genome.fa.s35.2.7.7.80.10.50.1000.16.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: Scaffold35
Parameters: 2 7 7 80 10 50 1000
Length:  4812169

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   30   

This is table  16  of  30  ( 3549 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)
2597953--2598019	31	2.2	31	97	0	125	50	17	16	14	1.78
2600193--2600269	1	77.0	1	76	0	64	87	7	3	1	0.73
2600196--2600244	16	3.3	15	88	8	73	87	12	0	0	0.54
2600194--2600257	23	2.7	23	90	2	92	87	9	1	1	0.68
2600192--2600257	34	1.9	34	87	6	98	86	10	1	1	0.71
2601361--2601577	60	3.7	61	79	9	229	26	29	20	23	1.99
2601327--2601583	121	2.2	110	82	10	286	25	29	21	23	1.99
2601327--2601593	55	4.6	61	78	11	271	24	29	20	24	1.99
2601388--2601799	215	1.9	216	86	3	589	25	27	19	27	1.99
2601603--2602137	55	9.4	55	83	7	595	26	25	20	27	1.99
2601972--2602059	28	3.1	28	62	12	72	26	20	20	32	1.97
2602465--2602489	13	1.9	13	100	0	50	36	16	16	32	1.90
2602561--2602585	13	1.9	13	100	0	50	32	16	16	36	1.90
2602594--2602722	52	2.5	52	89	0	204	34	16	18	30	1.93
2605885--2606078	42	4.5	42	81	7	203	20	26	14	37	1.92
2605884--2606078	87	2.3	86	86	5	270	20	26	14	37	1.92
2606800--2606875	21	3.6	21	100	0	152	36	14	14	34	1.87
2606882--2606961	13	5.5	13	76	21	79	35	15	17	32	1.91
2606863--2606953	17	5.7	17	76	21	99	35	14	16	34	1.89
2606861--2606961	30	3.3	30	95	2	175	35	13	16	33	1.89
2606978--2607019	21	2.0	21	95	0	75	40	9	21	28	1.84
2609396--2609793	52	7.6	51	70	12	218	29	26	11	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2609571--2609790	51	4.3	51	81	7	178	30	26	10	32	1.90
2609571--2609790	52	4.3	52	82	6	225	30	26	10	32	1.90
2609407--2609900	261	1.9	262	93	2	859	28	27	12	31	1.93
2609803--2610037	79	3.0	79	80	5	287	25	28	14	31	1.95
2612077--2612109	4	8.2	4	93	0	57	24	0	3	72	0.98
2612820--2612845	13	2.0	13	100	0	52	38	15	15	30	1.88
2612802--2612866	32	2.0	32	87	6	94	40	18	13	27	1.89
2615077--2615128	21	2.4	21	78	9	61	63	3	9	23	1.41
2619012--2619050	13	3.0	13	96	0	69	30	17	15	35	1.91
2621470--2621523	20	2.7	20	100	0	108	29	14	20	35	1.93
2621571--2621596	13	2.0	13	100	0	52	38	15	15	30	1.88
2621553--2621617	32	2.0	32	87	6	94	40	18	13	27	1.89
2632360--2632441	1	82.0	1	79	0	74	87	8	3	0	0.64
2632362--2632442	19	4.0	19	84	9	99	86	9	3	0	0.69
2632363--2632440	20	3.9	18	84	15	93	87	8	3	0	0.67
2632360--2632442	30	2.9	27	84	12	94	86	9	3	0	0.68
2632362--2632426	26	2.6	25	90	9	105	87	10	1	0	0.61
2633496--2633752	55	4.5	54	81	8	255	25	29	21	23	1.99
2633530--2633746	60	3.7	60	80	8	243	26	29	19	24	1.99
2633496--2633752	121	2.2	110	82	10	286	25	29	21	23	1.99
2633557--2633968	215	1.9	216	86	3	589	25	27	19	27	1.99
2633792--2634270	61	8.1	59	81	8	512	25	27	19	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2634240--2634338	39	2.5	39	95	0	180	22	30	20	27	1.98
2634622--2634678	13	3.9	13	72	24	51	33	14	19	33	1.91
2634621--2634705	32	2.7	32	96	0	152	31	12	18	36	1.89
2634635--2634697	19	3.7	18	74	24	64	31	12	19	36	1.89
2640374--2640633	79	3.3	78	87	3	364	27	25	13	32	1.94
2640571--2640687	51	2.3	51	83	4	148	30	28	11	29	1.91
2640672--2640743	28	2.6	28	82	10	87	25	30	18	26	1.98
2640542--2640844	157	1.9	158	81	7	366	28	27	13	31	1.94
2645201--2645259	20	2.9	21	67	7	59	33	16	13	35	1.88
2646386--2646412	7	3.9	7	100	0	54	0	11	0	88	0.50
2648334--2648378	24	1.9	24	86	4	65	35	0	0	64	0.94
2648933--2649179	130	1.9	134	89	4	396	52	1	2	44	1.22
2649455--2649511	28	2.0	28	100	0	114	49	12	7	31	1.67
2651525--2651591	37	1.9	35	88	11	102	29	25	11	32	1.92
2652181--2652221	21	2.0	21	85	9	57	36	12	14	36	1.84
2653307--2653345	17	2.3	17	90	0	60	66	0	0	33	0.92
2656593--2656633	21	2.0	21	85	9	57	39	12	9	39	1.76
2656795--2656820	13	2.0	13	100	0	52	38	15	15	30	1.88
2656777--2656840	32	2.0	33	87	3	94	40	17	14	28	1.88
2658868--2659046	84	2.1	84	79	10	195	53	3	18	23	1.61
2660451--2660475	13	1.9	13	100	0	50	36	16	16	32	1.90
2662048--2662088	21	2.0	21	85	9	57	39	12	9	39	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2662250--2662275	13	2.0	13	100	0	52	38	15	15	30	1.88
2662232--2662295	32	2.0	33	87	3	94	40	17	14	28	1.88
2666456--2666515	13	5.1	13	73	22	69	38	13	16	31	1.87
2666469--2666537	20	3.8	20	75	25	89	36	11	17	34	1.86
2666456--2666535	33	2.4	33	100	0	160	37	12	17	32	1.87
2667116--2667185	22	3.1	23	82	12	83	62	1	1	34	1.13
2667465--2667557	34	2.7	34	72	16	93	46	0	0	53	1.00
2668166--2668213	21	2.4	20	86	6	62	37	0	0	62	0.95
2668403--2668441	2	19.5	2	100	0	78	48	0	0	51	1.00
2674865--2674891	2	13.5	2	100	0	54	51	48	0	0	1.00
2675838--2675879	6	7.0	6	100	0	84	50	16	33	0	1.46
2677724--2677753	14	2.1	14	93	0	51	46	0	0	53	1.00
2678281--2678336	28	2.1	27	80	12	62	48	1	3	46	1.30
2678297--2678351	23	2.5	21	78	16	58	43	0	1	54	1.10
2678300--2678430	5	27.4	5	64	22	50	39	0	1	58	1.13
2678314--2678351	16	2.2	18	90	9	62	42	0	0	57	0.98
2678313--2678418	17	6.0	17	67	28	53	38	0	0	60	1.03
2682911--2682988	32	2.4	32	86	0	120	43	10	16	29	1.81
2685036--2685084	20	2.5	20	100	0	98	38	14	12	34	1.83
2685122--2685187	10	6.3	10	74	10	51	42	6	24	27	1.78
2685395--2685432	13	3.2	13	82	17	55	78	0	5	15	0.91
2685439--2685495	21	2.7	21	97	0	105	33	10	19	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2685551--2685618	19	3.9	19	78	21	85	35	11	14	38	1.83
2685572--2685596	13	1.9	13	100	0	50	36	16	16	32	1.90
2685553--2685615	32	2.0	32	96	0	117	34	12	15	36	1.86
2685658--2685683	13	2.0	13	100	0	52	30	15	15	38	1.88
2685638--2685704	33	2.0	33	88	0	98	26	14	14	43	1.85
2688159--2688231	27	2.7	27	87	6	94	23	34	21	20	1.97
2688214--2688384	51	3.3	51	79	4	198	29	26	11	32	1.92
2688367--2688448	28	2.9	28	80	7	87	25	31	15	26	1.96
2688050--2688477	211	2.0	211	82	4	524	29	27	12	31	1.93
2696740--2696909	51	3.3	50	77	7	180	32	11	27	28	1.92
2699395--2699420	13	2.0	13	100	0	52	38	15	15	30	1.88
2699374--2699440	33	2.0	33	88	0	98	43	16	14	25	1.86
2699460--2699527	19	3.9	18	76	23	83	38	14	11	35	1.83
2699482--2699506	13	1.9	13	100	0	50	32	16	16	36	1.90
2699463--2699525	32	2.0	32	96	0	117	36	15	12	34	1.86
2699562--2699640	21	3.7	21	80	9	88	32	16	13	36	1.88
2699656--2699681	13	2.0	13	100	0	52	15	7	0	76	0.99
2700209--2701038	54	15.3	53	87	8	1060	19	20	30	29	1.97
2700209--2701038	163	5.1	161	88	7	1129	19	20	30	29	1.97
2700502--2700587	27	3.2	27	64	17	70	18	17	34	29	1.94
2700209--2701038	272	3.1	269	86	8	1163	19	20	30	29	1.97
2702652--2703493	55	15.3	55	91	5	1307	29	30	20	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2703121--2703208	29	3.1	29	61	26	71	26	35	19	19	1.95
2704034--2704059	13	2.0	13	100	0	52	76	0	7	15	0.99
2704077--2704133	21	2.7	21	97	0	105	33	10	19	36	1.86
2704189--2704256	19	3.9	19	78	21	85	35	11	14	38	1.83
2704210--2704234	13	1.9	13	100	0	50	36	16	16	32	1.90
2704191--2704253	32	2.0	32	96	0	117	34	12	15	36	1.86
2704296--2704321	13	2.0	13	100	0	52	30	15	15	38	1.88
2704276--2704342	33	2.0	33	88	0	98	25	14	16	43	1.86
2706797--2706869	27	2.7	27	87	6	94	23	34	21	20	1.97
2706852--2707022	51	3.3	51	79	4	198	29	26	11	32	1.92

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   30