genome.fa.s194.2.7.7.80.10.50.1000.23.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: Scaffold194
Parameters: 2 7 7 80 10 50 1000
Length:  3945165

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   

This is table  23  of  24  ( 2800 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)
3716745--3716791	21	2.3	20	88	3	67	36	0	14	48	1.44
3716746--3716791	20	2.2	19	85	14	56	34	0	15	50	1.44
3721308--3721336	14	2.1	14	100	0	58	27	13	6	51	1.66
3722693--3722722	14	2.2	14	94	5	53	56	6	3	33	1.42
3734259--3734287	14	2.1	14	100	0	58	27	13	6	51	1.66
3734848--3734885	18	2.1	19	90	9	62	36	0	5	57	1.21
3735601--3735631	14	2.1	15	94	5	55	48	0	0	51	1.00
3735655--3735684	14	2.2	14	94	5	53	56	6	3	33	1.42
3742278--3742312	3	11.7	3	93	0	61	37	0	31	31	1.58
3746089--3746217	52	2.5	52	98	0	249	28	17	17	35	1.93
3746278--3746344	33	2.0	33	88	0	98	40	14	11	32	1.83
3746300--3746324	13	1.9	13	100	0	50	32	16	16	36	1.90
3752236--3752308	24	3.5	21	75	15	62	32	16	12	38	1.86
3754095--3754120	13	2.0	13	100	0	52	30	15	15	38	1.88
3754075--3754139	33	2.0	33	87	6	96	27	13	16	41	1.87
3756693--3756731	13	3.0	13	96	0	69	35	15	17	30	1.91
3762909--3762934	13	2.0	13	100	0	52	30	15	15	38	1.88
3762889--3762953	33	2.0	33	87	6	96	27	13	16	41	1.87
3765291--3765346	21	2.5	22	83	13	62	50	5	1	42	1.35
3770104--3770128	2	12.5	2	100	0	50	48	0	0	52	1.00
3770781--3770833	3	17.7	3	100	0	106	66	0	0	33	0.92
3772668--3772692	2	12.5	2	100	0	50	52	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3772760--3772784	2	12.5	2	100	0	50	52	0	48	0	1.00
3772651--3772824	92	1.9	92	98	0	339	47	5	29	17	1.70
3774258--3774302	2	22.5	2	100	0	90	48	0	51	0	1.00
3776104--3776159	29	2.0	28	82	10	69	53	0	0	46	1.00
3776934--3776983	18	2.8	17	82	14	57	56	2	6	36	1.36
3779894--3779936	20	2.2	20	91	0	68	27	6	32	32	1.84
3783224--3783411	52	3.6	52	85	0	232	23	14	31	29	1.95
3787543--3787753	97	2.2	97	88	0	314	30	13	27	27	1.94
3790744--3790809	20	3.3	20	75	8	71	28	18	12	40	1.86
3790744--3790947	90	2.2	90	86	5	277	28	16	11	43	1.83
3794113--3795599	28	52.8	28	78	10	703	26	15	30	27	1.96
3794250--3794873	234	2.7	236	79	7	666	22	17	29	30	1.97
3794625--3794790	32	5.5	32	81	8	172	20	20	28	30	1.98
3794803--3795618	54	15.0	55	80	8	660	30	13	30	25	1.94
3795073--3795188	57	2.0	58	83	1	144	25	14	34	25	1.94
3795307--3795342	18	1.9	19	94	5	65	30	5	33	30	1.81
3795277--3795424	46	3.0	46	76	20	149	31	10	31	26	1.90
3795323--3795618	55	5.3	54	88	4	394	33	12	29	25	1.92
3802007--3802247	97	2.5	96	86	2	338	29	13	29	27	1.94
3803423--3803463	21	2.0	21	85	0	55	68	7	2	21	1.26
3807445--3807519	36	2.1	36	100	0	150	16	13	25	45	1.83
3809063--3809260	101	2.0	101	86	2	281	35	22	11	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3812789--3812888	53	1.9	52	85	6	139	21	27	16	36	1.94
3812997--3813095	31	3.2	31	81	2	110	33	27	18	21	1.96
3813149--3813237	31	2.9	31	84	0	124	31	26	16	24	1.97
3813305--3813673	95	4.0	92	80	4	343	27	22	16	33	1.96
3813796--3813912	61	1.9	61	82	0	144	23	23	13	40	1.90
3814552--3814606	21	2.7	21	75	5	60	38	14	12	34	1.84
3828602--3828644	10	4.4	10	76	5	52	83	9	2	4	0.87
3828589--3828653	23	2.8	23	82	11	80	81	10	4	3	0.95
3834836--3834861	13	2.0	13	100	0	52	30	15	15	38	1.88
3834900--3834975	21	3.7	21	80	3	100	28	17	11	42	1.84
3834921--3834993	20	3.6	20	81	3	101	31	19	13	35	1.91
3834900--3834993	41	2.3	41	98	0	179	29	18	12	39	1.88
3835611--3835671	31	2.0	31	100	0	122	44	26	3	26	1.69
3837465--3837503	13	3.0	13	96	0	69	35	15	17	30	1.91
3837489--3837567	20	3.7	20	70	20	70	45	16	12	25	1.82
3839582--3839612	15	2.1	15	93	0	53	12	22	16	48	1.80
3841552--3841577	1	26.0	1	100	0	52	100	0	0	0	0.00
3841582--3841638	21	2.7	21	97	0	105	33	10	19	36	1.86
3841694--3841761	19	3.9	19	78	21	85	35	11	14	38	1.83
3841715--3841739	13	1.9	13	100	0	50	36	16	16	32	1.90
3841696--3841758	32	2.0	32	96	0	117	34	12	15	36	1.86
3841801--3841826	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3841781--3841847	33	2.0	33	88	0	98	25	14	16	43	1.86
3844296--3844368	27	2.7	27	87	6	94	23	34	21	20	1.97
3844351--3844521	51	3.3	51	79	4	198	29	26	11	32	1.92
3844504--3844585	28	2.9	28	80	7	87	25	31	15	26	1.96
3847869--3847894	13	2.0	13	100	0	52	30	15	15	38	1.88
3847933--3848008	21	3.7	21	80	3	100	28	17	11	42	1.84
3847954--3848026	20	3.6	20	81	3	101	31	19	13	35	1.91
3847933--3848026	41	2.3	41	98	0	179	29	18	12	39	1.88
3850678--3850752	37	2.0	37	97	0	141	30	30	8	30	1.86
3858150--3858229	8	10.5	8	79	14	71	85	13	1	0	0.67
3858150--3858238	41	2.2	42	84	10	121	84	14	1	0	0.69
3858152--3858226	1	75.0	1	72	0	60	86	12	1	0	0.63
3859671--3860040	28	13.3	27	90	3	422	32	29	17	21	1.96
3859670--3860031	56	6.5	56	90	2	505	32	29	17	21	1.96
3859670--3860036	84	4.4	83	87	4	513	31	29	17	21	1.96
3860117--3860184	21	3.2	21	63	19	50	25	25	17	32	1.97
3860099--3860233	43	3.0	43	73	12	135	25	23	17	33	1.96
3860094--3860427	49	6.8	49	73	8	227	25	24	16	33	1.96
3860147--3860289	52	2.8	52	75	3	148	25	25	15	33	1.95
3860147--3860329	101	1.8	101	87	0	276	25	23	16	34	1.96
3860142--3860379	101	2.4	101	81	1	271	25	24	16	34	1.95
3861184--3861234	19	2.5	21	84	6	70	41	13	13	31	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3861265--3861292	13	2.2	13	100	0	56	28	14	17	39	1.89
3862209--3862249	21	1.9	22	90	5	66	21	17	17	43	1.87
3863502--3863550	27	1.9	26	84	12	66	24	40	16	18	1.90
3864466--3864565	53	1.9	52	81	6	121	24	26	14	36	1.93
3864609--3864637	2	14.5	2	100	0	58	0	51	0	48	1.00
3864689--3864929	31	7.7	31	71	13	172	29	31	16	22	1.96
3865039--3865269	94	2.5	91	82	4	275	26	23	17	32	1.97
3865236--3865478	52	4.7	51	80	6	240	22	27	15	33	1.95
3865444--3865560	61	1.9	61	87	0	171	23	27	12	35	1.92
3866210--3866235	13	2.0	13	100	0	52	38	15	15	30	1.88
3871921--3872181	52	5.0	52	78	2	195	34	12	22	29	1.91
3871923--3872181	104	2.5	104	77	3	254	34	12	23	29	1.91
3872310--3872569	32	8.2	32	77	9	235	24	17	27	31	1.97
3872313--3872567	64	4.0	64	83	3	318	24	16	27	31	1.97
3872308--3872576	96	2.8	96	81	6	314	24	17	26	31	1.97
3872315--3872567	127	2.0	126	83	5	323	24	16	27	31	1.96
3872596--3872944	30	11.8	29	75	7	247	29	13	32	25	1.93
3872626--3872835	87	2.4	86	80	6	217	29	13	31	25	1.94
3875874--3875989	51	2.3	51	92	1	189	34	11	25	28	1.90
3875974--3876046	28	2.6	28	82	6	85	27	17	28	26	1.98
3875928--3876126	108	1.9	106	86	2	281	33	13	24	29	1.93
3875999--3876339	81	4.2	81	74	7	266	34	11	24	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3876003--3876339	162	2.1	159	81	9	398	34	11	24	29	1.90
3878440--3878577	51	2.7	51	84	6	181	39	11	15	32	1.84
3878634--3878687	20	2.6	21	82	2	65	35	14	11	38	1.82
3884831--3884944	53	2.2	52	82	1	138	47	10	11	30	1.73
3886443--3886616	67	2.6	68	78	3	163	29	20	14	35	1.92
3887984--3888045	27	2.1	27	85	14	79	64	1	1	32	1.13
3888032--3888066	11	3.2	11	87	0	52	60	0	0	40	0.97
3888021--3888078	21	2.7	22	76	10	59	63	1	0	34	1.04
3888221--3888284	32	2.0	33	84	6	87	10	15	4	68	1.35
3888904--3888943	20	2.0	21	85	5	55	15	5	2	77	1.04

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