genome.fa.s71.2.7.7.80.10.50.1000.21.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: Scaffold71
Parameters: 2 7 7 80 10 50 1000
Length:  5741892

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   

This is table  21  of  33  ( 3929 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)
3332265--3332328	8	7.3	9	75	15	55	64	0	0	35	0.94
3332263--3332331	24	2.8	26	78	12	74	63	0	0	36	0.94
3336415--3336463	21	2.3	21	82	3	53	44	4	6	44	1.47
3336451--3336512	25	2.5	24	78	19	72	41	1	0	56	1.09
3337930--3337991	19	3.2	19	76	15	63	62	1	0	35	1.05
3338122--3338167	21	2.2	21	84	7	58	43	0	0	56	0.99
3345165--3345208	22	2.0	22	81	0	52	50	6	6	36	1.56
3346051--3346134	31	2.6	32	76	12	84	40	0	0	59	0.97
3349268--3349305	20	1.9	20	88	0	58	57	7	10	23	1.58
3349695--3349892	61	3.1	61	68	17	184	48	6	9	35	1.59
3349631--3349904	131	2.1	131	97	0	521	47	5	9	37	1.60
3354043--3354076	16	2.2	15	89	5	50	41	2	11	44	1.56
3358761--3358842	16	5.5	14	70	23	60	40	0	0	59	0.97
3358761--3358845	14	5.7	14	72	22	66	40	0	0	60	0.97
3364359--3364388	2	15.0	2	100	0	60	50	50	0	0	1.00
3366736--3366790	22	2.5	23	76	8	60	27	1	1	69	1.09
3366748--3366798	21	2.5	21	78	12	54	29	1	0	68	1.00
3366797--3366850	15	3.7	14	76	16	56	57	0	5	37	1.22
3366787--3366849	29	2.1	31	85	11	87	53	0	4	41	1.22
3366804--3366850	14	3.3	14	75	16	51	57	0	4	38	1.18
3366794--3366868	29	2.5	28	79	16	73	52	0	4	44	1.20
3368230--3368294	25	2.5	26	75	14	71	67	0	4	27	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3369310--3369336	12	2.2	12	100	0	54	37	0	0	62	0.95
3369361--3369436	28	2.7	28	78	10	75	55	2	1	40	1.22
3369467--3369517	22	2.3	22	86	6	68	54	0	1	43	1.11
3376831--3376869	18	2.4	17	87	12	55	51	0	0	48	1.00
3377509--3377551	2	22.0	2	95	4	79	51	0	0	48	1.00
3379430--3379459	7	4.3	7	100	0	60	43	0	0	56	0.99
3379761--3379816	20	2.8	20	83	5	69	37	0	0	62	0.95
3379764--3379816	19	2.7	20	82	5	63	39	0	0	60	0.97
3380469--3380497	6	4.8	6	100	0	58	13	0	0	86	0.58
3382171--3382288	55	2.1	56	93	1	202	23	20	23	32	1.98
3382315--3382343	4	7.5	4	92	7	51	44	0	0	55	0.99
3382908--3383381	216	2.2	217	82	4	555	28	11	12	47	1.77
3384492--3384545	26	2.2	25	86	6	74	53	3	11	31	1.53
3385250--3385389	74	1.9	75	88	4	212	49	6	5	39	1.50
3392277--3392310	4	8.5	4	100	0	68	76	0	0	23	0.79
3393002--3393059	22	2.7	21	78	21	66	63	0	1	34	1.04
3393828--3393871	2	22.0	2	100	0	88	50	50	0	0	1.00
3393871--3393916	2	23.0	2	100	0	92	50	0	0	50	1.00
3406241--3406335	47	2.0	47	95	0	172	37	22	9	30	1.86
3407382--3407485	52	2.0	52	90	0	163	36	20	8	34	1.83
3414012--3414041	12	2.5	12	94	0	51	40	0	0	60	0.97
3414024--3414073	18	2.8	18	84	3	66	44	0	4	52	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3414168--3414273	55	1.9	56	84	9	146	40	0	2	56	1.14
3415788--3416620	419	2.0	419	100	0	1666	27	19	26	26	1.99
3417293--3417338	19	2.4	19	89	7	67	26	10	0	63	1.27
3417418--3417476	29	2.0	29	100	0	118	59	13	3	23	1.50
3417565--3417594	6	5.0	6	100	0	60	0	33	16	50	1.46
3417565--3417603	18	2.2	18	85	0	51	5	30	17	46	1.70
3423160--3423203	2	22.0	2	100	0	88	50	0	0	50	1.00
3426548--3426588	5	7.8	5	84	10	55	63	0	0	36	0.95
3426555--3426616	16	3.8	17	76	23	71	66	0	0	33	0.92
3426547--3426619	10	6.9	10	76	14	51	64	0	0	35	0.94
3426609--3426656	16	3.0	16	81	0	51	58	0	0	41	0.98
3426628--3426666	16	2.4	17	87	12	64	48	0	0	51	1.00
3426701--3426754	19	2.9	19	78	10	58	53	0	1	44	1.11
3426715--3426788	22	3.3	22	75	12	71	44	0	1	54	1.08
3427519--3427556	2	19.0	2	94	0	67	52	0	47	0	1.00
3427881--3427911	2	15.5	2	93	0	53	51	0	0	48	1.00
3428992--3429031	18	2.1	20	90	9	66	55	0	0	45	0.99
3430890--3430934	20	2.3	20	81	7	58	26	2	0	71	0.98
3430903--3430939	15	2.5	15	80	20	51	27	0	0	72	0.84
3431224--3431265	3	14.0	3	94	0	75	69	0	0	30	0.89
3434472--3434497	2	13.0	2	100	0	52	50	0	0	50	1.00
3435390--3435418	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3436322--3436371	19	2.7	18	87	6	73	46	0	0	54	1.00
3436322--3436373	10	5.5	10	74	21	58	46	0	0	53	1.00
3436940--3436985	14	3.3	14	76	14	51	58	2	8	30	1.40
3436937--3436999	28	2.2	28	80	5	74	53	1	11	33	1.46
3437311--3437359	19	2.7	19	84	6	66	61	0	0	38	0.96
3437941--3437978	19	2.0	20	89	5	60	52	2	0	44	1.14
3438169--3438198	3	10.0	3	100	0	60	33	0	0	66	0.92
3454370--3454398	2	14.5	2	100	0	58	0	48	0	51	1.00
3459950--3459980	3	10.3	3	100	0	62	35	32	0	32	1.58
3460990--3461033	18	2.4	18	85	11	54	38	0	0	61	0.96
3461002--3461039	18	2.2	18	90	4	60	34	0	2	63	1.09
3460984--3461042	22	2.6	23	82	15	70	38	0	1	59	1.08
3461823--3461889	27	2.4	28	73	14	66	50	0	0	49	1.00
3464975--3465212	79	3.0	79	94	2	399	37	7	18	35	1.80
3465677--3465751	28	2.6	29	73	10	73	57	0	2	40	1.13
3466429--3466470	3	14.0	3	100	0	84	66	0	0	33	0.92
3467847--3467901	21	2.8	20	79	17	69	47	0	0	52	1.00
3467847--3467902	18	2.8	18	77	17	58	48	0	0	51	1.00
3468153--3468191	2	19.0	2	84	5	51	43	0	2	53	1.14
3468212--3468285	29	2.5	29	85	10	89	31	1	2	64	1.15
3468212--3468260	15	3.3	15	72	21	50	32	0	2	65	1.04
3468212--3468264	9	5.5	10	72	22	51	32	0	1	66	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3468341--3468393	27	2.0	26	82	14	63	64	0	0	35	0.94
3471474--3471512	2	19.5	2	89	0	60	46	48	5	0	1.24
3473062--3473104	17	2.3	18	84	11	52	65	2	0	32	1.06
3476695--3476767	29	2.4	29	88	4	101	57	0	0	42	0.98
3476735--3476778	23	1.9	23	85	0	61	52	0	0	47	1.00
3477181--3477219	21	1.9	20	84	5	51	46	2	0	51	1.14
3477191--3477313	11	11.0	11	70	20	60	35	3	5	55	1.40
3477391--3477497	21	5.0	21	71	11	65	40	7	2	49	1.45
3478537--3478569	10	3.4	10	83	8	50	66	0	0	33	0.92
3478539--3478569	9	3.3	9	91	8	53	67	0	0	32	0.91
3480261--3480288	2	14.0	2	100	0	56	50	50	0	0	1.00
3483137--3483189	23	2.3	23	78	15	56	52	1	0	45	1.11
3483485--3483513	3	9.7	3	100	0	58	68	0	0	31	0.89
3483523--3483557	3	11.7	3	100	0	70	31	0	0	68	0.90
3484612--3484790	95	1.9	95	95	0	322	26	13	12	46	1.79
3486194--3486237	15	2.9	16	86	6	56	36	0	0	63	0.95
3486381--3486410	2	14.5	2	93	6	51	46	3	0	50	1.18
3489134--3489190	2	28.5	2	92	0	96	50	0	49	0	1.00
3492928--3492977	4	12.5	4	87	8	75	74	2	24	0	0.93
3495040--3495072	2	16.5	2	100	0	66	51	0	0	48	1.00
3499401--3499433	2	16.5	2	93	0	57	48	3	0	48	1.17
3500374--3500406	3	11.0	3	100	0	66	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3502298--3502331	2	17.0	2	100	0	68	50	0	0	50	1.00
3503742--3503774	6	5.5	6	96	0	57	21	0	0	78	0.75
3505161--3505231	26	2.7	27	82	8	76	47	0	0	52	1.00
3506094--3506147	25	2.0	27	82	10	67	46	1	0	51	1.11
3508771--3508814	17	2.6	17	89	7	63	36	0	4	59	1.18
3514197--3514230	17	2.0	17	94	0	59	26	0	5	67	1.13
3515684--3515728	18	2.7	18	86	10	60	68	0	2	28	1.01
3515684--3515713	15	1.9	15	93	6	51	73	0	0	26	0.84
3517712--3517759	16	3.1	15	80	14	53	58	0	4	37	1.18
3517738--3517802	20	3.2	20	80	6	60	50	0	0	49	1.00

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