genome.fa.s412.2.7.7.80.10.50.1000.30.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: Scaffold412
Parameters: 2 7 7 80 10 50 1000
Length:  4645160

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   

This is table  30  of  32  ( 3728 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)
4319736--4319819	32	2.7	30	75	15	80	23	13	17	45	1.84
4319742--4319823	16	5.1	16	65	11	51	25	13	15	45	1.83
4323037--4323061	13	1.9	13	100	0	50	36	16	16	32	1.90
4323104--4323166	19	3.7	18	76	24	73	36	17	12	33	1.88
4323123--4323179	13	3.9	13	76	24	60	33	17	14	35	1.90
4323102--4323181	32	2.5	32	95	0	151	37	16	12	33	1.86
4324579--4324628	17	3.3	15	76	13	57	38	2	0	60	1.09
4324785--4324813	14	2.0	15	93	6	51	37	13	27	20	1.91
4324982--4325029	2	24.0	2	95	0	87	50	2	0	47	1.12
4325232--4325260	2	14.5	2	100	0	58	48	0	0	51	1.00
4327456--4327494	16	2.4	16	86	0	51	23	17	15	43	1.87
4328600--4328642	22	2.0	21	86	13	61	58	0	0	41	0.98
4328681--4328706	13	2.0	13	100	0	52	7	0	7	84	0.77
4330694--4330729	17	2.1	17	89	5	54	27	0	0	72	0.85
4333220--4333260	14	2.9	14	96	3	73	19	0	0	80	0.71
4333220--4333260	5	8.4	5	94	5	75	19	0	0	80	0.71
4334111--4334159	12	4.2	12	82	15	59	6	18	0	75	1.00
4334111--4334151	11	3.7	11	90	0	64	7	19	0	73	1.07
4334529--4334995	166	2.8	166	77	9	400	47	9	9	32	1.70
4336274--4336307	16	2.2	16	89	5	52	17	2	8	70	1.25
4336902--4336955	27	2.0	28	82	10	67	27	1	5	64	1.26
4338060--4338119	31	1.9	31	83	6	77	20	5	20	55	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4341158--4341200	2	22.0	2	90	4	70	48	2	0	48	1.14
4341533--4341577	18	2.4	19	85	3	56	55	0	2	42	1.12
4342042--4342127	31	2.8	30	80	5	82	33	3	3	59	1.31
4342581--4342607	2	13.5	2	100	0	54	0	48	0	51	1.00
4346110--4346184	30	2.5	30	82	0	96	42	13	12	32	1.80
4349068--4349140	35	2.1	35	100	0	146	31	2	21	43	1.67
4352751--4352792	2	21.5	2	85	4	59	52	0	0	47	1.00
4353475--4353527	27	1.9	28	85	11	74	41	0	0	58	0.98
4353724--4353764	3	13.7	3	100	0	82	31	0	0	68	0.90
4354263--4354295	17	1.9	17	100	0	66	39	0	0	60	0.97
4354436--4354474	19	2.1	19	100	0	78	38	20	20	20	1.94
4365614--4365638	13	1.9	13	100	0	50	40	16	8	36	1.77
4366875--4366924	25	2.0	25	88	4	73	42	2	2	54	1.23
4367967--4368075	25	4.3	24	70	18	69	63	0	0	36	0.95
4367995--4368078	13	6.5	13	72	15	57	63	0	0	36	0.95
4367984--4368033	11	4.3	11	82	12	55	64	0	0	36	0.94
4379020--4379089	7	10.0	7	75	14	56	62	0	0	37	0.95
4379024--4379088	6	11.5	6	73	14	50	63	0	0	36	0.95
4379014--4379086	15	4.5	15	77	15	58	60	0	0	39	0.97
4382427--4382510	27	3.1	27	89	5	125	17	4	10	66	1.39
4388364--4388391	13	2.2	13	100	0	56	35	0	0	64	0.94
4391130--4391185	21	2.8	19	74	17	51	67	0	1	30	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4391973--4392006	12	2.8	12	90	0	50	76	0	0	23	0.79
4392075--4392118	19	2.4	19	88	3	63	68	0	2	29	1.02
4392207--4392272	24	2.7	25	81	9	82	69	9	0	21	1.15
4392257--4392298	18	2.3	18	87	4	57	66	4	0	28	1.12
4392688--4392742	24	2.3	25	79	17	64	72	1	25	0	0.94
4392671--4392742	15	4.9	15	72	6	58	75	1	22	1	0.96
4393328--4393378	25	2.0	25	81	7	59	39	0	3	56	1.18
4393699--4393733	18	1.9	18	88	0	52	25	2	2	68	1.17
4394640--4394694	20	2.8	20	83	5	67	54	0	0	45	0.99
4394644--4394702	27	2.2	27	85	11	77	50	0	1	47	1.11
4395986--4396034	21	2.3	22	82	10	66	36	6	10	46	1.63
4397510--4397546	17	2.2	17	95	0	65	75	0	8	16	1.02
4401268--4401331	34	1.9	33	87	3	92	53	0	1	45	1.10
4401754--4401810	30	1.9	30	86	13	82	40	1	5	52	1.34
4401758--4401831	30	2.4	29	78	10	69	43	1	4	51	1.29
4402916--4402961	17	2.8	16	87	6	65	65	0	0	34	0.93
4405015--4405170	77	2.0	77	89	0	240	28	14	17	39	1.89
4407750--4407849	20	5.3	20	62	27	58	55	1	0	44	1.06
4407697--4407856	73	2.2	73	89	2	250	57	1	0	40	1.11
4407722--4407782	32	1.9	32	86	3	88	57	1	1	39	1.18
4407781--4407844	32	2.1	30	85	11	85	50	1	0	48	1.10
4407843--4407872	6	4.8	6	95	4	51	80	0	0	20	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4410047--4410141	48	2.0	49	95	2	174	43	9	5	42	1.59
4411869--4411908	18	2.3	17	86	4	53	55	0	0	45	0.99
4411897--4411963	12	5.9	12	73	21	56	67	0	1	31	1.00
4411899--4411956	14	4.1	15	77	16	61	68	0	1	29	0.99
4411924--4411966	11	3.9	11	85	8	61	72	0	0	27	0.85
4411895--4411955	29	2.1	31	85	11	85	67	0	1	31	1.01
4411877--4411968	23	4.2	22	72	14	82	65	0	1	33	1.00
4411893--4411983	23	3.6	26	72	20	84	63	0	1	35	1.02
4411975--4412033	21	2.8	20	73	19	57	49	0	0	50	1.00
4412905--4412990	43	2.0	43	95	0	154	9	26	19	44	1.81
4413166--4413190	5	5.0	5	100	0	50	80	0	0	20	0.72
4413676--4413742	11	6.4	11	75	15	54	65	0	0	34	0.93
4414633--4414702	16	4.4	16	80	7	79	37	2	1	58	1.22
4414643--4414704	17	3.8	17	85	10	85	38	1	1	58	1.18
4415261--4415314	26	2.1	27	82	6	67	48	1	0	50	1.11
4415519--4415574	28	1.9	30	82	7	71	48	3	0	48	1.19
4415612--4415677	27	2.4	27	78	12	64	54	3	1	40	1.25
4416716--4416753	20	1.9	20	88	0	58	50	0	10	39	1.37
4422315--4422378	20	3.2	19	74	20	58	62	0	1	35	1.05
4422315--4422426	21	5.8	18	68	21	50	58	0	0	40	1.11
4422853--4422913	30	2.0	32	83	6	81	44	4	0	50	1.23
4423985--4424036	23	2.2	24	80	16	56	71	0	5	23	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4425860--4425893	17	2.0	17	88	0	50	44	0	5	50	1.26
4425874--4425947	26	2.7	29	74	20	86	40	0	0	59	0.97
4425874--4425950	27	2.9	26	72	18	70	40	0	0	59	0.97
4428762--4428846	41	2.1	41	88	0	125	40	7	10	42	1.67
4428770--4428868	41	2.4	41	82	0	117	42	9	7	41	1.64
4428946--4429030	27	3.1	27	77	0	89	34	23	16	25	1.95
4429007--4429259	27	9.4	27	79	7	203	28	17	24	30	1.97
4429009--4429062	14	3.9	14	78	2	56	27	11	24	37	1.89
4429009--4429259	41	6.2	40	74	8	179	27	17	24	30	1.97
4429224--4429352	48	2.7	48	87	1	197	23	17	24	34	1.96
4429319--4429426	13	8.4	14	70	15	72	26	16	25	30	1.97
4431838--4432254	67	6.2	67	81	2	469	26	21	16	35	1.95
4431839--4432326	201	2.4	201	82	2	579	25	21	17	36	1.94
4431891--4432315	134	3.2	133	79	6	430	26	20	16	36	1.94
4432503--4432558	28	2.0	28	89	0	85	26	21	16	35	1.94
4432768--4433246	13	36.6	14	71	12	252	26	18	24	29	1.98
4432774--4433091	41	7.9	40	76	8	220	27	19	24	28	1.99
4432768--4433246	27	17.8	27	69	12	202	26	18	24	29	1.98
4433117--4433246	40	3.3	39	82	6	147	29	14	23	32	1.94
4435443--4435486	22	2.0	22	86	0	61	45	13	18	22	1.84
4439516--4439592	28	2.8	28	84	2	93	27	18	28	25	1.98
4440873--4440911	10	3.5	11	89	10	62	0	0	15	84	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4440873--4440911	20	2.0	20	94	0	69	0	0	15	84	0.62
4445893--4446021	52	2.5	52	93	0	213	30	17	17	34	1.93
4446010--4446074	20	3.6	20	73	26	81	38	15	18	27	1.91
4446030--4446055	13	2.0	13	100	0	52	38	15	15	30	1.88
4446009--4446074	33	2.0	33	100	0	132	39	15	18	27	1.90
4446115--4446181	33	2.0	33	88	0	98	40	14	11	32	1.83
4446137--4446161	13	1.9	13	100	0	50	32	16	16	36	1.90
4456235--4456371	70	2.0	68	90	5	213	39	8	20	31	1.83
4456314--4456518	99	2.1	99	84	9	267	34	11	22	31	1.90
4458719--4458767	16	3.0	17	85	8	66	22	0	2	75	0.90

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