genome.fa.s71.2.7.7.80.10.50.1000.7.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: Scaffold71
Parameters: 2 7 7 80 10 50 1000
Length:  5741892

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   29   30   31   32   
          33   

This is table  7  of  33  ( 3929 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)
1102168--1102508	142	2.4	143	84	6	433	32	0	12	55	1.41
1102393--1102450	20	2.9	19	75	7	53	29	0	10	60	1.30
1105176--1105215	18	2.2	19	86	4	55	42	0	0	57	0.98
1115414--1115447	8	4.1	8	85	7	50	11	2	0	85	0.71
1115413--1115447	17	2.1	17	94	0	61	11	2	0	85	0.69
1116045--1116080	16	2.2	16	90	0	54	36	0	0	63	0.94
1116045--1116086	16	2.6	16	78	14	50	38	0	0	61	0.96
1116283--1116561	139	2.0	139	88	2	409	37	5	19	37	1.74
1128583--1128624	16	2.6	16	88	3	57	78	0	2	19	0.86
1128700--1128813	57	2.0	57	92	0	192	20	20	18	41	1.91
1128800--1128837	17	2.2	18	85	4	51	18	23	13	44	1.85
1129172--1129220	20	2.5	19	77	9	53	55	16	18	10	1.69
1129225--1129281	27	2.2	25	84	6	69	40	14	26	19	1.89
1129473--1129516	18	2.4	19	81	7	56	72	4	15	6	1.22
1134846--1134879	17	2.0	17	94	0	59	32	0	0	67	0.91
1135589--1135708	62	1.9	64	80	13	142	47	0	0	50	1.12
1135749--1135832	34	2.5	34	81	9	93	46	2	0	51	1.14
1136770--1136833	19	3.3	19	76	8	67	42	0	0	57	0.98
1136786--1136843	19	3.1	19	73	14	57	36	0	0	63	0.94
1136749--1136840	35	2.5	39	84	10	115	39	0	0	60	0.97
1140038--1140187	78	1.9	78	80	2	176	35	17	14	32	1.90
1140119--1140306	78	2.4	77	77	7	191	34	13	16	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1151925--1151969	2	22.5	2	100	0	90	51	0	48	0	1.00
1153135--1153202	21	3.2	21	81	4	75	58	0	2	38	1.13
1153237--1153346	37	3.2	34	80	13	113	55	0	0	44	0.99
1153307--1153378	28	2.5	28	78	17	76	52	1	1	44	1.18
1153719--1153791	29	2.6	30	83	10	93	38	0	1	60	1.06
1153833--1153865	2	16.5	2	87	12	50	51	3	0	45	1.16
1154017--1154103	43	2.0	43	84	8	115	47	8	2	42	1.45
1154039--1154103	20	2.9	24	73	19	77	49	6	0	44	1.27
1154376--1154423	18	2.8	17	78	6	53	68	0	4	27	1.07
1161053--1161102	20	2.5	20	87	6	66	42	14	14	30	1.84
1161954--1162136	49	3.8	48	80	4	215	32	18	24	25	1.97
1161924--1162143	97	2.2	100	86	3	302	30	18	25	25	1.98
1162229--1162389	48	3.6	47	72	15	142	29	20	24	26	1.99
1162106--1162426	87	3.7	86	89	2	466	28	19	23	28	1.98
1162277--1162436	39	3.9	39	74	15	160	26	18	26	28	1.98
1162106--1162426	172	1.9	172	89	2	500	28	19	23	28	1.98
1162440--1162533	49	1.9	49	82	0	116	31	15	24	27	1.96
1162535--1162940	32	12.7	33	74	13	108	33	13	30	22	1.92
1162597--1162648	26	2.0	26	88	0	77	32	11	28	26	1.91
1162691--1163187	65	7.9	63	83	7	498	30	15	29	24	1.96
1162691--1163146	32	14.4	31	82	8	494	31	15	29	23	1.95
1163138--1163217	29	2.8	29	88	0	124	17	16	33	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1163566--1163647	37	2.2	37	97	0	155	43	14	15	25	1.85
1164670--1164731	27	2.2	28	86	8	83	0	8	11	80	0.90
1164685--1164727	16	2.7	16	89	7	61	0	9	6	83	0.80
1164670--1164716	13	3.5	13	75	18	51	0	8	10	80	0.89
1164670--1164727	28	2.2	27	82	11	68	0	8	10	81	0.89
1173497--1173523	13	2.1	13	100	0	54	29	14	14	40	1.86
1173478--1173542	32	2.0	32	90	3	103	26	16	16	40	1.90
1173507--1173564	19	2.9	19	87	5	80	32	15	17	34	1.91
1173594--1173631	20	1.9	20	94	0	67	31	10	18	39	1.85
1173614--1173639	13	2.0	13	100	0	52	30	15	15	38	1.88
1173593--1173661	33	2.1	32	89	10	104	34	11	18	34	1.87
1182076--1182106	13	2.5	13	94	5	55	41	12	16	29	1.85
1182061--1182125	33	2.0	33	90	0	103	38	12	13	35	1.83
1185897--1186025	52	2.5	52	96	0	231	29	18	17	34	1.94
1186034--1186058	13	1.9	13	100	0	50	36	16	16	32	1.90
1186115--1186144	15	2.0	15	100	0	60	33	13	13	40	1.83
1202622--1202696	20	3.8	20	87	0	105	42	14	12	30	1.82
1202713--1202775	31	2.0	31	87	0	90	39	11	14	34	1.81
1208124--1208157	2	17.5	2	93	6	61	50	0	0	50	1.00
1208375--1208439	33	2.0	31	85	5	85	55	0	1	43	1.09
1209734--1209767	18	1.9	17	88	5	50	35	2	0	61	1.11
1210697--1210746	13	3.6	13	80	15	55	44	0	2	54	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1210936--1210960	1	25.0	1	100	0	50	100	0	0	0	0.00
1211486--1211576	30	3.3	26	71	14	76	56	0	4	39	1.20
1211521--1211579	30	2.0	30	93	0	100	55	0	5	38	1.22
1211566--1211599	12	2.6	14	86	13	54	79	0	0	20	0.73
1211536--1211627	42	2.1	45	84	8	118	65	1	2	31	1.12
1211518--1211655	72	1.9	71	83	5	179	59	0	2	37	1.15
1211583--1211633	24	2.0	24	82	14	59	62	1	0	35	1.06
1211578--1211681	31	3.4	31	72	12	81	59	1	0	38	1.08
1211590--1211701	29	3.8	28	74	7	80	54	2	0	41	1.20
1211748--1211840	32	3.0	31	79	16	102	59	1	1	38	1.12
1211748--1211840	31	3.0	30	80	16	100	59	1	1	38	1.12
1211802--1211874	15	4.6	16	68	15	53	60	2	1	35	1.20
1211785--1211876	32	2.9	32	83	13	102	57	2	1	39	1.18
1211585--1211902	168	1.9	162	83	11	405	58	1	3	36	1.24
1211780--1211888	19	6.4	17	65	23	50	58	1	0	38	1.15
1213507--1213549	22	2.0	21	82	13	52	34	0	11	53	1.37
1213926--1213965	21	1.9	20	85	10	53	67	2	0	30	1.04
1214281--1214337	20	2.8	20	82	17	73	59	0	0	40	0.97
1214571--1214633	26	2.3	27	75	5	65	42	1	1	53	1.19
1215350--1215396	18	2.6	18	80	9	51	36	0	2	61	1.08
1215740--1215807	19	3.7	19	72	14	63	63	1	0	35	1.04
1215733--1215781	20	2.5	19	80	12	55	61	2	0	36	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1215747--1215818	35	2.0	38	86	8	105	61	2	0	36	1.11
1215738--1215818	37	2.2	38	84	6	103	60	2	0	37	1.10
1216813--1216847	6	6.0	6	90	3	54	17	37	31	14	1.89
1216817--1216851	12	2.9	12	95	0	61	17	40	28	14	1.88
1221910--1221956	18	2.7	18	77	6	53	27	2	2	68	1.13
1221905--1221955	15	3.2	15	73	21	50	25	1	1	70	1.08
1227700--1227778	24	3.2	24	79	10	104	20	11	34	34	1.88
1227679--1227852	87	2.0	87	84	2	224	21	11	31	35	1.89
1228038--1228155	34	3.5	34	64	15	91	18	18	18	44	1.88
1232707--1232769	24	2.5	26	76	7	67	22	11	33	33	1.89
1232694--1232856	36	4.8	36	69	13	137	25	12	28	33	1.92
1232707--1232773	27	2.7	24	79	6	71	20	10	34	34	1.87
1232694--1232820	63	2.0	63	83	3	157	25	11	29	33	1.91
1234844--1234884	21	2.0	20	85	4	55	39	31	9	19	1.84
1239742--1239773	3	10.7	3	100	0	64	34	0	0	65	0.93
1241304--1241332	2	14.5	2	100	0	58	0	48	0	51	1.00
1247666--1247707	14	2.8	16	79	17	54	52	0	0	47	1.00
1248726--1248770	16	2.8	16	75	0	54	55	8	2	33	1.43
1250808--1250858	22	2.5	20	75	15	50	49	0	3	47	1.20
1250793--1250927	71	1.9	72	82	1	173	47	5	6	40	1.54
1251221--1251338	16	7.3	16	71	12	71	60	14	0	24	1.40
1251680--1251709	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1251779--1251820	17	2.4	19	76	19	54	57	4	0	38	1.20
1252779--1252814	16	2.2	17	90	5	56	63	0	0	36	0.94
1253335--1253373	13	2.7	14	81	18	53	35	2	0	61	1.10
1253734--1253778	19	2.3	21	88	11	69	33	0	4	62	1.15
1253746--1253816	13	5.0	13	72	21	54	36	1	1	60	1.14
1253745--1253817	30	2.5	29	81	16	89	36	1	1	60	1.14
1253759--1253812	15	3.6	16	73	12	51	35	1	1	61	1.18
1256134--1256344	104	2.0	104	100	0	422	46	13	11	28	1.77
1258748--1258797	26	2.0	25	81	14	59	68	8	14	10	1.40
1259171--1259216	2	24.0	2	86	8	69	50	2	0	47	1.13

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   29   30   31   32   
          33