genome.fa.s8082.2.7.7.80.10.50.1000.7.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: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6025995

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   

This is table  7  of  28  ( 3312 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)
1288974--1289142	40	4.2	40	68	17	116	33	26	17	23	1.96
1288971--1289141	60	2.8	60	70	11	152	34	25	16	23	1.95
1289135--1289240	20	5.3	20	93	0	176	45	12	18	23	1.83
1289105--1289242	60	2.3	60	82	3	161	42	15	18	23	1.88
1288971--1289200	120	1.9	120	79	5	259	37	22	16	23	1.93
1289596--1289643	20	2.3	21	85	3	62	18	18	16	45	1.85
1289614--1289659	20	2.3	20	88	0	65	17	17	19	45	1.85
1297710--1298157	226	2.0	226	87	2	650	39	14	15	30	1.87
1298002--1298301	108	2.8	107	84	2	348	37	14	14	33	1.87
1298491--1298526	17	2.1	17	100	0	72	41	5	5	47	1.50
1298845--1299042	74	2.7	75	88	3	274	36	12	10	40	1.77
1299025--1299096	23	3.1	23	83	0	81	31	13	18	36	1.90
1300198--1300255	23	2.5	23	91	0	89	34	12	17	36	1.87
1300244--1300405	75	2.2	75	86	0	225	33	12	11	41	1.79
1300394--1300455	23	2.7	23	92	0	97	38	12	11	37	1.80
1300394--1300465	23	3.1	23	87	0	72	34	15	12	37	1.85
1300149--1300595	196	2.3	196	88	0	642	33	14	12	39	1.84
1300440--1300622	75	2.4	75	89	0	276	32	15	11	40	1.83
1303558--1303616	23	2.6	23	77	0	64	25	20	25	28	1.99
1308899--1308931	16	2.1	16	100	0	66	57	6	12	24	1.57
1311844--1311904	26	2.2	27	80	11	70	36	3	18	42	1.66
1313867--1313911	23	2.0	23	86	0	63	44	8	8	37	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1321315--1321634	156	2.0	156	96	3	586	37	20	17	25	1.94
1322512--1322550	20	2.0	20	94	0	69	53	2	7	35	1.43
1322511--1322565	22	2.7	20	82	5	65	52	3	7	36	1.47
1326916--1327151	106	2.3	104	86	6	327	31	14	13	40	1.85
1326985--1327179	106	1.9	106	87	2	295	29	15	13	41	1.86
1327545--1327653	45	2.4	45	84	4	141	30	18	22	28	1.97
1327672--1327735	20	3.2	20	65	12	60	40	10	25	23	1.87
1327428--1327860	208	2.1	206	86	2	591	34	16	21	27	1.95
1330084--1330125	16	2.6	16	92	0	75	40	7	28	23	1.81
1334576--1334614	16	2.5	15	80	8	51	43	17	10	28	1.82
1334844--1334901	16	3.6	16	90	0	98	41	6	27	24	1.80
1334844--1334900	7	7.1	8	74	21	57	40	7	28	24	1.81
1340441--1340474	2	17.0	2	100	0	68	50	0	0	50	1.00
1342402--1342455	22	2.5	22	75	0	54	20	20	25	33	1.97
1345915--1346103	20	9.4	20	77	7	195	38	24	17	19	1.93
1345915--1346103	41	4.7	40	94	1	254	38	24	17	19	1.93
1345892--1346103	61	3.5	60	77	12	202	37	25	16	20	1.93
1346973--1346997	12	2.1	12	100	0	50	72	0	28	0	0.86
1349039--1349126	14	5.6	14	66	23	50	44	18	25	12	1.84
1349039--1349133	33	2.9	33	95	0	172	44	17	25	12	1.84
1349053--1349110	19	3.3	19	68	22	63	44	17	22	15	1.86
1349142--1349235	33	2.8	33	95	0	170	14	22	17	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1349142--1349235	19	5.5	19	69	23	91	14	22	17	45	1.84
1349342--1349378	14	2.6	14	91	0	65	45	21	0	32	1.52
1349979--1350056	21	3.8	21	84	3	113	48	17	21	11	1.79
1349976--1350088	41	3.0	38	79	16	146	47	19	22	10	1.79
1349992--1350099	19	5.8	19	73	16	100	47	21	20	11	1.81
1350117--1350173	14	3.7	14	75	20	60	8	22	22	45	1.80
1350100--1350221	33	3.5	33	88	8	172	10	22	19	46	1.81
1351900--1352184	94	3.1	93	89	2	437	22	12	18	47	1.82
1352232--1352368	19	7.7	19	73	16	87	48	24	16	10	1.78
1352269--1352295	14	1.9	14	100	0	54	44	22	25	7	1.79
1352248--1352369	52	2.3	52	85	0	154	49	24	17	9	1.75
1352300--1352363	33	1.9	33	93	0	110	50	28	14	7	1.70
1352283--1352369	19	4.8	19	78	13	94	49	26	16	8	1.73
1352375--1352446	19	3.8	19	94	0	117	6	18	26	48	1.73
1352375--1352461	19	4.6	19	91	0	111	8	17	26	48	1.74
1352910--1352976	21	3.2	21	68	6	55	26	34	17	20	1.96
1352888--1352976	42	2.1	42	81	8	101	25	34	17	21	1.96
1354326--1354359	14	2.4	14	85	0	50	32	2	20	44	1.67
1354265--1354444	84	2.1	85	95	1	335	35	2	18	43	1.65
1354411--1354445	14	2.4	15	85	9	54	34	0	20	45	1.51
1354415--1354447	14	2.4	14	94	0	57	33	0	21	45	1.52
1354554--1354670	19	6.7	19	72	18	119	47	17	21	14	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1354554--1354667	52	2.2	52	95	0	201	46	17	21	14	1.84
1354675--1354788	33	3.4	33	91	1	174	13	22	19	44	1.85
1354696--1354755	19	3.4	19	69	21	67	15	20	18	46	1.84
1354682--1354769	14	5.6	14	67	23	50	12	22	18	46	1.82
1355939--1356069	20	6.4	20	76	10	131	19	17	25	38	1.93
1355939--1356069	41	3.2	41	90	3	194	19	17	25	38	1.93
1356078--1356130	20	2.7	20	85	5	72	15	18	22	43	1.87
1367282--1367346	30	2.2	30	85	0	85	35	26	29	9	1.87
1367566--1367612	24	1.9	25	86	4	69	40	17	19	23	1.91
1370756--1370809	24	2.2	24	90	0	81	14	11	14	59	1.62
1370995--1371083	23	3.8	23	73	8	72	12	12	17	57	1.65
1379718--1379811	32	2.9	33	93	3	163	38	24	15	21	1.92
1385976--1386006	10	3.1	10	100	0	62	48	19	9	22	1.78
1397463--1397520	24	2.5	24	88	2	91	31	5	17	46	1.70
1397549--1397610	18	3.5	18	71	4	54	20	9	11	58	1.61
1402213--1402306	46	2.0	46	89	0	143	21	3	19	56	1.56
1408930--1408996	24	2.7	26	77	11	77	58	2	5	32	1.38
1414499--1414542	15	3.1	15	87	6	56	9	15	2	72	1.19
1418431--1418617	91	2.1	91	88	2	277	37	12	21	27	1.90
1419536--1419570	13	2.8	12	91	8	52	45	0	0	54	0.99
1419686--1419727	19	2.2	20	86	4	59	26	4	4	64	1.33
1420206--1420272	30	2.4	28	79	20	77	67	1	5	25	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1422646--1422711	32	2.1	31	81	15	75	50	1	1	46	1.20
1422819--1422870	22	2.3	22	93	3	86	30	3	13	51	1.58
1422968--1423006	19	2.0	21	85	10	55	25	7	0	66	1.18
1430093--1430125	13	2.5	13	100	0	66	15	42	24	18	1.88
1430839--1430871	15	2.2	15	89	10	50	21	18	12	48	1.80
1435637--1435667	5	6.0	5	96	3	53	77	0	22	0	0.77
1436372--1436446	32	2.4	31	84	4	107	21	14	4	60	1.51
1436433--1436476	19	2.2	21	88	8	65	20	6	9	63	1.46
1437459--1437516	24	2.4	25	83	13	77	43	8	5	43	1.57
1439131--1439198	30	2.3	30	82	5	84	20	26	20	32	1.97
1439248--1439319	29	2.4	30	86	2	92	16	26	31	25	1.96
1439267--1439332	30	2.2	29	84	5	87	18	31	30	19	1.96
1439517--1439565	20	2.5	20	96	0	89	59	2	38	0	1.09
1442291--1442353	20	3.0	20	88	9	83	46	7	4	41	1.54
1442500--1442625	65	2.0	65	90	7	204	54	6	4	34	1.47
1442835--1442859	10	2.5	10	100	0	50	60	8	0	32	1.26
1445295--1445414	30	4.0	29	81	17	140	55	13	0	30	1.44
1445429--1445481	19	2.8	20	88	5	74	1	33	0	64	1.05
1445445--1445494	19	2.6	19	83	3	55	4	28	0	68	1.08
1450099--1450312	29	7.6	28	79	15	185	47	16	1	34	1.58
1457383--1457580	29	6.9	29	84	4	224	50	13	2	34	1.54
1457383--1457581	83	2.3	86	84	5	260	49	13	2	34	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1457413--1457576	56	2.9	56	83	6	197	51	12	1	34	1.51
1460794--1460837	22	2.0	22	82	8	54	20	2	25	52	1.58
1462196--1462229	18	1.9	18	88	5	52	50	0	20	29	1.49
1463555--1463580	2	13.0	2	100	0	52	0	0	50	50	1.00
1464327--1464370	20	2.2	20	95	0	79	40	34	6	18	1.77
1466882--1466934	26	2.0	26	96	0	97	37	18	15	28	1.91
1467217--1467261	23	2.0	22	86	4	63	40	2	0	57	1.11
1467296--1467341	22	2.1	22	92	4	76	52	4	0	43	1.21
1469038--1469078	15	2.9	14	83	16	50	26	2	0	70	0.99
1470366--1470400	18	1.9	18	88	0	52	68	2	0	28	1.04

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