Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 85 of 121
Found at i:14434230 original size:28 final size:28
Alignment explanation
Indices: 14434176--14434230 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
14434166 ATTTATATAT
* * ***
14434176 AATTTTTTATTTTTATTATATTTAAATA
1 AATTTTTAATTTTTATTAAAACAAAATA
14434204 AATTTTTAATTTTTATTAAAACAAAAT
1 AATTTTTAATTTTTATTAAAACAAAAT
14434231 TTTAACTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (28 bp):
AATTTTTAATTTTTATTAAAACAAAATA
Found at i:14436129 original size:6 final size:6
Alignment explanation
Indices: 14436112--14436147 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
14436102 AATAAAATAT
* *
14436112 TTCGAG TCCGAG TTCGAG TTCGAG TTCGAA TTCGAG
1 TTCGAG TTCGAG TTCGAG TTCGAG TTCGAG TTCGAG
14436148 CATGAATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (6 bp):
TTCGAG
Found at i:14441794 original size:4 final size:4
Alignment explanation
Indices: 14441785--14441836 Score: 59
Period size: 4 Copynumber: 13.0 Consensus size: 4
14441775 TTTAGCTTTA
* * * * *
14441785 ATAT ATAT ATAT ATAT ATAT ATAT TTAT TTAT ATGT ATGT ATAT ATGT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
14441833 ATAT
1 ATAT
14441837 GTCCTTAGCC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (4 bp):
ATAT
Found at i:14441838 original size:6 final size:6
Alignment explanation
Indices: 14441785--14441836 Score: 59
Period size: 6 Copynumber: 8.7 Consensus size: 6
14441775 TTTAGCTTTA
* * * * *
14441785 ATATAT ATATAT ATATAT ATATAT TTATTT ATATGT ATGTAT ATATGT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
14441833 ATAT
1 ATAT
14441837 GTCCTTAGCC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (6 bp):
ATATAT
Found at i:14443358 original size:2 final size:2
Alignment explanation
Indices: 14443351--14443378 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14443341 CATGCTCAAA
14443351 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
14443379 TTTTTTTTTT
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:14453081 original size:44 final size:44
Alignment explanation
Indices: 14453031--14453116 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 44
14453021 ATTCATCTTC
*
14453031 CTTCTACTAAGCCAACCTTAGTTGATATTCCTCATCTTTTTTTT
1 CTTCTACTAAGCCAACCTCAGTTGATATTCCTCATCTTTTTTTT
* * * *
14453075 CTTCTACTAAGCTAGCCTCAGTTGATATTCTTTATCTTTTTT
1 CTTCTACTAAGCCAACCTCAGTTGATATTCCTCATCTTTTTT
14453117 CACTATCCCT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.20, C:0.23, G:0.08, T:0.49
Consensus pattern (44 bp):
CTTCTACTAAGCCAACCTCAGTTGATATTCCTCATCTTTTTTTT
Found at i:14457399 original size:94 final size:95
Alignment explanation
Indices: 14457237--14457426 Score: 364
Period size: 94 Copynumber: 2.0 Consensus size: 95
14457227 TTATCCAGGT
14457237 ACCTCTTTATTCCTTTTTTTTTAGCTCTAAAATTTTCATTTATTTAGCCAACCACTAGCTAGGAG
1 ACCTCTTTATTCCTTTTTTTTTAGCTCTAAAATTTTCATTTATTTAGCCAACCACTAGCTAGGAG
*
14457302 TCATTATATACAATGATGTTCTTCATATTC
66 TCATTATATACAATGATATTCTTCATATTC
14457332 ACCTCTTTATTCC-TTTTTTTTAGCTCTAAAATTTTCATTTATTTAGCCAACCACTAGCTAGGAG
1 ACCTCTTTATTCCTTTTTTTTTAGCTCTAAAATTTTCATTTATTTAGCCAACCACTAGCTAGGAG
14457396 TCATTATATACAATGATATTCTTCATATTC
66 TCATTATATACAATGATATTCTTCATATTC
14457426 A
1 A
14457427 ACTCGACTGT
Statistics
Matches: 94, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
94 81 0.86
95 13 0.14
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.45
Consensus pattern (95 bp):
ACCTCTTTATTCCTTTTTTTTTAGCTCTAAAATTTTCATTTATTTAGCCAACCACTAGCTAGGAG
TCATTATATACAATGATATTCTTCATATTC
Found at i:14462599 original size:16 final size:15
Alignment explanation
Indices: 14462563--14462600 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
14462553 ACTCAAAAAA
14462563 TTAATTTGAAATAAT
1 TTAATTTGAAATAAT
*
14462578 TAAATTTGAAATTAAT
1 TTAATTTGAAA-TAAT
14462594 TTAATTT
1 TTAATTT
14462601 TAAAAAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (15 bp):
TTAATTTGAAATAAT
Found at i:14462851 original size:16 final size:17
Alignment explanation
Indices: 14462827--14462861 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
14462817 TTTATCCTTG
14462827 TTTTGTTTTGTTTT-TT
1 TTTTGTTTTGTTTTCTT
*
14462843 TTTTTTTTTGTTTTCTT
1 TTTTGTTTTGTTTTCTT
14462860 TT
1 TT
14462862 CTCCTAACGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.89
Consensus pattern (17 bp):
TTTTGTTTTGTTTTCTT
Found at i:14463410 original size:12 final size:12
Alignment explanation
Indices: 14463395--14463440 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
14463385 AAAATTAAAA
*
14463395 AAATTTATATGT
1 AAATTTATATAT
*
14463407 AAATTTA-ATAA
1 AAATTTATATAT
*
14463418 AAATTTAAATAT
1 AAATTTATATAT
14463430 AAATTT-TATAT
1 AAATTTATATAT
14463441 TTGATGTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 13 0.45
12 16 0.55
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (12 bp):
AAATTTATATAT
Found at i:14463423 original size:23 final size:22
Alignment explanation
Indices: 14463378--14463435 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 22
14463368 ATACATAATA
* *
14463378 TAAATTTAAAATTAAAAAAATT
1 TAAATATAAATTTAAAAAAATT
* *
14463400 TATATGTAAATTTAATAAAAATT
1 TAAATATAAATTTAA-AAAAATT
14463423 TAAATATAAATTT
1 TAAATATAAATTT
14463436 TATATTTGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
TAAATATAAATTTAAAAAAATT
Found at i:14463440 original size:11 final size:12
Alignment explanation
Indices: 14463378--14463435 Score: 50
Period size: 12 Copynumber: 5.1 Consensus size: 12
14463368 ATACATAATA
* *
14463378 TAAATTTAAAAT
1 TAAATATAAATT
14463390 TAAA-A-AAATT
1 TAAATATAAATT
* *
14463400 TATATGTAAATT
1 TAAATATAAATT
*
14463412 T-AATAAAAATT
1 TAAATATAAATT
14463423 TAAATATAAATT
1 TAAATATAAATT
14463435 T
1 T
14463436 TATATTTGAT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
10 7 0.20
11 8 0.23
12 20 0.57
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (12 bp):
TAAATATAAATT
Found at i:14464315 original size:18 final size:18
Alignment explanation
Indices: 14464280--14464315 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14464270 TTTAAAAAAT
**
14464280 AAATATATTTAATTTTAA
1 AAATATATTTAAAATTAA
14464298 AAATATATTTAAAATTAA
1 AAATATATTTAAAATTAA
14464316 TTTTTTTATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATATATTTAAAATTAA
Found at i:14465812 original size:24 final size:25
Alignment explanation
Indices: 14465785--14465831 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
14465775 ACAAAATGGT
*
14465785 TTAAAATATTAA-AAATATTATAAG
1 TTAAAATATTAATAAAAATTATAAG
*
14465809 TTAAAATTTTAATAAAAATTATA
1 TTAAAATATTAATAAAAATTATA
14465832 TAAATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
TTAAAATATTAATAAAAATTATAAG
Found at i:14465900 original size:11 final size:11
Alignment explanation
Indices: 14465871--14465903 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
14465861 AAGTATCACG
*
14465871 AAAATAATATG
1 AAAATAATATA
14465882 AAAA-AATATA
1 AAAATAATATA
14465892 AAAATAATATA
1 AAAATAATATA
14465903 A
1 A
14465904 TTTAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (11 bp):
AAAATAATATA
Found at i:14465910 original size:24 final size:24
Alignment explanation
Indices: 14465787--14465948 Score: 66
Period size: 24 Copynumber: 6.5 Consensus size: 24
14465777 AAAATGGTTT
* *
14465787 AAAATATTAAAAATATTATAAGTTA
1 AAAATA-TAAAAATAATATAATTTA
* *
14465812 AAATTTTAATAAAAATTATATAAATTTA
1 AAA--AT-ATAAAAATAATAT-AATTTA
* *
14465840 AAAA-ATAAAAATAATAT-CTGTA
1 AAAATATAAAAATAATATAATTTA
** ** *
14465862 AGTATCACGAAAATAATATGA---A
1 AAAAT-ATAAAAATAATATAATTTA
14465884 AAAATATAAAAATAATATAATTTA
1 AAAATATAAAAATAATATAATTTA
*
14465908 AAATTTTTATAAAAATTATATATAAATTTA
1 AAA---ATATAAAAA-TA-ATAT-AATTTA
14465938 AAAA-ATAAAAA
1 AAAATATAAAAA
14465949 ATATATTTTG
Statistics
Matches: 101, Mismatches: 20, Indels: 31
0.66 0.13 0.20
Matches are distributed among these distances:
21 12 0.12
22 9 0.09
24 27 0.27
25 3 0.03
26 7 0.07
27 19 0.19
28 11 0.11
29 4 0.04
30 9 0.09
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (24 bp):
AAAATATAAAAATAATATAATTTA
Found at i:14466072 original size:13 final size:13
Alignment explanation
Indices: 14466056--14466087 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
14466046 AATATATAAA
14466056 TTAATAAATTTAT
1 TTAATAAATTTAT
*
14466069 TTAAAAAATTTAT
1 TTAATAAATTTAT
14466082 TTAATA
1 TTAATA
14466088 TAAAAAGCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTAATAAATTTAT
Found at i:14466953 original size:26 final size:25
Alignment explanation
Indices: 14466906--14466973 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 25
14466896 TTAATATAAC
14466906 TATTAAAATATTAAAAATTATTTAT
1 TATTAAAATATTAAAAATTATTTAT
14466931 TATTAAAGTATATT-AAAATTATTTAT
1 TATTAAA--ATATTAAAAATTATTTAT
14466957 TACTATAAAATTATTAA
1 TA-T-TAAAA-TATTAA
14466974 TATTCAAGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
25 7 0.19
26 15 0.41
27 10 0.27
28 5 0.14
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (25 bp):
TATTAAAATATTAAAAATTATTTAT
Found at i:14467029 original size:19 final size:18
Alignment explanation
Indices: 14466994--14467039 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
14466984 TAATTGTATT
14466994 TTAATAATAATATTTAATA
1 TTAA-AATAATATTTAATA
*
14467013 TTAAAATATTATATTAATA
1 TTAAAATAATAT-TTAATA
*
14467032 TAAAAATA
1 TTAAAATA
14467040 CTTAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAAAATAATATTTAATA
Found at i:14467300 original size:27 final size:28
Alignment explanation
Indices: 14467248--14467302 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
14467238 TATAAAAACT
*
14467248 TTAATAAATAAAAAATAAATTTTTTAAA
1 TTAATAAATAAAAAATAAATTATTTAAA
14467276 TTAATAAAT-AAAAATAAATTATTTAAA
1 TTAATAAATAAAAAATAAATTATTTAAA
14467303 ATAGTTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (28 bp):
TTAATAAATAAAAAATAAATTATTTAAA
Found at i:14467304 original size:28 final size:28
Alignment explanation
Indices: 14467248--14467304 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
14467238 TATAAAAACT
*
14467248 TTAATAAATAAAAAATAAATTTTTTAAA
1 TTAATAAATAAAAAATAAATTTTTAAAA
14467276 TTAATAAAT-AAAAATAAATTATTTAAAA
1 TTAATAAATAAAAAATAAATT-TTTAAAA
14467304 T
1 T
14467305 AGTTATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 11 0.41
28 16 0.59
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (28 bp):
TTAATAAATAAAAAATAAATTTTTAAAA
Found at i:14467332 original size:22 final size:22
Alignment explanation
Indices: 14467307--14467353 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
14467297 TTTAAAATAG
14467307 TTATATTAATTGAAAATT-ATTA
1 TTATATT-ATTGAAAATTAATTA
*
14467329 TTATATTATTTAAAATTAATTA
1 TTATATTATTGAAAATTAATTA
14467351 TTA
1 TTA
14467354 AAAGAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTATATTATTGAAAATTAATTA
Found at i:14468273 original size:22 final size:22
Alignment explanation
Indices: 14468228--14468280 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
14468218 GATTTAAAAA
14468228 TAAATATAAAAATAAATAAAATT
1 TAAATA-AAAAATAAATAAAATT
* *
14468251 TAATTAAAAAATAAA-AATGATT
1 TAAATAAAAAATAAATAA-AATT
14468273 TAAATAAA
1 TAAATAAA
14468281 TATTAACTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 2 0.08
22 19 0.73
23 5 0.19
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
TAAATAAAAAATAAATAAAATT
Found at i:14469099 original size:15 final size:15
Alignment explanation
Indices: 14469062--14469099 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
14469052 ATTTTATTTT
14469062 ATTTAAA-ATAAATA
1 ATTTAAATATAAATA
*
14469076 ATTTGAATATAAATA
1 ATTTAAATATAAATA
*
14469091 GTTTAAATA
1 ATTTAAATA
14469100 AAAAAATTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (15 bp):
ATTTAAATATAAATA
Found at i:14470634 original size:106 final size:100
Alignment explanation
Indices: 14470421--14470693 Score: 309
Period size: 106 Copynumber: 2.7 Consensus size: 100
14470411 TACGTTTAGC
* * * * *
14470421 TTCAAAGAAATGCAGTAATTGAC-AAATTCATAATAAATGCTCATTAACTCAAAAGTATCAAGTG
1 TTCAAAGAAATGCAGTAATTGACTATACTCATAATAAATGCTCATTAAATCAAAAGTATCAAATC
*
14470485 ATACAAAAAAAAAGAAGCCAAATACTGCATTTTTG
66 AAACAAAAAAAAAGAAGCCAAATACTGCATTTTTG
* *
14470520 TTCAAAGAAATGCAATAATTG-CTATACTCATAATAAATGCTCATTAAATTAAAAGCTATCAAAT
1 TTCAAAGAAATGCAGTAATTGACTATACTCATAATAAATGCTCATTAAATCAAAAG-TATCAAAT
* *
14470584 CAAACAGATAAAAAAAAGTAAATGTCAAATACTGCGTTTTTG
65 CAAAC--A-AAAAAAAAG--AA-GCCAAATACTGCATTTTTG
** * * * *
14470626 TTCAAAGAAACACAGTAATTGTCT-TACCCATAATAAATGCTCATTAAATCAAATGTCATCAAGT
1 TTCAAAGAAATGCAGTAATTGACTATACTCATAATAAATGCTCATTAAATCAAAAGT-ATCAAAT
14470690 CAAA
65 CAAA
14470694 TAGTGTGTTT
Statistics
Matches: 147, Mismatches: 17, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
98 1 0.01
99 48 0.33
100 10 0.07
102 1 0.01
103 9 0.06
105 3 0.02
106 73 0.50
107 2 0.01
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.28
Consensus pattern (100 bp):
TTCAAAGAAATGCAGTAATTGACTATACTCATAATAAATGCTCATTAAATCAAAAGTATCAAATC
AAACAAAAAAAAAGAAGCCAAATACTGCATTTTTG
Found at i:14474697 original size:22 final size:23
Alignment explanation
Indices: 14474666--14474719 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
14474656 AAATATTAAT
* *
14474666 AATAAAATTTAAAATAA-TAAAA
1 AATAATATTTAAAAAAATTAAAA
*
14474688 AATAATATTTAAAAAAATTCAAA
1 AATAATATTTAAAAAAATTAAAA
14474711 AA-AATATTT
1 AATAATATTT
14474720 TTTTTACCTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (23 bp):
AATAATATTTAAAAAAATTAAAA
Found at i:14475377 original size:21 final size:20
Alignment explanation
Indices: 14475347--14475396 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
14475337 GATATTTTTA
*
14475347 AATA-TTTATATTTTAAAAAT
1 AATATTTTATA-TTAAAAAAT
14475367 AATATTTTATATTAAAAAAT
1 AATATTTTATATTAAAAAAT
14475387 AATATTTTAT
1 AATATTTTAT
14475397 TAATTTCGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 22 0.79
21 6 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATATTTTATATTAAAAAAT
Found at i:14476240 original size:48 final size:48
Alignment explanation
Indices: 14476181--14476884 Score: 667
Period size: 47 Copynumber: 14.8 Consensus size: 48
14476171 AAAAATTAAG
14476181 AAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTGAAA
1 AAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTGAAA
* * * * *
14476229 AAGC-CTTTCTAAGTAGAAGCTCAACAACTTTAAAAATTCATCATTTTAAGA
1 AAGCTC-CTCTAAGCAGAGGCTCAACAACTTTAAAAATTTATC--TTGAA-A
* **
14476280 AAGCTCCTCTAAACAGAGGCTCAGTAACTTT-AAAATTTATCTTAGAAA
1 AAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCTT-GAAA
** * * * *
14476328 AA-CTCAACTCAGCAGAGGCTCCACAACTTTAAAAATTCATCTTAAAA
1 AAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTGAAA
** * * * *
14476375 AAGCTTTTCTCAA-TAAATGCTCAACAA-TTTTAAAATTTATCTTAGAAA
1 AAGCTCCTCT-AAGCAGAGGCTCAACAACTTTAAAAATTTATCTT-GAAA
* * * *
14476423 AAGACTTCTCTTAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTAAAA
1 AAG-CTCCTCTAAGCAGAGGCTCAACAACTTTAAAAAT-TTATCTTGAAA
** * *
14476472 AAGCTTATCTCAGCAGAGGCTCAACAACTTTAAAAATTCATCTTG-AA
1 AAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTGAAA
* *
14476519 AAGCTCCTCTAAGCAGAGGTTCCACAACTTTAAAAA--T-TCTT-AAA
1 AAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTGAAA
14476563 AATGCTCCTCTTAA-CAGAGG-TACAACAACTTTAAAAATTTATCTTGGAAA
1 AA-GCTCCTC-TAAGCAGAGGCT-CAACAACTTTAAAAATTTATCTT-GAAA
* * * * *
14476613 AA-CTCCTCTCAGTAGAGGTTCAACAACTTT-AAAATTAATATTGAAA
1 AAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTGAAA
* * * * *
14476659 AAACTTCTTTCAGTAGAGGCTCAACAACTTT-AAAATTTCATCTTGAAA
1 AAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTT-ATCTTGAAA
* *
14476707 AAGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAATTTTATCTTGAAA
1 AAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTGAAA
* * *
14476755 AAGCTCATCTCAA-CAGAGGCTCAACAA-TTTTAAAATTAATCTTGAAA
1 AAGCTCCTCT-AAGCAGAGGCTCAACAACTTTAAAAATTTATCTTGAAA
* *
14476802 AAGCTCCTCTCAA-TAGAGGCTCAACAACTTT-AAAATTAATCTTGAAA
1 AAGCTCCTCT-AAGCAGAGGCTCAACAACTTTAAAAATTTATCTTGAAA
* *
14476849 AAGCTCATCTCAA-CAGAGGCTTAACAACTTTAAAAA
1 AAGCTCCTCT-AAGCAGAGGCTCAACAACTTTAAAAA
14476885 AATCATCTGT
Statistics
Matches: 549, Mismatches: 75, Indels: 64
0.80 0.11 0.09
Matches are distributed among these distances:
44 9 0.02
45 27 0.05
46 9 0.02
47 204 0.37
48 204 0.37
49 44 0.08
50 27 0.05
51 24 0.04
52 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (48 bp):
AAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTGAAA
Found at i:14476356 original size:47 final size:47
Alignment explanation
Indices: 14476181--14476883 Score: 625
Period size: 48 Copynumber: 14.7 Consensus size: 47
14476171 AAAAATTAAG
* * *
14476181 AAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTGAAA
1 AAGCTCATCTCAGCAGAGGCTCAACAACTTT-AAAATTAATCTTGAAA
* * * * * *
14476229 AAGC-CTTTCTAAGTAGAAGCTCAACAACTTTAAAAATTCATCATTTTAAGA
1 AAGCTC-ATCTCAGCAGAGGCTCAACAACTTT-AAAATTAATC--TTGAA-A
* * * ** *
14476280 AAGCTCCTCTAAACAGAGGCTCAGTAACTTTAAAATTTATCTTAGAAA
1 AAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTAATCTT-GAAA
* * * *
14476328 AA-CTCAACTCAGCAGAGGCTCCACAACTTTAAAAATTCATCTTAAAA
1 AAGCTCATCTCAGCAGAGGCTCAACAACTTT-AAAATTAATCTTGAAA
** ** * * * *
14476375 AAGCTTTTCTCAATAAATGCTCAACAATTTTAAAATTTATCTTAGAAA
1 AAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTAATCTT-GAAA
* * *
14476423 AAGACTTC-TCTTAGCAGAGGCTCAACAACTTTAAAATCTCATCTTAAAA
1 AAG-C-TCATCTCAGCAGAGGCTCAACAACTTTAAAAT-TAATCTTGAAA
* *
14476472 AAGCTTATCTCAGCAGAGGCTCAACAACTTTAAAAATTCATCTTG-AA
1 AAGCTCATCTCAGCAGAGGCTCAACAACTTT-AAAATTAATCTTGAAA
* * * * *
14476519 AAGCTCCTCTAAGCAGAGGTTCCACAACTTTAAAA--ATTCTT-AAA
1 AAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTAATCTTGAAA
* * * *
14476563 AATGCTCCTCTTAACAGAGG-TACAACAACTTTAAAAATTTATCTTGGAAA
1 AA-GCTCATCTCAGCAGAGGCT-CAACAACTTT-AAAATTAATCTT-GAAA
* * * *
14476613 AA-CTCCTCTCAGTAGAGGTTCAACAACTTTAAAATTAATATTGAAA
1 AAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTAATCTTGAAA
* * * *
14476659 AAACTTC-TTTCAGTAGAGGCTCAACAACTTTAAAATTTCATCTTGAAA
1 AAGC-TCATCTCAGCAGAGGCTCAACAACTTTAAAA-TTAATCTTGAAA
* * *
14476707 AAGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAATTTTATCTTGAAA
1 AAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAA-TTAATCTTGAAA
* *
14476755 AAGCTCATCTCAACAGAGGCTCAACAATTTTAAAATTAATCTTGAAA
1 AAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTAATCTTGAAA
* **
14476802 AAGCTCCTCTCAATAGAGGCTCAACAACTTTAAAATTAATCTTGAAA
1 AAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTAATCTTGAAA
* *
14476849 AAGCTCATCTCAACAGAGGCTTAACAACTTTAAAA
1 AAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAA
14476884 AAATCATCTG
Statistics
Matches: 546, Mismatches: 82, Indels: 55
0.80 0.12 0.08
Matches are distributed among these distances:
44 9 0.02
45 24 0.04
46 14 0.03
47 193 0.35
48 218 0.40
49 38 0.07
50 25 0.05
51 24 0.04
52 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (47 bp):
AAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTAATCTTGAAA
Found at i:14476420 original size:95 final size:93
Alignment explanation
Indices: 14476194--14477110 Score: 703
Period size: 95 Copynumber: 9.7 Consensus size: 93
14476184 CTCCTCTAAG
* * * * *
14476194 CAGAGGCTCAACAACTTTAAAAATTTATCTTGAAAAAGC-CTTTCTAAGTAGAAGCTCAACAACT
1 CAGAGGCTCAACAA-TTTTAAAATTTATCTTGAAAAA-CTC-CTCTCAGCAGAGGCTCAACAACT
* * ** *
14476258 TTAAAAATTCATCATTTTAAGAAAGCTCCTCTAAA
63 TT-AAAATT-A--ATCTTAAAAAAGCTTATCTCAA
** * ** *
14476293 CAGAGGCTCAGTAACTTTAAAATTTATCTTAGAAAAACTCAACTCAGCAGAGGCTCCACAACTTT
1 CAGAGGCTCAACAATTTTAAAATTTATCTT-GAAAAACTCCTCTCAGCAGAGGCTCAACAACTTT
* *
14476358 AAAAATTCATCTTAAAAAAGCTTTTCTCAA
65 -AAAATTAATCTTAAAAAAGCTTATCTCAA
* * * * *
14476388 TAAATGCTCAACAATTTTAAAATTTATCTTAGAAAAAGACTTCTCTTAGCAGAGGCTCAACAACT
1 CAGAGGCTCAACAATTTTAAAATTTATCTT-G-AAAA-ACTCCTCTCAGCAGAGGCTCAACAACT
* *
14476453 TTAAAATCTCATCTTAAAAAAGCTTATCTCAG
63 TTAAAAT-TAATCTTAAAAAAGCTTATCTCAA
* * * * * *
14476485 CAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAGCTCCTCTAAGCAGAGGTTCCACAACTTT
1 CAGAGGCTCAACAA-TTTTAAAATTTATCTTGAAAAACTCCTCTCAGCAGAGGCTCAACAACTTT
* * ** *
14476550 AAAA--ATTCTTAAAAATGCTCCTCTTAA
65 AAAATTAATCTTAAAAAAGCTTATCTCAA
* * *
14476577 CAGAGG-TACAACAACTTTAAAAATTTATCTTGGAAAAACTCCTCTCAGTAGAGGTTCAACAACT
1 CAGAGGCT-CAACAA-TTTTAAAATTTATCTT-GAAAAACTCCTCTCAGCAGAGGCTCAACAACT
* * * *
14476641 TTAAAATTAATATTGAAAAAA-CTTCTTTCAG
63 TTAAAATTAATCTT-AAAAAAGCTTATCTCAA
* * *
14476672 TAGAGGCTCAACAACTTTAAAATTTCATCTTGAAAAAGCTCCTCTTAGCAGAGGCTCAACAACTT
1 CAGAGGCTCAACAATTTTAAAATTT-ATCTTGAAAAA-CTCCTCTCAGCAGAGGCTCAACAACTT
* * *
14476737 TAAAATTTTATCTTGAAAAAGCTCATCTCAA
64 TAAAA-TTAATCTTAAAAAAGCTTATCTCAA
* **
14476768 CAGAGGCTCAACAATTTTAAAATTAATCTTGAAAAAGCTCCTCTCAATAGAGGCTCAACAACTTT
1 CAGAGGCTCAACAATTTTAAAATTTATCTTGAAAAA-CTCCTCTCAGCAGAGGCTCAACAACTTT
* *
14476833 AAAATTAATCTTGAAAAAGCTCATCTCAA
65 AAAATTAATCTTAAAAAAGCTTATCTCAA
* * ** * ** * * * * *
14476862 CAGAGGCTTAACAACTTTAAAA-AAATCATCTG------TTCTCAAAACTGA-GTTC-TCATC-T
1 CAGAGGCTCAACAATTTTAAAATTTATC-T-TGAAAAACTCCTCTCAGCAGAGGCTCAACAACTT
* * ** *
14476917 TAAAATTAATATTGAAAAAGCTCCTCTCAG
64 TAAAATTAATCTTAAAAAAGCTTATCTCAA
* * * * *
14476947 CAGAGGCTCAACAACTTTAAAATTCTATCTTGGAAAAGCTCCTCTCAGCAGAGGTTTAACAATTT
1 CAGAGGCTCAACAATTTTAAAATT-TATCTT-GAAAAACTCCTCTCAGCAGAGGCTCAACAACTT
* * * *
14477012 TAAAATTAATCTTGAAAAAGCTCATTTCAG
64 TAAAATTAATCTTAAAAAAGCTTATCTCAA
* * * * * * *
14477042 TAGAAGCTCAACAACTTTAAAATTAATCTTGAAAAATCTCATCTCAGCAGAGGCTTAACAATTTT
1 CAGAGGCTCAACAATTTTAAAATTTATCTTGAAAAA-CTCCTCTCAGCAGAGGCTCAACAACTTT
14477107 AAAA
65 AAAA
14477111 AAATCTTCTA
Statistics
Matches: 674, Mismatches: 113, Indels: 67
0.79 0.13 0.08
Matches are distributed among these distances:
85 50 0.07
86 5 0.01
87 6 0.01
88 8 0.01
91 1 0.00
92 52 0.08
93 46 0.07
94 97 0.14
95 224 0.33
96 53 0.08
97 58 0.09
98 55 0.08
99 19 0.03
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.30
Consensus pattern (93 bp):
CAGAGGCTCAACAATTTTAAAATTTATCTTGAAAAACTCCTCTCAGCAGAGGCTCAACAACTTTA
AAATTAATCTTAAAAAAGCTTATCTCAA
Found at i:14476962 original size:227 final size:227
Alignment explanation
Indices: 14476701--14477144 Score: 744
Period size: 227 Copynumber: 2.0 Consensus size: 227
14476691 AAATTTCATC
* *
14476701 TTGAAAAAGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAATTTTATCTTGAAAAAGCTCATCTC
1 TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTATCTTGAAAAAGCTCATCTC
* *
14476766 AACAGAGGCTCAACAATTTTAAAATTAATCTTGAAAAAGCTCCTCTCAATAGAGGCTCAACAACT
66 AACAGAGGCTCAACAATTTTAAAATTAATCTTGAAAAAGCTCATCTCAATAGAAGCTCAACAACT
*
14476831 TTAAAATTAATCTTGAAAAAGCTCATCTCAACAGAGGCTTAACAACTTTAAAAAAATCATCTGTT
131 TTAAAATTAATCTTGAAAAAGCTCATCTCAACAGAGGCTTAACAACTTTAAAAAAATCATCTATT
14476896 CTCAAAACTGAGTTCTCATCTTAAAATTAATA
196 CTCAAAACTGAGTTCTCATCTTAAAATTAATA
* *
14476928 TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTATCTTGGAAAAGCTCCTCTC
1 TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTATCTTGAAAAAGCTCATCTC
* * * * *
14476993 AGCAGAGGTTTAACAATTTTAAAATTAATCTTGAAAAAGCTCATTTCAGTAGAAGCTCAACAACT
66 AACAGAGGCTCAACAATTTTAAAATTAATCTTGAAAAAGCTCATCTCAATAGAAGCTCAACAACT
* * * *
14477058 TTAAAATTAATCTTGAAAAATCTCATCTCAGCAGAGGCTTAACAATTTTAAAAAAATCTTCTATT
131 TTAAAATTAATCTTGAAAAAGCTCATCTCAACAGAGGCTTAACAACTTTAAAAAAATCATCTATT
14477123 CTCAAAACTGAGTTCTCATCTT
196 CTCAAAACTGAGTTCTCATCTT
14477145 TGGAAAAGTA
Statistics
Matches: 201, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
227 201 1.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (227 bp):
TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTATCTTGAAAAAGCTCATCTC
AACAGAGGCTCAACAATTTTAAAATTAATCTTGAAAAAGCTCATCTCAATAGAAGCTCAACAACT
TTAAAATTAATCTTGAAAAAGCTCATCTCAACAGAGGCTTAACAACTTTAAAAAAATCATCTATT
CTCAAAACTGAGTTCTCATCTTAAAATTAATA
Found at i:14476987 original size:48 final size:47
Alignment explanation
Indices: 14476916--14477110 Score: 255
Period size: 47 Copynumber: 4.1 Consensus size: 47
14476906 AGTTCTCATC
* *
14476916 TTAAAATTAATATTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACT
1 TTAAAATTAATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACT
* * * * * *
14476963 TTAAAATTCTATCTTGGAAAAGCTCCTCTCAGCAGAGGTTTAACAATT
1 TTAAAATT-AATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACT
* * *
14477011 TTAAAATTAATCTTGAAAAAGCTCATTTCAGTAGAAGCTCAACAACT
1 TTAAAATTAATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACT
* * *
14477058 TTAAAATTAATCTTGAAAAATCTCATCTCAGCAGAGGCTTAACAATT
1 TTAAAATTAATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACT
14477105 TTAAAA
1 TTAAAA
14477111 AAATCTTCTA
Statistics
Matches: 126, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
47 85 0.67
48 41 0.33
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (47 bp):
TTAAAATTAATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACT
Found at i:14482901 original size:5 final size:5
Alignment explanation
Indices: 14482891--14482918 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
14482881 ATTGCTCTGA
14482891 CTTTT CTTTT CTTTT CTTTT CTTTT CTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTT
14482919 ACCTTAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
CTTTT
Found at i:14486164 original size:54 final size:54
Alignment explanation
Indices: 14486101--14486208 Score: 191
Period size: 54 Copynumber: 2.0 Consensus size: 54
14486091 TCTCGTTCTT
14486101 TTATAGCTTTTTCCAATTTGCTT-TCTTGTATCTCTACTTCATATTTTAATTGTC
1 TTATAGCTTTTTCCAATTTGCTTCT-TTGTATCTCTACTTCATATTTTAATTGTC
*
14486155 TTATAGCTTTTTCCAATTTGCTTCTTTGTATCTTTACTTCATATTTTAATTGTC
1 TTATAGCTTTTTCCAATTTGCTTCTTTGTATCTCTACTTCATATTTTAATTGTC
14486209 CCACCTTCTC
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
54 51 0.98
55 1 0.02
ACGTcount: A:0.19, C:0.18, G:0.07, T:0.56
Consensus pattern (54 bp):
TTATAGCTTTTTCCAATTTGCTTCTTTGTATCTCTACTTCATATTTTAATTGTC
Found at i:14487809 original size:16 final size:17
Alignment explanation
Indices: 14487788--14487825 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
14487778 TGATCTTTTA
14487788 TTGTTTGT-TTTGTTGT
1 TTGTTTGTGTTTGTTGT
* *
14487804 TTGTTTGTGTTTTTTTT
1 TTGTTTGTGTTTGTTGT
14487821 TTGTT
1 TTGTT
14487826 ACACACAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.00, C:0.00, G:0.21, T:0.79
Consensus pattern (17 bp):
TTGTTTGTGTTTGTTGT
Found at i:14488950 original size:21 final size:20
Alignment explanation
Indices: 14488920--14488964 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
14488910 TTAATTTTTA
14488920 TTATTCTATTAAAGAAAATTT
1 TTATTCTATTAAA-AAAATTT
* * *
14488941 TTATTGTATTGAAAAACTTT
1 TTATTCTATTAAAAAAATTT
14488961 TTAT
1 TTAT
14488965 AAATACTCCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (20 bp):
TTATTCTATTAAAAAAATTT
Found at i:14489144 original size:12 final size:12
Alignment explanation
Indices: 14489127--14489176 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
14489117 ACTTATCAAA
14489127 AAATTTTATTAT
1 AAATTTTATTAT
14489139 AAATTTTATTAT
1 AAATTTTATTAT
**
14489151 TTA-TTT-TTAT
1 AAATTTTATTAT
*
14489161 TAATTATTATTAT
1 AAATT-TTATTAT
14489174 AAA
1 AAA
14489177 ATAATAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
10 6 0.19
11 4 0.13
12 15 0.48
13 6 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
AAATTTTATTAT
Found at i:14493783 original size:23 final size:23
Alignment explanation
Indices: 14493755--14493800 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
14493745 GTCTTTTTTT
* *
14493755 AGGTTTTAAGACTTCAAGGTTTA
1 AGGTTTCAAGACTTAAAGGTTTA
*
14493778 AGGTTTCAAGATTTAAAGGTTTA
1 AGGTTTCAAGACTTAAAGGTTTA
14493801 TAATTTCAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.39
Consensus pattern (23 bp):
AGGTTTCAAGACTTAAAGGTTTA
Found at i:14493823 original size:15 final size:15
Alignment explanation
Indices: 14493777--14493836 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
14493767 TTCAAGGTTT
* *
14493777 AAGGTTTCAAGATTTA
1 AAGGTTTTAAGA-TTC
*
14493793 AAGGTTTATAA-TTTC
1 AAGGTTT-TAAGATTC
*
14493808 AGGGTTTTAAGATTC
1 AAGGTTTTAAGATTC
*
14493823 AAGGTTTTAGGATT
1 AAGGTTTTAAGATT
14493837 TTAGGGATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
14 3 0.09
15 23 0.66
16 7 0.20
17 2 0.06
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.42
Consensus pattern (15 bp):
AAGGTTTTAAGATTC
Found at i:14493840 original size:8 final size:8
Alignment explanation
Indices: 14493827--14493862 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
14493817 AGATTCAAGG
14493827 TTTTAGGA
1 TTTTAGGA
14493835 TTTTAGGGA
1 TTTTA-GGA
14493844 -TTTAGGA
1 TTTTAGGA
14493851 TTTTAGGA
1 TTTTAGGA
14493859 TTTT
1 TTTT
14493863 TGAGTTTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 3 0.12
8 20 0.77
9 3 0.12
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (8 bp):
TTTTAGGA
Found at i:14493902 original size:16 final size:16
Alignment explanation
Indices: 14493774--14493902 Score: 70
Period size: 16 Copynumber: 8.2 Consensus size: 16
14493764 GACTTCAAGG
* *
14493774 TTTAAGGTTTCAAGAT
1 TTTAAGGTTTTAGGAT
*
14493790 TTAAAGGTTTATA--AT
1 TTTAAGGTTT-TAGGAT
* * *
14493805 TTCAGGGTTTTAAGA-
1 TTTAAGGTTTTAGGAT
*
14493820 TTCAAGGTTTTAGGAT
1 TTTAAGGTTTTAGGAT
* *
14493836 TTTAGGGATTTAGGAT
1 TTTAAGGTTTTAGGAT
*
14493852 TTT-AGGATTTT-TGAGT
1 TTTAAGG-TTTTAGGA-T
* * *
14493868 TTCAAGGTTTCAAGAT
1 TTTAAGGTTTTAGGAT
*
14493884 TTTAAGGTTTTAGGGT
1 TTTAAGGTTTTAGGAT
14493900 TTT
1 TTT
14493903 GAGAAAAAAA
Statistics
Matches: 86, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
14 2 0.02
15 27 0.31
16 51 0.59
17 6 0.07
ACGTcount: A:0.26, C:0.04, G:0.23, T:0.47
Consensus pattern (16 bp):
TTTAAGGTTTTAGGAT
Found at i:14494357 original size:15 final size:15
Alignment explanation
Indices: 14494337--14494387 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
14494327 CAAGCAATAA
*
14494337 TAACAAATATTCTAT
1 TAACAAATATTATAT
*
14494352 TAACAAAAATTATAT
1 TAACAAATATTATAT
* *
14494367 ATAAAAAATATAATAT
1 -TAACAAATATTATAT
14494383 TAACA
1 TAACA
14494388 TAGGCACTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
15 17 0.59
16 12 0.41
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (15 bp):
TAACAAATATTATAT
Found at i:14507200 original size:580 final size:571
Alignment explanation
Indices: 14506095--14507818 Score: 2225
Period size: 580 Copynumber: 3.0 Consensus size: 571
14506085 AATTAAATAT
* *
14506095 ATTATGTGTTTAACTTGTTTGGGAGAAATGGAAAAATAAAGATTTTGAAATTAGTGTAATAATGG
1 ATTATGTATTTAACTTGTTTGGGAGAAAT-GAAAAAAAAAGATTTTGAAATTAGTGTAATAATGG
**
14506160 TAATGAAATTCATTTTATTTGATATATTCCAAAATTAATTTTAATTGATTACATCATCTATTAAT
65 TAATGAAATTCATTTTATTTGATATATTCCAAAATTAATTTTAATTGATTTGATCATCTATTAAT
*
14506225 TATTTTAAAATTAATATATTTACATATTAAACGTGTATACATAACTTAAAAAGTGGAGTGAATAA
130 TATTTTAAAATTAATATATTTACATATTAAACGTG-ATACAT-ACTT-AAAAGTGGAGTAAATAA
* *
14506290 ATAGGTCATAGATTTCAAAATTGGAAAGTCACTTTTTTTTATACAAATGTAATTTAAGAGTTGAA
192 ATAGGTCATAGGTTTCAAAATTGGAAAGTCAATTTTTTTTA-ACAAATGTAATTTAAGAGTTGAA
* *
14506355 TATTATAATTGAAAAAAGAGAACATAAAATTATCATATAATGATGGCAATTAAATTTTTATTACT
256 TATTATAATTGAAAAAAGAGAACAAAAAATTATCATATAATGATGGCAATTAAAATTTTATTAC-
* * * *
14506420 TTTAATATG-AGTTAATTGAGAGTGATTTAAGGTAAATAATGATAGAAAATAAATGTAATTAATT
320 TTTAATATGAATTTAATTGAAAGTGATTTAAAGTAAATAATAATAGAAAATAAATGTAATTAATT
*
14506484 TAATTTTTTAAAAATAATTCAATATAATCAATGCATTGAAATATTTTAAAAATTATATGAAATCA
385 TAATTTTTTAAAAATAATTAAATATAATCAATGCATTGAAATATTTT-AAAATTATATGAAATCA
* * * * *
14506549 AATAAAATTAATTAAATGCAAGACATACATCAATTGTTTAGATCGTCCACATGTCAAAATAATAA
449 AATAAAATTAATTAAATGCAAGACACATATCGATTG-TTAGATCGTCCATATGTCAAAATAATAG
*
14506614 ACCATCCACCTTGGATTTTTTTTTTTGCCAAAAACTTTGGTTTTATATATTTATATAAG
513 ACCATCCACCTTGGATTTTTTTTTTTGCCAAAAAATTTGGTTTTATATATTTATATAAG
* *
14506673 ATTATGTATTTATCTTGTTTGGGATAAATGAAAAAAAAAAAGAATTTTGAAATTAGTGTAATAAT
1 ATTATGTATTTAACTTGTTTGGGAGAAATG--AAAAAAAAAG-ATTTTGAAATTAGTGTAATAAT
14506738 GGTAATGAAATTCATTTTATTTGATATATTCCAAAATTAATTTTAATTGATTTGATCATCTATTA
63 GGTAATGAAATTCATTTTATTTGATATATTCCAAAATTAATTTTAATTGATTTGATCATCTATTA
14506803 ATTATTTTAAAATTAATATATTTACATATTAAACGTGCATACATAGCTTAGAAAGTGGAGTAAAT
128 ATTATTTTAAAATTAATATATTTACATATTAAACGTG-ATACATA-CTTA-AAAGTGGAGTAAAT
* *
14506868 AAATATGTCATAGGTTTCAAAATTGGAAAGT-AATTTTTTTTAACAAATATAATTTAAGAGTTGA
190 AAATAGGTCATAGGTTTCAAAATTGGAAAGTCAATTTTTTTTAACAAATGTAATTTAAGAGTTGA
* **
14506932 ATATTATAATTGAAAAAAGAGAACACAAAATTATTTTATAATGATGGCAATTAAAATTTTATTAT
255 ATATTATAATTGAAAAAAGAGAACAAAAAATTATCATATAATGATGGCAATTAAAATTTTATTA-
*
14506997 CTTTAATATGAATTTAA-TGAAAAGTGATTTAAAGTAAATAATAATAAAAAATAAATGTAATTAA
319 CTTTAATATGAATTTAATTG-AAAGTGATTTAAAGTAAATAATAATAGAAAATAAATGTAATTAA
* *
14507061 TTTGATTTTTTAAAAATAATTAAAATATAATCAATGTATTGAAATATTTTAAAATTTATATGAAA
383 TTTAATTTTTTAAAAATAATT-AAATATAATCAATGCATTGAAATATTTTAAAA-TTATATGAAA
* * * *
14507126 TTAAATGAAATTAATTAAATGCAAGACACATGTCGATTGCTTAGATCATCCATATGTCAAAATAA
446 TCAAATAAAATTAATTAAATGCAAGACACATATCGATTG-TTAGATCGTCCATATGTCAAAATAA
**
14507191 TAGACCATCCACCTTGGATTTTTTTTCTTTTTTGGCCAAAAGTTTTGGTTTTTATATATCTATAT
510 TAGACCATCCACCTTGGA---TTTTT-TTTTTT-GCCAAAAAATTTGG-TTTTATATA--T-T-T
14507256 AAGATATAAG
565 ---ATATAAG
* * *
14507266 ATTATGCATTTAACTTGTTTAGGG-GAAATGGAAAAATAAGGATTTTGAAATTAGTGTAATAATG
1 ATTATGTATTTAACTTGTTT-GGGAGAAAT-GAAAAAAAAAGATTTTGAAATTAGTGTAATAATG
* * *
14507330 GTAATGAAATTTATTTTATTTGATATATTCTAAAATTAATTTTAATT-ATTTTGATAATCTATTA
64 GTAATGAAATTCATTTTATTTGATATATTCCAAAATTAATTTTAATTGA-TTTGATCATCTATTA
* *
14507394 ATCATTTTAAAATTAATATATTTACATA-T--A-GT--T---TA---AAAAGTGGAATAAATAAA
128 ATTATTTTAAAATTAATATATTTACATATTAAACGTGATACATACTTAAAAGTGGAGTAAATAAA
* * **
14507447 TAGGTCATAGAGTTT-AAAATTAGAAAGTGAATTTTTTTGCACAAATGTAATTTAAGAGTTGAAT
193 TAGGTCATAG-GTTTCAAAATTGGAAAGTCAATTTTTTTTAACAAATGTAATTTAAGAGTTGAAT
* * * *
14507511 ATTATAATTG-AAAACGAGAACAAAAAATTATCCTATAATGGTGGCAATTAAAGTTTTATTACCT
257 ATTATAATTGAAAAAAGAGAACAAAAAATTATCATATAATGATGGCAATTAAAATTTTATTA-CT
* * * * *
14507575 CTAATATAAATTTAATTGATAGTGATTTAAAGTAAATGATAATAGAAAATAAATGCAATTAATTT
321 TTAATATGAATTTAATTGAAAGTGATTTAAAGTAAATAATAATAGAAAATAAATGTAATTAATTT
* * * * *
14507640 AAATTTTT-AAAATAATTCAAATACAATAAATGCATT-CAA-A---T---ATTATGTGAAATCAA
386 AATTTTTTAAAAATAATT-AAATATAATCAATGCATTGAAATATTTTAAAATTATATGAAATCAA
* *
14507696 ATAAAATTAATTAAATGCAAGTA-ACATATTGATTGTCTAGATCGTCCATATGTTAAAATAATAG
450 ATAAAATTAATTAAATGCAAG-ACACATATCGATTGT-TAGATCGTCCATATGTCAAAATAATAG
* * * ***
14507760 ACTATCCATCTT--A-ATTTTTTTTTGCCAAAAAAATTAACTTTTATATATTTATATAAG
513 ACCATCCACCTTGGATTTTTTTTTTTGCC-AAAAAATTTGGTTTTATATATTTATATAAG
14507817 AT
1 AT
14507819 GAGTAGATTT
Statistics
Matches: 1028, Mismatches: 86, Indels: 91
0.85 0.07 0.08
Matches are distributed among these distances:
551 9 0.01
554 1 0.00
555 1 0.00
556 1 0.00
558 12 0.01
559 12 0.01
560 3 0.00
564 1 0.00
565 1 0.00
566 77 0.07
567 2 0.00
570 1 0.00
573 1 0.00
574 2 0.00
575 24 0.02
576 146 0.14
577 50 0.05
578 118 0.11
579 91 0.09
580 282 0.27
581 2 0.00
583 5 0.00
584 7 0.01
585 12 0.01
586 9 0.01
587 2 0.00
588 2 0.00
589 1 0.00
590 3 0.00
591 109 0.11
592 8 0.01
593 29 0.03
594 4 0.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (571 bp):
ATTATGTATTTAACTTGTTTGGGAGAAATGAAAAAAAAAGATTTTGAAATTAGTGTAATAATGGT
AATGAAATTCATTTTATTTGATATATTCCAAAATTAATTTTAATTGATTTGATCATCTATTAATT
ATTTTAAAATTAATATATTTACATATTAAACGTGATACATACTTAAAAGTGGAGTAAATAAATAG
GTCATAGGTTTCAAAATTGGAAAGTCAATTTTTTTTAACAAATGTAATTTAAGAGTTGAATATTA
TAATTGAAAAAAGAGAACAAAAAATTATCATATAATGATGGCAATTAAAATTTTATTACTTTAAT
ATGAATTTAATTGAAAGTGATTTAAAGTAAATAATAATAGAAAATAAATGTAATTAATTTAATTT
TTTAAAAATAATTAAATATAATCAATGCATTGAAATATTTTAAAATTATATGAAATCAAATAAAA
TTAATTAAATGCAAGACACATATCGATTGTTAGATCGTCCATATGTCAAAATAATAGACCATCCA
CCTTGGATTTTTTTTTTTGCCAAAAAATTTGGTTTTATATATTTATATAAG
Found at i:14508760 original size:24 final size:26
Alignment explanation
Indices: 14508725--14508775 Score: 79
Period size: 24 Copynumber: 2.0 Consensus size: 26
14508715 TGGTAATTTT
14508725 ATTATAAATATGTT-TTT-TTAAATA
1 ATTATAAATATGTTATTTGTTAAATA
*
14508749 ATTATAAGTATGTTATTTGTTAAATA
1 ATTATAAATATGTTATTTGTTAAATA
14508775 A
1 A
14508776 AAATATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 13 0.54
25 3 0.12
26 8 0.33
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (26 bp):
ATTATAAATATGTTATTTGTTAAATA
Found at i:14510663 original size:12 final size:12
Alignment explanation
Indices: 14510646--14510684 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
14510636 TAGAGAAGGT
14510646 AAGAAAGAGGAA
1 AAGAAAGAGGAA
*
14510658 AAGAAAAAGGGAA
1 AAGAAAGA-GGAA
*
14510671 AAGAAAGAAGAA
1 AAGAAAGAGGAA
14510683 AA
1 AA
14510685 TGACAACTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
AAGAAAGAGGAA
Found at i:14510672 original size:13 final size:14
Alignment explanation
Indices: 14510649--14510681 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
14510639 AGAAGGTAAG
14510649 AAAGAGGAAAAGAA
1 AAAGAGGAAAAGAA
14510663 AAAG-GGAAAAGAA
1 AAAGAGGAAAAGAA
14510676 AGAAGA
1 A-AAGA
14510682 AAATGACAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (14 bp):
AAAGAGGAAAAGAA
Found at i:14512165 original size:33 final size:31
Alignment explanation
Indices: 14512123--14512196 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 31
14512113 TAATTTTTTA
* *
14512123 TGTTATTTAAATTTGTTGCAATTTAGTTTTCT
1 TGTTATTTAAATTT-ATGCAATTTACTTTTCT
*
14512155 GTGTTATTTAAATTTATGTAATTTACTTTTCT
1 -TGTTATTTAAATTTATGCAATTTACTTTTCT
*
14512187 TGTAATTTAA
1 TGTTATTTAA
14512197 TTTCAAGTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 9 0.24
32 14 0.38
33 14 0.38
ACGTcount: A:0.26, C:0.05, G:0.11, T:0.58
Consensus pattern (31 bp):
TGTTATTTAAATTTATGCAATTTACTTTTCT
Found at i:14513998 original size:20 final size:19
Alignment explanation
Indices: 14513973--14514011 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
14513963 GGTCAAAAGA
14513973 TAAGGAAGC-CTTTGCACTAT
1 TAAGGAA-CTCTTTG-ACTAT
14513993 TAAGGAACTCTTTGACTAT
1 TAAGGAACTCTTTGACTAT
14514012 ATGTTCATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
TAAGGAACTCTTTGACTAT
Found at i:14515901 original size:49 final size:50
Alignment explanation
Indices: 14515811--14515940 Score: 130
Period size: 49 Copynumber: 2.7 Consensus size: 50
14515801 AAATTTAAAC
14515811 GGCATAAATTTAAAAAGCATGAAAAATAAATTGCATAAAAAGTAAATAAG
1 GGCATAAATTTAAAAAGCATGAAAAATAAATTGCATAAAAAGTAAATAAG
* * *
14515861 GGCATAAAATTTAAAGA-CTTG-AAATTAAATTGCA-AGAAAAGTAAAT---
1 GGCAT-AAATTTAAAAAGCATGAAAAATAAATTGCATA-AAAAGTAAATAAG
* *
14515907 TGCATAAATTTAAATAA-CATAGAAAATTAAATTG
1 GGCATAAATTTAAA-AAGCAT-GAAAAATAAATTG
14515941 TAACAAATAA
Statistics
Matches: 69, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
45 9 0.13
46 7 0.10
47 1 0.01
48 12 0.17
49 22 0.32
50 8 0.12
51 10 0.14
ACGTcount: A:0.55, C:0.06, G:0.13, T:0.26
Consensus pattern (50 bp):
GGCATAAATTTAAAAAGCATGAAAAATAAATTGCATAAAAAGTAAATAAG
Found at i:14516011 original size:17 final size:18
Alignment explanation
Indices: 14515977--14516011 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
14515967 GCTTAAAACA
*
14515977 TAAATTGCAAATAAAATT
1 TAAATTGCAAAGAAAATT
14515995 TAAATTGC-AAGAAAATT
1 TAAATTGCAAAGAAAATT
14516012 AAAGACAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.31
Consensus pattern (18 bp):
TAAATTGCAAAGAAAATT
Found at i:14518089 original size:21 final size:21
Alignment explanation
Indices: 14518065--14518109 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
14518055 TTCGACTCGA
14518065 TTTTGATCAAT-TTTGATCAAG
1 TTTTGAT-AATATTTGATCAAG
**
14518086 TTTTGATTTTATTTGATCAAG
1 TTTTGATAATATTTGATCAAG
14518107 TTT
1 TTT
14518110 GACCTTGAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.24, C:0.07, G:0.13, T:0.56
Consensus pattern (21 bp):
TTTTGATAATATTTGATCAAG
Found at i:14521500 original size:125 final size:122
Alignment explanation
Indices: 14521235--14521502 Score: 305
Period size: 125 Copynumber: 2.2 Consensus size: 122
14521225 GTTTGACATG
*
14521235 AAAAATGCCTTAAATAATCTTGTTCAATTTTTTTGAGATTATTTAAGGTATTTTTTGACCAAAAA
1 AAAAATGCCTTAAATAATCCTGTTCAATTTTTTTGAGATTATTTAAGGTATTTTTTGACCAAAAA
* * *
14521300 TACCTTAAATAATCCCCTAAAAAAATTGACCAGCATTATTTGTAGCGTTTTCTGGTC
66 TACCTTAAATAATCCCCTAAAAAAATTGACCAGCATTATTTGAAGCGTTTTATGGAC
* *
14521357 AAAAATACCTTAAATAATCCTGTTTAATTTTTTTGAAGATTATTTAAGACGT-TTTTTT-ACCAT
1 AAAAATGCCTTAAATAATCCTGTTCAATTTTTTTG-AGATTATTTAAG--GTATTTTTTGACCA-
* ** **
14521420 AAAATGCCTTAAATAATCTTCTACAAAAAATTGAATGAG-ATTATTT-AAG-GTGGTTTAT-GAC
62 AAAATACCTTAAATAATCCCCTA-AAAAAATTG-ACCAGCATTATTTGAAGCGT--TTTATGGAC
*
14521481 AAAAAATGCCTTACATAATCCT
1 -AAAAATGCCTTAAATAATCCT
14521503 CTAAAAAAAT
Statistics
Matches: 124, Mismatches: 13, Indels: 15
0.82 0.09 0.10
Matches are distributed among these distances:
122 32 0.26
123 18 0.15
124 30 0.24
125 41 0.33
126 3 0.02
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (122 bp):
AAAAATGCCTTAAATAATCCTGTTCAATTTTTTTGAGATTATTTAAGGTATTTTTTGACCAAAAA
TACCTTAAATAATCCCCTAAAAAAATTGACCAGCATTATTTGAAGCGTTTTATGGAC
Found at i:14526280 original size:51 final size:49
Alignment explanation
Indices: 14526177--14526291 Score: 126
Period size: 51 Copynumber: 2.3 Consensus size: 49
14526167 TTTAATAAAA
* *
14526177 ATAATATATAAATTTAATAAAAATATATATTTTATATTTTTATGTTATT
1 ATAATATATAAATTTAATAAAAATATAAATTTTATATTTTTATGTTAAT
* *
14526226 ATAATATATAATTTTGATATAAATATATAAATTATTA-ATATTTTATG-TAAT
1 ATAATATATAAATTT-A-ATAAAAATATAAATT-TTATAT-TTTTATGTTAAT
*
14526277 ATAAATACATAAATT
1 AT-AATATATAAATT
14526292 ATAAAATCAT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
49 14 0.25
50 1 0.02
51 20 0.36
52 20 0.36
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.49
Consensus pattern (49 bp):
ATAATATATAAATTTAATAAAAATATAAATTTTATATTTTTATGTTAAT
Found at i:14532182 original size:52 final size:53
Alignment explanation
Indices: 14532101--14532201 Score: 141
Period size: 52 Copynumber: 1.9 Consensus size: 53
14532091 AATAGTAAGG
** * *
14532101 AGCTTTAATAAATGAGTGGTCCTTCTTTTTTATCTAAGTA-ATTTAATAAACT
1 AGCTTTAATAAATGAGTGGTAATTATTTTTTATCAAAGTATATTTAATAAACT
* *
14532153 AGCTTTAATAAATGAGTGTTAATTATTTTTTATCAAAGTATTTTTAATA
1 AGCTTTAATAAATGAGTGGTAATTATTTTTTATCAAAGTATATTTAATA
14532202 GAGTTGATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 35 0.83
53 7 0.17
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.47
Consensus pattern (53 bp):
AGCTTTAATAAATGAGTGGTAATTATTTTTTATCAAAGTATATTTAATAAACT
Found at i:14534615 original size:3 final size:3
Alignment explanation
Indices: 14534607--14534632 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14534597 TTAAAATCTT
14534607 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
14534633 TTTAAAAAGC
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14536583 original size:20 final size:21
Alignment explanation
Indices: 14536545--14536584 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
14536535 TTATGTTATT
14536545 AATTTTAATTTTAATTATTAA
1 AATTTTAATTTTAATTATTAA
14536566 AATTTT-ATTATT-ATTATTA
1 AATTTTAATT-TTAATTATTA
14536585 TTTGTGTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
AATTTTAATTTTAATTATTAA
Found at i:14537687 original size:12 final size:12
Alignment explanation
Indices: 14537656--14537686 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
14537646 TCTCTTATTC
14537656 TTTTTTTTCCTT
1 TTTTTTTTCCTT
14537668 TTTTTTTT-CTT
1 TTTTTTTTCCTT
14537679 TTTTTTTT
1 TTTTTTTT
14537687 TGTCAAATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTTCCTT
Found at i:14538365 original size:20 final size:21
Alignment explanation
Indices: 14538332--14538371 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
14538322 TTGAATCTTT
* *
14538332 TTTTTTTCTTTTTTTTTTAAA
1 TTTTTTTCTCTTTTCTTTAAA
14538353 TTTTTTTC-CTTTTCTTTAA
1 TTTTTTTCTCTTTTCTTTAA
14538372 GCAAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTTCTCTTTTCTTTAAA
Found at i:14546145 original size:18 final size:18
Alignment explanation
Indices: 14546122--14546160 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
14546112 TGTTGGGATC
14546122 GTTGATAGTGGTATGATG
1 GTTGATAGTGGTATGATG
*
14546140 GTTGATAGTGGTATGGTG
1 GTTGATAGTGGTATGATG
14546158 GTT
1 GTT
14546161 AGGTAGCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.41
Consensus pattern (18 bp):
GTTGATAGTGGTATGATG
Found at i:14547522 original size:6 final size:6
Alignment explanation
Indices: 14547503--14547611 Score: 58
Period size: 6 Copynumber: 18.3 Consensus size: 6
14547493 GCATAGTATA
** * ** * *
14547503 ATCATT ATTGTT ATCATT AT-ATT ATTATT ATCAGC ATCATC ATCATA
1 ATCATT ATCATT ATCATT ATCATT ATCATT ATCATT ATCATT ATCATT
* * * * * * * *
14547550 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATTATT ATTATT
1 ATCATT ATCATT ATCATT ATCATT ATCATT ATCATT ATCATT ATCATT
* *
14547598 ATTATT ATTATT AT
1 ATCATT ATCATT AT
14547612 TAATTTACAT
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
5 5 0.06
6 85 0.94
ACGTcount: A:0.34, C:0.17, G:0.02, T:0.47
Consensus pattern (6 bp):
ATCATT
Found at i:14547543 original size:3 final size:3
Alignment explanation
Indices: 14547532--14547587 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
14547522 TATTATTATT
* *
14547532 ATC AGC ATC ATC ATC ATA ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
14547580 ATC ATC AT
1 ATC ATC AT
14547588 TATTATTATT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.36, C:0.30, G:0.02, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:14547592 original size:3 final size:3
Alignment explanation
Indices: 14547586--14547613 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
14547576 CATCATCATC
14547586 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
14547614 ATTTACATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:14548160 original size:219 final size:218
Alignment explanation
Indices: 14547730--14548341 Score: 597
Period size: 219 Copynumber: 2.8 Consensus size: 218
14547720 AATAATAGTT
* * * *
14547730 GTAAAATTGATATCATTTGGCATAAATTGGATTAGAAGTGTCATAATAT-TTTAACAAAAAATTA
1 GTAAAATTAATATCATTTAGCATAAAATGG-TTAGAAGTGTCGTAATATCTTTAACAAAAAATTA
* **** * *
14547794 TGATAATTCTAAACGTAATAAAAAGTGGGGACAAGTATAAAAAA-ATTAATTGCAACATAAATAA
65 TGATAATTCTAAACGTAATGAAAAGTAACAACAAGTGTAAAAAATATT-ATTACAACATAAATAA
** * * * * *
14547858 TATTTTTGGCAATATAAAAGAATTATTATTATAAATAAATAATAATTTTAAACAAAAAAAAAGTG
129 TATAATTGACAATATAAAACAATTATTATTACAAATAAAAAATAATTTTAAACAAAAAAAAAGAG
* * *
14547923 TTGATATAAAAAAGTGAGAGTAATC
194 TTAACATAAAAAAGTGAGAATAATC
14547948 GTAAAATTAATATCATTTAGCATAAAATGGTTAGAAGTGTCGTAATATCTTTAA-AAAAAAGTTA
1 GTAAAATTAATATCATTTAGCATAAAATGGTTAGAAGTGTCGTAATATCTTTAACAAAAAA-TTA
* * * * *
14548012 TGATAATTCTAAACATAATGAAAGGTAACAACAAGTGTAAAAATATATTATTATAACGTAAATCA
65 TGATAATTCTAAACGTAATGAAAAGTAACAACAAGTGTAAAAA-ATATTATTACAACATAAATAA
* * *
14548077 T-TAAATTGATAATGTAAAACAATTATTATTACAAATAAAAAATAATTTTAAACAAAAAATAAGA
129 TAT-AATTGACAATATAAAACAATTATTATTACAAATAAAAAATAATTTTAAACAAAAAAAAAGA
* *
14548141 GTTAACATAAAATAGTGAGAATAATT
193 GTTAACATAAAAAAGTGAGAATAATC
* * * * * * * *
14548167 GTAAAATTAGTATTATTTTATG--TAAAATGATTATAAGTATCGTTATA-CCTTAATAAAAAAAT
1 GTAAAATTAATATCA-TTTA-GCATAAAATGGTTAGAAGTGTCGTAATATCTTTAA-CAAAAAAT
* *
14548229 TAT-AGTAATTTTAAACGTAATGAAAAGTAACAACAAATGTAAAAAAATATTATTGA-AACAT-A
63 TATGA-TAATTCTAAACGTAATGAAAAGTAACAACAAGTGT-AAAAAATATTATT-ACAACATAA
* * * * * *
14548291 ATAA-AT--TT-ATAACATAAAAAAATTAATATTATAAAT-AAAAATAATTCTAAA
125 ATAATATAATTGACAATATAAAACAATTATTATTACAAATAAAAAATAATTTTAAA
14548342 TCAATGGTTA
Statistics
Matches: 331, Mismatches: 50, Indels: 31
0.80 0.12 0.08
Matches are distributed among these distances:
213 14 0.04
214 23 0.07
215 2 0.01
217 23 0.07
218 82 0.25
219 167 0.50
220 19 0.06
221 1 0.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (218 bp):
GTAAAATTAATATCATTTAGCATAAAATGGTTAGAAGTGTCGTAATATCTTTAACAAAAAATTAT
GATAATTCTAAACGTAATGAAAAGTAACAACAAGTGTAAAAAATATTATTACAACATAAATAATA
TAATTGACAATATAAAACAATTATTATTACAAATAAAAAATAATTTTAAACAAAAAAAAAGAGTT
AACATAAAAAAGTGAGAATAATC
Found at i:14548357 original size:219 final size:214
Alignment explanation
Indices: 14547730--14548628 Score: 582
Period size: 219 Copynumber: 4.2 Consensus size: 214
14547720 AATAATAGTT
* * * * * * *
14547730 GTAAAATTGATATCATTTGGCATAAATTGGATTAGAAGTGTCATAATAT-TTTAACAAAAAATTA
1 GTAAAATTAATATCATTTAG-ATAAAAT-GATTAGAAGTATCGTAATATCCTTAAAAAAAAATTA
* * **** * * * ** *
14547794 TGATAATTCTAAACGTAATAAAAAGTGGGGACAAGTATAAAAAAAT-TAATTGCAAC-ATAAATA
64 TGATAATTCTAAACATAATGAAAAGTAACAACAAATGTAAAAAAATATTATTATAACAATCAATA
** * * * *
14547857 ATATTTTTGGCAATATAAAAGAATTATTATTATAAATAAATAATAATTTTAAACAAAAAAAAAGT
129 A-A---TTGATAACATAAAAAAATTATTATTATAAATAAA-AATAATTTTAAACAAAAAATAAGA
* * *
14547922 GTTGATATAAAAAAGTGAGAGTAATC
189 GTTAACATAAAAAAGTGAGAATAATC
* * * *
14547948 GTAAAATTAATATCATTTAGCATAAAATGGTTAGAAGTGTCGTAATATCTTTAAAAAAAAGTTAT
1 GTAAAATTAATATCATTTAG-ATAAAATGATTAGAAGTATCGTAATATCCTTAAAAAAAAATTAT
* * * *
14548013 GATAATTCTAAACATAATGAAAGGTAACAACAAGTGTAAAAATATATTATTATAACGTAAATCAT
65 GATAATTCTAAACATAATGAAAAGTAACAACAAATGTAAAAAAATATTATTATAAC---AATCAA
** * *
14548078 TAAATTGATAATGTAAAACAATTATTATTACAAATAAAAAATAATTTTAAACAAAAAATAAGAGT
127 TAAATTGATAACATAAAAAAATTATTATTATAAAT-AAAAATAATTTTAAACAAAAAATAAGAGT
* *
14548143 TAACATAAAATAGTGAGAATAATT
191 TAACATAAAAAAGTGAGAATAATC
* * * *
14548167 GTAAAATTAGTATTATTTTATG-TAAAATGATTATAAGTATCGTTATA-CCTTAATAAAAAAATT
1 GTAAAATTAATATCA-TTTA-GATAAAATGATTAGAAGTATCGTAATATCCTTAA-AAAAAAATT
* *
14548230 AT-AGTAATTTTAAACGTAATGAAAAGTAACAACAAATGTAAAAAAATATTATTGA-AAC-AT-A
63 ATGA-TAATTCTAAACATAATGAAAAGTAACAACAAATGTAAAAAAATATTATT-ATAACAATCA
* * *
14548291 ATAAATTTATAACATAAAAAAATTAATATTATAAATAAAAATAATTCTAAATC----AAT--G-G
126 ATAAATTGATAACATAAAAAAATTATTATTATAAATAAAAATAATTTTAAA-CAAAAAATAAGAG
* *
14548349 TTAAAAT-AAAAAGATGAAAATAATTC
190 TTAACATAAAAAAG-TGAGAATAA-TC
** * * * * * *
14548375 -TAAAATTGGTATAATTT-GACGTAAAATATATTTGAAGTATCATAATA--CTTAAGAAAAAGTT
1 GTAAAATTAATATCATTTAGA--TAAAAT-GATTAGAAGTATCGTAATATCCTTAAAAAAAAATT
* * * * * * * * * *
14548436 GTGATAATTTTAAATATAAT-AAAATGTAAAAAC-AA-GCATAACAGATTTTATTGT---AAT-G
63 ATGATAATTCTAAACATAATGAAAA-GTAACAACAAATGTA-AAAAAATATTATTATAACAATCA
* *
14548494 TTAAATTGATAACAT-AAAAAATTATTATTATAAATAAAAAATAATTCTAAACATAAAAATAAGA
126 ATAAATTGATAACATAAAAAAATTATTATTATAAAT-AAAAATAATTTTAAACA-AAAAATAAGA
* * *
14548558 GTTAACGT-AAAAAGATGAGAATAGTT
189 GTTAACATAAAAAAG-TGAGAATAATC
** * * *
14548584 GTAAAATTGGTATAATTTA-ATGAAAATGTGTTAAAAGTATCGTAA
1 GTAAAATTAATATCATTTAGAT-AAAATG-ATTAGAAGTATCGTAA
14548629 CATAAAAATG
Statistics
Matches: 554, Mismatches: 90, Indels: 83
0.76 0.12 0.11
Matches are distributed among these distances:
202 20 0.04
203 30 0.05
204 3 0.01
205 16 0.03
206 37 0.07
207 42 0.08
208 17 0.03
209 19 0.03
210 41 0.07
213 14 0.03
214 31 0.06
215 2 0.00
217 18 0.03
218 81 0.15
219 167 0.30
220 8 0.01
221 1 0.00
222 1 0.00
223 6 0.01
ACGTcount: A:0.51, C:0.05, G:0.11, T:0.32
Consensus pattern (214 bp):
GTAAAATTAATATCATTTAGATAAAATGATTAGAAGTATCGTAATATCCTTAAAAAAAAATTATG
ATAATTCTAAACATAATGAAAAGTAACAACAAATGTAAAAAAATATTATTATAACAATCAATAAA
TTGATAACATAAAAAAATTATTATTATAAATAAAAATAATTTTAAACAAAAAATAAGAGTTAACA
TAAAAAAGTGAGAATAATC
Found at i:14548549 original size:19 final size:21
Alignment explanation
Indices: 14548502--14548552 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
14548492 TGTTAAATTG
* *
14548502 ATAACATAAAAAATTATTATT
1 ATAACATAAAAAATAATTACT
14548523 ATAA-ATAAAAAATAATT-CT
1 ATAACATAAAAAATAATTACT
14548542 A-AACATAAAAA
1 ATAACATAAAAA
14548553 TAAGAGTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 2 0.07
19 9 0.33
20 12 0.44
21 4 0.15
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (21 bp):
ATAACATAAAAAATAATTACT
Found at i:14549590 original size:20 final size:20
Alignment explanation
Indices: 14549567--14549604 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14549557 GCTTATAATT
14549567 TATCATGATATATTATGACA
1 TATCATGATATATTATGACA
* *
14549587 TATCTTGATATTTTATGA
1 TATCATGATATATTATGA
14549605 TTTTAGAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (20 bp):
TATCATGATATATTATGACA
Found at i:14550280 original size:21 final size:20
Alignment explanation
Indices: 14550256--14550296 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14550246 GTAGTGTCAC
14550256 CATTTGTAAGACCTTCGAGTA
1 CATTT-TAAGACCTTCGAGTA
* *
14550277 CATTTTAAGTCTTTCGAGTA
1 CATTTTAAGACCTTCGAGTA
14550297 AGATTCGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (20 bp):
CATTTTAAGACCTTCGAGTA
Found at i:14551327 original size:26 final size:28
Alignment explanation
Indices: 14551276--14551328 Score: 74
Period size: 26 Copynumber: 1.9 Consensus size: 28
14551266 TACAAAAAAG
14551276 TTTTAAAATGAAGTAAAAAAAATTTAGCT
1 TTTTAAAA-GAAGTAAAAAAAATTTAGCT
*
14551305 TTTTAAAA-AAG-AAAAAAACTTTAG
1 TTTTAAAAGAAGTAAAAAAAATTTAG
14551329 TTGAATTACG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 12 0.52
27 3 0.13
29 8 0.35
ACGTcount: A:0.55, C:0.04, G:0.09, T:0.32
Consensus pattern (28 bp):
TTTTAAAAGAAGTAAAAAAAATTTAGCT
Found at i:14554275 original size:21 final size:23
Alignment explanation
Indices: 14554251--14554292 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
14554241 ACCCTAAACC
14554251 CAGAA-TTG-AAACAAAAAAAGT
1 CAGAATTTGTAAACAAAAAAAGT
*
14554272 CAGAATTTGTAAAGAAAAAAA
1 CAGAATTTGTAAACAAAAAAA
14554293 CAGCTGCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.62, C:0.07, G:0.14, T:0.17
Consensus pattern (23 bp):
CAGAATTTGTAAACAAAAAAAGT
Found at i:14558044 original size:64 final size:64
Alignment explanation
Indices: 14557976--14558097 Score: 158
Period size: 64 Copynumber: 1.9 Consensus size: 64
14557966 TAATTTATTT
**** *
14557976 ATAAAAAGATTATTTAGGGTATTTT-TGTACAAAAAAACGTCTTAAAT-AATTTTTTTATAAAAA
1 ATAAAAAGATTATTTAAAACATTTTATGTAC--AAAAACGCCTTAAATGAATTTTTTTATAAAAA
14558039 A
64 A
*
14558040 ATAAAAGGATTATTTAAAACATTTTATGTACAAAAACGCCTTAAATGAATTTTTTTAT
1 ATAAAAAGATTATTTAAAACATTTTATGTACAAAAACGCCTTAAATGAATTTTTTTAT
14558098 TTTTTTATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
63 14 0.28
64 31 0.62
65 5 0.10
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (64 bp):
ATAAAAAGATTATTTAAAACATTTTATGTACAAAAACGCCTTAAATGAATTTTTTTATAAAAAA
Found at i:14558221 original size:14 final size:14
Alignment explanation
Indices: 14558202--14558231 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14558192 TAAAAATATC
*
14558202 AACCCTAAACTTTA
1 AACCCTAAACTATA
14558216 AACCCTAAACTATA
1 AACCCTAAACTATA
14558230 AA
1 AA
14558232 AAGATTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (14 bp):
AACCCTAAACTATA
Found at i:14560099 original size:19 final size:19
Alignment explanation
Indices: 14560075--14560112 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
14560065 AAAAAAAAAG
14560075 CTTTAT-TCTAGTGCTATAT
1 CTTTATCTC-AGTGCTATAT
*
14560094 CTTTATCTCATTGCTATAT
1 CTTTATCTCAGTGCTATAT
14560113 TTTCTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.21, C:0.18, G:0.08, T:0.53
Consensus pattern (19 bp):
CTTTATCTCAGTGCTATAT
Found at i:14563053 original size:23 final size:24
Alignment explanation
Indices: 14563022--14563069 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
14563012 ATTAGTTTCT
*
14563022 AGAGAGAGAGGGAGAGAAAAAAGA
1 AGAGAGAGAGAGAGAGAAAAAAGA
14563046 AGAG-GAGAGAGAGAGAAAAAAGA
1 AGAGAGAGAGAGAGAGAAAAAAGA
14563069 A
1 A
14563070 AAAATTTGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (24 bp):
AGAGAGAGAGAGAGAGAAAAAAGA
Found at i:14564042 original size:48 final size:47
Alignment explanation
Indices: 14563971--14564063 Score: 123
Period size: 48 Copynumber: 2.0 Consensus size: 47
14563961 TAAAAAAATA
** *
14563971 AAAATTTTTAAATAGACTTAAATGGTGAAAAATTTAGAAATCAAAAAG
1 AAAATTTTTAAATAGACCAAAATGATGAAAAATTTAGAAAT-AAAAAG
* * *
14564019 AAAATTTTTAAATTGGCCAAAATGATGAAAAATTTAGTAATAAAA
1 AAAATTTTTAAATAGACCAAAATGATGAAAAATTTAGAAATAAAA
14564064 CTTGTAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 4 0.10
48 35 0.90
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.30
Consensus pattern (47 bp):
AAAATTTTTAAATAGACCAAAATGATGAAAAATTTAGAAATAAAAAG
Found at i:14566226 original size:33 final size:34
Alignment explanation
Indices: 14566184--14566309 Score: 121
Period size: 36 Copynumber: 3.5 Consensus size: 34
14566174 CTTTGTTCTT
*
14566184 TGATACATTTGAGGTGGAGGATATATTTGA-GGA
1 TGATACATTTGAGGTGGAGGATACATTTGAGGGA
* * *
14566217 TGATACATTTGTGGTGGGGGATACATTT-ATGGTAAA
1 TGATACATTTGAGGTGGAGGATACATTTGA-GG--GA
*
14566253 TGATACATATGAGGTGGAGGATACATTTAAGAAGGTGGA
1 TGATACATTTGAGGTGGAGGATACATTT--G-A-G-GGA
14566292 TGATACATTTGAGGTGGA
1 TGATACATTTGAGGTGGA
14566310 TAATAACCAT
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
32 1 0.01
33 25 0.34
34 1 0.01
36 26 0.35
39 18 0.24
40 2 0.03
41 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.33, T:0.32
Consensus pattern (34 bp):
TGATACATTTGAGGTGGAGGATACATTTGAGGGA
Found at i:14566269 original size:36 final size:32
Alignment explanation
Indices: 14566184--14566281 Score: 115
Period size: 33 Copynumber: 2.9 Consensus size: 32
14566174 CTTTGTTCTT
*
14566184 TGATACATTTGAGGTGGAGGATATATTTGAGGA
1 TGATACATTTGAGGTGGAGGATACATTT-AGGA
* *
14566217 TGATACATTTGTGGTGGGGGATACATTTATGGTAAA
1 TGATACATTTGAGGTGGAGGATACATTTA-GG---A
*
14566253 TGATACATATGAGGTGGAGGATACATTTA
1 TGATACATTTGAGGTGGAGGATACATTTA
14566282 AGAAGGTGGA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
32 1 0.02
33 27 0.49
36 27 0.49
ACGTcount: A:0.31, C:0.05, G:0.31, T:0.34
Consensus pattern (32 bp):
TGATACATTTGAGGTGGAGGATACATTTAGGA
Found at i:14566310 original size:18 final size:18
Alignment explanation
Indices: 14566184--14566310 Score: 109
Period size: 18 Copynumber: 7.1 Consensus size: 18
14566174 CTTTGTTCTT
14566184 TGATACATTTGAGGTGGA
1 TGATACATTTGAGGTGGA
* *
14566202 GGATATATTTGA---GGA
1 TGATACATTTGAGGTGGA
* *
14566217 TGATACATTTGTGGTGGG
1 TGATACATTTGAGGTGGA
* **
14566235 GGATACATTT-ATGGTAAA
1 TGATACATTTGA-GGTGGA
*
14566253 TGATACATATGAGGTGGA
1 TGATACATTTGAGGTGGA
*
14566271 GGATACATTTAAGAAGGTGGA
1 TGATACATTT--G-AGGTGGA
14566292 TGATACATTTGAGGTGGA
1 TGATACATTTGAGGTGGA
14566310 T
1 T
14566311 AATAACCATA
Statistics
Matches: 83, Mismatches: 18, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
15 12 0.14
18 52 0.63
19 2 0.02
20 1 0.01
21 16 0.19
ACGTcount: A:0.31, C:0.05, G:0.32, T:0.32
Consensus pattern (18 bp):
TGATACATTTGAGGTGGA
Found at i:14566664 original size:3 final size:3
Alignment explanation
Indices: 14566656--14566697 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
14566646 AATTCGCACT
* *
14566656 ATC ATC ATC ACC ATC ACC ATC A-C TATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC -ATC ATC ATC ATC ATC ATC
14566698 TAGACTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 1 0.03
3 31 0.94
4 1 0.03
ACGTcount: A:0.33, C:0.38, G:0.00, T:0.29
Consensus pattern (3 bp):
ATC
Found at i:14566671 original size:12 final size:12
Alignment explanation
Indices: 14566656--14566697 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
14566646 AATTCGCACT
14566656 ATCATCATCACC
1 ATCATCATCACC
* *
14566668 ATCACCATCACT
1 ATCATCATCACC
*
14566680 ATCATCATCATC
1 ATCATCATCACC
14566692 ATCATC
1 ATCATC
14566698 TAGACTTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.33, C:0.38, G:0.00, T:0.29
Consensus pattern (12 bp):
ATCATCATCACC
Found at i:14578462 original size:10 final size:10
Alignment explanation
Indices: 14578447--14578508 Score: 65
Period size: 10 Copynumber: 6.4 Consensus size: 10
14578437 CACCAAGGAG
14578447 CAAGAGGAAA
1 CAAGAGGAAA
*
14578457 CAAGAGAAAA
1 CAAGAGGAAA
*
14578467 CAAGAGGAAT
1 CAAGAGGAAA
* *
14578477 CAAGATGAAT
1 CAAGAGGAAA
14578487 CAAGA-G-AA
1 CAAGAGGAAA
*
14578495 CAAGAGGTAA
1 CAAGAGGAAA
14578505 CAAG
1 CAAG
14578509 CAATATTTTC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
8 6 0.13
9 2 0.04
10 37 0.82
ACGTcount: A:0.56, C:0.11, G:0.26, T:0.06
Consensus pattern (10 bp):
CAAGAGGAAA
Found at i:14580649 original size:27 final size:26
Alignment explanation
Indices: 14580583--14580649 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 26
14580573 TTTCAGTTTG
*
14580583 TTTTATTTAATATTTTATTCTATATT
1 TTTTATTTATTATTTTATTCTATATT
* *
14580609 TTGTATTT-TGTATTTT-TTGTATTTATT
1 TTTTATTTAT-TATTTTATTCTA--TATT
14580636 TTTTATTTATTATT
1 TTTTATTTATTATT
14580650 ACTATTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
25 4 0.12
26 13 0.39
27 15 0.45
28 1 0.03
ACGTcount: A:0.21, C:0.01, G:0.04, T:0.73
Consensus pattern (26 bp):
TTTTATTTATTATTTTATTCTATATT
Found at i:14580650 original size:3 final size:3
Alignment explanation
Indices: 14580642--14580742 Score: 76
Period size: 3 Copynumber: 30.7 Consensus size: 3
14580632 TATTTTTTAT
* * * *
14580642 TTA TTA TTA CTA TTTA TTA ATA TATA TTT TTA TTA TTA TTA CTTA TCTGT
1 TTA TTA TTA TTA -TTA TTA TTA T-TA TTA TTA TTA TTA TTA -TTA T-T-A
*
14580692 TTA TATA TCTG TTA TTA TTA TTA TTA TTA TATA TCTA TTA TTA TTA TTA
1 TTA T-TA T-TA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TTA TTA TTA
14580741 TT
1 TT
14580743 GTTTATCTAT
Statistics
Matches: 79, Mismatches: 12, Indels: 14
0.75 0.11 0.13
Matches are distributed among these distances:
3 57 0.72
4 21 0.27
5 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:14580655 original size:13 final size:12
Alignment explanation
Indices: 14580628--14580790 Score: 62
Period size: 12 Copynumber: 13.7 Consensus size: 12
14580618 GTATTTTTTG
*
14580628 TATTTATT-TTT
1 TATTTATTATTA
14580639 TATTTATTATTA
1 TATTTATTATTA
14580651 CTATTTATTAATATA
1 -TATTTATT-AT-TA
14580666 TATTT-TTA-T-
1 TATTTATTATTA
14580675 TA-TTATTACTTA
1 TATTTATTA-TTA
* *
14580687 TCTGT-TTATATA
1 TATTTATTAT-TA
*
14580699 TCTGTTATTATTA
1 TAT-TTATTATTA
14580712 T-TATTATTA-TA
1 TAT-TTATTATTA
*
14580723 TATCTATTATTA
1 TATTTATTATTA
*
14580735 T-TATTATTGTT-
1 TAT-TTATTATTA
*
14580746 TATCTATTAATTA
1 TATTTATT-ATTA
* *
14580759 -ATATATTATCTT
1 TATTTATTAT-TA
14580771 TATTTATTTATT-
1 TATTTA-TTATTA
14580783 TATTTATT
1 TATTTATT
14580791 TTTCTTTTCT
Statistics
Matches: 118, Mismatches: 13, Indels: 42
0.68 0.08 0.24
Matches are distributed among these distances:
8 2 0.02
9 5 0.04
10 1 0.01
11 28 0.24
12 45 0.38
13 20 0.17
14 15 0.13
15 2 0.02
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.64
Consensus pattern (12 bp):
TATTTATTATTA
Found at i:14580681 original size:26 final size:27
Alignment explanation
Indices: 14580645--14580739 Score: 86
Period size: 26 Copynumber: 3.4 Consensus size: 27
14580635 TTTTTATTTA
* *
14580645 TTATTACTATTTATTAATATATAT-TT
1 TTATTATTATTTATTATTATATATCTT
* *
14580671 TTATTATTATTACTTATCTGTTTATATATCTG
1 TTATTATTA-T--TTAT-T-ATTATATATCTT
*
14580703 TTATTATTA-TTATTATTATATATCTA
1 TTATTATTATTTATTATTATATATCTT
14580729 TTATTATTATT
1 TTATTATTATT
14580740 ATTGTTTATC
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
26 27 0.48
27 3 0.05
28 4 0.07
29 4 0.07
30 1 0.02
31 7 0.12
32 10 0.18
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (27 bp):
TTATTATTATTTATTATTATATATCTT
Found at i:14580730 original size:23 final size:23
Alignment explanation
Indices: 14580704--14580767 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
14580694 ATATATCTGT
14580704 TATTATTATTATTATTATATATC
1 TATTATTATTATTATTATATATC
* *
14580727 TATTATTATTATTATTGTTTATC
1 TATTATTATTATTATTATATATC
*
14580750 TATTAATTAATA-TATTAT
1 TATT-ATTATTATTATTAT
14580768 CTTTATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
23 30 0.83
24 6 0.17
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (23 bp):
TATTATTATTATTATTATATATC
Found at i:14580740 original size:26 final size:28
Alignment explanation
Indices: 14580643--14580742 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 28
14580633 ATTTTTTATT
* * * *
14580643 TATTATTACTATTTATTAATATATATTTT
1 TATTATTATTACTTATTAAT-TATATATC
**
14580672 TATTATTATTACTTATCTGTTTATATATC
1 TATTATTATTACTTAT-TAATTATATATC
*
14580701 TGTTATTATTA-TTATT-ATTATATATC
1 TATTATTATTACTTATTAATTATATATC
14580727 TATTATTATTA-TTATT
1 TATTATTATTACTTATT
14580743 GTTTATCTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
26 24 0.39
27 1 0.02
28 4 0.07
29 30 0.49
30 2 0.03
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (28 bp):
TATTATTATTACTTATTAATTATATATC
Found at i:14580753 original size:20 final size:20
Alignment explanation
Indices: 14580706--14580764 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
14580696 ATATCTGTTA
14580706 TTATTATTATTATTATATAT
1 TTATTATTATTATTATATAT
* *
14580726 CTATTATTATTATTAT-TGT
1 TTATTATTATTATTATATAT
*
14580745 TTATCTATTAATTAATATAT
1 TTAT-TATT-ATTATTATAT
14580765 TATCTTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 5 0.16
20 19 0.59
21 7 0.22
22 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (20 bp):
TTATTATTATTATTATATAT
Found at i:14581359 original size:16 final size:16
Alignment explanation
Indices: 14581312--14581359 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
14581302 TCGTTGGTTT
14581312 AGAGAGAAGGAGGAGAA
1 AGAGAG-AGGAGGAGAA
* *
14581329 A-AGAAAGGGAAGAGAA
1 AGAGAGA-GGAGGAGAA
14581345 AGAGAGAGGAGGAGA
1 AGAGAGAGGAGGAGA
14581360 GATCTATTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
15 1 0.04
16 19 0.76
17 5 0.20
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (16 bp):
AGAGAGAGGAGGAGAA
Found at i:14581493 original size:11 final size:12
Alignment explanation
Indices: 14581466--14581498 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
14581456 CGGGCGACCC
*
14581466 GACCCGAGCGTT
1 GACCCGAGTGTT
14581478 GACCCGAGTG-T
1 GACCCGAGTGTT
14581489 GACCCGAGTG
1 GACCCGAGTG
14581499 CTATCTGACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.18, C:0.30, G:0.36, T:0.15
Consensus pattern (12 bp):
GACCCGAGTGTT
Found at i:14581643 original size:3 final size:3
Alignment explanation
Indices: 14581630--14581759 Score: 113
Period size: 3 Copynumber: 42.7 Consensus size: 3
14581620 CATTATTTAT
14581630 TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** * *
14581676 TTA TTA TTA TTA TTTA TTGA TTA -GA TTA GAA TTA TTTA GTA TTTC TTA
1 TTA TTA TTA TTA -TTA TT-A TTA TTA TTA TTA TTA -TTA TTA -TTA TTA
* * * *
14581724 TT- TTA TT- TTA TTT TTA TTT TTA TTT TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14581760 TTCTTTAAAT
Statistics
Matches: 101, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
2 5 0.05
3 83 0.82
4 13 0.13
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14581852 original size:58 final size:57
Alignment explanation
Indices: 14581785--14581937 Score: 238
Period size: 58 Copynumber: 2.7 Consensus size: 57
14581775 TAAAAAATAT
14581785 ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAA
1 ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG-TTTCTAAAAA
*
14581843 ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTCTAAAAA
1 ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTCTAAAAA
* * *
14581900 ATATTTTGGAA--AAAAGTTAAAAGTATCAATTTTTCTTG
1 ATATTTT-TAAGGAAAAGTTGAAAGTATCAATTTTCCTTG
14581938 TACAAAAGCA
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
56 24 0.27
57 17 0.19
58 48 0.54
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.39
Consensus pattern (57 bp):
ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTCTAAAAA
Found at i:14585198 original size:27 final size:27
Alignment explanation
Indices: 14585167--14585222 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
14585157 AACTAAAATG
14585167 AAAAAATGAAAAAAAAAAAAAAAAGAA
1 AAAAAATGAAAAAAAAAAAAAAAAGAA
* * *
14585194 AAAAAATGGAAAGAAAAAAAACAAGAA
1 AAAAAATGAAAAAAAAAAAAAAAAGAA
14585221 AA
1 AA
14585223 GAGAAAGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.84, C:0.02, G:0.11, T:0.04
Consensus pattern (27 bp):
AAAAAATGAAAAAAAAAAAAAAAAGAA
Found at i:14585219 original size:12 final size:12
Alignment explanation
Indices: 14585144--14585222 Score: 70
Period size: 12 Copynumber: 6.2 Consensus size: 12
14585134 ATTATGCTTG
14585144 AAAAAAAAAGAA
1 AAAAAAAAAGAA
* *
14585156 AAACTAAAATGAA
1 AAA-AAAAAAGAA
14585169 AAAATGAAAAA-AA
1 AAAA--AAAAAGAA
14585182 AAAAAAAAAGAA
1 AAAAAAAAAGAA
14585194 AAAAAATGGAAAGAA
1 AAAAAA---AAAGAA
*
14585209 AAAAAACAAGAA
1 AAAAAAAAAGAA
14585221 AA
1 AA
14585223 GAGAAAGTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
11 5 0.09
12 18 0.33
13 16 0.29
14 4 0.07
15 12 0.22
ACGTcount: A:0.82, C:0.03, G:0.10, T:0.05
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:14585235 original size:34 final size:31
Alignment explanation
Indices: 14585174--14585243 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 31
14585164 ATGAAAAAAT
14585174 GAAAAAAAAAAAAAAAAGAAAAAAAATGGAAA
1 GAAAAAAAAAAAAAAAAGAAAAAAAAT-GAAA
* **
14585206 GAAAAAAAACAAGAAAAGAGAAAGTAAATGAAA
1 GAAAAAAAA-AA-AAAAAAGAAAAAAAATGAAA
14585239 -AAAAA
1 GAAAAA
14585244 GACTCAAGGC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 14 0.42
33 6 0.18
34 13 0.39
ACGTcount: A:0.80, C:0.01, G:0.14, T:0.04
Consensus pattern (31 bp):
GAAAAAAAAAAAAAAAAGAAAAAAAATGAAA
Found at i:14586288 original size:41 final size:41
Alignment explanation
Indices: 14586243--14586500 Score: 216
Period size: 41 Copynumber: 6.1 Consensus size: 41
14586233 ATGATTGTCA
*
14586243 AGGAGCAATTTATTTTTTGAAGTTGTGATGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTTAAAGTTGTGATGCCTCTGTTTAG
** *
14586284 AGGAGCAATTTATTTTTCGAAGTTGCGATGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTTAAAGTTGTGATGCCTCTGTTTAG
* * * * * *
14586325 AGGAGCAATCTATTTTCTAAAGATGTGATACCTCTATTCAG
1 AGGAGCAATTTATTTTTTAAAGTTGTGATGCCTCTGTTTAG
* * **
14586366 AGGAGCAATTTATTTTTCAAAAGTCGTCGA-GCCTCTGACTAG
1 AGGAGCAATTTATTTTT-TAAAGTTGT-GATGCCTCTGTTTAG
** * *
14586408 AGGAGCAATTTATTTTCCAAAAGTCGTTGAT-CCTCTATTTAG
1 AGGAGCAATTTATTTT-TTAAAGTTG-TGATGCCTCTGTTTAG
* ** *
14586450 AGAAGCTTTGTTTATCTTTTTAAAAGTCGTTGA-GCCTCTGTTTAG
1 AGGAGC--AATTTAT-TTTTT-AAAGTTG-TGATGCCTCTGTTTAG
14586495 AGGAGC
1 AGGAGC
14586501 TTTGTTTATT
Statistics
Matches: 175, Mismatches: 32, Indels: 16
0.78 0.14 0.07
Matches are distributed among these distances:
41 86 0.49
42 52 0.30
43 3 0.02
44 5 0.03
45 29 0.17
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (41 bp):
AGGAGCAATTTATTTTTTAAAGTTGTGATGCCTCTGTTTAG
Found at i:14586352 original size:82 final size:83
Alignment explanation
Indices: 14586243--14586500 Score: 245
Period size: 82 Copynumber: 3.1 Consensus size: 83
14586233 ATGATTGTCA
* * * * * * *
14586243 AGGAGCAATTTATTTTTTGAAGTTGTGATGCCTCTGTTTAGAGGAGCAATTTATTTTTC-GAAGT
1 AGGAGCAATTTATTTTCTAAAGATGTGATACCTCTATTCAGAGGAGCAATTTATTTTTCAAAAGT
* **
14586307 TG-CGATGCCTCTGTTTAG
66 CGTCGA-GCCTCTGACTAG
*
14586325 AGGAGCAATCTATTTTCTAAAGATGTGATACCTCTATTCAGAGGAGCAATTTATTTTTCAAAAGT
1 AGGAGCAATTTATTTTCTAAAGATGTGATACCTCTATTCAGAGGAGCAATTTATTTTTCAAAAGT
14586390 CGTCGAGCCTCTGACTAG
66 CGTCGAGCCTCTGACTAG
* * * ** *
14586408 AGGAGCAATTTATTTTCCAAA-AGTCGTTGAT-CCTCTATTTAGAGAAGCTTTGTTTATCTTTTT
1 AGGAGCAATTTATTTTCTAAAGA-T-G-TGATACCTCTATTCAGAGGAGC--AATTTAT-TTTTC
* **
14586471 AAAAGTCGTTGAGCCTCTGTTTAG
60 AAAAGTCGTCGAGCCTCTGACTAG
14586495 AGGAGC
1 AGGAGC
14586501 TTTGTTTATT
Statistics
Matches: 147, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
82 53 0.36
83 35 0.24
84 19 0.13
85 4 0.03
86 5 0.03
87 31 0.21
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (83 bp):
AGGAGCAATTTATTTTCTAAAGATGTGATACCTCTATTCAGAGGAGCAATTTATTTTTCAAAAGT
CGTCGAGCCTCTGACTAG
Found at i:14586541 original size:43 final size:45
Alignment explanation
Indices: 14586423--14586543 Score: 120
Period size: 45 Copynumber: 2.7 Consensus size: 45
14586413 CAATTTATTT
* * * ** * *
14586423 TCCAAAAGTCGTTGATCCTCTATTTAGAGAAGCTTTGTTTATCTT
1 TCCAAAAGTCATTAAGCCTCTGCTTAGAGGAGCTTTGTTTATCTG
** * * *
14586468 TTTAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTAT-TG
1 TCCAAAAGTCATTAAGCCTCTGCTTAGAGGAGCTTTGTTTATCTG
14586512 TCCAAAA-TCATTAAGCCTCTGCTTAGAGGAGC
1 TCCAAAAGTCATTAAGCCTCTGCTTAGAGGAGC
14586544 CTTCATTTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 22 0.34
44 6 0.09
45 37 0.57
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (45 bp):
TCCAAAAGTCATTAAGCCTCTGCTTAGAGGAGCTTTGTTTATCTG
Found at i:14586830 original size:4 final size:4
Alignment explanation
Indices: 14586821--14586955 Score: 52
Period size: 4 Copynumber: 34.8 Consensus size: 4
14586811 TATTTTGTAT
* * *
14586821 TTTA TTTA TTTA -TTA TTTA TTTA -TTA TTACTA TTTA TTAA TATA TATA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA TTTA
* * * * * *
14586869 TTTT TATTA -TTA -TTA CTTA TCTG TTTA TATA TCTA -TTA -TTA -TTA
1 TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * *
14586913 -TTG TTTA TCTA TTAA TTAA TATA TTATA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTT
14586956 TTCTTTTCTT
Statistics
Matches: 101, Mismatches: 22, Indels: 16
0.73 0.16 0.12
Matches are distributed among these distances:
3 22 0.22
4 69 0.68
5 6 0.06
6 4 0.04
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (4 bp):
TTTA
Found at i:14586875 original size:28 final size:28
Alignment explanation
Indices: 14586823--14586882 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
14586813 TTTTGTATTT
* *
14586823 TATTTATTTATTATTTATTTATTATTAC
1 TATTTATTAATTATATATTTATTATTAC
*
14586851 TATTTATTAATATATATATTT-TTATTAT
1 TATTTATTAAT-TATATATTTATTATTAC
14586879 TATT
1 TATT
14586883 ACTTATCTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 20 0.71
29 8 0.29
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (28 bp):
TATTTATTAATTATATATTTATTATTAC
Found at i:14586899 original size:35 final size:34
Alignment explanation
Indices: 14586821--14586914 Score: 98
Period size: 35 Copynumber: 2.7 Consensus size: 34
14586811 TATTTTGTAT
* * *
14586821 TTTATTTATTTATTATTTATTTATTATTACTATTTA
1 TTTATATATATATT-TTTA-TTATTATTACTATCTA
* *
14586857 TTAATATATATATTTTTATTATTATTACTTATCTG
1 TTTATATATATATTTTTATTATTATTAC-TATCTA
* *
14586892 TTTATATATCTATTATTATTATT
1 TTTATATATATATTTTTATTATT
14586915 GTTTATCTAT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
34 10 0.20
35 28 0.57
36 11 0.22
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (34 bp):
TTTATATATATATTTTTATTATTATTACTATCTA
Found at i:14587795 original size:3 final size:3
Alignment explanation
Indices: 14587787--14587838 Score: 70
Period size: 3 Copynumber: 17.0 Consensus size: 3
14587777 ATTTATTTAT
*
14587787 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTTA TTAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TT-A TTA
14587834 -TA TTA
1 TTA TTA
14587839 GAATTATTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 36 0.82
4 6 0.14
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:14587884 original size:17 final size:17
Alignment explanation
Indices: 14587864--14587930 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 17
14587854 TCTTATTTTA
14587864 TTTTATTTTATTCTATTTTT
1 TTTTATTTTATTCTA---TT
14587884 TCTTTATTTCTATTTCTATT
1 T-TTTATTT-TA-TTCTATT
14587904 TTTTATTTTTATT-TATAT
1 TTTTA-TTTTATTCTAT-T
14587922 TTTTATTTT
1 TTTTATTTT
14587931 CTTTAAATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
17 7 0.17
18 8 0.19
19 6 0.14
20 7 0.17
21 7 0.17
22 2 0.05
23 5 0.12
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTATTTTATTCTATT
Found at i:14587892 original size:45 final size:46
Alignment explanation
Indices: 14587850--14587935 Score: 117
Period size: 46 Copynumber: 1.9 Consensus size: 46
14587840 AATTATTTAG
14587850 TATTTCT-TATTTTA-TTTTATTT-TATTCTATT-TTTTCTTTATTTC
1 TATTTCTATATTTTATTTTTATTTATATT-T-TTATTTTCTTTATTTC
*
14587894 TATTTCTATTTTTTATTTTTATTTATATTTTTATTTTCTTTA
1 TATTTCTATATTTTATTTTTATTTATATTTTTATTTTCTTTA
14587936 AATAAAATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
44 7 0.19
45 8 0.22
46 18 0.49
47 4 0.11
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (46 bp):
TATTTCTATATTTTATTTTTATTTATATTTTTATTTTCTTTATTTC
Found at i:14587899 original size:6 final size:5
Alignment explanation
Indices: 14587856--14587930 Score: 64
Period size: 5 Copynumber: 14.4 Consensus size: 5
14587846 TTAGTATTTC
* *
14587856 TTATT TTATT TTATT TTATT CTATT TTTTCT TTATT TCTATT TCTATT
1 TTATT TTATT TTATT TTATT TTATT TTAT-T TTATT T-TATT T-TATT
*
14587904 TT-TT AT-TT TTATT TATATTT TTATT TT
1 TTATT TTATT TTATT T-TA-TT TTATT TT
14587931 CTTTAAATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
4 6 0.10
5 31 0.53
6 19 0.32
7 3 0.05
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:14588010 original size:58 final size:57
Alignment explanation
Indices: 14587948--14588100 Score: 245
Period size: 58 Copynumber: 2.7 Consensus size: 57
14587938 TAAAATTAAA
* * *
14587948 AAAATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCT
1 AAAATATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAG-TTTCT
14588006 AAAATATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAGTTTCT
1 AAAATATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAGTTTCT
* *
14588063 AAAAAATA-TTTTGAGAAAAAGTTAAAAGTATCAATTTT
1 AAAATATATTTTTGAGGAAAAGTTAAAAGTATCAATTTT
14588101 TTTGTACAAA
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
56 29 0.32
57 12 0.13
58 49 0.54
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (57 bp):
AAAATATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAGTTTCT
Found at i:14591068 original size:17 final size:17
Alignment explanation
Indices: 14591039--14591076 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
14591029 AGGAAAATTT
14591039 AAAAAAAGAAAAAG-AA
1 AAAAAAAGAAAAAGCAA
*
14591055 AAAAGAAAGGAAAAGCAA
1 AAAA-AAAGAAAAAGCAA
14591073 AAAA
1 AAAA
14591077 TAAATAGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 9 0.47
18 6 0.32
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAAAAGCAA
Found at i:14593486 original size:2 final size:2
Alignment explanation
Indices: 14593479--14593510 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
14593469 GTTTAATCTA
14593479 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
14593511 CTAGTAGTAT
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:14593769 original size:28 final size:28
Alignment explanation
Indices: 14593729--14593784 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
14593719 AATTGTTGAC
14593729 ACTAAAAATAATTCGTAAAATGGGTTAA
1 ACTAAAAATAATTCGTAAAATGGGTTAA
*
14593757 ACTAAAAATAATTGGTAAAATGGGTTAA
1 ACTAAAAATAATTCGTAAAATGGGTTAA
14593785 GGGATTTAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.50, C:0.05, G:0.16, T:0.29
Consensus pattern (28 bp):
ACTAAAAATAATTCGTAAAATGGGTTAA
Found at i:14594423 original size:18 final size:17
Alignment explanation
Indices: 14594386--14594430 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 17
14594376 TGCTTTTTCC
14594386 TTTTTTTATTCTTTGGT
1 TTTTTTTATTCTTTGGT
14594403 TTTTATTTATTCTTT--T
1 TTTT-TTTATTCTTTGGT
14594419 TTTTTTCTATTC
1 TTTTTT-TATTC
14594431 AATATCTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 2 0.08
16 10 0.38
17 4 0.15
18 10 0.38
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.78
Consensus pattern (17 bp):
TTTTTTTATTCTTTGGT
Found at i:14596835 original size:9 final size:9
Alignment explanation
Indices: 14596800--14596843 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
14596790 TTATTTTATA
14596800 TTTTTATTAT
1 TTTTTATT-T
14596810 TGTTTTACTTT
1 T-TTTTA-TTT
*
14596821 TCTTTATTT
1 TTTTTATTT
14596830 TTTTTATTT
1 TTTTTATTT
14596839 TTTTT
1 TTTTT
14596844 TGGGCTGAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 16 0.53
10 5 0.17
11 7 0.23
12 2 0.07
ACGTcount: A:0.11, C:0.05, G:0.02, T:0.82
Consensus pattern (9 bp):
TTTTTATTT
Found at i:14596839 original size:18 final size:18
Alignment explanation
Indices: 14596788--14596842 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
14596778 CCAATTTTGC
*
14596788 TTTTATTTTATATTTTTA
1 TTTTATTTTATTTTTTTA
*
14596806 TTATTGTTTTACTTTTCTTTA
1 TT-TTATTTTA-TTTT-TTTA
14596827 TTTT-TTTTATTTTTTT
1 TTTTATTTTATTTTTTT
14596843 TTGGGCTGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
17 3 0.09
18 6 0.19
19 12 0.38
20 5 0.16
21 6 0.19
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTATTTTATTTTTTTA
Found at i:14597754 original size:7 final size:7
Alignment explanation
Indices: 14597739--14597801 Score: 51
Period size: 7 Copynumber: 8.9 Consensus size: 7
14597729 GTTTATTTAA
14597739 TATTCTTT
1 TATT-TTT
14597747 TATTTTT
1 TATTTTT
14597754 TA-TTTT
1 TATTTTT
14597760 TATTTTT
1 TATTTTT
*
14597767 GT-TTTACT
1 -TATTT-TT
*
14597775 T-TTCTT
1 TATTTTT
14597781 TATTTTTT
1 TA-TTTTT
14597789 TATTTTT
1 TATTTTT
14597796 TATTTT
1 TATTTT
14597802 CGCTTTTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
6 8 0.17
7 26 0.57
8 12 0.26
ACGTcount: A:0.13, C:0.05, G:0.02, T:0.81
Consensus pattern (7 bp):
TATTTTT
Found at i:14597820 original size:37 final size:36
Alignment explanation
Indices: 14597744--14597831 Score: 110
Period size: 37 Copynumber: 2.5 Consensus size: 36
14597734 TTTAATATTC
*
14597744 TTTTA-TTTTTTA-TTTTTATTTTTGTTTTACTTTT
1 TTTTATTTTTTTATTTTTTATTTTCGTTTTACTTTT
*
14597778 CTTTATTTTTTTATTTTTTATTTTCGCTTTTA-TTTT
1 TTTTATTTTTTTATTTTTTATTTTCG-TTTTACTTTT
*
14597814 GTTTTATTATTTTATTTT
1 -TTTTATTTTTTTATTTT
14597832 CTTTAAATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
34 4 0.09
35 7 0.15
36 15 0.33
37 20 0.43
ACGTcount: A:0.12, C:0.05, G:0.03, T:0.80
Consensus pattern (36 bp):
TTTTATTTTTTTATTTTTTATTTTCGTTTTACTTTT
Found at i:14597991 original size:60 final size:59
Alignment explanation
Indices: 14597846--14598243 Score: 461
Period size: 60 Copynumber: 6.7 Consensus size: 59
14597836 AAATAAAATC
* * *
14597846 CAAAAAAAATATTTTTGAGGAAAAGTTGAAAGCATCAATTTTCCTTAAAAATAAATTTT
1 CAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAATTTT
* * *
14597905 C-AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAAATTT
1 CAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATT-AAATTTT
* * **
14597964 CAAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAATCC
1 CAAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTCAAAATT-AAATTTT
* *
14598024 CAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAA-TAAATTTT
1 CAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAA-AATTAAATTTT
** * * *
14598083 CAAAAAAGGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAA-TAAATTTT
1 CAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAA-AATTAAATTTT
** * * *
14598142 CAAAAAAGGGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTT
1 CAAAAAA--AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAA-TTTT
*
14598204 C---AAAAATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 CAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
14598244 CTGCACAAAA
Statistics
Matches: 301, Mismatches: 29, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
56 30 0.10
57 1 0.00
58 45 0.15
59 77 0.26
60 98 0.33
61 45 0.15
62 5 0.02
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (59 bp):
CAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAATTTT
Found at i:14598186 original size:30 final size:30
Alignment explanation
Indices: 14598092--14598186 Score: 75
Period size: 30 Copynumber: 3.1 Consensus size: 30
14598082 TCAAAAAAGG
14598092 TTTTTTTGAGGAAAAGTTGAAAGTATCAAT
1 TTTTTTTGAGGAAAAGTTGAAAGTATCAAT
* * * * * * ****
14598122 TTTTCTTAAGAATAAATTTTCAAA-AAAGGGT
1 TTTTTTTGAGGA-AAA-GTTGAAAGTATCAAT
14598153 TTTTTTTGAGGAAAAGTTGAAAGTATCAAT
1 TTTTTTTGAGGAAAAGTTGAAAGTATCAAT
14598183 TTTT
1 TTTT
14598187 CTCGAAATTA
Statistics
Matches: 42, Mismatches: 20, Indels: 6
0.62 0.29 0.09
Matches are distributed among these distances:
29 5 0.12
30 18 0.43
31 14 0.33
32 5 0.12
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.42
Consensus pattern (30 bp):
TTTTTTTGAGGAAAAGTTGAAAGTATCAAT
Found at i:14604087 original size:18 final size:18
Alignment explanation
Indices: 14604064--14604114 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
14604054 ATATAAATAT
14604064 CTTTTGTATAATCATAAC
1 CTTTTGTATAATCATAAC
*
14604082 CTTTTGTATAATTATAAC
1 CTTTTGTATAATCATAAC
*
14604100 TTTTTGTATAATCAT
1 CTTTTGTATAATCAT
14604115 GATTTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.51
Consensus pattern (18 bp):
CTTTTGTATAATCATAAC
Found at i:14605018 original size:26 final size:26
Alignment explanation
Indices: 14604968--14605019 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
14604958 TATATAATAT
* * *
14604968 GAATAATTTTAATACGAATATAACAC
1 GAATAATTTAAATACGAACACAACAC
*
14604994 GAATAATTTAAATATGAACACAACAC
1 GAATAATTTAAATACGAACACAACAC
14605020 ATTTATTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.52, C:0.13, G:0.08, T:0.27
Consensus pattern (26 bp):
GAATAATTTAAATACGAACACAACAC
Found at i:14606844 original size:2 final size:2
Alignment explanation
Indices: 14606837--14606862 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14606827 ACAATTACAA
14606837 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
14606863 TACATAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14608369 original size:16 final size:16
Alignment explanation
Indices: 14608323--14608375 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
14608313 AAATAATTAT
14608323 ATATATTTTAGATTGA
1 ATATATTTTAGATTGA
**
14608339 ATATA--AAAGTCATTGA
1 ATATATTTTAG--ATTGA
14608355 ATATATTTTAGATTGA
1 ATATATTTTAGATTGA
14608371 ATATA
1 ATATA
14608376 AAACTCTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
14 2 0.07
16 25 0.86
18 2 0.07
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (16 bp):
ATATATTTTAGATTGA
Found at i:14612656 original size:2 final size:2
Alignment explanation
Indices: 14612649--14612679 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
14612639 GTTGGGACAA
14612649 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14612680 TAATTGATCC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.