genome.fa.s66.2.7.7.80.10.50.1000.19.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: 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  19  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)
3209022--3209061	2	20.0	2	100	0	80	50	0	0	50	1.00
3209519--3209621	40	2.7	40	82	8	124	36	8	2	51	1.48
3209824--3209864	16	2.6	16	82	14	50	46	4	0	48	1.23
3210536--3210666	69	1.9	69	91	0	217	27	16	13	41	1.86
3211796--3211849	17	3.2	17	69	21	51	50	5	0	44	1.25
3211796--3211870	34	2.2	34	85	4	98	50	6	1	41	1.37
3211830--3212410	54	11.3	54	73	15	414	53	5	2	38	1.36
3211830--3212392	96	5.5	103	74	16	397	53	5	2	38	1.36
3212042--3212103	21	3.0	21	71	17	65	58	0	0	41	0.98
3211959--3212382	149	2.8	146	80	9	464	52	6	2	38	1.38
3212189--3212271	43	1.9	44	85	2	114	50	4	2	42	1.36
3212734--3212806	22	3.3	22	84	7	87	36	6	10	45	1.66
3212959--3213045	22	4.0	22	76	11	88	37	4	6	50	1.50
3212967--3213059	22	4.2	22	78	10	66	39	5	7	47	1.55
3213206--3213343	51	2.7	51	85	7	174	38	1	3	56	1.26
3217309--3217437	52	2.5	52	94	0	231	28	18	17	35	1.93
3217309--3217457	52	2.9	52	90	2	201	30	17	17	34	1.93
3217446--3217470	13	1.9	13	100	0	50	36	16	16	32	1.90
3217515--3217585	32	2.2	32	92	0	124	36	16	12	33	1.87
3217523--3217587	19	3.7	19	73	23	70	36	16	12	33	1.87
3222837--3222897	25	2.8	20	73	26	52	44	6	1	47	1.39
3226835--3226879	2	22.5	2	90	0	72	46	2	0	51	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3228822--3228880	15	3.6	15	76	24	57	61	0	3	35	1.13
3228855--3228900	18	2.7	18	80	12	53	63	0	2	34	1.07
3229428--3229469	15	2.9	15	85	3	50	47	0	0	52	1.00
3230035--3230082	22	2.1	24	84	7	64	39	0	2	58	1.10
3229949--3230093	71	2.0	71	87	7	206	38	0	4	55	1.26
3230054--3230138	35	2.6	31	76	21	84	37	0	0	62	0.96
3230095--3230133	20	2.0	20	89	0	60	38	0	0	61	0.96
3230072--3230138	13	5.5	12	71	15	57	37	0	0	62	0.95
3235664--3235850	78	2.4	79	81	4	243	33	14	25	27	1.94
3235664--3235888	78	2.9	76	78	11	238	32	14	25	27	1.95
3235820--3235939	51	2.4	51	81	4	143	28	12	28	30	1.93
3235750--3236069	130	2.5	130	80	6	346	33	12	24	30	1.92
3235954--3236119	51	3.3	49	80	8	183	34	12	23	30	1.91
3246846--3246897	16	3.0	16	76	15	50	50	0	3	46	1.20
3264654--3264730	28	2.8	28	95	0	136	31	16	27	24	1.97
3264745--3264939	53	3.8	52	85	4	243	34	13	23	28	1.93
3264925--3265021	28	3.5	28	92	0	149	23	19	34	22	1.97
3265010--3265130	51	2.4	51	84	8	156	29	11	27	31	1.92
3265033--3265131	51	1.9	52	91	2	164	32	11	26	30	1.91
3266282--3266339	24	2.3	27	82	14	70	5	29	22	43	1.75
3266692--3266855	50	3.3	50	94	0	301	15	26	14	43	1.84
3267202--3267229	3	9.3	3	100	0	56	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3268257--3268304	19	2.5	20	80	12	57	79	2	12	6	1.01
3268257--3268298	20	2.2	20	83	12	52	83	2	11	2	0.84
3269246--3269289	20	2.2	20	84	8	54	27	9	6	56	1.55
3271282--3271391	54	2.0	54	89	0	166	40	20	4	33	1.73
3273752--3273827	28	2.7	28	80	11	84	39	2	2	55	1.28
3273869--3273897	9	3.2	9	100	0	58	37	0	0	62	0.96
3277979--3278016	20	1.9	20	84	10	51	68	13	5	13	1.37
3282763--3282831	20	3.6	19	72	16	54	42	2	1	53	1.24
3286321--3286390	27	2.6	27	78	13	72	42	1	1	54	1.18
3286350--3286390	19	2.2	20	91	8	68	43	0	0	56	0.99
3286378--3286415	18	2.0	20	90	10	62	28	0	0	71	0.87
3286733--3286764	11	3.1	11	86	13	50	31	0	0	68	0.90
3286995--3287035	14	3.1	14	79	10	50	46	0	0	53	1.00
3287347--3287386	21	1.9	21	84	0	53	70	0	5	25	1.08
3290552--3290597	3	14.7	3	91	8	74	34	0	0	65	0.93
3295874--3295918	20	2.4	18	82	17	56	60	0	0	40	0.97
3295853--3295924	26	3.3	23	75	24	59	55	0	0	44	0.99
3295953--3295989	16	2.4	16	82	8	51	64	0	2	32	1.07
3296470--3296506	5	7.6	5	82	17	51	35	0	0	64	0.94
3296468--3296508	14	3.3	13	80	19	52	31	0	0	68	0.90
3296556--3296616	27	2.2	29	85	5	81	42	3	0	54	1.17
3296602--3296662	26	2.4	25	81	13	70	62	1	0	36	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3296786--3296832	18	2.5	18	77	16	51	53	6	0	40	1.27
3306818--3306863	18	2.9	16	84	15	60	36	0	0	63	0.95
3306818--3306865	14	3.1	15	82	11	53	37	0	0	62	0.95
3307621--3307677	28	2.0	30	86	6	82	61	0	5	33	1.18
3308429--3308466	14	2.6	15	83	8	51	55	0	0	44	0.99
3308814--3308874	16	3.9	15	80	6	59	52	1	3	42	1.27
3308834--3308874	15	2.6	16	88	3	57	53	0	4	41	1.22
3309009--3309051	18	2.4	18	80	0	50	48	2	2	46	1.27
3309646--3309684	15	2.4	17	83	12	55	53	5	0	41	1.23
3310434--3310483	16	3.0	16	78	18	57	60	2	0	38	1.09
3310443--3310477	18	1.9	18	88	11	54	60	0	0	40	0.97
3310613--3310648	1	36.0	1	88	0	54	94	0	5	0	0.31
3310783--3310808	3	8.7	3	100	0	52	30	0	0	69	0.89
3311363--3311402	2	20.0	2	100	0	80	50	0	50	0	1.00
3311945--3312007	12	5.6	11	76	17	60	77	1	19	1	0.93
3311953--3311985	10	3.3	10	88	12	50	78	0	21	0	0.75
3311944--3311988	20	2.2	20	80	8	54	77	4	17	0	0.92
3315607--3315695	38	2.3	38	98	0	169	24	17	5	51	1.67
3320179--3320234	6	9.2	6	78	21	55	32	0	0	67	0.91
3320186--3320236	19	2.7	19	90	3	77	29	0	0	70	0.87
3320179--3320234	24	2.3	25	87	3	87	32	0	0	67	0.91
3320550--3320584	2	17.5	2	93	0	61	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3322829--3322873	22	2.0	22	83	8	56	26	0	4	68	1.08
3322837--3322889	10	5.1	10	79	6	52	24	0	1	73	0.93
3325168--3325207	2	20.0	2	100	0	80	50	0	0	50	1.00
3325654--3325682	2	14.5	2	100	0	58	51	0	0	48	1.00
3327540--3327580	14	2.9	14	85	0	55	39	9	4	46	1.58
3345419--3345447	2	14.5	2	100	0	58	51	48	0	0	1.00
3348677--3348712	15	2.5	14	91	8	63	0	5	2	91	0.49
3355666--3355900	118	2.0	118	94	1	418	31	11	13	43	1.80
3357481--3357582	34	3.0	34	97	0	186	20	0	39	40	1.53
3357549--3357604	22	2.5	22	94	0	94	21	0	39	39	1.54
3357522--3357633	56	2.0	56	96	0	206	21	0	39	39	1.54
3362307--3362442	34	4.0	34	99	0	263	19	0	38	41	1.52
3362409--3362464	22	2.5	22	94	0	94	21	0	39	39	1.54
3362307--3362493	68	2.9	66	88	9	241	20	0	37	41	1.53
3363764--3363788	12	2.1	12	100	0	50	32	0	0	68	0.90
3363867--3363917	20	2.5	20	80	3	57	39	1	0	58	1.09
3365498--3365535	13	3.0	13	92	3	60	47	0	0	52	1.00
3366044--3366098	18	3.1	18	75	19	62	78	0	20	1	0.85
3366044--3366091	5	9.4	5	79	20	55	77	0	20	2	0.88
3369101--3369171	32	2.2	32	84	0	88	42	9	8	39	1.69
3369261--3369321	32	1.9	32	86	6	88	36	8	13	42	1.74
3369290--3369509	61	3.5	63	79	4	223	36	10	15	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3369307--3369603	61	4.7	62	78	10	217	37	13	14	34	1.86
3369451--3369675	67	3.4	66	79	6	199	35	14	15	35	1.88
3369451--3369630	65	2.7	66	83	4	213	34	13	15	36	1.87
3378161--3378200	17	2.4	17	86	0	62	47	0	12	40	1.41
3379455--3379482	14	2.0	14	100	0	56	64	0	0	35	0.94
3380356--3380382	2	13.5	2	100	0	54	51	0	0	48	1.00
3380580--3380609	2	15.0	2	100	0	60	50	0	0	50	1.00
3383354--3383410	3	19.0	3	96	0	105	33	1	0	64	1.04
3388409--3388457	25	1.9	26	83	4	64	34	4	0	61	1.15
3389488--3389633	79	1.8	79	86	2	213	31	13	26	29	1.93

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