Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 145 of 427
Found at i:39433176 original size:19 final size:20
Alignment explanation
Indices: 39433152--39433193 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
39433142 GCTTTGTCGG
39433152 ATATGTTTCCAATGT-ATAT
1 ATATGTTTCCAATGTCATAT
39433171 ATATGTTTCCAATGTCATAT
1 ATATGTTTCCAATGTCATAT
39433191 ATA
1 ATA
39433194 CATATATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (20 bp):
ATATGTTTCCAATGTCATAT
Found at i:39433976 original size:16 final size:17
Alignment explanation
Indices: 39433945--39433978 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
39433935 CATTCTTTGC
*
39433945 TCATACATTCCATCATT
1 TCATACAATCCATCATT
39433962 TCATACAAT-CATCATT
1 TCATACAATCCATCATT
39433978 T
1 T
39433979 AAATTCAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.41
Consensus pattern (17 bp):
TCATACAATCCATCATT
Found at i:39440000 original size:2 final size:2
Alignment explanation
Indices: 39439993--39440019 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
39439983 GTATCCCATC
39439993 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
39440020 TGATCACAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:39455840 original size:34 final size:33
Alignment explanation
Indices: 39455774--39455845 Score: 92
Period size: 34 Copynumber: 2.2 Consensus size: 33
39455764 TGTTATCGAC
* * *
39455774 ACTGAAATGGGCTAAGGCCCACACTGATACTGA
1 ACTGTAATGGGCTAAGGCCCACACTAAAACTGA
39455807 TACTGTAATGGGCTAAGGCCCTA-ACTAAAACTGA
1 -ACTGTAATGGGCTAAGGCCC-ACACTAAAACTGA
39455841 ACTGT
1 ACTGT
39455846 TACTGATACG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 5 0.15
34 28 0.82
35 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (33 bp):
ACTGTAATGGGCTAAGGCCCACACTAAAACTGA
Found at i:39458029 original size:37 final size:37
Alignment explanation
Indices: 39457979--39458069 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
39457969 TTATTACAAA
39457979 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
39458016 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
39458053 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
39458070 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:39458164 original size:48 final size:48
Alignment explanation
Indices: 39458109--39458356 Score: 442
Period size: 48 Copynumber: 5.2 Consensus size: 48
39458099 TGTTACAACA
*
39458109 TTCACATTAGCCATTCGGCTTTACCACACATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
39458157 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
39458205 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
39458253 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* * *
39458301 TTCACATTAGCCATTAGGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
39458349 TTCACATT
1 TTCACATT
39458357 CATCACATCG
Statistics
Matches: 192, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 192 1.00
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
Found at i:39458456 original size:47 final size:47
Alignment explanation
Indices: 39458348--39458497 Score: 255
Period size: 47 Copynumber: 3.1 Consensus size: 47
39458338 CACACATATG
*
39458348 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA-CT-C
*
39458397 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
*
39458444 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
39458491 TTTCACA
1 TTTCACA
39458498 AATTTTAATA
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
47 53 0.55
48 1 0.01
49 43 0.44
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.35
Consensus pattern (47 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
Found at i:39472222 original size:11 final size:10
Alignment explanation
Indices: 39472206--39472231 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
39472196 TTCCAAAGAC
39472206 AAAAAAAAAT
1 AAAAAAAAAT
39472216 AAAAAAAAAT
1 AAAAAAAAAT
39472226 AAAAAA
1 AAAAAA
39472232 CTAAATCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:39472699 original size:49 final size:48
Alignment explanation
Indices: 39472560--39472704 Score: 146
Period size: 49 Copynumber: 3.0 Consensus size: 48
39472550 ATCACATTGC
* * *
39472560 AACTCAAACTCCCAGTTCACAATTGTTATACGATCACGGGTTGAAGTAT
1 AACTCAAGCTCCCAGTTGACAATGGTTATACG-TCACGGGTTGAAGTAT
*** * * *
39472609 AACTTGGGCTCCTAGTTGACAATGGCTATGCAGTCACGGGTTGAAGTAT
1 AACTCAAGCTCCCAGTTGACAATGGTTATAC-GTCACGGGTTGAAGTAT
* * * *
39472658 AACTCAAGCCCCCAGTTGGCAATGGTTATACTGTCATGGGTTCAAGT
1 AACTCAAGCTCCCAGTTGACAATGGTTATAC-GTCACGGGTTGAAGT
39472705 TTCATGATAC
Statistics
Matches: 75, Mismatches: 20, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
49 74 0.99
50 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (48 bp):
AACTCAAGCTCCCAGTTGACAATGGTTATACGTCACGGGTTGAAGTAT
Found at i:39478036 original size:43 final size:42
Alignment explanation
Indices: 39477938--39478037 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
39477928 GATTTGAGAT
* **
39477938 TTACATGTAAGACCATGTCTGGGACATCGACATCATATCTGA
1 TTACATGTAAGACCATATCTGGGACAGAGACATCATATCTGA
* * * *
39477980 TTTCGTGTAAGACCCTATCTGGGACAGAGGCATCGATA-CTGAA
1 TTACATGTAAGACCATATCTGGGACAGAGACATC-ATATCTG-A
39478023 TTACATGTAAGACCA
1 TTACATGTAAGACCA
39478038 CGTTTGGGAT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
42 30 0.65
43 16 0.35
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (42 bp):
TTACATGTAAGACCATATCTGGGACAGAGACATCATATCTGA
Found at i:39485245 original size:24 final size:22
Alignment explanation
Indices: 39485214--39485258 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
39485204 TAAAGCCTAT
*
39485214 AAATACACCCTAGGGGAGGAAGA
1 AAATACA-CATAGGGGAGGAAGA
*
39485237 AAATGACACATAGGGGGGGAAG
1 AAAT-ACACATAGGGGAGGAAG
39485259 CAGGGAACTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.42, C:0.13, G:0.36, T:0.09
Consensus pattern (22 bp):
AAATACACATAGGGGAGGAAGA
Found at i:39493222 original size:13 final size:13
Alignment explanation
Indices: 39493204--39493229 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39493194 GAAGCAATCA
39493204 CACACGGGCGTGT
1 CACACGGGCGTGT
39493217 CACACGGGCGTGT
1 CACACGGGCGTGT
39493230 TCCTGCGGAG
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:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:39499434 original size:28 final size:26
Alignment explanation
Indices: 39499389--39499441 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
39499379 GGCTTCCTTC
*
39499389 TTCATCTTGTTGCCGAATCCCTTTCT
1 TTCATCTTGTTGCCGAATCACTTTCT
*
39499415 TTCATTCTTGCTTGCTGAATCACTTTC
1 TTCA-TCTTG-TTGCCGAATCACTTTC
39499442 GGTTTCTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 5 0.22
28 14 0.61
ACGTcount: A:0.13, C:0.28, G:0.11, T:0.47
Consensus pattern (26 bp):
TTCATCTTGTTGCCGAATCACTTTCT
Found at i:39502317 original size:49 final size:49
Alignment explanation
Indices: 39502209--39502433 Score: 230
Period size: 49 Copynumber: 4.6 Consensus size: 49
39502199 TGATATACGT
* * * *
39502209 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCAAGATATGCA-A
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATG-AGA
* *
39502257 GCTAGTGTAAGACCTGTCTGGGACATGGGATCGACAC-CGATAGATGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATATATGAGA
* *
39502306 GCTAGTGTAAGACTTGTCTGGGACATGGCATC-AGCCTCGATATATGAAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGA-CCTCGATATATGAGA
* * *
39502355 G-TCAGTGTAAGACCTGTCTGGGACATGGCATCGA-CT-TAGATATGTGA
1 GCT-AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAGA
* **
39502402 GCTAGTGTAAGACCATGTTTGAAACATGGCAT
1 GCTAGTGTAAGACC-TGTCTGGGACATGGCAT
39502434 TGGCATCGCA
Statistics
Matches: 150, Mismatches: 18, Indels: 18
0.81 0.10 0.10
Matches are distributed among these distances:
47 19 0.13
48 46 0.31
49 83 0.55
50 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (49 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAGA
Found at i:39502377 original size:98 final size:95
Alignment explanation
Indices: 39502209--39502419 Score: 280
Period size: 98 Copynumber: 2.2 Consensus size: 95
39502199 TGATATACGT
* *
39502209 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATATGCAAGCTAGTGTAAGACCTGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATATGAAAGCTAGTGTAAGACCTGT
* *
39502274 CTGGGACATGGGATCGACACCGATAGATGAGA
66 CTGGGACATGGCATCGACACAGAT--ATGAGA
* * *
39502306 GCTAGTGTAAGACTTGTCTGGGACATGGCATCAGCCTCGATATATGAAAG-TCAGTGTAAGACCT
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCTCAAGATATGAAAGCT-AGTGTAAGACCT
** *
39502370 GTCTGGGACATGGCATCGACTTAGATATGTGA
64 GTCTGGGACATGGCATCGACACAGATATGAGA
39502402 GCTAGTGTAAGACCATGT
1 GCTAGTGTAAGA-CATGT
39502420 TTGAAACATG
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
96 17 0.17
97 30 0.30
98 53 0.53
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (95 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATATGAAAGCTAGTGTAAGACCTGT
CTGGGACATGGCATCGACACAGATATGAGA
Found at i:39518022 original size:27 final size:28
Alignment explanation
Indices: 39517992--39518061 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
39517982 ATAGTGAATC
*
39517992 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
39518019 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
39518047 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39518062 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:39518133 original size:42 final size:42
Alignment explanation
Indices: 39518069--39518175 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
39518059 GCTGTACAAT
* *
39518069 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
39518111 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
39518153 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
39518176 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:39527217 original size:43 final size:43
Alignment explanation
Indices: 39527169--39527315 Score: 143
Period size: 43 Copynumber: 3.4 Consensus size: 43
39527159 AATGCCATAA
* * *** *
39527169 CCCAGATATGGTCTTACATGTTTTCATATACCGATGCCAATGT
1 CCCAGACATGGTCTTACAGGAAATCATATAACGATGCCAATGT
*
39527212 CCCAGACGTGGTCTTACAGGAAATCATATAACGATGCCAATGT
1 CCCAGACATGGTCTTACAGGAAATCATATAACGATGCCAATGT
* * * * * * *
39527255 CCTAGACACGGTCTTACAAGTAATCACAATAA-AATTCCAATGT
1 CCCAGACATGGTCTTACAGGAAATCA-TATAACGATGCCAATGT
*
39527298 CCCATACATGGTCTTACA
1 CCCAGACATGGTCTTACA
39527316 TGTAATCTCA
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
43 81 0.95
44 4 0.05
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
CCCAGACATGGTCTTACAGGAAATCATATAACGATGCCAATGT
Found at i:39534699 original size:39 final size:39
Alignment explanation
Indices: 39534645--39534723 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
39534635 ATCCGGAAAG
39534645 ATCAAATAAAGAGTTAGATCGAGGAAAAGAAAAGGTGAT
1 ATCAAATAAAGAGTTAGATCGAGGAAAAGAAAAGGTGAT
39534684 ATCAAATAAAGAGTTAGATCGAGGAAAAGAAAAGGTGAT
1 ATCAAATAAAGAGTTAGATCGAGGAAAAGAAAAGGTGAT
39534723 A
1 A
39534724 GATTAGCAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.52, C:0.05, G:0.25, T:0.18
Consensus pattern (39 bp):
ATCAAATAAAGAGTTAGATCGAGGAAAAGAAAAGGTGAT
Found at i:39540511 original size:27 final size:27
Alignment explanation
Indices: 39540481--39540540 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
39540471 TATGTCAGTC
*
39540481 ATTTTACACTATAAAG-GTATTTCGATA
1 ATTTTAAACTA-AAAGTGTATTTCGATA
* *
39540508 ATTTAAAACTACAAGTGTATTTCGATA
1 ATTTTAAACTAAAAGTGTATTTCGATA
39540535 ATTTTA
1 ATTTTA
39540541 TAAATCGGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (27 bp):
ATTTTAAACTAAAAGTGTATTTCGATA
Found at i:39540592 original size:27 final size:27
Alignment explanation
Indices: 39540496--39540752 Score: 265
Period size: 27 Copynumber: 9.6 Consensus size: 27
39540486 ACACTATAAA
*
39540496 GGTATTTCGATAA-TTTA-AAACTACAAG
1 GGTATTTCGATAATTTTACAAA-T-CGAG
* *
39540523 TGTATTTCGATAATTTTATAAATCG-G
1 GGTATTTCGATAATTTTACAAATCGAG
* *
39540549 GGTGTTTCGGTAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
* *
39540576 GGTATTTCGATAGTTTTACAAACCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
* * *
39540603 AGTGTTTTGATAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
* * * *
39540630 GATGTTTCAATAATTTTGCAAA-CTGAG
1 GGTATTTCGATAATTTTACAAATC-GAG
*
39540657 GGTATTTCGATAATTTTACAAATCAAG
1 GGTATTTCGATAATTTTACAAATCGAG
39540684 GGTATTTCGATAATTTTACAAATCG-G
1 GGTATTTCGATAATTTTACAAATCGAG
* * *
39540710 GGTACTTCGGTAATTTTACAAATCGGG
1 GGTATTTCGATAATTTTACAAATCGAG
*
39540737 GGTGTTTC-AGTAATTT
1 GGTATTTCGA-TAATTT
39540753 CTTTTTATTA
Statistics
Matches: 192, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
26 47 0.24
27 136 0.71
28 6 0.03
29 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (27 bp):
GGTATTTCGATAATTTTACAAATCGAG
Found at i:39547717 original size:27 final size:28
Alignment explanation
Indices: 39547660--39547729 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
39547650 AAATTTGTAC
**
39547660 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
39547688 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
39547715 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
39547730 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:39547738 original size:27 final size:27
Alignment explanation
Indices: 39547660--39547741 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
39547650 AAATTTGTAC
* *
39547660 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
39547688 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
39547715 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
39547742 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:39555639 original size:27 final size:28
Alignment explanation
Indices: 39555582--39555651 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
39555572 AAATTTGTAC
**
39555582 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
39555610 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
39555637 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
39555652 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:39555660 original size:27 final size:27
Alignment explanation
Indices: 39555582--39555663 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
39555572 AAATTTGTAC
* *
39555582 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
39555610 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
39555637 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
39555664 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:39558617 original size:93 final size:94
Alignment explanation
Indices: 39558496--39558677 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 94
39558486 TAGTAATGCA
*
39558496 ATGTAAGAACATGTCTGGAACAAGGCATTGGCATCGATATGTAATCCCATGTAAGAACATGTCTG
1 ATGTAAGAACATGTCTGGAACAAGGCATTGGCATCGATATGTAATCCCATGTAAGAACATATCTG
39558561 GGACATGACATTGGCATCGATATGATCCC
66 GGACATGACATTGGCATCGATATGATCCC
* * * * *
39558590 ATGTAAG-ACATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATATTTG
1 ATGTAAGAACATGTCTGGAACAAGGCATTGGCATCGATATGTAATCCCATGTAAGAACATATCTG
* *
39558654 GGATATGGCATTGGCATCGATATG
66 GGACATGACATTGGCATCGATATG
39558678 CGATTTCGTG
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
93 73 0.91
94 7 0.09
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (94 bp):
ATGTAAGAACATGTCTGGAACAAGGCATTGGCATCGATATGTAATCCCATGTAAGAACATATCTG
GGACATGACATTGGCATCGATATGATCCC
Found at i:39558690 original size:48 final size:48
Alignment explanation
Indices: 39558496--39558712 Score: 269
Period size: 48 Copynumber: 4.6 Consensus size: 48
39558486 TAGTAATGCA
* * * *
39558496 ATGTAAGAACATGTCTGGAACAAGGCATTGGCATCGATATGTAATCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCC
* *
39558544 ATGTAAGAACATGTCTGGGACATGACATTGGCATCGATA--TGATCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCC
39558590 ATGTAAGA-CATGTCTGGGACATGGCATTGGCATCGATATGTGATCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCC
* * * * **
39558637 ATGTAAGACCATATTTGGGATATGGCATTGGCATCGATATGCGATTTC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCC
* * **
39558685 GTGTAAGGCCATGTCTATGACATGGCAT
1 ATGTAAGACCATGTCTGGGACATGGCAT
39558713 CGATATAAGA
Statistics
Matches: 148, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
45 29 0.20
46 14 0.09
47 15 0.10
48 90 0.61
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (48 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCC
Found at i:39558752 original size:42 final size:42
Alignment explanation
Indices: 39558665--39558755 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
39558655 GATATGGCAT
** * *
39558665 TGGCATCGATATGCGATTTCGTGTAAGGCCATGTCTATGACA
1 TGGCATCGATATAAGACTTCGTGTAAGACCATGTCTATGACA
*
39558707 TGGCATCGATATAAGACTTCGTGTAATACCATAGT-TA-GACAA
1 TGGCATCGATATAAGACTTCGTGTAAGACCAT-GTCTATGAC-A
39558749 TGGCATC
1 TGGCATC
39558756 AAGTAAACAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 3 0.07
42 37 0.88
43 2 0.05
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.30
Consensus pattern (42 bp):
TGGCATCGATATAAGACTTCGTGTAAGACCATGTCTATGACA
Found at i:39565135 original size:46 final size:45
Alignment explanation
Indices: 39565068--39565242 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
39565058 TGTAACCCGC
*
39565068 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * * * *
39565114 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCAGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G-GGCTTCGCAT
* ** * * *
39565160 ACATATCTTGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATA-AGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
39565207 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
39565243 ATGCCCAAAT
Statistics
Matches: 102, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
45 1 0.01
46 67 0.66
47 32 0.31
48 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:39565182 original size:93 final size:93
Alignment explanation
Indices: 39565075--39565247 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
39565065 CGCCCATAAG
* * *
39565075 TGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
39565140 ACAAGCTCAGATGCCTAGTTACATATCT
66 ACAAGCTCAGATGCCTAGTTACATATCT
* *
39565168 TGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
39565233 ACGAGCTCGGATGCC
66 ACAAGCTCAGATGCC
39565248 CAAATATCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGCTCAGATGCCTAGTTACATATCT
Found at i:39565262 original size:46 final size:46
Alignment explanation
Indices: 39565119--39565262 Score: 104
Period size: 46 Copynumber: 3.1 Consensus size: 46
39565109 CGCATCCATA
* * *
39565119 AGTGAACTCGGACTCAACTCAACAAGCTCAGATGCCTAGTTACATAT-CT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCA---A-ATATCCT
* * * *
39565168 --TGAACTCGGACTCAACTCAACGAGTTTGGACATTCGC----ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGCCCAAATATCC-T
39565211 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATATCCT
39565258 AGTGA
1 AGTGA
39565263 CATGTCAGTT
Statistics
Matches: 73, Mismatches: 11, Indels: 25
0.67 0.10 0.23
Matches are distributed among these distances:
41 2 0.03
42 1 0.01
43 1 0.01
44 4 0.05
46 32 0.44
47 26 0.36
48 4 0.05
49 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATATCCT
Found at i:39568196 original size:30 final size:30
Alignment explanation
Indices: 39568160--39568261 Score: 111
Period size: 28 Copynumber: 3.5 Consensus size: 30
39568150 GACAAGATTG
* *
39568160 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGGGTTTAAAATTATATA
* * *
39568190 GCACTAAGTGTGCGCGTTT--GATTCTATA
1 GCACTAAGTGTGCGGGTTTAAAATTATATA
* * *
39568218 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGGGTTTAAAATTATATA
39568247 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
39568262 ATTCACTATA
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
28 22 0.37
29 19 0.32
30 19 0.32
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGGGTTTAAAATTATATA
Found at i:39568272 original size:29 final size:28
Alignment explanation
Indices: 39568189--39568264 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
39568179 AAAATTGTAC
* *
39568189 AGCACTAAGTGTGCGCGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
39568217 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
39568246 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
39568265 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:39578125 original size:40 final size:39
Alignment explanation
Indices: 39577957--39578127 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
39577947 AGAAATTGAA
* *
39577957 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
39577997 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
39578037 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
39578077 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
39578117 TGATATCCGGG
1 TGATATCCGGG
39578128 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:39586215 original size:31 final size:31
Alignment explanation
Indices: 39586174--39586237 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
39586164 CCTTTTCATA
*
39586174 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
39586205 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
39586236 TT
1 TT
39586238 ACTGTAAACG
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:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:39586483 original size:24 final size:24
Alignment explanation
Indices: 39586431--39586596 Score: 239
Period size: 24 Copynumber: 7.0 Consensus size: 24
39586421 GCTTTATCAT
*
39586431 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
39586456 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
39586480 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
39586503 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
39586527 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
39586551 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
39586574 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39586597 TCACTTCCTC
Statistics
Matches: 129, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
23 43 0.33
24 74 0.57
25 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:39586507 original size:47 final size:48
Alignment explanation
Indices: 39586430--39586596 Score: 241
Period size: 47 Copynumber: 3.5 Consensus size: 48
39586420 TGCTTTATCA
* *
39586430 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
39586479 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
39586526 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
39586573 AATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTT
39586597 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
47 70 0.64
48 26 0.24
49 13 0.12
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:39586531 original size:71 final size:71
Alignment explanation
Indices: 39586431--39586596 Score: 262
Period size: 71 Copynumber: 2.3 Consensus size: 71
39586421 GCTTTATCAT
* *
39586431 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAA
39586495 GCCCTTTA
64 GCCCTTTA
* * *
39586503 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
39586568 CCTTTA
66 CCTTTA
39586574 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39586597 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 76 0.86
72 12 0.14
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
CCTTTA
Found at i:39586669 original size:9 final size:9
Alignment explanation
Indices: 39586655--39586731 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
39586645 ATCTCGTGTG
39586655 CATATCATA
1 CATATCATA
*
39586664 CATATCATGTG
1 CATATCA--TA
39586675 CATATCATA
1 CATATCATA
* *
39586684 CATGTCATGTG
1 CATATCA--TA
39586695 CATATCATA
1 CATATCATA
*
39586704 CATATCATGTG
1 CATATCA--TA
39586715 CATATCATA
1 CATATCATA
39586724 CATATCAT
1 CATATCAT
39586732 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:39586674 original size:20 final size:20
Alignment explanation
Indices: 39586651--39586733 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
39586641 GAACATCTCG
39586651 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
39586671 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
39586691 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
39586711 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
39586731 TGT
1 TGT
39586734 TTATCAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:39586680 original size:11 final size:11
Alignment explanation
Indices: 39586651--39586722 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
39586641 GAACATCTCG
39586651 TGTGCATATCA
1 TGTGCATATCA
*
39586662 --TACATATCA
1 TGTGCATATCA
39586671 TGTGCATATCA
1 TGTGCATATCA
* *
39586682 --TACATGTCA
1 TGTGCATATCA
39586691 TGTGCATATCA
1 TGTGCATATCA
*
39586702 --TACATATCA
1 TGTGCATATCA
39586711 TGTGCATATCA
1 TGTGCATATCA
39586722 T
1 T
39586723 ACATATCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:39586816 original size:25 final size:25
Alignment explanation
Indices: 39586770--39586817 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
39586760 ATATATAAAC
* * * *
39586770 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGAAAAACGGTCATTTTTA
39586795 CCTAGGGGAAAAACGGTCATTTT
1 CCTAGGGGAAAAACGGTCATTTT
39586818 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGAAAAACGGTCATTTTTA
Found at i:39588005 original size:27 final size:27
Alignment explanation
Indices: 39587975--39588039 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
39587965 GGGCATATTC
*
39587975 GTCATTTTACCATACAGGGG-TATCACG
1 GTCACTTTACCATACAGGGGCT-TCACG
* *
39588002 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTCACG
39588029 GTCACTTTACC
1 GTCACTTTACC
39588040 TAATAGGGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTCACG
Found at i:39588123 original size:27 final size:27
Alignment explanation
Indices: 39588097--39588349 Score: 127
Period size: 27 Copynumber: 9.3 Consensus size: 27
39588087 ATCTACAAAC
*
39588097 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
39588124 CAATGGTATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT--AAA-T
* *
39588153 CAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* ** **
39588180 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
** ***
39588207 TGAGGGTATTTC-GATAATTTCACAAA-
1 CAAGGGTATTTCAG-TAATTTTGTAAAT
* ** ** *
39588233 CTAGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTCAGTAATTTTGTAAAT
* *
39588261 CAGGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* *** *
39588288 CGAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*** * *
39588315 CAAGGGTAAAACAGTAATTCTATAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
39588342 CGAGGGTA
1 CAAGGGTA
39588350 AAATGGTAAT
Statistics
Matches: 180, Mismatches: 36, Indels: 20
0.76 0.15 0.08
Matches are distributed among these distances:
26 4 0.02
27 148 0.82
28 10 0.06
29 17 0.09
30 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:39588350 original size:27 final size:27
Alignment explanation
Indices: 39588273--39588591 Score: 387
Period size: 27 Copynumber: 11.9 Consensus size: 27
39588263 GGGGTATTTT
*
39588273 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
39588300 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
39588327 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
39588354 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
39588381 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
39588408 -GATAATTATGTAAATCGGGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
39588435 AGTAATTATGTAAATTG-GGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
39588461 -GATAATTCTATAAATCGAGAGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
*
39588488 AGTAATTTTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
39588515 -GATAATTCTGTAAATCGAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * **
39588542 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
39588569 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
39588592 CTTTGGTAAT
Statistics
Matches: 257, Mismatches: 26, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
25 1 0.00
26 24 0.09
27 228 0.89
28 4 0.02
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:39588608 original size:54 final size:54
Alignment explanation
Indices: 39588273--39588591 Score: 428
Period size: 54 Copynumber: 5.9 Consensus size: 54
39588263 GGGGTATTTT
*
39588273 AGTAATTTTGTAAATCGAGGGTAAAAC-AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAATCGAGGGTAAAAC
* * * *
39588327 AGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAC
* * * *
39588381 GGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCGGGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAC
* * * * *
39588435 AGTAATTATGTAAATTG-GGGTAAAACGATAATTCTATAAATCGAGAGTAAAAT
1 AGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAC
39588488 AGTAATTTTGTAAA-CTGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATC-GAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAC
* ** * *
39588542 GGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
1 AGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
39588592 CTTTGGTAAT
Statistics
Matches: 232, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
53 45 0.19
54 186 0.80
55 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (54 bp):
AGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAC
Found at i:39588628 original size:27 final size:27
Alignment explanation
Indices: 39588598--39588662 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
39588588 GGTACTTTGG
39588598 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* *
39588625 TAATTTTACAGGTCGAGGGTATTTCAG
1 TAATTTTACAAGTCGAGGGTATTTCAA
*
39588652 TAATTTCACAA
1 TAATTTTACAA
39588663 ATTAGGGGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:39588655 original size:81 final size:78
Alignment explanation
Indices: 39588570--39588782 Score: 203
Period size: 81 Copynumber: 2.6 Consensus size: 78
39588560 GGGTAAAACG
* *
39588570 GTAATTCTATAAATCGAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTAC-
1 GTAATT-TATAAATCAAGGGTATTTTGGTAATTTTACAAG-C-AGGGTATTTCAATAATTTTACA
** *
39588634 AGGTCGAGGGTATTTCA
63 AACT-AAGGGTATTTCA
* * * * **
39588651 GTAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACA
1 GTAATTT-ATAAATCAAGGGTATTTTGGTAATTTTACAAGC-A-GGGTATTTCAATAATTTTACA
**
39588716 AACTAAGGGTATTTTG
63 AACTAAGGGTATTTCA
* *
39588732 GTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAGCAGGGTATTT
1 GTAA-TTTATAAATCAAGGGTATTTTGGTAATTTTAC-AAGCAGGGTATTT
39588783 TGGTAATTTT
Statistics
Matches: 107, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
80 11 0.10
81 88 0.82
82 8 0.07
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (78 bp):
GTAATTTATAAATCAAGGGTATTTTGGTAATTTTACAAGCAGGGTATTTCAATAATTTTACAAAC
TAAGGGTATTTCA
Found at i:39588671 original size:27 final size:27
Alignment explanation
Indices: 39588640--39588792 Score: 177
Period size: 27 Copynumber: 5.7 Consensus size: 27
39588630 TTACAGGTCG
* * *
39588640 AGGGTATTTCAGTAATTTCACAAATTA
1 AGGGTATTTTAGTAATTTTACAAACTA
* *
39588667 GGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTAGTAATTTTACAAACTA
*
39588694 GGGGTATTTT-GATAATTTTACAAACTA
1 AGGGTATTTTAG-TAATTTTACAAACTA
* * *
39588721 AGGGTATTTTGGTAATTTTATAAACCA
1 AGGGTATTTTAGTAATTTTACAAACTA
39588748 AGGGTATTTTAGTAATTTTACAAAGC--
1 AGGGTATTTTAGTAATTTTACAAA-CTA
*
39588774 AGGGTATTTTGGTAATTTT
1 AGGGTATTTTAGTAATTTT
39588793 GTAAACCAAA
Statistics
Matches: 112, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
26 19 0.17
27 91 0.81
28 2 0.02
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (27 bp):
AGGGTATTTTAGTAATTTTACAAACTA
Found at i:39588683 original size:54 final size:51
Alignment explanation
Indices: 39588586--39588792 Score: 182
Period size: 54 Copynumber: 3.9 Consensus size: 51
39588576 CTATAAATCG
* * * *** ** *
39588586 AGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTA-TTTAGTAATTTTACAA-ACTAGGGTATTTTGGTAATTTTACA-AACA
* *
39588640 AGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTT-AGTAATTTTACAAACTA-GGGTATTTTGGTAATTTTACAAAC-A
* * *
39588694 GGGGTATTTTGATAATTTTACAAACTAAGGGTATTTTGGTAATTTTATAAACCA
1 AGGGTATTTAG-TAATTTTACAAACT-AGGGTATTTTGGTAATTTTACAAA-CA
39588748 AGGGTATTTTAGTAATTTTACAAAGC-AGGGTATTTTGGTAATTTT
1 AGGGTA-TTTAGTAATTTTACAAA-CTAGGGTATTTTGGTAATTTT
39588793 GTAAACCAAA
Statistics
Matches: 127, Mismatches: 18, Indels: 17
0.78 0.11 0.10
Matches are distributed among these distances:
53 25 0.20
54 95 0.75
55 7 0.06
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (51 bp):
AGGGTATTTAGTAATTTTACAAACTAGGGTATTTTGGTAATTTTACAAACA
Found at i:39588806 original size:26 final size:26
Alignment explanation
Indices: 39588669--39588809 Score: 156
Period size: 27 Copynumber: 5.3 Consensus size: 26
39588659 ACAAATTAGG
* *
39588669 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* *
39588696 GGTATTTTGATAATTTTACAAACTAA
1 GGTATTTTGGTAATTTTACAAACCAA
*
39588722 GGGTATTTTGGTAATTTTATAAACCAA
1 -GGTATTTTGGTAATTTTACAAACCAA
* * *
39588749 GGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTACAAACCAA
**
39588776 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
*
39588802 AGTATTTT
1 GGTATTTT
39588810 AAATAGGGAT
Statistics
Matches: 98, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 28 0.29
27 70 0.71
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACCAA
Found at i:39595072 original size:48 final size:48
Alignment explanation
Indices: 39595001--39595321 Score: 292
Period size: 48 Copynumber: 6.6 Consensus size: 48
39594991 TATGTGTGCT
*
39595001 AGTGTAAGACCATGTCTGGGACATGGTATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* *** * * * *
39595049 AGTGTAAGACCATGTCTGGGACATAGCATCGGCGTTGA-TGTGTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CACATTATGAGAGCC
*
39595097 AGTGTAAGACCATGTCTGGGACATGGCATTGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* * * * * * *
39595145 AGTGTAAGACCAAGCCTAGGACATGGCATCGGCCTCAATATGCGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* * * * * * *
39595193 AATGTAAGACCATGTTTGGAACATGGCATC-G--ACATTGTTCTATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT-AT-GA-GAGCC
* *
39595241 AGTGTAAGACCATGTCTAGGACTTGGCATCGG-CACCAATATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-C-AT-TATGAGAGCC
* *
39595291 AGTGTAAGACCATGTCCGAGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
39595322 TCATTTTACC
Statistics
Matches: 212, Mismatches: 51, Indels: 18
0.75 0.18 0.06
Matches are distributed among these distances:
45 3 0.01
46 1 0.00
47 2 0.01
48 167 0.79
49 2 0.01
50 31 0.15
51 2 0.01
52 3 0.01
53 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
Found at i:39595097 original size:96 final size:96
Alignment explanation
Indices: 39594986--39595223 Score: 325
Period size: 96 Copynumber: 2.5 Consensus size: 96
39594976 AAGACATTTG
*
39594986 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGTATCGGCCACATTATGAGAGCCAG
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAG
* * *
39595051 TGTAAGACCATGTCTGGGACATAGCATCGGC
66 TGTAAGACCAAGCCTAGGACATAGCATCGGC
* *
39595082 GTTGATGTGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCACATTATGAGAGCCAG
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAG
*
39595147 TGTAAGACCAAGCCTAGGACATGGCATCGGC
66 TGTAAGACCAAGCCTAGGACATAGCATCGGC
* ** * * * * *
39595178 CTCAATATGCGAG-TCAATGTAAGACCATGTTTGGAACATGGCATCG
1 GTTGATATGTGTGCT-AGTGTAAGACCATGTCTGGGACATGGCATCG
39595224 ACATTGTTCT
Statistics
Matches: 124, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
95 1 0.01
96 123 0.99
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (96 bp):
GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAG
TGTAAGACCAAGCCTAGGACATAGCATCGGC
Found at i:39595268 original size:144 final size:146
Alignment explanation
Indices: 39595001--39595321 Score: 391
Period size: 144 Copynumber: 2.2 Consensus size: 146
39594991 TATGTGTGCT
* * * * *
39595001 AGTGTAAGACCATGTCTGGGACATGGTATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGCCTAGGACATGGCATCGGCCACAATATGAGAGCCAATGTAAGACCATGTCT
* * * * * * *
39595066 GGGACATAGCATCGGCGTTGATGTGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATTGG--
66 GGAACATAGCATCGACATTGATCTATGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
39595129 CCACAT-TATGAGAGCC
131 CCA-ATATATGAGAGCC
* * * * *
39595145 AGTGTAAGACCAAGCCTAGGACATGGCATCGGCCTCAATATGCGAGTCAATGTAAGACCATGTTT
1 AGTGTAAGACCATGCCTAGGACATGGCATCGGCCACAATATGAGAGCCAATGTAAGACCATGTCT
* * *
39595210 GGAACATGGCATCGACATTGTTCTATGTG-TCAGTGTAAGACCATGTCTAGGACTTGGCATCGGC
66 GGAACATAGCATCGACATTGATCTATGTGCT-AGTGTAAGACCATGTCTAGGACATGGCATCGGC
39595274 ACCAATATATGAGAGCC
130 ACCAATATATGAGAGCC
*
39595291 AGTGTAAGACCATGTCCGA-GACATGGCATCG
1 AGTGTAAGACCATG-CCTAGGACATGGCATCG
39595322 TCATTTTACC
Statistics
Matches: 150, Mismatches: 22, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
143 1 0.01
144 106 0.71
145 2 0.01
146 38 0.25
147 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (146 bp):
AGTGTAAGACCATGCCTAGGACATGGCATCGGCCACAATATGAGAGCCAATGTAAGACCATGTCT
GGAACATAGCATCGACATTGATCTATGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
CCAATATATGAGAGCC
Found at i:39605850 original size:42 final size:42
Alignment explanation
Indices: 39605760--39605865 Score: 128
Period size: 42 Copynumber: 2.5 Consensus size: 42
39605750 ATAGCCCAAC
* *
39605760 TATGGTCTTACACGAAGTCTCATATTGATGTCATATCCATGA
1 TATGGTCTTACACGAAGTCTCATATTGATGCCATATCCATAA
39605802 TATGGTCTTACACGAAGTCTCATATT-AGTGCCATATCTCA-AA
1 TATGGTCTTACACGAAGTCTCATATTGA-TGCCATATC-CATAA
* *
39605844 TTTGGTCTTCCACGTAA-TCTCA
1 TATGGTCTTACACG-AAGTCTCA
39605866 GTAACCCTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
41 1 0.02
42 52 0.91
43 4 0.07
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (42 bp):
TATGGTCTTACACGAAGTCTCATATTGATGCCATATCCATAA
Found at i:39632644 original size:12 final size:12
Alignment explanation
Indices: 39632627--39632656 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
39632617 CGTATTAAAA
*
39632627 TTTTTATATTAT
1 TTTTTATATAAT
39632639 TTTTTATATAAT
1 TTTTTATATAAT
39632651 TTTTTA
1 TTTTTA
39632657 AAATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTTATATAAT
Found at i:39637030 original size:46 final size:45
Alignment explanation
Indices: 39636977--39637149 Score: 206
Period size: 46 Copynumber: 3.8 Consensus size: 45
39636967 TTGGGCATCT
*
39636977 GAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
*** * *
39637023 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCC
*
39637070 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
*
39637116 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39637150 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.61
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.29
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCC
Found at i:39637086 original size:93 final size:93
Alignment explanation
Indices: 39636970--39637141 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
39636960 AGAATATTTG
* * *
39636970 GGCATCTGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
39637035 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
39637063 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
39637128 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
39637142 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:39639552 original size:27 final size:27
Alignment explanation
Indices: 39639522--39639577 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
39639512 GAGAATGTCT
39639522 CAAGACATAGATTGTTTGGTCTCGAGA
1 CAAGACATAGATTGTTTGGTCTCGAGA
39639549 CAAGACATAGATTGTTTGGTCTCGAGA
1 CAAGACATAGATTGTTTGGTCTCGAGA
39639576 CA
1 CA
39639578 TGAGGTTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (27 bp):
CAAGACATAGATTGTTTGGTCTCGAGA
Found at i:39651545 original size:2 final size:2
Alignment explanation
Indices: 39651538--39651578 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
39651528 TTCTTGTTTG
39651538 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
39651579 TTTATTGTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:39655696 original size:40 final size:40
Alignment explanation
Indices: 39655568--39655698 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
39655558 TATGCTGGAA
* * * *
39655568 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
39655608 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
39655648 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
39655688 ATTATATCCGG
1 ATTATATCCGG
39655699 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:39666677 original size:40 final size:40
Alignment explanation
Indices: 39666632--39666798 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
39666622 CGGAATATAA
39666632 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
39666672 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
39666712 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
39666752 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
39666791 CCGGATAT
1 CCGGATAT
39666799 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:39674648 original size:40 final size:40
Alignment explanation
Indices: 39674603--39674770 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
39674593 CGGAATATAA
39674603 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
39674643 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
39674683 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
39674723 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
39674763 CCGGATAT
1 CCGGATAT
39674771 TATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:39697153 original size:96 final size:96
Alignment explanation
Indices: 39696929--39697155 Score: 267
Period size: 96 Copynumber: 2.4 Consensus size: 96
39696919 AACGGTGCCG
* * *
39696929 ATGCCATGTCCCAGACATGGTCTTATACGGGACCTCATATCGATGCCAATGCCATATCCCAGATA
1 ATGCCATATCCCAGACATGGTCTTATACGGGATCTCATATCGATACCAATGCCATATCCCAGATA
*** *
39696994 TGGTCTTACATGGGATCTCATACTGATGTCG
66 TGGTCTTACACAAGATCTCATACTGATGTCA
* * * * * * * *
39697025 ATGCCATCTCCCAAACGTGGTCTTATATGGGATCTCTTATCGATACCGATGTCATATCCTAGATA
1 ATGCCATATCCCAGACATGGTCTTATACGGGATCTCATATCGATACCAATGCCATATCCCAGATA
* *
39697090 TGGTTTTACACAAGATCTCATATTGATG-CTA
66 TGGTCTTACACAAGATCTCATACTGATGTC-A
* *
39697121 ATGCCATATCCTAGATATGGTCTTATACGGGATCT
1 ATGCCATATCCCAGACATGGTCTTATACGGGATCT
39697156 TGATACTCAT
Statistics
Matches: 108, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
95 1 0.01
96 107 0.99
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (96 bp):
ATGCCATATCCCAGACATGGTCTTATACGGGATCTCATATCGATACCAATGCCATATCCCAGATA
TGGTCTTACACAAGATCTCATACTGATGTCA
Found at i:39697155 original size:48 final size:48
Alignment explanation
Indices: 39696915--39697155 Score: 223
Period size: 48 Copynumber: 5.0 Consensus size: 48
39696905 ACACAAAGTT
* * * * * *
39696915 TCATAACGGTGCCGATGCCATGTCCCAGACATGGTCTTATACGGGACC
1 TCATATCGATGCCAATGCCATATCCCAGATATGGTCTTATACGGGATC
* *
39696963 TCATATCGATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATC
1 TCATATCGATGCCAATGCCATATCCCAGATATGGTCTTATACGGGATC
* * * * ** *
39697011 TCATA-CTGATGTCGATGCCATCTCCCAAACGTGGTCTTATATGGGATC
1 TCATATC-GATGCCAATGCCATATCCCAGATATGGTCTTATACGGGATC
* * * * * * * **
39697059 TCTTATCGATACCGATGTCATATCCTAGATATGGTTTTACACAAGATC
1 TCATATCGATGCCAATGCCATATCCCAGATATGGTCTTATACGGGATC
* * *
39697107 TCATATTGATGCTAATGCCATATCCTAGATATGGTCTTATACGGGATC
1 TCATATCGATGCCAATGCCATATCCCAGATATGGTCTTATACGGGATC
39697155 T
1 T
39697156 TGATACTCAT
Statistics
Matches: 152, Mismatches: 39, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
47 1 0.01
48 150 0.99
49 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (48 bp):
TCATATCGATGCCAATGCCATATCCCAGATATGGTCTTATACGGGATC
Found at i:39702382 original size:43 final size:42
Alignment explanation
Indices: 39702309--39702417 Score: 116
Period size: 43 Copynumber: 2.5 Consensus size: 42
39702299 TTCTTTAAAC
* * * *
39702309 TCGCACACTTAGTGCCAATTATTTATCCAAAGCTATAATATTA
1 TCGCACACATAGTGCCATTTATTAAACCAAAGCTAT-ATATTA
39702352 TCGCACAC-TAGTGCCATTTCATTAAACCAAA-CT-TATATCGATA
1 TCGCACACATAGTGCCATTT-ATTAAACCAAAGCTATATAT---TA
39702395 TCGCACACATAGTGCCATTTATT
1 TCGCACACATAGTGCCATTTATT
39702418 CAGCCATGGC
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
40 4 0.07
41 1 0.02
42 12 0.21
43 30 0.52
44 11 0.19
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (42 bp):
TCGCACACATAGTGCCATTTATTAAACCAAAGCTATATATTA
Found at i:39706396 original size:96 final size:95
Alignment explanation
Indices: 39706296--39706519 Score: 306
Period size: 96 Copynumber: 2.3 Consensus size: 95
39706286 AACGGTGTCA
*
39706296 ATGCCATGTTCCAAACATGGTCTTATACGGGACCTCATATCGATGCCAATGCCATATCCCAGATA
1 ATGCCAT-TTCCAGACATGGTCTTATACGGGACCTCATATCGATGCCAATGCCATATCCCAGATA
*
39706361 TGGTCTTACATGGGATCTCATACT-GATGCCG
65 TGGTCTTACACGGGATCTCAT-CTCGATGCCG
* * * * *
39706392 ATGCCATCTCCCAGACGTGGTCTTATACGTGATCTCTTATCGATGCCAATGCCATATCCCAGATA
1 ATGCCAT-TTCCAGACATGGTCTTATACGGGACCTCATATCGATGCCAATGCCATATCCCAGATA
* *
39706457 TGGTCTTGCACGGGATCTCATCTCGATGCTG
65 TGGTCTTACACGGGATCTCATCTCGATGCCG
* *
39706488 ATGCCATATCCTAGATATGGTCTTATACGGGA
1 ATGCCATTTCC-AGACATGGTCTTATACGGGA
39706520 TCACAATACT
Statistics
Matches: 111, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
95 4 0.04
96 107 0.96
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (95 bp):
ATGCCATTTCCAGACATGGTCTTATACGGGACCTCATATCGATGCCAATGCCATATCCCAGATAT
GGTCTTACACGGGATCTCATCTCGATGCCG
Found at i:39706520 original size:48 final size:48
Alignment explanation
Indices: 39706280--39706521 Score: 270
Period size: 48 Copynumber: 5.0 Consensus size: 48
39706270 TTACACGAAG
* * * * * * *
39706280 TCTCATAACGGTGTCAATGCCATGTTCCAAACATGGTCTTATACGGGA
1 TCTCATATCGATGCCAATGCCATATCCCAGATATGGTCTTATACGGGA
* * *
39706328 CCTCATATCGATGCCAATGCCATATCCCAGATATGGTCTTACATGGGA
1 TCTCATATCGATGCCAATGCCATATCCCAGATATGGTCTTATACGGGA
* * ** *
39706376 TCTCATA-CTGATGCCGATGCCATCTCCCAGACGTGGTCTTATACGTGA
1 TCTCATATC-GATGCCAATGCCATATCCCAGATATGGTCTTATACGGGA
* **
39706424 TCTCTTATCGATGCCAATGCCATATCCCAGATATGGTCTTGCACGGGA
1 TCTCATATCGATGCCAATGCCATATCCCAGATATGGTCTTATACGGGA
* ** *
39706472 TCTCATCTCGATGCTGATGCCATATCCTAGATATGGTCTTATACGGGA
1 TCTCATATCGATGCCAATGCCATATCCCAGATATGGTCTTATACGGGA
39706520 TC
1 TC
39706522 ACAATACTCA
Statistics
Matches: 159, Mismatches: 33, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
47 1 0.01
48 157 0.99
49 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (48 bp):
TCTCATATCGATGCCAATGCCATATCCCAGATATGGTCTTATACGGGA
Found at i:39712243 original size:30 final size:30
Alignment explanation
Indices: 39712209--39712268 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
39712199 CTTTAATACG
* *
39712209 AACTTTGGAAAAATTACATTTTTGGCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
39712239 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
39712269 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:39714330 original size:17 final size:18
Alignment explanation
Indices: 39714288--39714336 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
39714278 AGTTGAAAAG
39714288 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
39714307 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
39714324 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
39714337 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:39715226 original size:40 final size:40
Alignment explanation
Indices: 39715160--39715310 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
39715150 AAATTGAATG
* * *
39715160 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
39715199 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
39715239 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
39715279 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
39715311 ACTTGATTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:39715324 original size:40 final size:40
Alignment explanation
Indices: 39715196--39715326 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
39715186 TATGCTGGAA
* * * *
39715196 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
** * *
39715236 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
39715276 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
39715316 ATTATATCCGG
1 ATTATATCCGG
39715327 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:39722366 original size:17 final size:18
Alignment explanation
Indices: 39722324--39722372 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
39722314 AGTTGAAAAG
39722324 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
39722343 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
39722360 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
39722373 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:39723261 original size:40 final size:40
Alignment explanation
Indices: 39723195--39723361 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
39723185 AAATTGAATG
* * *
39723195 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
39723234 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
39723274 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
39723314 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
39723354 ATATCCGG
1 ATATCCGG
39723362 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:39727100 original size:39 final size:40
Alignment explanation
Indices: 39726997--39727183 Score: 166
Period size: 40 Copynumber: 4.7 Consensus size: 40
39726987 TTCGAATGAT
* * * * * *
39726997 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAT
1 ATCCAGGCTAAGTCCCAAAGGCATTTGTGC-GAGTTACTAA
*
39727038 ATCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCAGG-CTAAG-TCCCAAAGGCATTTGTGCGAGTTACTAA
* * *
39727078 TTCCAGGCTAAG-CCCAAAGGCATTGGTGCGAGTTATTAA
1 ATCCAGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTAA
** *
39727117 ATCTGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATA
1 ATCCAGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTA-A
* * *
39727158 A-CCGGGCTATGTCCCGAAGGCATTTG
1 ATCCAGGCTAAGTCCCAAAGGCATTTG
39727184 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
39 31 0.25
40 62 0.51
41 28 0.23
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
ATCCAGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTAA
Found at i:39731145 original size:42 final size:42
Alignment explanation
Indices: 39731099--39731178 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
39731089 ACAACATAGC
**
39731099 ATCATATACGATGTTGATGTCCCAGACAAGGTCTTACATGAA
1 ATCATATACGATGCCGATGTCCCAGACAAGGTCTTACATGAA
* * *
39731141 ATCATATATGATGCCGATGTGCCAGACATGGTCTTACA
1 ATCATATACGATGCCGATGTCCCAGACAAGGTCTTACA
39731179 CGTAAATCTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (42 bp):
ATCATATACGATGCCGATGTCCCAGACAAGGTCTTACATGAA
Found at i:39731765 original size:28 final size:28
Alignment explanation
Indices: 39731712--39731765 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
39731702 ATAACTTTCA
**
39731712 CTTATTTCACATTTTAACCCTCTAATTT
1 CTTATTTCACAAATTAACCCTCTAATTT
*
39731740 CTTATTTTCACAAATTAGCCCT-TAAT
1 CTTA-TTTCACAAATTAACCCTCTAAT
39731766 AATCAAATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 8 0.36
29 14 0.64
ACGTcount: A:0.28, C:0.24, G:0.02, T:0.46
Consensus pattern (28 bp):
CTTATTTCACAAATTAACCCTCTAATTT
Found at i:39749638 original size:27 final size:27
Alignment explanation
Indices: 39749603--39749833 Score: 227
Period size: 27 Copynumber: 8.6 Consensus size: 27
39749593 TTAGTTTACC
**
39749603 AAATTACCAAAATACCCTCGATTAACA
1 AAATTACCAAAATACCCTCGATTTGCA
*
39749630 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGCA
* *
39749657 AAATTACCAAAATACCCTCGATTAGTA
1 AAATTACCAAAATACCCTCGATTTGCA
* *
39749684 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGCA
*
39749711 AAATTACCGAAATACCC-CTGATTTGCA
1 AAATTACCAAAATACCCTC-GATTTGCA
** * **
39749738 AAATTACTGAAATACCCT-AATTTTTA
1 AAATTACCAAAATACCCTCGATTTGCA
* * * *
39749764 AAATTACTAAAATACCTTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGCA
* *
39749791 AAATTACCAAAGTACCC-CGATTTACA
1 AAATTACCAAAATACCCTCGATTTGCA
* *
39749817 AAATTACCGAAACACCC
1 AAATTACCAAAATACCC
39749834 CTATAGGGTA
Statistics
Matches: 175, Mismatches: 25, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
26 43 0.25
27 131 0.75
28 1 0.01
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGCA
Found at i:39749766 original size:26 final size:27
Alignment explanation
Indices: 39749603--39749863 Score: 158
Period size: 27 Copynumber: 9.7 Consensus size: 27
39749593 TTAGTTTACC
* ***
39749603 AAATTACCAAAATA-CCCTCGATTAACA
1 AAATTACCAAAATACCCCT-AATTTGTA
* * *
39749630 AAATTACCAAAATA-CCCTCGATTAGCA
1 AAATTACCAAAATACCCCT-AATTTGTA
* *
39749657 AAATTACCAAAATA-CCCTCGATTAGTA
1 AAATTACCAAAATACCCCT-AATTTGTA
*
39749684 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAATTTGTA
* * *
39749711 AAATTACCGAAATACCCCTGATTTGCA
1 AAATTACCAAAATACCCCTAATTTGTA
** *
39749738 AAATTACTGAAATA-CCCTAATTTTTA
1 AAATTACCAAAATACCCCTAATTTGTA
* * * *
39749764 AAATTACTAAAATA-CCTTCGACTTGTA
1 AAATTACCAAAATACCCCT-AATTTGTA
* * **
39749791 AAATTACCAAAGTACCCC-GATTTACA
1 AAATTACCAAAATACCCCTAATTTGTA
* * **
39749817 AAATTACCGAAACACCCCT-ATAGGGTA
1 AAATTACCAAAATACCCCTAAT-TTGTA
* *
39749844 AAATTATCGAAATACCCCTA
1 AAATTACCAAAATACCCCTA
39749864 TAGGGTAGAA
Statistics
Matches: 195, Mismatches: 33, Indels: 11
0.82 0.14 0.05
Matches are distributed among these distances:
26 47 0.24
27 142 0.73
28 6 0.03
ACGTcount: A:0.43, C:0.23, G:0.08, T:0.26
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAATTTGTA
Found at i:39749854 original size:27 final size:27
Alignment explanation
Indices: 39749816--39750039 Score: 218
Period size: 27 Copynumber: 8.3 Consensus size: 27
39749806 CCCGATTTAC
*
39749816 AAAATTACCGAAACACCCCTATAGGGT
1 AAAATTACCGAAATACCCCTATAGGGT
*
39749843 AAAATTATCGAAATACCCCTATAGGGT
1 AAAATTACCGAAATACCCCTATAGGGT
* *
39749870 AGAATAACCGAAATACCCCTATAGGGT
1 AAAATTACCGAAATACCCCTATAGGGT
* ** * *
39749897 AGAATTATTGAAATACTCC-GTAGGGT
1 AAAATTACCGAAATACCCCTATAGGGT
* * *
39749923 AGAATTACCGAAATACCCCTGTAGGAT
1 AAAATTACCGAAATACCCCTATAGGGT
* * * *
39749950 AGAATTACCGAAATACCCTTGTACGGT
1 AAAATTACCGAAATACCCCTATAGGGT
* *
39749977 AGAAA-TACCGAAACACCCTTATAGGGT
1 A-AAATTACCGAAATACCCCTATAGGGT
* * * * *
39750004 AAAATTACAGAGATACCCTTGTGGGGT
1 AAAATTACCGAAATACCCCTATAGGGT
39750031 AAAATTACC
1 AAAATTACC
39750040 ATTTTGCCCC
Statistics
Matches: 167, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
26 25 0.15
27 140 0.84
28 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.23
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTATAGGGT
Found at i:39749934 original size:107 final size:107
Alignment explanation
Indices: 39749818--39750010 Score: 271
Period size: 107 Copynumber: 1.8 Consensus size: 107
39749808 CGATTTACAA
* * *
39749818 AATTACCGAAACACCCCTATAGGGTAAAATTATCGAAATACCCCTATAGGGTAG-AATAACCGAA
1 AATTACCGAAACACCCCTATAGGATAAAATTACCGAAATACCCCTATACGGTAGAAAT-ACCGAA
* *
39749882 ATACCCCTATAGGGTAGAATTATTGAAATACTCCGTAGGGTAG
65 ACACCCCTATAGGGTAAAATTATTGAAATACTCCGTAGGGTAG
* * * * *
39749925 AATTACCGAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTACGGTAGAAATACCGAAA
1 AATTACCGAAACACCCCTATAGGATAAAATTACCGAAATACCCCTATACGGTAGAAATACCGAAA
*
39749990 CACCCTTATAGGGTAAAATTA
66 CACCCCTATAGGGTAAAATTA
39750011 CAGAGATACC
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
107 71 0.96
108 3 0.04
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (107 bp):
AATTACCGAAACACCCCTATAGGATAAAATTACCGAAATACCCCTATACGGTAGAAATACCGAAA
CACCCCTATAGGGTAAAATTATTGAAATACTCCGTAGGGTAG
Found at i:39750811 original size:26 final size:27
Alignment explanation
Indices: 39750782--39750841 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
39750772 CCACATATAT
*
39750782 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * * *
39750808 ATATTTGTATCTGGTGACTTTGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
39750835 ATATCTG
1 ATATCTG
39750842 GAAGCCTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:39755844 original size:27 final size:27
Alignment explanation
Indices: 39755808--39756082 Score: 297
Period size: 27 Copynumber: 10.2 Consensus size: 27
39755798 TTAGTTTACC
* *
39755808 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
39755835 AAATTTCCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGTA
*
39755862 AAATTACCAAAATACCCTCGATTAGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
39755889 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
39755916 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
39755943 AAATTACCGAAATACCCCCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
39755970 AAATTACCGAAATA-CCTCTGATTTGCA
1 AAATTACCAAAATACCCTC-GATTTGTA
**
39755997 AAATTACTGAAATACCC-CGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
39756023 AAATTACTAAAATACCTTCAACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
39756050 AAATTACCAAAGTACCCCCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
39756077 AAATTA
1 AAATTA
39756083 TCGTTTTACC
Statistics
Matches: 217, Mismatches: 25, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
26 27 0.12
27 187 0.86
28 3 0.01
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:39758344 original size:2 final size:2
Alignment explanation
Indices: 39758337--39758382 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
39758327 ATAATTAGGT
39758337 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
39758379 TA TA
1 TA TA
39758383 ATCGAATGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:39758670 original size:2 final size:2
Alignment explanation
Indices: 39758663--39758692 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
39758653 TTATTTGGAC
39758663 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39758693 TGAAATTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39770638 original size:40 final size:40
Alignment explanation
Indices: 39770594--39770756 Score: 256
Period size: 40 Copynumber: 4.1 Consensus size: 40
39770584 GGCTTTAACT
** *
39770594 GGATATAGCCACTCGCTCAAATGCCTTCAGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCAGGACTTAGCCC
**
39770634 GGATATAGTAGTTCGCACAAATGCCTTCAGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCAGGACTTAGCCC
39770674 GGATATAGTAACTCGCACAAATGCCTTC-GGAACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCAGG-ACTTAGCCC
*
39770714 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCAGGACTTAGCCC
39770754 GGA
1 GGA
39770757 ATTATCATCC
Statistics
Matches: 114, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 2 0.02
40 110 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
GGATATAGTAACTCGCACAAATGCCTTCAGGACTTAGCCC
Found at i:39775887 original size:46 final size:46
Alignment explanation
Indices: 39775820--39775912 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
39775810 AAGTTAGAAG
39775820 TTTCTTGGGTTTAGCTGGTTACTACCGTAGGTTCGTTAAAAGGTTT
1 TTTCTTGGGTTTAGCTGGTTACTACCGTAGGTTCGTTAAAAGGTTT
39775866 TTTCTTGGGTTTAGCTGGTTACTACCGTAGGTTCGTTAAAAGGTTT
1 TTTCTTGGGTTTAGCTGGTTACTACCGTAGGTTCGTTAAAAGGTTT
39775912 T
1 T
39775913 CTCTCATTAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.17, C:0.13, G:0.26, T:0.44
Consensus pattern (46 bp):
TTTCTTGGGTTTAGCTGGTTACTACCGTAGGTTCGTTAAAAGGTTT
Found at i:39780519 original size:20 final size:20
Alignment explanation
Indices: 39780494--39780543 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
39780484 ATAGGGAAAT
39780494 ATCGATACCTGATTATCAAG
1 ATCGATACCTGATTATCAAG
*
39780514 ATCGATACCTGATTATCAGG
1 ATCGATACCTGATTATCAAG
*
39780534 ATTGATACCT
1 ATCGATACCT
39780544 ACGAACATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (20 bp):
ATCGATACCTGATTATCAAG
Found at i:39783171 original size:48 final size:48
Alignment explanation
Indices: 39783113--39783209 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
39783103 ATCCGGCATC
*
39783113 AGCCCCAAAATCTCTTATGTTTGACCCACCCTAGTAACTTGATGACAT
1 AGCCCCAAAATCACTTATGTTTGACCCACCCTAGTAACTTGATGACAT
* * *
39783161 AGCCCTAAAATCACTTATGTTTGATCCACCTTAGTAACTTGATGACAT
1 AGCCCCAAAATCACTTATGTTTGACCCACCCTAGTAACTTGATGACAT
39783209 A
1 A
39783210 CCTACCTGAG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (48 bp):
AGCCCCAAAATCACTTATGTTTGACCCACCCTAGTAACTTGATGACAT
Found at i:39785068 original size:27 final size:29
Alignment explanation
Indices: 39785038--39785123 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
39785028 AACGCAAGAG
*
39785038 TATATA-GTGAATC-CGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
39785065 TATATATTTTCAGCTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* ** *
39785094 TATATATTTTCAGTTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
39785123 T
1 T
39785124 GTACAATTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
27 6 0.12
28 3 0.06
29 43 0.83
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (29 bp):
TATATATGTGAAGCTCGCACACTTAGTGC
Found at i:39785083 original size:29 final size:29
Alignment explanation
Indices: 39785051--39785123 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
39785041 ATAGTGAATC
39785051 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
39785080 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
39785109 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39785124 GTACAATTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:39792569 original size:27 final size:29
Alignment explanation
Indices: 39792539--39792654 Score: 110
Period size: 29 Copynumber: 4.0 Consensus size: 29
39792529 AACGCAAGAG
*
39792539 TATATA-GTGAATC-CGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
39792566 TATATATTTTCAGCTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
39792595 TATATAATTTTCAGCTCGCACACTTAGTGC
1 TATAT-ATGTGAAGCTCGCACACTTAGTGC
* ** *
39792625 TATATATTTTCAGTTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
39792654 T
1 T
39792655 GTACAATTTT
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 6 0.07
28 3 0.04
29 43 0.53
30 29 0.36
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (29 bp):
TATATATGTGAAGCTCGCACACTTAGTGC
Found at i:39792607 original size:30 final size:29
Alignment explanation
Indices: 39792552--39792654 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
39792542 ATAGTGAATC
39792552 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
39792581 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
39792611 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
39792640 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39792655 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:39792628 original size:59 final size:60
Alignment explanation
Indices: 39792551--39792684 Score: 207
Period size: 59 Copynumber: 2.2 Consensus size: 60
39792541 TATAGTGAAT
* * *
39792551 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * *
39792610 TCGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
39792670 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
39792685 CAATCTTGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
59 47 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:39801701 original size:43 final size:43
Alignment explanation
Indices: 39801637--39801737 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 43
39801627 CCCAAATACA
* * *
39801637 GTCTTACATGGAAT-TTCATATCAATGCTAATAGCCCAGCTATG
1 GTCTTACACGAAATCTTCATATCAATG-TAATAGCCCAGATATG
* * * *
39801680 GTCTTACACGAAATCTT-ATATCGATGTCATATCTCAGATATG
1 GTCTTACACGAAATCTTCATATCAATGTAATAGCCCAGATATG
39801722 GTCTTACACGAAATCT
1 GTCTTACACGAAATCT
39801738 CAACTAACCC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 28 0.56
43 20 0.40
44 2 0.04
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.34
Consensus pattern (43 bp):
GTCTTACACGAAATCTTCATATCAATGTAATAGCCCAGATATG
Found at i:39808477 original size:39 final size:40
Alignment explanation
Indices: 39808299--39808481 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
39808289 CCGCACCAAG
* * * * * * * *
39808299 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
39808339 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
39808379 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
39808419 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
39808458 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
39808482 CATTCAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.25
40 89 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:39816466 original size:40 final size:40
Alignment explanation
Indices: 39816407--39816575 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
39816397 CGGGACTTTA
* * *
39816407 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
39816447 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
39816487 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
39816527 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
39816567 CCCGGATAT
1 CCCGGATAT
39816576 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:39819012 original size:18 final size:19
Alignment explanation
Indices: 39818971--39819012 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
39818961 TATAAAGCAA
*
39818971 CATTTTTTGTCCAAGATAT
1 CATTTTTTGTCCAAGAAAT
* *
39818990 AATTTTTT-TCCTAGAAAT
1 CATTTTTTGTCCAAGAAAT
39819008 CATTT
1 CATTT
39819013 GATCATGAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (19 bp):
CATTTTTTGTCCAAGAAAT
Found at i:39821420 original size:42 final size:41
Alignment explanation
Indices: 39821354--39821475 Score: 136
Period size: 44 Copynumber: 2.9 Consensus size: 41
39821344 AGTCTTATCA
* **
39821354 ATGCCACTGTCCCAGACAAAGTCTTACACGAAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAAT-CG
* * *
39821396 ATGTCGATGTCCCAGACATGGTCTTACACATAAATTTCAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACAC-GAAA--TCAAATCG
* *
39821440 ATGCCAAAGTCCCAGACGTGGTCTTACACGAAATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCA
39821476 CATGTCGGAA
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
41 3 0.05
42 24 0.36
43 6 0.09
44 27 0.41
45 6 0.09
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.23
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATCG
Found at i:39832085 original size:40 final size:40
Alignment explanation
Indices: 39832028--39832212 Score: 266
Period size: 40 Copynumber: 4.7 Consensus size: 40
39832018 CTAACGGGGT
* * * *
39832028 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
*
39832068 TAAGTCCCAAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
*
39832108 TAAGTCCCGAAGGCATTGGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
*
39832148 TAAGTCCCGAAGGCATTTGTGCGAGTTGCT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* *
39832188 TAAGACCCGAAGGC-CTTGTGCGAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGT
39832213 GGTTATATCC
Statistics
Matches: 133, Mismatches: 11, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
39 12 0.09
40 121 0.91
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
Found at i:39838416 original size:46 final size:44
Alignment explanation
Indices: 39838357--39838471 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
39838347 ACAGGACAGA
* *
39838357 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
39838403 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
39838447 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
39838472 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:39838452 original size:44 final size:45
Alignment explanation
Indices: 39838357--39838490 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
39838347 ACAGGACAGA
* *
39838357 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
39838403 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
39838447 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
39838491 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:39845338 original size:29 final size:29
Alignment explanation
Indices: 39845304--39845435 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
39845294 TACTCGATTT
** * *
39845304 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
39845333 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
39845362 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
39845391 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
39845420 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
39845436 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:39853206 original size:29 final size:29
Alignment explanation
Indices: 39853172--39853303 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
39853162 TACTCGATTT
** * *
39853172 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
39853201 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
39853230 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
39853259 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
39853288 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
39853304 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:39855052 original size:46 final size:44
Alignment explanation
Indices: 39854993--39855107 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
39854983 ACAGGACAGA
* *
39854993 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
39855039 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
39855083 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
39855108 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:39855088 original size:44 final size:45
Alignment explanation
Indices: 39854993--39855126 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
39854983 ACAGGACAGA
* *
39854993 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
39855039 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
39855083 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
39855127 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:39860743 original size:46 final size:44
Alignment explanation
Indices: 39860684--39860798 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
39860674 ACAGGACAGA
* *
39860684 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
39860730 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
39860774 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
39860799 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:39860779 original size:44 final size:45
Alignment explanation
Indices: 39860684--39860817 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
39860674 ACAGGACAGA
* *
39860684 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
39860730 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
39860774 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
39860818 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:39862926 original size:35 final size:35
Alignment explanation
Indices: 39862887--39862959 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
39862877 ACACATTCTT
*
39862887 TATTCTCGTTAGATCAATCTCACATAAATAATATA
1 TATTCTCGTCAGATCAATCTCACATAAATAATATA
39862922 TATTCTCGTCAGATCAATCTCACATAAATAATATA
1 TATTCTCGTCAGATCAATCTCACATAAATAATATA
39862957 TAT
1 TAT
39862960 ATCACATACC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (35 bp):
TATTCTCGTCAGATCAATCTCACATAAATAATATA
Found at i:39866527 original size:37 final size:37
Alignment explanation
Indices: 39866474--39866595 Score: 217
Period size: 37 Copynumber: 3.3 Consensus size: 37
39866464 TATAAAAGAA
* *
39866474 GTCTTACCCGGACATAATCTCCACACGTAGTCATTGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
39866511 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
39866548 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
39866585 GTCTCACCCGG
1 GTCTTACCCGG
39866596 AACATATTCC
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 82 1.00
ACGTcount: A:0.21, C:0.33, G:0.20, T:0.26
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:39866752 original size:49 final size:49
Alignment explanation
Indices: 39866697--39866864 Score: 318
Period size: 49 Copynumber: 3.4 Consensus size: 49
39866687 TTTTACATTA
*
39866697 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
*
39866746 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
39866795 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
39866844 GCCATTAGGCCTCATCACATA
1 GCCATTAGGCCTCATCACATA
39866865 ATGTGTTCTA
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 118 1.00
ACGTcount: A:0.30, C:0.33, G:0.09, T:0.27
Consensus pattern (49 bp):
GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
Found at i:39869248 original size:40 final size:40
Alignment explanation
Indices: 39869204--39869300 Score: 99
Period size: 41 Copynumber: 2.4 Consensus size: 40
39869194 TCGATTGTCC
* * **
39869204 TCGGGACATAGCCCGGTTATAGTTA-TTCGCACAATTGCCT
1 TCGGGACATAGCCCGGTT-TAGTAACTTAGCACAAAAGCCT
*
39869244 TCGGGA-ATTAGCCCAGATTTAGTAACTTAGCACAAAAGCCT
1 TCGGGACA-TAGCCC-GGTTTAGTAACTTAGCACAAAAGCCT
*
39869285 TCGGGACTTAGCCCGG
1 TCGGGACATAGCCCGG
39869301 ATACCATTCG
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
39 1 0.02
40 18 0.39
41 27 0.59
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
TCGGGACATAGCCCGGTTTAGTAACTTAGCACAAAAGCCT
Found at i:39869832 original size:29 final size:29
Alignment explanation
Indices: 39869790--39869978 Score: 333
Period size: 29 Copynumber: 6.5 Consensus size: 29
39869780 GAAAAACTCA
* * *
39869790 CACACACAGTGCCTCAATTACTGATCTTG
1 CACACATAGTGCCTCGATTACTGATCTCG
*
39869819 CACACATAGTGCCTCGATTACCGATCTCG
1 CACACATAGTGCCTCGATTACTGATCTCG
39869848 CACACATAGTGCCTCGATTACTGATCTCG
1 CACACATAGTGCCTCGATTACTGATCTCG
39869877 CACACATAGTGCCTCGATTACTGATCTCG
1 CACACATAGTGCCTCGATTACTGATCTCG
*
39869906 CACACATAGTGCCTCAATTACTGATCTCG
1 CACACATAGTGCCTCGATTACTGATCTCG
39869935 CACACATAGTGCCTCGATTACTGATCTCG
1 CACACATAGTGCCTCGATTACTGATCTCG
39869964 CACACATAGTGCCTC
1 CACACATAGTGCCTC
39869979 AATCATTCGC
Statistics
Matches: 153, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 153 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CACACATAGTGCCTCGATTACTGATCTCG
Found at i:39872078 original size:37 final size:37
Alignment explanation
Indices: 39872025--39872115 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
39872015 TATAAAAGAA
39872025 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
39872062 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
39872099 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
39872116 TTCCAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:39872266 original size:49 final size:49
Alignment explanation
Indices: 39872211--39872669 Score: 794
Period size: 49 Copynumber: 9.4 Consensus size: 49
39872201 TTTTACATTA
* *
39872211 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
*
39872260 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
39872309 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
* *
39872358 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
39872407 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
*
39872456 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
*
39872505 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
*
39872554 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
* * *
39872603 GCCATTAGGCCTTATCACATATACATACACTTTCACA-TCATCGCATTG
1 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
* *
39872651 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTCATCACA
39872670 CATATATGTA
Statistics
Matches: 394, Mismatches: 16, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
48 27 0.07
49 367 0.93
ACGTcount: A:0.29, C:0.34, G:0.09, T:0.28
Consensus pattern (49 bp):
GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
Found at i:39880414 original size:31 final size:30
Alignment explanation
Indices: 39880379--39880451 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 30
39880369 AATATCATTC
39880379 TTATA-AAAATTAAATAAAATTATCTTAATAT
1 TTATATAAAATTAAATAAAA--ATCTTAATAT
* * *
39880410 TTATATTAATATTAAATAAAAATGTTTATAT
1 TTATA-TAAAATTAAATAAAAATCTTAATAT
39880441 TTATATAAAAT
1 TTATATAAAAT
39880452 AAACCCCCAC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 5 0.14
31 18 0.50
33 13 0.36
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (30 bp):
TTATATAAAATTAAATAAAAATCTTAATAT
Found at i:39886290 original size:20 final size:20
Alignment explanation
Indices: 39886267--39886306 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
39886257 TCCATATAAA
39886267 AAAAGCTTTCTTAATATCTT
1 AAAAGCTTTCTTAATATCTT
* *
39886287 AAAATCTTTCTTAATTTCTT
1 AAAAGCTTTCTTAATATCTT
39886307 TTTTCATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.50
Consensus pattern (20 bp):
AAAAGCTTTCTTAATATCTT
Found at i:39887581 original size:36 final size:36
Alignment explanation
Indices: 39887540--39887611 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
39887530 TCATCTACAA
39887540 CTTTCTTTTCTTAACTATGCTTTTGATGATTAGATT
1 CTTTCTTTTCTTAACTATGCTTTTGATGATTAGATT
39887576 CTTTCTTTTCTTAACTATGCTTTTGATGATTAGATT
1 CTTTCTTTTCTTAACTATGCTTTTGATGATTAGATT
39887612 GTTTAGAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.19, C:0.14, G:0.11, T:0.56
Consensus pattern (36 bp):
CTTTCTTTTCTTAACTATGCTTTTGATGATTAGATT
Found at i:39889611 original size:22 final size:22
Alignment explanation
Indices: 39889583--39889630 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
39889573 CGAGTAAATA
39889583 GTTAAACTTCAATTCTGGTTTG
1 GTTAAACTTCAATTCTGGTTTG
39889605 GTTAAACTTCAATTCTGGTTTG
1 GTTAAACTTCAATTCTGGTTTG
39889627 GTTA
1 GTTA
39889631 GGATGGAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (22 bp):
GTTAAACTTCAATTCTGGTTTG
Found at i:39891435 original size:40 final size:40
Alignment explanation
Indices: 39891391--39891497 Score: 196
Period size: 40 Copynumber: 2.7 Consensus size: 40
39891381 CCAACCCAAT
* *
39891391 TGCCTTCGGGATTTAGCCCGGATATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
39891431 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
39891471 TGCCTTCGGGACTTAACCCGGATATAA
1 TGCCTTCGGGACTTAACCCGGATATAA
39891498 TGCTCAATTG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
Done.