genome.fa.s48.2.7.7.80.10.50.1000.24.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: Scaffold48
Parameters: 2 7 7 80 10 50 1000
Length:  4619657

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  24  of  27  ( 3212 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)
3803477--3803506	4	7.5	4	100	0	60	76	0	0	23	0.78
3803817--3803864	17	2.8	17	84	12	71	41	0	0	58	0.98
3803821--3803863	18	2.5	17	85	7	61	41	0	0	58	0.98
3804565--3804595	15	2.1	15	93	0	53	38	3	0	58	1.15
3808670--3808718	16	3.1	15	77	11	53	61	2	2	34	1.19
3809388--3809494	50	2.1	50	85	0	142	28	18	18	33	1.95
3809734--3809770	19	1.9	19	94	0	65	32	21	13	32	1.92
3813792--3813975	50	3.7	50	78	0	188	33	17	14	34	1.90
3813792--3813998	100	2.1	100	83	1	254	32	15	15	35	1.90
3813832--3813998	50	3.3	50	78	1	174	29	14	17	37	1.90
3815015--3815061	16	2.9	17	71	9	53	51	0	0	48	1.00
3816695--3816750	19	2.8	19	76	13	51	39	0	1	58	1.08
3816655--3816820	27	6.0	27	68	18	74	42	1	2	54	1.21
3816783--3816831	24	2.1	24	84	3	64	30	0	2	67	1.02
3817114--3817157	22	2.0	21	82	4	52	52	0	0	47	1.00
3817153--3817190	20	2.0	18	90	10	58	36	0	0	63	0.95
3837672--3837899	116	2.0	116	100	0	456	32	17	13	37	1.88
3844654--3844680	12	2.2	12	100	0	54	0	7	59	33	1.25
3849405--3849503	28	3.8	27	76	16	84	49	1	0	49	1.07
3849424--3849510	32	2.6	33	83	10	106	45	0	0	54	1.00
3849468--3849548	24	3.6	23	79	9	78	35	0	0	64	0.94
3849492--3849539	7	7.4	7	80	20	52	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3849492--3849562	12	5.6	13	74	20	62	30	1	0	67	0.99
3849500--3849564	30	2.2	30	83	10	80	30	1	0	67	1.00
3850696--3850738	15	3.0	15	80	10	54	58	4	2	34	1.32
3850699--3850741	13	3.2	13	83	6	50	55	2	2	39	1.25
3853804--3853828	10	2.5	10	100	0	50	40	0	0	60	0.97
3854017--3854065	23	2.1	23	85	7	64	65	0	0	34	0.93
3854119--3854179	22	2.7	23	78	9	63	57	1	0	40	1.08
3854120--3854188	23	3.2	20	77	18	66	56	1	0	42	1.08
3854115--3854263	35	4.1	34	70	15	120	50	0	0	48	1.10
3854262--3854339	23	3.4	22	72	11	68	58	6	2	32	1.37
3854596--3854637	20	2.2	20	82	4	50	57	0	0	42	0.99
3854612--3854962	122	2.9	121	84	8	389	42	3	1	52	1.26
3858309--3858483	92	1.9	92	80	6	203	34	16	8	41	1.78
3858415--3858682	70	3.8	67	80	9	279	31	17	8	41	1.80
3858455--3858682	70	3.3	68	84	6	289	32	17	8	41	1.80
3858624--3858879	93	2.7	93	89	1	388	33	17	7	41	1.78
3858804--3859020	69	3.1	70	89	2	328	31	16	8	43	1.77
3858950--3859262	92	3.5	92	84	6	415	33	16	8	41	1.78
3858955--3859222	86	3.0	86	86	3	347	33	17	8	40	1.80
3859854--3860213	125	2.9	123	82	12	432	53	2	2	41	1.26
3859854--3860213	124	2.9	124	83	9	382	53	2	2	41	1.26
3861408--3861477	27	2.7	26	77	16	72	51	1	1	45	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3861708--3861763	27	2.1	26	83	3	67	57	1	0	41	1.09
3861835--3861901	22	3.3	22	73	21	65	50	1	0	47	1.10
3862705--3862760	22	2.3	23	85	11	69	55	0	0	44	0.99
3862698--3862758	26	2.3	28	76	23	69	52	0	1	45	1.10
3863378--3863402	8	3.1	8	100	0	50	36	0	0	64	0.94
3867973--3868109	16	8.6	17	67	27	63	58	0	0	40	1.09
3867949--3868110	6	25.0	6	69	23	57	59	0	1	38	1.10
3867972--3868115	7	18.5	8	68	22	69	59	0	0	39	1.08
3867972--3868113	12	10.8	13	66	19	71	59	0	0	39	1.08
3867972--3868100	24	5.3	25	74	17	80	58	0	0	40	1.09
3867955--3868115	29	5.4	29	70	17	89	59	0	0	39	1.07
3868395--3868461	32	2.1	32	82	0	80	34	22	4	38	1.74
3869310--3869339	15	1.9	16	93	6	53	36	0	3	60	1.14
3869342--3869380	17	2.2	17	90	4	60	48	0	2	48	1.15
3869342--3869384	18	2.4	18	92	7	70	48	0	2	48	1.14
3881104--3881158	16	3.4	16	76	14	58	63	0	0	36	0.95
3881099--3881162	33	2.0	32	84	3	83	62	0	0	37	0.95
3881077--3881134	23	2.6	21	82	17	57	65	1	1	31	1.13
3881099--3881169	11	6.4	11	76	11	56	63	0	0	36	0.95
3881106--3881186	33	2.5	33	88	6	112	59	0	0	40	0.98
3881126--3881186	14	3.5	18	72	27	60	57	0	0	42	0.98
3881628--3881658	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3887949--3887984	18	2.1	17	89	5	54	50	0	0	50	1.00
3890216--3890290	14	5.4	14	73	7	55	38	0	2	58	1.12
3890231--3890291	26	2.4	25	84	13	79	39	0	1	59	1.08
3890766--3890817	26	2.1	25	82	7	61	13	1	13	71	1.24
3891186--3891238	13	4.1	13	78	7	54	41	0	0	58	0.98
3891138--3891230	26	3.4	27	79	18	88	44	0	0	55	0.99
3891171--3891237	32	2.2	29	86	7	89	40	0	0	59	0.97
3891189--3891260	19	3.8	20	78	12	80	36	0	0	63	0.94
3891187--3891264	37	2.1	38	83	11	99	35	0	0	64	0.94
3891218--3891265	12	3.9	12	76	12	53	31	0	0	68	0.90
3891221--3891271	24	2.1	25	89	10	79	29	0	0	70	0.87
3892483--3892538	14	3.9	14	78	15	60	51	1	0	46	1.11
3893096--3893148	20	2.7	19	78	16	63	35	0	0	64	0.94
3893476--3893501	8	3.2	8	100	0	52	50	0	15	34	1.45
3893526--3893557	3	10.7	3	100	0	64	34	0	0	65	0.93
3893618--3893645	2	14.0	2	100	0	56	50	0	0	50	1.00
3894002--3894035	17	1.9	18	88	5	52	44	0	2	52	1.16
3896192--3896219	2	14.0	2	100	0	56	50	0	0	50	1.00
3896470--3896507	17	2.1	19	85	9	53	36	0	0	63	0.95
3897223--3897267	15	2.9	16	75	25	51	55	0	0	44	0.99
3899057--3899092	3	12.0	3	93	0	63	63	0	2	33	1.08
3899278--3899315	8	4.8	8	86	0	58	84	0	2	13	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3904200--3904242	2	22.0	2	90	4	70	0	51	0	48	1.00
3904470--3904497	2	14.0	2	100	0	56	50	0	0	50	1.00
3916020--3916049	2	15.0	2	92	0	51	53	0	46	0	1.00
3934175--3934204	2	15.0	2	100	0	60	50	0	0	50	1.00
3936013--3936057	22	2.2	20	84	8	54	40	0	6	53	1.27
3936078--3936104	12	2.2	12	100	0	54	74	0	0	25	0.83
3936313--3936380	17	3.8	17	76	7	64	30	1	2	64	1.17
3936971--3937017	23	2.0	23	88	8	69	21	2	6	70	1.20
3937346--3937408	5	12.2	5	75	18	58	33	0	0	66	0.92
3937345--3937426	11	7.7	11	77	13	75	31	1	0	67	0.99
3937305--3937432	41	3.2	39	76	15	120	32	2	1	64	1.16
3937362--3937454	25	3.6	25	78	15	73	33	1	0	65	1.00
3937454--3937495	17	2.3	18	88	8	59	54	0	0	45	0.99
3937936--3937997	11	5.4	12	80	16	60	62	0	3	33	1.11
3937930--3937997	35	1.9	35	82	5	84	63	0	2	33	1.10
3937907--3938012	24	4.0	26	73	20	94	62	0	2	34	1.10
3937983--3938014	15	2.1	16	94	5	57	59	0	6	34	1.23
3937988--3938033	20	2.4	19	82	13	58	60	2	6	30	1.34
3938020--3938089	14	4.6	14	71	16	50	58	1	1	38	1.16
3938918--3938974	4	15.5	4	78	14	61	0	22	0	77	0.77
3938910--3938974	18	3.3	19	80	17	71	1	21	0	76	0.86
3938907--3938966	25	2.4	25	83	8	68	1	20	0	78	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3938910--3938974	22	3.1	22	85	10	75	1	21	0	76	0.86
3939294--3939337	23	1.9	23	86	9	63	68	6	4	20	1.31
3939708--3939769	25	2.6	23	75	12	63	61	3	1	33	1.22
3939789--3939885	35	2.8	33	73	19	83	61	5	2	30	1.29
3939894--3939934	21	2.0	21	90	9	66	0	19	0	80	0.71
3939894--3939934	22	2.0	20	85	9	55	0	19	0	80	0.71
3940045--3940105	27	2.3	26	81	13	72	49	0	0	50	1.00
3940058--3940108	21	2.4	21	81	15	61	50	0	0	49	1.00
3940092--3940148	19	3.0	19	87	10	73	42	0	0	57	0.98
3940055--3940148	16	5.5	18	73	20	78	46	0	0	53	1.00

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