genome.fa.s8.2.7.7.80.10.50.1000.9.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: NW_018397261.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_50.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9139585

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  9  of  19  ( 2280 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)
3110296--3110339	16	2.5	18	85	10	56	61	0	2	36	1.09
3110308--3110352	21	2.0	21	87	8	63	62	0	0	37	0.96
3110327--3110448	58	2.1	57	81	4	147	49	0	1	48	1.16
3110411--3110453	23	1.9	23	90	4	70	48	0	2	48	1.14
3110467--3110520	23	2.5	21	77	16	56	51	3	0	44	1.19
3112495--3112531	20	1.9	19	89	10	58	37	0	5	56	1.22
3116198--3116317	46	2.6	47	80	12	124	40	2	5	52	1.37
3118482--3118509	14	2.0	14	100	0	56	21	14	21	42	1.88
3127807--3127831	3	8.3	3	100	0	50	64	0	36	0	0.94
3128602--3128641	17	2.3	17	86	4	53	27	0	2	70	1.01
3147812--3147875	30	2.1	30	88	0	92	42	7	1	48	1.41
3152347--3152411	31	2.1	31	100	0	130	29	18	16	35	1.93
3153647--3153678	5	6.4	5	100	0	64	59	18	0	21	1.38
3159797--3159858	31	2.0	30	81	9	72	38	9	17	33	1.83
3185983--3186036	20	2.7	20	82	2	63	44	0	5	50	1.25
3185997--3186035	19	2.0	19	85	14	53	41	0	5	53	1.23
3186916--3186946	16	1.9	16	93	0	53	83	0	9	6	0.79
3191650--3191728	39	2.1	38	85	2	104	44	8	0	46	1.34
3191714--3191766	5	9.8	5	76	15	52	26	0	1	71	0.96
3191702--3191750	23	2.3	22	86	10	66	32	0	2	65	1.04
3191732--3191766	16	2.2	16	89	0	52	22	0	2	74	0.95
3191704--3191750	21	2.2	20	82	17	60	31	0	2	65	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3191714--3191766	11	4.9	10	76	15	52	26	0	1	71	0.96
3192683--3193434	251	3.0	248	80	4	817	35	12	6	46	1.67
3194385--3195927	254	6.2	251	78	6	1314	46	7	12	34	1.68
3195823--3195869	22	2.2	20	85	7	58	57	6	4	31	1.43
3196067--3196095	6	4.8	6	100	0	58	82	0	0	17	0.66
3205043--3205079	17	2.2	17	90	9	58	21	0	13	64	1.27
3220939--3221029	41	2.2	41	98	0	173	35	34	17	13	1.89
3224317--3224360	18	2.4	18	85	11	54	27	0	2	70	0.99
3224306--3224360	19	2.8	19	78	8	58	25	0	3	70	1.03
3225766--3225822	5	10.6	5	78	14	60	26	0	1	71	0.95
3225766--3225822	11	5.3	10	78	14	60	26	0	1	71	0.95
3225766--3225845	39	2.1	38	81	9	90	31	1	2	65	1.14
3239876--3240147	150	1.8	149	88	0	418	37	12	10	38	1.78
3240633--3240709	30	2.5	31	83	8	97	31	9	3	55	1.49
3243880--3243926	22	2.1	22	88	0	67	38	31	10	19	1.86
3259379--3259457	33	2.4	33	87	4	106	49	18	5	26	1.68
3262155--3262263	54	2.0	55	92	1	184	47	8	15	28	1.74
3266879--3266938	31	1.9	32	86	10	88	33	6	1	58	1.34
3267385--3267455	36	1.9	37	91	8	119	45	15	11	28	1.80
3277317--3277352	17	2.0	19	89	10	58	47	0	0	52	1.00
3280276--3280306	2	15.5	2	100	0	62	51	0	48	0	1.00
3284287--3284353	33	2.0	35	88	11	104	25	11	16	46	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3284627--3284661	18	2.1	17	89	10	54	37	11	5	45	1.64
3284784--3284844	30	2.0	32	87	6	90	59	1	6	32	1.33
3285308--3285380	30	2.5	28	85	10	94	9	57	13	19	1.63
3289310--3289426	57	2.1	57	91	0	189	32	26	17	23	1.96
3291434--3291470	3	12.3	3	100	0	74	67	0	0	32	0.91
3296290--3296329	19	2.0	20	85	4	55	25	0	2	72	0.97
3297315--3297376	26	2.4	24	78	19	63	12	41	6	38	1.69
3312926--3312976	2	25.5	2	100	0	102	50	0	49	0	1.00
3313609--3313768	87	1.9	87	81	4	198	35	9	3	51	1.52
3331130--3331832	156	4.5	155	88	3	961	23	8	13	54	1.66
3331345--3331459	59	1.9	61	85	5	164	20	10	15	53	1.70
3331741--3331766	10	2.6	10	100	0	52	0	0	7	92	0.39
3332528--3332575	15	3.4	15	75	16	57	45	10	10	33	1.72
3332518--3332579	27	2.3	27	94	0	106	43	12	11	32	1.79
3333803--3333827	10	2.5	10	100	0	50	28	0	0	72	0.86
3335303--3336757	746	2.0	717	83	5	1824	31	15	14	38	1.87
3346770--3346798	15	1.9	15	100	0	58	51	0	0	48	1.00
3356665--3356694	10	3.0	10	95	0	51	50	13	0	36	1.42
3357094--3357134	21	2.0	21	85	0	55	19	0	7	73	1.07
3360635--3360667	2	16.5	2	100	0	66	48	0	0	51	1.00
3367205--3367258	26	2.0	27	86	10	76	29	3	3	62	1.29
3373914--3373977	29	2.4	25	76	20	67	56	1	6	35	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3376640--3376678	20	1.9	19	85	10	51	35	0	5	58	1.20
3381240--3381282	1	43.0	1	100	0	86	0	0	100	0	0.00
3395342--3395371	9	3.3	9	100	0	60	70	0	20	10	1.16
3400814--3400845	3	10.7	3	100	0	64	31	0	0	68	0.90
3412077--3412146	19	3.6	19	69	17	54	41	0	4	54	1.20
3425765--3425794	2	15.0	2	92	0	51	46	0	3	50	1.18
3438347--3438400	26	2.0	28	82	10	69	46	0	3	50	1.19
3446829--3446894	21	3.0	22	76	14	75	7	25	0	66	1.18
3446837--3446888	10	5.0	10	77	9	59	3	28	0	67	1.08
3448889--3449158	93	2.9	93	79	4	249	30	16	25	26	1.97
3451649--3451683	11	3.1	11	91	4	52	25	0	0	74	0.82
3454141--3454174	7	5.0	7	85	7	52	14	55	0	29	1.40
3454141--3454174	13	2.5	14	90	4	52	14	55	0	29	1.40
3455471--3455501	2	15.5	2	100	0	62	48	0	0	51	1.00
3462105--3462165	29	2.1	28	82	11	70	55	11	6	26	1.59
3474557--3474595	18	2.2	18	95	0	69	35	15	10	38	1.81
3487977--3488047	33	2.1	33	84	7	90	42	21	7	29	1.79
3488945--3489138	97	2.0	97	91	2	318	50	10	11	26	1.72
3489918--3489947	14	2.1	14	100	0	60	50	23	20	6	1.71
3492496--3492537	17	2.5	17	85	11	52	26	0	0	73	0.83
3509653--3509678	2	13.0	2	100	0	52	0	50	0	50	1.00
3523487--3523565	41	1.9	41	94	0	140	34	17	20	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3542271--3542312	2	21.5	2	92	4	68	52	2	0	45	1.13
3546328--3546357	8	3.6	8	95	4	51	13	0	0	86	0.57
3547721--3547895	50	3.5	50	84	2	226	54	9	10	25	1.65
3557496--3557667	27	6.2	27	73	9	123	45	14	6	33	1.70
3557503--3557562	31	1.9	31	89	0	93	45	11	6	36	1.67
3557671--3557735	28	2.4	28	81	2	78	36	15	12	35	1.85
3567571--3567599	14	2.0	15	93	6	51	6	20	31	41	1.79
3571245--3571275	4	7.8	4	100	0	62	0	22	0	77	0.77
3573508--3573534	2	13.5	2	100	0	54	51	0	0	48	1.00
3573524--3573597	29	2.6	30	83	12	93	55	6	0	37	1.27
3582272--3582328	27	2.2	26	84	6	71	42	3	1	52	1.28
3582463--3582744	52	5.7	51	70	23	171	43	1	2	52	1.23
3582466--3582750	145	2.0	142	86	6	405	43	1	2	52	1.23
3582678--3582722	22	2.2	20	88	8	63	51	0	2	46	1.13
3593566--3593609	22	2.0	22	95	0	79	61	13	6	18	1.54
3613104--3613139	18	2.0	18	89	10	56	55	8	36	0	1.30
3615077--3615127	2	25.5	2	100	0	102	50	0	0	49	1.00
3622117--3622170	23	2.3	24	90	6	85	46	1	1	50	1.23
3625011--3625036	2	13.0	2	100	0	52	50	0	50	0	1.00
3625511--3625561	4	12.8	4	91	0	84	50	19	0	29	1.48
3625511--3625561	16	3.2	16	97	0	93	50	19	0	29	1.48
3629560--3629589	2	15.0	2	92	0	51	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3632372--3632457	29	3.0	29	77	0	73	20	25	5	47	1.72
3634404--3634449	24	1.9	24	82	8	58	43	8	8	39	1.66
3645974--3646021	21	2.3	21	82	7	62	31	6	0	62	1.20
3653096--3653134	17	2.3	17	81	0	51	38	0	0	61	0.96
3654750--3654787	8	4.8	8	83	9	51	57	0	2	39	1.12
3654787--3654842	28	2.1	28	83	6	71	41	1	1	55	1.21
3681561--3681634	36	2.1	36	97	0	139	16	33	10	39	1.83
3699241--3699265	3	8.3	3	100	0	50	0	32	0	68	0.90
3699710--3699790	41	2.0	41	97	0	153	27	29	9	33	1.89
3705290--3705323	16	2.2	16	94	5	61	35	0	0	64	0.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19