Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold23
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: 3125668
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 362582 characters in sequence are not A, C, G, or T
File 13 of 18
Found at i:2093324 original size:32 final size:33
Alignment explanation
Indices: 2093283--2093349 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
2093273 CCTTAACTGT
* * *
2093283 TTGTATCGATACA-CCCAATATGTATCGATACA
1 TTGTATCGATACATCCAAAAATGTATCAATACA
2093315 TTGTATCGATACATCCAAAAATGTATCAATACA
1 TTGTATCGATACATCCAAAAATGTATCAATACA
2093348 TT
1 TT
2093350 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.33
Consensus pattern (33 bp):
TTGTATCGATACATCCAAAAATGTATCAATACA
Found at i:2097936 original size:8 final size:8
Alignment explanation
Indices: 2097923--2097948 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2097913 ATTTGATTAA
2097923 ATTTTGTG
1 ATTTTGTG
2097931 ATTTTGTG
1 ATTTTGTG
2097939 ATTTTGTG
1 ATTTTGTG
2097947 AT
1 AT
2097949 GAATGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:2098628 original size:20 final size:21
Alignment explanation
Indices: 2098596--2098647 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 21
2098586 CCCCTAGGCA
*
2098596 GCACCCACCAGGTCGCGACC-G
1 GCACCC-CCAGGTCGCAACCAG
2098617 GCACCCCCAGGTCGCAACCAG
1 GCACCCCCAGGTCGCAACCAG
2098638 GCAGCCCCCA
1 GCA-CCCCCA
2098648 CACTAGCAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 12 0.43
21 10 0.36
22 6 0.21
ACGTcount: A:0.21, C:0.50, G:0.25, T:0.04
Consensus pattern (21 bp):
GCACCCCCAGGTCGCAACCAG
Found at i:2100041 original size:22 final size:24
Alignment explanation
Indices: 2100015--2100063 Score: 75
Period size: 22 Copynumber: 2.1 Consensus size: 24
2100005 CGAAATTGTT
2100015 AAATTATTTGATTAA-GAGG-GAG
1 AAATTATTTGATTAAGGAGGAGAG
*
2100037 AAATTTTTTGATTAAGGAGGAGAG
1 AAATTATTTGATTAAGGAGGAGAG
2100061 AAA
1 AAA
2100064 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 14 0.58
23 4 0.17
24 6 0.25
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.31
Consensus pattern (24 bp):
AAATTATTTGATTAAGGAGGAGAG
Found at i:2100633 original size:13 final size:13
Alignment explanation
Indices: 2100615--2100639 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2100605 AAATTGCACA
2100615 GTATCGATACATT
1 GTATCGATACATT
2100628 GTATCGATACAT
1 GTATCGATACAT
2100640 GACCAACTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2100783 original size:33 final size:32
Alignment explanation
Indices: 2100720--2100786 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 32
2100710 CCTTAACTGT
* * * *
2100720 TTGTATCGTTACACCCAATATGTATTGATACA
1 TTGTATCGATACACCAAAAATGTATCGATACA
2100752 TTGTATCGATACATCCAAAAATGTATCGATACA
1 TTGTATCGATACA-CCAAAAATGTATCGATACA
2100785 TT
1 TT
2100787 AGCTTGTAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 12 0.40
33 18 0.60
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACACCAAAAATGTATCGATACA
Found at i:2106927 original size:14 final size:14
Alignment explanation
Indices: 2106841--2106928 Score: 58
Period size: 14 Copynumber: 6.6 Consensus size: 14
2106831 CAACTCACTA
*
2106841 TTTGTCAAGAAATG
1 TTTGTCAAGAAATT
*
2106855 GTTGTCAAGAAATT
1 TTTGTCAAGAAATT
* * *
2106869 ATCGTCAAG-AACT
1 TTTGTCAAGAAATT
* * *
2106882 TCTGTCGAG-AATG
1 TTTGTCAAGAAATT
*
2106895 TTTGTC-AGAAA-C
1 TTTGTCAAGAAATT
*
2106907 CTTGTCAAGAAATT
1 TTTGTCAAGAAATT
2106921 TTTGTCAA
1 TTTGTCAA
2106929 TACGACCTTT
Statistics
Matches: 55, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
12 7 0.13
13 22 0.40
14 26 0.47
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (14 bp):
TTTGTCAAGAAATT
Found at i:2107432 original size:28 final size:28
Alignment explanation
Indices: 2106938--2107432 Score: 453
Period size: 28 Copynumber: 17.5 Consensus size: 28
2106928 ATACGACCTT
* * *
2106938 TTTCAAAGCCCACATGTTAGTGGCATCA
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
2106966 TTTCAAAGCCTATAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
2106994 TTTCAAAGCCCACATGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * **
2107022 TTTCAAAGCCCACATGTTAGTGGCATTG
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
2107050 TTTCAAAGCCCACAAGTCTGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
2107078 TTTCAAAGCCCACATGTCAGTGGCAGCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
2107106 TTTCAAAGCCCACATGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * * *
2107134 TTTCAAAGACTACATGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * * *
2107162 TTTCAAAGACTACATGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * *
2107190 TTT-TAAGCCCATAAAAGTCAGTGGCAACCTC
1 TTTCAAAGCCC--ACAAGTCAGTGGC-ATC-C
*
2107221 TTTCAAAGCCCACAAGTCAGTGGCACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-TCC
**
2107250 TTT--AAGCTCACACAAGTCAGTATCA-CC
1 TTTCAAAGC-C-CACAAGTCAGTGGCATCC
* *
2107277 TTTTCAAAGCCCACAAGTTAATGGCA-CAC
1 -TTTCAAAGCCCACAAGTCAGTGGCATC-C
* * * * *
2107306 TTTCGAAGCCCATAAGTTAGTAGCATTC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
2107334 TTTCGAAGCCCACAAGTCAGTGGTA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
** *
2107361 TTTTTGAAGCCCACAAGTCAGTGGCACCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
* * *
2107390 TTTCGAAGCCCACAAATCATTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
2107418 TTTTAAAGCCCACAA
1 TTTCAAAGCCCACAA
2107433 CTTGGTGGCA
Statistics
Matches: 396, Mismatches: 56, Indels: 30
0.82 0.12 0.06
Matches are distributed among these distances:
27 11 0.03
28 321 0.81
29 33 0.08
30 21 0.05
31 4 0.01
32 6 0.02
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCC
Found at i:2108190 original size:50 final size:50
Alignment explanation
Indices: 2108115--2108241 Score: 218
Period size: 50 Copynumber: 2.5 Consensus size: 50
2108105 GAAAAGTCAC
*
2108115 TTTTTTACCCAGATGTATCAATACATTTTTCAATGTATCGATACATTCTG
1 TTTTTTACCTAGATGTATCAATACATTTTTCAATGTATCGATACATTCTG
*
2108165 TTTTTTACCTAGATATATCAATACATTTTTCAATGTATCGATACATTCTG
1 TTTTTTACCTAGATGTATCAATACATTTTTCAATGTATCGATACATTCTG
*
2108215 TCTTTTTACCTAGATGTATCGATACAT
1 T-TTTTTACCTAGATGTATCAATACAT
2108242 CTAGTTAAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
50 49 0.68
51 23 0.32
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.45
Consensus pattern (50 bp):
TTTTTTACCTAGATGTATCAATACATTTTTCAATGTATCGATACATTCTG
Found at i:2111455 original size:10 final size:10
Alignment explanation
Indices: 2111435--2111463 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
2111425 ATATGAAAAA
2111435 TAATA-AATT
1 TAATATAATT
2111444 TAATATAATT
1 TAATATAATT
2111454 TAATATAATT
1 TAATATAATT
2111464 ATCACGTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TAATATAATT
Found at i:2114291 original size:552 final size:554
Alignment explanation
Indices: 2113246--2114354 Score: 2141
Period size: 552 Copynumber: 2.0 Consensus size: 554
2113236 ATTGCTAGCT
2113246 TACTAGGTAAGCCCAATCAAAAATAGGCTAAAGGACTTTGCTAATTTGTCTAAAATAATATGAAT
1 TACTAGGTAAGCCCAATCAAAAATAGGCTAAAGGACTTTGCTAATTTGTCTAAAATAATATGAAT
**
2113311 AACATAATATATATTGCTCATTCTTGATTTTCTTATTCAATGTGGGAAAATGTTTTTTCACCATC
66 AACATAATATATATTGCTCATTCTTGATTTTCTTATTCAATGTGGGAAAACATTTTTTCACCATC
2113376 AATACAAACTACCAACACTCCCCCATCAGTTTGGAATGTTGGTGATATTAATTTGTTGCCTTTCA
131 AATACAAACTACCAACACTCCCCCATCAGTTTGGAATGTTGGTGATATTAATTTGTTGCCTTTCA
2113441 AACAAATAAATATTATGCATACAAGGTGGTATCTCTCGATTTGAACTACCAATTAGCAAATATAT
196 AACAAATAAATATTATGCATACAAGGTGGTATCTCTCGATTTGAACTACCAATTAGCAAATATAT
2113506 CTCAAAATTTAATGAAATTGTTGGTGTATGCAGATTAAACGACAATTCCTTGTATTAAAATTGAT
261 CTCAAAATTTAATGAAATTGTTGGTGTATGCAGATTAAACGACAATTCCTTGTATTAAAATTGAT
2113571 GATACATCACACAAAATATTCATTTTTTATTTTTTATTTCTATCAAAAATTTTTTACTTTTAACA
326 GATACATCACACAAAATATTCATTTTTTATTTTTTATTTCTATCAAAAATTTTTTACTTTTAACA
2113636 CTATATGGCCATGTGCTTATCCTATTCTTCATAAACATTTACATTAAAATCCATAACTTTTCCTT
391 CTATATGGCCATGTGCTTATCCTATTCTTCATAAACATTTACATTAAAATCCATAACTTTTCCTT
2113701 GTTGAAGCGGCACCACTTTTTATGTTTATATAGGTAAAGTTCCTTAATGTCCCCATTGCTTTAGA
456 GTTGAAGCGGCACCACTTTTTATGTTTATATAGGTAAAGTTCCTTAATGTCCCCATTGCTTTAGA
2113766 CATTTAAATAATAAATAATGAACTTTATTAAGAG
521 CATTTAAATAATAAATAATGAACTTTATTAAGAG
*
2113800 TACTAGGTAAGCTCAATCAAAAATAGGCTAAAGGACTTTGCTAATTTGTCTAAAATAATATGAAT
1 TACTAGGTAAGCCCAATCAAAAATAGGCTAAAGGACTTTGCTAATTTGTCTAAAATAATATGAAT
2113865 AACAT-A-ATATATTGCTCATTCTTGATTTTCTTATTCAATGTGGGAAAACATTTTTTCACCATC
66 AACATAATATATATTGCTCATTCTTGATTTTCTTATTCAATGTGGGAAAACATTTTTTCACCATC
2113928 AATACAAACTACCAACACTCCCCCATCAGTTTGGAATGTTGGTGATATTAATTTGTTGCCTTTCA
131 AATACAAACTACCAACACTCCCCCATCAGTTTGGAATGTTGGTGATATTAATTTGTTGCCTTTCA
2113993 AACAAATAAATATTATGCATACAAGGTGGTATCTCTCGATTTGAACTACCAATTAGCAAATATAT
196 AACAAATAAATATTATGCATACAAGGTGGTATCTCTCGATTTGAACTACCAATTAGCAAATATAT
*
2114058 CTCAAAATTTAATGAAATTGTTGGTGTATGCAGATTGAACGACAATTCCTTGTATTAAAATTGAT
261 CTCAAAATTTAATGAAATTGTTGGTGTATGCAGATTAAACGACAATTCCTTGTATTAAAATTGAT
*
2114123 GATACATCACACAAAATATTCATTTTTTATTTTTTATTTCTATCAAAAATTTTTTACTTTTAGCA
326 GATACATCACACAAAATATTCATTTTTTATTTTTTATTTCTATCAAAAATTTTTTACTTTTAACA
2114188 CTATATGGCCATGTGCTTATCCTATTCTTCATAAACATTTACATTAAAATCCATAACTTTTCCTT
391 CTATATGGCCATGTGCTTATCCTATTCTTCATAAACATTTACATTAAAATCCATAACTTTTCCTT
* *
2114253 GTTGAAGCGGCACCGCTTTTTATGTTTATATAGGTAAAGTTCCTTATTGTCCCCATTGCTTTAGA
456 GTTGAAGCGGCACCACTTTTTATGTTTATATAGGTAAAGTTCCTTAATGTCCCCATTGCTTTAGA
2114318 CATTTAAATAATAAATAATGAACTTTATTAAGAG
521 CATTTAAATAATAAATAATGAACTTTATTAAGAG
2114352 TAC
1 TAC
2114355 ATAAACTCAT
Statistics
Matches: 548, Mismatches: 7, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
552 478 0.87
553 1 0.00
554 69 0.13
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (554 bp):
TACTAGGTAAGCCCAATCAAAAATAGGCTAAAGGACTTTGCTAATTTGTCTAAAATAATATGAAT
AACATAATATATATTGCTCATTCTTGATTTTCTTATTCAATGTGGGAAAACATTTTTTCACCATC
AATACAAACTACCAACACTCCCCCATCAGTTTGGAATGTTGGTGATATTAATTTGTTGCCTTTCA
AACAAATAAATATTATGCATACAAGGTGGTATCTCTCGATTTGAACTACCAATTAGCAAATATAT
CTCAAAATTTAATGAAATTGTTGGTGTATGCAGATTAAACGACAATTCCTTGTATTAAAATTGAT
GATACATCACACAAAATATTCATTTTTTATTTTTTATTTCTATCAAAAATTTTTTACTTTTAACA
CTATATGGCCATGTGCTTATCCTATTCTTCATAAACATTTACATTAAAATCCATAACTTTTCCTT
GTTGAAGCGGCACCACTTTTTATGTTTATATAGGTAAAGTTCCTTAATGTCCCCATTGCTTTAGA
CATTTAAATAATAAATAATGAACTTTATTAAGAG
Found at i:2118874 original size:17 final size:17
Alignment explanation
Indices: 2118855--2118888 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
2118845 GTAAATAAAT
2118855 AAATAAATAATATAATTA
1 AAATAAA-AATATAATTA
2118873 AAATAAAAATATAATT
1 AAATAAAAATATAATT
2118889 GTATCTCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATAAAAATATAATTA
Found at i:2122437 original size:13 final size:13
Alignment explanation
Indices: 2122419--2122443 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2122409 ATTTATTATT
2122419 ATTAAATTTTAAC
1 ATTAAATTTTAAC
2122432 ATTAAATTTTAA
1 ATTAAATTTTAA
2122444 TAATTAATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTAAATTTTAAC
Found at i:2125077 original size:18 final size:18
Alignment explanation
Indices: 2125042--2125089 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
2125032 GATTTGTGAT
**
2125042 TTTTTTTATTTTGCTTTG
1 TTTTTTTATTAAGCTTTG
*
2125060 TTTTTTTATTAAGTTTTG
1 TTTTTTTATTAAGCTTTG
2125078 TTATTTTT-TTAA
1 TT-TTTTTATTAA
2125090 TTGGGATTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 21 0.81
19 5 0.19
ACGTcount: A:0.15, C:0.02, G:0.08, T:0.75
Consensus pattern (18 bp):
TTTTTTTATTAAGCTTTG
Found at i:2125901 original size:2 final size:2
Alignment explanation
Indices: 2125896--2125930 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2125886 ACATGTTTTA
2125896 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2125931 AAGATTATGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2126751 original size:20 final size:22
Alignment explanation
Indices: 2126728--2126769 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
2126718 TTTTTTCTAA
2126728 AATGTGT-GTTATTTT-TATTT
1 AATGTGTAGTTATTTTATATTT
*
2126748 AATGTTTAGTTATTTTATATTT
1 AATGTGTAGTTATTTTATATTT
2126770 TTTCTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 8 0.42
22 5 0.26
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (22 bp):
AATGTGTAGTTATTTTATATTT
Found at i:2126892 original size:22 final size:22
Alignment explanation
Indices: 2126866--2126912 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
2126856 GATGTAAATT
2126866 AAATAATAT-TT-TA-AAATAA
1 AAATAATATATTATATAAATAA
*
2126885 AAATAATATATTATATAATTAA
1 AAATAATATATTATATAAATAA
2126907 AAATAA
1 AAATAA
2126913 ATTGAGTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 9 0.38
20 2 0.08
21 2 0.08
22 11 0.46
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAATAATATATTATATAAATAA
Found at i:2126908 original size:21 final size:19
Alignment explanation
Indices: 2126861--2126908 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
2126851 TATATGATGT
2126861 AAATT-AAATAATATTTTA
1 AAATTAAAATAATATTTTA
*
2126879 AAATAAAAATAATATATTATA
1 AAATTAAAATAATAT-TT-TA
*
2126900 TAATTAAAA
1 AAATTAAAA
2126909 ATAAATTGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 9 0.38
20 2 0.08
21 9 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTAAAATAATATTTTA
Found at i:2129916 original size:19 final size:18
Alignment explanation
Indices: 2129888--2129950 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
2129878 AACAAGTAAC
*
2129888 TGTATTGATACATAATTGT
1 TGTATCGATACATAA-TGT
2129907 TGTATCGATAC--AA---
1 TGTATCGATACATAATGT
2129920 TGTATCGATACATAAGTGT
1 TGTATCGATACATAA-TGT
2129939 TGTATCGATACA
1 TGTATCGATACA
2129951 ATATATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
15 2 0.05
17 2 0.05
19 22 0.59
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATAATGT
Found at i:2129925 original size:13 final size:13
Alignment explanation
Indices: 2129907--2129931 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2129897 ACATAATTGT
2129907 TGTATCGATACAA
1 TGTATCGATACAA
2129920 TGTATCGATACA
1 TGTATCGATACA
2129932 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2129930 original size:32 final size:32
Alignment explanation
Indices: 2129888--2129958 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
2129878 AACAAGTAAC
* *
2129888 TGTATTGATACATAATTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2129920 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
2129952 TATATCG
1 TGTATCG
2129959 CTACGAAGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2130021 original size:13 final size:13
Alignment explanation
Indices: 2130003--2130029 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2129993 ATTACTCAAA
2130003 TGTATCGATACAT
1 TGTATCGATACAT
2130016 TGTATCGATACAT
1 TGTATCGATACAT
2130029 T
1 T
2130030 AATCTTTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2130025 original size:34 final size:33
Alignment explanation
Indices: 2129982--2130049 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 33
2129972 TCCAAGGAAA
*
2129982 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTAATC-AATGTATCGATACAT
**
2130016 TGTATCGATACATTAATCTTTGTATCGATACAT
1 TGTATCGATACATTAATCAATGTATCGATACAT
2130049 T
1 T
2130050 TGGAAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
33 14 0.45
34 17 0.55
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATTAATCAATGTATCGATACAT
Found at i:2133503 original size:13 final size:12
Alignment explanation
Indices: 2133451--2133506 Score: 57
Period size: 12 Copynumber: 4.9 Consensus size: 12
2133441 GTTGGGCTCA
2133451 ATGTATCGATAC
1 ATGTATCGATAC
*
2133463 AT-T-TC-A-CC
1 ATGTATCGATAC
2133471 ATGTATCGATAC
1 ATGTATCGATAC
*
2133483 AAGTATCGATAC
1 ATGTATCGATAC
2133495 ACTGTATCGATA
1 A-TGTATCGATA
2133507 TTGAGTGAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
8 3 0.09
9 2 0.06
10 4 0.11
11 2 0.06
12 15 0.43
13 9 0.26
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:2138344 original size:13 final size:13
Alignment explanation
Indices: 2138326--2138352 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2138316 TACATAAGTG
2138326 TTGTATCGATACA
1 TTGTATCGATACA
2138339 TTGTATCGATACA
1 TTGTATCGATACA
2138352 T
1 T
2138353 CGATCTTTGT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2138416 original size:20 final size:19
Alignment explanation
Indices: 2138391--2138464 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 19
2138381 TTTACCCAGA
2138391 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
2138411 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
*
2138431 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
2138451 TGTATCGATACATT
1 TGTATCGATACATT
2138465 CAGGCATTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:2138953 original size:17 final size:16
Alignment explanation
Indices: 2138927--2138959 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
2138917 CCTTCAACAG
2138927 CAAAAAAAAAAAAAAC
1 CAAAAAAAAAAAAAAC
2138943 CAAAAACAAAAAAAAAC
1 CAAAAA-AAAAAAAAAC
2138960 ACTATTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (16 bp):
CAAAAAAAAAAAAAAC
Found at i:2140919 original size:51 final size:51
Alignment explanation
Indices: 2140857--2141023 Score: 199
Period size: 51 Copynumber: 3.3 Consensus size: 51
2140847 ATTTTCTGAG
* * *
2140857 GGGATACTCCAACCCCGATTTTATTTTTAAAATACCAATTTTTCGCAATCA
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATCA
* * * * *
2140908 GGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTCTCACGATCG
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATCA
* *** * *
2140959 GGGATACTCTAACCCCGGCCTTATTTCTAAAGCATCAATTTTTCACAATCA
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATCA
*
2141010 GAGATACTCCAACC
1 GGGATACTCCAACC
2141024 TAGTTATTTT
Statistics
Matches: 95, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 95 1.00
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.31
Consensus pattern (51 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATCA
Found at i:2141043 original size:131 final size:131
Alignment explanation
Indices: 2140908--2141154 Score: 307
Period size: 131 Copynumber: 1.9 Consensus size: 131
2140898 TTCGCAATCA
* * *
2140908 GGGATACTCCAACTCCGATTTTATTTCCAAAACACCAA-TTTCTCACGATCGGGGATACTCTAAC
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTC-CACAATCGGGGATACTCCAAC
* * * * *
2140972 CCCGGCCTTATTTCTAAAGCATCAATTTTTCACAATCAGAGATACTCCAACCTAGTTATTTTCTG
65 CCCGACCTTATTTCCAAAACACCAATTTCTCACAATCAGAGATACTCCAACCTAGTTATTTTCTG
2141037 AG
130 AG
* ** * * *
2141039 GGGATACTCTAACCCCGATTTTATTTTTAAAATACCAATTTTCCATAATCGGGGATACTCCAACT
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACC
** * * *
2141104 CCGATTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCTAACC
66 CCGACCTTATTTCCAAAACACCAATTTCTCACAATCAGAGATACTCCAACC
2141155 CCGGCCTTAT
Statistics
Matches: 96, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
131 92 0.96
132 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (131 bp):
GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACC
CCGACCTTATTTCCAAAACACCAATTTCTCACAATCAGAGATACTCCAACCTAGTTATTTTCTGA
G
Found at i:2141080 original size:182 final size:181
Alignment explanation
Indices: 2140766--2141235 Score: 721
Period size: 182 Copynumber: 2.6 Consensus size: 181
2140756 AGCCCCGTTA
* * * *
2140766 TCTCATAATCGGGGATACT-TCAACCCCGGCTTTATTTCTAAATCATCGATTTTTCACAATCGGG
1 TCTCACAATCGGGGATACTCT-AACCCCGGCCTTATTTCTAAAGCATCGATTTTTCACAATCGGA
2140830 GATACTCCAACCTCGTTATTTTCTGAGGGGATACTCCAACCCCGATTTTATTTTTAAAATACCAA
65 GATACTCCAACCT-GTTATTTTCTGAGGGGATACTCCAACCCCGATTTTATTTTTAAAATACCAA
* *
2140895 TTTTTCGCAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATT
129 TTTTCCACAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATT
* * *
2140948 TCTCACGATCGGGGATACTCTAACCCCGGCCTTATTTCTAAAGCATCAATTTTTCACAATCAGAG
1 TCTCACAATCGGGGATACTCTAACCCCGGCCTTATTTCTAAAGCATCGATTTTTCACAATCGGAG
*
2141013 ATACTCCAACCTAGTTATTTTCTGAGGGGATACTCTAACCCCGATTTTATTTTTAAAATACCAAT
66 ATACTCCAACCT-GTTATTTTCTGAGGGGATACTCCAACCCCGATTTTATTTTTAAAATACCAAT
* *
2141078 TTTCCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATT
130 TTTCCACAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATT
* * *
2141130 TCTCACAATCGGGGATACTCTAACCCCGGCCTTATTTCT-AAGGATCGATTTTCCATAATCGGAG
1 TCTCACAATCGGGGATACTCTAACCCCGGCCTTATTTCTAAAGCATCGATTTTTCACAATCGGAG
* * *
2141194 ATACTCTAACCCTGTTATTTTC-GAAGGGATACTCCAGCCCCG
66 ATACTCCAA-CCTGTTATTTTCTGAGGGGATACTCCAACCCCG
2141236 TTGTCATCTC
Statistics
Matches: 263, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
180 17 0.06
181 37 0.14
182 208 0.79
183 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (181 bp):
TCTCACAATCGGGGATACTCTAACCCCGGCCTTATTTCTAAAGCATCGATTTTTCACAATCGGAG
ATACTCCAACCTGTTATTTTCTGAGGGGATACTCCAACCCCGATTTTATTTTTAAAATACCAATT
TTCCACAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATT
Found at i:2141167 original size:51 final size:51
Alignment explanation
Indices: 2141038--2141157 Score: 170
Period size: 51 Copynumber: 2.4 Consensus size: 51
2141028 TATTTTCTGA
** * *
2141038 GGGGATACTCTAACCCCGATTTTATTTTTAAAATACCAATTTTCCATAATC
1 GGGGATACTCTAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATC
* *
2141089 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAA-TTTCTCACAATC
1 GGGGATACTCTAACCCCGATTTTATTTCCAAAACACCAATTTTC-CACAATC
2141140 GGGGATACTCTAACCCCG
1 GGGGATACTCTAACCCCG
2141158 GCCTTATTTC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 4 0.07
51 56 0.93
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (51 bp):
GGGGATACTCTAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATC
Found at i:2146551 original size:13 final size:13
Alignment explanation
Indices: 2146533--2146557 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2146523 TAGCAAGAAC
2146533 ATGTATCGATACA
1 ATGTATCGATACA
2146546 ATGTATCGATAC
1 ATGTATCGATAC
2146558 TAAGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2146573 original size:33 final size:32
Alignment explanation
Indices: 2146517--2146578 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
2146507 AGTTAGTGTT
2146517 TATCGATAGCAAGAACATGTATCGATACAATG
1 TATCGATAGCAAGAACATGTATCGATACAATG
*
2146549 TATCGATA-CTAAGCAATATGTATCGATACA
1 TATCGATAGC-AAG-AACATGTATCGATACA
2146579 TCTGGGTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 1 0.04
32 11 0.41
33 15 0.56
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (32 bp):
TATCGATAGCAAGAACATGTATCGATACAATG
Found at i:2150107 original size:21 final size:21
Alignment explanation
Indices: 2150081--2150134 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
2150071 TAGACATGTT
*
2150081 AAAAATGCATGGAACATAGTA
1 AAAAATGCACGGAACATAGTA
2150102 AAAAATGCACGGAACATAGTA
1 AAAAATGCACGGAACATAGTA
2150123 AAAAATGCACGG
1 AAAAATGCACGG
2150135 TTAAAGGCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.52, C:0.13, G:0.20, T:0.15
Consensus pattern (21 bp):
AAAAATGCACGGAACATAGTA
Found at i:2151065 original size:20 final size:20
Alignment explanation
Indices: 2151040--2151092 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
2151030 GTAAAAAGAC
2151040 AGAATGTATCGATGCATTGA
1 AGAATGTATCGATGCATTGA
2151060 AGAATGTATCGATGCATTGA
1 AGAATGTATCGATGCATTGA
2151080 AGAATGTATCGAT
1 AGAATGTATCGAT
2151093 ACATCTCGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATGCATTGA
Found at i:2151122 original size:50 final size:50
Alignment explanation
Indices: 2151062--2151156 Score: 154
Period size: 50 Copynumber: 1.9 Consensus size: 50
2151052 TGCATTGAAG
* * *
2151062 AATGTATCGATGCATTGAAGAATGTATCGATACATCTCGGTAAAAGACAA
1 AATGTATCGATACATTGAAAAATGTATCAATACATCTCGGTAAAAGACAA
*
2151112 AATGTATCGATACATTGAAAAATGTATCAATACATCTGGGTAAAA
1 AATGTATCGATACATTGAAAAATGTATCAATACATCTCGGTAAAA
2151157 AATATGACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (50 bp):
AATGTATCGATACATTGAAAAATGTATCAATACATCTCGGTAAAAGACAA
Found at i:2151128 original size:70 final size:69
Alignment explanation
Indices: 2150994--2151146 Score: 227
Period size: 70 Copynumber: 2.2 Consensus size: 69
2150984 TTTTAACTAG
* *
2150994 ATGTATCGATACATTGAAATGTATCGATACATCTAGGTAAAAAGACAGAATGTATCGATGCATTG
1 ATGTATCGATACATTGAAATGTATCGATACATCTAGGTAAAAAGACAAAATGTATCGATACATTG
*
2151059 AAGA
66 AAAA
* *
2151063 ATGTATCGATGCATTGAAGAATGTATCGATACATCTCGGT-AAAAGACAAAATGTATCGATACAT
1 ATGTATCGATACATTG-A-AATGTATCGATACATCTAGGTAAAAAGACAAAATGTATCGATACAT
2151127 TGAAAA
64 TGAAAA
*
2151133 ATGTATCAATACAT
1 ATGTATCGATACAT
2151147 CTGGGTAAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
69 15 0.20
70 40 0.53
71 20 0.27
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.28
Consensus pattern (69 bp):
ATGTATCGATACATTGAAATGTATCGATACATCTAGGTAAAAAGACAAAATGTATCGATACATTG
AAAA
Found at i:2152161 original size:49 final size:49
Alignment explanation
Indices: 2152099--2152231 Score: 221
Period size: 49 Copynumber: 2.7 Consensus size: 49
2152089 GAGGAGTGCT
** * *
2152099 AATGTGCCAATTCAAGGCCAGCGATAATGGGCTAAGGGAAAAGTGGACC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGACC
2152148 AATGTGCTGATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGACC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGACC
*
2152197 AATGTGCTGATTCAAGGCCAACGACATTGGGCTAA
1 AATGTGCTGATTCAAGGCCAGCGACATTGGGCTAA
2152232 TAAAGGTGCC
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 79 1.00
ACGTcount: A:0.32, C:0.19, G:0.30, T:0.19
Consensus pattern (49 bp):
AATGTGCTGATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGACC
Found at i:2152262 original size:45 final size:48
Alignment explanation
Indices: 2152099--2152265 Score: 196
Period size: 49 Copynumber: 3.5 Consensus size: 48
2152089 GAGGAGTGCT
** * * *
2152099 AATGTGCCAATTCAAGGCCAGCGATAATGGGCTAAGGGAAAAGTGGACC
1 AATGTGCTGATTCAAGGCCAACGACATTGGGCTAA-GGAAAAGTGGACC
*
2152148 AATGTGCTGATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGACC
1 AATGTGCTGATTCAAGGCCAACGACATTGGGCTAA-GGAAAAGTGGACC
* *
2152197 AATGTGCTGATTCAAGGCCAACGACATTGGGCTAA-TAAAGGT-G-CC
1 AATGTGCTGATTCAAGGCCAACGACATTGGGCTAAGGAAAAGTGGACC
* * *
2152242 AATATGCCGATTCAATGCCAACGA
1 AATGTGCTGATTCAAGGCCAACGA
2152266 TATCGGACTT
Statistics
Matches: 108, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
45 23 0.21
46 1 0.01
47 5 0.05
49 79 0.73
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (48 bp):
AATGTGCTGATTCAAGGCCAACGACATTGGGCTAAGGAAAAGTGGACC
Found at i:2152401 original size:64 final size:62
Alignment explanation
Indices: 2152289--2152428 Score: 174
Period size: 64 Copynumber: 2.2 Consensus size: 62
2152279 GATGACAAAA
*
2152289 GTGGTGCTTTGAAAAGGGTTGCCATCAACTTATGTGGGCTTTAGAAAAAGGCACCACTAACTT
1 GTGG-GCTTTGAAAAGAGTTGCCATCAACTTATGTGGGCTTTAGAAAAAGGCACCACTAACTT
* * * ** *
2152352 GTGTAGGCTTTGAAAAGAGTTGCTATCGACTTGTGTGGGCTTTCA-AAAAAGGTGCCACTTACTT
1 GTG--GGCTTTGAAAAGAGTTGCCATCAACTTATGTGGGCTTT-AGAAAAAGGCACCACTAACTT
2152416 GTGGGCTTTGAAA
1 GTGGGCTTTGAAA
2152429 GGGTGTTACT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
62 10 0.15
63 3 0.04
64 52 0.78
65 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (62 bp):
GTGGGCTTTGAAAAGAGTTGCCATCAACTTATGTGGGCTTTAGAAAAAGGCACCACTAACTT
Found at i:2152416 original size:32 final size:31
Alignment explanation
Indices: 2152289--2152418 Score: 84
Period size: 32 Copynumber: 4.0 Consensus size: 31
2152279 GATGACAAAA
* * *
2152289 GTGGTGCTTTGAAAAGGGTTGCCA-TCAACTTAT
1 GTGG-GCTTTAAAAAAGG-TGCCACT-AACTTGT
**
2152322 GTGGGCTTTAGAAAAAGGCACCACTAACTTGT
1 GTGGGCTTTA-AAAAAGGTGCCACTAACTTGT
* * * * *
2152354 GTAGGCTTTGAAAAGAGTTGCTA-TCGACTTGT
1 GTGGGCTTT-AAAAAAGGTGCCACT-AACTTGT
*
2152386 GTGGGCTTTCAAAAAAGGTGCCACTTACTTGT
1 GTGGGCTTT-AAAAAAGGTGCCACTAACTTGT
2152418 G
1 G
2152419 GGCTTTGAAA
Statistics
Matches: 74, Mismatches: 18, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
31 1 0.01
32 60 0.81
33 13 0.18
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (31 bp):
GTGGGCTTTAAAAAAGGTGCCACTAACTTGT
Found at i:2152444 original size:28 final size:28
Alignment explanation
Indices: 2152399--2152709 Score: 408
Period size: 28 Copynumber: 11.1 Consensus size: 28
2152389 GGCTTTCAAA
*
2152399 AAAGG-TGCCACTTACTTGTGGGCTTTG
1 AAAGGATGCCACTAACTTGTGGGCTTTG
* **
2152426 AAAGGGTGTTACTAACTTGTGGGCTTTG
1 AAAGGATGCCACTAACTTGTGGGCTTTG
* * *
2152454 AAAGAATGCCATTGACTTGTGGGCTTTG
1 AAAGGATGCCACTAACTTGTGGGCTTTG
** * *
2152482 AAAGGATGCCTTTGACTTGTGAGCTTTG
1 AAAGGATGCCACTAACTTGTGGGCTTTG
2152510 AAAGGATGCCACTAACTTGTGGGCTTTG
1 AAAGGATGCCACTAACTTGTGGGCTTTG
* *
2152538 AAAAGGATGCCACTGACTTATGGGCTTTG
1 -AAAGGATGCCACTAACTTGTGGGCTTTG
** *
2152567 AAAGGATATCACTAACTTATGGGCTTTG
1 AAAGGATGCCACTAACTTGTGGGCTTTG
**
2152595 AAAGGATATCACTAACTTGTGGGCTTTG
1 AAAGGATGCCACTAACTTGTGGGCTTTG
* * *
2152623 AAAAGATGCCACTGACTTGTAGGCTTTG
1 AAAGGATGCCACTAACTTGTGGGCTTTG
*
2152651 AAAGGATGCCACTAACTTGTGAGCTTTG
1 AAAGGATGCCACTAACTTGTGGGCTTTG
2152679 AAAGGATGCCACTAACTTGTGGGCTTTG
1 AAAGGATGCCACTAACTTGTGGGCTTTG
2152707 AAA
1 AAA
2152710 AGGGTCGTAT
Statistics
Matches: 250, Mismatches: 32, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
27 5 0.02
28 219 0.88
29 26 0.10
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (28 bp):
AAAGGATGCCACTAACTTGTGGGCTTTG
Found at i:2152696 original size:169 final size:169
Alignment explanation
Indices: 2152407--2152712 Score: 506
Period size: 169 Copynumber: 1.8 Consensus size: 169
2152397 AAAAAGGTGC
* * * * * *
2152407 CACTTACTTGTGGGCTTTGAAAGGGTGTTACTAACTTGTGGGCTTTGAAAGAATGCCATTGACTT
1 CACTAACTTATGGGCTTTGAAAGGATATCACTAACTTGTGGGCTTTGAAAGAATGCCACTGACTT
* ** *
2152472 GTGGGCTTTGAAAGGATGCCTTTGACTTGTGAGCTTTGAAAGGATGCCACTAACTTGTGGGCTTT
66 GTAGGCTTTGAAAGGATGCCACTAACTTGTGAGCTTTGAAAGGATGCCACTAACTTGTGGGCTTT
2152537 GAAAAGGATGCCACTGACTTATGGGCTTTGAAAGGATAT
131 GAAAAGGATGCCACTGACTTATGGGCTTTGAAAGGATAT
2152576 CACTAACTTATGGGCTTTGAAAGGATATCACTAACTTGTGGGCTTTGAAA-AGATGCCACTGACT
1 CACTAACTTATGGGCTTTGAAAGGATATCACTAACTTGTGGGCTTTGAAAGA-ATGCCACTGACT
2152640 TGTAGGCTTTGAAAGGATGCCACTAACTTGTGAGCTTTGAAAGGATGCCACTAACTTGTGGGCTT
65 TGTAGGCTTTGAAAGGATGCCACTAACTTGTGAGCTTTGAAAGGATGCCACTAACTTGTGGGCTT
2152705 TGAAAAGG
130 TGAAAAGG
2152713 GTCGTATTGA
Statistics
Matches: 126, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
168 1 0.01
169 125 0.99
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (169 bp):
CACTAACTTATGGGCTTTGAAAGGATATCACTAACTTGTGGGCTTTGAAAGAATGCCACTGACTT
GTAGGCTTTGAAAGGATGCCACTAACTTGTGAGCTTTGAAAGGATGCCACTAACTTGTGGGCTTT
GAAAAGGATGCCACTGACTTATGGGCTTTGAAAGGATAT
Found at i:2154005 original size:14 final size:15
Alignment explanation
Indices: 2153986--2154015 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2153976 ATCTAGACCC
2153986 TTTTTTT-GTTTTTT
1 TTTTTTTGGTTTTTT
2154000 TTTTTTTGGTTTTTT
1 TTTTTTTGGTTTTTT
2154015 T
1 T
2154016 AGGTACGAAG
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:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (15 bp):
TTTTTTTGGTTTTTT
Found at i:2167385 original size:90 final size:91
Alignment explanation
Indices: 2167215--2167389 Score: 271
Period size: 90 Copynumber: 1.9 Consensus size: 91
2167205 TTTTAATTAG
* * * *
2167215 ATGTATCGATACATTAAAAAATGTATCGATATATCTAGGTAAAAAGATAGAATCTATTGATACAT
1 ATGTATCGATACATTAAAAAATGTATCAATACATCTAGGTAAAAAGACAGAATCTATCGATACAT
*
2167280 TGAAGAATGTATCGATACATTCATAC
66 TGAAAAATGTATCGATACATTCATAC
* * *
2167306 ATGTATCGATACATTGAAAAATGTATCAATACATCTGGGT-AAAAGACAGAATGTATCGATACAT
1 ATGTATCGATACATTAAAAAATGTATCAATACATCTAGGTAAAAAGACAGAATCTATCGATACAT
2167370 TGAAAAATGTATCGATACAT
66 TGAAAAATGTATCGATACAT
2167390 CTGAAGAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
90 40 0.53
91 36 0.47
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.30
Consensus pattern (91 bp):
ATGTATCGATACATTAAAAAATGTATCAATACATCTAGGTAAAAAGACAGAATCTATCGATACAT
TGAAAAATGTATCGATACATTCATAC
Found at i:2167400 original size:24 final size:20
Alignment explanation
Indices: 2167273--2167394 Score: 100
Period size: 20 Copynumber: 5.5 Consensus size: 20
2167263 AGAATCTATT
*
2167273 GATACATTGAAGAATGTATC
1 GATACATTGAAAAATGTATC
* * *
2167293 GATACATTCATACATGTATC
1 GATACATTGAAAAATGTATC
2167313 GATACATTGAAAAATGTATC
1 GATACATTGAAAAATGTATC
*
2167333 AATACATCTGGGTAAAAGACAGAATGTATC
1 GATACAT-T--G----A-A-A-AATGTATC
2167363 GATACATTGAAAAATGTATC
1 GATACATTGAAAAATGTATC
2167383 GATACATCTGAA
1 GATACAT-TGAA
2167395 GAAAAAAGTG
Statistics
Matches: 82, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
20 54 0.66
21 6 0.07
22 1 0.01
23 2 0.02
27 2 0.02
28 1 0.01
29 2 0.02
30 14 0.17
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (20 bp):
GATACATTGAAAAATGTATC
Found at i:2170949 original size:8 final size:8
Alignment explanation
Indices: 2170940--2170979 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
2170930 GAAATATATG
*
2170940 TATGTATG
1 TATGTATA
2170948 TATGTATA
1 TATGTATA
*
2170956 TATATATA
1 TATGTATA
*
2170964 TATATATA
1 TATGTATA
2170972 TATGTATA
1 TATGTATA
2170980 AAGACTTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (8 bp):
TATGTATA
Found at i:2170953 original size:12 final size:12
Alignment explanation
Indices: 2170933--2170979 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
2170923 ACTTTAAGAA
*
2170933 ATATATGTATGT
1 ATATATGTATAT
*
2170945 ATGTATGTATAT
1 ATATATGTATAT
*
2170957 ATATATATATAT
1 ATATATGTATAT
2170969 ATATATGTATA
1 ATATATGTATA
2170980 AAGACTTGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (12 bp):
ATATATGTATAT
Found at i:2171816 original size:27 final size:25
Alignment explanation
Indices: 2171774--2171844 Score: 69
Period size: 25 Copynumber: 2.9 Consensus size: 25
2171764 GGGATGAGGG
2171774 AGAAAG-GAAAA-AA-AAAAAAACAA
1 AGAAAGAGAAAAGAAGAAAAAAA-AA
* *
2171797 TGAAAGA-AAAAGAAGGAAAAAAAAG
1 AGAAAGAGAAAAGAA-GAAAAAAAAA
*
2171822 AGAAAGAGAAAGGAAGAAAAAAA
1 AGAAAGAGAAAAGAAGAAAAAAA
2171845 GGGTAAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
23 9 0.23
24 2 0.05
25 15 0.38
26 13 0.33
ACGTcount: A:0.76, C:0.01, G:0.21, T:0.01
Consensus pattern (25 bp):
AGAAAGAGAAAAGAAGAAAAAAAAA
Found at i:2171825 original size:21 final size:23
Alignment explanation
Indices: 2171801--2171843 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
2171791 AAACAATGAA
2171801 AGAAAAAG-AAGGAA-AAAAAAG
1 AGAAAAAGAAAGGAAGAAAAAAG
*
2171822 AGAAAGAGAAAGGAAGAAAAAA
1 AGAAAAAGAAAGGAAGAAAAAA
2171844 AGGGTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 6 0.32
23 6 0.32
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (23 bp):
AGAAAAAGAAAGGAAGAAAAAAG
Found at i:2171914 original size:24 final size:20
Alignment explanation
Indices: 2171887--2171936 Score: 55
Period size: 24 Copynumber: 2.3 Consensus size: 20
2171877 ATTTAAGTTA
2171887 TTATAAAAATTTATTATTATAAAT
1 TTATAAAAATTT-TT-TTAT--AT
*
2171911 TTATATAAATTTTTTTATAT
1 TTATAAAAATTTTTTTATAT
2171931 TTATAA
1 TTATAA
2171937 TTCATTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 7 0.29
22 4 0.17
23 2 0.08
24 11 0.46
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATAAAAATTTTTTTATAT
Found at i:2171975 original size:19 final size:20
Alignment explanation
Indices: 2171940--2171978 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
2171930 TTTATAATTC
2171940 ATTTTATATATACTTTTTAT
1 ATTTTATATATACTTTTTAT
2171960 ATTTTCATAT-TA-TTTTTAT
1 ATTTT-ATATATACTTTTTAT
2171979 TGCTTTTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 7 0.39
21 4 0.22
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTTATATATACTTTTTAT
Found at i:2173581 original size:32 final size:33
Alignment explanation
Indices: 2173516--2173583 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
2173506 CGTTACAAGC
* *
2173516 CAATATATCGATACATTTTGTGATGTATTGATA
1 CAATATATCGATACATATTGTGATGTATCGATA
2173549 CAATATATCGATACATATTGTG-TGTATCGATA
1 CAATATATCGATACATATTGTGATGTATCGATA
2173581 CAA
1 CAA
2173584 ATTTAGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 12 0.36
33 21 0.64
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (33 bp):
CAATATATCGATACATATTGTGATGTATCGATA
Found at i:2174257 original size:22 final size:22
Alignment explanation
Indices: 2174230--2174348 Score: 79
Period size: 21 Copynumber: 5.6 Consensus size: 22
2174220 TTTTCTTTTC
2174230 TCTCCCCCTTAATCAAAA-AATT
1 TCTCCCCCTTAAT-AAAATAATT
2174252 TCTCCCCCTTAATAAAATAATT
1 TCTCCCCCTTAATAAAATAATT
* * * **
2174274 TC-GCACATTAA-AAAATTCTT
1 TCTCCCCCTTAATAAAATAATT
*
2174294 TCTCCCCCTTAATCATAA-AATT
1 TCTCCCCCTTAAT-AAAATAATT
* * * **
2174316 TC-GCACATTAA-AAAATTCTT
1 TCTCCCCCTTAATAAAATAATT
2174336 TCTCCCCCTTAAT
1 TCTCCCCCTTAAT
2174349 CATAAAATTT
Statistics
Matches: 70, Mismatches: 20, Indels: 14
0.67 0.19 0.13
Matches are distributed among these distances:
19 3 0.04
20 13 0.19
21 28 0.40
22 23 0.33
23 3 0.04
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.35
Consensus pattern (22 bp):
TCTCCCCCTTAATAAAATAATT
Found at i:2174300 original size:42 final size:42
Alignment explanation
Indices: 2174250--2174358 Score: 184
Period size: 42 Copynumber: 2.6 Consensus size: 42
2174240 AATCAAAAAA
2174250 TTTCTCCCCCTTAAT-AAAATAATTTCGCACATTAAAAAATTC
1 TTTCTCCCCCTTAATCAAAA-AATTTCGCACATTAAAAAATTC
*
2174292 TTTCTCCCCCTTAATCATAAAATTTCGCACATTAAAAAATTC
1 TTTCTCCCCCTTAATCAAAAAATTTCGCACATTAAAAAATTC
*
2174334 TTTCTCCCCCTTAATCATAAAATTT
1 TTTCTCCCCCTTAATCAAAAAATTT
2174359 ATTTACACAA
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
42 62 0.95
43 3 0.05
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.38
Consensus pattern (42 bp):
TTTCTCCCCCTTAATCAAAAAATTTCGCACATTAAAAAATTC
Found at i:2175757 original size:20 final size:22
Alignment explanation
Indices: 2175715--2175757 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 22
2175705 GCTGCTAGTG
*
2175715 TGGGGGCTGCCCGGTTGCAACC
1 TGGGGGCTGCCCGGTCGCAACC
*
2175737 TGGGGG-TG-CCGGTCGCGACC
1 TGGGGGCTGCCCGGTCGCAACC
2175757 T
1 T
2175758 AGTGGGTGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.58
21 2 0.11
22 6 0.32
ACGTcount: A:0.07, C:0.30, G:0.44, T:0.19
Consensus pattern (22 bp):
TGGGGGCTGCCCGGTCGCAACC
Found at i:2176056 original size:20 final size:21
Alignment explanation
Indices: 2176027--2176067 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
2176017 TGTTTTTGTT
2176027 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
2176046 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
2176068 AAGAAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:2176218 original size:13 final size:13
Alignment explanation
Indices: 2176200--2176237 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2176190 ATAAACCCCT
*
2176200 TGTATCGATACAC
1 TGTATCGATACAA
2176213 TGTATCGATACAA
1 TGTATCGATACAA
2176226 TGTATCGATACA
1 TGTATCGATACA
2176238 GAGAATGCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2182415 original size:33 final size:32
Alignment explanation
Indices: 2182378--2182445 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 32
2182368 CGTTACAAGC
*
2182378 CAATGTATCGATACATTTTGTGATGTATCGATA
1 CAATGTATCGATACATATTGTG-TGTATCGATA
2182411 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTGTGTGTATCGATA
2182443 CAA
1 CAA
2182446 ATTTATCTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 13 0.38
33 21 0.62
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
CAATGTATCGATACATATTGTGTGTATCGATA
Found at i:2182418 original size:13 final size:13
Alignment explanation
Indices: 2182400--2182425 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2182390 ACATTTTGTG
2182400 ATGTATCGATACA
1 ATGTATCGATACA
2182413 ATGTATCGATACA
1 ATGTATCGATACA
2182426 TATTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2182503 original size:20 final size:20
Alignment explanation
Indices: 2182478--2182530 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
2182468 CCAATGACTT
**
2182478 GTATCGATACATTTTTTCAA
1 GTATCGATACATTTAGTCAA
*
2182498 GTATCGATACATTTAGTCAT
1 GTATCGATACATTTAGTCAA
2182518 GTATCGATACATT
1 GTATCGATACATT
2182531 GTATCGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (20 bp):
GTATCGATACATTTAGTCAA
Found at i:2183054 original size:24 final size:23
Alignment explanation
Indices: 2183018--2183062 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
2183008 TTTAATTTTA
*
2183018 AATTATTTTTAAATATATTTAATT
1 AATTATTTTTAAA-AAATTTAATT
2183042 AATT-TTTTATAAAAAATTTAA
1 AATTATTTT-TAAAAAATTTAA
2183063 ATTCCCAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
AATTATTTTTAAAAAATTTAATT
Found at i:2192188 original size:13 final size:13
Alignment explanation
Indices: 2192170--2192197 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2192160 ATACAAAGAT
2192170 CAATGTATCGATA
1 CAATGTATCGATA
2192183 CAATGTATCGATA
1 CAATGTATCGATA
2192196 CA
1 CA
2192198 TTGAATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2192189 original size:33 final size:33
Alignment explanation
Indices: 2192152--2192217 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
2192142 AAATTCCCAG
2192152 ATGTATCAATACAAAG-ATCAATGTATCGATACA
1 ATGTATCAATACAAAGAAT-AATGTATCGATACA
* **
2192185 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCAATACAAAGAATAATGTATCGATACA
2192218 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
ATGTATCAATACAAAGAATAATGTATCGATACA
Found at i:2193208 original size:49 final size:49
Alignment explanation
Indices: 2193091--2193618 Score: 404
Period size: 49 Copynumber: 10.9 Consensus size: 49
2193081 TGAAGAAGAA
** * * * *
2193091 TGCCAATGTGCTGAGACAAGGCCATCGACATTGGGCTTAAGAATATGAAAGA
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTT-A-AAGAT-AAAGG
* * *
2193143 TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGG
*
2193192 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAGAAGAA
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGAT-A-AAG-G
** * * * * * *
2193244 TGATAATGTGTTGATTCATGGTCAGCGACATTAGACTTGAAGA-AGAA--
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATA-AAGG
* ** * * *
2193291 TGCCAATGTGTTGAGACAAGGCCAGCGACATTGGGCTTAGGAATG-TGAAAGA
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTA--AA-GAT-AAAGG
* * * * * *
2193343 TACCAATATGCTGATCCAAGGCCAACGATATCGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGG
*
2193392 TGCCAATGTGCTGATTCAAGGCCAGA-GACATTGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCA-ACGACATTGGACTTAAAGATAAAGG
* * * * *
2193441 TGCCAATATGCTGATTCAAGGCCAGCGATATTGG-------GCT---CG
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGG
* * * *
2193480 TGCCAATGTGCTGATTAAAGGCCAATGACATTGGTCTTAAAGGT-AAGG
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGG
* * * * *
2193528 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGG
* * *
2193577 TGCCAATGTGTTGATTCAAGGCCAGCAACATTGGACTTAAAG
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
2193619 GTGCCAACAT
Statistics
Matches: 383, Mismatches: 70, Indels: 49
0.76 0.14 0.10
Matches are distributed among these distances:
39 30 0.08
42 2 0.01
46 2 0.01
47 30 0.08
48 38 0.10
49 164 0.43
50 16 0.04
51 5 0.01
52 96 0.25
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (49 bp):
TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGG
Found at i:2193281 original size:101 final size:100
Alignment explanation
Indices: 2193091--2193615 Score: 412
Period size: 101 Copynumber: 5.4 Consensus size: 100
2193081 TGAAGAAGAA
* * * *
2193091 TGCCAATGTGCTGAGACAAGGCCATCGACATTGGGCTTAAGAATATGAAAGATGCCAATATGCTG
1 TGCCAATGTGCTGAGACAAGGCCAACGACATTGGACTT-AGAAGATGAAAGATGACAATATGCTG
2193156 ATTCAAGGCCAACGATATCGGACTTAAAGATAAAGG
65 ATTCAAGGCCAACGATATCGGACTTAAAGATAAAGG
** * * *
2193192 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTA-AAGATGAGAAGAATGATAATGTGTT
1 TGCCAATGTGCTGAGACAAGGCCAACGACATTGGACTTAGAAGATGA-AAG-ATGACAATATGCT
* * * * ** *
2193256 GATTCATGGTCAGCGACATTAGACTTGAAGA-AGAA--
64 GATTCAAGGCCAACGATATCGGACTTAAAGATA-AAGG
* * *
2193291 TGCCAATGTGTTGAGACAAGGCCAGCGACATTGGGCTTAGGAATG-TGAAAGAT-ACCAATATGC
1 TGCCAATGTGCTGAGACAAGGCCAACGACATTGGACTTA-GAA-GATGAAAGATGA-CAATATGC
* *
2193354 TGATCCAAGGCCAACGATATCGGACTTAAAGATGAAGG
63 TGATTCAAGGCCAACGATATCGGACTTAAAGATAAAGG
** * *
2193392 TGCCAATGTGCTGATTCAAGGCCAGA-GACATTGGACTTA-AAGATG-AAGGTGCCAATATGCTG
1 TGCCAATGTGCTGAGACAAGGCCA-ACGACATTGGACTTAGAAGATGAAAGATGACAATATGCTG
* * * *
2193454 ATTCAAGGCCAGCGATATTGG-------GCT---CG
65 ATTCAAGGCCAACGATATCGGACTTAAAGATAAAGG
* * * * * *
2193480 TGCCAATGTGCTGATTA-AAGGCCAATGACATTGGTCTTA-AAG--GTAAGGTGCCAATATGCTG
1 TGCCAATGTGCTGA-GACAAGGCCAACGACATTGGACTTAGAAGATGAAAGATGACAATATGCTG
* * * *
2193541 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGA
65 ATTCAAGGCCAACGATATCGGACTTAAAGATAAAGG
* ** * *
2193577 TGCCAATGTGTTGATTCAAGGCCAGCAACATTGGACTTA
1 TGCCAATGTGCTGAGACAAGGCCAACGACATTGGACTTA
2193616 AAGGTGCCAA
Statistics
Matches: 341, Mismatches: 56, Indels: 58
0.75 0.12 0.13
Matches are distributed among these distances:
86 1 0.00
87 39 0.11
88 37 0.11
89 1 0.00
91 2 0.01
94 2 0.01
96 1 0.00
97 31 0.09
98 34 0.10
99 77 0.23
100 8 0.02
101 107 0.31
102 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (100 bp):
TGCCAATGTGCTGAGACAAGGCCAACGACATTGGACTTAGAAGATGAAAGATGACAATATGCTGA
TTCAAGGCCAACGATATCGGACTTAAAGATAAAGG
Found at i:2193304 original size:47 final size:49
Alignment explanation
Indices: 2193063--2193671 Score: 218
Period size: 49 Copynumber: 12.7 Consensus size: 49
2193053 AGAATGACAT
* * * **
2193063 GGCCAGCGACACTAAACTT-GA-AGAAGAATGCCAATGTGCTGAGACAA
1 GGCCAGCGACATTAGACTTAGAGAGAAGAATGCCAATGTGTTGATTCAA
* * * * * *
2193110 GGCCATCGACATTGGGCTTAAGAATATGAA-AGATGCCAATATGCTGATTCAA
1 GGCCAGCGACATTAGACTT-AG-AGA-GAAGA-ATGCCAATGTGTTGATTCAA
* * ** * * * *
2193162 GGCCAACGATATCGGACTTAAAGATAA-AGGTGCCAATGTGCTGATTCAA
1 GGCCAGCGACATTAGACTTAGAGAGAAGA-ATGCCAATGTGTTGATTCAA
* * ** *
2193211 GGCCAACGACATTGGACTTAAAGATGAGAAGAATGATAATGTGTTGATTCAT
1 GGCCAGCGACATTAGACTT--AGA-GAGAAGAATGCCAATGTGTTGATTCAA
* **
2193263 GGTCAGCGACATTAGACTT-GA-AGAAGAATGCCAATGTGTTGAGACAA
1 GGCCAGCGACATTAGACTTAGAGAGAAGAATGCCAATGTGTTGATTCAA
* * * * * * *
2193310 GGCCAGCGACATTGGGCTTAGGAATGTGAA-AGATACCAATATGCTGATCCAA
1 GGCCAGCGACATTAGACTTA-G-A-GAGAAGA-ATGCCAATGTGTTGATTCAA
* * ** * * *
2193362 GGCCAACGATATCGGACTTAAAGATGAAG-GTGCCAATGTGCTGATTCAA
1 GGCCAGCGACATTAGACTTAGAGA-GAAGAATGCCAATGTGTTGATTCAA
* * * * * *
2193411 GGCCAGAGACATTGGACTTAAAGATGAAG-GTGCCAATATGCTGATTCAA
1 GGCCAGCGACATTAGACTTAGAGA-GAAGAATGCCAATGTGTTGATTCAA
** * *
2193460 GGCCAGCG--A-T--A-TT-G-G-GCTCG--TGCCAATGTGCTGATTAAA
1 GGCCAGCGACATTAGACTTAGAGAG-AAGAATGCCAATGTGTTGATTCAA
** * * * * * *
2193499 GGCCAATGACATTGGTCTTAAAG-GTAAG-GTGCCAATATGCTGATTCAA
1 GGCCAGCGACATTAGACTTAGAGAG-AAGAATGCCAATGTGTTGATTCAA
* * *
2193547 GGCCAGCGATATTGGACTTAAAGATGAAG-ATGCCAATGTGTTGATTCAA
1 GGCCAGCGACATTAGACTTAGAGA-GAAGAATGCCAATGTGTTGATTCAA
* * ** * *
2193596 GGCCAGCAACATTGGACTTA-A-AG--G--TGCCAACATGCTAATTCAA
1 GGCCAGCGACATTAGACTTAGAGAGAAGAATGCCAATGTGTTGATTCAA
* *
2193639 GGCCAGCGATATTGGACTTAGA-AGAAG-ATGCCA
1 GGCCAGCGACATTAGACTTAGAGAGAAGAATGCCA
2193672 CCAACTTGTG
Statistics
Matches: 440, Mismatches: 88, Indels: 68
0.74 0.15 0.11
Matches are distributed among these distances:
39 24 0.05
40 1 0.00
41 2 0.00
42 1 0.00
43 35 0.08
44 5 0.01
45 2 0.00
46 3 0.01
47 61 0.14
48 37 0.08
49 149 0.34
50 9 0.02
51 6 0.01
52 104 0.24
53 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.23
Consensus pattern (49 bp):
GGCCAGCGACATTAGACTTAGAGAGAAGAATGCCAATGTGTTGATTCAA
Found at i:2193409 original size:200 final size:196
Alignment explanation
Indices: 2193060--2193618 Score: 685
Period size: 200 Copynumber: 2.9 Consensus size: 196
2193050 CGAAGAATGA
* * *
2193060 CATGGCCAGCGACACTAAACTTGAAGAAGAATGCCAATGTGCTGAGACAAGGCCATCGACATTGG
1 CATGGCCAGCGACATTAGACTTGAAGAAGAATGCCAATGTGCTGAGACAAGGCCAACGACATTGG
* *
2193125 GCTTAAGAATATGAAAGATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATAAA
66 GCTT-AGAATGTGAAAGATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAA
* * *
2193190 GGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAGAAGAATGATAATGTGT
130 GGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGAT--GAAG-ATGACAATATGC
2193255 TGATT
192 TGATT
* * *
2193260 CATGGTCAGCGACATTAGACTTGAAGAAGAATGCCAATGTGTTGAGACAAGGCCAGCGACATTGG
1 CATGGCCAGCGACATTAGACTTGAAGAAGAATGCCAATGTGCTGAGACAAGGCCAACGACATTGG
* *
2193325 GCTTAGGAATGTGAAAGATACCAATATGCTGATCCAAGGCCAACGATATCGGACTTAAAGATGAA
66 GCTTA-GAATGTGAAAGATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAA
* *
2193390 GGTGCCAATGTGCTGATTCAAGGCCAGA-GACATTGGACTTAAAGATGAAGGTGCCAATATGCTG
130 GGTGCCAATGTGCTGATTCAAGGCCA-ACGACATTGGACTTAAAGATGAAGATGACAATATGCTG
2193454 ATT
194 ATT
* * * * * * *
2193457 CAAGGCCAGCGATATTGGGC-T-----CG--TGCCAATGTGCTGATTA-AAGGCCAATGACATTG
1 CATGGCCAGCGACATTAGACTTGAAGAAGAATGCCAATGTGCTGA-GACAAGGCCAACGACATTG
* * * * *
2193513 GTCTTA-AA-G-GTAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAA
65 GGCTTAGAATGTGAAAGATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAA
* * * *
2193575 GATGCCAATGTGTTGATTCAAGGCCAGCAACATTGGACTTAAAG
130 GGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
2193619 GTGCCAACAT
Statistics
Matches: 320, Mismatches: 35, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
185 86 0.27
186 1 0.00
187 2 0.01
189 32 0.10
190 1 0.00
191 1 0.00
196 1 0.00
197 27 0.08
198 4 0.01
199 1 0.00
200 163 0.51
201 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (196 bp):
CATGGCCAGCGACATTAGACTTGAAGAAGAATGCCAATGTGCTGAGACAAGGCCAACGACATTGG
GCTTAGAATGTGAAAGATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAG
GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGATGACAATATGCTGAT
T
Found at i:2193592 original size:136 final size:137
Alignment explanation
Indices: 2193345--2193602 Score: 383
Period size: 136 Copynumber: 1.9 Consensus size: 137
2193335 GTGAAAGATA
* * *
2193345 CCAATATGCTGATCCAAGGCCAACGATATCGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCA
1 CCAATATGCTGATCAAAGGCCAACGACATCGGACTTAAAGATGAAGGTGCCAATATGCTGATTCA
*
2193410 AGGCCAGAGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
66 AGGCCAGAGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGG
2193475 GCTCGTG
131 GCTCGTG
* * * * * *
2193482 CCAATGTGCTGATTAAAGGCCAATGACATTGGTCTTAAAGGT-AAGGTGCCAATATGCTGATTCA
1 CCAATATGCTGATCAAAGGCCAACGACATCGGACTTAAAGATGAAGGTGCCAATATGCTGATTCA
* * * *
2193546 AGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGTTGATTCAAGGCCAGC
66 AGGCCAGAGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGC
2193603 AACATTGGAC
Statistics
Matches: 107, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
136 73 0.68
137 34 0.32
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (137 bp):
CCAATATGCTGATCAAAGGCCAACGACATCGGACTTAAAGATGAAGGTGCCAATATGCTGATTCA
AGGCCAGAGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGG
GCTCGTG
Found at i:2193740 original size:28 final size:28
Alignment explanation
Indices: 2193680--2194031 Score: 400
Period size: 28 Copynumber: 12.5 Consensus size: 28
2193670 CACCAACTTG
* *
2193680 TGTGGGCTTTTGAAAGGGTTG-CACCGAAT
1 TGTGGGCTTTTG-AA-GGTTGCCACTGACT
*
2193709 TGTGTGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* *
2193737 TGTGGAC-TTTGAAAAGG-TGCCACTAACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
* *
2193765 TGTGAGCTTTTGAAGGTTGCCACTGCCT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
2193793 TGTGGGC-TTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
*
2193820 TGTGGGCTTTTAAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
*
2193848 TGTGGGC-TTTGAAAAGG-TGCCACTAACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
*
2193876 TGTGGGCTTCTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
2193904 TGTGGGC-TTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
*
2193932 TGTGGGCTTCTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
*
2193960 TGTGGGC-TTTGAAAAGG-TGCCACTAACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
* *
2193988 TGTGGGCTTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTTG-AAGGTTGCCACTGACT
*
2194017 TGTGGGCTTTGGAAG
1 TGTGGGCTTTTGAAG
2194032 ATGAGGAATG
Statistics
Matches: 280, Mismatches: 25, Indels: 37
0.82 0.07 0.11
Matches are distributed among these distances:
27 56 0.20
28 162 0.58
29 62 0.22
ACGTcount: A:0.19, C:0.18, G:0.31, T:0.32
Consensus pattern (28 bp):
TGTGGGCTTTTGAAGGTTGCCACTGACT
Found at i:2193774 original size:56 final size:56
Alignment explanation
Indices: 2193708--2194027 Score: 509
Period size: 56 Copynumber: 5.7 Consensus size: 56
2193698 TTGCACCGAA
* *
2193708 TTGTGTGCTTTTGAAGGTTGCCACTGACTTGTGGACTTTGAAAAGGTGCCACTAAC
1 TTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAAC
* * *
2193764 TTGTGAGCTTTTGAAGGTTGCCACTGCCTTGTGGGCTTTG--AAGGTTGCCACTGAC
1 TTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTAAC
*
2193819 TTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAAC
1 TTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAAC
* *
2193875 TTGTGGGCTTCTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGAC
1 TTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAAC
*
2193931 TTGTGGGCTTCTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAAC
1 TTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAAC
* *
2193987 TTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTG
1 TTGTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGGCTTTG
2194028 GAAGATGAGG
Statistics
Matches: 245, Mismatches: 15, Indels: 7
0.92 0.06 0.03
Matches are distributed among these distances:
54 4 0.02
55 46 0.19
56 166 0.68
57 29 0.12
ACGTcount: A:0.19, C:0.18, G:0.30, T:0.33
Consensus pattern (56 bp):
TTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAAC
Found at i:2193925 original size:84 final size:82
Alignment explanation
Indices: 2193680--2194027 Score: 452
Period size: 84 Copynumber: 4.1 Consensus size: 82
2193670 CACCAACTTG
* * * *
2193680 TGTGGGCTTTTGAAAGGGTTG-CACCGAATTGTGTGCTTTTGAAGGTTGCCACTGACTTGTGGAC
1 TGTGGGC-TTTG-AA-GGTTGCCACTGACTTGTGGGC-TTTGAAGGTTGCCACTGACTTGTGGGC
*
2193744 TTTGAAAAGGTGCCACTAACT
62 TTTGAAAAGGTGCCACTGACT
* *
2193765 TGTGAGCTTTTGAAGGTTGCCACTGCCTTGTGGGCTTTGAAGGTTGCCACTGACTTGTGGGCTTT
1 TGTGGGC-TTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAGGTTGCCACTGACTTGTGGGCTTT
*
2193830 -TAAAGGTTGCCACTGACT
65 GAAAAGG-TGCCACTGACT
*
2193848 TGTGGGCTTTGAAAAGG-TGCCACTAACTTGTGGGCTTCTGAAGGTTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTG--AAGGTTGCCACTGACTTGTGGGCTT-TGAAGGTTGCCACTGACTTGTGGGCT
2193912 TTGAAAAGGTGCCACTGACT
63 TTGAAAAGGTGCCACTGACT
*
2193932 TGTGGGCTTCTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTAACTTGTGGGCT
1 TGTGGGCTT-TGAAGGTTGCCACTGACTTGTGGGCTTTG--AAGGTTGCCACTGACTTGTGGGC-
*
2193996 TTTGAAAAGATGCCACTGACT
62 TTTGAAAAGGTGCCACTGACT
2194017 TGTGGGCTTTG
1 TGTGGGCTTTG
2194028 GAAGATGAGG
Statistics
Matches: 237, Mismatches: 15, Indels: 23
0.86 0.05 0.08
Matches are distributed among these distances:
82 9 0.04
83 74 0.31
84 103 0.43
85 51 0.22
ACGTcount: A:0.19, C:0.18, G:0.30, T:0.32
Consensus pattern (82 bp):
TGTGGGCTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAGGTTGCCACTGACTTGTGGGCTTTG
AAAAGGTGCCACTGACT
Found at i:2194492 original size:33 final size:33
Alignment explanation
Indices: 2194448--2194514 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
2194438 TTCAACGATT
*
2194448 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCAATACATAAAGTGTTGTATCGATACAA
*** *
2194481 TGTATCAATACATATTTTTTTGTATCGATACAA
1 TGTATCAATACATAAAGTGTTGTATCGATACAA
2194514 T
1 T
2194515 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCAATACATAAAGTGTTGTATCGATACAA
Found at i:2194644 original size:52 final size:52
Alignment explanation
Indices: 2194588--2194712 Score: 232
Period size: 52 Copynumber: 2.4 Consensus size: 52
2194578 CACTGATCTT
2194588 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
2194640 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2194692 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAAGCAA
2194713 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2203011 original size:34 final size:35
Alignment explanation
Indices: 2202903--2203105 Score: 258
Period size: 34 Copynumber: 5.9 Consensus size: 35
2202893 AAATACCTTC
* *
2202903 TTAAAGTCCACGACTCCGTGGCAC-C---TTCTTT
1 TTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTT
*
2202934 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
1 TTAAAGCCCACAACTCCGTGGCACTCTTTTT--CTTT
* *
2202971 TCAAAGCCCACAACTCCGTAGCAC-CTTTTTCTTT
1 TTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTT
* *
2203005 TTAAAGCCTACAACTCCGTGGCACTCTTTTTCCCTT
1 TTAAAGCCCACAACTCCGTGGCACTCTTTTT-CTTT
*
2203041 TT-AAGTCCACAACTCCGTGGCAC-CTTTTTCTTT
1 TTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTT
2203074 TTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TTAAAGCCCACAACTCCGTGGCACTCTTTTTC
2203106 CCTTTTCAAA
Statistics
Matches: 150, Mismatches: 12, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
31 21 0.14
32 1 0.01
33 5 0.03
34 51 0.34
35 34 0.23
36 11 0.07
37 27 0.18
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.34
Consensus pattern (35 bp):
TTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTT
Found at i:2203053 original size:35 final size:36
Alignment explanation
Indices: 2202930--2203118 Score: 271
Period size: 34 Copynumber: 5.3 Consensus size: 36
2202920 GTGGCACCTT
2202930 CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCC
*
2202967 CTTTTCAAAGCCCACAACTCCGTAGCAC-CTTTTT-C
1 CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCC
* *
2203002 TTTTTAAAGCCTACAACTCCGTGGCACTCTTTTTCC
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
*
2203038 CTTTT-AAGTCCACAACTCCGTGGCAC-CTTTTT-C
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
*
2203071 TTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
2203107 CTTTTCAAAGCC
1 CTTTT-AAAGCC
2203119 TACACAAGTC
Statistics
Matches: 136, Mismatches: 10, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
33 5 0.04
34 46 0.34
35 36 0.26
36 16 0.12
37 33 0.24
ACGTcount: A:0.20, C:0.34, G:0.11, T:0.35
Consensus pattern (36 bp):
CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
Found at i:2203087 original size:69 final size:70
Alignment explanation
Indices: 2202898--2203116 Score: 338
Period size: 69 Copynumber: 3.1 Consensus size: 70
2202888 TCTTCAAATA
* *
2202898 CCTTCTTAAAGTCCACGACTCCGTGGCACC---TTCTTTTCAAAGCCCACAACTCCGTGGCACTC
1 CCTT-TTAAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTC
2202960 TTTTTC
65 TTTTTC
* * *
2202966 CCTTTTCAAAGCCCACAACTCCGTAGCACCTTTTTCTTTTTAAAGCCTACAACTCCGTGGCACTC
1 CCTTTT-AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTC
2203031 TTTTTC
65 TTTTTC
2203037 CCTTTT-AAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCT
1 CCTTTTAAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCT
2203101 TTTTC
66 TTTTC
2203106 CCTTTTCAAAG
1 CCTTTT-AAAG
2203117 CCTACACAAG
Statistics
Matches: 137, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
67 2 0.01
68 24 0.18
69 66 0.48
71 45 0.33
ACGTcount: A:0.20, C:0.34, G:0.11, T:0.34
Consensus pattern (70 bp):
CCTTTTAAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCT
TTTTC
Found at i:2203189 original size:33 final size:33
Alignment explanation
Indices: 2203106--2203670 Score: 785
Period size: 32 Copynumber: 17.5 Consensus size: 33
2203096 ACTCTTTTTC
*
2203106 CCTT-TTC-AAAGCCTACACAAGTCGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
2203137 CCTTCTTCTCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTTCT-AAAGCCCACACAAGTCGGTGGCAA
2203171 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
2203204 CCTTCTTCTCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTTCT-AAAGCCCACACAAGTCGGTGGCAA
*
2203238 CC--CTTCTCAAAGCCCACACAAGTCGATGGC-A
1 CCTTCTTCT-AAAGCCCACACAAGTCGGTGGCAA
* *
2203269 CCCTC-TCTAAAGCCCACACAAGTTGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
2203301 CCTTCTTCTCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTTCT-AAAGCCCACACAAGTCGGTGGCAA
*
2203335 CC--CTTCTCAAAGCCCACACAAGTCGATGGC-A
1 CCTTCTTCT-AAAGCCCACACAAGTCGGTGGCAA
* *
2203366 CCCTC-TCTAAAGCCCACACAAGTTGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
2203398 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
2203431 CCTTCTTCTCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTTCT-AAAGCCCACACAAGTCGGTGGCAA
2203465 CCTTCTTCTAAAGCCCACACAAGTCGGTGGC-A
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
* *
2203497 CCCTC-TCTAAAGCCCACAAAAGTCGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
2203529 CC--CTTCTCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTTCT-AAAGCCCACACAAGTCGGTGGCAA
* *
2203561 CCCTC-TCTAAAGCCCACACAAGTCAGTGGC-A
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
* *
2203592 CCCTC-TCTAAAGCCCACACAAGTTGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
*
2203624 CCATTC-TCTAAAGCCCACACAAGTCGGTGGTAA
1 CC-TTCTTCTAAAGCCCACACAAGTCGGTGGCAA
2203657 CC--CTTCT-AAGCCCA
1 CCTTCTTCTAAAGCCCA
2203671 ATATAGCTGG
Statistics
Matches: 492, Mismatches: 20, Indels: 45
0.88 0.04 0.08
Matches are distributed among these distances:
30 9 0.02
31 109 0.22
32 130 0.26
33 127 0.26
34 117 0.24
ACGTcount: A:0.28, C:0.35, G:0.18, T:0.19
Consensus pattern (33 bp):
CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:2203302 original size:97 final size:97
Alignment explanation
Indices: 2203106--2203670 Score: 853
Period size: 97 Copynumber: 5.8 Consensus size: 97
2203096 ACTCTTTTTC
*
2203106 CCTT-TTC-AAAGCCTACACAAGTCGGTGGCAACCTTCTTCTCAAAGCCCACACAAGTCGGTGGC
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACC--CTTCTCAAAGCCCACACAAGTCGGTGGC
*
2203169 AACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
64 AACCCTC-TCTAAAGCCCACACAAGTCGGTGGCAA
*
2203204 CCTTCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGATGGC-
1 CCTTCTTCT-AAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
*
2203268 ACCCTCTCTAAAGCCCACACAAGTTGGTGGCAA
65 ACCCTCTCTAAAGCCCACACAAGTCGGTGGCAA
*
2203301 CCTTCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGATGGC-
1 CCTTCTTCT-AAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
*
2203365 ACCCTCTCTAAAGCCCACACAAGTTGGTGGCAA
65 ACCCTCTCTAAAGCCCACACAAGTCGGTGGCAA
2203398 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTCAAAGCCCACACAAGTCGGTGGC
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACC--CTTCTCAAAGCCCACACAAGTCGGTGGC
*
2203463 AACCTTCTTCTAAAGCCCACACAAGTCGGTGGC-A
64 AACCCTC-TCTAAAGCCCACACAAGTCGGTGGCAA
* *
2203497 CCCTC-TCTAAAGCCCACAAAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAA
*
2203561 CCCTCTCTAAAGCCCACACAAGTCAGTGGC-A
66 CCCTCTCTAAAGCCCACACAAGTCGGTGGCAA
* * * *
2203592 CCCTC-TCTAAAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGTA
1 CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTC-AAAGCCCACACAAGTCGGTGGCA
2203656 ACCCT-TCT-AAGCCCA
65 ACCCTCTCTAAAGCCCA
2203671 ATATAGCTGG
Statistics
Matches: 444, Mismatches: 15, Indels: 20
0.93 0.03 0.04
Matches are distributed among these distances:
94 7 0.02
95 65 0.15
96 87 0.20
97 132 0.30
98 64 0.14
99 40 0.09
100 24 0.05
101 25 0.06
ACGTcount: A:0.28, C:0.35, G:0.18, T:0.19
Consensus pattern (97 bp):
CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAA
CCCTCTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:2203305 original size:130 final size:131
Alignment explanation
Indices: 2203105--2203670 Score: 820
Period size: 130 Copynumber: 4.4 Consensus size: 131
2203095 CACTCTTTTT
* * *
2203105 CCCTTTTC-AAAGCCTACACAAGTCGGTGGCAACCTTCTTCTCAAAGCCCACACAAGTCGGTGGC
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTC-TCT-AAAGCCCACACAAGTCGGTGGC
2203169 AACCTTCTTCT-AAAGCCCACACAAGTCGGTGGCAACCTTCTTCTCAAAGCCCACACAAGTCGGT
64 AACCTTCTTCTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCT-AAAGCCCACACAAGTCGGT
2203233 GGCAA
128 GGC-A
* *
2203238 CCCTTCTC-AAAGCCCACACAAGTCGATGGC-ACCCTCTCTAAAGCCCACACAAGTTGGTGGCAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAA
*
2203301 CCTTCTTCTCAAAGCCCACACAAGTCGGTGGCAACC--CTTCTCAAAGCCCACACAAGTCGATGG
66 CCTTCTTCTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCT-AAAGCCCACACAAGTCGGTGG
2203364 CA
130 CA
* *
2203366 CCC-TCTCTAAAGCCCACACAAGTTGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTC-TCTAAAGCCCACACAAGTCGGTGGCA
2203430 ACCTTCTTCTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGG
65 ACCTTCTTCTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGG
2203495 CA
130 CA
*
2203497 CCC-TCTCTAAAGCCCACAAAAGTCGGTGGCAACCCT-TCTCAAAGCCCACACAAGTCGGTGGCA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCT-AAAGCCCACACAAGTCGGTGGCA
* * * *
2203560 ACCCTC-TCT-AAAGCCCACACAAGTCAGTGGC-ACCCTC-TCTAAAGCCCACACAAGTTGGTGG
65 ACCTTCTTCTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGG
2203621 CAA
130 C-A
* *
2203624 CCATTCTCTAAAGCCCACACAAGTCGGTGGTAACCCT-TCT-AAGCCCA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCA
2203671 ATATAGCTGG
Statistics
Matches: 403, Mismatches: 21, Indels: 25
0.90 0.05 0.06
Matches are distributed among these distances:
126 31 0.08
127 12 0.03
128 79 0.20
129 38 0.09
130 122 0.30
131 84 0.21
132 10 0.02
133 27 0.07
ACGTcount: A:0.28, C:0.35, G:0.18, T:0.19
Consensus pattern (131 bp):
CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAA
CCTTCTTCTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGC
A
Found at i:2203774 original size:43 final size:43
Alignment explanation
Indices: 2203712--2203983 Score: 274
Period size: 43 Copynumber: 6.0 Consensus size: 43
2203702 CTTTCATCTT
*
2203712 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTC
* * *
2203755 CAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC----TC
* * *
2203802 TTTAAGTCCAATGTAGCTGGCCTTGAATCGGCACATTGGCACCTT
1 --TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTC
* *
2203847 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTTCCATC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA------CC-TC
* * * *
2203897 TTTAAGTTCAATGTAGCTGGCCTTGAATCGGCACATTGGCACCTT
1 --TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTC
* *
2203942 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
2203984 TTTCCATCTT
Statistics
Matches: 188, Mismatches: 26, Indels: 30
0.77 0.11 0.12
Matches are distributed among these distances:
43 109 0.58
45 2 0.01
46 2 0.01
47 2 0.01
49 38 0.20
50 1 0.01
52 34 0.18
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (43 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTC
Found at i:2203825 original size:92 final size:94
Alignment explanation
Indices: 2203658--2204029 Score: 599
Period size: 95 Copynumber: 4.0 Consensus size: 94
2203648 CGGTGGTAAC
* *
2203658 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-TTTCATCTTTAAGTCCAA
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTTCATCTTTAAGTCCAA
2203721 TGTAGCTGGCCTTGAATCAGCACATTGGCA
65 TGTAGCTGGCCTTGAATCAGCACATTGGCA
** * *
2203751 CCTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTT-ATCTTTAAGTCCAAT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTTCATCTTTAAGTCCAAT
*
2203814 GTAGCTGGCCTTGAATCGGCACATTGGCA
66 GTAGCTGGCCTTGAATCAGCACATTGGCA
*
2203843 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTT-CATCTTTAAGTCCAA
*
2203908 TGTAGCTGGCCTTGAATCGGCACATTGGCA
65 TGTAGCTGGCCTTGAATCAGCACATTGGCA
*
2203938 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTT-CATCTTTAAGTCCAA
2204003 TGTAGCTGGCCTTGAATCAGCACATTG
65 TGTAGCTGGCCTTGAATCAGCACATTG
2204030 ACATCTTTTT
Statistics
Matches: 264, Mismatches: 11, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
92 120 0.45
93 10 0.04
95 134 0.51
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (94 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTTCATCTTTAAGTCCAAT
GTAGCTGGCCTTGAATCAGCACATTGGCA
Found at i:2203922 original size:52 final size:52
Alignment explanation
Indices: 2203844--2204092 Score: 239
Period size: 52 Copynumber: 4.9 Consensus size: 52
2203834 ACATTGGCAC
2203844 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTTCCAT
* * * * *
2203896 CTTTAAGTTCAATGTAGCTGGCCTTGAATCGGCACATTGGCA-------C--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTTCCAT
2203939 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTTCCAT
* * * *
2203991 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATT-GACATCTTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAG-CA-C-CTTTTC-CAT
* * * * * * * *
2204046 CTTTAAGCCCAATATCGTTGGTCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTT
2204093 ATCACTTTTC
Statistics
Matches: 158, Mismatches: 25, Indels: 27
0.75 0.12 0.13
Matches are distributed among these distances:
43 37 0.23
45 1 0.01
50 1 0.01
51 1 0.01
52 74 0.47
53 4 0.03
54 5 0.03
55 34 0.22
56 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTTCCAT
Found at i:2204076 original size:55 final size:55
Alignment explanation
Indices: 2203939--2204266 Score: 247
Period size: 52 Copynumber: 5.9 Consensus size: 55
2203929 ACATTGGCAC
* * *
2203939 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-AGCA-C-CTTTTC-CAT
1 CTTTAAGCCCAATATAGCTGGCCGTGAATCAGCATATTGA-CATCTTTTTTCTCAT
** * * *
2203991 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCAT
1 CTTTAAGCCCAATATAGCTGGCCGTGAATCAGCATATTGACATCTTTTTTCTCAT
* * * *
2204046 CTTTAAGCCCAATATCGTTGGTCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTC
1 CTTTAAGCCCAATATAGCTGGCCGTGAATCAGCATATT-G-A-C---AT--CTTTT-T--TC-TC
*
2204111 AC
54 AT
** * * *
2204113 CTTTAAGTTCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-CTTTTC-CAT
1 CTTTAAGCCCAATATAGCTGGCCGTGAATCAGCATATTGACATCTTTTTTCTCAT
** * * *
2204165 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCAT
1 CTTTAAGCCCAATATAGCTGGCCGTGAATCAGCATATTGACATCTTTTTTCTCAT
* * * *
2204220 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGCCCAATATAGCTGGCCGTGAATCAGCATATTGACATCTTT
2204267 ATCACTTTTC
Statistics
Matches: 220, Mismatches: 37, Indels: 35
0.75 0.13 0.12
Matches are distributed among these distances:
52 78 0.35
53 3 0.01
54 12 0.05
55 73 0.33
56 2 0.01
57 3 0.01
58 2 0.01
61 3 0.01
63 5 0.02
64 2 0.01
66 3 0.01
67 34 0.15
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (55 bp):
CTTTAAGCCCAATATAGCTGGCCGTGAATCAGCATATTGACATCTTTTTTCTCAT
Found at i:2204226 original size:174 final size:174
Alignment explanation
Indices: 2203936--2204332 Score: 740
Period size: 174 Copynumber: 2.3 Consensus size: 174
2203926 GGCACATTGG
2203936 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTTCCATCTTTAAGTTC
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTTCCATCTTTAAGTTC
2204001 AATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCATCTTTAAGCCCAATATCGTTG
66 AATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCATCTTTAAGCCCAATATCGTTG
* *
2204066 GTCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTT
131 GCCGTGAATCAACATATTGGCATCTTTATCACTTTTCCCATCTT
* *
2204110 CACCTTTAAGTTCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTC
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTTCCATCTTTAAGTTC
2204175 AATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCATCTTTAAGCCCAATATCGTTG
66 AATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCATCTTTAAGCCCAATATCGTTG
2204240 GCCGTGAATCAACATATTGGCATCTTTATCACTTTTCCCATCTT
131 GCCGTGAATCAACATATTGGCATCTTTATCACTTTTCCCATCTT
* *
2204284 CATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTAGCACCTT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTT
2204333 CATCATCTCT
Statistics
Matches: 215, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 215 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (174 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTTCCATCTTTAAGTTC
AATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCATCTTTAAGCCCAATATCGTTG
GCCGTGAATCAACATATTGGCATCTTTATCACTTTTCCCATCTT
Found at i:2205045 original size:33 final size:33
Alignment explanation
Indices: 2205008--2205074 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2204998 TTCAACGATT
2205008 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2205041 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2205074 T
1 T
2205075 TTAAACTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2205046 original size:13 final size:13
Alignment explanation
Indices: 2205028--2205052 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2205018 CATAAAATGT
2205028 TGTATCGATACAA
1 TGTATCGATACAA
2205041 TGTATCGATACA
1 TGTATCGATACA
2205053 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2205170 original size:20 final size:20
Alignment explanation
Indices: 2205091--2205178 Score: 66
Period size: 20 Copynumber: 4.8 Consensus size: 20
2205081 TACTGCCAAA
*
2205091 AAATGTATCGATACA-TTTT
1 AAATGTATCGATACACTATT
2205110 ATAATGTATCGAT--AC-ATT
1 A-AATGTATCGATACACTATT
*
2205128 --A--TATCGATACACTAAT
1 AAATGTATCGATACACTATT
***
2205144 CTTTGTATCGATACACTATT
1 AAATGTATCGATACACTATT
2205164 AAATGTATCGATACA
1 AAATGTATCGATACA
2205179 TGCAAGCAAC
Statistics
Matches: 53, Mismatches: 7, Indels: 17
0.69 0.09 0.22
Matches are distributed among these distances:
13 7 0.13
15 3 0.06
16 2 0.04
18 3 0.06
19 1 0.02
20 37 0.70
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (20 bp):
AAATGTATCGATACACTATT
Found at i:2211838 original size:37 final size:37
Alignment explanation
Indices: 2211796--2211917 Score: 244
Period size: 37 Copynumber: 3.3 Consensus size: 37
2211786 AAAAATGAAG
2211796 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
2211833 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
2211870 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
2211907 CACAAATGCAT
1 CACAAATGCAT
2211918 GATTGTGGCA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 85 1.00
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.26
Consensus pattern (37 bp):
CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
Found at i:2212967 original size:17 final size:16
Alignment explanation
Indices: 2212941--2212992 Score: 70
Period size: 17 Copynumber: 3.2 Consensus size: 16
2212931 ATCCGAACCC
*
2212941 TTTTTGTTGTTTGTTT
1 TTTTTATTGTTTGTTT
*
2212957 GTTTTTTTTGTTTGTTT
1 -TTTTTATTGTTTGTTT
2212974 TTTTTATTGTTT-TTT
1 TTTTTATTGTTTGTTT
2212989 TTTT
1 TTTT
2212993 GGAGGACGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.21
16 11 0.33
17 15 0.45
ACGTcount: A:0.02, C:0.00, G:0.13, T:0.85
Consensus pattern (16 bp):
TTTTTATTGTTTGTTT
Found at i:2212968 original size:13 final size:13
Alignment explanation
Indices: 2212950--2212990 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
2212940 CTTTTTGTTG
2212950 TTTGTTTGTTTTT
1 TTTGTTTGTTTTT
2212963 TTTGTTTGTTTTT
1 TTTGTTTGTTTTT
*
2212976 TTT-ATTGTTTTT
1 TTTGTTTGTTTTT
2212988 TTT
1 TTT
2212991 TTGGAGGACG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 11 0.41
13 16 0.59
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.85
Consensus pattern (13 bp):
TTTGTTTGTTTTT
Found at i:2212991 original size:13 final size:12
Alignment explanation
Indices: 2212941--2212992 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
2212931 ATCCGAACCC
*
2212941 TTTTTG-TTGTT
1 TTTTTGTTTTTT
*
2212952 TGTTTGTTTTTT
1 TTTTTGTTTTTT
2212964 TTGTTTGTTTTTT
1 TT-TTTGTTTTTT
*
2212977 TTATTGTTTTTT
1 TTTTTGTTTTTT
2212989 TTTT
1 TTTT
2212993 GGAGGACGCC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
11 5 0.15
12 17 0.50
13 12 0.35
ACGTcount: A:0.02, C:0.00, G:0.13, T:0.85
Consensus pattern (12 bp):
TTTTTGTTTTTT
Found at i:2217619 original size:18 final size:19
Alignment explanation
Indices: 2217593--2217630 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
2217583 TATTCATCAC
2217593 TATTCA-TGTATCGATACA
1 TATTCAGTGTATCGATACA
*
2217611 TATTTATGTGTATCGATACA
1 TATTCA-GTGTATCGATACA
2217631 GTGTATCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
20 12 0.71
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (19 bp):
TATTCAGTGTATCGATACA
Found at i:2217636 original size:13 final size:13
Alignment explanation
Indices: 2217618--2217643 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2217608 ACATATTTAT
2217618 GTGTATCGATACA
1 GTGTATCGATACA
2217631 GTGTATCGATACA
1 GTGTATCGATACA
2217644 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:2229666 original size:4 final size:5
Alignment explanation
Indices: 2229635--2229667 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
2229625 TTTATCGTCT
2229635 TTTTA TTATTA TTTTA TTTTA TTTTA -TTTA TTT
1 TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA TTT
2229668 CGTTATGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:2230014 original size:17 final size:18
Alignment explanation
Indices: 2229974--2230014 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
2229964 TTTTAAATTA
2229974 TATAATTTATATTATCTT
1 TATAATTTATATTATCTT
2229992 TA-AATTTATA-TAT-TT
1 TATAATTTATATTATCTT
2230007 GTATAATT
1 -TATAATT
2230015 AATTTCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.10
16 5 0.24
17 12 0.57
18 2 0.10
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
TATAATTTATATTATCTT
Found at i:2232504 original size:13 final size:12
Alignment explanation
Indices: 2232486--2232547 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 12
2232476 AACTATCATA
2232486 TTAATATTAATTT
1 TTAATATT-ATTT
2232499 TTAATATTA-TT
1 TTAATATTATTT
2232510 TT-ATATT-TTAT
1 TTAATATTATT-T
*
2232521 ATTATATTTTATTT
1 -TTA-ATATTATTT
2232535 TT-ATATTATTT
1 TTAATATTATTT
2232546 TT
1 TT
2232548 GTGCGTGCGG
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
10 6 0.15
11 15 0.37
12 3 0.07
13 10 0.24
14 5 0.12
15 2 0.05
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTAATATTATTT
Found at i:2232516 original size:7 final size:7
Alignment explanation
Indices: 2232506--2232541 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
2232496 TTTTTAATAT
2232506 TATTTTA
1 TATTTTA
2232513 TATTTTA
1 TATTTTA
2232520 TA--TTA
1 TATTTTA
2232525 TATTTTA
1 TATTTTA
2232532 T-TTTTA
1 TATTTTA
2232538 TATT
1 TATT
2232542 ATTTTTGTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
5 5 0.19
6 6 0.23
7 15 0.58
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATTTTA
Found at i:2232520 original size:12 final size:12
Alignment explanation
Indices: 2232505--2232546 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
2232495 ATTTTTAATA
2232505 TTATTTTATATT
1 TTATTTTATATT
*
2232517 TTATATTATATT
1 TTATTTTATATT
*
2232529 TTATTTT-TATA
1 TTATTTTATATT
2232540 TTATTTT
1 TTATTTT
2232547 TGTGCGTGCG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTATTTTATATT
Found at i:2235044 original size:18 final size:18
Alignment explanation
Indices: 2235021--2235057 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
2235011 ATCCAAATAT
*
2235021 ATGTCTATTTGGATAGTC
1 ATGTCTATTTAGATAGTC
2235039 ATGTCTATTTAGATAGTC
1 ATGTCTATTTAGATAGTC
2235057 A
1 A
2235058 CACCACTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.43
Consensus pattern (18 bp):
ATGTCTATTTAGATAGTC
Found at i:2238616 original size:20 final size:20
Alignment explanation
Indices: 2238593--2238644 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
2238583 CAAAGCAAAT
*
2238593 TGTATCGATACATATAGGAA
1 TGTATCGATACATATACGAA
* * **
2238613 TGTATCCATACATTTACTTA
1 TGTATCGATACATATACGAA
2238633 TGTATCGATACA
1 TGTATCGATACA
2238645 ATTCTTTTGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATATACGAA
Found at i:2238719 original size:21 final size:21
Alignment explanation
Indices: 2238672--2238727 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
2238662 TTGACATGGT
*
2238672 CTTGTATCGATACATTTGAGA
1 CTTGTATCGATACATTTCAGA
* *
2238693 CATGTATCGATACA-TTCACTA
1 CTTGTATCGATACATTTCA-GA
2238714 CTTGTATCGATACA
1 CTTGTATCGATACA
2238728 AATAAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 3 0.10
21 27 0.90
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (21 bp):
CTTGTATCGATACATTTCAGA
Found at i:2239361 original size:31 final size:31
Alignment explanation
Indices: 2239301--2239511 Score: 179
Period size: 31 Copynumber: 6.6 Consensus size: 31
2239291 GTGCTACCAG
* * * * *
2239301 CTTGTGTGGGCTTAGACTCGGGTGTCGCCAG
1 CTTGTGCGGGCTTTGACTCAGGTGCCGCCAA
* * *
2239332 CTTATGCGAGCTTTGACTTAGGTGCCGCCAA
1 CTTGTGCGGGCTTTGACTCAGGTGCCGCCAA
* *
2239363 CTTCGTGCGGGCTTAGACTCGGGTGCCGCCAA
1 CTT-GTGCGGGCTTTGACTCAGGTGCCGCCAA
** * *
2239395 CTTGTGCAAGCTTTGACTCAAGTGTCGCCAA
1 CTTGTGCGGGCTTTGACTCAGGTGCCGCCAA
* * *
2239426 CTTATGCGGGCTTTGACTGGACTTAGGTGCCACCAG
1 CTTGTGCGGGCTTTGACT---C--AGGTGCCGCCAA
**
2239462 CTTGTGTAGGCTTTGACTCAGGTGCCGCCAA
1 CTTGTGCGGGCTTTGACTCAGGTGCCGCCAA
*
2239493 CTTGTGCATGGCTTTGACT
1 CTTGTGC-GGGCTTTGACT
2239512 AGGGTGCAAC
Statistics
Matches: 140, Mismatches: 33, Indels: 13
0.75 0.18 0.07
Matches are distributed among these distances:
31 79 0.56
32 36 0.26
33 1 0.01
34 1 0.01
36 23 0.16
ACGTcount: A:0.16, C:0.26, G:0.30, T:0.29
Consensus pattern (31 bp):
CTTGTGCGGGCTTTGACTCAGGTGCCGCCAA
Found at i:2239382 original size:63 final size:62
Alignment explanation
Indices: 2239284--2239518 Score: 200
Period size: 63 Copynumber: 3.7 Consensus size: 62
2239274 ACTTGACTCG
** * * * * *
2239284 GACTTAGGTGCTACCAGCTTGTGTGGGCTTAGACTCGGGTGTCGCCAGCTTATGCGAGCTTT
1 GACTTAGGTGCCGCCAACTTGTGCGGGCTTAGACTCGGGTGCCGCCAACTTATGCAAGCTTT
*
2239346 GACTTAGGTGCCGCCAACTTCGTGCGGGCTTAGACTCGGGTGCCGCCAACTTGTGCAAGCTTT
1 GACTTAGGTGCCGCCAACTT-GTGCGGGCTTAGACTCGGGTGCCGCCAACTTATGCAAGCTTT
* * * * ** * * * * *
2239409 GACTCAAGTGTCGCCAACTTATGCGGGCTTTGACTGGACTTAGGTGCCACCAGCTTGTGTAGGCT
1 GACTTAGGTGCCGCCAACTTGTGCGGGC-TT-A---GACTCGGGTGCCGCCAACTTATGCAAGCT
2239474 TT
61 TT
* * * *
2239476 GACTCAGGTGCCGCCAACTTGTGCATGGCTTTGACTAGGGTGC
1 GACTTAGGTGCCGCCAACTTGTGC-GGGCTTAGACTCGGGTGC
2239519 AACTAACTTT
Statistics
Matches: 141, Mismatches: 25, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
62 24 0.17
63 65 0.46
64 1 0.01
67 48 0.34
68 3 0.02
ACGTcount: A:0.16, C:0.25, G:0.31, T:0.28
Consensus pattern (62 bp):
GACTTAGGTGCCGCCAACTTGTGCGGGCTTAGACTCGGGTGCCGCCAACTTATGCAAGCTTT
Found at i:2239475 original size:67 final size:68
Alignment explanation
Indices: 2239384--2239511 Score: 177
Period size: 67 Copynumber: 1.9 Consensus size: 68
2239374 CTTAGACTCG
* *
2239384 GGTGCCGCCAACTTGTGCAAGCTTTGACTCAAGTGTCGCCAACTTATGC-GGGCTTTGACTGGAC
1 GGTGCCACCAACTTGTGCAAGCTTTGACTCAAGTGCCGCCAACTTATGCAGGGCTTTGACTGGAC
2239448 TTA
66 TTA
* * * * * *
2239451 GGTGCCACCAGCTTGTGTAGGCTTTGACTCAGGTGCCGCCAACTTGTGCATGGCTTTGACT
1 GGTGCCACCAACTTGTGCAAGCTTTGACTCAAGTGCCGCCAACTTATGCAGGGCTTTGACT
2239512 AGGGTGCAAC
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 42 0.81
68 10 0.19
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.29
Consensus pattern (68 bp):
GGTGCCACCAACTTGTGCAAGCTTTGACTCAAGTGCCGCCAACTTATGCAGGGCTTTGACTGGAC
TTA
Found at i:2239766 original size:42 final size:44
Alignment explanation
Indices: 2239710--2239821 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 44
2239700 AAAGAAGTGT
* * * * *
2239710 GTCTTACGCTTTGAGGATAAAGGAAAAAAGGAAATAAA-G-TGG
1 GTCTTACTCCTTGAGGACAAAGGAAAAAAGGAAAAAAAGGATGC
*
2239752 GTCTTGCTCCTTGAGGACAAAGG-AAAAAGGAAAAAAAGGAATGC
1 GTCTTACTCCTTGAGGACAAAGGAAAAAAGGAAAAAAAGG-ATGC
*
2239796 GTCTTACTTCTTGAGGACAAAGGAAA
1 GTCTTACTCCTTGAGGACAAAGGAAA
2239822 TGAAAGAAAG
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
41 13 0.22
42 20 0.34
44 23 0.40
45 2 0.03
ACGTcount: A:0.41, C:0.12, G:0.27, T:0.21
Consensus pattern (44 bp):
GTCTTACTCCTTGAGGACAAAGGAAAAAAGGAAAAAAAGGATGC
Found at i:2239810 original size:44 final size:41
Alignment explanation
Indices: 2239688--2239821 Score: 133
Period size: 42 Copynumber: 3.1 Consensus size: 41
2239678 TTTCTCCTTG
* * * * * *
2239688 AGGACAAAGAGAAAAGAAGTGTGTCTTACGCTTTGAGGATAA
1 AGGAAAAAG-GAAAAAAAGTGCGTCTTACTCCTTGAGGACAA
* * *
2239730 AGGAAAAAAGGAAATAAAGTGGGTCTTGCTCCTTGAGGACAA
1 AGG-AAAAAGGAAAAAAAGTGCGTCTTACTCCTTGAGGACAA
*
2239772 AGGAAAAAGGAAAAAAAGGAATGCGTCTTACTTCTTGAGGACAA
1 AGGAAAAAGGAAAAAAA-G--TGCGTCTTACTCCTTGAGGACAA
2239816 AGGAAA
1 AGGAAA
2239822 TGAAAGAAAG
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
41 13 0.17
42 32 0.42
43 5 0.07
44 26 0.34
ACGTcount: A:0.43, C:0.10, G:0.28, T:0.19
Consensus pattern (41 bp):
AGGAAAAAGGAAAAAAAGTGCGTCTTACTCCTTGAGGACAA
Found at i:2239865 original size:40 final size:41
Alignment explanation
Indices: 2239809--2239901 Score: 156
Period size: 40 Copynumber: 2.3 Consensus size: 41
2239799 TTACTTCTTG
2239809 AGGA-CAAAGGAAATGAAAGAAAGCATGTCCTGCTCCTC-A
1 AGGACCAAAGGAAATGAAAGAAAGCATGTCCTGCTCCTCGA
*
2239848 AGGACCAAAGGAAATGAAAGAAAGCATGTCCTGCTCTTCGA
1 AGGACCAAAGGAAATGAAAGAAAGCATGTCCTGCTCCTCGA
2239889 A-GACCAAAGGAAA
1 AGGACCAAAGGAAA
2239902 AATATGTATC
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
39 4 0.08
40 45 0.88
41 2 0.04
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.14
Consensus pattern (41 bp):
AGGACCAAAGGAAATGAAAGAAAGCATGTCCTGCTCCTCGA
Found at i:2240031 original size:267 final size:270
Alignment explanation
Indices: 2239681--2240360 Score: 844
Period size: 268 Copynumber: 2.5 Consensus size: 270
2239671 ATGCGTTTTT
* * *
2239681 CTCCTTGAGGACAAA-GAGAAAAGAAGTGTGTCTTACGCTT-TGAGGATAAAGGAAAAAAGGA-A
1 CTCCTTGAGGACAAAGGA-AAAAG-AGTATGTCTTACTCTTCTAAGGATAAAGG-AAAAAGGAGA
*
2239743 AT-AAAGTGGGTCTTGCTCCTTGAGGACAAAGGAAAAAGGAAAAAAAGGAATGCG-TCTTACTTC
63 ATGAAA-TGGGTCTTGCTCCTTGAGGACAAAGGAAAAAGGAAAAAAAGGAATGCGTTC-TACTCC
* *
2239806 TTGAGGACAAA-GGAAATGAAAGAAAGCATGTCCTGCTCCTCAAGGACCAAAGGAAATGAAAGAA
126 TTGAGGACAAAGGGAAAAGAAAGAAAGCATGTCCTGCTCCTCAAGGACCAAAGGAAAAGAAAGAA
* * * *
2239870 AGCATGTCCTGCTCTTCGAA-GACCAAAGGAAAAATATGTATCCTGCTTATTGAGGACA-AAAAA
191 AGCATCTCCTGCTCCTC-AAGGACCAAAGGAAAAATATGTATCCTGCTCATTAAGGACAGAAAAA
* *
2239933 AATGAAGTGGGTCCTA
255 AATGAAATAGGTCCTA
* * *
2239949 CTCCTTGAGGATAAAGGAAAAAGAGTATATCTTACTCTTCTTA-GATAAAGGAAAAAGGAGAATG
1 CTCCTTGAGGACAAAGGAAAAAGAGTATGTCTTACTCTTCTAAGGATAAAGGAAAAAGGAGAATG
* * *
2240013 AAATGGGTTTTGCTCCTTGAGGACATAGGAAAAAGGAAAAAAAGGAATGGGTTCTACTCCTTGAG
66 AAATGGGTCTTGCTCCTTGAGGACAAAGGAAAAAGGAAAAAAAGGAATGCGTTCTACTCCTTGAG
* * * * * *
2240078 GACAAAGGGAAAAGAAGGAAAGCATGTCTTGCTCTTCGAGGACCAAGGGAAAAGAAGGAAAGCAT
131 GACAAAGGGAAAAGAAAGAAAGCATGTCCTGCTCCTCAAGGACCAAAGGAAAAGAAAGAAAGCAT
* * * *
2240143 CTCCTGCTCCTCAAGGACCAAAGGAAAAATGTGTGTCTTGCTCATTAAGGACAGAAGAAAATGAA
196 CTCCTGCTCCTCAAGGACCAAAGGAAAAATATGTATCCTGCTCATTAAGGACAGAAAAAAATGAA
2240208 ATAGGTCCTA
261 ATAGGTCCTA
* * * * * * *
2240218 CTCCTTGAAGACAAAGGAAAAGGAGCACGTCCTCCTCTTC-AAGGATAAAGGAAAAATGAGAATG
1 CTCCTTGAGGACAAAGGAAAAAGAGTATGTCTTACTCTTCTAAGGATAAAGGAAAAAGGAGAATG
* * * * *
2240282 AAATAGGTCCTGCTCCTTGAGGACAAAGGAAAAAGGAAAAACAA--AATGTGTCCTACTCTTTGA
66 AAATGGGTCTTGCTCCTTGAGGACAAAGGAAAAAGGAAAAA-AAGGAATGCGTTCTACTCCTTGA
*
2240345 GGATAAAGGGAAAAGA
130 GGACAAAGGGAAAAGA
2240361 GAAAAAATGT
Statistics
Matches: 357, Mismatches: 45, Indels: 20
0.85 0.11 0.05
Matches are distributed among these distances:
266 8 0.02
267 87 0.24
268 151 0.42
269 109 0.31
270 2 0.01
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (270 bp):
CTCCTTGAGGACAAAGGAAAAAGAGTATGTCTTACTCTTCTAAGGATAAAGGAAAAAGGAGAATG
AAATGGGTCTTGCTCCTTGAGGACAAAGGAAAAAGGAAAAAAAGGAATGCGTTCTACTCCTTGAG
GACAAAGGGAAAAGAAAGAAAGCATGTCCTGCTCCTCAAGGACCAAAGGAAAAGAAAGAAAGCAT
CTCCTGCTCCTCAAGGACCAAAGGAAAAATATGTATCCTGCTCATTAAGGACAGAAAAAAATGAA
ATAGGTCCTA
Found at i:2240127 original size:40 final size:40
Alignment explanation
Indices: 2240069--2240170 Score: 141
Period size: 40 Copynumber: 2.5 Consensus size: 40
2240059 ATGGGTTCTA
* * * *
2240069 CTCCTTGAGGACAAAGGGAAAAGAAGGAAAGCATGTCTTG
1 CTCCTCGAGGACCAAGGGAAAAGAAGGAAAGCATCTCCTG
*
2240109 CTCTTCGAGGACCAAGGGAAAAGAAGGAAAGCATCTCCTG
1 CTCCTCGAGGACCAAGGGAAAAGAAGGAAAGCATCTCCTG
* *
2240149 CTCCTCAAGGACCAAAGGAAAA
1 CTCCTCGAGGACCAAGGGAAAA
2240171 ATGTGTGTCT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.38, C:0.21, G:0.26, T:0.15
Consensus pattern (40 bp):
CTCCTCGAGGACCAAGGGAAAAGAAGGAAAGCATCTCCTG
Found at i:2240379 original size:40 final size:42
Alignment explanation
Indices: 2240259--2240393 Score: 150
Period size: 43 Copynumber: 3.2 Consensus size: 42
2240249 CTCCTCTTCA
* * ** * *
2240259 AGGATAAAGGAAAAATGAGAATGAAATAG-GTCCTGCTCCTTG
1 AGGACAAAGGAAAAAGGAGAACAAAAT-GTGTCCTACTCTTTG
*
2240301 AGGACAAAGGAAAAAGGAAAAACAAAATGTGTCCTACTCTTTG
1 AGGACAAAGGAAAAAGG-AGAACAAAATGTGTCCTACTCTTTG
* *
2240344 AGGATAAAGGGAAAA-GAGAA-AAAATGTGTCCTACTCTTTG
1 AGGACAAAGGAAAAAGGAGAACAAAATGTGTCCTACTCTTTG
2240384 AGGACAAAGG
1 AGGACAAAGG
2240394 GTGTTGAGTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 29 0.36
41 3 0.04
42 17 0.21
43 31 0.39
ACGTcount: A:0.44, C:0.12, G:0.25, T:0.19
Consensus pattern (42 bp):
AGGACAAAGGAAAAAGGAGAACAAAATGTGTCCTACTCTTTG
Found at i:2240394 original size:40 final size:43
Alignment explanation
Indices: 2240288--2240394 Score: 148
Period size: 40 Copynumber: 2.6 Consensus size: 43
2240278 AATGAAATAG
* * *
2240288 GTCCTGCTCCTTGAGGACAAAGGAAAAAGGAAAAACAAAATGT
1 GTCCTACTCTTTGAGGACAAAGGGAAAAGGAAAAACAAAATGT
* *
2240331 GTCCTACTCTTTGAGGATAAAGGGAAAA-G-AGAA-AAAATGT
1 GTCCTACTCTTTGAGGACAAAGGGAAAAGGAAAAACAAAATGT
2240371 GTCCTACTCTTTGAGGACAAAGGG
1 GTCCTACTCTTTGAGGACAAAGGG
2240395 TGTTGAGTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
40 30 0.52
41 3 0.05
42 1 0.02
43 24 0.41
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (43 bp):
GTCCTACTCTTTGAGGACAAAGGGAAAAGGAAAAACAAAATGT
Found at i:2242858 original size:20 final size:20
Alignment explanation
Indices: 2242835--2242908 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
2242825 ACAATTCAAA
2242835 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2242855 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2242876 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2242896 GTATCGATACATG
1 GTATCGATACATG
2242909 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2242879 original size:21 final size:21
Alignment explanation
Indices: 2242853--2242928 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
2242843 ACATGTTGCA
2242853 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
2242874 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
2242894 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
2242915 ATGTATCGATACAT
1 ATGTATCGATACAT
2242929 TTCTTGGCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:2242886 original size:41 final size:41
Alignment explanation
Indices: 2242835--2242928 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
2242825 ACAATTCAAA
2242835 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
2242876 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
2242917 GTATCGATACAT
1 GTATCGATACAT
2242929 TTCTTGGCAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:2242985 original size:13 final size:13
Alignment explanation
Indices: 2242967--2242992 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2242957 TACAGCAAGT
2242967 ATGTATCGATACA
1 ATGTATCGATACA
2242980 ATGTATCGATACA
1 ATGTATCGATACA
2242993 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2245242 original size:21 final size:21
Alignment explanation
Indices: 2245209--2245253 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2245199 TTGCAAGTTG
*
2245209 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2245231 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2245251 AAA
1 AAA
2245254 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2249184 original size:13 final size:13
Alignment explanation
Indices: 2249166--2249204 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2249156 ATATTTTTCT
2249166 TTGTATCGATACA
1 TTGTATCGATACA
2249179 TTGTATCGATACA
1 TTGTATCGATACA
*
2249192 TTGTATCAATACA
1 TTGTATCGATACA
2249205 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2251678 original size:20 final size:20
Alignment explanation
Indices: 2251655--2251728 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
2251645 ACAATTCAAA
2251655 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2251675 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2251696 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2251716 GTATCGATACATG
1 GTATCGATACATG
2251729 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2251699 original size:21 final size:21
Alignment explanation
Indices: 2251673--2251748 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
2251663 ACATGTTGCA
2251673 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
2251694 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
2251714 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
2251735 ATGTATCGATACAT
1 ATGTATCGATACAT
2251749 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Done.