genome.fa.s415.2.7.7.80.10.50.1000.7.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: Scaffold415
Parameters: 2 7 7 80 10 50 1000
Length:  1242643

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 880 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)
1007719--1007748	14	2.1	15	93	6	53	73	0	0	26	0.84
1011761--1011804	17	2.6	17	77	0	52	43	0	9	47	1.35
1013592--1013636	21	2.1	22	83	4	56	40	8	8	42	1.67
1015133--1015181	20	2.4	20	86	3	62	65	4	2	28	1.22
1015556--1015580	2	12.5	2	100	0	50	52	0	0	48	1.00
1015655--1015890	128	1.8	130	96	1	440	42	5	6	45	1.54
1019801--1019840	3	13.3	3	94	0	71	70	0	0	30	0.88
1022286--1022325	2	20.0	2	94	0	71	52	0	0	47	1.00
1023149--1023181	14	2.4	14	94	0	57	51	0	6	42	1.26
1024763--1024814	22	2.4	22	83	6	61	53	1	1	42	1.23
1025251--1025299	2	26.0	2	86	12	59	42	2	2	53	1.24
1027033--1027067	6	5.8	6	93	0	61	20	48	17	14	1.81
1027753--1027845	34	2.7	35	75	15	86	48	2	3	46	1.30
1028378--1028560	34	5.4	34	88	0	260	25	7	26	39	1.83
1032971--1033155	34	5.5	34	88	0	264	25	7	26	40	1.82
1034666--1034710	22	2.0	23	82	4	56	48	15	17	17	1.81
1035074--1035109	17	2.1	17	89	0	54	83	0	16	0	0.65
1035475--1035515	2	20.5	2	94	0	73	46	0	2	51	1.14
1042928--1043719	27	28.9	27	90	2	1190	23	33	14	29	1.93
1042928--1043719	55	14.5	54	91	2	1190	23	33	14	29	1.93
1042928--1043719	82	9.6	81	91	3	1192	23	33	14	29	1.93
1043705--1044115	32	12.8	32	93	1	662	30	33	19	16	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1044827--1044871	22	2.0	23	82	4	56	48	15	17	17	1.81
1045234--1045269	17	2.1	17	89	0	54	83	0	16	0	0.65
1048707--1048738	16	2.0	16	100	0	64	50	0	0	50	1.00
1050154--1050220	32	2.1	32	100	0	134	41	11	17	28	1.85
1050432--1050457	2	13.0	2	100	0	52	50	0	0	50	1.00
1051158--1051192	17	2.1	17	89	5	54	22	5	11	60	1.52
1052420--1052463	17	2.6	17	77	0	52	43	0	9	47	1.35
1057364--1057447	28	2.9	28	81	8	89	44	2	0	53	1.13
1057394--1057455	29	2.1	29	85	5	81	46	0	0	53	1.00
1059557--1059597	21	2.0	21	95	0	73	36	2	14	46	1.58
1063185--1063335	79	1.9	79	83	5	198	37	18	8	35	1.82
1064107--1064133	2	13.5	2	100	0	54	51	0	0	48	1.00
1064629--1064657	2	14.5	2	100	0	58	48	0	0	51	1.00
1071182--1071257	20	3.8	20	87	0	116	39	13	13	34	1.83
1072077--1072108	3	10.7	3	100	0	64	34	0	0	65	0.93
1072392--1072446	21	2.6	21	81	18	69	29	0	1	69	0.99
1073830--1073865	17	2.0	17	89	10	54	33	0	0	66	0.92
1074527--1074567	18	2.4	17	84	8	55	34	2	4	58	1.32
1074890--1074917	3	9.3	3	100	0	56	32	0	0	67	0.91
1077167--1077373	91	2.2	93	87	2	283	41	14	11	32	1.81
1078678--1078949	134	2.0	134	100	0	544	35	15	7	41	1.75
1082677--1082711	12	2.8	13	86	8	54	0	17	0	82	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1082677--1082709	11	2.9	12	86	13	52	0	15	0	84	0.61
1084851--1084898	18	2.6	18	80	9	53	47	4	0	47	1.21
1085662--1085702	21	2.0	21	85	0	55	43	9	2	43	1.50
1085767--1085825	22	2.5	24	75	22	63	52	3	0	44	1.17
1086944--1087007	20	2.9	22	75	17	62	53	9	1	35	1.43
1087372--1087404	14	2.3	15	90	10	52	57	0	3	39	1.14
1089530--1089556	2	13.5	2	100	0	54	48	0	0	51	1.00
1089923--1089973	20	2.6	19	75	6	57	27	3	3	64	1.28
1094747--1094789	13	3.3	13	76	0	50	11	18	0	69	1.17
1095458--1095495	11	3.5	11	82	13	51	71	0	5	23	1.07
1096497--1096525	2	15.0	2	92	7	51	48	0	0	51	1.00
1097291--1097324	5	6.8	5	89	0	50	14	58	0	26	1.36
1097623--1097651	14	2.1	14	93	6	51	48	0	0	51	1.00
1098477--1098525	25	2.0	25	84	8	64	36	8	2	53	1.43
1099550--1099677	32	4.0	31	73	11	89	11	14	32	42	1.81
1099605--1099677	16	4.6	16	77	0	83	10	16	32	39	1.83
1100725--1100819	16	5.9	16	75	4	75	17	16	26	38	1.91
1101116--1101210	36	2.6	36	85	8	122	48	2	2	47	1.25
1106979--1107012	17	2.1	17	88	5	52	35	0	0	64	0.94
1110911--1110960	21	2.4	21	83	12	59	22	0	6	72	1.07
1111301--1111339	18	2.1	18	85	9	51	51	0	2	46	1.14
1111442--1111479	19	2.0	19	89	0	58	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1111934--1111974	21	1.9	22	85	5	57	58	2	0	39	1.11
1112817--1112857	15	2.7	15	78	14	57	41	0	2	56	1.13
1114618--1114706	30	3.0	30	88	3	126	38	10	2	49	1.49
1117184--1117263	17	4.7	18	73	17	73	48	0	6	45	1.27
1117155--1117238	15	5.3	15	74	20	64	44	1	7	47	1.38
1117154--1117255	32	3.2	31	73	15	75	45	0	7	46	1.39
1117184--1117239	2	28.5	2	76	16	55	48	0	5	46	1.25
1119891--1119924	17	2.0	17	88	11	52	41	0	14	44	1.45
1128518--1128547	11	2.7	11	94	0	51	43	13	30	13	1.82
1129140--1129216	20	3.8	20	79	6	84	42	11	12	32	1.80
1130572--1130874	165	1.8	162	80	4	356	33	11	24	29	1.91
1131426--1131594	84	2.0	84	89	2	259	31	16	12	39	1.86
1131541--1134140	406	6.7	393	72	8	1361	36	14	17	31	1.90
1137464--1137518	20	2.8	20	77	0	65	41	10	10	36	1.75
1138465--1139567	28	38.7	28	83	4	1292	23	16	30	29	1.96
1138441--1139567	86	13.2	85	84	5	1304	23	16	30	29	1.96
1138465--1139567	114	9.7	112	85	3	1292	23	16	30	29	1.96
1140789--1140828	11	3.5	11	83	6	53	2	2	7	87	0.71
1140789--1140830	12	3.6	12	83	3	50	2	2	9	85	0.77
1153259--1153334	20	3.8	20	79	5	82	42	11	11	34	1.78
1154026--1154870	395	2.1	394	80	3	941	33	14	18	33	1.91
1154762--1154977	107	2.0	107	94	0	378	36	14	17	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1156635--1156709	20	3.8	20	80	7	89	34	14	12	38	1.83
1159271--1159295	12	2.1	12	100	0	50	24	16	8	52	1.70
1160951--1160997	16	2.6	19	80	12	55	12	2	4	80	0.94
1170684--1170738	6	9.7	6	83	15	64	87	10	1	0	0.63
1170684--1170738	15	3.2	17	85	15	78	87	10	1	0	0.63
1170683--1170750	22	3.0	22	87	12	86	83	11	2	1	0.82
1170684--1170738	17	3.2	16	87	10	74	87	10	1	0	0.63
1170684--1170740	1	57.0	1	75	0	51	87	10	1	0	0.61
1171969--1172740	29	26.9	29	90	2	1147	28	32	17	21	1.96
1171969--1172752	57	13.6	57	89	2	1148	28	32	16	21	1.96
1173266--1173340	20	3.8	20	78	0	87	34	13	12	40	1.81
1173266--1173343	40	2.0	39	87	2	111	34	12	12	39	1.82
1175893--1175917	12	2.1	12	100	0	50	24	16	8	52	1.70
1177526--1177567	17	2.6	16	82	14	50	45	4	4	45	1.45
1177558--1177667	2	53.5	2	72	16	57	50	3	3	42	1.37
1177558--1177604	13	3.6	13	78	16	53	51	4	4	40	1.41
1180812--1180849	19	2.0	19	85	10	51	36	7	5	50	1.54
1181586--1181610	2	12.5	2	100	0	50	48	0	0	52	1.00
1182472--1182562	30	3.0	30	71	6	85	37	13	4	45	1.63
1184720--1184747	2	14.0	2	100	0	56	50	0	0	50	1.00
1185033--1185066	15	2.3	15	89	0	50	52	0	0	47	1.00
1186357--1186400	19	2.6	16	79	13	52	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)
1188148--1192045	397	10.0	396	77	7	3313	35	15	18	30	1.92
1192101--1192155	3	18.7	3	88	3	85	69	0	1	29	0.99
1192106--1192165	15	4.0	15	89	4	77	68	1	1	28	1.09
1193281--1193309	2	14.5	2	100	0	58	51	0	0	48	1.00
1193629--1193688	29	2.1	29	81	6	68	53	1	0	45	1.10
1194220--1194256	10	3.7	10	96	0	65	21	2	0	75	0.92
1194220--1194268	20	2.5	20	86	0	62	22	6	0	71	1.08
1194787--1194835	24	2.0	24	100	0	98	28	8	12	51	1.68
1196581--1196631	3	17.0	3	100	0	102	66	0	0	33	0.92
1196741--1196781	15	2.9	15	86	13	61	51	0	0	48	1.00

Tables:   1   2   3   4   5   6   7   8