genome.fa.s8.2.7.7.80.10.50.1000.8.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: Scaffold8
Parameters: 2 7 7 80 10 50 1000
Length:  6381039

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  8  of  33  ( 3942 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)
1002715--1002741	2	13.5	2	100	0	54	48	0	0	51	1.00
1005808--1005866	22	2.7	23	77	12	61	44	3	3	49	1.36
1005824--1005866	23	1.9	23	90	4	70	41	4	2	51	1.35
1005820--1005880	22	2.7	23	80	10	63	42	3	6	47	1.45
1006973--1007084	39	2.8	39	72	6	100	38	14	10	36	1.81
1007571--1007615	23	2.0	23	83	12	58	51	0	2	46	1.13
1012019--1012051	16	2.0	17	94	5	59	48	0	0	51	1.00
1012023--1012126	53	2.0	53	96	0	190	43	9	3	43	1.55
1012234--1012338	52	2.0	52	96	0	192	35	23	20	20	1.96
1013360--1013387	14	2.0	14	100	0	56	14	14	0	71	1.15
1013384--1013434	6	9.2	6	79	16	56	31	1	15	50	1.55
1013379--1013432	27	2.0	27	96	0	99	31	3	12	51	1.57
1015653--1015755	51	2.0	51	94	0	179	37	13	13	34	1.84
1017023--1017177	77	2.0	77	96	0	283	21	24	7	46	1.76
1017347--1017503	77	2.0	77	93	2	271	41	14	14	29	1.85
1019946--1019980	13	2.7	13	90	0	52	82	2	2	11	0.88
1019910--1019995	8	10.1	8	75	16	50	76	3	2	17	1.03
1019909--1019997	18	4.9	17	70	26	58	75	3	2	19	1.05
1022093--1022135	19	2.2	20	87	4	61	27	4	0	67	1.10
1026075--1026106	2	17.0	2	87	12	50	50	0	0	50	1.00
1027924--1027969	21	2.1	22	84	4	58	34	19	26	19	1.96
1028868--1028892	10	2.5	10	100	0	50	60	8	24	8	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1029825--1029903	27	2.9	27	84	1	95	25	8	20	45	1.79
1029830--1029920	27	3.4	28	80	7	84	26	8	19	45	1.80
1030658--1030700	21	2.0	21	95	0	77	20	34	4	39	1.74
1031343--1031376	2	17.0	2	100	0	68	50	0	0	50	1.00
1033764--1033831	32	2.1	32	86	0	91	36	10	10	42	1.73
1033935--1033973	20	1.9	21	85	15	55	38	2	5	53	1.37
1034687--1034718	15	2.1	15	94	0	55	46	3	6	43	1.44
1035425--1035458	2	17.5	2	87	6	52	50	0	2	47	1.16
1041203--1041292	27	3.4	27	76	19	91	27	7	20	44	1.78
1041203--1041292	28	3.4	26	78	17	89	27	7	20	44	1.78
1044405--1044469	27	2.4	28	85	15	91	24	7	23	44	1.79
1046661--1046768	39	2.8	39	73	4	103	38	12	12	36	1.81
1052114--1052162	23	2.1	23	96	0	89	59	6	4	30	1.41
1052191--1052223	17	1.9	17	93	0	57	39	9	6	45	1.61
1052959--1053112	55	2.8	55	91	0	245	31	27	17	23	1.97
1053066--1053229	81	2.0	81	100	0	328	34	26	19	19	1.96
1053011--1053275	130	2.0	134	89	6	407	33	26	19	20	1.96
1053155--1053301	49	3.0	48	95	2	258	35	27	19	17	1.94
1053339--1053364	12	2.2	12	100	0	52	57	7	7	26	1.54
1054730--1054851	61	2.0	61	93	0	208	36	6	5	50	1.52
1060234--1060289	28	2.0	28	82	0	67	73	0	3	23	0.99
1065682--1065940	50	5.2	50	91	4	416	30	19	21	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1065682--1065940	100	2.6	100	96	1	475	30	19	21	28	1.98
1070334--1070592	50	5.2	50	90	4	407	30	18	20	29	1.97
1070334--1070592	100	2.6	100	95	1	448	30	18	20	29	1.97
1072031--1072068	2	19.0	2	94	0	67	50	2	0	47	1.15
1072114--1072175	33	1.9	31	83	6	79	30	3	14	51	1.58
1072385--1072430	24	1.9	25	83	16	62	54	4	6	34	1.46
1080577--1080601	7	3.6	7	100	0	50	44	0	0	56	0.99
1081195--1081234	17	2.3	17	87	12	55	50	10	0	40	1.36
1082637--1082678	19	2.1	19	83	16	50	61	0	2	35	1.09
1082656--1082713	16	3.6	16	79	9	64	58	0	0	41	0.98
1087527--1087688	76	2.1	76	98	0	315	29	17	27	25	1.97
1087653--1087748	48	2.0	48	100	0	192	31	18	27	22	1.97
1087812--1087998	62	3.0	62	64	20	163	29	14	25	30	1.95
1087766--1087998	124	1.9	124	100	0	466	31	15	24	28	1.96
1089095--1089148	27	2.0	27	92	0	90	33	3	11	51	1.55
1092426--1092528	51	2.0	51	90	0	161	36	12	14	35	1.84
1093762--1093916	77	2.0	77	96	0	283	22	25	7	45	1.77
1094086--1094242	77	2.0	77	95	2	280	41	14	14	30	1.84
1096795--1096821	14	1.9	14	100	0	54	74	0	0	25	0.83
1097087--1097117	2	15.5	2	93	0	53	48	0	3	48	1.17
1098545--1098803	50	5.2	50	94	0	439	28	21	19	30	1.98
1103970--1104025	21	2.7	21	97	0	103	35	3	35	25	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1106966--1106994	2	14.5	2	100	0	58	51	48	0	0	1.00
1107811--1107871	18	3.7	17	71	20	58	49	0	3	47	1.18
1107798--1107874	32	2.4	32	89	4	120	50	0	3	45	1.20
1108391--1108443	20	2.5	21	81	6	63	54	3	1	39	1.29
1108420--1108458	19	2.1	19	90	0	60	51	2	2	43	1.29
1108878--1108913	17	2.1	18	89	5	56	33	0	5	61	1.19
1109447--1109493	21	2.1	24	84	11	64	2	10	4	82	0.88
1109445--1109493	24	2.0	25	84	4	64	2	10	4	83	0.85
1111726--1111848	34	3.7	33	80	6	158	26	6	23	43	1.78
1111729--1111863	68	2.0	67	86	2	191	26	7	22	42	1.80
1116308--1116492	34	5.5	34	86	2	248	23	7	27	41	1.81
1116308--1116492	68	2.7	68	91	0	282	23	7	27	41	1.81
1116308--1116492	102	1.8	101	88	5	284	23	7	27	41	1.81
1118756--1118846	45	2.0	45	100	0	182	28	10	28	31	1.91
1121077--1121120	22	2.0	22	100	0	88	36	4	22	36	1.75
1122396--1122448	20	2.8	20	77	5	56	33	0	0	66	0.92
1122397--1122448	19	2.9	18	73	15	54	34	0	0	65	0.93
1123748--1123807	27	2.2	27	84	3	75	26	6	13	53	1.64
1128148--1128220	27	2.7	26	89	4	101	23	9	19	47	1.78
1131332--1131452	40	2.8	44	73	17	119	50	0	0	47	1.12
1132113--1132170	20	2.8	20	76	20	57	41	0	1	56	1.09
1132145--1132189	21	2.0	23	84	16	60	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1132149--1132220	33	2.4	30	76	17	76	51	0	1	47	1.09
1132209--1132249	18	2.3	18	86	0	64	51	0	7	41	1.30
1133964--1133998	6	5.7	6	93	6	61	2	48	0	48	1.16
1135424--1135474	2	25.5	2	100	0	102	49	0	0	50	1.00
1137776--1138214	217	2.0	217	95	0	788	35	15	16	31	1.91
1140995--1141055	13	4.4	14	82	10	72	42	1	0	55	1.09
1141003--1141041	15	2.8	13	85	11	51	46	2	0	51	1.14
1141018--1141064	23	2.0	23	83	0	58	48	2	0	48	1.13
1142119--1142149	13	2.4	13	100	0	62	38	0	0	61	0.96
1143282--1143337	23	2.5	22	76	2	58	58	0	0	41	0.98
1143301--1143356	16	3.5	16	90	0	94	51	0	0	48	1.00
1143325--1143377	26	2.0	26	92	0	88	52	0	0	47	1.00
1143304--1143376	16	4.9	16	71	21	70	53	0	0	46	1.00
1143331--1143386	26	2.2	26	80	6	60	55	3	0	41	1.17
1144196--1144285	3	29.7	3	90	2	144	65	2	0	32	1.05
1150789--1150818	6	5.0	6	100	0	60	66	0	0	33	0.92
1151356--1151381	4	6.5	4	100	0	52	0	23	0	76	0.78
1156096--1156130	18	1.9	18	88	0	52	68	11	11	8	1.39
1157414--1157455	15	2.9	15	86	10	52	42	0	0	57	0.99
1157661--1157716	29	1.9	29	88	0	85	66	0	0	33	0.92
1157674--1157716	15	3.0	14	76	6	50	65	0	0	34	0.93
1158777--1158827	22	2.4	21	69	15	50	54	1	0	43	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1165742--1165775	16	2.1	16	88	0	50	47	0	17	35	1.48
1165819--1165863	16	2.6	18	82	6	58	66	0	4	28	1.11
1166737--1166794	2	29.0	2	82	0	71	43	5	3	48	1.42
1168269--1168320	20	2.6	21	80	14	58	42	0	0	57	0.98
1177413--1177438	1	26.0	1	100	0	52	100	0	0	0	0.00
1180056--1180080	11	2.3	11	100	0	50	64	8	0	28	1.22
1184888--1184919	16	2.0	16	93	0	55	65	0	0	34	0.93
1184888--1184951	17	3.6	17	79	8	58	56	0	0	43	0.99
1184877--1184922	22	2.1	22	84	8	58	65	0	0	34	0.93
1185713--1185795	40	2.1	40	82	10	100	33	2	1	62	1.16

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