Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006195.1 Hibiscus syriacus cultivar Beakdansim tig00014744_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 201095
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 1 of 2
Found at i:8679 original size:14 final size:15
Alignment explanation
Indices: 8660--8699 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
8650 AATGGGAAGT
8660 AATCCCTGC-TAATA
1 AATCCCTGCATAATA
8674 AATCCCTGCATAAT-
1 AATCCCTGCATAATA
*
8688 AATCTCTGCATA
1 AATCCCTGCATA
8700 TAGACAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (15 bp):
AATCCCTGCATAATA
Found at i:16604 original size:29 final size:29
Alignment explanation
Indices: 16571--16646 Score: 125
Period size: 29 Copynumber: 2.6 Consensus size: 29
16561 GCCCAACACA
*
16571 TAGGTCGCCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCCCTCCGCGCGACCTTG
*
16600 TAGGTCGCCATGCCATCCGCGCGACCTTG
1 TAGGTCGCCATGCCCTCCGCGCGACCTTG
*
16629 TAGGTCGCCATGCACTCC
1 TAGGTCGCCATGCCCTCC
16647 CAGCGTCCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.13, C:0.38, G:0.28, T:0.21
Consensus pattern (29 bp):
TAGGTCGCCATGCCCTCCGCGCGACCTTG
Found at i:17136 original size:9 final size:9
Alignment explanation
Indices: 17111--17144 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
17101 ATTTGGCGAG
17111 AGAAAGGAA
1 AGAAAGGAA
17120 AGGAAAGGAA
1 A-GAAAGGAA
17130 AGAAAGGAA
1 AGAAAGGAA
*
17139 AAAAAG
1 AGAAAG
17145 AAGAATAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (9 bp):
AGAAAGGAA
Found at i:17303 original size:28 final size:27
Alignment explanation
Indices: 17272--17344 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 27
17262 ATTTAGTTAA
17272 TTAGTTT-GTTAGTATAATTATTAGTTTG
1 TTAGTTTAGTTA-TATAA-TATTAGTTTG
*
17300 TTAGTTTAAGTTATATTATATTAGTTTG
1 TTAGTTT-AGTTATATAATATTAGTTTG
17328 TTAGTTTAAGTTATATA
1 TTAGTTT-AGTTATATA
17345 TTAGATTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 33 0.80
29 4 0.10
30 4 0.10
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (27 bp):
TTAGTTTAGTTATATAATATTAGTTTG
Found at i:18085 original size:2 final size:2
Alignment explanation
Indices: 18080--18106 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18070 AATCTAAATT
18080 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
18107 TTATTATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20951 original size:21 final size:21
Alignment explanation
Indices: 20927--21011 Score: 54
Period size: 21 Copynumber: 4.2 Consensus size: 21
20917 AAAATTATAA
*
20927 TAATTATTTAGTAATGATTAT
1 TAATTATTTAGTAATGATTAG
* * * *
20948 TAA-TA-AT-GAAATTATTAT
1 TAATTATTTAGTAATGATTAG
*
20966 TAA-TATTTAATAATTTGA-TAG
1 TAATTATTTAGTAA--TGATTAG
*
20987 TAATGATTTAGTAATGATTAG
1 TAATTATTTAGTAATGATTAG
21008 TAAT
1 TAAT
21012 AATGAAATTA
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
18 14 0.29
19 2 0.04
20 7 0.15
21 15 0.31
22 10 0.21
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (21 bp):
TAATTATTTAGTAATGATTAG
Found at i:20988 original size:49 final size:49
Alignment explanation
Indices: 20935--21195 Score: 245
Period size: 60 Copynumber: 4.9 Consensus size: 49
20925 AATAATTATT
20935 TAGTAATGATTATTAATAATGAAATTATTATTAATATTTAATAATTTGATAGTAATGA
1 TAGTAATGATTATTAATAATGAAATTATTATTAATA-TT--TAA--TGAT--T--TGA
*
20993 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
1 --TAGTAATGATTATTAATAATGAAATTATTATTAATATTTAATGATTTGA
*
21044 TAGTAATGATTTAGTAATTATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGG
1 TAGT-A--A--T-G--ATTA-T--TAATAATGAAATTATTATTAATATTTAATGATTTGA
*
21104 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTATTAATAATGAAATTATTATTAATATTTAATGATTTGA
* * *
21153 TAATAATGATTTAGTAATAATGAAATTA-TAATAATGATTTAAT
1 TAGTAATGA-TTATTAATAATGAAATTATTATTAAT-ATTTAAT
21196 ACTAATAGAG
Statistics
Matches: 181, Mismatches: 7, Indels: 36
0.81 0.03 0.16
Matches are distributed among these distances:
49 53 0.29
50 26 0.14
51 3 0.02
52 5 0.03
53 1 0.01
54 2 0.01
55 6 0.03
57 8 0.04
59 3 0.02
60 74 0.41
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.45
Consensus pattern (49 bp):
TAGTAATGATTATTAATAATGAAATTATTATTAATATTTAATGATTTGA
Found at i:21005 original size:60 final size:60
Alignment explanation
Indices: 20911--21120 Score: 329
Period size: 60 Copynumber: 3.6 Consensus size: 60
20901 TAATGATTTT
* * *
20911 ATATTTAA-AA-TT-ATAATAATTATTTAGTAATGATTATTAATAATGAAATTATTATTA
1 ATATTTAATAATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTA
20968 ATATTTAATAATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTA
1 ATATTTAATAATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTA
* *
21028 ATATTTAATGATTTGATAGTAATGATTTAGTAATTATTAGTAATAATGAAATTATTATTA
1 ATATTTAATAATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTA
* *
21088 ATATTTAATGATTTGGTAGTAATGA-TTAGTAAT
1 ATATTTAATAATTTGATAGTAATGATTTAGTAAT
21121 AATGAAATTA
Statistics
Matches: 144, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
57 8 0.06
58 2 0.01
59 10 0.07
60 124 0.86
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (60 bp):
ATATTTAATAATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTA
Found at i:21027 original size:21 final size:21
Alignment explanation
Indices: 21003--21087 Score: 61
Period size: 21 Copynumber: 4.2 Consensus size: 21
20993 TTTAGTAATG
21003 ATTAGTAATAATGAAATTATT
1 ATTAGTAATAATGAAATTATT
* * *
21024 ATTAATATTTAATG--ATT-TG
1 ATTAGTA-ATAATGAAATTATT
* ** * *
21043 A-TAGTAATGATTTAGTAATT
1 ATTAGTAATAATGAAATTATT
21063 ATTAGTAATAATGAAATTATT
1 ATTAGTAATAATGAAATTATT
21084 ATTA
1 ATTA
21088 ATATTTAATG
Statistics
Matches: 44, Mismatches: 15, Indels: 10
0.64 0.22 0.14
Matches are distributed among these distances:
17 3 0.07
18 4 0.09
19 3 0.07
20 5 0.11
21 24 0.55
22 5 0.11
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.46
Consensus pattern (21 bp):
ATTAGTAATAATGAAATTATT
Found at i:21201 original size:14 final size:14
Alignment explanation
Indices: 21142--21201 Score: 68
Period size: 14 Copynumber: 4.3 Consensus size: 14
21132 TATTAATATT
*
21142 TAATGATTTGATAA
1 TAATGATTTAATAA
*
21156 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
21170 TAATGAAATT-ATAA
1 TAATG-ATTTAATAA
*
21184 TAATGATTTAATAC
1 TAATGATTTAATAA
21198 TAAT
1 TAAT
21202 AGAGTAATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
13 3 0.08
14 32 0.84
15 3 0.08
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.42
Consensus pattern (14 bp):
TAATGATTTAATAA
Found at i:21389 original size:12 final size:11
Alignment explanation
Indices: 21367--21734 Score: 101
Period size: 11 Copynumber: 30.3 Consensus size: 11
21357 TAACCATAAA
21367 AATGATTTAAT
1 AATGATTTAAT
21378 AATGATTT--T
1 AATGATTTAAT
21387 AAT-ATTTAAT
1 AATGATTTAAT
*
21397 GATTTGATGATTTAGT
1 -A----ATGATTTAAT
21413 AATGATTT--T
1 AATGATTTAAT
21422 AAT-ATTTAAT
1 AATGATTTAAT
*
21432 GATTTGATGATTTAGT
1 -A----ATGATTTAAT
21448 AATGATTTGATAAT
1 AATGA-TT--TAAT
21462 AATGATTTAAT
1 AATGATTTAAT
*
21473 CATGATTT--T
1 AATGATTTAAT
21482 AAT-ATTTAAT
1 AATGATTTAAT
*
21492 GATTTGATGATTTAGT
1 -A----ATGATTTAAT
21508 AATGATTTGATAAT
1 AATGA-TT--TAAT
*
21522 AATCATTATAAT
1 AATGATT-TAAT
21534 AATGATTTAGTAAT
1 AATGA-TT--TAAT
*
21548 AATCATTATAAT
1 AATGATT-TAAT
*
21560 AATAATTTAGTAAT
1 AATGA-TT--TAAT
*
21574 AATCATTATAAT
1 AATGATT-TAAT
21586 AATGATTTAAT
1 AATGATTTAAT
* *
21597 AATAATGATAAT
1 AATGAT-TTAAT
*
21609 AATGATTTAGT
1 AATGATTTAAT
21620 AATGATTTGATAAT
1 AATGA-TT--TAAT
*
21634 AATGATTTATT
1 AATGATTTAAT
* *
21645 ATTAATATT--T
1 AATGAT-TTAAT
21655 AATGATTTGAAACT
1 AATGATTT--AA-T
*
21669 AATGATTTACT
1 AATGATTTAAT
21680 AATGATTATTAAT
1 AATGA-T-TTAAT
21693 AATGAAATTATAAT
1 AATG--ATT-TAAT
*
21707 AATAATTTAATACT
1 AATGATTT-A-A-T
21721 AATGATTTAAT
1 AATGATTTAAT
21732 AAT
1 AAT
21735 TATTACTAAT
Statistics
Matches: 273, Mismatches: 32, Indels: 104
0.67 0.08 0.25
Matches are distributed among these distances:
8 12 0.04
9 13 0.05
10 8 0.03
11 72 0.26
12 51 0.19
13 25 0.09
14 64 0.23
15 10 0.04
16 18 0.07
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (11 bp):
AATGATTTAAT
Found at i:21395 original size:19 final size:20
Alignment explanation
Indices: 21367--21515 Score: 85
Period size: 19 Copynumber: 8.0 Consensus size: 20
21357 TAACCATAAA
21367 AATGATTTAATAATGATTTT
1 AATGATTTAATAATGATTTT
21387 AAT-A-TT--TAATGA-TTT
1 AATGATTTAATAATGATTTT
* *
21402 GATGATTTAGTAATGATTTT
1 AATGATTTAATAATGATTTT
21422 AAT-A-TT--TAATGA-TTT
1 AATGATTTAATAATGATTTT
* *
21437 GATGATTTAGTAATGATTTGATAAT
1 AATGATTTAATAATGA-TT--T--T
*
21462 AATGATTTAATCATGATTTT
1 AATGATTTAATAATGATTTT
21482 AAT-A-TT--TAATGA-TTT
1 AATGATTTAATAATGATTTT
* *
21497 GATGATTTAGTAATGATTT
1 AATGATTTAATAATGATTT
21516 GATAATAATC
Statistics
Matches: 101, Mismatches: 8, Indels: 40
0.68 0.05 0.27
Matches are distributed among these distances:
15 15 0.15
16 20 0.20
17 6 0.06
18 6 0.06
19 21 0.21
20 14 0.14
21 1 0.01
22 1 0.01
23 1 0.01
24 2 0.02
25 14 0.14
ACGTcount: A:0.36, C:0.01, G:0.13, T:0.50
Consensus pattern (20 bp):
AATGATTTAATAATGATTTT
Found at i:21407 original size:35 final size:35
Alignment explanation
Indices: 21368--21515 Score: 190
Period size: 35 Copynumber: 4.5 Consensus size: 35
21358 AACCATAAAA
*
21368 ATGATTTAATAATGATTTTAATATTTAATGATTTG
1 ATGATTTAGTAATGATTTTAATATTTAATGATTTG
21403 ATGATTTAGTAATGATTTTAATATTTAATGATTTG
1 ATGATTTAGTAATGATTTTAATATTTAATGATTTG
*
21438 ATGATTTAGTAATGA-TTT--GA--TAAT-A----
1 ATGATTTAGTAATGATTTTAATATTTAATGATTTG
* *
21463 ATGATTTAATCATGATTTTAATATTTAATGATTTG
1 ATGATTTAGTAATGATTTTAATATTTAATGATTTG
21498 ATGATTTAGTAATGATTT
1 ATGATTTAGTAATGATTT
21516 GATAATAATC
Statistics
Matches: 96, Mismatches: 7, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
25 13 0.14
26 3 0.03
28 1 0.01
29 1 0.01
30 8 0.08
31 1 0.01
32 1 0.01
34 3 0.03
35 65 0.68
ACGTcount: A:0.36, C:0.01, G:0.14, T:0.50
Consensus pattern (35 bp):
ATGATTTAGTAATGATTTTAATATTTAATGATTTG
Found at i:21470 original size:60 final size:60
Alignment explanation
Indices: 21403--21541 Score: 242
Period size: 60 Copynumber: 2.3 Consensus size: 60
21393 TAATGATTTG
*
21403 ATGATTTAGTAATGATTTTAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATA
1 ATGATTTAATAATGATTTTAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATA
*
21463 ATGATTTAATCATGATTTTAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATA
1 ATGATTTAATAATGATTTTAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATA
*
21523 ATCATTATAATAATGATTT
1 ATGATT-TAATAATGATTT
21542 AGTAATAATC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
60 63 0.85
61 11 0.15
ACGTcount: A:0.37, C:0.01, G:0.13, T:0.48
Consensus pattern (60 bp):
ATGATTTAATAATGATTTTAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATA
Found at i:21491 original size:7 final size:8
Alignment explanation
Indices: 21377--21505 Score: 70
Period size: 8 Copynumber: 15.2 Consensus size: 8
21367 AATGATTTAA
21377 TAATGATTT
1 TAATGA-TT
21386 TAAT-ATT
1 TAATGATT
21393 TAATGATT
1 TAATGATT
*
21401 TGATGATTT
1 TAATGA-TT
21410 AGTAATGATTT
1 --TAATGA-TT
21421 TAAT-ATT
1 TAATGATT
21428 TAATGATT
1 TAATGATT
*
21436 TGATGATTT
1 TAATGA-TT
21445 AGTAATGATT
1 --TAATGATT
* *
21455 TGAT-A-A
1 TAATGATT
21461 TAATGATT
1 TAATGATT
21469 TAATCATGATTT
1 T-A--ATGA-TT
21481 TAAT-ATT
1 TAATGATT
21488 TAATGATT
1 TAATGATT
*
21496 TGATGATT
1 TAATGATT
21504 TA
1 TA
21506 GTAATGATTT
Statistics
Matches: 95, Mismatches: 10, Indels: 31
0.70 0.07 0.23
Matches are distributed among these distances:
6 3 0.03
7 20 0.21
8 34 0.36
9 15 0.16
10 2 0.02
11 18 0.19
12 3 0.03
ACGTcount: A:0.36, C:0.01, G:0.13, T:0.50
Consensus pattern (8 bp):
TAATGATT
Found at i:21516 original size:19 final size:19
Alignment explanation
Indices: 21393--21518 Score: 88
Period size: 19 Copynumber: 6.6 Consensus size: 19
21383 TTTTAATATT
21393 TAATGATTTGATGATTTAG
1 TAATGATTTGATGATTTAG
*
21412 TAATGATTT--TAATATT--
1 TAATGATTTGATGAT-TTAG
21428 TAATGATTTGATGATTTAG
1 TAATGATTTGATGATTTAG
*
21447 TAATGATTTGATAATAATGATTTAA
1 TAATGATTTG------ATGATTTAG
* *
21472 TCATGATTT--TAATATT--
1 TAATGATTTGATGAT-TTAG
21488 TAATGATTTGATGATTTAG
1 TAATGATTTGATGATTTAG
21507 TAATGATTTGAT
1 TAATGATTTGAT
21519 AATAATCATT
Statistics
Matches: 84, Mismatches: 7, Indels: 32
0.68 0.06 0.26
Matches are distributed among these distances:
16 17 0.20
17 10 0.12
18 10 0.12
19 31 0.37
25 16 0.19
ACGTcount: A:0.35, C:0.01, G:0.15, T:0.49
Consensus pattern (19 bp):
TAATGATTTGATGATTTAG
Found at i:21536 original size:26 final size:26
Alignment explanation
Indices: 21507--21642 Score: 176
Period size: 26 Copynumber: 5.4 Consensus size: 26
21497 GATGATTTAG
21507 TAATGATTT-GATAATAATCATTATAA
1 TAATGATTTAG-TAATAATCATTATAA
21533 TAATGATTTAGTAATAATCATTATAA
1 TAATGATTTAGTAATAATCATTATAA
*
21559 TAATAATTTAGTAATAATCATTATAA
1 TAATGATTTAGTAATAATCATTATAA
* *
21585 TAATGA-TT--TAATAATAATGATAA
1 TAATGATTTAGTAATAATCATTATAA
*
21608 TAATGATTTAGTAATGAT--TTGATAA
1 TAATGATTTAGTAATAATCATT-ATAA
21633 TAATGATTTA
1 TAATGATTTA
21643 TTATTAATAT
Statistics
Matches: 99, Mismatches: 6, Indels: 11
0.85 0.05 0.09
Matches are distributed among these distances:
23 19 0.19
24 3 0.03
25 16 0.16
26 60 0.61
27 1 0.01
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (26 bp):
TAATGATTTAGTAATAATCATTATAA
Found at i:21559 original size:95 final size:95
Alignment explanation
Indices: 21361--21573 Score: 266
Period size: 95 Copynumber: 2.2 Consensus size: 95
21351 TTCAATTAAC
*
21361 CATAAAAATGATTTAATAATGATTTTAATATTTAATGATTTGATGATTTAGTAATGATTTTAATA
1 CATAATAATGATTTAATAATGATTTTAATATTTAATGATTTGATGATTTAGTAATGATTTTAATA
* * * *
21426 TTTAATGATTTGATGATTTAGTAATGATTT
66 TATAATGATATAATGATTTAGTAATGATAT
* *
21456 GATAATAATGATTTAATCATGATTTTAATATTTAATGATTTGATGATTTAGTAATGATTTGATAA
1 CATAATAATGATTTAATAATGATTTTAATATTTAATGATTTGATGATTTAGTAATGATTT--TAA
* * *
21521 TA-ATCATTATAATAATGATTTAGTAATAATCAT
64 TATATAATGAT-ATAATGATTTAGTAATGAT-AT
* * *
21554 TATAATAATAATTTAGTAAT
1 CATAATAATGATTTAATAAT
21574 AATCATTATA
Statistics
Matches: 100, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
95 57 0.57
96 5 0.05
97 21 0.21
98 17 0.17
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.46
Consensus pattern (95 bp):
CATAATAATGATTTAATAATGATTTTAATATTTAATGATTTGATGATTTAGTAATGATTTTAATA
TATAATGATATAATGATTTAGTAATGATAT
Found at i:21608 original size:49 final size:49
Alignment explanation
Indices: 21518--21748 Score: 179
Period size: 52 Copynumber: 4.6 Consensus size: 49
21508 AATGATTTGA
*
21518 TAATAATCATTATAATAATGATTTAGTAATAATCATTATAATAATAATTTAG
1 TAATAATCATTATAATAATGA-TT--TAATAATAATTATAATAATAATTTAG
* *
21570 TAATAATCATTATAATAATGATTTAATAATAATGATAATAATGATTTAG
1 TAATAATCATTATAATAATGATTTAATAATAATTATAATAATAATTTAG
* * * * *
21619 TAATGAT--TTGATAATAATGATTTATTATTAA-TAT-TTAATGATTT-G
1 TAATAATCATT-ATAATAATGATTTAATAATAATTATAATAATAATTTAG
* * * *
21664 AAACTAATGATT-TACTAATGATTATTAATAATGAAATTATAATAATAATTTAA
1 TAA-TAATCATTATAATAATGA-T-TTAATAAT--AATTATAATAATAATTTAG
* * *
21717 TACTAATGATT-TAATAATTATTACTAATAATA
1 TAATAATCATTATAATAATGATT--TAATAATA
21749 TGGAATAATA
Statistics
Matches: 146, Mismatches: 20, Indels: 28
0.75 0.10 0.14
Matches are distributed among these distances:
45 3 0.02
46 20 0.14
47 5 0.03
48 27 0.18
49 29 0.20
50 4 0.03
51 6 0.04
52 51 0.35
53 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (49 bp):
TAATAATCATTATAATAATGATTTAATAATAATTATAATAATAATTTAG
Found at i:21650 original size:14 final size:13
Alignment explanation
Indices: 21507--21734 Score: 125
Period size: 14 Copynumber: 18.1 Consensus size: 13
21497 GATGATTTAG
21507 TAATGATTTGATAA
1 TAATGATTT-ATAA
*
21521 TAATCA-TTATAA
1 TAATGATTTATAA
21533 TAATGATTTAGTAA
1 TAATGATTTA-TAA
*
21547 TAATCA-TTATAA
1 TAATGATTTATAA
*
21559 TAATAATTTAGTAA
1 TAATGATTTA-TAA
*
21573 TAATCA-TTATAA
1 TAATGATTTATAA
21585 TAATGATTTAATAA
1 TAATGATTT-ATAA
21599 TAATG----ATAA
1 TAATGATTTATAA
*
21608 TAATGA-TT-TAG
1 TAATGATTTATAA
21619 TAATGATTTGATAA
1 TAATGATTT-ATAA
*
21633 TAATGATTTATTAT
1 TAATGATTTA-TAA
21647 TAAT-A--T-T--
1 TAATGATTTATAA
21654 TAATGATTTGA-AA
1 TAATGATTT-ATAA
*
21667 CTAATGA-TT-TAC
1 -TAATGATTTATAA
21679 TAATGA-TTATTAA
1 TAATGATTTA-TAA
*
21692 TAATGAAATTATAA
1 TAATG-ATTTATAA
* *
21706 TAATAATTTAATAC
1 TAATGATTT-ATAA
21720 TAATGATTTAATAA
1 TAATGATTT-ATAA
21734 T
1 T
21735 TATTACTAAT
Statistics
Matches: 171, Mismatches: 16, Indels: 54
0.71 0.07 0.22
Matches are distributed among these distances:
7 4 0.02
8 1 0.01
9 10 0.06
10 1 0.01
11 17 0.10
12 28 0.16
13 30 0.18
14 77 0.45
15 3 0.02
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (13 bp):
TAATGATTTATAA
Found at i:21692 original size:35 final size:34
Alignment explanation
Indices: 21619--21692 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 34
21609 AATGATTTAG
* * *
21619 TAATGATTTGATAATAATGATTTATTATTAATATT
1 TAATGATTTGATAATAATGATTTATAATGATTA-T
21654 TAATGATTTGA-AACTAATGATTTACTAATGATTAT
1 TAATGATTTGATAA-TAATGATTTA-TAATGATTAT
21689 TAAT
1 TAAT
21693 AATGAAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 2 0.06
35 26 0.76
36 6 0.18
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (34 bp):
TAATGATTTGATAATAATGATTTATAATGATTAT
Found at i:21898 original size:24 final size:24
Alignment explanation
Indices: 21850--21894 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
21840 GATTTGATAC
*
21850 TAATGATTTAGTAATTATTATTAA
1 TAATGATTTAGTAATTAATATTAA
*
21874 TAATGATTTA-TTATTAATATT
1 TAATGATTTAGTAATTAATATT
21895 TAATTATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (24 bp):
TAATGATTTAGTAATTAATATTAA
Found at i:21901 original size:17 final size:17
Alignment explanation
Indices: 21861--21902 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
21851 AATGATTTAG
21861 TAATTATTATTAATAAT
1 TAATTATTATTAATAAT
* * *
21878 GATTTATTATTAATATT
1 TAATTATTATTAATAAT
21895 TAATTATT
1 TAATTATT
21903 TGATACTAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TAATTATTATTAATAAT
Found at i:23298 original size:20 final size:20
Alignment explanation
Indices: 23269--23353 Score: 100
Period size: 20 Copynumber: 4.2 Consensus size: 20
23259 GCAGCTTTCG
* * *
23269 TGCATGGATGCACAACAGGA
1 TGCATCGATGAACATCAGGA
*
23289 TGCATCGATGAATATCAGGA
1 TGCATCGATGAACATCAGGA
*
23309 TGCATCGATGAATATCAGGA
1 TGCATCGATGAACATCAGGA
*
23329 TGCATCGAT-ACACATCAGTA
1 TGCATCGATGA-ACATCAGGA
23349 TGCAT
1 TGCAT
23354 TGATTCACTA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
19 1 0.02
20 57 0.98
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.24
Consensus pattern (20 bp):
TGCATCGATGAACATCAGGA
Found at i:23428 original size:42 final size:42
Alignment explanation
Indices: 23381--23479 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
23371 TCAAAATGGA
*
23381 GTGCATGGATGCACTCCA-TGGTGCATCGATGCA-T-TAGTGCAG
1 GTGCATGGATGCACTCCAGGGGTGCATCGATGCACTGTAG-G--G
* *
23423 GTGCATGGATGCACTGCAGGGGTGCATGGATGCACTGTAGGG
1 GTGCATGGATGCACTCCAGGGGTGCATCGATGCACTGTAGGG
23465 GTGCATGGATGCACT
1 GTGCATGGATGCACT
23480 TTGACACCCT
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
42 33 0.65
43 13 0.25
44 2 0.04
45 3 0.06
ACGTcount: A:0.20, C:0.19, G:0.36, T:0.24
Consensus pattern (42 bp):
GTGCATGGATGCACTCCAGGGGTGCATCGATGCACTGTAGGG
Found at i:23448 original size:21 final size:21
Alignment explanation
Indices: 23422--23479 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
23412 CATTAGTGCA
23422 GGTGCATGGATGCACTGCAGG
1 GGTGCATGGATGCACTGCAGG
*
23443 GGTGCATGGATGCACTGTAGG
1 GGTGCATGGATGCACTGCAGG
23464 GGTGCATGGATGCACT
1 GGTGCATGGATGCACT
23480 TTGACACCCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.19, C:0.17, G:0.41, T:0.22
Consensus pattern (21 bp):
GGTGCATGGATGCACTGCAGG
Found at i:26842 original size:20 final size:20
Alignment explanation
Indices: 26813--26905 Score: 141
Period size: 20 Copynumber: 4.7 Consensus size: 20
26803 GCAGCCTTCG
*
26813 TGCATGGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
26833 TGCATCGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
* *
26853 TGCATCGATGCATAACAGGA
1 TGCATCGATGCACAGCAGGA
* *
26873 TGCATCGATGCACATCAGAA
1 TGCATCGATGCACAGCAGGA
26893 TGCATCGATGCAC
1 TGCATCGATGCAC
26906 TAAGTGCATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.18
Consensus pattern (20 bp):
TGCATCGATGCACAGCAGGA
Found at i:29063 original size:11 final size:11
Alignment explanation
Indices: 29049--29074 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
29039 CCTTTCTTTA
29049 TTTCTTCTTCC
1 TTTCTTCTTCC
29060 TTTCTTCTTCC
1 TTTCTTCTTCC
29071 TTTC
1 TTTC
29075 CTTCACCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTCTTCTTCC
Found at i:31192 original size:36 final size:37
Alignment explanation
Indices: 31120--31193 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
31110 GTTGGAAAAT
* *
31120 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTAAAAATCATAAA
* * *
31157 ATTTGTATATTTTTTTTACAAAATTAAAAAT-ATAAA
1 ATTTATATATTTTCTTTAAAAAATTAAAAATCATAAA
31193 A
1 A
31194 AATGTTTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
36 6 0.19
37 26 0.81
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTAAAAATCATAAA
Found at i:39324 original size:2 final size:2
Alignment explanation
Indices: 39317--39347 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
39307 CGAGCTTAAA
39317 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
39348 AAGCGAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:39396 original size:14 final size:15
Alignment explanation
Indices: 39366--39394 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
39356 AATGAAAGAA
39366 AAAATATTATTTTTT
1 AAAATATTATTTTTT
39381 AAAATATTATTTTT
1 AAAATATTATTTTT
39395 AATTCATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AAAATATTATTTTTT
Found at i:43986 original size:21 final size:21
Alignment explanation
Indices: 43962--44003 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
43952 AGTTTATTTT
43962 TAAACTTTATTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
*
43983 TAAACTTTGTTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
44004 AACTTGGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:44040 original size:33 final size:33
Alignment explanation
Indices: 43998--44101 Score: 156
Period size: 33 Copynumber: 3.2 Consensus size: 33
43988 TTTGTTTCAA
43998 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
*
44031 TTATCGAACTTGAAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * * *
44064 TTATCAAACTTGGAAATATTTAAGTATTTCAA-
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
44096 TTATCG
1 TTATCG
44102 TAAACTTTGT
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
32 5 0.08
33 59 0.92
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:44181 original size:15 final size:15
Alignment explanation
Indices: 44143--44174 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
44133 TTTAATAATA
*
44143 TTATAATCGGTTTTT
1 TTATAACCGGTTTTT
44158 TTATAACCGGTTTTT
1 TTATAACCGGTTTTT
44173 TT
1 TT
44175 CAAACCGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.09, G:0.12, T:0.59
Consensus pattern (15 bp):
TTATAACCGGTTTTT
Found at i:49603 original size:27 final size:27
Alignment explanation
Indices: 49561--49624 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
49551 AATAGTTCTA
*
49561 AATCATTCATAATGTACTTCTGTGCTG
1 AATCATTCAGAATGTACTTCTGTGCTG
* * *
49588 AATTATTCAGAATGTATTTTTGTGCTG
1 AATCATTCAGAATGTACTTCTGTGCTG
49615 AATCATTCAG
1 AATCATTCAG
49625 TATTGTTTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (27 bp):
AATCATTCAGAATGTACTTCTGTGCTG
Found at i:49747 original size:29 final size:29
Alignment explanation
Indices: 49689--49747 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
49679 CGCTGAATGT
* *
49689 TGAACGATTCAACATTCAACACTGACTAA
1 TGAACGATTCAACATTCAACACTAAATAA
* *
49718 TGAACGATTTAACATTCAACGCTAAATAA
1 TGAACGATTCAACATTCAACACTAAATAA
49747 T
1 T
49748 TTCATTCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.27
Consensus pattern (29 bp):
TGAACGATTCAACATTCAACACTAAATAA
Found at i:50804 original size:2 final size:2
Alignment explanation
Indices: 50793--50841 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
50783 TGTCTTTTAT
50793 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50834 TA TA TA TA
1 TA TA TA TA
50842 AAAATAAACT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:58106 original size:29 final size:30
Alignment explanation
Indices: 58063--58141 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 30
58053 AAAATCGATA
* *
58063 AAAAAATAATCGAAAATATTATTAGACGTT
1 AAAAAATGACCGAAAATATTATTAGACGTT
* * *
58093 AAGAAA-GACCGAAAACATTATTAGGCGTT
1 AAAAAATGACCGAAAATATTATTAGACGTT
58122 AAAAAATGACCGAAAATATT
1 AAAAAATGACCGAAAATATT
58142 TTAAAAAATG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 24 0.59
30 17 0.41
ACGTcount: A:0.52, C:0.10, G:0.14, T:0.24
Consensus pattern (30 bp):
AAAAAATGACCGAAAATATTATTAGACGTT
Found at i:60859 original size:21 final size:23
Alignment explanation
Indices: 60814--60863 Score: 70
Period size: 21 Copynumber: 2.3 Consensus size: 23
60804 TAATTTCCAA
60814 TTATTAAAGAATATAATTATTTT
1 TTATTAAAGAATATAATTATTTT
60837 TTATTAAA-AA-ATAA-TATTCTT
1 TTATTAAAGAATATAATTATT-TT
60858 TTATTA
1 TTATTA
60864 TTAAATATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.15
21 12 0.46
22 2 0.08
23 8 0.31
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTATTAAAGAATATAATTATTTT
Found at i:60875 original size:21 final size:20
Alignment explanation
Indices: 60814--60875 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 20
60804 TAATTTCCAA
60814 TTATTAAAGAATATAATTATTTT
1 TTATTAAA-AA-AT-ATTATTTT
*
60837 TTATTAAAAAATAATATTCTT
1 TTATTAAAAAATATTATT-TT
**
60858 TTATTATTAAATATTATT
1 TTATTAAAAAATATTATT
60876 ACTCTAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 5 0.15
21 19 0.56
22 2 0.06
23 8 0.24
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
TTATTAAAAAATATTATTTT
Found at i:61294 original size:72 final size:73
Alignment explanation
Indices: 61205--61347 Score: 270
Period size: 73 Copynumber: 2.0 Consensus size: 73
61195 AATTGTCCCC
*
61205 TCGTAAATCTTATTATATC-AAAATAAATAGAGCTAGGTAATATGATTCACGAGAGGACAATTCA
1 TCGTAAATCTTATTATATCAAAAATAAATAGACCTAGGTAATATGATTCACGAGAGGACAATTCA
61269 ATGATCCA
66 ATGATCCA
61277 TCGTAAATCTTATTATATCAAAAATAAATAGACCTAGGTAATATGATTCACGAGAGGACAATTCA
1 TCGTAAATCTTATTATATCAAAAATAAATAGACCTAGGTAATATGATTCACGAGAGGACAATTCA
61342 ATGATC
66 ATGATC
61348 AATCTGAACT
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
72 19 0.28
73 50 0.72
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (73 bp):
TCGTAAATCTTATTATATCAAAAATAAATAGACCTAGGTAATATGATTCACGAGAGGACAATTCA
ATGATCCA
Found at i:62512 original size:22 final size:22
Alignment explanation
Indices: 62487--62557 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 22
62477 ATCAGAAATA
62487 TTATTATTTTT-TATCAGTTTTG
1 TTATT-TTTTTCTATCAGTTTTG
**
62509 TTATTTTTTTCTATTGGTTTTG
1 TTATTTTTTTCTATCAGTTTTG
*
62531 TTATTTTTTTCTA-CCGATTTTG
1 TTATTTTTTTCTATCAG-TTTTG
62553 TTATT
1 TTATT
62558 ATTTAGCACT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.14
22 37 0.86
ACGTcount: A:0.14, C:0.07, G:0.10, T:0.69
Consensus pattern (22 bp):
TTATTTTTTTCTATCAGTTTTG
Found at i:62611 original size:21 final size:21
Alignment explanation
Indices: 62585--62625 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
62575 AAATATTAAA
**
62585 AAATATTGTTGTTTTAGGTAG
1 AAATATTAATGTTTTAGGTAG
62606 AAATATTAATGTTTTAGGTA
1 AAATATTAATGTTTTAGGTA
62626 AATTTTTACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (21 bp):
AAATATTAATGTTTTAGGTAG
Found at i:67059 original size:18 final size:17
Alignment explanation
Indices: 67035--67081 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
67025 TGTTTCTGAG
67035 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGT-AA
* *
67053 TGAATTGGAATCTGTTA
1 GGAATTGGAATCTGTAA
67070 GGAATTGGAATC
1 GGAATTGGAATC
67082 CAATTCCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (17 bp):
GGAATTGGAATCTGTAA
Found at i:68250 original size:9 final size:9
Alignment explanation
Indices: 68238--68289 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
68228 TAATATTTTG
68238 TATTTAATT
1 TATTTAATT
*
68247 TATTTAA-G
1 TATTTAATT
68255 TATTTAATT
1 TATTTAATT
68264 TATTTAA--
1 TATTTAATT
* *
68271 TATTTTACT
1 TATTTAATT
68280 TATTTAATT
1 TATTTAATT
68289 T
1 T
68290 TTTTGCAGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
7 6 0.17
8 7 0.20
9 22 0.63
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
TATTTAATT
Found at i:68259 original size:17 final size:17
Alignment explanation
Indices: 68237--68286 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
68227 TTAATATTTT
68237 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
68254 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
* *
68271 -TATTTTACTTATTTAA
1 GTATTTAATTTATTTAA
68287 TTTTTTTGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:68282 original size:16 final size:16
Alignment explanation
Indices: 68246--68291 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
68236 TGTATTTAAT
* *
68246 TTATTTAAGTATTTAAT
1 TTATTTAA-TATTTTAC
68263 TTATTTAATATTTTAC
1 TTATTTAATATTTTAC
68279 TTATTTAAT-TTTT
1 TTATTTAATATTTT
68292 TTGCAGATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 4 0.15
16 15 0.56
17 8 0.30
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (16 bp):
TTATTTAATATTTTAC
Found at i:73724 original size:60 final size:60
Alignment explanation
Indices: 73601--73774 Score: 178
Period size: 60 Copynumber: 2.9 Consensus size: 60
73591 AACTATGACT
* * * *
73601 CTCAATTTAAATTGGTCCTTAAACTTTTAAATATTCCAATTTCATCTTCAAAAT-ACTAGC
1 CTCAATTTAAATTGGTCCTTAAACTTTTGAACATTCCAATTTCATC-CCCAAATCACTAGC
* * *
73661 CTC-ATTCTAAATTAGTCCTTAAACTTTTGAACATTTCAATTTCATCCCCAAATCA-TGATC
1 CTCAATT-TAAATTGGTCCTTAAACTTTTGAACATTCCAATTTCATCCCCAAATCACT-AGC
* * *
73721 CTCAATTTAAATTGGTACC-CAAAATTTTGAATC-GTCCAATTTCATCCCCAAATC
1 CTCAATTTAAATTGGT-CCTTAAACTTTTGAA-CATTCCAATTTCATCCCCAAATC
73775 CATCCAAATA
Statistics
Matches: 96, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
59 9 0.09
60 81 0.84
61 6 0.06
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (60 bp):
CTCAATTTAAATTGGTCCTTAAACTTTTGAACATTCCAATTTCATCCCCAAATCACTAGC
Found at i:73966 original size:60 final size:59
Alignment explanation
Indices: 73894--74203 Score: 331
Period size: 60 Copynumber: 5.2 Consensus size: 59
73884 ATATATATGT
*
73894 ATAGTTT-GGGATGAAATTTAAATTTTCAAAAAATTTAGGGACTAATTTAGAATGAAGGTC
1 ATAGTTTGGGGATGAAATTGAAATTTTC-AAAAATTT-GGGACTAATTTAGAATGAAGGTC
* * *
73954 ATAGTTT-GGGATGAAATTGAAATGTTCAAAACTTTGGGAACTAATTTAGAATGAAGGGC
1 ATAGTTTGGGGATGAAATTGAAATTTTCAAAAATTTGGG-ACTAATTTAGAATGAAGGTC
* * * *
74013 ATAGTTTGGGGATGAAATTGAAATGTCCAAAAGTTTGGGGA-TAATTTAGAATGAAGGGC
1 ATAGTTTGGGGATGAAATTGAAATTTTCAAAAATTT-GGGACTAATTTAGAATGAAGGTC
*
74072 ATAGTTTGGGGATGAAATTGAAATGTTCAAAAATTTGAGGACTAATTTAGAATGACA-GTC
1 ATAGTTTGGGGATGAAATTGAAATTTTCAAAAATTTG-GGACTAATTTAGAATGA-AGGTC
*** * * * * * * * *
74132 ATAGTTTAAAGATGGAATTAAAATTTTTAAAAATTTAAGAACTAACTTAAAATGAAGATC
1 ATAGTTTGGGGATGAAATTGAAATTTTCAAAAATTT-GGGACTAATTTAGAATGAAGGTC
* *
74192 ATAATATGGGGA
1 ATAGTTTGGGGA
74204 CATAATTTGA
Statistics
Matches: 216, Mismatches: 26, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
58 4 0.02
59 89 0.41
60 119 0.55
61 4 0.02
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.32
Consensus pattern (59 bp):
ATAGTTTGGGGATGAAATTGAAATTTTCAAAAATTTGGGACTAATTTAGAATGAAGGTC
Found at i:74018 original size:59 final size:59
Alignment explanation
Indices: 73894--74126 Score: 346
Period size: 59 Copynumber: 3.9 Consensus size: 59
73884 ATATATATGT
* * *
73894 ATAGTTT-GGGATGAAATTTAAATTTTCAAAAAATTTAGGGACTAATTTAGAATGAAGGTC
1 ATAGTTTGGGGATGAAATTGAAATGTTC-AAAAATTT-GGGACTAATTTAGAATGAAGGGC
*
73954 ATAGTTT-GGGATGAAATTGAAATGTTCAAAACTTTGGGAACTAATTTAGAATGAAGGGC
1 ATAGTTTGGGGATGAAATTGAAATGTTCAAAAATTTGGG-ACTAATTTAGAATGAAGGGC
* *
74013 ATAGTTTGGGGATGAAATTGAAATGTCCAAAAGTTTGGGGA-TAATTTAGAATGAAGGGC
1 ATAGTTTGGGGATGAAATTGAAATGTTCAAAAATTT-GGGACTAATTTAGAATGAAGGGC
74072 ATAGTTTGGGGATGAAATTGAAATGTTCAAAAATTTGAGGACTAATTTAGAATGA
1 ATAGTTTGGGGATGAAATTGAAATGTTCAAAAATTTG-GGACTAATTTAGAATGA
74127 CAGTCATAGT
Statistics
Matches: 160, Mismatches: 8, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
58 4 0.03
59 88 0.55
60 65 0.41
61 3 0.02
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (59 bp):
ATAGTTTGGGGATGAAATTGAAATGTTCAAAAATTTGGGACTAATTTAGAATGAAGGGC
Found at i:74049 original size:29 final size:29
Alignment explanation
Indices: 74015--74108 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
74005 TGAAGGGCAT
74015 AGTTTGGGGATGAAATTGAAATGTCCAAA
1 AGTTTGGGGATGAAATTGAAATGTCCAAA
* * ** *
74044 AGTTTGGGGAT-AATTTAGAATGAAGGGC-AT
1 AGTTTGGGGATGAAATT-GAA--ATGTCCAAA
*
74074 AGTTTGGGGATGAAATTGAAATGTTCAAA
1 AGTTTGGGGATGAAATTGAAATGTCCAAA
*
74103 AATTTG
1 AGTTTG
74109 AGGACTAATT
Statistics
Matches: 49, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
28 7 0.14
29 20 0.41
30 15 0.31
31 7 0.14
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.31
Consensus pattern (29 bp):
AGTTTGGGGATGAAATTGAAATGTCCAAA
Found at i:74080 original size:30 final size:30
Alignment explanation
Indices: 73986--74084 Score: 96
Period size: 30 Copynumber: 3.3 Consensus size: 30
73976 TGTTCAAAAC
*
73986 TTTGGGAACTAATTTAGAATGAAGGGCATAG
1 TTTGGGGA-TAATTTAGAATGAAGGGCATAG
* * ** *
74017 TTTGGGGATGAAATT-GAA--ATGTCCAAAAG
1 TTTGGGGAT-AATTTAGAATGAAGGGC-ATAG
74046 TTTGGGGATAATTTAGAATGAAGGGCATAG
1 TTTGGGGATAATTTAGAATGAAGGGCATAG
74076 TTTGGGGAT
1 TTTGGGGAT
74085 GAAATTGAAA
Statistics
Matches: 52, Mismatches: 11, Indels: 11
0.70 0.15 0.15
Matches are distributed among these distances:
28 7 0.13
29 15 0.29
30 16 0.31
31 14 0.27
ACGTcount: A:0.33, C:0.05, G:0.31, T:0.30
Consensus pattern (30 bp):
TTTGGGGATAATTTAGAATGAAGGGCATAG
Found at i:74138 original size:119 final size:119
Alignment explanation
Indices: 73894--74126 Score: 355
Period size: 119 Copynumber: 2.0 Consensus size: 119
73884 ATATATATGT
* * *
73894 ATAGTTTGGGATGAAATTTAAATTTTCAAAAAATTTAGGGACTAATTTAGAATGAAGGTCATAGT
1 ATAGTTTGGGATGAAATTGAAATTGTCAAAAAATTTAGGGACTAATTTAGAATGAAGGGCATAGT
*
73959 TTGGGATGAAATTGAAATGTTCAAAACTTTGGGAACTAATTTAGAATGAAGGGC
66 TTGGGATGAAATTGAAATGTTCAAAAATTTGGGAACTAATTTAGAATGAAGGGC
* * *
74013 ATAGTTTGGGGATGAAATTGAAA-TGTCCAAAAGTTTGGGGA-TAATTTAGAATGAAGGGCATAG
1 ATAGTTT-GGGATGAAATTGAAATTGTCAAAAAATTTAGGGACTAATTTAGAATGAAGGGCATAG
74076 TTTGGGGATGAAATTGAAATGTTCAAAAATTTGAGG-ACTAATTTAGAATGA
65 TTT-GGGATGAAATTGAAATGTTCAAAAATTTG-GGAACTAATTTAGAATGA
74127 CAGTCATAGT
Statistics
Matches: 104, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
118 24 0.23
119 64 0.62
120 16 0.15
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (119 bp):
ATAGTTTGGGATGAAATTGAAATTGTCAAAAAATTTAGGGACTAATTTAGAATGAAGGGCATAGT
TTGGGATGAAATTGAAATGTTCAAAAATTTGGGAACTAATTTAGAATGAAGGGC
Found at i:74546 original size:16 final size:16
Alignment explanation
Indices: 74527--74558 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
74517 TATTTTAATA
74527 TATTATTTTCTTAAAT
1 TATTATTTTCTTAAAT
*
74543 TATTATTTTTTTAAAT
1 TATTATTTTCTTAAAT
74559 ATGATATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTATTTTCTTAAAT
Found at i:83594 original size:2 final size:2
Alignment explanation
Indices: 83587--83617 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
83577 TCAATCAAAT
83587 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
83618 TCCAATGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:87643 original size:2 final size:2
Alignment explanation
Indices: 87636--87663 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
87626 TATATTCATC
87636 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87664 TAAAAAGCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89153 original size:31 final size:32
Alignment explanation
Indices: 89095--89154 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
89085 ATCTTATTTG
* *
89095 TTCTATGAAATATTAAAATTATAATATTTCAT
1 TTCTATGAAATATAAAAAATATAATATTTCAT
89127 TTCTAT-AAATATAAACAAATAT-ATATTT
1 TTCTATGAAATATAAA-AAATATAATATTT
89155 GTTTATCAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 14 0.56
32 11 0.44
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.45
Consensus pattern (32 bp):
TTCTATGAAATATAAAAAATATAATATTTCAT
Found at i:95760 original size:21 final size:22
Alignment explanation
Indices: 95736--95783 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
95726 TAGGGATAGG
95736 CTTGT-TATTAGAGAATATTTC
1 CTTGTATATTAGAGAATATTTC
*
95757 CTTGTAAATATTAGAGATTATTTC
1 CTTGT--ATATTAGAGAATATTTC
95781 CTT
1 CTT
95784 TTTTATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
24 18 0.78
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.48
Consensus pattern (22 bp):
CTTGTATATTAGAGAATATTTC
Found at i:106798 original size:2 final size:2
Alignment explanation
Indices: 106791--106822 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
106781 GACATTACCA
106791 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
106823 GTAGGGAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107277 original size:31 final size:34
Alignment explanation
Indices: 107198--107269 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
107188 AAAAATAAAT
* * * * *
107198 TTATAACTAAAATGATTTATTAATTATATTTTTA
1 TTATAATTAAAATTATTGATTAATCATATTTCTA
107232 TTATAATTAAAATTATTGATTAATCATATTTCTA
1 TTATAATTAAAATTATTGATTAATCATATTTCTA
107266 TTAT
1 TTAT
107270 TAAAATTAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.53
Consensus pattern (34 bp):
TTATAATTAAAATTATTGATTAATCATATTTCTA
Found at i:108734 original size:3 final size:3
Alignment explanation
Indices: 108721--108769 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
108711 TGAAAAGTAT
* * *
108721 AAG AAG AAAG AAG AAG AAG AAG AAG AGG AAG AGG AAG AAC AA- AAG
1 AAG AAG -AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
108766 AAG A
1 AAG A
108770 GGGAGGCCCG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:113507 original size:23 final size:23
Alignment explanation
Indices: 113447--113501 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
113437 TCGGGACAAT
* *
113447 TCTACGTGATCCTTCAGGAAAAA
1 TCTATGTGGTCCTTCAGGAAAAA
*
113470 TCTATGTGGTCCTTCAGGACAAA
1 TCTATGTGGTCCTTCAGGAAAAA
113493 TCTATGTGG
1 TCTATGTGG
113502 CACTTCGGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (23 bp):
TCTATGTGGTCCTTCAGGAAAAA
Found at i:114152 original size:36 final size:36
Alignment explanation
Indices: 114112--114189 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
114102 AATCGGTTTT
114112 AATTTTTACATTT-AAATAAA-AATTATG-ATTTTATGA
1 AATTTTTACATTTAAAATAAAGAA--ATGCATTTT-TGA
**
114148 AATTTTTAGTTTTAAAATAAAGAAATGCATTTTTGA
1 AATTTTTACATTTAAAATAAAGAAATGCATTTTTGA
114184 AATTTT
1 AATTTT
114190 ACAGAAACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
36 23 0.62
37 12 0.32
38 2 0.05
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (36 bp):
AATTTTTACATTTAAAATAAAGAAATGCATTTTTGA
Found at i:119285 original size:26 final size:25
Alignment explanation
Indices: 119227--119291 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 25
119217 ATATTCACCG
119227 AAAA-AAAACTCAGAAATATAAAAT
1 AAAATAAAACTCAGAAATATAAAAT
** *
119251 AATTTTAAAACTCATAAATATGAAAAT
1 AA-AATAAAACTCAGAAATAT-AAAAT
119278 AAAATAAAAACTCA
1 AAAAT-AAAACTCA
119292 AAGTTTGTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
24 2 0.06
26 15 0.47
27 15 0.47
ACGTcount: A:0.65, C:0.09, G:0.03, T:0.23
Consensus pattern (25 bp):
AAAATAAAACTCAGAAATATAAAAT
Found at i:119287 original size:27 final size:26
Alignment explanation
Indices: 119230--119291 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
119220 TTCACCGAAA
**
119230 AAAAACTCAGAAATATAAAATAATTT
1 AAAAACTCAGAAATATAAAATAAAAT
* *
119256 TAAAACTCATAAATATGAAAATAAAAT
1 AAAAACTCAGAAATAT-AAAATAAAAT
119283 AAAAACTCA
1 AAAAACTCA
119292 AAGTTTGTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 14 0.47
27 16 0.53
ACGTcount: A:0.63, C:0.10, G:0.03, T:0.24
Consensus pattern (26 bp):
AAAAACTCAGAAATATAAAATAAAAT
Found at i:120206 original size:20 final size:20
Alignment explanation
Indices: 120179--120217 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
120169 AAATAGAATT
120179 TTAATAAAAATAT-TTAAAG
1 TTAATAAAAATATATTAAAG
*
120198 TTAATTAAAAGTATATTAAA
1 TTAA-TAAAAATATATTAAA
120218 ATTTAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
TTAATAAAAATATATTAAAG
Found at i:122628 original size:73 final size:73
Alignment explanation
Indices: 122549--122704 Score: 303
Period size: 73 Copynumber: 2.1 Consensus size: 73
122539 AATTGAAAAT
*
122549 AACTTAAAATATATAATAACTGCAAAATTTTATCATACTTCTGATAAAATTAATTCAGTAAGTTA
1 AACTTAAAATATATAATAACTGCAAAATTTTATCATACTTCTGATAAAATTAACTCAGTAAGTTA
122614 CGTGATTA
66 CGTGATTA
122622 AACTTAAAATATATAATAACTGCAAAATTTTATCATACTTCTGATAAAATTAACTCAGTAAGTTA
1 AACTTAAAATATATAATAACTGCAAAATTTTATCATACTTCTGATAAAATTAACTCAGTAAGTTA
122687 CGTGATTA
66 CGTGATTA
122695 AACTTAAAAT
1 AACTTAAAAT
122705 TTGATCCGAT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 82 1.00
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.36
Consensus pattern (73 bp):
AACTTAAAATATATAATAACTGCAAAATTTTATCATACTTCTGATAAAATTAACTCAGTAAGTTA
CGTGATTA
Found at i:122844 original size:59 final size:60
Alignment explanation
Indices: 122724--122879 Score: 188
Period size: 59 Copynumber: 2.6 Consensus size: 60
122714 TAAAAAAGTG
* * * ** *
122724 AAAGTTCATTTCAATCTATCTATTATAAAAAGAAATAATTTTGTCTTGGTACTACACTTA
1 AAAGTTTATTTTAATTTATCTACCATGAAAAGAAATAATTTTGTCTTGGTACTACACTTA
* * * *
122784 AAAGTTTGTTTTAATTTATCTACCATGAAAAGAAAT-TTTTTGTCTTTGTACTACAGTTA
1 AAAGTTTATTTTAATTTATCTACCATGAAAAGAAATAATTTTGTCTTGGTACTACACTTA
* * *
122843 AAAGTTTATTTTAATTTATTTACCGTGAAAATAAATA
1 AAAGTTTATTTTAATTTATCTACCATGAAAAGAAATA
122880 TTAGAGTCTA
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
59 52 0.64
60 29 0.36
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (60 bp):
AAAGTTTATTTTAATTTATCTACCATGAAAAGAAATAATTTTGTCTTGGTACTACACTTA
Found at i:123585 original size:29 final size:31
Alignment explanation
Indices: 123553--123610 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
123543 TAAATATAAA
*
123553 AAATAAAT-TATTT-GTATAATATAAAAGTT
1 AAATAAATCTATTTAATATAATATAAAAGTT
* *
123582 AAATTAATCTTTTTAATATAATATAAAAG
1 AAATAAATCTATTTAATATAATATAAAAG
123611 AATTCTAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.29
30 4 0.17
31 13 0.54
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (31 bp):
AAATAAATCTATTTAATATAATATAAAAGTT
Found at i:129425 original size:21 final size:21
Alignment explanation
Indices: 129401--129461 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
129391 CCAACTTTGA
129401 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
129422 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
129436 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
129457 AAATG
1 AAATG
129462 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:129482 original size:36 final size:35
Alignment explanation
Indices: 129395--129509 Score: 187
Period size: 35 Copynumber: 3.3 Consensus size: 35
129385 TGGCAACCAA
129395 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
129430 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* *
129465 CTTTGAAAAATGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
129501 -GTTGAAAAT
1 CTTTGAAAAT
129510 AGGAATGGGT
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
34 5 0.07
35 43 0.57
36 28 0.37
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (35 bp):
CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:138936 original size:21 final size:21
Alignment explanation
Indices: 138893--138936 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
138883 TATATATATG
* *
138893 TATCAGATCGAATACGAATTT
1 TATCAGATCGAATACAAAGTT
138914 TATCAGATCGAATACAAAGTT
1 TATCAGATCGAATACAAAGTT
138935 TA
1 TA
138937 AATAAGACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (21 bp):
TATCAGATCGAATACAAAGTT
Found at i:141259 original size:12 final size:12
Alignment explanation
Indices: 141242--141269 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
141232 TCAAAGTATC
141242 AGAGTAAGATAT
1 AGAGTAAGATAT
141254 AGAGTAAGATAT
1 AGAGTAAGATAT
141266 AGAG
1 AGAG
141270 CCACCAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (12 bp):
AGAGTAAGATAT
Found at i:142638 original size:9 final size:9
Alignment explanation
Indices: 142611--142654 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
142601 ATATTTTGTT
142611 TTTAATTTA
1 TTTAATTTA
*
142620 TTTAA-GTA
1 TTTAATTTA
142628 TTTAATTTA
1 TTTAATTTA
142637 TTTAATATTTA
1 TTT-A-ATTTA
142648 TTTAATT
1 TTTAATT
142655 AATATTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
8 7 0.23
9 13 0.43
10 2 0.07
11 8 0.27
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTAATTTA
Found at i:142656 original size:15 final size:16
Alignment explanation
Indices: 142611--142661 Score: 77
Period size: 15 Copynumber: 3.2 Consensus size: 16
142601 ATATTTTGTT
142611 TTTAATTTATTTAAGTA
1 TTTAATTTATTTAA-TA
142628 TTTAATTTATTTAATA
1 TTTAATTTATTTAATA
*
142644 TTT-ATTTAATTAATA
1 TTTAATTTATTTAATA
142659 TTT
1 TTT
142662 TTACAGATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
15 14 0.42
16 5 0.15
17 14 0.42
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
TTTAATTTATTTAATA
Found at i:143786 original size:24 final size:24
Alignment explanation
Indices: 143754--143803 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
143744 AGATTATAGT
143754 TATATAATTAGATTATTATTTTGA
1 TATATAATTAGATTATTATTTTGA
143778 TATATAATTAGATTATTATTTTGA
1 TATATAATTAGATTATTATTTTGA
143802 TA
1 TA
143804 AAAAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (24 bp):
TATATAATTAGATTATTATTTTGA
Found at i:143818 original size:24 final size:24
Alignment explanation
Indices: 143759--143809 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
143749 ATAGTTATAT
* *
143759 AATTAGATTATTATTTTGATATAT
1 AATTAGATTATTATTTTGATAAAA
143783 AATTAGATTATTATTTTGATAAAA
1 AATTAGATTATTATTTTGATAAAA
143807 AAT
1 AAT
143810 ATATATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (24 bp):
AATTAGATTATTATTTTGATAAAA
Found at i:148731 original size:36 final size:36
Alignment explanation
Indices: 148684--148756 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
148674 ATTAAGTTCA
148684 AGATGAGGGGATCATTAGACCTTTGCTTGAGGATAC
1 AGATGAGGGGATCATTAGACCTTTGCTTGAGGATAC
148720 AGATGAGGGGATCATTAGACCTTTGCTTGAGGATAC
1 AGATGAGGGGATCATTAGACCTTTGCTTGAGGATAC
148756 A
1 A
148757 TGAAACCCAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (36 bp):
AGATGAGGGGATCATTAGACCTTTGCTTGAGGATAC
Found at i:149312 original size:2 final size:2
Alignment explanation
Indices: 149305--149332 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
149295 GTCATCTAAT
149305 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
149333 ATTCTTGACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:150501 original size:13 final size:13
Alignment explanation
Indices: 150476--150508 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
150466 ATTCGGGTAT
*
150476 AAAAAT-TAGATA
1 AAAAATATAAATA
150488 AAAAATATAAATA
1 AAAAATATAAATA
150501 AAAAATAT
1 AAAAATAT
150509 TTTACCGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
AAAAATATAAATA
Found at i:152373 original size:77 final size:76
Alignment explanation
Indices: 152238--152391 Score: 247
Period size: 77 Copynumber: 2.0 Consensus size: 76
152228 TTTTCCATGA
* *
152238 TCAAGTGAACCTCCAAACATACCAAAAGAAAAAAAATGTCATAACATGTAAAGAAACCTACTACT
1 TCAAATGAACCTCCAAACATACCAAAAGAAAAAAAATGTAATAACATGTAAAGAAACCTACTACT
152303 CAAGTTTCATT
66 CAAGTTTCATT
**
152314 TCAAATGAACCTCCACCCATACCAAAAGAAAGAAAAATGTAATAACATGTAAA-ATAACCTACTA
1 TCAAATGAACCTCCAAACATACCAAAAGAAA-AAAAATGTAATAACATGTAAAGA-AACCTACTA
152378 CTCAAGTTTCATT
64 CTCAAGTTTCATT
152391 T
1 T
152392 TTAATGTTTA
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
76 29 0.40
77 43 0.60
ACGTcount: A:0.47, C:0.21, G:0.08, T:0.23
Consensus pattern (76 bp):
TCAAATGAACCTCCAAACATACCAAAAGAAAAAAAATGTAATAACATGTAAAGAAACCTACTACT
CAAGTTTCATT
Found at i:153525 original size:20 final size:20
Alignment explanation
Indices: 153451--153643 Score: 237
Period size: 20 Copynumber: 9.6 Consensus size: 20
153441 GATTTTCAAG
* ** *
153451 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
153471 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
153491 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
153511 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
153531 AATAGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
153551 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
153571 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
153591 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
153612 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
153632 AATCGCAACGCG
1 AATCGCAACGCG
153644 ATTTTTAAAG
Statistics
Matches: 149, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
19 1 0.01
20 129 0.87
21 19 0.13
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:154063 original size:33 final size:33
Alignment explanation
Indices: 154024--154094 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
154014 TTCACTTAGA
154024 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
154057 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
154090 TTTCA
1 TTTCA
154095 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:154252 original size:19 final size:20
Alignment explanation
Indices: 154174--154266 Score: 116
Period size: 21 Copynumber: 4.5 Consensus size: 20
154164 TGCAGAAGAG
154174 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* **
154195 TCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
154215 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
*
154237 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
154256 TCGCAACGAGA
1 TCGCAACGAGA
154267 GAATCGCAAC
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
19 18 0.30
20 9 0.15
21 24 0.39
22 10 0.16
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:154269 original size:42 final size:41
Alignment explanation
Indices: 154174--154266 Score: 134
Period size: 42 Copynumber: 2.3 Consensus size: 41
154164 TGCAGAAGAG
* * **
154174 TCGCAACGAGATAAATGAAAATCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAAATGAAAATCGCAACGCGAAAATGAAAA
154215 TCTGCAACGAGAAAAATGAAAATCGCAACGCG-AAATGAAAA
1 TC-GCAACGAGAAAAATGAAAATCGCAACGCGAAAATGAAAA
154256 TCGCAACGAGA
1 TCGCAACGAGA
154267 GAATCGCAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
40 9 0.19
41 11 0.23
42 27 0.57
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (41 bp):
TCGCAACGAGAAAAATGAAAATCGCAACGCGAAAATGAAAA
Found at i:154313 original size:14 final size:14
Alignment explanation
Indices: 154294--154351 Score: 62
Period size: 14 Copynumber: 3.8 Consensus size: 14
154284 CAAAATCGCA
154294 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
154308 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTC---T--CG
*
154327 TTGCGATTCTCTCG
1 TTGCGATTTTCTCG
154341 TTGCGATTTTC
1 TTGCGATTTTC
154352 ATTTCTCTCG
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.62
16 1 0.03
17 1 0.03
19 12 0.32
ACGTcount: A:0.09, C:0.22, G:0.21, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:154340 original size:33 final size:33
Alignment explanation
Indices: 154289--154397 Score: 119
Period size: 33 Copynumber: 3.1 Consensus size: 33
154279 GAAACCAAAA
* *
154289 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
154322 TCGCGTTGCGATTCTCTCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTCTCTCGTTGCGATTTTCA-TT
*
154356 CTCTCGTTGCGACAGTCATTCTCTCGTTGCGATTTTCATT
1 -TCGCGTT--G-C-G--ATTCTCTCGTTGCGATTTTCATT
154396 TC
1 TC
154398 AACCAAAAGA
Statistics
Matches: 65, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
33 29 0.45
34 2 0.03
35 6 0.09
37 1 0.02
38 1 0.02
39 3 0.05
40 2 0.03
41 21 0.32
ACGTcount: A:0.11, C:0.25, G:0.18, T:0.46
Consensus pattern (33 bp):
TCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:154359 original size:21 final size:21
Alignment explanation
Indices: 154333--154397 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
154323 CGCGTTGCGA
154333 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
154354 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
154374 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
154395 TTC
1 TTC
154398 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:154394 original size:20 final size:20
Alignment explanation
Indices: 154332--154395 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
154322 TCGCGTTGCG
154332 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
***
154352 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGATTTTC
154373 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
154393 ATT
1 ATT
154396 TCAACCAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.12, C:0.25, G:0.16, T:0.47
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:156241 original size:93 final size:93
Alignment explanation
Indices: 156082--156397 Score: 623
Period size: 93 Copynumber: 3.4 Consensus size: 93
156072 TGGATTGCTT
*
156082 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
156147 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
156175 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
156240 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
156268 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
156333 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
156361 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
156398 AATACCCTGA
Statistics
Matches: 222, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 222 1.00
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:156532 original size:14 final size:14
Alignment explanation
Indices: 156513--156569 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
156503 CGAAACTTAA
156513 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
156527 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
156546 AATCGCAACGACAG
1 AATCGCAACGAGAG
156560 AATCGCAACG
1 AATCGCAACG
156570 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:156553 original size:33 final size:33
Alignment explanation
Indices: 156497--156588 Score: 130
Period size: 33 Copynumber: 2.8 Consensus size: 33
156487 GTTTACTTTT
* * *
156497 GCAACACGAAACTTAAAATCGCAACGAGAGAATC
1 GCAACGCGAAA-TCAAAATCGCAACGACAGAATC
*
156531 GCAACGCGAAATGAAAATCGCAACGACAGAATC
1 GCAACGCGAAATCAAAATCGCAACGACAGAATC
*
156564 GCAACGCGAAACCAAAATCGCAACG
1 GCAACGCGAAATCAAAATCGCAACG
156589 CGAAACCAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 43 0.81
34 10 0.19
ACGTcount: A:0.46, C:0.26, G:0.20, T:0.09
Consensus pattern (33 bp):
GCAACGCGAAATCAAAATCGCAACGACAGAATC
Found at i:156610 original size:19 final size:19
Alignment explanation
Indices: 156527--156604 Score: 94
Period size: 19 Copynumber: 4.4 Consensus size: 19
156517 GCAACGAGAG
**
156527 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAACCAA
*
156546 AATCGCAA--CG--A-CAG
1 AATCGCAACGCGAAACCAA
156560 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
156579 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
156598 AATCGCA
1 AATCGCA
156605 TTGCGATTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
14 9 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 36 0.71
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:156622 original size:19 final size:19
Alignment explanation
Indices: 156600--156772 Score: 150
Period size: 19 Copynumber: 9.6 Consensus size: 19
156590 GAAACCAAAA
*
156600 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
156619 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
156633 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
156652 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
156668 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
156685 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* **
156704 TCGCGTTGCGCTTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
156723 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
156742 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
156762 TCGTGTTGCGA
1 TCGCGTTGCGA
156773 AAGTAAACTA
Statistics
Matches: 124, Mismatches: 19, Indels: 21
0.76 0.12 0.13
Matches are distributed among these distances:
14 17 0.14
16 8 0.06
17 8 0.06
19 79 0.64
20 12 0.10
ACGTcount: A:0.10, C:0.21, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:156641 original size:14 final size:14
Alignment explanation
Indices: 156622--156678 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
156612 TTTCATTTCG
156622 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
156636 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
156653 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
156669 CGTTGCGATT
1 CGTTGCGATT
156679 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:156647 original size:33 final size:33
Alignment explanation
Indices: 156605--156697 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
156595 CAAAATCGCA
156605 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
156638 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
156671 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
156698 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:156730 original size:38 final size:38
Alignment explanation
Indices: 156600--156772 Score: 159
Period size: 33 Copynumber: 4.8 Consensus size: 38
156590 GAAACCAAAA
*
156600 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
156635 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* **
156668 T--CGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* ** *
156704 TCGCGTTGCGCTTTTGGTTTCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
156742 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
156773 AAGTAAACTA
Statistics
Matches: 113, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
31 2 0.02
32 1 0.01
33 52 0.46
34 1 0.01
35 2 0.02
36 2 0.02
38 42 0.37
39 11 0.10
ACGTcount: A:0.10, C:0.21, G:0.24, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
Found at i:158715 original size:14 final size:14
Alignment explanation
Indices: 158696--158731 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
158686 ATTGTTTAAT
158696 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
158710 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
158724 TGATTTGT
1 TGATTTGT
158732 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:158905 original size:20 final size:19
Alignment explanation
Indices: 158829--158927 Score: 136
Period size: 20 Copynumber: 5.4 Consensus size: 19
158819 AAAAATGACT
158829 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
158848 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
158867 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
158881 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
158901 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
158921 ATCGCAA
1 ATCGCAA
158928 CGAGAGAATC
Statistics
Matches: 72, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 1 0.01
17 3 0.04
19 27 0.38
20 30 0.42
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:158931 original size:54 final size:53
Alignment explanation
Indices: 158829--158945 Score: 218
Period size: 54 Copynumber: 2.2 Consensus size: 53
158819 AAAAATGACT
158829 ATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
158881 ATCGCAATGCGGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
158935 ATCGCAATGCG
1 ATCGCAATGCG
158946 ATTTTCATTT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
52 10 0.16
53 19 0.30
54 34 0.54
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:158964 original size:19 final size:19
Alignment explanation
Indices: 158936--159216 Score: 332
Period size: 19 Copynumber: 15.7 Consensus size: 19
158926 AACGAGAGAA
*
158936 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
158955 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
158974 TCCGCGTTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
158991 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
159008 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
159027 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
159046 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
159062 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
159079 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
159098 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
159115 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
159132 TCGCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
159151 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
159170 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
159188 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
159204 TCGCATTGCGATT
1 TCGCATTGCGATT
159217 CTCTCGTTGC
Statistics
Matches: 228, Mismatches: 11, Indels: 46
0.80 0.04 0.16
Matches are distributed among these distances:
14 29 0.13
16 19 0.08
17 20 0.09
18 7 0.03
19 118 0.52
20 35 0.15
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:159074 original size:33 final size:33
Alignment explanation
Indices: 158960--159091 Score: 192
Period size: 33 Copynumber: 3.8 Consensus size: 33
158950 TCATTTCGCA
*
158960 TTGCGATTTTCATTTCCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
*
158994 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
159030 CATTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 --TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
159065 TTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
159092 TTCATTTCCG
Statistics
Matches: 90, Mismatches: 3, Indels: 11
0.87 0.03 0.11
Matches are distributed among these distances:
33 36 0.40
34 15 0.17
35 7 0.08
36 7 0.08
38 25 0.28
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:159104 original size:72 final size:71
Alignment explanation
Indices: 158936--159188 Score: 377
Period size: 72 Copynumber: 3.5 Consensus size: 71
158926 AACGAGAGAA
* *
158936 TCGCAATGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCGTTGCGATTCTCTCGTTGCGAT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCGAT
159001 TTTCATT
65 TTTCATT
159008 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
159073 TTCATT
66 TTCATT
* * * *
159079 TCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCGTTGC
1 TCGCATTGCGATTTTCATTT-CGCATTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGTTGC
159141 GATTTTCATT
62 GATTTTCATT
159151 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCAT
1 TCGCATTGCGATTTTCATTT-CGCATTGCGATTTTCAT
159189 GTTGGGATTT
Statistics
Matches: 170, Mismatches: 7, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
70 3 0.02
71 52 0.31
72 101 0.59
73 5 0.03
74 9 0.05
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.45
Consensus pattern (71 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
TTCATT
Found at i:159198 original size:53 final size:54
Alignment explanation
Indices: 158936--159216 Score: 263
Period size: 53 Copynumber: 5.2 Consensus size: 54
158926 AACGAGAGAA
* *
158936 TCGCAATGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCGTTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCA-TT---CGTTGCGATTTTCATT
158991 TCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCA-TTCG--TTGCGATTTTCATT
*
159046 TCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCA-TTCG--TTGCGATTTTCATT
*
159098 TCCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 T-CGCATTGCGATTTTCATTTCGCATTGCGATTTTCA-TT--CGTTGCGATTTTCATT
*
159151 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCA-T-GTTGGGATTTTCATT
1 TCGCATTGCGATTTTCATTT-CGCATTGCGATTTTCATTCGTTGCGATTTTCATT
159204 TCGCATTGCGATT
1 TCGCATTGCGATT
159217 CTCTCGTTGC
Statistics
Matches: 205, Mismatches: 5, Indels: 34
0.84 0.02 0.14
Matches are distributed among these distances:
50 2 0.01
52 50 0.24
53 108 0.53
54 10 0.05
55 14 0.07
56 3 0.01
57 6 0.03
58 12 0.06
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (54 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTCGTTGCGATTTTCATT
Found at i:159245 original size:53 final size:52
Alignment explanation
Indices: 159013--159249 Score: 291
Period size: 53 Copynumber: 4.5 Consensus size: 52
159003 TCATTTCGCA
* *
159013 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTGTCATTTCGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCG
* *
159065 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
1 TTGCGATTGTCATTTCGCGTTGCGATTTTCATTT-CGCATTGCGATTCTCTCG
* *
159118 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCATTGCGATT-T-TCAT
1 TTGCGATTGTCATTTCGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC-G
* ** *
159169 TTCCGCATTG-CGATTTTCATGTTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCG-ATTGTC-A-TTTCGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCG
* *
159223 TTGCGATTGTAATTTCCGTGTTGCGAT
1 TTGCGATTGTCATTT-CGCGTTGCGAT
159250 AGTCAAATGC
Statistics
Matches: 164, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
50 2 0.01
51 6 0.04
52 53 0.32
53 96 0.59
54 5 0.03
55 2 0.01
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.46
Consensus pattern (52 bp):
TTGCGATTGTCATTTCGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:161628 original size:12 final size:12
Alignment explanation
Indices: 161611--161635 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
161601 TCTTCGGGGA
161611 CTTTTTCTTCTT
1 CTTTTTCTTCTT
161623 CTTTTTCTTCTT
1 CTTTTTCTTCTT
161635 C
1 C
161636 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:161844 original size:24 final size:24
Alignment explanation
Indices: 161810--161856 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
161800 CTGAAACATC
161810 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
161834 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
161857 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:162576 original size:20 final size:20
Alignment explanation
Indices: 162548--162757 Score: 219
Period size: 20 Copynumber: 10.5 Consensus size: 20
162538 AAATTTCAGT
* * * *
162548 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
162568 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
162588 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
162608 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
162628 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
162648 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
162668 ATTGCGATTTACAGATACGC
1 GTTGCGATTTACGGATACGC
* *
162688 GTTGCTATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
162708 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
162728 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
162748 GTTGCGATTT
1 GTTGCGATTT
162758 TCATATTCGC
Statistics
Matches: 163, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
19 3 0.02
20 157 0.96
21 3 0.02
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:162766 original size:20 final size:20
Alignment explanation
Indices: 162725--162776 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
162715 TTTACGGATA
* *
162725 CGCGTTGCGATTTATGTGTT
1 CGCGTTGCGATTTATATATT
162745 CGCGTTGCGATTT-TCATATT
1 CGCGTTGCGATTTAT-ATATT
*
162765 CGCATTGCGATT
1 CGCGTTGCGATT
162777 CTGGAAAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.42
Consensus pattern (20 bp):
CGCGTTGCGATTTATATATT
Found at i:162829 original size:21 final size:20
Alignment explanation
Indices: 162744--162841 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
162734 ATTTATGTGT
* * *
162744 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTCAAAA
**
162764 TCGCATTGCGATTCTGGAAAA
1 TCGCATTGCGATT-TTCAAAA
* **
162785 TCGCAATGCGAATTTGT-ACTA
1 TCGCATTGCG-ATTT-TCAAAA
162806 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTCAA-AA
*
162827 TCGCGTTGCGATTTT
1 TCGCATTGCGATTTT
162842 GGAAACTGAT
Statistics
Matches: 60, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
19 1 0.02
20 17 0.28
21 39 0.65
22 3 0.05
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTCAAAA
Found at i:162837 original size:42 final size:43
Alignment explanation
Indices: 162744--162842 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
162734 ATTTATGTGT
*
162744 TCGCGTTGCG-ATTT-TCATATTCGCATTGCGATTCTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTGCAAAA
** *
162785 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATT-TTCAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTCTGCAA-AA
*
162827 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
162843 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 11 0.23
42 33 0.70
43 3 0.06
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTGCAAAA
Found at i:167290 original size:18 final size:19
Alignment explanation
Indices: 167269--167304 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
167259 GGTCTTAATA
167269 ATTAATTTTT-TTTAAAAT
1 ATTAATTTTTATTTAAAAT
*
167287 ATTATTTTTTATTTAAAA
1 ATTAATTTTTATTTAAAA
167305 AACTCAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTAATTTTTATTTAAAAT
Found at i:175524 original size:23 final size:22
Alignment explanation
Indices: 175472--175522 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
175462 GACCCGGATC
*
175472 AAAAAAATCGAGTAATTTTATT
1 AAAAAAATCGAGTAATTTTATA
*
175494 AAAAAAATCGGGTAATTTTATA
1 AAAAAAATCGAGTAATTTTATA
175516 AAAAAAA
1 AAAAAAA
175523 ATACCCGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.57, C:0.04, G:0.10, T:0.29
Consensus pattern (22 bp):
AAAAAAATCGAGTAATTTTATA
Found at i:175546 original size:17 final size:17
Alignment explanation
Indices: 175524--175563 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
175514 TAAAAAAAAA
175524 TACCCGGCCGGGTCGGG
1 TACCCGGCCGGGTCGGG
175541 TACCCGGCCGGGTCGGG
1 TACCCGGCCGGGTCGGG
175558 TACCCG
1 TACCCG
175564 ACCCGACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.07, C:0.38, G:0.42, T:0.12
Consensus pattern (17 bp):
TACCCGGCCGGGTCGGG
Found at i:179225 original size:22 final size:22
Alignment explanation
Indices: 179200--179244 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
179190 GTTTTATTTA
* * *
179200 TATTATGGATTATTAGATTTTG
1 TATTATGAACTATTAAATTTTG
*
179222 TATTTTGAACTATTAAATTTTG
1 TATTATGAACTATTAAATTTTG
179244 T
1 T
179245 TTTTCGATGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.02, G:0.13, T:0.56
Consensus pattern (22 bp):
TATTATGAACTATTAAATTTTG
Found at i:180352 original size:3 final size:3
Alignment explanation
Indices: 180344--180369 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
180334 CTTACTAATT
180344 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
180370 TAGTATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:180608 original size:13 final size:13
Alignment explanation
Indices: 180590--180614 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
180580 TCAGTTACAA
180590 TAAAAAAATATTT
1 TAAAAAAATATTT
180603 TAAAAAAATATT
1 TAAAAAAATATT
180615 AATATATGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAAAAAATATTT
Found at i:184262 original size:32 final size:33
Alignment explanation
Indices: 184209--184295 Score: 99
Period size: 32 Copynumber: 2.7 Consensus size: 33
184199 GATGAATTTT
* * *
184209 TTGTTCGTG-TTCATTCGTTAAAGAAATGTAAC
1 TTGTTCGTGTTTCATTCATTAAAAAAATATAAC
*
184241 TTGTTCATGTTTC-TTCATTAAAAAAATATAAC
1 TTGTTCGTGTTTCATTCATTAAAAAAATATAAC
* *
184273 ATGTTCGTG-TTCATTCGTTAAAA
1 TTGTTCGTGTTTCATTCATTAAAA
184296 TTATAAATAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 3 0.07
32 40 0.87
33 3 0.07
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.43
Consensus pattern (33 bp):
TTGTTCGTGTTTCATTCATTAAAAAAATATAAC
Found at i:184323 original size:20 final size:20
Alignment explanation
Indices: 184298--184336 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
184288 CGTTAAAATT
184298 ATAAATAAACACAAACGAAA
1 ATAAATAAACACAAACGAAA
*
184318 ATAAATGAACACAAACGAA
1 ATAAATAAACACAAACGAA
184337 TGAACTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.67, C:0.15, G:0.08, T:0.10
Consensus pattern (20 bp):
ATAAATAAACACAAACGAAA
Found at i:184989 original size:19 final size:18
Alignment explanation
Indices: 184965--185025 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 18
184955 TGAATTATAG
184965 TATATTTTATATATAATTT
1 TATATTTT-TATATAATTT
184984 TATATTTTTATTAATAATTT
1 TATATTTTTA-T-ATAATTT
* *
185004 ATTTAATTTT-TATAATTT
1 -TATATTTTTATATAATTT
185022 TATA
1 TATA
185026 AATTCACTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
17 3 0.08
18 9 0.25
19 10 0.28
20 7 0.19
21 7 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TATATTTTTATATAATTT
Done.