genome.fa.s7999.2.7.7.80.10.50.1000.27.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   40   41   42   43   44   45   46   47   48   
          49   50   

This is table  27  of  50  ( 5918 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)
6638241--6638344	32	3.3	31	79	18	108	51	8	0	39	1.33
6638238--6638321	32	2.5	33	86	11	116	52	8	0	39	1.32
6638292--6638321	15	2.0	15	100	0	60	53	0	0	46	1.00
6638050--6638344	143	2.1	143	87	7	429	52	12	0	34	1.39
6641750--6641801	20	2.6	20	84	0	77	26	26	21	25	1.99
6641967--6642023	22	2.6	22	88	0	87	22	42	17	17	1.89
6642407--6642472	20	3.3	20	89	2	98	10	13	21	54	1.69
6644204--6644253	18	2.8	18	96	0	91	30	20	6	44	1.75
6644401--6644448	20	2.4	20	85	0	60	31	25	22	20	1.98
6644491--6644566	20	3.8	20	94	0	125	18	18	25	38	1.93
6645067--6645171	21	5.0	20	68	12	68	21	36	19	22	1.95
6645063--6645174	42	2.7	41	77	9	111	21	37	18	22	1.94
6646571--6646632	14	4.3	14	77	6	61	38	0	14	46	1.45
6646731--6646784	20	2.7	20	80	5	65	44	27	16	11	1.82
6646801--6646868	34	2.0	34	88	0	100	19	20	22	38	1.94
6646836--6647072	20	12.4	20	72	15	180	25	19	21	32	1.97
6646858--6647118	74	3.5	73	72	15	230	26	18	21	33	1.96
6646806--6647070	94	2.8	93	83	1	323	25	20	21	33	1.97
6646974--6647118	54	2.7	54	89	0	218	24	16	23	35	1.95
6647093--6647355	140	1.9	140	95	0	481	43	15	12	28	1.83
6649715--6649768	24	2.2	24	93	0	90	40	20	18	20	1.91
6650589--6650667	20	4.0	20	91	0	122	26	20	26	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6650590--6650676	20	4.3	20	91	0	120	26	19	25	28	1.99
6650645--6650735	20	4.6	20	84	2	112	25	17	16	40	1.90
6650605--6650735	40	3.3	40	81	4	131	25	18	19	36	1.94
6652349--6652385	15	2.5	15	95	0	65	21	8	21	48	1.76
6653796--6653885	21	4.3	21	91	0	126	34	12	32	21	1.90
6656242--6656275	15	2.4	14	90	5	50	29	8	26	35	1.87
6656424--6656486	23	2.7	23	87	0	99	12	23	25	38	1.90
6663429--6663487	24	2.5	24	85	0	73	32	25	22	20	1.98
6664551--6664591	21	2.0	21	85	9	57	21	9	14	53	1.70
6668099--6668168	35	2.0	35	100	0	140	42	8	17	31	1.79
6682582--6682662	24	3.4	24	82	0	90	40	18	14	25	1.89
6684046--6684079	16	2.1	16	94	0	59	38	14	5	41	1.70
6686681--6686729	22	2.2	22	85	0	62	44	6	8	40	1.59
6686689--6686732	22	2.0	22	100	0	88	40	4	4	50	1.43
6688576--6688809	110	2.1	110	88	3	346	37	18	10	33	1.86
6688603--6688847	110	2.2	111	86	5	336	36	17	10	35	1.85
6688622--6688810	55	3.4	55	91	2	317	37	19	11	32	1.87
6689196--6689249	22	2.6	21	88	8	76	31	18	16	33	1.93
6689286--6689323	20	1.9	20	88	0	58	18	34	13	34	1.89
6695232--6695405	55	3.2	54	85	4	224	35	18	13	32	1.90
6695786--6695838	22	2.6	21	85	8	74	30	11	16	41	1.84
6702200--6702240	21	2.0	21	85	9	57	19	14	26	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6703528--6703574	26	1.9	25	87	12	71	68	12	4	14	1.36
6703528--6703596	22	2.9	23	79	12	61	63	11	4	20	1.44
6708066--6708110	3	15.0	3	100	0	90	33	0	0	66	0.92
6708067--6708120	6	8.4	7	95	4	57	31	0	1	66	1.02
6708096--6708206	36	3.3	36	67	21	112	35	5	9	50	1.57
6708096--6708225	65	2.0	65	100	0	260	35	6	9	49	1.60
6709437--6709504	34	2.0	34	97	0	127	38	23	13	25	1.91
6711549--6711654	31	3.5	30	74	7	81	20	16	18	43	1.88
6717527--6717572	17	2.7	17	79	0	56	19	41	19	19	1.91
6718183--6718285	29	3.5	30	78	5	93	17	21	20	40	1.91
6718180--6718262	29	2.8	29	83	1	94	15	21	19	43	1.88
6718210--6718306	29	3.3	29	78	7	90	16	24	15	43	1.87
6719446--6719484	20	2.0	19	85	5	51	12	12	23	51	1.74
6720248--6720322	10	7.7	10	69	21	61	9	12	21	57	1.62
6720254--6720318	16	4.1	16	95	0	121	7	12	23	56	1.61
6722291--6722323	2	16.5	2	100	0	66	51	0	0	48	1.00
6722775--6722953	86	2.1	86	95	0	322	33	12	14	39	1.84
6722971--6723003	17	1.9	17	93	0	57	21	0	18	60	1.36
6727577--6727655	20	4.0	20	81	0	86	34	35	15	15	1.89
6731286--6731380	30	3.1	30	79	7	120	43	10	3	43	1.55
6733358--6733384	4	6.8	4	100	0	54	25	0	74	0	0.83
6737933--6738175	120	2.0	120	93	0	414	42	14	17	25	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6741088--6741136	17	2.9	17	75	19	50	51	0	4	44	1.20
6742800--6742969	81	2.1	81	87	1	250	37	14	19	28	1.91
6753979--6756241	12	188.9	12	97	0	3976	25	2	24	47	1.64
6753979--6756241	8	283.4	8	97	0	3976	25	2	24	47	1.64
6759692--6759796	37	2.8	37	72	20	94	25	2	7	63	1.35
6759757--6759803	22	2.2	20	85	7	58	27	0	6	65	1.16
6760940--6761093	73	2.1	73	96	1	281	38	14	18	27	1.90
6765687--6765718	2	16.0	2	100	0	64	50	0	0	50	1.00
6766544--6766576	16	2.0	17	94	5	59	39	0	0	60	0.97
6766544--6766592	12	3.6	13	83	13	55	34	0	0	65	0.93
6766554--6766592	13	3.1	13	85	7	62	33	0	0	66	0.92
6766554--6766611	25	2.3	24	85	11	73	34	0	1	63	1.04
6770860--6770955	21	4.6	21	73	0	84	40	21	14	22	1.90
6773742--6773772	12	2.6	12	89	0	53	80	9	6	3	0.99
6779750--6779826	23	3.7	21	78	11	70	25	24	25	23	2.00
6779750--6779828	20	3.7	22	79	9	85	25	25	25	24	2.00
6786512--6786549	2	19.0	2	100	0	76	50	0	0	50	1.00
6787452--6787505	20	2.7	19	75	8	63	33	31	18	16	1.93
6787490--6787587	21	4.7	21	69	15	69	37	20	21	20	1.94
6787559--6788088	20	26.3	20	76	9	330	35	25	18	20	1.95
6787559--6787827	81	3.3	81	84	5	296	38	24	17	18	1.92
6787616--6788088	40	11.7	40	79	9	365	34	25	18	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6787899--6787945	21	2.2	21	84	0	67	19	27	17	36	1.93
6788928--6788981	24	2.2	24	90	0	81	22	18	18	40	1.91
6791394--6791487	20	4.7	20	89	2	145	34	24	22	19	1.97
6791459--6791554	33	2.8	33	90	3	138	41	20	23	13	1.88
6791492--6791560	19	3.8	19	73	21	76	44	18	21	14	1.85
6791569--6791653	33	2.5	33	92	1	134	14	23	18	43	1.87
6791635--6791688	20	2.7	21	94	5	94	18	22	22	37	1.95
6791786--6791822	14	2.6	14	86	0	56	48	21	0	29	1.50
6793167--6793278	42	2.7	42	75	5	111	22	17	38	21	1.93
6793766--6793804	20	2.0	20	89	0	60	35	20	20	23	1.96
6793839--6793901	19	3.3	19	86	4	83	11	15	26	46	1.80
6793849--6793931	19	4.8	17	79	11	73	8	20	25	45	1.79
6794019--6794398	94	4.1	94	94	1	647	47	18	12	21	1.81
6796088--6796160	19	4.1	19	74	16	84	46	19	21	12	1.82
6796187--6796237	20	2.5	20	90	0	75	13	13	21	50	1.76
6796796--6797070	20	13.6	20	70	15	136	19	16	23	40	1.91
6796793--6796994	40	5.0	40	80	4	192	20	15	23	40	1.91
6796798--6797009	41	5.2	41	86	1	275	19	16	23	40	1.91
6796795--6797070	81	3.4	81	76	7	265	19	16	23	40	1.91
6797064--6797115	21	2.5	21	75	12	52	26	19	21	32	1.97
6801046--6801112	34	2.0	34	82	11	84	20	22	11	44	1.84
6801048--6801112	33	1.9	34	81	9	80	20	23	12	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6801626--6802162	200	2.7	197	80	6	543	34	9	20	35	1.86
6805553--6805655	36	2.9	36	95	0	179	25	15	14	44	1.84
6805865--6805909	19	2.4	19	92	0	72	31	11	6	51	1.63
6805878--6805917	9	4.4	9	81	12	55	25	12	7	55	1.63
6805874--6805910	19	1.9	19	100	0	74	27	16	5	51	1.66
6814518--6814542	9	2.8	9	100	0	50	68	0	24	8	1.16
6817203--6817232	16	1.9	15	93	6	51	33	0	16	50	1.46
6817986--6818086	20	4.7	23	72	17	83	23	30	19	25	1.98
6817986--6818086	43	2.3	43	94	0	175	23	30	19	25	1.98
6820074--6820110	19	1.9	19	88	0	56	45	2	16	35	1.61

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   40   41   42   43   44   45   46   47   48   
          49   50