genome.fa.s7984.2.7.7.80.10.50.1000.49.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   

This is table  49  of  65  ( 7696 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)
9693684--9693733	23	2.2	23	82	13	59	30	10	0	60	1.30
9695054--9695131	31	2.5	31	85	4	104	24	25	12	37	1.91
9695535--9695604	28	2.5	28	100	0	140	42	30	18	8	1.80
9696471--9696548	31	2.5	31	89	4	113	25	24	14	35	1.93
9696549--9696607	31	1.9	31	92	0	100	30	11	28	28	1.92
9697632--9697659	14	2.0	14	100	0	56	28	50	21	0	1.49
9698368--9698435	31	2.2	30	92	5	118	25	30	13	30	1.93
9698837--9698906	28	2.5	28	100	0	140	42	30	18	8	1.80
9699772--9699849	31	2.5	31	89	4	113	25	24	14	35	1.93
9701657--9701734	31	2.5	31	87	4	113	24	25	14	35	1.93
9702139--9702208	28	2.5	28	100	0	140	42	30	18	8	1.80
9703076--9703153	31	2.5	31	89	4	113	25	24	14	35	1.93
9703154--9703212	31	1.9	31	92	0	100	30	13	28	27	1.94
9704967--9705033	31	2.2	31	88	0	107	22	29	13	34	1.92
9708169--9708247	41	2.0	40	90	7	126	29	2	21	46	1.64
9709231--9709279	23	2.1	23	85	14	66	42	4	2	51	1.32
9711810--9711866	28	2.0	28	83	6	71	50	0	1	47	1.11
9712345--9712445	39	2.6	38	81	10	114	53	7	7	30	1.59
9712791--9712894	34	3.1	34	100	0	208	43	5	17	33	1.73
9714482--9714528	22	2.2	21	82	10	60	46	0	0	53	1.00
9715842--9715919	2	39.0	2	100	0	156	50	0	0	50	1.00
9720919--9720943	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9724271--9724308	14	2.7	14	91	0	58	2	18	50	28	1.61
9724961--9725047	25	3.3	25	65	14	66	26	2	4	66	1.23
9727518--9727638	64	1.9	64	86	1	172	28	19	20	31	1.97
9728302--9728366	13	5.4	12	80	7	62	50	3	3	43	1.33
9728302--9728353	17	3.1	17	78	15	63	51	1	3	42	1.31
9728309--9728372	15	4.1	15	72	22	51	50	3	3	43	1.33
9728344--9728379	18	1.9	19	94	5	65	47	5	0	47	1.25
9728344--9728390	18	2.7	18	83	9	62	48	4	0	46	1.21
9728333--9728465	13	9.0	15	72	15	75	46	6	3	42	1.48
9728333--9728504	90	1.9	89	81	9	208	47	5	3	43	1.44
9728622--9728705	19	4.5	19	77	11	84	42	0	29	27	1.56
9729107--9729162	7	8.0	7	79	0	58	35	44	0	19	1.51
9729107--9729160	21	2.6	21	82	8	74	37	44	0	18	1.50
9729183--9729238	26	2.2	26	83	0	67	48	7	8	35	1.62
9729312--9729386	7	10.7	7	80	0	87	48	33	0	18	1.49
9729712--9729777	19	3.4	20	83	6	73	48	6	7	37	1.56
9729706--9729777	20	3.5	20	81	7	83	48	5	6	38	1.53
9729847--9729877	7	4.4	7	95	0	53	48	29	0	22	1.51
9729851--9729904	7	7.7	7	87	0	54	46	31	0	22	1.52
9730899--9730939	17	2.4	17	92	8	66	12	26	31	29	1.92
9734518--9734546	12	2.4	12	100	0	58	41	0	0	58	0.98
9734616--9734674	11	5.3	11	73	15	50	35	1	1	61	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9734614--9734675	15	4.0	15	79	12	63	35	1	1	61	1.16
9734616--9734672	7	8.4	7	73	19	50	35	1	1	61	1.17
9734620--9734675	26	2.2	26	83	6	69	37	1	1	58	1.19
9734900--9734938	21	1.9	20	85	15	53	17	12	2	66	1.35
9736686--9736722	15	2.4	15	90	4	56	51	8	2	37	1.46
9737091--9737149	23	2.4	25	80	5	77	38	1	0	59	1.08
9737188--9737225	17	2.4	17	91	8	62	50	7	0	42	1.31
9737300--9737364	7	9.3	7	78	6	69	49	32	0	18	1.48
9737727--9737766	19	2.1	19	95	0	71	50	7	0	42	1.30
9737715--9737753	15	2.6	15	95	0	69	51	7	0	41	1.31
9737755--9737848	48	1.9	49	91	2	154	50	8	8	32	1.63
9737841--9737933	21	4.4	20	85	5	87	48	30	0	21	1.50
9737861--9737933	7	10.4	7	81	0	83	45	32	0	21	1.53
9736801--9739076	566	3.9	575	88	7	2940	43	12	8	35	1.74
9738245--9738271	13	2.1	13	100	0	54	44	0	0	55	0.99
9738275--9738335	19	3.2	20	76	17	60	45	8	6	39	1.60
9738300--9738346	15	3.3	13	83	16	58	51	8	0	40	1.33
9738295--9738337	17	2.5	17	92	3	68	48	6	2	41	1.43
9738421--9738506	7	12.3	7	82	0	100	48	32	0	18	1.48
9738335--9738438	48	2.1	49	83	3	129	49	12	7	30	1.69
9738421--9738502	28	2.9	28	88	0	119	48	32	0	18	1.48
9738850--9738951	35	2.8	36	82	8	118	47	6	3	42	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9738876--9738942	2	33.0	2	83	8	82	49	4	1	44	1.31
9738892--9738959	35	1.9	35	87	3	100	51	4	1	42	1.31
9739026--9739076	7	7.3	7	90	0	84	47	37	0	15	1.46
9737152--9739615	569	4.3	563	80	11	2853	43	12	8	35	1.73
9739450--9739485	13	2.6	14	86	13	56	47	11	0	41	1.39
9739463--9739502	21	1.9	21	94	0	71	50	7	0	42	1.30
9739450--9739502	13	4.3	13	75	22	51	49	9	0	41	1.35
9739445--9739487	15	2.8	15	85	3	59	46	9	2	41	1.48
9739577--9739697	7	17.3	7	78	0	89	51	29	0	19	1.47
9739491--9739596	49	2.2	49	82	3	124	49	12	6	32	1.66
9739577--9739697	21	5.8	21	88	1	136	51	29	0	19	1.47
9739863--9739932	14	5.7	14	68	30	61	51	4	0	44	1.21
9739861--9739933	23	3.1	23	98	2	137	49	4	0	46	1.21
9740201--9740255	16	3.4	16	89	0	83	40	14	25	20	1.90
9743855--9743916	31	2.0	31	90	0	97	38	11	14	35	1.82
9744893--9745032	70	2.0	70	94	0	244	47	15	10	27	1.76
9746631--9747240	242	2.5	242	86	3	816	28	23	11	36	1.89
9746677--9747240	81	7.0	81	87	2	758	28	22	11	37	1.90
9747191--9747446	68	3.8	68	94	0	431	26	24	16	32	1.96
9747656--9747800	55	2.7	55	86	1	202	30	24	12	32	1.92
9748241--9748292	22	2.5	22	81	6	63	30	17	17	34	1.93
9748178--9748364	95	2.0	95	84	4	243	24	19	18	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9748600--9748686	41	2.1	41	95	0	156	45	21	3	28	1.68
9759788--9759846	26	2.3	26	91	2	93	35	27	13	23	1.92
9761156--9761204	7	7.0	7	80	15	57	44	0	0	55	0.99
9761157--9761200	16	3.0	15	87	9	56	45	0	0	54	0.99
9761227--9761265	20	2.0	20	89	0	60	41	2	2	53	1.28
9761451--9761485	17	2.0	17	88	5	52	60	2	0	37	1.12
9766663--9766702	21	1.9	21	89	0	62	52	7	10	30	1.62
9770486--9770552	23	2.9	23	84	8	91	25	22	20	31	1.98
9770466--9770571	46	2.4	45	85	9	137	23	25	20	30	1.99
9770466--9770573	23	4.9	21	80	10	78	23	26	20	29	1.99
9773174--9773224	18	2.8	18	100	0	102	21	41	25	11	1.87
9775399--9775464	23	2.9	23	81	0	87	30	22	27	19	1.98
9778794--9778819	2	13.0	2	100	0	52	50	0	0	50	1.00
9780261--9780307	23	2.0	23	83	8	58	25	19	2	53	1.56
9780579--9780642	23	2.8	23	80	0	83	32	25	26	15	1.95
9781104--9781171	24	2.9	24	91	6	104	45	20	2	30	1.66
9780887--9781326	232	1.9	232	99	0	862	35	19	7	38	1.79
9782017--9782070	19	2.9	19	81	8	58	55	16	0	27	1.42
9786199--9786232	16	2.1	17	88	5	52	20	5	29	44	1.75
9787713--9787737	3	8.3	3	100	0	50	68	0	0	32	0.90
9788104--9788525	43	9.8	43	76	7	304	27	17	24	30	1.97
9788104--9788396	84	3.4	86	75	9	319	28	17	24	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9788122--9788483	170	2.1	172	97	2	692	28	16	25	29	1.97
9788104--9788546	86	5.2	85	75	9	353	26	16	24	32	1.96
9788104--9788590	43	11.3	43	75	4	273	26	17	24	32	1.96
9788621--9788743	44	2.8	44	82	2	149	29	17	21	31	1.96
9788621--9788784	44	3.8	43	77	7	143	30	17	18	32	1.95
9789042--9789099	21	2.6	23	78	10	75	0	37	18	43	1.51
9794049--9794116	33	2.2	31	81	7	75	33	14	13	38	1.85
9795710--9795749	21	1.9	21	100	0	80	37	15	15	32	1.88
9796361--9796439	42	1.9	41	86	2	113	30	22	17	29	1.97
9796468--9796687	42	5.3	41	73	11	180	23	23	20	32	1.98

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