genome.fa.s7.2.7.7.80.10.50.1000.18.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: Chr3
Parameters: 2 7 7 80 10 50 1000
Length:  26558743

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   

This is table  18  of  79  ( 9388 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)
6017735--6017773	19	2.1	19	95	0	69	46	12	15	25	1.81
6019418--6019509	37	2.5	37	85	0	112	23	22	9	43	1.83
6024223--6024274	28	1.9	26	92	7	86	46	0	7	46	1.31
6024940--6024969	2	15.0	2	92	0	51	50	3	0	46	1.18
6027063--6027097	6	5.7	6	86	6	52	37	0	14	48	1.44
6031147--6031200	28	1.9	28	88	7	83	48	0	5	46	1.25
6036897--6037151	90	2.8	91	79	4	257	29	7	10	52	1.64
6041090--6041135	16	2.6	19	74	25	55	67	6	2	23	1.25
6043149--6043350	110	1.8	110	82	6	257	37	18	10	33	1.86
6049921--6049972	19	2.7	20	85	8	63	30	1	9	57	1.42
6053533--6053721	88	2.1	88	91	0	297	26	18	21	33	1.96
6053866--6054241	44	8.7	43	72	9	162	28	24	18	28	1.98
6053861--6054432	218	2.6	218	88	2	837	27	24	19	29	1.98
6053991--6054410	44	9.6	44	69	11	195	26	26	19	27	1.99
6053861--6054506	218	3.0	213	80	9	718	27	24	19	29	1.98
6054402--6054675	132	2.1	132	90	0	440	28	22	18	30	1.98
6054419--6054760	132	2.6	132	84	3	350	27	23	18	30	1.97
6054802--6055032	50	4.6	49	72	6	162	25	19	21	32	1.97
6054808--6055909	100	10.8	101	77	8	667	23	20	22	33	1.97
6054870--6055131	50	5.2	50	70	8	165	24	19	22	33	1.97
6055119--6055163	23	2.0	23	90	0	72	11	28	22	37	1.88
6055147--6056867	50	35.2	49	71	9	836	24	20	22	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6055016--6055254	123	1.9	124	92	0	399	20	22	23	33	1.98
6055147--6056878	100	17.7	100	87	3	1561	24	20	22	32	1.98
6055744--6056869	95	11.7	95	88	3	1334	25	21	21	31	1.98
6058006--6058111	43	2.5	43	82	3	124	26	29	14	30	1.95
6072055--6072093	6	6.3	6	83	16	53	2	17	0	79	0.84
6072058--6072100	14	3.2	14	87	12	56	4	16	0	79	0.90
6072107--6072146	10	4.0	10	100	0	80	10	0	10	80	0.92
6072107--6072153	10	5.0	9	92	7	60	10	0	10	78	0.96
6076598--6076633	3	12.3	3	94	5	65	66	0	0	33	0.92
6077353--6077382	14	2.1	14	93	0	51	83	0	3	13	0.77
6084453--6085536	90	12.1	90	91	1	1611	30	23	16	29	1.96
6084453--6085547	45	24.4	45	83	1	1309	30	24	15	29	1.96
6095922--6095954	15	2.1	16	94	5	59	54	0	15	30	1.41
6096209--6096266	22	2.7	21	76	10	53	41	15	5	37	1.70
6096238--6096289	19	2.9	17	78	10	59	32	15	11	40	1.83
6111036--6111975	71	13.2	70	91	2	1341	27	13	16	41	1.86
6111036--6111966	142	6.5	142	92	1	1476	27	13	16	41	1.86
6111046--6111851	23	34.1	22	64	22	153	27	14	16	42	1.86
6119355--6119945	71	8.3	71	88	3	830	28	13	16	41	1.86
6119626--6119815	23	8.1	22	66	21	75	26	14	17	42	1.87
6126467--6126862	184	2.2	183	82	6	471	45	9	11	33	1.73
6138810--6138875	26	2.5	26	90	0	96	21	25	28	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6138968--6139033	27	2.5	27	82	2	80	48	1	16	33	1.56
6143914--6143947	15	2.3	15	90	5	52	41	8	17	32	1.80
6164577--6164609	16	2.0	17	88	5	50	63	0	24	12	1.28
6184154--6184193	18	2.2	18	90	0	62	15	12	20	52	1.74
6212413--6212698	29	10.1	29	75	13	113	25	17	21	36	1.94
6212568--6212698	58	2.3	58	89	2	201	25	19	19	35	1.95
6213401--6213447	19	2.5	19	100	0	94	53	8	14	23	1.69
6235142--6235654	172	3.0	172	91	1	832	25	7	17	49	1.72
6245294--6245332	18	2.1	19	95	4	71	51	20	10	17	1.74
6246659--6246707	24	2.0	24	92	0	80	44	8	18	28	1.78
6247348--6247382	17	2.0	18	94	5	63	45	0	0	54	0.99
6259351--6259466	57	2.0	57	98	0	223	33	10	4	51	1.55
6260736--6260770	18	1.9	18	88	0	52	5	8	25	60	1.49
6263876--6263911	17	2.1	17	94	0	63	80	5	5	8	1.01
6266587--6266709	16	7.5	16	72	18	101	24	14	26	34	1.94
6266584--6266709	33	3.8	33	91	0	207	25	14	25	34	1.94
6266603--6266698	17	5.8	17	71	18	85	23	16	25	34	1.95
6266574--6266714	66	2.1	66	86	0	219	24	13	24	37	1.91
6267403--6267437	6	6.0	6	96	3	63	48	0	17	34	1.47
6268161--6268191	16	1.9	16	100	0	62	19	12	29	38	1.89
6271143--6271197	27	2.0	27	93	6	94	30	27	9	32	1.88
6276220--6276253	16	2.2	16	89	5	52	50	14	14	20	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6276463--6276534	25	2.9	24	78	12	74	31	20	8	38	1.83
6285265--6285291	14	1.9	14	100	0	54	62	7	0	29	1.22
6285766--6285923	58	2.8	57	81	1	165	25	15	14	44	1.85
6286651--6286704	26	2.1	25	82	3	63	62	1	3	31	1.23
6286760--6286804	2	22.5	2	86	8	65	53	0	2	44	1.13
6288813--6289024	105	2.0	106	99	0	417	47	5	11	35	1.63
6290203--6290297	34	2.8	34	79	3	102	27	22	18	31	1.97
6294005--6294036	16	2.0	16	100	0	64	37	6	25	31	1.81
6294626--6294663	18	2.1	18	100	0	76	44	26	5	23	1.74
6299522--6299589	14	4.9	14	75	0	64	38	14	14	32	1.87
6299522--6299589	28	2.4	28	82	0	82	38	14	14	32	1.87
6299847--6299927	34	2.4	34	85	0	108	27	23	18	30	1.98
6301266--6301304	21	1.9	21	89	5	62	56	0	0	43	0.99
6302858--6302883	7	3.7	7	100	0	52	73	0	0	26	0.84
6303114--6303160	24	2.0	24	86	0	67	38	4	0	57	1.18
6303107--6303157	11	4.5	11	74	11	50	35	3	0	60	1.15
6303182--6303221	21	1.9	21	90	10	64	22	2	5	70	1.19
6304609--6304683	30	2.5	29	79	14	89	37	0	4	58	1.17
6304663--6304691	3	10.0	3	92	7	51	31	0	0	68	0.89
6308604--6308636	9	3.8	9	96	4	59	39	0	0	60	0.97
6311880--6311916	18	2.0	20	89	10	60	35	8	0	56	1.29
6312841--6312900	27	2.2	27	90	0	93	48	16	5	30	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6327176--6327307	67	2.0	67	92	3	221	34	18	13	33	1.90
6328310--6328348	20	2.0	19	85	5	51	58	0	15	25	1.37
6328482--6328778	149	2.0	149	100	0	594	37	10	19	32	1.86
6333483--6333522	21	1.9	21	94	0	71	25	5	0	70	1.08
6351028--6351308	104	2.7	104	86	4	370	54	16	1	28	1.49
6351604--6351722	60	2.0	60	93	3	204	52	13	0	33	1.40
6351895--6351936	3	14.3	3	95	5	77	0	33	0	66	0.92
6351891--6351934	20	2.3	19	92	7	79	0	31	0	68	0.90
6352077--6352137	28	2.2	28	85	5	81	18	16	57	8	1.63
6352743--6352817	38	2.0	38	94	0	132	36	10	12	41	1.77
6353610--6353637	14	2.0	14	100	0	56	28	0	14	57	1.38
6356874--6356941	28	2.5	28	87	2	102	42	10	1	45	1.47
6356941--6356971	11	2.8	11	90	0	53	87	12	0	0	0.55
6357022--6357091	27	2.6	27	93	4	115	27	28	28	15	1.96
6357888--6357932	22	2.0	22	100	0	90	35	8	0	55	1.31
6358334--6358365	15	2.1	15	100	0	64	53	0	6	40	1.26
6359662--6359706	18	2.5	18	88	0	72	13	53	4	28	1.59
6360390--6360548	3	53.0	3	100	0	318	66	33	0	0	0.92
6360547--6360574	3	9.3	3	100	0	56	67	0	0	32	0.91
6360692--6360731	11	3.7	11	86	6	64	2	25	0	72	0.97
6360826--6360883	27	2.1	27	93	0	98	12	27	31	29	1.92
6360935--6360984	27	1.9	26	92	8	84	46	0	8	46	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6363162--6363220	18	3.3	17	70	11	55	35	1	0	62	1.05
6384218--6384287	26	2.7	25	78	6	86	15	24	20	40	1.91
6384410--6384480	25	2.8	25	80	4	81	25	30	15	28	1.96
6391233--6391292	30	2.0	30	100	0	120	30	13	16	40	1.87
6392087--6392136	26	2.0	25	92	4	82	16	22	24	38	1.93
6395091--6395406	171	1.8	171	89	1	499	26	11	22	39	1.88
6397851--6397900	20	2.7	18	81	15	57	54	4	0	42	1.19
6397793--6398023	111	2.1	113	97	1	439	46	9	1	42	1.45
6398451--6398506	25	2.2	24	78	9	58	8	32	1	57	1.40
6402865--6402913	18	2.6	19	78	18	57	22	2	2	73	1.04

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