genome.fa.s66.2.7.7.80.10.50.1000.17.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: Scaffold66
Parameters: 2 7 7 80 10 50 1000
Length:  4623749

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   

This is table  17  of  26  ( 3105 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)
2837832--2837888	24	2.3	25	78	3	62	43	1	1	52	1.21
2840185--2840209	2	12.5	2	100	0	50	0	52	0	48	1.00
2840662--2840699	10	3.9	10	82	3	51	42	0	0	57	0.98
2840660--2840698	20	2.0	19	95	5	69	38	0	0	61	0.96
2840683--2840740	25	2.4	24	77	8	64	50	0	1	48	1.11
2841011--2841069	31	1.9	31	82	6	75	44	3	3	49	1.36
2841211--2841246	19	1.9	19	88	5	56	61	0	0	38	0.96
2841305--2841347	17	2.4	19	85	14	56	27	2	2	67	1.15
2841559--2841599	21	1.9	22	85	14	59	36	0	0	63	0.95
2845776--2845810	15	2.5	13	86	13	52	28	0	2	68	1.04
2845709--2845939	108	2.1	110	85	7	312	40	6	6	45	1.58
2845709--2846010	108	2.8	108	80	12	304	40	7	7	44	1.62
2850990--2851029	19	2.1	19	90	9	64	42	0	2	55	1.13
2860631--2860725	9	10.6	9	73	11	70	2	22	2	73	1.04
2860631--2860691	26	2.3	26	91	0	95	1	19	1	77	0.95
2864522--2864653	36	3.2	40	66	26	92	10	20	13	55	1.68
2864523--2864651	43	3.0	42	68	13	109	10	20	13	55	1.67
2864458--2864660	86	2.3	86	88	4	300	10	21	11	56	1.65
2864805--2864974	50	3.3	52	71	21	178	41	8	20	29	1.82
2864823--2864894	29	2.4	30	86	9	94	40	9	22	27	1.85
2864835--2864913	29	3.0	26	79	15	83	37	8	22	30	1.85
2864880--2865031	40	3.9	40	69	20	142	42	8	20	28	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2864805--2864988	100	1.8	101	94	2	325	41	8	20	29	1.82
2864809--2865012	100	2.0	99	87	4	282	42	8	20	28	1.81
2865102--2865148	21	2.4	19	82	13	51	23	2	2	72	1.06
2865468--2865499	17	2.0	17	88	11	50	62	12	21	3	1.43
2865575--2866328	42	17.8	43	82	3	728	37	18	29	14	1.90
2865581--2866328	170	4.4	170	83	4	859	37	18	30	14	1.90
2870622--2870713	46	2.0	46	95	0	166	18	16	27	38	1.92
2880276--2880480	85	2.4	85	90	2	302	11	20	11	57	1.63
2880667--2880704	14	2.8	14	92	4	60	50	7	21	21	1.74
2880686--2880831	25	5.8	25	66	18	106	43	8	19	28	1.80
2880624--2880857	114	2.0	115	85	7	314	42	8	20	27	1.82
2880790--2880836	15	3.5	15	67	27	50	46	6	21	25	1.74
2880713--2880857	40	3.8	40	71	17	135	42	9	20	27	1.83
2880925--2880968	21	2.0	22	82	4	54	29	0	2	68	1.02
2880934--2880978	21	2.2	20	84	11	56	22	0	2	75	0.91
2881523--2881551	13	2.1	14	93	6	51	79	0	0	20	0.74
2881866--2881892	2	13.5	2	100	0	54	51	0	0	48	1.00
2882008--2882050	12	3.9	11	82	17	54	44	0	0	55	0.99
2882733--2882803	28	2.7	25	73	14	61	49	0	0	50	1.00
2882768--2882818	21	2.2	22	80	13	59	49	1	0	49	1.12
2883507--2883544	20	1.9	20	84	10	51	55	5	2	36	1.37
2888100--2888140	2	20.5	2	100	0	82	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2892888--2892931	19	2.2	19	84	8	52	34	0	2	63	1.07
2892869--2892929	30	2.0	30	81	6	70	31	0	3	65	1.09
2894570--2894613	19	2.2	20	88	4	63	38	9	15	36	1.80
2903322--2903362	21	2.0	21	85	4	57	43	2	0	53	1.13
2903341--2903417	30	2.7	28	78	11	84	36	3	1	58	1.25
2903453--2903539	29	2.9	30	84	3	104	54	4	4	36	1.42
2903446--2903540	30	3.2	28	82	8	100	51	4	4	40	1.41
2909312--2909346	18	1.9	18	88	0	52	60	0	0	40	0.97
2911744--2911775	2	16.0	2	100	0	64	50	0	0	50	1.00
2913709--2913755	25	1.9	24	83	12	60	42	6	19	31	1.76
2919966--2920021	24	2.4	23	75	18	62	50	1	0	48	1.11
2919970--2920083	30	3.9	30	78	12	128	53	0	0	44	1.12
2919971--2920109	57	2.4	56	78	13	140	53	2	0	42	1.20
2920038--2920122	27	3.1	26	78	11	64	56	3	2	37	1.29
2921332--2921386	21	2.6	22	82	8	78	49	1	0	49	1.11
2921627--2921679	5	9.2	6	87	8	51	47	0	0	52	1.00
2921654--2921687	5	7.2	5	87	12	54	41	0	0	58	0.98
2921612--2921665	24	2.3	23	81	15	65	50	0	0	50	1.00
2921700--2921752	20	2.5	21	81	9	63	47	0	0	52	1.00
2921769--2921827	19	3.1	19	82	4	64	55	0	1	42	1.09
2921783--2921829	20	2.3	20	81	0	58	63	0	0	36	0.94
2925636--2925680	22	2.2	20	88	8	63	44	0	2	53	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2925636--2925696	21	2.9	22	79	18	67	40	0	3	55	1.16
2925643--2925699	17	3.5	17	75	15	57	38	0	3	57	1.16
2928569--2928603	2	17.5	2	100	0	70	51	0	0	48	1.00
2930121--2930155	2	17.5	2	93	0	61	0	45	0	54	0.99
2930338--2930368	2	15.5	2	93	0	53	48	0	0	51	1.00
2940047--2940080	2	17.0	2	100	0	68	50	0	0	50	1.00
2940967--2941014	12	3.9	12	72	5	51	25	0	2	72	0.95
2949238--2949268	6	5.2	6	100	0	62	83	0	0	16	0.64
2949670--2949695	12	2.2	12	100	0	52	80	0	7	11	0.89
2950119--2950152	3	11.7	3	93	6	61	70	0	0	29	0.87
2956519--2956565	23	2.0	23	84	8	60	74	6	8	10	1.22
2957815--2958283	27	17.1	27	82	4	510	25	30	14	29	1.95
2957815--2958325	165	3.1	163	81	5	578	25	30	14	29	1.94
2957815--2958279	82	5.6	81	80	7	476	25	30	14	29	1.95
2958259--2958956	28	23.5	28	77	8	473	31	29	17	21	1.96
2958165--2958333	27	6.1	29	80	4	111	25	30	15	27	1.96
2958338--2958950	32	20.5	32	80	8	439	31	29	16	21	1.96
2957861--2958956	56	19.0	56	77	8	525	28	30	16	24	1.96
2959480--2959556	20	3.8	20	83	6	93	29	14	14	41	1.85
2965561--2965801	88	2.7	87	79	4	252	33	15	13	37	1.86
2966294--2966331	15	2.5	15	91	0	58	7	23	18	50	1.73
2970098--2970122	10	2.5	10	100	0	50	0	8	0	92	0.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2978094--2978121	6	4.7	6	100	0	56	67	14	17	0	1.22
2978897--2978961	13	4.9	13	75	16	53	50	1	1	46	1.20
2979162--2979193	2	17.0	2	87	12	50	53	0	0	46	1.00
2987232--2987275	14	3.1	14	83	6	54	34	0	2	63	1.07
2988880--2988940	21	2.9	21	78	7	70	39	0	3	57	1.15
2988880--2988933	22	2.6	20	80	8	63	38	0	1	59	1.08
2991732--2991769	19	2.1	19	85	5	51	50	0	5	44	1.24
2993928--2993970	5	8.0	5	82	12	50	25	0	2	72	0.97
2994360--2994414	22	2.6	20	77	5	56	23	0	9	67	1.19
3002306--3002346	2	20.0	2	85	5	55	43	2	0	53	1.13
3003951--3003992	2	21.0	2	95	0	75	47	0	0	52	1.00
3004187--3004227	16	2.6	16	84	3	57	53	0	7	39	1.29
3004631--3004658	2	14.0	2	100	0	56	50	0	0	50	1.00
3004804--3004888	21	3.9	21	76	14	91	36	1	16	45	1.55
3004794--3004888	45	2.1	45	84	5	120	36	1	14	47	1.52
3014251--3014317	16	4.2	15	79	11	62	14	11	31	41	1.83
3014903--3014936	17	1.9	18	88	5	52	64	2	0	32	1.08
3015364--3015428	16	4.1	16	69	15	53	29	13	15	41	1.86
3015345--3015417	32	2.3	32	83	9	87	30	13	15	41	1.85
3015332--3015436	48	2.2	48	81	3	131	32	10	13	43	1.78
3015426--3015514	36	2.5	37	81	16	102	43	0	1	55	1.07
3015433--3015488	24	2.3	24	82	14	62	42	0	1	55	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3015463--3015515	26	2.0	27	85	3	72	41	0	1	56	1.10
3015658--3015696	12	3.2	12	85	0	51	17	38	15	28	1.91
3016995--3017063	33	2.1	34	81	13	81	53	0	5	40	1.25
3017070--3017102	17	1.9	17	93	0	57	90	3	0	6	0.52
3017069--3017105	19	2.0	19	89	5	58	89	2	0	8	0.58
3017690--3017794	24	4.3	25	82	11	121	39	0	1	59	1.09
3017690--3017794	23	4.3	24	82	11	126	39	0	1	59	1.09
3017725--3017788	12	5.5	12	69	12	53	29	0	3	67	1.06
3017898--3017937	19	2.2	18	86	4	53	35	2	2	60	1.24
3018473--3018503	16	1.9	16	93	0	53	35	0	0	64	0.94

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