genome.fa.s196.2.7.7.80.10.50.1000.21.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: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Length:  7488280

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   

This is table  21  of  47  ( 5587 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)
3142171--3142325	69	2.2	70	81	1	195	32	20	10	36	1.87
3142309--3142382	27	2.7	27	87	0	103	24	31	16	28	1.96
3143746--3143791	21	2.1	22	88	4	67	39	10	8	41	1.71
3144053--3144099	20	2.2	21	81	11	51	42	0	10	46	1.38
3144969--3145179	27	8.5	25	66	21	97	43	0	0	56	0.99
3144974--3145032	14	4.1	14	77	12	50	35	0	0	64	0.94
3144976--3145160	5	37.4	5	64	17	57	41	0	0	58	0.98
3145002--3145158	16	9.9	16	65	18	62	43	0	0	56	0.99
3144988--3145042	22	2.7	21	83	10	69	34	0	0	65	0.93
3145042--3145094	28	1.9	27	84	3	70	56	0	0	43	0.99
3145042--3145121	32	2.7	29	79	12	74	52	0	0	47	1.00
3145111--3145196	22	4.0	22	76	10	79	37	0	0	62	0.95
3145126--3145231	45	2.3	46	79	10	112	44	0	0	55	0.99
3145166--3145251	19	4.6	19	70	13	61	47	0	0	52	1.00
3146484--3146512	3	9.7	3	100	0	58	65	0	0	34	0.93
3147012--3147064	26	2.0	27	88	7	81	28	3	1	66	1.20
3147492--3147527	3	12.3	3	88	5	56	38	0	0	61	0.96
3147489--3147523	18	1.9	18	100	0	70	40	0	0	60	0.97
3147839--3147926	36	2.5	36	83	5	108	37	3	3	55	1.33
3149983--3150113	63	2.1	63	95	0	244	21	17	16	44	1.87
3152166--3152215	7	7.1	7	95	0	91	26	44	16	14	1.85
3160144--3160179	2	18.0	2	100	0	72	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3161646--3161694	21	2.3	21	82	0	62	30	0	28	40	1.57
3161802--3161851	14	3.4	15	78	13	59	64	0	0	36	0.94
3161861--3161913	21	2.4	24	76	20	62	60	0	0	39	0.97
3161822--3162040	65	3.5	61	72	12	165	57	3	1	37	1.23
3161969--3162033	29	2.3	28	86	7	87	53	1	1	43	1.19
3163135--3163195	25	2.4	26	81	10	72	32	1	9	55	1.42
3163251--3163293	2	21.5	2	100	0	86	51	0	48	0	1.00
3163895--3163932	18	2.2	18	90	4	60	7	13	5	73	1.22
3171846--3171885	22	1.9	21	85	10	55	40	2	10	47	1.50
3172806--3172839	2	17.0	2	100	0	68	50	0	0	50	1.00
3173303--3173342	20	2.0	20	85	0	53	30	2	0	67	1.04
3176847--3176891	22	2.0	23	91	4	74	80	0	15	4	0.87
3180431--3180704	146	1.9	145	83	3	347	37	19	17	25	1.93
3182722--3183338	163	3.6	161	75	14	512	51	7	10	29	1.64
3182998--3183038	18	2.3	18	95	0	73	56	7	12	24	1.61
3183029--3183338	166	1.9	166	81	6	378	51	7	11	29	1.65
3188397--3188768	206	1.8	206	82	1	485	28	19	17	34	1.94
3190407--3190473	37	1.9	35	88	11	102	29	25	11	32	1.92
3190931--3190956	13	2.0	13	100	0	52	30	15	15	38	1.88
3191016--3191088	20	3.6	20	81	3	101	31	17	13	36	1.89
3190995--3191071	21	3.7	21	77	6	86	28	16	11	42	1.84
3190995--3191088	41	2.3	41	94	3	163	29	18	12	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3191640--3191735	48	2.0	48	97	0	183	25	28	8	38	1.84
3195001--3195042	21	2.0	21	85	0	57	23	28	4	42	1.74
3196135--3196201	37	1.9	35	88	11	102	29	25	11	32	1.92
3196659--3196684	13	2.0	13	100	0	52	30	15	15	38	1.88
3196744--3196816	20	3.6	20	81	3	101	31	17	13	36	1.89
3196723--3196799	21	3.7	21	77	6	86	28	16	11	42	1.84
3196723--3196816	41	2.3	41	94	3	163	29	18	12	39	1.88
3197198--3197480	94	3.0	94	88	2	408	27	20	15	36	1.93
3211424--3211472	20	2.3	22	80	20	59	65	8	4	22	1.37
3211425--3211467	20	2.1	21	87	12	63	62	6	4	25	1.40
3211740--3211777	19	2.0	19	100	0	76	84	0	5	10	0.77
3211743--3211780	20	1.9	20	100	0	76	86	0	2	10	0.66
3211783--3211839	21	2.7	21	97	0	105	33	10	19	36	1.86
3211895--3211962	19	3.9	19	78	21	85	35	11	14	38	1.83
3211916--3211940	13	1.9	13	100	0	50	36	16	16	32	1.90
3211897--3211959	32	2.0	32	96	0	117	34	12	15	36	1.86
3212002--3212027	13	2.0	13	100	0	52	30	15	15	38	1.88
3211982--3212048	33	2.0	33	88	0	98	25	14	16	43	1.86
3214498--3214570	27	2.7	27	87	6	94	23	34	21	20	1.97
3214553--3214723	51	3.3	51	77	4	189	29	25	12	32	1.92
3214706--3214787	28	2.9	28	80	7	87	25	31	15	26	1.96
3216961--3217002	21	2.0	21	85	0	57	35	21	9	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3217163--3217219	29	2.0	29	82	0	69	31	28	17	22	1.97
3217275--3217639	82	4.5	82	80	3	360	29	26	14	30	1.95
3217632--3217730	52	1.9	52	87	6	148	21	24	19	35	1.96
3217649--3217878	52	4.4	52	76	9	193	25	23	18	32	1.97
3218932--3219177	94	2.6	93	84	1	303	29	17	14	38	1.89
3221464--3221523	27	2.2	27	85	5	77	31	31	10	26	1.89
3224291--3224316	13	2.0	13	100	0	52	38	15	15	30	1.88
3226525--3226569	21	2.1	21	84	8	56	53	4	20	22	1.63
3230420--3230497	20	3.6	21	74	15	70	26	14	15	43	1.85
3230486--3230549	13	4.9	13	94	0	110	34	18	15	31	1.93
3230486--3230549	26	2.5	26	100	0	128	34	18	15	31	1.93
3233092--3233117	13	2.0	13	100	0	52	38	15	15	30	1.88
3237292--3237325	9	3.8	9	84	0	50	47	0	29	23	1.52
3239887--3239923	11	3.0	13	84	15	60	29	16	16	37	1.90
3239909--3239962	20	2.8	20	85	2	74	35	12	14	37	1.85
3243274--3243304	13	2.4	13	94	0	53	35	12	16	35	1.87
3243254--3243320	33	2.0	33	88	5	100	35	17	13	32	1.89
3243349--3243403	20	2.8	19	89	5	83	38	16	12	32	1.86
3243389--3243415	13	2.1	13	100	0	54	40	14	14	29	1.86
3245688--3245734	22	2.2	23	85	14	66	46	0	21	31	1.51
3251920--3251983	33	1.9	32	84	12	85	39	20	9	31	1.84
3251945--3251982	20	1.9	20	88	0	58	39	21	10	28	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3252053--3252078	13	2.0	13	100	0	52	38	7	15	38	1.76
3254695--3254767	31	2.3	31	95	2	128	49	20	13	16	1.79
3255951--3256037	13	6.7	13	86	0	129	31	17	14	36	1.90
3255951--3256034	26	3.2	26	98	0	159	30	16	15	36	1.90
3258517--3258569	20	2.7	20	91	2	81	32	13	16	37	1.88
3258619--3258644	13	2.0	13	100	0	52	30	15	15	38	1.88
3258598--3258666	33	2.1	33	83	5	86	30	10	18	40	1.84
3261601--3261639	20	1.9	21	94	5	71	35	12	17	33	1.88
3263455--3263480	13	2.0	13	100	0	52	30	15	15	38	1.88
3263519--3263594	21	3.7	21	77	7	84	31	15	11	40	1.84
3263540--3263612	20	3.6	20	79	17	96	32	19	13	34	1.91
3263519--3263612	41	2.3	41	94	3	163	31	17	12	38	1.87
3266064--3266101	13	2.9	13	96	0	67	31	15	18	34	1.92
3266090--3266166	20	3.6	20	74	19	66	44	15	14	25	1.84
3270016--3270060	21	2.1	21	84	8	56	22	20	4	53	1.63
3272278--3272303	13	2.0	13	100	0	52	30	15	15	38	1.88
3272342--3272417	21	3.7	21	77	7	84	31	15	11	40	1.84
3272363--3272435	20	3.6	20	79	17	96	32	19	13	34	1.91
3272342--3272435	41	2.3	41	94	3	163	31	17	12	38	1.87
3273542--3273598	30	1.9	30	92	0	96	47	8	15	28	1.75
3276637--3276666	15	2.0	15	100	0	60	26	6	0	66	1.16
3282621--3282655	7	5.0	7	100	0	70	14	14	42	28	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3282739--3282795	23	2.5	23	100	0	114	42	0	0	57	0.98
3284764--3284888	16	7.7	16	75	10	103	58	4	0	36	1.19
3285337--3285416	16	5.1	15	80	14	74	68	0	1	30	0.97
3285329--3285388	32	1.9	31	86	10	86	65	0	1	33	1.03
3285370--3285407	5	7.4	5	88	5	58	78	0	0	21	0.74
3286338--3286576	128	1.9	128	81	3	293	32	5	8	53	1.55
3291283--3291326	2	22.0	2	100	0	88	50	0	0	50	1.00
3294828--3294864	3	12.3	3	100	0	74	67	0	32	0	0.91
3295854--3295885	15	2.2	15	94	5	57	68	0	0	31	0.90
3296033--3296079	3	15.7	3	90	0	76	27	0	4	68	1.08

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