Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008555.1 Hibiscus syriacus cultivar Beakdansim tig00111460_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 290565
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:743 original size:22 final size:21
Alignment explanation
Indices: 714--774 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
704 TTTTTTTTCT
714 CAAAAAAACAAAAAAATTAAAAA
1 CAAAAAAACAAAAAAA--AAAAA
* **
737 CAAAAAAGGCAAAAAAAAAAGG
1 CAAAAAA-ACAAAAAAAAAAAA
759 CAAAAAAACAAAAAAA
1 CAAAAAAACAAAAAAA
775 GAGCCAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 8 0.24
22 10 0.30
23 7 0.21
24 8 0.24
ACGTcount: A:0.80, C:0.10, G:0.07, T:0.03
Consensus pattern (21 bp):
CAAAAAAACAAAAAAAAAAAA
Found at i:750 original size:15 final size:15
Alignment explanation
Indices: 717--764 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
707 TTTTTCTCAA
***
717 AAAAACAAAAAAATT
1 AAAAACAAAAAAGGC
732 AAAAACAAAAAAGGC
1 AAAAACAAAAAAGGC
747 -AAAA-AAAAAAGGC
1 AAAAACAAAAAAGGC
760 AAAAA
1 AAAAA
765 AACAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 9 0.31
14 8 0.28
15 12 0.41
ACGTcount: A:0.79, C:0.08, G:0.08, T:0.04
Consensus pattern (15 bp):
AAAAACAAAAAAGGC
Found at i:754 original size:13 final size:13
Alignment explanation
Indices: 733--766 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
723 AAAAAAATTA
733 AAAACAAAAAAGGC
1 AAAA-AAAAAAGGC
747 AAAAAAAAAAGGC
1 AAAAAAAAAAGGC
760 AAAAAAA
1 AAAAAAA
767 CAAAAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.79, C:0.09, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGGC
Found at i:792 original size:20 final size:20
Alignment explanation
Indices: 748--785 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
738 AAAAAAGGCA
*
748 AAAAAAAAAGGCAAAAAAAC
1 AAAAAAAAAGCCAAAAAAAC
*
768 AAAAAAAGAGCCAAAAAA
1 AAAAAAAAAGCCAAAAAA
786 GCCAAAATTT
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:0.79, C:0.11, G:0.11, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGCCAAAAAAAC
Found at i:6532 original size:16 final size:16
Alignment explanation
Indices: 6464--6534 Score: 72
Period size: 17 Copynumber: 4.2 Consensus size: 16
6454 ATTCATCCAT
6464 CTAGTTCATTGAATAAA
1 CTAGTTCATT-AATAAA
*
6481 GTTAGTTCATTAATTAAA
1 -CTAGTTCATTAA-TAAA
*
6499 CTAGTTCATTCATCAAA
1 CTAGTTCATTAAT-AAA
6516 CTAG-TCATTTAATAAA
1 CTAGTTCA-TTAATAAA
6532 CTA
1 CTA
6535 ACTCTTAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
16 10 0.22
17 23 0.50
18 13 0.28
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.38
Consensus pattern (16 bp):
CTAGTTCATTAATAAA
Found at i:7827 original size:30 final size:30
Alignment explanation
Indices: 7793--7854 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
7783 CCATTATCAC
**
7793 CACCACACTTCTTTCATTTTTAATCCACTT
1 CACCACACTTCTTTCATTTACAATCCACTT
7823 CACCACACTTCTTTCATTTACAATCCACTT
1 CACCACACTTCTTTCATTTACAATCCACTT
7853 CA
1 CA
7855 ACTTACTCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.39
Consensus pattern (30 bp):
CACCACACTTCTTTCATTTACAATCCACTT
Found at i:9292 original size:222 final size:222
Alignment explanation
Indices: 8906--9329 Score: 731
Period size: 222 Copynumber: 1.9 Consensus size: 222
8896 TCTACCTAGG
* * *
8906 TACCTAGTGTCAATCTAATAGCTCCAGTTCCCATCTACCTTTCCCAACTTCACTTGTCAACTCCT
1 TACCTAGTGTCAATCTAACAGCTCCAGCTCCCATCTACCTATCCCAACTTCACTTGTCAACTCCT
* * * *
8971 CGTACTTCAACTGCTCTCCAGTTAGATTCAGCTATCGTTGAGCTCCTTCAGTTTTTGATTTAGCT
66 AGTACTTCAACTGCTCTCCAGCTAAATTCAGCTATCGTTGAGCTCCTTCAGCTTTTGATTTAGCT
**
9036 CCATTAAGCTCCTTTGAGATAAGTGAGCTATCATAAACCTTGTAAGTGATCTTTGAGCTTCCACA
131 CCATTAAGCTCCTTTGAGATAAGTGAGCTATCATAAACCTTGTAAGCCATCTTTGAGCTTCCACA
9101 CTTGTCTCCTCTAAGATTCCATATGAT
196 CTTGTCTCCTCTAAGATTCCATATGAT
*
9128 TACCTAGTGTCAATCTAACAGCTCCAGCTCCCATCTACCTATCCCAACTTCACTTGTCAGCTCCT
1 TACCTAGTGTCAATCTAACAGCTCCAGCTCCCATCTACCTATCCCAACTTCACTTGTCAACTCCT
* *
9193 AGTACTTCAACTTCTCTCCAGCTAAATTCAGCTCTCGTTGAGCTCCTTCAGCTTTTGATTTAGCT
66 AGTACTTCAACTGCTCTCCAGCTAAATTCAGCTATCGTTGAGCTCCTTCAGCTTTTGATTTAGCT
*
9258 CCATTAAGCTCCTTTGAGATAAGTGAGCTATCATAAACCTTTTAAGCCATCTTTGAGCTTCCACA
131 CCATTAAGCTCCTTTGAGATAAGTGAGCTATCATAAACCTTGTAAGCCATCTTTGAGCTTCCACA
9323 CTTGTCT
196 CTTGTCT
9330 TTAAGCTCCT
Statistics
Matches: 189, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
222 189 1.00
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.35
Consensus pattern (222 bp):
TACCTAGTGTCAATCTAACAGCTCCAGCTCCCATCTACCTATCCCAACTTCACTTGTCAACTCCT
AGTACTTCAACTGCTCTCCAGCTAAATTCAGCTATCGTTGAGCTCCTTCAGCTTTTGATTTAGCT
CCATTAAGCTCCTTTGAGATAAGTGAGCTATCATAAACCTTGTAAGCCATCTTTGAGCTTCCACA
CTTGTCTCCTCTAAGATTCCATATGAT
Found at i:9806 original size:17 final size:18
Alignment explanation
Indices: 9770--9806 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
9760 AGTATGCTCT
9770 TTCACTCAATAAAGCTAG
1 TTCACTCAATAAAGCTAG
9788 TTCACT-AATTAAA-CTAG
1 TTCACTCAA-TAAAGCTAG
9805 TT
1 TT
9807 TATTCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (18 bp):
TTCACTCAATAAAGCTAG
Found at i:14162 original size:21 final size:21
Alignment explanation
Indices: 14103--14163 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
14093 TAAAATGTGT
*
14103 ATCGATGCACTGCTACAATGC
1 ATCGATGCACTGCTACAGTGC
*
14124 ATCGATACACTGCTACAGTGC
1 ATCGATGCACTGCTACAGTGC
14145 ATCGATGCACTGCTACAGT
1 ATCGATGCACTGCTACAGT
14164 AATTTCCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (21 bp):
ATCGATGCACTGCTACAGTGC
Found at i:14516 original size:44 final size:44
Alignment explanation
Indices: 14439--14627 Score: 297
Period size: 44 Copynumber: 4.3 Consensus size: 44
14429 AATTTCTTAT
* *
14439 CAATATACATACCATTTAATCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTAC
*
14484 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTAATTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
*
14528 CAATATACTTACCATTATTCCATAAGCTTGTAAGCTTATTTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
* * * *
14572 CAATATACTTACTATAATTTCATAAGCTCGTAAGATTATTTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
14616 CAATATACTTAC
1 CAATATACTTAC
14628 TATAATTTAC
Statistics
Matches: 134, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
44 121 0.90
45 13 0.10
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (44 bp):
CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
Found at i:14952 original size:59 final size:59
Alignment explanation
Indices: 14776--15336 Score: 432
Period size: 59 Copynumber: 9.5 Consensus size: 59
14766 ACTTAATATA
* * * *
14776 ATTTTCTTCTCATTTTAGCACACAAAGTG-TCGTA--TGCGAGAATCCATAC-CATTAGTATG
1 ATTTCCTTATCATTTTAGCACACATAGTGCTC-TATCTG-GA-AATCCATACAC-TCAGTATG
* * * * * *
14835 A-TTCCTTTACCAGTTTTAGCACATGA-AGTGCCCTATATGAAAATCCATACTA-TTAGTATG
1 ATTTCC-TTATCA-TTTTAGCACA-CATAGTGCTCTATCTGGAAATCCATAC-ACTCAGTATG
* * * * * *
14895 ATTTCCTTATCCTTGTAGCACCCATAGTGTTTTTTCTGGAAATCCATACACTCAGTATG
1 ATTTCCTTATCATTTTAGCACACATAGTGCTCTATCTGGAAATCCATACACTCAGTATG
* * * * * * * * *
14954 ATTCCCTTACCATTTTAGCACATATAATGCCCTATCTGGAAATTCATATATTCAATATG
1 ATTTCCTTATCATTTTAGCACACATAGTGCTCTATCTGGAAATCCATACACTCAGTATG
* *
15013 ATTTCCTTATCATTTTAGCACAC-TCAGTGCTCCATATGGAAATCCATACACTCAGTATG
1 ATTTCCTTATCATTTTAGCACACAT-AGTGCTCTATCTGGAAATCCATACACTCAGTATG
* * * *
15072 ATTTCCTTATCATTTTAGCACAC-TCAGTACTCCATATGGAAATTCATACACTCAGTATG
1 ATTTCCTTATCATTTTAGCACACAT-AGTGCTCTATCTGGAAATCCATACACTCAGTATG
* * * * * * * *
15131 ATTCCCTTACCATTTTAGCACATATAATGGC-CTATC-GTGAAGTCCTTATACTCAATATG
1 ATTTCCTTATCATTTTAGCACACATAGT-GCTCTATCTG-GAAATCCATACACTCAGTATG
*
15190 ATTTCCTTATCATTTTAGCACAC-TCAGTGCTCCATAT-TGAAAATCCATACACTCAGTATG
1 ATTTCCTTATCATTTTAGCACACAT-AGTGCT-C-TATCTGGAAATCCATACACTCAGTATG
* * * ** *
15250 ATTTCCTTATCATTTTAACACAC-TCAGTGCT-TCATATGGAATTTTATACACTCAATATG
1 ATTTCCTTATCATTTTAGCACACAT-AGTGCTCT-ATCTGGAAATCCATACACTCAGTATG
* *
15309 ATTTCATTATCATTTTAGCACATATAGT
1 ATTTCCTTATCATTTTAGCACACATAGT
15337 TCCATTTGGT
Statistics
Matches: 403, Mismatches: 76, Indels: 46
0.77 0.14 0.09
Matches are distributed among these distances:
57 1 0.00
58 12 0.03
59 289 0.72
60 88 0.22
61 11 0.03
62 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (59 bp):
ATTTCCTTATCATTTTAGCACACATAGTGCTCTATCTGGAAATCCATACACTCAGTATG
Found at i:15079 original size:177 final size:177
Alignment explanation
Indices: 14831--15334 Score: 624
Period size: 177 Copynumber: 2.8 Consensus size: 177
14821 ATACCATTAG
* * *
14831 TATGA-TTCCTTTACCAGTTTTAGCACA-TGAAGTGC-CCTATATGAAAATCCATACTA-TTAGT
1 TATGATTTCC-TTATCA-TTTTAGCACACT-CAGTGCTCC-ATATGAAAATCCATAC-ACTCAGT
* * ** *** *
14892 ATGATTTCCTTATCCTTGTAGCACCCAT-AGTGTTTTTTCTGGAAATCCATACACTCAGTATGAT
61 ATGATTTCCTTATCATTGTAGCACAC-TCAGTACTCCATATGGAAATCCATACACTCAGTATGAT
* *
14956 TCCCTTACCATTTTAGCACATATAATGCCCTATC-TGGAAATTCATATATTCAA
125 TCCCTTACCATTTTAGCACATATAATGCCCTATCGT-GAAATCCATATACTCAA
*
15009 TATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGAT
1 TATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGAAAATCCATACACTCAGTATGAT
* *
15074 TTCCTTATCATTTTAGCACACTCAGTACTCCATATGGAAATTCATACACTCAGTATGATTCCCTT
66 TTCCTTATCATTGTAGCACACTCAGTACTCCATATGGAAATCCATACACTCAGTATGATTCCCTT
* * *
15139 ACCATTTTAGCACATATAATGGCCTATCGTGAAGTCCTTATACTCAA
131 ACCATTTTAGCACATATAATGCCCTATCGTGAAATCCATATACTCAA
15186 TATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATTGAAAATCCATACACTCAGTATGA
1 TATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATA-TGAAAATCCATACACTCAGTATGA
* * * * * ** * * *
15251 TTTCCTTATCATTTTAACACACTCAGTGCTTCATATGGAATTTTATACACTCAATATGATTTCAT
65 TTTCCTTATCATTGTAGCACACTCAGTACTCCATATGGAAATCCATACACTCAGTATGATTCCCT
*
15316 TATCATTTTAGCACATATA
130 TACCATTTTAGCACATATA
15335 GTTCCATTTG
Statistics
Matches: 290, Mismatches: 29, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
176 2 0.01
177 172 0.59
178 112 0.39
179 4 0.01
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (177 bp):
TATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGAAAATCCATACACTCAGTATGAT
TTCCTTATCATTGTAGCACACTCAGTACTCCATATGGAAATCCATACACTCAGTATGATTCCCTT
ACCATTTTAGCACATATAATGCCCTATCGTGAAATCCATATACTCAA
Found at i:20562 original size:21 final size:21
Alignment explanation
Indices: 20536--20575 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
20526 TAAAATGTGT
20536 ATCGATGCACTGCTACAGTGC
1 ATCGATGCACTGCTACAGTGC
*
20557 ATCGATGCACTTCTACAGT
1 ATCGATGCACTGCTACAGT
20576 AATTTCTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (21 bp):
ATCGATGCACTGCTACAGTGC
Found at i:21088 original size:89 final size:89
Alignment explanation
Indices: 20964--21155 Score: 280
Period size: 89 Copynumber: 2.2 Consensus size: 89
20954 AATTTCTTAT
* * *
20964 CAATATACATACCATTTAATCCATAAGCTCATAAGCTTATTTTACCAATATACTTACCATTACTT
1 CAATATACTTACTATTTAATCCATAAGCTCATAAGCTTAATTTACCAATATACTTACCATTA-TT
*
21029 CTC-TAAGCTTGTAAGCTTATTTTAC
65 C-CATAAGCTCGTAAGCTTATTTTAC
* * *
21054 CAATATACTTACTA-TTATTCCATAAGCTCGTAAGCTTAATTTACCAATATACTTGCCATTATTC
1 CAATATACTTACTATTTAATCCATAAGCTCATAAGCTTAATTTACCAATATACTTACCATTATTC
*
21118 CATAAGCTCGTCAGCTTATTTTAC
66 CATAAGCTCGTAAGCTTATTTTAC
21142 CAATATACTTACTA
1 CAATATACTTACTA
21156 GAATTTTTAC
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
87 1 0.01
88 37 0.40
89 43 0.46
90 12 0.13
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (89 bp):
CAATATACTTACTATTTAATCCATAAGCTCATAAGCTTAATTTACCAATATACTTACCATTATTC
CATAAGCTCGTAAGCTTATTTTAC
Found at i:21097 original size:44 final size:44
Alignment explanation
Indices: 20964--21153 Score: 274
Period size: 44 Copynumber: 4.3 Consensus size: 44
20954 AATTTCTTAT
* * *
20964 CAATATACATACCATTTAATCCATAAGCTCATAAGCTTATTTTAC
1 CAATATACTTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTAC
*
21009 CAATATACTTACCATTACTTCTC-TAAGCTTGTAAGCTTATTTTAC
1 CAATATACTTACCATTA-TTC-CATAAGCTCGTAAGCTTATTTTAC
* *
21054 CAATATACTTACTATTATTCCATAAGCTCGTAAGCTTAATTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
* *
21098 CAATATACTTGCCATTATTCCATAAGCTCGTCAGCTTATTTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
21142 CAATATACTTAC
1 CAATATACTTAC
21154 TAGAATTTTT
Statistics
Matches: 130, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
43 1 0.01
44 77 0.59
45 51 0.39
46 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (44 bp):
CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
Found at i:21166 original size:24 final size:24
Alignment explanation
Indices: 21136--21185 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
21126 CGTCAGCTTA
21136 TTTTACCAATATACTTACTAGAAT
1 TTTTACCAATATACTTACTAGAAT
*
21160 TTTTACCAATATACTTACTATAAT
1 TTTTACCAATATACTTACTAGAAT
21184 TT
1 TT
21186 ACATCACTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.02, T:0.46
Consensus pattern (24 bp):
TTTTACCAATATACTTACTAGAAT
Found at i:25794 original size:11 final size:11
Alignment explanation
Indices: 25762--25804 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
25752 ACTTTATTCA
25762 CTTTTCTTTTT
1 CTTTTCTTTTT
***
25773 CTTTGAATTTT
1 CTTTTCTTTTT
25784 CTTATTCTTTTT
1 CTT-TTCTTTTT
25796 CTTTTCTTT
1 CTTTTCTTT
25805 CTTTTGCACT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.74
Consensus pattern (11 bp):
CTTTTCTTTTT
Found at i:27313 original size:13 final size:12
Alignment explanation
Indices: 27295--27353 Score: 59
Period size: 13 Copynumber: 4.8 Consensus size: 12
27285 ACTATCTGTT
27295 CATCACCATCTTC
1 CATCACCAT-TTC
*
27308 CATCACCATTTT
1 CATCACCATTTC
*
27320 CA-CACCTATAT-
1 CATCACC-ATTTC
27331 CATCACCATCTTC
1 CATCACCAT-TTC
27344 CATCACCATT
1 CATCACCATT
27354 GCATGCCTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
11 8 0.21
12 13 0.33
13 18 0.46
ACGTcount: A:0.27, C:0.41, G:0.00, T:0.32
Consensus pattern (12 bp):
CATCACCATTTC
Found at i:27370 original size:35 final size:35
Alignment explanation
Indices: 27294--27409 Score: 187
Period size: 35 Copynumber: 3.3 Consensus size: 35
27284 TACTATCTGT
*
27294 TCATCACCATCTTCCATCACCATTTTCACACCTATA
1 TCATCACCATCTTCCATCACCA-TTTCACGCCTATA
* *
27330 TCATCACCATCTTCCATCACCATTGCATGCCTATA
1 TCATCACCATCTTCCATCACCATTTCACGCCTATA
*
27365 TCATCACCATCTTCTATCACCATTTCACGCCTATA
1 TCATCACCATCTTCCATCACCATTTCACGCCTATA
27400 TCATCACCAT
1 TCATCACCAT
27410 TACCTTACCA
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 52 0.70
36 22 0.30
ACGTcount: A:0.27, C:0.38, G:0.03, T:0.33
Consensus pattern (35 bp):
TCATCACCATCTTCCATCACCATTTCACGCCTATA
Found at i:29906 original size:59 final size:59
Alignment explanation
Indices: 29803--29931 Score: 168
Period size: 59 Copynumber: 2.2 Consensus size: 59
29793 TGTAGTGCTA
****
29803 TCCCGAATATGACACATAAGGTCGTGCCCACCATCTGTACTAGGTATCCTTAAGTACAG
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATAAACACTAGGTATCCTTAAGTACAG
* * * ** *
29862 TCCCGAATATGACACATAAGGTCGTGCCCGCCATAAACATTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATAAACACTAGGTATCCTTAAGTACAG
29921 TCCCGAATATG
1 TCCCGAATATG
29932 CAGCTTGCTG
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCGTGCCCACCATAAACACTAGGTATCCTTAAGTACAG
Found at i:30664 original size:29 final size:29
Alignment explanation
Indices: 30621--30684 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
30611 AATCCCTCTA
* * *
30621 TTTTCCAAAATTTACGAATTGATCTCCAAC
1 TTTT-CAAAACTTACGAAATGATCCCCAAC
*
30651 TTTTCAAAACTTACGAAATGATCCCCAAT
1 TTTTCAAAACTTACGAAATGATCCCCAAC
30680 TTTTC
1 TTTTC
30685 TAAGACTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 26 0.87
30 4 0.13
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (29 bp):
TTTTCAAAACTTACGAAATGATCCCCAAC
Found at i:38130 original size:30 final size:30
Alignment explanation
Indices: 38096--38159 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
38086 AATCCCTCCA
* * * *
38096 TTTTCCAAAATTTACGAATTGATCTCCAAC
1 TTTTCCAAAACTTACAAAATGATCCCCAAC
*
38126 TTTT-CAAAACTTACAAAATGATCCCCAAT
1 TTTTCCAAAACTTACAAAATGATCCCCAAC
38155 TTTTC
1 TTTTC
38160 TAAGACTTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (30 bp):
TTTTCCAAAACTTACAAAATGATCCCCAAC
Found at i:40310 original size:19 final size:18
Alignment explanation
Indices: 40286--40346 Score: 95
Period size: 19 Copynumber: 3.2 Consensus size: 18
40276 AGGTCAAGTT
40286 AGCTATGAGCTCAGGGGTC
1 AGCTATGAGCTC-GGGGTC
40305 AGCTATGAGCTCGGGGGTC
1 AGCTATGAGCTC-GGGGTC
40324 AGCTATGAGCTCGGTGGTC
1 AGCTATGAGCTCGG-GGTC
40343 AGCT
1 AGCT
40347 GGCAACTTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
18 2 0.05
19 38 0.95
ACGTcount: A:0.18, C:0.21, G:0.38, T:0.23
Consensus pattern (18 bp):
AGCTATGAGCTCGGGGTC
Found at i:47781 original size:20 final size:20
Alignment explanation
Indices: 47756--47800 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
47746 GCTTTCTCTT
**
47756 TTTTTGAATTTCTTCTTTTC
1 TTTTTGAATTTCTGATTTTC
*
47776 TTTTTGATTTTCTGATTTTC
1 TTTTTGAATTTCTGATTTTC
47796 TTTTT
1 TTTTT
47801 TTTTCCTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.09, C:0.11, G:0.07, T:0.73
Consensus pattern (20 bp):
TTTTTGAATTTCTGATTTTC
Found at i:50810 original size:19 final size:20
Alignment explanation
Indices: 50764--50812 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
50754 TAATAAAGGG
50764 AATAATAAT-ATAAGTAATGA
1 AATAA-AATAATAAGTAATGA
50784 AA-ATAAATAATAAG-AATGA
1 AATA-AAATAATAAGTAATGA
50803 AATAAAATAA
1 AATAAAATAA
50813 AGAAAGGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.24
Consensus pattern (20 bp):
AATAAAATAATAAGTAATGA
Found at i:52082 original size:24 final size:25
Alignment explanation
Indices: 52053--52100 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
52043 GAACTATAGT
52053 ATATT-AT-GATAACTTATATCTCAC
1 ATATTAATGGATAACTTATA-CTCAC
*
52077 ATATTAATGGATAAGTTATACTCA
1 ATATTAATGGATAACTTATACTCA
52101 TAATAACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 6 0.29
26 10 0.48
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (25 bp):
ATATTAATGGATAACTTATACTCAC
Found at i:55006 original size:10 final size:9
Alignment explanation
Indices: 54987--55049 Score: 51
Period size: 10 Copynumber: 6.9 Consensus size: 9
54977 TTTTGAATTT
54987 TTCTTTTTC
1 TTCTTTTTC
54996 TTCTCTTTTC
1 TTCT-TTTTC
55006 TTC-TTTTC
1 TTCTTTTTC
**
55014 TGATTTTTC
1 TTCTTTTTC
55023 -TCTTCTTT-
1 TTCTT-TTTC
55031 TGTCTTTTTC
1 T-TCTTTTTC
55041 TTTCTTTTT
1 -TTCTTTTT
55050 GCACTCCAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
8 8 0.19
9 15 0.35
10 19 0.44
11 1 0.02
ACGTcount: A:0.02, C:0.21, G:0.03, T:0.75
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:55026 original size:19 final size:18
Alignment explanation
Indices: 55004--55048 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
54994 TCTTCTCTTT
55004 TCTTCTTTTCTGATTTTTC
1 TCTTCTTTTCT-ATTTTTC
* *
55023 TCTTCTTTTGTCTTTTTC
1 TCTTCTTTTCTATTTTTC
55041 T-TTCTTTT
1 TCTTCTTTT
55049 TGCACTCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 7 0.29
18 7 0.29
19 10 0.42
ACGTcount: A:0.02, C:0.20, G:0.04, T:0.73
Consensus pattern (18 bp):
TCTTCTTTTCTATTTTTC
Found at i:55049 original size:18 final size:18
Alignment explanation
Indices: 54971--55050 Score: 62
Period size: 18 Copynumber: 4.6 Consensus size: 18
54961 CCTTGGCTTG
*
54971 CTTTCTTTTTGAATTTTT
1 CTTTCTTTTTGTATTTTT
* * *
54989 CTTT-TTCTTCT-CTTTT
1 CTTTCTTTTTGTATTTTT
55005 C-TTCTTTTCTG-ATTTTT
1 CTTTCTTTT-TGTATTTTT
*
55022 CTCTTC-TTTTGTCTTTTT
1 CT-TTCTTTTTGTATTTTT
55040 CTTTCTTTTTG
1 CTTTCTTTTTG
55051 CACTCCAATT
Statistics
Matches: 47, Mismatches: 8, Indels: 14
0.68 0.12 0.20
Matches are distributed among these distances:
15 2 0.04
16 8 0.17
17 15 0.32
18 19 0.40
19 3 0.06
ACGTcount: A:0.04, C:0.19, G:0.05, T:0.72
Consensus pattern (18 bp):
CTTTCTTTTTGTATTTTT
Found at i:55350 original size:19 final size:20
Alignment explanation
Indices: 55304--55352 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
55294 TTAATAAAAG
55304 AATAATAAT-ATAAGTAATGA
1 AATAA-AATAATAAGTAATGA
55324 AA-ATAAATAATAAG-AATGA
1 AATA-AAATAATAAGTAATGA
55343 AATAAAATAA
1 AATAAAATAA
55353 AGAAAGGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.24
Consensus pattern (20 bp):
AATAAAATAATAAGTAATGA
Found at i:56672 original size:15 final size:16
Alignment explanation
Indices: 56652--56694 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
56642 AGTTATCATC
56652 ATAATAACTATAGAT-
1 ATAATAACTATAGATG
* *
56667 ATAATAAATGTAGATG
1 ATAATAACTATAGATG
*
56683 AAAATAACTATA
1 ATAATAACTATA
56695 TTAAAATATT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.30
Consensus pattern (16 bp):
ATAATAACTATAGATG
Found at i:62016 original size:26 final size:24
Alignment explanation
Indices: 61965--62018 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 24
61955 ATAGAAAATC
**
61965 AAAGCACTCAAAAGAAGAAATTGA
1 AAAGCACTCAAAAGAAGAAAAAGA
61989 AAAGCACTCAAAAAGGAAGAAAAAGA
1 AAAGCACTC-AAAA-GAAGAAAAAGA
62015 AAAG
1 AAAG
62019 AAAAGAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 9 0.35
25 4 0.15
26 13 0.50
ACGTcount: A:0.63, C:0.11, G:0.19, T:0.07
Consensus pattern (24 bp):
AAAGCACTCAAAAGAAGAAAAAGA
Found at i:71978 original size:18 final size:17
Alignment explanation
Indices: 71957--71994 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
71947 GTTTTTGAAA
*
71957 TTTTGGCTTTTTTGTTTT
1 TTTTGCCTTTTTT-TTTT
71975 TTTTGCCTTTTTTTTTT
1 TTTTGCCTTTTTTTTTT
71992 TTT
1 TTT
71995 GAAAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.00, C:0.08, G:0.11, T:0.82
Consensus pattern (17 bp):
TTTTGCCTTTTTTTTTT
Found at i:74188 original size:19 final size:20
Alignment explanation
Indices: 74164--74203 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
74154 TATCCTTTCT
74164 TTATTTCATATCATT-CTTA
1 TTATTTCATATCATTACTTA
* *
74183 TTATTTCTTTTCATTACTTA
1 TTATTTCATATCATTACTTA
74203 T
1 T
74204 ATTATTATCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTTCATATCATTACTTA
Found at i:77597 original size:21 final size:20
Alignment explanation
Indices: 77571--77627 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
77561 GAAACCCCTT
77571 TGAAAATACATGTCTTTTAAA
1 TGAAAATACATGTCTTTT-AA
*
77592 TGAAAATACATG-ATTTTAA
1 TGAAAATACATGTCTTTTAA
*
77611 TGAAGATACATGCTCTT
1 TGAAAATACATG-TCTT
77628 GGCCGAATAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 13 0.42
20 4 0.13
21 14 0.45
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (20 bp):
TGAAAATACATGTCTTTTAA
Found at i:77614 original size:19 final size:21
Alignment explanation
Indices: 77571--77622 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
77561 GAAACCCCTT
*
77571 TGAAAATACATGTCTTTTAAA
1 TGAAAATACATGTATTTTAAA
77592 TGAAAATACATG-ATTTT-AA
1 TGAAAATACATGTATTTTAAA
*
77611 TGAAGATACATG
1 TGAAAATACATG
77623 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.45
20 4 0.14
21 12 0.41
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (21 bp):
TGAAAATACATGTATTTTAAA
Found at i:80845 original size:7 final size:8
Alignment explanation
Indices: 80830--80856 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
80820 GCTTGCTTTC
80830 TCTTTTTT
1 TCTTTTTT
80838 TCTTTTTT
1 TCTTTTTT
80846 TCTTTTTT
1 TCTTTTTT
80854 TCT
1 TCT
80857 GATTTTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (8 bp):
TCTTTTTT
Found at i:81632 original size:19 final size:21
Alignment explanation
Indices: 81589--81640 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
81579 GAAACCCCTT
81589 TGAAAATACATGACTTTTAAA
1 TGAAAATACATGACTTTTAAA
81610 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGACTTTTAAA
*
81629 TGAAGATACATG
1 TGAAAATACATG
81641 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (21 bp):
TGAAAATACATGACTTTTAAA
Found at i:86726 original size:13 final size:14
Alignment explanation
Indices: 86708--86736 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
86698 GCTCATAGCT
86708 GAATTGAGCTA-AA
1 GAATTGAGCTACAA
86721 GAATTGAGCTACAA
1 GAATTGAGCTACAA
86735 GA
1 GA
86737 TGACTTCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.45, C:0.10, G:0.24, T:0.21
Consensus pattern (14 bp):
GAATTGAGCTACAA
Found at i:94202 original size:23 final size:23
Alignment explanation
Indices: 94160--94251 Score: 93
Period size: 23 Copynumber: 4.1 Consensus size: 23
94150 TGCTTATTTC
* *
94160 ATATGT-TATA-AGATAGTCATTT
1 ATATGTATATATATATA-TCATAT
94182 ATATGTATATATATATATCATAT
1 ATATGTATATATATATATCATAT
* *
94205 ATATATATATATAT-TATAATAT
1 ATATGTATATATATATATCATAT
*
94227 ATATAGTATATATATA-ATAATAT
1 ATAT-GTATATATATATATCATAT
94250 AT
1 AT
94252 CATATACTAT
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
22 17 0.28
23 40 0.66
24 4 0.07
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (23 bp):
ATATGTATATATATATATCATAT
Found at i:94227 original size:33 final size:33
Alignment explanation
Indices: 94181--94251 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
94171 GATAGTCATT
94181 TATATGTATATATATATA-TCATATATAT-ATATA
1 TATATGTATATATATATAGT-ATATATATAATA-A
94214 TATAT-TATAATATATATAGTATATATATAATAA
1 TATATGTAT-ATATATATAGTATATATATAATAA
94247 TATAT
1 TATAT
94252 CATATACTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
32 3 0.09
33 28 0.80
34 4 0.11
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (33 bp):
TATATGTATATATATATAGTATATATATAATAA
Found at i:94278 original size:2 final size:2
Alignment explanation
Indices: 94181--94262 Score: 91
Period size: 2 Copynumber: 41.0 Consensus size: 2
94171 GATAGTCATT
*
94181 TA TA TG TA TA TA TA TA TA TCA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
94223 -A TA TA TA TA GTA TA TA TA TA -A TA -A TA TA TCA TA TA CTA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA T-A TA TA -TA TA
94263 GCACATTTTA
Statistics
Matches: 70, Mismatches: 2, Indels: 16
0.80 0.02 0.18
Matches are distributed among these distances:
1 4 0.06
2 58 0.83
3 8 0.11
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:94562 original size:70 final size:71
Alignment explanation
Indices: 94449--94590 Score: 268
Period size: 70 Copynumber: 2.0 Consensus size: 71
94439 GCCGTGAGCT
94449 CATAGCTAGATTGAGCTGAATATTTGAGCTACAAGATGACCTTATTTCAGCTGGGGAGTTG-CCA
1 CATAGCTAGATTGAGCTGAATATTTGAGCTACAAGATGACCTTATTTCAGCTGGGGAGTTGACCA
94513 TCATCA
66 TCATCA
94519 CATAGCTAGATTGAGCTGAATATTTGAGCTACAAGATGACCTTATTTCAGCTGGGGAGTTGCACC
1 CATAGCTAGATTGAGCTGAATATTTGAGCTACAAGATGACCTTATTTCAGCTGGGGAGTTG-ACC
94584 ATCATCA
65 ATCATCA
94591 TCACCACTTA
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
70 61 0.87
72 9 0.13
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.30
Consensus pattern (71 bp):
CATAGCTAGATTGAGCTGAATATTTGAGCTACAAGATGACCTTATTTCAGCTGGGGAGTTGACCA
TCATCA
Found at i:99000 original size:27 final size:27
Alignment explanation
Indices: 98961--99021 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
98951 CTATTTTTTT
* *
98961 CAAAAAAACAAAAAAAGGCAAAAAAGG
1 CAAAAAAACAAAAAAAGCCAAAAAAGC
98988 CAAAAACAA-AAAAAAAGCCAAAAAAGC
1 CAAAAA-AACAAAAAAAGCCAAAAAAGC
99015 CAAAAAA
1 CAAAAAA
99022 GCCAAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 1 0.03
27 28 0.90
28 2 0.06
ACGTcount: A:0.75, C:0.15, G:0.10, T:0.00
Consensus pattern (27 bp):
CAAAAAAACAAAAAAAGCCAAAAAAGC
Found at i:99010 original size:9 final size:9
Alignment explanation
Indices: 98961--99028 Score: 66
Period size: 9 Copynumber: 7.6 Consensus size: 9
98951 CTATTTTTTT
*
98961 CAAAAAAAC
1 CAAAAAAGC
* *
98970 AAAAAAAGG
1 CAAAAAAGC
*
98979 CAAAAAAGG
1 CAAAAAAGC
*
98988 CAAAAACA-A
1 CAAAAA-AGC
*
98997 AAAAAAAGC
1 CAAAAAAGC
99006 CAAAAAAGC
1 CAAAAAAGC
99015 CAAAAAAGC
1 CAAAAAAGC
99024 CAAAA
1 CAAAA
99029 TTTCAAAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
8 1 0.02
9 47 0.96
10 1 0.02
ACGTcount: A:0.74, C:0.16, G:0.10, T:0.00
Consensus pattern (9 bp):
CAAAAAAGC
Found at i:106478 original size:22 final size:22
Alignment explanation
Indices: 106450--106491 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
106440 TCTTTATACC
106450 TATAGAT-GCTTATTTCATATGT
1 TATAGATAG-TTATTTCATATGT
*
106472 TATAGATAGTTTTTTCATAT
1 TATAGATAGTTATTTCATAT
106492 ATATATGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.52
Consensus pattern (22 bp):
TATAGATAGTTATTTCATATGT
Found at i:107394 original size:440 final size:439
Alignment explanation
Indices: 106558--107437 Score: 1676
Period size: 439 Copynumber: 2.0 Consensus size: 439
106548 TACAAGTTAT
106558 TATCATATACTATAGTCACATTTTTATAATATACAAGTTTATATACTTAGTTTATTTTCTTATGT
1 TATCATATAC-ATAGTCACATTTTTATAATATACAAGTTTATATACTTAGTTTATTTTCTTATGT
106623 TACATATGTAGGCACATTCGGCCAACACTTGGGAGCTGCATTGAGCTAAATGGAGCATGTAACAG
65 TACATATGTAGGCACATTCGGCCAACACTTGGGAGCTGCATTGAGCTAAATGGAGCATGTAACAG
106688 TAAGGAAACTTACATGGGATCGATTAGGAGAGCACAAAGAACAATTGGTGAAAAGTTGTCCGGAG
130 TAAGGAAACTTACATGGGATCGATTAGGAGAGCACAAAGAACAATTGGTGAAAAGTTGTCCGGAG
106753 GCCGTGAGCTCATAGCTAGATTGAACTGAAGATTTGAGCTGCAAAATGACCTATTTTAGCTGGGG
195 GCCGTGAGCTCATAGCTAGATTGAACTGAAGATTTGAGCTGCAAAATGACCTATTTTAGCTGGGG
106818 AGTTGCACCGTCATCATCACCACTTGGACACTTCAAATATGTCCTAATTCAAATTTGTGAAATCG
260 AGTTGCACCGTCATCATCACCACTTGGACACTTCAAATATGTCCTAATTCAAATTTGTGAAATCG
106883 GACCTTTTCGTGAATAGTTGCCACCTCAAGAGGTACCTTTTCACAAGGAGCTACCCAAACGTTCA
325 GACCTTTTCGTGAATAGTTGCCACCTCAAGAGGTACCTTTTCACAAGGAGCTACCCAAACGTTCA
106948 CCATGTTACAAGTCATCTAAAGCCAGCTCACCACCAGCTCATTCACACCC
390 CCATGTTACAAGTCATCTAAAGCCAGCTCACCACCAGCTCATTCACACCC
106998 TATCATATAC-TAGTCACATTTTTATAATATACAAGTTTATATACTTAGTTTTATTTTCTTATGT
1 TATCATATACATAGTCACATTTTTATAATATACAAGTTTATATACTTAG-TTTATTTTCTTATGT
*
107062 TACATATGTAGGCACATTCGGCCAACACTTGGGAGTTGCATTGGAGCTAAATGGAGCATGTAACA
65 TACATATGTAGGCACATTCGGCCAACACTTGGGAGCTGCATT-GAGCTAAATGGAGCATGTAACA
107127 GTAAGG-AACTTACATGGGATCGATTAGGAGAGCACAAAGAACAATTGGTGAAAAGTTGTCCGGA
129 GTAAGGAAACTTACATGGGATCGATTAGGAGAGCACAAAGAACAATTGGTGAAAAGTTGTCCGGA
107191 GGCCGTGAGCTCATAGCTAGATTGAACTGAAGATTTGAGCTGCAAAATGACCT-TATTTAGCTGG
194 GGCCGTGAGCTCATAGCTAGATTGAACTGAAGATTTGAGCTGCAAAATGACCTAT-TTTAGCTGG
107255 GGAGTTGCACCGTCATCATCACCACTTAGGACACTTCAAATATGTCCTAATTCAAATTTGTGAAA
258 GGAGTTGCACCGTCATCATCACCACTT-GGACACTTCAAATATGTCCTAATTCAAATTTGTGAAA
*
107320 TCGTACCTTTTCGTGAATAGTTGCCACCTCAAGAGGTACCTTTTCACAAGGAGCTACCCAAACGT
322 TCGGACCTTTTCGTGAATAGTTGCCACCTCAAGAGGTACCTTTTCACAAGGAGCTACCCAAACGT
107385 TCACCATGTTACAAGTCATCTAAAGCCAGCTCACCACCAGCTCATTCACACCC
387 TCACCATGTTACAAGTCATCTAAAGCCAGCTCACCACCAGCTCATTCACACCC
107438 AAAGTAGCTC
Statistics
Matches: 434, Mismatches: 2, Indels: 8
0.98 0.00 0.02
Matches are distributed among these distances:
438 39 0.09
439 203 0.47
440 192 0.44
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (439 bp):
TATCATATACATAGTCACATTTTTATAATATACAAGTTTATATACTTAGTTTATTTTCTTATGTT
ACATATGTAGGCACATTCGGCCAACACTTGGGAGCTGCATTGAGCTAAATGGAGCATGTAACAGT
AAGGAAACTTACATGGGATCGATTAGGAGAGCACAAAGAACAATTGGTGAAAAGTTGTCCGGAGG
CCGTGAGCTCATAGCTAGATTGAACTGAAGATTTGAGCTGCAAAATGACCTATTTTAGCTGGGGA
GTTGCACCGTCATCATCACCACTTGGACACTTCAAATATGTCCTAATTCAAATTTGTGAAATCGG
ACCTTTTCGTGAATAGTTGCCACCTCAAGAGGTACCTTTTCACAAGGAGCTACCCAAACGTTCAC
CATGTTACAAGTCATCTAAAGCCAGCTCACCACCAGCTCATTCACACCC
Found at i:113570 original size:15 final size:15
Alignment explanation
Indices: 113552--113582 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
113542 TCTCTATCCA
113552 TCCTTATCATTTCAT
1 TCCTTATCATTTCAT
*
113567 TCCTTATTATTTCAT
1 TCCTTATCATTTCAT
113582 T
1 T
113583 TCATCTACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (15 bp):
TCCTTATCATTTCAT
Found at i:114391 original size:15 final size:16
Alignment explanation
Indices: 114361--114400 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
114351 GGATAATTAA
114361 GAAAGAAATAGAAATG
1 GAAAGAAATAGAAATG
*
114377 GAAAG-AATTGAAATG
1 GAAAGAAATAGAAATG
*
114392 GAAATAAAT
1 GAAAGAAAT
114401 GTTATCAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (16 bp):
GAAAGAAATAGAAATG
Found at i:114578 original size:35 final size:35
Alignment explanation
Indices: 114540--114652 Score: 129
Period size: 35 Copynumber: 3.2 Consensus size: 35
114530 GGTAAGGGAT
* * *
114540 TGGTGGTTATATAGGCGTGAAATGGTGATAGAAGT
1 TGGTGATTATATAGGCGTGAAATGGTGATGGAAGA
* * * *
114575 TGGTGATGATATGGGCTTGCAATGGTGATGGAAGA
1 TGGTGATTATATAGGCGTGAAATGGTGATGGAAGA
*
114610 TGGTGATGT-TATCGGCGTGAAAATGGTGATGGAAGA
1 TGGTGAT-TATATAGGCGTG-AAATGGTGATGGAAGA
114646 TGGTGAT
1 TGGTGAT
114653 GTTATAGTTA
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
35 43 0.66
36 22 0.34
ACGTcount: A:0.27, C:0.04, G:0.39, T:0.30
Consensus pattern (35 bp):
TGGTGATTATATAGGCGTGAAATGGTGATGGAAGA
Found at i:114638 original size:36 final size:35
Alignment explanation
Indices: 114553--114657 Score: 147
Period size: 35 Copynumber: 3.0 Consensus size: 35
114543 TGGTTATATA
* * * *
114553 GGCGTGAAATGGTGATAGAAGTTGGTGATGATATG
1 GGCGTGAAATGGTGATGGAAGATGGTGATGTTATC
* *
114588 GGCTTGCAATGGTGATGGAAGATGGTGATGTTATC
1 GGCGTGAAATGGTGATGGAAGATGGTGATGTTATC
114623 GGCGTGAAAATGGTGATGGAAGATGGTGATGTTAT
1 GGCGTG-AAATGGTGATGGAAGATGGTGATGTTAT
114658 AGTTAGTATC
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
35 34 0.56
36 27 0.44
ACGTcount: A:0.27, C:0.05, G:0.39, T:0.30
Consensus pattern (35 bp):
GGCGTGAAATGGTGATGGAAGATGGTGATGTTATC
Found at i:115968 original size:17 final size:17
Alignment explanation
Indices: 115930--115969 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
115920 TTTATTAGAG
115930 TAATGAACTAGTTAAAT
1 TAATGAACTAGTTAAAT
*
115947 GAATGAACTAGATT-AAT
1 TAATGAACTAG-TTAAAT
115964 TAATGA
1 TAATGA
115970 CCTAACTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.47, C:0.05, G:0.15, T:0.33
Consensus pattern (17 bp):
TAATGAACTAGTTAAAT
Found at i:117206 original size:33 final size:32
Alignment explanation
Indices: 117140--117202 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
117130 AAAAAATTAA
* *
117140 AAGAAAGAAATGATTAAAATGGAATATGGAAG
1 AAGAAAGAAATGATTAAAATAGAAAATGGAAG
117172 AAGAAAGGAAATGA-TAAGAA-AGAAAATGGAA
1 AAGAAA-GAAATGATTAA-AATAGAAAATGGAA
117203 AGAAATGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 18 0.67
33 9 0.33
ACGTcount: A:0.60, C:0.00, G:0.25, T:0.14
Consensus pattern (32 bp):
AAGAAAGAAATGATTAAAATAGAAAATGGAAG
Found at i:117396 original size:14 final size:14
Alignment explanation
Indices: 117363--117405 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 14
117353 TATGGGCGTG
*
117363 AATGGTGATGG-AG
1 AATGGTGATGGAAA
*
117376 GATGGTGATGGAAA
1 AATGGTGATGGAAA
117390 AATGGTGAT-GAAA
1 AATGGTGATGGAAA
117403 AAT
1 AAT
117406 AGTATCTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.40, C:0.00, G:0.37, T:0.23
Consensus pattern (14 bp):
AATGGTGATGGAAA
Found at i:121174 original size:13 final size:14
Alignment explanation
Indices: 121156--121191 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
121146 ATGGGCGTGA
*
121156 ATGGTGATGG-AGG
1 ATGGTGATGGAAAG
121169 ATGGTGATGGAAAG
1 ATGGTGATGGAAAG
121183 ATGGTGATG
1 ATGGTGATG
121192 AAAAATAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.28, C:0.00, G:0.47, T:0.25
Consensus pattern (14 bp):
ATGGTGATGGAAAG
Found at i:121194 original size:13 final size:13
Alignment explanation
Indices: 121156--121194 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
121146 ATGGGCGTGA
* *
121156 ATGGTGATGGAGG
1 ATGGTGATGAAAG
121169 ATGGTGATGGAAAG
1 ATGGTGAT-GAAAG
121183 ATGGTGATGAAA
1 ATGGTGATGAAA
121195 AATAGTATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.33, C:0.00, G:0.44, T:0.23
Consensus pattern (13 bp):
ATGGTGATGAAAG
Found at i:126318 original size:16 final size:17
Alignment explanation
Indices: 126297--126337 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
126287 TATTACAATT
*
126297 ATGAACTAG-TTAAATG
1 ATGAACTAGTTTAAATA
*
126313 ATGAACTAGTTTAATTA
1 ATGAACTAGTTTAAATA
126330 ATGAACTA
1 ATGAACTA
126338 ACTATATGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.34
Consensus pattern (17 bp):
ATGAACTAGTTTAAATA
Found at i:126333 original size:17 final size:15
Alignment explanation
Indices: 126293--126337 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 15
126283 AGTTTATTAC
126293 AATTATGAACTAGTT
1 AATTATGAACTAGTT
*
126308 AAATGATGAACTAGTTT
1 -AATTATGAACTAG-TT
126325 AATTAATGAACTA
1 AATT-ATGAACTA
126338 ACTATATGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (15 bp):
AATTATGAACTAGTT
Found at i:128496 original size:10 final size:10
Alignment explanation
Indices: 128481--128505 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
128471 GTGACTCATT
128481 AGCTATTTGG
1 AGCTATTTGG
128491 AGCTATTTGG
1 AGCTATTTGG
128501 AGCTA
1 AGCTA
128506 AGAACCAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.36
Consensus pattern (10 bp):
AGCTATTTGG
Found at i:136504 original size:101 final size:100
Alignment explanation
Indices: 136320--136521 Score: 305
Period size: 101 Copynumber: 2.0 Consensus size: 100
136310 CCCTACGTCT
*
136320 ACCACCCTTAACCATTCTATTTTGAGCCATTCACTTTGCAGGTTGTTTTGCTTCCTTCCTAGATC
1 ACCACCCTTAACCATTCTATTTTGAGCCATTCACTTTGCAGGTTGTTTTGCTTCCTTCATAGATC
***
136385 CACAATCATTTGAAAAGGTACAAGTACCTTACATC
66 CACAATCAAACGAAAAGGTACAAGTACCTTACATC
* * *
136420 ACCACCCTTATCCATTCTGTTTTGAGCCATTCACTTGTGCATGTTGTTTTGCTTCCTTCATAGAT
1 ACCACCCTTAACCATTCTATTTTGAGCCATTCACTT-TGCAGGTTGTTTTGCTTCCTTCATAGAT
* * *
136485 CCACAATCAAACGAGAAGGTAGAATTACCTTACATC
65 CCACAATCAAACGAAAAGGTACAAGTACCTTACATC
136521 A
1 A
136522 AGCGATAATC
Statistics
Matches: 91, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 34 0.37
101 57 0.63
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (100 bp):
ACCACCCTTAACCATTCTATTTTGAGCCATTCACTTTGCAGGTTGTTTTGCTTCCTTCATAGATC
CACAATCAAACGAAAAGGTACAAGTACCTTACATC
Found at i:136661 original size:23 final size:23
Alignment explanation
Indices: 136635--136679 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
136625 AAATCCAGCA
136635 AAGAAAATCAAAGCACTCAAAAG
1 AAGAAAATCAAAGCACTCAAAAG
* *
136658 AAGAAATTGAAAGCACTCAAAA
1 AAGAAAATCAAAGCACTCAAAA
136680 AGAAAAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.60, C:0.16, G:0.13, T:0.11
Consensus pattern (23 bp):
AAGAAAATCAAAGCACTCAAAAG
Found at i:140894 original size:17 final size:17
Alignment explanation
Indices: 140872--140928 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
140862 TTATTACATT
140872 AATGAACTAGTTAAATG
1 AATGAACTAGTTAAATG
* *
140889 AATGAACTAGTTTAATT
1 AATGAACTAGTTAAATG
* * *
140906 AATAAACTAATTATATGG
1 AATGAACTAGTTAAAT-G
140924 AATGA
1 AATGA
140929 TCTAAGATGC
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
17 27 0.87
18 4 0.13
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.33
Consensus pattern (17 bp):
AATGAACTAGTTAAATG
Found at i:148506 original size:13 final size:13
Alignment explanation
Indices: 148488--148545 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 13
148478 TGGGCATGCA
148488 ATGGTGATGGAAG
1 ATGGTGATGGAAG
** *
148501 ATGGTGATGTTAT
1 ATGGTGATGGAAG
* *
148514 A-GGTG-T-TAAA
1 ATGGTGATGGAAG
148524 ATGGTGATGGAAG
1 ATGGTGATGGAAG
148537 ATGGTGATG
1 ATGGTGATG
148546 TTATAGGCGT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
10 3 0.09
11 5 0.14
12 5 0.14
13 22 0.63
ACGTcount: A:0.29, C:0.00, G:0.40, T:0.31
Consensus pattern (13 bp):
ATGGTGATGGAAG
Found at i:148530 original size:36 final size:36
Alignment explanation
Indices: 148441--148568 Score: 170
Period size: 36 Copynumber: 3.6 Consensus size: 36
148431 TTGGTTGTTA
* * *
148441 TATAGGCGTG-AAATGGTGATAGAAGTTGGTGATGA
1 TATAGGCGTGAAAATGGTGATGGAAGATGGTGATGT
* * *
148476 TATGGGCATG-CAATGGTGATGGAAGATGGTGATGT
1 TATAGGCGTGAAAATGGTGATGGAAGATGGTGATGT
* *
148511 TATAGGTGTTAAAATGGTGATGGAAGATGGTGATGT
1 TATAGGCGTGAAAATGGTGATGGAAGATGGTGATGT
148547 TATAGGCGTGAAAATGGTGATG
1 TATAGGCGTGAAAATGGTGATG
148569 TTATAGGTAG
Statistics
Matches: 79, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
35 35 0.44
36 44 0.56
ACGTcount: A:0.30, C:0.03, G:0.38, T:0.30
Consensus pattern (36 bp):
TATAGGCGTGAAAATGGTGATGGAAGATGGTGATGT
Found at i:152591 original size:15 final size:15
Alignment explanation
Indices: 152573--152617 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
152563 TTTTTTGAAA
152573 TTTTGGCTTTTTTTG
1 TTTTGGCTTTTTTTG
152588 TTTT-G--TTTTTT-
1 TTTTGGCTTTTTTTG
152599 TTTTGGCTTTTTTTG
1 TTTTGGCTTTTTTTG
152614 TTTT
1 TTTT
152618 TTTTAAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
11 4 0.15
12 7 0.27
14 7 0.27
15 8 0.31
ACGTcount: A:0.00, C:0.04, G:0.16, T:0.80
Consensus pattern (15 bp):
TTTTGGCTTTTTTTG
Found at i:152602 original size:26 final size:25
Alignment explanation
Indices: 152573--152621 Score: 89
Period size: 26 Copynumber: 1.9 Consensus size: 25
152563 TTTTTTGAAA
152573 TTTTGGCTTTTTTTGTTTTGTTTTTT
1 TTTTGGCTTTTTTTGTTTT-TTTTTT
152599 TTTTGGCTTTTTTTGTTTTTTTT
1 TTTTGGCTTTTTTTGTTTTTTTT
152622 AAATAGCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.00, C:0.04, G:0.14, T:0.82
Consensus pattern (25 bp):
TTTTGGCTTTTTTTGTTTTTTTTTT
Found at i:156506 original size:17 final size:17
Alignment explanation
Indices: 156484--156522 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
156474 TAGATTGAAA
156484 AACTAGTTAAATGAATG
1 AACTAGTTAAATGAATG
* *
156501 AACTAGTTTAATTAATG
1 AACTAGTTAAATGAATG
156518 AACTA
1 AACTA
156523 ACTTTATGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (17 bp):
AACTAGTTAAATGAATG
Found at i:171325 original size:17 final size:17
Alignment explanation
Indices: 171295--171327 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
171285 ACTCTATCAC
171295 CATCCCATTGCCATAAT
1 CATCCCATTGCCATAAT
171312 CATCACCATT-CCATAA
1 CATC-CCATTGCCATAA
171328 CCATTGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.33, C:0.36, G:0.03, T:0.27
Consensus pattern (17 bp):
CATCCCATTGCCATAAT
Found at i:178205 original size:15 final size:15
Alignment explanation
Indices: 178185--178213 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
178175 CTCCAAATTC
178185 ATCATTTTCAACTCT
1 ATCATTTTCAACTCT
178200 ATCATTTTCAACTC
1 ATCATTTTCAACTC
178214 CAACATCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (15 bp):
ATCATTTTCAACTCT
Found at i:184596 original size:30 final size:31
Alignment explanation
Indices: 184561--184629 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 31
184551 GAATGGTTAA
*
184561 GAAAGATAAGGTAATGAAAT-AAGA-AAAGAT
1 GAAAGATAAGGAAATGAAATAAAGAGAAA-AT
*
184591 GAAAGAAAAGGAAATGAAATAAAGAGAAAAT
1 GAAAGATAAGGAAATGAAATAAAGAGAAAAT
184622 G-AAGATAA
1 GAAAGATAA
184630 CTTACAACTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 24 0.71
31 7 0.21
32 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.23, T:0.13
Consensus pattern (31 bp):
GAAAGATAAGGAAATGAAATAAAGAGAAAAT
Found at i:185605 original size:19 final size:20
Alignment explanation
Indices: 185567--185609 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
185557 GAAACCCCTT
*
185567 TGAAAACACATGATTTTTAA
1 TGAAAACACATGAATTTTAA
*
185587 TGAAAATACAT-AATTTTAA
1 TGAAAACACATGAATTTTAA
185606 TGAA
1 TGAA
185610 GATAAAAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (20 bp):
TGAAAACACATGAATTTTAA
Found at i:186065 original size:36 final size:35
Alignment explanation
Indices: 185972--186083 Score: 143
Period size: 35 Copynumber: 3.2 Consensus size: 35
185962 TTGGTGGTTA
* * * * *
185972 TATAGGTGTGAAATGGTGATAGAAGTTGGTGATGA
1 TATAGGCGTAAAATGGTGATGGAAGATGGTGATGT
**
186007 TATAGGCGTGCAATGGTGATGGAAGATGGTGATGT
1 TATAGGCGTAAAATGGTGATGGAAGATGGTGATGT
*
186042 TATAGGCGTAAAAATGGTGATGGAAGATGGAGATGT
1 TATAGGCGT-AAAATGGTGATGGAAGATGGTGATGT
186078 TATAGG
1 TATAGG
186084 TAGTATCTTA
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
35 39 0.57
36 29 0.43
ACGTcount: A:0.31, C:0.03, G:0.38, T:0.29
Consensus pattern (35 bp):
TATAGGCGTAAAATGGTGATGGAAGATGGTGATGT
Found at i:186913 original size:36 final size:35
Alignment explanation
Indices: 186824--186935 Score: 125
Period size: 35 Copynumber: 3.2 Consensus size: 35
186814 TTGGTGGTTA
* * * * *
186824 TATAGGTGTGAAATGGTGATAGAAGTTGGTGATGA
1 TATAGGCGTAAAATGGTGATGGAAGATGGTGATGT
* * **
186859 AATAAGCGTGCAATGGTGATGGAAGATGGTGATGT
1 TATAGGCGTAAAATGGTGATGGAAGATGGTGATGT
*
186894 TATAGGCGTAAAAATGGTGATGGAAGATGGAGATGT
1 TATAGGCGT-AAAATGGTGATGGAAGATGGTGATGT
186930 TATAGG
1 TATAGG
186936 TAGTATCTTA
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
35 35 0.55
36 29 0.45
ACGTcount: A:0.33, C:0.03, G:0.37, T:0.28
Consensus pattern (35 bp):
TATAGGCGTAAAATGGTGATGGAAGATGGTGATGT
Found at i:191178 original size:23 final size:23
Alignment explanation
Indices: 191147--191191 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
191137 TTTCTTTTCA
*
191147 TTTTCAGTGCTTTTAATTTCTTC
1 TTTTCAGTGCTTTGAATTTCTTC
* *
191170 TTTTGAGTGCTTTGATTTTCTT
1 TTTTCAGTGCTTTGAATTTCTT
191192 TGCTGGATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.11, C:0.13, G:0.13, T:0.62
Consensus pattern (23 bp):
TTTTCAGTGCTTTGAATTTCTTC
Found at i:201770 original size:36 final size:35
Alignment explanation
Indices: 201674--201785 Score: 152
Period size: 35 Copynumber: 3.2 Consensus size: 35
201664 TTGGTGGTTA
* * * *
201674 TATAAGCGTGAAATGGTGATAGAAGTTGGTGATGA
1 TATAGGCGTAAAATGGTGATAGAAGATGGTGATGT
** *
201709 TATAGGCGTGCAATGGTGATGGAAGATGGTGATGT
1 TATAGGCGTAAAATGGTGATAGAAGATGGTGATGT
201744 TATAGGCGTAAAAATGGTGATAGAAGATGGTGATGT
1 TATAGGCGT-AAAATGGTGATAGAAGATGGTGATGT
201780 TATAGG
1 TATAGG
201786 TAGTATCTTA
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
35 39 0.57
36 29 0.43
ACGTcount: A:0.32, C:0.04, G:0.36, T:0.29
Consensus pattern (35 bp):
TATAGGCGTAAAATGGTGATAGAAGATGGTGATGT
Found at i:208329 original size:7 final size:6
Alignment explanation
Indices: 208310--208361 Score: 63
Period size: 6 Copynumber: 8.7 Consensus size: 6
208300 CAAAAGCAAC
*
208310 AAAAAG AAAAAG AAAGAAG AAAAA- AAGAA- AAAAAG AAAAAAG AAAAAG
1 AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG
208358 AAAA
1 AAAA
208362 TACTCCTACA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
5 8 0.20
6 21 0.51
7 12 0.29
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:208334 original size:15 final size:14
Alignment explanation
Indices: 208316--208361 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 14
208306 CAACAAAAAG
208316 AAAAAGAAAGAAGAA
1 AAAAAGAAA-AAGAA
*
208331 AAAAAGAAAAAAAGA
1 AAAAAGAAAAAGA-A
208346 AAAAAGAAAAAGAA
1 AAAAAGAAAAAGAA
208360 AA
1 AA
208362 TACTCCTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 6 0.21
15 22 0.79
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAGAA
Found at i:208343 original size:29 final size:31
Alignment explanation
Indices: 208301--208361 Score: 92
Period size: 29 Copynumber: 2.0 Consensus size: 31
208291 GTGCTACAAC
208301 AAAAGCAACAAAAAG-AAAAAGAAAGAAGAAA
1 AAAAGCAACAAAAAGAAAAAAGAAA-AAGAAA
208332 AAAAG-AA-AAAAAGAAAAAAGAAAAAGAAA
1 AAAAGCAACAAAAAGAAAAAAGAAAAAGAAA
208361 A
1 A
208362 TACTCCTACA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 13 0.45
30 11 0.38
31 5 0.17
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (31 bp):
AAAAGCAACAAAAAGAAAAAAGAAAAAGAAA
Found at i:212968 original size:19 final size:18
Alignment explanation
Indices: 212946--212992 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
212936 AGTGAATAAT
212946 AATATAAGTAATGAAAAGA
1 AATATAAG-AATGAAAAGA
*
212965 AATAATAAGAATGAAATGA
1 AAT-ATAAGAATGAAAAGA
212984 AATA-AAGAA
1 AATATAAGAA
212993 AGGATAGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 5 0.19
18 1 0.04
19 15 0.58
20 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.19
Consensus pattern (18 bp):
AATATAAGAATGAAAAGA
Found at i:220451 original size:19 final size:20
Alignment explanation
Indices: 220429--220492 Score: 73
Period size: 19 Copynumber: 3.4 Consensus size: 20
220419 TTTGAACTTC
220429 TCTTTTTCTT-TTCTTT-TCT
1 TCTTTTTCTTATT-TTTCTCT
220448 TC-TTTTCTTATTTTTCTCT
1 TCTTTTTCTTATTTTTCTCT
* *
220467 TC-TTTTCTGATTTTTGTCT
1 TCTTTTTCTTATTTTTCTCT
220486 TCTTTTT
1 TCTTTTT
220493 GCACTCCAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 10 0.25
19 26 0.65
20 4 0.10
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.75
Consensus pattern (20 bp):
TCTTTTTCTTATTTTTCTCT
Found at i:224487 original size:9 final size:9
Alignment explanation
Indices: 224475--224535 Score: 52
Period size: 11 Copynumber: 6.2 Consensus size: 9
224465 TCTTTTTGAA
224475 TTTTTC-TT
1 TTTTTCTTT
224483 TTTTTCTTT
1 TTTTTCTTT
224492 TCTTTTCTTCTT
1 T-TTTTC-T-TT
224504 TTTCTTCTTCT
1 TTT-TTCTT-T
224515 TTTTGTCTTT
1 TTTT-TCTTT
*
224525 TCTTTCTTT
1 TTTTTCTTT
224534 TT
1 TT
224536 GTACTCCAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
8 6 0.14
9 9 0.20
10 11 0.25
11 12 0.27
12 6 0.14
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:224511 original size:12 final size:11
Alignment explanation
Indices: 224478--224523 Score: 58
Period size: 12 Copynumber: 4.2 Consensus size: 11
224468 TTTTGAATTT
224478 TTCTTTTTTTC
1 TTCTTTTTTTC
*
224489 TT-TTCTTTTC
1 TTCTTTTTTTC
224499 TTCTTTTTCTTC
1 TTCTTTTT-TTC
*
224511 TTCTTTTTGTC
1 TTCTTTTTTTC
224522 TT
1 TT
224524 TTCTTTCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 9 0.30
11 10 0.33
12 11 0.37
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (11 bp):
TTCTTTTTTTC
Found at i:224523 original size:20 final size:19
Alignment explanation
Indices: 224483--224537 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
224473 AATTTTTCTT
224483 TTTTTCTTTTCTTTTCT-TC
1 TTTTTCTTTTCTTTT-TGTC
224502 TTTTTCTTCTTCTTTTTGTC
1 TTTTTCTT-TTCTTTTTGTC
224522 -TTTTC-TTTCTTTTTGT
1 TTTTTCTTTTCTTTTTGT
224538 ACTCCAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
17 10 0.29
18 1 0.03
19 14 0.41
20 9 0.26
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.78
Consensus pattern (19 bp):
TTTTTCTTTTCTTTTTGTC
Found at i:224808 original size:19 final size:18
Alignment explanation
Indices: 224786--224832 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
224776 AGTGAATAAT
224786 AATATAAGTAATGAAAAGA
1 AATATAAG-AATGAAAAGA
*
224805 AATAATAAGAATGAAATGA
1 AAT-ATAAGAATGAAAAGA
224824 AATA-AAGAA
1 AATATAAGAA
224833 ATGATAGATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 5 0.19
18 1 0.04
19 15 0.58
20 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.19
Consensus pattern (18 bp):
AATATAAGAATGAAAAGA
Found at i:226701 original size:15 final size:15
Alignment explanation
Indices: 226681--226723 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
226671 TCCAAATTCA
*
226681 TCATTTTTAACTCTC
1 TCATTTTCAACTCTC
226696 TCATTTTCAACTCTC
1 TCATTTTCAACTCTC
226711 TCATTTTCAACTC
1 TCATTTTCAACTC
226724 CAACGTCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.21, C:0.30, G:0.00, T:0.49
Consensus pattern (15 bp):
TCATTTTCAACTCTC
Found at i:243945 original size:91 final size:91
Alignment explanation
Indices: 243789--244041 Score: 398
Period size: 91 Copynumber: 2.8 Consensus size: 91
243779 TGGTAGTTGA
* * *
243789 TGCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCACCTAAATGAACCACATGCAAGGAACAT
1 TGCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCACCTAAATGATCCACATGTAAGGCACAT
*
243854 GGGGGTTGATCACATGCAAAACACAT
66 GGGGGCTGATCACATGCAAAACACAT
** *
243880 TGCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGTGCCTAAATGATCCATATGTAAGGCACAT
1 TGCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCACCTAAATGATCCACATGTAAGGCACAT
243945 GGGGGCTGATCACATGCAAAACACAT
66 GGGGGCTGATCACATGCAAAACACAT
* * * * *
243971 GGCTTTGCCGAATAAGGAGAGAACTCTTCATCTTGGCACCTAAATGATCCACATATAAGGCACAG
1 TGCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCACCTAAATGATCCACATGTAAGGCACAT
244036 GGGGGC
66 GGGGGC
244042 GGTCATATGC
Statistics
Matches: 147, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
91 147 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (91 bp):
TGCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCACCTAAATGATCCACATGTAAGGCACAT
GGGGGCTGATCACATGCAAAACACAT
Found at i:244174 original size:18 final size:18
Alignment explanation
Indices: 244151--244194 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
244141 GTCTCCTTCA
*
244151 AGCTAGCTTGAGTTGTTG
1 AGCTAGCTTGAGTTGTGG
244169 AGCTAGCTTGAGTTGTGG
1 AGCTAGCTTGAGTTGTGG
244187 AGCTAGCT
1 AGCTAGCT
244195 AGCAAACATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.18, C:0.14, G:0.34, T:0.34
Consensus pattern (18 bp):
AGCTAGCTTGAGTTGTGG
Found at i:249065 original size:24 final size:24
Alignment explanation
Indices: 249011--249065 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
249001 GAAAAATCAT
*
249011 AAAAG-AAGCACTCAAAATGAAGA
1 AAAAGAAAACACTCAAAATGAAGA
**
249034 AATTGAAAACACTCAAAA-GAAGAA
1 AAAAGAAAACACTCAAAATGAAG-A
249058 AAAAGAAA
1 AAAAGAAA
249066 GAAAAGTTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.65, C:0.11, G:0.15, T:0.09
Consensus pattern (24 bp):
AAAAGAAAACACTCAAAATGAAGA
Found at i:254401 original size:91 final size:91
Alignment explanation
Indices: 254247--254472 Score: 337
Period size: 91 Copynumber: 2.5 Consensus size: 91
254237 GAACTCTTAA
* *
254247 CCACATGCAAGGAACAT-GGGGCTGATCACATGCAAAACACATGGCTTGGCCGAATAGGGAGAGA
1 CCACATGCAAGGCACATGGGGGCTGATCACATGCAAAACACATGGCTTGACCGAATAGGGAGAGA
*
254311 ACTCTTCATCTTGGTGCCTAAATGAT
66 ACTCTTCATCTTGGCGCCTAAATGAT
* *
254337 CCACATGTAAGGCACATGGGGGCTGATCTCATGCAAAACACATGGCTTGACCGAATAGGGAGAGA
1 CCACATGCAAGGCACATGGGGGCTGATCACATGCAAAACACATGGCTTGACCGAATAGGGAGAGA
254402 ACTCTTCATCTTGGCGCCTAAATGAT
66 ACTCTTCATCTTGGCGCCTAAATGAT
* * * * * **
254428 CCATATACAAGGCACAGGGGGGCTGGTCATATGCAAGGCACATGG
1 CCACATGCAAGGCACATGGGGGCTGATCACATGCAAAACACATGG
254473 GTGTTCTAGG
Statistics
Matches: 121, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
90 15 0.12
91 106 0.88
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (91 bp):
CCACATGCAAGGCACATGGGGGCTGATCACATGCAAAACACATGGCTTGACCGAATAGGGAGAGA
ACTCTTCATCTTGGCGCCTAAATGAT
Found at i:255343 original size:18 final size:18
Alignment explanation
Indices: 255320--255355 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
255310 ATCATTTCAA
255320 CTTTTC-TTTCTTTCTTTT
1 CTTTTCTTTTC-TTCTTTT
255338 CTTTTCTTTTCTTCTTTT
1 CTTTTCTTTTCTTCTTTT
255356 TGAGTGCTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (18 bp):
CTTTTCTTTTCTTCTTTT
Found at i:255394 original size:25 final size:25
Alignment explanation
Indices: 255344--255395 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
255334 TTTTCTTTTC
* * *
255344 TTTTCTTCTTTTTGAGTGCTGGAAT
1 TTTTCTTCATTTAGAGTGCTGCAAT
*
255369 TTTTCTTCATTTAGAGTGCTTCAAT
1 TTTTCTTCATTTAGAGTGCTGCAAT
255394 TT
1 TT
255396 CATTGCTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56
Consensus pattern (25 bp):
TTTTCTTCATTTAGAGTGCTGCAAT
Found at i:258335 original size:17 final size:17
Alignment explanation
Indices: 258289--258335 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
258279 TGTTAGTTAG
*
258289 ATTAATGAACTAGTTTA
1 ATTAATGAACTAATTTA
258306 ATTAATGAACTAATTT-
1 ATTAATGAACTAATTTA
258322 ATTGAATGAACTAA
1 ATT-AATGAACTAA
258336 GGTGCATGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
16 3 0.11
17 25 0.89
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (17 bp):
ATTAATGAACTAATTTA
Found at i:267340 original size:19 final size:19
Alignment explanation
Indices: 267318--267360 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
267308 TTTTTTTAAA
267318 TTTTGGATTTTTTTGACTTT
1 TTTTGG-TTTTTTTGACTTT
* *
267338 TTTTTGTTTTTTTGCCTTT
1 TTTTGGTTTTTTTGACTTT
267357 TTTT
1 TTTT
267361 TAAAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.05, C:0.07, G:0.12, T:0.77
Consensus pattern (19 bp):
TTTTGGTTTTTTTGACTTT
Found at i:267361 original size:19 final size:19
Alignment explanation
Indices: 267325--267361 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
267315 AAATTTTGGA
267325 TTTTTTTGACTTTTTTTTG
1 TTTTTTTGACTTTTTTTTG
*
267344 TTTTTTTGCCTTTTTTTT
1 TTTTTTTGACTTTTTTTT
267362 AAAAAAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.08, G:0.08, T:0.81
Consensus pattern (19 bp):
TTTTTTTGACTTTTTTTTG
Found at i:268754 original size:19 final size:20
Alignment explanation
Indices: 268730--268772 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
268720 AGCATTTATC
*
268730 TTCATT-AAAATTATGTATT
1 TTCATTAAAAATCATGTATT
*
268749 TTCATTAAAAATCATGTGTT
1 TTCATTAAAAATCATGTATT
268769 TTCA
1 TTCA
268773 AAGGGTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (20 bp):
TTCATTAAAAATCATGTATT
Found at i:269128 original size:15 final size:15
Alignment explanation
Indices: 269108--269136 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
269098 TAAGATACTA
269108 TTTCCATCACCATCT
1 TTTCCATCACCATCT
269123 TTTCCATCACCATC
1 TTTCCATCACCATC
269137 ATCCATCACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.41, G:0.00, T:0.38
Consensus pattern (15 bp):
TTTCCATCACCATCT
Found at i:275523 original size:13 final size:12
Alignment explanation
Indices: 275505--275569 Score: 71
Period size: 12 Copynumber: 5.5 Consensus size: 12
275495 AAATTTTGGC
* *
275505 TTTTTTTGGCTC
1 TTTTTTTGCCTT
**
275517 TTTTTTTGTTTT
1 TTTTTTTGCCTT
275529 TTTTTTTGCCGTT
1 TTTTTTTGCC-TT
275542 TTTTTTTGCCTT
1 TTTTTTTGCCTT
275554 TTTTTTTG--TT
1 TTTTTTTGCCTT
275564 TTTTTT
1 TTTTTT
275570 GAAAAAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
10 8 0.17
12 27 0.57
13 12 0.26
ACGTcount: A:0.00, C:0.09, G:0.11, T:0.80
Consensus pattern (12 bp):
TTTTTTTGCCTT
Found at i:288614 original size:23 final size:25
Alignment explanation
Indices: 288586--288640 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 25
288576 AAATTCAGCA
*
288586 AAGAAAATCAAAGCACTCAAA-A-G
1 AAGAAAATCAAAGCACCCAAAGAGG
* *
288609 AAGAAATTGAAAGCACCCAAAGAGG
1 AAGAAAATCAAAGCACCCAAAGAGG
288634 AAGAAAA
1 AAGAAAA
288641 AAAGAAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 18 0.69
24 1 0.04
25 7 0.27
ACGTcount: A:0.60, C:0.15, G:0.18, T:0.07
Consensus pattern (25 bp):
AAGAAAATCAAAGCACCCAAAGAGG
Done.