genome.fa.s220.2.7.7.80.10.50.1000.14.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: Scaffold220
Parameters: 2 7 7 80 10 50 1000
Length:  3999181

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  14  of  19  ( 2201 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)
2991719--2991764	2	23.0	2	100	0	92	50	0	0	50	1.00
2992505--2992533	11	2.5	12	88	11	51	27	24	17	31	1.97
2992530--2992581	13	3.9	13	73	14	52	50	5	5	38	1.51
2995248--2995747	1	500.0	1	91	0	766	0	94	0	4	0.34
2996601--2996632	12	2.7	12	95	0	55	18	37	25	18	1.94
2996634--2996679	12	3.6	12	78	16	56	43	4	13	39	1.63
2998225--2998249	2	12.5	2	100	0	50	52	0	0	48	1.00
2999441--2999490	22	2.2	22	85	7	64	34	0	6	60	1.21
2999476--2999521	17	2.7	17	76	10	58	36	2	0	60	1.09
2999502--2999541	21	1.9	21	90	10	64	40	0	0	60	0.97
2999728--2999782	25	2.2	25	87	6	76	49	3	1	45	1.30
3002866--3002914	23	2.1	23	81	7	55	20	0	6	73	1.04
3002875--3002916	19	2.2	20	83	12	52	23	0	2	73	0.94
3004060--3004108	16	2.8	18	73	17	50	44	0	0	55	0.99
3013919--3013967	20	2.5	20	80	16	57	55	2	0	42	1.11
3014393--3014442	17	3.2	16	72	10	50	50	4	0	46	1.20
3014738--3014765	4	7.0	4	100	0	56	25	0	0	75	0.81
3015176--3015217	20	2.2	19	86	4	57	40	0	0	59	0.97
3022347--3022371	2	12.5	2	100	0	50	48	0	0	52	1.00
3023706--3023798	42	2.2	41	76	16	102	50	1	0	48	1.07
3028150--3028178	15	2.0	15	93	6	51	55	0	0	44	0.99
3028633--3028682	15	3.4	15	70	13	50	30	0	2	68	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3030403--3030451	2	24.5	2	100	0	98	48	0	0	51	1.00
3034225--3034275	2	24.5	2	84	7	66	50	1	3	43	1.31
3034575--3034608	2	17.0	2	90	0	50	52	2	0	44	1.16
3035297--3035330	2	17.0	2	100	0	68	50	0	0	50	1.00
3036341--3036396	26	2.1	28	83	9	73	58	1	0	39	1.08
3036875--3036915	2	20.5	2	100	0	82	0	48	0	51	1.00
3047184--3047223	2	20.0	2	100	0	80	50	0	0	50	1.00
3047583--3047663	30	2.7	30	76	3	83	62	1	3	32	1.20
3047856--3047924	21	3.2	21	73	15	61	39	0	0	60	0.97
3048241--3048286	2	23.0	2	95	0	83	47	2	0	50	1.13
3048724--3048760	2	18.5	2	100	0	74	51	0	0	48	1.00
3049236--3049271	2	18.0	2	94	0	63	50	0	2	47	1.15
3054849--3054898	17	2.8	17	80	14	57	58	4	0	38	1.17
3055316--3055363	14	3.5	13	78	10	51	43	0	2	54	1.12
3055298--3055358	13	4.9	13	77	18	51	47	0	1	50	1.10
3063176--3063203	12	2.3	12	100	0	56	32	7	0	60	1.24
3069192--3069238	3	15.7	3	95	0	67	27	0	6	65	1.16
3081124--3081195	12	6.6	11	73	19	62	52	0	0	47	1.00
3081139--3081223	30	2.8	32	82	10	106	57	1	0	41	1.06
3082138--3082207	17	4.1	18	73	12	67	58	2	0	38	1.13
3082209--3082255	24	2.0	23	84	12	60	38	0	0	61	0.96
3082492--3082517	3	8.7	3	100	0	52	69	0	0	30	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3085785--3085821	14	2.8	14	92	8	60	40	0	0	59	0.97
3085783--3085821	12	3.1	12	89	10	60	43	0	0	56	0.99
3085842--3085914	26	2.8	26	78	14	71	61	4	5	28	1.37
3085909--3086024	16	6.6	18	66	29	54	61	0	0	38	0.96
3085897--3086017	32	3.9	32	72	18	103	61	0	0	38	0.96
3085903--3086024	6	20.8	6	66	25	57	61	0	0	38	0.96
3085991--3086020	11	2.6	12	94	5	53	70	0	0	30	0.88
3086652--3086695	22	2.0	22	86	4	63	31	0	4	63	1.14
3087275--3087331	21	2.7	22	81	8	73	43	10	0	45	1.38
3094748--3094791	14	3.0	15	78	15	56	36	0	2	61	1.09
3096686--3096823	65	2.1	64	90	1	222	28	23	18	29	1.97
3101893--3101936	6	7.2	6	85	12	54	65	15	18	0	1.27
3101893--3101950	18	3.1	18	80	7	53	62	15	20	1	1.42
3108198--3108245	19	2.5	19	78	21	55	64	0	0	35	0.94
3108533--3108564	2	16.0	2	100	0	64	50	0	0	50	1.00
3110775--3110811	2	18.5	2	100	0	74	48	0	0	51	1.00
3114470--3114506	19	1.9	19	100	0	74	54	2	0	43	1.14
3114948--3114997	22	2.2	23	82	10	59	50	6	4	40	1.46
3114955--3114998	22	2.0	22	86	13	63	45	6	4	43	1.51
3120048--3120081	16	2.1	16	88	0	50	55	0	0	44	0.99
3120545--3120581	2	18.5	2	94	0	65	45	0	2	51	1.15
3121567--3121591	13	1.9	13	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3122690--3122718	2	14.5	2	100	0	58	51	0	0	48	1.00
3125208--3125238	2	15.5	2	100	0	62	51	0	48	0	1.00
3126314--3126353	2	20.0	2	100	0	80	50	0	50	0	1.00
3127272--3127346	22	3.4	22	81	10	66	48	1	0	50	1.09
3127288--3127345	21	2.7	21	86	7	73	53	1	0	44	1.10
3127294--3127345	10	4.9	10	78	21	61	51	1	0	46	1.12
3127663--3127707	2	23.0	2	95	4	83	48	0	0	51	1.00
3127662--3127713	8	7.4	7	89	10	56	46	0	1	51	1.12
3129678--3129775	51	1.9	51	83	4	126	34	19	19	26	1.96
3132616--3132666	21	2.4	21	83	6	59	27	3	1	66	1.20
3133546--3133599	27	1.9	30	85	14	80	46	0	0	53	1.00
3134619--3134673	26	2.2	26	83	3	67	41	0	1	56	1.10
3142870--3142898	4	7.5	4	92	7	51	0	20	0	79	0.74
3143708--3143757	21	2.4	21	83	6	57	40	0	0	60	0.97
3143967--3144000	11	3.0	11	83	8	50	41	0	0	58	0.98
3143973--3144008	18	2.0	18	88	0	54	50	0	0	50	1.00
3143937--3144000	23	2.8	24	76	11	71	48	1	0	50	1.10
3149196--3149244	16	2.9	17	77	20	50	48	0	0	51	1.00
3152278--3152317	2	20.0	2	94	0	62	45	0	5	50	1.23
3153691--3153720	13	2.3	13	94	0	51	40	0	3	56	1.16
3156418--3156444	2	13.5	2	100	0	54	48	0	0	51	1.00
3161493--3161522	9	3.4	9	90	9	53	20	0	0	80	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3165946--3165977	2	16.0	2	100	0	64	0	50	0	50	1.00
3171292--3171347	22	2.5	23	86	11	73	44	1	0	53	1.11
3171459--3171518	30	2.0	30	87	6	86	55	5	0	40	1.22
3175917--3175964	17	3.0	16	75	19	55	47	2	0	50	1.12
3176918--3176969	24	2.2	24	85	0	68	44	1	0	53	1.11
3181961--3181994	2	17.0	2	100	0	68	50	0	0	50	1.00
3182131--3182198	22	3.1	22	82	14	63	44	0	0	55	0.99
3182132--3182213	20	4.3	19	77	17	80	41	0	0	58	0.98
3182181--3182227	24	2.0	24	83	8	60	40	0	0	59	0.97
3185056--3185093	16	2.4	16	86	4	51	28	0	0	71	0.87
3185066--3185101	16	2.2	16	95	0	63	27	0	0	72	0.85
3185087--3185138	9	5.9	9	75	20	56	40	0	0	59	0.97
3185049--3185127	40	2.0	40	80	16	92	35	0	0	64	0.94
3187099--3187128	15	2.0	15	93	0	51	23	36	0	40	1.55
3190619--3190646	3	9.3	3	100	0	56	0	32	0	67	0.91
3191197--3191264	26	2.7	24	80	14	75	70	1	23	4	1.13
3191297--3191323	3	9.0	3	100	0	54	33	0	33	33	1.58
3191326--3191355	2	15.0	2	100	0	60	50	0	50	0	1.00
3191586--3191625	20	2.1	19	85	4	53	42	0	0	57	0.98
3191807--3191839	2	16.5	2	100	0	66	0	51	0	48	1.00
3192512--3192539	3	9.3	3	100	0	56	32	0	0	67	0.91
3194759--3194799	17	2.3	19	88	12	61	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3195407--3195431	2	12.5	2	100	0	50	52	0	0	48	1.00
3202829--3202867	2	19.5	2	100	0	78	51	0	0	48	1.00
3204518--3204558	13	2.9	15	75	14	50	51	2	0	46	1.14
3204898--3204929	2	16.0	2	100	0	64	50	0	0	50	1.00
3205440--3205480	21	2.0	21	85	9	57	56	0	0	43	0.99
3205422--3205484	19	3.2	18	75	20	56	52	0	0	47	1.00
3205395--3205484	40	2.2	41	78	20	100	51	0	0	48	1.00
3208106--3208140	4	8.8	4	87	0	52	22	0	5	71	1.07
3208398--3208462	29	2.3	28	84	12	80	40	0	1	58	1.07
3213027--3213106	31	2.6	31	85	0	106	47	8	1	42	1.42

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19