genome.fa.s9611.2.7.7.80.10.50.1000.12.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: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6671611

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   

This is table  12  of  27  ( 3214 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)
3065718--3065807	23	4.0	23	77	1	92	18	23	24	33	1.97
3065711--3065805	46	2.1	43	84	5	118	20	21	22	36	1.95
3066342--3066379	19	2.0	20	84	5	51	36	0	31	31	1.58
3068008--3068056	20	2.5	19	83	6	53	53	2	16	28	1.54
3071897--3071926	2	15.0	2	100	0	60	50	0	0	50	1.00
3084960--3084994	15	2.3	15	90	0	52	5	51	2	40	1.40
3093575--3093619	21	2.1	21	95	0	81	28	17	4	48	1.66
3096131--3096158	3	9.3	3	100	0	56	67	0	0	32	0.91
3096822--3096859	2	19.0	2	100	0	76	50	0	0	50	1.00
3097051--3097089	16	2.4	16	95	0	69	33	12	10	43	1.77
3102168--3102206	20	2.0	20	85	10	53	38	2	7	51	1.44
3113901--3113938	19	2.1	18	95	5	67	39	5	5	50	1.48
3116085--3116114	15	2.0	15	100	0	60	33	40	0	26	1.57
3130089--3130114	2	13.0	2	100	0	52	50	0	0	50	1.00
3136156--3136311	78	2.1	76	81	9	187	44	7	8	39	1.63
3136317--3136356	21	2.0	20	85	5	53	40	0	2	57	1.12
3137092--3137138	10	4.5	10	82	10	58	40	6	0	53	1.27
3137092--3137137	22	2.2	21	92	7	76	41	6	0	52	1.27
3137172--3137248	34	2.3	32	82	6	91	44	6	5	44	1.52
3137216--3137267	20	2.5	20	87	9	70	44	7	5	42	1.57
3137258--3137296	16	2.8	13	88	11	51	41	7	2	48	1.45
3137585--3137721	71	1.9	70	92	4	231	33	10	6	49	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3138579--3138613	2	18.0	2	94	5	63	51	0	0	48	1.00
3138576--3138618	8	5.9	7	92	7	52	53	0	0	46	1.00
3139355--3139386	16	2.0	16	100	0	64	25	18	6	50	1.70
3150534--3150565	12	2.7	12	95	0	55	15	6	40	37	1.73
3150597--3150657	24	2.6	24	84	7	81	45	0	0	54	1.00
3151122--3151169	18	2.7	17	74	6	51	12	10	60	16	1.58
3159154--3159187	18	1.9	17	88	5	50	29	0	5	64	1.17
3161653--3161696	19	2.3	19	96	0	79	34	11	22	31	1.90
3175660--3175693	18	1.9	17	88	5	50	29	0	5	64	1.17
3176174--3176236	29	2.2	29	100	0	126	36	6	12	44	1.68
3183577--3183610	18	1.9	17	88	5	50	29	0	5	64	1.17
3186881--3186953	21	3.5	20	81	10	85	32	21	23	21	1.98
3187200--3187256	28	2.0	28	82	0	69	26	15	26	31	1.96
3188368--3188410	22	2.0	22	90	0	68	62	6	6	23	1.45
3188542--3188744	77	2.7	77	80	3	187	41	8	11	37	1.72
3194265--3194345	42	1.9	43	82	5	103	49	2	2	45	1.28
3194543--3194592	26	1.9	26	87	0	73	52	16	14	18	1.76
3194923--3195004	39	2.1	39	86	4	112	56	1	1	41	1.15
3195847--3195880	17	1.9	18	88	5	52	35	29	0	35	1.58
3196503--3196692	95	2.0	95	100	0	380	41	17	13	27	1.88
3197232--3197275	20	2.2	20	95	0	79	36	18	0	45	1.49
3197232--3197275	10	4.4	10	88	0	61	36	18	0	45	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3198778--3198804	12	2.2	12	100	0	54	29	14	25	29	1.95
3199100--3199158	12	4.9	12	73	8	57	45	18	15	20	1.85
3199559--3199642	37	2.3	38	85	6	111	33	3	19	44	1.68
3203968--3204130	35	4.7	34	84	6	141	31	7	17	43	1.76
3203995--3204148	35	4.3	36	86	5	215	31	5	18	44	1.73
3208489--3208544	21	2.7	21	97	0	103	42	7	16	33	1.75
3209233--3209257	7	3.6	7	100	0	50	28	0	28	44	1.55
3209499--3209619	31	3.9	30	77	12	120	30	19	19	31	1.96
3209499--3209617	62	1.9	62	85	10	163	30	18	19	31	1.96
3215133--3215213	31	2.6	31	76	0	90	28	16	25	29	1.96
3215200--3215302	30	3.4	30	93	0	170	23	20	24	32	1.98
3222410--3222496	24	3.6	25	76	13	83	32	16	13	37	1.88
3222456--3222540	41	2.1	42	88	4	129	42	11	9	36	1.74
3222983--3223082	51	2.0	52	88	2	134	47	15	13	25	1.81
3223354--3223379	11	2.4	11	100	0	52	7	7	7	76	1.15
3223937--3224070	40	3.4	39	63	16	94	41	2	19	35	1.67
3223945--3224103	82	1.9	82	98	0	309	44	4	18	32	1.70
3227215--3227573	55	6.5	55	86	3	438	28	16	25	28	1.97
3251367--3251424	22	2.5	25	89	10	88	53	1	6	37	1.38
3251367--3251448	21	3.7	23	80	11	82	52	2	7	37	1.43
3255354--3255398	22	2.1	21	83	4	54	68	2	4	24	1.19
3257460--3257511	26	2.0	25	88	3	77	40	0	1	57	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3271304--3271381	31	2.5	31	91	0	120	38	12	21	26	1.90
3272623--3272695	31	2.4	31	100	0	146	28	23	9	38	1.86
3272704--3272770	31	2.2	31	88	0	98	35	13	26	23	1.92
3273576--3273638	23	2.8	22	85	2	81	50	17	19	12	1.77
3273617--3273655	20	2.0	20	89	0	60	53	15	15	15	1.73
3275801--3275870	26	2.7	26	95	0	131	57	2	34	5	1.37
3277576--3277779	97	2.1	97	94	0	354	23	13	17	45	1.84
3279376--3279438	21	3.0	22	81	9	76	25	34	14	25	1.94
3279401--3279454	21	2.5	22	82	8	67	22	37	20	20	1.95
3279401--3279494	42	2.2	42	80	0	107	20	34	22	23	1.97
3280841--3281167	64	5.3	64	72	14	274	29	3	19	47	1.68
3280771--3281135	182	2.0	182	99	0	721	29	6	20	43	1.76
3281271--3281344	20	3.7	19	81	15	78	37	20	18	22	1.94
3281560--3281595	18	2.0	18	88	0	54	16	5	25	52	1.65
3283633--3283675	21	2.0	22	90	9	70	6	23	13	55	1.62
3284832--3284941	20	5.4	20	72	17	84	34	11	22	30	1.90
3284833--3284961	40	3.2	40	81	5	152	33	12	24	30	1.92
3284889--3285005	61	1.9	60	84	5	155	27	13	27	31	1.94
3284889--3285005	20	5.8	20	76	9	103	27	13	27	31	1.94
3287603--3287636	17	2.1	16	88	5	50	76	0	8	14	1.01
3288111--3288157	24	2.0	24	83	8	60	57	12	2	27	1.47
3291444--3291487	20	2.2	20	84	4	63	65	0	15	18	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3297760--3297793	17	2.1	16	88	5	50	76	0	8	14	1.01
3298268--3298314	24	2.0	24	83	8	60	57	12	2	27	1.47
3300040--3300078	19	2.1	19	95	0	69	30	7	0	61	1.24
3301537--3301601	32	2.0	32	100	0	130	30	18	18	32	1.95
3304683--3304732	20	2.4	22	83	9	61	40	4	0	56	1.18
3324849--3324889	10	3.8	10	82	17	55	60	21	9	7	1.52
3336523--3336582	30	2.0	30	96	0	111	30	5	20	45	1.72
3336674--3336711	13	2.9	13	96	0	67	18	36	21	23	1.95
3336700--3336751	22	2.5	20	81	6	59	26	28	19	25	1.98
3336776--3336830	20	2.7	21	94	2	94	20	34	18	27	1.95
3337196--3337265	34	2.1	32	89	5	104	31	15	31	21	1.95
3339128--3339169	2	21.0	2	90	0	66	52	2	0	45	1.13
3339409--3339446	20	1.9	20	88	0	58	23	18	10	47	1.79
3346046--3346108	18	3.2	21	66	25	64	34	7	14	42	1.75
3346039--3346114	38	2.0	38	100	0	152	36	7	13	42	1.73
3346043--3346103	19	3.2	19	66	25	56	37	6	13	42	1.70
3348939--3348967	8	3.6	8	100	0	58	10	37	0	51	1.36
3351396--3351428	14	2.3	15	89	5	50	63	21	3	12	1.41
3351770--3351799	14	2.1	14	100	0	60	50	16	20	13	1.78
3352269--3352302	15	2.3	15	94	0	59	47	8	5	38	1.59
3353149--3353185	19	1.9	19	88	0	56	24	0	13	62	1.31
3356511--3356568	24	2.4	24	94	0	98	34	8	5	51	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3357157--3357197	2	20.5	2	100	0	82	51	0	0	48	1.00
3357392--3357430	18	2.2	18	86	9	53	64	7	5	23	1.40
3357773--3357819	21	2.2	22	85	11	62	19	2	2	76	0.99
3375937--3375975	17	2.2	19	86	9	55	43	0	2	53	1.14
3376444--3376605	56	2.9	56	85	0	189	39	9	15	35	1.81
3376503--3376630	56	2.3	56	91	4	213	44	13	13	28	1.81
3381985--3382318	166	2.0	168	98	1	654	34	11	10	42	1.76
3383046--3383105	32	1.9	31	89	3	93	46	1	16	35	1.57
3385812--3385845	12	2.8	12	81	0	50	32	11	17	38	1.86
3385973--3386052	41	2.0	40	85	2	106	33	11	16	38	1.84

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