genome.fa.s196.2.7.7.80.10.50.1000.22.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: 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  22  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)
3296319--3296357	4	9.8	4	88	0	60	46	0	2	51	1.14
3296319--3296357	6	6.5	6	93	0	60	46	0	2	51	1.14
3297628--3297700	20	3.6	20	81	3	101	35	13	19	31	1.91
3297646--3297721	21	3.7	21	80	3	100	42	11	17	28	1.84
3297628--3297721	41	2.3	41	98	0	179	39	12	18	29	1.88
3299061--3299107	24	2.0	24	83	8	60	48	0	0	51	1.00
3299904--3299967	27	2.3	29	79	12	73	34	0	0	65	0.93
3300891--3301078	97	2.0	92	85	9	254	40	8	19	31	1.82
3301414--3301503	43	2.1	43	97	0	171	25	16	16	41	1.89
3302773--3302798	13	2.0	13	100	0	52	38	15	15	30	1.88
3302755--3302818	32	2.0	33	87	3	94	40	15	15	28	1.88
3308971--3308996	13	2.0	13	100	0	52	30	15	15	38	1.88
3309108--3309153	21	2.2	20	81	11	58	32	19	4	43	1.71
3310769--3310815	20	2.3	21	96	3	87	36	4	14	44	1.65
3311427--3311452	13	2.0	13	100	0	52	38	15	15	30	1.88
3311409--3311472	32	2.0	33	90	3	103	42	15	14	28	1.86
3312965--3313039	20	3.8	19	84	8	87	36	10	13	40	1.79
3318409--3318450	21	2.0	21	90	0	66	23	9	30	35	1.87
3318532--3318772	97	2.5	97	84	0	311	30	12	29	28	1.93
3333454--3333945	61	8.0	61	81	5	507	27	25	17	29	1.97
3336913--3337491	238	2.4	238	80	5	618	27	22	14	34	1.93
3336864--3337508	79	8.2	79	80	6	590	27	22	13	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3336942--3337520	317	1.8	317	81	4	713	28	22	13	36	1.92
3341003--3341035	2	16.5	2	100	0	66	51	0	0	48	1.00
3341625--3342293	166	4.0	163	83	6	803	52	8	10	28	1.66
3343369--3344102	60	12.2	60	79	6	682	39	12	24	23	1.89
3343540--3344055	30	17.2	30	64	10	185	39	12	25	22	1.89
3352248--3352296	26	2.0	26	84	8	66	4	20	4	71	1.19
3354925--3355041	42	2.8	42	85	3	130	44	0	41	13	1.50
3357903--3357955	26	2.0	26	100	0	106	45	3	24	26	1.70
3360825--3360994	85	2.0	85	100	0	340	32	16	21	29	1.95
3364512--3364588	20	3.8	20	79	6	84	42	12	14	29	1.83
3365490--3365559	32	2.2	33	89	2	106	34	15	22	27	1.95
3365512--3366012	113	4.4	114	85	4	607	22	16	30	30	1.96
3365512--3366012	28	17.5	28	82	6	549	22	16	30	30	1.96
3367253--3367329	30	2.6	30	85	4	102	2	1	11	84	0.79
3367252--3367328	17	4.4	17	79	9	75	2	1	11	84	0.79
3367252--3367329	41	1.9	39	84	5	102	2	1	11	84	0.78
3381168--3381240	31	2.4	31	95	0	128	45	12	19	23	1.84
3381225--3381300	20	3.8	20	83	10	93	36	11	18	32	1.87
3382549--3382606	20	2.8	20	76	16	57	62	12	1	24	1.39
3385188--3385246	32	1.9	30	83	13	75	59	10	10	20	1.58
3385526--3385551	13	2.0	13	100	0	52	30	15	15	38	1.88
3385505--3385569	32	2.0	34	90	6	107	27	12	15	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3385621--3385676	20	2.8	20	89	5	78	28	17	16	37	1.91
3388111--3388149	13	3.0	13	96	0	69	35	15	17	30	1.91
3393725--3393783	32	1.9	30	83	13	75	59	10	10	20	1.58
3394044--3394106	32	1.9	34	90	6	103	28	15	12	42	1.84
3394167--3394210	20	2.2	20	84	8	54	31	18	15	34	1.92
3394992--3395028	13	2.6	15	79	16	51	78	10	10	0	0.97
3394992--3395028	14	2.6	14	87	12	58	78	10	10	0	0.97
3396230--3396272	21	2.1	20	82	4	50	67	2	4	25	1.22
3396768--3397119	153	2.3	152	82	7	421	26	21	17	34	1.95
3401039--3401064	13	2.0	13	100	0	52	38	15	15	30	1.88
3401021--3401085	32	2.0	32	87	6	94	40	18	13	27	1.89
3403295--3403346	21	2.4	21	78	9	61	63	3	9	23	1.41
3405096--3405125	15	2.0	15	93	0	51	50	16	20	13	1.78
3405085--3405125	15	2.7	16	81	11	50	46	17	19	17	1.85
3407178--3407202	13	1.9	13	100	0	50	32	20	16	32	1.94
3407323--3407369	21	2.3	20	82	10	60	31	19	4	44	1.70
3412955--3413070	52	2.3	50	88	5	162	40	14	16	28	1.88
3414173--3414220	11	4.4	11	89	0	78	87	0	10	2	0.62
3415054--3415200	75	2.0	75	90	2	233	28	11	8	51	1.68
3415065--3415220	75	2.1	75	82	2	188	28	12	10	49	1.72
3416211--3416399	45	4.2	45	75	9	152	22	21	15	40	1.90
3416211--3416396	90	2.1	90	85	6	252	22	20	15	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3416242--3416445	45	4.5	45	77	9	182	24	21	15	39	1.92
3416257--3416429	90	1.9	90	82	4	215	23	19	14	42	1.88
3418312--3418352	13	3.2	13	86	13	59	85	2	12	0	0.70
3422538--3422581	23	1.9	23	86	9	63	29	6	22	40	1.80
3423703--3423729	13	2.1	13	100	0	54	40	14	14	29	1.86
3424837--3424875	9	4.3	9	81	12	53	43	0	30	25	1.55
3424839--3424873	3	11.7	3	87	0	52	40	0	31	28	1.57
3431963--3431988	13	2.0	13	100	0	52	30	15	15	38	1.88
3432514--3432567	25	2.2	25	100	0	108	35	14	16	33	1.90
3433510--3433548	2	19.5	2	100	0	78	48	0	0	51	1.00
3434228--3434258	3	10.3	3	92	0	53	64	0	3	32	1.09
3436974--3437003	13	2.2	14	94	5	53	36	0	0	63	0.95
3437420--3437474	21	2.6	21	82	5	67	40	16	14	29	1.88
3437460--3437486	13	2.1	13	100	0	54	40	14	14	29	1.86
3440660--3440685	13	2.0	13	100	0	52	30	15	15	38	1.88
3440640--3440703	32	2.0	33	90	3	103	28	14	15	42	1.86
3440755--3440813	20	3.0	19	90	5	73	30	16	16	35	1.92
3443230--3443267	13	2.9	13	96	0	67	31	15	18	34	1.92
3445344--3445381	15	2.5	15	91	0	58	13	21	15	50	1.78
3449441--3449466	13	2.0	13	100	0	52	30	15	15	38	1.88
3449421--3449484	32	2.0	33	90	3	103	28	14	15	42	1.86
3449514--3449570	20	2.8	20	89	5	80	29	17	15	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3450932--3451185	79	3.2	79	82	1	321	27	25	14	31	1.95
3451121--3451240	51	2.4	51	85	2	170	30	30	12	27	1.93
3451088--3451426	158	2.1	158	84	3	423	28	28	13	30	1.94
3451219--3451296	28	2.8	28	90	7	115	26	32	17	23	1.97
3451279--3451398	51	2.4	51	88	2	179	29	26	13	30	1.94
3451246--3451496	130	1.9	130	79	6	276	29	25	11	33	1.92
3453870--3453900	16	1.9	16	93	0	53	29	12	0	58	1.35
3455788--3455888	52	1.9	52	80	4	114	29	14	12	42	1.83
3462645--3462698	19	2.8	20	88	2	83	38	14	16	29	1.89
3465001--3465095	42	2.2	44	83	7	124	32	20	11	35	1.88
3465004--3465095	21	4.3	21	81	1	94	32	20	11	34	1.89
3465544--3465636	36	2.8	32	81	15	109	32	13	24	29	1.94
3466351--3466387	6	6.3	6	87	6	58	32	16	2	48	1.60
3469582--3469655	20	3.7	20	81	3	103	35	13	20	31	1.91
3469600--3469675	21	3.7	21	82	3	109	40	11	18	28	1.86
3469582--3469675	41	2.3	41	100	0	188	38	12	19	29	1.89
3469714--3469739	13	2.0	13	100	0	52	38	15	15	30	1.88
3471948--3471992	21	2.1	21	84	8	56	53	4	20	22	1.63
3475841--3475919	20	3.7	21	75	15	72	26	13	15	44	1.84
3475906--3475944	13	3.0	13	96	0	69	30	17	15	35	1.91
3478397--3478470	20	3.7	20	81	3	103	35	13	20	31	1.91
3478415--3478490	21	3.7	21	82	3	109	40	11	18	28	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3478397--3478490	41	2.3	41	100	0	188	38	12	19	29	1.89
3479477--3479502	13	2.0	13	100	0	52	30	15	15	38	1.88
3480445--3480885	79	5.5	79	78	6	313	37	10	22	29	1.88
3482503--3482554	20	2.5	21	81	3	61	26	15	15	42	1.87
3484071--3484095	13	1.9	13	100	0	50	44	16	8	32	1.76
3485088--3485114	13	2.1	13	100	0	54	40	14	14	29	1.86
3493886--3493912	13	2.1	13	100	0	54	40	14	14	29	1.86
3493947--3494496	275	2.0	273	82	7	670	33	12	12	41	1.80
3496682--3496756	32	2.3	32	80	13	91	48	0	20	32	1.50
3496682--3496756	31	2.4	31	82	10	89	48	0	20	32	1.50

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