genome.fa.s72.2.7.7.80.10.50.1000.23.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: Scaffold72
Parameters: 2 7 7 80 10 50 1000
Length:  5928628

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   

This is table  23  of  39  ( 4596 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)
3397908--3397952	23	2.0	22	82	4	54	60	4	0	35	1.17
3398539--3398585	16	3.0	15	81	9	58	51	19	8	21	1.73
3398533--3398585	16	3.3	16	74	10	54	50	18	7	22	1.72
3398516--3398602	32	2.8	32	79	8	88	50	18	10	20	1.76
3398880--3398928	20	2.5	20	93	0	80	38	6	0	55	1.25
3400383--3400442	10	5.6	10	75	19	50	76	1	3	18	1.00
3400382--3400442	33	1.9	30	87	9	86	75	1	3	19	1.03
3400382--3400442	32	1.9	32	86	6	88	75	1	3	19	1.03
3401193--3401247	7	7.4	8	74	15	55	61	0	0	38	0.96
3401193--3401265	30	2.3	33	79	13	82	60	0	0	39	0.97
3401524--3401584	31	2.0	29	84	12	79	60	0	0	39	0.97
3402337--3402370	18	1.9	17	88	5	50	55	0	0	44	0.99
3402393--3402436	12	3.5	12	84	6	52	65	0	0	34	0.93
3402645--3402745	22	4.4	23	70	17	59	38	1	0	58	1.16
3402593--3402740	66	2.2	67	78	15	157	39	2	0	58	1.15
3402716--3402753	17	2.2	17	90	0	58	28	2	0	68	1.03
3402725--3402750	12	2.2	12	100	0	52	34	0	0	65	0.93
3402592--3402767	20	8.5	22	65	24	64	36	1	1	60	1.14
3404796--3404899	53	2.0	53	83	7	131	38	8	10	42	1.70
3404871--3404920	26	1.9	26	91	0	82	42	10	6	42	1.63
3405222--3405271	17	3.0	16	78	18	57	42	0	0	58	0.98
3407241--3407271	16	1.9	16	100	0	62	61	0	25	12	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3411659--3411703	22	2.0	23	87	12	67	62	2	2	33	1.20
3411956--3412021	24	2.7	24	78	4	69	51	0	3	45	1.16
3412076--3412132	30	1.9	30	89	7	89	49	0	0	50	1.00
3412501--3412567	18	3.8	18	75	16	61	55	1	0	43	1.09
3412645--3412704	19	3.0	20	78	7	59	55	0	0	45	0.99
3412650--3412723	32	2.4	31	77	16	82	50	0	0	50	1.00
3412668--3412772	28	3.9	28	78	14	130	52	0	0	46	1.07
3412673--3412772	52	1.9	52	85	4	139	52	1	0	47	1.07
3412757--3412848	17	5.8	17	69	22	74	60	2	0	36	1.09
3412797--3412879	11	6.8	12	70	21	57	66	1	0	32	1.00
3412792--3412848	30	2.0	28	83	13	71	63	0	0	36	0.95
3412779--3412842	23	2.9	22	73	13	58	59	0	0	40	0.97
3412779--3412850	13	4.9	15	75	21	64	61	0	0	38	0.96
3414665--3414716	19	2.9	18	81	10	63	61	0	0	38	0.96
3414628--3414716	6	13.6	7	68	20	59	57	0	1	41	1.06
3414935--3414969	2	17.5	2	100	0	70	48	0	0	51	1.00
3415433--3415475	2	21.5	2	100	0	86	51	0	0	48	1.00
3415910--3415976	28	2.4	26	75	18	64	52	1	0	46	1.09
3415948--3415984	16	2.4	16	86	8	51	64	0	0	35	0.94
3416493--3416517	3	8.3	3	100	0	50	68	0	0	32	0.90
3416611--3416660	22	2.3	23	83	13	70	56	0	6	38	1.24
3416952--3416997	23	1.9	24	86	8	67	34	2	0	63	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3418006--3418053	17	2.9	17	77	22	57	56	2	2	39	1.23
3418704--3418758	24	2.2	25	84	9	69	29	3	7	60	1.41
3418865--3418917	25	2.2	26	80	13	67	58	0	1	39	1.09
3418873--3418922	25	2.0	24	92	3	82	56	0	0	44	0.99
3423611--3423665	22	2.5	23	82	8	71	63	0	0	36	0.95
3423611--3423665	23	2.4	22	81	6	65	63	0	0	36	0.95
3429268--3429307	21	1.9	22	90	10	66	47	0	0	52	1.00
3435558--3435604	6	7.5	6	81	9	58	55	0	2	42	1.12
3435637--3435672	14	2.6	14	86	0	54	63	0	0	36	0.94
3437812--3438376	285	2.0	285	98	0	1085	46	18	10	24	1.80
3439358--3439772	206	2.0	203	89	4	629	29	21	18	30	1.97
3440454--3440804	174	2.0	174	87	4	512	23	22	12	41	1.88
3444091--3444160	15	4.7	15	71	15	56	54	1	1	42	1.18
3444171--3444218	20	2.4	21	79	10	55	54	0	0	45	0.99
3445524--3445548	2	12.5	2	100	0	50	52	0	0	48	1.00
3449762--3449794	15	2.3	15	89	5	50	48	0	0	51	1.00
3449782--3449866	23	3.5	24	77	17	70	45	0	1	52	1.08
3449762--3449905	14	10.8	13	68	23	77	42	0	0	56	1.09
3449803--3449869	33	2.1	32	88	2	98	43	0	0	56	0.99
3449787--3449902	17	6.9	17	70	21	68	39	0	0	58	1.10
3449786--3449876	8	10.9	8	75	18	62	42	0	1	56	1.06
3450342--3450439	41	2.4	41	83	9	105	40	1	2	56	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3450357--3450439	41	2.0	42	88	4	125	40	1	2	55	1.21
3454517--3454580	21	3.0	22	80	19	73	50	0	0	50	1.00
3454592--3454648	25	2.3	25	82	8	64	31	3	0	64	1.10
3456134--3456172	20	1.9	21	89	5	62	51	0	0	48	1.00
3456749--3456792	21	2.2	20	83	4	52	40	6	0	52	1.28
3457161--3457199	16	2.5	16	83	4	53	41	0	0	58	0.98
3457835--3457880	2	23.0	2	100	0	92	50	0	0	50	1.00
3460456--3460540	30	2.8	30	87	3	107	41	2	1	55	1.20
3461108--3461146	17	2.3	17	86	8	53	53	0	0	46	1.00
3461177--3461228	20	2.5	21	85	14	65	46	0	0	53	1.00
3461196--3461279	17	5.1	17	69	21	54	48	2	0	48	1.14
3461228--3461279	18	2.9	18	77	13	54	50	3	0	46	1.20
3461196--3461258	30	2.1	31	85	8	85	49	1	0	49	1.10
3461236--3461279	17	2.5	18	82	14	56	47	4	0	47	1.22
3461540--3461591	13	4.0	13	75	9	52	42	3	0	53	1.19
3461579--3461646	20	3.2	21	76	19	61	45	0	4	50	1.22
3462081--3462126	11	4.0	12	80	8	51	63	0	0	36	0.95
3463628--3463662	14	2.5	14	90	0	52	51	0	0	48	1.00
3463655--3463690	17	2.1	18	89	5	56	52	0	0	47	1.00
3464196--3464224	14	2.0	15	93	6	51	48	0	0	51	1.00
3464156--3464215	26	2.3	26	78	13	79	41	0	0	58	0.98
3464466--3464567	32	3.3	32	70	26	92	51	0	0	47	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3464502--3464542	20	2.1	19	86	4	55	51	0	0	48	1.00
3464477--3464607	61	2.2	61	89	6	196	46	0	3	50	1.17
3464857--3464891	17	2.1	17	94	0	61	48	0	0	51	1.00
3465142--3465183	2	21.0	2	95	0	75	50	2	0	47	1.14
3466063--3466167	53	2.0	52	94	5	185	42	13	12	31	1.81
3466673--3466698	2	13.0	2	100	0	52	50	0	0	50	1.00
3467319--3467413	49	1.9	49	93	0	163	43	14	12	29	1.83
3467982--3468039	15	3.9	14	77	8	53	58	0	0	41	0.98
3467928--3468058	30	4.2	31	74	12	115	56	0	1	41	1.14
3468608--3468680	10	6.9	11	71	21	50	61	1	0	36	1.05
3468636--3468675	11	3.6	11	83	12	55	65	0	0	35	0.93
3468605--3468684	26	2.9	28	75	20	71	60	1	0	38	1.05
3468625--3468663	16	2.4	16	87	12	53	64	0	0	35	0.94
3468611--3468673	22	3.0	21	80	20	69	60	1	0	38	1.07
3468608--3468680	22	3.5	22	72	14	64	61	1	0	36	1.05
3469391--3469440	13	4.1	13	82	7	52	40	2	2	56	1.22
3473984--3474118	5	27.0	5	67	14	73	38	1	0	60	1.06
3473983--3474118	16	8.8	16	65	22	69	38	1	0	59	1.06
3474028--3474065	14	2.8	14	88	4	51	42	0	0	57	0.98
3474177--3474222	23	2.0	22	84	12	58	60	2	6	30	1.34
3474459--3474514	25	2.3	24	90	6	87	37	0	0	62	0.95
3480496--3480621	18	6.8	18	68	22	57	34	2	0	61	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3480498--3480565	33	2.1	32	86	10	93	35	0	0	64	0.94
3480532--3480607	40	1.9	40	84	10	102	35	2	1	60	1.19
3481014--3481055	22	1.9	22	85	9	59	21	7	7	64	1.43
3481746--3481770	11	2.3	11	100	0	50	28	8	8	56	1.57
3481999--3482039	17	2.5	17	84	7	59	43	0	0	56	0.99
3482667--3482733	22	3.1	21	77	14	64	46	5	5	41	1.53
3482721--3482751	16	1.9	16	93	0	53	58	0	0	41	0.98
3484137--3484196	26	2.4	25	78	10	68	63	1	1	33	1.14
3484145--3484192	22	2.2	22	88	7	71	68	2	2	27	1.11
3484151--3484193	22	2.0	21	95	4	77	69	0	0	30	0.88

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