genome.fa.s6.2.7.7.80.10.50.1000.19.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  19  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)
6317002--6317235	86	2.7	86	86	2	337	27	16	28	27	1.97
6320625--6320666	9	4.7	9	90	0	66	30	11	21	35	1.90
6320720--6320756	9	4.1	9	92	0	65	45	13	10	29	1.77
6320969--6321027	29	2.0	31	83	6	77	20	38	0	40	1.53
6325655--6325719	29	2.2	29	89	5	96	44	6	9	40	1.61
6326419--6326454	18	1.9	19	88	5	56	52	0	0	47	1.00
6326676--6326721	23	2.0	24	86	4	67	39	13	0	47	1.42
6328357--6328397	6	6.7	6	88	5	55	78	0	19	2	0.87
6331388--6331450	27	2.3	27	94	0	108	23	25	14	36	1.93
6333934--6333959	5	5.2	5	100	0	52	80	0	19	0	0.71
6333842--6334062	117	1.9	116	91	0	361	47	2	7	42	1.44
6334056--6334095	21	1.9	21	85	10	55	77	12	10	0	0.99
6334532--6334556	11	2.3	11	100	0	50	52	0	20	28	1.47
6335048--6335091	22	2.0	23	90	4	72	18	20	22	38	1.93
6344568--6344731	9	18.0	9	67	22	60	28	5	2	63	1.29
6344652--6344720	24	2.9	24	80	8	70	23	4	1	71	1.12
6353678--6353780	51	2.0	51	100	0	206	44	11	9	33	1.74
6354078--6354104	14	1.9	14	100	0	54	44	0	0	55	0.99
6360746--6360804	26	2.3	25	75	21	59	52	8	0	38	1.32
6371604--6371646	13	3.5	13	75	18	56	48	13	0	37	1.43
6371604--6371655	23	2.3	23	100	0	104	48	13	0	38	1.43
6371604--6371668	23	2.8	23	88	4	60	50	12	0	36	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6375698--6375722	6	4.2	6	100	0	50	80	0	0	20	0.72
6385425--6385594	89	1.9	89	89	2	261	38	17	10	33	1.84
6385752--6385809	27	2.1	27	87	0	80	62	1	0	36	1.06
6385825--6385870	19	2.3	20	89	10	69	58	0	2	39	1.10
6385864--6385901	19	2.0	19	100	0	76	57	10	10	21	1.61
6390876--6390901	13	2.0	13	100	0	52	30	15	30	23	1.95
6399069--6399109	21	2.0	21	90	4	66	41	4	14	39	1.67
6399951--6399996	22	2.0	23	87	4	67	15	4	32	47	1.65
6401049--6401084	15	2.4	15	100	0	72	30	0	5	63	1.17
6402289--6402326	19	2.1	18	90	5	58	65	2	5	26	1.27
6404650--6405087	44	9.5	44	68	15	217	33	19	19	27	1.96
6404675--6405049	94	4.0	93	77	3	308	33	20	17	28	1.95
6405007--6405181	94	1.9	94	84	4	237	29	17	23	29	1.97
6404869--6405217	138	2.5	138	82	3	364	30	19	20	28	1.97
6404587--6405267	232	2.9	228	73	10	583	31	19	20	28	1.97
6405202--6405314	50	2.3	50	84	6	149	30	13	21	34	1.91
6405219--6405331	50	2.3	50	83	6	122	33	14	20	31	1.92
6406569--6406608	21	1.9	21	85	10	55	15	20	17	47	1.83
6406768--6406808	16	2.5	17	80	11	50	29	12	2	56	1.49
6414146--6414181	18	2.0	18	100	0	72	22	27	16	33	1.95
6417202--6417236	18	1.9	18	94	0	61	65	14	5	14	1.44
6420409--6420700	3	97.3	3	93	4	500	66	0	0	32	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6420992--6421055	19	3.4	19	95	0	119	39	15	9	35	1.80
6421485--6421736	124	2.0	125	98	1	488	50	9	8	30	1.65
6435834--6435997	81	2.0	82	98	1	321	35	14	3	46	1.62
6440380--6440475	49	2.0	49	83	4	122	27	15	28	29	1.96
6443507--6443564	28	2.1	27	93	3	98	32	13	12	41	1.82
6453132--6453158	6	4.5	6	100	0	54	55	0	29	14	1.40
6453300--6453359	26	2.3	27	85	5	79	41	11	15	31	1.82
6461778--6461802	6	4.2	6	100	0	50	16	0	0	84	0.63
6481177--6481204	9	3.1	9	100	0	56	32	10	10	46	1.73
6489966--6490073	53	2.0	53	100	0	216	37	11	23	28	1.89
6494576--6494626	19	2.7	19	82	11	61	70	0	1	27	0.98
6494580--6494678	10	9.9	10	69	15	53	65	0	1	33	0.99
6494591--6494678	19	4.4	20	75	13	76	64	0	1	34	1.01
6494591--6494678	21	4.4	20	77	13	85	64	0	1	34	1.01
6494648--6494734	29	3.0	30	72	16	92	62	1	5	31	1.26
6494613--6494693	41	2.0	41	83	11	105	65	1	1	32	1.08
6494963--6495043	37	2.2	37	84	4	101	32	2	4	60	1.31
6500249--6500305	27	2.1	27	86	0	78	22	22	26	28	1.99
6500258--6500319	27	2.3	27	85	0	79	24	25	30	19	1.98
6500434--6500468	16	2.2	16	89	0	52	65	5	0	28	1.15
6500901--6500977	27	2.9	27	92	0	118	18	33	27	20	1.96
6507052--6507138	23	3.8	22	80	7	95	19	26	20	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6508061--6508085	13	1.9	13	100	0	50	48	0	16	36	1.46
6510882--6510984	41	2.5	41	82	0	98	35	29	18	16	1.93
6510894--6510987	41	2.3	41	84	0	125	35	28	20	15	1.94
6513500--6513555	23	2.5	22	75	18	60	46	10	1	41	1.49
6513560--6513589	15	2.0	15	93	0	51	33	6	23	36	1.81
6518905--6518938	2	18.0	2	88	11	54	47	0	0	52	1.00
6524964--6524999	16	2.3	16	90	4	56	66	2	5	25	1.27
6527879--6527940	30	2.1	30	96	0	115	43	3	27	25	1.70
6536973--6537020	24	2.0	25	83	4	62	50	10	14	25	1.74
6537138--6537295	76	2.1	78	97	2	302	38	1	7	52	1.38
6541714--6541753	14	2.9	14	84	0	53	42	17	7	32	1.77
6541679--6541745	34	1.9	35	87	3	100	46	11	8	32	1.72
6543025--6543110	33	2.7	32	77	13	95	44	18	9	27	1.80
6552500--6552550	22	2.3	22	96	0	93	39	1	31	27	1.68
6553307--6553432	61	2.1	61	80	3	137	43	15	3	37	1.65
6554780--6554816	2	18.5	2	100	0	74	0	48	0	51	1.00
6573380--6573441	30	2.1	30	84	6	81	58	14	3	24	1.51
6581652--6581690	2	19.5	2	100	0	78	51	0	0	48	1.00
6581803--6581861	29	2.0	29	100	0	118	49	10	3	37	1.54
6586337--6586394	30	1.9	30	86	6	82	25	5	15	53	1.63
6601964--6602012	21	2.3	21	85	0	62	32	2	4	61	1.26
6601974--6602016	21	2.0	21	90	0	68	32	0	6	60	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6608087--6608116	14	2.1	14	100	0	60	36	6	23	33	1.81
6611532--6611560	3	9.7	3	100	0	58	31	0	0	68	0.89
6628002--6628098	48	2.0	48	85	0	131	38	20	6	35	1.78
6630671--6630695	5	5.0	5	100	0	50	20	20	20	40	1.92
6632603--6632662	27	2.3	25	88	5	84	41	10	16	31	1.81
6634291--6634344	28	2.0	28	85	7	76	40	0	1	57	1.09
6634282--6634352	35	2.0	35	86	5	99	42	0	1	56	1.08
6634241--6634347	45	2.4	46	79	13	118	39	0	2	57	1.13
6638582--6638633	26	2.0	26	88	0	77	25	19	21	34	1.96
6647514--6647553	17	2.3	17	87	12	55	75	7	17	0	1.03
6651619--6651684	27	2.5	27	80	7	82	34	13	10	40	1.79
6652306--6652415	42	2.6	42	78	4	125	32	19	19	29	1.96
6655387--6655427	16	2.5	17	80	15	50	24	0	7	68	1.15
6655820--6655882	32	2.0	32	90	0	99	55	4	12	26	1.57
6656380--6656481	39	2.6	38	80	7	107	43	5	2	48	1.42
6656465--6656506	19	2.2	19	83	8	50	52	2	2	42	1.27
6656736--6656770	10	3.5	10	92	0	52	20	5	5	68	1.31
6669346--6669378	13	2.3	15	90	10	52	75	0	3	21	0.93
6669716--6669762	24	1.9	25	86	4	69	29	4	6	59	1.41
6673730--6673784	22	2.5	22	79	5	67	61	9	7	21	1.50
6676373--6676447	29	2.6	29	85	4	89	20	26	30	22	1.98
6676977--6677033	17	3.4	16	75	20	55	75	0	22	1	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6688627--6688720	41	2.3	41	92	0	170	25	27	20	26	1.99
6688627--6688745	41	2.9	41	86	2	123	26	27	19	26	1.99
6703506--6703569	27	2.4	27	87	10	87	23	35	17	23	1.95
6704962--6705129	81	2.1	81	96	0	309	29	11	16	42	1.84
6704962--6705151	81	2.3	81	88	3	222	29	13	17	39	1.88
6708306--6708331	2	13.0	2	100	0	52	50	0	0	50	1.00
6719155--6719185	15	2.0	16	93	6	55	51	0	0	48	1.00
6724343--6724396	21	2.6	21	90	0	90	11	38	20	29	1.87
6732585--6732618	16	2.1	17	88	5	52	38	0	0	61	0.96
6733657--6733738	38	2.1	38	84	9	101	60	2	4	31	1.30

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