genome.fa.s7.2.7.7.80.10.50.1000.33.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: Scaffold7
Parameters: 2 7 7 80 10 50 1000
Length:  6555642

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   31   32   
          33   34   35   36   37   

This is table  33  of  37  ( 4421 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)
5744625--5744655	4	7.8	4	92	0	53	0	0	19	80	0.71
5744622--5744681	16	3.6	16	86	10	84	0	3	15	81	0.81
5744622--5744681	9	7.0	9	84	1	63	0	3	15	81	0.81
5744622--5744681	8	7.1	8	83	9	75	0	3	15	81	0.81
5756564--5756589	13	2.0	13	100	0	52	30	15	15	38	1.88
5756544--5756607	32	2.0	33	87	3	94	28	14	17	40	1.88
5759139--5759164	13	2.0	13	100	0	52	38	15	15	30	1.88
5761010--5761091	28	2.9	28	80	7	96	26	17	31	24	1.97
5761074--5761244	51	3.3	51	79	4	198	32	11	26	29	1.92
5761227--5761302	27	2.8	28	88	6	102	21	21	34	23	1.97
5763767--5763792	13	2.0	13	100	0	52	38	15	15	30	1.88
5763746--5763812	33	2.0	33	88	0	98	43	16	14	25	1.86
5763832--5763899	19	3.9	18	76	23	83	38	14	11	35	1.83
5763854--5763878	13	1.9	13	100	0	50	32	16	16	36	1.90
5763835--5763897	32	2.0	32	96	0	117	36	15	12	34	1.86
5764571--5765190	55	11.3	54	90	5	883	20	20	30	28	1.98
5765105--5765187	26	3.1	26	63	13	60	15	20	32	31	1.94
5766176--5766237	13	4.8	12	82	11	70	0	6	9	83	0.79
5766161--5766237	26	2.9	26	79	12	86	0	10	7	81	0.86
5778682--5778854	51	3.3	51	77	7	186	33	11	26	28	1.91
5778840--5778912	27	2.6	28	87	6	96	21	20	32	24	1.97
5781352--5781426	20	3.8	20	89	0	114	46	16	14	22	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5781446--5781513	19	3.9	18	76	23	83	38	14	11	35	1.83
5781468--5781492	13	1.9	13	100	0	50	32	16	16	36	1.90
5781449--5781511	32	2.0	32	96	0	117	36	15	12	34	1.86
5781569--5781625	21	2.7	21	97	0	105	36	19	10	33	1.86
5781635--5781662	14	2.0	14	100	0	56	14	7	0	78	0.95
5784808--5784852	21	2.1	21	84	8	56	22	20	6	51	1.70
5787074--5787099	13	2.0	13	100	0	52	30	15	15	38	1.88
5787054--5787117	32	2.0	33	87	3	94	28	14	17	40	1.88
5787894--5788131	97	2.5	97	89	0	350	28	13	29	28	1.94
5789647--5789674	14	2.0	14	100	0	56	28	21	0	50	1.49
5789846--5789879	11	3.1	11	87	12	52	0	17	0	82	0.67
5792200--5792233	10	3.4	10	87	0	50	0	20	0	79	0.73
5794609--5794753	48	3.0	48	83	6	161	36	16	9	37	1.82
5800050--5800102	20	2.7	20	82	11	65	24	15	16	43	1.87
5800410--5800436	13	2.1	13	100	0	54	29	14	14	40	1.86
5800391--5800455	32	2.0	32	90	3	103	27	18	15	38	1.91
5800421--5800477	19	2.9	19	89	5	87	33	15	15	35	1.90
5800417--5800477	20	3.1	19	83	6	86	34	14	16	34	1.89
5801848--5801920	20	3.6	20	81	3	101	36	13	17	31	1.89
5801865--5801941	21	3.7	21	79	6	95	44	11	15	28	1.82
5801848--5801941	41	2.3	41	96	3	172	40	12	17	29	1.86
5801980--5802005	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)
5806066--5806096	15	2.1	15	93	0	53	48	16	22	12	1.80
5808176--5808239	13	4.9	13	94	0	110	34	18	15	31	1.93
5808176--5808239	26	2.5	26	100	0	128	34	18	15	31	1.93
5810079--5810174	48	2.0	48	95	0	174	38	7	28	26	1.83
5810728--5810800	20	3.6	20	81	3	101	36	13	17	31	1.89
5810745--5810821	21	3.7	21	77	6	86	42	11	15	29	1.82
5810728--5810821	41	2.3	41	94	3	163	39	12	17	30	1.87
5810860--5810885	13	2.0	13	100	0	52	38	15	15	30	1.88
5815261--5815291	14	2.2	14	100	0	62	25	19	6	48	1.72
5819253--5819277	13	1.9	13	100	0	50	36	16	16	32	1.90
5819232--5819296	33	2.0	32	90	3	103	30	18	15	35	1.92
5819262--5819318	19	3.0	20	84	7	82	33	17	17	31	1.93
5819368--5819416	13	4.2	13	75	24	63	32	12	18	36	1.88
5819347--5819416	33	2.1	34	89	7	108	32	12	20	34	1.90
5821647--5821796	74	2.0	74	88	0	219	33	16	23	27	1.95
5824900--5824980	28	2.9	28	80	7	94	25	17	32	24	1.97
5824963--5825129	53	3.2	51	78	7	183	34	9	26	29	1.88
5827636--5827661	13	2.0	13	100	0	52	38	15	15	30	1.88
5827615--5827681	33	2.0	33	88	0	98	43	16	14	25	1.86
5827701--5827768	19	3.9	18	76	23	83	38	14	11	35	1.83
5827723--5827747	13	1.9	13	100	0	50	32	16	16	36	1.90
5827704--5827766	32	2.0	32	96	0	117	36	15	12	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5827824--5827880	21	2.7	21	97	0	105	36	19	10	33	1.86
5827885--5827924	1	40.0	1	92	0	53	5	2	0	92	0.45
5827883--5827924	22	1.9	22	100	0	84	9	2	0	88	0.61
5827886--5827927	21	2.0	21	100	0	84	9	4	0	85	0.72
5835645--5835705	28	2.2	29	88	8	99	45	11	4	37	1.62
5835652--5835706	28	2.0	28	96	0	101	47	12	5	34	1.65
5840341--5840403	33	1.9	33	90	6	101	34	14	14	36	1.86
5840340--5840394	13	4.7	13	68	25	50	34	16	12	36	1.87
5840436--5840504	20	3.8	20	75	25	89	33	18	14	33	1.91
5840457--5840514	13	4.9	13	72	23	65	34	17	15	32	1.91
5840437--5840514	33	2.4	33	100	0	156	33	17	15	33	1.92
5840437--5840535	33	3.0	33	91	2	110	35	17	16	31	1.92
5842914--5842956	18	2.2	21	84	12	56	27	0	32	39	1.57
5843016--5843042	13	2.1	13	100	0	54	40	14	14	29	1.86
5852734--5852782	13	4.2	13	71	28	56	38	18	12	30	1.87
5852811--5852866	19	2.9	19	83	2	67	37	16	14	32	1.88
5853275--5853411	52	2.7	52	93	1	222	43	13	16	27	1.85
5853326--5853431	20	4.8	20	71	22	86	42	12	15	30	1.83
5855891--5855964	24	3.1	24	88	0	121	45	9	20	24	1.80
5857771--5857803	15	2.2	15	89	10	50	21	0	0	78	0.75
5858127--5858166	21	1.9	21	85	10	55	50	0	7	42	1.30
5861940--5862020	20	4.0	19	74	13	63	37	13	9	39	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5864394--5864651	104	2.5	101	79	6	277	27	21	12	39	1.89
5869179--5869227	27	1.9	26	88	12	75	40	18	22	18	1.91
5869252--5869461	79	2.7	79	84	3	262	35	13	23	27	1.93
5869244--5869941	158	4.3	158	72	14	554	34	13	24	27	1.92
5869514--5869941	79	5.4	78	80	5	427	35	12	24	27	1.92
5869514--5869941	237	1.8	237	84	5	596	35	12	24	27	1.92
5872367--5872421	20	2.6	21	80	8	67	36	10	12	40	1.79
5872809--5873389	156	3.7	155	81	6	618	38	19	15	26	1.92
5885756--5885869	52	2.2	51	87	1	165	38	9	19	32	1.84
5885923--5885977	20	2.7	21	74	5	58	36	16	7	40	1.76
5892809--5892882	21	3.6	21	82	10	73	29	20	14	35	1.93
5892829--5892883	20	2.7	20	86	8	76	32	18	14	34	1.91
5896833--5896858	13	2.0	13	100	0	52	30	15	15	38	1.88
5896935--5896973	21	1.9	20	94	5	69	35	12	15	35	1.86
5901703--5901763	32	1.9	32	86	6	88	40	11	16	31	1.84
5901802--5901956	33	4.8	32	75	3	105	37	14	17	30	1.90
5901735--5901956	96	2.3	96	79	3	239	36	15	18	30	1.92
5903292--5903372	41	1.9	41	85	9	110	41	18	9	29	1.83
5904213--5904289	31	2.4	33	89	6	113	46	0	2	50	1.15
5904593--5904643	21	2.4	21	83	0	66	31	17	9	41	1.82
5906218--5906268	2	25.5	2	100	0	102	49	0	0	50	1.00
5908601--5908636	18	2.1	18	89	5	56	44	11	0	44	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5909510--5909539	13	2.3	13	94	0	51	43	13	6	36	1.70
5916185--5916225	21	2.0	21	85	9	57	19	19	9	51	1.74
5916257--5916296	16	2.4	16	87	8	53	12	12	0	75	1.06
5916751--5916784	3	11.3	3	93	0	59	29	32	0	38	1.58
5918367--5918406	20	2.0	20	90	0	62	30	20	10	40	1.85
5918504--5918544	20	2.0	22	90	9	68	17	14	21	46	1.84
5919177--5919214	13	2.8	14	84	8	51	47	0	0	52	1.00
5919372--5919403	7	4.7	7	96	3	57	62	0	0	37	0.95
5919562--5919609	2	24.5	2	95	4	89	47	0	0	52	1.00
5919903--5919938	18	1.9	19	94	5	65	47	0	0	52	1.00

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   31   32   
          33   34   35   36   37