genome.fa.s230.2.7.7.80.10.50.1000.9.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: Scaffold230
Parameters: 2 7 7 80 10 50 1000
Length:  2055625

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  9  of  14  ( 1594 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)
929990--930078	27	3.3	27	72	15	85	65	2	0	32	1.05
936411--936598	93	2.0	93	91	2	306	44	20	11	22	1.84
939226--939266	19	2.1	20	86	4	57	51	0	0	48	1.00
939222--939311	34	2.7	34	81	8	107	51	0	0	48	1.00
939537--939637	15	6.7	15	72	22	63	59	0	0	38	1.11
939555--939649	11	8.5	11	69	22	56	62	1	0	36	1.03
939529--939649	23	5.2	22	63	16	55	61	0	0	37	1.08
939870--939896	2	13.5	2	100	0	54	0	51	0	48	1.00
942198--942243	23	2.0	24	86	4	67	36	6	13	43	1.69
950217--950241	2	12.5	2	100	0	50	52	0	0	48	1.00
950409--950481	30	2.5	28	73	14	67	67	4	5	23	1.29
950572--950620	10	4.8	10	76	14	55	53	0	0	46	1.00
950561--950622	31	2.0	31	93	0	106	54	0	0	45	0.99
952358--952386	14	2.0	15	93	6	51	48	27	20	3	1.66
955566--955617	17	3.2	15	76	15	50	65	0	3	30	1.10
955775--955823	3	16.3	3	100	0	98	32	0	0	67	0.91
956152--956180	13	2.2	13	100	0	58	34	0	0	65	0.93
959674--959729	16	3.4	16	72	11	51	46	0	3	50	1.19
961235--961287	22	2.5	20	85	8	70	43	0	0	56	0.99
961205--961321	26	4.4	27	73	20	88	47	0	0	51	1.06
961302--961338	18	2.1	18	94	0	65	48	5	0	45	1.25
961420--961515	14	7.0	14	67	17	58	52	2	1	44	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
961397--961454	21	2.9	21	73	19	61	50	0	1	48	1.11
961389--961530	53	2.6	55	80	4	173	51	2	0	45	1.18
962162--962233	34	2.1	35	84	7	94	55	1	0	43	1.08
963215--963252	18	2.1	18	90	0	58	50	0	0	50	1.00
963584--963624	3	14.0	3	84	5	57	36	0	0	63	0.95
964168--964267	50	2.0	50	100	0	200	56	12	8	24	1.62
968989--969041	4	13.2	4	95	0	61	41	0	9	49	1.35
971230--971273	17	2.6	17	80	16	56	52	6	4	36	1.49
971689--971728	16	2.3	18	76	24	50	50	0	0	50	1.00
971695--971729	16	2.2	16	90	10	54	51	0	0	48	1.00
971720--971768	20	2.5	20	86	0	62	40	2	8	48	1.44
977323--977347	2	12.5	2	100	0	50	48	0	0	52	1.00
983747--983821	32	2.3	32	80	8	89	56	12	4	28	1.54
983764--983815	16	3.2	16	83	0	68	55	13	1	28	1.49
983877--983983	32	3.4	33	73	12	98	54	9	1	34	1.44
983905--983983	16	4.9	16	77	0	77	53	7	1	37	1.38
992915--992957	4	11.2	4	85	9	54	81	2	16	0	0.79
992915--992959	11	4.0	11	88	5	63	82	2	15	0	0.77
993870--993922	27	2.0	27	85	7	72	37	0	1	60	1.08
993906--993957	19	2.8	19	85	8	72	57	0	0	42	0.98
995409--995435	2	13.5	2	100	0	54	0	0	48	51	1.00
1001117--1001160	2	22.0	2	95	0	79	50	0	2	47	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1003150--1003196	15	3.1	15	77	16	53	42	0	4	53	1.20
1003187--1003235	25	2.0	25	88	8	73	59	2	2	36	1.21
1006327--1006356	7	4.4	7	95	4	53	90	0	0	10	0.47
1006404--1006428	13	1.9	13	100	0	50	20	16	56	8	1.65
1012035--1012059	8	3.1	8	100	0	50	12	0	0	88	0.53
1013813--1013844	2	16.0	2	100	0	64	50	0	0	50	1.00
1013950--1013998	24	2.0	24	88	7	73	55	0	2	42	1.11
1014260--1014329	28	2.6	27	75	11	70	37	2	0	60	1.12
1014359--1014416	10	5.2	11	77	18	50	41	1	0	56	1.09
1014356--1014435	23	3.5	22	72	16	63	38	2	0	58	1.11
1015460--1015495	19	1.9	19	88	5	56	55	0	2	41	1.14
1015462--1015537	34	2.2	36	79	13	97	55	0	1	43	1.08
1015481--1015538	16	3.6	16	71	19	57	55	0	0	44	0.99
1015703--1015739	2	19.0	2	88	5	58	48	0	2	48	1.15
1015820--1015846	2	13.5	2	100	0	54	48	0	0	51	1.00
1016756--1016797	20	2.2	19	87	12	59	64	0	0	35	0.94
1017224--1017262	3	13.0	3	100	0	78	33	0	0	66	0.92
1019596--1019651	21	2.6	21	78	13	60	62	0	1	35	1.06
1019614--1019668	25	2.1	25	83	12	67	63	3	0	32	1.12
1026864--1027973	290	4.0	283	80	11	1204	43	15	17	23	1.86
1029236--1029281	18	2.5	18	86	10	58	39	0	2	58	1.10
1032138--1032181	10	4.5	10	77	5	54	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1035631--1035657	10	2.7	10	100	0	54	92	0	7	0	0.38
1037163--1037245	17	5.0	16	73	15	62	49	3	2	44	1.32
1038936--1038965	15	2.1	15	93	6	53	63	0	3	33	1.11
1039365--1039415	15	3.8	13	80	14	50	50	13	3	31	1.60
1039379--1039415	15	2.7	14	88	12	51	54	13	2	29	1.53
1042019--1042071	22	2.5	21	76	11	54	47	0	1	50	1.12
1042021--1042066	22	2.1	22	84	8	58	43	0	2	54	1.12
1042636--1042669	16	2.1	16	89	10	52	32	0	0	67	0.91
1042976--1043023	17	2.9	15	77	19	51	47	0	0	52	1.00
1053337--1053414	37	2.1	38	97	2	149	24	16	12	46	1.82
1056397--1056524	21	6.4	19	69	20	66	57	0	0	41	1.04
1056397--1056441	20	2.3	19	88	3	63	62	0	0	37	0.96
1056406--1056480	37	2.0	38	87	7	109	56	0	0	44	0.99
1056409--1056492	28	3.0	27	75	19	75	57	0	0	42	0.99
1056409--1056481	10	7.4	11	71	22	56	57	0	0	42	0.98
1056400--1056501	27	3.8	26	71	20	84	56	0	0	43	0.99
1056674--1056709	13	2.8	13	91	0	54	52	0	0	47	1.00
1057026--1057066	14	2.9	14	92	3	64	29	0	0	70	0.87
1058724--1058748	2	12.5	2	100	0	50	0	48	0	52	1.00
1064906--1064941	7	5.4	7	87	12	58	38	0	0	61	0.96
1064906--1064941	13	2.8	13	91	0	63	38	0	0	61	0.96
1064909--1064982	23	3.3	23	76	20	77	45	0	0	54	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1067780--1067812	16	2.1	16	88	11	50	42	0	0	57	0.98
1067853--1067895	18	2.4	19	84	7	54	44	0	0	55	0.99
1068008--1068047	13	3.0	13	89	10	55	32	0	0	67	0.91
1068561--1068602	2	21.0	2	100	0	84	50	0	0	50	1.00
1068776--1068822	24	2.0	23	83	8	58	27	2	6	63	1.30
1069347--1069386	3	13.0	3	85	15	55	32	0	0	67	0.91
1070274--1070420	70	2.1	70	96	0	267	30	16	14	38	1.89
1071388--1071412	1	25.0	1	100	0	50	0	0	100	0	0.00
1072825--1072865	20	2.1	19	86	4	55	48	2	0	48	1.14
1076674--1076747	37	2.0	38	91	2	123	52	16	4	27	1.61
1077485--1077521	18	2.1	18	89	0	56	21	43	21	13	1.87
1080800--1080857	22	2.6	23	75	5	66	44	0	0	55	0.99
1083852--1083900	25	2.0	25	88	4	73	42	10	6	40	1.63
1084248--1084297	26	1.9	26	84	8	66	48	0	2	50	1.12
1085432--1085470	20	1.9	21	94	5	71	46	0	0	53	1.00
1085749--1085778	2	15.0	2	100	0	60	50	0	0	50	1.00
1087713--1087754	22	1.9	22	85	0	57	47	0	0	52	1.00
1089253--1089318	22	3.0	23	75	6	64	40	0	0	59	0.98
1089805--1089839	17	2.0	18	94	5	63	25	0	0	74	0.82
1089807--1089847	18	2.3	18	87	8	57	29	0	0	70	0.87
1090372--1090404	15	2.2	15	94	0	57	69	6	0	24	1.10
1090403--1090448	3	15.3	3	95	0	83	32	2	0	65	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1091206--1091254	14	3.4	15	80	8	66	51	0	0	48	1.00
1091771--1091822	20	2.3	22	84	15	63	40	0	3	55	1.18
1091846--1091875	2	15.5	2	93	6	53	53	0	0	46	1.00
1093612--1094041	184	2.3	184	80	7	460	44	11	9	35	1.72
1095107--1095150	6	7.3	6	100	0	88	50	15	0	34	1.45
1095130--1095250	59	2.1	59	98	0	233	40	18	9	31	1.83
1099168--1099237	20	3.3	20	73	15	61	44	0	1	54	1.09
1099171--1099255	44	2.0	43	82	15	106	45	0	1	52	1.08
1103278--1103332	28	1.9	28	85	3	74	34	0	0	65	0.93
1103294--1103349	27	2.0	28	83	10	71	35	0	0	64	0.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14