genome.fa.s42.2.7.7.80.10.50.1000.22.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: Scaffold42
Parameters: 2 7 7 80 10 50 1000
Length:  3911082

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  22  of  24  ( 2843 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)
3342687--3342757	32	2.2	32	94	0	124	35	19	12	32	1.90
3342695--3342757	19	3.6	19	76	24	75	34	19	12	33	1.89
3343509--3343873	42	7.9	49	77	11	249	32	16	25	25	1.96
3343590--3343813	92	2.5	91	90	2	342	32	16	24	26	1.96
3343776--3343842	21	3.2	21	68	16	66	31	13	25	29	1.94
3343785--3343852	21	3.2	21	65	23	52	30	14	23	30	1.94
3343882--3344349	28	16.4	28	84	4	544	19	17	31	31	1.95
3343882--3344349	57	8.2	57	85	4	568	19	17	31	31	1.95
3343928--3344350	172	2.5	171	93	2	704	19	18	31	30	1.95
3345786--3345821	17	2.1	17	90	10	56	0	0	16	83	0.65
3345786--3345820	16	2.1	17	89	5	54	0	0	17	82	0.66
3345777--3345822	18	2.4	20	89	7	69	0	0	17	82	0.67
3361035--3361159	61	2.1	60	84	4	162	21	25	15	37	1.92
3361062--3361211	61	2.5	61	82	3	160	22	24	14	39	1.91
3370985--3371096	51	2.2	51	83	3	136	33	12	24	29	1.92
3371036--3371254	79	2.8	79	85	0	312	30	14	26	27	1.95
3370932--3371175	130	1.9	130	83	6	316	31	12	26	29	1.93
3371739--3371979	119	2.0	119	95	0	428	36	18	18	27	1.94
3373733--3373762	13	2.3	13	94	0	51	40	10	16	33	1.82
3374497--3374633	42	3.2	43	79	14	156	40	11	28	18	1.86
3374487--3374628	45	3.2	45	83	7	168	42	11	28	18	1.84
3374624--3375460	61	13.5	62	75	8	571	32	18	26	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3374623--3375465	184	4.5	182	76	9	781	32	17	26	23	1.97
3374938--3375093	46	3.6	42	78	13	167	37	16	26	19	1.92
3374930--3375094	45	3.9	40	76	18	156	40	15	26	18	1.89
3374623--3375460	123	6.8	123	77	8	734	31	18	26	23	1.97
3380120--3380285	79	2.1	78	83	7	219	36	11	22	28	1.89
3380122--3380306	79	2.3	79	82	9	209	34	12	23	29	1.92
3380243--3380525	51	5.5	51	75	9	227	35	12	22	29	1.91
3380242--3380512	103	2.6	104	81	6	286	34	12	22	29	1.92
3382814--3382929	20	5.8	20	82	6	101	42	11	15	31	1.82
3383428--3384219	134	6.0	129	80	9	683	40	12	27	19	1.88
3383457--3384219	177	4.3	175	80	9	743	39	12	27	20	1.88
3383499--3384214	311	2.3	309	87	5	1005	39	12	27	20	1.89
3384204--3384889	61	11.4	61	83	4	779	28	19	26	25	1.99
3384204--3384889	121	5.7	122	83	5	808	28	19	26	25	1.99
3388877--3389005	52	2.5	52	92	0	204	31	19	15	34	1.93
3388877--3389025	52	2.9	51	86	4	192	32	18	16	32	1.93
3389014--3389038	13	1.9	13	100	0	50	36	16	16	32	1.90
3389101--3389125	13	1.9	13	100	0	50	32	16	16	36	1.90
3389444--3389525	13	7.2	13	66	27	60	34	17	13	35	1.88
3389480--3389545	20	3.7	19	73	26	72	30	19	15	34	1.93
3389444--3389547	33	3.1	33	91	4	156	32	18	13	35	1.90
3389576--3389667	20	4.7	18	77	17	78	33	16	19	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3390219--3390260	16	2.5	17	88	7	59	26	38	2	33	1.69
3390219--3390263	17	2.6	17	83	13	65	24	37	2	35	1.68
3390965--3390989	13	1.9	13	100	0	50	40	16	16	28	1.89
3397100--3397155	21	2.7	21	83	10	71	28	16	16	39	1.89
3397100--3397186	20	4.7	20	73	22	73	28	18	16	36	1.92
3397121--3397185	33	2.0	33	93	0	112	27	18	16	36	1.93
3397256--3397282	13	2.1	13	100	0	54	40	14	14	29	1.86
3397237--3397301	33	2.0	32	87	3	94	38	13	20	27	1.90
3403198--3403235	16	2.3	17	86	4	51	44	23	5	26	1.74
3403334--3403565	31	7.2	31	77	10	148	21	34	12	31	1.91
3403371--3403562	34	5.7	34	82	10	243	21	34	12	30	1.91
3403371--3403562	67	2.9	66	91	4	296	21	34	12	30	1.91
3403572--3403960	33	11.9	33	89	4	567	28	31	18	21	1.97
3403960--3404489	49	11.1	49	82	9	655	24	26	17	31	1.97
3403955--3404489	92	5.6	92	87	7	587	24	26	17	31	1.97
3403960--3404489	141	3.7	141	86	6	649	24	26	17	31	1.97
3404286--3404480	52	3.8	52	86	4	288	22	26	18	31	1.97
3404141--3404486	101	3.5	101	89	5	548	23	27	17	31	1.97
3405296--3405320	13	1.9	13	100	0	50	36	16	16	32	1.90
3405276--3405341	32	2.0	33	88	2	98	33	12	15	39	1.84
3405382--3405409	13	2.2	13	100	0	56	28	14	17	39	1.89
3405395--3405539	52	2.8	50	88	6	209	33	17	17	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3408548--3408766	79	2.8	78	83	5	262	34	14	23	27	1.93
3408715--3408924	51	4.1	51	77	8	178	36	10	21	30	1.88
3408715--3408924	102	2.1	102	80	5	228	36	10	21	30	1.88
3408758--3408947	51	3.7	50	77	9	159	36	11	21	30	1.89
3408758--3408947	102	1.9	102	81	4	231	36	11	21	30	1.89
3411265--3411338	20	3.7	19	78	7	76	41	14	16	27	1.87
3413783--3414003	78	2.8	78	84	4	302	29	14	27	28	1.95
3416159--3416209	20	2.5	20	90	6	77	41	13	17	27	1.87
3417941--3418070	65	2.0	64	81	1	152	24	26	12	36	1.91
3418056--3418463	33	12.9	32	71	12	256	22	29	10	37	1.87
3418050--3418504	60	7.2	64	73	10	285	23	28	10	37	1.88
3418071--3418417	125	2.8	127	74	10	318	23	29	10	37	1.87
3418050--3418478	93	4.6	93	77	6	382	22	28	10	38	1.87
3418387--3418444	27	2.1	27	87	0	80	24	27	12	36	1.91
3418319--3418495	33	5.6	33	69	13	93	24	28	9	37	1.86
3418497--3418900	32	12.4	32	76	11	229	29	30	17	22	1.97
3418512--3418891	33	11.7	33	83	4	407	31	29	17	20	1.96
3418975--3419270	52	5.5	52	76	7	234	24	23	15	36	1.94
3419008--3419208	112	1.8	111	84	1	276	25	22	14	36	1.93
3419964--3420017	20	2.6	21	82	2	65	42	11	12	33	1.79
3421498--3421549	19	2.7	20	90	3	79	26	15	17	40	1.89
3424398--3424968	166	3.4	166	80	6	611	27	11	8	52	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3425717--3425769	17	2.9	18	80	11	63	35	15	15	33	1.88
3425754--3425778	13	1.9	13	100	0	50	36	16	16	32	1.90
3428698--3429374	154	4.4	155	76	9	539	25	16	19	39	1.92
3432085--3432109	13	1.9	13	100	0	50	36	16	16	32	1.90
3432065--3432128	32	2.0	33	96	3	121	34	12	18	34	1.89
3432064--3432147	19	4.7	19	80	18	108	33	11	17	36	1.87
3432190--3432214	13	1.9	13	100	0	50	32	16	16	36	1.90
3432223--3432351	52	2.5	52	93	0	222	35	16	18	29	1.93
3438708--3438746	15	2.6	15	88	12	62	76	2	15	5	1.06
3438709--3438752	13	3.2	13	83	6	52	72	2	15	9	1.19
3438701--3438745	15	2.7	18	74	25	53	75	4	13	6	1.15
3440027--3440432	31	13.1	30	78	12	331	22	28	17	32	1.96
3440032--3440322	123	2.4	122	89	4	433	23	27	17	30	1.97
3440307--3440657	31	10.8	30	76	11	211	20	33	14	30	1.93
3440279--3440750	100	4.8	99	81	10	461	20	32	14	32	1.92
3440310--3440725	231	1.8	231	91	2	692	20	32	14	31	1.93
3440032--3440662	62	9.9	61	80	8	419	21	30	16	31	1.95
3440311--3440725	131	3.2	131	88	6	567	20	33	14	31	1.93
3440740--3440875	32	4.3	32	84	7	179	31	36	16	16	1.91
3440868--3441185	92	3.5	92	84	6	351	25	25	18	30	1.98
3441049--3441736	92	7.4	92	91	2	1112	25	25	18	30	1.98
3441644--3441778	52	2.6	52	92	0	225	22	24	18	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3447124--3447157	15	2.2	16	89	5	52	41	5	5	47	1.52
3447242--3447313	10	6.9	11	71	16	64	50	0	0	50	1.00
3447265--3447314	15	3.0	17	72	22	52	46	0	0	54	1.00
3447343--3447376	8	4.4	8	85	7	52	61	0	0	38	0.96
3447346--3447374	15	1.9	15	100	0	58	55	0	0	44	0.99
3447787--3447839	22	2.4	21	72	9	52	52	3	1	41	1.30
3448759--3448831	20	3.7	19	81	7	76	38	15	17	28	1.90
3448759--3448812	19	2.8	20	82	2	74	37	14	18	29	1.91
3452244--3452368	52	2.4	52	98	0	241	26	20	19	33	1.96
3452431--3452512	19	4.6	19	79	17	104	37	18	10	32	1.86

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