Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008803.1 Hibiscus syriacus cultivar Beakdansim tig00111954_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: 1826237
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 9
Found at i:1714856 original size:120 final size:115
Alignment explanation
Indices: 1714612--1714900 Score: 276
Period size: 120 Copynumber: 2.5 Consensus size: 115
1714602 TAATTTGGAC
1714612 ATAA-AATAATAATAATATAATAT-AATATA-ATATAATATAATATAATATAAT-ATAATAAATA
1 ATAATAATAATAAT-ATATAATATAAATATATATAT-ATAT-ATATAATATAATAATAATAAATA
*
1714673 AATAAATAAATAATATATTATTATAATAATATAATAATAATAACATATAATAT
63 AATAAATAAATAATATATTATTATAATAATATAATAATAATAACATATAATAA
*
1714726 ATAATAATAATAATATATAATAGTAAATATATATACTATAATATATAATATAATAATATACTATA
1 ATAATAATAATAATATATAATA-TAAATATATATA-TAT-ATATATAATATAATAATA-A-TAAA
* * *
1714791 TAATTATATAAATAATATA-TACTATATAATAATAT-ATAATACTATATAC-TGT-ATAA
61 TAAATAAATAAATAATATATTA-T-TATAATAATATAATAATA--ATA-ACATATAATAA
* *
1714847 ATACT-ATAAT-ATATATAATACCATATAATATA-ATATATGATATATAAAATAATA
1 ATAATAATAATAATATATAAT---ATA-AATATATATATAT-ATATATAATATAATA
1714901 TGATATAATA
Statistics
Matches: 149, Mismatches: 8, Indels: 30
0.80 0.04 0.16
Matches are distributed among these distances:
114 12 0.08
115 10 0.07
116 6 0.04
117 17 0.11
118 6 0.04
119 12 0.08
120 49 0.33
121 23 0.15
122 12 0.08
123 2 0.01
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (115 bp):
ATAATAATAATAATATATAATATAAATATATATATATATATATAATATAATAATAATAAATAAAT
AAATAAATAATATATTATTATAATAATATAATAATAATAACATATAATAA
Found at i:1721805 original size:54 final size:54
Alignment explanation
Indices: 1721742--1721953 Score: 336
Period size: 54 Copynumber: 3.9 Consensus size: 54
1721732 CTTAGGTTGC
*
1721742 AACTTATTATGAATTTCTTAGGTTGCATACACAGTGCCAATACGGAAATTCATA
1 AACTTATTATGAATTTCTTAGGTTGCACACACAGTGCCAATACGGAAATTCATA
* *
1721796 AACTTATTATGAATTTCTTAGGTTGCACACAGAGTGTCAATACGGAAATTCATA
1 AACTTATTATGAATTTCTTAGGTTGCACACACAGTGCCAATACGGAAATTCATA
* * *
1721850 AACTTATTATGAATTTCTTAGGTTGCACACAGAGTGTCAATACAGAAATTCATA
1 AACTTATTATGAATTTCTTAGGTTGCACACACAGTGCCAATACGGAAATTCATA
* *
1721904 AACTTATTATGAATTTTTTAGGTTGCACACACAGTGTCC-ATACGGTAATT
1 AACTTATTATGAATTTCTTAGGTTGCACACACAGTG-CCAATACGGAAATT
1721954 ACAATAAATA
Statistics
Matches: 148, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
54 147 0.99
55 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (54 bp):
AACTTATTATGAATTTCTTAGGTTGCACACACAGTGCCAATACGGAAATTCATA
Found at i:1728296 original size:12 final size:13
Alignment explanation
Indices: 1728262--1728296 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
1728252 AATTAATGTT
1728262 AAATAATAAAAATG
1 AAATAA-AAAAATG
1728276 AAATAAAAAAATG
1 AAATAAAAAAATG
*
1728289 AATTAAAA
1 AAATAAAA
1728297 GAAAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (13 bp):
AAATAAAAAAATG
Found at i:1728300 original size:22 final size:23
Alignment explanation
Indices: 1728262--1728306 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1728252 AATTAATGTT
1728262 AAATAATAAAAATG-AAATAAAA
1 AAATAATAAAAATGAAAATAAAA
*
1728284 AAATGAATTAAAA-GAAAATAAAA
1 AAAT-AATAAAAATGAAAATAAAA
1728307 TTAAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.18
Consensus pattern (23 bp):
AAATAATAAAAATGAAAATAAAA
Found at i:1728314 original size:22 final size:22
Alignment explanation
Indices: 1728289--1728330 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1728279 TAAAAAAATG
1728289 AATTAAAAGAAA-ATAAAATTAA
1 AATT-AAAGAAAGATAAAATTAA
*
1728311 AATTAAAGAAAGATTAAATT
1 AATTAAAGAAAGATAAAATT
1728331 GGAAAACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (22 bp):
AATTAAAGAAAGATAAAATTAA
Found at i:1729726 original size:37 final size:37
Alignment explanation
Indices: 1729685--1729790 Score: 100
Period size: 37 Copynumber: 3.0 Consensus size: 37
1729675 ATTATATTAG
1729685 ATAATATATAAGTGACCAAATAGGTAGTTTACCCTAA
1 ATAATATATAAGTGACCAAATAGGTAGTTTACCCTAA
* * *** *
1729722 ATAATA-ATCGAGTGACCAAA-A--CA---TAAATTAG
1 ATAATATAT-AAGTGACCAAATAGGTAGTTTACCCTAA
1729753 ATAATATATAAGTGACCAAATAGGTAGTTTACCCTAA
1 ATAATATATAAGTGACCAAATAGGTAGTTTACCCTAA
1729790 A
1 A
1729791 AAAATTCCCT
Statistics
Matches: 49, Mismatches: 12, Indels: 16
0.64 0.16 0.21
Matches are distributed among these distances:
31 20 0.41
32 3 0.06
34 2 0.04
36 3 0.06
37 21 0.43
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.27
Consensus pattern (37 bp):
ATAATATATAAGTGACCAAATAGGTAGTTTACCCTAA
Found at i:1729776 original size:68 final size:69
Alignment explanation
Indices: 1729588--1729795 Score: 291
Period size: 67 Copynumber: 3.1 Consensus size: 69
1729578 TTTGAAAAAA
*
1729588 AAATAATCGAGTGACCAAAACATAAATTAGATAATATATAATTGACCAAATAGGTAGTTTACCCT
1 AAATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACCCT
1729653 AAAT
66 AAAT
** * * * *
1729657 AAATAAATATA-T-A-TATGAA-TTATATTAGATAATATATAAGTGACCAAATAGGTAGTTTACC
1 AAAT-AATCGAGTGACCA-AAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACC
1729718 CTAAAT
64 CTAAAT
1729724 -AATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACCCT
1 AAATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACCCT
*
1729788 AAAA
66 AAAT
1729792 AAAT
1 AAAT
1729796 TCCCTATTTG
Statistics
Matches: 118, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
65 4 0.03
66 4 0.03
67 49 0.42
68 49 0.42
69 8 0.07
70 4 0.03
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.29
Consensus pattern (69 bp):
AAATAATCGAGTGACCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTTACCCT
AAAT
Found at i:1729966 original size:14 final size:14
Alignment explanation
Indices: 1729947--1729980 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1729937 GTTCGACGGA
*
1729947 TCGGGTCAACCGGT
1 TCGGGTCAACCGGG
*
1729961 TCGGGTCAATCGGG
1 TCGGGTCAACCGGG
1729975 TCGGGT
1 TCGGGT
1729981 ATTTTTGCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.24, G:0.41, T:0.24
Consensus pattern (14 bp):
TCGGGTCAACCGGG
Found at i:1730230 original size:3 final size:3
Alignment explanation
Indices: 1730222--1730277 Score: 57
Period size: 3 Copynumber: 19.3 Consensus size: 3
1730212 TTGGGCCTGA
*
1730222 AAT AAT AAT TA- AAT AAT AAAT AAT -AT AAT -AT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
1730264 AAT AAT ATAT AAT A
1 AAT AAT A-AT AAT A
1730278 TATATATATA
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
2 7 0.16
3 32 0.71
4 6 0.13
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:1730251 original size:5 final size:5
Alignment explanation
Indices: 1730237--1730441 Score: 121
Period size: 5 Copynumber: 41.2 Consensus size: 5
1730227 TAATTAAATA
1730237 ATAA- ATAAT ATAAT ATAAT ATAAT AATAAT A-ATAT ATAAT AT-AT ATATAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATA-AT ATAAT ATAAT ATA-AT
**
1730287 ATATAT ATATAT ATTGT ATAAT -T-AT ATAA- ATAAT AT-AT ACT-AT
1 ATA-AT ATA-AT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A-TAAT
** *
1730330 ATAAT A-ATAT ATAAT ACTATAT ATTGT ATAA- ATACT ATAAT AT-AT
1 ATAAT ATA-AT ATAAT A-TA-AT ATAAT ATAAT ATAAT ATAAT ATAAT
* * * *
1730375 ATAAT ATCAT ATCAT ATAAT -TTAT ACT-AT ATAAA ATAATAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT A-TAAT ATAAT AT-A-AT ATAAT
*
1730421 ATAAT ATGAT ATAAT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT A
1730442 AAAAGGAACC
Statistics
Matches: 162, Mismatches: 17, Indels: 43
0.73 0.08 0.19
Matches are distributed among these distances:
3 2 0.01
4 31 0.19
5 94 0.58
6 29 0.18
7 6 0.04
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (5 bp):
ATAAT
Found at i:1730276 original size:31 final size:30
Alignment explanation
Indices: 1730223--1730442 Score: 148
Period size: 27 Copynumber: 7.4 Consensus size: 30
1730213 TGGGCCTGAA
*
1730223 ATAATAATTAAATAATAAATAATATAATATAAT
1 ATAATAA-T-AATAATATATAATATAATAT-AT
1730256 ATAATAATAATAATATATAATAT-ATATAT
1 ATAATAATAATAATATATAATATAATATAT
**
1730285 AT-AT-AT-ATATATATATTGTATAAT-TAT
1 ATAATAATAATA-ATATATAATATAATATAT
1730312 AT-A-AATAAT-ATATACT-ATATAATA-AT
1 ATAATAATAATAATATA-TAATATAATATAT
* **
1730338 AT-ATAATACT-ATATATTGTATAA-ATACT
1 ATAATAATAATAATATATAATATAATATA-T
*
1730366 ATAAT-ATATATAATATCATATCATATAATTTAT
1 ATAATAATA-ATAATAT-ATA--ATATAATATAT
1730399 ACTATATAA-AATAATATATAATATAATATGAT
1 A-TA-ATAATAATAATATATAATATAATAT-AT
1730431 ATAAT-ATAATAA
1 ATAATAATAATAA
1730443 AAAGGAACCC
Statistics
Matches: 154, Mismatches: 11, Indels: 47
0.73 0.05 0.22
Matches are distributed among these distances:
26 21 0.14
27 36 0.23
28 12 0.08
29 8 0.05
30 15 0.10
31 26 0.17
32 4 0.03
33 17 0.11
34 11 0.07
35 3 0.02
36 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (30 bp):
ATAATAATAATAATATATAATATAATATAT
Found at i:1730280 original size:2 final size:2
Alignment explanation
Indices: 1730244--1730438 Score: 112
Period size: 2 Copynumber: 105.5 Consensus size: 2
1730234 ATAATAAATA
1730244 AT AT A- AT AT A- AT AT A- AT A- AT A- AT A- AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
1730279 AT AT AT AT AT AT AT AT AT AT AT -T GT AT A- AT -T AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1730318 A- AT AT AT ACT AT AT A- AT A- AT AT AT A- AT ACT AT AT AT -T GT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* *
1730357 AT AA AT ACT AT A- AT AT AT AT A- AT AT CAT AT CAT AT A- AT TT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT -AT AT -AT AT AT AT AT
*
1730397 AT ACT AT AT A- AA AT A- AT AT AT A- AT AT A- AT AT GAT AT A- AT
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
1730436 AT A
1 AT A
1730439 ATAAAAAGGA
Statistics
Matches: 154, Mismatches: 9, Indels: 60
0.69 0.04 0.27
Matches are distributed among these distances:
1 23 0.15
2 117 0.76
3 14 0.09
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:1730434 original size:74 final size:72
Alignment explanation
Indices: 1730241--1730438 Score: 200
Period size: 74 Copynumber: 2.8 Consensus size: 72
1730231 TAAATAATAA
*
1730241 ATAATATAATATA-A-TATAATAATAATAATATATAATAT-ATAT-ATATATATATATATATATT
1 ATAA-ATAATATATACTAT-ATAA-AATAATATATAATATAATATGATATAAATATATATATATT
*
1730302 GTATAATTAT
63 ATATAATTAT
1730312 ATAAATAATATATACTATAT--AATAATATATAATACTATATATTG-TATAAATACTATA-ATA-
1 ATAAATAATATATACTATATAAAATAATATATAATA-TA-ATA-TGATATAAATA-TATATATAT
1730372 TATATAATATCAT
62 TATATAAT-T-AT
* *
1730385 ATCATATAATTTATACTATATAAAATAATATATAATATAATATGATAT-AATATA
1 AT-AAATAATATATACTATATAAAATAATATATAATATAATATGATATAAATATA
1730439 ATAAAAAGGA
Statistics
Matches: 109, Mismatches: 4, Indels: 27
0.78 0.03 0.19
Matches are distributed among these distances:
68 14 0.13
69 1 0.01
70 8 0.07
71 17 0.16
72 17 0.16
73 14 0.13
74 22 0.20
75 2 0.02
76 14 0.13
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (72 bp):
ATAAATAATATATACTATATAAAATAATATATAATATAATATGATATAAATATATATATATTATA
TAATTAT
Found at i:1736533 original size:32 final size:32
Alignment explanation
Indices: 1736497--1736559 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1736487 TATGTTGGAC
1736497 ATAGTTATATGAGAGGAGAGTTGCGGGACTCG
1 ATAGTTATATGAGAGGAGAGTTGCGGGACTCG
*
1736529 ATAGTTATATGAGAGGAGAGTTGTGGGACTC
1 ATAGTTATATGAGAGGAGAGTTGCGGGACTC
1736560 AATCTTATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.29, C:0.08, G:0.37, T:0.27
Consensus pattern (32 bp):
ATAGTTATATGAGAGGAGAGTTGCGGGACTCG
Found at i:1739560 original size:18 final size:18
Alignment explanation
Indices: 1739537--1739580 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
1739527 ATATGTTTTG
* *
1739537 TATTTT-TATTATATGATT
1 TATTTTATATCAT-TGATA
1739555 TATTTTATATCATTGATA
1 TATTTTATATCATTGATA
1739573 TATTTTAT
1 TATTTTAT
1739581 TGTGTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (18 bp):
TATTTTATATCATTGATA
Found at i:1740836 original size:16 final size:16
Alignment explanation
Indices: 1740801--1740841 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
1740791 GTTTACTTCA
*
1740801 GAATGATT-AAACATT
1 GAATGATTCAAACACT
*
1740816 GAATGATTCAAATACT
1 GAATGATTCAAACACT
1740832 GAATGATTCA
1 GAATGATTCA
1740842 GAGGCTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.32
Consensus pattern (16 bp):
GAATGATTCAAACACT
Found at i:1740880 original size:86 final size:86
Alignment explanation
Indices: 1740780--1740948 Score: 277
Period size: 86 Copynumber: 2.0 Consensus size: 86
1740770 AATTAATCTA
* *
1740780 AGGGGTTGTTTGTTTACTTCAGAATGATTAAACATTGAATGATTCAAAT-ACTGAATGATTCAGA
1 AGGGGCTGTTTGTTTACTTCAGAATGATTAAACACTGAATGATTCAAATGA-TGAATGATTCAGA
1740844 GGCTCTGTATGAATTAGCTCTG
65 GGCTCTGTATGAATTAGCTCTG
* * *
1740866 AGGGGCTGTTTGTTTACTTCAGAATGATTAAGCGCTGAATGATTCAAATGATGAATGTTTCAGAG
1 AGGGGCTGTTTGTTTACTTCAGAATGATTAAACACTGAATGATTCAAATGATGAATGATTCAGAG
1740931 GCTCTGTATGAATTAGCT
66 GCTCTGTATGAATTAGCT
1740949 ATGAATGTGA
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
86 76 0.99
87 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.36
Consensus pattern (86 bp):
AGGGGCTGTTTGTTTACTTCAGAATGATTAAACACTGAATGATTCAAATGATGAATGATTCAGAG
GCTCTGTATGAATTAGCTCTG
Found at i:1751420 original size:20 final size:22
Alignment explanation
Indices: 1751368--1751446 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 22
1751358 ATTATTAAAA
*
1751368 TAAAAGTATAATATTATA-TAGT
1 TAAAAATATAATATTATAGTA-T
**
1751390 ATATTAATAT-A-ATTATAGTAT
1 -TAAAAATATAATATTATAGTAT
*
1751411 TAAAAATATAATATTATATTAT
1 TAAAAATATAATATTATAGTAT
1751433 TAAAAATATCAATA
1 TAAAAATAT-AATA
1751447 AATATAATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
20 7 0.15
21 8 0.17
22 21 0.46
23 10 0.22
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (22 bp):
TAAAAATATAATATTATAGTAT
Found at i:1751451 original size:70 final size:69
Alignment explanation
Indices: 1751339--1751468 Score: 151
Period size: 70 Copynumber: 1.9 Consensus size: 69
1751329 TTTTTATGAA
* *
1751339 ATTAATAAATTAATTATATATTATTAAAATAAAAGTATAATATTATATAGTATATTAATATAATT
1 ATTAATAAATTAATTATATATTATTAAAATAAAAGTATAATATAATATAATA-ATTAATATAATT
1751404 ATAGT
65 ATAGT
* *
1751409 ATTAA-AAATATAA-TATTATATTATTAAAAATATCAA-TA-AATATAATTTAATAATTAATAT
1 ATTAATAAAT-TAATTA-TATATTATT-AAAATA-AAAGTATAATATAATATAATAATTAATAT
1751469 TTTTATTAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
69 14 0.27
70 28 0.54
71 8 0.15
72 2 0.04
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (69 bp):
ATTAATAAATTAATTATATATTATTAAAATAAAAGTATAATATAATATAATAATTAATATAATTA
TAGT
Found at i:1751495 original size:44 final size:46
Alignment explanation
Indices: 1751390--1751496 Score: 107
Period size: 44 Copynumber: 2.3 Consensus size: 46
1751380 ATTATATAGT
*
1751390 ATATTAATATAATTATAGTATTAAAAATATAATATTATATTATTAAAA
1 ATATTAA-ATAA-TATAATATTAAAAATATAATATTATATTATTAAAA
* *
1751438 ATA-TCAATAAATATAAT-TTAATAAT-TAATATT-T-TTATTAAAA
1 ATATTAAAT-AATATAATATTAAAAATATAATATTATATTATTAAAA
1751480 TGATATTAAATAATATA
1 --ATATTAAATAATATA
1751497 TTAACAATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
42 9 0.18
43 1 0.02
44 16 0.31
45 11 0.22
46 7 0.14
47 4 0.08
48 3 0.06
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (46 bp):
ATATTAAATAATATAATATTAAAAATATAATATTATATTATTAAAA
Found at i:1755927 original size:20 final size:20
Alignment explanation
Indices: 1755902--1755955 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
1755892 TAAATGACTA
1755902 GGGGTATCGGTACCTCTAAG
1 GGGGTATCGGTACCTCTAAG
1755922 GGGGTATCGGTACCTCTAAG
1 GGGGTATCGGTACCTCTAAG
*
1755942 GGGGTATCAGTACC
1 GGGGTATCGGTACC
1755956 CATTGGGCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.20, C:0.20, G:0.35, T:0.24
Consensus pattern (20 bp):
GGGGTATCGGTACCTCTAAG
Found at i:1756026 original size:54 final size:54
Alignment explanation
Indices: 1755942--1756062 Score: 188
Period size: 54 Copynumber: 2.2 Consensus size: 54
1755932 TACCTCTAAG
* * * *
1755942 GGGGTATCAGTACCCATTGGGCATTATGTTTTTCTCGGAGCCAAAATTGGCATT
1 GGGGTATCGGTACCCATTGGGCATTATGTTTTTCTCGAAGCCAAAATTGACATA
* *
1755996 GGGGTATCGGTACCCATTTGGCATTCTGTTTTTCTCGAAGCCAAAATTGACATA
1 GGGGTATCGGTACCCATTGGGCATTATGTTTTTCTCGAAGCCAAAATTGACATA
1756050 GGGGTATCGGTAC
1 GGGGTATCGGTAC
1756063 ACCCTATGAG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.32
Consensus pattern (54 bp):
GGGGTATCGGTACCCATTGGGCATTATGTTTTTCTCGAAGCCAAAATTGACATA
Found at i:1756679 original size:27 final size:27
Alignment explanation
Indices: 1756626--1756689 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
1756616 AATTAATATA
* *
1756626 AACCAATATAAACATTAAATTCAAATC
1 AACCAAAATAAAAATTAAATTCAAATC
*
1756653 AACCAAAATAAAAATATAAGTTC-AATC
1 AACCAAAATAAAAAT-TAAATTCAAATC
*
1756680 -ATCAAAATAA
1 AACCAAAATAA
1756690 CCATATCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 9 0.28
27 17 0.53
28 6 0.19
ACGTcount: A:0.59, C:0.16, G:0.02, T:0.23
Consensus pattern (27 bp):
AACCAAAATAAAAATTAAATTCAAATC
Found at i:1758666 original size:21 final size:20
Alignment explanation
Indices: 1758594--1758673 Score: 81
Period size: 21 Copynumber: 3.8 Consensus size: 20
1758584 TAAACCCGAC
*
1758594 AAGGGGTATCGATAC-CCTT
1 AAGGGGTATCGATACACATT
*
1758613 ATAGGGGTATTGATACACATT
1 A-AGGGGTATCGATACACATT
*
1758634 CAAAGAGGGTATCGATACACGTT
1 --AAG-GGGTATCGATACACATT
1758657 GAAGGGGTATCGATACA
1 -AAGGGGTATCGATACA
1758674 TGGTGCACAA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
19 1 0.02
20 13 0.25
21 16 0.31
22 5 0.10
23 16 0.31
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.25
Consensus pattern (20 bp):
AAGGGGTATCGATACACATT
Found at i:1764482 original size:54 final size:54
Alignment explanation
Indices: 1764419--1764541 Score: 192
Period size: 54 Copynumber: 2.3 Consensus size: 54
1764409 GTTAAATGAC
* * *
1764419 TAGGGGTATCGGTACCCATTGGGCATTCTGTTTTTCTCAGAGCCAAAATTGGTA
1 TAGGGGTATCGATACCCATTGGACATTCTGTTTTTCTCAGAGCCAAAATTGATA
* *
1764473 TAGGGGTATCGATACCCATTTGACATTCTGTTTTTCTCGGAGCCAAAATTGATA
1 TAGGGGTATCGATACCCATTGGACATTCTGTTTTTCTCAGAGCCAAAATTGATA
*
1764527 GAGGGGTATCGATAC
1 TAGGGGTATCGATAC
1764542 ACCCTATGAG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (54 bp):
TAGGGGTATCGATACCCATTGGACATTCTGTTTTTCTCAGAGCCAAAATTGATA
Found at i:1769662 original size:21 final size:21
Alignment explanation
Indices: 1769632--1769672 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1769622 AAAAAATGGC
* *
1769632 AGTGACGCAGATGGGTTTGGT
1 AGTGAAGCAGATGAGTTTGGT
1769653 AGTGAAGCAGATGAGTTTGG
1 AGTGAAGCAGATGAGTTTGG
1769673 GTAAAAGGCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.41, T:0.27
Consensus pattern (21 bp):
AGTGAAGCAGATGAGTTTGGT
Found at i:1769888 original size:41 final size:41
Alignment explanation
Indices: 1769758--1770138 Score: 340
Period size: 41 Copynumber: 9.2 Consensus size: 41
1769748 ATAAATTTGT
* *
1769758 GGCGTTTGTAAAAACAAACGCCACAAAAGTACAAGTCTATAGC
1 GGCGTTTGT-ATAA-AAACGCCACTAAAGTACAAGTCTATAGC
** * * * * *
1769801 GGAATATATATATAAACGCCACTAAAGGTACAATTATATAGC
1 GGCGTTTGTATAAAAACGCCACTAAA-GTACAAGTCTATAGC
* * *
1769843 GGCGTTTGTATAAAAACGCCACCAAAGTACAAGTGTATAGT
1 GGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATAGC
* *
1769884 GGCGTTTGTATATAAACGCCACTAAAGTACAAGTCTTTAGC
1 GGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATAGC
* * * * * *
1769925 GGTGTTTATAAACACAAACGCCACTAAAGTACAATTTTATAAC
1 GGCGTTTGTATA-A-AAACGCCACTAAAGTACAAGTCTATAGC
* * *
1769968 GGCGTTTGTATAAAAACACCACTAAAGTACGAGTTTATAGC
1 GGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATAGC
* *
1770009 GGCGTTTGTATAAAAACGCCACTAAAGTACTATTCTATTA-C
1 GGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTA-TAGC
* * * * *
1770050 GGCGTTTGT-TGAAAAAAAGCCAGTATAAAT-GAA-CCTATTA-C
1 GGCGTTTGTAT--AAAAACGCCACTA-AAGTACAAGTCTA-TAGC
* * *
1770091 GGCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTATAGC
1 GGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATAGC
1770132 GGCGTTT
1 GGCGTTT
1770139 TTCTTAAAAA
Statistics
Matches: 272, Mismatches: 55, Indels: 24
0.77 0.16 0.07
Matches are distributed among these distances:
39 3 0.01
40 14 0.05
41 163 0.60
42 51 0.19
43 41 0.15
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (41 bp):
GGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATAGC
Found at i:1769972 original size:84 final size:81
Alignment explanation
Indices: 1769758--1770058 Score: 316
Period size: 84 Copynumber: 3.6 Consensus size: 81
1769748 ATAAATTTGT
* * ** * *
1769758 GGCGTTTGTAAAAACAAACGCCACAAAAGTACAAGTCTATAGCGGAATATATATATAAACGCCAC
1 GGCGTTTGT-AAAA-AAACGCCACTAAAGTACAAGTCTATAACGGCGTTTGTATATAAACGCCAC
1769823 TAAAGGTACAA-TTATATAGC
64 TAAA-GTACAAGTT-T-TAGC
* * * **
1769843 GGCGTTTGTATAAAAACGCCACCAAAGTACAAGTGTATAGTGGCGTTTGTATATAAACGCCACTA
1 GGCGTTTGTAAAAAAACGCCACTAAAGTACAAGTCTATAACGGCGTTTGTATATAAACGCCACTA
1769908 AAGTACAAGTCTTTAGC
66 AAGTACAAGT-TTTAGC
* * * * * *
1769925 GGTGTTTATAAACACAAACGCCACTAAAGTACAATTTTATAACGGCGTTTGTATAAAAACACCAC
1 GGCGTTTGTAAA-A-AAACGCCACTAAAGTACAAGTCTATAACGGCGTTTGTATATAAACGCCAC
*
1769990 TAAAGTACGAGTTTATAGC
64 TAAAGTACAAGTTT-TAGC
* * * *
1770009 GGCGTTTGTATAAAAACGCCACTAAAGTACTATTCTATTACGGCGTTTGT
1 GGCGTTTGTAAAAAAACGCCACTAAAGTACAAGTCTATAACGGCGTTTGT
1770059 TGAAAAAAAG
Statistics
Matches: 186, Mismatches: 25, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
82 53 0.28
83 53 0.28
84 71 0.38
85 9 0.05
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (81 bp):
GGCGTTTGTAAAAAAACGCCACTAAAGTACAAGTCTATAACGGCGTTTGTATATAAACGCCACTA
AAGTACAAGTTTTAGC
Found at i:1769995 original size:125 final size:124
Alignment explanation
Indices: 1769758--1770038 Score: 375
Period size: 125 Copynumber: 2.2 Consensus size: 124
1769748 ATAAATTTGT
* * * * *
1769758 GGCGTTTGTAAAAACAAACGCCACAAAAGTACAAGTCTATAGCGGAATATATATATAAACGCCAC
1 GGCGTTTGT-ATAA-AAACGCCACTAAAGTACAAGTCTATAGCGGAATATAAACACAAACGCCAC
* * *
1769823 TAAAGGTACAATTATATAGCGGCGTTTGTATAAAAACGCCACCAAAGTACAAGTGTATAGT
64 TAAAGGTACAATTATATAACGGCGTTTGTATAAAAACACCACCAAAGTACAAGTGTATAGC
* * **
1769884 GGCGTTTGTATATAAACGCCACTAAAGTACAAGTCTTTAGCGGTGTTTATAAACACAAACGCCAC
1 GGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATAGC-G-GAATATAAACACAAACGCCAC
* * * *
1769949 TAAA-GTACAATTTTATAACGGCGTTTGTATAAAAACACCACTAAAGTACGAGTTTATAGC
64 TAAAGGTACAATTATATAACGGCGTTTGTATAAAAACACCACCAAAGTACAAGTGTATAGC
1770009 GGCGTTTGTATAAAAACGCCACTAAAGTAC
1 GGCGTTTGTATAAAAACGCCACTAAAGTAC
1770039 TATTCTATTA
Statistics
Matches: 136, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
124 26 0.19
125 81 0.60
126 29 0.21
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (124 bp):
GGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATAGCGGAATATAAACACAAACGCCACTA
AAGGTACAATTATATAACGGCGTTTGTATAAAAACACCACCAAAGTACAAGTGTATAGC
Found at i:1773914 original size:14 final size:15
Alignment explanation
Indices: 1773895--1773934 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
1773885 TTTCTGTCTA
*
1773895 TATGCAGAGATTT-T
1 TATGCAGGGATTTAT
1773909 TATGCAGGGATTTAT
1 TATGCAGGGATTTAT
1773924 T-TGCAGGGATT
1 TATGCAGGGATT
1773935 ACTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 22 0.92
15 2 0.08
ACGTcount: A:0.25, C:0.07, G:0.28, T:0.40
Consensus pattern (15 bp):
TATGCAGGGATTTAT
Found at i:1776393 original size:61 final size:61
Alignment explanation
Indices: 1776319--1776465 Score: 138
Period size: 61 Copynumber: 2.4 Consensus size: 61
1776309 TACAAGGACG
* * * *
1776319 AAAATGGAGAAAAATAGAAACTTAA-AGGACCAAAATAGTACAAAAA-GGA-ATTTAAAGGTCC
1 AAAATAGAAAAAAACAGAAACTTAAGA-GAACAAAATA--ACAAAAACGGACATTTAAAGGTCC
* * * *
1776380 AAAATAGAAAAAAACATAAACTTAAGAGAATAAAATAACAAAAACGGACATTTAAAGGACT
1 AAAATAGAAAAAAACAGAAACTTAAGAGAACAAAATAACAAAAACGGACATTTAAAGGTCC
* * * *
1776441 AATATAGTAAAAAACAAAAATTTAA
1 AAAATAGAAAAAAACAGAAACTTAA
1776466 AGGGCTAAAC
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
59 7 0.10
60 3 0.04
61 60 0.85
62 1 0.01
ACGTcount: A:0.61, C:0.09, G:0.13, T:0.18
Consensus pattern (61 bp):
AAAATAGAAAAAAACAGAAACTTAAGAGAACAAAATAACAAAAACGGACATTTAAAGGTCC
Found at i:1778032 original size:19 final size:19
Alignment explanation
Indices: 1778005--1778042 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1777995 GTTAAAATGA
1778005 AAGGATATTACCCTTAGTC
1 AAGGATATTACCCTTAGTC
*
1778024 AAGGGTATTACCCTTAGTC
1 AAGGATATTACCCTTAGTC
1778043 TAATTATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (19 bp):
AAGGATATTACCCTTAGTC
Found at i:1780088 original size:46 final size:46
Alignment explanation
Indices: 1780021--1780109 Score: 169
Period size: 46 Copynumber: 1.9 Consensus size: 46
1780011 ATTTTATAAG
*
1780021 TATTTTTTATTTAATTAAGATAACTTTGTAAAATTTATAATTACAA
1 TATTTTTTATTTAATTAAGATAAATTTGTAAAATTTATAATTACAA
1780067 TATTTTTTATTTAATTAAGATAAATTTGTAAAATTTATAATTA
1 TATTTTTTATTTAATTAAGATAAATTTGTAAAATTTATAATTA
1780110 TAATTTTCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (46 bp):
TATTTTTTATTTAATTAAGATAAATTTGTAAAATTTATAATTACAA
Found at i:1780108 original size:26 final size:26
Alignment explanation
Indices: 1780032--1780109 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
1780022 ATTTTTTATT
*
1780032 TAATTAAGATAACTTTGTAAAATTTA
1 TAATTAAGATAAATTTGTAAAATTTA
**
1780058 TAATTACA-AT--ATTT-T-TTA-TT-
1 TAATTA-AGATAAATTTGTAAAATTTA
1780078 TAATTAAGATAAATTTGTAAAATTTA
1 TAATTAAGATAAATTTGTAAAATTTA
1780104 TAATTA
1 TAATTA
1780110 TAATTTTCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 16
0.65 0.08 0.27
Matches are distributed among these distances:
19 1 0.03
20 8 0.21
21 2 0.05
22 5 0.13
23 2 0.05
24 4 0.10
25 2 0.05
26 14 0.36
27 1 0.03
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (26 bp):
TAATTAAGATAAATTTGTAAAATTTA
Found at i:1780243 original size:20 final size:19
Alignment explanation
Indices: 1780201--1780243 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
1780191 AAATTTACAT
* * *
1780201 AATTTAAAAATATATTTAC
1 AATTTAAAAATAAATCTAA
1780220 AATTTCAAAAATAAATCTAA
1 AATTT-AAAAATAAATCTAA
1780240 AATT
1 AATT
1780244 CAATATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (19 bp):
AATTTAAAAATAAATCTAA
Found at i:1799376 original size:92 final size:94
Alignment explanation
Indices: 1799208--1799448 Score: 276
Period size: 92 Copynumber: 2.5 Consensus size: 94
1799198 AGGAAACATG
*
1799208 GAAATGAAGAACTATGAGGTAACATAATCAAACAAAAGAACGATCATATTATGCATCTTATGTCA
1 GAAATGAAGAACTATGAGGTAACTTAATCAAACAAAAG-A--AT-ATATTATGCA--TTATGTCA
* * *
1799273 AATCCAAAAATTAAACTAAGTAAATCGGAAATACA
60 AATCAAAAAATTAAACTAAGTAAAGCAGAAATACA
**
1799308 GAAATGAAGAACTATGAGGTAACTTAATCAAACAAAAGAATATATTATGCA-TAT-TCGGATCAA
1 GAAATGAAGAACTATGAGGTAACTTAATCAAACAAAAGAATATATTATGCATTATGTCAAATCAA
1799371 AAAATTAAACTAAGTAAAGCAGAAATACA
66 AAAATTAAACTAAGTAAAGCAGAAATACA
* * * *
1799400 TAAATGGGAAG-A-TATGAGGGAATTTAATCAAACGAAAA-ATTATATTATG
1 GAAAT--GAAGAACTATGAGGTAACTTAATCAAAC-AAAAGAATATATTATG
1799449 AACCTTGCTT
Statistics
Matches: 128, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
92 66 0.52
93 8 0.06
94 4 0.03
96 10 0.08
97 2 0.02
99 1 0.01
100 37 0.29
ACGTcount: A:0.50, C:0.11, G:0.15, T:0.24
Consensus pattern (94 bp):
GAAATGAAGAACTATGAGGTAACTTAATCAAACAAAAGAATATATTATGCATTATGTCAAATCAA
AAAATTAAACTAAGTAAAGCAGAAATACA
Found at i:1800130 original size:22 final size:22
Alignment explanation
Indices: 1800098--1800146 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
1800088 ATTATAGATC
1800098 TGAACCCGACCTAAGAAC-AGCT
1 TGAACCCGACCTAAGAACGA-CT
* *
1800120 TGAACCTGACCTGAGAACGACT
1 TGAACCCGACCTAAGAACGACT
1800142 TGAAC
1 TGAAC
1800147 TCGAATTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.35, C:0.29, G:0.20, T:0.16
Consensus pattern (22 bp):
TGAACCCGACCTAAGAACGACT
Found at i:1800433 original size:14 final size:14
Alignment explanation
Indices: 1800386--1800428 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
1800376 TATTTTAAAT
1800386 TTATAA-TAAACTTA
1 TTATAATTAAA-TTA
1800400 TTATAATTAAATTA
1 TTATAATTAAATTA
*
1800414 TTATTATTATAATTA
1 TTATAATTA-AATTA
1800429 AATTAAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 17 0.65
15 9 0.35
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (14 bp):
TTATAATTAAATTA
Found at i:1802846 original size:22 final size:23
Alignment explanation
Indices: 1802804--1802848 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
1802794 CTCAATTAAT
1802804 CTTAAATCCAAATAAAAAAAATA
1 CTTAAATCCAAATAAAAAAAATA
* *
1802827 CTTAAAT-CAATTAAAGAAAATA
1 CTTAAATCCAAATAAAAAAAATA
1802849 TAAATTCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.62, C:0.11, G:0.02, T:0.24
Consensus pattern (23 bp):
CTTAAATCCAAATAAAAAAAATA
Found at i:1804921 original size:2 final size:2
Alignment explanation
Indices: 1804914--1804950 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1804904 TCAATCTACA
1804914 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1804951 ATTTATCACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1805130 original size:13 final size:13
Alignment explanation
Indices: 1805111--1805158 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
1805101 ACGCGCAATA
1805111 CGCGTCATAAATG
1 CGCGTCATAAATG
*
1805124 TGCGTCATAAATG
1 CGCGTCATAAATG
*
1805137 CGTGTCATAAATG
1 CGCGTCATAAATG
*
1805150 CGCATCATA
1 CGCGTCATA
1805159 GATTTATGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (13 bp):
CGCGTCATAAATG
Found at i:1805609 original size:23 final size:23
Alignment explanation
Indices: 1805579--1805632 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
1805569 TAGTAACCGA
*
1805579 CAAGCATCAATGTACCAATTCAG
1 CAAGCATCAATGCACCAATTCAG
** * *
1805602 CAAGCATCGTTGCATCGATTCAG
1 CAAGCATCAATGCACCAATTCAG
1805625 CAAGCATC
1 CAAGCATC
1805633 CTGCAATAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (23 bp):
CAAGCATCAATGCACCAATTCAG
Found at i:1805750 original size:20 final size:20
Alignment explanation
Indices: 1805725--1805775 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
1805715 AACCCTTACA
** *
1805725 AATATCAAGTAAAAGCAAGC
1 AATATCAAACAAAAGCAAAC
*
1805745 AATATCAAACAGAAGCAAAC
1 AATATCAAACAAAAGCAAAC
1805765 AATATCAAACA
1 AATATCAAACA
1805776 GAATAAAGCA
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:0.59, C:0.18, G:0.10, T:0.14
Consensus pattern (20 bp):
AATATCAAACAAAAGCAAAC
Found at i:1805776 original size:20 final size:20
Alignment explanation
Indices: 1805737--1805778 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
1805727 TATCAAGTAA
*
1805737 AAGCAAGCAATATCAAACAG
1 AAGCAAACAATATCAAACAG
1805757 AAGCAAACAATATCAAACAG
1 AAGCAAACAATATCAAACAG
1805777 AA
1 AA
1805779 TAAAGCAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.60, C:0.19, G:0.12, T:0.10
Consensus pattern (20 bp):
AAGCAAACAATATCAAACAG
Found at i:1808097 original size:2 final size:2
Alignment explanation
Indices: 1808090--1808136 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1808080 AATAAACTAG
1808090 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1808132 TA TA T
1 TA TA T
1808137 CAAACATATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1808430 original size:5 final size:6
Alignment explanation
Indices: 1808361--1808573 Score: 109
Period size: 6 Copynumber: 36.5 Consensus size: 6
1808351 GTTTTGAATA
* * * * * *
1808361 GTTTGG GTTCGG GTTCGA TTTTGG GTTCT-G GTTTGG GTTTAG GTTCGG
1 GTTTGG GTTTGG GTTTGG GTTTGG GTT-TGG GTTTGG GTTTGG GTTTGG
* *
1808409 GTTCGG GTTTGG GTTT-G GTTTGG GTTTGG GTTTAGG GTTT-G GTTTCG
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTT-GG GTTTGG GTTTGG
* * * * * ** * * ** * *
1808456 ATTTAG GTTT-A ATTTGG GTTGGG GTTTAA GTTAGG GTATAT GTCTAG
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG
* * **
1808503 GTTAGG G-TT-G GTTTAG GTTTGG GTTTGG GTTTGG GTTTGG GTCAGG
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG
* *
1808549 GTCTAG G-TT-G GTTTGG GTTTGG GTT
1 GTTTGG GTTTGG GTTTGG GTTTGG GTT
1808574 AGGTTTAAGG
Statistics
Matches: 157, Mismatches: 40, Indels: 20
0.72 0.18 0.09
Matches are distributed among these distances:
4 4 0.03
5 20 0.13
6 126 0.80
7 7 0.04
ACGTcount: A:0.08, C:0.04, G:0.42, T:0.46
Consensus pattern (6 bp):
GTTTGG
Found at i:1808465 original size:41 final size:41
Alignment explanation
Indices: 1808390--1808492 Score: 109
Period size: 41 Copynumber: 2.5 Consensus size: 41
1808380 TTTGGGTTCT
* * **
1808390 GGTTTGGGTTTAGGTTCGGGTTCGGGTTTGGGTTTGGTTTG
1 GGTTTGGGTTTAGGTTCGGGTTCGGATTTAGGTTTAATTTG
* *
1808431 GGTTTGGGTTTAGGGTTTGGTTTC-GATTTAGGTTTAATTTG
1 GGTTTGGGTTTA-GGTTCGGGTTCGGATTTAGGTTTAATTTG
* * *
1808472 GGTTGGGGTTTAAGTTAGGGT
1 GGTTTGGGTTTAGGTTCGGGT
1808493 ATATGTCTAG
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
40 6 0.12
41 36 0.71
42 9 0.18
ACGTcount: A:0.09, C:0.03, G:0.42, T:0.47
Consensus pattern (41 bp):
GGTTTGGGTTTAGGTTCGGGTTCGGATTTAGGTTTAATTTG
Found at i:1808563 original size:34 final size:34
Alignment explanation
Indices: 1808524--1808591 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
1808514 TTTAGGTTTG
* *
1808524 GGTTTGGGTTTGGGTTTGGGTCAGGGTCTAGGTT
1 GGTTTGGGTTTGGGTTAGGGTCAAGGTCTAGGTT
* *
1808558 GGTTTGGGTTTGGGTTAGGTTTAAGGTCTAGGTT
1 GGTTTGGGTTTGGGTTAGGGTCAAGGTCTAGGTT
1808592 AGTGTTCAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.09, C:0.04, G:0.44, T:0.43
Consensus pattern (34 bp):
GGTTTGGGTTTGGGTTAGGGTCAAGGTCTAGGTT
Found at i:1808910 original size:113 final size:109
Alignment explanation
Indices: 1808755--1809067 Score: 434
Period size: 101 Copynumber: 2.9 Consensus size: 109
1808745 AATGAATTTA
* *
1808755 TGGGTGTTCGAT--AAAAAAACATG-AAATGGTTTGTGTTTAGGTGTTTTTGAAGATCAATGGAG
1 TGGGTGTTTGATCGAAAAAAACATGAAAATGTTTTG-GTTTAGGTGTTTTTGAAGATCAAT-GAG
1808817 GGTTTTGGGGAAGAACTGGATGAACAAATGAAGAACACAGAAGAATATT
64 GGTTTTGGGGAAGAACTGGATGAACAAATGAAG-A-AC-GAAGAATATT
* *
1808866 TGGGTGTTTGATCGAAAAAAACACGAAAATGTTTTGGTTTAGGTGTTTTTGAAGATTAAATGAGG
1 TGGGTGTTTGATCGAAAAAAACATGAAAATGTTTTGGTTTAGGTGTTTTTGAAGA-TCAATGAGG
1808931 GTTTTGGGGAAGAACTGGATGAACAAAT-------GAAGAATATT
65 GTTTTGGGGAAGAACTGGATGAACAAATGAAGAACGAAGAATATT
1808969 TGGGTGTTTGATCG-AAAAAA-ATGAAAATGTTTTGGTTTAGGTGTTTTTGAAGATCAAATGAGG
1 TGGGTGTTTGATCGAAAAAAACATGAAAATGTTTTGGTTTAGGTGTTTTTGAAGATC-AATGAGG
*
1809032 GTTTTGGTGAAGAACTGGATGAACAAATGAAGAACG
65 GTTTTGGGGAAGAACTGGATGAACAAATGAAGAACG
1809068 CGGTTGATTT
Statistics
Matches: 183, Mismatches: 7, Indels: 27
0.84 0.03 0.12
Matches are distributed among these distances:
100 1 0.01
101 66 0.36
102 6 0.03
103 24 0.13
108 1 0.01
111 11 0.06
113 61 0.33
114 13 0.07
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (109 bp):
TGGGTGTTTGATCGAAAAAAACATGAAAATGTTTTGGTTTAGGTGTTTTTGAAGATCAATGAGGG
TTTTGGGGAAGAACTGGATGAACAAATGAAGAACGAAGAATATT
Found at i:1809165 original size:19 final size:19
Alignment explanation
Indices: 1809143--1809185 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
1809133 GCAAAATAAT
1809143 AAAATG-AGAAAAAGACAAA
1 AAAATGCAGAAAAAGA-AAA
* *
1809162 AAAATGCTGAAAATGAAAA
1 AAAATGCAGAAAAAGAAAA
1809181 AAAAT
1 AAAAT
1809186 ATCTTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.70, C:0.05, G:0.14, T:0.12
Consensus pattern (19 bp):
AAAATGCAGAAAAAGAAAA
Found at i:1809415 original size:61 final size:61
Alignment explanation
Indices: 1809279--1809415 Score: 190
Period size: 61 Copynumber: 2.2 Consensus size: 61
1809269 TTCTAGTTTT
* *
1809279 AAATTTGTTCAATTTAGTCCAAATTTAATGATGTAATATATTAATTTAAGCTTCATATTTC
1 AAATTTGTTTAATTTAGTCCAAATTTAATGATGTAATATATTAATTTAAGCTTCATATTTA
* *
1809340 AACTTT-TTTCAATTTAGTCCAAATTTAAT-AT-TACAATTTATTAATTTAAGCTTCATATTTA
1 AAATTTGTTT-AATTTAGTCCAAATTTAATGATGT--AATATATTAATTTAAGCTTCATATTTA
1809401 AAATTTGTTTAATTT
1 AAATTTGTTTAATTT
1809416 GATCCTTATA
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
59 1 0.01
60 4 0.06
61 59 0.88
62 3 0.04
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (61 bp):
AAATTTGTTTAATTTAGTCCAAATTTAATGATGTAATATATTAATTTAAGCTTCATATTTA
Found at i:1812374 original size:33 final size:35
Alignment explanation
Indices: 1812318--1812400 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 35
1812308 CTTTCCAGAC
* *
1812318 TTTCAACATATAGGTTATAATATACTAATAAACT-
1 TTTCAATATATAGTTTATAATATACTAATAAACTA
* *
1812352 TTTCAATATATAGTTTAT-ATATAGTAATGAACTA
1 TTTCAATATATAGTTTATAATATACTAATAAACTA
*
1812386 TAT-AATATATAGTTT
1 TTTCAATATATAGTTT
1812401 GTATGTACCA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
33 25 0.58
34 18 0.42
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.43
Consensus pattern (35 bp):
TTTCAATATATAGTTTATAATATACTAATAAACTA
Found at i:1812428 original size:58 final size:54
Alignment explanation
Indices: 1812358--1812508 Score: 186
Period size: 50 Copynumber: 2.8 Consensus size: 54
1812348 AACTTTTCAA
*
1812358 TATATAGTTTATATATAGTAATGAACTATATAATATATAGTTTGTATGTACCATAAAC
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTGT-T-T--CATAAAC
* * *
1812416 TATATAGGTTATATATACTAATGAACTACA-AGATATATA----GTTTCATATAC
1 TATATAGTTTATATATACTAATGAACTATATA-ATATATAGTTTGTTTCATAAAC
1812466 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTT
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTT
1812509 ATATATACTA
Statistics
Matches: 81, Mismatches: 6, Indels: 16
0.79 0.06 0.16
Matches are distributed among these distances:
50 41 0.51
51 1 0.01
52 1 0.01
53 1 0.01
54 2 0.02
57 1 0.01
58 34 0.42
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (54 bp):
TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTGTTTCATAAAC
Found at i:1812483 original size:18 final size:18
Alignment explanation
Indices: 1812449--1812626 Score: 142
Period size: 18 Copynumber: 10.2 Consensus size: 18
1812439 AACTACAAGA
*
1812449 TATATAGTTT-CATATAC
1 TATATAGTTTATATATAC
1812466 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
* *
1812484 TA-AT-G--AACTATATAA
1 TATATAGTTTA-TATATAC
1812499 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
** *
1812517 TA-AT-GAAATATATATAA
1 TATATAG-TTTATATATAC
*
1812534 TTTATAGTTTATATATAC
1 TATATAGTTTATATATAC
* *
1812552 CATATAGTTTATATATAA
1 TATATAGTTTATATATAC
1812570 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
** *
1812588 TA-AT-GAACTATAGAATA-
1 TATATAG-TTTATA-TATAC
1812605 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
1812623 TATA
1 TATA
1812627 GTATAAATTA
Statistics
Matches: 124, Mismatches: 23, Indels: 27
0.71 0.13 0.16
Matches are distributed among these distances:
14 1 0.01
15 8 0.06
16 5 0.04
17 35 0.28
18 72 0.58
19 3 0.02
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (18 bp):
TATATAGTTTATATATAC
Found at i:1812531 original size:35 final size:35
Alignment explanation
Indices: 1812460--1812624 Score: 203
Period size: 35 Copynumber: 4.7 Consensus size: 35
1812450 ATATAGTTTC
* *
1812460 ATATACTATATAGTTTATATATACTAATG-AA-CT
1 ATATAATATATAGTTTATATATACTAATGAAATAT
1812493 ATATAATATATAGTTTATATATACTAATGAAATAT
1 ATATAATATATAGTTTATATATACTAATGAAATAT
* * **
1812528 ATATAATTTATAGTTTATATATACCATAT-AGTTTAT
1 ATATAATATATAGTTTATATATACTA-ATGA-AATAT
*
1812564 ATATAATATATAGTTTATATATACTAATGAACTAT
1 ATATAATATATAGTTTATATATACTAATGAAATAT
*
1812599 AGA-ATATATATAGTTTATATATACTA
1 ATATA-ATATATAGTTTATATATACTA
1812625 TAGTATAAAT
Statistics
Matches: 115, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
33 28 0.24
34 3 0.03
35 54 0.47
36 30 0.26
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.44
Consensus pattern (35 bp):
ATATAATATATAGTTTATATATACTAATGAAATAT
Found at i:1812644 original size:35 final size:35
Alignment explanation
Indices: 1812461--1812773 Score: 138
Period size: 35 Copynumber: 8.9 Consensus size: 35
1812451 TATAGTTTCA
* * *
1812461 TATACTATATAGTTTATATATACTA-A-T-GAACT
1 TATAATATATAGTTTATATATACTATAGTATAAAT
1812493 ATATAATATATAGTTTATATATACTA-A-TGA-AATAT
1 -TATAATATATAGTTTATATATACTATAGT-ATAA-AT
* * *
1812528 ATATAATTTATAGTTTATATATACCATATAGTTTATA-
1 -TATAATATATAGTTTATATATA-C-TATAGTATAAAT
* *
1812565 TATAATATATAGTTTATATATACTAATGAACTATAGA-
1 TATAATATATAGTTTATATATACT-AT--AGTATAAAT
1812602 -AT-ATATATAGTTTATATATACTATAGTATAAAT
1 TATAATATATAGTTTATATATACTATAGTATAAAT
** * * *
1812635 TATTTTATATAGTATATAAATATCAACTATAGTATATAG
1 TATAATATATAGT-T-TATATAT--ACTATAGTATAAAT
* * * * *
1812674 TCT-ATATGGT-TTTTATATATAGTTCATA-TGTAAAT
1 TATAATAT-ATAGTTTATATATA-CT-ATAGTATAAAT
* * *
1812709 TATACTATATAG--TATATATAGTATA-TATATAT
1 TATAATATATAGTTTATATATACTATAGTATAAAT
* *
1812741 ATATATATATATA-TATATATATAATATAGTATA
1 -TATA-ATATATAGTTTATATATACTATAGTATA
1812774 GTATATAAAT
Statistics
Matches: 219, Mismatches: 33, Indels: 53
0.72 0.11 0.17
Matches are distributed among these distances:
32 14 0.06
33 31 0.14
34 22 0.10
35 74 0.34
36 41 0.19
37 14 0.06
38 6 0.03
39 17 0.08
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.45
Consensus pattern (35 bp):
TATAATATATAGTTTATATATACTATAGTATAAAT
Found at i:1812671 original size:104 final size:103
Alignment explanation
Indices: 1812356--1812672 Score: 258
Period size: 108 Copynumber: 3.0 Consensus size: 103
1812346 TAAACTTTTC
* * * * *
1812356 AATATATAGTTTATATATAGTAATGAACTATATAATATATAGTTTGTATGTAC-CATAAACTAT-
1 AATATATAGTTTATATATACTAATGAACTATAAAATATATAGTTTATATATACTAATAAA-TATA
** *
1812419 -ATAGGTTATA-TATACTAATGAACTACAAGATATA-TAGTTTCATAT
65 AATAATTTATAGTATA-T-AT--A-TAC-A-ATATACTA-TAT-ATAT
* *
1812464 ACTATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATACTAATGAAATATA
1 AATATATAGTTTATATATACTAATGAACTATAAAATATATAGTTTATATATACTAAT-AAATATA
* * * * *
1812529 TATAATTTATAGTTTATATATACCATATAGTTTATATAT
65 AATAATTTATAGTATATATATACAATATACTATATATAT
*
1812568 AATATATAGTTTATATATACTAATGAACTATAGAATATATATAGTTTATATATACT-AT-AGTAT
1 AATATATAGTTTATATATACTAATGAACTATA-AA-ATATATAGTTTATATATACTAATAAATAT
*
1812631 AAATTATTT-TA-TATAGTATATA-AATATCAACTATAGTATAT
64 AAATAATTTATAGTATA-TATATACAATAT--ACTATA-TATAT
1812672 A
1 A
1812673 GTCTATATGG
Statistics
Matches: 177, Mismatches: 20, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
101 7 0.04
102 8 0.05
103 15 0.08
104 41 0.23
105 10 0.06
106 21 0.12
107 3 0.02
108 50 0.28
109 5 0.03
110 5 0.03
111 9 0.05
112 3 0.02
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.43
Consensus pattern (103 bp):
AATATATAGTTTATATATACTAATGAACTATAAAATATATAGTTTATATATACTAATAAATATAA
ATAATTTATAGTATATATATACAATATACTATATATAT
Found at i:1812726 original size:2 final size:2
Alignment explanation
Indices: 1812709--1812786 Score: 95
Period size: 2 Copynumber: 37.0 Consensus size: 2
1812699 ATATGTAAAT
1812709 TA TA CTA TA TA GTA TA TA TA GTA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
*
1812752 TA TA TA TA TA TA -A TA TA GTA TA GTA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA
1812787 ACTATAGTAT
Statistics
Matches: 68, Mismatches: 2, Indels: 12
0.83 0.02 0.15
Matches are distributed among these distances:
1 1 0.01
2 57 0.84
3 10 0.15
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:1812727 original size:25 final size:23
Alignment explanation
Indices: 1812687--1812840 Score: 111
Period size: 25 Copynumber: 6.3 Consensus size: 23
1812677 ATATGGTTTT
*
1812687 TATATATAGT-TCATATGTAAATTA
1 TATATATAGTAT-ATATATAAA-TA
1812711 TACTATATAGTATATATAGTATATATA
1 TA-TATATAGTATATATA-TA-A-ATA
*
1812738 TATATATA-TATATATATATATA
1 TATATATAGTATATATATAAATA
1812760 TATAATATAGTATAGTATATAAATA
1 TAT-ATATAGTATA-TATATAAATA
1812785 TA-ACTATAGTATGTAGTATATAAATA
1 TATA-TATAGTA--TA-TATATAAATA
* *
1812811 TAAACTATAGT-T-TTTATAAATA
1 TATA-TATAGTATATATATAAATA
1812833 GTATATAT
1 -TATATAT
1812841 TATATAAATA
Statistics
Matches: 112, Mismatches: 5, Indels: 28
0.77 0.03 0.19
Matches are distributed among these distances:
22 18 0.16
23 9 0.08
24 16 0.14
25 31 0.28
26 24 0.21
27 13 0.12
28 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (23 bp):
TATATATAGTATATATATAAATA
Found at i:1812739 original size:27 final size:26
Alignment explanation
Indices: 1812709--1812861 Score: 106
Period size: 24 Copynumber: 5.8 Consensus size: 26
1812699 ATATGTAAAT
1812709 TATACTATATAGTATATATAGTATATA
1 TATA-TATATAGTATATATAGTATATA
1812736 TATATATATA-TATATATA-TATATA
1 TATATATATAGTATATATAGTATATA
1812760 TATA-ATATAGTATAGTATA-TA-A-A
1 TATATATATAGTATA-TATAGTATATA
* *
1812783 TATA-ACTATAGTATGTAGTA-TATAAA
1 TATATA-TATAGTATATA-TAGTATATA
* *
1812809 TATAAACTATAGTTTTTATAAATAGTATATA
1 TATATA-TATAG----TATATATAGTATATA
* *
1812840 TTATATAAATAGTTTATATAGT
1 -TATATATATAGTATATATAGT
1812862 TCATATGTAA
Statistics
Matches: 105, Mismatches: 8, Indels: 26
0.76 0.06 0.19
Matches are distributed among these distances:
23 13 0.12
24 27 0.26
25 15 0.14
26 11 0.10
27 19 0.18
30 2 0.02
31 13 0.12
32 5 0.05
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (26 bp):
TATATATATAGTATATATAGTATATA
Found at i:1812805 original size:49 final size:44
Alignment explanation
Indices: 1812709--1812846 Score: 120
Period size: 45 Copynumber: 3.0 Consensus size: 44
1812699 ATATGTAAAT
* *
1812709 TATACTATATAGTATATATAGTATATATATATATATATATATATA
1 TATA-TATATAATATATATAGTATATAAATATATATATATATATA
*
1812754 TATATATATAATATAGTATAGTATATAAATATAACTATAGTATGTAGTA
1 TATATATATAATATA-TATAGTATATAAATAT-A-TATA-TATATA-TA
* * *
1812803 TATAAATATAA-ACTATAGT-TTTTATAAATAGTATATAT-TATATA
1 TATATATATAATA-TATA-TAGTATATAAATA-TATATATATATATA
1812847 AATAGTTTAT
Statistics
Matches: 78, Mismatches: 7, Indels: 17
0.76 0.07 0.17
Matches are distributed among these distances:
44 12 0.15
45 22 0.28
46 2 0.03
47 8 0.10
48 18 0.23
49 16 0.21
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (44 bp):
TATATATATAATATATATAGTATATAAATATATATATATATATA
Found at i:1812846 original size:18 final size:18
Alignment explanation
Indices: 1812707--1812858 Score: 80
Period size: 18 Copynumber: 8.1 Consensus size: 18
1812697 TCATATGTAA
*
1812707 ATTATACTATATAGTATAT
1 ATTATA-TAAATAGTATAT
*
1812726 A-TAGTATATATA-TATAT
1 ATTA-TATAAATAGTATAT
*
1812743 ATATATATATATA-TATAT
1 AT-TATATAAATAGTATAT
* *
1812761 ATAATATAGTATAGTATAT
1 ATTATATA-AATAGTATAT
* *
1812780 A-AATATAACTATAGTATGT
1 ATTATATAA--ATAGTATAT
*
1812799 AGTATATAAATA-TAAACTAT
1 ATTATATAAATAGT--A-TAT
*
1812819 AGTTTTTATAAATAGTATAT
1 A--TTATATAAATAGTATAT
*
1812839 ATTATATAAATAGTTTAT
1 ATTATATAAATAGTATAT
1812857 AT
1 AT
1812859 AGTTCATATG
Statistics
Matches: 110, Mismatches: 9, Indels: 29
0.74 0.06 0.20
Matches are distributed among these distances:
17 12 0.11
18 53 0.48
19 21 0.19
20 13 0.12
21 1 0.01
22 9 0.08
23 1 0.01
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.45
Consensus pattern (18 bp):
ATTATATAAATAGTATAT
Found at i:1812877 original size:18 final size:18
Alignment explanation
Indices: 1812856--1812964 Score: 94
Period size: 18 Copynumber: 5.6 Consensus size: 18
1812846 AAATAGTTTA
1812856 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
1812874 TATAGTTCATATGTAAATATCAAC
1 TATAGTTCATATG----TA--AAC
*
1812898 TATAGTTTATATGTAAAC
1 TATAGTTCATATGTAAAC
*
1812916 TATAGTT-AGTATATAAAC
1 TATAGTTCA-TATGTAAAC
* *
1812934 TATATAGTTTATATGTAAAT
1 --TATAGTTCATATGTAAAC
1812954 TATAGTTCATA
1 TATAGTTCATA
1812965 CATAAATATC
Statistics
Matches: 76, Mismatches: 5, Indels: 20
0.75 0.05 0.20
Matches are distributed among these distances:
17 1 0.01
18 41 0.54
20 16 0.21
21 1 0.01
22 2 0.03
24 15 0.20
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.42
Consensus pattern (18 bp):
TATAGTTCATATGTAAAC
Found at i:1812902 original size:42 final size:42
Alignment explanation
Indices: 1812856--1812981 Score: 163
Period size: 42 Copynumber: 3.1 Consensus size: 42
1812846 AAATAGTTTA
* *
1812856 TATAGTTCATATGTAAACTATAGTTCATATGTAAATATCAAC
1 TATAGTTTATATGTAAACTATAGTTCATATATAAATATCAAC
*
1812898 TATAGTTTATATGTAAACTATAGTT-AGTATAT-AA-A-CTA-
1 TATAGTTTATATGTAAACTATAGTTCA-TATATAAATATCAAC
* *
1812936 TATAGTTTATATGTAAATTATAGTTCATACATAAATATCAAC
1 TATAGTTTATATGTAAACTATAGTTCATATATAAATATCAAC
1812978 TATA
1 TATA
1812982 ACATATATAT
Statistics
Matches: 72, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
38 28 0.39
39 5 0.07
40 2 0.03
41 5 0.07
42 32 0.44
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (42 bp):
TATAGTTTATATGTAAACTATAGTTCATATATAAATATCAAC
Found at i:1812970 original size:38 final size:39
Alignment explanation
Indices: 1812854--1812971 Score: 141
Period size: 38 Copynumber: 3.0 Consensus size: 39
1812844 ATAAATAGTT
* *
1812854 TATATAGTTCATATGTAAACTATAGTTCATATGTAAATATC
1 TATATAGTTTATATGTAAACTATAGTTCATATAT-AA-ATC
*
1812895 AACTATAGTTTATATGTAAACTATAGTT-AGTATATAAA-C
1 TA-TATAGTTTATATGTAAACTATAGTTCA-TATATAAATC
* *
1812934 TATATAGTTTATATGTAAATTATAGTTCATACATAAAT
1 TATATAGTTTATATGTAAACTATAGTTCATATATAAAT
1812972 ATCAACTATA
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
38 31 0.46
39 3 0.04
40 1 0.01
41 4 0.06
42 28 0.42
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (39 bp):
TATATAGTTTATATGTAAACTATAGTTCATATATAAATC
Found at i:1813033 original size:33 final size:33
Alignment explanation
Indices: 1812987--1813070 Score: 120
Period size: 33 Copynumber: 2.6 Consensus size: 33
1812977 CTATAACATA
*
1812987 TATATA-TATATATATATAGTTCATATGTAAAC
1 TATATAGTTTATATATATAGTTCATATGTAAAC
*
1813019 TATATAGTTTATATATATTGTTCATATGTAAAC
1 TATATAGTTTATATATATAGTTCATATGTAAAC
*
1813052 --TATAGTTCATATATATAGT
1 TATATAGTTTATATATATAGT
1813071 ATATAAATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
31 17 0.36
32 6 0.13
33 24 0.51
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.46
Consensus pattern (33 bp):
TATATAGTTTATATATATAGTTCATATGTAAAC
Found at i:1813075 original size:20 final size:19
Alignment explanation
Indices: 1812990--1813075 Score: 62
Period size: 20 Copynumber: 4.8 Consensus size: 19
1812980 TAACATATAT
1812990 ATATATATATATATAGTTC
1 ATATATATATATATAGTTC
* *
1813009 ATATGTAAACTATATAG-T-
1 ATATATATA-TATATAGTTC
1813027 -T-TATATATAT-T-GTTC
1 ATATATATATATATAGTTC
*
1813042 ATATGTA-A-ACTATAGTTC
1 ATATATATATA-TATAGTTC
1813060 ATATATATAGTATATA
1 ATATATATA-TATATA
1813076 AATATAAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 21
0.65 0.08 0.27
Matches are distributed among these distances:
13 1 0.02
14 2 0.04
15 4 0.08
16 7 0.14
17 5 0.10
18 10 0.20
19 9 0.18
20 11 0.22
21 1 0.02
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (19 bp):
ATATATATATATATAGTTC
Found at i:1813086 original size:23 final size:24
Alignment explanation
Indices: 1813060--1813161 Score: 74
Period size: 23 Copynumber: 4.2 Consensus size: 24
1813050 ACTATAGTTC
1813060 ATATATATAG-TATATAAATATAA
1 ATATATATAGTTATATAAATATAA
1813083 ATATAAACTATAGTTTATATAAATAGTATA
1 ATAT--A-TATAG-TTATATAAATA-TA-A
1813113 A-A-ATATAG-TATATAAAT-T--
1 ATATATATAGTTATATAAATATAA
*
1813131 ATAGTATGTAGTTTATATAAATATAA
1 ATA-TATATAG-TTATATAAATATAA
1813157 ATATA
1 ATATA
1813162 AATCTTAAAC
Statistics
Matches: 63, Mismatches: 1, Indels: 28
0.68 0.01 0.30
Matches are distributed among these distances:
18 1 0.02
19 1 0.02
21 6 0.10
23 22 0.35
24 1 0.02
25 8 0.13
26 9 0.14
28 10 0.16
29 3 0.05
30 2 0.03
ACGTcount: A:0.52, C:0.01, G:0.07, T:0.40
Consensus pattern (24 bp):
ATATATATAGTTATATAAATATAA
Found at i:1813097 original size:39 final size:38
Alignment explanation
Indices: 1813047--1813163 Score: 127
Period size: 39 Copynumber: 3.1 Consensus size: 38
1813037 TGTTCATATG
1813047 TAAACTATAGTTCATATATATAGTATATAAATATAAATA
1 TAAACTATAGTT-ATATATATAGTATATAAATATAAATA
* *
1813086 TAAACTATAGTTTATATAAATAGTATA-AAATATAGTATA
1 TAAACTATAG-TTATATATATAGTATATAAATATA-AATA
* *
1813125 TAAATTATAG-TATGTAGT-T--TATATAAATATAAATA
1 TAAACTATAGTTATATA-TATAGTATATAAATATAAATA
1813160 TAAA
1 TAAA
1813164 TCTTAAACCC
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
35 11 0.16
36 7 0.10
37 6 0.09
38 7 0.10
39 35 0.51
40 2 0.03
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (38 bp):
TAAACTATAGTTATATATATAGTATATAAATATAAATA
Found at i:1813217 original size:21 final size:21
Alignment explanation
Indices: 1813193--1813242 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
1813183 AACCACATAT
1813193 ACTATATA-TATATATCT-ATAA
1 ACTATATAGT-TATAT-TAATAA
1813214 ACTATATAGTTATATTAATAA
1 ACTATATAGTTATATTAATAA
*
1813235 ACTTTATA
1 ACTATATA
1813243 ATTTATACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 1 0.04
21 24 0.92
22 1 0.04
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (21 bp):
ACTATATAGTTATATTAATAA
Found at i:1813270 original size:22 final size:24
Alignment explanation
Indices: 1813237--1813281 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
1813227 ATTAATAAAC
1813237 TTTATAATTTATAC-AATATATTA
1 TTTATAATTTATACTAATATATTA
1813260 TTTATAA-TTATACTTAATATAT
1 TTTATAATTTATAC-TAATATAT
1813282 AAATATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 7 0.35
24 7 0.35
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
TTTATAATTTATACTAATATATTA
Found at i:1813319 original size:22 final size:20
Alignment explanation
Indices: 1813284--1813484 Score: 66
Period size: 18 Copynumber: 10.2 Consensus size: 20
1813274 TAATATATAA
* *
1813284 ATATAAATTGTATAGTTTAT
1 ATATAAACTATATAGTTTAT
* *
1813304 ATATAATTCATATATAATTTAT
1 ATATAA-AC-TATATAGTTTAT
1813326 ATATAAACTATATAGTATTAT
1 ATATAAACTATATAGT-TTAT
* * * *
1813347 AGTTTATAC-ATGGTA-TATAT
1 A-TATAAACTAT-ATAGTTTAT
* * *
1813367 AGTTTATAC-ATA-A-TATAT
1 A-TATAAACTATATAGTTTAT
*
1813385 ATATAAAGTATATAGTTTAT
1 ATATAAACTATATAGTTTAT
* *
1813405 ATATATATA-TATATACTATAT
1 ATATA-A-ACTATATAGTTTAT
* *
1813426 ATATATA-TATATA-TATAT
1 ATATAAACTATATAGTTTAT
* *
1813444 ATATATA-TATATA-TATAT
1 ATATAAACTATATAGTTTAT
* *
1813462 ATATATA-TATATA-TATAT
1 ATATAAACTATATAGTTTAT
1813480 ATATA
1 ATATA
1813485 TATGTTTTAA
Statistics
Matches: 153, Mismatches: 18, Indels: 22
0.79 0.09 0.11
Matches are distributed among these distances:
17 4 0.03
18 56 0.37
19 8 0.05
20 36 0.24
21 25 0.16
22 24 0.16
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.47
Consensus pattern (20 bp):
ATATAAACTATATAGTTTAT
Found at i:1813326 original size:9 final size:10
Alignment explanation
Indices: 1813300--1813486 Score: 71
Period size: 12 Copynumber: 16.9 Consensus size: 10
1813290 ATTGTATAGT
1813300 TTATATATAA
1 TTATATATAA
1813310 TTCATATATAA
1 TT-ATATATAA
1813321 TTTATATATAAA
1 -TTATATAT-AA
*
1813333 CTATATAGT-A
1 TTATATA-TAA
1813343 TTATAGTTTATACA
1 TTATA---TATA-A
*
1813357 TGGTATATATAGT
1 T--TATATATA-A
*
1813370 TTATACATAA
1 TTATATATAA
1813380 TATATATATAA
1 T-TATATATAA
*
1813391 --AGTATATAG
1 TTA-TATATAA
1813400 TT-TATAT-A
1 TTATATATAA
1813408 TATATATATATA
1 T-TATATATA-A
*
1813420 CTATATAT-A
1 TTATATATAA
1813429 TATATATATATA
1 T-TATATATA-A
1813441 TATATATATATA
1 T-TATATATA-A
1813453 TATATATATATA
1 T-TATATATA-A
1813465 TATATATATATA
1 T-TATATATA-A
1813477 TATATATATA
1 T-TATATATA
1813487 TGTTTTAATT
Statistics
Matches: 144, Mismatches: 11, Indels: 42
0.73 0.06 0.21
Matches are distributed among these distances:
8 2 0.01
9 13 0.09
10 20 0.14
11 42 0.29
12 54 0.38
13 7 0.05
14 2 0.01
16 4 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.48
Consensus pattern (10 bp):
TTATATATAA
Found at i:1813329 original size:13 final size:11
Alignment explanation
Indices: 1813294--1813486 Score: 94
Period size: 11 Copynumber: 17.4 Consensus size: 11
1813284 ATATAAATTG
*
1813294 TATAGTTTATA
1 TATAATTTATA
*
1813305 TATAATTCATA
1 TATAATTTATA
1813316 TATAATTTATA
1 TATAATTTATA
**
1813327 TATAAACTATA
1 TATAATTTATA
*
1813338 TAGT-ATTATAGTT
1 TA-TAATT-TA-TA
*
1813351 TATACATGGTATA
1 TATA-AT-TTATA
*
1813364 TATAGTTTATA
1 TATAATTTATA
* *
1813375 CATAATATATA
1 TATAATTTATA
1813386 TATAA---AGTA
1 TATAATTTA-TA
*
1813395 TATAGTTTATA
1 TATAATTTATA
*
1813406 TAT-ATATATA
1 TATAATTTATA
* *
1813416 TATACTATATA
1 TATAATTTATA
*
1813427 TAT-ATATATA
1 TATAATTTATA
*
1813437 TAT-ATATATA
1 TATAATTTATA
*
1813447 TATATATATATA
1 TATA-ATTTATA
*
1813459 TATATATATATA
1 TATA-ATTTATA
*
1813471 TATATATATATA
1 TATA-ATTTATA
1813483 TATA
1 TATA
1813487 TGTTTTAATT
Statistics
Matches: 148, Mismatches: 21, Indels: 25
0.76 0.11 0.13
Matches are distributed among these distances:
8 1 0.01
9 6 0.04
10 27 0.18
11 61 0.41
12 41 0.28
13 8 0.05
14 4 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.48
Consensus pattern (11 bp):
TATAATTTATA
Found at i:1813367 original size:2 final size:2
Alignment explanation
Indices: 1813360--1813487 Score: 177
Period size: 2 Copynumber: 62.5 Consensus size: 2
1813350 TTATACATGG
* * * *
1813360 TA TA TA TA GTT TA TA CA TA -A TA TA TA TA TA AA GTA TA TA GTT
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
1813402 TA TA TA TA TA TA TA TA TA CTA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
1813445 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1813487 T
1 T
1813488 GTTTTAATTT
Statistics
Matches: 113, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
1 1 0.01
2 107 0.95
3 5 0.04
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1813369 original size:20 final size:20
Alignment explanation
Indices: 1813337--1813387 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
1813327 TATAAACTAT
1813337 ATAGTAT-TATAGTTTATAC
1 ATAGTATATATAGTTTATAC
*
1813356 ATGGTATATATAGTTTATAC
1 ATAGTATATATAGTTTATAC
*
1813376 ATAATATATATA
1 ATAGTATATATA
1813388 TAAAGTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (20 bp):
ATAGTATATATAGTTTATAC
Found at i:1814180 original size:218 final size:216
Alignment explanation
Indices: 1813563--1814261 Score: 1216
Period size: 210 Copynumber: 3.3 Consensus size: 216
1813553 TTGATCCTTT
*
1813563 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTTATATTTGTTCAATTTAGTCCTCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
* *
1813628 CTTTATTTGCATCTGAAATTGACTCATACTTATTACTTATTTCTAT-TTTTTAATTGACCCATAA
66 TTTTATTTGCATCTGAAATTGAC-CATACTTATTACTTATTTCTATATTTTTAATTGGCCCATAA
* *
1813692 CTTTTTAAATGAGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATT
130 CTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATT
1813757 TCGATTTGATCCCT--T---T-
195 TCGATTTGATCCCTCATCAATG
1813773 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
*
1813838 TTTTATTTGCATCTGAAATTAACCCATACTTATTACTTATTTCTA-ATTTTTAATTGGCCCATAA
66 TTTTATTTGCATCTGAAATTGA-CCATACTTATTACTTATTTCTATATTTTTAATTGGCCCATAA
1813902 CTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATT
130 CTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATT
1813967 TCGATTTGATCCCTCATCAATG
195 TCGATTTGATCCCTCATCAATG
1813989 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
* *
1814054 TTTTATTTGCATCTCAAAATTGATCCATACTTATTACTTAATTCTATATTTTTAATTGGCCCATA
66 TTTTATTTGCATCT-GAAATTGA-CCATACTTATTACTTATTTCTATATTTTTAATTGGCCCATA
*
1814119 ACTTTTTAAATGGGTATAATTTAGTACTTCTTTGTATTAATTTCAACCTCACAATTTAAAATTAT
129 ACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTAT
1814184 TTCGATTTGATCCCTCATCAATG
194 TTCGATTTGATCCCTCATCAATG
*
1814207 TGTGTTGTTTATTTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
1814262 ATTCTTAAAT
Statistics
Matches: 467, Mismatches: 12, Indels: 12
0.95 0.02 0.02
Matches are distributed among these distances:
210 199 0.43
211 1 0.00
212 1 0.00
215 1 0.00
216 79 0.17
217 27 0.06
218 159 0.34
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (216 bp):
TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
TTTTATTTGCATCTGAAATTGACCATACTTATTACTTATTTCTATATTTTTAATTGGCCCATAAC
TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTT
CGATTTGATCCCTCATCAATG
Found at i:1821649 original size:18 final size:18
Alignment explanation
Indices: 1821621--1821685 Score: 87
Period size: 18 Copynumber: 3.6 Consensus size: 18
1821611 GGAGCCATCT
*
1821621 AAAATATTTAAAAATAGAA
1 AAAATA-TTAAAAACAGAA
1821640 AAAATATTAAAAACAGAA
1 AAAATATTAAAAACAGAA
1821658 AAAATATTAAAAACA-AA
1 AAAATATTAAAAACAGAA
*
1821675 TAAAAAATTAA
1 -AAAATATTAA
1821686 TTAAGTTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
17 2 0.05
18 35 0.81
19 6 0.14
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (18 bp):
AAAATATTAAAAACAGAA
Found at i:1823292 original size:16 final size:16
Alignment explanation
Indices: 1823273--1823310 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
1823263 AAGCGACTTA
1823273 ATTCATAACTTTTTTT
1 ATTCATAACTTTTTTT
1823289 ATTCATAACTTTTTTT
1 ATTCATAACTTTTTTT
1823305 ATTCAT
1 ATTCAT
1823311 TTATTAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTCATAACTTTTTTT
Done.