genome.fa.s196.2.7.7.80.10.50.1000.46.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  46  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)
7312852--7313511	333	2.0	330	84	6	852	42	7	15	35	1.74
7316974--7317007	17	2.0	17	88	0	50	52	11	5	29	1.61
7317366--7317453	22	3.8	23	75	18	74	35	0	2	62	1.08
7317438--7317509	32	2.3	31	83	9	92	44	2	0	52	1.15
7317391--7317792	112	3.7	113	85	10	488	43	2	1	52	1.22
7317368--7317828	109	4.2	104	78	12	416	42	1	1	54	1.20
7324376--7324406	8	3.8	8	95	4	53	12	0	25	61	1.32
7325083--7325126	20	2.1	21	84	12	56	20	47	27	4	1.69
7326499--7326542	21	2.0	22	95	4	81	36	0	27	36	1.57
7327050--7327088	20	2.0	19	95	5	69	35	23	10	30	1.88
7327516--7327549	18	1.9	18	94	5	61	26	8	11	52	1.67
7328413--7328477	32	2.0	32	88	11	96	29	15	16	38	1.90
7328434--7328459	13	2.0	13	100	0	52	30	15	15	38	1.88
7328519--7328571	20	2.6	21	82	8	65	28	15	16	39	1.89
7328559--7328583	13	1.9	13	100	0	50	36	16	16	32	1.90
7330041--7330142	10	10.1	10	72	6	62	41	0	2	55	1.15
7330013--7330107	42	2.3	42	81	7	104	43	0	2	54	1.12
7330103--7330200	11	9.5	11	65	18	50	32	0	2	65	1.04
7330157--7330228	27	2.5	30	80	13	80	37	1	1	59	1.15
7330110--7330199	39	2.4	37	78	12	94	33	0	2	64	1.06
7330246--7330284	19	2.0	19	90	5	60	58	0	0	41	0.98
7330243--7330330	34	2.6	36	76	18	98	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7330278--7330314	20	2.0	20	89	10	60	54	0	0	45	1.00
7330261--7330330	31	2.2	31	80	7	79	52	0	0	47	1.00
7331880--7331913	3	11.3	3	100	0	68	67	0	0	32	0.91
7332040--7332079	11	3.5	12	86	10	57	47	2	5	45	1.38
7332490--7332549	20	3.0	20	79	13	61	45	0	0	55	0.99
7332486--7332553	32	2.1	31	82	15	77	45	0	0	54	0.99
7333178--7333207	2	15.0	2	100	0	60	50	0	0	50	1.00
7333853--7333901	19	2.5	20	87	12	68	32	0	0	67	0.91
7336164--7336235	32	2.2	33	83	11	87	44	8	2	44	1.48
7336637--7336685	25	2.0	25	84	8	64	44	0	0	55	0.99
7336637--7336690	27	2.0	25	86	13	72	44	0	0	55	0.99
7336657--7336701	19	2.4	19	85	10	58	44	0	0	55	0.99
7337001--7337036	16	2.2	16	90	0	54	41	19	16	22	1.90
7337023--7337068	16	2.9	16	80	0	56	36	17	21	23	1.94
7337001--7337075	16	4.7	16	75	6	53	37	21	18	22	1.94
7337950--7337989	16	2.5	16	87	0	53	45	27	12	15	1.82
7337955--7337993	16	2.4	16	86	4	51	48	20	12	17	1.80
7338359--7338401	22	2.0	22	90	9	70	65	0	0	34	0.93
7339740--7339812	20	3.6	20	77	3	92	36	13	17	31	1.89
7339758--7339833	21	3.7	21	78	3	100	43	11	15	28	1.83
7339740--7339833	41	2.3	41	100	0	188	40	12	17	29	1.86
7339872--7339897	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7342112--7342156	21	2.1	21	84	8	56	53	4	20	22	1.63
7346029--7346067	20	2.0	20	94	0	69	23	15	10	51	1.73
7346053--7346078	13	2.0	13	100	0	52	30	15	15	38	1.88
7348521--7348593	20	3.6	20	77	3	92	36	13	17	31	1.89
7348539--7348614	21	3.7	21	78	3	100	43	11	15	28	1.83
7348521--7348614	41	2.3	41	100	0	188	40	12	17	29	1.86
7348653--7348678	13	2.0	13	100	0	52	38	15	15	30	1.88
7351960--7352000	21	2.0	21	85	0	55	63	4	0	31	1.15
7352556--7352595	6	6.8	6	88	5	64	50	30	17	2	1.59
7352898--7352999	21	4.9	20	72	8	87	51	2	42	2	1.32
7352901--7352999	42	2.4	42	92	0	162	51	3	42	3	1.32
7352922--7353124	21	10.1	20	76	12	100	57	0	39	1	1.14
7352991--7353127	9	13.5	11	82	14	74	63	0	35	0	1.00
7352970--7353106	33	4.2	32	81	10	120	59	0	38	0	1.08
7353001--7353126	6	21.0	6	83	8	159	63	0	36	0	0.95
7353001--7353126	33	3.8	33	89	4	159	63	0	36	0	0.95
7354771--7354804	12	2.6	13	90	9	52	67	2	23	5	1.26
7356009--7356045	2	18.5	2	100	0	74	48	0	0	51	1.00
7357265--7357308	18	2.4	18	85	14	63	52	13	18	15	1.75
7358223--7358277	20	2.7	19	83	13	65	41	7	20	30	1.79
7358268--7358308	20	2.0	20	85	0	55	26	12	12	48	1.75
7359967--7360009	19	2.3	19	84	8	52	16	4	4	74	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7370674--7370802	52	2.5	52	96	0	231	28	17	17	35	1.93
7370811--7370835	13	1.9	13	100	0	50	36	16	16	32	1.90
7370878--7370940	19	3.7	18	74	24	64	36	17	11	34	1.85
7370897--7370953	13	3.9	13	72	24	51	33	17	12	36	1.87
7370876--7370965	32	2.8	32	93	1	153	35	16	11	36	1.84
7380579--7380618	3	13.3	3	100	0	80	67	0	0	32	0.91
7380617--7380642	3	8.7	3	100	0	52	34	0	0	65	0.93
7382115--7382228	1	114.0	1	74	0	84	85	9	2	1	0.75
7382115--7382227	17	6.9	17	79	11	121	85	9	2	1	0.76
7382115--7382227	32	3.5	32	80	9	131	85	9	2	1	0.76
7382114--7382228	49	2.3	49	85	5	151	85	10	2	1	0.78
7383670--7384119	30	15.3	29	76	9	335	29	29	16	24	1.97
7383729--7383781	27	2.0	27	92	0	88	33	33	16	15	1.90
7383879--7384135	88	2.9	87	90	4	383	32	29	17	20	1.96
7383666--7384135	58	8.0	59	76	10	349	29	29	17	24	1.97
7384140--7384391	49	5.0	49	82	7	281	25	24	15	34	1.95
7384135--7384388	107	2.5	99	84	7	305	24	25	15	34	1.95
7385137--7385203	33	2.0	33	88	0	98	34	11	13	40	1.81
7385157--7385181	13	1.9	13	100	0	50	36	16	16	32	1.90
7385244--7385268	13	1.9	13	100	0	50	32	16	16	36	1.90
7385277--7385400	52	2.4	52	94	1	214	35	18	17	28	1.94
7389456--7389528	29	2.4	30	77	6	85	41	17	5	35	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7389681--7389712	16	2.0	16	93	0	55	46	3	0	50	1.17
7390058--7390112	29	1.9	28	82	17	69	54	0	5	40	1.23
7390589--7390632	17	2.6	18	82	17	58	22	2	0	75	0.92
7391177--7391215	19	2.0	20	90	5	62	28	5	2	64	1.28
7392457--7392502	15	3.2	15	69	12	51	34	4	4	56	1.39
7392443--7392503	28	2.2	28	93	0	113	40	3	3	52	1.34
7394187--7394247	3	20.3	3	93	0	104	63	0	3	32	1.10
7394775--7394843	2	36.0	2	91	8	117	52	0	0	47	1.00
7394775--7394842	17	4.0	17	88	11	104	52	0	0	47	1.00
7394775--7394843	19	3.6	19	100	0	138	52	0	0	47	1.00
7396632--7396689	25	2.3	26	82	14	68	39	0	3	56	1.16
7398874--7398912	19	2.0	19	85	5	51	64	0	0	35	0.94
7405438--7405656	34	6.5	34	85	2	271	25	6	26	41	1.80
7405438--7405656	102	2.2	101	89	3	332	25	6	26	41	1.80
7408326--7408368	22	2.0	22	85	0	59	32	4	0	62	1.15
7410542--7410582	17	2.4	18	81	18	52	43	2	0	53	1.13
7410607--7410636	15	2.1	15	93	6	53	60	0	0	40	0.97
7410956--7410995	19	2.1	19	100	0	80	37	10	5	47	1.59
7410999--7411044	15	2.9	16	74	6	58	50	0	0	50	1.00
7411024--7411076	22	2.6	19	71	28	54	58	0	0	41	0.98
7411024--7411067	22	2.0	23	90	4	72	63	0	0	36	0.95
7412083--7412123	5	8.4	5	79	15	50	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7412080--7412144	11	6.3	11	71	21	52	38	0	0	61	0.96
7412075--7412144	19	3.7	19	74	22	67	37	0	1	61	1.05
7412075--7412143	28	2.4	29	84	13	90	37	0	1	60	1.06
7415720--7415766	22	2.4	21	80	19	57	68	0	0	31	0.90
7415735--7415770	18	2.0	18	94	0	63	69	0	0	30	0.89
7417493--7417564	12	5.8	12	75	14	56	0	36	0	63	0.94
7417506--7417629	33	3.9	34	75	15	95	0	41	2	55	1.13
7417507--7417618	21	5.0	22	74	23	83	0	41	1	56	1.10
7418427--7418466	21	2.0	21	85	9	57	35	0	5	60	1.19
7418502--7418570	35	2.0	35	82	5	86	63	2	1	31	1.18

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