genome.fa.s2.2.7.7.80.10.50.1000.27.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: Scaffold2
Parameters: 2 7 7 80 10 50 1000
Length:  5794061

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   

This is table  27  of  38  ( 4457 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)
4113603--4113681	20	3.7	21	75	15	72	26	13	15	44	1.84
4113668--4113706	13	3.0	13	96	0	69	30	17	15	35	1.91
4116150--4116223	20	3.7	20	78	3	94	35	13	18	32	1.90
4116168--4116243	21	3.7	21	78	3	100	40	11	17	30	1.85
4116150--4116243	41	2.3	41	96	0	179	38	12	18	30	1.88
4116282--4116307	13	2.0	13	100	0	52	38	15	15	30	1.88
4121486--4121534	21	2.5	20	80	9	55	22	18	16	42	1.88
4122869--4124375	754	2.0	754	95	0	2719	30	20	15	33	1.94
4125873--4126106	79	2.9	78	76	6	229	29	15	29	24	1.96
4126061--4126137	28	2.8	28	85	0	91	22	19	35	23	1.96
4126120--4126342	52	4.3	52	81	6	229	33	12	24	30	1.92
4126357--4126479	51	2.4	51	86	5	158	34	10	21	33	1.87
4126222--4126473	132	1.9	131	84	7	332	33	13	23	29	1.92
4128880--4128942	32	2.0	32	93	0	108	36	17	11	34	1.85
4128877--4128944	19	3.9	19	74	21	76	38	16	10	35	1.82
4131183--4131223	20	2.0	20	85	0	55	39	14	17	29	1.89
4131189--4131378	51	3.7	51	81	3	220	45	13	12	28	1.79
4131414--4131475	20	3.0	20	78	2	70	27	20	12	38	1.90
4137521--4137656	51	2.6	52	85	1	184	30	13	12	43	1.82
4142746--4142773	14	2.0	14	100	0	56	42	14	7	35	1.73
4144895--4145089	77	2.5	77	78	8	191	24	27	14	33	1.94
4147744--4147959	51	4.3	51	80	1	220	34	10	24	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4147897--4148071	78	2.3	78	84	5	221	30	14	26	28	1.95
4148024--4148097	28	2.6	28	82	4	96	27	17	31	24	1.97
4148083--4148188	51	2.1	51	85	0	140	32	9	27	31	1.88
4148184--4148255	28	2.6	27	82	8	74	27	22	27	22	1.99
4147976--4148305	158	2.1	157	83	4	407	31	13	26	28	1.94
4150200--4150808	313	1.9	315	95	2	1118	25	19	19	35	1.95
4153045--4153094	16	3.0	16	79	5	55	78	10	8	4	1.09
4153053--4153082	14	2.1	14	93	0	51	90	10	0	0	0.47
4154662--4154855	90	2.2	87	79	6	203	26	27	14	30	1.95
4154584--4155079	30	16.9	29	74	7	172	27	29	13	30	1.94
4154818--4155022	29	7.0	30	75	10	165	28	32	11	27	1.92
4155468--4155523	20	2.8	20	91	0	85	35	12	17	33	1.88
4155550--4155587	20	2.0	20	94	5	69	31	15	15	36	1.90
4157917--4157978	32	1.9	33	87	9	92	40	12	16	30	1.86
4160130--4160174	21	2.1	21	84	8	56	53	4	20	22	1.63
4161974--4162004	15	2.1	15	93	0	53	48	16	22	12	1.80
4164017--4164096	20	3.8	20	75	15	79	26	15	15	43	1.85
4164082--4164120	13	3.0	13	96	0	69	30	17	15	35	1.91
4167307--4167368	20	3.0	20	81	4	70	35	9	17	37	1.83
4169433--4169478	21	2.2	21	92	0	74	67	4	6	21	1.32
4174238--4174358	52	2.3	52	94	0	215	27	19	18	35	1.94
4174234--4174385	52	2.9	51	80	9	182	26	17	21	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4174463--4174557	19	5.6	19	68	27	88	34	18	14	31	1.92
4174425--4174571	32	4.6	32	95	0	251	34	17	14	34	1.89
4174482--4174570	13	5.9	13	68	27	52	33	17	15	32	1.92
4175415--4175905	49	10.1	49	81	8	565	32	16	25	24	1.96
4175424--4175905	101	4.9	100	83	7	564	32	17	25	24	1.96
4175427--4175905	144	3.3	144	88	3	658	32	17	25	24	1.96
4175625--4175905	92	3.0	93	81	9	297	33	17	24	24	1.96
4175919--4176104	33	5.7	33	79	3	225	20	17	33	28	1.96
4175913--4176103	65	2.9	65	87	0	265	20	18	31	28	1.97
4176134--4176452	68	4.9	68	76	12	326	35	13	30	21	1.91
4176117--4176258	28	4.7	28	70	19	106	33	11	31	23	1.91
4176303--4176356	28	1.9	28	92	0	90	29	14	31	24	1.95
4176118--4176422	96	3.2	96	92	0	522	35	12	29	21	1.91
4176433--4176742	58	5.3	58	90	4	421	18	17	32	30	1.95
4176427--4176742	88	3.6	85	84	7	368	19	17	32	30	1.95
4176443--4176742	146	2.1	144	89	3	460	18	17	32	31	1.94
4177947--4177990	14	3.2	13	87	12	61	2	2	15	79	0.93
4177947--4177990	15	3.1	15	87	6	56	2	2	15	79	0.93
4182285--4182358	27	2.7	27	97	0	139	18	18	39	22	1.93
4184361--4184487	52	2.5	52	92	1	211	28	15	17	38	1.90
4184361--4184508	52	2.9	51	87	5	183	30	15	17	36	1.91
4184497--4184521	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4184574--4184622	19	2.6	19	93	3	82	36	20	12	30	1.89
4187068--4187105	20	1.9	20	94	0	67	42	18	13	26	1.87
4188995--4189032	16	2.3	17	82	17	53	47	2	31	18	1.62
4189786--4189813	13	2.2	13	100	0	56	32	17	14	35	1.90
4189891--4189947	20	2.8	21	94	2	98	35	10	17	36	1.84
4191687--4191760	20	3.7	20	80	3	94	35	14	20	29	1.93
4191705--4191780	21	3.7	21	82	3	109	40	11	18	28	1.86
4191687--4191780	41	2.3	41	98	0	179	38	13	19	28	1.90
4191819--4191844	13	2.0	13	100	0	52	38	15	15	30	1.88
4197022--4197070	21	2.5	20	80	9	55	22	18	16	42	1.88
4198404--4199910	754	2.0	754	95	0	2728	30	20	15	33	1.94
4201408--4201641	79	2.9	78	76	6	229	29	15	29	24	1.96
4201596--4201672	28	2.8	28	85	0	91	22	19	35	23	1.96
4201655--4201877	52	4.3	52	81	6	229	33	12	24	30	1.92
4201892--4202014	51	2.4	51	86	5	158	34	10	21	33	1.87
4201757--4202008	132	1.9	131	84	7	332	33	13	23	29	1.92
4204382--4204407	13	2.0	13	100	0	52	38	15	15	30	1.88
4204450--4204512	32	2.0	32	93	0	108	36	17	11	34	1.85
4204447--4204514	19	3.9	19	74	21	76	38	16	10	35	1.82
4206753--4206793	20	2.0	20	85	0	55	39	14	17	29	1.89
4206759--4206948	51	3.7	51	81	3	220	45	13	12	28	1.79
4206984--4207045	20	3.0	20	78	2	70	27	20	12	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4213091--4213226	51	2.6	52	85	1	184	30	13	12	43	1.82
4218309--4218336	14	2.0	14	100	0	56	42	14	7	35	1.73
4220457--4220903	79	5.6	78	77	6	362	28	23	12	35	1.92
4220457--4220881	161	2.7	156	76	10	414	28	23	12	35	1.91
4223364--4223579	51	4.3	51	80	1	220	34	10	24	30	1.89
4223517--4223692	79	2.3	77	87	4	237	30	14	26	28	1.95
4223645--4223718	28	2.6	28	82	4	96	27	17	31	24	1.97
4223704--4223809	51	2.1	51	85	0	140	32	9	27	31	1.88
4223805--4223876	28	2.6	27	82	8	74	27	22	27	22	1.99
4223596--4223926	158	2.1	157	83	3	416	31	13	27	27	1.94
4225813--4226425	316	1.9	316	97	0	1172	25	19	19	35	1.95
4228644--4228694	21	2.4	21	76	0	57	76	7	5	9	1.15
4228669--4228711	16	2.7	16	78	7	52	81	6	6	4	0.98
4230123--4230500	30	12.9	30	73	11	162	25	26	14	32	1.95
4230282--4230475	90	2.2	87	79	6	203	26	27	14	30	1.95
4230203--4230699	30	16.9	29	74	8	174	26	29	13	30	1.94
4230438--4230642	29	7.0	30	75	10	165	28	32	11	27	1.92
4231087--4231142	20	2.8	20	91	0	85	35	12	17	33	1.88
4231168--4231205	20	2.0	20	94	5	69	31	15	15	36	1.90
4233537--4233598	32	1.9	33	87	9	92	40	12	16	30	1.86
4235752--4235796	21	2.1	21	84	8	56	53	4	20	22	1.63
4237600--4237630	15	2.1	15	93	0	53	48	16	22	12	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4239644--4239723	20	3.8	20	75	15	79	26	15	15	43	1.85
4239709--4239747	13	3.0	13	96	0	69	30	17	15	35	1.91
4243239--4243286	21	2.3	21	92	0	78	22	6	14	56	1.61
4243441--4243509	33	2.1	32	84	7	86	37	8	10	43	1.69
4244555--4244613	26	2.3	26	96	0	109	40	0	22	37	1.54
4245295--4245319	13	1.9	13	100	0	50	40	16	8	36	1.77
4246191--4246258	30	2.3	29	89	2	100	22	35	13	29	1.92
4246242--4246810	32	17.8	32	76	7	370	30	29	16	23	1.96
4246242--4246794	65	8.6	65	74	7	407	30	29	16	23	1.96
4246251--4246719	131	3.7	128	80	6	470	31	29	15	23	1.95

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