genome.fa.s140.2.7.7.80.10.50.1000.19.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: Scaffold140
Parameters: 2 7 7 80 10 50 1000
Length:  3130556

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  19  of  20  ( 2326 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)
2946321--2946407	9	9.6	9	75	21	58	41	0	0	58	0.98
2946327--2946416	36	2.4	38	80	12	107	41	0	0	58	0.98
2948741--2948770	15	2.0	15	100	0	60	26	33	6	33	1.83
2950254--2950296	16	2.6	17	82	10	54	81	4	11	2	0.93
2950252--2950305	20	2.8	19	82	15	67	81	3	12	1	0.91
2950654--2950732	22	3.6	22	93	3	124	62	16	21	0	1.33
2950654--2950773	22	5.4	22	82	9	120	63	16	19	0	1.36
2950915--2950958	23	1.9	23	90	0	70	31	6	29	31	1.84
2951187--2951269	39	2.2	39	95	2	150	31	7	0	61	1.23
2952821--2952879	17	3.7	16	77	13	68	79	0	0	20	0.73
2952825--2952876	16	3.3	15	79	15	61	80	0	0	19	0.71
2952825--2952866	21	2.0	21	90	4	66	80	0	0	19	0.70
2952821--2952881	25	2.5	24	82	12	72	78	0	0	21	0.75
2952818--2952875	15	4.1	14	79	18	59	79	0	0	20	0.74
2952821--2952853	6	5.7	6	85	7	50	81	0	0	18	0.68
2953646--2953692	22	2.1	23	88	4	69	59	19	19	2	1.48
2955740--2955798	21	2.8	21	97	0	109	49	11	5	33	1.62
2960748--2960816	36	1.9	36	82	8	88	42	0	0	57	0.98
2965442--2965591	75	2.0	75	100	0	300	33	8	16	42	1.77
2982170--2982207	19	2.1	18	90	5	58	57	0	0	42	0.98
2983138--2983210	21	3.6	21	76	5	62	36	10	0	52	1.37
2983178--2983219	18	2.3	18	91	0	66	42	4	0	52	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2983197--2983249	26	2.1	26	89	3	81	45	3	0	50	1.19
2985394--2985449	29	1.9	29	85	0	76	50	1	0	48	1.11
2985524--2985565	15	3.0	14	86	10	59	21	2	0	76	0.90
2985560--2985598	16	2.3	18	86	8	55	41	2	2	53	1.28
2985570--2986000	170	2.5	171	83	7	511	45	7	3	43	1.49
2986097--2986634	171	3.1	167	79	10	475	45	5	7	41	1.56
2987452--2987495	16	2.7	15	83	13	52	77	0	4	18	0.94
2987449--2987495	17	2.8	17	78	12	53	76	0	4	19	0.95
2989047--2989075	2	14.5	2	100	0	58	51	0	48	0	1.00
2989943--2990012	27	2.6	27	86	4	97	47	24	4	24	1.70
2991895--2991936	21	2.0	21	85	0	57	19	28	21	30	1.97
2995728--2995774	19	2.5	20	89	6	71	12	0	6	80	0.88
2996046--2996111	32	2.0	33	85	2	89	36	1	4	57	1.28
2998605--2998674	36	1.9	36	94	0	122	44	12	8	34	1.73
3002813--3002914	20	5.4	20	71	13	90	21	24	8	45	1.80
3002830--3002926	17	5.4	17	72	18	88	21	25	7	45	1.77
3002786--3002926	37	3.8	37	86	1	183	23	26	7	42	1.81
3003011--3003052	15	2.8	15	82	13	59	19	2	4	73	1.12
3002969--3003045	35	2.2	34	84	11	102	20	1	7	70	1.20
3002975--3003053	7	10.9	7	71	16	54	21	1	7	69	1.20
3003894--3004117	29	7.8	28	71	11	132	36	16	4	43	1.66
3003894--3004122	58	4.0	58	75	8	173	37	16	3	42	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3005300--3005346	15	3.3	15	80	19	64	70	0	10	19	1.16
3012011--3012038	13	2.2	13	100	0	56	39	17	14	28	1.89
3011992--3012058	33	2.0	32	88	11	100	41	13	14	29	1.85
3013917--3013941	13	1.9	13	100	0	50	36	16	16	32	1.90
3014013--3014040	13	2.2	13	100	0	56	28	14	17	39	1.89
3014046--3014174	52	2.5	52	96	0	240	34	18	17	28	1.94
3018529--3018553	12	2.1	12	100	0	50	8	8	28	56	1.57
3018960--3018999	21	1.9	21	90	10	64	67	0	0	32	0.91
3019237--3019308	36	2.0	36	83	0	90	50	1	5	43	1.34
3019602--3019698	21	4.6	21	70	6	72	47	1	1	50	1.14
3019670--3019723	15	3.8	15	73	14	60	38	1	0	59	1.08
3019693--3019724	10	3.1	11	86	13	50	34	0	0	65	0.93
3019671--3019724	27	2.0	28	88	3	83	38	1	0	59	1.08
3023009--3023047	20	1.9	21	89	5	62	33	2	0	64	1.08
3024467--3024633	50	3.3	50	83	3	183	34	8	13	43	1.76
3025048--3025105	18	3.2	17	74	13	55	56	6	0	36	1.26
3026567--3026607	21	2.0	21	85	9	57	60	4	0	34	1.18
3026707--3026794	43	2.0	43	100	0	176	38	13	4	43	1.65
3027007--3027050	11	3.8	12	79	8	56	34	0	0	65	0.93
3027021--3027073	19	2.6	19	85	11	61	35	0	1	62	1.06
3028664--3028699	18	1.9	19	88	5	56	55	2	0	41	1.14
3029665--3029691	2	13.5	2	100	0	54	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)
3033895--3033923	2	14.5	2	100	0	58	0	48	0	51	1.00
3038994--3039057	26	2.5	25	78	9	67	42	1	3	53	1.26
3039135--3039268	72	1.9	72	87	0	196	41	3	8	45	1.53
3041482--3041510	2	14.5	2	100	0	58	48	0	0	51	1.00
3046012--3046037	11	2.4	11	100	0	52	80	0	7	11	0.89
3046042--3046073	14	2.3	14	94	0	55	28	18	9	43	1.81
3049376--3049497	27	4.5	27	76	7	86	31	22	0	45	1.58
3051081--3051123	3	14.3	3	100	0	86	32	0	0	67	0.91
3051122--3051147	3	8.7	3	100	0	52	0	0	30	69	0.89
3052866--3052892	2	13.5	2	100	0	54	48	0	0	51	1.00
3053646--3053675	2	15.0	2	100	0	60	50	0	50	0	1.00
3054831--3054892	23	2.7	24	80	12	67	51	0	0	48	1.00
3054809--3054883	25	3.0	25	79	9	66	56	0	2	41	1.13
3054876--3054951	37	2.1	37	85	5	100	50	0	0	50	1.00
3055305--3055350	13	3.6	13	75	16	51	39	0	0	60	0.97
3055272--3055350	38	2.1	37	81	6	88	37	0	0	62	0.96
3057251--3057309	29	2.0	29	83	0	73	42	13	8	35	1.75
3057261--3057327	29	2.3	29	84	0	89	38	11	8	40	1.74
3057317--3057348	14	2.3	14	94	0	55	28	6	15	50	1.68
3057361--3057519	29	5.5	29	72	13	78	32	10	15	40	1.82
3057447--3057531	14	5.9	14	77	9	82	37	9	11	41	1.74
3057459--3057551	43	2.1	43	82	9	109	32	10	12	44	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3060107--3060272	66	2.5	66	83	6	194	25	26	13	34	1.93
3060097--3060372	67	4.1	67	74	10	215	24	23	15	36	1.94
3060253--3060459	67	3.1	67	76	8	213	25	21	15	37	1.93
3060955--3061029	15	5.1	15	71	12	57	29	9	17	44	1.80
3060970--3061062	28	3.2	28	80	3	87	33	15	15	36	1.88
3060993--3061060	14	4.7	15	78	10	70	36	16	14	32	1.89
3061018--3061059	15	2.8	15	85	10	59	40	21	9	28	1.84
3065229--3065268	2	20.0	2	94	0	71	47	0	2	50	1.14
3065872--3065906	2	18.5	2	88	11	56	45	0	0	54	0.99
3066175--3066239	25	2.7	23	73	17	69	35	0	0	64	0.94
3066497--3066557	29	2.0	30	90	9	97	49	1	0	49	1.10
3069667--3069695	6	4.8	6	100	0	58	31	0	17	51	1.45
3072845--3072890	16	2.8	16	83	6	56	45	0	2	52	1.13
3072911--3072990	14	5.6	14	68	26	53	41	0	2	56	1.13
3072944--3073008	30	2.1	31	86	8	89	44	1	0	53	1.09
3073084--3073172	38	2.5	35	78	12	92	49	2	0	48	1.13
3073541--3073582	18	2.5	16	82	14	57	47	2	0	50	1.14
3074171--3074240	34	2.1	34	84	10	90	58	0	0	41	0.98
3075773--3076058	113	2.7	104	84	8	344	33	13	8	45	1.72
3075860--3076058	104	1.9	102	89	2	308	32	13	8	46	1.73
3076003--3076117	58	2.0	59	91	1	187	33	14	8	43	1.76
3077474--3077510	19	1.9	19	89	10	58	54	0	2	43	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3078176--3078204	2	14.5	2	100	0	58	0	0	48	51	1.00
3078506--3078551	22	2.1	22	83	0	56	58	0	2	39	1.10
3080585--3080633	7	6.4	7	82	13	53	79	0	0	20	0.73
3080582--3080644	17	3.7	17	72	21	60	76	1	0	22	0.88
3081313--3081343	10	3.1	10	95	0	53	41	0	6	51	1.27
3082837--3082942	20	5.3	20	93	0	113	35	16	14	33	1.89
3082854--3082942	40	2.2	40	89	0	133	37	19	12	31	1.88
3086377--3086431	21	2.7	20	81	18	60	40	9	25	25	1.85
3090691--3090741	20	2.8	17	75	18	57	45	5	17	31	1.72
3090702--3090760	21	2.8	20	80	10	64	44	5	20	30	1.73

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20