Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 75 of 199
Found at i:22836508 original size:17 final size:17
Alignment explanation
Indices: 22836472--22836511 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
22836462 AATTTTACTA
*
22836472 ACAAAATGTTAGATTTT
1 ACAAAATGTTAGATTGT
22836489 ACAAAATGTT-GATTGGT
1 ACAAAATGTTAGATT-GT
22836506 ACAAAA
1 ACAAAA
22836512 AATATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (17 bp):
ACAAAATGTTAGATTGT
Found at i:22836548 original size:16 final size:16
Alignment explanation
Indices: 22836529--22836585 Score: 96
Period size: 16 Copynumber: 3.6 Consensus size: 16
22836519 AATTTGATAC
*
22836529 AATTTTAATAATAATT
1 AATTTTAATAACAATT
*
22836545 AATTTTGATAACAATT
1 AATTTTAATAACAATT
22836561 AATTTTAATAACAATT
1 AATTTTAATAACAATT
22836577 AATTTTAAT
1 AATTTTAAT
22836586 TTTAATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:22836569 original size:22 final size:23
Alignment explanation
Indices: 22836559--22836620 Score: 99
Period size: 22 Copynumber: 2.7 Consensus size: 23
22836549 TTGATAACAA
*
22836559 TTAATTTTAATAACAAT-TAATT
1 TTAATTTTAATAAAAATATAATT
22836581 TTAATTTTAATAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
22836604 TTAATTTTAATTAAAAA
1 TTAATTTTAA-TAAAAA
22836621 ACGGGCCGGG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
22 16 0.43
23 15 0.41
24 6 0.16
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:22837717 original size:25 final size:25
Alignment explanation
Indices: 22837666--22837717 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
22837656 GGGGAGGGAT
* *
22837666 TTTTTATTTAATATTAATATAATTA
1 TTTTTATTTAATATTAATAGAAATA
22837691 TTTTTATTTAATATTAATAGAAATA
1 TTTTTATTTAATATTAATAGAAATA
22837716 TT
1 TT
22837718 AAAATAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
TTTTTATTTAATATTAATAGAAATA
Found at i:22839481 original size:17 final size:17
Alignment explanation
Indices: 22839438--22839483 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
22839428 AAAATATTTA
**
22839438 AAATAATTA-AAATTTT
1 AAATAATTATAAAACTT
*
22839454 AAA-AATCATAAAACTT
1 AAATAATTATAAAACTT
22839470 AAATAATTATAAAA
1 AAATAATTATAAAA
22839484 ATCATTAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 4 0.17
16 11 0.46
17 9 0.38
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATAATTATAAAACTT
Found at i:22843144 original size:58 final size:58
Alignment explanation
Indices: 22843048--22843166 Score: 177
Period size: 58 Copynumber: 2.1 Consensus size: 58
22843038 GAGCTGTCTG
* *
22843048 ATACTTAGAGATTTTTCTCGAAATTATAAGCTAAGAATATAAATTCGTGATCTATTTT
1 ATACTTAGAGATTTTTCTCGAAATTATAAGCTAAGAATATAAATTCGCGATCTATTCT
** *
22843106 ATACTTAGAGATTTTTCTC-AAACTTATAAGCTGGGAATATGAATTCGCGATCTATTCT
1 ATACTTAGAGATTTTTCTCGAAA-TTATAAGCTAAGAATATAAATTCGCGATCTATTCT
22843164 ATA
1 ATA
22843167 TTGATACTGC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 3 0.05
58 52 0.95
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (58 bp):
ATACTTAGAGATTTTTCTCGAAATTATAAGCTAAGAATATAAATTCGCGATCTATTCT
Found at i:22843300 original size:69 final size:69
Alignment explanation
Indices: 22843224--22843541 Score: 302
Period size: 69 Copynumber: 4.6 Consensus size: 69
22843214 TTTGCTCGTG
* ** * * **
22843224 CTAACTGTTTTGGAGGCCGCGGCTCTTTGCTTGTGAGCTTTGATATTACAGCTAGAAGCTTTG-T
1 CTAACTGTTTTGGAGGCTGCGGCTCTTCACCTGTGAGCCTTGATATTACAATTAGAAGCTTTGCT
22843288 TCTCA
66 T-TCA
* ** * *
22843293 CTAACTGTTTTGGAGGCTGTGGCTCTTCACCTACGAGCCTCGATCTTACAATTAGGAA-CTTTGC
1 CTAACTGTTTTGGAGGCTGCGGCTCTTCACCTGTGAGCCTTGATATTACAATTA-GAAGCTTTGC
* *
22843357 TCTCG
65 TTTCA
* * * * * * *
22843362 CTAACTATTTTGGAGGTTGCGGCTCTTCA-TTTTGGAGCCTTGATATTACAGTTGGGAGCTTTGC
1 CTAACTGTTTTGGAGGCTGCGGCTCTTCACCTGT-GAGCCTTGATATTACAATTAGAAGCTTTGC
**
22843426 TTTTG
65 TTTCA
* * *
22843431 CTAACTGTTTTGGAGGCTGCGACTCTTCACCTGTGAGCCTTGATATTACAATTGGGAGCTTTGCT
1 CTAACTGTTTTGGAGGCTGCGGCTCTTCACCTGTGAGCCTTGATATTACAATTAGAAGCTTTGCT
22843496 TTCA
66 TTCA
* * * *
22843500 CTAACTATTTTAGAGGCTACGGCTCTTCAACTAG-GAGCCTTG
1 CTAACTGTTTTGGAGGCTGCGGCTCTTCACCT-GTGAGCCTTG
22843542 TGGTGACAGG
Statistics
Matches: 203, Mismatches: 40, Indels: 12
0.80 0.16 0.05
Matches are distributed among these distances:
68 3 0.01
69 193 0.95
70 7 0.03
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (69 bp):
CTAACTGTTTTGGAGGCTGCGGCTCTTCACCTGTGAGCCTTGATATTACAATTAGAAGCTTTGCT
TTCA
Found at i:22843441 original size:138 final size:140
Alignment explanation
Indices: 22843213--22843528 Score: 374
Period size: 138 Copynumber: 2.3 Consensus size: 140
22843203 CACCTAGTTG
* * *
22843213 CTTTGCTCGT-GCTAACTGTTTTGGAGGCCGCGGCTCTT--TGCTTGTGAGCTTTGATATTACAG
1 CTTTGCTC-TCGCTAACTATTTTGGAGGCTGCGGCTCTTCATGCTTGTGAGCCTTGATATTACAG
* * *
22843275 CTAGAAGCTTTGTTCTCACTAACTGTTTTGGAGGCTGTGGCTCTTCACCTACGAGCCTCGATCTT
65 CTAGAAGCTTTGTTCTCACTAACTGTTTTGGAGGCTGCGACTCTTCACCTACGAGCCTCGATATT
22843340 ACAATTAGGAA
130 ACAATTAGGAA
* * *
22843351 CTTTGCTCTCGCTAACTATTTTGGAGGTTGCGGCTCTTCAT-TTTG-GAGCCTTGATATTACAGT
1 CTTTGCTCTCGCTAACTATTTTGGAGGCTGCGGCTCTTCATGCTTGTGAGCCTTGATATTACAGC
* * ** ** *
22843414 TGGGAGCTTTGCTT-TTGCTAACTGTTTTGGAGGCTGCGACTCTTCACCTGTGAGCCTTGATATT
66 TAGAAGCTTTG-TTCTCACTAACTGTTTTGGAGGCTGCGACTCTTCACCTACGAGCCTCGATATT
* *
22843478 ACAATTGGGAG
130 ACAATTAGGAA
* * * *
22843489 CTTTGCTTTCACTAACTATTTTAGAGGCTACGGCTCTTCA
1 CTTTGCTCTCGCTAACTATTTTGGAGGCTGCGGCTCTTCA
22843529 ACTAGGAGCC
Statistics
Matches: 151, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
137 1 0.01
138 144 0.95
139 5 0.03
140 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (140 bp):
CTTTGCTCTCGCTAACTATTTTGGAGGCTGCGGCTCTTCATGCTTGTGAGCCTTGATATTACAGC
TAGAAGCTTTGTTCTCACTAACTGTTTTGGAGGCTGCGACTCTTCACCTACGAGCCTCGATATTA
CAATTAGGAA
Found at i:22845611 original size:15 final size:16
Alignment explanation
Indices: 22845582--22845611 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22845572 CAAACATATT
22845582 TTAACACATTATCAAA
1 TTAACACATTATCAAA
22845598 TTAACACA-TATCAA
1 TTAACACATTATCAA
22845612 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:22846097 original size:15 final size:16
Alignment explanation
Indices: 22846077--22846107 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22846067 TTTTCATTTG
22846077 CATTTCA-TTACTTTC
1 CATTTCATTTACTTTC
22846092 CATTTCATTTACTTTC
1 CATTTCATTTACTTTC
22846108 TTTAACTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.55
Consensus pattern (16 bp):
CATTTCATTTACTTTC
Found at i:22846893 original size:18 final size:18
Alignment explanation
Indices: 22846853--22846887 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
22846843 CCATGATGTT
*
22846853 CACCTGTGTGGGCCCACA
1 CACCCGTGTGGGCCCACA
22846871 CACCCGTGT-GGCCCACA
1 CACCCGTGTGGGCCCACA
22846888 TGACCCAAAT
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:0.17, C:0.43, G:0.26, T:0.14
Consensus pattern (18 bp):
CACCCGTGTGGGCCCACA
Found at i:22848555 original size:25 final size:25
Alignment explanation
Indices: 22848488--22848557 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
22848478 GGCGTTACAT
*
22848488 ATGCTCACACGAGCTGTAAATCTGA
1 ATGCTCACACGAGCTGTGAATCTGA
*
22848513 ATGCACACACGAGCTGTGAAT-TAGA
1 ATGCTCACACGAGCTGTGAATCT-GA
22848538 ATGCTCACACGAGCTGTGAA
1 ATGCTCACACGAGCTGTGAA
22848558 AATGGGCCTG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (25 bp):
ATGCTCACACGAGCTGTGAATCTGA
Found at i:22849575 original size:2 final size:2
Alignment explanation
Indices: 22849568--22849604 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
22849558 ATGATAAAGC
22849568 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
22849605 TTATATATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.51, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:22850269 original size:27 final size:27
Alignment explanation
Indices: 22850239--22850299 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 27
22850229 GCACTTAAAT
* *
22850239 GGGAAGCTCTCTTTTAAGCCATATAAC
1 GGGAAGCTCTCATGTAAGCCATATAAC
* *
22850266 GGGAAG--CTCATGTGAGCCATGTAAC
1 GGGAAGCTCTCATGTAAGCCATATAAC
22850291 GGGAAGCTC
1 GGGAAGCTC
22850300 ATAAAAGCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 21 0.75
27 7 0.25
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (27 bp):
GGGAAGCTCTCATGTAAGCCATATAAC
Found at i:22850370 original size:25 final size:25
Alignment explanation
Indices: 22850255--22850432 Score: 102
Period size: 25 Copynumber: 7.1 Consensus size: 25
22850245 CTCTCTTTTA
*
22850255 AGCCATATAA-CGGGAAGCTC-ATGTG
1 AGCCAT-TAATCGGGAAGCTCTA-GAG
*
22850280 AGCCATGTAA-CGGGAAGCTCATA-AA
1 AGCCAT-TAATCGGGAAGCTC-TAGAG
** * * *
22850305 AGCCA-TAATCGAAAAGTTCAAGCG
1 AGCCATTAATCGGGAAGCTCTAGAG
* *
22850329 AGCCAAT-ATCAGGAAGCTCTAGAG
1 AGCCATTAATCGGGAAGCTCTAGAG
*
22850353 AGCCATTAATCGGGAAGCTCATGAAAG
1 AGCCATTAATCGGGAAGCTC-T-AGAG
* * *
22850380 AGTCTTTAATCGGGAAGCTCCAGAG
1 AGCCATTAATCGGGAAGCTCTAGAG
*
22850405 AGCCA-TATATCGGGATGCTCATA-AG
1 AGCCATTA-ATCGGGAAGCTC-TAGAG
22850430 AGC
1 AGC
22850433 TGTGGTGTGT
Statistics
Matches: 117, Mismatches: 26, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
23 4 0.03
24 31 0.26
25 58 0.50
26 2 0.02
27 22 0.19
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.19
Consensus pattern (25 bp):
AGCCATTAATCGGGAAGCTCTAGAG
Found at i:22850528 original size:25 final size:25
Alignment explanation
Indices: 22850500--22850556 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
22850490 CTATTAACGA
*
22850500 GAAGCTCGTAAGAACCATATAACAG
1 GAAGCTCGTAAGAACCAAATAACAG
* * *
22850525 GAAGCTCGTGAGAGCCAAATATCAG
1 GAAGCTCGTAAGAACCAAATAACAG
*
22850550 GATGCTC
1 GAAGCTC
22850557 ATGAGAGCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.18
Consensus pattern (25 bp):
GAAGCTCGTAAGAACCAAATAACAG
Found at i:22851852 original size:9 final size:9
Alignment explanation
Indices: 22851831--22851871 Score: 50
Period size: 8 Copynumber: 4.8 Consensus size: 9
22851821 GATTGGGTTT
22851831 TTATTTTT-
1 TTATTTTTA
*
22851839 CTATTTTTA
1 TTATTTTTA
22851848 TTATTTTTA
1 TTATTTTTA
*
22851857 TT-TATTTA
1 TTATTTTTA
22851865 TTATTTT
1 TTATTTT
22851872 CTTCTGCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
8 14 0.52
9 13 0.48
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (9 bp):
TTATTTTTA
Found at i:22851853 original size:17 final size:17
Alignment explanation
Indices: 22851831--22851871 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
22851821 GATTGGGTTT
*
22851831 TTATTTTTCTATT-TTTA
1 TTATTTTTAT-TTATTTA
22851848 TTATTTTTATTTATTTA
1 TTATTTTTATTTATTTA
22851865 TTATTTT
1 TTATTTT
22851872 CTTCTGCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 20 0.91
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (17 bp):
TTATTTTTATTTATTTA
Found at i:22852411 original size:16 final size:16
Alignment explanation
Indices: 22852381--22852413 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22852371 ATCCTTCGAC
22852381 ATTGATTTTCATTTCA
1 ATTGATTTTCATTTCA
22852397 ATTGAGTTTTC-TTTCA
1 ATTGA-TTTTCATTTCA
22852413 A
1 A
22852414 ATCTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.55
Consensus pattern (16 bp):
ATTGATTTTCATTTCA
Found at i:22857982 original size:14 final size:15
Alignment explanation
Indices: 22857960--22857989 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
22857950 AGGAAAAATC
22857960 AAAATAAAAAAGGAG
1 AAAATAAAAAAGGAG
22857975 AAAA-AAAAAAGGAG
1 AAAATAAAAAAGGAG
22857989 A
1 A
22857990 GGCCAAGGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (15 bp):
AAAATAAAAAAGGAG
Found at i:22857983 original size:20 final size:20
Alignment explanation
Indices: 22857945--22857983 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
22857935 GTCAAAAGCA
*
22857945 AAAAAAGGAAAAATCAAAAT
1 AAAAAAGGAAAAATAAAAAT
22857965 AAAAAAGGAGAAAA-AAAAA
1 AAAAAAGGA-AAAATAAAAA
22857984 AGGAGAGGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.79, C:0.03, G:0.13, T:0.05
Consensus pattern (20 bp):
AAAAAAGGAAAAATAAAAAT
Found at i:22857984 original size:27 final size:27
Alignment explanation
Indices: 22857899--22857969 Score: 106
Period size: 28 Copynumber: 2.6 Consensus size: 27
22857889 AATCAAAATG
22857899 AAAATCAAAATAAAAAGAAAAAAAAGA
1 AAAATCAAAATAAAAAGAAAAAAAAGA
* * *
22857926 AAAATCAAAGTCAAAAGCAAAAAAAGGA
1 AAAATCAAAATAAAAAG-AAAAAAAAGA
22857954 AAAATCAAAATAAAAA
1 AAAATCAAAATAAAAA
22857970 AGGAGAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
27 15 0.39
28 23 0.61
ACGTcount: A:0.76, C:0.07, G:0.08, T:0.08
Consensus pattern (27 bp):
AAAATCAAAATAAAAAGAAAAAAAAGA
Found at i:22858864 original size:13 final size:13
Alignment explanation
Indices: 22858848--22858874 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22858838 AAAATGGGGG
22858848 ATGAAAAATGAAA
1 ATGAAAAATGAAA
22858861 ATGAAAAATGAAA
1 ATGAAAAATGAAA
22858874 A
1 A
22858875 AAGGAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:22860223 original size:50 final size:50
Alignment explanation
Indices: 22860169--22860791 Score: 308
Period size: 50 Copynumber: 12.5 Consensus size: 50
22860159 TCTCTGGAGA
**
22860169 TGCAGTGGAGTAGATTAAAGCCACATCGGTGAATCTAGCTTCCCCGACAT
1 TGCAGTGGAAAAGATTAAAGCCACATCGGTGAATCTAGCTTCCCCGACAT
** * * * * * *
22860219 TGCAGTTAAAAAGATTAAAGCTACAACAGTGAATCTCA-CCTCCCTGGCGA-
1 TGCAGTGGAAAAGATTAAAGCCACATCGGTGAATCT-AGCTTCCCCGAC-AT
** * *
22860269 TGCAGTGGAGTAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACAT
1 TGCAGTGGAAAAGATTAAAGCCACATCGGTGAATCTAGCTTCCCCGACAT
* ** ** **
22860319 TGTAGTTAAAAAGATTAAAGCCACAGT-GGTGAATCTTA-CTTCTCTAGTGA-
1 TGCAGTGGAAAAGATTAAAGCCACA-TCGGTGAATC-TAGCTTC-CCCGACAT
** * * *
22860369 TGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCTCAACAT
1 TGCAGTGGAAAAGATTAAAGCCACATCGGTGAATCTAGCTTCCCCGACAT
** * * * ** * **
22860419 TGCAGTTAAAAAGATTAAAGCTATAACGGCAAATCTTA--TTCCCCAAGCGG
1 TGCAGTGGAAAAGATTAAAGCCACATCGGTGAATC-TAGCTTCCCCGA-CAT
* * *
22860469 TACAGTGGAACAA-ATTAAAGCCACATCGGTGAATCTTGCTTCCCCGGCAT
1 TGCAGTGGAA-AAGATTAAAGCCACATCGGTGAATCTAGCTTCCCCGACAT
** * * * * * *
22860519 TGCAGTTAAAAAGATTGAAGCCACAACAGTGAATCTTA-CATCTCTGACGA-
1 TGCAGTGGAAAAGATTAAAGCCACATCGGTGAATC-TAGCTTCCCCGAC-AT
** * *
22860569 TGCAGTGGAGCAGATTAAAGCCACGAT-GGTGAACCTTGCTTCCCCGACAT
1 TGCAGTGGAAAAGATTAAAGCCAC-ATCGGTGAATCTAGCTTCCCCGACAT
** * * * * **
22860619 TGCAGTTAAAAAGATTAAAGCTACAAT-AGTGAATCTTA-CTT-CTCAAGCGG
1 TGCAGTGGAAAAGATTAAAGCCAC-ATCGGTGAATC-TAGCTTCCCCGA-CAT
* * * * * *
22860669 TGCAGTGGAATAGATTAACGCCACAACGGCGAATCTTGCTTCCCCGATAT
1 TGCAGTGGAAAAGATTAAAGCCACATCGGTGAATCTAGCTTCCCCGACAT
* * * * * *
22860719 TGCAGT-TAGAAAGATTAAAGCTACAAT-AGTGAATCTTA-CTTCCCAGGCAG
1 TGCAGTGGA-AAAGATTAAAGCCAC-ATCGGTGAATC-TAGCTTCCCCGACAT
* * *
22860769 TGTAGTGGAACAGATTGAAGCCA
1 TGCAGTGGAAAAGATTAAAGCCA
22860792 TAATGGCGAA
Statistics
Matches: 410, Mismatches: 133, Indels: 60
0.68 0.22 0.10
Matches are distributed among these distances:
49 24 0.06
50 360 0.88
51 26 0.06
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (50 bp):
TGCAGTGGAAAAGATTAAAGCCACATCGGTGAATCTAGCTTCCCCGACAT
Found at i:22860326 original size:100 final size:100
Alignment explanation
Indices: 22860150--22860838 Score: 769
Period size: 100 Copynumber: 6.9 Consensus size: 100
22860140 TGAAATCAAC
* * * *
22860150 AATCTTACTTCTCTGGAGATGCAGTGGAGTAGATTAAAGCCACATCGGTGAATCTAGCTTCCCCG
1 AATCTTACTTCTCTAGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
22860215 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGTG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGTG
* * * * * *
22860250 AATCTCACCTCCCTGGCGATGCAGTGGAGTAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTG
1 AATCTTACTTCTCTAGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * ***
22860315 ACATTGTAGTTAAAAAGATTAAAGCCACAGTGGTG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGTG
* * * *
22860350 AATCTTACTTCTCTAGTGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCTCA
1 AATCTTACTTCTCTAGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * **
22860415 ACATTGCAGTTAAAAAGATTAAAGCTATAACGGCA
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGTG
* * * * * *
22860450 AATCTTA-TTCCCCAAGCGGTACAGTGGAACAAATTAAAGCCACATCGGTGAATCTTGCTTCCCC
1 AATCTTACTT-CTCTAGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
* * *
22860514 GGCATTGCAGTTAAAAAGATTGAAGCCACAACAGTG
65 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGTG
* *
22860550 AATCTTACATCTCT-GACGATGCAGTGGAGCAGATTAAAGCCACGAT-GGTGAACCTTGCTTCCC
1 AATCTTACTTCTCTAG-CGATGCAGTGGAGCAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCC
*
22860613 CGACATTGCAGTTAAAAAGATTAAAGCTACAATAGTG
64 CGACATTGCAGTTAAAAAGATTAAAGCTACAACAGTG
* * ** * * *
22860650 AATCTTACTTCTCAAGCGGTGCAGTGGAATAGATTAACGCCACAACGGCGAATCTTGCTTCCCCG
1 AATCTTACTTCTCTAGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * *
22860715 ATATTGCAGTTAGAAAGATTAAAGCTACAATAGTG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGTG
* * * * * * *
22860750 AATCTTACTTC-CCAG-GCAGTGTAGTGGAACAGATTGAAGCCATAAT-GGCGAACCTTGCTTCC
1 AATCTTACTTCTCTAGCG-A-TGCAGTGGAGCAGATTAAAGCCA-CATCGGTGAATCTTGCTTCC
* ** * *
22860812 TCGACATCACAGTTAAACATATTAAAG
63 CCGACATTGCAGTTAAAAAGATTAAAG
22860839 TTACGAGTTA
Statistics
Matches: 496, Mismatches: 84, Indels: 18
0.83 0.14 0.03
Matches are distributed among these distances:
98 1 0.00
99 7 0.01
100 483 0.97
101 5 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (100 bp):
AATCTTACTTCTCTAGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
ACATTGCAGTTAAAAAGATTAAAGCTACAACAGTG
Found at i:22861006 original size:151 final size:151
Alignment explanation
Indices: 22860709--22861015 Score: 373
Period size: 151 Copynumber: 2.0 Consensus size: 151
22860699 GAATCTTGCT
* * * * * *
22860709 TCCCCGATATTGCAGTTAGAAAGATTAAAGCTACAATAGTGAATCTTACTTCCCAGGCAGTGTAG
1 TCCCCGACATTGAAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCAG
* *** * * * *
22860774 TGGAACAGATTGAAGCCATAATGGCGAACCTTGCTTCCTCGACATCACAGTTAAACATATTAAAG
66 TGGAACAGATTGAAGCCACAACAACAAACCTTGCTTCCTCGACATCACAGTCAAACAGACTAAAG
* * **
22860839 TTACGAGTTACAAATCCTATC
131 CTACAAGCCACAAATCCTATC
*
22860860 TCCCCGACATTGAAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGGTGCAG
1 TCCCCGACATTGAAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCAG
* ** * *
22860925 TGGAACAGATTGAAGCCACAACAACAAATCTTGCTT-CTCTGACATTGCAGTCAAATAGACTGAA
66 TGGAACAGATTGAAGCCACAACAACAAACCTTGCTTCCTC-GACATCACAGTCAAACAGACTAAA
*
22860989 GCTACAAGCCACGAATCCTATC
130 GCTACAAGCCACAAATCCTATC
22861011 TCCCC
1 TCCCC
22861016 AACGTTGCGG
Statistics
Matches: 130, Mismatches: 25, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
150 3 0.02
151 127 0.98
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (151 bp):
TCCCCGACATTGAAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCAG
TGGAACAGATTGAAGCCACAACAACAAACCTTGCTTCCTCGACATCACAGTCAAACAGACTAAAG
CTACAAGCCACAAATCCTATC
Found at i:22861624 original size:9 final size:9
Alignment explanation
Indices: 22861603--22861643 Score: 50
Period size: 8 Copynumber: 4.8 Consensus size: 9
22861593 GATTGGGTTT
22861603 TTATTTTT-
1 TTATTTTTA
*
22861611 CTATTTTTA
1 TTATTTTTA
22861620 TTATTTTTA
1 TTATTTTTA
*
22861629 TT-TATTTA
1 TTATTTTTA
22861637 TTATTTT
1 TTATTTT
22861644 CTTCTGTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
8 14 0.52
9 13 0.48
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (9 bp):
TTATTTTTA
Found at i:22861625 original size:17 final size:17
Alignment explanation
Indices: 22861603--22861643 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
22861593 GATTGGGTTT
*
22861603 TTATTTTTCTATT-TTTA
1 TTATTTTTAT-TTATTTA
22861620 TTATTTTTATTTATTTA
1 TTATTTTTATTTATTTA
22861637 TTATTTT
1 TTATTTT
22861644 CTTCTGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 20 0.91
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (17 bp):
TTATTTTTATTTATTTA
Found at i:22876486 original size:13 final size:12
Alignment explanation
Indices: 22876470--22876533 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 12
22876460 TTCACATTTT
22876470 CATTTCAAGTATC
1 CATTTCAA-TATC
*
22876483 CATTTCAAATGTC
1 CATTTC-AATATC
22876496 CATTTCATATATC
1 CATTTCA-ATATC
* *
22876509 CATTTCGTATAAC
1 CATTTC-AATATC
22876522 CATTTCATATAT
1 CATTTCA-ATAT
22876534 ATCCATTTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
12 1 0.02
13 38 0.93
14 2 0.05
ACGTcount: A:0.31, C:0.22, G:0.05, T:0.42
Consensus pattern (12 bp):
CATTTCAATATC
Found at i:22876489 original size:26 final size:26
Alignment explanation
Indices: 22876470--22876542 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 26
22876460 TTCACATTTT
22876470 CATTTCA-AGTATCCATTTCAAATGTC
1 CATTTCATA-TATCCATTTCAAATGTC
** **
22876496 CATTTCATATATCCATTTCGTATAAC
1 CATTTCATATATCCATTTCAAATGTC
22876522 CATTTCATATATATCCATTTC
1 CATTTC--ATATATCCATTTC
22876543 CACCTGATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
26 26 0.65
27 1 0.03
28 13 0.32
ACGTcount: A:0.30, C:0.23, G:0.04, T:0.42
Consensus pattern (26 bp):
CATTTCATATATCCATTTCAAATGTC
Found at i:22876626 original size:25 final size:25
Alignment explanation
Indices: 22876589--22876655 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
22876579 CAGGAACAAT
*
22876589 GCTCACACAAGCTGTGACGGTAAAA
1 GCTCACACAAGCTGTAACGGTAAAA
** * *
22876614 GCTCACATGAGCTGTAACTGTAAAT
1 GCTCACACAAGCTGTAACGGTAAAA
*
22876639 GCTCACGCAAGCTGTAA
1 GCTCACACAAGCTGTAA
22876656 AATAGGTTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (25 bp):
GCTCACACAAGCTGTAACGGTAAAA
Found at i:22886899 original size:18 final size:19
Alignment explanation
Indices: 22886873--22886909 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
22886863 ATTGGTTTTC
22886873 TTTAATTA-TTAACCTTTA
1 TTTAATTATTTAACCTTTA
*
22886891 TTTACTTATTTAACCTTTA
1 TTTAATTATTTAACCTTTA
22886910 AAAACATTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTAATTATTTAACCTTTA
Found at i:22890488 original size:50 final size:50
Alignment explanation
Indices: 22890433--22890556 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 50
22890423 TATTGAGGTT
* * *
22890433 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCGTTGGCACCTAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
* *
22890483 ATGAGAGGTCCC-CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCAC-GTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
** * *
22890533 ATGAGAACTCCCATGTATGACCAT
1 ATGAGAGGTCCCACGTAAGACCAT
22890557 ATCTGCTATA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
49 1 0.02
50 62 0.98
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
Found at i:22890845 original size:20 final size:20
Alignment explanation
Indices: 22890820--22890859 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
22890810 ATGAGTTATT
22890820 CAAGTAAGCAAGTAAGTAAA
1 CAAGTAAGCAAGTAAGTAAA
**
22890840 CAAGTAAGGGAGTAAGTAAA
1 CAAGTAAGCAAGTAAGTAAA
22890860 TAAGAAAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.07, G:0.25, T:0.15
Consensus pattern (20 bp):
CAAGTAAGCAAGTAAGTAAA
Found at i:22891432 original size:17 final size:19
Alignment explanation
Indices: 22891412--22891448 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
22891402 AGACAAAGGA
22891412 ATTTT-ATATTA-TGAGAT
1 ATTTTCATATTAGTGAGAT
*
22891429 ATTTTCATTTTAGTGAGAT
1 ATTTTCATATTAGTGAGAT
22891448 A
1 A
22891449 GGGTCAGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 5 0.29
19 7 0.41
ACGTcount: A:0.32, C:0.03, G:0.14, T:0.51
Consensus pattern (19 bp):
ATTTTCATATTAGTGAGAT
Found at i:22896537 original size:25 final size:25
Alignment explanation
Indices: 22896503--22896599 Score: 158
Period size: 25 Copynumber: 3.9 Consensus size: 25
22896493 TCTTGTACAT
* *
22896503 GTATACTCACACGAGCTATAAATCA
1 GTATGCTCACACGAGCTGTAAATCA
22896528 GTATGCTCACACGAGCTGTAAATCA
1 GTATGCTCACACGAGCTGTAAATCA
*
22896553 GTATGCTCACACGAGCTGTAAATCG
1 GTATGCTCACACGAGCTGTAAATCA
*
22896578 GTATGCTCACACGAGTTGTAAA
1 GTATGCTCACACGAGCTGTAAA
22896600 AATAGGCCTG
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 68 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTAAATCA
Found at i:22896611 original size:27 final size:25
Alignment explanation
Indices: 22896508--22896623 Score: 110
Period size: 25 Copynumber: 4.6 Consensus size: 25
22896498 TACATGTATA
* *
22896508 CTCACACGAGCTATAAATCA-GTATG
1 CTCACACGAGCTGTAAAT-AGGCATG
*
22896533 CTCACACGAGCTGTAAATCA-GTATG
1 CTCACACGAGCTGTAAAT-AGGCATG
* *
22896558 CTCACACGAGCTGTAAATCGGTATG
1 CTCACACGAGCTGTAAATAGGCATG
* *
22896583 CTCACACGAGTTGTAAAAATAGGCCTG
1 CTCACACGAGCTGT--AAATAGGCATG
*
22896610 CTCACATGAGCTGT
1 CTCACACGAGCTGT
22896624 GGGTCAGAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
25 60 0.75
27 20 0.25
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (25 bp):
CTCACACGAGCTGTAAATAGGCATG
Found at i:22900036 original size:43 final size:44
Alignment explanation
Indices: 22899988--22900073 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
22899978 GACACAACCA
* *
22899988 TGTGACCTTA-TTTTGAA-TG-ACACAAGGTTTGGCGACATGGCCG
1 TGTGACCCTATTTTTGAACTGTACACAA--TTTGGCCACATGGCCG
22900031 TGTGACCCTATTTTTGAACTGTACACAATTTGGCCACATGGCC
1 TGTGACCCTATTTTTGAACTGTACACAATTTGGCCACATGGCC
22900074 ATGTCCTTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
43 9 0.24
44 21 0.55
45 2 0.05
46 6 0.16
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.31
Consensus pattern (44 bp):
TGTGACCCTATTTTTGAACTGTACACAATTTGGCCACATGGCCG
Found at i:22906191 original size:20 final size:20
Alignment explanation
Indices: 22906166--22906203 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22906156 TTGTATAGTA
*
22906166 TTGCACTTCGATGCCTCTAT
1 TTGCACTACGATGCCTCTAT
*
22906186 TTGCACTACGGTGCCTCT
1 TTGCACTACGATGCCTCT
22906204 GAATAGCTTT
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:0.13, C:0.32, G:0.18, T:0.37
Consensus pattern (20 bp):
TTGCACTACGATGCCTCTAT
Found at i:22908309 original size:85 final size:85
Alignment explanation
Indices: 22908166--22908339 Score: 269
Period size: 85 Copynumber: 2.0 Consensus size: 85
22908156 CCTCGACCCA
* ** *
22908166 TCTCCTATTACTCCAATATCTTCATTATATCCTGATCTTCTCTTGGATGGACCACCATCAGTAGT
1 TCTCCTATTACTCCAATATCTTCAGTATATCCTGATCCGCTCTTGGATGGACCACCATCAGTACT
22908231 TACTACCGCTGCC-TTGTTCT
66 TACTACCGCTGCCGTT-TTCT
*
22908251 TCTCCTATTACTCTAATATCTTCAGTATATCCTGATCCGCTCTTGGATGGACCACCATCAGTACT
1 TCTCCTATTACTCCAATATCTTCAGTATATCCTGATCCGCTCTTGGATGGACCACCATCAGTACT
* *
22908316 TATTACTGCTGCCGTTTTCT
66 TACTACCGCTGCCGTTTTCT
22908336 TCTC
1 TCTC
22908340 AGGTTTAGGT
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
85 79 0.98
86 2 0.02
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (85 bp):
TCTCCTATTACTCCAATATCTTCAGTATATCCTGATCCGCTCTTGGATGGACCACCATCAGTACT
TACTACCGCTGCCGTTTTCT
Found at i:22909775 original size:23 final size:23
Alignment explanation
Indices: 22909745--22909790 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
22909735 ACGTAGGAGT
22909745 GTTTTAGGGGGATACTTCAGCAA
1 GTTTTAGGGGGATACTTCAGCAA
22909768 GTTTTAGGGGGATACTTCAGCAA
1 GTTTTAGGGGGATACTTCAGCAA
22909791 ATTGCATCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.30
Consensus pattern (23 bp):
GTTTTAGGGGGATACTTCAGCAA
Found at i:22910235 original size:26 final size:27
Alignment explanation
Indices: 22910176--22910236 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
22910166 GGGTTAATTT
* *
22910176 TAATTTTTTAATATTTTTTTATTTATG
1 TAATTTTTTAATATATTTTTATTTATA
22910203 TAA--TTTTAAT-TAATTTTTATTT-TA
1 TAATTTTTTAATAT-ATTTTTATTTATA
22910227 TAATTTTTTA
1 TAATTTTTTA
22910237 TAACAGTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
24 5 0.17
25 16 0.55
26 5 0.17
27 3 0.10
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (27 bp):
TAATTTTTTAATATATTTTTATTTATA
Found at i:22911786 original size:18 final size:18
Alignment explanation
Indices: 22911763--22911804 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
22911753 GCCAGGTGCA
*
22911763 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
22911781 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
*
22911799 TTTCCT
1 TATCCT
22911805 TTTCCCAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:22914435 original size:40 final size:39
Alignment explanation
Indices: 22914373--22914475 Score: 125
Period size: 40 Copynumber: 2.6 Consensus size: 39
22914363 AGCTTTAGTG
* * * *
22914373 GCATTAGAGGCGCTTGTTGAAAAATGCCTCTATAGGTCGA
1 GCATTAGCGGCGCTT-TTGAAAAACGCCGCTATAGGTCAA
*
22914413 GCATTAGCGGCGCTTTTCGAAAAGCGCCGCTATAGGTCAA
1 GCATTAGCGGCGCTTTT-GAAAAACGCCGCTATAGGTCAA
*
22914453 GCATTACCGGCGCTCTTTGAAAA
1 GCATTAGCGGCGCT-TTTGAAAA
22914476 GCGGCGCAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
39 2 0.04
40 50 0.91
41 3 0.05
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
GCATTAGCGGCGCTTTTGAAAAACGCCGCTATAGGTCAA
Found at i:22914518 original size:154 final size:154
Alignment explanation
Indices: 22914238--22914590 Score: 496
Period size: 154 Copynumber: 2.3 Consensus size: 154
22914228 AGTTTTGACA
* * * * *
22914238 AAAAATGCCGCTATAGCTCGGGCATTAGTGGCCCTTGTTGAAAAACGCCGCTATAGGTCGAGCAT
1 AAAAATGCCACTATAGGTCGAGCATTAGCGGCCCTTGTTGAAAAACGCCGCTATAGGTCAAGCAT
* *
22914303 TAGCGGCGCTCTTTGAAAAGCACAGCAAAAAATTAAGCACAATGCTGTCGTTTTATGTTGAGCTT
66 TACCGGCGCTCTTTGAAAAGCACAGCAAAAAATTAAGCACAATGCCGTCGTTTTATGTTGAGCTT
22914368 TAGTGGCATTAGAGGCGCTTGTTG
131 TAGTGGCATTAGAGGCGCTTGTTG
* * *
22914392 AAAAATGCCTCTATAGGTCGAGCATTAGCGGCGCTT-TTCGAAAAGCGCCGCTATAGGTCAAGCA
1 AAAAATGCCACTATAGGTCGAGCATTAGCGGCCCTTGTT-GAAAAACGCCGCTATAGGTCAAGCA
* *
22914456 TTACCGGCGCTCTTTGAAAAGCGGC-GCAAAAAATTAAGCACAACT-CCGTTGTTTTATGTTGAG
65 TTACCGGCGCTCTTTGAAAAGC-ACAGCAAAAAATTAAGCACAA-TGCCGTCGTTTTATGTTGAG
* * *
22914519 CTTTAGTGGCATTAGCGGTGCTTTTTG
128 CTTTAGTGGCATTAGAGGCGCTTGTTG
* **
22914546 AAAAACGCCACTATAGGTCGAGCATTAGCGGCCCTCATTGAAAAA
1 AAAAATGCCACTATAGGTCGAGCATTAGCGGCCCTTGTTGAAAAA
22914591 TGTCGCAAAA
Statistics
Matches: 176, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
153 2 0.01
154 170 0.97
155 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.27
Consensus pattern (154 bp):
AAAAATGCCACTATAGGTCGAGCATTAGCGGCCCTTGTTGAAAAACGCCGCTATAGGTCAAGCAT
TACCGGCGCTCTTTGAAAAGCACAGCAAAAAATTAAGCACAATGCCGTCGTTTTATGTTGAGCTT
TAGTGGCATTAGAGGCGCTTGTTG
Found at i:22914531 original size:114 final size:115
Alignment explanation
Indices: 22914413--22914658 Score: 359
Period size: 114 Copynumber: 2.1 Consensus size: 115
22914403 TATAGGTCGA
* * * * *
22914413 GCATTAGCGGCGCTTTTCGAAAAGCGCCGCTATAGGTCAAGCATTACCGGCGCTCTTTGAAAAGC
1 GCATTAGCGGCGCTTTTCGAAAAACGCCACTATAGGTCAAGCATTACCGGCCCTCATTGAAAAAC
* * *
22914478 GGCGCAAAAAATTAAGCACAACTCCGTTGTTTTATGTTGAGC-TTTAGTG
66 GGCGCAAAAAATTAACCACAACACCGTCGTTTTATGTTGAGCTTTTAGTG
* * * * *
22914527 GCATTAGCGGTGCTTTTTGAAAAACGCCACTATAGGTCGAGCATTAGCGGCCCTCATTGAAAAAT
1 GCATTAGCGGCGCTTTTCGAAAAACGCCACTATAGGTCAAGCATTACCGGCCCTCATTGAAAAAC
*
22914592 GTCGCAAAAAATTAACCACAACACCGTCGTTTTATGTTGAGCTTTTAGTG
66 GGCGCAAAAAATTAACCACAACACCGTCGTTTTATGTTGAGCTTTTAGTG
22914642 GCATTAGCGGCGCTTTT
1 GCATTAGCGGCGCTTTT
22914659 TATAGGTCGA
Statistics
Matches: 116, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
114 93 0.80
115 23 0.20
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (115 bp):
GCATTAGCGGCGCTTTTCGAAAAACGCCACTATAGGTCAAGCATTACCGGCCCTCATTGAAAAAC
GGCGCAAAAAATTAACCACAACACCGTCGTTTTATGTTGAGCTTTTAGTG
Found at i:22915181 original size:7 final size:7
Alignment explanation
Indices: 22914975--22915216 Score: 130
Period size: 7 Copynumber: 33.9 Consensus size: 7
22914965 TATCATTATA
22914975 GTTTAGG
1 GTTTAGG
*
22914982 GTTTATG
1 GTTTAGG
22914989 GTTTAGG
1 GTTTAGG
* *
22914996 GTATATG
1 GTTTAGG
*
22915003 GTTTATG
1 GTTTAGG
* *
22915010 TTTTAAG
1 GTTTAGG
*
22915017 ATTTAGG
1 GTTTAGG
22915024 GTTTAGG
1 GTTTAGG
* *
22915031 GATTATG
1 GTTTAGG
*
22915038 GTTTATG
1 GTTTAGG
*
22915045 GTTTATG
1 GTTTAGG
*
22915052 GTTTAAG
1 GTTTAGG
*
22915059 GTTTATGA
1 GTTTA-GG
**
22915067 G-TTACT
1 GTTTAGG
* *
22915073 ATTTAAG
1 GTTTAGG
*
22915080 GTTTATG
1 GTTTAGG
*
22915087 GATTATGG
1 GTTTA-GG
22915095 GTTTAGG
1 GTTTAGG
* *
22915102 GATTATG
1 GTTTAGG
*
22915109 GTTTACG
1 GTTTAGG
22915116 GTTTAGG
1 GTTTAGG
*
22915123 GTTTAAG
1 GTTTAGG
22915130 GTTTA-G
1 GTTTAGG
*
22915136 GTGTTGGG
1 GT-TTAGG
*
22915144 GTTTAAG
1 GTTTAGG
22915151 GTTTAGGG
1 GTTTA-GG
* *
22915159 GTTAATG
1 GTTTAGG
22915166 G-TTAGGG
1 GTTTA-GG
22915173 GTTTAGG
1 GTTTAGG
*
22915180 GTTCAGG
1 GTTTAGG
22915187 GTTTTGAGG
1 G-TTT-AGG
*
22915196 ATTTAGG
1 GTTTAGG
22915203 AGTTTAGG
1 -GTTTAGG
22915211 GTTTAG
1 GTTTAG
22915217 ATTAATTAGT
Statistics
Matches: 180, Mismatches: 44, Indels: 22
0.73 0.18 0.09
Matches are distributed among these distances:
6 5 0.03
7 144 0.80
8 28 0.16
9 3 0.02
ACGTcount: A:0.20, C:0.01, G:0.34, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:22918271 original size:66 final size:66
Alignment explanation
Indices: 22918120--22918250 Score: 174
Period size: 66 Copynumber: 2.0 Consensus size: 66
22918110 TTATATATTT
* * * * *
22918120 GATT-AATTGAAAAAAATTATGTTTGATTACTTTATTCGGTTTAATGTGAATAAATTATCGATTT
1 GATTAAATTG-AATAAATTATGTTTGATTACTTTATTCGATTTAATGTCAATAAATGATCAATTT
22918184 TC
65 TC
* * *
22918186 GATTAAATTGAATAAATTATGTTTGATTAGTTTATTTGATTTTATGTCAATAAATGATCAATTTT
1 GATTAAATTGAATAAATTATGTTTGATTACTTTATTCGATTTAATGTCAATAAATGATCAATTTT
22918251 TTATGTAATT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
66 51 0.91
67 5 0.09
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (66 bp):
GATTAAATTGAATAAATTATGTTTGATTACTTTATTCGATTTAATGTCAATAAATGATCAATTTT
C
Found at i:22918545 original size:77 final size:73
Alignment explanation
Indices: 22918389--22918551 Score: 229
Period size: 77 Copynumber: 2.2 Consensus size: 73
22918379 ATTATTTTGC
* *
22918389 CAAATATATTTATTTTGTAATGCCAACTCAAAGTCTTATTTTTTTTTAATTTAACTTATTTTGAT
1 CAAAT-TATTTATCTTGTAATACCAACTCAAAGTCTTATTTTTTTTTAATTTAACTTATTTTGAT
22918454 AAATATAGA
65 AAATATAGA
*
22918463 CAAATTATTGTATCTTGTAATACCAACTCAAAGTCTT-TTTTTTATATATATATTTTACTTATTT
1 CAAATTATT-TATCTTGTAATACCAACTCAAAGTCTTATTTTTT-T-T-TA-ATTTAACTTATTT
22918527 TGATAAATATAGA
61 TGATAAATATAGA
*
22918540 CAAATTAATTAT
1 CAAATTATTTAT
22918552 ATTCAATTTC
Statistics
Matches: 80, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
73 10 0.12
74 31 0.39
75 1 0.01
76 5 0.06
77 33 0.41
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (73 bp):
CAAATTATTTATCTTGTAATACCAACTCAAAGTCTTATTTTTTTTTAATTTAACTTATTTTGATA
AATATAGA
Found at i:22918825 original size:9 final size:9
Alignment explanation
Indices: 22918813--22918960 Score: 86
Period size: 9 Copynumber: 16.0 Consensus size: 9
22918803 TATATCATAT
22918813 CATAACTTA
1 CATAACTTA
*
22918822 CATAACTCA
1 CATAACTTA
22918831 CATACATACTTA
1 CAT--A-ACTTA
* *
22918843 AATATCTTA
1 CATAACTTA
* *
22918852 AATTACTTA
1 CATAACTTA
* *
22918861 TATATATCATA
1 CATA-A-CTTA
22918872 TCATAACTTA
1 -CATAACTTA
* * *
22918882 CGTAAGTCA
1 CATAACTTA
22918891 CATAACTTA
1 CATAACTTA
22918900 CATAACTTA
1 CATAACTTA
22918909 CATAA--TA
1 CATAACTTA
*
22918916 CATAA-ATA
1 CATAACTTA
* * *
22918924 TATATCATA
1 CATAACTTA
22918933 TCATAACTTA
1 -CATAACTTA
22918943 CATAACTTA
1 CATAACTTA
22918952 CATAACTTA
1 CATAACTTA
22918961 ATTATACTTA
Statistics
Matches: 108, Mismatches: 22, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
7 7 0.06
8 5 0.05
9 71 0.66
10 11 0.10
11 5 0.05
12 9 0.08
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:22918936 original size:121 final size:114
Alignment explanation
Indices: 22918742--22918955 Score: 329
Period size: 121 Copynumber: 1.8 Consensus size: 114
22918732 TAACTTAATA
*
22918742 ACTTATATATATCATACCATAACTTACAAAACAAATACATAGCTTACATAATACATAAATATATA
1 ACTTATATATATCATACCATAACTTACAAAACAAATACATAACTTACATAATACATAAATATATA
22918807 TCATATCATAACTTACATAACTCACATACATACTTAAATATCTTAAATT
66 TCATATCATAACTTACATAACTCACATACATACTTAAATATCTTAAATT
* *
22918856 ACTTATATATATCATATCATAACTTACGTAAGTCACATAACTTACATAACTTACATAATACATAA
1 ACTTATATATATCATACCATAACTTAC--AA--AACA-AA--TACATAACTTACATAATACATAA
*
22918921 ATATATATCATATCATAACTTACATAACTTACATA
59 ATATATATCATATCATAACTTACATAACTCACATA
22918956 ACTTAATTAT
Statistics
Matches: 89, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
114 26 0.29
116 2 0.02
118 3 0.03
119 2 0.02
121 56 0.63
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.34
Consensus pattern (114 bp):
ACTTATATATATCATACCATAACTTACAAAACAAATACATAACTTACATAATACATAAATATATA
TCATATCATAACTTACATAACTCACATACATACTTAAATATCTTAAATT
Found at i:22921255 original size:21 final size:21
Alignment explanation
Indices: 22921229--22921299 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
22921219 CTACAACTTA
*
22921229 AAGCAGAGGCAGTAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGGG
* * *
22921250 AAGCAGAGGCAACAGCAAGAG
1 AAGCAGAGGCAGCAGCGAGGG
*
22921271 AAGCAAAGGCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGGG
22921292 AAGCAGAG
1 AAGCAGAG
22921300 CAGAAAGCAC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.41, C:0.17, G:0.41, T:0.01
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGGG
Found at i:22921780 original size:43 final size:43
Alignment explanation
Indices: 22921697--22921780 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
22921687 CTAATGAACA
*
22921697 TCATGTTCTTTAGCAGCGCTTTTATAGGAAACGTCACTAAATG
1 TCATGTTCTTTAGCAGCGCTTTTATAGGAAACGCCACTAAATG
* * *
22921740 TCATGTTTTTTAGCGGCG-TTTGCTATA-GAAACGCCGCTAAA
1 TCATGTTCTTTAGCAGCGCTTT--TATAGGAAACGCCACTAAA
22921781 AAACATGACA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
42 3 0.09
43 28 0.80
44 4 0.11
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (43 bp):
TCATGTTCTTTAGCAGCGCTTTTATAGGAAACGCCACTAAATG
Found at i:22921795 original size:43 final size:43
Alignment explanation
Indices: 22921748--22921866 Score: 116
Period size: 43 Copynumber: 2.8 Consensus size: 43
22921738 TGTCATGTTT
*
22921748 TTTAGCGGCGTTTGCTATAGAAACGC-C-GCTAAAAAACATGACA
1 TTTAGCGGCGTTTCCTATA-AAA-GCACTGCTAAAAAACATGACA
* * * *
22921791 TTTAGTGACGTTTCCTATAAAAGCACTGCTAAATAACATGACC
1 TTTAGCGGCGTTTCCTATAAAAGCACTGCTAAAAAACATGACA
* * * * *
22921834 TTTAGCGGTGTATCTTATAAAGGCACCGCTAAA
1 TTTAGCGGCGTTTCCTATAAAAGCACTGCTAAA
22921867 GGTCATGATC
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
41 2 0.03
42 4 0.06
43 56 0.90
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTCCTATAAAAGCACTGCTAAAAAACATGACA
Found at i:22922040 original size:21 final size:21
Alignment explanation
Indices: 22922000--22922040 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22921990 AAGCGTTGCT
* *
22922000 AAAAATGCCGCTATAGGCCTA
1 AAAAATGCCGCTAAAAGCCTA
22922021 AAAAATGCCGCTAAAAGCCT
1 AAAAATGCCGCTAAAAGCCT
22922041 GTTCTGCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (21 bp):
AAAAATGCCGCTAAAAGCCTA
Found at i:22935846 original size:17 final size:20
Alignment explanation
Indices: 22935810--22935847 Score: 55
Period size: 17 Copynumber: 2.0 Consensus size: 20
22935800 CGCGAGTTCC
22935810 TTTAGCCTAGATTCAATTAT
1 TTTAGCCTAGATTCAATTAT
22935830 TTTA-CCTA-ATT-AATTAT
1 TTTAGCCTAGATTCAATTAT
22935847 T
1 T
22935848 GATGTAGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 4 0.22
20 4 0.22
ACGTcount: A:0.32, C:0.13, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTAGCCTAGATTCAATTAT
Found at i:22938361 original size:30 final size:31
Alignment explanation
Indices: 22938306--22938373 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
22938296 ACCCGTAAAA
** * **
22938306 TATTTACACTATTGGTCCTTCAAATTTTTTG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
22938337 TATTTACACT-TTAATCCCTCAAATTTTGAG
1 TATTTACACTATTAATCCCTCAAATTTTGAG
22938367 TATTTAC
1 TATTTAC
22938374 TCTTGGACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.26, C:0.18, G:0.07, T:0.49
Consensus pattern (31 bp):
TATTTACACTATTAATCCCTCAAATTTTGAG
Found at i:22941662 original size:12 final size:11
Alignment explanation
Indices: 22941642--22941676 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
22941632 ATATTTTCTC
22941642 TTATTTTTATT
1 TTATTTTTATT
*
22941653 TATTTTTTTATT
1 T-TATTTTTATT
22941665 TTATTTTTATT
1 TTATTTTTATT
22941676 T
1 T
22941677 GATGTTTTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:22942817 original size:25 final size:25
Alignment explanation
Indices: 22942783--22942861 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 25
22942773 GTGTAGGTTT
*
22942783 TTCATGTTTTTATTATGTTTTAAAA
1 TTCATCTTTTTATTATGTTTTAAAA
* *
22942808 TTCATC-TTTT-GTATGGTTT----
1 TTCATCTTTTTATTATGTTTTAAAA
*
22942827 TTCATGTTTTTATTATGTTTTAAAA
1 TTCATCTTTTTATTATGTTTTAAAA
22942852 TTCATCTTTT
1 TTCATCTTTT
22942862 GTATATTATA
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
19 5 0.12
20 4 0.10
21 7 0.17
23 7 0.17
24 4 0.10
25 14 0.34
ACGTcount: A:0.22, C:0.08, G:0.09, T:0.62
Consensus pattern (25 bp):
TTCATCTTTTTATTATGTTTTAAAA
Found at i:22942828 original size:44 final size:44
Alignment explanation
Indices: 22942774--22942865 Score: 177
Period size: 44 Copynumber: 2.1 Consensus size: 44
22942764 ATATGATTTG
22942774 TGTA-GGTTTTTCATGTTTTTATTATGTTTTAAAATTCATCTTT
1 TGTATGGTTTTTCATGTTTTTATTATGTTTTAAAATTCATCTTT
22942817 TGTATGGTTTTTCATGTTTTTATTATGTTTTAAAATTCATCTTT
1 TGTATGGTTTTTCATGTTTTTATTATGTTTTAAAATTCATCTTT
22942861 TGTAT
1 TGTAT
22942866 ATTATATATA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 4 0.08
44 44 0.92
ACGTcount: A:0.21, C:0.07, G:0.12, T:0.61
Consensus pattern (44 bp):
TGTATGGTTTTTCATGTTTTTATTATGTTTTAAAATTCATCTTT
Found at i:22951172 original size:21 final size:21
Alignment explanation
Indices: 22951146--22951186 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22951136 CTGGCATTGC
*
22951146 AGTGGAATAGATTAAAGCTGA
1 AGTGGAACAGATTAAAGCTGA
* *
22951167 AGTGGAGCGGATTAAAGCTG
1 AGTGGAACAGATTAAAGCTG
22951187 TGGGCAACGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.07, G:0.34, T:0.22
Consensus pattern (21 bp):
AGTGGAACAGATTAAAGCTGA
Found at i:22951534 original size:259 final size:259
Alignment explanation
Indices: 22951098--22952357 Score: 1729
Period size: 259 Copynumber: 4.8 Consensus size: 259
22951088 GCGTTGTAGT
* *
22951098 GGAACAGATTAAAGTTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAGTGGAATAGATTAA-A
1 GGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGACATTGCAGTGGAAT-GA--AATA
* * *
22951162 GCTGAAGTGGAGCGGATTAAAGCTGTGGGCAACGAATCCTATCTCTTTGGCATTACAGTGGAATA
63 GCTGAAGTGGAGCGGATTAAAGCTGTAGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAACA
* *
22951227 GATTAAAGCTAAAGGAAGCGAATCTGATTTCCCTGGTGTTGCAGCGGAGCAGATTAAAGTTGAGG
128 GATTAAAGCTAAAGGTAGCGAATCTGATTTCCCTGGTGTTGCAGCGGAGCAGATTAAAGCTGAGG
* * * * *
22951292 GTAGCGAATCTTATCTCCTTGGTGTTAAGACTGAGAGTAACCAGTCTTACTTCTCTGACGTCGCA
193 GCAGCGAATCTTATCTCCCTGGTGTTAAGACTGAAAGTAACCAGTCTTACTTCCCTGATGTCGCA
22951357 GG
258 GG
* * ** *
22951359 GGAACAAATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCAGATGTTGTAGTGGAATGAAATAGCT
1 GGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGACATTGCAGTGGAATGAAATAGCT
* * * *
22951424 GAGGTGCAGCGGATTACAGCTGTAGGCAGCGAATCCTATCTCTTTGGCATTACAGTAGAACAGAT
66 GAAGTGGAGCGGATTAAAGCTGTAGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAACAGAT
* * * * *
22951489 TAAAGCTAAAGGTAGTGAATCTGGTTTTCGTGGTGTTGCAGCGGAGCAAATTAAAGCTGAGGGCA
131 TAAAGCTAAAGGTAGCGAATCTGATTTCCCTGGTGTTGCAGCGGAGCAGATTAAAGCTGAGGGCA
* * * * *
22951554 GCGAATCTTACCCCCCT-GTCGTTAAGACTGAAAGTAACCAGTCTTACTTCCCTGGTGTTGCAGT
196 GCGAATCTTATCTCCCTGGT-GTTAAGACTGAAAGTAACCAGTCTTACTTCCCTGATGTCGCAGG
* *
22951618 GGAACAGATTAAAGCTAAAGGTAGCGAATCTTATTTCCCTGGCATTGCAGTGGAATAGATTAA-A
1 GGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGACATTGCAGTGGAAT-GA--AATA
* *
22951682 GCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAATA
63 GCTGAAGTGGAGCGGATTAAAGCTGTAGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAACA
* *
22951747 GATTAAAGCTAAATGTAGCGAATCTGATTTCTCTGGTGTTGCAGCGGAGCAGATTAAAGCTGAGG
128 GATTAAAGCTAAAGGTAGCGAATCTGATTTCCCTGGTGTTGCAGCGGAGCAGATTAAAGCTGAGG
* * *
22951812 GCAGCGAATCTTATCTCCCTGGTGTTAAGATTGAGAGTAACCAGTCTTACTTCTCTGATGTCGCA
193 GCAGCGAATCTTATCTCCCTGGTGTTAAGACTGAAAGTAACCAGTCTTACTTCCCTGATGTCGCA
*
22951877 AG
258 GG
* ** * *
22951879 GGAACAGATTAAAGCTAGAGGTAGCGAATCTTGTTTCCCAAACGTTGTAGTGGAATGAAATAGCT
1 GGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGACATTGCAGTGGAATGAAATAGCT
* * *
22951944 GAAGTGGAGCGGATTACAGTTGTAGGCAGCGAATCCTATCTCTTTGGCATTACAGTAGAACAGAT
66 GAAGTGGAGCGGATTAAAGCTGTAGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAACAGAT
* *
22952009 TAAAGCTAAAGGTAGCGAATCTGGTTTCCCTGGTGTTGCAGCGGAGCAAATTAAAGCTGAGGGCA
131 TAAAGCTAAAGGTAGCGAATCTGATTTCCCTGGTGTTGCAGCGGAGCAGATTAAAGCTGAGGGCA
* * * * *
22952074 GCAAATCTTACCTCCCT-GTCGTTAAGACTGAAAGTAACCAGTCTTACTTCCCTGGTGTTGCAGT
196 GCGAATCTTATCTCCCTGGT-GTTAAGACTGAAAGTAACCAGTCTTACTTCCCTGATGTCGCAGG
* * *
22952138 GGAACAGATTAAAGCTAAAGGTAGCAAATGTTGTTTCCCTGACATTGCAGTGGAATGGAATAGCT
1 GGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGACATTGCAGTGGAATGAAATAGCT
* * * * * *
22952203 GAAGTGGAGTGTATTAAAGCT-AAGGGCAGCGAATCCAATCTCTTTGGCATTATAGTGGAACGGA
66 GAAGTGGAGCGGATTAAAGCTGTA-GGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAACAGA
* * * *** * * *
22952267 TTAAGGCTAAAGGTAGCAAATCTGATTTCCCTAGCACTGTAGCAGAGCAGATTAAAGCTGAAGGC
130 TTAAAGCTAAAGGTAGCGAATCTGATTTCCCTGGTGTTGCAGCGGAGCAGATTAAAGCTGAGGGC
*
22952332 AGCGAATCTTATCTCCCTGGCGTTAA
195 AGCGAATCTTATCTCCCTGGTGTTAA
22952358 AATTGAAGAA
Statistics
Matches: 873, Mismatches: 116, Indels: 22
0.86 0.11 0.02
Matches are distributed among these distances:
258 9 0.01
259 582 0.67
260 7 0.01
261 271 0.31
262 4 0.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (259 bp):
GGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGACATTGCAGTGGAATGAAATAGCT
GAAGTGGAGCGGATTAAAGCTGTAGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAACAGAT
TAAAGCTAAAGGTAGCGAATCTGATTTCCCTGGTGTTGCAGCGGAGCAGATTAAAGCTGAGGGCA
GCGAATCTTATCTCCCTGGTGTTAAGACTGAAAGTAACCAGTCTTACTTCCCTGATGTCGCAGG
Found at i:22951692 original size:21 final size:21
Alignment explanation
Indices: 22951666--22951706 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22951656 CTGGCATTGC
*
22951666 AGTGGAATAGATTAAAGCTGA
1 AGTGGAACAGATTAAAGCTGA
* *
22951687 AGTGGAGCGGATTAAAGCTG
1 AGTGGAACAGATTAAAGCTG
22951707 TGGGCAGCGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.07, G:0.34, T:0.22
Consensus pattern (21 bp):
AGTGGAACAGATTAAAGCTGA
Found at i:22951818 original size:51 final size:50
Alignment explanation
Indices: 22951690--22951838 Score: 136
Period size: 51 Copynumber: 2.9 Consensus size: 50
22951680 AAGCTGAAGT
* * * ** *
22951690 GGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACAGT
1 GGAGCAGATTAAAGCTGAGGGCAGCGAAT-CTATCTCTCTGGTGTTACAGC
** * ** * * *
22951741 GGAATAGATTAAAGCTAAATGTAGCGAATCTGATTTCTCTGGTGTTGCAGC
1 GGAGCAGATTAAAGCTGAGGGCAGCGAATCT-ATCTCTCTGGTGTTACAGC
*
22951792 GGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTGGTGTTA
1 GGAGCAGATTAAAGCTGAGGGCAGCGAATC-TATCTCTCTGGTGTTA
22951839 AGATTGAGAG
Statistics
Matches: 73, Mismatches: 23, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
50 2 0.03
51 70 0.96
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (50 bp):
GGAGCAGATTAAAGCTGAGGGCAGCGAATCTATCTCTCTGGTGTTACAGC
Found at i:22952054 original size:520 final size:520
Alignment explanation
Indices: 22951073--22952363 Score: 2109
Period size: 520 Copynumber: 2.5 Consensus size: 520
22951063 TGAAGACACT
* * * *
22951073 AGTCTTACTTCCCTAGCGTTGTAGTGGAACAGATTAAAGTTAAAGGTAGCGAATCTTGTTTCCCT
1 AGTCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCT
*
22951138 GGCATTGCAGTGGAATAGATTAAAGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAACGAATCCTA
66 GGCATTGCAGTGGAATAGATTAAAGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTA
*
22951203 TCTCTTTGGCATTACAGTGGAATAGATTAAAGCTAAAGGAAGCGAATCTGATTTCCCTGGTGTTG
131 TCTCTTTGGCATTACAGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTGATTTCCCTGGTGTTG
* * * *
22951268 CAGCGGAGCAGATTAAAGTTGAGGGTAGCGAATCTTATCTCCTTGGTGTTAAGACTGAGAGTAAC
196 CAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTGGTGTTAAGATTGAGAGTAAC
*
22951333 CAGTCTTACTTCTCTGACGTCGCAGGGGAACAAATTAAAGCTAAAGGTAGCGAATCTTGTTTCCC
261 CAGTCTTACTTCTCTGACGTCGCAAGGGAACAAATTAAAGCTAAAGGTAGCGAATCTTGTTTCCC
* * *
22951398 AGATGTTGTAGTGGAATGAAATAGCTGAGGTGCAGCGGATTACAGCTGTAGGCAGCGAATCCTAT
326 AAACGTTGTAGTGGAATGAAATAGCTGAAGTGCAGCGGATTACAGCTGTAGGCAGCGAATCCTAT
* * *
22951463 CTCTTTGGCATTACAGTAGAACAGATTAAAGCTAAAGGTAGTGAATCTGGTTTTCGTGGTGTTGC
391 CTCTTTGGCATTACAGTAGAACAGATTAAAGCTAAAGGTAGCGAATCTGGTTTCCCTGGTGTTGC
*
22951528 AGCGGAGCAAATTAAAGCTGAGGGCAGCGAATCTTACCCCCCTGTCGTTAAGACTGAAAGTAACC
456 AGCGGAGCAAATTAAAGCTGAGGGCAGCAAATCTTACCCCCCTGTCGTTAAGACTGAAAGTAACC
*
22951593 AGTCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTATTTCCCT
1 AGTCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCT
22951658 GGCATTGCAGTGGAATAGATTAAAGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTA
66 GGCATTGCAGTGGAATAGATTAAAGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTA
* *
22951723 TCTCTTTGGCATTACAGTGGAATAGATTAAAGCTAAATGTAGCGAATCTGATTTCTCTGGTGTTG
131 TCTCTTTGGCATTACAGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTGATTTCCCTGGTGTTG
22951788 CAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTGGTGTTAAGATTGAGAGTAAC
196 CAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTGGTGTTAAGATTGAGAGTAAC
* * *
22951853 CAGTCTTACTTCTCTGATGTCGCAAGGGAACAGATTAAAGCTAGAGGTAGCGAATCTTGTTTCCC
261 CAGTCTTACTTCTCTGACGTCGCAAGGGAACAAATTAAAGCTAAAGGTAGCGAATCTTGTTTCCC
* *
22951918 AAACGTTGTAGTGGAATGAAATAGCTGAAGTGGAGCGGATTACAGTTGTAGGCAGCGAATCCTAT
326 AAACGTTGTAGTGGAATGAAATAGCTGAAGTGCAGCGGATTACAGCTGTAGGCAGCGAATCCTAT
22951983 CTCTTTGGCATTACAGTAGAACAGATTAAAGCTAAAGGTAGCGAATCTGGTTTCCCTGGTGTTGC
391 CTCTTTGGCATTACAGTAGAACAGATTAAAGCTAAAGGTAGCGAATCTGGTTTCCCTGGTGTTGC
*
22952048 AGCGGAGCAAATTAAAGCTGAGGGCAGCAAATCTTACCTCCCTGTCGTTAAGACTGAAAGTAACC
456 AGCGGAGCAAATTAAAGCTGAGGGCAGCAAATCTTACCCCCCTGTCGTTAAGACTGAAAGTAACC
* *
22952113 AGTCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCAAATGTTGTTTCCCT
1 AGTCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCT
* * * * * ** *
22952178 GACATTGCAGTGGAATGGA--ATAGCTGAAGTGGAGTGTATTAAAGCTAAGGGCAGCGAATCCAA
66 GGCATTGCAGTGGAATAGATTAAAGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTA
* ** * * * ***
22952241 TCTCTTTGGCATTATAGTGGAACGGATTAAGGCTAAAGGTAGCAAATCTGATTTCCCTAGCACTG
131 TCTCTTTGGCATTACAGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTGATTTCCCTGGTGTTG
* * * * *
22952306 TAGCAGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGGCGTTAAAATTGA
196 CAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTGGTGTTAAGATTGA
22952364 AGAAAGCAAG
Statistics
Matches: 717, Mismatches: 54, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
518 145 0.20
520 572 0.80
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (520 bp):
AGTCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCT
GGCATTGCAGTGGAATAGATTAAAGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTA
TCTCTTTGGCATTACAGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTGATTTCCCTGGTGTTG
CAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTGGTGTTAAGATTGAGAGTAAC
CAGTCTTACTTCTCTGACGTCGCAAGGGAACAAATTAAAGCTAAAGGTAGCGAATCTTGTTTCCC
AAACGTTGTAGTGGAATGAAATAGCTGAAGTGCAGCGGATTACAGCTGTAGGCAGCGAATCCTAT
CTCTTTGGCATTACAGTAGAACAGATTAAAGCTAAAGGTAGCGAATCTGGTTTCCCTGGTGTTGC
AGCGGAGCAAATTAAAGCTGAGGGCAGCAAATCTTACCCCCCTGTCGTTAAGACTGAAAGTAACC
Found at i:22952437 original size:45 final size:46
Alignment explanation
Indices: 22952379--22952745 Score: 159
Period size: 45 Copynumber: 8.4 Consensus size: 46
22952369 GCAAGTCTTA
*
22952379 TCCCTGAAGTTGCAGTGGGA-CAGACTAAAGATGGCAAACCTTATC
1 TCCCTGAAGTTGCAGTGGGAGCAGACTAAAGATAGCAAACCTTATC
** * **
22952424 TCCCTGAAGTTGCAG-CAGAGCAGACTGAAGATAGCAAATTTTATC
1 TCCCTGAAGTTGCAGTGGGAGCAGACTAAAGATAGCAAACCTTATC
* * * * **
22952469 TCCCCGAAGTTGCAGT-GGAGCGGATTGAAGATAGCAAGTCTTATC
1 TCCCTGAAGTTGCAGTGGGAGCAGACTAAAGATAGCAAACCTTATC
* * * ** * **
22952514 TCTCTGAAGTTACAGT-AGAGCA-A--ATCGCAT--CTAGTCTTATC
1 TCCCTGAAGTTGCAGTGGGAGCAGACTAAAG-ATAGCAAACCTTATC
* * * *
22952555 TGCCTGAAGTTGCAGT-GGAGCAGAC-AGAAGAAACCAATCC-TATC
1 TCCCTGAAGTTGCAGTGGGAGCAGACTA-AAGATAGCAAACCTTATC
* * * * **
22952599 TCCCTGAAGTTACAGT-GGAGCAGATTAAA-ACCA-CAGATATTATC
1 TCCCTGAAGTTGCAGTGGGAGCAGACTAAAGA-TAGCAAACCTTATC
* * * * **
22952643 TCTCTGAAGTTGCAGT-AGAGCAGA-T--CGCAT--CCAGTCTTATC
1 TCCCTGAAGTTGCAGTGGGAGCAGACTAAAG-ATAGCAAACCTTATC
* * * * * *
22952684 TCCCTGAAGTTGTAGT-GGAGCATACAAAAGAAATCAATCC-TATC
1 TCCCTGAAGTTGCAGTGGGAGCAGACTAAAGATAGCAAACCTTATC
22952728 TCCCTGAAGTTGCAGTGG
1 TCCCTGAAGTTGCAGTGG
22952746 AGCGGATTAA
Statistics
Matches: 244, Mismatches: 59, Indels: 38
0.72 0.17 0.11
Matches are distributed among these distances:
41 55 0.23
42 2 0.01
43 10 0.04
44 78 0.32
45 99 0.41
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (46 bp):
TCCCTGAAGTTGCAGTGGGAGCAGACTAAAGATAGCAAACCTTATC
Found at i:22952585 original size:86 final size:85
Alignment explanation
Indices: 22952464--22952620 Score: 215
Period size: 86 Copynumber: 1.8 Consensus size: 85
22952454 ATAGCAAATT
* ** * * * *
22952464 TTATCTCCCCGAAGTTGCAGTGGAGCGGATTGAAGATAGCAAGTCTTATCTCTCTGAAGTTACAG
1 TTATCTCCCCGAAGTTGCAGTGGAGCAGACAGAAGAAACCAA-TCCTATCTCCCTGAAGTTACAG
22952529 TAGAGCAAATCGCATCTAGTC
65 TAGAGCAAATCGCATCTAGTC
* *
22952550 TTATCTGCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTACAGT
1 TTATCTCCCCGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTACAGT
*
22952615 GGAGCA
66 AGAGCA
22952621 GATTAAAACC
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
85 26 0.43
86 35 0.57
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (85 bp):
TTATCTCCCCGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTACAGT
AGAGCAAATCGCATCTAGTC
Found at i:22952679 original size:129 final size:128
Alignment explanation
Indices: 22952418--22952801 Score: 475
Period size: 129 Copynumber: 3.0 Consensus size: 128
22952408 GATGGCAAAC
** * * * ** *
22952418 CTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGATAGCAAATTTTATCTCCCCGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGA-AACCAATCCTATCTCCCTGAAGTTGCA
* * * *
22952483 GTGGAGCGGATTGAAGATAGCAAG-TCTTATCTCTCTGAAGTTACAGTAGAGCAAATCGCATCTA
65 GTGGAGCGGATT-AA-A-ACCAAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCA
22952547 GT
127 GT
* *
22952549 CTTATCTGCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTACAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAG
* *
22952614 TGGAGCAGATTAAAACCACAGATATTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGT
66 TGGAGCGGATTAAAACCA-AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGT
* * * *
22952678 CTTATCTCCCTGAAGTTGTAGTGGAGCATACAAAAGAAATCAATCCTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAG
* * * * *
22952743 TGGAGCGGATTAAAATCATAGATCTCATCACTATGAA-TTGCAGTATAGCAGATCGCATC
66 TGGAGCGGATTAAAACCA-AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC
22952802 AAACCTCAGT
Statistics
Matches: 221, Mismatches: 30, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
127 3 0.01
128 24 0.11
129 129 0.58
130 32 0.14
131 33 0.15
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (128 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAG
TGGAGCGGATTAAAACCAAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGT
Found at i:22953478 original size:19 final size:19
Alignment explanation
Indices: 22953440--22953484 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
22953430 GACAAAGAGA
*
22953440 TATTTTTTATTATTTTTTT
1 TATTTTTTATTATTTATTT
22953459 TATTTATTTATT-TTTATTT
1 TATTT-TTTATTATTTATTT
22953478 TATTTTT
1 TATTTTT
22953485 ATTTGATGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 2 0.08
19 16 0.67
20 6 0.25
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (19 bp):
TATTTTTTATTATTTATTT
Found at i:22953497 original size:25 final size:25
Alignment explanation
Indices: 22953442--22953497 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
22953432 CAAAGAGATA
* *
22953442 TTTTTTATTATTTTTTTTATTTATT
1 TTTTTTATTATTATTTTTATTTATG
22953467 TATTTTTATT-TTATTTTTATTTGATG
1 T-TTTTTATTATTATTTTTATTT-ATG
22953493 TTTTT
1 TTTTT
22953498 GCACATTCGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 16 0.59
26 11 0.41
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (25 bp):
TTTTTTATTATTATTTTTATTTATG
Found at i:22954665 original size:17 final size:16
Alignment explanation
Indices: 22954611--22954667 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 16
22954601 ATCCTTTGTA
*
22954611 TATTTTTTATATATAT
1 TATTTTTCATATATAT
*
22954627 TATATTTACATGATA-A-
1 TAT-TTTTCAT-ATATAT
22954643 TATTTTTCATATAATAT
1 TATTTTTCATAT-ATAT
22954660 TATTTTTC
1 TATTTTTC
22954668 TTTCATATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
14 2 0.06
15 7 0.21
16 7 0.21
17 14 0.42
18 3 0.09
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (16 bp):
TATTTTTCATATATAT
Found at i:22956767 original size:38 final size:38
Alignment explanation
Indices: 22956716--22956791 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
22956706 GAAGATGGGA
22956716 GTTAAAATCAACTTCAAAGAGTGATTCCTACAAAAAGT
1 GTTAAAATCAACTTCAAAGAGTGATTCCTACAAAAAGT
22956754 GTTAAAATCAACTTCAAAGAGTGATTCCTACAAAAAGT
1 GTTAAAATCAACTTCAAAGAGTGATTCCTACAAAAAGT
22956792 CTCATCTCAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (38 bp):
GTTAAAATCAACTTCAAAGAGTGATTCCTACAAAAAGT
Found at i:22956776 original size:22 final size:22
Alignment explanation
Indices: 22956716--22956776 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 22
22956706 GAAGATGGGA
22956716 GTTAAAATCAACTTCAAAGAGT
1 GTTAAAATCAACTTCAAAGAGT
* * *
22956738 G----ATTC--CTACAAAAAGT
1 GTTAAAATCAACTTCAAAGAGT
22956754 GTTAAAATCAACTTCAAAGAGT
1 GTTAAAATCAACTTCAAAGAGT
22956776 G
1 G
22956777 ATTCCTACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 12
0.60 0.13 0.27
Matches are distributed among these distances:
16 10 0.37
18 3 0.11
20 3 0.11
22 11 0.41
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (22 bp):
GTTAAAATCAACTTCAAAGAGT
Found at i:22964686 original size:4 final size:4
Alignment explanation
Indices: 22964677--22964704 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
22964667 TTGTTGAGTT
22964677 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
22964705 AGAGGTTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:22965304 original size:30 final size:30
Alignment explanation
Indices: 22965270--22965332 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
22965260 ACTTATTTTA
* *
22965270 TTGTTAATCTTGTTATTATTTTAAAGGCGT
1 TTGTTAATCTTGTTATTAATTTAAAGGCAT
* *
22965300 TTGTTAATTTTGTTATTAATTTAGAGGCAT
1 TTGTTAATCTTGTTATTAATTTAAAGGCAT
22965330 TTG
1 TTG
22965333 CTTGTTAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.24, C:0.05, G:0.17, T:0.54
Consensus pattern (30 bp):
TTGTTAATCTTGTTATTAATTTAAAGGCAT
Found at i:22965450 original size:18 final size:18
Alignment explanation
Indices: 22965415--22965454 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
22965405 GAAATATTTA
*
22965415 TTTTGATGTTTTTAATAT
1 TTTTGATGTTTATAATAT
22965433 TTTTGATGTATTATATATAT
1 TTTTGATGT-TTATA-ATAT
22965453 TT
1 TT
22965455 AAAAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (18 bp):
TTTTGATGTTTATAATAT
Found at i:22965470 original size:11 final size:11
Alignment explanation
Indices: 22965454--22965484 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
22965444 TATATATATT
22965454 TAAAAATTATA
1 TAAAAATTATA
*
22965465 TAAAAATAATA
1 TAAAAATTATA
22965476 TAAAAATTA
1 TAAAAATTA
22965485 ATACGGGCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:22968508 original size:2 final size:2
Alignment explanation
Indices: 22968501--22968527 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22968491 TCTTCCTCTT
22968501 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
22968528 CTTGTTGGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22972667 original size:3 final size:3
Alignment explanation
Indices: 22972659--22972689 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
22972649 ATAAATTTGA
22972659 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
22972690 TACTCATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:22972751 original size:17 final size:18
Alignment explanation
Indices: 22972724--22972757 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
22972714 CCAATTTTGT
22972724 TATATATATATACATTTC
1 TATATATATATACATTTC
22972742 TATA-ATATATACATTT
1 TATATATATATACATTT
22972758 ATACACGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TATATATATATACATTTC
Found at i:22973207 original size:39 final size:40
Alignment explanation
Indices: 22973103--22973209 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 40
22973093 GTTTGGACAA
* *
22973103 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCATCACAT
1 AAAACGCCGCTAAAAATCAAGCATTAGCGACGCATCACAT
* *
22973143 AAAACGCCGCTAAAGATCAAGCATTAGCGACGCTTTC-C-T
1 AAAACGCCGCTAAAAATCAAGCATTAGCGACGC-ATCACAT
*
22973182 AAAAGCGCCGCTAAAAAT-AATCATTAGC
1 AAAA-CGCCGCTAAAAATCAAGCATTAGC
22973210 TGCAAAAACG
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
39 14 0.24
40 43 0.73
41 2 0.03
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.18
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCAAGCATTAGCGACGCATCACAT
Found at i:22973375 original size:41 final size:40
Alignment explanation
Indices: 22973264--22973376 Score: 138
Period size: 41 Copynumber: 2.8 Consensus size: 40
22973254 TACCTTTCGG
*
22973264 GGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCA
1 GGCTTTAGCGGCGTTTTTCGAAAAGCGCCGCTAATGCTCA
* * * *
22973304 GATCTTTAGCGGC-ATTTTCCAAGAAACGCCGCTAATGCTCGA
1 G-GCTTTAGCGGCGTTTTTCGAA-AAGCGCCGCTAATGCTC-A
*
22973346 GGCTTTAGCGGCGTTTTTTGAAAAGCGCCGC
1 GGCTTTAGCGGCGTTTTTCGAAAAGCGCCGC
22973377 AAAACATTTT
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
40 7 0.12
41 44 0.75
42 8 0.14
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.27
Consensus pattern (40 bp):
GGCTTTAGCGGCGTTTTTCGAAAAGCGCCGCTAATGCTCA
Found at i:22973520 original size:26 final size:26
Alignment explanation
Indices: 22973472--22973522 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
22973462 AAAATGGATA
** * *
22973472 AATTTGAAATAATGACACGTAGAAAT
1 AATTTGAAATAAAAAAACATAGAAAT
22973498 AATTTGAAATAAAAAAACATAGAAA
1 AATTTGAAATAAAAAAACATAGAAA
22973523 AATATTTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (26 bp):
AATTTGAAATAAAAAAACATAGAAAT
Found at i:22973813 original size:14 final size:15
Alignment explanation
Indices: 22973785--22973814 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22973775 AAGGTTTATA
22973785 GATTATGGAATTAGG
1 GATTATGGAATTAGG
22973800 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
22973814 G
1 G
22973815 TTTCTGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:22974001 original size:82 final size:82
Alignment explanation
Indices: 22973886--22974039 Score: 229
Period size: 82 Copynumber: 1.9 Consensus size: 82
22973876 GAGTTAAGGA
* * *
22973886 TTTAGGGTTTAAATTAATTAGTGTGTTTTAATTTATTTATTAAATAATGTTTAGGGGTTAGGGAT
1 TTTAGGATTTAAATTAATTAGAGTGTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGGGAT
*
22973951 TTGGGGTCGGGTTAGGG
66 TAGGGGTCGGGTTAGGG
* * *
22973968 TTTAGGATTTAGATTAATTAGAGT-TTTTAAATTTATATATTAAATAATGTTTGGGGGTTAGGGG
1 TTTAGGATTTAAATTAATTAGAGTGTTTT-AATTTATATATTAAATAATGTTTAGGGGTTAGGGA
22974032 TTAGGGGT
65 TTAGGGGT
22974040 TAGGGATTTG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
81 4 0.06
82 60 0.94
ACGTcount: A:0.27, C:0.01, G:0.28, T:0.45
Consensus pattern (82 bp):
TTTAGGATTTAAATTAATTAGAGTGTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGGGAT
TAGGGGTCGGGTTAGGG
Found at i:22974033 original size:7 final size:7
Alignment explanation
Indices: 22974021--22974054 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
22974011 ATAATGTTTG
22974021 GGGGTTA
1 GGGGTTA
22974028 GGGGTTA
1 GGGGTTA
22974035 GGGGTTA
1 GGGGTTA
* *
22974042 GGGATTT
1 GGGGTTA
22974049 GGGGTT
1 GGGGTT
22974055 GGGTTAGAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.12, C:0.00, G:0.56, T:0.32
Consensus pattern (7 bp):
GGGGTTA
Found at i:22974053 original size:96 final size:95
Alignment explanation
Indices: 22973936--22974148 Score: 313
Period size: 96 Copynumber: 2.2 Consensus size: 95
22973926 TAAATAATGT
*
22973936 TTAGGGGTTAGGGATTTGGGGTCGGGTTAGGGTTT-AGGATTTAGATTAATTAGAGTTTTTAAAT
1 TTAGGGGTTAGGGATTTGGGGTCGGGTTAGAGTTTGA-GATTTAGATTAATTAGAGTTTTTAAAT
* *
22974000 TTATATATTAAATAATGTTTGGGGGTTAGGGG
65 TTATATATT-AATAAGGTTTAGGGGTTAGGGG
* *
22974032 TTAGGGGTTAGGGATTTGGGGTTGGGTTAGAGTTTGAGATTTAGATTAATTAGTGTTTTTAAATT
1 TTAGGGGTTAGGGATTTGGGGTCGGGTTAGAGTTTGAGATTTAGATTAATTAGAGTTTTTAAATT
*
22974097 TATATATTAATAAGGTTTAGGGGTTTGGGG
66 TATATATTAATAAGGTTTAGGGGTTAGGGG
* *
22974127 TTTGGGATTTAGGG-TTTGGGGT
1 TTAGGG-GTTAGGGATTTGGGGT
22974149 TAAGAGTTGG
Statistics
Matches: 107, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
95 32 0.30
96 74 0.69
97 1 0.01
ACGTcount: A:0.23, C:0.00, G:0.34, T:0.42
Consensus pattern (95 bp):
TTAGGGGTTAGGGATTTGGGGTCGGGTTAGAGTTTGAGATTTAGATTAATTAGAGTTTTTAAATT
TATATATTAATAAGGTTTAGGGGTTAGGGG
Found at i:22974062 original size:82 final size:82
Alignment explanation
Indices: 22973898--22974062 Score: 201
Period size: 82 Copynumber: 2.0 Consensus size: 82
22973888 TAGGGTTTAA
* * * *
22973898 ATTAATTAGTGTGTTTTAATTTATTTATTAAATAATGTTTAGGGGTTAGGGATTTGGGGTCGGGT
1 ATTAATTAGAGTGTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGGGATTAGGGGTAGGGT
* *
22973963 TAGGGTTTAGGATTTAG
66 TAGGGGTTAGGAGTTAG
* *
22973980 ATTAATTAGAGT-TTTTAAATTTATATATTAAATAATGTTTGGGGGTTAGGGGTTAGGGGTTAGG
1 ATTAATTAGAGTGTTTT-AATTTATATATTAAATAATGTTTAGGGGTTAGGGATTAGGGG-TAGG
*
22974044 GATTTGGGGTT-GG-GTTAG
64 G-TTAGGGGTTAGGAGTTAG
22974062 A
1 A
22974063 GTTTGAGATT
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
81 4 0.06
82 54 0.76
83 6 0.08
84 7 0.10
ACGTcount: A:0.25, C:0.01, G:0.31, T:0.43
Consensus pattern (82 bp):
ATTAATTAGAGTGTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGGGATTAGGGGTAGGGT
TAGGGGTTAGGAGTTAG
Found at i:22974128 original size:7 final size:7
Alignment explanation
Indices: 22974110--22974149 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
22974100 ATATTAATAA
22974110 GGTTTAGG
1 GGTTT-GG
22974118 GGTTTGG
1 GGTTTGG
22974125 GGTTTGG
1 GGTTTGG
* *
22974132 GATTTAG
1 GGTTTGG
22974139 GGTTTGG
1 GGTTTGG
22974146 GGTT
1 GGTT
22974150 AAGAGTTGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 23 0.82
8 5 0.18
ACGTcount: A:0.07, C:0.00, G:0.50, T:0.42
Consensus pattern (7 bp):
GGTTTGG
Found at i:22974143 original size:14 final size:14
Alignment explanation
Indices: 22974110--22974171 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
22974100 ATATTAATAA
* *
22974110 GGTTTAGGGGTTTGG
1 GGTTT-GGGATTTAG
22974125 GGTTTGGGATTTAG
1 GGTTTGGGATTTAG
* *
22974139 GGTTTGGGGTTAAG
1 GGTTTGGGATTTAG
*
22974153 AG-TTGGTGATTTAG
1 GGTTTGG-GATTTAG
22974167 GGTTT
1 GGTTT
22974172 AGAGATTCGG
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
13 4 0.11
14 26 0.70
15 7 0.19
ACGTcount: A:0.13, C:0.00, G:0.45, T:0.42
Consensus pattern (14 bp):
GGTTTGGGATTTAG
Found at i:22975592 original size:19 final size:19
Alignment explanation
Indices: 22975568--22975614 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
22975558 ATGGAATCTG
22975568 TTATAAATTAGAATGCCTA
1 TTATAAATTAGAATGCCTA
*
22975587 TTATAAACTAGAATGCCTA
1 TTATAAATTAGAATGCCTA
22975606 TTATAAATT
1 TTATAAATT
22975615 TTGGTTTCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.38
Consensus pattern (19 bp):
TTATAAATTAGAATGCCTA
Found at i:22976045 original size:8 final size:8
Alignment explanation
Indices: 22976032--22976056 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
22976022 TATATCCCCT
22976032 TGGTTAAA
1 TGGTTAAA
22976040 TGGTTAAA
1 TGGTTAAA
22976048 TGGTTAAA
1 TGGTTAAA
22976056 T
1 T
22976057 TTTTTTTCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (8 bp):
TGGTTAAA
Found at i:22978699 original size:43 final size:43
Alignment explanation
Indices: 22978651--22978747 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 43
22978641 ATTATGTTTT
* * **
22978651 TAGCGGCGTTTGT-GAAAAAAGCGTCGCTAAAGATCATGGTCTA
1 TAGCGGCGTTTCTGGAAAAAA-CGACGCTAAAGATCATGACCTA
* * *
22978694 TAGCGGCGTTTCTGGGAAAAACGACGCTAAAGGTCATGACCTT
1 TAGCGGCGTTTCTGGAAAAAACGACGCTAAAGATCATGACCTA
22978737 TAGCGGCGTTT
1 TAGCGGCGTTT
22978748 ATTTCTAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
43 40 0.87
44 6 0.13
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTCTGGAAAAAACGACGCTAAAGATCATGACCTA
Found at i:22978853 original size:13 final size:13
Alignment explanation
Indices: 22978832--22978878 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 13
22978822 AAATACTTTT
*
22978832 AGCGGCGCTAAAA
1 AGCGCCGCTAAAA
22978845 AGCGCCGCT--AA
1 AGCGCCGCTAAAA
22978856 AG-G-C-CTAAAA
1 AGCGCCGCTAAAA
22978866 AGCGCCGCTAAAA
1 AGCGCCGCTAAAA
22978879 GCCTGTTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 10
0.72 0.03 0.26
Matches are distributed among these distances:
8 2 0.07
9 1 0.04
10 5 0.18
11 5 0.18
12 1 0.04
13 14 0.50
ACGTcount: A:0.38, C:0.28, G:0.26, T:0.09
Consensus pattern (13 bp):
AGCGCCGCTAAAA
Found at i:22978865 original size:21 final size:21
Alignment explanation
Indices: 22978839--22978882 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
22978829 TTTAGCGGCG
*
22978839 CTAAAAAGCGCCGCTAAAGGC
1 CTAAAAAGCGCCGCTAAAAGC
22978860 CTAAAAAGCGCCGCTAAAAGC
1 CTAAAAAGCGCCGCTAAAAGC
22978881 CT
1 CT
22978883 GTTTTGGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.30, G:0.20, T:0.11
Consensus pattern (21 bp):
CTAAAAAGCGCCGCTAAAAGC
Found at i:22979310 original size:71 final size:71
Alignment explanation
Indices: 22979179--22979320 Score: 203
Period size: 71 Copynumber: 2.0 Consensus size: 71
22979169 CCTTTCAAAC
* ** * * **
22979179 TCAAGTTTTAAATGATCTCGGGAATTAAGAGGAGATCGTGTCCTAACTTACTGGGCATGATCTTT
1 TCAAGTTTTAAATGATCTCGAGAATTAAGAAAAGATCATGTCCTAACTTACTGGACATGATCCCT
22979244 TTTTTA
66 TTTTTA
* *
22979250 TCAAGTTTTAAATGATCTCGAGAATTAAGAAAAGATTATGTCCTAACTTACTGGATATGATCCCT
1 TCAAGTTTTAAATGATCTCGAGAATTAAGAAAAGATCATGTCCTAACTTACTGGACATGATCCCT
22979315 TTTTTA
66 TTTTTA
22979321 ATCTAAGAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (71 bp):
TCAAGTTTTAAATGATCTCGAGAATTAAGAAAAGATCATGTCCTAACTTACTGGACATGATCCCT
TTTTTA
Found at i:22980543 original size:24 final size:24
Alignment explanation
Indices: 22980515--22980561 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
22980505 TAAATATATA
22980515 TTTTTATTTTT-TATTTTAAAATAC
1 TTTTTATTTTTAT-TTTTAAAATAC
22980539 TTTTTATTTTTATTTTTAAAATA
1 TTTTTATTTTTATTTTTAAAATA
22980562 AATTTTTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTTTATTTTTATTTTTAAAATAC
Found at i:22980567 original size:24 final size:24
Alignment explanation
Indices: 22980516--22980567 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
22980506 AAATATATAT
**
22980516 TTTTATTTTTTATTTTAAAATACT
1 TTTTATTTTTTATTTTAAAATAAA
22980540 TTTTA-TTTTTATTTTTAAAATAAA
1 TTTTATTTTTTA-TTTTAAAATAAA
22980564 TTTT
1 TTTT
22980568 TGGTGTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTTATTTTTTATTTTAAAATAAA
Found at i:22981920 original size:16 final size:16
Alignment explanation
Indices: 22981894--22981933 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
22981884 TTGTATGTAC
*
22981894 AAAAAAAATTACATAT
1 AAAATAAATTACATAT
* *
22981910 AGAATAAATTATATAT
1 AAAATAAATTACATAT
22981926 AAAATAAA
1 AAAATAAA
22981934 AAAATTGTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (16 bp):
AAAATAAATTACATAT
Found at i:22985088 original size:30 final size:29
Alignment explanation
Indices: 22985047--22985135 Score: 142
Period size: 30 Copynumber: 3.0 Consensus size: 29
22985037 ATTATGAGAG
22985047 TATCTAGACATATTTGACCAATACTTTATT
1 TATCTAGACATATTTGACC-ATACTTTATT
* *
22985077 TATCTAAACATATTTGATCCATATTTTATT
1 TATCTAGACATATTTGA-CCATACTTTATT
22985107 TATCTAGACATATTTGACCATACTTTATT
1 TATCTAGACATATTTGACCATACTTTATT
22985136 AATTAACTGA
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
29 11 0.20
30 41 0.76
31 2 0.04
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.46
Consensus pattern (29 bp):
TATCTAGACATATTTGACCATACTTTATT
Found at i:22990231 original size:25 final size:24
Alignment explanation
Indices: 22990185--22990231 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
22990175 TCATGAAAAC
* *
22990185 ATTAAATATGAATCATATAAATCA
1 ATTAAATATGAATCAAACAAATCA
*
22990209 ATTAAATTTTGAATCAAACAAAT
1 ATTAAA-TATGAATCAAACAAAT
22990232 AATGCAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.32
25 13 0.68
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (24 bp):
ATTAAATATGAATCAAACAAATCA
Found at i:22993348 original size:10 final size:10
Alignment explanation
Indices: 22993333--22993370 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
22993323 TAATCATTTG
22993333 AAAATTATTA
1 AAAATTATTA
*
22993343 AAAATTAATA
1 AAAATTATTA
*
22993353 TAAATTATTA
1 AAAATTATTA
22993363 AAAATTAT
1 AAAATTAT
22993371 AATAAAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
AAAATTATTA
Found at i:22993381 original size:20 final size:20
Alignment explanation
Indices: 22993333--22993381 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
22993323 TAATCATTTG
22993333 AAAATTATTAAAAATTAATAT
1 AAAA-TATTAAAAATTAATAT
*
22993354 AAATTATTAAAAATT-ATAAT
1 AAAATATTAAAAATTAAT-AT
22993374 AAAATATT
1 AAAATATT
22993382 CGAATTGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATATTAAAAATTAATAT
Found at i:22993846 original size:32 final size:31
Alignment explanation
Indices: 22993784--22993849 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
22993774 TTTTTTATAC
*
22993784 TTTTTTATAATTGTTAAGAATTTCTAAATTA
1 TTTTTTATAATTGTTAAGAATTTATAAATTA
* *
22993815 TTTTTTATATATTTTTAATAATGTTAT-AATTA
1 TTTTTTATA-ATTGTTAAGAAT-TTATAAATTA
22993847 TTT
1 TTT
22993850 GAAAAACCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 9 0.30
32 18 0.60
33 3 0.10
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.61
Consensus pattern (31 bp):
TTTTTTATAATTGTTAAGAATTTATAAATTA
Found at i:22994393 original size:8 final size:9
Alignment explanation
Indices: 22994368--22994413 Score: 74
Period size: 9 Copynumber: 5.0 Consensus size: 9
22994358 TTTAATTAAT
*
22994368 TTTTCAAAA
1 TTTTAAAAA
22994377 TTTTAAAAA
1 TTTTAAAAA
22994386 TTTTAAAAA
1 TTTTAAAAA
22994395 TTTTAAAAA
1 TTTTAAAAA
22994404 TTTATAAAAA
1 TTT-TAAAAA
22994414 CTATATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
9 29 0.83
10 6 0.17
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:22994442 original size:17 final size:18
Alignment explanation
Indices: 22994420--22994465 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
22994410 AAAACTATAT
22994420 TTAAAAATTA-AAAATCA
1 TTAAAAATTACAAAATCA
*
22994437 TTAAAATTATTACAAAATTA
1 TTAAAA--ATTACAAAATCA
22994457 -TAAAAATTA
1 TTAAAAATTA
22994466 TGAAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 10 0.40
19 9 0.36
20 6 0.24
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAAAAATTACAAAATCA
Found at i:22994455 original size:11 final size:10
Alignment explanation
Indices: 22994373--22994472 Score: 81
Period size: 9 Copynumber: 10.4 Consensus size: 10
22994363 TTAATTTTTC
22994373 AAAATT-TTA
1 AAAATTATTA
22994382 AAAATT-TTA
1 AAAATTATTA
22994391 AAAATT-TTA
1 AAAATTATTA
22994400 AAAATT-TATA
1 AAAATTAT-TA
*
22994410 AAAACTATATTT
1 AAAA-T-TATTA
22994422 AAAA--ATTA
1 AAAATTATTA
*
22994430 AAAATCATT-
1 AAAATTATTA
22994439 AAAATTATTA
1 AAAATTATTA
22994449 CAAAATTA-TA
1 -AAAATTATTA
*
22994459 AAAATTATGA
1 AAAATTATTA
22994469 AAAA
1 AAAA
22994473 AAATATTTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 17
0.79 0.04 0.17
Matches are distributed among these distances:
8 7 0.09
9 40 0.51
10 16 0.21
11 8 0.10
12 6 0.08
13 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (10 bp):
AAAATTATTA
Found at i:22994473 original size:20 final size:20
Alignment explanation
Indices: 22994429--22994473 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
22994419 TTTAAAAATT
* *
22994429 AAAAATCATTAAAATTATTA
1 AAAAATCATAAAAATTATGA
* *
22994449 CAAAATTATAAAAATTATGA
1 AAAAATCATAAAAATTATGA
22994469 AAAAA
1 AAAAA
22994474 AATATTTTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAAATCATAAAAATTATGA
Found at i:22995841 original size:23 final size:23
Alignment explanation
Indices: 22995810--22995885 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
22995800 AGTGTTATTG
22995810 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
22995833 TTCAGTGGTAGCTACGACTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
22995856 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
22995879 ATCAGTG
1 ATCAGTG
22995886 TGGCACTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:22999367 original size:16 final size:16
Alignment explanation
Indices: 22999326--22999369 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
22999316 CACCATGTGG
*
22999326 ATGATTTTGATATTAT
1 ATGATTTTGGTATTAT
22999342 ATGATTTTGGTATTAT
1 ATGATTTTGGTATTAT
22999358 ATGATTTTGGTA
1 ATGATTTTGGTA
22999370 GATGCATCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (16 bp):
ATGATTTTGGTATTAT
Found at i:23000846 original size:18 final size:18
Alignment explanation
Indices: 23000823--23000874 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
23000813 AATTTATATG
*
23000823 AAAATCCCTGAAGGATTT
1 AAAATCCCAGAAGGATTT
23000841 AAAATCCCAGAAGGATTT
1 AAAATCCCAGAAGGATTT
23000859 AAAATCCCAGAAGGAT
1 AAAATCCCAGAAGGAT
23000875 ATAGAGTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.21
Consensus pattern (18 bp):
AAAATCCCAGAAGGATTT
Found at i:23003860 original size:7 final size:7
Alignment explanation
Indices: 23003848--23003872 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23003838 ATTATTATGC
23003848 ATTTCCT
1 ATTTCCT
23003855 ATTTCCT
1 ATTTCCT
23003862 ATTTCCT
1 ATTTCCT
23003869 ATTT
1 ATTT
23003873 TCATTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTCCT
Found at i:23005093 original size:22 final size:22
Alignment explanation
Indices: 23005050--23005100 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
23005040 GCATATATAT
* ** *
23005050 ATAAAATATAGAGTATATAAAA
1 ATAAAAAATAGAAAATAAAAAA
23005072 ATAAAAAATAGAAAATAAAAAA
1 ATAAAAAATAGAAAATAAAAAA
*
23005094 ATGAAAA
1 ATAAAAA
23005101 CGTATGTATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.20
Consensus pattern (22 bp):
ATAAAAAATAGAAAATAAAAAA
Found at i:23012966 original size:42 final size:42
Alignment explanation
Indices: 23012902--23013171 Score: 264
Period size: 42 Copynumber: 6.4 Consensus size: 42
23012892 GCGTTTACAG
*
23012902 AAAAAACACCGCTAAA-AGTCATGTTCTTTAGCGGCGCTCAAT
1 AAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTCAAT
* * * *
23012944 AAAAAACGCCGCTAAAGATCATGTTCTTTAGTGGTGCTTAAA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTCAAT
23012986 AAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCG-TCTAGA-
1 AAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTC-A-AT
* * *
23013029 AAAAAACGCCGCTAAAGATCATGTTCTGTAGCGACGCTTAACT
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTCAA-T
*
23013072 -AAAAACGCCGTTAAAGATCATGTTCTTTAGCGGCGCTTTC-AT
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC--TCAAT
* * * * * **
23013114 CACAAGCGCCGCGAAA-AGTAATGTTCTTTAGCGGCGCTTTTAT
1 AAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGC-TCAAT
*
23013157 AAAAAACGCCACTAA
1 AAAAAACGCCGCTAA
23013172 TTTTGGGATT
Statistics
Matches: 190, Mismatches: 26, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
41 1 0.01
42 108 0.57
43 79 0.42
44 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTCAAT
Found at i:23013010 original size:85 final size:85
Alignment explanation
Indices: 23012902--23013108 Score: 287
Period size: 85 Copynumber: 2.4 Consensus size: 85
23012892 GCGTTTACAG
*
23012902 AAAAAACACCGCTAAA-AGTCATGTTCTTTAGCGGCGCTC-A-ATAAAAAACGCCGCTAAAGATC
1 AAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTCTAGA-AAAAAACGCCGCTAAAGATC
* * **
23012964 ATGTTCTTTAGTGGTGCTTAAA
64 ATGTTCTGTAGCGACGCTTAAA
23012986 AAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCG-TCTAGAAAAAAACGCCGCTAAAGATCA
1 AAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTCTAGAAAAAAACGCCGCTAAAGATCA
*
23013050 TGTTCTGTAGCGACGCTTAAC
65 TGTTCTGTAGCGACGCTTAAA
* *
23013071 TAAAAACGCCGTTAAAGATCATGTTCTTTAGCGGCGCT
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCT
23013109 TTCATCACAA
Statistics
Matches: 110, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
84 37 0.34
85 71 0.65
86 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (85 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTCTAGAAAAAAACGCCGCTAAAGATCAT
GTTCTGTAGCGACGCTTAAA
Found at i:23013124 original size:85 final size:85
Alignment explanation
Indices: 23012902--23013152 Score: 280
Period size: 85 Copynumber: 3.0 Consensus size: 85
23012892 GCGTTTACAG
*
23012902 AAAAA-ACACCGCTAAA-AGTCATGTTCTTTAGCGGCGC-TCAATAAAAAACGCCGCTAAAGATC
1 AAAAAGACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTC-ATAAAAAACGCCGCTAAAGATC
* *
23012964 ATGTTCTTTAGTGGTGCTTAAA
64 ATGTTCTTTAGCGGCGCTTAAA
**
23012986 AAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGTCTAGA-AAAAAACGCCGCTAAAGATCA
1 AAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCG-CTTCATAAAAAACGCCGCTAAAGATCA
* * *
23013050 TGTTCTGTAGCGACGCTTAAC
65 TGTTCTTTAGCGGCGCTTAAA
* * * * * * *
23013071 TAAAA-ACGCCGTTAAAGATCATGTTCTTTAGCGGCGCTTTCATCACAAGCGCCGCGAAA-AGTA
1 AAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TTCATAAAAAACGCCGCTAAAGA-TC
23013134 ATGTTCTTTAGCGGCGCTT
64 ATGTTCTTTAGCGGCGCTT
23013153 TTATAAAAAA
Statistics
Matches: 141, Mismatches: 19, Indels: 13
0.82 0.11 0.08
Matches are distributed among these distances:
83 1 0.01
84 38 0.27
85 99 0.70
86 3 0.02
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (85 bp):
AAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTCATAAAAAACGCCGCTAAAGATCAT
GTTCTTTAGCGGCGCTTAAA
Found at i:23013138 original size:127 final size:127
Alignment explanation
Indices: 23012902--23013149 Score: 315
Period size: 127 Copynumber: 2.0 Consensus size: 127
23012892 GCGTTTACAG
* *
23012902 AAAAAACACCGCTAAAAGTCATGTTCTTTAGCGGCGCTCAATAAAAAACGCCGCTAAAGATCATG
1 AAAAAACACCGCTAAAAGTCATGTTCTGTAGCGACGCTCAATAAAAAACGCCGCTAAAGATCATG
* * * *
23012967 TTCTTTAGTGGTGCTTAAAAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGTCTAGA
66 TTCTTTAGCGGCGCTTAAAAAAAAGACGCCGCAAAAGATAATGTTCTTTAGCGGCGTCTAGA
* * *
23013029 AAAAAACGCCGCT-AAAGATCATGTTCTGTAGCGACGCTTAACT-AAAAACGCCGTTAAAGATCA
1 AAAAAACACCGCTAAAAG-TCATGTTCTGTAGCGACGCTCAA-TAAAAAACGCCGCTAAAGATCA
* ** *
23013092 TGTTCTTTAGCGGCGCTTTCATCACAAG-CGCCGCGAAAAG-TAATGTTCTTTAGCGGCG
64 TGTTCTTTAGCGGCGC-TTAAAAAAAAGACGCCGC-AAAAGATAATGTTCTTTAGCGGCG
23013150 CTTTTATAAA
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
126 4 0.04
127 88 0.85
128 12 0.12
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (127 bp):
AAAAAACACCGCTAAAAGTCATGTTCTGTAGCGACGCTCAATAAAAAACGCCGCTAAAGATCATG
TTCTTTAGCGGCGCTTAAAAAAAAGACGCCGCAAAAGATAATGTTCTTTAGCGGCGTCTAGA
Found at i:23013582 original size:21 final size:21
Alignment explanation
Indices: 23013556--23013623 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
23013546 CTTCTCTTGT
*
23013556 TGCTTCTCGCGCTGTAGCCTC
1 TGCTTCTCGCGCTGCAGCCTC
**
23013577 TGCTTCTCTTGCTGCAGCCTC
1 TGCTTCTCGCGCTGCAGCCTC
* * * *
23013598 TGCTTCCCTCGTTGCCGCCTC
1 TGCTTCTCGCGCTGCAGCCTC
23013619 TGCTT
1 TGCTT
23013624 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.40, G:0.21, T:0.37
Consensus pattern (21 bp):
TGCTTCTCGCGCTGCAGCCTC
Found at i:23016459 original size:9 final size:9
Alignment explanation
Indices: 23016447--23017597 Score: 479
Period size: 9 Copynumber: 129.2 Consensus size: 9
23016437 ATTAATTAAA
23016447 TTATGTAAG
1 TTATGTAAG
*
23016456 TTATGTACG
1 TTATGTAAG
23016465 TGTATGT-A-
1 T-TATGTAAG
23016473 TTATGTAAG
1 TTATGTAAG
23016482 TTATGT-A-
1 TTATGTAAG
*
23016489 TTAAGTAAG
1 TTATGTAAG
*
23016498 CTATGTAAG
1 TTATGTAAG
*
23016507 TTGTGT-A-
1 TTATGTAAG
23016514 TTATGTAAG
1 TTATGTAAG
23016523 TTATGT-A-
1 TTATGTAAG
*
23016530 TTAAGTAAG
1 TTATGTAAG
* **
23016539 CTATGCCAG
1 TTATGTAAG
* *
23016548 TTGTG-CA-
1 TTATGTAAG
23016555 TTATGTAAG
1 TTATGTAAG
23016564 TTATGTAAG
1 TTATGTAAG
**
23016573 TTATCAAAG
1 TTATGTAAG
* *
23016582 TAATGTACG
1 TTATGTAAG
23016591 TTATGT-AG
1 TTATGTAAG
23016599 -T-TGTAAG
1 TTATGTAAG
*
23016606 TTAT-TATG
1 TTATGTAAG
23016614 TATTATGTAAG
1 --TTATGTAAG
23016625 TTATGTAAG
1 TTATGTAAG
23016634 TTAAATGT-A-
1 TT--ATGTAAG
*
23016643 TTATGTAGG
1 TTATGTAAG
23016652 TTATGTAAG
1 TTATGTAAG
*
23016661 TTGTGTAAG
1 TTATGTAAG
* *
23016670 ATATTTAAG
1 TTATGTAAG
23016679 TTATGTAAG
1 TTATGTAAG
*
23016688 TTTTGT-A-
1 TTATGTAAG
23016695 TTATGTAAG
1 TTATGTAAG
23016704 TTATGTAAG
1 TTATGTAAG
**
23016713 TTATCAAAG
1 TTATGTAAG
* *
23016722 TAATGTATG
1 TTATGTAAG
23016731 TTATGTAAG
1 TTATGTAAG
23016740 -T-TGTAAG
1 TTATGTAAG
*
23016747 TTAT-TATG
1 TTATGTAAG
23016755 TATTATGTAAG
1 --TTATGTAAG
*
23016766 TTATATAAG
1 TTATGTAAG
23016775 TTATGTAAG
1 TTATGTAAG
23016784 TTAAATGT-A-
1 TT--ATGTAAG
*
23016793 TTATGTAGG
1 TTATGTAAG
23016802 TTATGTAAG
1 TTATGTAAG
*
23016811 TTGTGTAAG
1 TTATGTAAG
* *
23016820 ATATTTAAG
1 TTATGTAAG
23016829 TTATGTAAG
1 TTATGTAAG
*
23016838 TTTTGT-A-
1 TTATGTAAG
23016845 TTATGTAAG
1 TTATGTAAG
23016854 TTATGTAAG
1 TTATGTAAG
**
23016863 TTATCAAAG
1 TTATGTAAG
* *
23016872 TAATGTATG
1 TTATGTAAG
23016881 TTATGTAAG
1 TTATGTAAG
23016890 -T-TGTAAG
1 TTATGTAAG
*
23016897 TTAT-TATG
1 TTATGTAAG
23016905 TATTATGTAAG
1 --TTATGTAAG
23016916 TTATGTAAG
1 TTATGTAAG
**
23016925 TTATCAAAG
1 TTATGTAAG
* *
23016934 TAATGTATG
1 TTATGTAAG
23016943 TTATGTAAG
1 TTATGTAAG
23016952 -T-TGTAAG
1 TTATGTAAG
*
23016959 TTAT-TATG
1 TTATGTAAG
23016967 TATTATGTAAG
1 --TTATGTAAG
23016978 TTATGTAAG
1 TTATGTAAG
23016987 TTATGTAAG
1 TTATGTAAG
23016996 TTAAATGT-A-
1 TT--ATGTAAG
*
23017005 TTATGTAGG
1 TTATGTAAG
23017014 TTATGTAAG
1 TTATGTAAG
*
23017023 TTGTGTAAG
1 TTATGTAAG
* *
23017032 ATATTTAAG
1 TTATGTAAG
23017041 TTATGTAAG
1 TTATGTAAG
*
23017050 TTTTGT-A-
1 TTATGTAAG
23017057 TTATGTAAG
1 TTATGTAAG
*
23017066 TTATGTATG
1 TTATGTAAG
*
23017075 CTATGT-A-
1 TTATGTAAG
23017082 TTATGTAAGTTG
1 TTATGTAA---G
*
23017094 TTATGTTA-
1 TTATGTAAG
** *
23017102 TTACATAAC
1 TTATGTAAG
*
23017111 TTATGCAAG
1 TTATGTAAG
*
23017120 TTTACATATAAG
1 -TT--ATGTAAG
* *
23017132 CTTGTAGATAAC
1 -TTAT-G-TAAG
23017144 TTATGTAAG
1 TTATGTAAG
23017153 TTAATATGTAAG
1 -T--TATGTAAG
* *
23017165 TAATAT-A-
1 TTATGTAAG
*
23017172 TTATGTCAG
1 TTATGTAAG
* *
23017181 TTTATATAAA
1 -TTATGTAAG
23017191 TT-T-T---
1 TTATGTAAG
* *
23017195 TTTTATAAG
1 TTATGTAAG
23017204 TTATGT-A-
1 TTATGTAAG
*
23017211 TTATGTAAAT
1 TTATGT-AAG
23017221 TTATGT-A-
1 TTATGTAAG
23017228 TTATGTAAG
1 TTATGTAAG
*
23017237 TTTACATATAAG
1 -TT--ATGTAAG
*
23017249 TTTGTGTGATAG
1 -TTATGT-A-AG
23017261 TTATGTAAG
1 TTATGTAAG
*
23017270 TTTATATAA-
1 -TTATGTAAG
* *
23017279 ATATTAATAAG
1 TTA-T-GTAAG
23017290 TTATGTAAG
1 TTATGTAAG
*
23017299 TTCTTGTACA-
1 TT-ATGTA-AG
* * **
23017309 TACAAATTTTGG
1 T---TATGTAAG
23017321 TTATGTAAG
1 TTATGTAAG
*
23017330 ATATGT-A-
1 TTATGTAAG
*
23017337 TGATGTAAG
1 TTATGTAAG
* *
23017346 TATAT-CACTG
1 T-TATGTA-AG
**
23017356 TTATGTATC
1 TTATGTAAG
*
23017365 TTAT-TTA-
1 TTATGTAAG
* *
23017372 TAAT-T-AT
1 TTATGTAAG
23017379 TTATGTAAG
1 TTATGTAAG
23017388 TTATGTAAG
1 TTATGTAAG
* *
23017397 TTATTTAAT
1 TTATGTAAG
23017406 TTATGTAAG
1 TTATGTAAG
* *
23017415 TTATTTAGAAAAAA
1 TTA--T-G--TAAG
*
23017429 ATATGTAAG
1 TTATGTAAG
23017438 TTATGTACTA-
1 TTATGTA--AG
*
23017448 TTATGTAAA
1 TTATGTAAG
*
23017457 TAATGTAAG
1 TTATGTAAG
*
23017466 TTA-GGAAGG
1 TTATGTAA-G
23017475 TTATGT-A-
1 TTATGTAAG
23017482 TTATGTAAG
1 TTATGTAAG
*
23017491 TTATTTAAG
1 TTATGTAAG
23017500 TTATGTAAG
1 TTATGTAAG
23017509 TTATGTAAG
1 TTATGTAAG
23017518 TTATGTAAG
1 TTATGTAAG
* *
23017527 TTATTTAAT
1 TTATGTAAG
23017536 TTATGTAAG
1 TTATGTAAG
23017545 TTATGTAAG
1 TTATGTAAG
*
23017554 TTATGTAGG
1 TTATGTAAG
*
23017563 CTATGT-A-
1 TTATGTAAG
*
23017570 TTATGTTA-
1 TTATGTAAG
*
23017578 TTATATAAG
1 TTATGTAAG
*
23017587 TTATGCAAG
1 TTATGTAAG
23017596 TT
1 TT
23017598 TATATATTGT
Statistics
Matches: 850, Mismatches: 178, Indels: 228
0.68 0.14 0.18
Matches are distributed among these distances:
4 2 0.00
5 1 0.00
6 5 0.01
7 116 0.14
8 67 0.08
9 498 0.59
10 76 0.09
11 40 0.05
12 41 0.05
14 4 0.00
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:23016550 original size:41 final size:41
Alignment explanation
Indices: 23016469--23016570 Score: 177
Period size: 41 Copynumber: 2.5 Consensus size: 41
23016459 TGTACGTGTA
*
23016469 TGTATTATGTAAGTTATGTATTAAGTAAGCTATGTAAGTTG
1 TGTATTATGTAAGTTATGTATTAAGTAAGCTATGCAAGTTG
*
23016510 TGTATTATGTAAGTTATGTATTAAGTAAGCTATGCCAGTTG
1 TGTATTATGTAAGTTATGTATTAAGTAAGCTATGCAAGTTG
*
23016551 TGCATTATGTAAGTTATGTA
1 TGTATTATGTAAGTTATGTA
23016571 AGTTATCAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.43
Consensus pattern (41 bp):
TGTATTATGTAAGTTATGTATTAAGTAAGCTATGCAAGTTG
Done.