genome.fa.s39.2.7.7.80.10.50.1000.23.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: Scaffold39
Parameters: 2 7 7 80 10 50 1000
Length:  4724573

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   

This is table  23  of  27  ( 3195 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)
3942405--3942430	13	2.0	13	100	0	52	30	15	15	38	1.88
3950556--3950617	20	3.2	19	71	8	61	33	1	32	32	1.68
3951155--3951181	13	2.1	13	100	0	54	29	14	14	40	1.86
3951166--3951240	19	3.9	19	94	1	123	29	16	17	37	1.91
3954145--3954221	22	3.5	22	83	3	93	38	3	31	25	1.74
3954746--3954799	20	2.8	19	88	5	81	33	12	16	37	1.87
3954849--3954896	13	4.2	13	70	29	54	31	12	18	37	1.88
3956388--3956413	13	2.0	13	100	0	52	38	15	15	30	1.88
3958616--3958660	21	2.1	21	84	8	56	53	4	20	22	1.63
3960463--3960493	15	2.1	15	93	0	53	48	16	22	12	1.80
3965132--3965157	13	2.0	13	100	0	52	38	15	15	30	1.88
3966307--3966364	20	3.0	20	84	2	73	31	10	12	46	1.74
3966403--3966427	13	1.9	13	100	0	50	32	16	16	36	1.90
3966416--3966564	52	2.9	51	85	7	203	33	16	18	31	1.93
3975717--3975999	28	9.8	28	78	5	165	26	26	14	32	1.94
3975774--3975998	113	2.0	114	83	0	290	26	24	14	34	1.94
3975747--3976005	28	9.0	28	77	7	191	26	26	13	33	1.94
3975758--3976005	56	4.3	56	77	5	219	25	26	14	33	1.94
3976013--3976084	29	2.5	29	81	2	83	29	31	9	29	1.89
3975968--3976173	99	2.1	99	85	5	274	25	30	13	31	1.93
3976117--3976411	29	10.0	30	76	12	204	25	28	14	31	1.95
3976117--3976351	89	2.6	87	78	7	231	25	28	14	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3976251--3976641	32	12.8	29	74	15	190	28	30	16	25	1.96
3976362--3976686	32	10.5	32	76	8	264	30	29	17	22	1.97
3976702--3976898	58	3.4	58	84	1	241	27	23	14	34	1.94
3976937--3977170	104	2.2	104	82	4	276	25	19	17	37	1.93
3976866--3977156	52	5.6	52	78	1	235	25	19	16	37	1.93
3976869--3977170	156	1.9	156	81	2	356	25	20	16	37	1.94
3977948--3978057	51	2.2	51	86	3	159	30	14	13	41	1.84
3981611--3981659	20	2.5	20	93	0	80	40	10	18	30	1.84
3981600--3981668	20	3.4	20	85	2	75	40	13	17	28	1.87
3984194--3984277	40	2.1	40	86	0	114	22	32	14	30	1.94
3988069--3988523	149	3.0	149	81	9	490	51	9	7	32	1.60
3989614--3989739	43	2.9	43	75	6	130	41	11	24	22	1.87
3989832--3989946	42	2.7	43	94	4	205	45	19	20	15	1.86
3989913--3989978	32	2.1	32	91	0	105	50	16	16	16	1.79
3989827--3990042	117	1.8	117	83	9	289	43	18	21	16	1.88
3989871--3990010	75	1.9	74	83	7	185	45	18	19	16	1.85
3989946--3990054	43	2.6	43	80	10	125	41	17	23	17	1.90
3990401--3990608	43	4.9	42	86	4	265	40	13	24	21	1.89
3990401--3990623	86	2.6	87	85	5	294	40	13	24	21	1.89
3990982--3991287	121	2.5	122	75	9	295	49	17	16	16	1.81
3991222--3991316	43	2.2	43	80	0	118	44	16	21	17	1.87
3991705--3991856	81	1.9	80	84	4	207	44	17	20	17	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3991711--3991897	77	2.4	81	81	5	213	47	17	19	16	1.83
3991705--3991945	43	6.0	41	68	17	137	46	15	20	18	1.85
3993494--3993626	44	3.0	43	66	17	103	49	10	17	22	1.77
3993402--3993645	87	2.8	88	81	5	287	47	9	18	25	1.78
3994178--3994392	112	1.9	110	82	8	267	39	11	13	35	1.81
3995042--3995096	7	7.9	7	75	15	51	1	16	1	80	0.90
3995043--3995090	22	2.2	20	85	10	60	2	16	0	81	0.79
3996218--3996360	73	2.0	73	84	8	193	45	8	16	29	1.77
3998099--3998172	21	3.6	20	80	10	71	29	18	12	39	1.87
3999391--3999803	143	2.9	143	82	4	456	48	9	14	27	1.73
4003725--4003749	13	1.9	13	100	0	50	32	16	16	36	1.90
4003845--4003874	14	2.1	14	93	0	51	23	23	10	43	1.83
4003902--4003926	13	1.9	13	100	0	50	32	16	20	32	1.94
4005059--4005103	17	2.5	19	82	10	58	13	2	4	80	0.97
4005462--4005808	153	2.3	153	82	3	430	54	8	5	31	1.54
4005462--4005857	153	2.6	149	77	8	409	54	8	6	31	1.56
4006079--4006108	3	10.0	3	100	0	60	33	0	0	66	0.92
4007222--4007271	17	2.9	17	82	11	66	42	0	8	50	1.32
4008027--4008098	33	2.2	33	78	9	76	52	6	2	37	1.43
4009518--4009574	19	2.9	19	87	5	87	33	10	17	38	1.84
4009514--4009573	20	3.0	20	85	4	86	33	10	18	38	1.84
4011240--4011273	9	3.8	9	88	11	52	44	0	26	29	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4017682--4017818	47	2.9	48	97	1	258	46	3	18	31	1.66
4018460--4018515	20	2.9	19	84	10	69	33	16	16	33	1.91
4018563--4018632	33	2.2	32	92	2	113	31	14	17	37	1.89
4020888--4020941	20	2.7	20	88	2	81	42	11	14	31	1.81
4021001--4021135	52	2.6	52	91	1	227	27	19	12	40	1.87
4024508--4024572	33	2.0	33	87	0	94	40	15	9	35	1.79
4025121--4025218	36	3.0	32	79	13	101	34	13	23	28	1.92
4026833--4026882	21	2.3	22	86	3	75	60	2	22	16	1.46
4028992--4029146	79	2.0	79	87	5	224	29	13	30	26	1.94
4029000--4029419	129	3.2	131	82	7	464	33	14	25	27	1.94
4029078--4029196	50	2.4	51	91	1	186	31	13	26	28	1.94
4029038--4029420	131	2.9	129	81	10	433	34	14	24	26	1.93
4033361--4033606	122	2.0	124	87	1	352	39	11	10	37	1.77
4034396--4034488	36	2.8	33	77	12	100	32	12	24	30	1.93
4034396--4034467	36	2.0	36	86	2	101	34	11	27	26	1.90
4034396--4034479	32	2.5	35	79	11	95	32	11	25	30	1.92
4034921--4034984	33	1.9	33	87	0	92	35	15	14	34	1.88
4035033--4035057	13	1.9	13	100	0	50	36	16	16	32	1.90
4035046--4035099	20	2.6	21	88	2	74	37	11	12	38	1.79
4035543--4035669	34	3.8	35	86	8	151	32	14	24	28	1.95
4045869--4045893	11	2.3	11	100	0	50	8	16	20	56	1.65
4046859--4046906	13	4.2	13	70	29	54	37	18	12	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4046859--4046927	33	2.1	33	91	0	111	36	18	11	33	1.87
4046957--4046983	13	2.1	13	100	0	54	40	14	14	29	1.86
4047455--4047484	14	2.1	15	93	6	53	46	0	0	53	1.00
4054705--4054742	14	2.7	14	91	0	67	34	21	21	23	1.97
4056796--4056988	44	4.2	44	86	4	242	27	19	12	40	1.88
4056906--4057014	51	2.2	50	88	1	155	29	20	11	39	1.86
4065297--4065334	13	2.9	13	92	0	58	42	15	5	36	1.70
4065446--4065492	22	2.2	21	78	17	53	36	17	0	46	1.48
4068797--4068843	20	2.3	20	85	7	60	29	14	10	44	1.79
4070107--4071087	61	16.3	61	81	5	1052	26	26	19	27	1.99
4070101--4071086	120	8.2	120	84	3	1139	26	26	19	27	1.99
4070107--4071086	181	5.4	179	81	6	1085	26	26	19	27	1.99
4071144--4071420	35	7.4	35	67	17	119	18	24	14	42	1.88
4071143--4071505	75	4.8	74	83	4	395	19	23	15	41	1.89
4071103--4071513	152	2.7	152	85	3	533	19	23	15	42	1.88
4071294--4071491	35	5.3	35	70	16	139	19	22	14	43	1.87
4074862--4074914	1	53.0	1	76	0	52	88	5	1	3	0.67
4074862--4074905	15	2.9	15	93	0	70	88	6	0	4	0.62
4074870--4074906	8	4.8	8	86	6	58	89	8	0	2	0.58
4074862--4074929	18	3.7	18	80	9	57	85	4	7	2	0.82
4074863--4074906	23	2.0	23	95	4	81	88	6	0	4	0.62
4075869--4076248	61	6.3	60	83	6	457	26	27	19	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4075863--4076246	120	3.2	120	85	3	506	26	28	19	26	1.98
4076236--4076331	43	2.3	42	88	1	138	23	15	17	42	1.88
4076236--4076546	35	8.0	40	69	16	145	19	22	15	42	1.88
4076305--4076617	35	8.5	35	70	16	166	19	23	15	41	1.89
4076264--4076581	75	4.2	77	82	2	374	18	22	15	43	1.87
4076264--4076582	152	2.1	152	90	0	494	18	22	15	43	1.87
4076381--4076739	187	1.9	187	86	1	504	21	24	14	40	1.90
4076457--4076665	110	1.9	111	83	4	269	21	23	14	40	1.90
4076301--4076625	152	2.2	151	83	6	387	20	24	14	40	1.90
4076567--4076891	77	4.2	77	76	11	268	21	25	12	40	1.88

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