genome.fa.s8242.2.7.7.80.10.50.1000.28.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   

This is table  28  of  73  ( 8740 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6679960--6679992	15	2.1	16	88	5	50	63	3	18	15	1.43
6683795--6684212	45	9.3	45	94	0	685	41	6	21	30	1.78
6683840--6683913	24	3.2	24	64	24	68	47	6	17	28	1.73
6684624--6684662	12	3.2	12	85	0	51	28	12	23	35	1.91
6690244--6690339	33	3.0	32	76	11	108	52	21	12	13	1.74
6691504--6691556	20	2.7	20	74	11	63	28	33	15	22	1.94
6691767--6691804	16	2.5	15	84	12	51	28	5	0	65	1.14
6692358--6692391	12	2.8	12	90	0	50	55	29	0	14	1.40
6694822--6694858	18	2.1	18	89	0	56	54	24	2	18	1.57
6695182--6695226	20	2.2	20	88	0	63	22	15	17	44	1.86
6695244--6695313	20	3.5	19	80	7	77	18	21	18	41	1.91
6695714--6695768	24	2.3	25	81	9	69	34	5	14	45	1.68
6695725--6695776	24	2.2	24	85	0	68	38	3	13	44	1.62
6696080--6696166	39	2.2	39	97	0	165	47	20	14	17	1.83
6698041--6698133	21	4.4	21	77	8	91	21	21	34	22	1.97
6698501--6698596	21	4.6	21	71	7	70	36	33	11	18	1.87
6700723--6700803	20	4.1	20	85	6	112	18	17	23	40	1.91
6700723--6700803	39	2.0	40	88	6	121	18	17	23	40	1.91
6700798--6700843	21	2.2	21	92	0	74	39	17	26	17	1.91
6700991--6701021	15	2.0	16	93	6	55	32	12	12	41	1.81
6708443--6708478	17	2.1	17	94	0	63	44	0	5	50	1.25
6709053--6709155	42	2.5	42	82	3	127	24	28	21	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6709159--6709228	21	3.3	21	75	0	68	27	32	22	17	1.96
6709956--6709997	21	2.0	21	95	0	75	50	4	0	45	1.23
6710089--6710415	136	2.4	135	88	2	467	33	22	20	23	1.97
6713612--6713665	5	10.8	5	85	0	63	5	38	35	20	1.76
6713663--6713729	6	11.2	6	90	0	89	7	16	46	29	1.74
6713667--6713725	30	2.0	30	93	0	100	8	16	47	27	1.76
6719212--6719238	2	13.5	2	100	0	54	48	0	0	51	1.00
6719636--6719690	6	9.2	6	91	0	83	3	14	49	32	1.61
6721078--6721134	23	2.5	23	88	0	78	45	8	12	33	1.72
6721101--6721574	135	3.3	135	78	13	493	42	10	12	33	1.78
6721371--6721420	23	2.2	23	85	0	64	42	4	18	36	1.69
6721380--6721427	23	2.1	23	88	0	69	43	2	18	35	1.62
6721245--6721551	158	1.9	158	90	1	490	42	9	12	35	1.76
6721635--6721870	73	3.2	73	82	5	307	41	12	12	33	1.81
6722017--6722067	20	2.5	20	100	0	102	43	19	9	27	1.82
6722188--6722243	21	2.7	21	94	0	103	41	10	8	39	1.71
6722037--6722552	114	4.6	112	80	9	598	43	12	12	31	1.80
6726635--6726796	40	4.1	40	94	3	290	24	17	25	33	1.96
6726945--6727018	25	3.2	25	62	31	63	41	9	16	32	1.80
6726901--6727062	44	3.6	45	88	3	213	43	8	18	29	1.80
6727459--6727503	21	2.1	21	88	8	65	31	26	20	22	1.98
6727571--6727604	13	2.6	13	90	0	50	14	23	20	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6727895--6728964	126	8.6	126	72	9	460	32	22	17	26	1.97
6732248--6733829	54	29.3	54	86	2	2095	30	16	20	33	1.95
6732607--6732744	27	5.1	27	61	25	67	28	17	21	31	1.96
6733814--6733878	18	3.6	18	93	0	103	35	21	18	24	1.96
6734289--6734337	20	2.5	20	83	3	64	20	30	14	34	1.92
6739292--6739690	54	7.4	54	90	0	600	30	19	20	29	1.97
6743043--6743168	63	2.0	63	98	0	243	28	12	10	48	1.74
6745230--6745317	21	4.2	21	88	0	122	31	25	7	35	1.85
6745313--6745526	114	1.9	114	83	5	281	34	21	11	33	1.88
6755535--6755592	30	1.9	30	96	0	107	31	3	18	46	1.66
6755773--6755890	21	5.7	21	83	7	152	22	31	16	29	1.96
6755773--6755890	62	1.9	62	87	3	175	22	31	16	29	1.96
6755776--6755890	41	2.8	41	90	5	178	22	31	16	29	1.96
6756172--6756241	34	2.1	32	86	5	95	31	15	30	22	1.95
6757079--6757126	19	2.5	20	86	3	71	54	6	10	29	1.59
6758397--6758456	30	2.0	30	93	0	102	31	5	20	43	1.73
6758637--6758712	21	3.7	21	94	1	127	19	34	17	28	1.94
6761507--6761559	27	1.9	28	88	3	81	75	1	3	18	1.05
6762970--6763083	60	1.9	60	85	3	158	35	15	18	29	1.92
6764423--6764463	20	2.0	20	100	0	82	36	19	14	29	1.92
6765001--6765144	60	2.4	60	79	3	148	31	20	6	40	1.79
6765362--6765468	39	2.7	39	87	4	153	47	5	13	33	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6768080--6768132	18	3.0	18	88	2	72	16	45	22	15	1.85
6768140--6768279	29	4.8	29	92	0	235	22	10	22	45	1.82
6768140--6768303	58	2.8	58	89	0	238	24	9	23	43	1.82
6768140--6768303	87	1.9	87	85	2	231	24	9	23	43	1.82
6768140--6768323	29	6.4	28	85	4	98	25	8	22	43	1.82
6768140--6768323	87	2.1	87	80	2	199	25	8	22	43	1.82
6775585--6775743	29	5.5	29	86	0	210	26	8	18	45	1.79
6775580--6775763	87	2.1	87	81	0	206	26	8	20	45	1.78
6783662--6783708	10	4.8	10	76	12	53	87	8	4	0	0.67
6783661--6783707	9	5.0	9	76	19	51	85	10	4	0	0.74
6783662--6783688	11	2.5	11	100	0	54	92	7	0	0	0.38
6790601--6790651	3	17.0	3	87	0	66	33	3	1	60	1.26
6790609--6790672	24	2.8	23	83	6	78	29	3	3	64	1.24
6790967--6791001	6	5.8	6	90	10	54	85	0	2	11	0.69
6790966--6791008	12	3.7	11	87	9	59	83	0	4	11	0.78
6792512--6792557	2	23.0	2	95	0	83	47	0	2	50	1.13
6792777--6792831	22	2.5	23	82	8	69	45	1	1	50	1.22
6794117--6794155	16	2.4	16	86	0	60	43	23	20	12	1.86
6795931--6795975	16	2.7	17	82	6	56	75	0	17	6	1.01
6795948--6796042	19	5.4	18	66	18	58	72	2	16	8	1.19
6797279--6797316	17	2.2	17	90	0	58	63	18	10	7	1.50
6797710--6798247	79	6.8	79	81	4	565	36	16	18	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6797705--6798247	155	3.5	156	80	5	571	36	16	18	28	1.92
6797716--6798131	157	2.7	157	85	4	513	36	15	18	29	1.92
6800306--6800618	131	2.4	129	86	5	414	39	17	11	30	1.85
6801726--6801773	2	24.0	2	100	0	96	50	0	0	50	1.00
6803479--6803871	191	2.1	191	85	1	538	33	18	15	32	1.93
6803670--6804747	233	4.7	232	82	5	1231	33	17	16	33	1.92
6804501--6804581	41	2.0	42	80	7	94	27	20	23	28	1.99
6814255--6814287	12	2.8	12	100	0	66	42	0	33	24	1.55
6818469--6818562	39	2.4	39	90	0	143	39	3	6	51	1.44
6818585--6818618	16	2.1	16	88	5	50	52	0	2	44	1.16
6819290--6819358	30	2.3	31	80	7	88	43	5	8	42	1.59
6820166--6820228	4	16.0	4	77	9	67	25	1	22	50	1.58
6820624--6820657	11	3.1	11	100	0	68	29	26	8	35	1.87
6826118--6826380	44	6.0	44	85	0	337	43	12	17	26	1.84
6839008--6839062	21	2.6	21	100	0	110	32	29	20	18	1.96
6839048--6839086	20	2.0	20	94	0	69	30	20	17	30	1.96
6839084--6839165	44	1.9	41	87	7	119	32	6	28	32	1.82
6839086--6839176	19	4.4	20	76	17	105	36	5	27	30	1.80
6841098--6841190	42	2.2	42	76	3	98	35	18	18	27	1.94
6841234--6841283	13	3.8	13	97	0	91	42	6	14	38	1.70
6851576--6851612	19	1.9	19	88	0	56	16	40	27	16	1.89
6851608--6851670	18	3.6	18	86	4	83	19	44	20	15	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6851674--6851807	30	4.6	29	79	6	137	35	3	14	46	1.63
6851674--6851802	59	2.2	60	83	8	158	34	3	15	45	1.64
6859189--6859250	30	2.0	32	84	6	83	33	1	14	50	1.53
6863250--6863558	43	7.1	44	78	7	235	31	21	18	28	1.97
6869311--6869340	15	2.0	15	93	0	51	56	0	0	43	0.99
6869358--6869416	23	2.6	23	91	0	100	52	5	6	35	1.50
6871459--6871552	2	46.0	2	73	12	66	43	5	6	44	1.52
6871463--6871603	24	6.2	23	75	17	102	40	7	7	44	1.61
6871517--6871571	20	2.8	19	86	5	74	41	5	5	47	1.49
6871493--6871601	20	4.9	23	74	18	72	39	7	7	45	1.60

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73