genome.fa.s247.2.7.7.80.10.50.1000.20.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: Scaffold247
Parameters: 2 7 7 80 10 50 1000
Length:  4737410

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   

This is table  20  of  29  ( 3470 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)
3019990--3020166	52	3.4	52	93	0	300	27	18	18	36	1.94
3019990--3020187	52	3.8	52	90	2	292	28	18	18	35	1.94
3020229--3020326	19	5.8	18	83	16	90	36	17	12	33	1.87
3020248--3020285	13	2.9	13	100	0	76	31	15	15	36	1.90
3020274--3020325	19	2.7	19	96	3	95	36	19	11	32	1.87
3022213--3022283	20	3.5	20	80	0	88	33	12	12	40	1.81
3025938--3026133	97	2.0	97	95	0	356	31	22	23	21	1.98
3029445--3029493	16	3.1	16	80	14	57	69	10	14	6	1.35
3030819--3030900	27	3.0	27	81	1	101	28	29	13	29	1.94
3030820--3030890	28	2.6	28	86	2	90	30	28	11	29	1.91
3042065--3042120	20	2.8	20	86	7	78	44	10	17	26	1.82
3044329--3044360	3	10.7	3	93	0	55	34	3	0	62	1.11
3046036--3046089	28	1.9	28	100	0	108	37	7	12	42	1.72
3048806--3048912	31	3.6	29	81	8	117	49	3	4	42	1.41
3048806--3048916	28	3.8	28	81	8	107	49	3	4	42	1.40
3049685--3049809	53	2.4	51	79	11	135	51	1	0	47	1.10
3049733--3049828	22	4.5	22	69	21	69	51	1	0	47	1.07
3049747--3049827	16	5.1	16	70	19	62	50	1	0	48	1.08
3049747--3049842	31	3.1	31	83	4	122	51	1	1	46	1.14
3049751--3049837	16	5.6	16	70	18	60	50	1	1	47	1.16
3049884--3049921	19	2.0	19	85	10	51	39	0	0	60	0.97
3050003--3050037	14	2.4	15	90	4	54	57	2	0	40	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3050571--3050619	16	3.0	16	82	11	55	57	2	0	40	1.10
3050578--3050619	16	2.5	16	88	7	57	59	2	0	38	1.10
3050704--3050780	24	3.1	24	78	9	75	44	0	0	55	0.99
3051463--3051498	17	2.1	17	89	0	54	44	0	2	52	1.15
3051804--3051878	29	2.5	31	78	12	84	57	2	1	38	1.21
3056184--3056209	2	13.0	2	100	0	52	50	0	0	50	1.00
3059058--3059131	20	3.7	20	83	0	103	33	14	12	39	1.84
3062387--3062543	74	2.1	75	92	2	262	33	15	17	33	1.92
3063197--3063241	24	1.9	24	86	4	65	51	2	37	8	1.46
3063639--3063674	13	2.7	13	91	4	54	86	0	13	0	0.58
3070086--3070163	35	2.2	36	81	9	97	71	10	14	3	1.26
3071463--3072201	27	27.0	27	93	1	1174	23	34	14	28	1.93
3071463--3072201	82	9.0	81	92	2	1174	23	34	14	28	1.93
3072184--3073553	32	42.8	32	94	0	2375	30	33	18	17	1.94
3074818--3074852	16	2.1	17	89	5	54	82	0	17	0	0.66
3074824--3074853	10	3.0	10	95	0	51	86	0	13	0	0.57
3075385--3075434	23	2.2	24	79	13	61	38	2	6	54	1.37
3091239--3091304	31	2.1	31	88	5	98	39	19	24	16	1.92
3092149--3092235	3	28.7	3	95	4	149	68	0	0	31	0.89
3099892--3099929	16	2.4	16	82	8	51	36	21	18	23	1.95
3105556--3106411	43	20.2	43	83	3	896	14	29	17	38	1.89
3105556--3106411	85	10.1	85	83	3	929	14	29	17	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3107014--3107079	31	2.1	31	86	5	89	39	18	24	18	1.92
3107946--3107974	3	9.7	3	100	0	58	68	0	0	31	0.89
3118747--3118784	3	12.3	3	88	5	58	34	0	31	34	1.58
3121920--3121972	21	2.6	22	80	14	60	41	0	3	54	1.18
3121923--3121972	20	2.5	21	83	6	59	42	0	4	54	1.19
3131011--3131135	52	2.4	52	94	0	214	28	17	17	36	1.93
3131011--3131155	52	2.8	51	88	4	202	29	17	17	35	1.93
3131144--3131168	13	1.9	13	100	0	50	36	16	16	32	1.90
3131209--3131274	33	2.0	33	87	0	96	39	13	12	34	1.82
3131231--3131255	13	1.9	13	100	0	50	32	16	16	36	1.90
3131416--3131471	21	2.7	21	97	0	103	33	10	19	35	1.87
3131507--3131574	19	3.9	19	76	21	76	35	10	14	39	1.80
3131528--3131552	13	1.9	13	100	0	50	36	16	16	32	1.90
3131509--3131571	32	2.0	32	93	0	108	34	11	15	38	1.83
3131614--3131639	13	2.0	13	100	0	52	30	15	15	38	1.88
3131594--3131660	33	2.0	33	88	0	98	25	14	16	43	1.86
3132172--3132201	16	1.9	16	93	6	53	86	13	0	0	0.57
3134010--3134129	51	2.4	51	89	0	177	31	20	12	35	1.90
3134103--3134270	80	2.1	80	80	2	185	26	27	12	33	1.92
3137393--3137431	20	2.0	20	89	0	60	43	17	10	28	1.82
3141844--3141868	13	1.9	13	100	0	50	36	16	16	32	1.90
3141909--3141975	33	2.0	33	88	0	98	40	13	11	34	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3141931--3141955	13	1.9	13	100	0	50	32	16	16	36	1.90
3148985--3149028	23	1.9	23	85	0	61	45	20	4	29	1.71
3152717--3152773	20	2.8	20	83	0	78	47	7	12	33	1.68
3155656--3155849	96	2.0	96	97	0	370	43	8	12	35	1.73
3156509--3156552	19	2.6	16	82	13	52	36	4	4	54	1.41
3161971--3162014	22	2.0	22	83	16	56	59	0	0	40	0.98
3161966--3162028	21	3.2	18	72	18	54	60	0	0	39	0.97
3161976--3162046	30	2.3	28	81	16	70	57	1	0	40	1.07
3167631--3167783	75	2.0	75	98	0	297	28	7	24	39	1.83
3170950--3171020	28	2.6	25	77	16	70	25	1	1	71	1.02
3170969--3171018	13	3.7	13	85	15	66	22	2	2	74	1.03
3170978--3171018	19	2.2	19	87	12	59	19	2	2	75	1.03
3175162--3175254	36	2.8	34	79	10	102	30	25	12	31	1.93
3175182--3175254	36	2.1	36	89	2	112	26	30	10	32	1.90
3175692--3175734	20	2.2	20	95	0	77	39	13	9	37	1.78
3175735--3175787	10	5.1	10	75	8	52	43	11	24	20	1.85
3177443--3177467	13	1.9	13	100	0	50	32	16	20	32	1.94
3178625--3178668	21	2.1	21	86	0	61	20	15	0	63	1.31
3180175--3180249	28	2.7	28	93	0	123	25	21	32	21	1.98
3180203--3180379	79	2.2	79	92	0	309	28	16	28	25	1.97
3180310--3180429	51	2.4	51	94	0	204	30	14	27	28	1.95
3180231--3180508	130	2.1	130	95	0	502	30	15	26	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3180026--3180458	237	1.8	237	85	5	608	31	14	27	27	1.95
3180361--3180587	79	2.9	79	88	2	332	30	15	27	26	1.96
3180203--3180638	209	2.1	209	86	3	601	31	15	26	27	1.96
3180523--3180652	51	2.5	51	88	0	179	33	11	23	31	1.90
3184869--3184996	41	3.1	41	62	22	97	25	25	12	35	1.91
3184833--3184996	81	2.0	81	98	0	319	25	25	13	36	1.92
3184833--3184955	40	3.0	40	61	23	94	24	23	14	37	1.92
3194848--3194919	28	2.6	28	88	4	110	27	20	29	22	1.99
3194873--3195049	79	2.2	80	90	3	286	29	15	28	25	1.96
3194982--3195099	51	2.3	51	95	0	209	30	14	27	27	1.95
3194901--3195178	130	2.1	130	95	0	493	31	14	26	26	1.95
3195031--3195217	79	2.4	79	91	2	306	32	15	26	25	1.96
3194687--3195128	237	1.9	238	83	5	590	32	13	26	27	1.94
3194873--3195307	209	2.1	209	84	6	553	32	14	26	27	1.95
3195031--3195257	79	2.9	78	86	5	305	31	15	26	26	1.96
3195192--3195307	51	2.3	52	89	3	173	31	12	25	30	1.93
3195192--3195322	51	2.6	51	84	4	167	34	11	22	31	1.90
3197682--3197707	13	2.0	13	100	0	52	38	15	15	30	1.88
3197755--3197794	21	2.0	20	95	5	71	32	22	10	35	1.87
3197696--3198041	155	2.2	155	100	0	692	30	17	15	36	1.91
3197910--3197949	21	2.0	20	95	5	71	32	22	10	35	1.87
3199390--3199484	36	2.9	31	81	12	95	30	25	12	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3199957--3200041	10	8.1	10	71	19	66	38	11	25	23	1.89
3199945--3200041	32	3.0	32	100	0	194	38	12	24	24	1.90
3201770--3202029	79	3.3	78	87	5	371	33	15	25	25	1.95
3201981--3202056	27	2.8	27	86	6	100	22	18	32	26	1.97
3203451--3203525	28	2.7	28	93	0	132	16	28	6	49	1.70
3203497--3203770	35	7.8	35	97	0	512	20	30	6	43	1.76
3203505--3203771	14	15.1	20	61	33	98	20	29	5	43	1.75
3203763--3203813	14	3.8	13	76	10	50	23	0	1	74	0.92
3204238--3204339	42	2.4	41	79	9	109	44	11	29	14	1.81
3204472--3206035	60	26.4	59	84	8	1650	27	19	27	26	1.99

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