genome.fa.s8488.2.7.7.80.10.50.1000.43.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   

This is table  43  of  54  ( 6450 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)
10349288--10349380	32	2.8	32	85	7	116	49	25	16	8	1.74
10349376--10349548	19	9.6	19	77	12	168	10	19	23	46	1.81
10349398--10349454	14	3.7	14	77	20	60	10	21	22	45	1.82
10349376--10349548	33	4.8	38	82	5	168	10	19	23	46	1.81
10351472--10351507	14	2.6	14	95	0	63	33	0	22	44	1.53
10351598--10351718	19	6.8	19	77	18	145	47	16	23	13	1.82
10351625--10351679	14	3.6	14	73	21	56	45	20	23	10	1.82
10351606--10351698	33	2.8	33	100	0	186	46	18	22	12	1.83
10351727--10351968	19	13.7	19	76	19	265	14	22	17	45	1.85
10351751--10351916	33	4.8	33	74	17	167	13	23	17	45	1.83
10351796--10351982	33	5.5	32	72	17	144	13	22	18	45	1.84
10351733--10351968	105	2.2	105	96	3	431	13	22	17	45	1.84
10351733--10351968	53	4.5	53	96	2	433	13	22	17	45	1.84
10354266--10354290	12	2.1	12	100	0	50	0	28	0	72	0.86
10354464--10354510	24	2.0	24	87	8	69	38	21	14	25	1.92
10355203--10355431	20	11.4	20	87	1	253	19	17	25	36	1.94
10366870--10366925	26	2.2	24	75	9	58	53	1	10	33	1.46
10369354--10369393	21	1.9	21	89	0	62	30	0	20	50	1.49
10373572--10373628	20	2.8	20	91	0	96	19	36	29	14	1.91
10376371--10376451	21	3.9	21	79	7	76	20	33	28	17	1.95
10378123--10378418	41	7.3	41	74	15	258	29	15	23	31	1.96
10378109--10378418	81	3.8	81	88	3	414	28	16	23	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10387447--10387508	21	3.0	21	85	0	88	38	16	41	3	1.64
10387495--10387544	21	2.3	22	86	10	68	44	14	40	2	1.56
10387878--10387981	43	2.4	44	82	9	124	29	22	21	26	1.99
10387942--10388111	43	4.0	42	79	5	162	32	22	20	24	1.98
10387885--10388111	43	5.3	43	75	10	121	31	22	21	24	1.98
10388073--10388175	43	2.4	43	80	0	134	31	27	15	26	1.96
10390615--10390761	77	1.9	79	81	8	185	41	8	5	44	1.59
10402617--10402676	20	2.7	22	82	12	70	36	23	11	28	1.90
10408510--10408560	22	2.5	20	81	15	59	33	15	11	39	1.84
10409010--10409097	2	45.0	2	83	8	83	44	2	3	50	1.31
10410754--10410778	2	12.5	2	100	0	50	48	0	0	52	1.00
10411193--10411247	20	2.5	21	82	14	67	34	23	14	27	1.94
10411210--10411250	20	2.0	21	95	4	75	31	24	14	29	1.95
10411368--10411399	15	2.1	15	100	0	64	46	6	12	34	1.67
10413989--10414019	2	15.5	2	100	0	62	51	0	0	48	1.00
10418827--10419095	27	9.7	28	65	18	107	27	26	21	25	1.99
10418850--10419150	54	5.5	55	79	7	290	27	25	21	25	1.99
10420397--10420734	20	16.6	20	79	6	232	39	19	22	18	1.92
10420501--10420732	40	5.7	40	83	4	266	37	18	24	19	1.94
10420501--10420732	83	2.8	82	85	3	306	37	18	24	19	1.94
10420826--10420871	5	8.6	5	97	2	65	26	54	19	0	1.44
10421542--10421590	6	8.5	6	97	2	84	0	16	53	30	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10421668--10421711	20	2.2	20	91	0	70	11	18	15	54	1.70
10421698--10421891	20	9.4	20	83	5	163	19	25	18	37	1.94
10421700--10421874	40	4.3	40	80	4	215	18	25	17	38	1.93
10421708--10421891	83	2.2	83	91	0	296	19	25	17	36	1.94
10421881--10421933	21	2.5	21	96	0	97	15	24	35	24	1.94
10421926--10421979	20	2.7	20	94	0	90	11	18	18	51	1.74
10421966--10422016	19	2.6	20	90	3	77	15	17	23	43	1.88
10422221--10422267	21	2.3	21	85	7	62	57	14	2	25	1.49
10432900--10432956	28	2.0	29	89	3	89	56	0	0	43	0.99
10432872--10432969	48	2.1	47	83	9	119	56	1	0	42	1.06
10436423--10436483	11	5.4	11	72	14	52	22	13	6	57	1.59
10436405--10436476	35	2.1	35	97	0	135	20	16	5	56	1.60
10440636--10440667	7	4.7	7	96	3	57	59	9	15	15	1.60
10440847--10440875	2	14.5	2	100	0	58	51	0	0	48	1.00
10440956--10440984	2	15.0	2	92	7	51	51	0	0	48	1.00
10457850--10457933	23	3.7	23	84	6	127	20	32	23	23	1.98
10457850--10457953	44	2.4	44	95	0	181	22	31	24	22	1.98
10457830--10457953	23	5.8	20	78	10	88	25	30	23	20	1.99
10460485--10460566	40	2.0	40	97	0	155	23	17	25	34	1.96
10460671--10460789	48	2.6	44	82	10	148	38	8	21	31	1.83
10463573--10463667	17	5.6	16	74	19	70	72	3	18	5	1.17
10463582--10463664	6	14.8	5	76	18	60	73	3	18	4	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10463608--10463664	22	2.5	23	86	13	82	71	3	19	5	1.19
10463596--10463665	28	2.5	27	80	15	79	74	2	17	5	1.14
10463583--10463677	34	2.8	34	84	12	115	72	3	18	5	1.17
10463582--10463667	12	7.5	11	72	13	68	73	3	18	4	1.16
10467162--10467243	40	2.0	40	100	0	164	23	17	26	32	1.96
10467348--10467509	48	3.5	48	92	3	251	37	8	21	33	1.83
10470882--10470920	20	2.0	20	90	5	62	12	20	41	25	1.88
10493385--10493977	302	2.0	302	99	0	1168	25	14	21	38	1.91
10493964--10493991	14	2.0	14	100	0	56	14	35	28	21	1.92
10494851--10494922	2	36.0	2	100	0	144	0	50	0	50	1.00
10499598--10499623	13	2.0	13	100	0	52	46	0	0	53	1.00
10500851--10500893	17	2.7	16	82	7	52	37	2	0	60	1.10
10501167--10501216	18	2.8	18	96	0	91	14	52	12	22	1.74
10501168--10501216	9	5.4	9	77	18	57	14	51	12	22	1.75
10502045--10502079	17	2.0	18	88	5	54	42	2	0	54	1.15
10505517--10505555	20	2.0	20	94	0	69	25	17	30	25	1.97
10505520--10505582	20	3.4	19	72	20	53	26	12	30	30	1.93
10505625--10505725	36	2.8	36	93	1	166	29	17	26	25	1.98
10505620--10505725	16	5.7	20	73	18	102	28	17	28	25	1.98
10505950--10506006	18	3.0	18	78	12	69	50	8	12	28	1.69
10509107--10509178	20	3.9	18	75	17	60	27	16	26	29	1.97
10509108--10509179	36	2.0	36	86	5	101	29	16	25	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10509254--10509296	20	2.2	20	91	0	68	32	18	23	25	1.97
10510610--10511082	137	3.4	136	86	2	642	34	23	15	26	1.94
10511239--10511276	12	3.2	12	81	11	51	34	2	0	63	1.09
10511558--10511600	18	2.4	18	96	0	77	23	44	11	20	1.84
10514851--10514879	2	14.5	2	100	0	58	51	0	0	48	1.00
10519664--10519723	24	2.4	24	75	10	59	53	10	3	33	1.51
10523183--10523208	8	3.2	8	100	0	52	76	0	0	23	0.78
10523459--10523506	23	2.1	23	92	0	78	35	8	18	37	1.81
10524145--10524782	182	3.5	180	91	2	1001	27	15	13	43	1.84
10524652--10525003	113	3.1	113	91	1	557	25	16	13	44	1.84
10525760--10525835	31	2.4	31	80	8	82	40	0	1	57	1.07
10525750--10525838	34	2.7	31	77	6	88	40	0	2	57	1.11
10525979--10526032	17	3.2	17	72	0	54	31	0	3	64	1.11
10527601--10527707	21	5.1	21	83	8	103	18	30	26	24	1.98
10527590--10527707	42	2.8	42	81	10	143	19	32	25	22	1.98
10528226--10528304	28	2.8	28	86	5	97	54	3	1	40	1.26
10528251--10528320	34	2.1	34	91	0	113	54	2	4	38	1.35
10528226--10528329	28	3.5	28	75	15	93	51	4	2	40	1.38
10528227--10528327	34	3.2	32	77	17	111	53	4	2	38	1.38
10529710--10530082	128	2.9	128	92	3	579	31	22	24	21	1.98
10530153--10530193	8	5.2	8	82	5	57	36	29	0	34	1.58
10536269--10536298	16	1.9	16	93	6	53	36	16	0	46	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10542043--10543207	106	11.2	106	86	4	1558	34	25	18	22	1.96
10542043--10543207	306	3.7	308	86	5	1493	34	25	18	22	1.96
10542043--10543207	412	2.8	413	88	4	1644	34	25	18	22	1.96
10548761--10549925	106	11.2	106	86	5	1551	34	25	18	22	1.96
10548761--10549925	306	3.7	308	87	5	1495	34	25	18	22	1.96
10548761--10549925	412	2.8	414	88	4	1657	34	25	18	22	1.96
10552649--10552676	2	14.0	2	100	0	56	50	0	0	50	1.00
10553651--10553700	24	2.1	24	100	0	100	44	18	12	26	1.84
10555332--10555660	164	2.0	164	98	0	640	34	17	22	25	1.96
10555903--10555942	22	1.9	22	85	10	57	10	2	5	82	0.91

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