genome.fa.s16.2.7.7.80.10.50.1000.29.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  29  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)
4188616--4188736	46	2.6	45	84	5	145	20	28	14	36	1.92
4188698--4188792	32	2.9	32	81	4	111	30	26	18	24	1.98
4188698--4188876	33	5.2	33	71	16	121	27	27	16	29	1.97
4188730--4188920	77	2.5	76	83	2	229	26	26	15	32	1.95
4188770--4189209	44	10.5	42	77	11	379	22	26	13	37	1.91
4188842--4189209	85	4.3	85	80	8	392	21	25	12	39	1.89
4188840--4189209	129	2.9	129	80	7	423	21	25	12	39	1.89
4189919--4189965	20	2.3	20	89	10	69	42	10	19	27	1.84
4189932--4189986	20	2.7	19	83	13	58	41	12	16	29	1.85
4190022--4190152	50	2.6	51	81	3	156	33	13	9	43	1.76
4192436--4192735	108	2.8	109	78	6	313	30	26	10	33	1.90
4192608--4192893	81	3.5	81	88	2	389	28	25	13	33	1.93
4195012--4195251	133	1.8	133	80	5	297	27	25	11	35	1.90
4194986--4195272	133	2.2	132	78	7	296	26	26	10	36	1.88
4195168--4195415	81	3.1	81	76	3	241	25	22	12	39	1.89
4195168--4195397	80	2.8	79	77	2	226	25	23	11	39	1.88
4197153--4197201	19	2.6	18	81	15	55	16	22	12	48	1.79
4198094--4198119	13	2.0	13	100	0	52	30	15	15	38	1.88
4200639--4200677	13	3.0	13	92	0	60	35	12	17	33	1.88
4200663--4200741	20	3.7	20	78	15	77	44	15	15	25	1.85
4202758--4202788	15	2.1	15	93	0	53	12	22	16	48	1.80
4204592--4204636	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)
4206855--4206880	13	2.0	13	100	0	52	30	15	15	38	1.88
4209837--4210251	141	2.9	141	86	2	564	35	10	11	42	1.74
4211374--4211408	12	2.9	12	91	0	52	28	17	25	28	1.97
4212339--4212371	12	2.6	13	85	9	50	39	24	6	30	1.79
4213503--4213610	54	2.0	54	96	0	198	34	11	18	36	1.86
4214974--4215021	19	2.5	20	89	3	71	25	12	20	41	1.87
4214974--4215031	19	3.0	18	80	12	62	24	12	24	39	1.89
4217076--4217118	20	2.1	20	86	4	59	9	30	44	16	1.79
4222818--4222925	54	2.0	54	100	0	216	35	11	18	35	1.86
4224311--4224336	13	2.0	13	100	0	52	30	15	15	38	1.88
4224924--4225112	86	2.2	86	80	7	213	29	23	12	34	1.92
4227162--4227195	12	3.1	11	91	8	52	17	0	0	82	0.67
4227160--4227201	16	2.7	16	92	3	68	19	0	0	80	0.70
4231191--4231285	19	5.6	19	72	27	106	33	12	18	34	1.89
4231210--4231299	13	6.0	13	71	26	63	34	14	17	33	1.90
4231189--4231298	32	3.4	32	98	0	211	34	13	18	33	1.90
4231337--4231364	13	2.2	13	100	0	56	28	14	17	39	1.89
4231320--4231382	33	1.9	33	87	6	92	31	15	12	39	1.85
4236249--4236422	30	5.7	30	79	5	163	26	28	18	27	1.98
4236395--4236754	62	5.5	64	80	11	383	21	30	13	35	1.91
4236401--4236794	34	12.0	33	77	11	348	21	30	13	35	1.91
4236394--4236787	68	6.0	67	80	10	402	21	30	13	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4236395--4236835	199	2.2	196	80	9	463	22	30	13	33	1.92
4236855--4236950	49	2.0	49	89	0	147	26	23	17	32	1.97
4237333--4237394	32	1.9	33	90	3	99	41	12	14	30	1.83
4239587--4239631	21	2.1	21	84	8	56	53	4	20	22	1.63
4240922--4240952	15	2.1	15	93	0	53	48	16	22	12	1.80
4243033--4243070	13	2.9	13	96	0	67	34	18	15	31	1.92
4245625--4245650	13	2.0	13	100	0	52	38	15	15	30	1.88
4245607--4245670	32	2.0	33	90	3	103	42	15	14	28	1.86
4246405--4247317	49	18.7	49	84	6	1135	23	26	18	31	1.97
4246405--4247317	101	9.3	101	90	3	1189	23	26	18	31	1.97
4246405--4247317	251	3.7	250	89	3	1314	23	26	18	31	1.97
4248068--4248121	21	2.7	19	80	5	63	38	11	14	35	1.82
4251593--4251777	79	2.4	78	81	2	210	31	16	28	23	1.96
4251729--4251800	28	2.6	28	88	0	99	23	19	34	22	1.96
4251788--4252009	52	4.3	51	81	2	237	33	11	25	30	1.91
4251679--4252177	263	1.9	262	90	3	790	31	12	27	28	1.93
4251992--4252063	27	2.6	28	86	2	92	20	22	34	22	1.97
4252790--4252819	10	2.9	10	95	5	51	73	6	0	20	1.05
4254332--4254398	33	2.0	33	85	0	89	43	14	14	26	1.85
4254527--4254566	21	1.9	21	94	0	71	37	17	12	32	1.87
4255272--4256284	59	18.0	54	87	6	1054	23	21	28	26	1.99
4255347--4255492	28	5.2	28	62	19	81	21	19	30	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4255462--4255661	55	3.9	47	83	11	168	20	22	28	29	1.98
4256197--4256284	29	3.1	29	63	21	78	22	19	31	26	1.98
4257294--4257342	13	4.0	12	84	10	55	0	6	12	81	0.86
4269731--4269921	79	2.4	78	81	2	213	32	17	26	24	1.97
4269873--4269944	28	2.6	28	86	0	90	23	20	33	22	1.97
4269933--4270153	52	4.3	52	78	7	207	33	11	23	31	1.90
4270085--4270235	82	1.9	79	84	4	203	29	13	27	29	1.95
4270168--4270298	51	2.5	51	82	9	165	32	9	25	32	1.89
4270034--4270286	133	1.9	131	84	6	332	31	12	25	30	1.93
4272639--4272693	20	2.8	20	80	5	67	47	16	12	23	1.81
4272713--4272767	19	2.9	19	97	0	101	40	14	10	34	1.81
4272803--4272879	21	3.7	21	89	3	111	35	16	12	35	1.88
4283558--4283627	1	70.0	1	76	0	50	85	14	0	0	0.59
4283561--4283648	10	8.5	10	82	10	88	82	17	0	0	0.66
4283561--4283648	21	4.2	21	80	2	97	82	17	0	0	0.66
4283576--4283648	38	1.9	37	86	8	103	80	19	0	0	0.71
4283557--4283648	11	9.0	10	81	16	75	82	17	0	0	0.67
4284155--4284204	21	2.4	21	96	0	91	40	30	8	22	1.82
4285088--4285177	28	3.1	30	80	9	123	27	30	16	25	1.97
4285150--4285418	34	8.2	33	75	11	180	20	32	11	35	1.88
4285143--4285312	68	2.5	69	84	7	215	21	31	10	36	1.87
4285280--4285338	27	2.2	26	90	3	91	20	35	13	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4285420--4285480	28	2.1	29	81	3	70	32	27	19	19	1.96
4285528--4286126	49	12.6	49	74	9	398	25	25	17	31	1.97
4285594--4285742	39	3.6	39	73	15	145	28	26	18	26	1.98
4285533--4285890	87	4.0	88	84	5	421	26	26	17	29	1.98
4286914--4287006	19	5.5	19	70	27	93	35	12	18	33	1.89
4286914--4287014	32	3.2	32	98	0	193	34	12	18	33	1.89
4286931--4286987	13	3.9	13	76	24	60	35	14	17	33	1.90
4290252--4290675	149	2.8	151	76	9	373	27	14	16	41	1.87
4290414--4290755	154	2.2	153	78	5	361	27	13	18	40	1.88
4291079--4291136	20	3.0	20	84	2	73	29	10	13	46	1.77
4291208--4291336	52	2.5	52	93	0	213	34	17	18	29	1.94
4299499--4299914	208	2.0	208	100	0	832	37	19	20	22	1.95
4305227--4305264	19	2.1	19	90	5	60	86	10	0	2	0.66
4305229--4305263	13	2.8	12	87	12	52	88	8	0	2	0.61
4306706--4307053	30	11.6	29	77	9	233	29	28	15	26	1.96
4306796--4306848	27	2.0	27	92	0	88	33	33	16	15	1.90
4306887--4306978	35	2.7	36	80	8	111	20	29	11	38	1.89
4306952--4307103	28	5.3	28	86	5	173	37	28	15	18	1.91
4307219--4307304	43	2.0	43	93	0	145	27	24	18	29	1.98
4307123--4307361	92	2.5	95	86	6	322	26	24	16	32	1.96
4307262--4307383	52	2.3	54	84	4	167	26	23	13	36	1.93
4308011--4308165	39	3.7	39	74	14	148	27	24	19	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4308017--4308312	98	3.3	88	79	5	279	26	23	17	31	1.97
4308141--4308461	49	6.5	49	84	2	390	24	23	17	33	1.96
4308143--4308512	98	3.7	97	82	4	366	24	24	17	34	1.96
4309332--4309379	19	2.5	19	96	0	87	35	12	18	33	1.89
4309410--4309463	20	2.7	19	86	11	65	33	12	12	40	1.82
4312109--4312546	153	2.9	152	78	8	410	28	13	18	40	1.88
4312271--4312613	155	2.2	152	78	6	361	27	13	18	39	1.89
4312959--4312983	13	1.9	13	100	0	50	36	16	16	32	1.90
4312939--4313005	33	2.0	33	88	0	98	32	11	14	40	1.83
4313046--4313070	13	1.9	13	100	0	50	32	16	16	36	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   31   32   
          33   34   35