genome.fa.s66.2.7.7.80.10.50.1000.23.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: 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  23  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)
4034111--4034158	24	1.9	25	83	8	62	31	10	4	54	1.53
4037315--4037365	20	2.6	20	87	3	68	39	19	13	27	1.90
4039600--4039674	35	2.1	35	92	0	114	38	18	12	30	1.87
4039648--4039699	25	2.1	25	96	0	95	44	15	13	26	1.84
4039608--4039731	60	2.1	59	89	1	194	40	18	12	29	1.87
4040155--4040259	53	2.0	53	94	0	183	26	23	9	40	1.85
4048471--4048508	19	2.0	19	85	10	51	47	13	5	34	1.65
4051877--4052048	65	2.6	66	75	11	165	43	10	16	29	1.82
4052076--4052164	45	2.0	45	86	0	124	49	14	13	22	1.78
4053181--4053220	20	2.0	20	85	4	55	5	10	2	82	0.91
4056159--4056262	37	2.8	37	79	2	93	39	14	14	31	1.86
4056173--4056263	37	2.4	38	80	5	114	39	13	16	30	1.87
4061614--4061638	13	1.9	13	100	0	50	32	20	16	32	1.94
4062490--4062541	19	2.7	20	87	6	79	42	15	13	28	1.85
4066225--4066255	15	2.1	15	93	0	53	48	16	22	12	1.80
4069966--4070009	23	2.0	21	82	8	52	15	9	15	59	1.61
4070147--4070208	30	2.1	30	100	0	124	33	6	27	32	1.82
4070938--4070963	13	2.0	13	100	0	52	38	15	15	30	1.88
4070920--4070983	32	2.0	33	90	3	103	42	15	14	28	1.86
4073880--4073919	20	2.0	21	95	5	73	32	17	10	40	1.83
4077192--4077221	12	2.5	12	94	0	51	10	26	3	60	1.45
4078723--4078822	31	3.1	32	91	4	166	35	12	17	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4078839--4078866	13	2.2	13	100	0	56	28	14	17	39	1.89
4078872--4079052	52	3.5	52	98	0	344	34	18	18	27	1.95
4094315--4095097	59	13.4	58	89	2	996	29	29	16	24	1.97
4094315--4095097	88	8.9	87	87	3	1009	29	29	16	24	1.97
4095072--4095153	28	2.9	28	83	12	96	34	29	18	18	1.94
4094311--4095117	147	5.5	147	91	1	1189	29	29	16	24	1.96
4095165--4095527	43	8.0	43	81	10	429	25	24	18	31	1.97
4095160--4095580	92	4.5	92	93	1	671	25	24	17	32	1.97
4095481--4095617	52	2.5	55	81	3	163	25	24	13	35	1.93
4095437--4095914	218	2.2	218	94	0	830	23	25	15	35	1.95
4095656--4095742	43	2.0	43	95	0	156	26	25	19	28	1.99
4095699--4095798	52	1.9	52	89	0	155	25	25	16	34	1.95
4096503--4096527	13	1.9	13	100	0	50	36	16	16	32	1.90
4096483--4096551	32	2.1	33	91	2	113	36	11	17	34	1.86
4096622--4096802	52	3.5	52	94	0	308	34	17	19	29	1.94
4100854--4100970	60	2.0	60	92	0	198	38	16	23	21	1.93
4101569--4101593	13	1.9	13	100	0	50	32	20	16	32	1.94
4101647--4101697	19	2.6	20	84	6	68	43	15	9	31	1.80
4101695--4101748	20	2.7	21	88	5	76	40	14	16	27	1.88
4104926--4104950	13	1.9	13	100	0	50	32	16	16	36	1.90
4104938--4104990	20	2.6	21	82	8	65	37	15	16	30	1.90
4108392--4108425	3	11.3	3	100	0	68	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4108670--4108734	26	2.5	26	75	7	60	44	4	9	41	1.57
4109116--4109174	19	3.0	20	75	7	57	45	16	8	28	1.77
4114799--4114926	52	2.5	52	93	3	215	31	17	17	33	1.93
4115000--4115066	33	2.0	33	88	0	98	40	13	11	34	1.81
4115022--4115046	13	1.9	13	100	0	50	32	16	16	36	1.90
4118659--4118683	13	1.9	13	100	0	50	32	16	16	36	1.90
4118657--4118740	40	2.3	36	86	13	111	29	19	19	32	1.96
4118672--4118740	20	3.5	20	100	0	138	28	18	20	31	1.96
4118771--4118827	20	2.9	20	81	5	71	33	14	15	36	1.88
4118773--4118828	19	2.9	19	83	2	67	33	14	17	33	1.90
4120226--4120280	11	5.4	11	75	20	57	81	18	0	0	0.68
4120226--4120280	10	5.7	9	81	12	56	81	18	0	0	0.68
4120226--4120280	21	2.8	18	82	17	74	81	18	0	0	0.68
4121537--4121975	221	2.0	221	81	5	510	22	29	13	34	1.92
4121600--4122402	33	24.8	33	80	7	614	20	30	13	35	1.91
4121570--4122401	67	12.9	66	81	6	644	20	30	13	35	1.91
4122402--4123213	39	17.8	48	74	14	367	25	25	18	29	1.98
4122458--4123064	87	6.9	87	86	6	746	26	25	19	28	1.99
4122458--4122968	166	3.0	169	86	6	697	26	25	19	28	1.99
4122458--4122921	253	1.8	253	90	0	741	26	25	20	28	1.99
4122891--4123213	49	6.5	49	82	4	362	25	26	17	31	1.97
4122888--4123153	101	2.7	100	86	4	358	25	25	16	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4122798--4123212	150	2.9	147	78	8	415	25	26	17	30	1.97
4122888--4123213	101	3.3	98	81	5	352	25	26	17	31	1.97
4128714--4128766	6	8.5	6	76	15	54	0	20	0	79	0.74
4128720--4128767	20	2.3	20	86	10	62	0	22	0	77	0.78
4131234--4131271	18	2.1	19	95	5	69	50	0	0	50	1.00
4136179--4136295	51	2.3	51	83	0	126	29	20	12	36	1.90
4136289--4136352	28	2.3	27	84	10	76	21	26	18	32	1.97
4136235--4136514	108	2.6	106	81	2	326	27	23	14	34	1.94
4136453--4136565	51	2.2	51	87	3	156	33	25	9	30	1.88
4136504--4136801	79	3.8	79	81	5	334	28	25	14	32	1.94
4139270--4139503	118	2.0	115	95	2	423	31	11	16	40	1.84
4141082--4141154	21	3.4	21	68	17	60	6	35	6	50	1.56
4141081--4141152	23	3.3	22	72	18	69	6	36	5	51	1.52
4143909--4143934	3	8.7	3	100	0	52	30	0	0	69	0.89
4145254--4145289	19	1.9	18	88	5	54	52	0	0	47	1.00
4149511--4149582	36	2.1	35	84	7	94	43	2	0	54	1.15
4149695--4149756	30	2.1	30	82	11	74	61	0	1	37	1.06
4150062--4150101	2	20.0	2	100	0	80	50	0	0	50	1.00
4150141--4150183	16	2.7	16	82	10	52	53	0	2	44	1.13
4150667--4150715	22	2.2	22	96	0	89	59	8	8	24	1.54
4151234--4151301	28	2.3	30	87	9	97	58	1	1	38	1.16
4151321--4151381	23	2.6	23	82	15	72	4	21	0	73	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4151318--4151384	19	3.6	19	85	2	73	4	22	0	73	1.01
4152000--4152041	11	3.9	11	84	6	50	4	16	0	78	0.91
4152000--4152041	21	2.0	21	85	4	57	4	16	0	78	0.91
4152119--4152153	2	17.5	2	100	0	70	51	0	0	48	1.00
4152601--4152654	21	2.5	21	78	3	63	68	7	1	22	1.24
4153256--4153303	15	3.0	16	88	11	64	0	18	0	81	0.70
4153256--4153302	17	2.8	17	80	9	60	0	17	0	82	0.66
4153256--4153303	16	2.9	15	85	14	60	0	18	0	81	0.70
4153369--4153400	2	16.0	2	93	0	55	46	0	0	53	1.00
4162476--4162582	17	5.9	17	68	17	54	64	9	9	16	1.48
4162453--4162602	58	2.6	59	81	6	155	64	11	9	15	1.50
4162478--4162602	58	2.2	58	85	4	164	62	10	10	16	1.54
4162536--4162589	20	2.6	21	74	11	58	64	9	7	18	1.45
4162627--4162669	19	2.2	20	80	12	54	65	2	9	23	1.34
4162646--4162699	21	2.6	21	85	2	74	70	1	3	24	1.13
4162699--4162733	17	2.1	17	88	0	52	48	25	11	14	1.77
4167339--4167401	29	2.2	29	91	0	99	53	0	3	42	1.16
4169234--4169260	6	4.5	6	100	0	54	44	0	0	55	0.99
4169907--4169950	22	2.0	22	90	0	70	43	4	0	52	1.22
4170012--4170052	2	21.0	2	85	5	57	43	0	2	53	1.13
4170296--4170344	10	4.9	10	89	0	62	61	0	0	38	0.96
4170300--4170340	14	2.9	14	96	0	73	60	0	0	39	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4170298--4170344	4	11.8	4	86	0	58	59	0	0	40	0.97
4171002--4171028	2	13.5	2	100	0	54	51	0	0	48	1.00
4171908--4171940	17	1.9	17	88	11	50	66	0	0	33	0.92
4173174--4173203	2	15.0	2	92	0	51	46	0	3	50	1.18
4174433--4174487	23	2.3	26	84	12	73	52	0	0	47	1.00
4174433--4174494	26	2.6	25	79	18	71	53	0	0	46	1.00
4174436--4174496	23	2.7	23	73	16	63	52	0	0	47	1.00
4175138--4175177	17	2.3	19	79	16	50	62	2	0	35	1.09
4175130--4175181	24	2.2	24	82	6	61	61	1	0	36	1.07
4176664--4176738	30	2.6	29	85	12	100	52	1	5	41	1.33

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