genome.fa.s54.2.7.7.80.10.50.1000.17.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: Scaffold54
Parameters: 2 7 7 80 10 50 1000
Length:  3629595

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  17  of  20  ( 2342 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)
2910971--2911011	17	2.5	16	84	7	55	46	0	0	53	1.00
2911605--2911651	17	2.8	17	80	6	51	42	0	0	57	0.98
2911627--2911685	20	3.0	20	78	7	75	49	0	1	49	1.11
2911653--2911717	26	2.5	26	78	19	73	58	0	1	40	1.07
2911627--2911684	21	2.8	22	78	21	72	50	0	1	48	1.11
2911660--2911718	26	2.3	26	85	8	77	61	0	0	38	0.96
2911678--2911737	30	2.0	30	83	6	77	61	0	0	38	0.96
2911772--2911812	14	3.0	14	80	13	50	60	0	0	39	0.96
2922404--2922497	29	3.4	27	82	10	93	58	1	1	39	1.12
2928568--2928635	29	2.4	28	78	9	84	50	0	1	48	1.10
2941733--2941773	19	2.1	20	86	13	59	65	7	2	24	1.30
2948049--2948095	14	3.4	14	74	14	53	36	0	0	63	0.94
2948085--2948128	22	2.0	22	82	8	54	47	0	0	52	1.00
2948401--2948434	16	2.1	17	88	5	52	20	2	0	76	0.92
2948971--2949020	27	1.9	25	84	8	64	52	2	0	46	1.12
2949357--2949390	2	17.0	2	87	0	50	50	5	0	44	1.26
2949824--2949856	17	2.1	17	88	11	52	78	0	0	21	0.75
2950500--2950526	12	2.2	12	100	0	54	29	7	22	40	1.81
2956225--2956251	12	2.2	12	100	0	54	29	7	22	40	1.81
2960697--2960754	26	2.2	26	93	0	98	50	5	8	36	1.56
2962430--2962459	2	15.0	2	100	0	60	0	0	50	50	1.00
2967162--2967223	32	1.9	32	96	0	115	8	12	25	53	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2972412--2972589	92	1.9	92	89	0	275	26	12	17	43	1.85
2977424--2977858	240	1.8	240	90	1	701	24	13	21	40	1.89
2983285--2983320	19	1.9	19	88	5	56	22	2	0	75	0.94
2983308--2983348	20	2.0	20	85	9	55	14	7	2	75	1.12
2986348--2986401	25	2.1	26	83	13	67	35	0	1	62	1.06
2986441--2986520	31	2.6	30	78	3	88	42	1	2	53	1.22
2986584--2986646	18	3.5	18	77	12	58	52	0	1	46	1.10
2995841--2995868	4	7.0	4	100	0	56	0	25	0	75	0.81
2999206--2999234	11	2.5	12	94	5	51	65	0	0	34	0.93
3001130--3001158	14	2.1	14	100	0	58	27	13	20	37	1.91
3002842--3002878	19	1.9	19	94	0	65	21	16	2	59	1.49
3003048--3003076	2	14.5	2	100	0	58	48	0	0	51	1.00
3005847--3005876	13	2.4	13	94	5	53	56	10	16	16	1.66
3007306--3007499	102	1.9	102	88	0	289	27	12	15	43	1.84
3009160--3009202	23	1.9	23	81	13	54	53	4	2	39	1.34
3009711--3009754	24	1.9	22	90	9	70	68	0	0	31	0.90
3009747--3009782	15	2.4	16	86	13	51	55	0	2	41	1.14
3009757--3009805	23	2.1	24	85	11	75	63	0	0	36	0.95
3009747--3009814	23	2.8	25	78	19	72	61	0	1	36	1.05
3010056--3010122	7	9.3	7	71	12	55	35	1	1	61	1.15
3010064--3010122	21	2.7	21	89	7	82	37	1	1	59	1.18
3010129--3010181	22	2.4	22	84	12	72	52	3	0	43	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3016804--3016846	21	2.0	21	95	0	77	20	39	6	32	1.80
3026788--3026840	26	2.0	26	100	0	106	50	3	7	37	1.49
3030279--3030342	33	1.9	33	93	0	110	21	25	17	35	1.95
3032297--3032358	31	2.0	31	100	0	124	22	16	25	35	1.94
3037221--3037265	21	2.1	21	95	0	81	28	2	42	26	1.67
3037284--3037342	31	1.9	31	82	0	73	49	1	1	47	1.21
3040250--3040380	43	3.0	43	94	0	226	47	4	20	27	1.70
3040909--3040944	19	1.9	19	94	5	65	22	16	2	58	1.51
3041122--3041163	2	21.5	2	85	4	59	42	0	4	52	1.22
3042825--3042902	39	2.0	39	97	0	147	15	14	24	46	1.83
3044156--3044196	2	20.5	2	100	0	82	0	48	0	51	1.00
3044842--3044881	15	2.7	15	85	11	55	52	0	2	45	1.14
3044907--3044969	15	4.4	16	75	22	61	47	3	0	49	1.17
3044919--3044969	26	2.0	26	92	0	84	47	3	0	49	1.20
3044990--3045089	40	2.6	39	75	9	107	42	3	2	53	1.28
3049249--3049295	2	23.5	2	95	0	85	0	0	46	53	1.00
3051190--3051214	2	12.5	2	100	0	50	48	0	0	52	1.00
3054831--3054863	14	2.5	13	90	9	50	87	0	6	6	0.65
3055692--3055722	16	1.9	16	93	0	53	67	0	0	32	0.91
3055698--3055816	46	2.5	48	82	12	147	64	0	1	33	1.03
3056466--3056508	2	22.0	2	80	4	52	51	0	0	48	1.00
3057849--3057879	15	2.0	16	93	6	55	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)
3058080--3058117	15	2.6	15	91	4	60	65	0	0	34	0.93
3059477--3059507	15	2.0	16	93	6	55	51	0	3	45	1.17
3060256--3060301	21	2.1	22	84	11	60	58	0	0	41	0.98
3060239--3060348	26	4.2	25	75	14	71	60	0	0	39	1.03
3060612--3060715	40	2.6	37	74	15	93	51	0	0	48	1.00
3063254--3063311	29	1.9	31	86	6	84	43	0	0	56	0.99
3063257--3063331	31	2.5	32	81	14	88	46	0	0	53	1.00
3063915--3063970	20	2.7	21	75	5	60	46	0	1	51	1.11
3064671--3064735	23	2.8	25	78	19	77	49	0	0	50	1.00
3064733--3064791	28	2.1	29	80	3	66	49	0	0	50	1.00
3065669--3065736	26	2.4	31	79	18	85	67	1	0	30	0.99
3065677--3065721	20	2.2	21	84	11	58	71	2	0	26	0.98
3065690--3065737	23	2.1	23	84	7	62	72	0	0	27	0.84
3065691--3065731	10	4.2	10	85	14	59	73	0	0	26	0.84
3065697--3065817	8	15.4	8	67	21	51	61	1	0	37	1.06
3065731--3065781	26	1.9	28	84	11	72	52	1	0	45	1.12
3065796--3065843	15	3.1	16	79	8	55	66	4	0	29	1.10
3066697--3066756	6	10.0	6	73	20	54	60	0	0	40	0.97
3066697--3066756	17	3.3	18	80	13	70	60	0	0	40	0.97
3066687--3066775	42	2.2	40	86	10	117	53	0	0	46	1.00
3066756--3066794	14	2.7	15	84	11	55	38	0	0	61	0.96
3067332--3067377	18	2.7	16	81	15	56	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3067488--3067546	27	2.1	28	87	9	86	57	0	0	42	0.98
3067510--3067558	18	2.7	18	83	3	53	59	0	0	40	0.98
3069324--3069351	3	9.3	3	100	0	56	32	0	0	67	0.91
3075811--3075853	18	2.3	18	80	4	50	48	0	0	51	1.00
3075855--3075904	24	2.0	24	85	11	66	66	2	2	30	1.14
3076688--3076747	15	4.1	14	80	10	59	71	3	0	25	1.01
3076701--3076736	13	2.8	13	91	8	56	77	2	0	19	0.88
3076860--3076898	17	2.4	17	87	8	55	56	0	0	43	0.99
3078098--3078168	36	2.0	36	97	0	133	15	12	14	57	1.65
3080345--3080381	2	18.5	2	100	0	74	48	0	0	51	1.00
3080893--3080927	17	2.2	16	90	10	54	34	0	28	37	1.58
3087866--3087934	32	2.1	34	84	10	90	53	0	0	46	1.00
3087874--3087925	17	3.1	16	75	5	50	55	0	0	44	0.99
3088143--3088192	20	2.3	20	80	10	55	52	4	2	42	1.31
3088160--3088236	20	4.0	20	74	19	65	45	1	0	53	1.08
3088193--3088240	23	2.1	23	84	7	62	39	0	0	60	0.97
3089285--3089370	27	3.3	27	72	19	83	46	0	0	53	1.00
3089332--3089371	13	3.0	13	85	3	53	37	0	0	62	0.95
3089285--3089387	20	5.2	20	73	13	72	44	0	0	55	0.99
3089304--3089387	25	3.2	27	77	11	77	44	0	0	55	0.99
3089339--3089383	13	3.4	13	85	11	56	37	0	0	62	0.96
3089747--3089828	32	2.5	32	80	13	87	64	1	1	32	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3089738--3089864	28	4.8	25	74	19	105	62	0	0	36	1.07
3089775--3089832	23	2.5	23	80	5	64	65	1	1	31	1.13
3089738--3089922	5	38.6	5	69	17	92	59	0	1	38	1.09
3089811--3089888	33	2.4	33	91	8	124	60	1	0	38	1.05
3089811--3089887	32	2.3	32	89	10	120	59	1	0	38	1.06
3089811--3089898	32	2.9	30	82	15	101	59	1	0	39	1.05
3090406--3090438	3	11.0	3	100	0	66	66	0	0	33	0.92
3090940--3090969	15	1.9	16	93	6	53	56	3	0	40	1.16
3095838--3095902	33	2.0	32	87	3	94	47	10	10	30	1.73
3100339--3100432	49	1.9	49	95	0	170	35	23	3	38	1.71

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20