genome.fa.s4.2.7.7.80.10.50.1000.28.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: chr4
Parameters: 2 7 7 80 10 50 1000
Length:  31929104

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   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   

This is table  28  of  82  ( 9773 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)
9856381--9856423	19	2.3	19	91	0	68	37	9	37	16	1.81
9858710--9858812	38	2.6	39	84	6	129	23	40	16	19	1.91
9866871--9866923	15	3.5	15	78	2	52	33	16	0	49	1.47
9867172--9867334	77	2.1	77	90	0	254	39	14	7	38	1.75
9873393--9873550	54	2.9	54	84	0	208	26	43	10	18	1.83
9874614--9874647	11	3.1	11	91	0	50	67	0	23	8	1.18
9889697--9889812	42	2.8	42	80	3	137	23	18	31	25	1.97
9892258--9892316	29	2.0	29	96	0	109	33	3	13	47	1.60
9892419--9892521	38	2.6	40	84	9	140	23	16	36	23	1.94
9897810--9898326	258	2.0	257	99	0	1016	33	8	25	32	1.85
9907483--9907603	35	3.6	34	72	11	113	33	24	12	29	1.92
9907525--9907625	32	3.1	32	75	13	123	41	25	9	22	1.85
9907490--9907625	67	2.0	67	95	0	245	38	25	11	24	1.89
9907515--9907620	35	3.1	35	76	13	139	39	26	9	24	1.86
9909331--9909388	20	2.6	23	76	18	68	36	20	5	37	1.75
9914177--9914325	35	4.2	35	81	5	183	30	5	18	46	1.71
9914177--9914328	71	2.1	71	91	2	243	30	5	18	45	1.71
9914177--9914344	35	4.7	35	79	7	169	32	5	17	45	1.71
9914218--9914353	71	1.9	71	86	3	193	30	6	17	44	1.74
9918966--9919006	2	20.0	2	87	5	55	43	0	4	51	1.23
9918967--9919003	19	1.9	19	88	0	56	43	0	5	51	1.24
9918966--9919005	21	1.9	21	89	0	62	42	0	5	52	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9922702--9922800	35	2.8	34	80	7	117	45	17	4	33	1.67
9924036--9924150	42	2.7	42	84	1	131	25	17	35	21	1.95
9925422--9925512	35	2.6	34	78	3	101	42	13	6	37	1.70
9926206--9926251	20	2.2	21	77	11	51	60	6	17	15	1.55
9931165--9931192	11	2.5	11	100	0	56	32	0	14	53	1.41
9933531--9933571	2	21.0	2	90	5	66	53	0	0	46	1.00
9934106--9934216	34	3.2	35	82	11	124	28	12	26	32	1.93
9934346--9934396	9	5.3	9	80	13	57	78	5	15	0	0.93
9934343--9934396	15	3.8	14	76	9	56	77	5	16	0	0.94
9934383--9934438	27	2.1	27	100	0	112	50	17	25	7	1.72
9943773--9943817	21	2.1	22	84	12	58	57	6	20	15	1.60
9948281--9948338	25	2.3	25	96	0	107	55	3	3	37	1.34
9948775--9948799	2	12.5	2	100	0	50	52	0	0	48	1.00
9949128--9949221	47	2.0	47	82	13	115	58	3	34	4	1.33
9949384--9949481	34	2.8	34	84	6	117	28	14	23	33	1.94
9949608--9949695	25	3.5	25	90	0	131	47	14	21	15	1.82
9949626--9949704	25	3.2	25	85	0	77	48	13	21	16	1.81
9950687--9950745	26	2.3	26	79	5	66	66	3	28	1	1.18
9964146--9964277	43	3.1	43	79	4	142	21	17	37	22	1.94
9964672--9964787	60	1.9	60	89	3	180	25	20	21	31	1.98
9966475--9966517	21	2.0	23	86	9	63	48	9	25	16	1.75
9966475--9966522	21	2.3	20	75	10	51	54	8	22	14	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9968784--9968843	18	3.4	17	73	13	59	40	10	5	45	1.60
9968777--9968883	35	3.1	35	92	4	166	43	10	4	41	1.59
9972164--9972223	25	2.4	25	85	0	75	26	15	30	28	1.96
9980211--9980259	25	2.0	25	87	0	71	32	14	24	28	1.94
9985582--9985660	40	2.0	40	94	0	140	55	6	12	25	1.60
9985773--9985841	29	2.4	29	90	0	111	42	21	4	31	1.73
9986553--9986598	21	2.2	21	100	0	92	54	8	8	28	1.61
10004351--10004469	63	1.9	63	94	0	211	24	31	13	30	1.93
10010398--10010444	22	2.1	23	84	11	62	29	6	14	48	1.69
10012429--10012464	18	1.9	18	88	5	54	2	13	2	80	0.93
10013268--10013441	42	4.1	42	84	1	222	22	22	34	20	1.97
10013288--10013452	85	2.0	84	82	1	204	23	23	33	19	1.97
10017219--10017350	43	3.1	43	87	2	176	22	18	38	20	1.93
10017702--10017793	39	2.4	39	84	0	121	26	20	19	33	1.96
10025673--10025704	16	2.1	16	94	5	57	34	6	0	59	1.23
10027050--10027092	21	2.0	21	82	8	52	16	4	18	60	1.52
10030614--10030647	15	2.2	16	89	5	52	52	2	0	44	1.16
10034480--10034665	71	2.7	69	83	8	225	45	13	6	34	1.69
10034482--10034665	36	5.2	36	81	6	218	44	13	6	35	1.70
10037261--10037299	18	2.1	18	85	4	51	46	7	0	46	1.31
10039775--10040036	68	3.9	68	79	4	276	33	19	11	35	1.88
10043872--10043901	14	2.1	14	100	0	60	36	23	20	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10044964--10045130	80	2.1	80	81	8	198	34	22	8	34	1.85
10059326--10059371	20	2.3	20	88	7	67	32	4	17	45	1.68
10059416--10059468	28	1.9	27	88	3	79	30	18	22	28	1.98
10059416--10059474	28	2.1	28	84	6	75	30	20	23	25	1.98
10066703--10066754	28	1.9	26	88	7	77	9	23	15	51	1.72
10073057--10073082	2	13.0	2	100	0	52	50	0	0	50	1.00
10080598--10080790	37	5.2	37	91	2	291	30	10	34	24	1.90
10085192--10085294	39	2.6	39	77	8	111	20	21	24	33	1.97
10098931--10099009	27	2.9	27	86	3	97	25	18	20	35	1.95
10107482--10107541	17	3.6	17	71	13	61	41	13	10	35	1.78
10107476--10107540	33	2.0	33	96	0	121	41	13	10	33	1.80
10107520--10108475	251	3.8	251	84	1	1250	47	7	11	32	1.68
10107520--10108472	506	1.9	506	89	1	1489	47	7	11	32	1.68
10110414--10110518	40	2.6	40	79	8	124	20	11	40	26	1.87
10112924--10113053	43	3.0	43	85	4	172	22	17	34	25	1.96
10115449--10115480	2	16.0	2	93	0	55	46	0	0	53	1.00
10115507--10115597	42	2.1	43	93	2	157	24	35	16	24	1.95
10122960--10123082	42	2.9	42	97	0	228	21	22	34	21	1.97
10123317--10123378	26	2.4	26	94	0	106	24	3	40	32	1.71
10133550--10133591	20	2.1	20	86	0	57	11	33	9	45	1.73
10134335--10134504	43	3.9	43	84	6	209	22	15	35	25	1.94
10139606--10139647	9	4.6	9	88	5	57	78	0	21	0	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10139608--10139641	16	2.1	16	89	10	52	82	0	17	0	0.67
10140562--10140799	60	4.0	60	91	1	361	23	18	34	23	1.96
10150116--10150176	31	2.0	31	83	0	77	16	13	22	47	1.81
10152920--10153042	43	2.9	43	80	7	124	23	17	35	23	1.95
10154999--10155049	25	2.0	25	100	0	102	29	23	19	27	1.98
10156548--10156627	38	2.1	38	83	0	97	28	32	8	30	1.87
10156579--10156670	47	2.0	47	86	4	132	28	31	5	34	1.80
10158874--10159088	55	3.9	55	86	0	277	26	36	14	21	1.93
10162737--10162919	55	3.3	54	80	3	213	14	16	28	40	1.87
10162969--10163051	31	2.7	31	88	3	114	26	18	22	32	1.97
10171179--10171446	31	8.7	31	80	2	288	36	22	15	25	1.93
10171179--10171446	93	2.9	93	89	0	376	36	22	15	25	1.93
10172219--10172277	31	1.9	31	92	0	100	28	15	30	25	1.96
10172579--10172640	17	3.9	16	72	17	58	50	1	9	38	1.45
10174193--10174552	31	11.6	31	82	3	429	37	20	18	23	1.94
10174913--10175285	155	2.4	156	79	4	378	31	17	18	33	1.94
10176848--10177113	31	8.6	31	84	2	311	37	21	15	24	1.93
10178100--10178255	43	3.6	42	80	10	165	24	35	17	23	1.95
10178355--10178507	43	3.6	43	88	3	202	22	32	18	26	1.97
10178039--10178550	255	2.0	255	90	2	814	27	32	13	26	1.94
10180535--10181164	94	6.7	94	82	4	745	23	32	15	29	1.95
10180535--10181164	47	13.4	47	79	4	673	23	32	15	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10186924--10187000	20	4.1	20	75	12	83	67	0	32	0	0.91
10186928--10186996	36	1.9	36	91	5	113	66	0	33	0	0.92
10190821--10190923	37	2.7	38	79	10	122	18	17	35	28	1.94
10193302--10193404	38	2.6	40	82	8	124	22	39	17	20	1.92
10197335--10197389	28	2.0	28	86	13	78	34	18	20	27	1.95
10198401--10198503	38	2.6	39	83	4	127	24	40	14	20	1.90
10200315--10200426	43	2.6	43	82	2	127	25	16	35	23	1.94
10200436--10200495	23	2.6	23	89	0	84	26	1	38	33	1.67
10223961--10224066	38	2.8	38	92	0	176	26	39	15	18	1.90
10226390--10226480	32	2.7	34	88	8	125	40	6	25	27	1.80

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   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82