genome.fa.s8094.2.7.7.80.10.50.1000.39.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   

This is table  39  of  43  ( 5090 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)
8420135--8420192	17	3.1	17	69	21	53	48	8	24	18	1.76
8420261--8420358	42	2.4	42	84	6	121	29	22	22	25	1.99
8420694--8420725	14	2.3	14	100	0	64	9	12	6	71	1.29
8443511--8443715	102	2.0	103	88	4	308	30	25	17	26	1.97
8451711--8451803	39	2.4	39	75	7	91	51	10	20	17	1.74
8454467--8454503	6	6.2	6	100	0	74	0	16	48	35	1.46
8460805--8460867	6	10.5	6	98	0	117	33	0	14	52	1.42
8461288--8461793	134	3.7	133	81	6	527	31	9	14	44	1.77
8465186--8465246	15	4.2	14	80	19	72	72	0	11	16	1.13
8465186--8465253	29	2.4	28	87	4	93	73	0	11	14	1.10
8466921--8467011	13	6.9	13	68	16	53	43	4	4	47	1.43
8474116--8474152	11	2.9	13	77	22	51	78	0	16	5	0.93
8474116--8474155	14	3.1	14	75	17	50	75	0	17	7	1.03
8474185--8474243	15	4.2	14	77	16	68	74	0	10	15	1.06
8474189--8474250	27	2.3	28	83	5	83	75	0	11	12	1.04
8474191--8474251	28	2.2	28	88	2	88	78	0	9	11	0.96
8477768--8477825	17	3.4	16	73	15	53	25	8	1	63	1.32
8477923--8477956	16	2.1	16	100	0	68	20	5	0	73	1.04
8477972--8478009	19	2.0	19	85	10	51	21	5	5	68	1.29
8478036--8478102	22	2.8	23	76	10	64	7	8	4	79	1.06
8480587--8480637	24	2.2	24	83	10	63	60	0	39	0	0.97
8480602--8480637	12	3.0	12	100	0	72	58	0	41	0	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8481819--8481865	23	2.0	23	100	0	94	36	8	17	38	1.80
8486991--8487102	35	3.2	34	85	7	145	43	20	0	35	1.52
8488111--8488222	35	3.2	35	83	9	140	37	0	19	41	1.58
8491711--8491774	15	4.1	15	77	18	60	37	1	0	60	1.06
8491714--8491781	17	4.2	17	75	19	65	36	1	0	61	1.05
8491687--8491774	28	3.1	28	75	15	81	38	1	0	60	1.04
8491714--8491803	13	7.5	13	68	22	54	34	1	1	63	1.09
8491750--8491809	23	2.5	24	83	10	77	33	1	1	63	1.14
8491730--8491809	13	6.5	12	74	18	67	33	1	1	63	1.10
8492667--8492695	14	2.1	14	100	0	58	44	13	6	34	1.71
8494297--8494459	66	2.4	68	78	9	177	43	6	14	34	1.72
8495377--8495555	98	1.8	98	85	4	254	35	21	11	31	1.89
8496597--8496637	20	2.0	20	100	0	82	24	41	24	9	1.85
8497539--8497602	31	2.1	31	96	0	119	31	1	26	40	1.65
8498597--8498636	21	1.9	21	90	10	64	55	5	7	32	1.50
8502451--8502528	22	3.6	21	81	10	95	17	33	23	25	1.96
8502496--8502538	20	2.2	20	83	8	52	18	34	27	18	1.95
8505129--8505168	20	2.0	20	95	0	71	22	40	27	10	1.86
8506590--8506642	20	2.7	20	84	0	61	35	9	20	33	1.85
8509363--8509401	20	2.0	20	84	0	51	38	15	15	30	1.88
8510431--8510526	33	2.9	33	80	0	93	19	6	25	48	1.72
8512351--8512391	19	2.2	19	95	0	73	46	4	7	41	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8514334--8514371	19	2.0	19	100	0	76	21	0	5	73	1.02
8514759--8514813	23	2.5	21	85	5	74	34	16	20	29	1.94
8522178--8522259	36	2.3	36	93	2	139	37	2	20	39	1.66
8522870--8522894	13	1.9	13	100	0	50	72	0	8	20	1.10
8523558--8523613	6	9.2	6	74	18	53	75	0	1	23	0.90
8523558--8523605	19	2.7	17	76	17	53	75	0	2	22	0.91
8523557--8523620	17	3.9	17	71	19	55	71	1	1	25	1.03
8524463--8524494	16	2.0	16	100	0	64	68	0	0	31	0.90
8525784--8525840	21	2.8	19	75	15	51	52	1	1	43	1.21
8525861--8525911	23	2.0	25	85	14	70	50	5	3	39	1.45
8526631--8526824	3	61.0	3	68	21	60	56	4	4	34	1.39
8526631--8526824	10	20.3	9	64	22	60	56	4	4	34	1.39
8526628--8526726	48	2.1	49	83	11	125	59	2	3	35	1.24
8526632--8526719	14	6.6	14	70	18	64	59	2	3	35	1.27
8526755--8526810	22	2.4	24	77	20	64	58	8	0	32	1.29
8529529--8529825	157	1.9	157	92	0	504	46	13	6	34	1.67
8532094--8532143	21	2.4	21	86	6	66	40	10	20	30	1.85
8532807--8532852	24	2.0	23	86	4	65	26	8	6	58	1.52
8539069--8539118	21	2.4	21	86	6	66	40	10	20	30	1.85
8543490--8543525	18	2.1	18	89	5	56	66	2	5	25	1.27
8544679--8545128	105	4.3	105	92	2	712	21	18	27	32	1.97
8545696--8546182	65	7.1	65	73	12	300	38	11	19	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8545864--8546126	36	7.4	36	78	10	265	40	13	19	26	1.89
8545813--8546192	138	2.8	137	86	1	501	39	12	18	28	1.88
8545900--8546084	102	1.8	102	90	2	300	40	14	17	28	1.88
8547092--8547135	22	2.0	22	91	8	72	27	11	22	38	1.88
8547517--8547574	10	5.6	10	86	13	82	0	10	3	86	0.69
8547507--8547583	21	3.8	20	75	17	61	0	14	5	80	0.87
8547518--8547574	1	57.0	1	76	0	51	0	8	3	87	0.64
8548759--8548797	8	5.0	8	84	6	53	58	12	17	10	1.61
8548759--8548797	15	2.5	15	87	4	51	58	12	17	10	1.61
8551849--8551945	18	5.6	17	69	25	62	63	2	4	29	1.24
8551839--8551957	53	2.3	48	76	20	116	62	3	3	31	1.28
8566169--8566259	3	28.3	3	76	10	74	34	3	3	59	1.30
8566161--8566249	33	2.7	33	75	6	90	33	3	4	58	1.35
8568391--8568417	4	6.8	4	100	0	54	22	0	0	77	0.76
8575823--8576204	198	1.9	196	86	3	534	45	10	6	37	1.65
8576069--8576205	33	4.2	32	70	11	91	48	8	5	37	1.57
8578228--8578375	3	49.7	3	91	1	208	65	5	0	29	1.15
8578563--8579166	134	4.5	134	83	1	719	26	16	30	26	1.96
8579195--8579320	32	3.8	31	73	15	110	39	12	19	28	1.88
8581132--8581296	75	2.3	71	85	9	208	34	16	22	26	1.95
8581720--8582085	79	4.6	79	90	1	563	36	12	21	28	1.91
8581811--8582085	34	6.9	42	67	28	147	34	12	22	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8582487--8582543	29	2.0	29	86	6	80	40	12	24	22	1.88
8583885--8583930	18	2.6	18	89	6	67	32	26	23	17	1.97
8585448--8585481	11	3.1	11	91	0	50	20	29	5	44	1.75
8585701--8585750	16	2.8	18	82	11	59	30	8	10	52	1.64
8589360--8589414	28	1.9	29	85	3	76	76	5	10	7	1.15
8589395--8589438	23	1.9	23	85	0	61	72	9	6	11	1.27
8589390--8589457	32	2.1	32	86	0	91	69	8	11	10	1.38
8590890--8590929	21	1.9	21	89	0	62	25	25	10	40	1.86
8600567--8600602	15	2.4	15	90	0	54	44	2	5	47	1.41
8603150--8603351	103	2.0	104	89	1	316	23	19	16	40	1.91
8605222--8605453	43	5.4	43	82	4	254	28	19	21	30	1.98
8605222--8605453	85	2.7	85	83	2	288	28	19	21	30	1.98
8606531--8606603	30	2.4	30	79	4	85	42	9	16	31	1.80
8608495--8608648	45	3.4	45	80	2	175	40	6	21	31	1.79
8613892--8613920	12	2.3	13	94	5	51	31	0	10	58	1.31
8619275--8619324	23	2.2	23	100	0	100	44	22	4	30	1.71
8626835--8626883	22	2.2	22	88	0	80	30	14	12	42	1.82
8632816--8632853	15	2.4	17	86	8	53	31	21	2	44	1.66
8637665--8637791	32	3.8	33	84	10	152	55	3	13	27	1.56
8637665--8637791	68	1.9	68	84	12	174	55	3	13	27	1.56
8637795--8638006	109	2.0	109	86	7	299	41	15	18	25	1.89
8639303--8639537	120	2.0	120	82	2	292	31	14	20	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8640458--8640518	22	2.8	21	78	7	68	32	14	27	24	1.95
8640411--8640610	96	2.1	94	88	1	292	33	17	24	26	1.96
8640933--8641208	54	5.1	54	85	3	358	29	19	19	31	1.96
8641761--8642011	134	1.9	134	86	1	360	31	15	18	33	1.93
8646388--8646457	31	2.4	28	83	9	77	64	5	10	20	1.44
8646623--8646774	32	4.6	32	87	7	198	54	2	15	27	1.54
8647578--8647611	2	17.0	2	100	0	68	50	0	0	50	1.00
8656282--8656470	80	2.4	80	82	5	222	27	21	12	39	1.89
8657502--8657533	17	1.9	16	93	6	55	40	12	0	46	1.42
8657498--8657539	17	2.6	16	78	17	50	40	9	4	45	1.58

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