genome.fa.s9579.2.7.7.80.10.50.1000.6.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: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6215474

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   

This is table  6  of  29  ( 3390 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)
904040--904138	28	3.5	28	91	0	153	18	18	26	37	1.93
904040--904152	28	4.1	28	86	5	131	19	17	26	36	1.94
908067--908165	28	3.5	28	91	0	162	16	17	28	38	1.91
908067--908179	28	4.1	28	84	5	131	17	15	28	38	1.91
912076--912162	28	3.1	28	85	1	122	19	20	27	32	1.97
914791--915001	101	2.1	101	91	2	352	26	12	23	37	1.91
917285--917399	3	37.7	3	87	3	167	36	0	0	62	1.01
918532--918648	28	4.4	26	75	19	91	29	0	2	66	1.11
919436--919503	18	3.5	18	73	21	57	27	5	4	61	1.38
926194--926794	83	7.2	83	95	0	923	28	13	22	36	1.91
930141--930773	76	8.5	76	95	2	1124	21	21	21	35	1.96
930899--931015	3	40.7	3	81	14	140	35	0	0	64	1.00
930899--931014	57	2.0	57	86	8	162	35	0	0	63	1.00
930897--931015	20	5.6	21	83	9	145	35	0	0	63	1.00
932363--932431	28	2.6	28	84	11	83	28	1	4	65	1.21
932363--932450	28	3.4	26	77	19	78	29	1	4	64	1.20
932408--932480	25	3.0	26	76	11	66	31	0	2	65	1.06
935527--935744	103	2.1	103	93	0	373	25	13	23	37	1.91
938905--938966	28	2.2	28	91	5	99	20	22	24	32	1.98
938907--938985	28	2.8	28	84	0	95	20	21	24	34	1.97
949006--949203	21	9.5	21	77	11	176	31	23	20	24	1.98
949006--949180	62	2.8	62	88	1	262	32	22	21	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
949014--949203	83	2.3	82	82	8	217	32	22	20	24	1.98
949791--949826	5	7.4	5	90	3	56	0	41	19	38	1.52
949934--950099	21	7.8	21	76	14	153	39	20	18	21	1.92
949931--950089	63	2.5	63	91	0	264	40	20	17	21	1.92
962588--962855	133	2.0	133	97	1	502	23	19	22	33	1.97
963409--963441	2	16.5	2	100	0	66	51	0	0	48	1.00
963606--963634	2	14.5	2	100	0	58	48	0	0	51	1.00
964893--964935	18	2.4	18	88	0	59	25	53	6	13	1.65
971170--971204	18	1.9	18	94	0	61	25	31	22	20	1.98
971454--971561	2	54.0	2	100	0	216	50	0	0	50	1.00
971871--972032	63	2.5	64	83	4	177	26	19	20	33	1.96
973976--974036	23	2.7	23	94	0	113	29	26	26	18	1.98
978721--978845	65	1.9	65	88	6	191	28	20	22	28	1.99
978786--978907	46	2.6	46	93	3	210	30	21	19	28	1.98
978719--978927	111	1.9	111	88	4	314	30	20	21	28	1.98
978879--978925	19	2.6	18	86	10	60	31	19	23	25	1.98
979251--979289	14	2.8	14	85	11	53	51	0	10	38	1.36
981508--981586	23	3.5	22	74	8	63	25	24	25	25	2.00
981985--982018	15	2.3	15	94	0	59	23	29	11	35	1.90
985432--985471	21	1.9	21	85	10	55	35	7	2	55	1.42
987424--987563	64	2.2	65	83	8	171	29	18	21	30	1.97
991044--991592	273	2.0	273	98	0	1053	30	22	15	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
992068--992229	64	2.5	64	84	4	175	25	19	20	33	1.96
998011--998050	20	2.0	20	85	9	55	20	32	25	22	1.98
998013--998072	23	2.7	23	80	7	72	20	35	25	20	1.96
998054--998093	21	1.9	21	89	0	62	25	40	25	10	1.86
1003766--1003899	72	1.9	72	98	0	259	38	17	8	35	1.81
1005680--1005748	23	3.0	23	72	8	77	31	23	24	20	1.98
1005961--1006004	22	2.0	23	86	4	63	31	27	11	29	1.91
1006149--1006185	2	18.5	2	100	0	74	48	0	0	51	1.00
1010792--1010860	23	3.0	23	82	0	93	31	26	24	17	1.97
1011263--1011293	2	15.5	2	100	0	62	48	0	0	51	1.00
1012377--1012439	20	2.9	20	77	15	63	22	26	19	31	1.97
1012377--1012454	24	3.7	21	76	18	74	23	26	19	30	1.98
1018363--1018468	31	3.3	31	67	15	88	24	12	13	50	1.75
1018338--1018480	67	2.1	68	96	1	261	25	11	12	49	1.75
1018375--1018483	36	3.2	35	63	21	86	25	11	11	51	1.71
1024654--1024681	9	3.1	9	100	0	56	57	21	0	21	1.41
1033313--1033360	24	2.0	25	83	4	62	33	0	4	62	1.14
1033651--1033764	59	1.9	59	82	8	142	28	21	8	41	1.83
1036908--1036941	15	2.3	15	94	0	59	47	2	32	17	1.63
1037682--1037721	16	2.5	16	79	0	53	45	20	20	15	1.86
1039978--1040003	5	5.2	5	100	0	52	23	57	19	0	1.40
1042920--1043041	61	2.0	61	98	0	235	49	21	10	18	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1044109--1044151	14	2.9	15	86	6	52	60	0	2	37	1.10
1052705--1052758	26	2.1	25	86	13	74	61	7	3	27	1.40
1061542--1061586	13	3.5	13	87	0	63	31	20	20	28	1.97
1061565--1061870	85	3.6	84	88	4	413	30	20	16	32	1.94
1061918--1061968	2	25.5	2	91	0	84	50	0	1	47	1.12
1063457--1063487	12	2.6	12	94	0	53	70	9	6	12	1.31
1066136--1066177	15	2.7	15	88	3	57	9	21	11	57	1.63
1069486--1069541	12	4.4	13	75	11	53	14	3	8	73	1.21
1072152--1072273	40	3.0	40	95	0	226	22	17	27	32	1.96
1072378--1072504	47	2.8	45	84	7	157	40	7	22	29	1.82
1074311--1074428	2	61.0	2	75	12	68	37	3	0	59	1.14
1074311--1074503	94	2.1	94	81	7	220	33	3	2	60	1.28
1074458--1074537	37	2.3	34	84	6	106	25	3	2	68	1.18
1074568--1074660	36	2.6	38	81	11	106	21	4	4	69	1.23
1074566--1074670	36	2.9	35	77	12	97	23	3	4	67	1.26
1085280--1085324	16	2.8	16	96	3	81	75	8	15	0	1.03
1086287--1086493	110	1.9	110	89	2	326	35	24	19	21	1.96
1087677--1088036	181	2.0	178	93	5	618	29	15	9	45	1.78
1088008--1088047	16	2.5	15	88	8	53	32	2	0	65	1.06
1088006--1088091	21	4.6	18	71	21	52	33	3	0	62	1.12
1088055--1088093	14	2.7	14	84	4	51	41	0	0	58	0.98
1088135--1088211	37	2.2	35	84	11	95	27	5	2	64	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1088201--1088227	2	13.5	2	100	0	54	48	0	0	51	1.00
1088239--1088330	36	2.6	38	81	13	106	21	4	4	69	1.24
1088369--1088402	18	1.9	17	88	5	50	17	8	0	73	1.08
1088446--1088487	19	2.2	19	87	8	59	16	2	2	78	0.96
1088446--1088488	10	4.4	10	80	14	54	16	2	2	79	0.95
1090719--1090761	21	2.0	22	90	4	70	16	25	13	44	1.85
1101760--1101970	104	2.0	104	100	0	422	18	15	19	46	1.83
1105199--1105363	64	2.6	65	85	8	221	27	23	19	29	1.98
1105251--1105406	64	2.4	65	85	5	192	27	21	20	30	1.98
1107290--1107391	23	4.7	22	79	8	111	22	28	21	27	1.99
1110025--1110169	64	2.3	64	86	2	202	28	22	17	31	1.97
1110057--1110198	64	2.2	65	87	3	198	28	20	19	31	1.97
1110408--1110446	20	2.0	20	89	0	60	38	10	17	33	1.84
1129439--1129498	2	30.0	2	96	0	111	48	0	1	50	1.11
1130043--1130113	31	2.3	31	80	4	81	53	0	8	38	1.31
1130084--1130161	26	3.0	26	81	5	70	47	0	5	47	1.24
1130053--1130182	57	2.4	56	78	12	135	49	0	6	44	1.27
1130125--1130186	23	2.6	24	87	10	83	50	0	4	45	1.23
1130125--1130188	25	2.6	26	83	11	82	50	0	4	45	1.22
1132350--1132401	20	2.5	20	96	3	95	40	21	17	21	1.91
1132395--1132473	20	4.0	20	81	6	106	41	24	16	17	1.89
1132375--1132461	40	2.2	40	87	8	124	39	24	17	19	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1132596--1132647	22	2.4	22	86	0	68	19	38	13	28	1.89
1133060--1133118	20	2.9	20	82	2	73	18	13	16	50	1.77
1135215--1135331	21	5.6	21	78	8	112	20	35	20	23	1.96
1135213--1135331	42	2.8	42	89	0	166	20	36	20	23	1.95
1136689--1136846	64	2.5	64	91	1	253	30	2	17	50	1.59
1136905--1137004	20	5.0	20	76	0	110	39	21	18	22	1.93
1136905--1137013	40	2.7	40	73	0	128	36	20	19	23	1.95
1137325--1137360	18	2.0	18	94	0	63	16	2	25	55	1.55
1140600--1140687	19	4.4	20	77	11	74	31	10	22	35	1.88
1140600--1140691	39	2.3	40	77	5	98	30	9	22	36	1.87

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