genome.fa.s283.2.7.7.80.10.50.1000.7.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: Scaffold283
Parameters: 2 7 7 80 10 50 1000
Length:  2945114

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  7  of  15  ( 1700 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)
1054912--1054938	2	13.5	2	100	0	54	51	0	0	48	1.00
1055265--1055291	14	1.9	14	100	0	54	55	0	0	44	0.99
1055254--1055296	22	1.9	23	85	4	61	51	0	0	48	1.00
1056605--1056634	2	15.0	2	100	0	60	50	0	0	50	1.00
1056870--1056927	25	2.3	25	82	14	66	41	0	1	56	1.09
1068087--1068144	30	2.0	29	86	3	80	37	3	1	56	1.26
1068059--1068275	104	2.1	106	83	3	278	41	5	1	50	1.36
1068304--1068351	23	2.1	23	96	0	87	52	0	0	47	1.00
1068777--1068803	1	27.0	1	100	0	54	0	0	100	0	0.00
1070710--1070736	2	13.5	2	100	0	54	51	0	0	48	1.00
1070859--1070897	21	1.9	21	89	5	62	61	5	2	30	1.31
1070855--1070901	21	2.3	21	77	3	60	51	4	2	42	1.33
1071573--1071650	30	2.6	29	82	12	86	62	0	1	35	1.03
1071573--1071668	16	6.2	15	67	13	52	62	0	1	36	1.02
1073109--1073133	13	1.9	13	100	0	50	0	24	0	76	0.80
1084885--1084930	21	2.1	22	88	4	67	32	19	28	19	1.96
1086808--1086882	27	2.8	27	89	0	114	26	6	17	49	1.71
1086812--1086896	27	3.1	27	84	5	91	25	7	17	49	1.72
1086841--1086901	24	2.4	25	86	8	79	31	8	13	47	1.71
1090169--1090200	15	2.0	17	88	11	50	40	0	0	59	0.97
1091142--1091172	3	10.3	3	100	0	62	35	32	0	32	1.58
1092502--1092556	21	2.7	19	73	13	56	36	0	1	61	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1093129--1093170	14	3.1	14	82	3	50	42	2	0	54	1.13
1093254--1093305	21	2.4	21	84	9	61	55	9	0	34	1.32
1094903--1094937	2	17.5	2	100	0	70	0	51	0	48	1.00
1096772--1096802	2	15.5	2	100	0	62	51	0	0	48	1.00
1098626--1098683	29	2.0	29	100	0	116	44	6	20	27	1.77
1102243--1102297	24	2.2	27	87	12	82	43	0	0	56	0.99
1102237--1102291	24	2.5	20	73	18	56	40	0	0	60	0.97
1104016--1104112	6	16.5	6	66	23	55	35	0	0	64	0.93
1104025--1104113	8	11.5	8	71	21	50	35	0	0	64	0.94
1104014--1104113	21	4.7	21	69	16	71	35	0	0	65	0.93
1104765--1104838	33	2.2	35	85	4	98	41	1	0	56	1.07
1104790--1104838	16	2.9	17	80	17	66	38	0	0	61	0.96
1104878--1104921	15	2.8	16	79	6	54	45	0	0	54	0.99
1104865--1104909	24	1.9	23	86	13	65	48	0	0	51	1.00
1104898--1104952	17	3.3	16	74	16	58	34	1	0	63	1.05
1105898--1105949	27	2.0	27	85	11	72	42	1	0	55	1.10
1105898--1105949	26	2.0	26	85	11	70	42	1	0	55	1.10
1106092--1106125	2	17.0	2	100	0	68	50	0	0	50	1.00
1121465--1121500	2	18.0	2	100	0	72	50	0	0	50	1.00
1121778--1121821	11	4.0	11	78	0	52	40	2	0	56	1.11
1124860--1124902	7	6.1	7	80	0	50	2	13	4	79	1.00
1129813--1129854	16	2.7	16	81	3	50	78	2	4	14	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1133724--1133802	41	1.9	42	84	7	108	45	3	2	48	1.34
1135646--1135707	20	3.3	18	76	14	54	45	0	0	54	0.99
1137863--1137906	2	22.0	2	88	0	61	52	4	0	43	1.22
1140200--1140228	2	14.5	2	100	0	58	0	48	0	51	1.00
1140228--1140260	2	16.5	2	100	0	66	48	0	0	51	1.00
1141300--1141363	20	3.3	20	69	20	64	17	15	25	42	1.88
1141293--1141367	37	2.0	37	97	0	141	17	16	25	41	1.89
1141937--1141976	2	20.5	2	94	5	73	50	0	0	50	1.00
1144469--1144501	2	16.5	2	100	0	66	51	0	0	48	1.00
1147923--1147948	4	6.5	4	100	0	52	53	23	0	23	1.46
1150532--1150565	17	1.9	17	88	5	50	29	11	0	58	1.33
1152203--1152248	23	2.0	23	100	0	92	47	17	4	30	1.67
1152491--1152528	2	19.0	2	94	0	67	52	0	0	47	1.00
1157414--1157450	20	1.9	20	88	5	58	54	2	0	43	1.14
1158136--1158176	11	3.8	11	78	15	50	70	0	0	29	0.87
1158975--1159006	2	16.0	2	100	0	64	50	0	0	50	1.00
1159534--1159563	10	3.0	10	90	0	51	26	0	0	73	0.84
1159932--1159961	15	2.1	14	93	6	51	66	0	0	33	0.92
1160008--1160049	21	2.0	21	86	9	59	59	4	2	33	1.31
1160522--1160557	16	2.2	17	90	5	56	47	0	0	52	1.00
1160545--1160581	16	2.3	15	86	13	56	56	0	0	43	0.99
1160534--1160583	17	3.0	16	85	8	64	54	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1160562--1160631	25	2.7	24	77	20	70	47	0	0	52	1.00
1160551--1160630	19	4.5	19	71	18	66	50	0	0	50	1.00
1160577--1160633	20	2.8	21	76	10	57	45	0	0	54	0.99
1161502--1161556	18	3.1	18	78	5	67	27	5	0	67	1.12
1161728--1161779	27	2.1	24	82	13	61	40	0	5	53	1.25
1169597--1169634	17	2.2	17	90	0	58	18	26	13	42	1.87
1170903--1170929	5	5.4	5	100	0	54	81	0	0	18	0.69
1173068--1173137	11	6.2	11	70	18	54	35	0	1	62	1.04
1173071--1173144	22	3.2	21	75	19	60	37	0	1	60	1.05
1174101--1174139	18	2.3	18	86	8	55	33	0	0	66	0.92
1174093--1174131	12	3.2	12	85	7	51	30	0	0	69	0.89
1174104--1174143	12	3.2	13	86	10	57	37	0	0	62	0.95
1174101--1174152	16	3.1	16	83	10	52	38	0	0	61	0.96
1174231--1174264	15	2.3	15	89	0	50	47	14	23	14	1.82
1176488--1176534	23	2.1	23	84	7	62	12	4	6	76	1.12
1184030--1184084	26	2.0	28	86	13	80	41	0	0	58	0.98
1184110--1184159	26	1.9	27	84	8	68	58	0	2	40	1.10
1184127--1184197	26	2.7	26	74	20	65	60	1	2	35	1.20
1184572--1184606	2	17.5	2	100	0	70	48	0	0	51	1.00
1185306--1185391	30	2.8	31	75	8	95	51	0	0	48	1.00
1188024--1188084	9	6.7	9	77	3	59	37	1	1	59	1.17
1191516--1191593	35	2.2	37	82	15	101	46	1	2	50	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1192533--1192574	21	2.0	22	85	4	59	64	4	0	30	1.14
1193111--1193143	17	2.0	17	94	5	59	66	0	0	33	0.92
1193677--1193729	24	2.3	23	78	18	56	45	0	1	52	1.11
1194006--1194031	2	13.0	2	100	0	52	50	0	0	50	1.00
1194369--1194415	2	23.5	2	100	0	94	48	0	0	51	1.00
1194741--1194781	21	1.9	22	85	5	57	51	0	0	48	1.00
1196783--1196820	14	2.7	14	87	0	58	39	0	0	60	0.97
1197067--1197119	17	2.9	18	83	13	65	45	0	0	54	0.99
1197874--1197919	23	1.9	23	86	8	65	67	0	2	30	1.03
1201132--1201197	30	2.2	31	94	2	116	56	6	7	30	1.52
1202593--1202624	15	2.0	17	88	11	50	56	0	0	43	0.99
1202716--1202746	4	7.8	4	100	0	62	77	0	0	22	0.77
1206473--1206651	25	7.3	26	65	20	66	55	1	3	39	1.24
1206530--1206604	31	2.5	30	85	10	91	54	0	2	42	1.14
1206594--1206633	16	2.6	16	81	18	50	60	0	0	40	0.97
1206559--1206617	26	2.3	27	80	14	70	55	0	1	42	1.09
1207058--1207103	20	2.2	21	84	3	58	63	0	0	36	0.95
1207081--1207112	15	2.1	16	94	5	57	56	3	0	40	1.15
1208632--1208682	19	2.7	19	76	11	59	41	0	3	54	1.19
1209940--1209981	20	2.1	20	86	0	57	38	0	0	61	0.96
1209940--1209994	23	2.4	23	82	11	60	36	0	0	63	0.95
1210604--1210643	6	6.7	6	94	0	71	32	17	32	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1216434--1216466	12	2.8	12	90	0	57	39	15	27	18	1.90
1219882--1219931	17	3.1	15	88	11	64	50	0	2	48	1.12
1219904--1219937	6	5.8	6	89	6	52	55	0	0	44	0.99
1219904--1219937	11	2.9	11	91	8	50	55	0	0	44	0.99
1219904--1219937	17	2.0	17	94	0	59	55	0	0	44	0.99
1220684--1220730	19	2.5	19	82	0	58	46	2	0	51	1.13
1220930--1220959	15	2.0	15	93	0	51	23	0	0	76	0.78
1227271--1227346	16	4.5	16	71	14	55	51	0	1	47	1.09
1227293--1227428	35	4.1	35	73	19	98	56	0	0	42	1.04
1227301--1227351	12	4.3	13	72	27	51	58	0	0	41	0.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15