genome.fa.s9.2.7.7.80.10.50.1000.21.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: chr9
Parameters: 2 7 7 80 10 50 1000
Length:  38630433

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   86   87   88   89   90   91   92   93   94   95   96   
          97   

This is table  21  of  97  ( 11551 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)
9256952--9256989	18	2.2	17	86	13	51	39	5	10	44	1.61
9261105--9261349	123	2.0	122	97	1	456	33	9	16	40	1.81
9261696--9261740	22	2.0	22	82	0	54	37	2	6	53	1.40
9266850--9266884	17	2.1	17	94	0	61	25	20	11	42	1.85
9271406--9271439	2	17.0	2	100	0	68	50	0	0	50	1.00
9287146--9287185	18	2.2	18	86	8	55	30	5	10	55	1.54
9287347--9287400	12	4.7	12	76	15	51	35	0	1	62	1.06
9287361--9287407	15	3.1	15	87	3	67	31	0	0	68	0.90
9288812--9288873	2	32.0	2	87	12	94	48	0	1	50	1.10
9296180--9296311	27	4.9	27	83	1	129	43	11	7	37	1.69
9296189--9296311	55	2.3	55	84	1	167	43	10	6	39	1.65
9296297--9296444	78	1.9	78	82	0	188	40	10	8	41	1.68
9297596--9297625	12	2.5	12	88	0	51	30	0	0	70	0.88
9301194--9301230	2	19.5	2	89	10	60	45	0	0	54	1.00
9321422--9321476	22	2.5	22	77	11	58	29	7	14	49	1.70
9321565--9321715	23	6.8	23	78	7	152	33	25	10	30	1.90
9321565--9321715	21	6.8	22	80	7	155	33	25	10	30	1.90
9321575--9321695	44	2.8	42	83	5	143	32	27	9	30	1.89
9321565--9321715	65	2.3	66	82	4	178	33	25	10	30	1.90
9321782--9321859	22	3.6	21	84	5	66	46	21	7	24	1.77
9321960--9322085	60	2.1	60	85	2	164	42	17	8	31	1.80
9322964--9323043	23	3.6	23	79	11	87	40	28	10	21	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9322974--9323034	23	2.7	24	90	10	101	36	29	11	22	1.90
9323058--9323110	22	2.4	22	83	0	61	50	15	3	30	1.61
9336390--9336589	69	2.9	69	86	5	244	34	14	14	37	1.86
9339640--9339704	26	2.5	26	100	0	130	7	21	20	50	1.72
9350165--9350250	25	3.3	25	67	12	73	23	44	11	20	1.84
9350116--9350270	54	2.9	54	90	3	258	24	41	14	20	1.89
9350380--9350406	2	13.5	2	100	0	54	48	0	0	51	1.00
9350342--9350480	70	2.0	69	100	0	269	37	12	10	38	1.78
9350450--9350476	2	13.5	2	100	0	54	48	0	0	51	1.00
9357566--9357597	10	3.0	11	90	9	57	43	18	9	28	1.81
9357837--9357914	32	2.4	32	80	4	86	33	51	15	0	1.44
9359000--9359042	22	2.0	22	90	0	68	30	0	4	65	1.13
9359267--9359315	20	2.4	21	82	3	64	28	0	6	65	1.16
9359390--9359499	52	2.1	52	91	0	184	20	14	21	42	1.88
9368830--9368901	35	2.1	35	84	5	92	29	8	27	34	1.86
9369602--9369649	18	2.7	18	83	0	60	62	16	8	12	1.53
9374461--9374583	65	1.9	65	86	6	178	34	19	13	31	1.91
9377941--9378034	41	2.3	40	76	7	93	37	4	18	40	1.70
9378187--9378316	69	1.9	70	95	1	235	55	6	4	33	1.45
9378676--9378721	18	2.5	17	86	10	56	71	0	0	28	0.86
9381987--9382026	20	2.0	20	85	5	53	25	2	2	70	1.13
9381988--9382035	25	1.9	25	83	8	62	25	2	4	68	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9383747--9383788	22	1.9	22	85	0	57	30	21	35	11	1.90
9384772--9384797	11	2.4	11	100	0	52	38	7	15	38	1.76
9386900--9386986	43	2.0	43	93	0	147	24	14	36	24	1.93
9390206--9390253	20	2.4	20	85	0	60	68	6	2	22	1.23
9394714--9394899	62	3.0	62	80	3	160	27	22	19	30	1.98
9401768--9401816	9	5.4	9	85	0	62	40	16	10	32	1.82
9401764--9401816	18	2.9	18	88	0	88	39	16	11	32	1.85
9403378--9403430	24	2.2	24	89	0	79	52	33	1	11	1.48
9406295--9406351	29	2.0	29	92	0	96	49	12	10	28	1.73
9412806--9412862	29	2.0	29	89	0	87	47	15	12	24	1.80
9419241--9419291	13	3.6	14	84	10	59	43	0	3	52	1.19
9419241--9419328	28	3.3	28	69	21	71	42	0	3	54	1.17
9419221--9419318	8	12.8	8	68	21	50	42	0	2	55	1.11
9424880--9424929	23	2.1	23	85	10	66	70	2	26	2	1.09
9424963--9425010	23	2.0	23	88	4	69	58	2	2	37	1.22
9426624--9426661	3	12.7	3	100	0	76	34	0	0	65	0.93
9433973--9434119	49	3.0	49	85	0	204	26	25	14	34	1.94
9434149--9434209	23	2.7	23	89	0	95	24	27	16	31	1.96
9434555--9434801	81	3.1	81	85	2	320	40	8	11	40	1.71
9435108--9435214	28	3.6	28	76	11	115	43	5	16	33	1.72
9436547--9436680	42	3.2	41	85	4	169	25	18	31	24	1.98
9439190--9439339	35	4.3	35	89	0	210	29	8	36	26	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9439190--9439363	70	2.5	70	83	3	206	28	11	35	24	1.90
9448488--9448636	49	3.0	49	91	0	235	24	24	16	34	1.95
9448619--9448671	20	2.7	20	100	0	106	26	24	15	33	1.95
9448658--9448752	25	3.8	25	81	0	127	25	23	13	37	1.91
9448811--9448846	18	2.0	18	88	0	54	25	41	8	25	1.83
9449096--9449342	81	3.1	81	88	2	338	41	6	8	42	1.63
9449195--9449319	41	3.2	38	65	18	101	40	5	9	44	1.61
9450384--9450489	36	2.9	35	73	8	106	43	23	20	12	1.86
9450361--9450503	72	2.0	72	80	5	164	41	24	20	12	1.87
9468968--9469001	17	1.9	18	88	5	52	55	5	5	32	1.48
9469153--9470160	531	1.9	532	86	2	1461	35	10	12	41	1.77
9478734--9478865	43	3.1	42	76	8	131	23	34	15	25	1.95
9485190--9485239	25	2.0	26	96	4	93	58	0	0	42	0.98
9487591--9487632	19	2.2	19	83	8	50	52	7	26	14	1.67
9490077--9490144	30	2.3	30	89	2	102	36	14	11	36	1.83
9490075--9490225	31	5.4	29	69	18	97	31	16	15	37	1.90
9494741--9494887	22	6.8	22	71	15	101	39	26	4	29	1.75
9494746--9494896	43	3.4	43	76	13	130	39	25	4	30	1.76
9494728--9494906	22	8.1	21	70	16	98	40	25	5	29	1.77
9499025--9499088	28	2.2	29	86	2	85	43	20	9	26	1.82
9499537--9499587	26	2.0	26	92	0	84	45	5	3	45	1.46
9502207--9502319	60	1.9	60	85	3	156	50	11	6	31	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9506838--9506907	19	3.6	19	69	5	59	21	25	12	40	1.89
9506828--9506922	39	2.4	39	69	19	90	24	20	16	38	1.92
9518622--9518693	31	2.3	32	83	9	87	54	22	8	15	1.67
9521250--9521309	2	30.0	2	96	0	111	50	0	1	48	1.11
9530815--9531231	23	17.9	23	72	8	236	36	15	26	22	1.93
9530814--9531231	46	9.0	46	75	4	275	36	15	26	22	1.93
9531087--9531161	28	2.9	27	73	13	77	34	21	25	18	1.96
9531484--9531525	16	2.4	18	84	11	52	0	2	19	78	0.86
9531908--9532329	217	1.9	217	85	2	580	29	14	19	35	1.92
9533992--9534047	24	2.3	24	78	0	58	10	14	51	23	1.73
9534112--9534224	60	1.9	60	90	3	183	11	25	33	29	1.91
9544678--9544739	31	2.0	31	83	0	79	40	6	16	37	1.74
9545519--9545597	41	2.0	41	89	2	124	17	11	15	55	1.68
9547699--9547801	26	4.1	26	67	12	70	31	17	13	37	1.89
9547684--9547779	49	2.0	49	87	0	138	30	15	16	37	1.90
9548248--9548291	19	2.3	19	81	11	54	61	0	18	20	1.35
9550709--9550782	28	2.5	30	89	4	107	36	0	1	62	1.04
9559002--9559036	18	1.9	18	88	0	52	0	28	48	22	1.51
9558996--9559035	12	3.3	12	92	0	62	0	32	45	22	1.53
9577550--9577907	179	2.0	179	96	0	662	34	17	18	30	1.94
9580075--9580107	16	2.1	16	100	0	66	24	18	30	27	1.98
9587379--9587433	4	14.0	4	81	14	62	74	0	0	25	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9591958--9592054	23	4.3	23	78	3	99	34	23	10	31	1.89
9591970--9592060	46	2.0	45	89	6	139	31	24	12	31	1.92
9592142--9592202	22	2.8	22	87	0	86	50	14	6	27	1.68
9594556--9594644	41	2.2	41	93	0	151	40	8	12	38	1.74
9598294--9598353	28	2.1	28	87	6	86	48	0	0	51	1.00
9598288--9598357	15	4.6	16	75	20	62	50	0	0	50	1.00
9598314--9598367	28	1.9	28	84	0	72	50	0	3	46	1.19
9598501--9598582	14	6.1	13	69	20	53	54	0	1	43	1.07
9598500--9598759	135	1.9	135	86	3	371	51	2	2	43	1.28
9600546--9600600	19	3.3	19	63	36	54	36	16	5	41	1.71

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   86   87   88   89   90   91   92   93   94   95   96   
          97