genome.fa.s55.2.7.7.80.10.50.1000.20.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: Scaffold55
Parameters: 2 7 7 80 10 50 1000
Length:  4293517

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  20  of  21  ( 2443 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)
4055218--4055338	52	2.3	52	97	0	224	34	18	18	28	1.94
4067873--4068261	79	5.0	79	79	2	399	33	14	25	26	1.94
4067871--4068246	155	2.4	155	79	6	445	33	13	25	27	1.93
4068204--4068312	51	2.1	51	81	3	121	30	15	25	28	1.96
4068117--4068402	130	2.2	127	81	7	376	32	13	26	26	1.94
4070733--4070758	13	2.0	13	100	0	52	38	15	15	30	1.88
4070713--4070778	33	2.0	33	87	0	96	42	15	16	25	1.87
4071507--4071705	52	3.8	52	81	7	242	38	13	22	25	1.91
4071505--4071705	104	1.9	104	86	4	289	38	13	22	25	1.90
4071512--4071800	52	5.6	52	76	8	225	38	14	23	24	1.92
4071777--4071925	58	2.5	59	81	1	165	31	16	22	28	1.96
4071929--4071991	32	1.9	31	84	9	81	22	14	33	30	1.93
4072072--4072188	34	3.5	34	85	3	141	24	17	29	28	1.97
4072097--4072194	33	2.9	33	82	10	94	28	16	29	25	1.97
4081710--4082096	155	2.5	155	78	3	375	25	16	18	38	1.92
4084908--4084934	13	2.1	13	100	0	54	29	14	14	40	1.86
4084889--4084952	32	2.0	33	87	3	94	28	14	14	43	1.83
4087025--4087067	20	2.1	20	82	4	50	9	27	44	18	1.80
4087486--4087510	13	1.9	13	100	0	50	32	16	20	32	1.94
4093284--4093335	19	2.7	20	87	6	79	28	13	15	42	1.85
4095302--4095344	22	2.0	22	95	0	77	86	4	9	0	0.71
4095302--4095345	7	6.3	7	82	7	54	86	4	9	0	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4097062--4097103	22	1.9	22	85	9	59	33	14	2	50	1.56
4100146--4100219	30	2.5	30	76	8	73	40	0	0	59	0.97
4100149--4100215	10	6.6	10	71	27	52	40	0	0	59	0.97
4100150--4100230	41	2.0	41	85	9	112	45	0	0	54	0.99
4100338--4100378	14	2.9	14	86	13	57	46	0	0	53	1.00
4100383--4100415	17	1.9	17	93	0	57	75	0	0	24	0.80
4100839--4100883	19	2.4	18	88	3	63	57	0	0	42	0.98
4101146--4101290	46	3.2	46	98	0	281	22	6	16	53	1.66
4101570--4101618	22	2.3	22	78	3	55	46	2	4	46	1.33
4101646--4101796	16	9.4	16	75	5	119	52	8	5	33	1.56
4101646--4101796	48	3.1	48	77	7	164	52	8	5	33	1.56
4104994--4105324	41	7.8	42	70	6	218	40	18	29	12	1.86
4104994--4105325	43	7.8	42	71	6	247	40	18	28	12	1.86
4104993--4105325	85	3.9	85	88	0	470	40	18	28	12	1.86
4105338--4105528	42	4.5	42	79	6	197	34	16	31	17	1.92
4105371--4105585	84	2.5	85	84	5	283	34	15	30	19	1.93
4105338--4105570	127	1.8	126	83	6	310	33	16	30	18	1.93
4106457--4106482	13	2.0	13	100	0	52	38	15	15	30	1.88
4108458--4108509	20	2.4	21	84	12	70	3	26	50	19	1.65
4108771--4108811	22	2.0	21	86	13	59	41	4	21	31	1.74
4110237--4110520	140	2.0	140	98	0	550	36	16	9	37	1.81
4115197--4115223	13	2.1	13	100	0	54	40	14	14	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4115176--4115267	32	2.8	32	86	4	123	34	13	15	36	1.86
4115316--4115368	20	2.6	21	82	8	65	32	16	13	37	1.88
4115356--4115380	13	1.9	13	100	0	50	36	16	16	32	1.90
4115369--4115423	20	2.8	19	78	13	58	30	10	16	41	1.83
4115681--4115784	42	2.5	42	83	0	127	37	21	23	18	1.94
4129098--4129135	16	2.4	16	100	0	76	44	18	0	36	1.50
4130045--4130098	25	2.1	26	86	10	76	33	0	0	66	0.92
4129807--4130132	166	2.0	167	88	1	494	35	9	4	50	1.55
4130271--4130374	53	1.9	53	82	5	129	37	15	14	32	1.88
4130392--4130434	16	2.7	15	82	7	50	46	11	11	30	1.76
4133153--4133195	2	22.0	2	95	4	79	48	0	0	51	1.00
4134266--4134296	16	1.9	16	100	0	62	45	0	0	54	0.99
4134293--4134322	8	3.8	8	100	0	60	76	0	0	23	0.78
4134771--4134817	24	2.0	24	83	8	60	51	19	0	29	1.47
4135791--4135830	19	2.1	19	85	0	53	37	2	5	55	1.35
4137383--4137473	36	2.8	32	78	16	105	28	23	15	32	1.95
4137924--4137950	13	2.1	13	100	0	54	40	14	14	29	1.86
4138037--4138086	20	2.5	20	87	3	66	46	6	26	22	1.74
4138114--4138138	13	1.9	13	100	0	50	36	16	16	32	1.90
4138986--4139053	30	2.2	31	89	5	102	36	29	4	29	1.77
4141595--4141635	21	2.0	21	90	0	64	21	12	0	65	1.25
4143738--4143762	13	1.9	13	100	0	50	32	20	16	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4147493--4147567	20	3.8	20	80	0	96	41	12	12	34	1.79
4147490--4147567	40	2.0	39	89	2	120	41	12	11	34	1.80
4148170--4149216	28	36.6	28	85	7	1163	23	17	30	28	1.97
4148170--4149220	86	12.2	84	81	10	1130	23	17	30	28	1.97
4150167--4150242	11	6.9	10	81	11	71	1	2	14	81	0.86
4150193--4150242	5	10.0	5	87	8	75	0	0	16	84	0.63
4150192--4150242	20	2.5	21	93	6	88	0	0	15	84	0.63
4159212--4159250	20	1.9	21	94	5	71	30	10	20	38	1.86
4159312--4159336	13	1.9	13	100	0	50	36	16	16	32	1.90
4159289--4159356	33	2.1	33	88	2	102	32	14	17	35	1.91
4167693--4167836	44	3.0	51	74	19	162	28	13	11	47	1.76
4173531--4173556	13	2.0	13	100	0	52	30	15	15	38	1.88
4175919--4175965	21	2.3	21	76	23	55	42	4	19	34	1.70
4176086--4176124	13	3.0	13	92	0	60	35	12	17	33	1.88
4176110--4176188	20	3.7	20	74	21	70	45	13	15	25	1.83
4178208--4178238	15	2.1	15	93	0	53	12	22	16	48	1.80
4180042--4180086	21	2.1	21	84	8	56	22	20	4	53	1.63
4182304--4182329	13	2.0	13	100	0	52	30	15	15	38	1.88
4194877--4194991	59	2.0	59	86	8	164	26	13	12	47	1.78
4201251--4201406	48	3.2	48	91	0	240	37	17	26	18	1.93
4201489--4201607	32	3.7	33	81	8	122	28	18	25	27	1.98
4201543--4201815	87	3.2	89	77	8	251	26	16	28	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4201545--4201815	56	4.7	57	76	7	199	26	16	28	28	1.97
4201674--4201862	56	3.3	55	80	10	204	25	17	29	27	1.98
4201802--4202189	154	2.5	156	90	1	609	20	16	29	33	1.95
4201528--4202371	32	28.0	32	76	8	443	22	17	28	31	1.97
4202142--4202277	44	3.1	44	96	0	254	18	16	34	30	1.93
4202218--4202245	12	2.3	12	100	0	56	21	7	39	32	1.80
4206486--4206600	57	2.0	57	96	0	212	54	10	15	19	1.69
4211082--4211157	20	3.8	20	80	3	91	35	14	10	39	1.81
4211081--4211156	40	1.9	40	89	5	118	36	14	10	38	1.81
4225100--4225139	16	2.6	16	88	7	57	90	7	0	2	0.55
4225099--4225159	21	3.0	21	78	4	61	83	6	4	4	0.90
4225101--4225139	9	4.3	9	87	12	53	89	7	0	2	0.56
4226121--4226244	61	2.0	61	96	0	230	31	23	13	31	1.93
4226366--4227176	28	28.5	28	84	5	941	28	29	17	24	1.97
4226366--4227176	57	14.2	57	83	5	964	28	29	17	24	1.97
4226363--4227176	85	9.5	86	87	3	1033	28	29	17	25	1.97
4227784--4227893	20	5.6	20	75	7	82	37	12	10	39	1.79
4227785--4227876	40	2.3	40	90	3	141	35	14	10	39	1.81
4233768--4233792	13	1.9	13	100	0	50	32	16	16	36	1.90
4233773--4233914	20	6.9	20	70	16	96	31	15	18	34	1.92
4241778--4241833	19	2.9	19	84	10	78	33	14	17	33	1.90
4243908--4243934	2	13.5	2	100	0	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4244189--4244252	15	3.9	16	75	18	60	28	4	0	67	1.11
4245190--4245249	31	1.9	31	86	6	86	35	1	1	61	1.16
4246586--4246622	14	2.6	14	100	0	74	67	0	0	32	0.91
4246959--4247016	6	9.7	6	73	26	52	58	0	0	41	0.98
4246959--4247012	17	3.1	18	82	17	69	59	0	0	40	0.98
4246968--4247011	8	4.9	9	83	16	56	56	0	0	43	0.99
4246952--4247038	42	2.1	41	85	6	113	54	1	2	42	1.20
4247609--4247720	40	2.8	40	93	0	197	50	9	20	18	1.75
4249073--4249148	37	2.1	36	82	2	89	59	2	2	35	1.25
4249216--4249254	18	2.1	19	85	4	53	66	2	7	23	1.30

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21