genome.fa.s5.2.7.7.80.10.50.1000.29.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:  30015117

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   83   84   85   

This is table  29  of  85  ( 10117 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)
9686812--9686882	3	22.7	3	77	5	61	26	2	5	64	1.29
9692427--9692489	7	8.9	7	77	16	58	82	11	0	6	0.83
9692451--9692488	13	2.8	13	88	4	58	78	10	0	10	0.95
9692427--9692489	13	4.4	14	76	20	51	82	11	0	6	0.83
9692451--9692488	20	1.9	19	94	5	67	78	10	0	10	0.95
9692484--9692540	26	2.1	27	83	3	71	78	1	15	3	0.96
9692498--9692540	13	3.3	12	81	15	50	83	0	16	0	0.64
9703277--9703301	2	12.5	2	100	0	50	0	0	48	52	1.00
9704785--9704829	19	2.4	19	88	7	65	35	0	6	57	1.25
9704785--9704830	18	2.4	19	82	10	58	34	0	6	58	1.24
9705874--9705900	9	3.0	9	100	0	54	33	0	0	66	0.92
9709028--9709069	8	5.1	8	78	16	50	2	14	0	83	0.75
9709900--9709964	25	2.5	25	90	5	94	27	4	7	60	1.44
9709901--9709987	25	3.3	26	84	7	79	28	6	5	58	1.47
9722243--9722764	44	12.0	44	91	2	811	28	21	25	24	1.99
9724738--9724771	17	1.9	18	88	5	52	8	11	0	79	0.94
9725606--9725670	25	2.5	25	90	5	94	27	4	7	60	1.44
9725607--9725693	25	3.3	26	84	7	79	28	6	5	58	1.47
9729665--9729697	14	2.4	14	90	5	50	66	3	9	21	1.33
9731350--9731398	21	2.3	22	79	10	57	4	24	2	69	1.17
9744192--9744223	9	3.6	9	100	0	64	31	0	21	46	1.52
9744545--9744617	19	3.9	18	72	11	58	46	2	1	49	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9746871--9746907	18	2.1	18	89	0	56	45	21	10	21	1.82
9747334--9747360	14	1.9	14	100	0	54	22	0	37	40	1.54
9747369--9747398	14	2.1	14	93	0	51	56	0	33	10	1.32
9747470--9747566	41	2.4	41	87	3	133	13	27	19	39	1.89
9753542--9753595	15	3.5	15	80	5	54	59	0	3	37	1.15
9753797--9754307	250	2.0	251	98	0	997	31	16	10	41	1.83
9754825--9754854	15	2.1	14	93	6	51	70	0	3	26	1.03
9757924--9757967	19	2.5	16	82	17	52	43	11	0	45	1.40
9766279--9766328	20	2.3	20	80	10	55	26	6	12	56	1.58
9773593--9773637	4	11.2	4	85	0	54	24	28	0	46	1.53
9776854--9777090	42	5.6	42	87	1	332	21	18	25	34	1.96
9777063--9777118	28	2.0	28	89	0	85	23	21	21	33	1.97
9776979--9777181	112	1.8	112	93	0	352	21	19	23	35	1.96
9777023--9777160	70	2.0	70	89	0	213	22	19	23	34	1.97
9777091--9777228	42	3.3	42	91	0	222	21	19	21	37	1.94
9776941--9777226	154	1.9	154	92	0	482	22	19	23	34	1.97
9778051--9778482	153	2.9	148	86	6	579	40	4	10	44	1.60
9778461--9778513	20	2.7	19	71	5	52	41	1	11	45	1.51
9780868--9780940	37	2.0	37	94	0	128	35	10	26	27	1.90
9781612--9781703	41	2.3	40	83	3	121	29	0	27	43	1.55
9781851--9782169	126	2.5	126	87	3	446	37	15	18	28	1.92
9783589--9783661	37	1.9	38	88	2	112	31	21	2	43	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9783865--9784682	102	8.0	102	97	0	1431	30	27	13	29	1.94
9788898--9788932	18	1.9	18	94	0	61	34	11	28	25	1.91
9790687--9790755	30	2.3	30	89	0	102	34	1	27	36	1.66
9791197--9791278	41	2.0	41	97	0	155	40	6	4	48	1.49
9791520--9791550	16	1.9	16	93	0	53	22	3	6	67	1.28
9797343--9797616	146	1.9	145	85	3	381	35	12	6	45	1.67
9802636--9802696	3	20.0	3	83	3	77	60	0	0	39	0.97
9802691--9802719	4	7.2	4	100	0	58	51	0	0	48	1.00
9803103--9803132	5	6.0	5	92	0	51	23	0	56	20	1.42
9804818--9804872	4	13.8	4	96	0	101	25	1	23	49	1.60
9807535--9807578	18	2.5	17	78	10	52	40	15	2	40	1.60
9809593--9809623	13	2.3	14	94	5	55	67	3	22	6	1.28
9810835--9810881	25	2.0	24	84	12	62	68	2	2	27	1.13
9811492--9811536	21	2.1	21	84	8	56	42	4	0	53	1.21
9818324--9818904	289	2.0	289	92	0	955	26	20	16	35	1.94
9821359--9821404	21	2.3	18	82	17	56	73	0	10	15	1.08
9821466--9821511	21	2.3	18	82	17	56	73	0	10	15	1.08
9821336--9821552	107	2.0	108	99	0	427	66	2	9	21	1.33
9821538--9821562	11	2.3	11	100	0	50	84	0	0	16	0.63
9826619--9826647	14	2.1	14	100	0	58	20	48	6	24	1.74
9827935--9827979	19	2.3	20	85	7	58	51	4	8	35	1.54
9827945--9827984	20	2.0	20	90	4	64	52	2	5	40	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9829006--9829136	40	3.3	40	75	9	135	25	16	25	32	1.96
9834566--9834610	24	1.9	24	86	4	65	17	4	0	77	0.92
9836050--9836091	6	6.8	6	86	5	57	26	0	2	71	0.98
9836061--9836121	25	2.5	24	82	12	70	18	3	6	72	1.21
9836044--9836121	6	12.5	6	75	12	50	17	3	5	73	1.18
9846193--9846220	2	14.0	2	100	0	56	50	50	0	0	1.00
9849012--9849047	15	2.3	16	90	4	56	16	2	2	77	1.00
9855731--9855829	45	2.3	44	79	11	107	44	18	22	15	1.86
9858378--9858421	14	2.9	15	83	6	54	40	0	2	56	1.11
9858413--9858457	21	2.1	21	84	8	56	31	4	4	60	1.37
9861646--9861675	14	2.1	14	100	0	60	13	33	13	40	1.83
9864989--9865262	137	2.0	137	98	0	530	32	22	14	30	1.94
9865954--9866002	20	2.5	20	86	0	62	34	8	14	42	1.75
9867660--9867713	21	2.5	23	80	14	62	14	27	27	29	1.95
9869357--9869408	21	2.6	21	77	17	56	73	3	9	13	1.23
9874214--9874256	20	2.2	20	91	0	68	41	9	11	37	1.74
9876149--9876185	18	2.1	19	90	10	60	29	5	5	59	1.42
9881004--9881049	21	2.1	21	84	11	58	45	19	0	34	1.51
9887971--9888056	20	4.3	20	79	5	84	13	25	18	41	1.88
9890406--9890462	27	2.2	26	80	3	60	59	5	0	35	1.20
9890543--9890593	26	2.0	26	96	0	93	9	62	7	19	1.50
9891469--9891597	67	1.9	67	88	0	195	44	27	3	24	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9894498--9894560	31	2.0	31	100	0	126	33	9	12	44	1.75
9895818--9895868	23	2.2	23	89	0	75	29	5	19	45	1.74
9912326--9912377	3	16.7	3	76	7	50	28	5	1	63	1.28
9915133--9915177	23	2.0	23	86	0	63	15	24	24	35	1.94
9916713--9916767	23	2.3	23	84	6	65	49	18	16	16	1.81
9923291--9923359	34	2.0	34	100	0	138	23	5	37	33	1.79
9925745--9925801	28	2.1	27	90	3	87	14	15	19	50	1.77
9929126--9929358	49	4.8	49	73	6	184	30	12	28	29	1.92
9929113--9929356	98	2.5	98	83	2	301	31	11	28	28	1.92
9938240--9938293	23	2.5	20	74	14	54	66	3	7	22	1.33
9945065--9945112	22	2.1	23	84	3	62	14	0	10	75	1.06
9946215--9946253	19	2.1	19	85	9	53	38	0	7	53	1.30
9966480--9966669	45	4.2	44	79	4	173	40	12	18	27	1.87
9974297--9974322	13	2.0	13	100	0	52	38	23	0	38	1.55
9980538--9980664	59	2.1	60	94	1	220	26	11	26	34	1.91
9981476--9981514	18	2.2	18	86	9	53	28	2	0	69	1.02
9981624--9981677	10	5.2	11	81	18	55	31	0	0	68	0.90
9981618--9981677	22	2.7	22	85	10	79	30	0	0	70	0.88
9981630--9981665	18	1.9	19	88	5	56	33	0	0	66	0.92
9987354--9987790	44	10.0	44	67	11	193	30	19	21	27	1.98
9987370--9987665	88	3.4	88	72	11	284	30	19	21	28	1.98
9987370--9987801	175	2.5	175	89	2	681	31	19	21	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9989361--9989412	3	16.3	3	82	7	50	26	1	1	69	1.10
9989532--9989585	10	5.2	11	81	18	55	31	0	0	68	0.90
9989526--9989585	22	2.7	22	85	10	79	30	0	0	70	0.88
9989538--9989573	18	1.9	19	88	5	56	33	0	0	66	0.92
9992203--9992232	12	2.5	12	88	0	51	6	23	40	30	1.80
9993441--9993551	25	4.5	25	80	9	104	28	22	23	25	1.99
9995471--9995510	21	1.9	21	100	0	80	30	22	17	30	1.97
10005308--10005349	14	3.1	14	93	3	68	73	0	16	9	1.08
10006123--10006166	14	3.1	15	80	9	56	70	2	15	11	1.26
10007973--10008038	31	2.1	31	82	0	78	25	22	22	28	1.99

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   83   84   85