genome.fa.s8.2.7.7.80.10.50.1000.24.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:  48574783

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   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   

This is table  24  of  135  ( 16172 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)
9405597--9405630	2	17.0	2	100	0	68	50	0	0	50	1.00
9414633--9414951	107	3.0	107	87	3	493	34	18	16	31	1.93
9415432--9415478	19	2.5	18	86	10	67	57	0	6	36	1.24
9415497--9415550	26	2.1	26	85	0	72	46	9	12	31	1.74
9415603--9415632	12	2.5	12	94	0	51	53	0	13	33	1.40
9415829--9416068	120	2.0	120	98	0	462	41	16	25	16	1.89
9417639--9417688	26	1.9	26	87	0	73	32	20	10	38	1.85
9422712--9423149	82	5.2	82	84	9	505	20	21	23	34	1.97
9422768--9423134	43	8.7	43	85	7	418	20	21	23	33	1.97
9423158--9423850	99	7.0	99	83	5	851	25	23	21	29	1.99
9423158--9423842	199	3.4	199	91	1	1034	25	22	21	30	1.99
9423154--9423833	50	13.7	50	69	7	335	26	22	21	30	1.99
9423899--9424666	44	17.5	45	75	5	658	29	26	16	27	1.97
9423982--9424665	132	5.2	132	94	0	1176	28	27	16	27	1.97
9425248--9425348	45	2.2	45	76	10	107	53	8	12	24	1.67
9425621--9425669	8	6.4	7	80	15	53	4	14	2	79	0.97
9427422--9427543	62	2.0	62	91	0	199	34	4	20	40	1.74
9437950--9437987	18	2.1	18	85	9	51	34	21	2	42	1.67
9438711--9438749	20	1.9	21	89	5	62	61	5	0	33	1.18
9439179--9439203	7	3.6	7	100	0	50	68	16	16	0	1.22
9443288--9443440	76	2.0	77	98	1	299	28	14	20	35	1.92
9462614--9462642	14	2.1	14	100	0	58	37	27	13	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9466080--9466113	18	1.9	17	88	5	50	61	5	0	32	1.20
9466190--9466248	24	2.5	22	73	13	55	42	6	0	50	1.28
9471168--9471226	29	2.0	30	90	3	93	38	3	6	50	1.45
9471168--9471251	29	3.0	29	83	10	86	41	2	5	50	1.40
9471159--9471524	181	2.0	182	99	0	725	40	6	5	47	1.51
9471352--9471432	29	2.8	30	82	10	82	43	2	4	49	1.37
9473574--9473603	14	2.1	14	93	6	51	0	10	0	90	0.47
9473577--9473602	12	2.2	12	100	0	52	0	7	0	92	0.39
9483158--9483200	17	2.4	19	80	7	54	58	34	2	4	1.32
9496445--9496636	105	1.8	105	85	0	267	50	16	18	15	1.78
9500347--9500479	63	2.1	63	91	0	212	32	20	27	20	1.97
9510764--9510967	103	2.0	103	93	3	349	24	16	12	47	1.81
9511928--9512301	190	2.0	190	94	0	658	41	16	12	28	1.85
9512595--9512639	24	1.9	24	95	4	83	55	13	8	22	1.65
9519203--9519241	16	2.4	16	87	12	53	46	2	0	51	1.14
9526711--9526763	27	1.9	28	92	3	90	50	7	11	30	1.65
9535684--9536100	222	1.9	222	95	0	762	35	18	15	30	1.92
9542377--9542423	25	1.9	24	91	4	76	38	0	4	57	1.18
9543038--9543073	6	6.0	6	96	0	63	30	36	0	33	1.58
9547207--9547251	22	2.0	22	91	0	72	60	28	2	8	1.39
9547231--9547262	16	2.0	16	93	0	55	65	21	0	12	1.25
9547297--9547341	21	2.1	22	84	12	58	51	31	0	17	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9547505--9547563	21	2.8	21	79	5	66	61	20	1	16	1.44
9547505--9547599	14	6.7	14	67	10	59	61	22	1	15	1.41
9547526--9547608	37	2.3	35	81	12	87	65	19	0	15	1.28
9547540--9547667	44	2.9	44	79	9	118	61	22	0	14	1.38
9547605--9547722	38	3.4	37	68	27	103	57	26	1	14	1.47
9547606--9547735	67	1.9	67	90	3	208	56	25	1	16	1.48
9547716--9547772	15	3.9	15	90	2	80	52	22	3	21	1.62
9547760--9547837	22	3.6	22	86	5	97	64	17	0	17	1.30
9547832--9548261	28	14.8	28	66	17	130	55	27	1	15	1.48
9547843--9547952	22	4.7	22	69	12	67	52	28	1	17	1.54
9547876--9548216	21	16.3	20	69	17	144	56	26	1	15	1.47
9548041--9548261	7	30.6	7	69	13	65	55	28	0	15	1.46
9548034--9548119	23	3.8	22	75	10	84	59	26	0	13	1.35
9547892--9548161	142	1.9	142	83	10	356	58	25	1	14	1.44
9548110--9548292	21	8.5	21	71	17	85	54	29	1	15	1.48
9548204--9548271	23	3.0	23	85	8	77	57	27	1	13	1.45
9549729--9549790	30	2.1	30	100	0	124	33	33	16	16	1.91
9555217--9555260	21	2.1	22	88	12	67	43	0	0	56	0.99
9556972--9557006	17	2.1	17	94	0	61	11	20	17	51	1.75
9557503--9558212	84	8.5	83	87	3	883	40	9	32	17	1.82
9572704--9572731	2	14.0	2	100	0	56	50	0	0	50	1.00
9575309--9575507	98	2.0	100	98	1	384	22	19	15	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9583797--9583859	32	2.0	32	84	6	83	44	28	6	20	1.76
9583893--9583955	32	2.0	32	87	0	90	44	25	4	25	1.73
9583791--9583983	96	2.0	97	94	1	343	43	21	9	24	1.83
9584912--9584968	22	2.6	22	88	0	87	40	24	3	31	1.72
9593642--9593692	20	2.3	22	80	19	61	21	29	5	43	1.76
9597111--9597173	32	2.0	32	84	6	83	44	28	6	20	1.76
9597207--9597269	32	2.0	32	90	0	99	44	25	6	23	1.77
9597105--9597297	96	2.0	97	96	1	361	43	21	10	24	1.84
9598225--9598281	22	2.6	22	97	0	105	43	21	3	31	1.69
9601840--9601911	25	2.7	27	75	14	62	11	13	5	69	1.34
9603788--9603888	33	3.2	33	75	9	86	44	3	0	50	1.27
9610284--9610360	32	2.6	29	73	15	75	27	11	6	54	1.61
9615839--9615883	3	15.0	3	95	0	81	66	2	0	31	1.04
9620187--9620212	4	6.5	4	100	0	52	50	23	0	26	1.50
9626142--9626166	5	5.0	5	100	0	50	20	0	0	80	0.72
9630457--9630748	126	2.3	125	89	2	426	28	21	17	32	1.96
9632288--9632320	15	2.3	15	89	5	50	42	0	3	54	1.15
9636257--9636409	79	1.9	80	87	1	227	43	13	16	26	1.86
9641103--9641161	31	1.9	31	89	0	91	52	6	3	37	1.45
9642478--9642850	185	2.0	186	98	1	730	47	11	7	32	1.68
9643202--9643235	17	2.1	15	89	10	50	20	0	5	73	1.04
9644298--9644389	45	2.1	44	87	2	130	15	16	2	66	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9664772--9664822	26	2.0	26	85	11	70	37	0	0	62	0.95
9664789--9664857	19	3.7	19	66	14	54	37	1	1	59	1.15
9667285--9667322	19	2.0	19	94	0	67	60	0	0	39	0.97
9667289--9667326	13	3.0	13	80	3	51	52	0	0	47	1.00
9670613--9670644	2	16.0	2	100	0	64	50	0	50	0	1.00
9675925--9675955	6	5.2	6	100	0	62	32	0	0	67	0.91
9680004--9680040	9	4.1	9	92	0	65	29	10	13	45	1.77
9680095--9680125	9	3.4	9	90	0	53	38	22	12	25	1.90
9680385--9680456	35	2.1	35	100	0	144	41	13	11	33	1.80
9687652--9687689	19	2.0	19	94	0	67	10	34	15	39	1.82
9687653--9687697	19	2.6	17	86	10	56	11	31	15	42	1.82
9694621--9694728	45	2.6	39	76	16	117	19	19	20	40	1.91
9694634--9694820	45	4.2	45	86	2	232	21	16	19	42	1.89
9694630--9694820	90	2.1	90	85	1	258	21	16	18	42	1.89
9696987--9697066	26	3.1	26	66	20	76	40	8	5	46	1.57
9696966--9697074	52	2.1	52	87	0	155	48	8	4	38	1.54
9696978--9697085	52	2.1	52	96	0	198	44	8	4	42	1.55
9697004--9697085	26	3.2	25	67	19	69	46	8	2	42	1.47
9712826--9712864	15	2.6	15	83	0	51	41	0	7	51	1.31
9727304--9727338	10	3.6	10	96	3	63	51	14	0	34	1.42
9734533--9734758	58	4.0	58	93	2	379	40	16	13	29	1.87
9738774--9738804	14	2.1	14	94	5	53	0	9	0	90	0.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9738854--9738884	1	31.0	1	100	0	62	0	0	0	100	0.00
9739226--9739266	16	2.5	16	92	4	64	53	4	2	39	1.35
9739621--9739673	22	2.3	23	80	3	63	49	0	7	43	1.31
9749215--9749239	3	8.3	3	100	0	50	64	0	0	36	0.94
9750784--9750825	2	21.0	2	100	0	84	50	0	0	50	1.00
9754649--9754711	3	20.7	3	81	15	76	61	3	1	33	1.21
9754649--9754711	14	4.6	13	83	14	74	61	3	1	33	1.21
9755676--9755717	18	2.4	17	84	7	57	42	0	0	57	0.99
9755666--9755757	46	1.9	49	82	10	120	41	0	3	55	1.16
9756596--9756669	31	2.4	31	77	2	87	39	2	5	52	1.38

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   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135