genome.fa.s144.2.7.7.80.10.50.1000.20.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: Scaffold144
Parameters: 2 7 7 80 10 50 1000
Length:  3311329

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  20  of  21  ( 2468 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)
3047633--3047711	41	1.9	41	82	10	99	53	0	0	46	1.00
3047655--3047703	24	2.0	24	84	7	64	48	0	0	51	1.00
3047951--3047991	9	4.6	9	87	0	55	68	0	7	24	1.15
3047955--3047989	3	11.7	3	90	0	52	71	0	2	25	1.00
3049323--3049460	72	1.9	72	87	0	204	17	12	21	48	1.80
3049321--3049487	72	2.3	72	82	4	183	16	14	20	49	1.80
3054743--3054772	10	3.1	10	95	4	53	93	0	6	0	0.35
3056307--3056362	19	3.3	19	63	31	54	60	7	5	26	1.44
3056307--3056368	31	2.0	31	100	0	124	58	6	6	29	1.48
3057128--3057154	2	13.5	2	100	0	54	0	0	48	51	1.00
3057154--3057187	2	17.0	2	87	0	50	50	0	0	50	1.00
3059468--3059549	19	4.4	19	71	20	73	41	0	0	58	0.98
3059472--3059553	29	2.9	29	80	10	89	42	0	0	57	0.98
3059849--3059911	23	2.8	22	83	11	83	63	0	0	36	0.95
3062906--3062965	27	2.3	26	80	11	68	20	3	1	75	1.04
3070503--3070561	21	2.9	21	89	2	84	55	15	13	15	1.69
3072366--3072556	52	3.7	52	85	4	224	36	17	21	24	1.94
3072363--3072556	104	1.9	104	85	4	275	36	17	21	25	1.94
3072395--3072576	52	3.5	52	82	3	134	35	18	20	25	1.95
3073858--3073971	20	6.2	18	70	18	58	15	7	2	73	1.17
3073858--3073909	8	5.9	8	75	20	50	15	3	1	78	0.98
3082724--3082866	71	2.0	71	95	0	259	29	21	5	43	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3082837--3082877	21	2.0	21	85	0	55	29	26	0	43	1.55
3093727--3093754	14	2.0	14	100	0	56	35	14	0	50	1.43
3096775--3096807	2	16.5	2	100	0	66	51	0	0	48	1.00
3096984--3097008	2	12.5	2	100	0	50	52	0	0	48	1.00
3097379--3097473	45	2.1	45	90	0	145	30	9	9	50	1.66
3102913--3102942	14	2.1	14	100	0	60	60	0	10	30	1.30
3104520--3104587	30	2.3	31	78	16	74	29	25	5	39	1.79
3104532--3104587	30	1.9	28	85	7	76	26	25	5	42	1.76
3104662--3104724	30	2.1	30	87	0	90	39	9	19	31	1.83
3107650--3107682	4	8.2	4	100	0	66	24	0	0	75	0.80
3108139--3108209	32	2.3	32	83	13	87	47	5	1	45	1.35
3108644--3108693	20	2.5	20	81	12	59	50	0	0	50	1.00
3110286--3110346	26	2.3	25	81	10	68	57	1	1	39	1.18
3110412--3110462	14	3.6	14	74	10	50	35	0	0	64	0.94
3110412--3110518	29	3.8	27	72	15	76	38	2	0	57	1.19
3111362--3111396	3	11.7	3	87	0	52	60	0	5	34	1.21
3111991--3112025	2	18.0	2	94	5	63	48	0	0	51	1.00
3114858--3114899	22	2.0	22	85	4	59	54	0	4	40	1.21
3115785--3115838	19	2.9	19	97	2	101	42	0	7	50	1.30
3118905--3119194	152	1.9	152	89	0	445	36	8	14	40	1.77
3119433--3119503	20	3.5	20	80	3	81	35	11	12	40	1.79
3123706--3123744	19	2.1	19	85	0	51	12	10	7	69	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3128088--3128124	18	2.1	18	100	0	74	27	27	29	16	1.97
3133421--3133477	9	6.0	9	76	10	51	78	14	3	3	1.01
3133421--3133476	27	2.0	28	86	13	80	78	14	3	3	1.02
3134690--3134798	56	1.9	57	94	1	193	32	30	11	25	1.92
3134694--3134793	28	3.5	29	82	4	132	33	30	12	25	1.92
3134781--3134807	14	1.9	14	100	0	54	44	29	11	14	1.80
3134797--3135587	29	27.3	29	84	6	989	29	30	16	23	1.96
3134797--3135606	57	14.0	57	85	5	970	29	30	16	23	1.96
3134797--3135606	172	4.7	172	86	4	1033	29	30	16	23	1.96
3136164--3136238	20	3.8	20	81	0	96	33	13	12	41	1.81
3136164--3136241	40	2.0	39	89	2	120	33	12	12	41	1.82
3142278--3142336	21	2.8	22	79	7	68	45	0	6	47	1.29
3142335--3142387	20	2.7	20	90	0	79	39	5	3	50	1.44
3142966--3143003	2	18.0	2	89	10	58	47	0	5	47	1.24
3142966--3143003	17	2.2	17	100	0	76	47	0	5	47	1.24
3142974--3143002	15	1.9	15	100	0	58	48	0	3	48	1.18
3145582--3145617	14	2.6	14	95	0	63	47	0	5	47	1.25
3145922--3146000	8	9.0	8	73	19	52	29	3	0	67	1.08
3146412--3146441	2	15.0	2	100	0	60	50	0	0	50	1.00
3148806--3148861	27	2.1	26	84	15	71	32	0	0	67	0.91
3148821--3148863	19	2.3	19	84	4	52	32	0	0	67	0.91
3149140--3149216	23	3.4	23	71	16	72	48	0	3	48	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3150748--3150799	22	2.4	21	84	9	61	28	3	1	65	1.21
3151231--3151268	2	19.0	2	100	0	76	50	0	0	50	1.00
3151400--3151441	19	2.2	19	83	8	50	33	2	0	64	1.07
3151768--3151797	11	2.8	11	95	5	53	43	0	0	56	0.99
3151772--3151806	12	3.0	12	91	4	54	40	0	0	60	0.97
3152021--3152070	3	16.7	3	100	0	100	32	0	0	68	0.90
3154404--3154437	2	17.0	2	100	0	68	50	0	0	50	1.00
3154943--3154978	2	18.0	2	94	0	63	52	0	0	47	1.00
3163039--3163079	20	2.1	20	86	4	57	4	19	0	75	0.98
3167697--3167820	52	2.4	51	91	1	203	27	17	19	35	1.94
3167829--3167853	13	1.9	13	100	0	50	36	16	16	32	1.90
3167894--3167960	33	2.0	33	88	0	98	40	13	11	34	1.81
3167916--3167940	13	1.9	13	100	0	50	32	16	16	36	1.90
3168777--3169055	118	2.4	118	97	0	522	36	13	24	24	1.92
3168950--3169518	49	11.9	49	81	7	625	32	18	25	24	1.97
3169012--3169469	92	4.9	92	91	3	718	31	18	25	24	1.98
3169013--3169523	141	3.6	141	84	7	692	31	18	25	24	1.97
3169556--3170281	34	21.9	33	80	11	776	33	12	32	20	1.91
3169539--3170283	70	11.2	67	84	8	793	33	12	33	21	1.90
3169540--3170281	202	3.7	200	88	6	980	33	12	33	21	1.90
3170103--3170154	27	1.9	27	92	0	86	23	17	36	23	1.95
3170261--3170402	31	4.6	31	84	11	184	25	19	30	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3178473--3178534	1	62.0	1	80	0	61	88	4	6	0	0.62
3178438--3178534	39	2.5	39	87	1	140	84	5	9	1	0.81
3178440--3178532	35	2.9	31	84	12	102	83	5	9	1	0.84
3181479--3181530	16	3.1	16	77	20	52	1	11	5	80	0.96
3184157--3184224	20	3.8	19	73	26	76	32	13	11	42	1.80
3184178--3184202	13	1.9	13	100	0	50	32	16	16	36	1.90
3184158--3184222	33	2.0	33	96	0	121	30	13	12	43	1.81
3184191--3184243	20	2.7	20	84	0	61	33	11	15	39	1.83
3186092--3186141	2	25.0	2	87	0	73	50	6	0	44	1.26
3186544--3186578	8	4.4	8	85	0	52	65	0	31	2	1.07
3187873--3187906	15	2.3	15	89	0	50	58	2	2	35	1.28
3189232--3189280	22	2.3	22	80	13	59	51	2	2	44	1.24
3197693--3197736	19	2.3	19	100	0	88	13	9	15	61	1.56
3199822--3199868	21	2.1	23	88	7	71	46	6	10	36	1.64
3202272--3202299	2	14.0	2	100	0	56	50	0	0	50	1.00
3207517--3207547	2	15.5	2	100	0	62	0	48	0	51	1.00
3207547--3207578	2	16.5	2	93	6	57	50	0	0	50	1.00
3207586--3207629	22	2.0	22	100	0	88	22	4	27	45	1.72
3208013--3208045	16	2.0	17	88	5	50	63	0	0	36	0.95
3210493--3210599	53	2.0	54	80	12	123	33	26	15	24	1.95
3210578--3210705	16	8.0	15	75	10	103	40	31	14	13	1.85
3210570--3210705	32	4.3	32	84	2	132	40	30	14	13	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3210580--3210722	48	3.0	48	78	4	137	42	30	12	13	1.82
3212189--3212300	24	4.7	24	79	0	98	26	7	8	58	1.53
3223465--3223786	168	1.9	168	98	0	617	33	12	15	39	1.84
3223705--3223868	82	2.0	82	96	0	301	34	14	17	33	1.90
3223920--3223946	13	2.1	13	100	0	54	29	14	14	40	1.86
3223996--3224051	20	2.8	20	91	0	94	33	12	17	35	1.88
3226602--3226857	86	3.0	86	79	2	280	31	16	16	36	1.91
3227538--3227595	19	3.1	19	77	5	64	58	0	0	41	0.98
3227549--3227617	19	3.6	20	80	7	74	59	0	0	40	0.97
3229710--3229766	25	2.3	24	88	8	87	63	3	3	29	1.28

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21