genome.fa.s28.2.7.7.80.10.50.1000.7.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: Scaffold28
Parameters: 2 7 7 80 10 50 1000
Length:  2815568

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  7  of  16  ( 1890 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)
1093525--1093551	13	2.1	13	100	0	54	40	14	14	29	1.86
1097468--1097510	21	2.0	21	81	0	50	30	11	4	53	1.57
1099398--1099422	13	1.9	13	100	0	50	36	16	16	32	1.90
1099376--1099442	33	2.1	33	88	2	100	32	13	17	35	1.89
1100936--1100976	20	2.0	20	95	0	73	36	14	12	36	1.84
1100934--1101002	33	2.1	33	91	0	111	39	17	11	31	1.85
1100934--1100986	13	4.5	13	71	26	55	39	15	11	33	1.83
1101025--1101066	20	2.2	19	88	12	68	33	19	9	38	1.84
1101072--1101096	13	1.9	13	100	0	50	32	16	16	36	1.90
1101053--1101117	32	2.0	33	90	3	105	38	13	15	32	1.87
1101140--1101670	265	2.0	265	92	0	875	33	13	12	39	1.83
1105363--1105393	9	3.6	9	95	4	55	19	9	19	51	1.74
1106150--1106243	20	4.8	19	89	6	109	38	15	14	30	1.89
1106150--1106243	39	2.4	40	85	5	120	38	15	14	30	1.89
1112853--1112904	19	2.7	19	80	14	61	28	13	13	44	1.82
1112934--1112986	20	2.7	20	88	5	72	35	13	18	32	1.90
1113500--1113566	33	2.0	33	88	0	98	34	11	13	40	1.81
1113520--1113544	13	1.9	13	100	0	50	36	16	16	32	1.90
1113610--1113634	13	1.9	13	100	0	50	32	16	16	36	1.90
1113643--1113763	52	2.3	52	97	0	224	34	18	18	28	1.94
1117002--1117044	21	2.0	21	100	0	86	27	23	20	27	1.99
1120705--1120736	1	32.0	1	93	0	55	96	0	3	0	0.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1122019--1122100	30	2.7	31	88	1	112	25	28	18	28	1.98
1122077--1122595	61	8.0	62	80	12	423	20	33	13	32	1.91
1122173--1122224	27	1.9	27	96	0	95	23	38	17	21	1.93
1122203--1122627	34	12.7	34	81	10	452	20	33	12	33	1.90
1122077--1122622	34	16.8	31	75	14	332	20	33	13	33	1.91
1122049--1122596	95	5.7	95	79	12	505	20	33	13	33	1.91
1122466--1122519	27	2.0	27	92	0	90	22	40	14	22	1.90
1122054--1122622	131	4.4	131	76	15	433	20	33	13	33	1.91
1122638--1122766	33	3.9	33	82	9	174	30	34	18	16	1.93
1122629--1122765	65	2.1	65	87	5	197	29	35	17	17	1.93
1122766--1123090	48	6.7	49	88	6	468	25	26	18	29	1.98
1122766--1123090	97	3.4	97	89	4	473	25	26	18	29	1.98
1122909--1123046	43	3.1	43	90	5	195	26	26	18	28	1.98
1123000--1123138	52	2.6	52	82	4	161	25	25	15	33	1.95
1123968--1124034	33	2.0	33	88	0	98	34	11	13	40	1.81
1123988--1124012	13	1.9	13	100	0	50	36	16	16	32	1.90
1124079--1124103	13	1.9	13	100	0	50	32	16	16	36	1.90
1124112--1124232	52	2.3	52	97	0	224	34	18	18	28	1.94
1138671--1138708	20	1.9	20	94	0	67	36	10	10	42	1.74
1152615--1152645	11	2.8	11	95	0	53	87	12	0	0	0.55
1152616--1152645	14	2.1	14	93	0	51	90	10	0	0	0.47
1154083--1154169	28	3.0	30	83	6	115	31	27	17	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1154156--1154651	34	15.3	33	76	12	451	19	31	12	37	1.88
1154304--1154579	33	9.0	28	75	15	162	19	30	13	36	1.90
1154176--1154620	67	7.0	61	74	16	336	19	31	11	37	1.88
1154176--1154658	94	5.1	93	83	6	526	19	31	12	36	1.89
1154492--1154619	61	2.1	61	85	0	166	17	32	12	36	1.88
1154526--1154585	27	2.2	27	93	0	102	20	33	13	33	1.91
1154648--1155221	52	12.0	48	73	12	362	26	25	16	31	1.96
1154791--1154868	39	2.0	39	87	0	111	29	24	20	25	1.99
1154651--1155113	92	5.0	88	79	12	400	26	25	17	30	1.97
1159287--1159339	19	2.7	21	88	8	76	26	18	16	37	1.93
1159364--1159420	20	2.9	19	87	7	78	36	12	22	28	1.90
1167508--1167562	19	2.8	19	91	2	83	32	20	10	36	1.87
1168721--1168773	26	2.0	26	92	0	88	41	9	16	32	1.81
1169421--1169558	62	2.2	62	94	0	240	35	13	20	30	1.91
1176220--1176264	21	2.1	21	100	0	90	37	26	4	31	1.76
1176960--1177938	86	11.4	84	76	8	669	28	29	17	23	1.97
1176946--1177670	231	3.1	226	79	7	685	28	29	18	24	1.98
1176960--1177959	28	35.0	29	76	10	671	28	29	17	24	1.97
1176946--1177623	316	2.1	317	83	4	832	28	29	17	24	1.98
1177721--1177799	29	3.0	25	79	15	88	31	27	13	26	1.94
1177089--1177946	58	15.1	53	72	13	267	28	29	17	23	1.97
1177958--1178032	28	2.8	26	84	8	87	29	30	12	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1178023--1178216	32	6.2	32	78	3	189	30	29	17	22	1.97
1178019--1178216	63	3.2	63	83	0	218	29	29	17	23	1.97
1178023--1178216	95	2.1	93	81	5	221	30	29	17	22	1.97
1178199--1178316	28	4.2	28	81	4	130	31	29	16	22	1.96
1177962--1178335	32	12.6	28	74	14	136	30	29	15	23	1.95
1178199--1178303	55	1.9	56	88	2	158	31	30	14	23	1.94
1178022--1178340	32	10.5	31	73	14	172	31	29	16	22	1.95
1178407--1178662	104	2.4	105	85	3	311	24	23	15	36	1.94
1178428--1178735	52	5.9	51	72	11	187	25	24	15	34	1.95
1178461--1178704	105	2.3	104	83	2	292	25	23	14	36	1.93
1178933--1179010	41	1.9	41	84	5	104	19	33	16	30	1.94
1179576--1179624	17	2.7	18	78	6	55	71	2	2	24	1.07
1179578--1179630	25	2.1	25	85	3	70	73	3	1	20	1.08
1179653--1179689	19	1.9	20	94	5	67	83	2	0	13	0.74
1184827--1184998	78	2.2	78	85	3	229	30	13	27	27	1.95
1185192--1185221	10	3.0	10	90	0	51	86	0	13	0	0.57
1186497--1186539	17	2.6	16	88	7	59	20	0	2	76	0.89
1186500--1186565	9	7.7	9	74	16	50	18	1	4	75	1.04
1187296--1187559	62	4.3	63	78	5	265	37	15	25	22	1.93
1187649--1187750	32	3.4	31	80	8	102	21	16	32	29	1.95
1187675--1195712	28	286.1	28	78	10	5974	23	18	30	28	1.97
1188065--1195632	954	7.9	954	99	0	14976	23	18	30	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1195903--1195960	28	2.1	27	83	3	71	27	20	25	25	1.99
1209031--1209193	79	2.1	78	87	3	229	34	10	25	29	1.89
1210693--1210735	17	2.5	17	81	7	52	23	0	4	72	1.04
1212465--1212494	4	7.2	4	96	3	51	73	0	3	23	0.98
1213205--1213241	17	2.1	18	85	14	51	48	13	0	37	1.43
1215503--1215551	23	2.2	22	81	3	53	69	14	2	14	1.28
1215789--1215858	28	2.5	28	88	0	95	31	18	24	25	1.98
1215851--1215958	49	2.2	51	85	8	150	33	10	23	33	1.88
1215984--1216079	50	1.9	51	89	2	149	33	8	26	32	1.86
1216080--1216211	51	2.6	51	80	3	162	31	11	25	31	1.91
1215816--1216288	130	3.7	129	79	7	529	32	11	25	30	1.91
1216161--1216367	79	2.6	79	85	0	288	34	13	23	28	1.92
1216046--1216574	209	2.5	207	82	3	632	33	12	24	29	1.91
1216299--1216418	51	2.4	51	80	6	136	35	12	23	29	1.91
1216357--1216574	79	2.8	78	83	4	251	35	12	22	29	1.91
1216226--1216497	130	2.1	130	80	4	307	36	12	22	29	1.91
1216353--1216667	79	4.0	79	77	8	239	35	12	22	28	1.91
1219005--1219137	50	2.7	50	82	8	155	40	11	17	30	1.84
1219663--1220238	61	9.5	61	86	2	730	29	19	26	25	1.99
1221214--1221249	18	2.1	17	89	5	54	2	16	0	80	0.83
1221246--1221280	13	2.8	12	87	12	52	2	0	14	82	0.77
1221251--1221280	13	2.4	13	94	5	53	3	0	13	83	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1233686--1233755	28	2.5	29	83	6	90	27	12	31	28	1.93
1233717--1234196	130	3.7	129	82	3	507	35	11	22	30	1.89
1233873--1233970	51	1.9	51	87	4	144	35	8	23	32	1.84
1233872--1233986	51	2.3	50	80	8	142	33	9	26	31	1.88
1234004--1234102	51	1.9	51	87	0	144	35	10	23	31	1.88
1234055--1234260	79	2.6	78	79	9	213	37	12	20	29	1.89
1233714--1234197	261	1.9	260	82	3	616	35	11	23	30	1.89
1234200--1234308	51	2.2	49	84	7	148	39	6	20	33	1.78
1233793--1234747	340	2.8	337	82	7	1137	34	11	23	30	1.90
1234212--1234310	51	1.9	51	91	0	162	39	7	20	33	1.79

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16