genome.fa.s32.2.7.7.80.10.50.1000.23.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: Scaffold32
Parameters: 2 7 7 80 10 50 1000
Length:  5587194

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  23  of  33  ( 3877 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)
3223484--3223710	91	2.5	91	90	1	339	29	16	12	41	1.85
3225835--3226052	96	2.3	97	90	0	348	29	28	12	29	1.93
3242136--3242374	88	2.7	88	78	0	201	24	19	12	43	1.85
3243216--3243526	163	1.9	166	82	4	398	27	10	9	53	1.64
3244169--3244215	24	1.9	25	86	4	69	76	2	21	0	0.89
3244167--3244215	12	4.0	12	86	2	62	75	2	22	0	0.90
3244179--3244218	19	2.0	20	90	4	64	80	0	20	0	0.72
3245972--3246979	156	6.4	155	81	6	982	23	18	20	37	1.94
3246691--3246980	157	1.9	157	82	2	368	24	16	20	38	1.92
3248808--3249355	79	6.9	79	79	7	474	33	12	25	27	1.93
3248808--3249335	241	2.2	240	82	5	629	33	13	26	27	1.93
3251139--3251174	17	2.1	17	100	0	72	22	0	41	36	1.54
3253692--3253747	20	2.8	19	86	5	67	37	14	17	30	1.90
3253817--3253842	13	2.0	13	100	0	52	38	15	15	30	1.88
3253799--3253863	32	2.0	34	87	6	98	46	15	10	27	1.79
3258885--3259032	44	3.4	43	76	10	129	21	20	15	42	1.89
3259124--3259279	42	3.7	43	85	6	210	12	29	25	32	1.93
3259332--3259913	43	13.6	43	79	2	499	17	28	18	35	1.93
3259862--3260019	85	1.9	84	81	4	192	16	27	17	37	1.91
3259858--3260049	42	4.5	42	74	6	138	17	27	18	35	1.94
3260031--3260122	42	2.2	42	86	0	121	17	29	21	31	1.96
3260174--3260403	84	2.7	84	79	5	234	20	30	15	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3260615--3261118	84	6.0	85	70	8	284	18	25	13	42	1.87
3260429--3261069	168	3.9	168	83	4	775	17	27	13	41	1.87
3265243--3265288	12	3.9	12	81	10	51	0	21	0	78	0.76
3265751--3266218	166	2.8	166	81	8	449	50	9	10	29	1.68
3267606--3268034	85	5.1	84	78	6	395	36	13	29	21	1.91
3267781--3267908	42	3.0	42	69	20	104	38	12	30	18	1.88
3267606--3268034	168	2.5	169	81	5	474	36	13	29	21	1.91
3271274--3271328	19	2.8	19	78	8	65	30	16	12	40	1.86
3271637--3271790	83	1.9	83	83	5	204	37	12	28	21	1.90
3278880--3279114	95	2.4	96	79	6	278	35	15	21	27	1.93
3281508--3281583	22	3.5	22	75	7	93	32	10	15	40	1.82
3281495--3281603	42	2.6	42	89	2	166	33	13	11	41	1.81
3282331--3282516	61	3.0	61	76	3	185	36	12	26	24	1.91
3282453--3282710	52	5.0	52	70	5	180	33	15	24	26	1.95
3282453--3282702	104	2.4	104	76	4	263	32	15	25	26	1.95
3282619--3282765	52	2.8	52	82	5	156	37	17	21	23	1.94
3282807--3282910	32	3.3	30	76	11	100	17	15	34	32	1.91
3282807--3282947	33	4.4	33	81	3	144	19	15	34	31	1.93
3282808--3282947	65	2.2	65	84	3	176	19	15	33	31	1.93
3283712--3283743	13	2.5	13	100	0	64	34	15	15	34	1.90
3283766--3283820	20	2.8	20	88	5	76	32	16	12	38	1.86
3290386--3290418	16	2.1	16	100	0	66	27	42	12	18	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3290880--3290922	20	2.1	20	86	4	59	9	30	44	16	1.79
3291363--3291401	13	3.0	13	92	0	60	33	15	20	30	1.94
3297432--3297457	13	2.0	13	100	0	52	30	15	15	38	1.88
3308106--3308226	62	2.0	62	88	0	179	33	14	20	30	1.93
3312485--3312543	19	3.1	19	82	2	73	32	13	15	38	1.86
3312527--3312553	13	2.1	13	100	0	54	40	14	14	29	1.86
3314213--3314656	85	5.2	83	79	4	347	38	14	26	20	1.91
3314539--3314770	126	1.9	123	85	4	322	39	16	23	20	1.92
3316635--3316659	13	1.9	13	100	0	50	36	16	16	32	1.90
3316730--3316755	13	2.0	13	100	0	52	30	15	15	38	1.88
3317883--3317907	11	2.3	11	100	0	50	44	12	8	36	1.71
3321065--3321189	52	2.4	52	95	0	223	28	17	18	36	1.94
3321065--3321209	52	2.8	51	89	4	211	29	17	18	34	1.94
3321263--3321329	33	2.0	33	88	0	98	40	13	11	34	1.81
3321285--3321309	13	1.9	13	100	0	50	32	16	16	36	1.90
3322536--3323349	49	16.8	49	84	6	982	32	18	24	24	1.97
3323349--3323446	33	3.0	33	89	7	155	17	19	35	27	1.94
3323342--3323449	32	3.4	32	85	9	150	17	18	36	27	1.94
3323451--3324375	125	7.0	128	73	17	550	34	12	32	20	1.90
3323578--3324544	34	30.0	33	74	14	612	33	12	32	21	1.91
3323489--3323663	88	2.0	90	92	5	293	35	12	32	20	1.90
3323812--3323863	27	1.9	27	96	0	95	21	17	38	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3323901--3323933	17	1.9	17	93	0	57	18	18	39	24	1.92
3323557--3324530	344	2.9	343	90	5	1462	33	12	32	21	1.91
3324156--3324207	27	1.9	27	92	0	86	23	17	36	23	1.95
3324184--3324544	71	5.5	68	82	10	357	34	12	31	21	1.91
3324392--3324443	27	1.9	27	92	0	86	21	15	38	25	1.92
3324353--3324599	121	2.0	120	80	9	277	30	14	32	22	1.93
3324483--3324692	93	2.2	94	83	4	246	28	16	30	24	1.97
3324515--3324721	31	6.7	31	85	6	215	27	17	28	26	1.98
3324483--3324721	93	2.6	93	82	6	245	27	17	29	25	1.97
3326022--3326085	17	3.9	17	80	12	80	0	0	15	84	0.63
3326019--3326091	32	2.2	32	90	2	119	0	1	13	84	0.68
3326019--3326095	11	6.6	11	82	11	75	0	1	12	85	0.65
3326019--3326095	1	77.0	1	71	0	55	0	1	12	85	0.65
3332808--3332932	52	2.4	52	95	0	223	28	17	18	36	1.94
3332808--3332952	52	2.8	51	89	4	211	29	17	18	34	1.94
3333006--3333072	33	2.0	33	88	0	98	40	13	11	34	1.81
3333028--3333052	13	1.9	13	100	0	50	32	16	16	36	1.90
3336526--3336550	13	1.9	13	100	0	50	32	20	16	32	1.94
3344734--3346482	156	11.3	156	77	6	1373	36	20	18	23	1.95
3347611--3347652	14	2.9	14	82	3	57	0	23	0	76	0.79
3348177--3348690	167	3.1	162	81	9	556	49	7	13	29	1.69
3348256--3348720	167	2.8	167	84	2	594	51	7	12	28	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3352619--3352677	30	2.0	30	100	0	118	35	23	20	20	1.96
3352929--3354489	156	10.2	149	75	10	507	37	21	18	21	1.94
3353150--3354533	156	9.0	156	77	6	1278	37	21	18	21	1.94
3353150--3354533	155	9.0	154	75	7	1083	37	21	18	21	1.94
3353610--3354060	145	3.0	145	73	10	374	38	20	17	22	1.93
3352919--3354533	311	5.3	301	78	8	1187	37	21	18	21	1.94
3354630--3354950	166	1.9	165	80	9	377	40	11	13	35	1.80
3355825--3355864	12	3.3	12	86	6	55	0	15	2	82	0.77
3356544--3356959	166	2.5	166	82	3	460	52	6	11	29	1.62
3363111--3363740	28	22.2	28	81	7	596	25	18	28	27	1.98
3363111--3363740	57	11.1	56	81	7	605	25	18	28	27	1.98
3363426--3363481	27	2.1	26	93	3	94	32	14	30	23	1.94
3371880--3371935	21	2.7	21	80	5	69	42	16	14	26	1.86
3371961--3372142	20	9.7	19	71	21	102	32	14	10	42	1.80
3372054--3372083	15	2.0	15	100	0	60	26	13	13	46	1.80
3371961--3372178	108	2.0	108	87	3	314	31	13	12	42	1.82
3375272--3375327	20	2.8	19	89	5	76	39	14	16	30	1.88
3375379--3375443	21	3.6	19	73	26	70	44	15	12	27	1.82
3375397--3375422	13	2.0	13	100	0	52	38	15	15	30	1.88
3375379--3375443	34	2.0	33	93	6	114	44	15	12	27	1.82
3376771--3377171	149	2.7	149	84	2	518	40	18	15	24	1.90
3379263--3379727	159	2.9	161	82	6	557	50	9	11	29	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3379117--3379842	166	4.4	163	79	7	588	50	8	10	30	1.66
3380583--3380631	21	2.3	21	89	0	71	36	16	14	32	1.89
3380696--3380749	20	2.7	20	91	2	81	31	14	11	42	1.81
3381713--3381746	17	1.9	18	88	5	52	20	8	5	64	1.43
3383469--3383771	150	2.0	148	91	5	484	41	21	15	21	1.90
3385570--3385649	30	2.7	30	76	5	83	31	27	8	32	1.87
3387175--3387226	3	17.3	3	100	0	104	67	0	0	32	0.91
3389837--3389871	6	5.8	6	93	0	61	51	14	20	14	1.76
3390492--3390591	39	2.6	38	77	15	89	62	1	4	33	1.21
3390523--3390561	16	2.4	16	83	8	53	71	0	0	28	0.86

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   25   26   27   28   29   30   31   32   
          33