genome.fa.s6.2.7.7.80.10.50.1000.72.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: Chr1
Parameters: 2 7 7 80 10 50 1000
Length:  35726063

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   

This is table  72  of  109  ( 13028 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)
23205619--23205690	37	1.9	38	88	2	110	59	1	1	37	1.15
23211173--23211210	20	1.9	20	89	10	60	31	0	5	63	1.17
23215052--23215192	70	2.0	70	90	0	219	36	5	7	51	1.53
23215713--23215842	68	1.9	66	84	9	174	26	20	12	40	1.88
23225815--23225851	8	4.6	8	86	0	56	40	0	0	59	0.97
23231050--23231138	31	3.0	30	80	4	99	39	13	12	34	1.82
23231097--23231163	31	2.3	27	78	14	71	41	13	8	35	1.76
23232578--23232627	13	3.7	13	76	10	55	36	0	4	60	1.16
23233196--23233234	15	2.6	14	80	11	51	23	28	2	46	1.65
23233196--23233242	10	4.7	10	86	0	67	23	27	2	46	1.63
23238540--23238596	29	1.9	30	92	3	98	31	5	12	50	1.62
23238739--23238823	31	2.8	30	80	5	100	40	9	11	38	1.74
23239944--23240079	67	2.0	68	98	1	265	34	20	17	27	1.95
23240987--23241262	3	92.0	3	94	1	473	64	0	1	32	1.07
23242670--23242952	3	94.7	3	93	2	480	65	0	1	32	1.07
23255101--23255214	28	4.1	28	60	13	65	49	10	2	37	1.51
23255077--23255241	82	2.0	83	98	1	323	49	10	2	36	1.51
23258798--23258863	28	2.4	27	78	16	73	27	4	4	63	1.33
23261341--23261463	43	3.0	39	73	14	122	40	4	1	52	1.32
23261367--23261400	17	1.9	17	88	5	50	44	2	0	52	1.16
23265227--23265280	24	2.2	24	100	0	108	53	11	7	27	1.63
23266586--23266788	43	4.7	43	85	4	268	31	27	19	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23266586--23266788	85	2.4	87	87	5	288	31	27	19	22	1.98
23270528--23270577	24	2.1	24	100	0	100	30	8	26	36	1.85
23283756--23283814	28	2.1	29	83	3	75	61	8	6	23	1.49
23284162--23284202	18	2.3	18	86	0	55	9	7	9	73	1.26
23287648--23287702	26	2.3	22	77	20	56	63	9	23	3	1.40
23288016--23288061	8	5.8	8	80	10	58	80	2	17	0	0.81
23292304--23292448	61	2.4	61	81	2	175	42	14	4	38	1.67
23295834--23295875	20	2.1	20	95	0	75	52	11	9	26	1.68
23301489--23301519	2	15.5	2	100	0	62	48	0	0	51	1.00
23321701--23321733	2	16.5	2	100	0	66	48	0	0	51	1.00
23322075--23322104	4	7.5	4	100	0	60	26	0	0	73	0.84
23326585--23326622	18	2.1	18	100	0	76	44	10	21	23	1.83
23332132--23332191	9	6.4	9	74	14	59	70	0	1	28	0.97
23332076--23332189	38	2.8	38	89	9	156	64	0	1	33	1.04
23332141--23332218	29	2.7	29	82	9	81	66	0	3	29	1.09
23332100--23332202	38	2.6	40	90	7	174	64	0	2	33	1.09
23332205--23332237	7	5.0	7	92	7	52	84	0	0	15	0.61
23332207--23332236	6	4.8	6	95	4	51	86	0	0	13	0.57
23332414--23332450	16	2.3	17	86	9	51	45	2	0	51	1.15
23332847--23332885	21	1.9	20	89	5	60	53	2	2	41	1.28
23333950--23334169	54	4.1	54	99	0	431	45	10	11	31	1.75
23340469--23340496	2	14.0	2	100	0	56	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23341964--23342040	4	19.2	4	94	0	136	49	23	1	25	1.58
23342061--23342096	2	18.0	2	100	0	72	50	0	50	0	1.00
23344450--23344505	29	1.9	29	85	0	76	35	12	10	41	1.78
23346514--23346565	25	2.1	25	85	0	68	61	9	3	25	1.44
23350528--23350714	47	4.0	47	95	2	315	24	19	16	39	1.92
23354834--23354885	24	2.2	24	89	0	77	53	7	3	34	1.48
23355219--23355269	25	2.0	25	100	0	102	56	7	0	35	1.28
23355421--23355450	14	2.1	14	93	0	51	66	3	30	0	1.07
23357983--23358355	44	8.6	43	75	14	302	27	24	21	27	1.99
23358018--23358355	89	3.9	89	72	14	285	26	25	20	27	1.99
23357984--23358433	216	2.1	217	96	0	821	27	23	21	27	1.99
23357983--23358433	44	10.4	42	71	11	277	27	23	21	27	1.99
23358429--23358786	132	2.7	132	96	0	646	24	24	21	29	1.99
23358512--23358694	44	4.2	44	66	13	133	24	24	21	28	1.99
23366318--23366430	19	5.8	19	87	4	163	34	15	11	38	1.83
23366318--23366429	40	2.8	40	91	2	183	34	14	11	39	1.82
23367175--23367255	29	2.8	29	75	1	81	25	2	16	55	1.53
23370535--23370581	22	2.1	23	88	4	69	55	8	10	25	1.62
23377397--23377427	16	1.9	16	93	0	53	38	6	0	54	1.26
23379454--23379600	72	2.0	73	98	1	287	36	22	4	36	1.73
23389449--23389548	30	3.3	30	87	0	128	35	14	24	27	1.93
23401156--23401203	6	8.0	6	100	0	96	50	16	0	33	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23402264--23402383	43	2.8	42	76	8	116	30	28	19	21	1.97
23404753--23404824	24	3.2	22	81	13	83	54	0	4	41	1.20
23404773--23404834	24	2.4	27	81	15	94	59	0	3	37	1.13
23404773--23404825	24	2.3	23	93	6	97	58	0	3	37	1.16
23408309--23408426	43	2.7	43	78	12	143	22	18	29	29	1.97
23409333--23409645	23	13.4	23	73	7	202	28	11	17	42	1.84
23409316--23409650	47	7.1	47	83	2	431	28	12	17	42	1.85
23409320--23409650	93	3.5	94	93	1	540	28	12	17	42	1.85
23409316--23409645	140	2.4	139	84	3	428	28	12	17	42	1.85
23410348--23410387	21	1.9	21	90	10	64	15	17	42	25	1.88
23412501--23412544	2	21.5	2	95	4	79	47	0	2	50	1.13
23425604--23425650	21	2.2	21	78	14	53	27	4	19	48	1.67
23427831--23427874	21	2.1	21	83	8	54	13	4	31	50	1.62
23440587--23440621	18	1.9	18	88	0	52	48	2	17	31	1.61
23443097--23443305	106	2.0	106	93	1	357	30	12	18	38	1.88
23446973--23447123	73	2.1	73	97	0	284	21	10	18	49	1.77
23452217--23452307	46	2.0	47	84	2	121	41	9	18	29	1.83
23452217--23452308	47	2.0	47	82	4	114	42	9	18	29	1.82
23460152--23460195	23	2.0	22	86	4	61	59	2	6	31	1.36
23462615--23462783	69	2.4	69	92	0	275	41	11	8	37	1.73
23474444--23474845	176	2.3	177	93	2	673	26	11	22	38	1.89
23484060--23484190	65	2.0	65	89	0	199	25	14	18	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23484071--23484205	65	2.1	65	83	2	164	26	15	19	38	1.91
23484227--23484306	31	2.6	30	86	2	106	41	10	13	35	1.78
23489402--23489444	20	2.2	20	95	0	77	23	16	16	44	1.86
23496100--23496154	23	2.4	23	77	16	62	70	3	0	25	1.03
23496381--23496424	6	7.2	6	87	12	63	47	2	2	47	1.27
23496903--23497108	65	3.2	65	89	0	304	36	12	13	38	1.81
23497609--23497670	30	2.0	30	84	9	79	46	0	1	51	1.10
23507335--23507374	16	2.4	17	83	4	55	75	7	15	2	1.14
23511835--23511873	16	2.4	16	82	0	51	74	7	15	2	1.15
23515087--23515149	15	4.1	17	73	19	66	30	0	25	44	1.54
23515088--23515162	30	2.4	30	86	4	105	30	0	24	45	1.53
23517986--23518096	57	1.9	57	98	0	213	47	3	9	38	1.54
23519973--23520010	17	2.2	18	85	4	51	10	7	2	78	1.04
23523624--23523656	8	4.1	8	88	11	50	12	3	0	84	0.72
23523628--23523663	17	2.2	17	90	5	56	8	8	0	83	0.82
23528950--23529016	15	4.3	15	75	19	57	29	2	25	41	1.70
23534130--23534270	71	2.0	71	81	2	167	29	12	17	41	1.86
23537723--23537902	92	2.0	92	92	0	297	35	12	21	31	1.91
23546229--23546266	2	19.0	2	100	0	76	50	0	0	50	1.00
23548098--23548128	6	5.2	6	92	0	53	0	32	48	19	1.49
23555054--23555078	11	2.3	11	100	0	50	56	16	0	28	1.41
23557248--23557286	2	19.5	2	100	0	78	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23574031--23574087	25	2.3	25	78	6	62	40	0	1	57	1.09
23582116--23582141	11	2.4	11	100	0	52	38	7	0	53	1.30
23585404--23585439	17	2.1	17	89	0	54	47	2	8	41	1.48
23586475--23586601	60	2.2	59	86	2	175	32	18	11	38	1.85
23586491--23586616	60	2.1	60	83	5	157	31	15	9	42	1.79
23587247--23587306	31	1.9	31	83	6	77	33	5	16	45	1.69
23592822--23593025	94	2.2	92	86	3	286	23	8	24	43	1.82
23593844--23593993	50	3.0	50	100	0	300	44	10	18	28	1.81
23595423--23595478	25	2.3	25	81	9	62	19	3	7	69	1.27
23595593--23595631	19	2.1	19	85	0	51	74	5	0	20	1.01

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