genome.fa.s8016.2.7.7.80.10.50.1000.15.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: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5469637

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   

This is table  15  of  25  ( 2971 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)
3167757--3167825	28	2.6	28	84	11	83	28	1	4	65	1.21
3167757--3167844	28	3.4	26	77	19	78	29	1	4	64	1.20
3167826--3167872	23	2.0	24	87	4	69	31	0	2	65	1.04
3167996--3168047	15	3.4	16	75	17	56	32	3	0	63	1.12
3169275--3169299	12	2.1	12	100	0	50	20	16	16	48	1.82
3176080--3176129	24	2.1	24	88	7	75	28	38	2	32	1.68
3179611--3179660	24	2.1	24	85	7	66	28	36	2	34	1.69
3208236--3208292	21	2.8	21	94	2	98	49	8	15	26	1.74
3221981--3222085	55	1.9	55	82	7	133	40	10	11	38	1.76
3226781--3226862	41	2.0	41	100	0	164	24	24	21	29	1.99
3230644--3230737	31	3.0	31	77	9	102	34	21	19	25	1.96
3234136--3234195	26	2.7	20	73	26	66	25	31	20	23	1.98
3234141--3234193	26	2.0	26	100	0	106	26	32	18	22	1.97
3239118--3239212	48	2.0	49	97	2	183	26	8	22	43	1.81
3244357--3244462	36	2.8	37	88	5	151	29	11	6	52	1.62
3244641--3244737	47	2.1	47	100	0	194	39	10	10	40	1.73
3244786--3244862	31	2.5	31	100	0	154	55	11	6	25	1.59
3249836--3249885	22	2.3	21	82	3	64	56	0	2	42	1.11
3250862--3250895	2	17.0	2	100	0	68	50	0	0	50	1.00
3251445--3251486	22	2.0	21	86	13	59	28	0	7	64	1.20
3255108--3255170	19	3.3	19	97	0	117	34	30	15	19	1.93
3255043--3255206	85	1.9	81	83	10	204	32	25	16	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3260990--3261084	23	4.4	21	77	9	77	28	26	23	22	1.99
3261009--3261087	23	3.6	23	77	8	83	26	25	26	21	1.99
3263001--3263030	15	1.9	16	93	6	53	26	10	16	46	1.78
3263178--3263205	2	14.0	2	100	0	56	50	0	0	50	1.00
3263699--3263750	19	2.7	19	93	0	95	28	30	17	23	1.97
3263641--3263840	64	3.1	63	73	13	183	29	25	17	28	1.97
3272637--3272738	51	2.0	51	90	3	161	39	26	13	20	1.90
3277467--3277541	23	3.3	23	71	14	84	24	21	24	30	1.99
3277471--3277567	44	2.2	44	96	0	176	22	19	23	34	1.97
3297374--3297456	40	2.1	40	93	4	141	25	15	25	33	1.95
3301971--3302228	110	2.4	108	84	2	322	22	18	24	34	1.96
3303297--3303351	8	6.5	8	80	12	65	1	16	1	80	0.90
3303297--3303353	23	2.4	23	77	13	62	1	17	1	78	0.91
3303390--3303423	16	2.1	17	88	5	52	0	17	0	82	0.67
3311379--3311436	23	2.5	23	76	15	57	74	1	12	12	1.16
3312184--3312240	13	3.9	15	86	13	75	3	12	31	52	1.55
3313746--3313825	28	3.1	24	80	10	79	73	1	8	16	1.14
3313746--3313825	5	16.6	5	72	14	53	73	1	8	16	1.14
3313743--3313828	9	9.2	9	72	19	61	74	1	8	16	1.11
3313909--3313958	2	25.0	2	100	0	100	50	0	0	50	1.00
3314082--3314150	25	2.7	25	78	10	77	69	2	4	23	1.20
3314131--3314192	2	33.5	2	84	15	89	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3314261--3314324	6	11.5	6	80	12	57	68	3	1	26	1.13
3314234--3314272	17	2.4	16	84	16	53	56	0	2	41	1.13
3314267--3314322	11	5.2	11	79	12	71	71	3	0	25	1.02
3317689--3317870	95	1.9	95	87	2	267	30	19	18	31	1.96
3320841--3320881	15	2.8	14	85	3	55	53	4	0	41	1.22
3330514--3330570	28	2.1	28	83	3	71	45	17	8	28	1.78
3337672--3337707	18	1.9	18	88	5	54	83	2	2	11	0.86
3338521--3338549	2	14.5	2	100	0	58	48	0	0	51	1.00
3343736--3343808	38	1.9	38	97	2	139	12	10	36	39	1.78
3344351--3344398	18	2.8	17	87	3	60	29	25	8	37	1.85
3346374--3346411	16	2.3	17	86	13	53	52	7	0	39	1.31
3349382--3349445	18	3.6	18	73	23	62	53	28	14	4	1.60
3349393--3349447	19	3.0	19	70	20	53	54	27	14	3	1.57
3358521--3358562	20	2.1	20	86	0	57	50	2	2	45	1.27
3360957--3361218	44	6.0	44	87	0	380	40	9	24	25	1.86
3364245--3364315	24	2.9	24	71	24	60	73	0	4	22	1.01
3364223--3364350	18	6.5	19	69	16	73	71	0	3	25	1.06
3364307--3364333	2	13.5	2	100	0	54	51	0	0	48	1.00
3364317--3364428	38	2.8	38	80	11	109	63	3	2	30	1.25
3364968--3365110	37	3.9	37	89	3	218	33	13	13	39	1.84
3364968--3365112	72	2.0	73	87	2	211	33	13	13	38	1.85
3365547--3365629	34	2.4	35	93	2	141	32	10	16	39	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3365701--3365769	21	3.5	21	68	24	69	40	13	20	26	1.88
3365682--3365934	73	3.6	73	71	12	247	39	14	20	26	1.90
3365682--3365934	36	7.1	37	73	12	226	39	14	20	26	1.90
3367760--3367814	11	5.0	11	78	12	60	7	16	0	76	1.00
3367776--3367801	10	2.6	10	100	0	52	7	11	0	80	0.89
3367763--3367828	21	3.2	20	75	10	62	4	19	0	75	0.97
3371004--3371183	64	2.8	64	81	5	195	29	17	22	30	1.97
3371194--3371231	20	1.9	20	100	0	76	21	15	31	31	1.94
3376666--3376705	21	1.9	21	85	10	55	35	10	2	52	1.48
3377931--3378148	110	2.0	110	91	3	359	35	8	26	30	1.86
3380921--3380981	23	2.8	21	77	15	61	22	22	31	22	1.99
3392280--3392351	13	5.2	13	74	25	60	31	0	0	68	0.90
3394095--3394137	21	2.0	21	82	8	52	20	4	2	72	1.14
3394121--3394148	10	2.8	10	100	0	56	17	7	0	75	1.03
3394126--3394176	24	2.1	24	82	7	59	15	7	3	72	1.23
3398092--3400043	106	18.6	106	89	4	2865	34	25	18	22	1.96
3398092--3400043	317	6.2	318	90	4	2917	34	25	18	22	1.96
3400214--3400365	80	1.9	80	91	2	252	28	25	22	23	1.99
3400704--3400769	17	3.9	17	79	11	66	31	0	0	68	0.90
3400732--3400776	16	2.6	17	86	6	56	28	0	0	71	0.87
3400699--3400761	25	2.6	25	80	16	62	34	0	0	65	0.93
3400705--3400776	18	4.1	17	76	15	58	29	0	0	70	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3400716--3400774	10	5.7	10	75	18	50	28	0	0	71	0.87
3400716--3400777	17	3.6	17	73	2	61	27	0	0	72	0.85
3402542--3402569	10	2.8	10	100	0	56	17	7	0	75	1.03
3402512--3402571	26	2.3	26	80	11	70	20	5	1	73	1.11
3402535--3402598	24	2.6	24	81	13	69	15	6	3	75	1.14
3402512--3402570	15	4.1	15	75	16	54	20	5	1	72	1.12
3410723--3410792	27	2.6	27	86	0	95	22	20	28	28	1.98
3414653--3414693	21	2.0	21	90	0	64	36	9	9	43	1.71
3422380--3422451	22	3.3	22	94	0	126	22	19	27	30	1.98
3422848--3422880	5	6.6	5	100	0	66	39	0	21	39	1.53
3431740--3431782	20	2.2	20	86	0	59	32	13	20	32	1.92
3432953--3433042	18	4.8	18	80	10	99	22	23	27	26	1.99
3433410--3433446	5	7.4	5	100	0	74	40	0	18	40	1.51
3440962--3441018	25	2.3	25	96	0	105	36	7	14	42	1.72
3474962--3475075	3	38.7	3	92	3	196	35	0	0	64	0.93
3475538--3475564	14	1.9	14	100	0	54	51	14	33	0	1.43
3475856--3475882	13	2.1	13	100	0	54	0	33	59	7	1.25
3476503--3476547	22	2.2	20	84	8	54	37	2	4	55	1.32
3487868--3487915	6	7.3	6	78	17	51	81	0	16	2	0.79
3487867--3487916	15	3.5	15	78	10	61	80	0	18	2	0.82
3487870--3487916	20	2.3	20	83	16	62	80	0	17	2	0.80
3488896--3489109	52	4.1	52	94	3	378	23	15	23	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3489058--3489269	83	2.6	83	92	2	354	25	11	22	41	1.87
3489905--3490585	118	5.9	116	91	5	1015	36	13	19	29	1.91
3489939--3490585	232	2.8	236	91	4	1048	37	13	19	28	1.91
3489905--3490585	350	2.0	347	90	4	1084	36	13	19	29	1.91
3490831--3490933	3	34.7	3	96	1	190	33	0	0	66	0.92
3491396--3491422	14	1.9	14	100	0	54	51	14	33	0	1.43
3492340--3492384	22	2.2	20	84	8	54	37	2	4	55	1.32
3494270--3494310	22	1.9	22	85	5	57	34	7	14	43	1.73
3494658--3494787	46	2.8	46	86	3	183	36	7	21	33	1.82
3496141--3496183	20	2.2	20	91	0	68	30	20	2	46	1.63

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