genome.fa.s6.2.7.7.80.10.50.1000.3.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: chr6
Parameters: 2 7 7 80 10 50 1000
Length:  26303135

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   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   

This is table  3  of  66  ( 7821 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)
967595--967640	23	2.0	23	83	8	58	73	2	6	17	1.14
968614--968643	15	2.1	15	93	6	53	13	6	13	66	1.43
977925--978211	38	7.6	37	87	5	355	22	16	20	41	1.90
977925--978201	75	3.6	74	87	6	360	23	15	20	40	1.90
981977--982041	16	3.8	16	85	8	76	75	3	1	20	1.02
982125--982160	19	1.9	19	88	5	56	61	0	19	19	1.35
983514--983592	35	2.3	35	82	6	99	64	7	1	26	1.28
995429--995481	26	2.1	26	85	3	72	37	13	13	35	1.83
1008245--1008271	14	1.9	14	100	0	54	22	37	14	25	1.93
1019066--1019102	19	1.9	19	88	0	56	43	29	0	27	1.55
1023840--1023885	25	1.9	23	82	8	56	71	0	4	23	1.03
1027217--1027250	16	2.1	16	94	0	59	32	0	0	67	0.91
1029408--1029434	2	13.5	2	100	0	54	0	51	0	48	1.00
1036390--1036447	28	2.1	28	86	0	80	31	24	13	31	1.94
1044809--1044916	55	2.0	55	84	0	144	27	6	10	55	1.58
1045236--1045268	2	16.5	2	93	0	57	45	0	0	54	0.99
1045678--1045747	33	2.1	33	91	0	113	41	5	12	40	1.67
1048740--1048786	16	2.8	17	74	6	51	46	0	0	53	1.00
1053152--1053213	10	5.5	11	76	19	58	80	0	3	16	0.83
1053151--1053211	20	2.9	20	88	11	79	78	0	3	18	0.88
1054454--1054514	31	2.0	31	83	6	79	68	3	1	26	1.14
1054473--1054519	23	2.0	24	87	4	69	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1054638--1054679	12	3.4	12	81	18	59	80	2	4	11	0.95
1054650--1054716	15	4.5	15	72	12	57	76	1	2	19	1.00
1054637--1054719	30	3.0	26	80	17	82	77	1	3	18	0.99
1067245--1067305	25	2.4	25	78	8	70	44	4	0	50	1.23
1067284--1067330	15	2.9	16	81	9	60	53	0	0	46	1.00
1075424--1075485	32	1.9	32	90	0	97	62	3	11	22	1.42
1090777--1090851	32	2.2	34	79	16	91	54	4	13	28	1.56
1097390--1097440	21	2.4	21	81	15	61	39	1	1	56	1.22
1097899--1097928	7	4.1	7	95	4	51	0	16	0	83	0.65
1097901--1097976	4	19.2	4	72	22	63	1	26	0	72	0.93
1097901--1097974	18	3.8	18	72	13	58	1	25	0	72	0.92
1097891--1097976	31	2.8	31	74	10	88	1	27	0	70	0.94
1097995--1098044	17	2.9	18	91	5	77	2	24	0	74	0.93
1098009--1098056	20	2.3	22	82	7	55	4	22	0	72	1.01
1098072--1098119	13	3.4	14	81	15	55	0	35	0	64	0.94
1098083--1098123	21	2.0	20	90	4	64	0	39	0	60	0.96
1098498--1098588	8	10.8	8	73	14	67	18	2	0	79	0.84
1098505--1098590	12	7.4	11	75	21	61	19	1	0	79	0.80
1098500--1098590	24	3.8	24	80	17	84	18	2	0	79	0.84
1098498--1098589	10	9.7	9	75	12	69	18	2	0	79	0.84
1106263--1106312	25	2.0	26	84	7	68	48	0	2	50	1.12
1106517--1106554	3	12.7	3	100	0	76	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1116988--1117031	15	3.1	15	72	27	51	61	2	0	36	1.09
1117520--1117581	33	1.9	31	87	6	88	43	0	1	54	1.09
1118435--1118517	38	2.2	39	84	2	105	40	14	3	40	1.63
1121012--1121057	21	2.2	21	92	0	74	19	10	23	45	1.82
1121003--1121081	22	3.6	22	81	6	81	22	11	24	41	1.86
1121092--1121174	23	3.7	23	79	4	80	37	28	9	24	1.87
1121153--1121196	23	1.9	23	85	0	61	43	31	4	20	1.72
1121205--1121246	21	2.0	21	85	0	57	38	23	16	21	1.93
1121428--1121462	10	3.4	10	88	4	52	60	14	0	25	1.35
1121428--1121472	19	2.2	21	84	7	58	57	15	2	24	1.49
1121426--1121473	20	2.3	21	79	10	55	58	14	2	25	1.48
1127603--1127643	21	1.9	21	90	5	64	48	4	9	36	1.58
1136376--1136554	51	3.5	51	92	0	304	22	24	20	32	1.97
1136552--1136653	25	4.2	25	90	5	147	25	24	11	38	1.89
1136731--1136787	18	3.2	18	92	5	89	24	24	15	35	1.95
1137034--1137288	81	3.2	80	87	6	331	40	7	9	42	1.65
1137621--1137755	28	4.6	28	79	8	126	45	6	14	33	1.71
1137835--1138417	293	2.0	292	98	0	1130	28	24	12	34	1.92
1138967--1139301	36	8.8	40	73	19	286	24	17	18	38	1.93
1138967--1139301	76	4.4	76	90	1	501	24	17	18	38	1.93
1139655--1139859	64	3.2	64	88	1	302	17	17	12	53	1.73
1146991--1147220	51	4.5	51	88	1	345	20	23	21	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1146991--1147220	101	2.3	102	87	0	345	20	23	21	33	1.97
1147218--1147319	25	4.2	25	90	5	147	25	24	11	38	1.89
1147281--1147333	23	2.3	23	96	0	97	18	22	18	39	1.92
1147371--1147427	17	3.3	17	87	4	87	24	29	14	31	1.94
1147371--1147524	18	8.5	18	76	7	125	24	25	18	30	1.97
1147400--1147549	75	2.0	75	93	1	248	27	21	22	28	1.99
1147774--1148016	81	3.0	80	88	3	339	41	7	9	42	1.64
1153626--1153668	2	21.0	2	90	4	68	48	0	4	46	1.22
1154070--1154324	81	3.2	79	85	5	334	42	9	7	40	1.65
1154571--1154627	17	3.3	17	87	2	78	33	12	28	26	1.92
1154725--1154822	49	2.0	49	91	0	160	36	18	20	24	1.94
1157688--1157731	19	2.4	17	85	14	61	75	0	0	25	0.81
1157703--1157731	12	2.5	12	94	5	51	75	0	0	24	0.80
1158394--1158516	59	2.1	59	84	6	160	52	9	33	4	1.53
1160556--1160593	19	2.0	19	89	0	58	31	0	26	42	1.56
1161963--1161987	13	1.9	13	100	0	50	44	0	8	48	1.32
1163742--1163804	2	33.5	2	82	17	82	50	1	0	47	1.10
1182354--1182387	2	17.0	2	87	0	50	47	2	0	50	1.16
1185971--1186017	19	2.4	20	92	3	78	19	0	19	61	1.34
1186257--1186299	22	2.0	22	85	0	59	23	9	23	44	1.82
1186310--1186378	22	3.2	22	83	4	104	24	11	23	40	1.88
1186319--1186386	21	3.2	21	83	4	91	23	10	20	45	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1186318--1186388	22	3.3	22	78	9	92	23	9	19	46	1.80
1186400--1186478	23	3.5	22	81	5	88	32	29	12	25	1.93
1186400--1186489	23	4.0	22	77	8	83	34	30	11	24	1.90
1186460--1186503	23	1.9	23	85	0	61	43	31	4	20	1.72
1186497--1186566	22	3.2	22	69	4	70	47	21	7	24	1.76
1186712--1186757	19	2.3	21	81	7	60	56	23	0	19	1.42
1192152--1192191	3	13.3	3	89	0	62	30	2	2	65	1.19
1192169--1192219	6	8.5	6	93	0	66	33	15	0	50	1.44
1192178--1192212	9	3.9	9	88	0	52	34	20	0	45	1.51
1192970--1193013	22	2.0	23	86	4	63	50	0	2	47	1.13
1192918--1192997	42	1.9	42	87	7	119	53	1	2	42	1.22
1192990--1193044	17	3.4	17	69	23	55	47	0	3	49	1.19
1196465--1196522	27	2.1	27	84	12	75	41	12	13	32	1.82
1196492--1196610	57	2.1	55	80	7	134	42	15	10	31	1.81
1196509--1196626	57	2.1	57	82	6	141	48	13	9	28	1.73
1196633--1196689	28	2.1	28	93	3	98	43	12	7	36	1.69
1197060--1197200	70	2.0	70	100	0	282	27	21	28	22	1.99
1200039--1200076	19	2.0	19	100	0	76	42	31	0	26	1.56
1202994--1203019	13	2.0	13	100	0	52	53	0	7	38	1.30
1203773--1204278	255	2.0	254	98	0	960	44	8	10	37	1.69
1204612--1204690	31	2.5	31	89	0	122	27	10	7	54	1.61
1207181--1207933	203	3.6	201	73	12	571	44	10	9	36	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1212019--1212054	18	1.9	19	88	5	56	61	0	25	13	1.33
1217601--1217853	84	3.0	84	92	0	434	42	7	30	20	1.78
1234035--1234075	22	1.9	21	85	5	55	48	9	2	39	1.49
1243448--1243490	20	2.1	20	83	12	52	39	9	6	44	1.64
1245233--1245279	18	2.6	18	86	3	58	48	4	6	40	1.48
1260730--1260774	22	2.1	22	84	12	58	51	0	0	48	1.00
1275128--1275292	85	1.9	86	88	3	253	24	9	9	56	1.59
1275514--1275592	39	2.0	39	87	0	113	25	22	16	35	1.95
1275962--1276060	50	2.0	50	86	4	137	43	7	16	33	1.75
1276116--1276202	44	2.0	44	93	0	147	27	10	12	49	1.73

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   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66