genome.fa.s7999.2.7.7.80.10.50.1000.44.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  44  of  50  ( 5918 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)
10397185--10397263	3	26.3	3	94	5	142	67	0	0	32	0.91
10397822--10397871	23	2.2	23	92	0	82	38	8	22	32	1.83
10397785--10397947	87	1.9	87	94	0	290	41	12	14	31	1.83
10398329--10398657	182	1.8	182	90	4	529	27	16	11	43	1.83
10398510--10398843	162	2.1	162	91	1	535	28	16	12	42	1.84
10402547--10403493	199	4.8	200	84	5	1073	29	14	15	40	1.87
10402736--10403493	199	3.8	198	90	2	1126	28	15	15	41	1.87
10403674--10403730	24	2.3	24	87	3	78	49	14	0	36	1.43
10406150--10406193	15	2.9	15	89	0	70	22	4	52	20	1.65
10406540--10407836	199	6.5	199	93	0	2209	27	15	15	41	1.87
10408207--10408254	19	2.5	19	93	0	78	56	10	2	31	1.45
10410384--10410440	24	2.5	21	76	17	60	49	8	1	40	1.44
10411679--10411734	19	3.0	19	92	2	87	37	19	0	42	1.52
10411681--10411746	18	3.6	18	91	2	96	39	16	0	43	1.48
10412133--10413643	182	8.3	182	87	5	2119	25	15	14	44	1.85
10412897--10412948	21	2.5	20	79	11	61	11	15	13	59	1.61
10412133--10413650	364	4.2	364	95	0	2646	25	15	14	44	1.85
10414569--10414629	29	2.1	29	84	6	79	27	26	19	26	1.99
10429790--10429865	31	2.5	31	84	4	91	46	9	3	40	1.54
10434653--10434827	90	2.0	89	93	1	296	45	6	10	36	1.66
10441430--10441499	22	3.3	20	70	20	61	42	4	2	50	1.37
10441464--10441636	90	1.9	89	92	1	292	46	6	9	37	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10442916--10443031	43	2.8	41	73	13	103	38	15	11	34	1.83
10442916--10443072	84	1.8	85	81	5	192	36	17	13	32	1.88
10443180--10443418	42	5.8	41	68	13	143	30	21	16	31	1.96
10443183--10443435	81	3.1	82	82	6	307	30	21	16	31	1.95
10443212--10443461	81	3.1	82	82	3	283	31	21	16	30	1.95
10443968--10444006	15	2.6	15	100	0	78	64	0	35	0	0.94
10453260--10453378	43	2.8	43	81	7	127	29	13	5	51	1.64
10453303--10453417	42	2.7	42	77	8	115	25	19	7	47	1.75
10453326--10453682	44	8.3	43	75	9	230	25	18	7	47	1.75
10453458--10453649	87	2.2	86	81	7	221	23	19	7	48	1.75
10455547--10455624	39	2.0	39	100	0	156	35	12	10	41	1.77
10459169--10459202	12	2.8	12	90	0	50	67	2	14	14	1.34
10463098--10463240	75	1.9	75	98	0	277	41	11	11	35	1.76
10465046--10465071	2	13.0	2	100	0	52	50	0	0	50	1.00
10466406--10466544	35	3.9	36	77	10	108	38	17	17	27	1.92
10470918--10470975	26	2.2	26	84	0	71	29	17	8	44	1.78
10471070--10471115	24	1.9	24	86	0	65	30	21	28	19	1.98
10471949--10472013	31	2.1	31	85	5	87	33	18	16	30	1.94
10472842--10473094	55	4.6	55	91	2	393	29	20	19	29	1.97
10476063--10476101	18	2.1	18	85	9	51	28	15	5	51	1.64
10480760--10480793	14	2.4	14	100	0	68	23	35	0	41	1.55
10485231--10485307	3	26.7	3	79	12	90	66	1	1	31	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10485234--10485307	11	6.7	11	77	11	80	66	1	1	31	1.09
10487709--10487752	23	2.0	21	82	8	52	59	6	13	20	1.57
10495907--10495967	21	2.8	21	85	9	70	22	39	24	13	1.90
10503367--10503408	19	2.2	19	83	8	50	64	0	2	33	1.07
10509958--10510028	35	2.0	35	94	0	124	25	11	12	50	1.73
10510122--10510153	3	11.3	3	87	12	50	34	0	0	65	0.93
10511181--10511455	146	1.9	146	81	3	338	32	19	26	21	1.97
10517798--10517832	3	11.3	3	93	6	61	62	0	34	2	1.10
10518954--10519023	7	8.8	8	78	18	67	77	0	11	11	1.00
10518953--10519035	9	9.8	9	76	16	63	78	0	12	9	0.97
10518954--10519036	34	2.6	32	81	12	93	78	0	12	9	0.97
10518947--10519066	26	4.7	25	70	20	81	79	0	11	8	0.98
10518962--10519050	43	2.1	41	83	8	108	78	0	13	7	0.95
10519018--10519052	14	2.5	14	90	0	61	85	0	14	0	0.59
10519013--10519066	16	3.6	15	77	20	51	85	1	9	3	0.80
10520346--10520629	108	2.6	110	92	2	491	27	15	28	28	1.96
10520346--10520626	55	5.1	55	91	2	467	27	15	29	27	1.96
10520622--10521380	52	14.6	52	93	0	1288	28	16	25	29	1.97
10520672--10520756	28	3.2	28	63	13	79	27	15	24	32	1.95
10520627--10520762	28	5.1	28	60	22	78	27	16	25	30	1.96
10521249--10521451	52	3.8	53	85	5	166	32	18	24	25	1.97
10521638--10521669	3	11.3	3	87	12	50	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10522699--10522970	146	1.9	146	80	4	325	33	19	26	21	1.97
10527563--10527605	16	2.7	16	81	0	59	53	0	4	41	1.21
10528029--10528340	82	3.7	83	82	2	365	25	19	23	31	1.98
10528345--10528638	124	2.4	124	88	1	428	26	17	23	32	1.96
10528532--10529177	240	2.6	246	81	5	786	25	17	23	33	1.96
10542790--10542851	27	2.5	26	79	12	67	46	4	0	48	1.23
10542779--10542852	25	2.9	26	76	15	75	47	4	0	48	1.20
10542884--10542968	29	2.9	28	75	21	77	60	0	4	35	1.18
10542887--10543056	30	5.8	28	69	16	78	57	1	4	37	1.28
10542963--10543054	31	2.9	31	77	1	103	56	3	3	36	1.32
10543080--10543171	27	3.4	27	82	5	105	50	5	3	41	1.42
10544580--10544742	65	2.5	65	82	4	188	29	15	24	30	1.96
10544690--10544740	19	2.7	19	85	8	70	29	15	31	23	1.95
10553056--10553215	65	2.5	63	83	7	189	27	16	26	30	1.97
10561442--10561601	64	2.5	63	82	4	198	27	16	26	29	1.97
10563164--10563217	21	2.6	21	81	0	72	14	22	20	42	1.88
10563555--10563611	21	2.7	21	91	0	87	33	29	10	26	1.90
10567414--10567522	56	1.9	56	90	3	175	52	17	19	11	1.74
10567481--10567552	30	2.4	29	86	6	90	51	19	20	8	1.72
10571528--10571576	20	2.5	20	96	0	89	30	28	18	22	1.97
10571686--10571731	20	2.2	20	84	3	56	45	32	13	8	1.73
10584467--10584525	31	1.9	31	89	6	93	38	10	11	38	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10584467--10584532	31	2.1	31	86	5	89	37	10	12	39	1.77
10586247--10586317	18	3.9	18	88	0	106	19	21	33	25	1.97
10586246--10586317	36	2.0	36	91	0	117	19	22	33	25	1.97
10588658--10588691	2	17.0	2	100	0	68	50	0	0	50	1.00
10590545--10590589	18	2.5	18	92	0	72	15	22	33	28	1.95
10595181--10595219	18	2.1	19	95	4	71	33	15	20	30	1.94
10596239--10596269	14	2.3	14	94	5	55	83	0	0	16	0.64
10596512--10596597	35	2.5	35	90	0	136	30	11	9	48	1.71
10596916--10596979	22	2.9	24	82	13	66	32	3	1	62	1.20
10596920--10596995	31	2.5	30	83	10	84	35	1	1	61	1.12
10596933--10596996	24	2.7	23	80	11	76	37	1	0	60	1.06
10596965--10597031	24	2.9	22	76	18	64	44	1	0	53	1.09
10597252--10597319	29	2.3	29	82	5	84	30	23	5	39	1.78
10599787--10599832	24	1.9	24	86	0	65	34	10	2	52	1.49
10603473--10603590	29	3.9	27	75	20	83	44	7	14	33	1.74
10603522--10603590	29	2.4	29	97	0	129	43	5	17	33	1.73
10604332--10604728	199	2.0	199	98	0	776	24	20	14	41	1.89
10605898--10605942	17	2.6	18	86	10	51	17	8	0	73	1.08
10609257--10609325	27	2.6	27	93	4	115	33	10	11	44	1.74
10613482--10613565	3	29.0	3	71	13	52	36	0	2	60	1.10
10613488--10613560	29	2.6	27	84	6	83	38	0	2	58	1.12
10614949--10614974	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10614967--10615006	18	2.2	18	86	0	53	37	0	0	62	0.95
10615600--10615641	19	2.3	19	79	4	50	33	4	0	61	1.17
10617203--10617243	14	3.1	14	79	13	50	14	17	17	51	1.77
10619051--10619296	94	2.6	95	94	1	433	46	17	13	22	1.83
10621488--10621543	20	2.8	20	84	10	87	39	21	25	14	1.91
10621528--10621583	14	3.6	14	74	21	58	42	21	25	10	1.85
10621479--10621602	33	3.5	33	85	7	158	43	20	24	12	1.85
10621479--10621624	19	8.1	19	76	17	123	43	19	23	12	1.85
10621652--10621741	20	4.5	20	82	9	112	12	17	18	51	1.76
10622236--10622467	40	5.8	40	81	5	234	19	17	24	38	1.93

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