genome.fa.s8027.2.7.7.80.10.50.1000.15.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

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   

This is table  15  of  38  ( 4505 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)
3228898--3228931	14	2.5	14	90	4	52	26	2	0	70	1.01
3236124--3236157	18	1.9	17	88	5	50	29	0	5	64	1.17
3236194--3236241	23	2.2	22	82	10	62	20	12	22	43	1.86
3236201--3236247	23	2.0	23	95	0	85	17	17	25	40	1.90
3243705--3243743	17	2.2	18	90	4	62	25	0	5	69	1.09
3243781--3243834	23	2.3	23	90	0	90	22	16	25	35	1.95
3248729--3248799	30	2.4	30	75	11	74	42	5	22	29	1.76
3251291--3251324	18	1.9	17	88	5	50	29	0	5	64	1.17
3251370--3251418	23	2.1	23	100	0	98	18	16	30	34	1.93
3261931--3261979	21	2.4	22	76	13	59	46	4	4	44	1.41
3261912--3262059	61	2.3	64	78	17	166	45	6	3	43	1.46
3261964--3262023	22	2.8	22	87	7	79	48	5	1	45	1.34
3261964--3262052	20	4.4	20	78	13	83	44	7	3	43	1.49
3262062--3262167	2	51.0	2	71	17	74	45	4	1	48	1.34
3262062--3262167	13	8.2	13	73	19	78	45	4	1	48	1.34
3262094--3262187	22	4.3	22	74	15	86	45	6	2	45	1.40
3262062--3262187	66	1.9	66	91	4	209	45	4	2	47	1.36
3264680--3264745	2	33.0	2	100	0	132	50	0	0	50	1.00
3266093--3266208	60	1.9	60	85	3	162	28	18	14	38	1.90
3266664--3266724	31	2.0	31	96	0	113	31	4	19	44	1.72
3270264--3270592	86	3.8	86	86	0	433	22	16	20	40	1.91
3270264--3270616	129	2.7	131	82	3	421	23	16	20	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3270264--3270592	43	7.7	43	81	0	379	22	16	20	40	1.91
3270704--3270732	15	1.9	15	100	0	58	51	20	0	27	1.47
3276397--3276425	13	2.2	13	100	0	58	6	62	31	0	1.22
3277139--3277222	3	27.3	3	90	4	132	64	0	0	35	0.94
3277453--3278122	113	6.0	113	91	1	913	30	18	15	36	1.91
3279057--3279607	83	6.6	83	92	0	897	37	21	12	28	1.90
3280311--3280338	13	2.2	13	100	0	56	57	7	7	28	1.52
3286446--3286474	13	2.2	13	100	0	58	6	62	31	0	1.22
3287184--3287290	3	35.3	3	85	5	90	57	0	0	42	1.05
3297195--3297237	14	3.0	14	78	18	52	74	0	4	20	1.00
3298653--3298690	18	2.1	18	85	9	51	60	2	0	36	1.11
3301435--3301536	31	3.2	31	92	2	159	42	12	13	31	1.82
3305066--3305180	22	5.1	22	76	7	115	33	17	19	30	1.95
3318748--3318776	13	2.1	14	93	6	51	51	13	6	27	1.66
3320472--3320509	16	2.4	16	90	0	58	36	0	63	0	0.95
3330434--3330470	2	18.5	2	100	0	74	51	0	0	48	1.00
3330370--3330580	110	2.0	109	91	3	338	51	3	5	38	1.44
3330742--3330805	32	2.0	31	81	3	74	43	9	6	40	1.62
3340981--3341015	15	2.2	16	90	5	54	17	0	5	77	0.96
3341571--3341595	13	1.9	13	100	0	50	40	16	12	32	1.84
3346051--3346169	37	3.2	36	83	2	148	36	21	15	26	1.93
3346051--3346149	36	2.7	36	87	1	135	39	20	17	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3346556--3346842	54	5.3	54	94	0	486	35	18	26	19	1.94
3346834--3346961	55	2.3	55	95	0	229	29	15	21	33	1.94
3346834--3346999	55	3.0	54	83	8	201	31	14	22	31	1.94
3349702--3349779	35	2.2	35	95	0	138	32	11	30	25	1.91
3355475--3355511	2	18.5	2	100	0	74	51	0	0	48	1.00
3358622--3359397	132	5.9	132	87	2	1049	29	19	20	30	1.97
3358705--3359397	88	7.9	88	69	7	311	29	19	20	29	1.97
3358670--3359377	44	16.1	44	69	6	281	29	19	21	30	1.97
3359711--3359847	70	1.9	72	82	4	170	34	11	23	30	1.90
3359912--3360058	66	2.2	66	81	9	158	39	15	18	26	1.90
3360013--3360097	30	2.8	30	82	8	100	37	11	15	35	1.84
3360075--3360233	36	4.4	36	90	1	221	40	16	19	23	1.90
3360122--3360194	21	3.8	20	76	22	84	41	17	20	20	1.91
3360111--3360170	15	3.6	15	72	23	57	35	16	23	25	1.95
3360408--3360513	42	2.5	42	83	1	142	30	26	17	25	1.98
3360547--3360628	43	1.9	43	92	0	137	25	30	14	29	1.95
3360720--3360819	42	2.4	42	79	1	112	32	23	18	27	1.97
3360852--3360999	39	3.8	39	91	0	224	34	18	17	29	1.94
3362411--3362447	13	2.6	15	79	16	51	45	10	29	13	1.77
3364206--3364242	14	2.6	15	83	12	51	24	10	21	43	1.84
3364970--3364997	14	2.0	14	100	0	56	50	21	7	21	1.72
3373509--3373539	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3377187--3377263	27	2.8	27	76	15	77	50	0	5	44	1.24
3381278--3381314	16	2.3	16	100	0	74	16	16	10	56	1.66
3385730--3385776	20	2.3	20	96	0	85	21	14	59	4	1.52
3386999--3387046	24	2.0	24	95	0	87	29	29	6	35	1.82
3387561--3387623	23	3.0	20	71	15	63	26	4	15	52	1.63
3393583--3393620	20	1.9	20	88	0	58	21	26	10	42	1.85
3393638--3393678	21	2.0	21	100	0	82	19	19	29	31	1.96
3393710--3393755	19	2.4	19	85	0	65	15	19	32	32	1.93
3393664--3393820	84	1.9	84	88	5	237	27	18	24	29	1.98
3394170--3394203	13	2.6	13	90	9	52	35	5	11	47	1.65
3395956--3395994	13	2.9	13	81	7	51	51	5	10	33	1.58
3397144--3397187	22	2.0	22	95	0	79	25	27	20	27	1.99
3402346--3402399	19	2.8	19	97	0	99	22	22	31	24	1.98
3402385--3402540	65	2.4	65	88	4	217	30	19	21	28	1.97
3402984--3403104	43	2.8	43	94	0	215	33	20	13	33	1.91
3405245--3405302	24	2.4	24	88	0	80	44	0	0	55	0.99
3405232--3405302	21	3.4	21	76	3	72	43	0	0	56	0.99
3405232--3405289	3	19.7	3	86	10	57	41	0	0	58	0.98
3406965--3407008	23	1.9	23	85	0	61	43	2	0	54	1.12
3407449--3407473	7	3.6	7	100	0	50	68	0	0	32	0.90
3407499--3407556	28	2.1	27	84	6	73	32	5	1	60	1.29
3417649--3417673	11	2.3	11	100	0	50	92	0	0	8	0.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3418031--3418068	18	2.1	18	90	0	58	28	2	7	60	1.38
3419213--3419755	113	4.9	111	84	8	698	37	15	19	28	1.92
3419222--3419890	113	6.0	112	80	12	661	37	15	18	27	1.92
3419670--3419953	121	2.4	124	83	9	374	40	15	17	26	1.90
3420226--3420256	3	10.7	3	93	6	55	32	0	0	67	0.91
3426962--3427085	39	3.2	39	95	1	221	37	20	10	32	1.86
3430503--3430728	124	1.9	119	86	6	319	25	14	12	48	1.78
3431488--3431537	22	2.3	22	82	6	57	44	4	2	50	1.32
3446082--3446245	72	2.3	70	84	4	211	33	15	12	38	1.85
3446090--3446228	35	3.9	35	68	10	95	32	15	12	40	1.84
3446216--3446378	67	2.4	67	86	1	218	28	21	14	35	1.93
3450273--3450308	2	18.0	2	100	0	72	50	0	0	50	1.00
3450571--3450601	14	2.3	14	94	5	55	58	0	6	35	1.24
3452196--3452300	3	36.7	3	74	16	98	65	1	1	30	1.14
3452198--3452303	14	7.3	14	76	14	99	66	1	1	30	1.13
3452206--3452310	37	2.9	37	90	2	160	67	2	1	27	1.15
3452261--3452304	23	1.9	23	90	0	70	68	2	2	27	1.14
3452774--3452832	18	3.2	18	68	22	50	20	22	6	50	1.71
3452632--3453092	123	3.7	123	88	4	660	26	18	14	40	1.89
3455598--3455632	18	1.9	18	88	0	52	54	11	5	28	1.59
3455970--3456021	15	3.6	14	78	14	52	15	9	0	75	1.05
3466689--3466733	13	3.6	12	79	8	54	68	0	0	31	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3466679--3466742	25	2.6	25	85	11	87	68	0	1	29	0.99
3467263--3467288	2	13.0	2	100	0	52	50	0	0	50	1.00
3467937--3467964	5	5.6	5	100	0	56	64	0	0	35	0.94
3469203--3469245	3	14.7	3	81	13	54	65	0	2	32	1.06
3469207--3469254	23	2.1	22	92	3	78	68	0	2	29	1.01
3473021--3473209	83	2.3	83	87	0	270	29	28	19	23	1.98
3473121--3473506	138	2.8	138	79	6	413	30	25	17	26	1.97
3473502--3473912	122	3.4	122	81	1	448	35	23	12	27	1.91
3473573--3473773	61	3.3	60	68	10	156	34	25	12	26	1.93
3475153--3475185	5	6.8	5	93	6	59	18	0	0	81	0.68

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