genome.fa.s851.2.7.7.80.10.50.1000.28.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: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7304151

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   

This is table  28  of  31  ( 3618 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)
6565531--6565600	31	2.3	31	97	0	131	18	18	8	54	1.68
6570552--6570577	12	2.2	12	100	0	52	57	0	42	0	0.98
6571243--6571267	2	12.5	2	100	0	50	48	0	0	52	1.00
6580795--6580957	64	2.5	64	76	9	154	33	19	20	26	1.97
6581718--6581935	103	2.1	103	99	0	427	25	13	24	37	1.92
6581942--6582019	23	3.3	23	78	5	86	24	19	23	33	1.97
6586259--6586421	64	2.5	64	76	7	152	33	20	20	26	1.97
6587207--6587432	103	2.2	103	91	1	382	25	12	23	38	1.90
6587434--6587508	23	3.3	23	87	3	100	24	20	24	32	1.98
6590144--6590181	19	2.0	19	85	10	51	39	0	0	60	0.97
6595942--6596077	59	2.3	59	81	5	150	38	8	9	43	1.67
6597715--6597793	34	2.4	34	85	8	101	37	0	1	60	1.05
6599720--6599757	13	3.0	13	88	3	60	44	0	0	55	0.99
6600542--6600623	18	4.6	19	82	10	95	39	4	26	29	1.77
6600941--6601452	252	2.0	256	92	3	856	41	18	13	27	1.87
6602158--6602235	39	2.0	39	92	0	129	29	12	24	33	1.92
6602474--6602592	30	3.9	30	73	3	105	57	2	4	36	1.32
6602485--6602718	129	1.8	129	80	6	285	53	3	5	37	1.41
6602647--6602728	32	2.8	27	78	15	76	52	0	6	41	1.26
6602674--6602747	30	2.6	29	85	10	100	52	0	2	44	1.15
6602627--6602759	59	2.1	63	78	14	143	54	0	6	39	1.31
6602627--6602759	61	2.1	63	79	19	147	54	0	6	39	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6602752--6602794	18	2.4	18	84	0	59	41	0	11	46	1.40
6609585--6609662	32	2.4	32	80	4	86	28	26	29	15	1.96
6611650--6611709	30	2.0	30	83	0	75	38	1	23	36	1.65
6612854--6612881	14	2.0	14	100	0	56	35	0	28	35	1.58
6613621--6613843	76	2.9	76	87	4	297	33	10	21	34	1.87
6613621--6613843	77	2.9	76	86	3	295	33	10	21	34	1.87
6613796--6613874	37	2.1	37	85	0	104	37	15	20	26	1.92
6614074--6614235	67	2.3	70	84	11	217	34	12	10	42	1.77
6614317--6614815	200	2.5	200	81	5	524	36	10	11	40	1.77
6614317--6614815	99	4.9	98	80	6	455	36	10	11	40	1.77
6615217--6615802	78	7.4	76	76	11	477	39	17	7	36	1.77
6615208--6615724	153	3.3	151	78	9	482	39	17	7	36	1.77
6615208--6615802	312	1.9	317	83	5	776	39	17	7	36	1.77
6617978--6618004	13	2.1	13	100	0	54	37	14	14	33	1.88
6619576--6619625	3	16.3	3	80	12	57	34	0	2	64	1.05
6622850--6623626	344	2.3	343	84	3	1010	35	15	13	35	1.87
6625490--6625533	17	2.6	17	92	0	70	70	2	0	27	0.99
6625591--6625618	2	14.0	2	100	0	56	50	0	0	50	1.00
6625932--6625969	2	19.0	2	100	0	76	50	0	0	50	1.00
6628259--6628354	20	4.8	21	79	7	110	43	20	18	16	1.88
6628259--6628354	40	2.4	41	85	5	133	43	20	18	16	1.88
6628380--6628469	40	2.2	40	86	0	126	32	21	12	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6628402--6628469	20	3.4	20	80	8	84	30	22	13	33	1.92
6629396--6629449	24	2.2	24	90	0	81	22	18	18	40	1.91
6630408--6630447	20	2.0	20	100	0	80	20	5	15	60	1.53
6631737--6631771	12	2.9	12	86	0	52	48	25	5	20	1.71
6632369--6632410	13	3.2	13	80	6	57	57	16	0	26	1.40
6632374--6632549	64	2.8	64	94	0	298	52	16	2	27	1.57
6633897--6634008	21	5.4	20	72	12	75	25	20	33	20	1.97
6634362--6634405	21	2.1	21	83	8	54	31	38	11	18	1.86
6634422--6634471	21	2.4	21	79	0	64	34	30	12	24	1.91
6634586--6634661	21	3.6	21	87	0	107	14	14	38	32	1.87
6638655--6638711	29	2.0	29	89	0	87	31	19	10	38	1.86
6648193--6648425	117	2.0	117	81	5	274	26	24	15	33	1.95
6648563--6648664	34	2.9	36	88	5	154	45	13	12	28	1.81
6649056--6649098	18	2.5	17	85	7	61	25	4	2	67	1.22
6649594--6649631	2	19.0	2	94	0	67	47	0	0	52	1.00
6649668--6649707	20	1.9	22	85	10	57	17	10	0	72	1.11
6652218--6652256	8	5.0	8	84	6	53	10	17	12	58	1.61
6654127--6654172	22	2.1	22	91	0	74	39	30	8	21	1.84
6655337--6655408	37	1.9	37	82	0	90	26	20	11	41	1.86
6656086--6656831	106	7.0	106	90	0	1118	34	24	17	23	1.96
6657566--6657667	34	2.9	36	91	5	172	44	13	14	27	1.83
6658041--6658083	18	2.5	17	85	7	61	25	4	2	67	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6658250--6658281	16	2.0	16	93	0	55	46	3	0	50	1.17
6676938--6677019	42	2.0	42	92	0	137	17	10	19	52	1.73
6677242--6677291	21	2.3	23	86	10	70	46	0	0	54	1.00
6677254--6677299	10	4.5	10	78	21	51	41	0	0	58	0.98
6677226--6677287	23	2.6	25	78	19	69	50	0	0	50	1.00
6677242--6677297	22	2.6	22	86	8	71	46	0	0	53	1.00
6677253--6677412	28	5.4	30	70	24	110	46	0	1	51	1.13
6677253--6677332	32	2.5	32	80	14	92	47	1	0	51	1.08
6677261--6677428	29	5.7	30	70	19	111	47	1	1	50	1.16
6677430--6677474	23	2.0	23	86	0	63	51	2	0	46	1.13
6677570--6677609	20	2.0	20	85	9	55	60	0	0	40	0.97
6677827--6677877	15	3.4	15	86	0	75	37	15	5	41	1.72
6677813--6677884	30	2.4	29	88	2	108	33	16	5	44	1.71
6677813--6677884	15	4.9	15	79	1	74	33	16	5	44	1.71
6678041--6678085	21	2.1	21	95	0	81	33	17	13	35	1.89
6688773--6688831	31	1.9	30	89	3	91	25	6	8	59	1.51
6692528--6692573	21	2.3	20	82	10	58	10	10	4	73	1.22
6698396--6698438	20	2.2	20	95	0	77	25	18	16	39	1.91
6703482--6703636	63	2.5	62	81	8	161	32	22	20	25	1.98
6704198--6704238	20	2.0	20	90	0	64	26	14	26	31	1.95
6710317--6710342	13	2.0	13	100	0	52	38	0	0	61	0.96
6710309--6710344	15	2.4	15	85	0	54	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6710716--6710896	89	2.0	90	98	1	355	24	14	19	41	1.89
6714752--6714863	56	2.0	56	100	0	224	41	26	7	25	1.81
6719457--6719487	4	7.8	4	100	0	62	74	0	0	25	0.82
6719949--6719973	2	12.5	2	100	0	50	48	0	0	52	1.00
6719952--6720128	82	2.2	81	95	2	327	50	3	2	42	1.33
6730706--6730819	21	5.4	21	68	19	85	29	5	2	62	1.31
6730704--6730838	42	3.2	41	84	8	182	29	5	2	62	1.32
6740102--6740151	24	2.1	24	85	7	66	24	2	14	60	1.45
6744112--6744159	23	2.1	23	88	0	69	35	10	18	35	1.85
6747463--6748208	177	4.1	182	87	10	1027	32	16	15	34	1.91
6748007--6748038	15	2.1	15	100	0	64	18	6	34	40	1.76
6747827--6748208	198	1.9	194	91	4	624	31	15	15	36	1.90
6749403--6749450	3	16.0	3	82	0	60	25	33	4	37	1.75
6749404--6749462	12	4.9	12	93	0	82	22	33	6	37	1.80
6749404--6749466	6	10.5	6	85	0	63	22	33	6	38	1.79
6751126--6751161	18	2.0	18	94	0	63	25	16	19	38	1.92
6750863--6751685	197	4.2	196	88	6	1188	31	18	15	34	1.92
6751917--6751977	19	3.3	18	88	2	59	52	11	1	34	1.47
6751929--6751977	19	2.6	19	96	0	89	55	10	2	32	1.45
6753762--6753827	33	2.0	33	87	0	96	22	45	0	31	1.53
6753859--6753917	21	2.8	21	84	0	82	18	27	10	44	1.82
6756128--6756174	20	2.4	19	82	10	67	19	17	10	53	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6756309--6756355	20	2.4	19	82	10	67	19	17	10	53	1.72
6756095--6756568	181	2.6	181	90	0	714	27	16	13	42	1.86
6756668--6756743	37	2.1	37	87	0	107	35	13	7	43	1.73
6759938--6760022	34	2.5	34	96	0	152	38	0	0	61	0.96
6761827--6761881	27	2.0	28	89	7	85	38	5	7	49	1.54
6762231--6762278	15	3.2	14	80	11	51	52	0	0	47	1.00
6762608--6762632	2	12.5	2	100	0	50	48	0	0	52	1.00
6762664--6762764	21	4.9	21	70	15	86	51	0	0	46	1.14
6762660--6762764	41	2.6	41	80	11	126	50	0	0	47	1.14
6762667--6762762	42	2.4	40	84	10	124	53	1	1	44	1.14

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