genome.fa.s64.2.7.7.80.10.50.1000.35.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: Scaffold64
Parameters: 2 7 7 80 10 50 1000
Length:  7997333

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   

This is table  35  of  45  ( 5312 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)
6183624--6183685	20	3.0	22	76	9	67	58	1	0	40	1.08
6183571--6183687	49	2.4	49	81	9	132	58	0	0	41	1.04
6189466--6189513	2	24.0	2	100	0	96	50	0	0	50	1.00
6192181--6192224	2	22.0	2	95	0	79	47	0	52	0	1.00
6192878--6192961	15	5.4	15	76	8	69	57	3	3	35	1.34
6192878--6192961	16	5.4	16	81	1	73	57	3	3	35	1.34
6192874--6192961	32	2.8	30	81	3	95	59	3	3	34	1.31
6195941--6195987	2	23.5	2	100	0	94	51	0	0	48	1.00
6197329--6197367	19	2.2	17	86	9	51	64	2	0	33	1.08
6200779--6200825	21	2.3	21	82	10	62	44	4	19	31	1.70
6200947--6200985	13	3.0	13	92	0	60	35	12	17	33	1.88
6207173--6207198	13	2.0	13	100	0	52	30	15	15	38	1.88
6207898--6207938	20	2.0	20	85	9	55	65	0	4	29	1.13
6208401--6208443	22	2.0	22	85	0	59	27	2	0	69	1.00
6208721--6208769	26	1.9	25	87	4	71	67	4	10	18	1.36
6208971--6209024	22	2.4	23	87	3	74	55	3	0	40	1.17
6209013--6209047	14	2.5	14	90	0	52	40	2	5	51	1.40
6209197--6209241	17	2.6	17	85	0	63	42	4	4	48	1.43
6210555--6210585	16	1.9	16	100	0	62	64	0	3	32	1.09
6213964--6214098	51	2.7	51	89	1	200	44	11	16	28	1.81
6214064--6214138	20	3.8	20	80	0	96	46	12	8	33	1.70
6216699--6216840	57	2.5	59	80	7	175	47	10	10	31	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6217632--6218213	166	3.5	163	80	6	555	29	10	8	50	1.67
6218444--6218475	2	16.0	2	100	0	64	0	50	0	50	1.00
6218891--6218926	12	3.2	12	92	7	58	72	0	13	13	1.13
6221774--6221972	58	3.4	58	79	4	186	50	11	10	28	1.71
6225528--6225583	26	2.2	26	100	0	112	23	14	10	51	1.73
6229310--6229342	12	2.7	12	95	4	57	45	24	0	30	1.53
6230875--6230915	18	2.3	17	87	8	55	17	4	12	65	1.42
6240360--6240394	10	3.5	10	88	0	52	45	0	0	54	0.99
6240352--6240442	6	14.8	6	72	26	59	48	1	0	50	1.08
6240394--6240442	14	3.5	13	83	10	62	51	2	0	46	1.12
6240879--6241239	196	1.8	196	84	7	491	40	2	4	52	1.35
6241259--6241303	22	2.1	21	84	12	56	68	0	0	31	0.89
6242175--6242319	50	2.9	50	78	12	152	36	13	22	26	1.92
6242175--6242319	51	2.9	51	81	6	134	36	13	22	26	1.92
6242330--6242431	51	2.0	51	88	0	150	35	11	23	29	1.90
6242093--6242442	180	1.9	180	82	5	429	36	12	22	28	1.90
6242201--6242526	130	2.5	129	82	3	377	34	12	23	29	1.92
6242496--6242553	28	2.0	30	90	10	93	31	8	27	32	1.87
6242384--6242684	158	1.9	158	87	2	444	32	12	24	30	1.92
6242384--6242692	79	3.9	80	81	3	374	33	13	23	29	1.93
6245053--6245104	20	2.6	20	93	0	86	42	11	17	28	1.84
6245705--6245783	34	2.3	34	86	4	106	39	17	26	16	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6245764--6245874	42	2.6	42	87	5	145	43	14	26	16	1.86
6245882--6246337	61	7.4	60	87	2	579	27	18	27	26	1.98
6247308--6247359	14	3.8	13	83	16	61	0	7	5	86	0.70
6247308--6247344	7	5.3	7	90	9	58	0	10	2	86	0.67
6247313--6247359	21	2.3	20	82	13	60	0	6	6	87	0.68
6257643--6257671	4	7.2	4	100	0	58	75	0	0	24	0.80
6261027--6261093	19	3.8	19	77	22	92	35	17	11	34	1.87
6261049--6261073	13	1.9	13	100	0	50	32	16	16	36	1.90
6261030--6261092	32	2.0	32	100	0	126	34	19	12	33	1.89
6261732--6262714	43	20.8	48	82	11	1050	33	17	24	25	1.96
6261775--6262709	92	10.0	90	86	10	1006	33	17	23	25	1.97
6262032--6262099	22	3.1	21	66	26	52	30	16	25	27	1.96
6262146--6262213	21	3.2	21	62	25	52	27	19	27	25	1.98
6262375--6262442	21	3.2	20	66	25	50	29	16	26	27	1.97
6262592--6262659	22	3.1	22	64	19	52	33	19	22	25	1.97
6262571--6262638	21	3.2	21	71	19	68	33	17	22	26	1.96
6262745--6262861	43	2.7	43	94	0	198	29	20	24	25	1.99
6262794--6262861	22	3.1	22	62	26	54	30	20	25	23	1.98
6262773--6262840	21	3.2	21	62	25	52	27	19	27	25	1.98
6262883--6263711	34	24.5	34	92	1	1294	31	12	36	19	1.88
6274268--6274442	78	2.2	79	83	2	217	30	16	26	26	1.97
6274336--6274391	28	1.9	30	92	7	98	33	17	25	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6274376--6274492	51	2.3	50	87	8	166	29	12	29	29	1.93
6274322--6274569	129	1.9	129	85	3	338	33	14	25	27	1.94
6274428--6274650	79	2.8	78	84	2	286	32	16	25	26	1.96
6274655--6274950	79	3.8	79	82	6	323	33	11	23	30	1.91
6274510--6274794	144	2.0	144	86	1	401	34	16	22	27	1.95
6274433--6274863	223	1.9	222	84	3	571	33	14	23	27	1.94
6275683--6275799	34	3.4	34	90	3	182	41	14	23	20	1.89
6275773--6275916	42	3.4	42	82	5	159	37	15	25	21	1.93
6275892--6276407	61	8.5	61	79	4	454	30	18	24	26	1.98
6275898--6276409	183	2.8	181	80	5	577	29	18	24	26	1.98
6281799--6281847	25	2.0	25	84	8	64	16	4	8	71	1.26
6282094--6282151	20	2.8	20	82	17	75	72	1	5	20	1.13
6282153--6282353	111	1.8	111	95	0	366	34	19	19	25	1.96
6283076--6283119	6	7.2	6	89	2	52	75	0	25	0	0.81
6283076--6283119	12	3.6	12	87	3	61	75	0	25	0	0.81
6284598--6284648	20	2.5	20	87	6	68	33	15	17	33	1.92
6284634--6284658	13	1.9	13	100	0	50	28	16	16	40	1.89
6284754--6284779	13	2.0	13	100	0	52	30	15	15	38	1.88
6291062--6291102	22	2.0	20	86	13	57	31	21	4	41	1.74
6293349--6293399	20	2.5	20	87	6	68	33	15	17	33	1.92
6293385--6293413	13	2.2	13	100	0	58	31	17	13	37	1.89
6293401--6293453	20	2.6	20	81	3	61	41	15	15	28	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6293505--6293532	13	2.2	13	100	0	56	28	14	17	39	1.89
6300106--6300131	13	2.0	13	100	0	52	30	15	15	38	1.88
6300180--6300256	20	3.8	20	79	8	75	29	15	14	40	1.87
6302677--6302714	13	2.9	13	96	0	67	31	15	18	34	1.92
6304787--6304827	15	2.7	15	84	3	55	17	19	17	46	1.85
6306637--6306681	22	2.1	21	84	8	56	24	15	4	55	1.59
6308879--6308931	19	2.7	20	85	8	72	28	13	18	39	1.88
6308879--6308937	19	3.0	18	80	14	64	25	11	22	40	1.88
6308961--6309037	20	3.8	20	79	8	75	29	15	14	40	1.87
6312263--6312388	52	2.4	52	100	0	252	26	19	19	34	1.95
6313367--6313662	49	6.1	48	79	10	284	30	18	26	24	1.98
6313367--6313662	98	3.1	95	84	8	359	30	18	26	24	1.98
6313367--6313662	141	2.0	144	85	6	393	30	18	26	24	1.98
6313670--6313878	35	6.4	34	75	19	203	33	12	34	19	1.90
6313720--6313881	27	5.3	27	76	18	110	31	13	35	19	1.91
6313685--6313881	61	3.1	61	80	14	231	32	13	34	19	1.90
6313653--6313878	96	2.3	97	88	8	318	33	14	34	18	1.91
6315311--6315389	10	7.5	11	78	17	78	0	3	11	84	0.74
6315311--6315389	11	7.3	10	82	14	95	0	3	11	84	0.74
6315328--6315399	12	6.2	12	83	3	76	0	6	8	84	0.77
6315311--6315399	23	4.0	21	81	12	99	0	5	10	84	0.78
6315320--6315400	10	7.8	10	81	10	83	0	7	8	83	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6315311--6315400	32	2.9	30	83	12	110	0	6	10	83	0.81
6315320--6315399	1	80.0	1	69	0	52	0	6	8	85	0.76
6329240--6329469	52	4.4	52	98	0	433	27	19	18	35	1.95
6329478--6329502	13	1.9	13	100	0	50	36	16	16	32	1.90
6329958--6329985	13	2.2	13	100	0	56	32	14	14	39	1.86
6329940--6330006	32	2.1	31	86	5	89	31	16	14	37	1.89
6329973--6330024	21	2.6	20	82	11	63	36	13	17	32	1.89
6330074--6330099	13	2.0	13	100	0	52	30	15	15	38	1.88
6335952--6335982	8	3.8	8	95	4	53	12	0	25	61	1.32
6338609--6338633	13	1.9	13	100	0	50	32	16	16	36	1.90

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