genome.fa.s8750.2.7.7.80.10.50.1000.17.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: VEPZ01008750.1 Hibiscus syriacus cultivar Beakdansim tig00111841_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3719443

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  17  of  18  ( 2144 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)
3310896--3310952	3	18.7	3	75	10	53	29	5	0	64	1.15
3310892--3310944	16	3.2	16	81	5	61	30	3	0	66	1.10
3310888--3310959	21	3.5	22	71	17	66	27	4	0	68	1.08
3325777--3325821	21	2.1	21	87	0	63	31	28	24	15	1.96
3326837--3326870	2	17.0	2	100	0	68	50	0	0	50	1.00
3327519--3327577	22	2.6	23	94	2	102	18	27	30	23	1.98
3331102--3331136	18	2.0	17	88	5	52	40	5	17	37	1.73
3331079--3331137	24	2.5	24	76	18	68	40	6	16	35	1.76
3331754--3331785	2	16.0	2	100	0	64	50	0	0	50	1.00
3332432--3332490	22	2.6	23	94	2	102	18	27	30	23	1.98
3335607--3335651	21	2.1	21	87	0	63	31	28	24	15	1.96
3336652--3336680	2	15.0	2	92	7	51	51	0	0	48	1.00
3336651--3336677	13	2.1	13	100	0	54	55	0	0	44	0.99
3337327--3337385	21	2.8	21	94	2	100	16	27	28	27	1.97
3340541--3340585	21	2.1	21	87	0	63	31	28	24	15	1.96
3341595--3341627	2	17.0	2	93	6	59	51	0	0	48	1.00
3342279--3342337	22	2.6	23	94	2	102	18	27	30	23	1.98
3345495--3345539	21	2.1	21	87	0	63	31	28	24	15	1.96
3346540--3346569	2	15.0	2	100	0	60	50	0	0	50	1.00
3347218--3347275	22	2.6	22	97	0	107	18	27	29	24	1.98
3350434--3350478	21	2.1	21	87	0	63	31	28	24	15	1.96
3351478--3351524	2	24.0	2	95	4	87	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)
3352179--3352241	13	5.5	13	65	27	52	19	26	26	26	1.99
3352175--3352255	22	3.6	22	96	1	144	18	27	29	24	1.98
3354139--3354178	8	5.3	7	83	16	53	77	2	20	0	0.88
3354139--3354186	17	2.9	17	84	9	64	77	2	20	0	0.88
3354139--3354181	16	2.8	16	83	16	63	76	2	20	0	0.89
3357425--3357488	6	11.0	6	89	3	51	37	1	0	60	1.06
3357448--3357490	2	21.5	2	95	0	77	46	0	0	53	1.00
3357486--3357540	21	2.6	21	86	11	69	16	3	5	74	1.15
3357536--3357595	3	19.7	3	76	10	59	30	3	0	66	1.07
3357535--3357597	21	2.8	24	75	24	75	28	3	0	68	1.05
3357736--3357797	23	3.0	20	73	13	61	14	4	6	74	1.19
3357731--3357796	20	3.2	20	73	12	60	15	6	6	72	1.24
3357731--3357799	21	3.2	21	71	18	61	15	5	5	72	1.24
3357736--3357840	41	2.5	42	80	6	97	16	4	6	72	1.23
3360895--3360953	22	2.7	22	92	2	93	27	37	22	13	1.91
3378778--3379542	379	2.0	381	96	0	1417	32	15	20	31	1.94
3383203--3383234	2	16.0	2	100	0	64	50	0	0	50	1.00
3383635--3383678	16	2.6	17	75	7	54	43	0	0	56	0.99
3384635--3384882	125	2.0	125	95	0	451	37	14	14	33	1.86
3390647--3390803	65	2.4	65	80	8	162	34	22	21	21	1.97
3391600--3391668	23	3.0	23	82	0	84	20	26	23	30	1.98
3397112--3397174	23	2.7	22	83	9	81	17	23	23	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3399191--3399227	15	2.5	15	86	0	56	16	10	2	70	1.27
3399251--3399283	10	3.1	11	86	8	50	51	0	0	48	1.00
3399426--3399587	49	3.2	49	64	23	127	33	16	12	36	1.87
3399413--3399626	103	2.1	103	97	0	401	33	18	14	33	1.91
3401455--3401492	20	1.9	20	88	0	58	28	28	18	23	1.98
3401500--3401648	64	2.3	64	89	5	223	28	20	18	32	1.96
3401500--3401671	64	2.7	62	83	9	204	27	21	18	31	1.97
3404877--3404911	5	7.0	5	100	0	70	40	0	0	60	0.97
3405323--3405367	22	2.0	22	82	0	54	22	0	22	55	1.44
3405300--3405386	33	2.6	33	82	7	97	24	0	22	52	1.47
3405396--3405460	3	21.7	3	90	0	103	61	0	3	35	1.12
3409054--3409115	22	2.9	22	79	13	76	43	4	3	48	1.40
3409143--3409188	18	2.5	19	72	13	51	39	4	0	56	1.19
3412850--3412889	16	2.6	15	88	11	55	55	0	2	42	1.13
3413495--3413539	15	2.9	16	87	6	58	60	0	0	40	0.97
3418671--3418709	16	2.6	14	81	14	51	20	23	7	48	1.75
3418677--3418709	16	2.1	16	94	0	57	24	24	9	42	1.83
3420455--3420555	51	2.0	51	96	0	184	31	21	11	34	1.90
3427605--3427644	2	20.0	2	100	0	80	50	0	0	50	1.00
3428047--3428104	29	2.0	29	100	0	116	27	24	13	34	1.93
3430707--3430735	10	2.9	10	100	0	58	58	10	0	31	1.31
3433120--3433226	24	4.6	22	67	23	60	66	0	3	28	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3433135--3433195	20	2.9	22	80	9	63	67	0	3	29	1.07
3433410--3433491	27	3.1	26	83	13	96	71	1	0	26	0.93
3433410--3433488	24	3.2	24	82	12	90	72	1	0	26	0.93
3433428--3433473	16	2.9	16	90	3	67	76	0	0	23	0.79
3433410--3433475	4	16.2	4	73	20	57	74	0	0	25	0.82
3433888--3433972	37	2.3	37	87	0	116	32	9	15	42	1.79
3434732--3436040	106	12.3	106	92	0	2008	22	18	25	34	1.96
3437601--3437664	16	4.0	16	71	15	51	3	12	6	78	1.06
3441102--3441139	19	2.0	20	94	5	69	0	34	36	28	1.58
3441956--3442011	20	2.9	19	75	19	62	66	1	8	23	1.30
3442142--3442193	2	26.5	2	88	3	79	51	0	1	46	1.12
3442380--3442425	11	4.4	11	76	17	53	65	0	2	32	1.05
3442380--3442425	22	2.2	20	88	7	65	65	0	2	32	1.05
3442374--3442425	17	2.9	17	81	15	61	67	0	1	30	1.02
3442435--3442474	16	2.6	16	88	4	55	75	0	0	25	0.81
3442894--3442994	37	2.7	37	85	0	130	29	13	14	41	1.85
3446032--3446196	83	2.0	85	83	9	214	29	15	19	35	1.93
3452097--3452201	45	2.3	46	86	4	142	31	18	16	34	1.93
3460790--3460947	65	2.4	65	87	5	214	32	20	14	31	1.93
3462552--3462596	25	1.9	24	86	13	67	33	4	11	51	1.58
3464144--3464192	21	2.3	21	96	0	89	46	12	38	2	1.53
3468044--3468099	22	2.5	22	88	0	76	21	0	7	71	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3468083--3468120	16	2.4	16	95	4	69	23	0	5	71	1.07
3477841--3477872	5	6.2	5	92	7	55	59	0	3	37	1.13
3477841--3477872	16	2.1	15	94	5	55	59	0	3	37	1.13
3483346--3483388	22	2.0	22	85	0	59	37	23	20	18	1.94
3485343--3485377	15	2.4	15	90	4	54	45	11	8	34	1.71
3492068--3492365	102	3.0	100	82	7	333	31	15	20	32	1.93
3493033--3493115	9	9.4	8	73	17	58	78	1	15	4	0.98
3492999--3493061	6	10.0	6	86	10	81	77	3	17	1	0.97
3495274--3495451	36	5.3	36	66	20	123	30	16	14	38	1.88
3495305--3495415	30	3.5	30	70	17	98	31	15	12	40	1.84
3495224--3495508	66	4.3	66	90	1	421	29	16	14	38	1.89
3495226--3495546	66	4.9	66	86	4	211	31	16	14	37	1.89
3495456--3495689	103	2.3	103	78	10	253	35	17	11	35	1.86
3498967--3499017	23	2.1	25	78	10	61	23	3	3	68	1.23
3500420--3500452	16	2.1	16	94	0	57	54	15	0	30	1.41
3501626--3501851	29	7.8	29	85	4	260	33	6	9	51	1.59
3501853--3501930	27	2.8	27	84	3	93	33	11	7	47	1.68
3501762--3501900	58	2.4	58	83	7	160	32	9	6	51	1.59
3501859--3501930	29	2.6	27	84	4	90	36	11	6	45	1.67
3501859--3501942	29	3.0	28	77	6	80	32	11	7	48	1.67
3507520--3507575	27	2.1	27	89	0	85	35	26	8	28	1.87
3507832--3507877	20	2.4	19	81	3	56	13	30	23	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3521160--3521202	21	2.0	21	95	0	77	18	30	39	11	1.86
3522042--3522087	15	3.1	15	87	6	67	28	0	21	50	1.49
3526563--3526599	3	12.7	3	94	5	67	64	0	0	35	0.94
3526820--3527163	134	2.6	134	85	3	440	25	16	31	25	1.97
3527427--3527484	29	2.0	30	89	3	91	44	12	13	29	1.80
3527363--3527542	91	1.9	94	84	6	242	45	13	14	26	1.83
3527558--3527671	29	3.8	29	83	6	120	44	14	12	28	1.81
3527558--3527688	29	4.3	31	82	8	112	43	12	13	30	1.81
3527684--3527868	64	2.8	66	79	7	200	45	15	10	29	1.79
3527788--3527967	99	1.8	100	81	3	229	43	13	13	28	1.82

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18