genome.fa.s8087.2.7.7.80.10.50.1000.14.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

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   

This is table  14  of  37  ( 4336 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)
3174373--3174407	18	1.9	18	94	0	61	54	22	2	20	1.58
3174465--3174747	140	2.0	140	97	0	530	29	13	14	42	1.84
3174718--3174888	20	8.9	20	82	7	210	32	20	19	26	1.97
3174931--3174988	19	3.0	20	84	5	73	10	17	22	50	1.76
3174927--3175003	20	3.9	20	81	3	84	12	15	24	46	1.81
3176541--3176648	42	2.6	42	76	5	112	26	19	34	19	1.96
3177127--3177170	20	2.2	20	95	0	79	50	22	13	13	1.77
3177229--3177337	20	5.8	19	69	14	66	17	20	19	43	1.89
3179246--3179286	20	2.0	20	95	0	73	56	21	12	9	1.65
3179253--3179316	20	3.2	20	88	0	83	43	25	15	15	1.86
3179742--3179783	22	1.9	22	95	0	75	21	16	42	19	1.89
3179962--3180026	20	3.2	20	72	20	62	26	20	26	27	1.99
3179930--3180026	41	2.4	41	82	0	113	27	18	22	30	1.97
3182918--3183028	53	2.1	53	98	0	213	33	10	15	40	1.82
3192794--3192862	18	3.9	18	78	16	65	24	21	7	46	1.77
3193650--3193724	2	37.5	2	94	0	132	48	1	0	50	1.09
3195141--3195171	12	2.6	12	100	0	62	25	29	19	25	1.99
3201746--3201805	24	2.5	24	94	0	102	41	10	15	33	1.80
3207479--3207529	23	2.2	23	96	0	93	11	37	7	43	1.71
3210267--3210515	113	2.2	112	82	9	295	38	11	19	30	1.88
3212941--3212983	22	1.9	23	90	4	70	48	2	0	48	1.14
3213119--3213165	23	2.1	23	88	7	71	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3213119--3213180	23	2.8	21	81	11	70	50	0	3	46	1.17
3213312--3213371	26	2.3	26	86	11	79	45	1	5	48	1.34
3213368--3213424	23	2.4	23	85	5	69	49	0	1	49	1.11
3224788--3224824	16	2.5	16	87	12	53	75	5	0	18	0.99
3231634--3231739	51	2.1	51	94	0	185	41	16	16	24	1.89
3231839--3231869	5	6.2	5	100	0	62	58	41	0	0	0.98
3235623--3235668	21	2.2	21	81	11	60	58	6	0	34	1.24
3235950--3236010	27	2.3	27	94	0	104	42	11	6	39	1.67
3240756--3240792	20	1.9	19	89	10	58	45	10	24	18	1.81
3241353--3241380	11	2.5	11	100	0	56	28	32	21	17	1.96
3248565--3248660	50	1.9	51	86	2	140	34	15	13	36	1.87
3255158--3255222	30	2.4	27	78	16	71	47	1	3	47	1.27
3255214--3255262	23	2.1	24	85	11	66	46	0	0	53	1.00
3256135--3256197	2	31.5	2	100	0	126	49	0	0	50	1.00
3258947--3258972	3	8.7	3	100	0	52	65	0	0	34	0.93
3258971--3259004	3	11.3	3	100	0	68	32	0	0	67	0.91
3261776--3261863	17	5.1	18	70	21	55	38	0	2	59	1.10
3261782--3261870	34	2.7	33	77	10	85	39	0	2	58	1.11
3262004--3262057	17	3.2	17	72	0	54	31	0	3	64	1.11
3263588--3263635	21	2.3	21	85	0	60	25	39	12	22	1.89
3263639--3263732	21	4.5	21	92	5	145	18	34	27	20	1.95
3264254--3264350	33	2.9	34	85	3	124	56	4	2	37	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3264252--3264357	34	3.2	32	82	8	122	55	4	1	37	1.32
3264754--3265248	128	3.9	128	95	0	857	31	20	25	23	1.98
3265321--3265361	8	5.2	8	82	5	57	36	29	0	34	1.58
3270159--3270195	13	2.6	15	83	12	51	45	0	0	54	1.00
3270156--3270203	7	7.0	7	80	4	53	45	0	2	52	1.12
3270156--3270194	20	2.0	20	89	0	60	48	0	0	51	1.00
3271875--3271935	26	2.5	24	80	19	81	31	0	0	68	0.89
3272413--3272459	14	3.4	14	77	13	53	27	0	0	72	0.85
3273673--3273712	14	2.8	15	88	7	57	35	27	7	30	1.84
3283585--3283915	112	3.0	110	86	2	459	20	22	22	33	1.97
3285004--3285138	21	6.4	21	78	13	152	19	20	25	34	1.96
3285004--3285227	42	5.3	41	84	6	247	20	19	22	37	1.95
3285050--3285205	21	7.4	21	80	11	176	21	19	19	39	1.93
3285029--3285241	42	5.1	42	86	4	304	21	18	21	38	1.93
3285394--3285454	21	3.0	20	83	7	61	34	18	22	24	1.96
3285477--3285575	49	2.0	49	94	0	171	25	22	17	35	1.95
3285553--3285606	21	2.6	21	93	0	90	20	22	27	29	1.98
3290494--3290525	2	16.0	2	100	0	64	50	0	0	50	1.00
3292117--3292185	24	2.9	24	75	0	75	53	18	11	15	1.72
3292117--3292186	12	5.8	12	72	0	50	54	18	11	15	1.71
3293932--3294004	36	2.0	36	97	0	137	28	20	8	42	1.81
3304072--3304099	13	2.2	13	100	0	56	57	21	14	7	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3304966--3305021	27	2.1	27	86	0	76	39	23	8	28	1.85
3306170--3306214	19	2.3	20	84	7	65	64	0	2	33	1.06
3307908--3307937	15	2.0	15	93	0	51	63	0	0	36	0.95
3308146--3308190	17	2.6	18	92	3	74	33	8	28	28	1.87
3308492--3308699	65	3.2	63	79	10	197	32	23	16	27	1.96
3314475--3314610	22	6.4	21	72	13	93	29	24	21	25	1.99
3314475--3314610	41	3.2	42	84	6	177	29	24	21	25	1.99
3317240--3317320	30	2.7	30	78	1	83	33	28	20	17	1.95
3317276--3317400	31	4.0	31	76	8	85	33	22	19	24	1.97
3317297--3317420	63	2.0	62	88	4	187	32	20	19	27	1.97
3317296--3317423	31	4.1	31	80	9	152	33	21	18	26	1.96
3318175--3318312	64	2.2	63	80	6	145	27	24	14	33	1.94
3320002--3320122	64	1.9	65	84	8	167	31	19	19	30	1.96
3323519--3323569	25	2.0	25	81	7	59	62	0	0	37	0.95
3323507--3323591	34	2.5	34	98	0	161	60	0	0	40	0.97
3333554--3333590	2	18.5	2	100	0	74	51	0	0	48	1.00
3341333--3341395	27	2.3	27	100	0	126	33	20	25	20	1.97
3346349--3346379	16	1.9	16	93	0	53	38	0	0	61	0.96
3346348--3346405	16	3.4	18	81	11	52	32	0	0	67	0.91
3349372--3349417	16	2.7	17	77	16	51	60	4	0	34	1.16
3349803--3349827	2	12.5	2	100	0	50	48	0	0	52	1.00
3354001--3354060	18	3.2	18	72	13	59	55	5	3	36	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3354226--3354351	60	2.1	59	82	5	146	34	19	6	38	1.78
3355267--3355310	21	2.1	21	83	8	54	36	0	9	54	1.32
3370423--3370469	21	2.2	21	85	14	62	6	40	6	46	1.55
3373551--3373759	104	2.0	104	93	0	355	21	26	22	29	1.99
3373796--3373867	31	2.3	31	100	0	144	33	8	0	58	1.28
3376502--3376580	41	1.9	41	92	0	131	50	3	12	32	1.58
3384468--3384569	22	4.8	22	76	17	74	54	1	0	43	1.11
3384558--3384596	16	2.5	16	83	4	53	46	0	0	53	1.00
3384530--3384650	62	1.9	64	82	11	153	47	1	0	49	1.17
3389485--3389528	22	1.9	24	86	9	65	45	2	4	47	1.35
3403433--3403466	2	17.0	2	100	0	68	50	0	0	50	1.00
3405222--3405246	2	12.5	2	100	0	50	48	0	0	52	1.00
3406711--3406786	40	1.9	40	83	0	98	26	18	15	39	1.91
3406853--3406927	39	1.9	39	86	0	105	34	17	13	34	1.89
3409049--3409127	26	3.2	26	63	26	71	41	15	13	29	1.85
3409042--3409139	48	2.0	48	100	0	196	39	16	15	28	1.89
3413814--3413863	27	2.0	27	84	11	70	42	0	4	54	1.19
3415395--3415422	4	7.0	4	100	0	56	0	25	0	75	0.81
3416769--3416800	6	5.3	6	92	0	55	18	0	34	46	1.49
3421019--3421054	16	2.2	16	90	0	54	36	0	0	63	0.94
3421634--3421692	25	2.2	25	85	8	73	47	8	3	40	1.51
3421624--3421786	28	6.0	27	72	9	100	52	6	7	33	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3421743--3421812	29	2.4	29	80	4	79	54	11	7	27	1.62
3425045--3425454	2	213.0	2	77	7	303	0	62	0	37	0.98
3426165--3426228	23	2.8	23	92	0	101	31	3	20	45	1.67
3431272--3431305	2	17.5	2	93	6	61	50	0	0	50	1.00
3438276--3438315	21	1.9	21	94	0	71	30	15	7	47	1.72
3438310--3438408	33	3.0	33	91	1	155	31	7	15	46	1.72
3438644--3438700	21	2.7	21	91	0	96	19	26	26	28	1.99
3438867--3438922	15	3.6	15	74	9	58	32	10	12	44	1.77
3449345--3449376	6	5.3	6	92	0	55	62	0	3	34	1.11
3460780--3460849	34	2.1	34	100	0	140	22	20	14	42	1.88

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