genome.fa.s9643.2.7.7.80.10.50.1000.39.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: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8859806

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   

This is table  39  of  41  ( 4862 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)
8302370--8302413	19	2.3	18	85	14	61	18	13	11	56	1.66
8302480--8302926	228	2.0	227	93	3	767	38	7	7	45	1.61
8306368--8306454	45	1.9	45	90	4	140	40	12	8	39	1.73
8307406--8307463	21	2.7	22	78	10	57	37	5	32	24	1.77
8307423--8307462	21	1.9	21	89	0	62	45	5	30	20	1.72
8312068--8312192	22	5.9	21	69	19	64	64	1	3	30	1.18
8312085--8312167	22	3.5	24	72	14	73	63	1	3	31	1.19
8312372--8312418	23	2.0	23	84	15	62	70	0	2	27	0.99
8313619--8314680	106	10.1	105	89	3	1521	22	18	24	34	1.96
8315449--8315525	22	3.5	22	92	0	127	20	14	25	38	1.91
8315921--8316266	171	2.0	172	92	4	581	25	17	19	36	1.94
8316302--8316372	9	8.2	9	72	13	60	0	12	5	81	0.85
8316304--8316373	25	2.7	26	78	14	83	0	12	7	80	0.91
8316307--8316372	16	4.1	16	79	9	55	0	13	6	80	0.89
8316299--8316372	29	2.5	29	78	12	78	0	13	5	81	0.86
8319549--8319593	23	2.0	23	86	0	63	26	28	24	20	1.99
8320100--8320136	19	1.9	20	88	5	58	62	0	35	2	1.10
8325656--8325700	23	2.0	23	86	0	63	26	28	24	20	1.99
8325679--8325982	149	2.0	149	97	1	574	35	20	16	27	1.94
8326355--8326391	19	1.9	20	88	5	58	62	0	35	2	1.10
8328719--8328778	22	2.8	22	80	10	79	73	0	1	25	0.93
8328718--8328781	28	2.3	28	81	10	78	71	0	1	26	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8328718--8328788	21	3.3	21	71	21	58	70	0	2	26	1.01
8329029--8329075	23	2.0	23	84	15	62	70	0	2	27	0.99
8329866--8329938	12	5.8	12	77	7	74	75	0	6	17	1.02
8329891--8329945	4	13.2	4	78	14	58	74	0	5	20	1.01
8330026--8330100	29	2.6	29	74	2	71	70	9	1	18	1.21
8330769--8330872	37	2.8	37	79	2	111	30	13	15	40	1.86
8331055--8331092	20	1.9	20	88	0	58	23	0	5	71	1.07
8344713--8344782	20	3.5	20	74	3	77	17	21	24	37	1.94
8344668--8344762	21	4.6	21	66	7	68	21	17	25	35	1.95
8344697--8344809	41	2.8	40	77	10	129	21	20	22	36	1.95
8346642--8346696	22	2.5	22	87	3	74	50	1	0	47	1.11
8346660--8346729	35	2.0	35	83	5	88	45	0	4	50	1.21
8347303--8347332	6	5.0	6	100	0	60	16	0	66	16	1.25
8366584--8366634	6	8.5	6	97	0	93	33	35	13	17	1.89
8367007--8367051	21	2.1	21	83	0	54	46	31	8	13	1.74
8368271--8368406	42	3.2	42	81	2	166	26	34	3	35	1.74
8381384--8381412	14	2.0	15	93	6	51	62	27	3	6	1.37
8383326--8383405	22	3.6	22	77	5	81	23	22	26	27	2.00
8383333--8383424	42	2.1	42	84	7	114	23	20	27	28	1.99
8383358--8383424	22	3.2	19	76	17	62	23	20	25	29	1.99
8383333--8383424	21	4.3	21	75	9	71	23	20	27	28	1.99
8388260--8388308	19	2.7	17	84	9	53	26	20	28	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8388280--8388489	65	3.2	64	79	12	232	25	18	24	31	1.97
8395389--8395425	12	3.1	12	92	0	56	35	40	10	13	1.80
8395977--8396040	23	2.8	23	74	9	76	26	25	25	23	2.00
8396722--8396753	7	4.6	7	100	0	64	0	28	0	71	0.86
8396766--8396802	19	1.9	19	88	0	56	10	29	35	24	1.89
8396829--8396871	21	2.0	21	86	0	59	16	25	27	30	1.97
8402924--8402987	23	2.8	23	82	0	92	25	25	26	23	2.00
8403003--8403220	103	2.1	103	98	0	418	38	25	11	24	1.89
8403703--8403740	20	1.9	20	88	0	58	10	31	34	23	1.89
8403767--8403809	21	2.0	21	86	0	59	16	20	27	34	1.94
8410700--8410732	14	2.4	14	85	14	50	87	3	9	0	0.63
8410769--8410836	8	8.8	8	88	4	95	85	0	14	0	0.60
8410769--8410853	16	5.3	16	82	14	88	82	2	15	0	0.77
8410769--8410839	24	3.1	23	88	6	108	84	0	15	0	0.62
8410771--8410852	23	3.5	22	78	14	76	81	2	15	0	0.79
8412004--8412189	99	1.9	99	89	0	291	35	24	20	18	1.95
8413886--8413915	2	15.0	2	100	0	60	50	0	0	50	1.00
8415880--8416014	68	2.0	67	85	1	180	35	11	13	40	1.80
8417841--8417901	24	2.5	23	82	15	70	45	4	9	39	1.59
8429312--8429344	2	16.5	2	100	0	66	51	0	0	48	1.00
8429600--8429717	60	2.0	60	83	6	150	30	11	14	44	1.80
8430492--8430609	10	12.3	9	75	12	92	17	27	27	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8430491--8430607	19	6.1	19	81	10	121	18	25	28	27	1.98
8430491--8430565	29	2.5	30	87	8	109	18	25	26	29	1.98
8430520--8430609	9	9.6	9	76	15	58	16	27	30	25	1.97
8430541--8430620	38	2.1	38	83	4	99	17	32	30	20	1.95
8430606--8430648	22	2.0	22	100	0	86	18	48	23	9	1.76
8437822--8437940	10	12.3	9	74	13	85	15	28	27	27	1.97
8437841--8437938	19	5.1	19	79	13	110	16	27	29	26	1.97
8437821--8437892	29	2.4	31	88	9	114	18	27	25	29	1.98
8437822--8437940	39	3.1	37	81	13	125	15	28	27	27	1.97
8437959--8438018	17	3.2	17	79	20	75	18	48	23	10	1.78
8437954--8438011	5	10.8	5	78	14	62	18	51	22	6	1.70
8437937--8438025	22	4.0	22	94	2	142	17	46	23	12	1.82
8438008--8438038	7	4.4	7	100	0	62	16	29	29	25	1.96
8446122--8446286	82	2.0	82	100	0	330	21	24	18	35	1.95
8452157--8452202	23	2.0	24	91	4	76	21	8	30	39	1.84
8456286--8456348	2	32.0	2	90	3	101	49	0	1	49	1.10
8456470--8456535	28	2.4	28	100	0	132	24	15	22	37	1.92
8462857--8462903	23	2.0	23	100	0	94	29	8	17	44	1.78
8465348--8465416	31	2.2	31	87	5	95	43	7	5	43	1.56
8470641--8470768	50	2.5	51	84	5	152	17	32	29	20	1.96
8475026--8475063	18	2.1	18	95	0	67	23	18	31	26	1.97
8476571--8476791	110	2.0	111	94	0	390	45	10	8	36	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8477061--8477188	51	2.5	51	85	2	159	17	28	35	17	1.94
8478211--8478256	8	6.2	8	78	19	55	47	0	2	50	1.13
8478211--8478251	14	2.9	14	100	0	82	43	0	0	56	0.99
8478536--8478594	31	1.9	31	92	0	100	42	5	8	44	1.57
8478618--8479092	22	21.5	22	88	3	645	48	10	0	41	1.37
8487251--8487288	18	2.1	18	85	9	51	31	31	5	31	1.80
8494487--8494949	112	4.1	112	91	0	739	46	14	14	25	1.82
8494819--8495251	182	2.4	183	91	0	697	43	13	15	27	1.84
8495081--8495404	163	2.0	163	88	1	488	44	12	14	29	1.82
8494893--8495583	345	2.0	344	91	0	1132	43	12	15	28	1.83
8496054--8496101	23	2.1	23	92	0	78	37	18	8	35	1.81
8496405--8496455	23	2.3	24	75	25	58	45	1	0	52	1.12
8497047--8497083	15	2.3	17	81	13	51	13	13	18	54	1.71
8498963--8498999	6	6.0	6	90	3	56	16	64	16	2	1.40
8506838--8506868	6	5.2	6	92	0	53	22	0	29	48	1.51
8508195--8508235	7	5.9	7	97	0	73	31	0	43	24	1.54
8510437--8510682	57	4.4	56	66	21	163	57	3	6	32	1.43
8510354--8510697	172	2.0	174	91	5	565	56	4	7	30	1.48
8512195--8513060	105	8.4	105	93	3	1402	23	18	25	32	1.97
8523304--8523337	10	3.4	10	87	0	50	73	0	5	20	1.04
8524480--8524509	8	3.8	8	90	0	51	50	6	0	43	1.28
8524496--8524837	171	2.0	171	94	2	607	56	4	7	30	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8533256--8533371	55	2.1	55	82	3	135	35	9	11	43	1.73
8536945--8537014	32	2.2	33	84	7	99	12	31	32	22	1.92
8537709--8537905	55	3.6	55	90	2	290	29	16	23	30	1.96
8538165--8538201	13	3.0	13	84	11	51	24	0	8	67	1.17
8544479--8544676	55	3.6	56	88	5	287	30	17	21	30	1.96
8545223--8545274	23	2.3	23	90	3	79	25	25	21	28	1.99
8555496--8555546	26	2.1	26	85	10	72	58	0	0	41	0.98
8555502--8555546	24	1.9	24	86	13	67	55	0	0	44	0.99
8558250--8558283	15	2.4	14	90	9	52	8	8	8	73	1.25
8560218--8560428	38	5.6	37	81	10	200	43	3	8	45	1.50

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