genome.fa.s230.2.7.7.80.10.50.1000.10.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  10  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)
1103302--1103355	18	2.9	19	71	15	51	40	0	0	59	0.98
1103380--1103468	33	2.6	35	89	8	146	35	0	0	64	0.94
1103888--1103922	4	8.8	4	93	0	52	54	0	20	25	1.45
1104173--1104757	302	1.9	303	96	1	1075	43	15	15	26	1.85
1108919--1109003	12	7.1	12	70	13	50	65	3	2	28	1.21
1108931--1109021	23	3.8	23	78	7	74	63	4	4	27	1.32
1108919--1109021	23	4.3	23	78	9	73	66	3	3	26	1.27
1108989--1109033	24	1.9	24	86	4	65	73	11	4	11	1.23
1109217--1109265	24	2.0	24	84	0	62	24	14	8	53	1.68
1109890--1109949	29	2.0	30	90	9	97	55	3	0	41	1.16
1111138--1111196	28	2.0	30	87	6	86	47	0	0	52	1.00
1121669--1121773	55	1.9	56	86	9	153	59	0	0	40	1.04
1121962--1122006	24	2.0	22	82	8	54	48	2	2	46	1.26
1122158--1122190	12	2.8	12	90	4	50	33	0	0	66	0.92
1123989--1124171	34	5.4	34	85	0	242	26	7	25	39	1.83
1124476--1124538	19	3.3	19	90	0	90	28	17	19	34	1.94
1128604--1128788	34	5.5	34	88	0	264	25	7	26	40	1.82
1130158--1130196	21	1.9	21	89	5	62	41	0	7	51	1.31
1130217--1130259	21	2.0	21	86	8	61	62	0	2	34	1.08
1130297--1130510	87	2.5	87	81	4	245	45	7	15	31	1.75
1130713--1130737	10	2.5	10	100	0	50	52	0	0	48	1.00
1136965--1136997	16	2.0	17	94	5	59	66	6	0	27	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1140054--1140108	19	2.8	18	83	8	56	36	1	0	61	1.06
1143795--1143849	16	3.4	16	80	5	56	65	1	0	32	1.03
1143913--1143950	19	2.0	19	85	10	51	34	0	0	65	0.93
1146648--1146694	2	23.5	2	100	0	94	51	0	48	0	1.00
1147776--1147803	3	9.3	3	100	0	56	64	0	35	0	0.94
1155930--1155961	2	16.0	2	100	0	64	50	0	0	50	1.00
1156689--1156773	44	1.9	44	82	0	107	34	16	15	34	1.90
1159378--1159417	19	2.0	21	85	9	57	42	12	2	42	1.56
1160153--1160182	2	15.0	2	100	0	60	0	50	0	50	1.00
1163246--1163308	26	2.5	24	73	12	63	42	0	0	57	0.99
1163243--1163311	20	3.6	19	76	20	72	46	0	0	53	1.00
1163387--1163429	13	3.5	13	81	18	56	34	0	0	65	0.93
1163488--1163529	21	2.0	21	90	0	66	61	0	0	38	0.96
1163565--1163627	32	2.0	32	90	0	99	49	6	0	44	1.28
1163752--1163785	13	2.5	14	90	4	52	47	2	2	47	1.32
1165600--1165720	27	4.4	27	71	11	86	42	0	2	53	1.19
1165641--1165716	17	4.4	17	71	22	52	40	0	2	56	1.13
1165705--1165739	6	6.0	6	86	6	54	31	0	0	68	0.90
1165705--1165781	17	4.7	17	74	16	65	29	2	1	66	1.13
1167042--1167080	20	2.0	19	85	5	51	15	51	5	28	1.64
1169544--1169589	21	2.1	22	88	4	67	32	19	28	19	1.96
1171561--1171599	20	2.0	19	85	5	51	15	51	5	28	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1174089--1174154	25	2.5	25	78	7	60	54	0	3	42	1.15
1174091--1174186	13	7.9	13	67	20	57	54	0	2	43	1.12
1174122--1174212	34	2.7	32	78	14	85	52	0	2	45	1.13
1174147--1174199	15	3.4	15	75	17	54	50	0	0	49	1.00
1174182--1174226	20	2.3	19	88	3	63	55	2	0	42	1.12
1178730--1178804	38	2.0	38	84	10	100	49	0	1	49	1.09
1178463--1178863	208	1.9	207	87	2	581	44	8	8	39	1.64
1179198--1179232	17	1.9	17	88	11	52	82	0	11	5	0.82
1181888--1181935	14	3.4	14	75	18	55	43	0	2	54	1.12
1182799--1182840	22	2.0	21	82	13	52	71	2	0	26	0.98
1182832--1182870	20	2.0	20	89	0	60	41	0	0	58	0.98
1182862--1182914	21	2.5	20	79	8	61	50	0	0	49	1.00
1182871--1182913	10	3.9	11	87	9	61	55	0	0	44	0.99
1186367--1186393	14	1.9	14	100	0	54	25	7	14	51	1.68
1187465--1187498	9	3.7	9	88	7	50	76	0	2	20	0.92
1187522--1187616	8	10.8	8	74	20	66	58	0	1	40	1.05
1187546--1187613	20	3.3	19	73	19	57	60	0	0	39	0.97
1187534--1187616	37	2.3	35	78	15	89	60	0	0	39	0.97
1188362--1188394	6	5.7	6	92	7	59	84	0	15	0	0.61
1188362--1188394	11	2.8	12	90	9	59	84	0	15	0	0.61
1189343--1189385	13	3.2	13	76	3	50	46	2	4	46	1.36
1189636--1189806	91	1.9	91	93	0	297	22	21	28	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1193954--1193998	2	22.5	2	95	0	81	48	0	2	48	1.13
1194254--1194280	2	13.5	2	100	0	54	51	0	0	48	1.00
1194311--1194390	37	2.2	35	84	8	99	48	0	0	51	1.00
1194350--1194391	23	1.9	21	81	18	50	52	0	0	47	1.00
1194550--1194597	22	2.3	21	82	10	62	54	0	2	43	1.12
1194572--1194613	19	2.3	19	83	4	59	59	0	0	40	0.97
1196024--1196107	5	16.2	5	70	16	55	40	0	4	54	1.21
1196029--1196107	22	3.8	20	82	11	79	40	0	5	54	1.22
1198252--1198278	2	13.5	2	100	0	54	48	0	0	51	1.00
1198343--1198381	19	2.0	20	90	5	62	51	0	0	48	1.00
1198934--1198958	2	12.5	2	100	0	50	48	0	0	52	1.00
1199233--1199309	22	3.7	22	70	22	60	54	0	0	45	0.99
1199236--1199301	16	3.7	19	78	15	63	51	0	0	48	1.00
1199243--1199298	18	3.2	18	80	12	71	51	0	0	48	1.00
1199234--1199314	35	2.3	36	79	12	89	55	0	0	44	0.99
1199242--1199309	17	4.1	16	75	16	59	54	0	0	45	0.99
1199561--1199594	11	3.2	11	91	4	52	55	0	0	44	0.99
1199575--1199634	29	2.0	30	81	9	70	51	0	0	48	1.00
1199592--1199657	33	2.0	32	83	13	82	53	0	0	46	1.00
1203759--1203785	3	9.0	3	100	0	54	33	0	33	33	1.58
1203990--1204015	2	13.0	2	100	0	52	50	0	50	0	1.00
1204115--1204172	22	2.6	21	71	10	53	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)
1205408--1205437	15	2.0	15	93	0	51	13	30	20	36	1.90
1214152--1214214	25	2.5	24	78	17	74	53	1	0	44	1.10
1214924--1214962	19	2.0	20	90	10	62	58	5	20	15	1.55
1215321--1215367	19	2.4	19	82	3	58	55	4	19	21	1.60
1215936--1215969	17	1.9	18	94	5	61	29	5	23	41	1.78
1216021--1216072	20	2.5	21	84	12	72	63	1	11	23	1.37
1216635--1216663	2	15.0	2	92	7	51	51	0	0	48	1.00
1216691--1216736	22	2.1	22	84	15	60	50	0	2	47	1.13
1216939--1216994	21	2.7	19	80	20	60	48	0	7	44	1.30
1216978--1217058	26	3.2	25	80	7	74	39	0	7	53	1.29
1217370--1217400	3	10.3	3	100	0	62	67	0	0	32	0.91
1217987--1218018	12	2.5	13	95	5	57	18	0	0	81	0.70
1217987--1218029	12	3.3	13	81	12	52	20	0	0	79	0.74
1217990--1218029	20	2.0	20	90	5	62	20	0	0	80	0.72
1217988--1218030	7	6.3	7	83	5	52	23	0	0	76	0.78
1220377--1220443	6	10.8	6	79	19	59	52	0	1	46	1.09
1220755--1220801	19	2.5	18	83	16	60	59	0	4	36	1.17
1227008--1227039	11	2.8	11	95	4	55	0	28	0	71	0.86
1229632--1229663	2	16.0	2	100	0	64	0	50	0	50	1.00
1229663--1229711	2	24.5	2	100	0	98	48	0	0	51	1.00
1232036--1232089	18	3.2	17	73	26	53	51	3	1	42	1.30
1232275--1232299	3	8.3	3	100	0	50	36	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1233381--1233407	2	13.5	2	100	0	54	51	0	0	48	1.00
1233585--1233635	20	2.6	20	81	9	61	41	0	1	56	1.10
1233658--1233686	14	2.0	15	93	6	51	48	0	13	37	1.43
1236160--1236188	2	14.5	2	100	0	58	51	0	48	0	1.00
1242040--1242078	20	2.0	20	89	0	60	35	0	2	61	1.10
1242149--1242228	31	2.6	30	74	16	74	42	0	0	57	0.98
1244403--1244436	2	17.5	2	93	6	61	52	0	0	47	1.00
1249997--1250025	14	2.0	15	93	6	51	31	0	0	68	0.89
1254645--1254677	7	4.9	7	96	3	59	75	0	0	24	0.80
1254646--1254683	14	2.8	14	88	4	60	81	0	0	18	0.69

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