genome.fa.s8027.2.7.7.80.10.50.1000.6.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

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   

This is table  6  of  38  ( 4505 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)
919290--919646	108	3.3	108	88	2	493	31	20	19	28	1.97
919500--919582	27	3.2	25	62	18	60	33	20	20	25	1.97
923533--923673	45	3.1	46	76	7	146	29	18	8	43	1.80
924166--924370	54	3.8	54	88	1	252	32	20	17	29	1.95
924992--925034	21	2.0	22	86	4	61	32	32	13	20	1.92
925789--925913	31	4.0	31	80	6	110	35	18	18	28	1.94
926153--926192	19	2.1	19	100	0	80	32	20	15	32	1.93
933879--933909	16	1.9	16	100	0	62	58	22	12	6	1.58
933977--934025	15	3.3	15	88	8	73	55	22	12	10	1.66
934745--934807	24	2.6	24	85	5	83	57	19	11	12	1.65
935477--935620	58	2.4	58	78	8	148	44	9	18	28	1.80
936387--936505	27	4.4	27	83	0	157	15	31	22	30	1.95
942621--942679	29	2.0	29	96	0	109	23	11	13	50	1.74
947207--947265	29	2.0	29	93	0	100	23	13	13	49	1.78
956612--956656	2	23.0	2	88	4	65	44	0	0	55	0.99
956615--956666	18	3.1	17	86	5	61	38	0	0	61	0.96
956761--956901	6	22.3	6	66	22	58	16	4	4	75	1.12
956765--956887	5	24.8	5	74	13	62	16	4	4	75	1.11
956765--956858	14	6.6	14	71	17	61	17	4	4	74	1.14
956771--956858	37	2.4	37	84	3	106	17	4	4	73	1.16
956771--956880	37	3.0	37	80	7	100	16	4	4	74	1.15
957619--957656	20	1.9	20	100	0	76	36	10	28	23	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
957813--957887	37	2.0	37	82	5	89	49	2	0	48	1.15
963997--964047	21	2.5	20	75	15	50	43	19	9	27	1.82
966095--966148	7	7.1	7	88	12	72	25	1	0	72	0.95
966228--966347	9	13.2	9	74	17	65	21	3	3	71	1.15
966273--966336	3	21.7	3	87	12	89	28	0	0	71	0.86
966273--966351	12	6.8	11	86	12	81	25	0	1	73	0.91
971688--971721	12	2.7	13	86	9	52	41	5	8	44	1.60
971971--972018	22	2.2	22	81	7	53	52	25	0	22	1.48
981132--981186	21	2.6	21	77	8	58	32	21	21	23	1.98
981174--981402	20	11.4	20	82	5	239	37	25	17	19	1.94
982082--982128	24	2.0	24	83	8	60	27	14	19	38	1.91
982300--982324	12	2.1	12	100	0	50	72	0	28	0	0.86
984621--984829	19	11.7	19	78	18	236	44	17	23	14	1.85
984576--984753	33	5.2	32	74	16	162	46	18	22	12	1.83
984590--984823	52	4.5	53	95	3	422	45	17	22	13	1.84
984576--984753	85	2.1	84	84	8	227	46	18	22	12	1.83
984642--984806	33	4.8	33	73	18	158	45	17	23	13	1.84
984838--984925	19	4.8	19	82	14	123	13	21	15	48	1.80
984819--984925	53	2.0	52	96	1	196	13	23	16	46	1.82
985016--985052	14	2.6	14	91	0	65	45	21	0	32	1.52
986491--986577	45	1.9	45	85	0	120	21	16	41	20	1.90
986988--987125	19	7.8	19	72	15	125	46	22	21	9	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
986990--987120	33	3.8	33	87	5	172	46	22	21	9	1.79
986989--987125	52	2.6	51	74	12	143	45	22	21	9	1.80
987137--987195	14	3.9	14	76	20	64	6	16	28	47	1.72
987121--987244	33	3.7	33	91	1	185	8	17	27	45	1.78
987121--987212	19	5.4	18	72	24	83	7	17	28	46	1.75
987170--987226	14	3.7	14	72	20	51	8	22	24	43	1.81
987269--987570	93	3.3	93	96	0	561	45	18	13	21	1.84
989257--989363	19	5.7	20	77	15	104	46	18	23	11	1.81
989255--989319	21	3.1	21	82	4	96	47	15	26	10	1.78
989380--989436	14	3.7	14	75	20	60	8	24	22	43	1.81
989364--989443	33	2.4	33	95	0	142	8	21	22	47	1.78
989424--989497	21	3.5	21	80	7	96	14	20	17	47	1.83
989577--989647	33	2.2	33	94	0	124	47	16	23	11	1.79
990026--990217	20	9.6	20	86	4	253	19	19	27	34	1.96
991598--991632	2	17.5	2	100	0	70	48	0	0	51	1.00
993807--993884	24	3.2	24	72	13	79	10	15	20	53	1.70
993829--993869	14	2.9	14	96	0	73	9	14	19	56	1.66
993759--993900	48	3.0	46	82	5	151	14	14	19	52	1.74
993941--993971	16	1.9	16	93	0	53	51	19	0	29	1.47
996362--996416	3	18.0	3	78	17	60	34	0	0	65	0.93
996362--996416	28	2.0	27	89	10	85	34	0	0	65	0.93
997681--997713	16	2.1	16	88	11	50	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
997719--997752	17	2.0	17	88	11	52	29	5	0	64	1.17
1000223--1000264	7	6.0	7	81	8	50	14	16	14	54	1.71
1000223--1000264	15	3.0	14	83	10	50	14	16	14	54	1.71
1004379--1004598	114	1.9	114	91	1	361	33	15	20	31	1.93
1007229--1007303	22	3.4	22	90	3	114	36	9	14	40	1.78
1008098--1008511	113	3.7	113	95	0	740	40	15	18	25	1.90
1008451--1008550	39	2.5	40	96	1	184	48	10	24	18	1.78
1008533--1008717	84	2.2	83	84	2	237	38	17	16	28	1.91
1008969--1009023	3	18.0	3	78	17	60	34	0	0	65	0.93
1008969--1009023	28	2.0	27	89	10	85	34	0	0	65	0.93
1010288--1010320	16	2.1	16	88	11	50	39	0	0	60	0.97
1010326--1010359	17	2.0	17	88	11	52	29	5	0	64	1.17
1010369--1010401	2	16.5	2	100	0	66	51	0	0	48	1.00
1010488--1010550	33	2.0	33	84	6	85	41	0	1	57	1.08
1010735--1010767	18	1.9	17	88	11	50	51	0	0	48	1.00
1012760--1012800	18	2.3	18	91	8	66	17	12	31	39	1.86
1013741--1013784	16	2.8	16	96	0	79	47	6	4	40	1.50
1015182--1015227	18	2.6	18	100	0	92	52	15	10	21	1.73
1015783--1015841	23	2.7	21	82	12	73	55	13	6	23	1.62
1016401--1016434	16	2.1	16	94	0	59	23	8	5	61	1.47
1023488--1023526	21	1.9	20	85	15	53	35	17	15	30	1.91
1036771--1037197	54	7.9	54	87	1	361	33	18	14	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1036781--1037197	108	3.9	109	87	2	574	33	17	14	33	1.91
1036893--1036975	27	3.1	27	65	22	66	30	16	16	36	1.92
1036758--1037197	162	2.7	161	86	3	596	33	18	14	33	1.91
1043697--1044050	54	6.5	54	89	0	501	32	16	16	34	1.92
1052741--1052793	25	2.0	26	82	17	65	52	1	5	39	1.36
1052750--1052873	40	3.2	39	91	7	193	47	2	7	42	1.44
1052879--1052931	7	7.4	7	78	16	56	41	0	1	56	1.10
1052872--1052931	18	3.3	19	84	9	72	40	0	3	56	1.16
1052879--1052934	23	2.3	23	87	6	76	41	0	1	57	1.09
1058646--1058722	2	39.0	2	97	2	147	50	0	0	49	1.00
1058703--1059096	99	4.0	99	89	0	599	34	16	17	32	1.92
1061043--1061623	201	2.9	201	82	3	661	33	18	20	27	1.96
1061957--1062014	2	30.5	2	76	22	54	50	1	1	46	1.22
1061997--1062264	39	6.8	39	85	10	334	45	2	7	44	1.47
1061997--1062264	79	3.4	78	90	3	407	45	2	7	44	1.47
1062224--1062274	26	1.9	27	88	4	77	37	0	7	54	1.29
1062259--1062325	11	5.7	12	75	20	61	38	0	2	58	1.14
1062259--1062325	7	10.3	7	78	16	65	38	0	2	58	1.14
1062278--1062325	20	2.4	19	83	10	60	39	0	2	58	1.10
1062260--1062329	12	6.4	11	74	12	56	37	0	2	60	1.12
1073916--1073953	16	2.4	16	100	0	76	42	10	5	42	1.62
1076471--1076587	11	10.6	12	69	20	60	33	1	1	63	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1076482--1076548	20	3.2	20	66	25	57	29	2	2	64	1.23
1076473--1076580	43	2.5	43	98	1	207	32	1	1	63	1.15
1076493--1076560	20	3.2	20	72	11	73	27	2	2	66	1.21
1076514--1076596	11	7.6	11	68	21	50	36	2	1	60	1.18
1077827--1077915	20	4.5	20	72	18	87	29	4	0	66	1.11
1077839--1077936	12	8.3	12	74	21	84	30	3	0	66	1.07
1077839--1077936	40	2.4	40	82	16	112	30	3	0	66	1.07
1077829--1077947	59	2.0	58	84	10	136	30	5	0	63	1.21
1078366--1078431	2	34.0	2	93	6	118	50	0	0	50	1.00
1083465--1083599	72	1.9	72	93	0	234	27	21	17	34	1.95

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