genome.fa.s9.2.7.7.80.10.50.1000.8.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  8  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)
3825744--3825791	14	3.4	13	76	20	51	50	2	2	45	1.25
3825870--3826032	45	3.6	45	80	2	184	40	14	14	30	1.86
3825861--3826032	91	1.9	90	83	3	220	39	15	14	30	1.87
3825961--3826051	24	3.9	24	69	13	73	42	13	15	28	1.84
3826030--3826139	45	2.4	45	90	0	166	36	16	18	29	1.92
3825916--3826213	114	2.6	114	82	2	366	38	16	16	28	1.91
3826077--3826279	69	2.9	69	83	6	243	38	16	17	27	1.91
3826215--3826306	45	2.0	45	87	0	130	33	13	18	34	1.89
3826324--3826468	29	5.3	26	75	17	107	40	13	12	33	1.81
3826372--3826437	32	2.1	32	91	0	105	36	10	15	37	1.82
3826347--3826468	29	4.3	27	80	12	122	38	12	13	36	1.82
3826347--3826468	61	2.1	54	81	14	131	38	12	13	36	1.82
3859154--3859278	62	2.0	62	96	0	232	48	19	18	13	1.80
3860474--3860508	2	17.5	2	100	0	70	0	51	0	48	1.00
3884523--3884561	18	2.1	19	85	4	53	51	0	2	46	1.14
3885703--3885986	141	2.0	143	86	5	407	42	7	8	41	1.62
3892199--3892355	74	2.1	73	86	5	210	32	15	15	36	1.89
3921303--3921416	30	3.8	30	70	4	86	23	28	20	27	1.99
3921384--3921471	45	2.0	45	100	0	176	21	31	18	28	1.97
3921381--3921499	45	2.6	45	89	0	157	22	28	20	28	1.98
3921474--3921575	15	6.8	15	78	4	107	26	16	20	36	1.94
3921381--3921575	30	6.5	30	72	1	122	24	24	19	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3934547--3934575	2	14.5	2	100	0	58	51	0	0	48	1.00
3935486--3935551	27	2.4	27	84	0	87	36	4	12	46	1.61
3937204--3937238	2	17.5	2	100	0	70	51	0	0	48	1.00
3937266--3937298	2	16.5	2	100	0	66	51	0	0	48	1.00
3938201--3938246	21	2.1	22	88	4	67	63	0	0	36	0.95
3938201--3938248	20	2.5	20	86	10	64	60	0	0	39	0.97
3946413--3946497	41	2.1	41	88	0	125	37	15	15	31	1.88
3960198--3960242	9	5.2	9	77	20	51	28	0	0	71	0.87
3960195--3960233	16	2.4	16	87	8	53	35	0	0	64	0.94
3960198--3960245	25	1.9	25	95	0	87	29	0	0	70	0.87
3960206--3960243	16	2.4	16	91	8	60	28	0	0	71	0.87
3960381--3960431	22	2.4	21	87	9	68	54	0	0	45	0.99
3960381--3960429	10	4.5	11	76	18	50	53	0	0	46	1.00
3993807--3993923	58	2.0	58	96	0	216	49	14	6	29	1.69
3994212--3994408	65	3.0	65	95	0	349	45	9	12	32	1.74
3994745--3994848	53	2.0	53	88	0	154	14	5	34	45	1.69
3995799--3995838	18	2.3	17	87	12	55	82	0	5	12	0.82
3997369--3997399	16	1.9	16	93	0	53	67	0	19	12	1.22
3997563--3997587	8	3.1	8	100	0	50	36	12	12	40	1.79
3997595--3997634	1	40.0	1	94	0	71	2	0	0	97	0.17
3997592--3997634	21	2.0	21	100	0	86	4	0	0	95	0.27
3997596--3997635	20	2.0	20	100	0	80	5	0	0	95	0.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4001827--4001902	39	1.9	39	97	0	143	57	9	11	21	1.61
4002155--4002193	20	1.9	20	84	5	51	51	0	7	41	1.31
4002442--4002631	92	2.1	92	84	4	240	38	5	16	39	1.72
4002805--4002840	18	2.0	18	89	10	56	61	0	0	38	0.96
4006383--4006430	20	2.4	20	92	0	78	64	10	6	18	1.45
4009848--4009906	29	2.0	31	86	6	86	1	32	3	62	1.21
4010633--4010811	96	1.9	96	84	0	241	15	12	19	52	1.74
4010860--4010952	47	2.0	46	97	2	177	27	15	6	50	1.68
4024226--4024282	14	4.1	14	77	8	53	54	1	1	42	1.21
4024306--4024337	13	2.4	14	90	10	50	34	0	0	65	0.93
4025521--4025555	17	1.9	19	88	11	56	8	11	11	68	1.39
4029481--4029527	2	24.0	2	95	4	87	0	51	0	48	1.00
4074222--4074246	8	3.1	8	100	0	50	40	0	24	36	1.55
4078876--4078939	28	2.3	28	94	0	110	46	37	7	7	1.62
4092501--4092598	42	2.4	43	81	10	107	45	5	3	45	1.40
4093479--4093511	17	1.9	17	93	0	57	36	0	3	60	1.12
4096166--4096197	6	5.2	6	96	3	55	3	46	0	50	1.17
4107044--4107103	14	4.1	14	72	12	50	28	0	1	70	0.97
4110851--4110948	51	1.9	51	97	0	187	19	27	16	36	1.93
4112847--4112878	2	16.0	2	93	0	55	46	0	3	50	1.17
4114278--4114309	14	2.2	15	94	5	57	21	3	0	75	0.95
4119191--4119280	24	3.8	24	66	0	63	46	12	18	22	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4119436--4119511	2	38.5	2	87	7	111	48	1	1	47	1.18
4122576--4122601	13	2.0	13	100	0	52	23	23	23	30	1.99
4124858--4124887	15	2.0	15	93	0	51	33	0	10	56	1.32
4127092--4127133	13	3.4	12	81	12	50	76	0	0	23	0.79
4127092--4127152	16	3.8	16	70	12	54	72	0	1	26	0.94
4127125--4127162	19	2.0	20	84	5	51	68	0	2	28	1.03
4128273--4128341	3	23.3	3	78	14	72	65	2	1	30	1.16
4130856--4130927	30	2.3	30	81	9	83	23	5	0	70	1.08
4130864--4130932	18	3.9	17	72	24	54	23	5	0	71	1.08
4133147--4133200	9	5.8	9	89	8	72	11	3	1	83	0.85
4133146--4133200	10	5.7	10	84	4	60	10	3	1	83	0.84
4133159--4133225	25	2.7	26	79	6	66	14	2	4	77	1.05
4140463--4140522	14	4.3	14	74	6	50	21	3	0	75	0.95
4140450--4140529	34	2.5	31	78	13	81	25	2	0	72	0.97
4140572--4140615	3	14.3	3	81	13	54	31	2	0	65	1.05
4140579--4140615	9	3.9	10	89	10	60	29	0	0	70	0.88
4141450--4141492	15	2.9	15	86	3	52	20	0	2	76	0.89
4141464--4141508	23	2.0	23	82	8	56	24	0	2	73	0.95
4157068--4157588	268	2.0	266	93	1	900	44	5	5	44	1.49
4169753--4169802	2	25.5	2	91	4	84	50	2	0	48	1.12
4171086--4171120	3	11.7	3	93	0	61	37	0	0	62	0.95
4178979--4179048	35	2.0	35	88	0	104	38	18	15	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4183087--4185023	967	2.0	967	98	0	3705	30	16	19	33	1.94
4196139--4196226	22	4.0	22	86	2	97	27	11	17	44	1.82
4196273--4196331	23	2.6	23	86	0	64	35	8	20	35	1.83
4196331--4196383	22	2.4	22	75	12	54	41	16	11	30	1.84
4196432--4196484	22	2.4	22	80	0	61	52	18	5	22	1.66
4210520--4210569	2	25.0	2	95	0	91	50	2	0	48	1.12
4221339--4221365	2	13.5	2	100	0	54	0	48	0	51	1.00
4227231--4227292	22	2.7	23	77	5	72	48	3	0	48	1.17
4227191--4227407	112	1.9	116	85	5	309	41	1	2	53	1.24
4227321--4227373	27	2.0	27	100	0	106	47	0	3	49	1.19
4227234--4227515	130	2.1	129	81	12	324	44	1	2	51	1.23
4227321--4227494	27	6.6	27	73	20	95	44	1	2	51	1.23
4229512--4229536	3	8.3	3	100	0	50	36	0	32	32	1.58
4235884--4235950	35	2.1	33	81	13	77	59	1	1	37	1.16
4254119--4254196	36	2.2	36	100	0	156	34	17	11	35	1.86
4255086--4255229	47	3.1	47	86	0	207	12	13	32	41	1.81
4264099--4264137	20	2.0	19	85	5	51	53	0	0	46	1.00
4265541--4265573	6	5.7	6	85	7	50	3	15	0	81	0.80
4289810--4289929	2	60.0	2	92	0	186	45	0	1	50	1.11
4300098--4300182	41	2.1	41	84	6	111	44	15	8	31	1.76
4300098--4300182	40	2.1	40	84	6	109	44	15	8	31	1.76
4300603--4300669	27	2.6	25	76	9	71	56	1	2	38	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4302649--4302682	15	2.2	16	89	5	52	50	0	2	47	1.16
4316717--4316757	21	2.0	21	85	9	57	24	12	14	48	1.78
4317334--4317373	21	1.9	21	84	0	53	75	0	22	2	0.93
4320387--4320429	3	14.7	3	90	4	70	67	0	32	0	0.91
4324024--4324067	23	2.0	23	86	13	65	45	0	0	54	0.99
4328917--4328967	18	3.1	18	78	21	74	43	5	9	41	1.62
4328928--4328957	14	2.1	14	100	0	60	40	6	6	46	1.56
4330835--4330866	2	16.0	2	100	0	64	50	0	0	50	1.00
4338191--4338217	2	13.5	2	100	0	54	51	0	48	0	1.00
4344896--4344978	30	2.8	30	76	7	96	24	7	15	53	1.67

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