genome.fa.s7957.2.7.7.80.10.50.1000.31.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: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8646418

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  31  of  43  ( 5063 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)
6264242--6264303	14	4.3	14	77	6	61	46	14	0	38	1.45
6266276--6266320	20	2.4	19	85	7	56	40	24	17	17	1.91
6266359--6266408	18	2.8	18	100	0	100	42	6	20	32	1.76
6268787--6268940	20	7.7	20	86	2	193	26	21	22	29	1.99
6268787--6269022	40	5.8	40	81	6	208	28	20	22	28	1.98
6268787--6268964	20	8.9	20	83	4	189	26	21	21	30	1.98
6271701--6271738	20	1.9	20	88	0	58	36	21	0	42	1.53
6273023--6273056	17	2.1	16	88	5	50	52	0	0	47	1.00
6280759--6280788	14	2.1	14	93	0	51	40	23	16	20	1.91
6284617--6284647	16	1.9	16	93	0	53	19	12	19	48	1.81
6285987--6286060	37	2.0	36	84	7	96	50	0	2	47	1.15
6293310--6293454	37	3.9	37	87	0	200	43	11	10	35	1.74
6293780--6293825	24	2.0	23	83	12	58	19	6	4	69	1.28
6293903--6293965	22	2.7	23	81	11	83	20	3	1	74	1.04
6293903--6293965	4	16.2	4	73	12	51	20	3	1	74	1.04
6293816--6293978	36	4.5	36	74	18	92	26	3	2	66	1.20
6293903--6293966	11	5.5	11	78	10	65	20	3	1	75	1.03
6293991--6294057	27	2.4	27	75	5	62	22	5	1	70	1.18
6299543--6299727	31	6.0	31	94	1	318	37	20	20	22	1.95
6299904--6299950	23	2.0	24	91	4	78	34	21	0	44	1.52
6300589--6300632	21	2.2	20	87	4	61	15	25	27	31	1.96
6303220--6303402	31	6.0	31	91	5	293	37	20	19	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6303220--6303402	92	2.0	91	90	5	289	37	20	19	22	1.94
6304234--6304277	21	2.2	20	87	4	61	15	25	27	31	1.96
6306880--6307053	31	5.6	31	95	0	312	37	20	20	22	1.95
6307903--6307945	21	2.0	21	86	0	59	16	25	27	30	1.97
6310569--6310753	31	6.0	31	94	1	318	37	20	20	22	1.95
6310931--6310975	22	2.0	23	86	4	65	35	20	0	44	1.51
6311616--6311660	21	2.1	21	87	0	63	15	24	28	31	1.96
6315407--6315494	24	3.7	24	85	0	122	22	19	21	36	1.95
6315577--6315675	35	2.8	35	96	0	189	10	33	26	30	1.89
6318400--6318511	37	3.0	37	94	0	188	41	13	14	31	1.84
6318900--6319017	46	2.6	46	81	10	127	30	2	2	64	1.20
6318900--6319037	45	3.1	44	80	11	138	29	2	2	65	1.19
6318900--6319017	44	3.0	37	77	19	107	30	2	2	64	1.20
6322145--6322225	31	2.6	30	73	11	74	75	2	17	4	1.09
6322149--6322204	13	4.4	13	76	14	55	78	1	14	5	1.00
6322916--6322952	16	2.3	16	95	0	65	18	24	5	51	1.67
6325123--6325234	37	3.0	37	94	0	188	40	14	15	30	1.86
6325367--6325441	40	1.9	39	89	5	116	17	21	10	50	1.76
6325650--6325794	59	2.5	60	84	7	190	33	18	13	33	1.90
6325972--6326095	60	2.1	60	80	6	135	33	14	17	33	1.90
6336451--6336565	5	22.8	5	76	11	101	21	6	0	71	1.13
6338033--6338174	71	2.0	71	98	0	275	38	9	24	26	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6338564--6338690	44	3.2	42	65	28	105	25	0	13	60	1.38
6338602--6338663	32	1.9	32	83	6	81	24	0	11	64	1.26
6338561--6338705	76	1.9	76	90	2	229	26	0	13	58	1.40
6343164--6343310	75	2.0	75	91	0	240	31	21	14	31	1.94
6345446--6345486	2	20.5	2	94	0	73	51	2	0	46	1.14
6345484--6345526	18	2.5	17	85	7	61	67	2	4	25	1.22
6345884--6345969	37	2.3	37	83	0	100	31	13	10	44	1.78
6346530--6347153	105	5.9	105	90	1	921	22	17	26	33	1.96
6347070--6347216	63	2.3	63	90	2	224	21	19	25	33	1.97
6346963--6347321	169	2.1	167	87	3	497	21	18	26	32	1.97
6346858--6347427	274	2.1	273	94	1	989	22	17	26	33	1.96
6347131--6347440	105	2.9	107	84	4	441	21	18	25	34	1.96
6348143--6348181	16	2.5	16	87	4	53	43	12	15	28	1.83
6348177--6348251	36	2.1	36	87	5	107	36	13	25	25	1.92
6348694--6348729	18	2.0	18	94	0	63	41	33	8	16	1.78
6349141--6349188	22	2.2	22	100	0	96	25	14	25	35	1.94
6349141--6349195	22	2.5	22	93	0	83	23	14	25	36	1.93
6349595--6350110	172	3.0	172	94	2	883	25	17	20	37	1.94
6350190--6350223	16	2.1	16	89	10	52	2	14	5	76	1.09
6350144--6350217	7	9.7	7	71	25	53	2	13	5	78	1.03
6352668--6352704	19	1.9	19	89	10	58	67	0	24	8	1.17
6354093--6354145	16	3.3	15	77	15	52	69	0	3	26	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6354395--6354437	18	2.5	17	85	7	61	67	2	4	25	1.22
6354796--6354900	37	2.8	37	83	0	129	30	13	14	41	1.84
6359221--6359303	23	3.7	23	73	9	91	30	19	26	24	1.98
6359208--6359298	43	2.1	43	83	0	110	27	23	26	23	2.00
6365023--6365120	21	4.6	21	85	12	137	14	23	35	26	1.93
6367433--6367581	75	2.0	75	90	0	235	34	18	14	32	1.91
6368083--6368186	48	2.3	45	82	14	117	31	1	14	51	1.53
6369995--6370162	90	1.9	89	91	1	273	45	4	12	37	1.63
6373833--6373927	45	2.1	45	96	1	174	22	11	8	57	1.60
6381000--6381425	212	2.0	214	99	0	838	35	12	18	33	1.89
6384173--6384213	18	2.3	18	87	4	57	29	2	9	58	1.43
6388310--6388381	20	3.6	20	80	10	85	30	16	27	25	1.97
6388252--6388436	94	2.0	95	81	3	221	30	16	23	28	1.96
6388263--6388474	95	2.2	93	80	4	210	31	16	24	27	1.97
6389272--6389310	21	1.9	19	85	10	51	43	7	7	41	1.62
6391000--6391060	21	2.7	23	76	23	67	63	0	3	32	1.10
6392028--6392069	23	1.9	22	90	9	68	73	0	0	26	0.83
6393122--6393170	2	24.5	2	100	0	98	51	0	0	48	1.00
6395193--6395345	59	2.6	60	81	4	175	35	18	4	40	1.72
6395395--6395481	42	2.0	42	86	6	122	37	6	4	50	1.50
6396394--6396488	47	2.0	48	97	2	183	40	18	16	24	1.91
6404748--6404782	18	1.9	18	94	0	61	17	40	28	14	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6410539--6410598	23	2.9	20	87	9	77	21	33	26	18	1.96
6417180--6417211	15	2.1	15	94	0	55	9	25	12	53	1.68
6419125--6419180	16	3.5	16	95	0	103	39	33	19	7	1.79
6419298--6419345	3	15.3	3	87	8	69	31	2	0	66	1.03
6420814--6420893	39	2.0	40	97	2	153	20	20	35	25	1.96
6421129--6421170	22	1.9	22	85	0	57	4	47	4	42	1.45
6423498--6423523	12	2.2	12	100	0	52	57	0	0	42	0.98
6423490--6423527	15	2.5	15	91	0	58	52	0	0	47	1.00
6430843--6431051	104	2.0	104	98	0	400	30	14	23	31	1.95
6432255--6432295	21	2.0	21	95	0	73	36	12	19	31	1.89
6435240--6435277	16	2.4	16	90	0	58	28	15	28	26	1.96
6449002--6449049	18	2.6	19	96	3	89	66	0	4	29	1.10
6450046--6450098	9	5.7	10	74	12	51	69	0	1	28	0.99
6450140--6450189	25	2.0	24	92	3	82	50	6	0	44	1.26
6450170--6450301	38	3.5	38	80	6	162	45	7	4	42	1.53
6461394--6461429	18	2.0	18	88	0	54	5	38	5	50	1.49
6461727--6461775	25	2.0	25	91	0	80	53	10	22	14	1.71
6462985--6463023	20	2.0	20	89	0	60	15	23	33	28	1.95
6465217--6465250	13	2.6	13	90	9	52	47	8	17	26	1.77
6469412--6469451	20	2.0	21	85	5	55	25	17	10	47	1.78
6471587--6471625	20	2.0	20	94	0	69	15	25	33	25	1.95
6476238--6476294	21	2.7	22	82	12	66	56	0	1	42	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6482397--6482464	28	2.4	28	90	0	109	45	5	29	19	1.73
6495975--6496007	14	2.4	14	94	0	57	12	30	6	51	1.63
6496226--6496280	19	2.9	19	91	0	92	25	21	29	23	1.99
6496949--6497028	2	40.0	2	100	0	160	50	0	0	50	1.00
6502867--6502906	21	1.9	21	90	10	64	30	5	7	57	1.48
6504333--6504405	15	4.5	15	72	22	58	41	0	4	54	1.19
6504348--6504489	22	6.3	22	78	4	158	37	0	10	52	1.36
6504370--6504405	14	2.5	14	95	4	63	38	0	0	61	0.96
6504333--6504431	47	2.0	51	86	9	143	40	0	7	52	1.29
6504499--6504691	32	6.7	32	75	22	212	33	0	13	53	1.40

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