genome.fa.s9.2.7.7.80.10.50.1000.13.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  13  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)
6390338--6390439	46	2.2	48	78	7	111	45	1	0	52	1.12
6390515--6390572	29	2.0	29	83	12	75	51	0	1	46	1.11
6396585--6396642	2	29.0	2	100	0	116	50	0	0	50	1.00
6400865--6400892	3	9.3	3	100	0	56	32	35	0	32	1.58
6421869--6421959	27	2.8	36	67	28	101	20	31	15	31	1.94
6421836--6421959	63	2.0	63	90	0	194	20	32	12	33	1.91
6422225--6422495	31	8.7	31	91	0	416	23	12	18	44	1.85
6426046--6426709	86	7.7	86	85	0	835	23	19	30	27	1.98
6428123--6428652	81	6.5	81	80	3	573	27	30	18	23	1.97
6428126--6428647	162	3.2	161	85	3	681	27	30	18	22	1.98
6430408--6430474	25	2.7	25	88	4	91	29	25	20	23	1.99
6430510--6431149	55	11.8	55	82	3	656	45	30	11	12	1.77
6430528--6431149	267	2.3	266	81	3	690	45	30	11	12	1.77
6430503--6431149	165	4.0	165	81	3	731	45	30	11	12	1.77
6431546--6431625	23	3.5	23	81	5	83	20	30	25	25	1.99
6431734--6431814	23	3.5	23	75	9	67	23	30	17	28	1.97
6431832--6431882	23	2.2	23	85	0	66	21	33	11	33	1.90
6431932--6431986	23	2.4	23	75	6	58	25	25	12	36	1.91
6431828--6432194	104	3.5	104	81	2	389	23	31	13	31	1.94
6432241--6432318	24	3.3	23	72	15	70	24	35	15	24	1.94
6432279--6432456	81	2.2	81	90	0	284	25	35	12	26	1.92
6432425--6432479	23	2.4	23	96	0	101	21	41	12	23	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6438550--6438705	49	3.2	49	88	1	240	32	12	12	42	1.79
6440095--6440154	16	3.8	15	71	18	50	48	6	6	38	1.56
6440086--6440149	32	2.0	32	100	0	128	50	6	6	37	1.53
6451676--6451708	15	2.3	15	89	5	50	81	0	3	15	0.80
6456471--6456558	10	7.4	12	83	13	71	50	1	0	47	1.08
6456481--6456557	2	39.0	2	92	7	131	50	0	0	48	1.01
6458792--6458849	27	2.1	27	83	0	71	41	1	1	55	1.20
6458963--6459018	27	2.0	27	83	13	69	48	1	1	48	1.22
6459133--6459166	8	4.1	8	88	3	50	47	0	2	50	1.16
6459216--6459335	43	2.6	45	75	11	111	50	1	1	46	1.21
6459287--6459341	23	2.3	23	78	9	58	47	1	1	49	1.23
6459389--6459580	100	1.9	100	94	2	341	33	10	22	32	1.88
6461526--6461555	15	2.1	14	93	6	51	83	0	3	13	0.77
6461617--6461665	25	2.0	25	87	0	71	53	4	2	40	1.32
6471707--6471738	5	6.2	5	92	7	55	56	0	43	0	0.99
6484775--6484801	4	6.8	4	100	0	54	51	22	25	0	1.48
6492814--6492853	21	2.0	19	90	9	62	50	2	0	47	1.14
6493065--6493141	33	2.3	33	95	0	136	40	9	6	44	1.62
6493215--6493271	30	1.9	30	88	0	87	54	8	7	29	1.58
6500610--6500654	2	22.5	2	100	0	90	48	0	0	51	1.00
6502541--6502600	2	30.0	2	80	12	70	48	6	0	45	1.29
6511293--6511325	12	2.6	13	85	4	50	66	3	0	30	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6525534--6525588	11	4.5	13	82	13	64	61	0	0	38	0.96
6525545--6525588	12	3.8	11	82	17	54	63	0	0	36	0.95
6525536--6525586	13	4.1	13	82	14	63	60	0	0	39	0.97
6538901--6538952	22	2.4	22	78	15	63	36	0	0	63	0.95
6539050--6539115	27	2.4	28	75	9	66	46	0	0	53	1.00
6539954--6540021	29	2.4	31	78	16	83	48	1	0	50	1.10
6540778--6541072	31	9.5	31	90	0	428	27	13	18	39	1.89
6544848--6545386	118	4.6	118	84	0	700	22	18	29	29	1.98
6545280--6545361	31	2.7	30	77	5	92	23	15	32	28	1.95
6547501--6547811	145	2.2	143	81	8	371	31	20	19	28	1.97
6549191--6549362	31	5.5	31	88	1	238	38	20	16	23	1.92
6550896--6550934	20	2.0	20	85	10	53	53	0	0	46	1.00
6555591--6555655	32	2.1	31	88	5	96	60	3	1	35	1.22
6569645--6569702	27	2.1	27	96	0	107	25	27	17	29	1.97
6589298--6589366	22	3.1	22	83	4	77	42	2	4	50	1.37
6589370--6589425	22	2.5	21	75	13	58	73	1	12	12	1.18
6589380--6589427	24	2.0	24	84	8	62	70	2	14	12	1.25
6592390--6592542	69	2.2	69	81	4	166	29	21	18	30	1.97
6608316--6608341	13	2.0	13	100	0	52	53	0	0	46	1.00
6629734--6629794	30	2.0	31	87	3	88	57	3	34	4	1.36
6639207--6639303	29	3.3	29	81	5	115	48	5	30	15	1.67
6639196--6639309	29	3.9	29	81	4	95	49	5	28	16	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6639935--6640066	41	3.2	41	77	6	160	32	6	6	53	1.54
6639920--6640034	41	2.8	39	74	7	122	28	7	8	54	1.59
6640023--6640156	66	2.0	67	94	1	234	36	6	5	51	1.51
6640675--6640726	25	2.1	24	82	3	59	53	7	23	15	1.67
6643513--6643567	26	2.1	27	82	3	67	38	16	14	30	1.89
6643635--6643908	103	2.7	102	81	3	307	44	12	18	24	1.84
6644881--6644990	14	7.4	16	64	27	64	44	10	29	16	1.80
6644869--6645008	29	4.8	29	88	0	181	45	10	27	16	1.79
6645238--6645322	35	2.4	35	80	0	89	21	17	15	45	1.85
6645273--6645365	35	2.7	35	79	0	96	19	18	17	45	1.86
6649608--6649650	15	2.8	15	86	10	52	55	2	2	39	1.25
6651423--6651569	73	2.0	73	95	0	267	25	17	19	38	1.93
6652066--6652186	4	30.2	4	88	6	102	38	0	9	50	1.42
6652082--6652198	24	5.0	24	80	15	154	35	0	12	50	1.47
6652062--6652200	70	2.0	69	100	0	269	35	1	11	50	1.48
6652070--6652190	12	10.2	12	79	10	117	37	0	10	50	1.43
6652090--6652198	4	26.8	4	88	5	94	33	0	13	50	1.48
6655785--6655811	14	1.9	14	100	0	54	14	14	0	70	1.17
6658124--6658303	95	1.9	94	97	1	342	37	14	12	35	1.84
6664594--6664644	2	26.0	2	96	4	95	49	0	0	50	1.00
6683193--6683220	14	2.0	14	100	0	56	57	0	0	42	0.99
6683859--6683892	12	2.7	13	86	9	52	0	26	0	73	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6683875--6683914	22	1.9	20	90	10	62	0	25	5	70	1.08
6687312--6687437	62	2.0	62	98	0	243	23	18	24	33	1.97
6694476--6694503	2	14.0	2	100	0	56	50	0	0	50	1.00
6697320--6697836	259	2.0	259	93	0	890	30	18	15	35	1.93
6698631--6698669	14	2.5	17	80	19	50	64	0	0	35	0.94
6698832--6698880	15	3.2	15	88	2	62	40	8	6	44	1.59
6699375--6699405	11	2.9	11	95	4	55	45	0	0	54	0.99
6700403--6700840	235	1.9	235	79	3	506	31	16	13	39	1.87
6700839--6700879	16	2.6	16	88	0	55	29	2	2	65	1.18
6701532--6701583	11	4.9	11	75	17	56	1	28	0	69	0.99
6701530--6701569	19	2.1	19	86	9	55	0	30	0	70	0.88
6701521--6701600	31	2.7	30	84	5	117	2	28	0	68	1.02
6701561--6701600	18	2.2	18	90	0	62	2	27	0	70	1.01
6702322--6702385	30	2.1	30	97	0	119	56	0	0	43	0.99
6702371--6702406	19	1.9	19	94	5	65	55	2	0	41	1.14
6726512--6726597	43	2.0	43	97	0	163	36	23	18	22	1.95
6729332--6729473	70	2.0	70	95	0	257	38	24	15	21	1.92
6743785--6743825	20	2.0	20	90	0	64	36	9	9	43	1.71
6744141--6744191	22	2.3	21	80	9	57	37	0	0	62	0.95
6744777--6744836	31	2.0	30	83	9	77	38	5	0	56	1.21
6777644--6777742	49	2.0	49	96	0	180	32	15	16	36	1.89
6778694--6778819	45	2.8	45	82	0	144	38	16	15	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6778792--6778862	24	3.0	24	85	0	88	45	18	15	21	1.86
6778874--6779050	29	6.3	29	72	16	124	38	12	12	35	1.83
6778976--6779076	29	3.6	28	80	7	89	36	10	10	41	1.75
6780041--6780088	2	24.0	2	100	0	96	50	0	0	50	1.00
6785236--6785282	22	2.1	23	84	11	62	48	17	6	27	1.71
6787654--6787722	29	2.4	29	80	4	68	34	14	8	42	1.77
6790738--6790766	15	2.0	15	93	6	51	0	17	0	82	0.66
6818567--6818813	26	10.4	25	70	15	145	24	12	26	36	1.91
6818567--6818749	73	2.6	71	83	3	226	24	12	25	37	1.90
6818706--6818815	23	4.7	23	75	12	84	24	13	28	33	1.93

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