genome.fa.s113.2.7.7.80.10.50.1000.19.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: Scaffold113
Parameters: 2 7 7 80 10 50 1000
Length:  3764034

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  19  of  23  ( 2678 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)
2962740--2962782	9	4.9	9	88	2	61	13	0	2	83	0.74
2962740--2962782	17	2.4	18	88	3	70	13	0	2	83	0.74
2963971--2964042	28	2.6	29	80	6	76	13	18	8	59	1.58
2970683--2970708	13	2.0	13	100	0	52	38	15	15	30	1.88
2970665--2970763	34	3.0	34	97	2	184	45	15	12	27	1.81
2970717--2970742	13	2.0	13	100	0	52	38	15	15	30	1.88
2973658--2973721	19	3.4	19	97	0	119	15	48	1	34	1.55
2974361--2974440	30	2.7	30	86	3	108	12	43	2	41	1.56
2975163--2975188	13	2.0	13	100	0	52	38	15	15	30	1.88
2975145--2975208	32	2.0	33	87	3	94	40	17	14	28	1.88
2984214--2984351	51	2.7	52	87	2	181	30	15	11	42	1.83
2987444--2987908	159	2.9	158	81	5	494	36	12	20	30	1.90
2987488--2987959	159	3.0	156	78	7	434	37	13	19	30	1.90
2991268--2991987	158	4.6	156	76	6	560	30	20	12	36	1.89
2991395--2991987	317	1.9	317	81	4	730	30	19	13	36	1.90
2996634--2996675	18	2.3	18	84	12	50	7	16	11	64	1.48
2996874--2996915	18	2.3	18	84	12	50	7	16	11	64	1.48
2996592--2997074	240	2.0	240	97	0	921	20	13	16	49	1.79
2997120--2997366	123	2.0	124	92	4	410	25	13	13	48	1.78
2997370--2997400	16	1.9	16	93	0	53	25	22	0	51	1.48
2999957--3001240	658	1.9	661	85	5	1747	36	20	14	28	1.92
3005609--3005679	9	8.1	9	71	16	51	14	33	0	52	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3005588--3005706	42	2.8	42	87	0	166	12	39	0	47	1.41
3006351--3006450	44	2.3	44	98	0	191	46	14	12	28	1.79
3012955--3013041	44	2.0	44	97	0	165	34	19	12	33	1.90
3019759--3019840	28	2.9	29	75	13	82	60	8	18	12	1.56
3022836--3022884	20	2.5	20	90	3	73	32	16	16	34	1.91
3022931--3022962	13	2.5	13	100	0	64	31	15	15	37	1.89
3025183--3025225	21	2.1	20	83	12	52	53	9	13	23	1.69
3025183--3025225	20	2.1	21	83	12	54	53	9	13	23	1.69
3028636--3028662	13	2.1	13	100	0	54	29	14	14	40	1.86
3030520--3030561	22	1.9	22	95	0	75	38	2	35	23	1.68
3031155--3031203	20	2.5	20	83	3	64	32	14	16	36	1.89
3031190--3031290	43	2.3	43	94	0	175	32	22	13	30	1.93
3031276--3031329	20	2.7	20	88	5	74	33	11	18	37	1.86
3033454--3034176	154	4.7	153	76	8	604	25	15	16	42	1.87
3033450--3034173	312	2.3	310	76	7	677	25	15	16	42	1.88
3039319--3039397	38	2.1	38	97	0	149	26	8	0	64	1.23
3039319--3039383	19	3.4	19	75	8	69	26	9	0	64	1.23
3039329--3039394	19	3.5	20	72	17	68	30	7	0	62	1.23
3039968--3040161	83	2.3	84	90	3	293	34	14	13	37	1.86
3041623--3041665	21	2.0	22	86	4	61	81	0	13	4	0.84
3043183--3043356	60	2.9	60	83	3	215	17	16	19	45	1.85
3044110--3045265	65	17.8	64	77	7	726	19	19	13	47	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3044108--3044872	326	2.4	325	79	6	786	20	19	13	46	1.83
3044832--3044929	31	3.1	31	72	18	92	18	16	13	52	1.75
3045055--3045299	65	3.8	65	75	7	205	19	20	11	48	1.79
3045055--3045324	130	2.1	128	80	6	287	18	20	12	48	1.79
3048187--3048580	155	2.6	154	79	6	422	24	16	16	42	1.88
3055118--3055166	16	3.0	16	78	3	53	36	2	12	48	1.52
3056119--3056145	14	1.9	14	100	0	54	88	11	0	0	0.50
3056738--3057041	112	2.7	111	84	2	383	34	15	12	37	1.85
3057980--3058294	90	3.5	89	88	2	436	28	26	15	30	1.96
3058315--3058378	30	2.1	30	83	11	78	32	18	7	40	1.80
3058392--3058555	35	4.7	35	85	0	195	25	26	10	37	1.88
3058720--3059412	85	8.2	85	83	3	707	18	21	13	46	1.84
3058770--3058910	42	3.3	43	72	10	146	17	20	13	48	1.81
3058720--3059412	169	4.1	170	80	5	688	18	21	13	46	1.84
3059068--3059301	43	5.5	42	73	9	190	16	24	14	45	1.84
3058720--3059413	254	2.7	253	82	4	806	18	21	13	46	1.84
3059377--3059448	36	2.0	36	97	0	135	20	22	15	41	1.89
3060868--3060892	12	2.1	12	100	0	50	48	20	0	32	1.50
3061781--3061839	21	3.0	20	80	7	75	22	3	11	62	1.43
3068965--3068998	11	3.0	11	86	4	50	58	2	0	38	1.13
3073283--3073307	9	2.8	9	100	0	50	0	8	0	92	0.40
3076926--3076988	12	5.8	12	72	24	50	41	0	44	14	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3076923--3077032	42	2.6	42	91	0	175	44	0	42	11	1.47
3085865--3085916	20	2.6	20	78	0	59	32	17	19	30	1.95
3094593--3094651	9	6.9	9	73	11	52	11	38	0	49	1.40
3097406--3097562	58	2.7	57	92	4	253	47	15	12	24	1.80
3097659--3097730	28	2.6	29	82	10	87	15	18	6	59	1.57
3098547--3098619	20	3.6	20	77	3	92	34	13	20	31	1.92
3098565--3098640	21	3.7	21	76	3	91	40	11	18	28	1.86
3098547--3098640	41	2.3	41	94	0	170	38	12	19	29	1.89
3098679--3098704	13	2.0	13	100	0	52	38	15	15	30	1.88
3099167--3099245	20	3.7	21	75	15	72	26	13	15	44	1.84
3099232--3099270	13	3.0	13	96	0	69	30	17	15	35	1.91
3101720--3101792	20	3.6	20	81	3	101	35	13	19	31	1.91
3101738--3101813	21	3.7	21	80	3	100	42	11	17	28	1.84
3101720--3101813	41	2.3	41	98	0	179	39	12	18	29	1.88
3101852--3101877	13	2.0	13	100	0	52	38	15	15	30	1.88
3106362--3106403	20	2.1	20	100	0	84	23	16	28	30	1.96
3106554--3106635	28	2.9	29	80	7	89	58	7	20	13	1.59
3115778--3115896	42	2.8	42	89	0	184	8	45	3	42	1.51
3115796--3115887	24	4.2	23	72	18	79	9	44	3	42	1.53
3115793--3115863	18	3.6	18	69	20	52	9	42	4	43	1.57
3117680--3117752	20	3.6	20	81	3	101	35	13	19	31	1.91
3117698--3117773	21	3.7	21	80	3	100	42	11	17	28	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3117680--3117773	41	2.3	41	98	0	179	39	12	18	29	1.88
3117812--3117837	13	2.0	13	100	0	52	38	15	15	30	1.88
3121890--3121920	15	2.1	15	93	0	53	48	16	22	12	1.80
3123936--3124014	20	3.7	21	75	15	72	27	13	13	44	1.83
3124001--3124039	13	3.0	13	96	0	69	30	17	15	35	1.91
3126488--3126560	20	3.6	20	81	3	101	35	13	19	31	1.91
3126506--3126581	21	3.7	21	80	3	100	42	11	17	28	1.84
3126488--3126581	41	2.3	41	98	0	179	39	12	18	29	1.88
3126620--3126645	13	2.0	13	100	0	52	38	15	15	30	1.88
3131283--3131364	28	2.9	29	80	7	89	58	7	20	13	1.59
3140507--3140625	42	2.8	42	89	0	184	8	45	3	42	1.51
3140525--3140616	24	4.2	23	72	18	79	9	44	3	42	1.53
3140522--3140592	18	3.6	18	69	20	52	9	42	4	43	1.57
3146107--3146177	18	3.6	18	69	20	52	14	40	0	45	1.44
3146125--3146201	12	5.9	12	69	26	50	14	42	0	42	1.45
3146113--3146210	42	2.3	42	92	0	169	13	38	0	47	1.42
3146952--3146990	18	2.2	18	95	0	69	5	10	5	79	1.04
3151255--3151330	12	6.9	11	75	15	52	39	2	48	9	1.49
3151254--3151339	24	3.8	24	72	17	85	41	2	45	10	1.51
3151245--3151369	42	2.9	42	90	3	187	43	2	45	8	1.48
3151320--3151369	18	2.7	20	79	11	54	44	4	44	8	1.52
3156258--3156292	12	2.9	12	84	16	54	11	48	0	40	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3156253--3156323	33	2.2	33	92	0	115	15	42	0	42	1.47
3165924--3166042	42	2.8	42	86	5	168	9	45	2	42	1.49
3165948--3166033	24	3.8	24	72	17	85	10	44	2	43	1.51
3167362--3167917	278	2.0	278	93	0	943	25	28	13	32	1.94
3171175--3171292	44	2.7	44	100	0	236	46	30	7	15	1.73
3172299--3172375	12	5.9	12	70	26	59	14	44	0	41	1.45
3172275--3172369	42	2.3	43	87	10	151	13	43	1	42	1.51
3178904--3178979	12	6.9	11	75	15	52	39	2	48	9	1.49
3178903--3178988	24	3.8	24	72	17	85	41	2	45	10	1.51
3178894--3179012	42	2.8	42	92	0	193	42	2	46	8	1.47

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23