genome.fa.s322.2.7.7.80.10.50.1000.7.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: Scaffold322
Parameters: 2 7 7 80 10 50 1000
Length:  1390506

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1030 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)
1002946--1002971	12	2.2	12	100	0	52	30	46	0	23	1.53
1003915--1003951	19	2.0	19	85	15	51	62	8	18	10	1.52
1003959--1003988	2	15.0	2	100	0	60	50	0	0	50	1.00
1008082--1008809	137	5.2	141	77	7	479	42	16	19	21	1.89
1008071--1008823	47	16.2	47	78	4	598	42	16	19	21	1.89
1008071--1008837	95	8.3	92	72	10	370	42	16	19	21	1.89
1008070--1008849	324	2.4	328	78	6	813	42	17	19	20	1.89
1010401--1010441	15	2.7	15	85	14	66	0	14	0	85	0.60
1010404--1010441	18	2.1	19	95	5	69	0	13	0	86	0.56
1010404--1010441	19	2.1	18	90	5	58	0	13	0	86	0.56
1017675--1017946	80	3.4	79	78	8	223	31	11	29	28	1.91
1017585--1017970	82	4.7	81	76	7	262	32	11	27	28	1.92
1017692--1018087	160	2.5	160	80	7	419	33	11	26	28	1.91
1017832--1018087	80	3.2	80	80	3	309	32	12	25	29	1.92
1018563--1018607	20	2.2	20	88	7	65	44	4	15	35	1.67
1020609--1021017	79	5.2	79	83	3	500	32	12	24	29	1.93
1020617--1021017	157	2.5	158	84	3	484	33	12	24	29	1.93
1023385--1023499	50	2.3	51	90	1	178	43	13	16	26	1.85
1024194--1024275	41	2.0	41	92	0	137	41	13	24	20	1.88
1024275--1024842	61	9.4	61	85	3	684	29	18	25	25	1.98
1024301--1024842	121	4.5	121	87	4	734	30	18	25	25	1.98
1024275--1024842	182	3.1	182	84	3	750	29	18	25	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1037522--1037625	54	1.9	54	92	5	176	41	1	30	25	1.66
1039164--1039671	34	15.8	33	70	14	260	21	30	11	36	1.90
1039252--1039610	61	5.5	68	74	17	237	20	30	11	37	1.89
1039390--1039449	27	2.2	27	90	0	93	21	30	11	36	1.89
1039164--1039517	165	2.2	162	86	3	476	21	30	11	36	1.89
1039320--1039739	95	4.5	94	80	7	407	22	30	11	35	1.89
1039580--1039710	27	4.6	27	73	12	100	24	30	11	33	1.91
1039663--1039725	27	2.3	27	83	5	74	23	33	7	34	1.84
1039728--1039988	32	8.2	31	73	7	166	30	29	16	23	1.96
1039732--1039980	65	3.9	64	83	3	270	30	30	17	21	1.96
1039997--1040544	52	10.6	51	76	6	410	23	23	15	37	1.93
1039997--1040549	104	5.4	104	78	4	505	23	23	15	37	1.93
1040486--1040616	61	2.1	61	80	5	156	22	23	12	41	1.88
1040486--1040632	61	2.4	61	77	8	154	23	24	12	40	1.89
1040644--1041096	52	8.4	52	77	5	280	24	24	15	35	1.94
1040774--1040909	61	2.2	61	83	5	168	25	25	13	36	1.92
1040404--1041232	278	3.0	278	88	0	1210	23	24	15	37	1.93
1041042--1041218	61	2.9	61	80	6	187	23	23	14	37	1.92
1042561--1042612	25	2.1	25	100	0	104	32	11	7	48	1.68
1042901--1042956	20	2.8	20	94	0	94	37	14	12	35	1.84
1042970--1043034	33	2.0	33	90	0	103	26	16	15	41	1.88
1045682--1045732	20	2.6	19	87	3	66	29	15	13	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1045684--1045732	19	2.5	20	86	3	64	30	16	12	40	1.85
1045792--1045846	20	2.8	20	82	0	74	38	9	20	32	1.84
1047744--1047784	2	20.5	2	100	0	82	48	0	0	51	1.00
1050913--1050942	4	7.5	4	92	0	51	26	43	0	30	1.55
1051427--1051452	1	26.0	1	100	0	52	0	0	0	100	0.00
1054277--1054306	2	15.0	2	92	0	51	46	0	3	50	1.18
1055347--1055374	2	14.0	2	100	0	56	50	0	0	50	1.00
1056612--1056637	13	2.0	13	100	0	52	38	15	15	30	1.88
1056594--1056657	32	2.0	33	87	3	94	40	17	14	28	1.88
1057096--1057162	37	1.9	35	88	11	102	32	11	25	29	1.92
1062184--1062209	13	2.0	13	100	0	52	38	15	15	30	1.88
1062166--1062229	32	2.0	33	87	3	94	40	17	14	28	1.88
1062668--1062734	37	1.9	35	88	11	102	32	11	25	29	1.92
1066190--1066234	20	2.2	20	88	4	63	35	17	11	35	1.86
1068967--1069020	20	2.7	20	88	0	72	37	12	16	33	1.87
1069377--1069426	19	2.6	19	96	0	91	32	12	18	38	1.87
1069456--1069530	20	3.8	20	92	0	123	34	16	12	37	1.85
1072947--1072994	22	2.1	24	88	7	73	31	2	18	47	1.60
1079902--1079941	21	1.9	21	84	0	53	45	2	27	25	1.66
1082134--1082171	20	1.9	20	84	10	51	63	0	13	23	1.30
1090709--1090771	32	1.9	32	87	9	92	36	14	19	30	1.91
1090762--1090800	20	1.9	21	94	5	71	20	17	20	41	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1099932--1100080	52	2.9	52	89	0	235	31	16	18	33	1.93
1100069--1100093	13	1.9	13	100	0	50	36	16	16	32	1.90
1100134--1100200	33	2.0	33	88	0	98	40	14	11	32	1.83
1100156--1100180	13	1.9	13	100	0	50	32	16	16	36	1.90
1102458--1102554	51	1.9	51	81	8	117	37	11	24	26	1.89
1102586--1102704	51	2.3	51	88	2	177	32	10	25	31	1.90
1102433--1102731	130	2.3	129	81	6	336	34	13	24	27	1.92
1102690--1102763	28	2.6	28	89	0	112	28	18	31	21	1.97
1102810--1103018	79	2.6	79	83	0	247	31	11	26	30	1.91
1102956--1103076	51	2.4	51	88	2	172	28	10	28	32	1.90
1102984--1103124	51	2.8	50	82	6	158	33	11	26	29	1.91
1105462--1105491	13	2.3	13	100	0	60	40	13	16	30	1.87
1105442--1105511	33	2.1	33	89	0	104	40	11	17	31	1.85
1105473--1105529	20	2.8	20	86	0	87	43	15	14	26	1.85
1105422--1105529	53	2.0	53	82	7	130	42	12	14	30	1.82
1106126--1106227	40	2.5	41	83	12	122	43	11	28	16	1.83
1106249--1106424	42	4.1	44	78	8	175	43	12	24	19	1.85
1106407--1106642	61	3.8	61	84	4	298	28	18	27	25	1.98
1106407--1106665	122	2.1	124	82	8	331	27	18	27	26	1.98
1106681--1106879	57	3.4	57	80	9	222	29	21	23	26	1.99
1106531--1106819	152	1.8	153	80	12	343	28	19	26	25	1.99
1106788--1106974	95	2.0	96	90	3	297	27	18	28	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1106463--1107096	215	2.9	214	88	3	934	27	19	27	26	1.99
1106898--1107151	55	4.3	56	80	10	269	24	20	27	27	1.99
1106898--1107151	117	2.2	117	87	2	366	24	20	27	27	1.99
1107070--1107367	100	3.0	100	91	1	472	28	17	29	24	1.97
1107221--1107296	39	1.9	40	89	7	120	32	15	31	19	1.94
1108340--1108407	9	7.6	9	81	6	84	1	1	13	83	0.78
1108340--1108379	17	2.4	17	87	8	55	2	2	10	85	0.80
1108340--1108408	8	7.9	8	80	17	75	1	1	14	82	0.81
1118472--1118601	52	2.5	52	91	0	224	30	16	17	35	1.93
1118610--1118634	13	1.9	13	100	0	50	36	16	16	32	1.90
1118679--1118747	32	2.2	32	89	5	104	39	14	11	34	1.82
1124505--1124601	51	1.9	51	81	8	117	37	11	24	26	1.89
1124634--1124731	51	1.9	51	85	0	133	36	11	22	29	1.89
1124445--1124766	130	2.5	129	75	9	314	36	11	24	27	1.90
1124743--1124798	21	2.4	23	82	17	80	28	21	25	25	1.99
1124792--1124900	51	2.1	51	84	0	137	31	12	23	32	1.92
1124868--1125055	79	2.4	79	83	3	236	33	12	25	28	1.92
1124994--1125114	51	2.4	51	87	5	165	32	10	25	31	1.90
1125023--1125162	51	2.7	50	83	4	156	35	10	24	30	1.88
1125976--1126265	100	2.9	100	91	2	467	30	16	30	23	1.96
1127237--1127330	16	6.2	15	78	8	84	1	2	11	85	0.75
1127237--1127330	1	94.0	1	69	0	62	1	2	11	85	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1127237--1127331	9	10.9	8	90	8	100	1	2	12	84	0.77
1127237--1127330	19	5.3	17	86	8	109	1	2	11	85	0.75
1133169--1133222	20	2.7	21	82	8	67	37	14	16	31	1.89
1136292--1136350	24	2.5	24	94	0	100	16	22	5	55	1.60
1136533--1136563	3	10.3	3	92	0	53	29	32	0	38	1.57
1136531--1136569	9	4.3	9	90	0	51	25	30	0	43	1.55
1139086--1139140	14	4.2	14	73	17	64	43	10	21	23	1.84
1143802--1143896	32	2.8	34	82	14	117	34	22	12	30	1.91
1144336--1144377	10	4.2	10	79	11	50	40	11	26	21	1.88
1144332--1144371	20	2.0	20	100	0	80	45	15	20	20	1.86

Tables:   1   2   3   4   5   6   7   8   9