Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 77 of 318
Found at i:22442769 original size:48 final size:50
Alignment explanation
Indices: 22442686--22442810 Score: 137
Period size: 48 Copynumber: 2.5 Consensus size: 50
22442676 ATTCCAAAAA
*
22442686 TAATAATATTTTAATAGATTTAATATTAAACTTAATCTAATACTTAT-TT-
1 TAATAATATTTTATTA-ATTTAATATTAAACTTAATCTAATACTTATCTTG
* * * * **
22442735 TAATAGTATTTTATTAATTTAATATTTAATTTAATTTAATGTTTATCTTG
1 TAATAATATTTTATTAATTTAATATTAAACTTAATCTAATACTTATCTTG
*
22442785 TAGATAAATTTTTTATTAATTTAATA
1 TA-AT-AATATTTTATTAATTTAATA
22442811 AGATTTAGTA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
48 25 0.40
49 16 0.25
50 2 0.03
51 2 0.03
52 18 0.29
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (50 bp):
TAATAATATTTTATTAATTTAATATTAAACTTAATCTAATACTTATCTTG
Found at i:22442828 original size:62 final size:59
Alignment explanation
Indices: 22442751--22442869 Score: 150
Period size: 62 Copynumber: 2.0 Consensus size: 59
22442741 TATTTTATTA
* * * *
22442751 ATTTAATATTTAATTTAATTTAATGTTTATCTTG-TAGATAAATTTTTTATTAATTTAATAAG
1 ATTTAATATTAAATTTAATCTAATATTTATCTTGATA-A-AAA--TTATATTAATTTAATAAG
*
22442813 ATTTAGTATTAAATTTAATCTAATATTTATCTTGATAAAAATTATATTAATTTAATA
1 ATTTAATATTAAATTTAATCTAATATTTATCTTGATAAAAATTATATTAATTTAATA
22442870 TTAAAGTTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
59 15 0.29
61 3 0.06
62 31 0.61
63 2 0.04
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (59 bp):
ATTTAATATTAAATTTAATCTAATATTTATCTTGATAAAAATTATATTAATTTAATAAG
Found at i:22454537 original size:66 final size:66
Alignment explanation
Indices: 22454431--22454609 Score: 232
Period size: 66 Copynumber: 2.7 Consensus size: 66
22454421 AGCCTTACAA
* * *
22454431 GGCCTAGCACACGGGCATGTGGCTTGGTTGTGTGACACAAGTCAGTATACCCTCCAGTTTTCACA
1 GGCCTAGCACACGGGCATGTGGCTTGGCTATGTGACACAAGTCAGTATACCCACCAGTTTTCACA
22454496 C
66 C
* * * * *
22454497 GGCCTAGCACACGGGCATATGGCTTGGCTATGTGTCACAAGTCAGTATGCTCACCATTTTTCACA
1 GGCCTAGCACACGGGCATGTGGCTTGGCTATGTGACACAAGTCAGTATACCCACCAGTTTTCACA
22454562 C
66 C
* * ** * *
22454563 GGTCTAGCACACGGGCTTGTGGCTTGGCCGTGTAACCCAAGTCAGTA
1 GGCCTAGCACACGGGCATGTGGCTTGGCTATGTGACACAAGTCAGTA
22454610 AGCTCGCTAG
Statistics
Matches: 97, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 97 1.00
ACGTcount: A:0.21, C:0.27, G:0.26, T:0.26
Consensus pattern (66 bp):
GGCCTAGCACACGGGCATGTGGCTTGGCTATGTGACACAAGTCAGTATACCCACCAGTTTTCACA
C
Found at i:22454630 original size:31 final size:31
Alignment explanation
Indices: 22454592--22454653 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
22454582 TGGCTTGGCC
22454592 GTGTAACCCAAGTCAGTAAGCTCGCTAGATT
1 GTGTAACCCAAGTCAGTAAGCTCGCTAGATT
22454623 GTGTAACCCAAGTCAGTAAGCTCGCTAGATT
1 GTGTAACCCAAGTCAGTAAGCTCGCTAGATT
22454654 AGACATGGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (31 bp):
GTGTAACCCAAGTCAGTAAGCTCGCTAGATT
Found at i:22461973 original size:17 final size:17
Alignment explanation
Indices: 22461938--22461976 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
22461928 CTGTCAACAC
*
22461938 CACACGGTCGTGTGCGA
1 CACACGGTCGTGTACGA
*
22461955 CACACGGTCGTGTATGA
1 CACACGGTCGTGTACGA
22461972 CACAC
1 CACAC
22461977 AGTCTAGGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.31, G:0.28, T:0.18
Consensus pattern (17 bp):
CACACGGTCGTGTACGA
Found at i:22462306 original size:18 final size:18
Alignment explanation
Indices: 22462283--22462338 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
22462273 GTATGATTTG
22462283 TTATGTATAAAGCATGTT
1 TTATGTATAAAGCATGTT
*
22462301 TTATGT-T--TG-AT-TT
1 TTATGTATAAAGCATGTT
22462314 GTTATGTATAAAGCATGTT
1 -TTATGTATAAAGCATGTT
*
22462333 CTATGT
1 TTATGT
22462339 TTGTTTTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 12
0.66 0.07 0.27
Matches are distributed among these distances:
13 2 0.07
14 8 0.28
15 2 0.07
17 2 0.07
18 13 0.45
19 2 0.07
ACGTcount: A:0.27, C:0.05, G:0.18, T:0.50
Consensus pattern (18 bp):
TTATGTATAAAGCATGTT
Found at i:22462339 original size:32 final size:32
Alignment explanation
Indices: 22462270--22462341 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
22462260 AGTGATACAA
* *
22462270 TATGTATGATTTGTTATGTATAAAGCATGTTT
1 TATGTTTGATTTGTTATGTATAAAGCATGTTC
22462302 TATGTTTGATTTGTTATGTATAAAGCATGTTC
1 TATGTTTGATTTGTTATGTATAAAGCATGTTC
22462334 TATGTTTG
1 TATGTTTG
22462342 TTTTATGAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.25, C:0.04, G:0.19, T:0.51
Consensus pattern (32 bp):
TATGTTTGATTTGTTATGTATAAAGCATGTTC
Found at i:22468342 original size:20 final size:21
Alignment explanation
Indices: 22468271--22468330 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
22468261 AATAATGGTG
** *
22468271 GTAATGAGATTAGTTACTATA
1 GTAATGAGATTAAATATTATA
**
22468292 GTGGTGAGATTAAATATTATA
1 GTAATGAGATTAAATATTATA
22468313 GTAATGAGATTAAA-ATTA
1 GTAATGAGATTAAATATTA
22468331 ATGGTAAGAG
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 4 0.12
21 28 0.88
ACGTcount: A:0.42, C:0.02, G:0.20, T:0.37
Consensus pattern (21 bp):
GTAATGAGATTAAATATTATA
Found at i:22473527 original size:19 final size:19
Alignment explanation
Indices: 22473503--22473541 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
22473493 AATTGAAGAG
22473503 AAATTTAATTTCGTTGAGT
1 AAATTTAATTTCGTTGAGT
*
22473522 AAATTTAATTTTGTTGAGT
1 AAATTTAATTTCGTTGAGT
22473541 A
1 A
22473542 CTCTTGATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.49
Consensus pattern (19 bp):
AAATTTAATTTCGTTGAGT
Found at i:22476805 original size:5 final size:5
Alignment explanation
Indices: 22476791--22476822 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
22476781 AAGTGTTCTC
22476791 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
22476823 TACAGTTTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:22479762 original size:26 final size:26
Alignment explanation
Indices: 22479726--22479785 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
22479716 GATGTTACAC
* *
22479726 AAACACAAGGGTCCTGTGACCCACTT
1 AAACTCAAGGGTCCTGTAACCCACTT
*
22479752 AAACTCAAGGGTCCTTTAACCCACTT
1 AAACTCAAGGGTCCTGTAACCCACTT
22479778 AAACTCAA
1 AAACTCAA
22479786 ACTCGCTAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.35, C:0.30, G:0.13, T:0.22
Consensus pattern (26 bp):
AAACTCAAGGGTCCTGTAACCCACTT
Found at i:22483443 original size:96 final size:96
Alignment explanation
Indices: 22483229--22483598 Score: 498
Period size: 96 Copynumber: 3.9 Consensus size: 96
22483219 TGATATGTGT
* * *
22483229 GCTAGTGTAAGACCATGTTTGGGACATGGCATCTGCCA-CGATATG-AGAGCTAGTGTAAGACCA
1 GCTAGTGTAAGACCATGTATGGGACATGGCATCAG-CATCGATATGTA-CGCTAGTGTAAGACCA
* * * *
22483292 TGT-TTGAACATGGCATCGACAATGTA-ATGAGA
64 TGTCTGGAACATGGCATCGGCATTG-AGACGAGA
* *
22483324 GCCAGTGTAAGACCATGTATGGGACATGGCATCAGCATTGATATGTACGCTAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTATGGGACATGGCATCAGCATCGATATGTACGCTAGTGTAAGACCATG
*
22483389 TCTGGGACATGGCATCGGCATTGAGACGAGA
66 TCTGGAACATGGCATCGGCATTGAGACGAGA
*
22483420 GCTAGTGTAAGACCATGTATGGGACATGGCATCAGCATTGATATGTACGCTAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTATGGGACATGGCATCAGCATCGATATGTACGCTAGTGTAAGACCATG
*
22483485 TCTGGGACATGGCATCGGCATTGAGACGAGA
66 TCTGGAACATGGCATCGGCATTGAGACGAGA
* * * * * *
22483516 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGACATGTGA-GCCAGTGTAAGACAAT
1 GCTAGTGTAAGACCATGTATGGGACATGGCATCAGCATCGATATGT-ACGCTAGTGTAAGACCAT
*
22483580 GTTTGGAACATGGCATCGG
65 GTCTGGAACATGGCATCGG
22483599 TAATTCACCC
Statistics
Matches: 250, Mismatches: 20, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
94 2 0.01
95 57 0.23
96 190 0.76
97 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTATGGGACATGGCATCAGCATCGATATGTACGCTAGTGTAAGACCATG
TCTGGAACATGGCATCGGCATTGAGACGAGA
Found at i:22483598 original size:48 final size:48
Alignment explanation
Indices: 22483219--22483598 Score: 446
Period size: 48 Copynumber: 7.9 Consensus size: 48
22483209 GACATTTGGG
* * *
22483219 TGATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCTGCCA-
1 TGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATC-GGCAT
* * * *
22483267 CGATATGAGAGCTAGTGTAAGACCATGTTT-GAACATGGCATCGACAA
1 TGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAT
* * *
22483314 TG-TAATGAGAGCCAGTGTAAGACCATGTATGGGACATGGCATCAGCAT
1 TGAT-ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAT
* *
22483362 TGATATGTA-CGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 TGATATG-AGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAT
* * * *
22483410 TGAGACGAGAGCTAGTGTAAGACCATGTATGGGACATGGCATCAGCAT
1 TGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAT
* *
22483458 TGATATGTA-CGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 TGATATG-AGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAT
* * *
22483506 TGAGACGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCT
1 TGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAT
* * * * * *
22483554 CGACATGTGAGCCAGTGTAAGACAATGTTTGGAACATGGCATCGG
1 TGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGG
22483599 TAATTCACCC
Statistics
Matches: 286, Mismatches: 38, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
46 4 0.01
47 38 0.13
48 241 0.84
49 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
TGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAT
Found at i:22484564 original size:29 final size:30
Alignment explanation
Indices: 22484499--22484566 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
22484489 CACAGGCGGA
* *
22484499 GACACGGCCGTATGTCCCAATCATGTGGAG
1 GACACGGCCGTATATCCCAACCATGTGGAG
* * * *
22484529 GATACGGTCGTGTATCCCAACCGTGT-GAG
1 GACACGGCCGTATATCCCAACCATGTGGAG
22484558 GACACGGCC
1 GACACGGCC
22484567 TAGTACACTA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.22, C:0.28, G:0.31, T:0.19
Consensus pattern (30 bp):
GACACGGCCGTATATCCCAACCATGTGGAG
Found at i:22486272 original size:47 final size:47
Alignment explanation
Indices: 22486203--22486300 Score: 178
Period size: 47 Copynumber: 2.1 Consensus size: 47
22486193 TAATCAAGAG
*
22486203 TTTTAAATGCTTTATGTTATTGTTACATAAGTGATAGTTATTTTATA
1 TTTTAAATGCTTTATGTTATTGTTACATAAGTGATAATTATTTTATA
*
22486250 TTTTAAATGCTTTATGTTATTGTTACATAAGTGATAATTATTTTATT
1 TTTTAAATGCTTTATGTTATTGTTACATAAGTGATAATTATTTTATA
22486297 TTTT
1 TTTT
22486301 TAATTTAGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.29, C:0.04, G:0.11, T:0.56
Consensus pattern (47 bp):
TTTTAAATGCTTTATGTTATTGTTACATAAGTGATAATTATTTTATA
Found at i:22486290 original size:26 final size:25
Alignment explanation
Indices: 22486214--22486296 Score: 68
Period size: 26 Copynumber: 3.4 Consensus size: 25
22486204 TTTAAATGCT
22486214 TTATGTTATTGTTACATAAGTGATA
1 TTATGTTATTGTTACATAAGTGATA
* * *
22486239 GTTATTTTATAT-TT---TAAATGCT-
1 -TTATGTTAT-TGTTACATAAGTGATA
22486261 TTATGTTATTGTTACATAAGTGATAA
1 TTATGTTATTGTTACATAAGTGAT-A
*
22486287 TTATTTTATT
1 TTATGTTATT
22486297 TTTTTAATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
20 1 0.02
21 10 0.23
23 6 0.14
24 6 0.14
26 19 0.44
27 1 0.02
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54
Consensus pattern (25 bp):
TTATGTTATTGTTACATAAGTGATA
Found at i:22487083 original size:17 final size:18
Alignment explanation
Indices: 22487049--22487087 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
22487039 ATTTTATATT
* *
22487049 TTATTTTTATGAATTTAA
1 TTATTTTAATGAAATTAA
22487067 TTATTTTAAT-AAATTAA
1 TTATTTTAATGAAATTAA
22487084 TTAT
1 TTAT
22487088 AGGAATCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TTATTTTAATGAAATTAA
Found at i:22492949 original size:22 final size:20
Alignment explanation
Indices: 22492891--22492942 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
22492881 ATCACCCTAG
*
22492891 TTTTATTTTATTTTATTTAT
1 TTTTATTTTATATTATTTAT
22492911 TTTTAATTGTTATATTATTTAT
1 TTTT-ATT-TTATATTATTTAT
22492933 TTTTATTTTA
1 TTTTATTTTA
22492943 CTAATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 7 0.24
21 6 0.21
22 16 0.55
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTATTTTATATTATTTAT
Found at i:22492997 original size:17 final size:17
Alignment explanation
Indices: 22492975--22493032 Score: 77
Period size: 17 Copynumber: 3.5 Consensus size: 17
22492965 ATTCTTATAC
22492975 TTATATTTTTAATTTTT
1 TTATATTTTTAATTTTT
22492992 TTATA-TTTTAATTTTT
1 TTATATTTTTAATTTTT
*
22493008 TATATACTTTT-ATTTTT
1 T-TATATTTTTAATTTTT
22493025 TT-TATTTT
1 TTATATTTT
22493033 GTTTTTCTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
15 5 0.13
16 13 0.34
17 16 0.42
18 4 0.11
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (17 bp):
TTATATTTTTAATTTTT
Found at i:22493043 original size:18 final size:18
Alignment explanation
Indices: 22493021--22493060 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
22493011 ATACTTTTAT
*
22493021 TTTTTTTATTTTGTTTTTC
1 TTTTTTT-TTTCGTTTTTC
*
22493040 TTTTTTTTTTCTTTTTTC
1 TTTTTTTTTTCGTTTTTC
22493058 TTT
1 TTT
22493061 CGTCTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.03, C:0.07, G:0.03, T:0.88
Consensus pattern (18 bp):
TTTTTTTTTTCGTTTTTC
Found at i:22493045 original size:8 final size:8
Alignment explanation
Indices: 22493029--22493085 Score: 55
Period size: 8 Copynumber: 7.2 Consensus size: 8
22493019 ATTTTTTTTA
*
22493029 TTTTGTTT
1 TTTTCTTT
*
22493037 TTCTTTTTT
1 TT-TTCTTT
22493046 TTTTC-TT
1 TTTTCTTT
22493053 TTTTC-TT
1 TTTTCTTT
**
22493060 TCGTCTTT
1 TTTTCTTT
22493068 TTTTCTTT
1 TTTTCTTT
22493076 TTTTCTTT
1 TTTTCTTT
22493084 TT
1 TT
22493086 ACTATTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
7 12 0.29
8 22 0.54
9 7 0.17
ACGTcount: A:0.00, C:0.12, G:0.04, T:0.84
Consensus pattern (8 bp):
TTTTCTTT
Found at i:22493049 original size:11 final size:11
Alignment explanation
Indices: 22493020--22493079 Score: 75
Period size: 11 Copynumber: 5.5 Consensus size: 11
22493010 TATACTTTTA
*
22493020 TTTTTTTTATT
1 TTTTTTTTCTT
*
22493031 TTGTTTTTCTT
1 TTTTTTTTCTT
22493042 TTTTTTTTCTT
1 TTTTTTTTCTT
* *
22493053 TTTTCTTTCGT
1 TTTTTTTTCTT
*
22493064 CTTTTTTTCTT
1 TTTTTTTTCTT
22493075 TTTTT
1 TTTTT
22493080 CTTTTTACTA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 40 1.00
ACGTcount: A:0.02, C:0.10, G:0.03, T:0.85
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:22493135 original size:18 final size:18
Alignment explanation
Indices: 22493112--22493182 Score: 76
Period size: 18 Copynumber: 3.9 Consensus size: 18
22493102 TTACCTTTTA
22493112 AGTTTATTGA-TATTATTG
1 AGTTTATT-ATTATTATTG
22493130 AGTTTATTATTATTATT-
1 AGTTTATTATTATTATTG
*
22493147 ATTATTATTATTATTATT-
1 AGT-TTATTATTATTATTG
*
22493165 ATTATTATTATTATTATT
1 AGT-TTATTATTATTATT
22493183 ATTGTTGTTG
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
17 3 0.06
18 47 0.94
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (18 bp):
AGTTTATTATTATTATTG
Found at i:22493139 original size:3 final size:3
Alignment explanation
Indices: 22493133--22493215 Score: 121
Period size: 3 Copynumber: 27.7 Consensus size: 3
22493123 ATTATTGAGT
22493133 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
22493181 TTA TTG TTG TTG TTG TTG TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
22493216 TATCTTTCTT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:22494253 original size:1 final size:1
Alignment explanation
Indices: 22494219--22494244 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
22494209 TATTGTTCTC
22494219 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
22494245 GTGAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:22498943 original size:31 final size:31
Alignment explanation
Indices: 22498908--22498968 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
22498898 TAGTGAATTA
*
22498908 AATAAAAAATTTTAAATAATTCAACGACTTC
1 AATAAAAAATTTTAAATAATTCAACAACTTC
* * *
22498939 AATAAAAACTTTTGAATAGTTCAACAACTT
1 AATAAAAAATTTTAAATAATTCAACAACTT
22498969 AATTGAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (31 bp):
AATAAAAAATTTTAAATAATTCAACAACTTC
Found at i:22506832 original size:91 final size:92
Alignment explanation
Indices: 22506702--22506885 Score: 223
Period size: 92 Copynumber: 2.0 Consensus size: 92
22506692 ACTCAATAAC
* * * * *
22506702 AAGTAATTGAATAAAAGTACTAATCAATCAAACTTGAAGATC-AAACTAA-AAGTTAAGCTATCA
1 AAGTAATTGAATAAAAGTACTAATCAAGCAAACTCGAAGATCAAAACGAATAA-TTAAACAATCA
*
22506765 AAA-TCATGTAGTAAATCCAGTAGCAAGT
65 AAAGT-ATATAGTAAATCCAGTAGCAAGT
* * *
22506793 AAGTAATTGAAT-AAAGTATTAATCAAGCTACACTCGAAGATCAAAAGGAATAATTAAACAATCA
1 AAGTAATTGAATAAAAGTACTAATCAAGC-AAACTCGAAGATCAAAACGAATAATTAAACAATCA
*
22506857 AAAGTATATAGTAAATTCAGTAGCAAGT
65 AAAGTATATAGTAAATCCAGTAGCAAGT
22506885 A
1 A
22506886 GATGAAAAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
90 14 0.18
91 23 0.29
92 39 0.49
93 3 0.04
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (92 bp):
AAGTAATTGAATAAAAGTACTAATCAAGCAAACTCGAAGATCAAAACGAATAATTAAACAATCAA
AAGTATATAGTAAATCCAGTAGCAAGT
Found at i:22525441 original size:46 final size:46
Alignment explanation
Indices: 22525273--22525443 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
22525263 GGTTGAGCAT
* * *
22525273 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
22525319 CCGAACTCGTTGAGTTGAGT-CGAGTTC-GTGA--AATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
22525363 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
22525411 CCGAGCTCGTTGAGTTGAGTCCGCGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
22525444 GGGCGGTTAC
Statistics
Matches: 102, Mismatches: 13, Indels: 20
0.76 0.10 0.15
Matches are distributed among these distances:
41 2 0.02
42 3 0.03
44 2 0.02
45 7 0.07
46 71 0.70
47 7 0.07
48 4 0.04
50 3 0.03
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:22528085 original size:38 final size:39
Alignment explanation
Indices: 22528038--22528134 Score: 142
Period size: 38 Copynumber: 2.5 Consensus size: 39
22528028 GGACTAGGAT
*
22528038 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGCTAAG-C
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGCTAAGTC
* * * *
22528076 CCGAAGGCATTTGTGCAAGTTACTAAACCCGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGCTAAGTC
22528115 CCGAAGGCATTCGTGCGAGT
1 CCGAAGGCATTCGTGCGAGT
22528135 CACTATAACC
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 32 0.63
39 19 0.37
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTAATAAACCCGGCTAAGTC
Found at i:22528128 original size:77 final size:79
Alignment explanation
Indices: 22527989--22528134 Score: 201
Period size: 77 Copynumber: 1.9 Consensus size: 79
22527979 AATGATTCCG
* * *
22527989 GGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTCGTGC
1 GGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCGTGC
22528054 GAGTTAATAAATCC
66 GAGTTAATAAATCC
* *
22528068 GGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGG-TTAAG-TCCCGAAGGCATTCGT
1 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTCGT
22528129 GCGAGT
64 GCGAGT
22528135 CACTATAACC
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
76 1 0.02
77 23 0.38
78 22 0.37
79 14 0.23
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCGTGC
GAGTTAATAAATCC
Found at i:22536135 original size:79 final size:82
Alignment explanation
Indices: 22535995--22536179 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
22535985 TCGAATGATG
* * *
22535995 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
22536059 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
22536075 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
22536137 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
22536155 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22536180 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:22536187 original size:40 final size:40
Alignment explanation
Indices: 22535996--22536187 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
22535986 CGAATGATGT
* * * * *
22535996 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
22536036 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
22536076 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
22536115 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
22536155 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
22536188 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:22536210 original size:79 final size:79
Alignment explanation
Indices: 22535995--22536212 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
22535985 TCGAATGATG
* * * * ** *
22535995 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
22536058 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
22536075 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
22536140 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
22536155 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
22536213 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:22538946 original size:42 final size:43
Alignment explanation
Indices: 22538886--22538969 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 43
22538876 TTCGAAAATG
* *
22538886 AGACTTCGTATAAGACCATATA-TGGGATA-TGTCATTGATATC
1 AGACATCGTATAAGACCATA-ACTGGGATATTGTCATCGATATC
* *
22538928 AGACATCGTGTAAGACCATAACTGGGCTATTGTCATCGATAT
1 AGACATCGTATAAGACCATAACTGGGATATTGTCATCGATAT
22538970 AACTGGGCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 1 0.03
42 24 0.67
43 11 0.31
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (43 bp):
AGACATCGTATAAGACCATAACTGGGATATTGTCATCGATATC
Found at i:22538975 original size:23 final size:23
Alignment explanation
Indices: 22538945--22538992 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
22538935 GTGTAAGACC
*
22538945 ATAACTGGGCTATTGTCATCGAT
1 ATAACTGGGCTATTGGCATCGAT
22538968 ATAACTGGGCTATTGGCATCGAT
1 ATAACTGGGCTATTGGCATCGAT
22538991 AT
1 AT
22538993 GTGATCTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (23 bp):
ATAACTGGGCTATTGGCATCGAT
Found at i:22546507 original size:46 final size:46
Alignment explanation
Indices: 22546369--22546624 Score: 218
Period size: 47 Copynumber: 5.5 Consensus size: 46
22546359 AGTGTAAAAT
* *
22546369 ATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCCAGTGTAAGACC
1 ATGTCTGGGACATGCATCGGCCTCGA-GATGA-AGCCAGTGTAAGACC
* * * * * *
22546416 ATGTCTGGGACATGGCATCGACATTGAGACGAGAGCTAGTATAAGA-C
1 ATGTCTGGGACAT-GCATCGGCCTCGAGATGA-AGCCAGTGTAAGACC
*
22546463 ATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCCAGTGTAAGA-C
1 ATGTCTGGGACATGCATCGGCCTCGAGATG-AAGCCAGTGTAAGACC
* * *
22546509 ATGTTTGGGACATGCATCGG-CTACGAGATGGCAGTCAGTGTAAGACC
1 ATGTCTGGGACATGCATCGGCCT-CGAGAT-GAAGCCAGTGTAAGACC
* * *
22546556 ATGTCTGGGACATTGCATC-GACTTGAGAT-ATGTGCCAGTGTAAGACC
1 ATGTCTGGGACA-TGCATCGGCCTCGAGATGA--AGCCAGTGTAAGACC
* *
22546603 ATGTCTGGTAAATGGCATCGGC
1 ATGTCTGGGACAT-GCATCGGC
22546625 ATCTTGCCCA
Statistics
Matches: 172, Mismatches: 25, Indels: 23
0.78 0.11 0.10
Matches are distributed among these distances:
45 2 0.01
46 63 0.37
47 75 0.44
48 31 0.18
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
ATGTCTGGGACATGCATCGGCCTCGAGATGAAGCCAGTGTAAGACC
Found at i:22546584 original size:47 final size:45
Alignment explanation
Indices: 22546400--22546610 Score: 210
Period size: 46 Copynumber: 4.5 Consensus size: 45
22546390 CACATTATGA
*
22546400 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACG
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGAC-TCGAGACG
* * *
22546447 AGAGCTAGTATAAGA-CATGTCTGGGACATGCATCGGCCTCGAGACG
1 -GAGCCAGTGTAAGACCATGTCTGGGACATGCATC-GACTCGAGACG
* * * *
22546493 TAAGCCAGTGTAAGA-CATGTTTGGGACATGCATCGGCTACGAGATG
1 -GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGACT-CGAGACG
* * **
22546539 GCAGTCAGTGTAAGACCATGTCTGGGACATTGCATCGACTTGAGATAT
1 G-AGCCAGTGTAAGACCATGTCTGGGACA-TGCATCGACTCGAGA-CG
*
22546587 GTGCCAGTGTAAGACCATGTCTGG
1 GAGCCAGTGTAAGACCATGTCTGG
22546611 TAAATGGCAT
Statistics
Matches: 137, Mismatches: 20, Indels: 13
0.81 0.12 0.08
Matches are distributed among these distances:
45 3 0.02
46 59 0.43
47 53 0.39
48 22 0.16
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGACTCGAGACG
Found at i:22560149 original size:43 final size:43
Alignment explanation
Indices: 22560044--22560250 Score: 165
Period size: 43 Copynumber: 4.9 Consensus size: 43
22560034 TTAGGGTTAT
* * * *
22560044 TGAGATTTTGTATAAGACCATATCTAGGATATGGCATC-AACA
1 TGAGACTTCGTATAAGACCATATCTGGGATATGGCATCGAAAA
* * * * *
22560086 TGTGA-TCTCATATAAGACCATACCTGGGACATGGCTTCGAAAA
1 TGAGACT-TCGTATAAGACCATATCTGGGATATGGCATCGAAAA
*
22560129 TGAGACTTCGTATAAGACCATATCTGGGATATGGCATCG-ATA
1 TGAGACTTCGTATAAGACCATATCTGGGATATGGCATCGAAAA
* * * *
22560171 TGAGACATT-GTGTAAGACCATAGCTGGGCTATTGGCATCG-ATA
1 TGAGAC-TTCGTATAAGACCATATCTGGGATA-TGGCATCGAAAA
* * * * *
22560214 TGTGA-TCCCATGTAAGACCATATCTAGGATATGGCAT
1 TGAGACT-TCGTATAAGACCATATCTGGGATATGGCAT
22560251 TGGCATCTTA
Statistics
Matches: 135, Mismatches: 23, Indels: 14
0.78 0.13 0.08
Matches are distributed among these distances:
41 2 0.01
42 62 0.46
43 70 0.52
44 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (43 bp):
TGAGACTTCGTATAAGACCATATCTGGGATATGGCATCGAAAA
Found at i:22565538 original size:27 final size:26
Alignment explanation
Indices: 22565480--22565553 Score: 66
Period size: 27 Copynumber: 2.8 Consensus size: 26
22565470 TGATTGTTGA
22565480 CAAAAAATA-ATAATAATATATAAAATTT
1 CAAAAAATATAT-ATAA-ATA-AAAATTT
22565508 --AAAAATATATATAAATAAATAATTT
1 CAAAAAATATATATAAATAAA-AATTT
*
22565533 CAAAAAAAATATA-ATAATAAA
1 CAAAAAATATATATA-AATAAA
22565554 GTTCATTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
24 2 0.05
25 8 0.20
26 12 0.30
27 18 0.45
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (26 bp):
CAAAAAATATATATAAATAAAAATTT
Found at i:22566647 original size:20 final size:21
Alignment explanation
Indices: 22566599--22566644 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
22566589 ATTTATAAAA
22566599 TTTAATAAATATTTTTAATTATT
1 TTTAA-AAATATTTTT-ATTATT
22566622 TTTAAAAATATTATTT-TTATT
1 TTTAAAAATATT-TTTATTATT
22566643 TT
1 TT
22566645 AAAGTTGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 7 0.32
22 7 0.32
23 8 0.36
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTAAAAATATTTTTATTATT
Found at i:22576004 original size:24 final size:23
Alignment explanation
Indices: 22575975--22576029 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 23
22575965 TCTTATTCAA
22575975 ATTCATTTCATAACATACCATTC
1 ATTCATTTCATAACATACCATTC
22575998 ATTTCATTTCATAACATACCATTC
1 A-TTCATTTCATAACATACCATTC
22576022 ATTCATTT
1 ATTCATTT
22576030 TTGTAATATG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 8 0.26
24 23 0.74
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTCATTTCATAACATACCATTC
Found at i:22579809 original size:24 final size:26
Alignment explanation
Indices: 22579759--22579815 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
22579749 TATTTTCTCG
22579759 AAATTTTACCAGGGGTAAAATCATC-
1 AAATTTTACCAGGGGTAAAATCATCA
* **
22579784 AAATTTTACC-GGGTTAAAATTGTCA
1 AAATTTTACCAGGGGTAAAATCATCA
22579809 AAATTTT
1 AAATTTT
22579816 TACTGATGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (26 bp):
AAATTTTACCAGGGGTAAAATCATCA
Found at i:22582883 original size:28 final size:28
Alignment explanation
Indices: 22582830--22582887 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
22582820 AGGTTTTAGG
* *
22582830 TTTGTAGTGTTGTGTCATGGCATAGAAC
1 TTTGTAGTGTTGTGACATGACATAGAAC
*
22582858 TTTGT-GTGTTGTGACATAGACTTAGAAC
1 TTTGTAGTGTTGTGACAT-GACATAGAAC
22582886 TT
1 TT
22582888 CCAAATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 11 0.42
28 15 0.58
ACGTcount: A:0.22, C:0.10, G:0.26, T:0.41
Consensus pattern (28 bp):
TTTGTAGTGTTGTGACATGACATAGAAC
Found at i:22585262 original size:70 final size:70
Alignment explanation
Indices: 22585139--22585269 Score: 172
Period size: 70 Copynumber: 1.9 Consensus size: 70
22585129 ATATTAAACC
* * * *
22585139 ATTTATAGGGCAAGTAAATGGGGATTTTGACATGCATGTATTGTCCTACTAAGACAATATGAGGT
1 ATTTATAGGACAAGTAAAAGAGGATTTTGACATGCATGTATGGTCCTACTAAGACAATATGAGGT
22585204 AAATT
66 AAATT
** * * * *
22585209 ATTTATAGGACAAGTAAAAGAGGATTTTGACATGTGTGTGTGGTTCTATTAAGAGAATATG
1 ATTTATAGGACAAGTAAAAGAGGATTTTGACATGCATGTATGGTCCTACTAAGACAATATG
22585270 GGCTCTATAA
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
70 51 1.00
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (70 bp):
ATTTATAGGACAAGTAAAAGAGGATTTTGACATGCATGTATGGTCCTACTAAGACAATATGAGGT
AAATT
Found at i:22586845 original size:15 final size:15
Alignment explanation
Indices: 22586825--22586862 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
22586815 TAAATGACTT
22586825 CCTAGGGTCGTTAGA
1 CCTAGGGTCGTTAGA
22586840 CCTAGGGTCGTTAGA
1 CCTAGGGTCGTTAGA
22586855 CCTAGGGT
1 CCTAGGGT
22586863 TTAAGTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.18, C:0.21, G:0.34, T:0.26
Consensus pattern (15 bp):
CCTAGGGTCGTTAGA
Found at i:22587184 original size:16 final size:18
Alignment explanation
Indices: 22587152--22587184 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
22587142 AAGAAATCTC
22587152 AAACTTAAAATAACAAAA
1 AAACTTAAAATAACAAAA
22587170 AAAC-TAAAA-AACAAA
1 AAACTTAAAATAACAAA
22587185 CTTACAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (18 bp):
AAACTTAAAATAACAAAA
Found at i:22590154 original size:6 final size:7
Alignment explanation
Indices: 22590141--22590180 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
22590131 TTAAATCTGC
22590141 TAAAAAA
1 TAAAAAA
22590148 T-AAAAA
1 TAAAAAA
22590154 TAAAAAA
1 TAAAAAA
22590161 TAAAAAA
1 TAAAAAA
22590168 TAAAAAA
1 TAAAAAA
22590175 TAAAAA
1 TAAAAA
22590181 GTAGTTTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.19
7 26 0.81
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:22590159 original size:13 final size:13
Alignment explanation
Indices: 22590141--22590180 Score: 71
Period size: 13 Copynumber: 3.0 Consensus size: 13
22590131 TTAAATCTGC
22590141 TAAAAAATAAAAA
1 TAAAAAATAAAAA
22590154 TAAAAAATAAAAAA
1 TAAAAAAT-AAAAA
22590168 TAAAAAATAAAAA
1 TAAAAAATAAAAA
22590181 GTAGTTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 13 0.50
14 13 0.50
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:22590928 original size:13 final size:13
Alignment explanation
Indices: 22590910--22590941 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
22590900 CCTGCTTCAA
*
22590910 CACGGCCGTATCG
1 CACGGCCATATCG
22590923 CACGGCCATATCG
1 CACGGCCATATCG
22590936 CACGGC
1 CACGGC
22590942 TGTGTCTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.41, G:0.28, T:0.12
Consensus pattern (13 bp):
CACGGCCATATCG
Found at i:22596431 original size:64 final size:65
Alignment explanation
Indices: 22596291--22596431 Score: 191
Period size: 65 Copynumber: 2.2 Consensus size: 65
22596281 GTGGCCATAT
*
22596291 ACGCCCGTGTGCTAGGCCGTGCCAAATCTGTAGGGTATACTGACTTATGCAACACGGCCAAGTCA
1 ACGCCCGTGTGCTAGGCCGTGCCAAATCTG-AGGGTATACTGACTTATACAACACGGCCAAGTCA
22596356 C
65 C
* *
22596357 ACGCCTGTGTGCTAGGCCGTCTGCC-AAT-T-AGGGGTATACTGACTTATACCACACGGCC-AGT
1 ACGCCCGTGTGCTAGGCCG--TGCCAAATCTGA-GGGTATACTGACTTATACAACACGGCCAAGT
22596418 CAC
63 CAC
22596421 ACGCCCGTGTG
1 ACGCCCGTGTG
22596432 TGAGACCGTG
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
64 17 0.25
65 25 0.37
66 19 0.28
67 3 0.04
68 4 0.06
ACGTcount: A:0.22, C:0.30, G:0.26, T:0.22
Consensus pattern (65 bp):
ACGCCCGTGTGCTAGGCCGTGCCAAATCTGAGGGTATACTGACTTATACAACACGGCCAAGTCAC
Found at i:22596567 original size:30 final size:30
Alignment explanation
Indices: 22596504--22596570 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
22596494 TAACATGACT
* *
22596504 GTGTCTCACACACGACTGAGACATACGCCC
1 GTGTCTCACACACGACTGAGACACAAGCCC
* **
22596534 GTGTGTCACACACGACTGAGACACAAGTTC
1 GTGTCTCACACACGACTGAGACACAAGCCC
22596564 GTGTCTC
1 GTGTCTC
22596571 TGACCGTGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.21
Consensus pattern (30 bp):
GTGTCTCACACACGACTGAGACACAAGCCC
Found at i:22611658 original size:44 final size:44
Alignment explanation
Indices: 22611595--22611685 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
22611585 AATGCAGGTT
*
22611595 AGAGGAACCACCCAAATTTCTCATGGAGAGGCTAAGGGAATCAG
1 AGAGGAACCACCCAAATTTCTCATGGAGAGGCTAACGGAATCAG
22611639 AGAGGAACCACCCAAATTTCTCATGGAGAGGCTAACGGAATCAG
1 AGAGGAACCACCCAAATTTCTCATGGAGAGGCTAACGGAATCAG
22611683 AGA
1 AGA
22611686 CCACTTCCAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.37, C:0.21, G:0.26, T:0.15
Consensus pattern (44 bp):
AGAGGAACCACCCAAATTTCTCATGGAGAGGCTAACGGAATCAG
Found at i:22617475 original size:46 final size:46
Alignment explanation
Indices: 22617408--22617583 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
22617398 TGTAATCCGC
*
22617408 CCATAAGCGGACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
22617454 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * *
22617504 -C-TCA-CGAACTCGGACCTCAACTCAACGAGTTCAGACGCTCGCAT
1 CCATAAGCGAACTCGGA-CTCAACTCAACGAGCTCGGGCGTTCGCAT
** *
22617548 CCATAAGTAAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
22617584 ATGCCCAAAT
Statistics
Matches: 106, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
43 2 0.02
44 3 0.03
45 2 0.02
46 54 0.51
47 17 0.16
48 20 0.19
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:22617532 original size:94 final size:93
Alignment explanation
Indices: 22617418--22617588 Score: 279
Period size: 94 Copynumber: 1.8 Consensus size: 93
22617408 CCATAAGCGG
* * * *
22617418 ACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 ACTCGGACTCAACTCAACGAGCTCAGACGCTCGCATCCATAAGTAAACTCGGACTCAACTCAACG
22617483 AGCTCGGATGCCTAGTTACATCTCACGA
66 AGCTCGGATGCCTAGTTACATCTCACGA
*
22617511 ACTCGGACCTCAACTCAACGAGTTCAGACGCTCGCATCCATAAGTAAACTCGGACTCAACTCAAC
1 ACTCGGA-CTCAACTCAACGAGCTCAGACGCTCGCATCCATAAGTAAACTCGGACTCAACTCAAC
*
22617576 GAGTTCGGATGCC
65 GAGCTCGGATGCC
22617589 CAAATATCCC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
93 7 0.10
94 64 0.90
ACGTcount: A:0.28, C:0.32, G:0.20, T:0.20
Consensus pattern (93 bp):
ACTCGGACTCAACTCAACGAGCTCAGACGCTCGCATCCATAAGTAAACTCGGACTCAACTCAACG
AGCTCGGATGCCTAGTTACATCTCACGA
Found at i:22619549 original size:30 final size:30
Alignment explanation
Indices: 22619504--22619592 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
22619494 CAAAGATAAC
*
22619504 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
22619533 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
22619563 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
22619593 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:22619552 original size:15 final size:14
Alignment explanation
Indices: 22619504--22619586 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
22619494 CAAAGATAAC
*
22619504 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
22619518 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
22619533 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
22619548 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
22619563 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
22619578 AAGAAACCC
1 AAGAAACCC
22619587 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:22619592 original size:15 final size:15
Alignment explanation
Indices: 22619515--22619592 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
22619505 AGAAAACCGA
22619515 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
22619530 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
22619544 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
22619559 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
22619575 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
22619590 ATA
1 ATA
22619593 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:22622627 original size:93 final size:93
Alignment explanation
Indices: 22622515--22622684 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
22622505 GCCCATAAGG
* * * *
22622515 ACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 ACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTAAACTCGGACTCAACTCAACA
22622580 AGCTCGGATGCCTAGTTACATCTCACAA
66 AGCTCGGATGCCTAGTTACATCTCACAA
*
22622608 ACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTAAACTCGGACTCAACTCAACA
1 ACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTAAACTCGGACTCAACTCAACA
*
22622673 AGTTCGGATGCC
66 AGCTCGGATGCC
22622685 CAAATATCCA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (93 bp):
ACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTAAACTCGGACTCAACTCAACA
AGCTCGGATGCCTAGTTACATCTCACAA
Found at i:22622677 original size:46 final size:46
Alignment explanation
Indices: 22622515--22622680 Score: 185
Period size: 46 Copynumber: 3.6 Consensus size: 46
22622505 GCCCATAAGG
* * *
22622515 ACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGA
1 ACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTAA
* * * *
22622561 ACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT-C-TCA-CAA
1 ACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CATCCATAAGTAA
*
22622608 ACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTAA
1 ACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTAA
* *
22622654 ACTCGGACTCAACTCAACAAGTTCGGA
1 ACTCGGACTCAACTCAACGAGCTCGGA
22622681 TGCCCAAATA
Statistics
Matches: 100, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 58 0.58
47 30 0.30
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.20
Consensus pattern (46 bp):
ACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTAA
Found at i:22631463 original size:24 final size:25
Alignment explanation
Indices: 22631435--22631491 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 25
22631425 CACCTATTAT
*
22631435 TTATTTTATTTTTTTATTTTCAA-A
1 TTATTTTATTTATTTATTTTCAATA
* *
22631459 TTATTTT-TTTATTTCTTTTTAATA
1 TTATTTTATTTATTTATTTTCAATA
*
22631483 CTATTTTAT
1 TTATTTTAT
22631492 CTTGAGATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 12 0.44
24 14 0.52
25 1 0.04
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (25 bp):
TTATTTTATTTATTTATTTTCAATA
Found at i:22635692 original size:68 final size:70
Alignment explanation
Indices: 22635620--22635817 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
22635610 ACACCCTGTA
* * * *
22635620 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
22635682 ATAAAT
65 ATAAAT
*
22635688 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
22635753 ATAAAT
65 ATAAAT
*
22635759 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
22635818 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:22635731 original size:41 final size:41
Alignment explanation
Indices: 22635686--22635803 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
22635676 TGAAAGATAA
22635686 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
22635727 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
22635757 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
22635798 ATGTAG
1 ATGTAG
22635804 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:22635743 original size:71 final size:71
Alignment explanation
Indices: 22635654--22635817 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
22635644 GAGATGTATC
22635654 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
22635719 AGGACA
66 AGGACA
22635725 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
22635790 AGGACA
66 AGGACA
22635796 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
22635818 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:22643258 original size:68 final size:70
Alignment explanation
Indices: 22643186--22643383 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
22643176 ACACCCTGTA
* * * *
22643186 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
22643248 ATAAAT
65 ATAAAT
*
22643254 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
22643319 ATAAAT
65 ATAAAT
*
22643325 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
22643384 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:22643297 original size:41 final size:41
Alignment explanation
Indices: 22643252--22643369 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
22643242 TGAAAGATAA
22643252 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
22643293 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
22643323 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
22643364 ATGTAG
1 ATGTAG
22643370 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:22643309 original size:71 final size:71
Alignment explanation
Indices: 22643220--22643383 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
22643210 GAGATGTATC
22643220 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
22643285 AGGACA
66 AGGACA
22643291 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
22643356 AGGACA
66 AGGACA
22643362 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
22643384 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:22646837 original size:21 final size:21
Alignment explanation
Indices: 22646813--22646863 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
22646803 AAACTTGTAT
22646813 ATCTATCAACAAGAATTTATA
1 ATCTATCAACAAGAATTTATA
22646834 ATCTATCAACAAGAATTTATA
1 ATCTATCAACAAGAATTTATA
22646855 ATCTATCAA
1 ATCTATCAA
22646864 GAAACTTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (21 bp):
ATCTATCAACAAGAATTTATA
Found at i:22660413 original size:17 final size:18
Alignment explanation
Indices: 22660372--22660417 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
22660362 ACACTAATGA
22660372 CTGAT-TTTTTCTACTTTT
1 CTGATCTTTTTC-ACTTTT
22660390 CTG--CTTTTTCACTTTT
1 CTGATCTTTTTCACTTTT
22660406 -TGATCTTTTTCA
1 CTGATCTTTTTCA
22660418 TACATCTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 2 0.08
16 6 0.24
17 14 0.56
18 3 0.12
ACGTcount: A:0.11, C:0.20, G:0.07, T:0.63
Consensus pattern (18 bp):
CTGATCTTTTTCACTTTT
Found at i:22663894 original size:27 final size:27
Alignment explanation
Indices: 22663840--22663919 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 27
22663830 TTAGAATACT
* *
22663840 TTAGTTTACTAAAATTACCGAAATACCC
1 TTAGTTT-GTAAAATTACTGAAATACCC
*
22663868 TTAGTTTGTAAAAATACTGAAATACCC
1 TTAGTTTGTAAAATTACTGAAATACCC
*
22663895 -TCGATTTGTAAAATTACTGAAATAC
1 TTAG-TTTGTAAAATTACTGAAATAC
22663920 TTTCGACTTG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.04
27 37 0.80
28 7 0.15
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (27 bp):
TTAGTTTGTAAAATTACTGAAATACCC
Found at i:22663925 original size:27 final size:27
Alignment explanation
Indices: 22663849--22663938 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
22663839 TTTAGTTTAC
* *
22663849 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACTGAAATA-CCTTCGATTTG
* *
22663876 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCTTCGATTTG
* *
22663903 TAAAATTACTGAAATACTTTCGACTTG
1 TAAAATTACTGAAATACCTTCGATTTG
22663930 TAAAATTAC
1 TAAAATTAC
22663939 CAAAGTACCG
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
26 4 0.07
27 50 0.93
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTCGATTTG
Found at i:22663974 original size:27 final size:27
Alignment explanation
Indices: 22663950--22664154 Score: 277
Period size: 27 Copynumber: 7.6 Consensus size: 27
22663940 AAAGTACCGC
*
22663950 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
22663977 CGATTTATATAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* *
22664003 CTGATTTACATAATTATCGTTTTACCCT
1 C-GATTTACAGAATTACCGTTTTACCCT
*
22664031 CGACTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
22664058 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
22664085 CGATTTATAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
22664112 TAATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
22664139 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
22664155 TAAAATACCC
Statistics
Matches: 157, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 155 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:22664180 original size:54 final size:54
Alignment explanation
Indices: 22663952--22664182 Score: 165
Period size: 54 Copynumber: 4.3 Consensus size: 54
22663942 AGTACCGCCG
* * * * ***** * *
22663952 ATTTACAGAATTATCGTTTTACCCTCGATTTATATAATTACCGTTTTACCCCTG
1 ATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTA
* * * * ***** **
22664006 ATTTACATAATTATCGTTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTA
* * * ***
22664060 ATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTA
1 ATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTA
* *
22664114 ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTA
1 ATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTA
* **
22664168 GTTTGTAAAATTACC
1 ATTTACAAAATTACC
22664183 AAAATACCCC
Statistics
Matches: 152, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 152 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (54 bp):
ATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTA
Found at i:22664191 original size:81 final size:81
Alignment explanation
Indices: 22664035--22664191 Score: 172
Period size: 81 Copynumber: 1.9 Consensus size: 81
22664025 TACCCTCGAC
* **** * *
22664035 TTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTA
1 TTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTAGATTTATAAAATTA
* ***
22664100 CTATTTTACCCTTAAT
66 CCAAAATACCCTTAAT
* * *
22664116 TTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTAG-TTTGTAAAATT
1 TTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCC-TAGATTTATAAAATT
22664180 ACCAAAATACCC
65 ACCAAAATACCC
22664192 CTAGTTTTTT
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
81 59 0.97
82 2 0.03
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.38
Consensus pattern (81 bp):
TTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTAGATTTATAAAATTA
CCAAAATACCCTTAAT
Found at i:22664221 original size:55 final size:54
Alignment explanation
Indices: 22664133--22664385 Score: 183
Period size: 55 Copynumber: 4.6 Consensus size: 54
22664123 ATTACTGTTT
* ** *
22664133 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * * *
22664187 TACCC-CTAGTTTTTTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-A-ATTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
* *
22664242 TACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATT-TACAAAGTTA-CAGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTTGTA-AAA-TTACCA-AAA
* * * * * * **
22664296 TACCCTTAACTTTCTAAACATTA-TAGAAATACCATTGGTTTATAAAATTACTGAAA
1 TACCCTCAA-TTTGTAAA-ATTACCA-AAATACCCTTAGTTTGTAAAATTACCAAAA
* * * * *
22664352 TACCCTTAGTTTGTAGATTTACCAAAACACCCTT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTT
22664386 GTAGGATGAA
Statistics
Matches: 157, Mismatches: 29, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
52 1 0.01
53 8 0.05
54 53 0.34
55 60 0.38
56 27 0.17
57 6 0.04
58 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.33
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
Found at i:22664352 original size:27 final size:27
Alignment explanation
Indices: 22664133--22664386 Score: 161
Period size: 27 Copynumber: 9.3 Consensus size: 27
22664123 ATTACTGTTT
* * * *
22664133 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* *
22664160 TACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
22664187 TACCCCTAGTTTTTTAAAATTACCAAAA
1 TA-CCCTTGGTTTATAAAATTACCAAAA
* * *
22664215 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*** *
22664242 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * * *
22664269 TACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTTGGTTTATAAAATTACCA-AAA
** * *
22664296 TACCCTTAACTTTCTAAACATTA-TAGAAA
1 TACCCTT-GGTTTATAAA-ATTACCA-AAA
* **
22664325 TACCATTGGTTTATAAAATTACTGAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * * *
22664352 TACCCTTAGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*
22664379 CACCCTTG
1 TACCCTTG
22664387 TAGGATGAAA
Statistics
Matches: 175, Mismatches: 47, Indels: 10
0.75 0.20 0.04
Matches are distributed among these distances:
26 2 0.01
27 122 0.70
28 37 0.21
29 14 0.08
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (27 bp):
TACCCTTGGTTTATAAAATTACCAAAA
Found at i:22664352 original size:56 final size:54
Alignment explanation
Indices: 22664147--22664386 Score: 214
Period size: 54 Copynumber: 4.4 Consensus size: 54
22664137 CTCGATTTAC
* * * * * *
22664147 AAAATTACTAAAATACCCTTAGTTTGTAAAATTACCA-AAATACCCCTAGTTTTTT
1 AAAATTACCAAAATACCCTTGGTTTATAAAATTA-CAGAAATACCCTTA-ATTTCT
* * * * *
22664202 AAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTGGTTTATAAAATTACAGAAATACCCTTAATTTCT
* * * *
22664256 AAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAAATACCCTTAACTTTCT
1 AAAATTACCAAAATACCCTTGGTTTATAAAATTACAGAAATACCCTTAA-TTTCT
* * * * *
22664311 AAACATTA-TAGAAATACCATTGGTTTATAAAATTACTGAAATACCCTTAGTTTGT
1 AAA-ATTACCA-AAATACCCTTGGTTTATAAAATTACAGAAATACCCTTAATTTCT
* * *
22664366 AGATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
22664387 TAGGATGAAA
Statistics
Matches: 149, Mismatches: 31, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
54 58 0.39
55 55 0.37
56 36 0.24
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.33
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTGGTTTATAAAATTACAGAAATACCCTTAATTTCT
Found at i:22665731 original size:9 final size:9
Alignment explanation
Indices: 22665719--22665775 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
22665709 TTTGATAAAC
22665719 ATGATATGT
1 ATGATATGT
*
22665728 ATGATATGCAC
1 ATGATATG--T
*
22665739 ATGACATGT
1 ATGATATGT
*
22665748 ATGATATGCAC
1 ATGATATG--T
22665759 ATGATATGT
1 ATGATATGT
22665768 ATGATATG
1 ATGATATG
22665776 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:22665742 original size:20 final size:20
Alignment explanation
Indices: 22665717--22665779 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
22665707 ATTTTGATAA
22665717 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
22665737 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
22665757 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
22665777 ACA
1 ACA
22665780 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:22665876 original size:23 final size:24
Alignment explanation
Indices: 22665834--22666002 Score: 195
Period size: 25 Copynumber: 7.0 Consensus size: 24
22665824 AGGAAGTGAA
22665834 AAAGGGCTTATG-CCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
22665856 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
*
22665879 AAAGGGCTTATGCCCTAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
22665904 AAAGGGCTTATGCCCTAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
* *
22665929 GAAGGGCTTATGCCCCAGTTGTGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
22665954 GAAGGGCTTATGCCCCAGTTACTA-
1 AAAGGGCTTATGCCCCAGTTA-TAT
*
22665978 AAAGAGG-TTAAGCCTCCAGTTATAT
1 AAAG-GGCTTATGCC-CCAGTTATAT
22666003 GATAAAGCAG
Statistics
Matches: 133, Mismatches: 7, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
22 12 0.09
23 31 0.23
24 11 0.08
25 78 0.59
26 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:22665912 original size:25 final size:25
Alignment explanation
Indices: 22665834--22665974 Score: 202
Period size: 25 Copynumber: 5.8 Consensus size: 25
22665824 AGGAAGTGAA
22665834 AAAGGGCTTATG-CCCAGTTAT--T
1 AAAGGGCTTATGCCCCAGTTATGAT
22665856 AAAGGGCTTATGCCCCAGTTAT--T
1 AAAGGGCTTATGCCCCAGTTATGAT
*
22665879 AAAGGGCTTATGCCCTAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
22665904 AAAGGGCTTATGCCCTAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
22665929 GAAGGGCTTATGCCCCAGTTGTGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
22665954 GAAGGGCTTATGCCCCAGTTA
1 AAAGGGCTTATGCCCCAGTTA
22665975 CTAAAAGAGG
Statistics
Matches: 111, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
22 12 0.11
23 31 0.28
25 68 0.61
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:22666230 original size:31 final size:31
Alignment explanation
Indices: 22666192--22666255 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
22666182 CGTTTACAGT
*
22666192 AAAGGCTTCAGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
**
22666223 AAAGGCTTCAGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
22666254 AA
1 AA
22666256 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:22667546 original size:23 final size:23
Alignment explanation
Indices: 22667520--22667566 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
22667510 TATACAAGGC
22667520 AGTAAATTTATAAGTTCAGATGA
1 AGTAAATTTATAAGTTCAGATGA
22667543 AGTAAATTTATAAGTTCAGATGA
1 AGTAAATTTATAAGTTCAGATGA
22667566 A
1 A
22667567 CTTAGAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.17, T:0.34
Consensus pattern (23 bp):
AGTAAATTTATAAGTTCAGATGA
Found at i:22670414 original size:14 final size:14
Alignment explanation
Indices: 22670397--22670437 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
22670387 AGAAAATTAA
22670397 AAGTAATAAATAAT
1 AAGTAATAAATAAT
22670411 AAGTAAT--A-AAT
1 AAGTAATAAATAAT
22670422 AAGTAATAAATAAT
1 AAGTAATAAATAAT
22670436 AA
1 AA
22670438 ATTAAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 10 0.42
12 1 0.04
13 1 0.04
14 12 0.50
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (14 bp):
AAGTAATAAATAAT
Found at i:22670424 original size:11 final size:11
Alignment explanation
Indices: 22670408--22670434 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
22670398 AGTAATAAAT
22670408 AATAAGTAATA
1 AATAAGTAATA
22670419 AATAAGTAATA
1 AATAAGTAATA
22670430 AATAA
1 AATAA
22670435 TAAATTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (11 bp):
AATAAGTAATA
Found at i:22670428 original size:18 final size:18
Alignment explanation
Indices: 22670401--22670439 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
22670391 AATTAAAAGT
*
22670401 AATAAATAATAAGTAATA
1 AATAAATAATAAATAATA
*
22670419 AATAAGTAATAAATAATA
1 AATAAATAATAAATAATA
22670437 AAT
1 AAT
22670440 TAAAATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (18 bp):
AATAAATAATAAATAATA
Found at i:22673542 original size:41 final size:41
Alignment explanation
Indices: 22673408--22673591 Score: 167
Period size: 40 Copynumber: 4.5 Consensus size: 41
22673398 GATTCGAATA
* * **
22673408 TATATATGGCACTTAGGGTTCGA-TTCGAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGAGACCGAGATAGCTTCGGC
* * ** * *
22673448 TATATGTGGCACTTAGTGTGTGATTCGGA-ATAGCTTCAGC
1 TATATATGGCACTTAGTGTGCGAGACCGAGATAGCTTCGGC
*
22673488 TATATATGACACTTAGTGTGCGAGACCGAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGAGACCGAGATAGCTTCGGC
* * ** * *
22673529 TATGTAAGGCACTTAGTGTGCGAGA-TTATAATAGCTTCGAC
1 TATATATGGCACTTAGTGTGCGAGACCGA-GATAGCTTCGGC
*
22673570 TATGTATTGGCACTTAGTGTGC
1 TATATA-TGGCACTTAGTGTGC
22673592 AAGATATCGA
Statistics
Matches: 118, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
40 53 0.45
41 51 0.43
42 14 0.12
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (41 bp):
TATATATGGCACTTAGTGTGCGAGACCGAGATAGCTTCGGC
Found at i:22674586 original size:25 final size:26
Alignment explanation
Indices: 22674558--22674613 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
22674548 TAAAAATGTT
22674558 CTTGAACAAAAA-ACTTCAACACTAA
1 CTTGAACAAAAACACTTCAACACTAA
* *
22674583 CTTGGCATAAAAACACTTCAACACTAA
1 CTT-GAACAAAAACACTTCAACACTAA
22674610 CTTG
1 CTTG
22674614 GCATCATTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 3 0.11
26 8 0.30
27 16 0.59
ACGTcount: A:0.45, C:0.25, G:0.07, T:0.23
Consensus pattern (26 bp):
CTTGAACAAAAACACTTCAACACTAA
Found at i:22674602 original size:27 final size:26
Alignment explanation
Indices: 22674565--22674617 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 26
22674555 GTTCTTGAAC
22674565 AAAAAACTTCAACACTAACTTGGCAT
1 AAAAAACTTCAACACTAACTTGGCAT
22674591 AAAAACACTTCAACACTAACTTGGCAT
1 AAAAA-ACTTCAACACTAACTTGGCAT
22674618 CATTAGTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.45, C:0.25, G:0.08, T:0.23
Consensus pattern (26 bp):
AAAAAACTTCAACACTAACTTGGCAT
Found at i:22691899 original size:16 final size:16
Alignment explanation
Indices: 22691878--22691913 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
22691868 TAGTGACATA
22691878 ACATAAAAGCCTAGTG
1 ACATAAAAGCCTAGTG
*
22691894 ACATAAAAGCTTAGTG
1 ACATAAAAGCCTAGTG
22691910 ACAT
1 ACAT
22691914 GTCACTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (16 bp):
ACATAAAAGCCTAGTG
Found at i:22692920 original size:49 final size:49
Alignment explanation
Indices: 22692857--22692950 Score: 161
Period size: 49 Copynumber: 1.9 Consensus size: 49
22692847 TTAGTCCTTC
* * *
22692857 TAGGCAAATTGAGCACTCAATTGATAAAATTTCTTAACGAAATTTCTTT
1 TAGGCAAATTGAGCACTCAATCGATAAAACTTCTTAACAAAATTTCTTT
22692906 TAGGCAAATTGAGCACTCAATCGATAAAACTTCTTAACAAAATTT
1 TAGGCAAATTGAGCACTCAATCGATAAAACTTCTTAACAAAATTT
22692951 TCACACAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (49 bp):
TAGGCAAATTGAGCACTCAATCGATAAAACTTCTTAACAAAATTTCTTT
Found at i:22696471 original size:41 final size:41
Alignment explanation
Indices: 22696425--22696535 Score: 141
Period size: 41 Copynumber: 2.7 Consensus size: 41
22696415 CTTAATTATT
22696425 CCCTGAATTGCACATACGTGCCCCTATTTGTACTTCGATAC
1 CCCTGAATTGCACATACGTGCCCCTATTTGTACTTCGATAC
* * * * *
22696466 CCCTGAATTGCATATTCGTGCTCCTAGTTGTACTTCGGTAC
1 CCCTGAATTGCACATACGTGCCCCTATTTGTACTTCGATAC
* * * *
22696507 CCTTAAATAGCACCTACGTGCCCCTATTT
1 CCCTGAATTGCACATACGTGCCCCTATTT
22696536 ACACTCTGGT
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.33
Consensus pattern (41 bp):
CCCTGAATTGCACATACGTGCCCCTATTTGTACTTCGATAC
Found at i:22705476 original size:29 final size:29
Alignment explanation
Indices: 22705386--22705574 Score: 238
Period size: 29 Copynumber: 6.5 Consensus size: 29
22705376 ACTCGATTTC
* * **
22705386 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
22705415 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
22705443 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
22705473 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
22705502 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
22705531 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
22705560 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
22705575 ATCTCGTCAC
Statistics
Matches: 140, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
28 2 0.01
29 137 0.98
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:22714219 original size:40 final size:40
Alignment explanation
Indices: 22714174--22714341 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
22714164 CGGAATACAA
22714174 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
22714214 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
22714254 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
22714294 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
22714334 CCGGATAT
1 CCGGATAT
22714342 CATTCAATTG
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:22717911 original size:134 final size:137
Alignment explanation
Indices: 22717668--22717937 Score: 483
Period size: 134 Copynumber: 2.0 Consensus size: 137
22717658 GTTTAGGCCC
* *
22717668 TAAATCAGGCTGTCACAACTCTCCCCCCTTTAGGGATTTTTTGTCCCCGAAAATTTTACCAGTAA
1 TAAATCAGGCTGTCACAACTCTCCCCCCTTTAGGGATTTTTCGTCCCCGAAAATCTTACCAGTAA
*
22717733 AGAGATTTGAGTACTGTTTCCTCATGGCTTCCTTCGGTTCCCATGTAGCCTCTTCTACTCCGTGT
66 AGAGATTTGAGTACTGTTTCCTCATGGCTTCCTTCGGTTCCCATGTAGCCTCTTCTACTCCATGT
22717798 CTATGCT
131 CTATGCT
*
22717805 TAAATCATGCTGTCACAACTCT-CCCCCTTTAGGGA-TTTTCGT-CCCGAAAATCTTACCAGTAA
1 TAAATCAGGCTGTCACAACTCTCCCCCCTTTAGGGATTTTTCGTCCCCGAAAATCTTACCAGTAA
22717867 AGAGATTTGAGTACTGTTTCCTCATGGCTTCCTTCGGTTCCCATGTAGCCTCTTCTACTCCATGT
66 AGAGATTTGAGTACTGTTTCCTCATGGCTTCCTTCGGTTCCCATGTAGCCTCTTCTACTCCATGT
22717932 CTATGC
131 CTATGC
22717938 CACAATACTT
Statistics
Matches: 129, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
134 89 0.69
135 6 0.05
136 13 0.10
137 21 0.16
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.35
Consensus pattern (137 bp):
TAAATCAGGCTGTCACAACTCTCCCCCCTTTAGGGATTTTTCGTCCCCGAAAATCTTACCAGTAA
AGAGATTTGAGTACTGTTTCCTCATGGCTTCCTTCGGTTCCCATGTAGCCTCTTCTACTCCATGT
CTATGCT
Found at i:22720607 original size:40 final size:39
Alignment explanation
Indices: 22720480--22720609 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 39
22720470 ATGCTGGAAA
*
22720480 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
22720520 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
22720560 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
22720600 TTATATCCGG
1 TTATATCCGG
22720610 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:22725505 original size:27 final size:27
Alignment explanation
Indices: 22725457--22725567 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
22725447 AGCATTGCTG
* * * *
22725457 CCAGAATAGATGA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
22725483 CTAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
22725510 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * *
22725537 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
22725564 CCAG
1 CCAG
22725568 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 12 0.16
27 60 0.82
28 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:22727009 original size:24 final size:24
Alignment explanation
Indices: 22726974--22727074 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
22726964 CCAACACTGT
* * *
22726974 TCTCCCTAATCAGCTCTTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
*
22726998 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
22727022 TCTCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
*
22727046 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
22727070 TCTCC
1 TCTCC
22727075 TGACAGACTT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.24, C:0.41, G:0.02, T:0.34
Consensus pattern (24 bp):
TCTCCCTTATCAACTCCTAAATCC
Found at i:22733324 original size:27 final size:27
Alignment explanation
Indices: 22733289--22733386 Score: 119
Period size: 27 Copynumber: 3.6 Consensus size: 27
22733279 AAACAGATGA
* *
22733289 TGTGACAGAGTCACCAGAATAGATAAT
1 TGTGGCAGAGCCACCAGAATAGATAAT
*
22733316 TGTGGCAGAGCCACCAGAACAGAT-AT
1 TGTGGCAGAGCCACCAGAATAGATAAT
*
22733342 ATGTGGCAGAGCCACCAG-ATCAGATAAA
1 -TGTGGCAGAGCCACCAGAAT-AGATAAT
*
22733370 TGTGGCATAGCCACCAG
1 TGTGGCAGAGCCACCAG
22733387 GACGCTTCCT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
26 3 0.05
27 58 0.94
28 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (27 bp):
TGTGGCAGAGCCACCAGAATAGATAAT
Found at i:22733367 original size:54 final size:53
Alignment explanation
Indices: 22733280--22733386 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 53
22733270 TTGCTGTCAA
* *
22733280 AACAGATGATGTGACAGAGTCACCAGAATAGATAATTGTGGCAGAGCCACCAG
1 AACAGATGATGTGACAGAGCCACCAGAATAGATAAATGTGGCAGAGCCACCAG
* * *
22733333 AACAGATATATGTGGCAGAGCCACCAG-ATCAGATAAATGTGGCATAGCCACCAG
1 AACAGAT-GATGTGACAGAGCCACCAGAAT-AGATAAATGTGGCAGAGCCACCAG
22733387 GACGCTTCCT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
53 9 0.19
54 38 0.81
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (53 bp):
AACAGATGATGTGACAGAGCCACCAGAATAGATAAATGTGGCAGAGCCACCAG
Found at i:22734806 original size:24 final size:24
Alignment explanation
Indices: 22734792--22734879 Score: 131
Period size: 24 Copynumber: 3.7 Consensus size: 24
22734782 CCCTAATTAG
*
22734792 CTCCTAAATCCTCTCCCTTATCAG
1 CTCCTAAATCCTCTCCCTTATCAA
* * *
22734816 CTCTTAAATCTTATCCCTTATCAA
1 CTCCTAAATCCTCTCCCTTATCAA
*
22734840 CTCCTAAATCCTGTCCCTTATCAA
1 CTCCTAAATCCTCTCCCTTATCAA
22734864 CTCCTAAATCCTCTCC
1 CTCCTAAATCCTCTCC
22734880 TGACAGACTT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.24, C:0.39, G:0.02, T:0.35
Consensus pattern (24 bp):
CTCCTAAATCCTCTCCCTTATCAA
Found at i:22736926 original size:49 final size:49
Alignment explanation
Indices: 22736870--22737114 Score: 303
Period size: 49 Copynumber: 4.9 Consensus size: 49
22736860 TAGCCAAAGC
* * * *
22736870 TATCTGGTACGCATAGTAGCCTGCACTTAGTATTACATATGTGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
22736919 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * *
22736969 CATCTGATACACATAGTAGCCTGCACGTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * *
22737020 TAT-TGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
22737069 AATCCGGTACACATAGTAGCCTGCACTTAGTAATACACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
22737115 TCACAATAGA
Statistics
Matches: 166, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
49 81 0.49
50 48 0.29
51 37 0.22
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:22759907 original size:23 final size:21
Alignment explanation
Indices: 22759867--22759909 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
22759857 TAAATTTTTA
*
22759867 AAATTTTTAATTTTTTTAATG
1 AAATTTTTAATTTATTTAATG
22759888 AAATTTTAATAATTTATTTAAT
1 AAATTTT--TAATTTATTTAAT
22759910 TAAAATGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
23 12 0.63
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
AAATTTTTAATTTATTTAATG
Found at i:22766550 original size:53 final size:53
Alignment explanation
Indices: 22766470--22766578 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
22766460 TCCCAACTGC
22766470 CTCGAAAATCGATAACACAACTCCTCAACATATCCTCCAGTATCTGAATCATA
1 CTCGAAAATCGATAACACAACTCCTCAACATATCCTCCAGTATCTGAATCATA
22766523 CTCGAAAATCGATAACACAACTCCTCAACATATCCTCCAGTATCTGAATCATA
1 CTCGAAAATCGATAACACAACTCCTCAACATATCCTCCAGTATCTGAATCATA
22766576 CTC
1 CTC
22766579 TCAGACTGAC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.37, C:0.31, G:0.07, T:0.25
Consensus pattern (53 bp):
CTCGAAAATCGATAACACAACTCCTCAACATATCCTCCAGTATCTGAATCATA
Found at i:22770382 original size:50 final size:50
Alignment explanation
Indices: 22770321--22770585 Score: 240
Period size: 48 Copynumber: 5.3 Consensus size: 50
22770311 CATGTCCTGG
*
22770321 ACATGGTCTTACACTGACTCTCATACATCAGTGTCGATGCCATGTCCCAA
1 ACATGGTCTTACACTGACTCTCATACATCAGTGCCGATGCCATGTCCCAA
* * *
22770371 ACATGGTCTTACACT-AGCTCTCACACATCAGTACCAATGCCATGTCCCAA
1 ACATGGTCTTACACTGA-CTCTCATACATCAGTGCCGATGCCATGTCCCAA
* * * * * *
22770421 ATATGGTCTGACACTGACTCACCTAGCAT-ATTGAGGCCGATGCCATGTTCCAA
1 ACATGGTCTTACACTGACTCTCATA-CATCA--G-TGCCGATGCCATGTCCCAA
* ** * *
22770474 ACATGGTCTTACACTGGCTAGCATA-TTGAG-GCCGATGCCATGTCCCAA
1 ACATGGTCTTACACTGACTCTCATACATCAGTGCCGATGCCATGTCCCAA
* * *
22770522 ACATGGTCTTACACT-AGCTCTCATA-A-CAATGTCGATGTCATG-CTCCAA
1 ACATGGTCTTACACTGA-CTCTCATACATCAGTGCCGATGCCATGTC-CCAA
*
22770570 ACAAGGTCTTACACTG
1 ACATGGTCTTACACTG
22770586 GCTCACACAT
Statistics
Matches: 174, Mismatches: 30, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
47 2 0.01
48 66 0.38
49 1 0.01
50 64 0.37
51 5 0.03
52 2 0.01
53 34 0.20
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (50 bp):
ACATGGTCTTACACTGACTCTCATACATCAGTGCCGATGCCATGTCCCAA
Found at i:22777091 original size:48 final size:48
Alignment explanation
Indices: 22776917--22777296 Score: 429
Period size: 48 Copynumber: 7.8 Consensus size: 48
22776907 GGGTAAAATA
* ** * **
22776917 CCGATGCCATGTCCCAAACATGGTCTTACACTAACTCTCATACATCGGTG
1 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA-A-CAATG
* * * *
22776967 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATACATCAGTG
1 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA-A-CAATG
* * *
22777017 CCAATGCCATG-TCCTAGACATGGTCTTACACTGGCTCACATAACAAAG
1 CCGATGCCATGTTCC-AAACATGGTCTTACACTGGCTCACATAACAATG
** * *
22777065 TTGATGCCATGTTCCAAACATTGTCTTACACTGGCTCAGATAACAATG
1 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAATG
* *
22777113 CCGATACCATATTCCAAACATGGTCTTACACTGGCTCACATAACAATG
1 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAATG
** *** *
22777161 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTTGCATATTGAGG
1 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAATG
* * * ** *
22777209 CCGATGCCATGTCCCAGACATAGTCTTACACTAACTCTCATAACAATG
1 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAATG
22777257 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACA
1 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACA
22777297 CATAACCCTA
Statistics
Matches: 281, Mismatches: 47, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
48 193 0.69
49 6 0.02
50 82 0.29
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.26
Consensus pattern (48 bp):
CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAACAATG
Found at i:22777196 original size:144 final size:146
Alignment explanation
Indices: 22776917--22777296 Score: 478
Period size: 144 Copynumber: 2.6 Consensus size: 146
22776907 GGGTAAAATA
* ** *
22776917 CCGATGCCATGTCCCAAACATGGTCTTACACTAACTCTCATACATCGGTGCCGATGCCATGTCCC
1 CCGATGCCATGTCCCAAACATAGTCTTACACTAACTCTCATA-A-CAATGCCGATGCCATGTTCC
* * * *
22776982 AAACATGGTCTTACACTAGCTCTCATACATCAGTGCCAATGCCATGTCCTAGACATGGTCTTACA
64 AAACATGGTCTTACACTGGCTCACATACATCAATGCCAATGCCATGTCCTAAACATGGTCTTACA
22777047 CTGGCTCACATAACAAAG
129 CTGGCTCACATAACAAAG
** * * ** ** * *
22777065 TTGATGCCATGTTCCAAACATTGTCTTACACTGGCTCAGATAACAATGCCGATACCATATTCCAA
1 CCGATGCCATGTCCCAAACATAGTCTTACACTAACTCTCATAACAATGCCGATGCCATGTTCCAA
*
22777130 ACATGGTCTTACACTGGCTCACATA-A-CAATGCCGATGCCATGTTCC-AAACATGGTCTTACAC
66 ACATGGTCTTACACTGGCTCACATACATCAATGCCAATGCCATG-TCCTAAACATGGTCTTACAC
** *** *
22777192 TGGCTTGCATATTGAGG
130 TGGCTCACATAACAAAG
*
22777209 CCGATGCCATGTCCCAGACATAGTCTTACACTAACTCTCATAACAATGCCGATGCCATGTTCCAA
1 CCGATGCCATGTCCCAAACATAGTCTTACACTAACTCTCATAACAATGCCGATGCCATGTTCCAA
22777274 ACATGGTCTTACACTGGCTCACA
66 ACATGGTCTTACACTGGCTCACA
22777297 CATAACCCTA
Statistics
Matches: 196, Mismatches: 35, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
144 117 0.60
145 4 0.02
146 40 0.20
147 1 0.01
148 34 0.17
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.26
Consensus pattern (146 bp):
CCGATGCCATGTCCCAAACATAGTCTTACACTAACTCTCATAACAATGCCGATGCCATGTTCCAA
ACATGGTCTTACACTGGCTCACATACATCAATGCCAATGCCATGTCCTAAACATGGTCTTACACT
GGCTCACATAACAAAG
Found at i:22777541 original size:28 final size:28
Alignment explanation
Indices: 22777509--22777567 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
22777499 GCATAACGAA
22777509 CATAGTACCACAAACATATAATTCAACG
1 CATAGTACCACAAACATATAATTCAACG
22777537 CATAGTACCACAAACATATAATTCAACG
1 CATAGTACCACAAACATATAATTCAACG
22777565 CAT
1 CAT
22777568 CTGAATTATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.22
Consensus pattern (28 bp):
CATAGTACCACAAACATATAATTCAACG
Found at i:22784496 original size:23 final size:23
Alignment explanation
Indices: 22784452--22784567 Score: 135
Period size: 23 Copynumber: 4.9 Consensus size: 23
22784442 AAACTCCTCC
*
22784452 TGAGCTGATGAACAGTAAGCTCTAA
1 TGAGCTGA--AACGGTAAGCTCTAA
22784477 TGAGCTGAAACGGTAAGCTCTAA
1 TGAGCTGAAACGGTAAGCTCTAA
22784500 TGAGCTGAAACGGTAAGCTC-ATA
1 TGAGCTGAAACGGTAAGCTCTA-A
* * *
22784523 CGAGCTAAAACGGTAAGCTCCAA
1 TGAGCTGAAACGGTAAGCTCTAA
* *
22784546 TGAGCTAAAAACAGTAAGCTCT
1 TGAGCT-GAAACGGTAAGCTCT
22784568 TACAAGCTGA
Statistics
Matches: 82, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
22 1 0.01
23 59 0.72
24 14 0.17
25 8 0.10
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (23 bp):
TGAGCTGAAACGGTAAGCTCTAA
Found at i:22784575 original size:24 final size:23
Alignment explanation
Indices: 22784478--22784594 Score: 94
Period size: 23 Copynumber: 4.9 Consensus size: 23
22784468 AAGCTCTAAT
* *
22784478 GAGCTGAAACGGTAAGCTC-TAAT
1 GAGCTAAAACGGTAAGCTCAT-AC
*
22784501 GAGCTGAAACGGTAAGCTCATAC
1 GAGCTAAAACGGTAAGCTCATAC
*
22784524 GAGCTAAAACGGTAAGCTCCA-AT
1 GAGCTAAAACGGTAAGCT-CATAC
* *
22784547 GAGCTAAAAACAGTAAGCTCTTAC
1 GAGCT-AAAACGGTAAGCTCATAC
* *
22784571 AAGCTGATATATCGGTAAGCTCAT
1 GAGCT-A-A-AACGGTAAGCTCAT
22784595 TCAAGCTATG
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
23 44 0.57
24 21 0.27
25 1 0.01
26 11 0.14
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (23 bp):
GAGCTAAAACGGTAAGCTCATAC
Found at i:22787398 original size:13 final size:13
Alignment explanation
Indices: 22787380--22787408 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
22787370 GGTTGTTTAT
22787380 TAAACTAATTAAC
1 TAAACTAATTAAC
22787393 TAAACTAATTAAC
1 TAAACTAATTAAC
22787406 TAA
1 TAA
22787409 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:22790332 original size:12 final size:12
Alignment explanation
Indices: 22790317--22790350 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
22790307 TAATAAAATC
*
22790317 AAAATAAAAAGA
1 AAAAGAAAAAGA
22790329 AAAAGAAAAAGA
1 AAAAGAAAAAGA
22790341 AAAAGAAAAA
1 AAAAGAAAAA
22790351 TAGAGATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (12 bp):
AAAAGAAAAAGA
Found at i:22797544 original size:47 final size:47
Alignment explanation
Indices: 22797473--22797787 Score: 450
Period size: 47 Copynumber: 6.7 Consensus size: 47
22797463 CCCTTTGGGA
* * * * * *
22797473 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
22797520 CCTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
22797567 CTTATCACATATATATACTTTCACATTCAGCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
22797614 CTTATCACATATATACACTTTCACATACATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22797661 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
22797710 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
22797757 CTTATCTCATATATACACATTCGCATTCATC
1 CTTATCACATATATACACTTTCACATTCATC
22797788 GCATAAAATC
Statistics
Matches: 246, Mismatches: 20, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
47 200 0.81
49 46 0.19
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:22803986 original size:145 final size:148
Alignment explanation
Indices: 22803679--22804017 Score: 454
Period size: 145 Copynumber: 2.3 Consensus size: 148
22803669 AAAATGACTA
22803679 TTTTATTTTTAAAAATCTAAACTTTCTCTTTTTTAAAAAAAAAAAACAATCACTATTTTTCTTAA
1 TTTTA-TTTTAAAAATCTAAACTTTCTC--TTTT-----AAAAAAACAATCACTATTTTTCTT-A
* * * *
22803744 AAACTAAAGTTTTATTTAGAAATAGTTGAAAAAGATCAAAATTTTGTTTTAAAAATTTTAAAATT
57 AAACCAAAGCTCTATTTAGAAATAGTTGAAAAAGATCAAAACTTTGTTTTAAAAATTTTAAAATT
22803809 TTCCTTTAAAATGACTAAAAAACATAT
122 TTCCTTTAAAATGACTAAAAAACATAT
22803836 TTTTATTTTAAAAATCTAAACTTTCTCTTTTAAAAAAA-AATCACTATTTTTCTT-AAACCAAAG
1 TTTTATTTTAAAAATCTAAACTTTCTCTTTTAAAAAAACAATCACTATTTTTCTTAAAACCAAAG
* * * * *
22803899 CTCTGTTTCA-AAATAGTTTAAAAATATCAAAACTTTGTTTTATAAA-TTTAAGATTTTCCTTTA
66 CTCTATTT-AGAAATAGTTGAAAAAGATCAAAACTTTGTTTTAAAAATTTTAAAATTTTCCTTTA
*
22803962 ATATGACTAAAAAACATAT
130 AAATGACTAAAAAACATAT
*
22803981 TTTTATTTTAAAAATATAAACTTTCTC-TTTAAAAAAA
1 TTTTATTTTAAAAATCTAAACTTTCTCTTTTAAAAAAA
22804018 TGAAAACTTT
Statistics
Matches: 170, Mismatches: 11, Indels: 15
0.87 0.06 0.08
Matches are distributed among these distances:
144 10 0.06
145 60 0.35
146 45 0.26
147 1 0.01
148 16 0.09
149 7 0.04
154 4 0.02
156 22 0.13
157 5 0.03
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (148 bp):
TTTTATTTTAAAAATCTAAACTTTCTCTTTTAAAAAAACAATCACTATTTTTCTTAAAACCAAAG
CTCTATTTAGAAATAGTTGAAAAAGATCAAAACTTTGTTTTAAAAATTTTAAAATTTTCCTTTAA
AATGACTAAAAAACATAT
Found at i:22804367 original size:3 final size:3
Alignment explanation
Indices: 22804359--22804419 Score: 104
Period size: 3 Copynumber: 20.3 Consensus size: 3
22804349 TCATAACATT
*
22804359 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
22804407 TAA TGA TAA TAA T
1 TAA TAA TAA TAA T
22804420 CATTTGGGCC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:22805557 original size:16 final size:16
Alignment explanation
Indices: 22805536--22805570 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
22805526 TGGAGGGGTT
22805536 GAGGTTATTTTCATAC
1 GAGGTTATTTTCATAC
22805552 GAGGTTATTTTCATAC
1 GAGGTTATTTTCATAC
22805568 GAG
1 GAG
22805571 AATGCTAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (16 bp):
GAGGTTATTTTCATAC
Found at i:22809941 original size:19 final size:18
Alignment explanation
Indices: 22809889--22809940 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
22809879 CTAAACCAAG
*
22809889 AACTTTAAAAAGTTTTAC
1 AACTTTAAAAAATTTTAC
22809907 AACTTTAAAAAATTTTAC
1 AACTTTAAAAAATTTTAC
*
22809925 AAAC-TTAGAAAATTTT
1 -AACTTTAAAAAATTTT
22809941 TCCACTAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 28 0.90
19 3 0.10
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (18 bp):
AACTTTAAAAAATTTTAC
Found at i:22811369 original size:41 final size:41
Alignment explanation
Indices: 22811322--22811419 Score: 144
Period size: 41 Copynumber: 2.4 Consensus size: 41
22811312 ATGGGCTTGC
* **
22811322 TCACACAAGCTGTCAGTCAAGACGTAGCTACGTGGTGCTGGT
1 TCACACAAGCTGTCAATCAAGACGTAGCTACACGGTGCT-GT
*
22811364 T-ACACAAGCTGTCAATCAAGACGTAGCTATACGGTGCTGT
1 TCACACAAGCTGTCAATCAAGACGTAGCTACACGGTGCTGT
22811404 TCACACAAGCTGTCAA
1 TCACACAAGCTGTCAA
22811420 GTGTCTGCAA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
40 3 0.06
41 47 0.92
42 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (41 bp):
TCACACAAGCTGTCAATCAAGACGTAGCTACACGGTGCTGT
Found at i:22814859 original size:43 final size:41
Alignment explanation
Indices: 22814796--22814960 Score: 125
Period size: 45 Copynumber: 3.9 Consensus size: 41
22814786 CACATATATC
* * * * **
22814796 ATACAATGCCAACGTTCCAGATATGGTCTTACATGATATCTC
1 ATACGATGCCAATGTCCCAGACATGGTCTTACATGA-ATCAA
* *
22814838 ATATCGATG-CAATTGTCCCAGACAGGGTCTTACACGAATCAA
1 ATA-CGATGCCAA-TGTCCCAGACATGGTCTTACATGAATCAA
* * *
22814880 ATACGATGCCGATGTCTCAGACATGGTCTTACATGTAACCACA
1 ATACGATGCCAATGTCCCAGACATGGTCTTACATG-AATCA-A
* * * *
22814923 TATATCGATGCCAACGTCCCAAACGTGGTTTTACATGA
1 -ATA-CGATGCCAATGTCCCAGACATGGTCTTACATGA
22814961 GAACACATAG
Statistics
Matches: 97, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
41 25 0.26
42 18 0.19
43 24 0.25
44 4 0.04
45 26 0.27
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (41 bp):
ATACGATGCCAATGTCCCAGACATGGTCTTACATGAATCAA
Found at i:22815839 original size:36 final size:36
Alignment explanation
Indices: 22815792--22815862 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
22815782 GGAGTACATT
*
22815792 AGTTAGAATAGATTCGAAAGGCTGTTGAACTGAATC
1 AGTTAGAATAGATTCGAAAGGCTGCTGAACTGAATC
22815828 AGTTAGAATAGATTCGAAAGGCTGCTGAACTGAAT
1 AGTTAGAATAGATTCGAAAGGCTGCTGAACTGAAT
22815863 AGAGTTTACT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (36 bp):
AGTTAGAATAGATTCGAAAGGCTGCTGAACTGAATC
Found at i:22817767 original size:11 final size:11
Alignment explanation
Indices: 22817751--22817777 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
22817741 AAATAATATT
22817751 TTATTATTTTA
1 TTATTATTTTA
22817762 TTATTATTTTA
1 TTATTATTTTA
22817773 TTATT
1 TTATT
22817778 TTATTTAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATTATTTTA
Done.