genome.fa.s39.2.7.7.80.10.50.1000.18.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: Scaffold39
Parameters: 2 7 7 80 10 50 1000
Length:  4724573

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  18  of  27  ( 3195 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)
3065299--3065337	21	1.9	20	94	5	69	35	15	12	35	1.86
3070207--3070248	22	1.9	23	85	9	61	73	7	9	9	1.24
3071692--3071782	19	4.7	20	87	4	132	35	16	17	30	1.92
3071692--3071782	39	2.3	39	100	0	182	35	16	17	30	1.92
3071770--3071795	13	2.0	13	100	0	52	30	23	15	30	1.95
3071751--3071815	32	2.0	33	88	8	98	38	18	15	27	1.91
3078738--3078814	30	2.6	30	91	0	127	25	20	11	41	1.86
3078800--3078872	20	3.6	20	79	3	83	27	15	9	47	1.76
3094055--3094126	26	2.8	26	77	14	69	31	12	18	37	1.88
3094040--3094127	14	6.6	14	76	7	76	32	11	19	36	1.87
3094138--3094610	28	16.4	28	86	5	518	29	30	17	22	1.97
3094138--3094610	85	5.5	84	84	6	572	29	30	17	22	1.97
3094548--3094636	32	2.8	31	84	3	115	30	30	17	21	1.96
3095472--3095558	30	3.2	29	68	29	84	27	20	10	41	1.85
3095472--3095627	50	3.1	50	90	2	242	28	18	9	43	1.81
3095601--3095755	78	2.0	78	97	0	292	25	17	16	41	1.89
3096598--3096636	20	2.0	20	89	0	60	23	12	10	53	1.69
3113244--3113278	18	1.9	18	88	0	52	8	5	11	74	1.22
3113826--3113850	2	12.5	2	100	0	50	0	0	48	52	1.00
3114248--3114276	3	9.7	3	100	0	58	0	31	0	68	0.89
3115234--3115265	13	2.4	14	94	5	57	90	0	9	0	0.45
3120075--3120126	21	2.4	22	80	9	61	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3120226--3120289	34	2.0	31	82	14	76	60	4	0	34	1.17
3121240--3121304	16	4.0	16	76	9	60	27	0	0	72	0.85
3121244--3121303	27	2.3	26	85	8	86	28	0	0	71	0.86
3121278--3121352	37	2.0	39	84	10	102	28	5	4	62	1.35
3123309--3123336	13	2.2	13	100	0	56	28	14	17	39	1.89
3123289--3123354	33	2.0	33	85	5	89	30	13	13	42	1.83
3124257--3124302	21	2.2	20	82	14	58	21	17	19	41	1.90
3133322--3133437	51	2.3	51	90	3	180	30	14	11	43	1.80
3134139--3134176	19	2.0	19	85	10	51	68	2	7	21	1.28
3134860--3134917	23	2.5	23	80	2	71	74	0	24	1	0.92
3142110--3142162	20	2.7	20	100	0	106	39	15	11	33	1.83
3142202--3142268	33	2.0	33	88	11	102	34	17	11	35	1.87
3142230--3142267	20	1.9	20	94	0	67	39	18	10	31	1.85
3142222--3142247	13	2.0	13	100	0	52	38	15	15	30	1.88
3142297--3142348	19	2.6	21	87	6	72	32	17	15	34	1.91
3142319--3142381	32	1.9	33	87	3	92	36	12	19	31	1.89
3142898--3142967	22	3.2	22	68	11	72	25	34	1	38	1.65
3151513--3151538	13	2.0	13	100	0	52	30	15	15	38	1.88
3152161--3152240	38	2.0	40	83	9	103	36	23	5	35	1.77
3152245--3152288	21	2.1	21	83	8	54	25	31	4	38	1.76
3156185--3156215	15	2.1	15	93	0	53	12	22	16	48	1.80
3158019--3158063	21	2.1	21	84	8	56	22	20	4	53	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3160836--3160869	16	2.1	16	88	0	50	44	17	5	32	1.73
3160900--3160966	33	2.0	33	88	5	100	34	19	11	34	1.88
3160933--3161093	64	2.5	64	94	3	281	32	17	16	32	1.93
3161059--3161115	19	2.9	19	89	5	78	31	17	15	35	1.92
3161101--3161125	13	1.9	13	100	0	50	32	16	16	36	1.90
3161082--3161146	33	2.0	32	87	3	94	33	16	18	30	1.94
3161893--3162312	209	2.0	209	100	0	840	35	23	12	29	1.91
3162674--3162699	13	2.0	13	100	0	52	38	15	15	30	1.88
3162782--3162845	20	3.5	20	72	27	79	29	15	18	35	1.92
3162799--3162857	13	5.1	12	75	21	63	32	16	16	33	1.92
3162782--3162857	33	2.3	33	100	0	152	30	15	18	35	1.92
3162782--3162878	33	2.9	33	90	6	126	29	16	18	35	1.93
3165322--3165357	13	2.8	13	95	0	63	33	16	16	33	1.92
3165562--3165587	8	3.2	8	100	0	52	61	23	0	15	1.33
3167637--3167684	22	2.1	23	81	11	55	45	8	10	35	1.68
3167999--3168024	13	2.0	13	100	0	52	38	15	15	30	1.88
3167981--3168044	32	2.0	33	87	3	94	40	17	14	28	1.88
3170248--3170297	21	2.3	21	80	10	57	56	4	18	22	1.58
3172095--3172125	15	2.1	15	93	0	53	48	16	22	12	1.80
3174207--3174245	13	3.0	13	100	0	78	30	15	15	38	1.88
3176037--3176127	45	2.0	46	97	2	175	37	6	15	40	1.73
3176870--3176895	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3176852--3176915	32	2.0	33	87	3	94	40	17	14	28	1.88
3184267--3184408	70	2.0	70	90	0	221	33	13	28	24	1.93
3186403--3186459	20	2.8	20	83	2	78	36	12	14	36	1.83
3187130--3187470	52	6.8	50	78	8	234	33	15	25	25	1.95
3187131--3187472	101	3.4	100	80	6	322	33	15	25	25	1.95
3187383--3187517	43	3.1	43	81	1	144	32	14	25	27	1.94
3187521--3187766	32	7.7	31	85	5	305	21	18	28	31	1.97
3187521--3187776	64	4.0	64	89	4	369	22	17	29	30	1.97
3187521--3187776	96	2.7	95	86	5	338	22	17	29	30	1.97
3188003--3188172	27	5.9	28	70	23	104	36	12	30	20	1.90
3188150--3188718	98	5.9	101	78	11	341	37	11	30	20	1.88
3188036--3188794	62	11.9	64	81	8	650	37	11	29	20	1.89
3188004--3188824	130	6.5	131	80	9	759	37	12	29	20	1.89
3188004--3188824	32	25.8	32	77	12	669	37	12	29	20	1.89
3190067--3190117	15	3.3	15	80	2	66	3	0	13	82	0.81
3190067--3190119	18	3.1	16	82	12	61	3	0	13	83	0.79
3191168--3191214	20	2.3	20	85	0	58	31	10	21	36	1.88
3191186--3191255	10	7.0	10	71	12	54	30	10	24	35	1.88
3191178--3191255	20	3.9	20	74	5	68	30	8	24	35	1.86
3191180--3191270	40	2.3	40	83	7	114	30	8	26	34	1.87
3191180--3191270	20	4.6	20	72	5	67	30	8	26	34	1.87
3200515--3200547	14	2.4	14	94	0	57	45	18	21	15	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3202180--3202252	20	3.7	20	87	10	105	34	13	16	35	1.88
3213214--3213261	20	2.3	21	96	3	89	33	0	18	47	1.49
3213367--3213405	20	1.9	21	89	5	62	43	20	17	17	1.88
3213414--3213438	13	1.9	13	100	0	50	32	20	16	32	1.94
3213397--3213458	32	1.9	33	87	9	92	30	19	14	35	1.92
3215188--3215213	13	2.0	13	100	0	52	38	15	15	30	1.88
3219248--3219278	15	2.1	15	93	0	53	48	19	19	12	1.81
3221333--3221372	21	1.9	21	94	0	71	27	15	10	47	1.77
3221356--3221396	13	3.2	13	100	0	82	31	17	14	36	1.90
3225528--3225578	21	2.5	22	81	12	63	66	1	19	11	1.33
3225542--3225588	21	2.2	21	85	7	60	57	2	17	23	1.50
3228401--3228425	13	1.9	13	100	0	50	32	16	16	36	1.90
3238062--3238179	52	2.3	52	93	0	200	30	17	16	35	1.92
3238145--3238216	37	1.9	37	97	0	135	31	19	18	30	1.95
3238145--3238227	37	2.4	33	88	9	114	32	19	18	30	1.95
3238236--3238260	13	1.9	13	100	0	50	36	16	16	32	1.90
3238301--3238367	33	2.0	33	88	0	98	40	14	11	32	1.83
3238323--3238347	13	1.9	13	100	0	50	32	16	16	36	1.90
3239013--3239385	55	6.8	53	71	14	215	37	14	24	24	1.92
3239056--3239212	53	2.9	53	83	5	174	37	14	24	23	1.92
3239347--3239436	43	2.1	43	93	0	153	32	18	23	25	1.97
3239539--3239661	49	2.5	49	93	0	201	30	16	30	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3238948--3239867	227	4.2	220	81	8	1009	35	15	25	23	1.94
3239739--3240434	49	14.7	49	83	8	901	30	17	25	25	1.98
3239730--3240439	140	5.0	139	84	9	806	30	17	26	25	1.97
3239739--3240423	189	3.6	189	94	3	1125	30	18	25	25	1.98
3240427--3240658	33	7.2	32	87	4	326	18	18	34	28	1.95
3240427--3240658	65	3.6	64	87	4	335	18	18	34	28	1.95
3240427--3240662	98	2.4	98	89	6	367	19	17	33	28	1.95
3240649--3241182	34	15.5	34	84	7	643	33	11	34	20	1.89
3240649--3241181	71	7.7	70	84	7	639	33	12	34	20	1.89
3240649--3241175	207	2.6	209	86	5	718	33	12	34	20	1.90

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