genome.fa.s11.2.7.7.80.10.50.1000.15.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: chrUn_random
Parameters: 2 7 7 80 10 50 1000
Length:  10571689

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   

This is table  15  of  30  ( 3589 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)
5134176--5134227	27	2.0	27	88	7	81	0	30	0	69	0.89
5134190--5134238	20	2.5	20	90	6	73	0	32	0	67	0.91
5134842--5134909	6	11.7	6	74	16	63	17	2	0	79	0.86
5134838--5134914	39	2.0	38	85	7	102	16	5	0	77	0.94
5134834--5134929	27	3.4	27	81	13	97	17	4	0	78	0.91
5134834--5134936	54	1.9	53	82	9	129	16	3	0	78	0.95
5138502--5138601	52	1.9	52	85	0	137	43	11	17	29	1.83
5139647--5139756	52	2.1	52	83	9	136	38	12	20	28	1.90
5141422--5141618	102	1.9	102	79	4	218	41	14	22	22	1.89
5142796--5142871	35	2.2	35	82	0	89	19	9	18	52	1.72
5142818--5142886	35	2.0	35	85	0	93	23	8	13	55	1.65
5142941--5142984	23	1.9	23	95	0	79	18	15	9	56	1.65
5153537--5153580	22	2.0	22	95	0	79	40	25	0	34	1.56
5165358--5165479	51	2.4	50	86	2	154	40	13	21	23	1.89
5168448--5168603	67	2.3	67	87	4	217	35	25	11	28	1.90
5168494--5168599	32	3.2	32	71	15	99	36	24	11	27	1.90
5168448--5168642	67	2.9	67	83	7	211	36	24	10	28	1.89
5171017--5171055	20	2.0	20	89	0	60	38	20	2	38	1.66
5179347--5179386	20	2.1	19	85	4	53	42	17	7	32	1.77
5181825--5181875	2	25.5	2	100	0	102	49	0	0	50	1.00
5190500--5190552	28	1.9	27	88	3	79	30	18	22	28	1.98
5190500--5190558	28	2.1	28	84	6	75	30	20	23	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5193407--5193468	19	3.3	19	80	6	56	33	4	0	61	1.17
5193421--5193468	19	2.6	19	90	3	71	35	6	0	58	1.23
5195436--5196616	172	6.9	169	80	4	1208	32	14	15	38	1.87
5202018--5202099	43	1.9	43	87	0	119	21	39	15	23	1.92
5202886--5202923	19	2.0	20	94	5	69	36	15	26	21	1.93
5203329--5205141	171	10.6	169	81	6	1943	31	15	15	37	1.88
5203322--5205141	512	3.6	512	83	4	2217	31	15	14	37	1.88
5209536--5211618	171	12.2	170	83	3	2380	32	14	14	38	1.87
5209492--5211618	513	4.1	512	88	2	2672	32	14	14	38	1.87
5212393--5212455	20	3.2	20	86	2	92	30	39	3	26	1.72
5212441--5212602	43	3.8	43	86	1	200	21	37	17	24	1.94
5228291--5229603	171	7.7	171	80	6	1397	33	14	15	37	1.87
5228335--5229603	514	2.5	511	84	3	1627	32	13	14	38	1.86
5232317--5233042	171	4.2	171	83	3	881	33	15	12	38	1.84
5239526--5239674	60	2.5	60	87	1	217	22	20	23	34	1.97
5243789--5243930	42	3.4	42	87	0	203	23	22	29	23	1.99
5244984--5245027	22	2.0	23	90	4	72	25	20	27	27	1.99
5245987--5249880	171	22.8	170	80	5	3812	31	14	14	38	1.87
5245987--5249880	683	5.7	683	88	2	4900	31	14	14	38	1.87
5258852--5258986	42	3.2	42	88	2	173	23	22	29	24	1.99
5259006--5259067	26	2.4	26	97	0	115	22	3	41	32	1.70
5262918--5262956	18	2.2	18	85	0	51	0	30	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5263883--5263941	28	2.1	28	87	6	84	30	23	25	20	1.98
5267757--5267795	2	19.5	2	100	0	78	48	0	0	51	1.00
5267950--5268042	42	2.2	43	82	3	116	20	38	19	21	1.93
5267973--5268063	42	2.2	42	87	0	128	26	34	18	20	1.96
5269612--5269736	62	2.0	62	84	3	162	34	17	11	36	1.86
5270048--5270262	29	7.6	29	88	6	309	40	13	9	37	1.77
5270048--5270258	111	1.8	113	87	6	309	40	13	9	37	1.76
5271161--5271193	17	1.9	17	88	11	50	42	15	3	39	1.62
5271368--5271510	29	5.0	28	83	9	180	38	12	9	39	1.76
5271345--5271510	59	2.8	57	83	9	201	41	11	9	37	1.73
5271335--5271507	29	5.9	28	81	11	177	39	12	9	38	1.75
5276270--5276341	26	2.8	26	77	10	76	63	0	34	1	1.03
5304444--5304674	68	3.4	67	76	7	184	36	10	16	36	1.83
5304813--5304925	31	3.6	31	75	0	109	26	19	29	24	1.98
5310333--5310365	17	1.9	17	88	11	50	39	3	15	42	1.62
5318568--5318621	24	2.2	24	90	0	81	18	38	14	27	1.90
5318575--5318622	24	2.0	24	95	0	87	18	37	14	29	1.91
5319906--5319934	9	3.0	10	90	10	51	51	6	0	41	1.28
5320936--5320990	29	1.9	29	92	3	94	32	21	3	41	1.71
5320941--5321000	29	2.1	29	87	3	86	38	20	5	36	1.74
5329953--5329995	21	2.0	21	81	0	50	30	9	34	25	1.87
5334289--5334321	5	6.6	5	92	0	57	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5334350--5334435	33	2.5	32	85	7	100	67	0	4	27	1.10
5334648--5334691	15	2.9	15	82	0	61	29	29	9	31	1.88
5339162--5339215	28	2.0	27	88	3	81	24	22	22	31	1.98
5343079--5343116	19	2.0	19	100	0	76	42	31	0	26	1.56
5343754--5343814	25	2.5	24	87	12	88	16	22	9	50	1.74
5343757--5343844	27	3.3	27	82	9	101	12	21	14	51	1.75
5343846--5343920	5	15.6	5	91	2	111	0	22	0	77	0.77
5344055--5344134	33	2.3	34	81	10	92	25	22	17	35	1.95
5347892--5347972	29	2.8	28	79	5	90	18	17	22	41	1.90
5351197--5351433	120	2.0	117	98	1	447	24	22	15	37	1.93
5357586--5357619	17	2.0	17	94	0	59	32	0	11	55	1.36
5357855--5357941	28	3.1	27	85	4	111	35	12	19	32	1.89
5359093--5359646	250	2.2	251	84	2	711	43	8	14	33	1.76
5362819--5362897	28	2.8	28	90	3	115	31	20	17	30	1.96
5364246--5364292	20	2.3	21	81	3	60	51	0	8	40	1.33
5368482--5368519	19	2.0	19	89	0	58	50	23	0	26	1.50
5372159--5372209	15	3.4	15	88	0	75	50	15	1	31	1.55
5372558--5372604	20	2.3	21	81	3	60	51	0	8	40	1.33
5377784--5378026	122	2.0	121	86	3	337	33	15	10	39	1.82
5381007--5381040	10	3.3	10	88	8	50	52	14	2	29	1.56
5382612--5382771	76	2.1	76	88	2	232	40	7	12	39	1.71
5395516--5395558	2	21.0	2	95	4	77	48	0	2	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5395603--5395646	2	21.5	2	95	4	79	47	0	2	50	1.13
5397584--5397765	73	2.5	72	80	8	201	41	16	20	21	1.90
5401925--5401949	13	1.9	13	100	0	50	44	0	8	48	1.32
5411913--5412620	352	2.0	352	96	0	1308	39	11	10	38	1.75
5417097--5417477	206	1.8	207	88	1	586	26	21	27	24	1.99
5421306--5421330	13	1.9	13	100	0	50	52	0	0	48	1.00
5436812--5436841	11	2.7	11	89	0	51	56	0	0	43	0.99
5437857--5437971	41	2.7	40	75	19	131	33	5	12	48	1.63
5437883--5438014	47	2.8	47	90	1	210	35	6	12	44	1.69
5458327--5458365	2	19.5	2	100	0	78	51	0	0	48	1.00
5460514--5460614	21	4.5	21	66	20	69	42	2	4	49	1.39
5461672--5461746	31	2.4	31	84	4	98	37	12	20	30	1.89
5464236--5464272	18	2.1	18	94	0	65	32	0	10	56	1.34
5472635--5472672	19	2.0	19	94	0	67	42	28	0	28	1.56
5484397--5484442	15	3.1	15	81	9	58	23	2	17	56	1.52
5492945--5493048	42	2.7	38	74	12	102	30	20	6	42	1.78
5493287--5493328	21	2.1	19	86	8	57	42	4	23	28	1.74
5495123--5495182	10	6.0	10	80	7	68	63	0	36	0	0.95
5495128--5495172	22	2.0	23	86	4	65	68	0	31	0	0.89
5495124--5495192	30	2.3	30	82	12	79	63	0	36	0	0.94
5508785--5509044	129	2.0	129	92	3	434	29	12	18	39	1.87
5509805--5509868	1	64.0	1	96	0	110	3	0	0	96	0.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5512539--5512799	130	2.0	129	93	0	450	29	13	18	38	1.89
5515704--5515741	19	2.0	19	94	0	67	42	28	0	28	1.56
5522180--5522297	35	3.4	35	86	2	157	27	33	11	27	1.91
5523937--5524004	35	1.9	35	96	0	127	36	8	14	39	1.78
5524777--5524841	23	2.8	23	76	4	69	44	13	15	26	1.84
5527872--5527930	30	1.9	31	83	10	77	50	3	18	27	1.62
5530908--5530961	7	7.7	7	78	21	60	0	37	0	62	0.95
5530908--5530981	20	3.6	20	92	3	112	0	35	0	64	0.94
5533866--5533918	14	3.6	15	82	14	74	0	13	1	84	0.69
5533875--5533929	13	4.6	12	78	15	60	0	14	1	83	0.73

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