genome.fa.s9592.2.7.7.80.10.50.1000.17.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: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7920512

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   39   

This is table  17  of  39  ( 4673 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)
3409839--3409877	16	2.5	16	91	4	62	46	2	2	48	1.29
3414619--3414681	28	2.2	28	86	5	83	39	3	14	42	1.61
3418843--3418878	18	2.0	18	88	0	54	33	19	22	25	1.97
3420555--3420596	18	2.3	18	91	0	66	59	2	9	28	1.41
3420790--3420889	51	2.0	51	86	4	139	24	28	31	17	1.97
3420790--3420909	51	2.4	51	80	8	136	22	27	32	17	1.96
3425268--3425302	14	2.4	15	85	9	54	60	5	5	28	1.43
3431511--3431569	30	2.0	30	86	0	82	61	11	11	15	1.58
3433199--3433949	82	9.2	80	83	9	750	23	19	23	34	1.97
3433188--3433948	164	4.7	164	85	6	932	23	19	23	33	1.97
3435186--3435318	30	4.4	29	74	20	123	13	10	36	39	1.79
3435193--3435247	24	2.2	25	87	12	78	14	9	34	41	1.77
3435190--3435328	59	2.2	62	85	12	178	12	10	36	40	1.77
3435861--3435907	18	2.7	18	86	3	69	27	29	8	34	1.87
3440094--3440156	2	31.5	2	100	0	126	50	0	0	49	1.00
3441643--3441696	23	2.4	23	81	3	65	53	7	20	18	1.68
3443623--3443692	35	2.0	35	97	0	131	18	11	21	48	1.79
3448821--3448850	16	1.9	15	93	6	51	20	26	33	20	1.97
3449071--3449100	14	2.1	14	100	0	60	80	0	0	20	0.72
3449140--3449214	33	2.2	36	86	11	104	42	4	2	50	1.35
3449140--3449214	35	2.1	36	85	11	102	42	4	2	50	1.35
3449178--3449246	29	2.3	30	82	2	86	40	5	2	50	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3449122--3449454	34	9.7	33	70	20	154	42	6	3	46	1.48
3449147--3449278	64	2.1	62	81	8	151	42	6	3	47	1.46
3450112--3450814	84	8.5	84	79	6	738	24	20	25	29	1.99
3450056--3450814	249	3.1	249	92	1	1204	24	20	25	30	1.99
3450112--3450814	165	4.2	165	83	6	700	24	20	25	29	1.99
3454202--3454246	19	2.4	19	96	3	83	68	8	11	11	1.39
3454856--3454885	15	1.9	16	93	6	53	70	10	13	6	1.34
3455899--3455965	26	2.5	26	97	2	125	56	2	11	28	1.50
3457267--3457344	36	2.2	36	86	9	106	43	5	2	48	1.38
3457276--3457408	64	2.1	62	84	6	169	42	6	3	46	1.48
3457249--3457587	34	9.8	34	69	22	151	43	6	3	46	1.47
3457263--3457562	136	2.2	136	78	13	291	44	6	3	46	1.46
3462552--3462599	24	2.0	25	83	4	62	64	0	0	35	0.94
3462721--3462835	60	1.9	61	89	3	180	32	26	5	35	1.79
3462977--3463144	60	2.8	59	80	6	144	42	4	19	33	1.72
3463022--3463144	60	2.1	60	83	4	151	44	3	18	33	1.66
3467096--3467128	2	16.5	2	93	0	57	48	0	3	48	1.17
3467951--3468000	20	2.5	20	96	0	91	30	6	20	44	1.75
3467951--3468011	20	3.0	20	90	0	68	29	4	19	45	1.71
3468991--3469064	29	2.6	29	100	0	148	39	10	20	29	1.86
3469647--3469709	31	2.0	31	100	0	126	26	31	9	31	1.88
3472328--3472520	30	6.4	30	96	0	350	33	23	18	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3472328--3472545	90	2.4	90	92	2	330	34	23	18	23	1.96
3472506--3472598	31	3.0	31	78	9	93	36	20	16	26	1.93
3472753--3472798	4	12.0	4	90	9	78	50	26	0	23	1.50
3472755--3472798	22	2.0	22	100	0	88	50	27	0	22	1.50
3472759--3472795	18	2.1	18	100	0	74	51	27	0	21	1.48
3472669--3472919	128	2.0	128	98	0	484	35	23	2	39	1.68
3472881--3474441	4	395.5	4	88	4	2242	50	28	0	20	1.51
3472895--3473224	2	166.5	2	77	3	326	50	39	0	10	1.37
3475305--3475340	18	2.0	18	88	0	54	11	27	36	25	1.90
3475367--3475409	21	2.0	21	86	0	59	16	23	30	30	1.96
3478733--3478925	30	6.4	30	97	0	359	32	22	19	24	1.97
3478733--3478947	90	2.4	90	92	0	322	33	22	19	24	1.97
3478908--3479003	31	3.1	30	74	12	88	34	19	17	28	1.95
3479178--3479818	4	162.2	4	97	2	1226	50	24	0	25	1.50
3480157--3480225	2	34.5	2	100	0	138	50	0	0	49	1.00
3480732--3480768	19	1.9	19	88	0	56	10	29	35	24	1.89
3480796--3480838	21	2.0	21	81	0	50	16	25	30	27	1.97
3481659--3481718	31	1.9	31	93	0	102	28	28	8	35	1.86
3487555--3487584	16	1.9	16	93	6	53	73	0	0	26	0.84
3490038--3490081	18	2.4	18	81	7	54	27	9	6	56	1.55
3493950--3493981	17	1.9	17	93	6	57	31	0	25	43	1.55
3503448--3503669	57	3.9	57	78	6	250	40	3	17	38	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3503740--3503802	23	2.7	23	80	2	72	20	23	20	34	1.96
3503807--3503864	24	2.5	24	85	2	82	27	24	17	31	1.97
3504961--3504986	12	2.2	12	100	0	52	38	0	7	53	1.30
3511844--3511901	22	2.8	20	80	10	62	34	20	17	27	1.95
3519305--3519334	2	15.0	2	100	0	60	50	0	0	50	1.00
3525420--3525483	24	2.7	24	85	0	92	34	12	4	48	1.62
3527015--3527065	24	2.1	24	85	0	66	27	5	9	56	1.54
3540868--3541011	54	2.7	54	80	8	143	30	18	22	28	1.97
3541646--3541686	21	2.0	21	85	9	57	24	17	24	34	1.96
3546215--3546262	18	2.7	18	78	9	53	27	16	0	56	1.41
3546759--3546794	18	1.9	19	88	5	56	47	27	0	25	1.52
3550332--3550456	54	2.3	53	79	4	135	32	17	21	28	1.96
3550441--3550492	20	2.5	21	84	6	70	23	23	26	26	2.00
3551050--3551120	23	3.1	23	89	2	108	23	26	21	28	1.99
3552606--3552728	54	2.3	55	92	4	205	27	20	21	30	1.98
3555893--3556026	29	4.7	29	84	6	166	38	23	5	32	1.77
3563366--3563496	28	4.7	29	81	7	155	35	24	6	33	1.80
3563498--3563538	17	2.4	17	91	0	64	14	21	43	19	1.87
3579010--3579044	17	2.1	17	100	0	70	11	57	17	14	1.66
3580348--3580375	2	14.0	2	100	0	56	50	0	0	50	1.00
3589423--3589457	12	2.8	12	91	4	52	37	11	5	45	1.64
3590839--3590888	24	2.1	23	89	10	75	14	0	24	62	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3590855--3590906	23	2.2	24	82	3	61	21	0	21	57	1.41
3590996--3591056	30	2.0	30	96	0	113	39	8	16	36	1.78
3595792--3595822	15	2.1	15	93	0	53	45	0	0	54	0.99
3596229--3597164	490	1.9	489	90	2	1479	30	16	17	36	1.91
3598386--3598421	16	2.2	17	90	5	56	0	16	2	80	0.83
3602359--3602417	30	2.0	30	96	0	109	6	11	16	64	1.47
3605077--3605169	24	3.9	22	70	23	64	56	2	8	32	1.41
3606771--3607408	106	6.0	106	91	0	920	23	19	23	33	1.97
3607475--3607580	37	2.9	37	88	5	169	40	16	19	23	1.91
3607522--3607702	89	2.1	87	89	4	274	40	12	17	29	1.86
3607683--3607741	30	2.0	30	86	6	84	32	11	18	37	1.87
3607728--3607869	36	3.7	36	74	14	131	40	14	20	25	1.90
3607739--3607909	88	2.0	85	89	8	262	40	12	19	27	1.87
3609240--3609593	183	1.9	183	93	2	613	29	21	20	28	1.98
3613586--3613627	21	2.0	20	82	13	50	76	2	11	9	1.12
3613867--3613959	24	3.9	22	70	23	64	56	2	8	32	1.41
3625086--3625630	273	2.0	274	99	0	1083	24	26	14	34	1.94
3628843--3628867	12	2.1	12	100	0	50	16	0	52	32	1.44
3633083--3633129	21	2.2	21	84	0	58	19	0	59	21	1.38
3643096--3643162	23	2.9	23	95	0	116	40	14	19	25	1.90
3643160--3643204	24	1.9	23	86	4	63	46	11	13	28	1.77
3643165--3643227	23	2.6	25	76	16	62	44	14	14	26	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3643227--3643294	23	3.0	23	95	0	127	42	10	20	26	1.84
3643119--3643331	109	2.0	109	83	3	268	42	12	17	27	1.86
3643093--3643369	132	2.1	132	95	0	509	43	13	16	25	1.85
3643297--3643364	23	2.9	23	84	2	82	45	16	13	25	1.83
3645234--3645271	16	2.2	18	86	9	53	63	7	5	23	1.42
3647208--3647248	14	2.9	14	85	3	55	53	2	0	43	1.13
3647508--3647549	21	2.0	21	95	0	75	21	4	40	33	1.74
3648068--3648094	2	13.5	2	100	0	54	51	48	0	0	1.00
3650324--3650528	66	3.1	65	75	9	175	39	12	18	29	1.88
3654308--3654349	2	20.5	2	95	4	75	50	2	0	47	1.14

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   39