genome.fa.s16.2.7.7.80.10.50.1000.32.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: Scaffold16
Parameters: 2 7 7 80 10 50 1000
Length:  5287347

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   

This is table  32  of  35  ( 4175 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)
4667264--4667360	32	3.0	32	92	1	158	37	12	15	35	1.85
4667400--4667424	13	1.9	13	100	0	50	40	12	16	32	1.84
4667435--4667563	52	2.5	52	97	0	240	34	17	18	28	1.94
4674032--4674148	42	2.8	42	82	6	148	45	1	41	11	1.50
4679609--4679641	2	16.5	2	93	0	57	45	0	3	51	1.16
4680599--4680641	17	2.4	18	81	11	54	74	11	0	13	1.07
4684816--4684845	9	3.3	9	90	0	51	0	23	0	76	0.78
4685217--4685247	3	10.3	3	100	0	62	64	0	35	0	0.94
4694070--4694138	33	2.1	33	81	7	79	37	1	2	57	1.22
4694096--4694158	11	5.7	11	79	7	56	31	1	3	63	1.19
4694130--4694206	39	2.0	39	82	5	93	36	0	1	62	1.04
4698564--4698605	22	1.9	22	90	9	68	38	0	0	61	0.96
4699188--4699241	22	2.5	22	96	0	99	50	0	5	44	1.25
4699195--4699250	22	2.3	27	85	14	77	44	0	3	51	1.18
4699584--4699612	2	15.0	2	92	7	51	51	0	0	48	1.00
4701540--4701575	2	18.0	2	100	0	72	50	0	0	50	1.00
4707530--4707560	16	1.9	16	100	0	62	48	6	0	45	1.28
4707803--4707837	2	17.5	2	100	0	70	51	0	0	48	1.00
4707837--4707869	2	16.5	2	100	0	66	51	0	48	0	1.00
4708786--4708831	3	15.3	3	100	0	92	67	0	0	32	0.91
4708714--4708966	135	1.9	135	91	3	420	47	4	4	43	1.44
4708933--4708969	3	12.3	3	100	0	74	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4709299--4709337	12	3.4	12	86	13	64	51	0	0	48	1.00
4709339--4709379	2	20.5	2	94	0	73	48	0	2	48	1.14
4709298--4709380	22	3.7	22	83	12	89	49	1	1	48	1.16
4710148--4710309	70	2.3	71	79	12	183	40	14	19	25	1.90
4710362--4710551	70	2.7	68	77	9	186	41	12	19	26	1.87
4712416--4712462	21	2.2	21	88	0	67	38	8	12	40	1.74
4714502--4714789	145	2.0	145	98	0	558	46	13	19	20	1.83
4721126--4721162	2	18.5	2	94	0	56	45	48	5	0	1.25
4722603--4723044	78	5.7	76	80	8	419	27	24	14	33	1.94
4722600--4723044	156	2.8	154	84	5	547	27	24	14	33	1.94
4722583--4723029	234	1.9	235	84	5	600	27	24	13	34	1.93
4724307--4725068	377	2.0	378	99	0	1499	31	24	19	25	1.98
4727949--4728077	52	2.5	52	92	0	204	29	16	17	37	1.91
4727961--4728095	52	2.6	52	89	2	173	30	15	19	34	1.93
4728086--4728110	13	1.9	13	100	0	50	36	16	16	32	1.90
4737951--4738004	20	2.7	20	91	0	90	35	9	12	42	1.75
4737899--4738056	72	2.2	72	97	0	307	31	14	15	38	1.87
4737971--4738087	52	2.2	52	95	0	207	30	16	17	35	1.92
4737992--4738107	52	2.2	52	90	3	180	31	18	17	32	1.94
4738093--4738120	13	2.2	13	100	0	56	39	17	14	28	1.89
4738183--4738207	13	1.9	13	100	0	50	32	16	16	36	1.90
4738685--4738733	10	4.8	10	83	11	64	87	10	2	0	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4738685--4738754	18	3.9	17	77	17	54	84	7	8	0	0.78
4739730--4740287	61	9.2	59	79	6	512	28	23	17	30	1.97
4739721--4740287	242	2.3	243	83	6	661	27	23	17	31	1.97
4742784--4743255	79	6.1	78	78	11	463	27	23	13	35	1.93
4742802--4743255	151	2.9	150	82	10	488	27	23	14	34	1.94
4746098--4746162	33	2.0	33	84	3	87	35	13	12	38	1.83
4746207--4746236	13	2.3	13	100	0	60	33	16	13	36	1.88
4748637--4748698	28	2.2	28	88	5	90	30	17	11	40	1.85
4749287--4749326	22	1.9	21	85	10	55	37	5	7	50	1.53
4753105--4753179	20	3.8	20	72	0	60	40	9	14	36	1.78
4753102--4753179	40	2.0	39	84	2	102	39	10	14	35	1.80
4753705--4754200	28	17.3	28	85	5	609	22	18	31	28	1.97
4754214--4754803	57	10.4	57	91	2	911	21	16	33	29	1.95
4754221--4754805	200	2.9	199	94	1	1019	21	16	33	29	1.95
4754214--4754805	29	20.8	29	92	1	945	21	16	33	29	1.95
4756025--4756096	11	6.7	11	90	3	94	1	2	8	87	0.70
4756036--4756095	1	60.0	1	83	0	75	0	1	6	91	0.47
4756025--4756095	26	2.7	26	87	8	99	1	2	7	88	0.65
4770103--4770177	20	3.8	20	76	0	69	40	10	13	36	1.79
4770100--4770177	40	2.0	39	84	2	102	39	11	12	35	1.80
4770961--4771017	23	2.5	23	94	0	96	47	8	7	36	1.62
4773344--4773565	50	4.4	50	88	0	345	29	20	17	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4777932--4778166	50	4.7	50	83	4	285	31	17	14	35	1.91
4777932--4778166	100	2.3	100	86	2	321	31	17	14	35	1.91
4779444--4779478	2	17.5	2	100	0	70	48	0	0	51	1.00
4779711--4779752	20	2.1	20	91	8	68	35	2	0	61	1.09
4780054--4780078	7	3.6	7	100	0	50	12	0	0	88	0.53
4780959--4780990	5	6.8	5	96	3	50	78	0	0	21	0.76
4782959--4783221	129	2.0	129	100	0	526	33	15	15	35	1.89
4789843--4789907	31	2.2	29	82	15	80	61	0	0	38	0.96
4790653--4790692	8	5.4	8	80	14	50	0	12	0	87	0.54
4790654--4790697	14	3.1	14	96	0	79	0	15	0	84	0.63
4791234--4791297	30	2.1	30	86	11	87	56	4	7	31	1.49
4791593--4791681	32	2.8	32	81	10	119	49	5	0	44	1.25
4793353--4793412	30	2.0	30	100	0	120	43	10	13	33	1.77
4802000--4802073	21	3.6	20	81	3	76	39	10	18	31	1.86
4808112--4808291	97	1.9	97	83	4	238	27	27	12	32	1.92
4809303--4809331	15	1.9	15	100	0	58	24	20	13	41	1.89
4810483--4810521	21	1.9	20	94	5	69	35	15	12	35	1.86
4810580--4810693	19	6.6	19	77	22	144	33	11	19	35	1.87
4810580--4810674	32	3.0	32	98	0	181	33	11	18	35	1.87
4810609--4810706	51	1.9	51	93	0	151	33	13	18	34	1.89
4810599--4810655	13	3.9	13	74	24	51	35	12	17	35	1.87
4813897--4813937	14	3.0	13	86	10	55	19	2	0	78	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4814305--4814728	115	3.8	111	79	6	428	34	19	14	30	1.92
4814237--4814750	109	4.7	109	76	8	387	34	20	14	30	1.93
4814929--4814988	30	1.9	31	83	6	77	35	3	3	58	1.31
4815575--4815626	15	3.4	14	76	19	59	1	28	0	69	0.99
4826876--4826930	26	2.1	26	100	0	110	47	0	18	34	1.49
4833049--4833095	2	23.5	2	95	0	85	51	2	46	0	1.13
4833969--4834013	23	1.9	23	86	13	65	55	6	8	28	1.56
4835141--4835191	24	2.0	26	81	7	61	35	0	7	56	1.28
4836760--4836795	16	2.2	16	90	0	54	41	0	2	55	1.14
4837488--4837531	18	2.4	19	88	3	63	20	9	0	70	1.14
4837483--4837528	18	2.6	17	83	10	56	21	10	0	67	1.21
4837539--4837592	25	2.1	26	86	3	74	53	0	0	46	1.00
4839645--4839704	14	4.9	11	74	21	57	58	0	0	41	0.98
4839645--4839709	25	2.6	25	95	2	112	60	0	0	40	0.97
4839650--4839702	14	4.0	14	80	14	76	58	0	0	41	0.98
4846893--4846948	13	4.8	13	72	20	52	41	10	14	33	1.80
4846870--4846968	33	3.0	33	87	0	144	41	10	13	35	1.78
4846897--4846938	20	2.0	21	86	4	59	42	7	16	33	1.75
4847121--4847245	62	2.0	62	92	0	205	28	21	9	40	1.84
4847929--4848005	21	3.7	21	89	3	111	35	12	16	35	1.88
4848041--4848108	19	3.9	19	78	21	85	35	11	14	38	1.83
4848062--4848086	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4848043--4848105	32	2.0	32	96	0	117	34	12	15	36	1.86
4848148--4848173	13	2.0	13	100	0	52	30	15	15	38	1.88
4848129--4848194	33	2.0	33	87	0	96	25	15	16	42	1.87
4850551--4850649	51	1.9	52	89	2	155	30	22	11	36	1.89
4857003--4858415	55	24.3	60	86	5	1559	26	28	19	24	1.99
4857003--4858415	232	6.1	230	83	8	1620	26	28	19	24	1.99
4857708--4857848	27	5.1	27	62	21	78	28	27	19	24	1.98
4859096--4859172	21	3.7	21	89	3	111	35	12	16	35	1.88
4859208--4859261	19	2.8	20	83	8	67	27	11	18	42	1.84
4861623--4861721	51	1.9	52	89	2	155	30	22	11	36	1.89

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