genome.fa.s9605.2.7.7.80.10.50.1000.28.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: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9158330

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   

This is table  28  of  35  ( 4090 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)
6749288--6749343	18	2.9	19	84	10	69	41	7	12	39	1.70
6751031--6751090	23	2.5	26	82	15	76	11	18	8	61	1.54
6751699--6751731	11	3.0	11	100	0	66	54	18	18	9	1.69
6771484--6771541	28	2.1	27	83	3	71	8	15	17	58	1.61
6773279--6773343	24	2.7	23	71	15	60	38	10	16	33	1.84
6773915--6774529	311	2.0	302	95	4	1117	33	24	12	29	1.92
6775713--6775759	18	2.5	18	89	6	67	34	12	8	44	1.73
6777443--6777484	15	2.6	16	85	7	59	69	0	11	19	1.19
6779656--6779784	36	3.7	36	83	4	147	31	3	34	31	1.76
6784382--6784423	22	1.9	22	90	0	66	35	42	2	19	1.64
6787536--6787819	140	2.0	140	99	0	559	31	15	15	36	1.90
6787643--6788156	256	2.0	258	98	0	1005	30	17	17	34	1.93
6792674--6792712	14	2.9	14	92	3	62	33	0	41	25	1.56
6793916--6793975	30	2.0	31	83	3	77	26	8	10	55	1.61
6794480--6794518	10	3.7	10	90	10	60	25	10	43	20	1.83
6794885--6794920	18	1.9	19	88	5	56	38	16	5	38	1.72
6794885--6794938	21	2.7	19	81	10	63	40	14	5	38	1.70
6802134--6802171	12	3.1	12	92	3	58	0	23	0	76	0.79
6802132--6802171	8	4.8	8	84	9	53	0	22	0	77	0.77
6802128--6802168	17	2.6	16	92	7	66	0	21	0	78	0.76
6803099--6803129	10	3.2	10	95	4	55	0	19	0	80	0.71
6803104--6803140	13	2.7	14	88	12	51	0	21	0	78	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6801699--6803636	968	2.0	968	96	2	3625	30	16	19	33	1.94
6806578--6806617	13	3.1	13	92	7	64	0	22	0	77	0.77
6806576--6806617	18	2.3	18	100	0	84	0	21	0	78	0.75
6806576--6806610	5	7.4	5	87	12	56	0	20	0	80	0.72
6808720--6808769	20	2.5	20	75	12	57	26	20	12	42	1.86
6809199--6809237	10	3.7	10	90	10	60	25	10	43	20	1.83
6809567--6809603	19	1.9	19	88	0	56	37	16	5	40	1.71
6809567--6809621	22	2.7	19	76	15	56	40	14	5	40	1.69
6811063--6811133	14	5.1	14	93	1	117	23	39	1	35	1.64
6814421--6814624	63	3.3	62	82	6	243	31	17	19	31	1.95
6814421--6814624	31	6.5	31	73	9	155	31	17	19	31	1.95
6819185--6819241	27	2.1	27	83	6	71	12	15	12	59	1.61
6821852--6822034	91	2.0	91	92	0	303	20	28	22	28	1.98
6822857--6822885	15	2.0	15	93	6	51	75	3	20	0	0.94
6826220--6826400	91	2.0	91	87	0	263	20	26	21	30	1.98
6832328--6832383	2	28.0	2	100	0	112	50	0	0	50	1.00
6832416--6832453	20	1.9	20	100	0	76	52	5	18	23	1.65
6832687--6832781	32	3.0	32	78	9	122	34	20	14	30	1.92
6832643--6832808	31	5.3	31	73	8	120	31	17	16	33	1.93
6832640--6832824	63	2.9	63	86	0	262	32	16	17	32	1.93
6834321--6834412	36	2.6	35	89	1	130	29	4	36	29	1.77
6838262--6838301	20	2.0	20	100	0	80	65	0	25	10	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6838458--6838558	36	2.8	36	92	1	159	27	3	38	29	1.75
6845200--6845254	13	4.5	13	75	13	53	29	40	0	30	1.57
6845199--6845349	35	4.3	35	88	0	203	27	37	2	33	1.71
6849098--6849133	17	2.1	17	89	0	54	41	0	30	27	1.56
6849422--6849481	19	3.2	19	88	6	86	1	16	1	80	0.89
6849422--6849481	6	9.5	6	85	7	75	1	16	1	80	0.89
6849422--6849481	26	2.4	25	88	5	93	1	16	1	80	0.89
6851156--6851188	17	1.9	17	88	11	50	57	6	0	36	1.23
6856715--6856739	8	3.1	8	100	0	50	0	24	0	76	0.80
6856702--6856764	27	2.4	26	77	17	67	1	20	3	74	1.04
6857709--6857754	20	2.3	20	96	0	83	19	13	41	26	1.88
6860261--6860309	19	2.5	19	86	3	71	28	12	8	51	1.68
6862327--6862381	24	2.3	25	81	6	60	32	16	21	29	1.95
6864324--6864372	19	2.5	19	86	3	71	28	12	8	51	1.68
6866391--6866445	24	2.3	25	81	6	60	32	16	21	29	1.95
6870767--6870895	64	2.0	64	98	0	249	29	22	20	27	1.99
6875450--6875505	13	4.7	11	74	21	51	0	19	3	76	0.93
6882102--6882136	17	2.0	18	88	5	54	57	0	20	22	1.41
6882256--6882324	33	2.1	33	83	5	86	31	1	36	30	1.67
6887929--6887997	33	2.1	33	83	5	86	31	1	36	30	1.67
6901830--6901871	16	2.8	16	86	10	54	0	21	0	78	0.75
6901860--6901913	23	2.2	25	87	6	76	7	18	12	61	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6905402--6905441	21	1.9	21	84	0	53	57	5	12	25	1.55
6913745--6913784	21	1.9	21	90	10	64	20	27	5	47	1.70
6916250--6916326	33	2.3	33	82	8	86	31	1	36	31	1.66
6926424--6926492	33	2.1	33	83	5	86	31	1	36	30	1.67
6929330--6929369	21	1.9	21	90	10	64	20	27	5	47	1.70
6934009--6934037	15	2.0	15	93	6	51	75	3	20	0	0.94
6935323--6935380	24	2.5	23	81	16	66	37	18	13	29	1.90
6935342--6935387	24	2.0	23	86	4	65	43	15	13	28	1.83
6939826--6939858	13	2.5	13	100	0	66	33	36	0	30	1.58
6945952--6946007	24	2.3	24	100	0	112	28	17	16	37	1.91
6946250--6946290	21	2.0	21	100	0	82	9	34	24	31	1.88
6946252--6946298	21	2.2	21	92	0	76	10	34	19	36	1.86
6952067--6952107	15	2.6	16	78	17	50	31	7	4	56	1.48
6970824--6970872	16	2.9	16	93	6	80	0	20	0	79	0.73
6970828--6970865	5	7.4	5	94	5	67	0	18	0	81	0.69
6981227--6981262	14	2.7	13	86	4	54	0	2	11	86	0.68
6981206--6981262	19	3.0	19	85	10	64	0	5	14	80	0.87
6981206--6981262	20	3.0	20	82	10	57	0	5	14	80	0.87
6982512--6982583	24	3.0	24	97	0	135	56	4	18	20	1.57
6989710--6989761	21	2.6	19	87	6	68	34	15	5	44	1.70
6993835--6993884	20	2.6	19	77	3	55	38	14	6	42	1.70
6998832--6998878	15	3.1	15	96	0	85	12	17	0	70	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6998839--6998888	15	3.3	15	83	10	59	14	16	2	68	1.31
7010360--7013295	986	3.0	986	96	1	5320	35	17	17	28	1.93
7018486--7018553	11	5.7	11	77	14	55	4	10	7	77	1.09
7018486--7018553	12	5.7	12	82	3	66	4	10	7	77	1.09
7018494--7018539	12	3.8	12	88	8	67	6	15	2	76	1.09
7022119--7022178	11	5.5	11	75	9	61	1	10	8	80	0.99
7022139--7022169	13	2.4	13	94	0	53	3	12	3	80	0.95
7022112--7022155	10	4.4	10	83	11	54	2	11	11	75	1.15
7025755--7025820	11	5.7	12	84	10	84	1	10	9	78	1.02
7025755--7025820	24	2.9	22	84	8	87	1	10	9	78	1.02
7029396--7029446	23	2.3	23	93	3	86	3	13	5	76	1.11
7034847--7034894	6	8.3	6	77	9	55	79	2	14	4	0.98
7034847--7034878	11	2.9	11	100	0	64	84	0	15	0	0.63
7048044--7048095	19	2.6	21	90	6	81	46	7	13	32	1.72
7052252--7052294	20	2.2	20	91	4	70	48	6	11	32	1.66
7053777--7053829	13	4.2	13	76	11	56	20	16	0	62	1.33
7054224--7054267	15	2.8	16	89	6	63	13	15	0	70	1.17
7054600--7054692	30	3.1	30	100	0	186	37	12	17	32	1.88
7057754--7057806	25	2.1	25	100	0	106	33	28	26	11	1.91
7061585--7061642	23	2.5	24	80	5	73	6	15	13	63	1.49
7063459--7063492	16	2.2	16	89	5	52	29	32	0	38	1.58
7081506--7081558	20	2.8	18	81	15	63	0	18	3	77	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7104449--7104505	12	4.7	12	74	18	55	0	19	3	77	0.92
7118691--7118726	19	1.9	19	94	5	65	77	5	16	0	0.94
7121412--7122773	677	2.0	683	85	4	1820	30	19	17	32	1.95
7123396--7123508	36	3.2	36	91	1	165	31	36	4	27	1.77
7123429--7123494	13	5.5	11	74	22	62	33	34	3	28	1.73
7127917--7128029	36	3.2	36	91	1	165	31	36	4	27	1.77
7127950--7128015	13	5.5	11	74	22	62	33	34	3	28	1.73
7132438--7132550	36	3.2	36	91	1	165	31	36	4	27	1.77
7132471--7132536	13	5.5	11	74	22	62	33	34	3	28	1.73
7136959--7137071	36	3.2	36	91	1	165	31	36	4	27	1.77

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