genome.fa.s18.2.7.7.80.10.50.1000.24.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: Scaffold18
Parameters: 2 7 7 80 10 50 1000
Length:  4432388

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   

This is table  24  of  27  ( 3197 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)
3894729--3895443	163	4.3	166	79	8	660	30	10	8	51	1.65
3894714--3895443	331	2.2	328	79	7	746	29	10	8	51	1.66
3897293--3898277	156	6.3	155	78	4	847	24	17	18	39	1.91
3897293--3898145	311	2.7	310	83	1	994	25	18	17	39	1.92
3897299--3898279	311	3.2	308	81	4	961	24	17	18	39	1.92
3901745--3901777	10	3.4	10	87	4	50	87	0	12	0	0.53
3901745--3901787	19	2.2	19	87	4	59	83	0	13	2	0.74
3903044--3903309	91	3.0	90	83	7	301	29	24	16	30	1.96
3903139--3903373	91	2.6	91	79	12	250	28	27	13	30	1.94
3903534--3903666	48	2.8	48	83	0	149	19	22	15	42	1.88
3903585--3903749	83	2.0	83	80	3	188	18	20	15	45	1.85
3903524--3903797	131	2.1	132	84	2	354	19	21	16	43	1.88
3903690--3903924	48	4.9	48	82	0	256	21	19	20	38	1.93
3904104--3904211	44	2.5	44	81	0	135	23	29	12	34	1.92
3903983--3904211	88	2.6	88	79	6	216	23	28	12	36	1.91
3904293--3904747	44	10.4	44	70	10	286	21	22	16	39	1.92
3904224--3904535	88	3.5	88	82	4	378	21	24	16	37	1.93
3903981--3904393	229	1.8	229	84	2	569	22	28	13	35	1.92
3904376--3904667	132	2.2	132	85	1	388	22	21	16	39	1.92
3904224--3904653	88	4.9	89	81	4	358	21	23	16	38	1.92
3904508--3904795	88	3.3	88	81	2	339	21	22	15	40	1.91
3905382--3905416	2	17.5	2	100	0	70	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3906411--3907030	155	4.0	151	73	8	462	23	17	18	39	1.92
3909000--3909044	21	2.1	21	100	0	90	35	8	15	40	1.79
3913352--3913480	52	2.5	52	97	0	240	29	19	17	34	1.94
3913545--3913628	13	5.5	13	71	28	60	39	16	13	30	1.87
3913554--3913649	19	5.7	18	71	26	86	40	16	12	30	1.86
3913545--3913647	32	3.2	32	97	0	188	38	17	12	31	1.87
3914381--3914753	49	7.7	48	82	6	427	31	19	25	24	1.98
3914377--3914761	98	4.0	97	89	5	586	31	18	25	23	1.98
3914381--3914761	147	2.7	141	84	5	500	31	19	25	23	1.98
3914770--3915011	58	4.2	58	87	3	319	21	17	30	30	1.96
3914782--3915019	30	8.1	30	81	9	258	23	17	30	28	1.97
3914782--3915019	88	2.7	87	85	5	300	23	17	30	28	1.97
3916455--3916540	15	5.8	14	79	15	68	0	2	13	83	0.74
3916470--3916540	1	71.0	1	74	0	52	0	2	11	85	0.69
3916464--3916540	16	4.8	15	85	9	91	0	2	12	84	0.73
3916455--3916542	39	2.3	39	82	9	117	0	2	14	82	0.76
3916464--3916540	13	6.0	12	74	18	66	0	2	12	84	0.73
3916455--3916528	7	9.7	7	78	21	78	0	2	13	83	0.74
3944549--3944678	52	2.5	52	94	1	224	29	20	18	32	1.96
3944549--3944698	52	2.9	52	90	5	187	31	19	18	31	1.95
3944764--3944828	19	3.7	19	75	23	79	38	16	12	32	1.86
3944756--3944826	32	2.2	32	94	0	124	38	16	12	32	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3944783--3944807	13	1.9	13	100	0	50	32	16	16	36	1.90
3946414--3946578	79	2.1	79	85	4	217	32	15	25	26	1.96
3946447--3946632	79	2.4	79	81	8	202	33	14	25	26	1.94
3946619--3946734	51	2.3	51	83	3	135	33	12	24	29	1.92
3946717--3946792	28	2.7	29	80	6	95	27	19	30	22	1.98
3949160--3949234	20	3.8	19	84	7	96	42	14	17	25	1.87
3949250--3949279	13	2.3	13	94	0	51	40	10	16	33	1.82
3949898--3950125	42	5.7	40	71	22	122	43	13	25	17	1.85
3949987--3950168	42	4.2	42	78	12	183	43	13	25	17	1.85
3950005--3950189	42	4.4	43	77	11	163	38	15	25	20	1.92
3950159--3950345	61	3.1	59	86	8	243	30	20	25	23	1.98
3950194--3950581	213	1.8	209	86	5	557	27	20	28	23	1.99
3950389--3950682	55	5.2	55	81	10	281	25	20	27	26	1.99
3950389--3950935	116	5.0	109	71	16	416	26	19	28	25	1.99
3950411--3950967	171	3.4	172	77	11	701	27	19	27	25	1.99
3950505--3950907	210	1.9	208	82	9	505	27	19	28	25	1.98
3950170--3950963	326	2.4	324	90	3	1220	27	20	28	24	1.99
3950560--3950963	155	2.5	155	80	10	418	26	19	28	25	1.98
3950766--3950967	55	3.6	55	85	9	248	26	20	28	25	1.99
3950715--3950967	116	2.2	113	83	11	300	26	19	28	26	1.99
3957104--3957252	79	1.9	79	84	8	205	37	13	22	26	1.91
3957104--3957269	79	2.1	79	82	8	196	39	12	21	27	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3957282--3957392	51	2.2	51	81	3	125	33	12	22	31	1.91
3959545--3959616	28	2.6	28	88	0	99	23	19	34	22	1.96
3959466--3959699	106	2.2	108	87	3	332	31	15	26	25	1.96
3959573--3959784	79	2.7	77	86	4	273	32	16	25	26	1.96
3959730--3959804	27	2.7	27	87	2	96	24	21	32	22	1.98
3959418--3959853	185	2.4	186	84	6	564	32	14	25	27	1.95
3962227--3962252	13	2.0	13	100	0	52	38	15	15	30	1.88
3962301--3962399	19	5.9	17	69	26	70	37	18	12	32	1.87
3962297--3962401	32	3.3	32	97	0	192	36	18	12	33	1.88
3962319--3962380	13	4.2	14	76	23	65	35	17	12	33	1.88
3962368--3962429	19	3.2	19	71	13	54	27	14	14	43	1.84
3964148--3964222	20	3.8	19	80	7	87	41	12	16	30	1.84
3969725--3969749	13	1.9	13	100	0	50	32	16	16	36	1.90
3969702--3969767	33	2.0	33	93	0	114	28	16	18	36	1.93
3969840--3969865	13	2.0	13	100	0	52	38	15	15	30	1.88
3969822--3969885	33	2.0	32	87	9	94	40	17	14	28	1.88
3976045--3976082	13	2.9	13	88	0	58	34	15	10	39	1.82
3976214--3976254	22	2.0	21	86	13	59	31	21	4	41	1.74
3976513--3976564	20	2.4	21	84	9	61	21	50	25	3	1.65
3978657--3978682	13	2.0	13	100	0	52	38	15	15	30	1.88
3985307--3985345	19	2.1	19	95	4	71	20	5	5	69	1.28
3988127--3988170	16	2.8	16	82	0	52	34	15	15	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3991826--3991873	20	2.3	20	78	7	51	56	0	0	43	0.99
3991905--3991933	2	14.5	2	100	0	58	48	0	0	51	1.00
3993149--3993195	15	3.3	15	85	11	55	34	0	4	61	1.15
3998227--3998281	23	2.2	26	81	15	71	61	3	3	30	1.30
3999554--3999581	2	14.0	2	100	0	56	50	0	0	50	1.00
4000327--4000360	2	17.0	2	100	0	68	50	0	0	50	1.00
4002408--4002450	21	2.1	20	86	4	59	18	0	2	79	0.85
4002412--4002457	21	2.1	22	84	4	58	21	0	4	73	1.00
4003788--4003835	10	4.5	11	79	10	55	33	0	0	66	0.92
4003788--4003835	22	2.2	21	89	10	71	33	0	0	66	0.92
4003790--4003836	11	4.5	10	80	15	51	34	0	0	65	0.93
4004746--4004778	16	2.0	17	88	5	50	18	0	6	75	1.00
4005562--4005615	8	6.5	8	83	14	65	85	1	12	0	0.69
4005562--4005615	18	3.2	17	89	5	74	85	1	12	0	0.69
4008393--4008418	3	8.7	3	100	0	52	30	0	0	69	0.89
4008843--4008901	32	1.9	30	83	13	75	59	10	10	20	1.58
4009182--4009207	13	2.0	13	100	0	52	30	15	15	38	1.88
4009161--4009225	32	2.0	34	90	6	107	27	12	15	44	1.82
4009256--4009329	20	3.7	20	82	8	78	29	17	13	39	1.88
4009839--4009919	39	2.1	39	84	11	103	32	25	7	34	1.84
4011760--4011797	13	2.9	13	88	0	58	31	13	18	36	1.89
4013878--4013908	15	2.1	15	93	0	53	12	22	16	48	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4015711--4015755	21	2.1	21	84	8	56	22	20	4	53	1.63
4017634--4017692	32	1.9	30	83	13	75	59	10	10	20	1.58
4017952--4018016	32	2.0	34	87	6	98	29	12	13	44	1.81
4018047--4018120	20	3.7	20	82	8	78	29	17	13	39	1.88
4021276--4021302	13	2.1	13	100	0	54	29	14	14	40	1.86
4021347--4021399	13	4.5	13	71	26	55	33	13	16	35	1.88
4021331--4021399	33	2.1	33	89	5	104	31	13	18	36	1.89
4027565--4027604	13	3.1	13	92	0	71	32	15	12	40	1.84
4029474--4029520	24	1.9	24	86	4	67	38	4	25	31	1.75
4030148--4030204	19	2.9	19	87	5	78	33	14	15	36	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