genome.fa.s35.2.7.7.80.10.50.1000.20.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: Scaffold35
Parameters: 2 7 7 80 10 50 1000
Length:  4812169

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   28   29   30   

This is table  20  of  30  ( 3549 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)
3116678--3116704	13	2.1	13	100	0	54	29	14	14	40	1.86
3117711--3117754	23	1.9	23	86	9	63	29	9	20	40	1.83
3120236--3120292	20	2.7	21	86	8	80	42	12	15	29	1.84
3120238--3120314	20	3.7	21	84	6	79	37	12	12	36	1.83
3125483--3125600	20	5.4	20	71	16	74	31	12	13	42	1.82
3125472--3125654	49	3.9	49	73	15	161	30	15	12	42	1.83
3125530--3125606	20	3.8	20	81	6	84	31	11	14	42	1.81
3126779--3126835	19	2.9	19	78	2	69	33	14	15	36	1.88
3126864--3126917	20	2.7	20	88	5	74	29	12	20	37	1.90
3132780--3132827	20	2.3	21	85	7	62	33	16	10	39	1.83
3133474--3133527	20	2.7	20	88	0	81	42	12	14	29	1.83
3133559--3133626	33	2.1	32	88	2	100	35	17	13	33	1.89
3141644--3141686	22	1.9	22	85	4	59	34	0	25	39	1.56
3141644--3141690	24	2.0	22	88	8	67	36	0	27	36	1.57
3142256--3142309	20	2.7	20	88	0	81	42	12	14	29	1.83
3142342--3142393	20	2.7	20	93	3	88	40	19	11	28	1.86
3142360--3142540	73	2.5	73	99	0	353	33	18	15	32	1.92
3145425--3145463	19	2.1	18	90	4	60	23	12	15	48	1.79
3149690--3149746	21	2.8	20	83	5	60	17	19	0	63	1.32
3151851--3151894	22	2.0	22	86	0	61	36	15	20	27	1.93
3151973--3151997	13	1.9	13	100	0	50	36	16	16	32	1.90
3152321--3152351	13	2.4	13	94	0	53	35	16	9	38	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3153697--3153736	20	2.0	20	100	0	80	35	15	10	40	1.80
3153750--3153824	20	3.8	20	80	3	89	42	12	12	33	1.79
3153747--3153824	40	2.0	39	87	7	113	42	12	11	33	1.79
3154428--3155527	28	38.5	28	82	7	1177	23	17	30	28	1.97
3170665--3170739	20	3.8	20	78	0	87	41	12	13	33	1.81
3182735--3182776	22	1.9	22	95	0	75	21	35	4	38	1.75
3186848--3186898	21	2.5	21	81	9	61	39	15	15	29	1.89
3186942--3187006	33	2.0	32	87	3	94	40	18	9	32	1.82
3192912--3192937	8	3.2	8	100	0	52	15	0	23	61	1.33
3193612--3193651	20	2.0	20	90	0	62	17	42	27	12	1.85
3200214--3200380	79	2.1	79	85	3	219	38	20	14	25	1.92
3200748--3200778	13	2.4	13	94	0	53	35	12	16	35	1.87
3200726--3200794	33	2.1	33	86	5	95	36	17	13	33	1.88
3200823--3200878	20	2.8	20	78	2	60	37	17	12	32	1.88
3204985--3205379	28	14.0	28	82	7	388	28	27	17	25	1.98
3204985--3205383	85	4.7	84	78	7	405	28	27	17	26	1.98
3208613--3208662	19	2.6	19	96	0	91	38	18	12	32	1.87
3209515--3210222	92	7.5	92	91	2	927	31	17	25	24	1.97
3209974--3210222	48	4.9	52	79	6	244	31	16	26	24	1.97
3210222--3210327	27	3.7	27	76	14	113	30	15	33	21	1.94
3210311--3210423	29	3.9	29	85	6	140	23	16	29	30	1.96
3223845--3223872	13	2.2	13	100	0	56	39	17	14	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3223912--3223987	32	2.4	32	90	0	125	35	17	13	34	1.88
3223925--3223987	19	3.6	19	70	24	66	36	17	11	34	1.85
3224837--3225453	92	6.6	92	90	2	876	31	18	25	24	1.97
3225440--3225555	27	4.1	27	75	18	112	31	13	33	21	1.92
3225539--3225651	29	3.9	29	81	4	129	23	16	27	31	1.96
3225934--3226007	30	2.4	32	78	8	84	27	28	17	27	1.98
3228916--3229119	79	2.6	79	81	6	209	29	17	29	23	1.97
3229074--3229145	28	2.6	28	84	4	83	23	20	34	20	1.96
3229138--3229256	51	2.3	51	81	8	134	35	10	21	33	1.87
3231618--3231643	13	2.0	13	100	0	52	38	15	15	30	1.88
3231597--3231663	33	2.0	33	88	0	98	43	16	14	25	1.86
3231683--3231750	19	3.9	18	76	23	83	38	14	11	35	1.83
3231705--3231729	13	1.9	13	100	0	50	32	16	16	36	1.90
3231686--3231748	32	2.0	32	96	0	117	36	15	12	34	1.86
3240769--3240798	8	3.8	8	95	0	51	6	0	3	90	0.56
3240743--3240798	28	2.0	28	82	3	69	7	0	8	83	0.80
3245565--3245607	9	5.0	9	94	5	72	76	0	0	23	0.78
3245568--3245606	8	4.8	8	93	6	69	79	0	0	20	0.73
3245568--3245606	17	2.4	16	95	4	69	79	0	0	20	0.73
3245601--3245643	1	43.0	1	80	0	50	90	4	4	0	0.54
3245602--3245643	9	4.8	9	91	5	59	90	4	4	0	0.55
3245576--3245615	17	2.4	17	87	8	55	82	2	0	15	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3245603--3245657	9	6.5	8	80	12	56	85	3	10	0	0.72
3245603--3245657	17	3.2	17	87	5	67	85	3	10	0	0.72
3245602--3245657	26	2.2	26	86	0	76	85	3	10	0	0.71
3246753--3247118	61	6.1	61	82	7	455	25	27	19	28	1.98
3246815--3247118	116	2.6	116	86	5	371	25	27	19	27	1.99
3246730--3247112	176	2.2	177	87	5	578	26	27	19	27	1.99
3247097--3247167	37	1.9	37	91	0	115	8	30	16	43	1.78
3247146--3247391	41	5.8	41	75	12	189	20	25	13	40	1.88
3250347--3250462	51	2.3	51	89	0	178	31	27	12	29	1.92
3250478--3250595	51	2.3	51	84	5	166	30	25	11	33	1.90
3250318--3250623	130	2.3	129	88	3	452	28	27	13	30	1.94
3250575--3250629	28	2.0	28	96	0	101	21	29	18	30	1.97
3250575--3250647	28	2.6	27	87	8	94	24	30	19	26	1.98
3250533--3250729	107	1.8	107	83	6	265	25	26	13	34	1.93
3250603--3250862	79	3.3	79	81	4	240	25	26	15	32	1.96
3252345--3252375	13	2.4	13	94	0	53	32	16	16	35	1.91
3260504--3260564	28	2.2	28	84	0	77	26	29	18	26	1.98
3278241--3278331	32	2.8	32	93	0	155	34	12	15	38	1.84
3278256--3278318	19	3.6	19	74	24	75	31	11	17	39	1.85
3278274--3278300	13	2.1	13	100	0	54	29	14	14	40	1.86
3278307--3278332	13	2.0	13	100	0	52	38	15	15	30	1.88
3280845--3280870	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3295797--3295863	8	8.2	8	85	9	91	80	19	0	0	0.71
3295792--3295869	34	2.4	33	91	8	124	80	17	0	1	0.77
3295790--3295874	42	2.0	42	88	4	127	80	18	0	1	0.79
3299791--3299931	52	2.7	52	91	2	230	31	17	17	33	1.94
3299920--3299944	13	1.9	13	100	0	50	36	16	16	32	1.90
3300093--3300134	21	2.0	21	90	0	66	35	14	14	35	1.86
3300823--3301207	171	2.3	168	90	5	611	36	14	24	24	1.93
3300894--3301052	49	3.1	49	76	6	147	35	15	23	24	1.94
3301103--3301235	43	3.1	42	80	9	117	33	17	24	24	1.96
3301132--3301235	43	2.5	42	82	9	122	30	19	24	25	1.98
3301166--3301547	49	7.9	49	87	1	542	31	17	25	24	1.97
3301166--3301547	98	4.0	98	95	2	677	31	17	25	24	1.97
3301577--3301641	33	1.9	34	96	3	123	16	18	36	27	1.93
3301626--3301949	34	9.3	34	86	6	420	32	11	35	20	1.89
3301626--3301949	72	4.6	71	88	6	452	32	11	35	20	1.89
3301854--3302012	32	4.9	32	85	6	115	31	13	32	22	1.93
3302965--3303003	13	3.0	13	84	0	51	2	5	7	84	0.84
3303045--3303083	15	2.7	15	88	4	53	0	15	2	82	0.79
3310239--3310379	52	2.7	52	91	2	230	31	17	17	33	1.94
3310368--3310392	13	1.9	13	100	0	50	36	16	16	32	1.90
3310459--3310483	13	1.9	13	100	0	50	32	16	16	36	1.90
3310437--3310503	33	2.0	33	88	0	98	40	13	11	34	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3310541--3310582	21	2.0	21	90	0	66	35	14	14	35	1.86
3311346--3311532	57	3.3	56	82	8	225	31	31	17	19	1.95
3311346--3311532	29	6.6	28	81	7	200	31	31	17	19	1.95
3311554--3312148	49	13.1	43	74	12	355	24	24	18	31	1.98
3311637--3312246	49	13.0	49	72	11	366	24	25	18	32	1.97
3311594--3311821	92	2.5	92	91	0	357	23	26	17	32	1.97
3311843--3311994	39	3.7	39	70	17	126	25	25	21	27	1.99
3311790--3312044	87	2.9	88	82	3	343	25	25	20	29	1.99
3311554--3312093	224	2.4	226	83	7	618	25	25	19	30	1.98
3328039--3328091	12	4.5	11	77	11	52	81	11	5	1	0.94

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   28   29   30