genome.fa.s9639.2.7.7.80.10.50.1000.45.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   

This is table  45  of  62  ( 7398 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)
9996286--9996330	23	1.9	24	82	13	58	62	8	6	22	1.48
9998782--9998837	29	2.0	28	82	3	67	50	7	12	30	1.67
10001620--10001718	50	2.0	50	89	0	153	27	15	28	29	1.96
10008865--10009023	78	2.0	78	98	0	309	28	10	22	39	1.86
10013101--10013182	22	3.8	21	78	3	65	36	21	18	23	1.95
10018248--10018328	29	2.7	29	88	5	108	32	16	12	39	1.85
10018252--10018340	29	2.9	31	83	3	92	32	16	11	39	1.84
10018655--10018726	31	2.3	31	85	4	92	29	29	25	16	1.97
10026130--10026182	24	2.2	24	86	6	72	20	20	18	39	1.92
10032179--10032223	22	2.0	22	95	0	81	26	13	22	37	1.91
10036798--10036871	38	1.9	38	86	0	103	25	33	13	27	1.93
10038283--10038329	20	2.4	20	89	3	69	38	27	0	34	1.57
10039507--10039589	30	2.7	30	83	14	107	33	15	6	44	1.71
10042153--10042204	20	2.7	20	80	11	63	32	15	26	25	1.95
10042118--10042258	73	1.9	72	82	1	174	35	16	22	25	1.95
10042625--10043080	59	7.7	59	90	1	711	35	11	21	31	1.89
10042625--10043080	235	1.9	235	91	1	736	35	11	21	31	1.89
10043514--10043606	45	2.0	46	88	10	138	48	6	20	24	1.73
10044112--10044221	26	4.3	25	61	19	64	39	11	7	41	1.69
10044075--10044225	78	1.9	78	95	0	275	37	10	8	43	1.70
10044513--10044558	17	2.7	17	100	0	92	54	19	6	19	1.66
10065951--10066110	65	2.5	63	85	6	205	29	24	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10066082--10066130	19	2.6	19	84	9	57	24	28	20	26	1.99
10073452--10073495	21	2.1	21	82	0	52	9	43	15	31	1.79
10074733--10074788	21	2.7	21	97	0	103	25	26	26	21	1.99
10078969--10079118	70	2.1	69	84	7	196	34	22	14	28	1.93
10084132--10084167	18	1.9	19	88	5	56	63	0	8	27	1.23
10084513--10084572	27	2.1	29	81	6	70	76	5	6	11	1.13
10084608--10084645	16	2.4	16	82	8	51	63	0	13	23	1.30
10084606--10084644	17	2.4	16	82	4	51	64	0	10	25	1.25
10085473--10085543	5	13.8	5	80	11	81	59	1	1	38	1.15
10088702--10088739	12	3.1	12	92	3	58	15	15	15	52	1.75
10089661--10089696	15	2.4	15	90	0	54	66	0	11	22	1.22
10090773--10090919	70	2.1	70	85	0	195	34	23	16	26	1.95
10099284--10099433	70	2.1	70	86	2	212	35	22	13	28	1.92
10111636--10111674	20	2.0	20	89	0	60	33	23	10	33	1.88
10117632--10117677	22	2.2	22	84	7	60	69	2	0	28	1.00
10117640--10117722	29	2.7	30	79	15	82	57	4	1	36	1.28
10117716--10117868	47	3.7	39	75	16	139	44	10	1	43	1.50
10117744--10117804	32	1.9	32	93	0	104	47	11	0	40	1.40
10117839--10117920	26	3.1	26	85	7	103	46	12	1	40	1.49
10117860--10118006	37	4.2	37	75	16	150	44	8	1	44	1.43
10117848--10117938	26	3.3	26	84	9	103	46	12	0	41	1.41
10117848--10117938	28	3.3	28	81	9	107	46	12	0	41	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10117899--10118006	37	2.8	38	88	5	155	43	8	1	46	1.44
10120475--10120619	49	3.0	49	81	4	175	49	8	19	22	1.75
10122683--10123060	190	2.0	189	89	2	580	25	23	20	30	1.98
10126576--10126639	31	2.0	32	82	8	78	32	4	21	40	1.74
10128330--10128452	40	3.1	40	96	0	228	25	17	25	32	1.96
10128555--10128781	45	5.0	45	90	2	323	41	7	19	31	1.79
10130597--10130727	38	3.5	35	75	16	104	48	7	1	42	1.41
10130620--10130971	38	9.1	37	70	20	233	46	8	1	43	1.46
10130620--10130765	75	1.9	75	86	6	206	50	8	0	41	1.37
10130741--10130858	28	4.2	28	74	14	118	44	10	1	43	1.48
10130745--10130858	27	4.1	27	71	11	97	45	9	1	42	1.47
10130785--10130822	17	2.2	17	100	0	76	47	5	0	47	1.24
10130803--10130971	39	4.5	37	84	12	213	43	8	2	45	1.49
10130645--10130933	160	1.8	155	87	3	425	46	8	2	42	1.46
10130936--10130989	29	2.0	27	85	10	74	40	7	1	50	1.41
10133797--10134425	6	104.8	6	99	0	493	44	0	25	30	1.54
10134020--10134443	6	71.0	6	99	0	834	50	0	16	33	1.46
10136074--10136103	10	3.0	10	100	0	60	50	0	0	50	1.00
10137138--10137188	3	17.3	3	91	4	86	64	0	0	35	0.94
10140755--10141411	81	8.2	81	86	2	844	38	12	21	27	1.90
10140755--10141394	237	2.7	240	86	1	856	37	12	21	27	1.90
10148011--10148592	81	7.2	80	85	3	711	38	12	19	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10148010--10148615	243	2.5	243	85	2	788	38	12	19	30	1.88
10152604--10152689	16	5.1	17	76	16	72	77	0	12	9	0.98
10152588--10152721	38	3.5	37	74	16	123	78	0	13	8	0.96
10152591--10152738	17	8.2	17	70	18	70	79	0	12	8	0.94
10154687--10154882	103	1.9	101	89	4	304	31	19	13	35	1.90
10155157--10155720	163	3.5	161	84	3	675	37	13	20	28	1.91
10157712--10158439	54	13.6	54	87	1	926	34	20	19	25	1.96
10158581--10158808	83	2.8	81	86	4	314	42	13	19	25	1.87
10161455--10161521	18	3.8	18	86	4	91	29	10	19	40	1.85
10161455--10161523	35	2.0	35	91	0	111	28	10	18	42	1.83
10161540--10161582	19	2.3	18	80	4	50	30	9	16	44	1.79
10161649--10162144	40	12.4	40	75	9	250	35	14	22	27	1.93
10161643--10162155	80	6.4	77	79	7	436	35	14	22	27	1.93
10161653--10162162	120	4.3	119	77	8	437	35	14	22	27	1.93
10164065--10164092	2	14.0	2	100	0	56	50	0	0	50	1.00
10167176--10167225	22	2.3	22	86	6	66	34	24	22	20	1.97
10170988--10171038	22	2.3	22	89	0	75	39	27	19	13	1.90
10177255--10177284	14	2.1	14	100	0	60	60	6	20	13	1.55
10178437--10178501	35	2.0	32	82	14	80	43	16	3	36	1.64
10192892--10193407	59	8.7	59	91	0	798	31	21	11	35	1.89
10193735--10193788	20	2.6	20	82	5	54	27	20	14	37	1.92
10194716--10194756	16	2.6	16	92	0	64	21	26	9	41	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10194821--10194945	42	3.0	40	65	19	103	42	0	8	48	1.40
10194830--10194970	44	3.3	44	70	11	148	44	0	7	46	1.37
10194822--10194990	84	2.0	84	97	0	320	44	0	7	46	1.36
10195277--10195328	14	3.7	14	75	10	52	25	0	26	48	1.52
10195429--10195460	13	2.5	13	94	0	55	40	0	9	50	1.35
10195759--10195800	21	2.0	21	85	0	57	19	23	2	54	1.55
10196469--10196547	21	3.8	21	76	5	88	18	0	29	51	1.46
10197079--10197119	2	21.5	2	90	9	68	51	0	0	48	1.00
10197076--10197119	17	2.6	17	96	0	79	52	0	0	47	1.00
10197146--10197190	13	3.5	13	87	6	56	44	4	0	51	1.21
10198036--10198065	2	15.5	2	93	6	53	46	0	0	53	1.00
10198716--10198770	16	3.4	16	72	18	60	34	27	20	18	1.95
10198710--10198786	32	2.4	32	97	0	145	33	27	19	19	1.96
10198735--10198787	16	3.3	16	70	19	56	35	26	18	18	1.95
10199009--10199049	2	20.5	2	100	0	82	48	0	0	51	1.00
10201567--10201638	17	4.2	17	76	5	65	36	13	6	43	1.72
10207098--10207193	35	2.8	35	80	9	119	72	1	2	23	1.01
10207149--10207255	5	20.2	5	73	22	51	78	3	3	14	1.03
10207149--10207255	15	7.1	14	73	18	81	78	3	3	14	1.03
10207351--10207393	18	2.4	18	88	0	59	72	0	4	23	1.04
10208259--10209039	200	3.9	200	86	1	1010	27	20	19	32	1.97
10209104--10209473	86	4.3	86	89	1	537	21	23	25	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10209320--10209457	44	3.2	44	65	15	106	18	23	26	31	1.98
10213443--10213547	41	2.5	42	74	18	103	73	2	7	16	1.18
10213474--10213537	10	5.9	10	75	22	58	78	4	6	10	1.08
10213468--10213527	16	3.6	16	72	27	61	78	3	6	11	1.06
10213640--10213682	18	2.4	18	92	0	68	72	0	6	20	1.08
10214454--10214495	2	21.5	2	95	4	77	50	0	0	50	1.00
10220039--10220353	32	9.8	32	78	2	256	38	13	17	30	1.89
10220051--10220353	64	4.7	64	80	4	283	38	14	17	29	1.89
10222911--10222969	21	2.8	21	92	0	91	27	20	23	28	1.99
10223309--10223345	18	2.0	19	89	5	58	51	8	5	35	1.55

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