genome.fa.s8539.2.7.7.80.10.50.1000.6.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

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   

This is table  6  of  31  ( 3630 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)
995232--995267	14	2.6	14	90	0	54	30	0	22	47	1.52
995365--995418	19	2.8	19	97	0	99	46	14	22	16	1.84
995437--995494	20	2.9	20	89	0	98	18	22	22	36	1.95
996547--996600	24	2.2	24	90	0	81	24	16	20	38	1.92
999091--999221	19	7.7	19	66	23	94	42	18	22	16	1.88
999091--999217	33	3.8	33	84	4	184	42	18	22	16	1.89
999092--999224	66	2.0	66	94	0	230	41	18	22	18	1.90
999217--999259	20	2.2	20	87	4	61	16	18	23	41	1.89
999400--999436	14	2.6	14	91	0	65	45	24	0	29	1.53
1000793--1000859	21	3.2	21	68	4	55	19	20	35	23	1.95
1000793--1000915	42	2.9	41	79	7	113	22	18	36	21	1.95
1002920--1003084	19	9.1	19	75	15	143	43	21	22	12	1.85
1002920--1003084	33	4.6	36	80	11	144	43	21	22	12	1.85
1003080--1003124	19	2.4	19	88	0	72	6	15	24	53	1.66
1003117--1003151	14	2.5	14	95	0	61	11	25	20	42	1.85
1003692--1003744	20	2.7	20	93	0	88	26	20	28	24	1.99
1003756--1003801	20	2.3	20	96	0	83	26	17	26	30	1.97
1003693--1003801	40	2.7	40	72	10	105	24	17	25	32	1.97
1004718--1004789	30	2.5	29	78	13	85	54	8	8	29	1.60
1004824--1004897	30	2.4	29	84	10	96	51	13	6	28	1.66
1005981--1006008	2	14.0	2	100	0	56	50	0	0	50	1.00
1010345--1010486	36	4.0	36	92	0	232	21	26	21	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1011745--1011880	36	3.8	35	88	2	182	24	25	19	30	1.98
1013713--1013854	36	4.0	35	83	6	178	22	23	19	33	1.97
1013713--1013845	72	1.9	71	87	7	198	24	23	20	32	1.98
1019976--1020027	18	2.9	18	88	0	77	19	19	32	28	1.96
1025446--1025512	32	2.1	32	94	0	116	29	5	16	47	1.70
1030219--1030393	90	1.9	90	84	2	235	31	17	15	35	1.91
1032954--1033035	42	2.0	42	92	0	137	24	23	21	30	1.99
1032679--1033895	271	4.5	271	91	0	1918	30	16	19	34	1.94
1034484--1034527	16	2.8	16	82	0	52	22	45	20	11	1.83
1037162--1037212	17	3.0	17	100	0	102	58	17	0	23	1.38
1037416--1037458	20	2.3	18	88	8	59	72	0	18	9	1.11
1037551--1037615	19	3.5	19	73	12	55	64	10	0	24	1.25
1037590--1037633	23	2.0	23	86	4	63	70	6	0	22	1.11
1037897--1038038	58	2.4	58	86	0	194	23	15	20	40	1.91
1050755--1050805	25	2.0	26	84	3	68	58	9	5	25	1.52
1052302--1052342	3	13.7	3	100	0	82	65	0	0	34	0.93
1053328--1053393	20	3.2	20	68	19	55	27	19	25	27	1.99
1053338--1053415	22	3.7	21	73	13	70	32	21	21	24	1.98
1053334--1053435	42	2.4	42	91	0	159	31	21	23	23	1.98
1053368--1053437	20	3.4	20	74	14	70	31	22	21	24	1.98
1053260--1053716	237	1.9	239	82	6	579	35	16	17	31	1.92
1053832--1053989	55	2.7	58	81	7	196	41	15	9	33	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1061764--1061831	33	2.1	33	91	0	109	23	4	11	60	1.49
1061856--1061918	2	32.0	2	96	3	119	49	0	0	50	1.00
1068712--1068753	20	2.1	20	86	0	57	35	14	9	40	1.78
1071376--1071458	26	2.8	31	77	15	95	66	10	6	16	1.42
1071379--1071451	26	2.8	26	95	2	130	65	10	6	16	1.44
1075274--1075342	3	24.0	3	85	8	99	36	0	0	63	0.94
1075275--1075353	37	2.1	37	88	7	113	40	0	1	58	1.06
1076390--1076419	14	2.1	14	93	0	51	13	6	10	70	1.34
1077412--1077456	2	24.0	2	78	13	51	51	0	2	46	1.13
1082797--1082838	17	2.5	17	100	0	84	61	0	4	33	1.17
1083025--1083298	110	2.5	109	77	7	266	46	15	15	22	1.83
1084250--1084277	3	9.3	3	100	0	56	67	0	0	32	0.91
1093404--1093491	8	10.6	8	69	20	56	69	1	0	29	0.96
1093404--1093490	3	31.3	3	75	17	64	68	1	0	29	0.96
1093404--1093501	19	4.9	19	70	17	65	69	2	0	28	1.00
1094020--1094110	48	1.9	48	82	12	118	49	3	2	45	1.30
1094194--1094245	20	2.6	19	79	8	59	65	1	0	32	1.04
1094103--1094327	120	1.9	117	82	4	281	45	8	7	38	1.62
1094422--1094451	3	10.0	3	92	0	51	63	0	3	33	1.11
1095888--1095971	3	30.0	3	75	17	65	67	1	0	30	0.98
1095888--1095977	17	4.8	18	76	14	76	68	1	0	30	0.96
1095888--1095982	19	4.9	19	73	18	79	68	2	0	29	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1096639--1096704	20	3.3	20	64	16	55	16	24	7	51	1.70
1096637--1096736	40	2.5	40	96	0	182	20	23	9	48	1.77
1096527--1096849	153	2.1	150	92	1	529	26	21	13	39	1.90
1096677--1096885	113	1.8	113	96	0	391	26	21	14	37	1.92
1097287--1097341	22	2.5	22	87	0	83	36	14	14	34	1.87
1097708--1097864	54	2.9	54	91	0	242	21	24	17	37	1.94
1099918--1100257	114	3.0	113	89	1	518	31	19	15	33	1.93
1102408--1102457	16	3.1	16	77	8	57	4	16	4	76	1.10
1106127--1106180	14	3.8	14	80	2	54	53	9	12	24	1.68
1107208--1107232	13	1.9	13	100	0	50	92	0	8	0	0.40
1107856--1107915	25	2.5	23	81	10	68	61	0	6	31	1.22
1108487--1108538	20	2.6	19	79	8	59	65	1	0	32	1.04
1110107--1110194	8	10.6	8	69	20	56	69	1	0	29	0.96
1110107--1110193	3	31.3	3	75	17	64	68	1	0	29	0.96
1110107--1110215	19	5.7	19	76	11	57	70	1	0	26	1.03
1111334--1111373	2	20.5	2	92	5	64	47	0	0	52	1.00
1113687--1113750	20	3.2	20	95	0	119	29	23	17	29	1.97
1113740--1113818	20	4.0	20	86	6	115	36	21	20	21	1.95
1113687--1113810	40	3.1	39	82	11	128	33	22	18	25	1.96
1113720--1113826	40	2.7	41	80	8	132	35	23	17	23	1.95
1113717--1113826	20	5.5	20	83	4	114	36	22	17	23	1.95
1113714--1113865	60	2.5	61	75	18	140	38	23	15	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1113817--1113865	20	2.5	20	96	0	89	46	24	8	20	1.77
1114399--1114447	19	2.6	19	84	9	57	24	28	20	26	1.99
1114218--1114427	65	3.2	64	78	8	230	31	23	18	26	1.98
1114267--1114451	65	2.9	64	81	8	223	30	23	20	26	1.98
1114218--1114451	129	1.8	130	83	8	316	30	23	19	26	1.98
1123007--1123190	65	2.9	63	82	5	226	29	24	20	25	1.99
1123138--1123186	19	2.6	19	84	9	57	24	28	20	26	1.99
1123567--1123593	14	1.9	14	100	0	54	7	7	25	59	1.51
1124367--1124426	20	3.0	20	95	0	111	13	20	16	50	1.78
1126598--1126662	21	3.2	21	85	6	91	23	40	21	15	1.91
1126574--1126662	42	2.2	41	84	9	112	21	38	19	21	1.94
1126574--1126662	21	4.4	19	77	14	81	21	38	19	21	1.94
1128115--1128171	20	2.8	20	94	5	98	42	21	17	19	1.90
1128173--1128215	14	3.0	14	86	3	59	9	13	27	48	1.73
1128228--1128302	29	2.6	29	86	2	96	30	22	14	32	1.94
1130739--1130798	24	2.5	24	83	0	84	36	16	20	26	1.93
1131744--1131854	20	5.4	21	72	14	72	32	12	21	33	1.91
1131745--1131896	41	3.8	41	80	6	150	29	12	22	35	1.91
1131826--1131913	20	4.3	20	81	7	97	21	12	26	39	1.89
1131907--1131986	20	4.0	20	96	0	151	21	20	23	35	1.96
1131908--1132011	40	2.6	40	89	3	138	22	18	24	35	1.95
1131907--1132032	60	2.1	59	82	7	148	23	18	25	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1131993--1132035	19	2.3	19	87	0	59	27	16	25	30	1.97
1132140--1132199	24	2.5	24	100	0	120	31	0	5	63	1.16
1132140--1132199	12	4.9	13	70	13	56	31	0	5	63	1.16
1137367--1137426	25	2.6	23	87	10	86	31	0	3	65	1.09
1138630--1138669	18	2.4	17	84	12	55	55	7	12	25	1.63
1138635--1138672	18	2.1	18	95	0	67	55	5	13	26	1.59
1139043--1139542	163	3.1	161	86	3	707	43	13	14	28	1.83
1139513--1139562	21	2.4	21	96	0	91	40	14	8	38	1.75
1141388--1141429	15	2.8	15	88	0	66	9	64	16	9	1.49
1143241--1143285	22	2.2	20	84	11	56	31	13	6	48	1.68

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