genome.fa.s6.2.7.7.80.10.50.1000.95.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  95  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)
30234155--30234358	54	3.8	54	84	0	228	29	17	21	31	1.96
30236227--30236258	13	2.5	13	89	0	55	31	9	25	34	1.87
30247888--30247923	16	2.2	16	100	0	72	25	0	36	38	1.56
30255604--30255641	15	2.5	15	100	0	76	44	21	26	7	1.79
30259550--30259804	124	2.1	125	97	1	487	23	10	18	46	1.80
30271094--30271131	18	2.1	19	85	5	51	60	0	2	36	1.11
30279554--30279579	6	4.3	6	100	0	52	53	0	0	46	1.00
30280976--30281031	29	1.9	29	85	0	76	44	8	16	30	1.78
30281212--30281266	23	2.4	23	87	0	83	27	20	0	52	1.46
30288978--30289473	265	1.9	264	81	6	610	38	14	10	36	1.80
30290804--30290850	21	2.2	21	85	7	60	23	0	8	68	1.17
30297192--30297329	42	3.3	42	77	4	143	15	21	18	43	1.88
30297505--30297529	13	1.9	13	100	0	50	40	0	8	52	1.31
30300107--30300136	11	2.7	11	94	0	51	60	0	13	26	1.34
30300382--30300460	40	2.0	40	82	9	99	20	25	31	22	1.98
30300597--30300662	22	2.9	22	79	20	66	48	1	28	21	1.59
30301875--30302106	41	5.7	41	90	2	358	21	21	25	31	1.98
30302379--30302409	7	4.4	7	100	0	62	29	0	38	32	1.57
30303843--30303915	38	1.9	38	88	0	110	21	15	8	54	1.66
30304018--30304043	3	8.7	3	100	0	52	30	0	0	69	0.89
30305250--30305382	44	3.2	44	64	20	113	51	3	10	34	1.54
30305294--30305338	16	2.5	17	80	19	56	57	0	8	33	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30305455--30305541	3	28.0	3	74	15	70	60	2	3	33	1.26
30306306--30306332	14	1.9	14	100	0	54	74	0	3	22	0.98
30307721--30308150	216	2.0	215	99	0	851	30	14	13	41	1.85
30310539--30310613	25	3.2	24	80	12	77	56	1	6	36	1.34
30312168--30313372	132	9.1	132	91	1	1767	28	24	17	29	1.97
30323566--30323685	63	1.9	63	98	0	231	22	23	18	35	1.95
30323266--30324049	416	1.9	416	97	0	1478	21	23	18	36	1.95
30326521--30326664	50	2.9	50	85	5	200	25	22	30	20	1.98
30331551--30331604	24	2.2	25	83	9	67	48	0	9	42	1.35
30333141--30333216	30	2.5	31	89	6	118	56	6	3	32	1.43
30333429--30333492	24	2.7	24	80	0	74	53	7	4	34	1.51
30335845--30336369	106	5.1	105	81	8	593	36	15	17	29	1.91
30338074--30338117	20	2.2	20	88	8	63	63	4	31	0	1.14
30339101--30339204	51	2.0	51	94	0	181	19	19	20	41	1.91
30340597--30341072	104	4.5	104	87	6	654	29	19	14	36	1.92
30340597--30341072	214	2.3	208	90	4	715	29	19	14	36	1.92
30341445--30341497	7	7.1	7	87	8	70	16	45	0	37	1.48
30341546--30341580	14	2.5	14	90	0	52	20	60	2	17	1.49
30344228--30344568	153	2.3	149	85	8	435	55	7	8	28	1.56
30349529--30349558	16	1.9	16	93	6	53	73	0	0	26	0.84
30349473--30349867	122	3.2	122	99	0	772	54	2	6	36	1.38
30349651--30349680	16	1.9	16	93	6	53	73	0	0	26	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30349773--30349802	16	1.9	16	93	6	53	73	0	0	26	0.84
30350493--30350560	29	2.3	31	85	7	88	50	0	13	36	1.42
30351642--30351687	24	1.9	24	86	8	67	30	2	6	60	1.34
30355736--30355766	3	10.3	3	100	0	62	64	0	0	35	0.94
30355792--30356000	105	2.0	107	98	1	404	61	6	8	23	1.49
30356618--30356645	12	2.3	12	100	0	56	78	0	7	14	0.95
30367826--30367865	21	1.9	21	89	0	62	37	17	20	25	1.94
30384546--30384572	4	6.8	4	100	0	54	77	0	0	22	0.76
30385192--30385311	60	2.0	60	96	0	222	24	17	8	50	1.73
30395818--30395922	55	1.9	55	96	0	192	37	7	6	48	1.58
30402392--30402480	45	2.0	45	84	4	117	42	12	31	13	1.81
30407878--30408082	108	1.9	107	82	6	254	31	19	18	31	1.95
30410242--30410270	13	2.1	14	93	6	51	20	3	0	75	0.94
30412143--30412190	17	2.7	18	78	12	55	50	14	10	25	1.74
30414144--30414221	39	2.0	39	100	0	156	35	10	17	35	1.84
30414772--30414839	28	2.4	28	80	12	75	38	1	2	57	1.23
30415361--30415404	22	2.0	22	100	0	88	54	18	9	18	1.69
30418328--30418512	90	2.0	91	85	5	250	42	16	17	23	1.88
30427774--30427826	26	2.0	27	82	10	65	49	7	15	28	1.71
30429294--30429336	20	2.2	20	91	0	68	30	0	11	58	1.34
30430562--30430595	2	17.0	2	100	0	68	50	0	0	50	1.00
30431668--30431710	20	2.2	20	91	0	68	30	0	11	58	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30432936--30432969	2	17.0	2	100	0	68	50	0	0	50	1.00
30433646--30433673	2	14.0	2	100	0	56	50	0	0	50	1.00
30437585--30437853	129	2.1	129	92	1	450	19	18	20	40	1.91
30437576--30437862	45	6.5	45	89	5	444	20	18	20	40	1.91
30438061--30438919	109	7.9	109	99	0	1691	32	18	17	31	1.94
30439666--30439695	15	2.0	15	100	0	60	66	0	0	33	0.92
30446608--30446678	35	2.0	36	91	2	117	28	21	18	32	1.96
30447720--30447749	16	1.9	16	93	6	53	60	20	3	16	1.50
30451652--30451692	2	20.5	2	89	0	64	48	4	0	46	1.23
30452107--30452159	3	17.7	3	100	0	106	33	0	0	66	0.92
30455256--30455319	31	2.2	28	83	13	76	25	26	4	43	1.74
30458081--30458129	19	2.4	19	86	10	62	48	0	2	48	1.12
30460718--30460788	24	2.9	25	78	2	81	32	18	21	28	1.96
30462516--30462568	23	2.3	23	83	3	61	39	15	20	24	1.91
30469081--30469111	14	2.2	14	94	0	53	64	0	9	25	1.24
30469103--30469194	13	6.9	13	71	18	73	39	4	21	34	1.73
30469089--30469194	40	2.7	40	95	2	187	41	3	20	33	1.70
30471563--30471618	28	2.0	29	92	3	96	25	1	3	69	1.14
30471562--30471619	9	6.3	9	79	18	57	24	1	3	70	1.12
30473705--30473745	3	13.7	3	100	0	82	65	0	0	34	0.93
30473871--30473904	17	2.0	17	88	0	50	64	0	0	35	0.94
30474700--30474753	3	18.0	3	82	0	63	25	33	3	37	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30479266--30479309	6	7.3	6	81	0	52	22	40	0	36	1.54
30484923--30485113	97	2.0	96	84	1	247	34	10	21	32	1.89
30497289--30497342	24	2.2	24	83	6	65	27	0	31	40	1.57
30499537--30499609	26	2.8	26	87	0	92	30	19	12	38	1.88
30502337--30502403	29	2.3	28	77	10	71	56	10	4	28	1.52
30506233--30506298	33	2.0	34	90	3	107	33	3	7	56	1.43
30506731--30506787	20	2.8	21	81	10	73	40	21	7	31	1.80
30524490--30524539	16	3.1	16	75	16	50	56	0	2	42	1.11
30526500--30526562	21	3.0	20	74	21	65	53	4	6	34	1.47
30526481--30526596	42	2.7	45	75	12	118	58	6	4	30	1.43
30526604--30526628	2	12.5	2	100	0	50	52	0	0	48	1.00
30527888--30528004	58	2.0	59	98	1	227	47	5	8	39	1.56
30527896--30527985	27	3.2	27	63	22	67	47	3	10	38	1.53
30542848--30542908	26	2.3	26	86	8	79	59	1	0	39	1.08
30542856--30542906	10	5.8	9	78	19	54	60	1	0	37	1.08
30542856--30542908	17	3.1	16	81	10	61	60	1	0	37	1.08
30542861--30542918	27	2.2	26	81	6	73	65	1	0	32	1.03
30567446--30567604	84	1.9	84	100	0	318	40	8	11	39	1.72
30569284--30569321	18	2.1	18	100	0	76	21	5	21	52	1.66
30569576--30569609	11	3.1	11	100	0	68	35	11	8	44	1.72
30573546--30573612	34	1.9	35	84	3	91	46	10	10	32	1.72
30577513--30577543	3	10.3	3	100	0	62	32	0	32	35	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30580903--30580932	11	2.9	10	90	9	51	76	0	23	0	0.78
30585625--30585663	16	2.4	16	100	0	78	48	12	0	38	1.42
30586627--30586682	25	2.2	25	90	6	87	33	19	7	39	1.79
30595010--30595050	22	2.0	20	85	9	55	46	4	0	48	1.23
30604610--30604737	47	2.6	49	82	4	152	37	21	7	33	1.82
30608951--30608998	22	2.2	22	88	0	69	8	6	12	72	1.26
30610676--30610722	20	2.4	19	86	6	67	29	23	8	38	1.84
30614181--30614220	20	2.0	20	85	0	53	32	20	2	45	1.64
30634999--30635148	40	3.7	39	76	7	106	36	20	25	17	1.94
30635189--30635386	42	4.8	41	86	2	270	14	25	26	33	1.94

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