genome.fa.s5.2.7.7.80.10.50.1000.78.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: Chr4
Parameters: 2 7 7 80 10 50 1000
Length:  30015117

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   

This is table  78  of  85  ( 10117 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)
27105234--27105269	3	12.0	3	93	0	63	66	2	0	30	1.06
27112081--27112178	48	2.0	48	94	3	171	32	7	14	45	1.72
27115838--27116678	429	2.0	428	99	0	1657	18	32	13	34	1.90
27126528--27126625	11	9.4	11	70	23	61	57	0	3	39	1.14
27126513--27126636	31	3.7	31	75	18	122	56	0	3	40	1.15
27126528--27126625	40	2.4	42	88	6	148	57	0	3	39	1.14
27129933--27129961	14	2.0	15	93	6	51	44	20	6	27	1.77
27131625--27131682	26	2.2	27	96	3	109	44	12	3	39	1.58
27137766--27137857	42	2.2	42	86	0	121	22	31	27	18	1.97
27139136--27139188	25	2.2	25	82	3	63	24	24	24	26	2.00
27143257--27143314	27	2.1	28	87	6	84	41	39	5	13	1.67
27143277--27143333	21	2.8	20	76	12	62	45	35	3	15	1.64
27144028--27144121	9	10.4	9	88	4	136	23	8	24	43	1.81
27163894--27163920	14	1.9	14	100	0	54	40	0	14	44	1.46
27168331--27168362	6	5.3	6	96	0	55	34	18	34	12	1.89
27168363--27168387	4	6.2	4	100	0	50	24	24	52	0	1.48
27170287--27170332	19	2.3	20	78	17	51	50	0	2	47	1.13
27171144--27171181	15	2.5	15	83	16	51	34	0	2	63	1.09
27174781--27174829	25	2.0	25	83	0	62	38	0	16	44	1.48
27176174--27176283	25	4.4	24	77	13	98	23	25	19	31	1.98
27176174--27176283	50	2.2	50	86	3	150	23	25	19	31	1.98
27178269--27178345	15	5.3	14	72	22	52	58	0	15	25	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27178242--27178370	43	3.0	43	87	0	177	54	2	20	23	1.56
27179621--27179717	49	2.0	49	85	4	133	46	7	21	24	1.76
27186344--27186384	18	2.3	18	100	0	82	31	9	12	46	1.74
27203940--27203975	15	2.5	14	86	8	54	44	8	0	47	1.33
27204795--27204845	21	2.4	21	93	0	93	62	7	29	0	1.23
27215631--27215669	19	2.1	19	90	4	62	58	7	10	23	1.56
27222430--27222467	16	2.5	15	84	16	51	39	21	5	34	1.76
27224257--27224306	20	2.4	20	86	6	64	60	2	32	6	1.32
27227879--27227907	14	2.1	14	100	0	58	34	34	6	24	1.82
27232669--27233021	175	2.0	175	99	0	697	35	26	16	21	1.94
27234697--27234923	29	7.8	29	82	5	187	23	25	12	37	1.91
27234701--27234923	58	3.8	57	78	7	207	23	26	12	37	1.90
27251366--27251391	7	3.7	7	100	0	52	30	11	0	57	1.34
27260248--27260277	13	2.3	13	94	0	51	6	10	16	66	1.41
27260626--27260709	37	2.2	37	95	2	150	48	8	16	26	1.74
27267398--27267848	225	2.0	225	99	0	884	31	11	17	38	1.86
27268841--27268889	20	2.5	20	80	6	55	46	16	4	32	1.65
27280679--27280706	10	2.8	10	100	0	56	42	0	21	35	1.53
27283524--27283599	40	1.9	40	94	0	134	40	7	17	34	1.78
27292000--27292042	21	2.0	22	86	4	61	34	4	25	34	1.77
27295964--27295996	17	1.9	17	93	0	57	27	24	12	36	1.91
27297063--27297201	69	2.0	69	85	5	190	48	13	14	23	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27297537--27297605	20	3.2	21	75	21	63	44	2	1	50	1.25
27301893--27301934	16	2.6	16	82	17	59	69	0	0	30	0.89
27302036--27302102	33	2.0	33	100	0	134	35	0	14	49	1.44
27304837--27304957	61	2.0	61	86	0	170	40	13	4	42	1.63
27308541--27308665	63	2.0	63	93	0	214	24	15	9	50	1.73
27322064--27322355	51	5.8	50	76	6	275	28	15	26	29	1.96
27322064--27322345	102	2.8	102	89	2	408	29	15	26	28	1.96
27324119--27324153	18	1.9	18	100	0	70	8	28	0	62	1.24
27327525--27327590	32	2.1	32	91	0	105	27	3	15	54	1.55
27355291--27355348	9	6.4	9	81	0	62	31	8	18	41	1.81
27361437--27361490	27	2.0	27	82	17	67	59	7	7	25	1.51
27368645--27368714	37	1.9	37	97	2	133	35	2	15	45	1.61
27370737--27370785	20	2.4	20	89	3	71	36	0	2	61	1.08
27379402--27379431	15	2.0	15	93	0	51	40	23	23	13	1.90
27379497--27379695	42	4.7	43	78	6	138	24	21	22	31	1.98
27385219--27385490	9	31.9	9	74	14	247	32	2	18	46	1.63
27385298--27385490	43	4.5	43	80	10	236	32	2	18	47	1.60
27385208--27385529	52	6.3	53	80	9	275	33	2	18	45	1.62
27385480--27385512	12	2.8	12	100	0	66	39	0	18	42	1.50
27387631--27387921	114	2.6	114	78	7	295	42	20	15	21	1.89
27388184--27388348	49	3.3	49	65	20	122	36	32	3	27	1.72
27388162--27388374	103	2.1	103	92	1	365	38	31	3	26	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27388362--27388631	7	38.3	7	70	10	111	46	32	2	18	1.62
27388162--27388403	103	2.3	103	88	4	328	41	30	2	24	1.70
27388366--27388443	41	1.9	41	84	5	104	52	32	1	14	1.49
27388363--27388643	21	13.2	21	71	13	157	47	31	2	19	1.61
27388665--27388721	22	2.6	21	83	10	69	35	42	7	15	1.75
27388927--27389385	114	4.0	113	89	2	632	26	28	21	23	1.99
27389290--27389451	74	2.2	74	85	3	211	28	24	20	26	1.99
27389176--27389535	188	1.9	188	87	2	535	26	25	21	25	2.00
27403777--27403802	13	2.0	13	100	0	52	15	15	0	69	1.20
27403786--27403889	50	2.0	52	88	3	158	29	17	7	45	1.76
27405615--27405649	18	2.0	18	88	5	54	40	28	2	28	1.71
27411426--27411561	9	15.2	9	76	13	129	33	1	18	46	1.58
27411552--27411615	16	4.1	16	76	11	62	32	3	14	50	1.58
27411564--27411626	14	4.5	14	72	18	51	34	0	14	50	1.43
27411564--27411633	33	2.3	30	80	9	79	35	0	12	51	1.40
27411674--27411707	17	1.9	18	88	5	52	55	0	5	38	1.24
27411682--27411724	15	2.9	15	89	0	59	58	0	4	37	1.19
27411715--27411811	43	2.1	43	83	9	113	38	2	15	44	1.58
27414572--27414657	39	2.2	40	81	6	104	50	20	2	26	1.61
27414748--27415068	116	2.8	114	76	10	298	29	22	17	31	1.96
27426858--27426888	11	2.7	12	90	10	55	25	0	0	74	0.82
27431190--27431293	41	2.5	41	84	9	124	26	25	20	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27431230--27431315	41	2.1	41	88	0	127	31	22	17	29	1.96
27433673--27433704	15	2.1	15	94	0	55	15	6	9	68	1.36
27435334--27435423	31	2.7	33	73	16	87	42	3	2	52	1.30
27435427--27435581	77	2.0	78	96	1	285	25	23	20	30	1.98
27436982--27437316	50	6.7	50	74	1	242	22	26	23	28	1.99
27436982--27437333	149	2.4	149	99	0	695	21	26	23	28	1.99
27440076--27440133	24	2.5	24	88	2	82	46	8	12	32	1.71
27441961--27442026	31	2.1	32	82	2	80	40	16	13	28	1.87
27448586--27448713	67	1.9	67	81	7	154	25	21	17	35	1.95
27450990--27451048	31	1.9	31	92	0	100	33	1	6	57	1.35
27451724--27451796	25	2.9	25	79	4	85	21	23	20	34	1.97
27453841--27453888	10	4.6	10	85	10	60	62	2	2	33	1.18
27458974--27459004	16	1.9	16	100	0	62	38	9	0	51	1.35
27459858--27459929	36	2.0	36	100	0	144	38	11	5	44	1.63
27468517--27468550	15	2.3	15	89	0	50	26	17	14	41	1.88
27470555--27470660	51	2.1	51	96	0	194	33	9	18	37	1.83
27483898--27483955	26	2.2	26	90	3	89	36	13	22	27	1.92
27483881--27483955	27	2.8	27	84	6	91	36	14	22	26	1.93
27486418--27486465	15	3.5	15	67	21	50	56	14	10	18	1.66
27486421--27486474	26	2.1	26	100	0	108	55	11	11	22	1.66
27486911--27487000	37	2.5	36	78	7	92	37	17	17	26	1.93
27489156--27489241	38	2.2	38	87	6	120	25	9	30	34	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27497621--27497673	18	2.9	18	74	15	56	24	1	5	67	1.22
27497919--27497947	2	14.5	2	100	0	58	48	0	0	51	1.00
27501167--27501871	351	2.0	351	98	0	1374	31	14	22	31	1.94
27513685--27513767	26	3.2	26	83	5	107	33	25	24	16	1.96
27522894--27522968	26	2.9	26	80	2	89	32	24	25	18	1.97
27523041--27523087	24	2.0	25	87	8	71	40	17	25	17	1.90
27536167--27536205	19	2.1	19	100	0	78	25	15	20	38	1.92
27536831--27536861	5	6.2	5	100	0	62	41	19	19	19	1.90
27537883--27537919	9	4.1	9	92	0	65	29	10	13	45	1.77
27537972--27538020	9	5.4	9	85	0	71	38	20	12	28	1.89

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