genome.fa.s196.2.7.7.80.10.50.1000.41.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: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Length:  7488280

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   

This is table  41  of  47  ( 5587 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)
6626871--6627079	105	2.0	106	87	5	307	55	3	1	39	1.28
6626675--6627188	200	2.6	198	84	7	623	54	3	1	40	1.26
6627127--6627183	22	2.6	23	76	15	59	52	1	1	43	1.21
6626874--6627189	50	6.2	50	76	12	254	54	3	1	40	1.28
6627765--6627821	29	2.0	29	86	3	80	36	5	1	56	1.32
6631917--6632000	28	3.0	26	81	13	96	42	2	0	54	1.13
6632130--6632215	27	3.5	24	72	18	70	37	1	3	58	1.23
6633543--6633573	2	15.5	2	100	0	62	48	0	0	51	1.00
6638679--6638717	13	3.1	13	92	7	71	30	15	15	38	1.88
6638680--6638717	12	3.1	12	96	3	67	31	15	15	36	1.90
6638788--6638812	13	1.9	13	100	0	50	32	16	16	36	1.90
6642730--6642757	2	14.0	2	100	0	56	50	0	0	50	1.00
6643113--6643144	16	2.0	16	93	0	55	28	6	25	40	1.79
6644145--6644186	20	2.2	20	87	8	61	42	2	0	54	1.13
6644855--6644895	15	2.7	16	85	14	52	39	2	0	58	1.11
6645709--6645855	73	2.0	73	95	0	267	19	17	18	45	1.86
6645869--6645909	3	13.7	3	94	0	73	31	0	2	65	1.05
6646324--6646385	8	7.1	8	76	16	61	69	6	0	24	1.12
6646324--6646402	8	9.4	8	72	15	52	67	5	1	26	1.19
6646324--6646402	18	4.6	16	73	20	63	67	5	1	26	1.19
6646495--6646560	18	3.5	19	80	11	64	37	1	6	54	1.34
6646503--6646543	21	2.0	21	90	9	66	41	0	4	53	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6646480--6646593	20	6.4	16	74	19	59	34	0	4	60	1.23
6646499--6646610	10	12.1	9	68	19	61	33	0	3	61	1.19
6646549--6646594	16	2.8	17	83	3	67	30	0	0	69	0.89
6646801--6646826	2	13.0	2	100	0	52	50	0	0	50	1.00
6646904--6646965	22	2.8	22	76	16	65	43	0	0	56	0.99
6650028--6650053	13	2.0	13	100	0	52	38	15	15	30	1.88
6652274--6652323	21	2.3	21	80	10	57	56	4	18	22	1.58
6654119--6654149	15	2.1	15	93	0	53	48	16	22	12	1.80
6656219--6656256	13	2.9	13	96	0	67	34	18	15	31	1.92
6656368--6656413	21	2.2	20	81	11	58	32	19	4	43	1.71
6660521--6660574	27	2.0	27	85	7	74	35	14	24	25	1.94
6662452--6662476	13	1.9	13	100	0	50	40	16	8	36	1.77
6671183--6671235	13	4.5	13	71	26	55	33	13	16	35	1.88
6671167--6671235	33	2.1	33	89	5	104	31	13	18	36	1.89
6677857--6677911	19	2.8	19	88	2	74	32	16	12	38	1.86
6680623--6680672	22	2.2	22	82	10	57	28	12	2	58	1.45
6685072--6685107	17	2.2	17	90	5	56	25	8	11	55	1.62
6685783--6685856	20	3.7	21	79	12	84	40	0	1	58	1.07
6685799--6685848	22	2.3	22	79	6	57	40	0	2	58	1.10
6688882--6689076	79	2.5	79	83	1	221	31	16	27	25	1.96
6689167--6689366	80	2.5	79	88	2	301	31	14	26	28	1.95
6689298--6689485	51	3.6	51	86	2	277	32	11	26	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6691846--6691871	13	2.0	13	100	0	52	38	15	15	30	1.88
6694170--6694225	23	2.5	23	94	2	96	62	7	10	19	1.50
6695176--6695201	12	2.2	12	100	0	52	34	7	15	42	1.75
6695781--6697002	28	43.0	28	85	6	1484	23	18	30	27	1.97
6698233--6698289	1	57.0	1	75	0	51	0	1	10	87	0.61
6698222--6698289	13	5.5	12	81	8	75	1	2	10	85	0.77
6698222--6698286	24	2.6	24	85	9	78	1	3	10	84	0.80
6698233--6698290	16	3.6	16	81	6	73	0	1	12	86	0.65
6698222--6698289	11	6.1	11	79	10	68	1	2	10	85	0.77
6709934--6709984	27	1.9	27	88	4	77	29	19	31	19	1.97
6710853--6710907	22	2.5	22	96	0	101	63	9	9	18	1.49
6711856--6711881	12	2.2	12	100	0	52	34	7	15	42	1.75
6711839--6711901	32	2.0	32	90	0	99	38	9	12	39	1.76
6712153--6712214	19	3.0	21	84	11	76	35	11	12	40	1.80
6716526--6716890	155	2.4	156	77	7	420	40	19	15	25	1.90
6718890--6719256	163	2.2	165	79	7	392	49	7	11	32	1.67
6718977--6719340	165	2.2	163	80	8	396	49	8	11	30	1.69
6718978--6719400	166	2.6	165	79	8	382	47	7	12	32	1.69
6720291--6720889	84	7.2	84	75	6	378	33	16	30	19	1.94
6720451--6720890	126	3.5	126	77	6	355	33	16	30	18	1.94
6720323--6720889	42	13.6	42	76	6	303	33	16	30	19	1.94
6720691--6720905	119	1.8	119	85	4	308	36	15	28	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6720865--6720944	42	1.9	42	86	0	115	37	21	27	13	1.91
6720545--6721001	245	1.9	245	78	3	508	35	16	28	18	1.93
6721184--6722000	44	18.6	44	68	7	289	37	14	25	22	1.92
6721170--6721648	88	5.5	88	78	5	452	38	14	24	21	1.91
6721577--6722327	176	4.2	173	74	12	552	36	13	26	22	1.92
6721665--6722000	132	2.5	132	76	7	367	36	13	25	24	1.93
6721661--6722020	88	4.1	88	78	5	368	36	13	26	23	1.92
6721911--6722117	103	2.0	103	94	0	360	37	13	27	21	1.91
6722068--6722345	88	3.2	88	80	6	233	38	14	24	22	1.91
6722014--6722325	44	7.1	44	67	11	165	36	14	26	22	1.93
6726514--6726834	52	6.1	52	74	10	222	35	16	24	23	1.95
6726525--6726643	61	2.0	61	84	0	157	36	12	26	24	1.91
6726446--6726789	113	3.1	112	79	6	348	34	16	25	22	1.95
6726586--6726834	104	2.4	101	81	5	277	34	17	24	22	1.96
6726695--6726834	49	2.8	51	89	3	212	34	17	23	25	1.96
6726910--6726973	32	2.0	33	84	9	87	21	17	29	31	1.96
6727173--6727234	28	2.3	27	85	2	79	27	19	25	27	1.99
6727893--6727917	13	1.9	13	100	0	50	36	16	16	32	1.90
6739675--6739704	15	1.9	16	93	6	53	20	30	20	30	1.97
6741931--6741978	24	2.0	24	84	12	62	79	12	2	6	1.01
6742197--6742284	44	2.0	44	97	0	167	22	23	25	28	1.99
6743370--6743440	28	2.6	28	82	4	101	28	30	16	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6743618--6744076	32	14.5	31	79	6	442	31	30	17	20	1.95
6743602--6744076	126	3.8	126	84	6	563	31	30	17	20	1.96
6743613--6744083	95	5.0	94	84	6	515	30	30	17	20	1.96
6744179--6744638	52	8.8	52	74	6	358	25	24	15	34	1.95
6744174--6744638	104	4.5	104	85	2	569	25	24	15	33	1.95
6744174--6744643	208	2.3	208	84	1	627	25	25	15	34	1.95
6745376--6745400	13	1.9	13	100	0	50	36	16	16	32	1.90
6747670--6747694	13	1.9	13	100	0	50	36	16	16	32	1.90
6747650--6747713	32	2.0	33	96	3	121	34	12	18	34	1.89
6747649--6747732	19	4.7	19	80	18	108	33	11	17	36	1.87
6747775--6747799	13	1.9	13	100	0	50	32	16	16	36	1.90
6747808--6747936	52	2.5	52	94	0	222	35	17	17	29	1.93
6757923--6758001	41	1.9	41	86	0	113	35	16	24	24	1.95
6757967--6758087	61	2.0	61	83	0	152	38	13	23	24	1.91
6758751--6758785	14	2.5	14	90	0	52	42	14	8	34	1.76
6760322--6760392	20	3.4	20	75	11	79	46	14	16	22	1.83
6760305--6760391	43	2.0	43	90	0	138	44	17	14	22	1.85
6760426--6760481	24	2.3	24	90	0	85	37	23	12	26	1.90
6761619--6761656	20	1.9	20	88	0	58	10	10	0	78	0.95
6765096--6765389	161	1.8	163	83	5	391	41	13	12	32	1.82
6765579--6765699	33	3.7	32	88	2	179	27	36	19	17	1.94
6765700--6766237	49	10.8	49	84	3	657	25	26	17	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6765700--6766178	98	4.9	98	95	2	827	25	26	17	30	1.97
6765700--6766178	195	2.4	196	94	2	827	25	26	17	30	1.97
6767104--6767170	33	2.0	33	88	0	98	34	11	13	40	1.81
6767124--6767148	13	1.9	13	100	0	50	36	16	16	32	1.90
6767213--6767237	13	1.9	13	100	0	50	32	16	16	36	1.90
6771246--6771293	14	3.4	14	82	8	62	0	20	2	77	0.88
6771913--6772408	162	3.0	163	79	10	503	52	9	9	28	1.65
6773505--6773628	42	3.0	41	84	2	158	38	14	28	18	1.90
6773526--6773712	41	4.4	42	73	8	114	37	15	28	18	1.92
6773776--6773966	85	2.2	85	85	4	242	37	15	31	15	1.88

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