genome.fa.s9574.2.7.7.80.10.50.1000.2.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: VEPZ01009574.1 Hibiscus syriacus cultivar Beakdansim tig00116939_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2686660

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  2  of  14  ( 1597 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)
281879--282083	41	5.0	41	69	9	148	33	20	17	28	1.95
288747--288776	2	15.0	2	100	0	60	50	0	0	50	1.00
295078--295157	28	2.8	27	77	20	83	46	25	1	27	1.61
297705--297793	31	2.9	31	80	6	108	44	5	7	41	1.57
298450--298508	26	2.3	26	96	0	109	37	3	27	32	1.73
298864--298932	28	2.5	28	90	9	108	34	4	13	47	1.62
301223--301290	30	2.3	30	86	0	91	33	23	29	13	1.93
305159--305212	26	2.1	26	85	0	72	31	22	3	42	1.71
309589--309634	2	22.5	2	95	4	83	50	0	2	47	1.13
310007--310131	32	4.0	31	74	11	110	30	17	20	32	1.95
310086--310144	31	1.9	31	86	3	84	23	20	27	28	1.99
310922--310979	12	5.0	12	77	8	57	20	18	18	41	1.91
318707--318772	26	2.5	26	100	0	132	31	22	21	24	1.98
319266--319305	14	2.9	14	81	3	55	67	0	0	32	0.91
319388--319426	5	8.6	5	86	13	50	84	0	0	15	0.62
319388--319433	14	3.4	14	91	5	69	82	0	2	15	0.76
319388--319426	9	4.3	9	83	9	53	84	0	0	15	0.62
319701--319769	33	2.1	33	86	5	95	27	14	17	40	1.88
330912--330984	22	3.2	21	67	14	56	41	6	19	32	1.78
330922--330996	23	3.3	22	70	15	71	40	8	20	32	1.81
330904--331008	46	2.3	46	93	1	176	43	6	17	32	1.75
331157--331252	38	2.5	38	89	0	147	27	20	28	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
336608--336667	22	2.7	22	97	0	111	13	23	36	26	1.92
337085--337157	22	3.2	21	67	14	56	41	6	19	32	1.78
337095--337169	23	3.3	22	70	15	71	40	8	20	32	1.81
337077--337181	46	2.3	46	95	1	185	42	6	18	32	1.76
337362--337423	17	3.4	17	70	23	54	20	22	32	24	1.98
337330--337425	38	2.5	38	91	0	156	26	22	28	22	1.99
342690--342766	2	39.5	2	94	5	140	51	0	0	48	1.00
346376--346414	20	2.0	21	90	10	64	0	12	0	87	0.55
346299--346458	86	1.9	87	82	6	209	10	20	9	60	1.56
354017--354190	87	2.0	86	96	1	321	25	27	11	35	1.91
359509--359549	21	1.9	22	90	5	66	26	17	14	41	1.88
363477--363535	27	2.2	27	82	11	68	16	6	3	72	1.20
364482--364551	23	3.0	23	73	8	70	32	21	24	21	1.98
364458--364551	46	2.0	46	83	0	116	35	21	21	22	1.96
368454--368551	46	2.1	46	83	3	117	35	18	26	19	1.95
368454--368543	23	3.9	23	75	2	83	35	20	25	18	1.95
374065--374098	13	2.6	13	90	0	50	32	38	8	20	1.84
374734--374786	18	2.9	18	82	0	61	32	28	22	16	1.96
375042--375069	2	14.0	2	100	0	56	50	0	0	50	1.00
381551--381585	18	1.9	18	100	0	70	25	34	17	22	1.96
385329--385455	23	5.6	23	86	3	179	26	25	25	22	2.00
389246--389285	21	1.9	21	90	10	64	32	7	5	55	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
395097--395153	29	2.0	29	89	0	87	28	3	10	57	1.48
396254--396309	23	2.4	24	87	3	78	44	14	16	25	1.84
398724--398774	16	3.2	16	78	10	59	76	0	3	19	0.94
398728--398775	4	12.0	4	80	8	53	72	0	4	22	1.01
398724--398775	20	2.6	20	82	8	61	75	0	3	21	0.97
401206--401609	85	4.7	85	86	0	484	26	17	20	35	1.95
403414--403454	18	2.3	18	91	4	66	21	19	31	26	1.97
406014--406229	90	2.5	87	81	7	244	31	19	17	30	1.95
406072--406247	90	2.0	90	89	0	271	31	18	16	33	1.93
408640--408765	29	4.3	29	83	3	101	42	21	9	26	1.83
408660--408766	29	3.7	29	87	2	144	42	21	10	25	1.84
408773--408811	18	2.2	17	90	4	60	12	23	46	17	1.83
416025--416090	29	2.3	29	86	0	87	43	21	6	28	1.76
416069--416149	29	2.8	29	88	0	99	48	19	8	23	1.77
416158--416210	18	3.0	18	91	2	81	15	20	47	16	1.83
418225--418375	75	2.0	75	100	0	302	24	27	14	33	1.94
420400--420491	29	3.0	29	71	26	75	59	10	8	20	1.57
421490--421521	15	2.1	15	100	0	64	25	12	28	34	1.92
421582--421615	3	11.7	3	87	6	52	64	0	2	32	1.08
423398--423438	18	2.2	19	86	4	57	31	26	17	24	1.97
423505--423543	20	2.0	20	100	0	78	30	20	15	33	1.94
423687--423747	26	2.3	27	94	2	106	49	31	1	18	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
423790--423833	22	2.0	22	90	0	70	22	36	13	27	1.92
424199--424269	20	3.6	20	88	1	99	14	15	19	50	1.77
425897--425946	21	2.4	21	86	0	64	22	14	32	32	1.93
426320--426423	21	5.0	21	77	13	117	20	35	19	25	1.95
426316--426426	40	2.7	40	85	4	159	19	36	18	24	1.94
427762--427811	14	3.6	14	83	5	75	28	0	20	52	1.47
427757--427820	14	4.8	13	77	7	74	29	0	17	53	1.44
427757--427827	27	2.6	27	97	0	133	30	0	18	50	1.47
427701--427873	91	1.9	91	92	0	292	30	1	16	51	1.55
428248--428283	18	2.0	18	94	0	63	19	2	22	55	1.56
430359--430412	24	2.2	24	93	0	90	40	16	18	24	1.90
430538--430571	12	2.8	12	90	0	50	14	0	29	55	1.40
431341--431387	18	2.5	19	86	6	60	42	10	17	29	1.82
431380--431490	20	5.5	20	81	8	118	32	12	23	31	1.92
431380--431513	20	6.7	19	81	10	110	32	12	23	31	1.92
431521--431567	20	2.3	20	96	0	85	19	19	25	36	1.95
431714--431924	20	10.5	20	78	7	110	33	13	23	30	1.93
431714--431846	60	2.2	58	78	13	139	35	12	22	30	1.90
431751--431845	40	2.4	40	89	3	147	34	11	25	28	1.91
431889--431965	19	3.9	19	79	14	75	22	16	24	36	1.94
433362--433462	50	2.0	51	94	1	177	23	28	16	30	1.97
434977--435032	27	2.1	27	93	0	94	37	8	12	41	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
437114--437160	23	2.0	23	100	0	94	25	8	34	31	1.86
439684--439766	43	2.0	40	90	9	132	37	21	4	36	1.75
439729--439921	94	2.0	95	97	2	370	39	12	11	36	1.79
440411--440444	16	2.1	16	88	5	50	23	5	8	61	1.47
441096--441139	22	2.0	22	90	0	70	29	15	11	43	1.82
445657--445716	29	2.0	30	83	3	77	33	3	16	46	1.64
448640--448681	2	21.0	2	100	0	84	50	0	0	50	1.00
455221--455686	182	2.6	181	83	6	578	43	13	16	27	1.85
455616--455658	20	2.3	19	88	11	63	51	11	16	20	1.75
460527--461548	182	5.6	182	93	1	1730	42	12	16	28	1.85
461684--461846	87	1.9	87	92	2	274	34	13	10	41	1.79
464805--464848	2	22.0	2	100	0	88	50	0	0	50	1.00
481707--481748	21	2.0	21	100	0	84	42	23	9	23	1.83
486274--486414	60	2.4	58	77	4	158	26	13	29	29	1.94
486460--486698	59	4.0	59	87	0	307	30	13	26	29	1.94
486213--486625	211	2.0	210	83	3	517	28	14	26	31	1.94
486833--486945	59	1.9	59	88	0	172	30	15	24	28	1.96
490234--490270	17	2.1	18	90	5	58	24	0	18	56	1.41
490417--490462	21	2.1	22	92	4	76	71	10	2	15	1.23
490417--490462	11	4.3	10	83	10	56	71	10	2	15	1.23
495046--495123	31	2.5	32	76	4	86	26	29	29	14	1.95
495658--495699	20	2.1	20	100	0	84	38	19	14	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
496535--496580	23	2.0	24	83	12	60	21	13	17	47	1.81
497886--497992	45	2.3	46	87	4	146	31	19	21	27	1.97
500759--500840	23	3.6	22	75	8	85	25	21	26	25	2.00
500763--500860	44	2.2	43	84	10	119	25	20	25	28	1.99
506718--506755	19	2.0	19	89	0	58	28	21	31	18	1.97
508172--508222	2	26.0	2	94	4	86	50	1	0	47	1.12
514506--515469	79	11.8	84	80	7	659	25	19	22	32	1.97
514602--516113	242	6.4	239	79	10	1510	24	18	23	33	1.97
514602--516113	321	4.8	319	81	9	1650	24	18	23	33	1.97
515479--515743	132	2.0	131	97	2	505	24	16	25	33	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14