genome.fa.s35.2.7.7.80.10.50.1000.27.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  27  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)
4197797--4197865	21	3.4	20	78	8	77	40	10	17	31	1.83
4197817--4197885	19	3.5	19	71	7	66	36	10	20	33	1.86
4197797--4197888	40	2.3	40	92	0	148	40	9	18	31	1.83
4197926--4197985	20	3.0	20	87	7	77	31	15	13	40	1.85
4202967--4203165	79	2.5	79	85	0	254	28	16	31	24	1.96
4203125--4203196	28	2.6	29	80	13	87	22	19	36	22	1.95
4203185--4203318	52	2.6	51	85	3	187	32	10	25	31	1.89
4205617--4205642	13	2.0	13	100	0	52	38	15	15	30	1.88
4205629--4205670	21	2.0	21	100	0	84	28	19	9	42	1.82
4205687--4205738	13	3.5	13	73	26	50	36	17	13	32	1.89
4205695--4205776	19	4.6	19	79	17	104	36	19	12	31	1.89
4205687--4205757	32	2.2	32	97	0	133	36	18	12	32	1.88
4205837--4205891	21	2.6	21	97	0	101	36	20	10	32	1.87
4206886--4206949	24	2.7	24	76	11	60	35	3	1	59	1.23
4214006--4214067	18	3.5	18	74	12	56	58	8	4	29	1.48
4213992--4214067	35	2.2	35	88	6	111	55	10	5	28	1.56
4214501--4214566	26	2.5	28	77	22	72	33	1	6	59	1.31
4217536--4217565	15	2.1	14	93	6	51	23	13	40	23	1.90
4217569--4217684	52	2.2	52	96	0	214	38	13	18	29	1.89
4220489--4220543	19	2.8	20	77	5	67	38	14	14	32	1.87
4223128--4223166	13	3.0	13	84	0	51	41	15	12	30	1.85
4228700--4228739	13	3.1	13	92	0	71	42	15	12	30	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4229481--4229601	60	2.0	60	100	0	242	37	26	16	19	1.93
4229735--4230478	156	4.8	156	80	3	608	40	19	15	25	1.90
4232431--4233202	167	4.7	162	82	7	797	49	8	12	30	1.69
4234304--4234984	85	8.0	85	80	4	669	35	14	29	20	1.92
4234344--4235018	338	2.0	338	81	5	792	35	14	28	20	1.92
4234298--4235020	254	2.8	251	80	4	781	35	13	29	21	1.92
4236376--4236601	79	2.8	79	84	3	220	37	9	23	29	1.87
4236402--4236601	79	2.5	79	86	1	249	38	9	22	30	1.85
4236466--4236618	79	1.9	79	85	9	195	39	11	18	30	1.86
4242208--4242337	52	2.5	52	93	2	217	29	16	17	36	1.92
4242208--4242359	52	2.9	51	86	7	200	30	16	17	35	1.92
4242721--4242758	20	1.9	20	94	0	67	34	21	10	34	1.87
4243751--4244088	48	6.9	48	81	4	372	30	17	26	25	1.97
4243799--4244079	149	1.9	148	90	0	445	30	17	25	26	1.97
4244134--4244258	28	4.4	28	80	4	135	18	18	28	34	1.95
4244185--4244449	29	8.7	30	78	7	171	27	15	29	27	1.96
4244249--4244323	35	2.2	35	85	2	107	33	12	33	21	1.90
4244307--4244445	59	2.4	58	87	1	188	24	17	30	28	1.97
4244154--4244449	59	4.9	59	72	11	183	26	16	29	27	1.97
4245886--4245919	12	2.8	12	95	4	59	2	0	14	82	0.79
4251431--4251559	52	2.5	52	89	5	215	29	17	17	36	1.92
4251568--4251592	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)
4251635--4251687	20	2.7	19	91	5	88	39	11	11	37	1.77
4251961--4251998	20	1.9	20	94	0	67	34	21	10	34	1.87
4252493--4252708	93	2.3	91	85	5	274	28	15	25	30	1.96
4252569--4252736	93	1.8	90	87	10	250	33	14	23	29	1.94
4254617--4254647	13	2.3	13	94	5	53	6	16	0	77	0.97
4254624--4254669	17	2.7	18	86	10	69	4	13	2	80	0.95
4254593--4254669	17	4.8	17	76	17	60	6	12	2	77	1.06
4261527--4262435	155	5.8	155	76	5	595	39	19	15	25	1.91
4261622--4262252	310	2.0	311	84	3	817	39	20	15	24	1.91
4261804--4262435	156	4.1	156	78	3	621	39	19	15	24	1.91
4262589--4262618	10	3.0	10	95	0	51	50	3	10	36	1.53
4263933--4263997	12	5.7	12	75	14	57	7	23	0	69	1.14
4263937--4264001	22	2.9	22	76	15	71	6	24	0	69	1.11
4264402--4264784	166	2.3	168	83	6	463	53	8	9	28	1.62
4266405--4266815	164	2.5	162	81	5	418	29	10	7	52	1.64
4266801--4266839	19	2.1	18	85	4	51	30	5	2	61	1.31
4266563--4266919	163	2.2	160	80	10	368	30	10	7	51	1.62
4270755--4270789	13	2.7	13	90	0	52	80	0	20	0	0.72
4271838--4272307	175	2.7	174	88	3	667	38	12	10	38	1.78
4273208--4273266	32	1.9	30	83	13	75	59	10	10	20	1.58
4273544--4273569	13	2.0	13	100	0	52	30	15	15	38	1.88
4273524--4273587	32	2.0	33	90	3	103	28	14	15	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4273616--4273671	21	2.7	21	80	2	69	32	19	12	35	1.89
4273963--4274886	154	6.0	152	82	5	975	24	19	19	36	1.95
4273963--4274833	308	2.8	307	84	2	1079	24	19	19	36	1.95
4278207--4278259	20	2.7	19	80	8	70	39	11	22	26	1.88
4282020--4282050	16	1.9	16	93	0	53	54	0	9	35	1.33
4283369--4283407	20	1.9	21	89	5	62	35	10	17	35	1.84
4283437--4283475	13	3.0	13	92	0	60	33	17	12	35	1.88
4286035--4286085	20	2.6	20	87	3	77	31	17	13	37	1.89
4286577--4286620	23	1.9	23	86	9	63	31	4	20	43	1.72
4292115--4292145	8	3.8	8	95	4	53	16	0	22	61	1.34
4293925--4293951	13	2.1	13	100	0	54	29	14	14	40	1.86
4294016--4294045	13	2.3	13	100	0	60	33	16	13	36	1.88
4297096--4297316	112	2.0	112	84	1	291	32	14	14	38	1.87
4297645--4297828	89	2.1	89	81	6	212	26	21	13	39	1.90
4298362--4298465	35	2.9	35	85	7	147	24	25	10	40	1.87
4298446--4298502	29	1.9	30	82	10	73	24	36	7	31	1.82
4298500--4298568	35	2.0	35	91	0	111	20	15	18	44	1.86
4298554--4298663	48	2.3	48	82	0	139	19	23	18	39	1.92
4298607--4298899	94	3.1	93	84	4	349	23	21	15	40	1.91
4298554--4298914	46	7.7	46	77	4	296	22	21	16	40	1.91
4298885--4299506	44	14.1	44	72	10	378	20	22	15	40	1.90
4298885--4299506	133	4.7	134	83	5	696	20	22	15	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4298885--4299507	89	7.1	86	73	8	416	20	22	15	40	1.90
4299961--4300432	174	2.7	174	86	1	651	37	12	11	37	1.80
4299961--4300461	175	2.9	173	83	3	639	37	12	12	38	1.80
4300970--4302006	154	6.7	153	82	3	1161	23	20	20	35	1.96
4300713--4302006	308	4.2	308	84	4	1444	24	20	20	34	1.96
4300721--4302007	462	2.8	459	84	4	1591	24	20	20	34	1.96
4307017--4307214	106	1.9	108	82	4	258	30	30	11	27	1.91
4308359--4308425	33	2.0	33	85	0	89	35	11	11	40	1.79
4308379--4308403	13	1.9	13	100	0	50	36	16	16	32	1.90
4308469--4308493	13	1.9	13	100	0	50	32	16	16	36	1.90
4314674--4314723	27	1.9	26	84	8	66	24	14	36	26	1.93
4314758--4315052	78	3.8	77	78	5	274	33	10	28	27	1.90
4316994--4317054	31	2.0	31	96	0	113	34	19	27	18	1.95
4317541--4317602	18	3.4	19	78	12	60	40	14	35	9	1.79
4317737--4317844	47	2.3	47	91	0	180	24	36	22	17	1.95
4317805--4317872	29	2.3	29	100	0	136	26	42	19	11	1.85
4317759--4317911	76	2.0	76	90	0	243	28	36	20	14	1.92
4317834--4317993	47	3.5	45	79	6	189	29	37	20	13	1.90
4317875--4317940	21	3.0	23	82	10	93	31	34	21	12	1.90
4317835--4318016	90	2.0	89	87	1	256	30	36	19	13	1.90
4317966--4318023	22	2.6	22	75	2	62	32	37	17	12	1.86
4321889--4321914	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)
4321871--4321934	32	2.0	33	90	3	103	39	18	14	28	1.90
4323964--4324124	84	1.9	84	80	9	186	53	3	17	25	1.60
4326435--4326494	30	2.0	30	93	0	102	30	3	30	36	1.74
4327603--4327628	13	2.0	13	100	0	52	38	15	15	30	1.88
4327585--4327648	32	2.0	33	90	3	103	39	18	14	28	1.90
4329862--4329906	22	2.0	23	82	4	56	33	20	2	44	1.63
4331593--4331618	8	3.2	8	100	0	52	30	0	46	23	1.53
4334622--4334681	30	2.0	30	93	0	102	30	3	30	36	1.74
4335790--4335815	13	2.0	13	100	0	52	38	15	15	30	1.88
4335772--4335835	32	2.0	33	90	3	103	39	18	14	28	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   28   29   30