genome.fa.s8397.2.7.7.80.10.50.1000.8.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: VEPZ01008397.1 Hibiscus syriacus cultivar Beakdansim tig00111166_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2560905

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

This is table  8  of  13  ( 1496 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)
1395536--1395626	23	4.0	23	85	5	114	20	28	24	26	1.99
1396906--1397048	62	2.3	63	84	7	184	30	2	15	51	1.55
1397132--1397188	29	2.0	29	96	0	105	36	24	12	26	1.91
1398545--1398581	18	2.1	18	89	0	56	51	10	5	32	1.60
1399144--1399204	29	2.1	29	90	0	95	26	16	26	31	1.96
1399440--1399475	18	2.0	18	94	0	63	19	2	22	55	1.56
1401896--1401929	12	2.8	12	90	0	50	14	0	29	55	1.40
1402524--1402561	16	2.5	15	84	12	51	65	0	5	28	1.14
1402738--1402851	20	5.7	20	76	10	106	30	12	25	31	1.92
1402738--1402848	41	2.7	41	81	8	111	30	12	25	31	1.93
1402719--1402851	61	2.2	60	83	4	160	32	12	23	32	1.91
1403443--1403805	182	2.0	179	88	1	537	41	14	17	26	1.87
1403807--1403849	20	2.3	20	88	11	65	53	11	13	20	1.71
1406054--1406097	21	2.1	21	91	0	70	40	11	31	15	1.83
1406132--1406197	33	2.0	33	90	0	105	28	0	48	22	1.51
1407988--1408036	19	2.6	19	96	0	89	32	2	10	55	1.45
1408268--1410028	200	8.8	200	95	0	3132	36	14	18	30	1.91
1410139--1410511	183	2.0	183	96	0	692	34	14	17	33	1.90
1413851--1413907	23	2.4	23	76	2	69	40	17	7	35	1.77
1417064--1417103	21	2.0	20	90	5	62	35	10	10	45	1.71
1425642--1425668	13	2.1	13	100	0	54	37	14	0	48	1.45
1432648--1432681	18	1.9	17	88	5	50	23	23	23	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1437283--1437351	23	3.0	23	82	0	93	30	27	24	17	1.97
1442291--1442359	23	3.0	23	86	0	102	33	26	23	17	1.96
1442734--1442775	21	2.1	21	86	8	61	33	16	0	50	1.46
1443338--1443388	20	2.5	21	76	17	54	35	17	0	47	1.48
1443758--1443854	19	4.8	20	80	14	76	23	26	18	30	1.98
1443804--1443853	19	2.6	19	100	0	100	22	30	18	30	1.97
1444073--1444111	21	1.9	20	84	5	51	41	17	2	38	1.64
1448982--1449007	13	2.0	13	100	0	52	7	7	15	69	1.35
1450832--1450896	33	2.0	32	81	3	76	67	3	1	27	1.14
1471689--1471769	28	2.9	28	89	5	112	32	7	17	43	1.77
1471689--1471769	29	2.9	28	89	5	112	32	7	17	43	1.77
1471760--1471826	28	2.4	28	82	12	84	46	0	4	49	1.22
1471760--1471871	29	3.9	30	79	8	108	38	1	9	50	1.46
1478911--1478986	29	2.7	29	91	2	118	26	6	25	42	1.79
1493640--1493700	23	2.7	23	94	0	104	27	27	24	19	1.99
1493810--1493845	18	2.0	18	94	0	63	36	33	19	11	1.87
1493705--1494065	119	3.0	120	95	2	631	35	24	15	24	1.94
1495266--1495421	63	2.5	63	85	2	188	26	22	17	32	1.97
1499195--1499267	23	3.3	23	84	3	96	32	21	20	24	1.97
1499374--1499409	18	2.0	18	94	0	63	36	33	19	11	1.87
1499268--1499623	117	3.0	119	92	6	602	35	24	15	24	1.95
1499489--1499523	17	2.0	18	94	5	63	34	31	22	11	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1500827--1500985	63	2.5	63	84	4	187	26	20	19	33	1.97
1500953--1500990	19	2.0	20	94	5	69	26	28	15	28	1.96
1502811--1502990	65	2.8	65	88	2	247	28	17	23	30	1.97
1505608--1505662	23	2.5	23	79	5	60	23	25	25	25	2.00
1509486--1509589	34	3.1	34	93	2	167	21	30	17	30	1.96
1509937--1509978	20	2.1	20	90	0	66	16	26	40	16	1.90
1512472--1512597	64	2.0	65	90	1	200	28	15	22	33	1.95
1512475--1512612	64	2.2	64	82	5	163	29	16	21	32	1.95
1534323--1534369	24	2.0	24	83	8	60	46	17	6	29	1.72
1534404--1534431	14	2.0	14	100	0	56	21	21	7	50	1.72
1541279--1541325	23	2.1	23	88	7	71	61	0	0	38	0.96
1541278--1541331	22	2.5	21	78	21	67	57	0	0	42	0.98
1541536--1541590	21	2.6	21	97	0	101	30	16	23	29	1.96
1543469--1543520	11	4.3	12	79	15	54	17	5	3	73	1.19
1545825--1545890	27	2.5	26	74	16	64	39	6	6	48	1.53
1548207--1548325	20	5.9	20	86	1	157	19	36	29	14	1.91
1548207--1548325	40	3.0	40	94	1	202	19	36	29	14	1.91
1548207--1548323	60	1.9	61	89	1	182	19	35	29	14	1.92
1551423--1551461	18	2.2	18	85	0	51	35	30	25	7	1.84
1551726--1551791	16	4.1	16	75	14	64	22	1	24	51	1.57
1552407--1552464	20	2.8	20	92	5	89	22	36	25	15	1.94
1553536--1553730	100	1.9	102	83	6	250	33	22	19	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1553788--1554475	84	8.2	84	87	2	884	30	25	19	24	1.98
1553788--1554540	251	3.0	250	84	5	955	31	24	19	24	1.98
1558694--1558752	31	1.9	31	92	0	100	40	6	10	42	1.65
1558764--1558814	22	2.4	22	83	9	61	56	7	0	35	1.28
1558777--1558819	22	2.0	22	95	0	77	51	11	0	37	1.39
1558779--1558827	22	2.2	22	85	3	62	55	12	0	32	1.37
1558767--1559231	54	8.6	54	81	9	561	52	13	0	33	1.42
1558836--1559038	26	7.7	26	72	18	125	53	15	0	31	1.43
1558905--1559012	32	3.7	32	75	23	137	52	12	0	34	1.40
1558937--1558979	22	2.0	22	100	0	86	51	13	0	34	1.42
1558939--1558987	22	2.2	22	88	3	71	55	14	0	30	1.40
1558799--1559410	134	4.5	135	81	8	592	52	13	0	33	1.43
1559040--1559234	32	6.7	32	75	21	160	52	12	0	33	1.43
1559103--1559145	22	2.0	22	100	0	86	51	13	0	34	1.42
1559105--1559153	22	2.2	22	88	3	71	53	14	2	30	1.52
1558888--1559311	220	1.9	220	96	0	785	52	13	0	33	1.43
1559157--1559199	22	2.0	22	100	0	86	51	13	0	34	1.42
1559159--1559207	22	2.2	22	88	3	71	55	14	0	30	1.40
1559162--1559311	80	1.9	80	97	0	282	52	14	0	33	1.43
1559210--1559279	22	3.0	22	75	10	68	51	15	0	32	1.44
1559259--1559410	32	5.4	31	70	28	142	52	9	0	36	1.40
1559242--1559410	54	3.1	54	97	0	311	52	10	0	36	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1559291--1559333	22	2.0	22	95	0	77	51	11	2	34	1.51
1559293--1559341	22	2.2	22	85	3	62	55	12	2	30	1.48
1558888--1559365	220	2.2	220	91	2	737	52	13	0	33	1.44
1559345--1559447	22	4.5	22	71	7	89	51	8	0	39	1.33
1559389--1559529	15	9.0	15	85	11	185	48	2	0	48	1.13
1559336--1559537	60	3.1	67	86	8	242	50	4	0	45	1.22
1562123--1562332	104	2.0	104	94	0	366	36	9	19	34	1.83
1568078--1568117	22	1.9	22	85	10	57	37	30	0	32	1.58
1568821--1568855	18	1.9	18	94	0	61	28	34	20	17	1.95
1569607--1569683	20	3.7	20	76	17	68	24	25	19	29	1.98
1579664--1579735	20	3.5	20	88	11	103	29	22	16	31	1.96
1579779--1579818	21	1.9	21	100	0	80	25	20	17	37	1.94
1579778--1579834	21	2.6	21	86	5	78	29	21	15	33	1.94
1579810--1579897	19	4.6	19	89	1	122	32	21	11	34	1.89
1582499--1582525	3	9.0	3	100	0	54	66	0	33	0	0.92
1589282--1589325	22	2.0	22	100	0	88	54	9	13	22	1.67
1598639--1598680	11	3.9	11	96	3	77	19	28	33	19	1.96
1598639--1598680	21	2.0	21	95	4	75	19	28	33	19	1.96
1603710--1603763	20	2.7	20	94	0	90	12	25	18	42	1.86
1604209--1604507	60	5.0	61	75	16	209	41	3	22	32	1.72
1604269--1604453	53	3.0	61	76	19	179	41	2	22	33	1.68
1604616--1604647	3	11.3	3	87	12	50	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1605317--1605371	20	2.8	20	91	5	76	25	30	12	30	1.93
1613085--1613149	9	7.3	9	86	13	91	78	0	10	10	0.97
1613101--1613177	9	7.6	10	80	16	88	79	0	10	10	0.95
1613084--1613149	19	3.7	19	88	11	104	78	0	10	10	0.96
1613087--1613210	42	3.1	42	72	21	90	79	0	11	8	0.92
1613147--1613212	8	8.6	8	79	12	50	81	0	10	7	0.86
1613085--1613215	9	15.5	8	75	12	86	80	0	10	9	0.92
1614705--1614988	108	2.6	110	92	2	482	28	14	28	28	1.95
1614705--1614985	55	5.1	55	90	2	458	28	14	28	28	1.95
1614981--1615479	52	9.6	52	93	1	831	28	16	25	30	1.96

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