genome.fa.s8242.2.7.7.80.10.50.1000.61.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   

This is table  61  of  73  ( 8740 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)
14132416--14132506	45	2.0	45	91	0	146	50	7	21	19	1.73
14136235--14136284	21	2.4	21	100	0	100	42	10	18	30	1.82
14138758--14138815	2	29.0	2	100	0	116	50	0	0	50	1.00
14142671--14142728	29	2.0	29	93	0	98	39	22	22	15	1.91
14142866--14143151	20	13.9	20	76	8	220	38	26	18	16	1.92
14142930--14143155	20	10.9	21	78	9	234	36	27	18	17	1.93
14142870--14143151	62	4.6	61	86	5	338	37	26	19	16	1.92
14143240--14143273	12	3.1	11	91	8	52	29	52	17	0	1.45
14143767--14143805	6	6.5	6	100	0	78	0	15	51	33	1.44
14148813--14148846	14	2.4	14	90	0	50	50	0	0	50	1.00
14153049--14153078	11	2.7	11	100	0	60	16	20	0	63	1.31
14154700--14154895	100	2.0	99	93	1	338	33	17	16	32	1.93
14156624--14156787	43	3.8	43	91	0	247	31	28	17	23	1.96
14157520--14157558	3	12.3	3	84	10	51	33	0	0	66	0.92
14157520--14157573	7	8.1	7	89	4	60	27	0	0	72	0.85
14161863--14161898	17	2.3	15	90	9	54	36	2	0	61	1.11
14162267--14162299	15	2.3	15	89	5	50	57	0	0	42	0.98
14162348--14162407	15	4.1	14	78	19	61	68	0	5	26	1.10
14163823--14163893	3	23.3	3	91	2	115	61	0	0	38	0.96
14164047--14164760	76	9.4	76	96	1	1238	35	22	19	23	1.96
14165612--14165654	22	2.0	22	95	0	77	44	13	6	34	1.72
14170963--14171093	31	4.2	31	79	8	133	28	19	19	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14171077--14171148	30	2.4	30	92	0	117	26	20	22	30	1.98
14176097--14176273	90	2.0	89	95	1	318	37	11	5	45	1.64
14177289--14177315	14	1.9	14	100	0	54	44	0	0	55	0.99
14177389--14177454	26	2.4	28	82	14	75	60	4	0	34	1.17
14177312--14177592	138	2.0	138	88	5	363	47	8	6	38	1.58
14177635--14177702	11	6.1	11	70	21	52	64	1	4	29	1.21
14177642--14177703	25	2.8	24	81	15	71	62	1	3	32	1.20
14179023--14179070	3	16.0	3	87	8	71	62	0	2	35	1.07
14179244--14179442	77	2.6	77	91	0	317	32	20	21	26	1.97
14179390--14179807	45	9.3	45	90	0	631	33	20	23	22	1.97
14179589--14179658	20	3.2	20	67	18	59	31	20	31	17	1.95
14189670--14189731	31	2.0	30	84	9	79	58	0	9	32	1.31
14190132--14190170	16	2.3	18	91	8	64	48	0	0	51	1.00
14190142--14190178	16	2.2	16	90	4	56	43	0	2	54	1.14
14190169--14190426	140	1.8	141	91	0	428	44	7	7	39	1.62
14191780--14191840	3	19.0	3	90	6	61	59	0	1	39	1.08
14201823--14201862	4	10.5	4	84	10	57	75	2	0	22	0.93
14201821--14201862	18	2.3	18	87	4	66	73	2	0	23	0.94
14202014--14202075	31	2.0	30	96	3	115	25	25	0	48	1.52
14202014--14202075	15	4.1	15	95	4	115	25	25	0	48	1.52
14203843--14204001	83	1.9	83	86	0	228	21	22	27	29	1.99
14204072--14204183	37	3.1	37	85	2	163	41	12	19	25	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14204094--14204264	88	2.0	88	88	2	229	42	12	20	25	1.87
14204193--14204585	36	11.2	36	76	14	365	41	12	18	26	1.87
14204214--14204278	21	3.4	20	68	24	59	41	10	21	26	1.86
14204072--14204315	124	2.0	125	91	0	400	41	12	19	25	1.87
14204108--14204580	124	3.5	132	83	9	520	41	13	19	26	1.87
14204229--14204585	138	2.6	140	86	5	510	41	13	18	26	1.88
14204229--14204642	139	3.0	136	82	7	494	40	14	18	26	1.89
14205162--14205243	42	1.9	43	85	2	112	21	15	29	32	1.95
14211743--14211774	15	2.0	17	88	11	50	31	15	6	46	1.71
14211839--14211906	29	2.3	29	82	2	82	76	2	11	8	1.12
14213420--14213463	20	2.2	20	88	4	63	25	0	2	72	0.96
14214242--14214294	27	2.0	27	85	10	74	50	0	0	49	1.00
14214239--14214961	342	2.1	337	91	3	1157	43	5	6	44	1.51
14215028--14215069	2	21.0	2	100	0	84	50	0	0	50	1.00
14215498--14215527	2	15.0	2	100	0	60	50	0	0	50	1.00
14226625--14226652	14	2.0	14	100	0	56	50	0	7	42	1.30
14229445--14229516	35	2.1	35	100	0	144	40	11	20	27	1.87
14229892--14229931	18	2.3	18	83	8	57	25	5	2	67	1.23
14230002--14230036	2	17.5	2	100	0	70	48	0	0	51	1.00
14229926--14230079	67	2.3	67	82	8	179	37	4	1	56	1.31
14230458--14230527	9	7.9	9	71	15	56	17	10	0	72	1.10
14230458--14230527	18	3.9	18	78	10	72	17	10	0	72	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14230498--14230537	18	2.2	18	86	0	53	15	15	2	67	1.34
14239295--14239935	106	6.1	106	80	6	644	34	22	19	23	1.96
14239362--14239849	201	2.4	205	85	5	619	35	22	19	22	1.96
14239599--14239779	95	1.9	95	88	0	272	35	22	20	20	1.96
14240403--14240479	35	2.2	35	97	0	145	44	10	19	25	1.83
14240890--14240926	2	18.5	2	94	0	65	48	2	0	48	1.15
14241151--14241180	2	15.5	2	93	6	53	50	0	0	50	1.00
14241983--14242046	12	5.3	12	80	0	74	53	15	7	23	1.68
14241980--14242047	24	2.8	24	84	4	93	51	14	8	25	1.71
14241984--14242060	24	3.2	24	76	7	77	53	12	7	25	1.66
14242122--14242166	15	3.1	15	80	6	65	42	6	20	31	1.77
14242529--14242632	29	3.6	28	74	17	88	50	2	0	46	1.16
14242519--14242632	59	1.9	61	84	10	155	50	2	0	46	1.15
14242605--14242685	18	4.7	18	66	23	57	45	1	1	51	1.16
14242638--14242696	31	1.9	32	86	13	88	54	0	0	45	0.99
14242645--14242688	22	2.0	23	86	4	63	54	0	0	45	0.99
14242882--14242994	42	2.7	42	97	0	208	46	20	17	15	1.83
14245756--14245961	84	2.4	86	81	6	258	52	3	7	35	1.49
14247159--14247391	109	2.1	109	90	3	373	30	19	19	30	1.97
14247160--14247394	54	4.3	54	81	4	276	31	19	20	29	1.97
14247800--14247865	23	3.0	23	67	24	59	25	19	24	30	1.98
14247778--14247857	21	3.8	20	70	18	54	21	17	25	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14252333--14252385	20	2.5	21	90	6	81	28	18	24	28	1.98
14253928--14253972	19	2.3	19	84	3	54	17	17	24	40	1.91
14253967--14254022	20	2.7	21	83	2	69	25	26	12	35	1.91
14257832--14258159	170	1.9	171	98	1	633	38	18	14	28	1.90
14259918--14259966	21	2.3	21	82	0	62	8	22	18	51	1.72
14262170--14262225	20	2.8	20	88	2	76	16	26	41	16	1.88
14263702--14263749	19	2.4	21	80	13	57	31	8	6	54	1.55
14265026--14265088	20	3.1	20	88	2	90	15	28	41	14	1.87
14265026--14265088	21	3.0	21	86	4	92	15	28	41	14	1.87
14267032--14267106	39	1.9	39	83	5	98	33	13	18	34	1.90
14279592--14279720	29	4.4	29	90	2	177	31	8	0	58	1.33
14279614--14279732	58	2.0	58	87	4	168	37	7	0	54	1.29
14279784--14279949	31	5.5	30	77	17	157	56	0	4	39	1.23
14279784--14279856	27	2.7	26	80	14	85	58	0	4	36	1.17
14279794--14279951	29	5.3	27	76	18	131	54	0	3	41	1.23
14279793--14279951	60	2.6	57	81	14	187	54	0	3	41	1.23
14280824--14280886	13	4.8	13	74	18	51	76	6	11	6	1.16
14283151--14283200	25	2.0	26	84	4	66	38	2	0	60	1.09
14294431--14294523	17	5.5	17	90	0	141	26	15	45	12	1.82
14294933--14295586	133	5.0	132	84	2	782	29	18	21	31	1.96
14295294--14295479	44	4.2	45	71	8	139	28	18	22	31	1.97
14295937--14296220	31	8.7	35	76	18	226	37	14	19	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14295970--14296019	17	3.1	17	77	13	61	42	8	20	30	1.80
14295925--14296102	67	2.6	67	86	9	231	36	14	22	26	1.93
14295935--14296150	101	2.2	97	89	8	321	36	14	20	28	1.92
14296065--14296220	61	2.5	60	80	14	160	38	14	18	28	1.90
14296042--14296223	60	3.0	59	77	15	176	36	14	18	30	1.91
14300811--14301599	394	2.0	393	95	0	1416	36	15	13	34	1.87
14302742--14302810	31	2.2	31	97	0	129	23	26	8	42	1.83
14302815--14302884	31	2.3	31	92	0	113	30	22	10	37	1.87
14302826--14302892	31	2.2	31	100	0	134	23	25	11	38	1.89
14306459--14306491	2	16.0	2	93	6	57	48	3	0	48	1.17

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   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73