genome.fa.s138.2.7.7.80.10.50.1000.7.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: Scaffold138
Parameters: 2 7 7 80 10 50 1000
Length:  1735418

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

This is table  7  of  11  ( 1296 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)
968969--969032	13	5.4	13	78	21	86	28	17	15	39	1.90
971570--971689	51	2.4	51	81	2	143	30	24	13	31	1.93
971642--971922	79	3.6	76	82	5	292	29	26	12	31	1.93
971621--971918	158	1.9	158	85	2	411	28	25	13	32	1.94
971858--971976	51	2.3	51	80	5	143	31	26	10	31	1.90
975159--975287	52	2.5	52	93	0	213	31	15	17	35	1.91
975159--975309	52	2.9	52	86	3	189	32	15	17	34	1.91
975298--975322	13	1.9	13	100	0	50	36	16	16	32	1.90
975388--975412	13	1.9	13	100	0	50	32	16	16	36	1.90
982184--982256	20	3.6	21	85	7	89	35	15	9	39	1.80
990268--990470	80	2.6	80	80	9	208	32	9	27	31	1.88
990481--990643	88	1.8	89	88	1	247	28	10	30	31	1.90
990683--990864	80	2.3	80	80	4	197	37	9	22	30	1.86
993197--993235	20	2.0	20	89	0	60	43	10	20	25	1.83
993823--994904	70	15.4	69	76	11	680	37	14	22	25	1.92
994293--994561	72	3.9	67	81	12	262	39	13	25	22	1.90
994143--994700	286	2.0	275	82	9	682	39	13	22	24	1.90
994440--994563	39	3.3	39	67	21	111	38	12	27	21	1.89
993823--994871	139	7.5	139	77	9	789	37	14	22	25	1.92
1008374--1008558	80	2.3	80	77	5	196	32	11	27	27	1.92
1008479--1008679	80	2.5	82	77	9	207	33	10	26	29	1.90
1015679--1015704	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1015743--1015818	21	3.7	21	80	3	100	28	17	11	42	1.84
1015764--1015836	20	3.6	20	81	3	101	31	19	13	35	1.91
1015743--1015836	41	2.3	41	98	0	179	29	18	12	39	1.88
1016420--1016569	73	2.1	73	98	0	291	27	29	6	37	1.80
1018186--1018232	21	2.3	21	76	23	55	42	4	19	34	1.70
1018353--1018391	13	3.0	13	96	0	69	35	15	17	30	1.91
1018377--1018455	20	3.7	20	78	15	77	44	15	15	25	1.85
1020472--1020502	15	2.1	15	93	0	53	12	22	16	48	1.80
1024564--1024589	13	2.0	13	100	0	52	30	15	15	38	1.88
1024628--1024703	21	3.7	21	80	3	100	28	17	11	42	1.84
1024649--1024721	20	3.6	20	81	3	101	31	19	13	35	1.91
1024628--1024721	41	2.3	41	98	0	179	29	18	12	39	1.88
1026552--1026639	41	2.1	41	85	4	115	30	11	15	42	1.83
1032241--1032267	13	2.1	13	100	0	54	62	7	0	29	1.22
1035299--1035339	20	2.1	20	86	13	59	65	2	21	9	1.34
1035768--1035833	15	4.7	15	72	11	50	43	0	1	54	1.09
1035748--1035833	41	2.1	41	88	0	127	46	0	2	51	1.13
1036558--1036611	18	2.9	17	78	13	54	68	0	5	25	1.11
1039678--1039778	28	3.2	30	77	17	82	47	1	0	50	1.12
1039703--1039773	24	3.0	24	70	25	62	50	0	0	49	1.00
1039661--1039763	13	7.1	14	71	22	72	47	3	0	48	1.20
1039687--1039778	34	2.8	36	82	14	117	50	1	0	48	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1039848--1039882	17	2.1	17	88	0	52	48	2	2	45	1.32
1041207--1041254	19	2.5	20	83	6	64	56	0	4	39	1.19
1044371--1044417	16	2.8	16	83	6	58	74	0	0	25	0.82
1044373--1044417	8	5.3	9	76	12	51	75	0	0	24	0.80
1044509--1044551	20	2.2	20	87	8	61	44	2	2	51	1.27
1044519--1044564	20	2.2	21	81	14	51	47	4	0	47	1.21
1044659--1044972	158	2.0	158	98	1	605	50	10	7	31	1.64
1044814--1044855	19	2.2	19	86	0	57	64	2	0	33	1.07
1045181--1045321	66	2.1	66	79	11	155	46	4	5	43	1.46
1045295--1045344	20	2.5	20	84	9	59	50	4	2	44	1.32
1046004--1046032	14	2.1	14	100	0	58	27	6	0	65	1.18
1046513--1046537	13	1.9	13	100	0	50	48	0	0	52	1.00
1047456--1047523	19	3.9	19	74	21	76	35	10	14	39	1.80
1047458--1047520	32	2.0	32	93	0	108	34	11	15	38	1.83
1049924--1050020	49	1.9	50	83	8	124	34	21	9	35	1.86
1050031--1050103	27	2.6	28	87	6	96	23	34	21	20	1.97
1050086--1050255	52	3.3	51	77	5	189	31	24	11	32	1.90
1050238--1050319	28	2.9	28	83	7	96	24	32	17	25	1.96
1049924--1050314	211	1.9	209	88	3	588	29	27	12	30	1.93
1063722--1064789	59	18.2	59	92	3	1639	25	28	21	25	1.99
1065577--1065644	19	3.9	19	78	21	85	35	11	14	38	1.83
1065598--1065622	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1065579--1065641	32	2.0	32	96	0	117	34	12	15	36	1.86
1065684--1065709	13	2.0	13	100	0	52	30	15	15	38	1.88
1065664--1065730	33	2.0	33	88	0	98	25	14	16	43	1.86
1068068--1068411	51	6.6	51	68	14	173	30	25	11	31	1.91
1068188--1068260	27	2.6	28	87	6	96	23	34	21	20	1.97
1068246--1068412	52	3.2	51	75	7	167	31	25	9	33	1.88
1068395--1068476	28	2.9	28	85	7	105	25	32	15	25	1.96
1069464--1069489	2	13.0	2	100	0	52	50	0	0	50	1.00
1070086--1070130	22	2.0	22	86	8	63	53	2	2	42	1.25
1071975--1072120	75	2.0	75	81	11	178	60	11	3	23	1.46
1072858--1072940	42	1.9	44	81	13	102	54	1	1	43	1.16
1073154--1073188	18	1.9	18	94	0	61	82	2	0	14	0.77
1073535--1073602	32	2.1	33	83	2	84	55	0	2	41	1.15
1074958--1075034	27	2.8	28	76	13	70	41	0	1	57	1.07
1075014--1075050	11	3.5	11	85	7	58	32	0	0	67	0.91
1076223--1076285	29	2.1	31	88	11	96	50	0	0	49	1.00
1076341--1076392	15	3.6	14	84	12	61	63	0	0	36	0.95
1079018--1079050	2	16.5	2	100	0	66	48	0	0	51	1.00
1079365--1079428	24	2.8	22	81	11	83	46	0	6	46	1.27
1079353--1079428	22	3.3	22	77	10	80	43	1	5	50	1.33
1079926--1079999	16	4.6	16	77	0	76	17	9	24	48	1.76
1079926--1080013	32	2.8	31	79	8	79	15	9	26	48	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1080210--1080249	18	2.2	18	90	0	62	50	0	2	47	1.14
1080441--1080470	16	1.9	15	93	6	51	26	3	3	66	1.23
1080966--1081021	16	3.5	16	87	0	76	19	16	17	46	1.84
1083192--1083216	2	12.5	2	100	0	50	52	0	0	48	1.00
1083589--1083621	13	2.4	14	85	5	50	42	0	0	57	0.98
1083609--1083652	16	2.7	16	82	10	54	45	0	2	52	1.13
1085045--1085101	24	2.4	24	76	5	62	50	1	0	47	1.11
1085524--1085565	5	8.4	5	89	10	52	47	0	0	52	1.00
1085537--1085568	6	5.7	6	92	7	50	46	0	0	53	1.00
1085524--1085568	16	2.9	16	84	15	60	46	0	0	53	1.00
1086484--1086535	16	3.2	16	75	0	59	44	9	15	30	1.78
1086565--1086606	15	2.7	15	88	3	66	50	19	2	28	1.60
1087548--1087592	3	15.0	3	100	0	90	66	0	0	33	0.92
1087925--1087954	14	2.1	14	93	0	51	36	3	0	60	1.14
1088511--1088545	3	11.7	3	100	0	70	65	0	0	34	0.93
1092298--1092336	16	2.4	16	91	0	60	0	25	0	74	0.82
1092301--1092337	9	4.3	9	80	13	51	0	24	0	75	0.80
1101524--1101734	78	2.6	80	80	11	204	30	10	30	28	1.90
1105011--1105133	61	2.0	61	96	0	228	23	14	15	46	1.83
1117946--1117997	2	26.0	2	100	0	104	50	0	0	50	1.00
1118291--1118351	29	2.1	30	87	9	90	50	0	0	49	1.00
1118325--1118367	12	3.7	12	84	6	52	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)
1118342--1118406	28	2.3	27	81	5	76	63	1	0	35	1.04
1118364--1118407	11	3.9	11	84	3	52	70	2	0	27	0.99
1118354--1118411	22	2.5	23	80	5	73	65	1	0	32	1.03
1118353--1118408	6	9.8	6	71	24	50	66	1	0	32	1.03
1119498--1119575	18	4.3	18	73	16	72	55	1	1	42	1.16
1119501--1119570	13	5.9	12	74	14	56	51	1	1	45	1.18
1119501--1119570	36	1.9	36	85	5	97	51	1	1	45	1.18
1120114--1120170	23	2.5	23	83	11	73	45	0	0	54	0.99
1123929--1123977	14	3.4	14	83	5	71	67	0	0	32	0.91
1123926--1123975	15	3.4	15	77	5	66	66	0	0	34	0.92

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