genome.fa.s196.2.7.7.80.10.50.1000.8.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: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Length:  7488280

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   34   35   36   37   38   39   40   41   42   43   44   45   46   47   

This is table  8  of  47  ( 5587 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)
1042493--1042559	33	2.0	33	88	0	98	40	13	11	34	1.81
1042597--1042638	21	2.0	21	90	0	66	35	14	14	35	1.86
1043614--1043671	24	2.7	21	82	17	82	43	10	15	31	1.80
1043615--1043664	24	2.1	24	100	0	100	42	8	16	34	1.77
1043566--1043714	74	2.0	73	89	3	228	41	12	17	28	1.85
1044808--1044901	37	2.7	34	79	9	107	30	2	28	38	1.69
1044808--1044913	34	3.0	34	78	8	122	31	1	28	38	1.68
1051297--1051327	2	15.5	2	100	0	62	48	0	0	51	1.00
1051831--1051895	2	32.5	2	100	0	130	49	0	0	50	1.00
1053744--1053776	5	6.6	5	100	0	66	78	0	0	21	0.75
1056263--1056293	3	10.0	3	93	6	53	64	0	35	0	0.94
1056492--1056522	3	10.3	3	92	0	53	67	3	0	29	1.06
1057346--1057379	17	2.0	17	88	0	50	35	0	0	64	0.94
1057662--1057704	20	2.1	21	86	4	61	53	6	0	39	1.28
1061263--1061297	17	2.0	17	88	5	52	57	0	0	42	0.99
1061271--1061309	17	2.3	17	86	8	53	56	0	0	43	0.99
1061447--1061477	12	2.5	13	94	5	55	35	0	0	64	0.94
1061446--1061479	13	2.6	13	86	13	52	35	0	0	64	0.94
1061774--1061801	13	2.2	13	100	0	56	50	7	0	42	1.30
1061878--1061928	23	2.2	23	82	6	68	29	0	9	60	1.28
1062015--1062039	10	2.5	10	100	0	50	24	0	0	76	0.80
1062047--1063414	72	18.7	72	79	7	1229	30	2	13	53	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1062047--1063416	145	9.4	144	80	7	1275	30	2	13	53	1.53
1066023--1066296	74	3.8	73	83	3	349	55	11	2	31	1.47
1066023--1066296	73	3.8	73	83	3	340	55	11	2	31	1.47
1066023--1066296	147	1.9	143	87	4	406	55	11	2	31	1.47
1066315--1066508	73	2.7	72	86	4	264	56	11	0	32	1.35
1066405--1066454	25	2.0	26	84	7	68	66	6	0	28	1.15
1066315--1066577	73	3.7	70	78	9	219	55	8	0	34	1.34
1066315--1066594	142	1.9	146	82	4	345	55	9	0	34	1.35
1066676--1066718	13	3.2	13	93	3	68	53	0	0	46	1.00
1066855--1067027	75	2.3	76	85	7	219	44	1	0	53	1.15
1067171--1067197	3	9.0	3	100	0	54	33	0	0	66	0.92
1068632--1068673	2	21.0	2	100	0	84	50	0	0	50	1.00
1069420--1069490	5	13.4	5	72	11	52	43	0	1	54	1.08
1069435--1069478	17	2.7	16	86	6	61	43	0	0	56	0.99
1069420--1069506	39	2.3	37	82	7	95	47	0	1	51	1.08
1069481--1069522	13	3.3	13	78	15	52	57	0	0	42	0.99
1069475--1069525	22	2.3	22	80	6	59	54	0	0	45	0.99
1069808--1069845	17	2.2	18	85	4	51	63	0	0	36	0.95
1070161--1070188	5	5.6	5	100	0	56	39	0	0	60	0.97
1071033--1071084	20	2.4	21	81	9	61	59	0	0	40	0.97
1072167--1072221	25	2.3	24	84	6	67	7	10	3	78	1.08
1072185--1072222	20	2.0	20	85	15	53	7	7	0	84	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1072304--1072328	2	12.5	2	100	0	50	52	0	0	48	1.00
1077943--1077985	16	2.6	17	92	7	79	62	0	0	37	0.95
1077943--1078003	16	3.8	15	89	6	59	59	1	0	39	1.08
1079628--1079673	20	2.2	21	85	14	69	67	2	0	30	1.03
1081069--1081094	4	6.5	4	100	0	52	23	0	0	76	0.78
1081584--1081609	2	13.0	2	100	0	52	50	0	0	50	1.00
1084634--1084673	21	2.0	21	85	5	55	45	0	10	45	1.37
1084812--1084905	40	2.4	39	83	1	116	44	0	1	54	1.07
1084831--1084941	16	7.7	15	70	22	78	45	0	0	54	0.99
1084841--1084893	23	2.3	23	80	6	54	45	0	0	54	0.99
1084849--1084902	23	2.2	24	83	9	65	42	0	0	57	0.98
1084834--1084921	39	2.2	38	86	9	115	42	0	0	57	0.98
1084874--1084941	31	2.2	31	85	12	88	45	0	0	54	0.99
1085447--1085495	12	4.2	12	84	10	50	40	4	4	51	1.40
1085464--1085495	2	16.0	2	93	0	55	46	0	3	50	1.17
1087583--1087614	11	2.9	11	90	0	55	43	0	0	56	0.99
1091590--1091622	13	2.6	13	90	4	50	24	0	0	75	0.80
1097061--1097100	2	20.0	2	100	0	80	50	0	0	50	1.00
1097635--1097684	20	2.5	19	83	9	55	40	0	0	60	0.97
1097644--1097689	19	2.5	19	83	13	60	43	0	0	56	0.99
1097661--1097729	30	2.2	31	77	10	79	50	0	0	49	1.00
1098341--1098365	11	2.3	11	100	0	50	72	0	0	28	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1098547--1098722	87	2.0	88	92	2	291	46	9	6	38	1.62
1099111--1099152	22	1.9	22	90	0	66	26	16	9	47	1.77
1100212--1100240	2	14.5	2	100	0	58	48	0	0	51	1.00
1101161--1101202	12	3.4	12	75	18	50	45	0	0	54	0.99
1107838--1107953	27	4.0	29	77	12	103	44	0	0	54	1.06
1107875--1107970	18	5.9	17	68	26	66	42	0	1	56	1.06
1112353--1112389	2	18.5	2	100	0	74	48	0	0	51	1.00
1112695--1112735	20	2.0	20	85	0	55	46	2	0	51	1.14
1116791--1116873	29	3.0	27	81	8	85	37	2	1	59	1.19
1116789--1116874	28	3.1	28	80	8	86	37	2	1	59	1.18
1120688--1120765	38	2.1	38	100	0	156	23	12	26	37	1.91
1120925--1120975	23	2.2	23	82	10	59	47	13	15	23	1.82
1122357--1122400	19	2.3	19	85	14	56	47	2	0	50	1.13
1122864--1122936	32	2.2	33	83	9	105	46	2	0	50	1.15
1122847--1122933	20	4.7	20	70	21	64	47	3	0	49	1.18
1123349--1123378	3	10.0	3	92	0	51	63	0	36	0	0.95
1128308--1128431	33	3.8	33	81	6	144	33	12	29	24	1.92
1128306--1128431	66	1.9	66	87	6	184	34	13	28	23	1.93
1131711--1131762	23	2.5	20	84	9	59	48	1	3	46	1.31
1131926--1131974	3	16.3	3	100	0	98	67	0	0	32	0.91
1134515--1134578	2	32.0	2	96	0	119	48	1	0	50	1.10
1135153--1135186	14	2.5	13	86	9	50	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1135389--1135498	53	2.1	53	98	0	211	28	10	12	48	1.75
1142207--1142239	2	16.5	2	93	0	57	48	0	0	51	1.00
1147339--1147374	17	2.1	18	89	5	56	47	0	0	52	1.00
1147336--1147375	19	2.1	19	86	9	55	50	0	0	50	1.00
1152284--1152348	22	2.9	22	81	9	69	35	0	0	64	0.94
1152623--1152659	15	2.4	16	90	4	58	67	0	0	32	0.91
1153011--1153085	14	5.2	15	76	11	59	48	1	0	50	1.09
1153056--1153085	16	1.9	16	93	6	53	53	0	0	46	1.00
1154581--1154607	2	13.5	2	100	0	54	51	0	0	48	1.00
1155929--1155975	14	3.2	14	79	14	51	42	2	0	55	1.12
1155929--1155986	30	2.0	29	83	16	75	44	1	0	53	1.10
1156100--1156153	16	3.7	15	74	18	51	57	1	0	40	1.09
1156797--1156828	2	16.0	2	100	0	64	50	0	50	0	1.00
1158165--1158194	15	2.0	15	100	0	60	33	46	13	6	1.69
1161819--1161896	26	3.2	25	84	10	90	41	0	0	58	0.98
1161823--1161879	19	2.9	19	81	5	60	36	0	0	63	0.95
1166601--1166661	15	3.7	16	76	10	61	65	0	0	34	0.93
1167125--1167168	18	2.6	16	80	13	52	40	2	0	56	1.11
1168617--1168651	4	8.8	4	100	0	70	74	0	0	25	0.82
1169110--1169143	17	1.9	17	88	5	50	41	0	2	55	1.15
1169109--1169387	136	2.1	136	97	0	531	35	6	5	53	1.47
1170412--1170442	13	2.5	12	90	10	53	19	0	6	74	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1170954--1170987	2	17.5	2	87	6	52	50	0	2	47	1.16
1171113--1171147	15	2.3	15	85	0	52	54	0	0	45	0.99
1171105--1171163	14	4.3	14	75	8	50	55	0	0	44	0.99
1171111--1171160	22	2.4	21	80	9	66	60	0	0	40	0.97
1171682--1171728	24	2.0	25	83	8	62	72	0	10	17	1.12
1173458--1173506	18	2.7	18	79	17	57	67	0	0	32	0.91
1178441--1178478	20	1.9	20	88	0	58	28	26	0	44	1.54
1182424--1182468	16	3.3	13	80	19	56	73	0	2	24	0.95
1186809--1186974	88	1.9	86	81	7	201	37	12	6	43	1.67
1187071--1187228	39	4.0	38	74	8	111	39	12	3	44	1.59

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   34   35   36   37   38   39   40   41   42   43   44   45   46   47