genome.fa.s64.2.7.7.80.10.50.1000.33.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  33  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)
5829134--5829179	16	2.9	16	86	0	65	34	2	8	54	1.43
5829138--5829184	16	2.9	16	83	0	58	36	2	12	48	1.53
5830097--5830341	125	1.9	127	82	3	307	37	7	6	48	1.59
5830568--5830606	20	2.0	20	89	0	60	58	0	2	38	1.12
5830759--5830792	14	2.3	15	90	5	52	64	0	14	20	1.28
5836064--5836125	19	3.3	19	76	14	58	46	1	0	51	1.10
5836057--5836114	19	3.0	20	78	12	59	43	1	0	55	1.10
5836057--5836116	20	3.0	20	73	22	56	43	1	0	55	1.10
5836335--5836464	69	1.9	69	83	3	172	33	15	16	35	1.90
5836520--5836584	29	2.2	29	83	0	85	52	6	0	41	1.26
5838070--5838128	29	1.9	31	83	13	77	32	3	1	62	1.21
5840097--5840127	2	15.5	2	93	0	53	45	0	0	54	0.99
5843540--5843591	25	2.1	25	85	7	70	48	0	1	50	1.12
5843763--5843823	26	2.4	26	77	17	65	39	1	1	57	1.18
5845420--5845454	2	17.5	2	93	0	61	48	0	2	48	1.16
5845821--5845870	14	3.4	14	77	20	57	66	0	2	32	1.03
5845828--5845873	17	2.9	17	81	15	55	65	0	0	34	0.93
5845838--5845898	23	2.6	22	79	7	68	67	0	0	32	0.91
5845822--5845873	16	3.5	15	80	17	63	67	0	1	30	1.02
5845835--5845894	22	2.5	23	80	20	70	66	0	0	33	0.92
5848442--5848495	20	2.7	19	80	13	56	42	1	3	51	1.30
5848440--5848482	19	2.3	18	84	4	50	44	2	4	48	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5851245--5851291	2	23.5	2	100	0	94	0	48	0	51	1.00
5852815--5852854	2	20.0	2	100	0	80	50	0	0	50	1.00
5855189--5855239	2	25.5	2	95	0	93	49	0	50	0	1.00
5855425--5855459	12	2.9	12	86	0	52	5	14	48	31	1.67
5855425--5855470	24	1.9	24	81	0	56	6	13	50	30	1.66
5858407--5858442	3	12.0	3	93	0	63	63	0	33	2	1.08
5858827--5858873	24	2.0	24	83	8	60	29	2	0	68	1.02
5861639--5861691	27	1.9	28	92	3	90	60	3	1	33	1.26
5861639--5861682	14	3.2	14	80	6	63	63	4	2	29	1.26
5861756--5861811	27	2.1	26	83	3	67	44	5	0	50	1.25
5863147--5863182	2	18.0	2	88	0	54	0	55	0	44	0.99
5863334--5863364	2	15.5	2	100	0	62	0	48	0	51	1.00
5864614--5864647	2	17.0	2	100	0	68	50	0	0	50	1.00
5875112--5875153	21	2.0	21	85	0	57	54	0	0	45	0.99
5875123--5875165	23	2.0	21	86	9	59	51	0	0	48	1.00
5876449--5876490	18	2.4	18	88	4	59	69	0	0	30	0.89
5876552--5876601	19	2.6	19	81	12	57	46	4	2	48	1.32
5876572--5876609	20	1.9	20	88	0	58	55	2	0	42	1.14
5880300--5880326	5	5.4	5	100	0	54	22	37	18	22	1.95
5881414--5881445	2	16.0	2	100	0	64	50	0	0	50	1.00
5887146--5887209	12	5.3	12	77	11	69	68	0	0	31	0.90
5887140--5887219	23	3.5	23	83	10	83	66	1	1	31	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5887136--5887210	18	4.2	18	80	14	84	68	0	1	30	0.98
5887595--5887638	12	3.6	13	82	14	58	65	0	4	29	1.12
5887595--5887638	11	3.7	12	85	14	56	65	0	4	29	1.12
5889824--5889854	16	1.9	16	93	0	53	41	0	6	51	1.27
5902552--5902594	21	2.0	21	82	8	52	25	9	11	53	1.67
5902827--5902869	22	2.0	21	86	4	59	55	2	0	41	1.12
5903726--5903792	21	3.3	20	76	19	59	38	1	1	58	1.17
5904511--5904551	20	2.0	21	90	4	66	41	2	0	56	1.13
5904787--5904839	23	2.3	23	83	0	70	49	0	0	50	1.00
5907052--5907088	18	2.1	18	100	0	74	48	8	10	32	1.67
5912991--5913050	20	3.0	20	87	2	75	30	18	11	40	1.86
5917494--5917518	13	1.9	13	100	0	50	40	8	16	36	1.77
5917548--5917588	20	2.0	20	95	0	73	43	12	17	26	1.84
5917576--5917630	20	2.7	21	88	2	76	25	14	12	47	1.80
5920049--5920595	79	6.9	79	82	4	554	27	24	13	35	1.92
5928516--5928567	16	3.2	16	83	5	61	82	1	15	0	0.75
5928525--5928586	12	4.7	12	80	15	61	82	1	16	0	0.75
5928516--5928575	16	3.8	15	78	10	57	83	1	15	0	0.73
5928516--5928586	28	2.6	27	80	4	88	81	1	16	0	0.76
5929526--5930028	59	8.4	59	81	3	461	27	26	17	27	1.98
5929530--5930022	120	4.1	120	79	3	472	27	26	17	27	1.98
5929622--5929948	179	1.8	181	85	1	460	28	27	17	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5930679--5930727	20	2.4	20	86	10	64	28	14	10	46	1.77
5935721--5935869	52	2.9	51	88	4	217	30	17	17	34	1.93
5935858--5935882	13	1.9	13	100	0	50	36	16	16	32	1.90
5936762--5936911	50	3.0	50	80	3	158	28	24	10	37	1.87
5936846--5937267	79	5.4	77	79	4	373	27	22	13	36	1.92
5938582--5938607	12	2.2	12	100	0	52	84	0	15	0	0.62
5938584--5938623	17	2.5	16	88	8	55	80	2	17	0	0.83
5938846--5938892	20	2.4	21	79	13	55	44	27	12	14	1.82
5938929--5938971	19	2.2	19	83	4	50	58	4	11	25	1.52
5938992--5939054	29	2.2	29	82	2	74	53	6	9	30	1.58
5939084--5939139	22	2.4	24	85	8	71	33	3	5	57	1.39
5939280--5939342	29	2.2	28	89	10	101	53	11	4	30	1.56
5939668--5939700	17	1.9	17	88	11	50	30	3	18	48	1.63
5939706--5939747	2	21.0	2	100	0	84	50	0	0	50	1.00
5939783--5939855	29	2.6	29	74	8	71	34	9	5	50	1.58
5939795--5939918	27	4.5	27	73	7	81	37	11	4	46	1.59
5939760--5939918	28	5.7	27	73	8	115	38	10	5	45	1.61
5940004--5940072	29	2.5	28	79	11	70	42	5	4	47	1.47
5939947--5940079	27	4.8	26	74	10	104	39	9	6	45	1.60
5943712--5943777	29	2.3	29	94	0	123	54	9	19	16	1.68
5945951--5946438	66	7.5	66	72	11	240	47	11	20	20	1.81
5946135--5946386	130	2.0	128	88	3	380	49	12	19	18	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5946087--5946453	63	5.7	63	73	11	219	48	12	19	19	1.80
5946135--5946456	129	2.5	128	84	5	348	48	13	19	18	1.81
5946590--5946818	118	1.9	118	98	0	440	40	13	13	31	1.84
5948054--5948100	21	2.2	22	81	11	53	8	12	4	74	1.19
5949953--5950004	17	3.1	17	100	0	104	23	17	0	59	1.37
5955925--5955964	21	2.0	21	90	5	64	35	15	10	40	1.80
5960101--5960526	155	2.8	152	77	5	376	39	19	14	26	1.90
5962502--5962527	12	2.2	12	100	0	52	34	15	15	34	1.89
5962515--5962651	53	2.6	53	91	1	220	27	16	18	37	1.92
5962639--5962692	20	2.7	20	80	8	65	29	14	16	38	1.89
5962731--5962771	21	2.0	21	85	9	57	39	9	12	39	1.76
5965617--5965671	13	4.2	13	82	13	69	81	0	18	0	0.68
5965617--5965670	9	5.9	9	79	12	56	81	0	18	0	0.69
5965607--5965672	20	3.1	21	82	18	84	80	0	18	1	0.79
5965617--5965671	26	2.1	26	86	6	76	81	0	18	0	0.68
5965615--5965670	29	2.0	28	89	10	87	82	0	17	0	0.68
5966073--5966122	21	2.4	21	78	18	59	22	6	12	60	1.53
5966084--5966123	22	1.9	20	90	10	62	20	7	12	60	1.56
5969635--5969663	13	2.2	13	100	0	58	48	0	13	37	1.43
5970008--5970126	34	3.5	34	81	11	145	40	25	7	26	1.82
5974534--5974652	34	3.5	34	78	11	111	41	23	6	28	1.80
5979376--5979424	21	2.3	21	82	6	64	28	4	28	38	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5984422--5984479	21	2.8	21	84	7	66	36	5	25	32	1.78
5984446--5984486	20	2.0	21	85	4	57	41	7	17	34	1.77
5984446--5984485	21	1.9	21	85	10	55	40	7	17	35	1.78
5988632--5988691	25	2.4	25	86	2	77	40	10	15	35	1.80
5988879--5988933	26	2.1	26	89	0	83	49	5	5	40	1.49
5990099--5990249	47	3.0	51	74	16	145	41	7	17	33	1.79
5990915--5991020	48	2.2	49	81	3	126	39	1	24	33	1.66
5991347--5991371	13	1.9	13	100	0	50	8	12	0	80	0.92
5992195--5992231	19	1.9	19	100	0	74	43	8	0	48	1.32
5992653--5992701	21	2.3	22	79	10	57	28	10	12	48	1.73

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   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45