genome.fa.s25.2.7.7.80.10.50.1000.46.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: Scaffold25
Parameters: 2 7 7 80 10 50 1000
Length:  9553305

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   

This is table  46  of  56  ( 6609 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)
7801270--7801313	24	1.9	22	86	9	61	61	0	2	36	1.09
7801295--7801324	7	4.1	7	91	8	51	73	0	0	26	0.84
7801295--7801324	15	2.1	14	93	6	51	73	0	0	26	0.84
7801785--7801814	11	2.9	10	90	9	51	40	0	0	60	0.97
7801918--7801983	35	1.9	35	82	11	84	36	1	1	60	1.15
7802198--7802240	18	2.4	18	88	0	59	69	0	2	27	1.00
7802752--7802809	21	2.8	21	83	0	71	37	10	1	50	1.47
7804375--7804403	14	2.1	14	93	6	51	44	0	6	48	1.29
7806422--7806459	19	2.0	19	90	10	60	0	13	2	84	0.73
7806424--7806465	19	2.2	19	83	8	50	2	11	4	80	0.95
7811755--7811785	3	10.0	3	93	6	53	64	3	0	32	1.09
7813580--7813614	17	2.0	18	88	5	54	0	11	5	82	0.82
7816132--7816174	2	21.5	2	100	0	86	51	0	0	48	1.00
7821345--7821521	92	1.9	92	81	2	212	40	7	18	32	1.80
7822296--7822321	13	2.0	13	100	0	52	46	7	7	38	1.61
7825041--7825086	23	2.0	23	82	0	56	50	2	2	45	1.26
7826577--7826611	18	1.9	18	88	0	52	31	0	31	37	1.58
7827921--7828030	33	3.3	33	85	0	148	32	28	10	29	1.89
7828686--7828730	23	2.0	23	100	0	90	26	8	31	33	1.87
7829684--7829740	22	2.6	22	94	0	105	26	21	12	40	1.88
7829690--7829862	95	1.8	95	92	0	292	28	21	12	37	1.90
7833253--7833307	22	2.5	22	90	0	83	25	21	9	43	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7833271--7833384	32	3.3	32	66	23	86	28	24	8	37	1.85
7833271--7833413	73	2.0	73	92	0	241	30	24	9	36	1.86
7839473--7839500	13	2.2	13	100	0	56	39	17	14	28	1.89
7839548--7839573	13	2.0	13	100	0	52	30	15	15	38	1.88
7840828--7840889	30	2.1	29	82	11	72	30	6	14	48	1.69
7841015--7841101	44	2.0	44	81	2	104	26	6	24	42	1.79
7841068--7841116	21	2.3	21	89	0	71	12	8	28	51	1.68
7841411--7841488	40	2.0	40	94	0	138	39	8	12	38	1.75
7844268--7844335	33	2.1	33	85	0	91	30	25	13	30	1.93
7846586--7846625	2	20.0	2	100	0	80	50	0	0	50	1.00
7847127--7847187	29	2.3	26	79	17	65	62	11	0	26	1.29
7847942--7847980	19	2.1	19	85	0	51	43	2	2	51	1.29
7852211--7852287	22	3.5	22	77	7	84	49	15	6	28	1.69
7852232--7852360	22	5.9	22	75	3	116	43	11	8	36	1.72
7852211--7852348	44	3.1	43	83	4	143	46	12	7	34	1.69
7852467--7852519	21	2.5	22	84	9	65	45	9	15	30	1.77
7852896--7853008	21	5.5	21	69	6	70	40	23	7	27	1.82
7853031--7853073	22	2.0	22	90	0	68	44	18	4	32	1.71
7853336--7853417	22	4.0	22	76	15	93	47	13	2	36	1.56
7853376--7853411	17	2.1	17	100	0	72	50	16	0	33	1.46
7861757--7861796	20	2.0	20	85	9	55	42	0	10	47	1.37
7861850--7861880	2	15.5	2	100	0	62	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7863425--7863466	2	21.0	2	95	0	75	47	0	2	50	1.14
7867840--7867870	2	15.5	2	100	0	62	51	0	0	48	1.00
7868329--7868388	31	1.9	31	86	6	86	28	1	3	66	1.17
7868650--7868752	52	2.0	53	90	1	163	38	0	10	49	1.44
7869428--7869462	17	2.1	17	88	0	52	57	5	0	37	1.23
7871085--7871115	2	15.5	2	100	0	62	51	0	0	48	1.00
7871720--7871801	17	4.7	19	68	24	56	57	0	0	42	0.98
7871743--7871789	15	2.9	17	68	12	53	57	0	0	42	0.98
7871694--7871800	36	3.0	36	80	11	107	58	0	0	40	1.04
7872452--7872497	22	2.1	23	88	11	71	65	0	0	34	0.93
7873270--7873310	2	20.5	2	100	0	82	48	0	0	51	1.00
7873496--7873541	18	2.4	19	82	14	58	58	0	0	41	0.98
7873491--7873546	17	2.9	19	76	23	55	53	1	1	42	1.21
7875505--7875557	27	2.0	27	85	3	72	30	16	26	26	1.97
7877113--7877490	187	2.0	187	94	2	670	47	16	13	22	1.82
7878486--7878524	21	1.9	20	94	5	69	41	10	17	30	1.83
7878511--7878549	13	3.0	13	100	0	78	30	15	15	38	1.88
7880904--7881299	52	7.6	51	71	9	271	29	25	12	32	1.92
7881079--7881299	51	4.3	51	81	1	244	29	24	12	33	1.92
7883205--7883383	61	3.1	61	70	17	182	32	14	29	24	1.94
7883217--7883409	52	3.5	52	71	14	181	30	16	28	24	1.97
7883146--7883410	113	2.4	113	96	0	478	30	15	29	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7883550--7883740	52	3.7	52	79	5	147	37	16	20	25	1.93
7883705--7883863	58	2.8	58	77	4	169	33	12	24	29	1.92
7883877--7884107	65	3.6	64	76	6	218	19	14	32	32	1.93
7883850--7884107	32	8.1	32	73	7	141	21	15	32	31	1.94
7885369--7885515	43	3.4	43	93	0	249	22	23	18	35	1.96
7888153--7888195	20	2.2	20	95	0	77	25	11	13	48	1.77
7888637--7888662	13	2.0	13	100	0	52	38	15	15	30	1.88
7892026--7892078	13	4.5	13	69	26	55	35	16	13	33	1.88
7892029--7892093	33	2.0	33	90	6	105	33	18	13	33	1.90
7892123--7892222	19	5.9	19	74	25	116	40	16	16	28	1.89
7892123--7892233	13	10.2	12	69	30	90	39	16	15	28	1.89
7892124--7892232	32	3.4	32	100	0	218	40	15	15	28	1.88
7896934--7897022	46	1.9	46	97	0	169	41	16	14	26	1.87
7900891--7900953	33	1.9	33	90	6	101	34	15	14	34	1.88
7901650--7901714	24	2.7	23	73	2	67	27	18	3	50	1.61
7903395--7903436	21	2.0	21	86	9	59	45	0	23	30	1.53
7903566--7903592	13	2.1	13	100	0	54	40	14	14	29	1.86
7905141--7905344	79	2.6	79	82	1	221	29	17	28	24	1.97
7905299--7905370	28	2.6	28	88	0	99	23	19	34	22	1.96
7905411--7905786	210	1.8	206	82	8	483	32	13	24	29	1.93
7905400--7905818	52	8.1	50	76	12	350	34	11	23	29	1.91
7905400--7905818	103	4.1	102	74	14	344	34	11	23	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7908158--7908182	13	1.9	13	100	0	50	40	12	16	32	1.84
7908295--7908351	21	2.8	20	84	7	78	35	15	12	36	1.85
7910254--7910294	21	2.0	21	85	9	57	39	12	9	39	1.76
7910334--7910404	20	3.6	19	77	7	70	40	16	12	29	1.86
7910374--7910510	53	2.6	53	96	1	247	37	18	17	27	1.93
7910534--7910564	10	3.1	10	90	0	53	22	29	6	41	1.78
7910552--7910606	21	2.5	22	94	5	103	27	25	10	36	1.89
7910683--7910708	13	2.0	13	100	0	52	30	15	23	30	1.95
7915517--7915541	13	1.9	13	100	0	50	32	16	16	36	1.90
7915571--7915626	19	2.8	20	84	12	80	35	17	14	32	1.90
7928546--7928709	58	2.8	58	77	4	152	46	15	9	28	1.76
7928662--7928780	58	2.1	58	80	3	132	49	10	14	25	1.75
7937536--7937755	50	4.4	50	89	2	325	31	20	19	28	1.97
7942035--7942269	99	2.4	100	87	2	321	33	21	16	28	1.95
7942035--7942306	149	1.8	149	85	1	384	34	20	16	28	1.94
7942035--7942298	50	5.3	50	84	3	318	34	20	16	28	1.94
7946963--7947078	34	3.1	38	74	16	107	53	1	3	41	1.28
7947073--7947124	17	3.3	16	80	20	65	73	0	0	26	0.84
7948605--7948633	3	9.7	3	100	0	58	0	31	0	68	0.89
7948659--7948705	23	2.0	23	100	0	94	17	31	0	51	1.46
7950672--7950779	29	3.8	29	69	22	84	53	11	7	27	1.63
7950639--7950826	58	3.3	57	79	10	179	51	12	9	26	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7950639--7950769	57	2.3	58	86	6	178	51	12	8	26	1.68
7950821--7950924	52	2.0	53	86	1	147	49	14	8	27	1.73
7950914--7951015	47	2.2	45	84	10	125	52	11	7	27	1.65
7952742--7952786	16	2.6	16	86	10	54	82	6	0	11	0.84
7953329--7953375	17	2.8	17	87	6	69	44	2	0	53	1.12
7958834--7958858	1	25.0	1	100	0	50	0	100	0	0	0.00
7965135--7965159	13	1.9	13	100	0	50	44	0	0	56	0.99
7968164--7968198	17	1.9	19	88	11	56	62	8	11	17	1.52
7969777--7969803	7	3.9	7	100	0	54	88	0	0	11	0.50
7969773--7969815	14	3.1	14	86	3	61	83	0	6	9	0.80

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