genome.fa.s258.2.7.7.80.10.50.1000.5.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: Scaffold258
Parameters: 2 7 7 80 10 50 1000
Length:  5730937

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   

This is table  5  of  25  ( 2900 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)
921836--921903	11	6.2	11	72	17	52	47	0	1	51	1.09
930239--930276	2	19.0	2	94	0	67	50	2	0	47	1.15
935467--935499	2	16.5	2	100	0	66	48	0	51	0	1.00
936931--936967	17	2.2	17	90	0	56	59	0	13	27	1.35
939144--939185	16	2.6	17	81	11	52	26	0	0	73	0.83
939166--939225	12	4.7	13	74	13	54	43	1	0	55	1.10
940260--940287	4	7.0	4	100	0	56	75	0	0	25	0.81
940272--940335	28	2.3	28	81	5	76	60	1	4	32	1.26
944555--944588	2	17.0	2	93	0	59	47	0	2	50	1.16
950315--950360	19	2.4	20	82	7	60	63	2	2	32	1.19
950326--950388	10	6.5	10	75	17	62	66	1	1	30	1.10
950327--950384	29	2.1	27	87	12	82	65	1	1	31	1.13
950679--950703	2	12.5	2	100	0	50	52	0	0	48	1.00
954019--954073	17	3.4	17	72	25	55	60	1	0	38	1.08
954519--954555	2	18.5	2	100	0	74	48	0	0	51	1.00
954472--954623	81	1.9	81	98	0	295	37	3	17	40	1.69
955010--955038	15	1.9	15	100	0	58	13	6	0	79	0.93
956172--956251	33	2.4	32	87	6	115	47	0	2	50	1.14
956238--956301	13	5.0	13	72	14	53	46	0	4	48	1.23
956200--956255	17	3.4	17	66	14	53	53	0	0	46	1.00
956490--956581	16	5.9	15	66	20	55	44	2	2	51	1.25
956868--956916	24	2.0	24	84	0	62	59	2	0	38	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
956864--956916	20	2.7	19	75	13	54	58	1	0	39	1.09
957808--957836	14	2.0	15	93	6	51	55	3	0	41	1.17
960596--960662	19	3.5	19	76	13	59	61	1	0	37	1.05
961157--961201	2	22.5	2	100	0	90	48	0	0	51	1.00
961401--961447	19	2.4	20	82	13	62	44	0	0	55	0.99
963293--963331	2	19.5	2	100	0	78	0	51	0	48	1.00
964158--964189	9	3.6	9	91	0	55	28	0	0	71	0.86
965352--965381	2	15.0	2	100	0	60	0	0	50	50	1.00
969990--970014	2	12.5	2	100	0	50	48	0	0	52	1.00
976121--976147	2	13.5	2	100	0	54	48	0	0	51	1.00
977507--977557	23	2.2	24	82	3	59	54	1	0	43	1.11
977615--977660	22	2.1	22	88	8	67	65	0	0	34	0.93
978654--978745	42	2.4	37	83	15	123	39	17	14	29	1.89
978668--978754	42	2.1	42	100	0	174	36	18	13	31	1.90
985161--985217	25	2.4	24	88	8	82	35	7	0	57	1.26
985161--985217	24	2.5	22	83	11	69	35	7	0	57	1.26
985275--985326	7	7.0	8	74	22	51	63	1	0	34	1.06
988935--988961	2	13.5	2	100	0	54	48	0	0	51	1.00
990126--990155	14	2.1	14	93	0	51	40	0	16	43	1.48
995932--995975	21	2.1	21	91	0	70	20	11	6	61	1.52
997123--997245	57	2.2	57	89	0	183	30	28	9	30	1.89
1001582--1002035	227	2.0	227	99	0	899	32	13	14	39	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1003940--1004014	36	2.1	36	85	5	98	40	5	16	38	1.71
1009103--1009140	2	19.0	2	100	0	76	50	0	0	50	1.00
1012987--1013033	19	2.5	18	83	10	58	59	0	0	40	0.97
1018487--1018521	2	18.0	2	94	5	63	48	0	0	51	1.00
1025895--1025934	18	2.2	19	86	4	55	50	0	2	47	1.14
1036673--1036789	31	3.8	31	72	4	110	20	15	13	50	1.77
1036662--1036797	62	2.2	62	89	1	209	22	13	13	51	1.75
1038690--1038774	42	2.0	42	95	0	152	29	24	15	30	1.95
1044082--1044109	13	2.2	13	100	0	56	46	0	7	46	1.30
1044209--1044235	2	13.5	2	100	0	54	48	0	0	51	1.00
1047127--1047169	21	2.1	20	83	12	52	53	2	2	41	1.26
1047423--1047451	3	9.7	3	100	0	58	0	34	31	34	1.58
1052990--1053077	29	3.0	29	93	6	160	37	21	6	34	1.80
1053686--1053718	17	2.0	16	94	5	57	54	6	3	36	1.41
1057553--1057590	6	6.3	6	100	0	76	0	50	0	50	1.00
1061449--1061484	16	2.3	16	90	4	56	36	5	5	52	1.48
1063732--1063757	12	2.2	12	100	0	52	69	0	0	30	0.89
1063764--1063820	24	2.4	23	77	13	62	56	0	0	43	0.99
1063729--1063842	48	2.4	48	78	10	126	57	1	0	41	1.09
1066797--1066937	69	2.0	69	80	2	158	43	5	6	44	1.53
1070959--1070983	2	12.5	2	100	0	50	48	0	0	52	1.00
1071644--1071684	2	20.5	2	100	0	82	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1072316--1072348	17	1.9	17	88	11	50	48	3	0	48	1.17
1072307--1072353	24	2.0	24	87	4	69	48	6	0	44	1.28
1074413--1074462	25	2.0	25	96	0	91	36	14	12	38	1.83
1074722--1074760	17	2.2	17	86	9	51	38	5	0	56	1.22
1076987--1077023	13	2.9	14	88	11	53	32	0	0	67	0.91
1078499--1078536	17	2.1	19	90	9	62	50	0	0	50	1.00
1078559--1078588	14	2.1	14	93	0	51	56	0	0	43	0.99
1078562--1078613	17	2.9	17	72	16	52	61	1	0	36	1.07
1078544--1078613	36	1.9	35	83	11	88	58	1	0	40	1.07
1078603--1078645	13	3.2	13	80	3	50	48	2	0	48	1.14
1078759--1078843	41	2.1	41	82	8	102	56	1	1	41	1.14
1078808--1078863	11	4.9	11	77	14	51	55	0	1	42	1.10
1090278--1090307	2	15.0	2	100	0	60	50	0	0	50	1.00
1090587--1090640	23	2.3	23	87	6	74	42	3	0	53	1.18
1100089--1100124	2	18.0	2	100	0	72	50	0	0	50	1.00
1100299--1100327	2	14.5	2	100	0	58	48	0	0	51	1.00
1101827--1101882	22	2.7	20	76	17	51	46	0	1	51	1.11
1102854--1102885	2	16.0	2	100	0	64	0	50	0	50	1.00
1103171--1103230	22	2.8	22	78	12	72	50	0	0	50	1.00
1104262--1104301	3	13.3	3	100	0	80	67	0	0	32	0.91
1104484--1104531	24	2.0	23	84	11	62	54	2	2	41	1.24
1104676--1104726	17	3.2	17	81	13	56	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1105067--1105118	26	2.0	26	88	0	77	42	0	5	51	1.25
1105164--1105202	15	2.5	15	87	8	51	38	5	0	56	1.22
1105852--1105893	22	1.9	22	85	9	59	33	0	4	61	1.17
1105867--1105943	28	2.8	27	79	12	86	37	0	1	61	1.05
1105915--1105972	23	2.6	22	76	10	64	39	0	0	60	0.97
1105858--1106036	83	2.2	81	78	13	188	35	0	1	63	1.05
1105855--1106036	21	8.7	22	72	18	92	35	0	1	62	1.05
1105963--1106027	26	2.5	26	85	11	82	36	0	0	63	0.95
1120956--1121044	46	1.9	46	83	0	115	44	5	3	46	1.43
1128955--1128995	14	3.0	14	82	13	50	63	2	0	34	1.08
1128964--1129017	15	3.8	15	78	9	60	62	0	0	37	0.95
1136318--1136402	25	3.3	25	67	23	77	7	30	2	60	1.36
1136299--1136403	52	2.0	52	94	0	183	6	31	2	59	1.38
1136582--1136612	8	3.9	8	100	0	62	51	12	22	12	1.74
1138994--1139037	22	2.0	22	90	0	70	50	0	2	47	1.13
1139017--1139046	12	2.5	12	94	0	51	63	0	0	36	0.95
1139147--1139245	17	5.9	17	68	17	64	39	1	0	59	1.04
1139148--1139239	21	4.8	19	68	18	57	39	1	0	59	1.04
1139388--1139446	31	1.9	30	86	10	84	61	0	1	37	1.07
1139935--1140057	9	13.9	9	68	21	57	39	0	0	60	1.03
1139942--1140052	38	2.8	39	77	12	113	39	0	0	59	1.04
1139937--1140052	13	8.5	13	68	17	58	38	0	0	60	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1141499--1142117	317	2.0	317	100	0	1238	24	16	17	41	1.89
1147281--1147361	32	2.6	31	80	7	83	44	4	3	46	1.42
1147433--1147547	54	2.1	56	96	3	216	16	16	25	41	1.89
1147565--1147615	27	1.9	28	84	11	72	43	0	0	56	0.99
1150518--1150548	2	15.5	2	100	0	62	51	0	0	48	1.00
1150915--1151004	40	2.4	37	77	9	92	41	1	2	55	1.19
1152288--1152326	2	19.5	2	100	0	78	48	0	0	51	1.00
1153083--1153162	41	2.0	41	94	0	142	23	21	15	40	1.91
1157246--1157275	2	15.0	2	100	0	60	50	0	0	50	1.00
1158749--1158777	3	9.7	3	100	0	58	68	0	0	31	0.89

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