genome.fa.s1547.2.7.7.80.10.50.1000.5.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  5  of  51  ( 6083 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)
829706--829740	18	1.9	18	94	0	61	22	14	25	37	1.92
832622--832660	2	19.5	2	89	0	60	48	5	0	46	1.24
832683--832724	21	1.9	23	85	9	61	66	11	2	19	1.34
835547--835617	22	3.5	22	68	18	71	42	7	5	45	1.55
835767--835834	31	2.2	31	89	0	109	39	11	27	20	1.88
836469--836565	37	2.6	37	88	0	149	40	16	13	29	1.87
837077--837133	22	2.5	23	71	23	57	26	3	1	68	1.15
837052--837139	25	3.5	25	72	20	67	29	3	1	65	1.16
837099--837156	24	2.6	22	78	8	55	29	5	0	65	1.14
838589--838626	5	7.6	5	100	0	76	18	0	0	81	0.69
840502--840545	18	2.4	18	88	7	63	79	6	13	0	0.92
840500--840558	19	3.3	18	83	6	75	79	6	11	1	0.99
841161--841237	22	3.5	22	98	0	145	37	25	12	23	1.91
841966--842099	37	3.7	35	80	7	151	26	20	14	38	1.90
841966--842103	36	3.8	36	81	6	163	26	20	13	39	1.90
842108--842949	106	8.0	106	86	3	1110	34	24	18	22	1.96
843665--843761	37	2.6	37	88	0	149	40	16	13	29	1.87
844241--844333	22	4.3	21	74	17	84	34	3	1	61	1.19
844241--844331	19	4.6	19	71	17	69	34	3	1	61	1.19
848080--848495	42	9.8	42	86	3	539	35	24	21	19	1.96
848080--848495	85	4.9	85	84	5	504	35	24	21	19	1.96
848080--848495	127	3.3	127	86	3	570	35	24	21	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
851217--851265	22	2.2	23	85	10	66	51	26	2	20	1.59
854023--854057	13	2.7	13	100	0	70	28	5	8	57	1.52
856596--856625	4	7.5	4	100	0	60	76	0	23	0	0.78
873107--873190	43	2.0	43	83	9	109	51	27	0	21	1.48
873034--873280	14	17.8	13	67	14	93	47	29	0	22	1.54
873039--873225	7	26.9	7	72	12	82	47	31	0	20	1.55
873067--873274	14	14.9	14	70	16	94	48	29	0	22	1.51
873250--873328	28	2.8	28	75	3	79	48	25	0	26	1.52
890921--890950	13	2.3	13	100	0	60	16	46	23	13	1.82
897264--897298	18	1.9	18	88	0	52	54	0	17	28	1.43
901614--901645	11	2.9	11	95	0	55	15	9	9	65	1.46
904291--904342	16	3.5	15	79	7	52	80	5	3	9	0.99
904299--904342	16	2.9	15	80	6	61	79	4	4	11	1.02
906955--907004	24	2.0	24	88	7	73	22	6	4	68	1.29
906955--907004	13	3.9	13	80	15	59	22	6	4	68	1.29
906955--907001	12	3.8	12	78	18	51	19	6	4	70	1.26
907874--907952	22	3.6	22	81	8	99	34	26	15	24	1.94
907877--907947	23	3.1	23	80	8	92	30	29	15	23	1.95
908358--908427	33	2.1	33	86	0	95	31	14	31	22	1.94
911070--911144	18	4.1	18	78	11	89	26	10	13	49	1.74
911092--911127	17	2.1	17	94	0	63	25	8	16	50	1.73
911074--911144	38	1.9	35	88	8	106	25	9	14	50	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
914202--914239	3	13.0	3	94	5	69	68	0	0	31	0.90
914240--914271	2	16.0	2	100	0	64	50	0	0	50	1.00
914523--914676	42	3.7	42	85	3	197	29	17	24	28	1.97
915462--916217	233	3.2	235	84	4	941	34	14	18	32	1.91
916294--916504	59	3.6	59	78	6	200	40	16	9	32	1.82
918362--918416	29	1.9	29	85	3	76	21	10	10	56	1.64
928325--928352	2	14.0	2	100	0	56	50	0	0	50	1.00
929148--929192	23	2.0	22	83	16	56	42	6	13	37	1.70
931317--931347	5	6.2	5	96	0	53	58	0	0	41	0.98
931992--932103	56	2.0	56	100	0	224	30	30	14	25	1.95
940658--940720	23	2.6	24	78	19	60	50	1	0	47	1.10
940692--940738	22	2.1	23	88	4	69	44	2	0	53	1.12
940686--940765	32	2.5	32	80	14	92	47	2	0	50	1.14
940818--940903	27	3.2	27	75	19	83	45	1	2	51	1.21
940841--940899	28	2.3	23	81	16	64	47	0	1	50	1.11
940891--940921	16	1.9	16	93	0	53	48	3	0	48	1.17
940918--940962	23	2.0	23	86	0	63	53	2	2	42	1.25
941057--941100	18	2.4	19	85	14	58	50	0	0	50	1.00
941236--941270	14	2.5	14	100	0	70	40	5	14	40	1.69
942919--942959	17	2.3	18	87	4	57	51	2	2	43	1.28
945743--945769	14	1.9	14	100	0	54	37	3	0	59	1.15
945726--945769	17	2.3	20	85	11	58	40	2	0	56	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
946917--946964	22	2.2	22	82	10	55	37	6	2	54	1.38
947980--948069	45	2.0	47	84	4	121	36	12	18	32	1.88
955286--955653	131	2.8	131	82	2	454	41	16	11	31	1.83
957993--958913	134	6.9	134	82	3	1000	28	14	21	34	1.93
958018--958891	266	3.3	262	82	4	1009	29	14	21	34	1.93
960148--960240	5	17.8	5	69	24	50	5	16	0	78	0.93
960133--960256	45	2.7	45	83	7	135	8	13	0	78	0.96
960199--960256	9	6.2	9	80	7	71	10	12	0	77	0.99
960133--960275	45	3.2	45	79	16	131	9	13	0	76	1.00
960232--960293	7	8.9	7	89	5	81	14	16	0	69	1.19
970012--970157	67	2.2	67	98	0	283	36	16	2	44	1.62
972092--972430	131	2.6	130	86	0	464	38	17	11	32	1.85
976649--976706	21	2.7	23	81	13	77	31	32	15	20	1.94
991899--991932	2	17.0	2	93	0	59	47	0	0	52	1.00
995255--996038	54	14.5	54	88	2	1080	31	17	16	34	1.92
996094--996125	15	2.1	15	100	0	64	50	18	6	25	1.70
996512--996606	21	4.5	21	95	0	172	24	22	15	37	1.93
998139--998191	14	3.8	14	75	9	54	49	0	1	49	1.12
1010628--1010934	153	2.0	154	99	0	607	42	18	15	22	1.89
1014603--1014650	17	2.7	18	87	6	62	6	6	10	77	1.13
1014592--1014642	20	2.6	19	90	6	75	5	5	7	80	1.02
1016274--1016368	2	48.5	2	95	4	176	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1016527--1016566	2	20.0	2	100	0	80	50	0	0	50	1.00
1017339--1017392	27	1.9	29	85	7	76	46	3	0	50	1.19
1017518--1017543	12	2.2	12	100	0	52	26	11	30	30	1.92
1023258--1023282	9	2.8	9	100	0	50	32	0	8	60	1.26
1032143--1032521	127	3.0	126	91	1	589	22	22	20	34	1.97
1032944--1033036	27	3.2	26	70	24	78	38	4	5	51	1.44
1032979--1033045	34	2.0	34	90	0	107	35	2	5	55	1.40
1033571--1033635	21	3.2	20	84	6	69	23	21	35	20	1.96
1035181--1035342	65	2.5	64	84	3	200	32	25	14	27	1.95
1035134--1035342	65	3.2	62	77	11	199	32	24	15	27	1.96
1038842--1038878	15	2.4	15	95	4	65	8	13	13	64	1.48
1046211--1046356	77	1.9	77	81	2	177	46	6	19	27	1.74
1046273--1046466	42	4.5	43	80	5	187	50	5	17	26	1.68
1046838--1046893	23	2.4	23	81	0	67	42	12	16	28	1.84
1056148--1056258	23	4.7	23	72	4	87	24	17	21	36	1.94
1057853--1057890	13	2.9	13	100	0	76	55	5	23	15	1.61
1062026--1062080	2	27.0	2	96	3	101	49	0	1	49	1.11
1062205--1062260	23	2.5	22	88	5	85	19	10	26	42	1.84
1062351--1062392	17	2.5	17	100	0	84	35	38	4	21	1.75
1078699--1079028	42	7.6	43	78	10	280	52	5	17	24	1.65
1078699--1079028	85	3.8	87	76	10	293	52	5	17	24	1.65
1079788--1079828	15	2.5	17	76	15	50	51	14	12	21	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1080084--1080125	20	2.1	20	95	0	75	14	28	40	16	1.88
1081542--1081589	19	2.5	20	82	3	62	29	12	6	52	1.63
1082867--1082936	21	3.4	21	80	4	79	12	28	37	21	1.90
1083554--1083786	43	5.5	43	81	7	226	55	5	13	25	1.60
1083554--1083789	85	2.8	86	80	7	239	55	5	13	25	1.60
1084037--1084078	21	1.9	23	90	9	70	42	2	16	38	1.61
1084174--1084229	23	2.4	23	78	0	67	42	16	14	26	1.86
1085364--1085675	156	2.0	156	99	0	615	38	10	9	42	1.71
1087311--1087352	21	2.0	21	100	0	84	28	38	9	23	1.86
1090805--1090870	15	4.4	15	84	0	87	40	3	15	40	1.62

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   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51