1 CATCTTTCTTATTAAACAATTT
4586752 C
1 C
4586753 TTCTGTCGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (22 bp):
CATCTTTCTTATTAAACAATTT
Found at i:4587347 original size:52 final size:52
Alignment explanation
Indices: 4587286--4587405 Score: 204
Period size: 52 Copynumber: 2.3 Consensus size: 52
4587276 TCTTTTGGTT
**
4587286 GAAATGAAAATCGCAACACGAAATGACTATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACACGAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
4587338 GAAATGAAAACCGTAACACGAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACACGAAATGAAAATCGCAACGAGAGAATCGCAACGC
4587390 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
4587406 TGCGATTTTG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.11
Consensus pattern (52 bp):
GAAATGAAAATCGCAACACGAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:4587410 original size:19 final size:19
Alignment explanation
Indices: 4587286--4587410 Score: 99
Period size: 19 Copynumber: 7.1 Consensus size: 19
4587276 TCTTTTGGTT
*
4587286 GAAATGAAAATCGCAACAC
1 GAAATGAAAATCGCAACGC
**
4587305 GAAATGACTATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
4587322 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* * *
4587338 GAAATGAAAACCGTAACAC
1 GAAATGAAAATCGCAACGC
4587357 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
4587374 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
4587390 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
4587409 GA
1 GA
4587411 TTTTGGTTTC
Statistics
Matches: 83, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
14 19 0.23
15 2 0.02
16 4 0.05
17 4 0.05
18 2 0.02
19 52 0.63
ACGTcount: A:0.46, C:0.21, G:0.22, T:0.11
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:4588009 original size:20 final size:20
Alignment explanation
Indices: 4587984--4588036 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
4587974 GCGCTATGTA
4587984 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
4588004 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
4588024 TATCTCGTTGCGA
1 AATCGCGTTGCGA
4588037 TTTTTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:4588071 original size:20 final size:20
Alignment explanation
Indices: 4587985--4588079 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
4587975 CGCTATGTAA
* *
4587985 ATCGCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGATAGTCAGT
*
4588005 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
4588025 ATCTCGTTGCGATTTTTTTATT
1 ATCGCGTTGCGA--TAGTCAGT
*
4588047 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
4588067 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
4588080 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
20 47 0.78
22 13 0.22
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:4588112 original size:20 final size:20
Alignment explanation
Indices: 4588068--4588139 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
4588058 ATAGTCAGTA
* **
4588068 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
4588089 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
4588109 TCGCATTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
*
4588129 TTGCATTGCGA
1 TCGCATTGCGA
4588140 ATTGGGAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
20 35 0.78
21 10 0.22
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:4588210 original size:21 final size:21
Alignment explanation
Indices: 4588170--4588210 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4588160 ACTGTAGACC
**
4588170 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
4588191 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
4588211 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:4595132 original size:35 final size:35
Alignment explanation
Indices: 4595058--4595152 Score: 111
Period size: 35 Copynumber: 2.7 Consensus size: 35
4595048 AACATAGTCG
* ** *
4595058 TCAATTACATTCTAAA-CCCAAAATCTGAAATGCT
1 TCAATTACATTCTAAATCCCAAATTCCAAAATACT
* *
4595092 TCAATTATATTCTAAATCTCAAATTCCAAAATACT
1 TCAATTACATTCTAAATCCCAAATTCCAAAATACT
* *
4595127 TCAATTACATGCTCAATCCCAAATTC
1 TCAATTACATTCTAAATCCCAAATTC
4595153 ATAATTCATT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
34 15 0.30
35 35 0.70
ACGTcount: A:0.40, C:0.24, G:0.03, T:0.33
Consensus pattern (35 bp):
TCAATTACATTCTAAATCCCAAATTCCAAAATACT
Found at i:4596124 original size:35 final size:35
Alignment explanation
Indices: 4596079--4596176 Score: 108
Period size: 35 Copynumber: 2.8 Consensus size: 35
4596069 TGAGAATGGG
* * *
4596079 TTTT-GAATTTGGGGTTGGGTATGTAATTGAAGTA
1 TTTTGGAATTTGGGGTTGAGAATATAATTGAAGTA
* * *
4596113 TTTTGGAATTTGAGATTTAGAATATAATTGAAGTA
1 TTTTGGAATTTGGGGTTGAGAATATAATTGAAGTA
* * *
4596148 TTTTGGAATTTAGGGTTTAGAATGTAATT
1 TTTTGGAATTTGGGGTTGAGAATATAATT
4596177 AATTACTATG
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
34 4 0.08
35 49 0.92
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.45
Consensus pattern (35 bp):
TTTTGGAATTTGGGGTTGAGAATATAATTGAAGTA
Found at i:4602587 original size:78 final size:77
Alignment explanation
Indices: 4602445--4602612 Score: 252
Period size: 78 Copynumber: 2.2 Consensus size: 77
4602435 AGAGTGTCTC
*
4602445 AGAGGACGCAACCTGGGGAAAAACCACTCCTCGGTTCTTGGTTCTTCCTATTTTCTGTTCTGAAC
1 AGAGGACGCAACCTGGGGAAAAACCA--CCTCAGTTCTTGGTTCTTCCTATTTTCTGTTCTGAAC
4602510 TAGTGAAGATTTCTGT
64 TAGTGAAGATTTC--T
4602526 AGAGGACGCAACCTGGGGAAAAACCA-CTCAGTTCTTAGG-TCTTCCTATTTTCTGTTCTGAACT
1 AGAGGACGCAACCTGGGGAAAAACCACCTCAGTTCTT-GGTTCTTCCTATTTTCTGTTCTGAACT
*
4602589 GGTGAAGATTTCT
65 AGTGAAGATTTCT
4602602 AGA-GACGCAAC
1 AGAGGACGCAAC
4602613 TCCTTGGTGG
Statistics
Matches: 84, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
75 8 0.10
76 4 0.05
78 44 0.52
79 2 0.02
81 26 0.31
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (77 bp):
AGAGGACGCAACCTGGGGAAAAACCACCTCAGTTCTTGGTTCTTCCTATTTTCTGTTCTGAACTA
GTGAAGATTTCT
Found at i:4606404 original size:20 final size:20
Alignment explanation
Indices: 4606379--4606510 Score: 255
Period size: 20 Copynumber: 6.6 Consensus size: 20
4606369 TTTCCTATTC
4606379 CGCAATGCGAATACGTAAAT
1 CGCAATGCGAATACGTAAAT
4606399 CGCAATGCGAATACGTAAAT
1 CGCAATGCGAATACGTAAAT
4606419 CGCAATGCGAATACGTAAAT
1 CGCAATGCGAATACGTAAAT
4606439 CGCAATGCGAATACGTAAAT
1 CGCAATGCGAATACGTAAAT
4606459 CGCAATGCGAATACGTAAAT
1 CGCAATGCGAATACGTAAAT
4606479 CGCAATGCGAATACGTAAAT
1 CGCAATGCGAATACGTAAAT
*
4606499 CGCAACGCGAAT
1 CGCAATGCGAAT
4606511 CTGACTATCG
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
20 111 1.00
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.19
Consensus pattern (20 bp):
CGCAATGCGAATACGTAAAT
Found at i:4606520 original size:20 final size:20
Alignment explanation
Indices: 4606497--4606583 Score: 138
Period size: 20 Copynumber: 4.3 Consensus size: 20
4606487 GAATACGTAA
* *
4606497 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGATTCTGACT
*
4606517 ATCGCAACGAGATTATGACT
1 ATCGCAACGAGATTCTGACT
4606537 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
*
4606557 ATCGCAACGCGATTCTGACT
1 ATCGCAACGAGATTCTGACT
4606577 ATCGCAA
1 ATCGCAA
4606584 TACTGAATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (20 bp):
ATCGCAACGAGATTCTGACT
Found at i:4606543 original size:60 final size:60
Alignment explanation
Indices: 4606397--4606528 Score: 178
Period size: 60 Copynumber: 2.2 Consensus size: 60
4606387 GAATACGTAA
* * * *
4606397 ATCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCAATGCGAATAC-GTA-A
1 ATCGCAACGAGAATACGTAAATCGCAATGCGAATACGTAAATCGCAACGCGAAT-CTG-ACT
* *
4606457 ATCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCAACGCGAATCTGACT
1 ATCGCAACGAGAATACGTAAATCGCAATGCGAATACGTAAATCGCAACGCGAATCTGACT
4606517 ATCGCAACGAGA
1 ATCGCAACGAGA
4606529 TTATGACTAT
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
59 2 0.03
60 64 0.97
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (60 bp):
ATCGCAACGAGAATACGTAAATCGCAATGCGAATACGTAAATCGCAACGCGAATCTGACT
Found at i:4607478 original size:24 final size:24
Alignment explanation
Indices: 4607425--4607471 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
4607415 GTATTCAAAA
*
4607425 TTTGATCTTGGTCAATACCCGAAC
1 TTTGATCTTGGTCAATACCAGAAC
4607449 TTTGATCTTGGTCAATACTCAGA
1 TTTGATCTTGGTCAATAC-CAGA
4607472 TTTTGATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCAGAAC
Found at i:4609918 original size:20 final size:20
Alignment explanation
Indices: 4609893--4609966 Score: 114
Period size: 20 Copynumber: 3.7 Consensus size: 20
4609883 GACATTCATT
4609893 TGACTATCGCAACGC-GAATA
1 TGACTATCGCAACGCAGAA-A
* *
4609913 TGACTATCGCAACACGGAAA
1 TGACTATCGCAACGCAGAAA
4609933 TGACTATCGCAACGCAGAAA
1 TGACTATCGCAACGCAGAAA
4609953 TGACTATCGCAACG
1 TGACTATCGCAACG
4609967 AGAGAATCGC
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
20 47 0.94
21 3 0.06
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (20 bp):
TGACTATCGCAACGCAGAAA
Found at i:4609977 original size:14 final size:14
Alignment explanation
Indices: 4609958--4610011 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
4609948 AGAAATGACT
4609958 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
4609972 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
4609991 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
4610005 ATCGCAA
1 ATCGCAA
4610012 TGCGAAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:4610026 original size:34 final size:33
Alignment explanation
Indices: 4609938--4610033 Score: 147
Period size: 33 Copynumber: 2.8 Consensus size: 33
4609928 GGAAATGACT
* **
4609938 ATCGCAACGCAGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
4609972 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
4610005 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
4610034 CGAAATCTCG
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 32 0.55
34 26 0.45
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:4610029 original size:20 final size:19
Alignment explanation
Indices: 4609971--4610039 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
4609961 GCAACGAGAG
4609971 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4609990 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
4610004 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
4610024 AATCGCAACGCGAAAT
1 AATCGCAATGCGAAAT
4610040 CTCGTTGCGA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
14 10 0.24
15 1 0.02
16 2 0.05
17 2 0.05
19 13 0.32
20 13 0.32
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:4610076 original size:33 final size:34
Alignment explanation
Indices: 4610039--4610103 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
4610029 CAACGCGAAA
**
4610039 TCTCGTTGCGATTTTCATTT-CGCATTGCGATTC
1 TCTCGTTGCGATAGTCATTTCCGCATTGCGATTC
*
4610072 TCTCGTTGCGATAGTCATTTCCGCGTTGCGAT
1 TCTCGTTGCGATAGTCATTTCCGCATTGCGAT
4610104 AGTCTGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 18 0.64
34 10 0.36
ACGTcount: A:0.12, C:0.25, G:0.22, T:0.42
Consensus pattern (34 bp):
TCTCGTTGCGATAGTCATTTCCGCATTGCGATTC
Found at i:4610220 original size:14 final size:14
Alignment explanation
Indices: 4610201--4610237 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4610191 CATCAATTAA
4610201 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
4610215 ACAAATCATCTTTT
1 ACAAATCAACATTT
4610229 ACAAATCAA
1 ACAAATCAA
4610238 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:4611691 original size:42 final size:42
Alignment explanation
Indices: 4611593--4611704 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 42
4611583 TCTAGAATGT
* * * * *
4611593 TGGGAG-GGACCTCTTCAACGATGACAGTGGCCTCTTGAACGG
1 TGGGAGAGGA-CTCTTGAAGGATGATAGGGGCCTCTTGAACGA
* *
4611635 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGA
1 TGGGAGAGGACTCTTGAAGGATGATAGGGGCCTCTTGAACGA
* *
4611677 TAGGG-GAGGCCTCTTGAATGATGATAGG
1 T-GGGAGAGGACTCTTGAAGGATGATAGG
4611705 TGAGTCGGTC
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
42 52 0.90
43 6 0.10
ACGTcount: A:0.22, C:0.17, G:0.38, T:0.22
Consensus pattern (42 bp):
TGGGAGAGGACTCTTGAAGGATGATAGGGGCCTCTTGAACGA
Found at i:4612213 original size:20 final size:20
Alignment explanation
Indices: 4612188--4612349 Score: 147
Period size: 20 Copynumber: 8.3 Consensus size: 20
4612178 CTTAAAATTA
*
4612188 GCAACGCAAAAATGACTATC
1 GCAACGCGAAAATGACTATC
*
4612208 GCAACGTGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
* **
4612228 GCAATGCGAATTTGACTATC
1 GCAACGCGAAAATGACTATC
* **
4612248 GCAATGCGAATTTGACTATC
1 GCAACGCGAAAATGACTATC
*
4612268 GCAA--CG-AGA-GA--ATC
1 GCAACGCGAAAATGACTATC
4612282 GCAATGCGCGAAAATGACTATC
1 GCAA--CGCGAAAATGACTATC
4612304 GCAACGCGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
* ** *
4612324 GCAATGCGAATTTGACCATC
1 GCAACGCGAAAATGACTATC
4612344 GCAACG
1 GCAACG
4612350 AGAGAATCGA
Statistics
Matches: 120, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
14 7 0.06
16 2 0.02
17 1 0.01
18 4 0.03
19 2 0.02
20 97 0.81
22 7 0.06
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (20 bp):
GCAACGCGAAAATGACTATC
Found at i:4612345 original size:76 final size:76
Alignment explanation
Indices: 4612215--4612365 Score: 257
Period size: 76 Copynumber: 2.0 Consensus size: 76
4612205 ATCGCAACGT
* ** *
4612215 GAAAATGACTATCGCAATGCGAATTTGACTATCGCAATGCGAATTTGACTATCGCAACGAGAGAA
1 GAAAATGACTATCGCAACGCGAAAATGACTATCGCAATGCGAATTTGACCATCGCAACGAGAGAA
*
4612280 TCGCAATGCGC
66 TCGAAATGCGC
4612291 GAAAATGACTATCGCAACGCGAAAATGACTATCGCAATGCGAATTTGACCATCGCAACGAGAGAA
1 GAAAATGACTATCGCAACGCGAAAATGACTATCGCAATGCGAATTTGACCATCGCAACGAGAGAA
4612356 TCGAAATGCG
66 TCGAAATGCG
4612366 ATTTTCATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (76 bp):
GAAAATGACTATCGCAACGCGAAAATGACTATCGCAATGCGAATTTGACCATCGCAACGAGAGAA
TCGAAATGCGC
Found at i:4612446 original size:20 final size:20
Alignment explanation
Indices: 4612394--4612511 Score: 101
Period size: 20 Copynumber: 5.5 Consensus size: 20
4612384 GATTCTTTCG
**
4612394 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
4612414 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
4612434 TTGCGATAGTCATTTTCACG
1 TTGCGATAGTCATTTTCGCA
* * *
4612454 TTGCGATTTTGTTGTTGCGATTTTCTCG
1 TTGCGA-----TAG-T-C-ATTTTCGCA
4612482 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
4612502 TTGCGATAGT
1 TTGCGATAGT
4612512 AAACTATTCT
Statistics
Matches: 81, Mismatches: 9, Indels: 16
0.76 0.08 0.15
Matches are distributed among these distances:
20 59 0.73
21 1 0.01
22 1 0.01
23 2 0.02
25 2 0.02
26 1 0.01
27 1 0.01
28 14 0.17
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.42
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:4612470 original size:14 final size:14
Alignment explanation
Indices: 4612445--4612488 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
4612435 TGCGATAGTC
*
4612445 ATTTTCACGTTGCG
1 ATTTTCTCGTTGCG
* *
4612459 ATTTTGTTGTTGCG
1 ATTTTCTCGTTGCG
4612473 ATTTTCTCGTTGCG
1 ATTTTCTCGTTGCG
4612487 AT
1 AT
4612489 AGTCATTTTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.50
Consensus pattern (14 bp):
ATTTTCTCGTTGCG
Found at i:4614396 original size:20 final size:20
Alignment explanation
Indices: 4614373--4614413 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
4614363 TCTGAAACTT
4614373 AAAACCGCAACACGAAAATG
1 AAAACCGCAACACGAAAATG
*
4614393 AAAATCGCAACACGAAAATG
1 AAAACCGCAACACGAAAATG
4614413 A
1 A
4614414 CTATCGCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.56, C:0.22, G:0.15, T:0.07
Consensus pattern (20 bp):
AAAACCGCAACACGAAAATG
Found at i:4614419 original size:20 final size:20
Alignment explanation
Indices: 4614378--4614516 Score: 96
Period size: 20 Copynumber: 7.3 Consensus size: 20
4614368 AACTTAAAAC
**
4614378 CGCAACACGAAAATGAAAAT
1 CGCAACACGAAAATGACTAT
4614398 CGCAACACGAAAATGACTAT
1 CGCAACACGAAAATGACTAT
* **
4614418 CGCAACGCGAATTTGACTAT
1 CGCAACACGAAAATGACTAT
*
4614438 --C-ACAGCG-CAA-GA--AT
1 CGCAACA-CGAAAATGACTAT
* **
4614452 CGCAACGCG-AAATGAAAAT
1 CGCAACACGAAAATGACTAT
4614471 CGCAACACGAAAATGACTAT
1 CGCAACACGAAAATGACTAT
* * **
4614491 CACAACGCGAATTTGACTAT
1 CGCAACACGAAAATGACTAT
4614511 CGCAAC
1 CGCAAC
4614517 GCAAGAATCG
Statistics
Matches: 92, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
14 2 0.02
16 7 0.08
17 6 0.07
18 3 0.03
19 10 0.11
20 64 0.70
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.15
Consensus pattern (20 bp):
CGCAACACGAAAATGACTAT
Found at i:4614498 original size:73 final size:73
Alignment explanation
Indices: 4614378--4614549 Score: 299
Period size: 73 Copynumber: 2.3 Consensus size: 73
4614368 AACTTAAAAC
* * *
4614378 CGCAACACGAAAATGAAAATCGCAACACGAAAATGACTATCGCAACGCGAATTTGACTATCACAG
1 CGCAACGCG-AAATGAAAATCGCAACACGAAAATGACTATCACAACGCGAATTTGACTATCACAA
4614443 CGCAAGAAT
65 CGCAAGAAT
*
4614452 CGCAACGCGAAATGAAAATCGCAACACGAAAATGACTATCACAACGCGAATTTGACTATCGCAAC
1 CGCAACGCGAAATGAAAATCGCAACACGAAAATGACTATCACAACGCGAATTTGACTATCACAAC
4614517 GCAAGAAT
66 GCAAGAAT
4614525 CGCAACGCGAAATGAAAATCGCAAC
1 CGCAACGCGAAATGAAAATCGCAAC
4614550 GACAGAATCG
Statistics
Matches: 94, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
73 86 0.91
74 8 0.09
ACGTcount: A:0.43, C:0.25, G:0.18, T:0.14
Consensus pattern (73 bp):
CGCAACGCGAAATGAAAATCGCAACACGAAAATGACTATCACAACGCGAATTTGACTATCACAAC
GCAAGAAT
Found at i:4614517 original size:20 final size:19
Alignment explanation
Indices: 4614396--4614550 Score: 105
Period size: 20 Copynumber: 8.5 Consensus size: 19
4614386 GAAAATGAAA
*
4614396 ATCGCAACACGAAAATGACT
1 ATCGCAACGCG-AAATGACT
*
4614416 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAA-ATGACT
* *
4614436 ATCAC-A-GCGCAA-GA--
1 ATCGCAACGCGAAATGACT
**
4614450 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
*
4614469 ATCGCAACACGAAAATGACT
1 ATCGCAACGCG-AAATGACT
* *
4614489 ATCACAACGCGAATTTGACT
1 ATCGCAACGCGAA-ATGACT
4614509 ATCGCAACGC--AA-GA--
1 ATCGCAACGCGAAATGACT
**
4614523 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
4614542 ATCGCAACG
1 ATCGCAACG
4614551 ACAGAATCGC
Statistics
Matches: 107, Mismatches: 15, Indels: 27
0.72 0.10 0.18
Matches are distributed among these distances:
14 14 0.13
15 1 0.01
16 11 0.10
17 4 0.04
18 5 0.05
19 24 0.22
20 48 0.45
ACGTcount: A:0.41, C:0.25, G:0.19, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:4614948 original size:22 final size:22
Alignment explanation
Indices: 4614886--4614951 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
4614876 TGACCGTGAA
* * *
4614886 TGATTTTGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
*
4614908 TGATATCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
4614930 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
4614952 GGATGTCGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.21, C:0.14, G:0.39, T:0.26
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:4615231 original size:22 final size:21
Alignment explanation
Indices: 4615177--4615252 Score: 98
Period size: 21 Copynumber: 3.5 Consensus size: 21
4615167 TATTCGCATT
4615177 GCGAATTAGAAAAATCGCAAC
1 GCGAATTAGAAAAATCGCAAC
4615198 GCGAATTAGAAAAATCGCAAC
1 GCGAATTAGAAAAATCGCAAC
* * * *
4615219 GTGAATTTGGAAAATCGCAAT
1 GCGAATTAGAAAAATCGCAAC
4615240 GCGATAGTTAGAA
1 GCGA-A-TTAGAA
4615253 TCGCGTTTCG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
21 41 0.89
22 1 0.02
23 4 0.09
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.20
Consensus pattern (21 bp):
GCGAATTAGAAAAATCGCAAC
Found at i:4618744 original size:15 final size:15
Alignment explanation
Indices: 4618720--4618749 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4618710 CCTGTCTCTC
*
4618720 CCGTGTCTGCTGGTG
1 CCGTGGCTGCTGGTG
4618735 CCGTGGCTGCTGGTG
1 CCGTGGCTGCTGGTG
4618750 TGCGCTATGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.27, G:0.43, T:0.30
Consensus pattern (15 bp):
CCGTGGCTGCTGGTG
Found at i:4621677 original size:59 final size:60
Alignment explanation
Indices: 4621608--4621731 Score: 187
Period size: 60 Copynumber: 2.1 Consensus size: 60
4621598 TAAAGTACAC
* * * *
4621608 AAATGGTCCT-CGACTATAGAATATTGCTTTATTAAGTCCATTGATTATTAAAAGTTATA
1 AAATGATCCTCCGACTATAGAATATTACTTTATTAAGTCCATCGACTATTAAAAGTTATA
* *
4621667 AAATGATCCTCCGACTATAGAATATTACTTTGTTGAGTCCATCGACTATTAAAAGTTATA
1 AAATGATCCTCCGACTATAGAATATTACTTTATTAAGTCCATCGACTATTAAAAGTTATA
4621727 AAATG
1 AAATG
4621732 GTCACCCAAC
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
59 9 0.16
60 49 0.84
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (60 bp):
AAATGATCCTCCGACTATAGAATATTACTTTATTAAGTCCATCGACTATTAAAAGTTATA
Found at i:4621744 original size:60 final size:60
Alignment explanation
Indices: 4621620--4621744 Score: 171
Period size: 60 Copynumber: 2.1 Consensus size: 60
4621610 ATGGTCCTCG
* * * *
4621620 ACTATAGAATATTGCTTTATTAAGTCCATTGATTATTAAAAGTTATAAAATGATCCTCCG
1 ACTATAGAATATTACTTTATTAAGTCCATCGACTATTAAAAGTTATAAAATGATCCTCCA
* * *
4621680 ACTATAGAATATTACTTTGTTGAGTCCATCGACTATTAAAAGTTATAAAATGGTCAC-CCA
1 ACTATAGAATATTACTTTATTAAGTCCATCGACTATTAAAAGTTATAAAATGATC-CTCCA
4621740 ACTAT
1 ACTAT
4621745 TCATTATGTT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 56 0.98
61 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (60 bp):
ACTATAGAATATTACTTTATTAAGTCCATCGACTATTAAAAGTTATAAAATGATCCTCCA
Found at i:4622029 original size:60 final size:60
Alignment explanation
Indices: 4621935--4622075 Score: 164
Period size: 60 Copynumber: 2.4 Consensus size: 60
4621925 TCAGATGACA
** *
4621935 ATTTTGTAACTTTTAATAGTCGATGGACAAAAC-AAATCAACA-CTCTATAGTCGGAGGATC
1 ATTTTGTAACTTTTAATAGTAAAAGGACAAAACAAAAT-AACATC-CTATAGTCGGAGGATC
** *
4621995 ATTTTGTAACTTTTAATAGTAAAAGGACTCAACAAAATATCATCCTATAGTCGGAGGATC
1 ATTTTGTAACTTTTAATAGTAAAAGGACAAAACAAAATAACATCCTATAGTCGGAGGATC
*
4622055 A-TTTGTATAC-TTTAATGGTAA
1 ATTTTGTA-ACTTTTAATAGTAA
4622076 TTAGTGATGA
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
59 16 0.23
60 50 0.70
61 5 0.07
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (60 bp):
ATTTTGTAACTTTTAATAGTAAAAGGACAAAACAAAATAACATCCTATAGTCGGAGGATC
Done.