genome.fa.s36.2.7.7.80.10.50.1000.7.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: Scaffold36
Parameters: 2 7 7 80 10 50 1000
Length:  4808052

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   

This is table  7  of  28  ( 3342 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)
1069185--1069250	15	3.9	18	71	16	61	48	0	0	51	1.00
1070080--1070111	2	16.0	2	100	0	64	50	0	50	0	1.00
1072443--1072478	2	18.5	2	94	5	65	50	0	0	50	1.00
1073926--1073967	11	3.9	11	79	17	52	26	0	2	71	0.98
1073925--1073967	21	2.2	19	87	8	59	25	0	2	72	0.97
1075820--1075846	8	3.4	8	100	0	54	66	0	22	11	1.22
1076092--1076154	31	2.0	31	87	0	90	33	20	15	30	1.94
1087311--1087381	20	3.5	20	78	0	88	33	11	12	42	1.79
1087311--1087388	40	2.0	39	92	2	129	33	11	12	42	1.79
1087878--1087903	13	2.0	13	100	0	52	38	15	15	30	1.88
1090121--1090165	21	2.1	21	84	8	56	53	4	20	22	1.63
1094077--1094115	13	3.0	13	100	0	78	30	15	15	38	1.88
1094236--1094282	21	2.3	20	82	10	60	31	19	4	44	1.70
1098226--1098271	20	2.4	19	85	10	58	23	13	8	54	1.66
1111298--1111358	8	7.0	9	79	9	65	85	11	1	1	0.75
1111299--1111347	23	2.1	22	88	7	71	89	8	0	2	0.55
1111299--1111347	1	49.0	1	79	0	53	89	8	0	2	0.55
1112586--1113130	28	19.0	28	87	5	669	28	30	16	23	1.97
1112586--1113130	172	3.2	170	87	6	762	28	30	16	23	1.97
1113691--1113765	20	3.8	20	78	0	87	33	9	12	45	1.73
1113691--1113768	40	2.0	39	87	2	111	33	8	12	44	1.74
1114652--1114697	20	2.4	19	85	10	58	23	13	8	54	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1125570--1125624	20	2.7	20	94	2	92	36	14	9	40	1.78
1128178--1128217	15	2.5	16	88	8	55	57	0	0	42	0.98
1128178--1128220	16	2.6	17	85	10	63	55	0	0	44	0.99
1134284--1134311	2	14.0	2	100	0	56	50	0	0	50	1.00
1136371--1136456	32	2.6	33	81	7	93	52	1	1	45	1.16
1136774--1136878	17	5.8	17	73	22	65	63	0	0	34	1.07
1137964--1138082	18	7.2	17	68	21	65	37	3	0	58	1.15
1137955--1138089	28	4.9	28	72	11	93	37	3	0	58	1.16
1138036--1138102	9	6.8	10	70	19	52	32	2	0	64	1.09
1150403--1150435	13	2.5	13	85	14	50	84	0	15	0	0.61
1155362--1155412	25	2.0	25	88	0	75	37	33	9	19	1.85
1159815--1159853	18	2.2	18	95	0	69	17	7	28	46	1.76
1163745--1163769	2	12.5	2	100	0	50	48	0	52	0	1.00
1168453--1168501	25	2.0	25	95	0	89	30	0	26	42	1.55
1168454--1168509	25	2.2	25	90	0	85	32	0	26	41	1.56
1173327--1173365	13	2.9	13	80	3	51	41	2	25	30	1.69
1173442--1173494	25	2.1	25	86	13	74	32	0	1	66	1.03
1173451--1173502	8	6.4	8	80	10	61	28	0	1	69	0.99
1173672--1173714	3	14.3	3	95	0	77	32	0	2	65	1.06
1182188--1182240	27	1.9	28	85	11	74	64	0	0	35	0.94
1182449--1182484	12	3.0	12	88	11	56	77	0	0	22	0.76
1182435--1182484	25	2.0	25	84	7	66	72	2	0	26	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1183553--1183583	13	2.3	14	94	5	55	61	0	0	38	0.96
1183670--1183707	18	2.1	18	90	0	58	68	2	0	28	1.03
1183775--1183809	15	2.4	14	90	9	52	82	0	2	14	0.77
1192635--1192696	20	3.0	20	77	13	56	27	1	1	69	1.07
1193016--1193052	16	2.2	17	90	4	58	10	8	2	78	1.06
1194129--1194166	8	4.8	8	81	12	51	47	0	0	52	1.00
1194663--1194725	32	1.9	34	90	6	103	39	1	0	58	1.07
1197088--1197128	17	2.4	17	87	0	55	43	0	0	56	0.99
1197093--1197162	17	3.9	18	75	19	65	41	0	0	58	0.98
1197110--1197153	25	1.9	24	82	17	58	36	0	0	63	0.95
1197132--1197170	20	2.0	20	90	5	62	41	0	0	58	0.98
1198901--1198976	40	1.9	39	82	17	95	53	1	5	39	1.32
1199431--1199485	28	1.9	29	81	3	67	49	1	3	45	1.30
1200525--1200571	20	2.3	20	79	13	60	48	0	0	51	1.00
1201502--1201547	23	2.0	24	83	12	60	41	6	8	43	1.61
1202261--1202315	25	2.3	24	87	6	76	49	0	0	50	1.00
1202285--1202337	15	3.5	15	81	2	61	47	1	0	50	1.12
1202309--1202351	15	2.9	15	86	3	52	48	4	0	46	1.22
1203335--1203456	30	4.1	30	74	13	90	46	3	12	37	1.58
1203849--1203891	2	22.5	2	88	9	63	55	0	0	44	0.99
1204231--1204271	17	2.4	16	84	11	55	48	7	0	43	1.30
1205228--1205273	20	2.3	20	80	0	56	36	0	2	60	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1207443--1207475	15	2.2	15	89	10	50	42	0	0	57	0.98
1207494--1207528	11	3.3	11	88	4	54	40	5	0	54	1.24
1208213--1208267	22	2.3	25	78	9	62	56	3	1	38	1.28
1210178--1210204	2	13.5	2	100	0	54	48	0	0	51	1.00
1210294--1210340	11	4.1	11	78	15	51	29	2	0	68	1.02
1210292--1210348	21	2.7	21	84	15	73	29	1	0	68	1.00
1210298--1210349	21	2.5	22	85	14	74	28	1	0	69	0.99
1210606--1210630	2	12.5	2	100	0	50	52	0	0	48	1.00
1211503--1211528	13	2.0	13	100	0	52	76	0	15	7	0.99
1211737--1211795	28	2.1	28	84	6	75	49	1	0	49	1.11
1211864--1211894	6	5.2	6	100	0	62	64	19	0	16	1.29
1212360--1212405	23	2.0	22	83	4	56	52	0	0	47	1.00
1214303--1214341	17	2.2	18	86	4	53	23	5	5	66	1.32
1214523--1214587	32	2.0	33	87	3	96	41	4	6	47	1.49
1215826--1215867	12	3.3	13	84	12	52	23	0	0	76	0.79
1215832--1215873	22	2.0	21	90	4	66	28	0	0	71	0.86
1215901--1215941	3	13.7	3	100	0	82	68	0	0	31	0.90
1217537--1217575	2	19.5	2	94	0	69	48	2	0	48	1.15
1219835--1219898	20	3.3	19	74	22	60	45	3	10	40	1.55
1220035--1220073	20	2.0	20	94	0	69	41	10	0	48	1.37
1237173--1237244	22	3.3	23	70	23	66	56	0	0	43	0.99
1237240--1237300	23	2.6	24	76	10	63	40	1	1	55	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1237254--1237300	25	2.0	25	84	12	64	40	2	0	57	1.11
1237990--1238035	24	1.9	24	86	8	67	36	0	2	60	1.09
1237991--1238111	27	4.4	28	73	19	87	33	2	3	60	1.26
1240359--1240398	18	2.2	19	86	13	57	27	5	0	67	1.11
1241278--1241340	23	2.8	24	81	11	64	66	1	1	30	1.10
1241311--1241364	14	3.9	14	75	18	58	68	1	0	29	1.00
1241308--1241396	28	3.1	27	79	19	101	71	2	0	25	0.97
1241958--1242048	18	4.7	20	70	27	72	68	3	0	28	1.06
1241978--1242039	16	3.5	16	73	26	54	69	4	0	25	1.08
1241954--1242043	38	2.4	38	85	12	132	68	3	0	27	1.05
1242072--1242113	22	2.0	21	85	4	57	42	2	0	54	1.13
1242725--1242751	3	9.0	3	100	0	54	66	0	0	33	0.92
1243135--1243181	3	15.7	3	100	0	94	68	0	0	31	0.90
1243647--1243692	16	2.9	16	81	12	60	52	0	0	47	1.00
1243688--1243718	16	1.9	16	93	0	53	67	0	0	32	0.91
1244113--1244147	3	11.7	3	100	0	70	65	0	0	34	0.93
1244227--1244258	15	2.2	15	94	5	57	31	0	0	68	0.90
1245703--1245758	29	2.0	28	83	16	71	48	1	0	50	1.11
1246210--1246247	20	1.9	20	89	10	60	31	2	2	63	1.22
1246300--1246349	26	2.0	25	84	4	64	38	4	4	54	1.38
1246448--1246483	16	2.3	16	90	4	56	27	0	19	52	1.46
1247531--1247638	26	3.9	28	67	17	64	32	0	1	65	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1247530--1247597	21	3.2	21	76	14	59	35	0	1	63	1.04
1247538--1247670	20	6.4	20	74	14	85	33	0	1	64	1.08
1248142--1248290	49	3.0	49	98	1	289	43	2	24	30	1.65
1248142--1248290	50	3.0	50	99	1	291	43	2	24	30	1.65
1251007--1251095	44	2.0	44	100	0	178	26	17	16	38	1.92
1255043--1255166	35	3.4	34	78	16	99	36	0	0	62	1.01
1255043--1255140	21	4.3	22	76	17	85	38	0	0	61	0.96
1255082--1255141	32	1.9	31	89	3	93	38	0	0	61	0.96
1265544--1265573	2	15.0	2	100	0	60	50	0	0	50	1.00
1265756--1265788	13	2.4	14	85	10	50	81	0	0	18	0.68

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28