Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 130 of 205
Found at i:39405496 original size:79 final size:82
Alignment explanation
Indices: 39405385--39405569 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
39405375 GCTACTCGTT
* *
39405385 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
39405448 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
39405465 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
39405528 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
39405545 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39405570 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:39405569 original size:40 final size:40
Alignment explanation
Indices: 39405366--39405569 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
39405356 CGGAATTTAA
** *
39405366 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39405406 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
39405446 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39405485 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
39405525 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
39405565 CCGGA
1 CCGGA
39405570 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:39408971 original size:30 final size:31
Alignment explanation
Indices: 39408937--39409069 Score: 112
Period size: 30 Copynumber: 4.4 Consensus size: 31
39408927 AGCCAAAGTT
*
39408937 ATCCCTTTTCATAATTTAATGGTCGTCA-CC
1 ATCCCTTTTCATAATTTAATGGTCGTAAGCC
* * * *
39408967 ATCCCTTTTCATAATCTGATAGCCG-AAGCC
1 ATCCCTTTTCATAATTTAATGGTCGTAAGCC
* **
39408997 ATCCCTTTTCATAGTTTAATGG-CCAAAGCC
1 ATCCCTTTTCATAATTTAATGGTCGTAAGCC
* * * * *
39409027 ATCCCTTTTCGTAGTTTGATGGTCGTCA-CT
1 ATCCCTTTTCATAATTTAATGGTCGTAAGCC
*
39409057 ATCCCTTTCCATA
1 ATCCCTTTTCATA
39409070 GTTGTAGCCG
Statistics
Matches: 82, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
29 2 0.02
30 78 0.95
31 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.37
Consensus pattern (31 bp):
ATCCCTTTTCATAATTTAATGGTCGTAAGCC
Found at i:39409001 original size:90 final size:88
Alignment explanation
Indices: 39408907--39409125 Score: 269
Period size: 90 Copynumber: 2.5 Consensus size: 88
39408897 AACTGAAGTT
* *
39408907 ATCCCTTTTCATAGTTCGACAGCCAAAGTTATCCCTTTTCATAATTTAATGGTCGTCACCATCCC
1 ATCCCTTTTCATAGTTCGATAGCCAAAGCTATCCCTTTTCATAATTTAATGGTCGTCACCATCCC
*
39408972 TTTTCATAATCTGATAGCCGAAGCC
66 TTTCCATAAT-TG-TAGCCGAAGCC
** * * * * * *
39408997 ATCCCTTTTCATAGTTTAATGGCCAAAGCCATCCCTTTTCGTAGTTTGATGGTCGTCACTATCCC
1 ATCCCTTTTCATAGTTCGATAGCCAAAGCTATCCCTTTTCATAATTTAATGGTCGTCACCATCCC
* *
39409062 TTTCCATAGTTGTAGCCGAAGCT
66 TTTCCATAATTGTAGCCGAAGCC
* **
39409085 ATCCCTTTTCGTA-TTCGATAGCTGAAGCTATCCCTTTTCAT
1 ATCCCTTTTCATAGTTCGATAGCCAAAGCTATCCCTTTTCAT
39409126 TTGTCAATGA
Statistics
Matches: 108, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
87 21 0.19
88 22 0.20
89 2 0.02
90 63 0.58
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.37
Consensus pattern (88 bp):
ATCCCTTTTCATAGTTCGATAGCCAAAGCTATCCCTTTTCATAATTTAATGGTCGTCACCATCCC
TTTCCATAATTGTAGCCGAAGCC
Found at i:39417551 original size:13 final size:13
Alignment explanation
Indices: 39417533--39417564 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
39417523 TTTCCAGCAA
39417533 TTATGAATTTATT
1 TTATGAATTTATT
39417546 TTATGAATTTATT
1 TTATGAATTTATT
*
39417559 TGATGA
1 TTATGA
39417565 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:39417772 original size:50 final size:50
Alignment explanation
Indices: 39417659--39417907 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
39417649 ATTTGGGTAA
* * *
39417659 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC--AAGA-C--G
39417715 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGACG
* *
39417765 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGACG
* * * * * *
39417815 AGAGGTCCCCTATAAGACTATGTCTGGGACATGGC-ATGAGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTG-GCACCAAGACG
** * *
39417865 AGAACATCCCATGTAAGACCATGTCTGGGACATGACTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
39417908 TGTTATTATC
Statistics
Matches: 172, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
49 2 0.01
50 92 0.53
51 30 0.17
52 3 0.02
53 3 0.02
55 2 0.01
56 40 0.23
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGACG
Found at i:39417858 original size:100 final size:103
Alignment explanation
Indices: 39417659--39417908 Score: 328
Period size: 100 Copynumber: 2.4 Consensus size: 103
39417649 ATTTGGGTAA
39417659 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGA--ATGAGAGGTCCC
* * *
39417724 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGACG
63 ATATAAGACCATGTCTGGGACATGGCGATGGCACCAACACG
* * *
39417765 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GAG-ATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCATA
* *
39417827 TAAGACTATGTCTGGGACATGGC-ATGAGCACCAACATG
66 TAAGACCATGTCTGGGACATGGCGATG-GCACCAACACG
* * *
39417865 AGAACATCCCATGTAAGACCATGTCTGGGACATGACTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
39417909 GTTATTATCA
Statistics
Matches: 129, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
99 2 0.02
100 46 0.36
101 36 0.28
103 3 0.02
105 2 0.02
106 40 0.31
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCATA
TAAGACCATGTCTGGGACATGGCGATGGCACCAACACG
Found at i:39426563 original size:29 final size:29
Alignment explanation
Indices: 39426521--39426641 Score: 161
Period size: 29 Copynumber: 4.2 Consensus size: 29
39426511 GTGTGCAAAA
39426521 CGATGGTCGAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
*
39426550 CGATGGTTGAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* ** *
39426579 CTATGGTCGTCACCATCCCTTTTCATTTT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* **
39426608 TGATGGTCGTCACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
*
39426637 TGATG
1 CGATG
39426642 ATTGTAGATA
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 83 1.00
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.40
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATATT
Found at i:39433417 original size:3 final size:3
Alignment explanation
Indices: 39433411--39433436 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
39433401 TTCTTCAAGG
39433411 TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TC
39433437 TTGAGGGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:39448547 original size:47 final size:47
Alignment explanation
Indices: 39448405--39448549 Score: 182
Period size: 47 Copynumber: 3.1 Consensus size: 47
39448395 CCCTTCGGGA
* * * * * * *
39448405 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*** *
39448452 CCCGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39448499 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39448546 CTTA
1 CTTA
39448550 CTATCATTTC
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 82 1.00
ACGTcount: A:0.26, C:0.32, G:0.10, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39456170 original size:27 final size:27
Alignment explanation
Indices: 39456108--39456170 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
39456098 GGTTTTGACC
*
39456108 CACAGCTCATGTGAGCAGGCCCATTTT
1 CACAGCTCGTGTGAGCAGGCCCATTTT
* *
39456135 CATAGCTCGTGTGAGTAGGCCCATTTT
1 CACAGCTCGTGTGAGCAGGCCCATTTT
39456162 CACAGCTCG
1 CACAGCTCG
39456171 AGTAAGCACA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (27 bp):
CACAGCTCGTGTGAGCAGGCCCATTTT
Found at i:39458115 original size:25 final size:25
Alignment explanation
Indices: 39458085--39458132 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
39458075 TAGGCGAGTC
39458085 ATATCAGGAAGCTC-TCAAAGAGCCT
1 ATATCAGGAAGCTCAT-AAAGAGCCT
*
39458110 ATATCAGGACGCTCATAAAGAGC
1 ATATCAGGAAGCTCATAAAGAGC
39458133 TGCGGTATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.19
Consensus pattern (25 bp):
ATATCAGGAAGCTCATAAAGAGCCT
Found at i:39465956 original size:51 final size:50
Alignment explanation
Indices: 39465886--39466080 Score: 214
Period size: 51 Copynumber: 3.9 Consensus size: 50
39465876 ATCAATGATG
* * * *
39465886 TTCGGTTCACATAGTAGCCTGCACATAGTACTGCACATGTGACAATTACCA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACAA-TACCA
* * *
39465937 TTCGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCCAA-ACTA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA--CAATACCA
* * * * * * *
39465988 TCCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGAC-CTATCA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACAATACCA
39466037 TTCTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGAC
1 TTC-GGTACACGTAGTAGCCTGCACATAGTACTACACACGTGAC
39466081 CATCACTTTC
Statistics
Matches: 118, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
49 5 0.04
50 36 0.31
51 74 0.63
53 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACAATACCA
Found at i:39466072 original size:101 final size:101
Alignment explanation
Indices: 39465895--39466079 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
39465885 GTTCGGTTCA
* * *
39465895 CATAGTAGCCTGCACATAGTACTGCACATGTGACAATTACCATTCGATACACGTAGTAGCCTACA
1 CATAGTAGCCTGCACATAGTACTACACATGCGAC-ACTACCATTCGATACACGTAGTAGCCTACA
39465960 CATAGTACTACACACGTGATCCAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCCAAACTATCCGGTACG
* * *
39465997 CATAGTAGCCTGCACATAGTACTACACATGCGAC-CTATCATTCTGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACACTACCATTC-GATACACGTAGTAGCCTACA
39466061 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
39466080 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 7 0.09
101 37 0.49
102 32 0.42
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACACTACCATTCGATACACGTAGTAGCCTACAC
ATAGTACTACACACGTGATCCAAACTATCCGGTACG
Found at i:39472385 original size:17 final size:17
Alignment explanation
Indices: 39472363--39472395 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
39472353 CAGTAACATT
*
39472363 AAAATGCAATGACAATA
1 AAAATGCAACGACAATA
39472380 AAAATGCAACGACAAT
1 AAAATGCAACGACAAT
39472396 GTGCACTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (17 bp):
AAAATGCAACGACAATA
Found at i:39474175 original size:80 final size:80
Alignment explanation
Indices: 39474042--39474200 Score: 309
Period size: 80 Copynumber: 2.0 Consensus size: 80
39474032 AGTTTCTTTA
*
39474042 ATGTTGAAGAAGGCTGGAAACGTAACAAGAATTCTTAAACAAGTTAGATAATGAAATCGACACAT
1 ATGTTGAAGAAGGCTGGAAACGTAACAAGAATTCTTAAACAAGTTAGATAATGAAATCGACACAA
39474107 GCAGAAATTAAAAAT
66 GCAGAAATTAAAAAT
39474122 ATGTTGAAGAAGGCTGGAAACGTAACAAGAATTCTTAAACAAGTTAGATAATGAAATCGACACAA
1 ATGTTGAAGAAGGCTGGAAACGTAACAAGAATTCTTAAACAAGTTAGATAATGAAATCGACACAA
39474187 GCAGAAATTAAAAA
66 GCAGAAATTAAAAA
39474201 GAGATTGAAC
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.48, C:0.11, G:0.19, T:0.21
Consensus pattern (80 bp):
ATGTTGAAGAAGGCTGGAAACGTAACAAGAATTCTTAAACAAGTTAGATAATGAAATCGACACAA
GCAGAAATTAAAAAT
Found at i:39474952 original size:89 final size:89
Alignment explanation
Indices: 39474838--39475032 Score: 390
Period size: 89 Copynumber: 2.2 Consensus size: 89
39474828 GCTTTGGTTT
39474838 CAAGATTCAGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAA
1 CAAGATTCAGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAA
39474903 TCGCTCCAAACAACAAAATTGGGC
66 TCGCTCCAAACAACAAAATTGGGC
39474927 CAAGATTCAGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAA
1 CAAGATTCAGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAA
39474992 TCGCTCCAAACAACAAAATTGGGC
66 TCGCTCCAAACAACAAAATTGGGC
39475016 CAAGATTCAGTTTCTTG
1 CAAGATTCAGTTTCTTG
39475033 ATTTTCTTGA
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 106 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (89 bp):
CAAGATTCAGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAA
TCGCTCCAAACAACAAAATTGGGC
Found at i:39475857 original size:15 final size:15
Alignment explanation
Indices: 39475834--39475864 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
39475824 ACATGTAGTG
39475834 GAATAAATTAATTTC
1 GAATAAATTAATTTC
*
39475849 GAATTAATTAATTTC
1 GAATAAATTAATTTC
39475864 G
1 G
39475865 TACCAAGCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (15 bp):
GAATAAATTAATTTC
Found at i:39481898 original size:89 final size:89
Alignment explanation
Indices: 39481798--39481992 Score: 390
Period size: 89 Copynumber: 2.2 Consensus size: 89
39481788 GCTTTGGTTG
39481798 CAAGATTCGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAA
1 CAAGATTCGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAA
39481863 TCGCTCCAAACAACAAAATTGGGC
66 TCGCTCCAAACAACAAAATTGGGC
39481887 CAAGATTCGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAA
1 CAAGATTCGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAA
39481952 TCGCTCCAAACAACAAAATTGGGC
66 TCGCTCCAAACAACAAAATTGGGC
39481976 CAAGATTCGGTTTCTTG
1 CAAGATTCGGTTTCTTG
39481993 ATTTTCTTGA
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 106 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (89 bp):
CAAGATTCGGTTTCTTGGACCAAGATTTCCAAGATTTGAAATCTTGATTTTCTTGATTCTTGAAA
TCGCTCCAAACAACAAAATTGGGC
Found at i:39489204 original size:40 final size:40
Alignment explanation
Indices: 39489160--39489383 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
39489150 AAGTGAATAT
* * * * **
39489160 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
39489200 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
39489240 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
39489280 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
39489320 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
39489359 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
39489384 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:39489258 original size:80 final size:80
Alignment explanation
Indices: 39489121--39489383 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
39489111 TTGAATGCTG
* * * * *
39489121 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
39489183 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
39489201 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
39489266 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
39489281 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
39489345 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
39489360 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
39489384 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:39489335 original size:120 final size:120
Alignment explanation
Indices: 39489121--39489383 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
39489111 TTGAATGCTG
* * *
39489121 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
39489185 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
39489241 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
39489303 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
39489360 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
39489384 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:39497139 original size:40 final size:39
Alignment explanation
Indices: 39497108--39497317 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
39497098 GGACTAAGAT
* *
39497108 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
39497148 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
39497188 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
39497228 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
39497268 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
39497307 CCGAAGGCATT
1 CCGAAGGCATT
39497318 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:39497271 original size:120 final size:120
Alignment explanation
Indices: 39497055--39497317 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
39497045 TTGAATGCTG
* *
39497055 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
39497119 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
39497175 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
39497238 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
39497294 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
39497318 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:39497337 original size:79 final size:80
Alignment explanation
Indices: 39497108--39497352 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
39497098 GGACTAAGAT
* * * * * * * ** *
39497108 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
39497171 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
39497188 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
39497253 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
39497268 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
39497332 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
39497346 CCGAAGG
1 CCGAAGG
39497353 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:39501801 original size:18 final size:17
Alignment explanation
Indices: 39501766--39501813 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
39501756 GTTGTAATGA
39501766 AAAAAGA-AAAAGATATTG
1 AAAAAGAGAAAA-A-ATTG
39501784 AAAAAGAGGAAAAAATTG
1 AAAAAGA-GAAAAAATTG
*
39501802 AAAGAGAGAAAA
1 AAAAAGAGAAAA
39501814 GAATAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 5 0.19
18 17 0.63
19 1 0.04
20 4 0.15
ACGTcount: A:0.69, C:0.00, G:0.21, T:0.10
Consensus pattern (17 bp):
AAAAAGAGAAAAAATTG
Found at i:39505917 original size:8 final size:9
Alignment explanation
Indices: 39505894--39505928 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
39505884 ACCGAGCCGT
39505894 AAAATATGTA
1 AAAATAT-TA
39505904 AAAATATT-
1 AAAATATTA
39505912 AAAATATTA
1 AAAATATTA
39505921 AAAATATT
1 AAAATATT
39505929 TACAGAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 9 0.38
10 7 0.29
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (9 bp):
AAAATATTA
Found at i:39505924 original size:17 final size:18
Alignment explanation
Indices: 39505893--39505928 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
39505883 AACCGAGCCG
39505893 TAAAATATGTAAAAATAT
1 TAAAATATGTAAAAATAT
39505911 TAAAATAT-TAAAAATAT
1 TAAAATATGTAAAAATAT
39505928 T
1 T
39505929 TACAGAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
TAAAATATGTAAAAATAT
Found at i:39509680 original size:27 final size:27
Alignment explanation
Indices: 39509650--39509709 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
39509640 ATGTATGAGA
39509650 TTGATTGATTTTTCTATGAATGATGTT
1 TTGATTGATTTTTCTATGAATGATGTT
39509677 TTGATTGATTTTTCTATGAATGATGTT
1 TTGATTGATTTTTCTATGAATGATGTT
*
39509704 ATGATT
1 TTGATT
39509710 TAATCTTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.23, C:0.03, G:0.18, T:0.55
Consensus pattern (27 bp):
TTGATTGATTTTTCTATGAATGATGTT
Found at i:39522899 original size:3 final size:3
Alignment explanation
Indices: 39522874--39522940 Score: 50
Period size: 3 Copynumber: 22.7 Consensus size: 3
39522864 TATTAAATTA
* * * *
39522874 ATT ATT -TT AAT ATT AAT -TT ATT ATT ATTT ATT ATT ATT ACT CTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT
*
39522918 ATT ATT ATT GA-T ATT ATT CTT AT
1 ATT ATT ATT -ATT ATT ATT ATT AT
39522941 ATTTGGTTAT
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
2 4 0.08
3 41 0.84
4 4 0.08
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:39522934 original size:15 final size:13
Alignment explanation
Indices: 39522891--39522944 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 13
39522881 TAATATTAAT
39522891 TTATTATTATTTA
1 TTATTATTATTTA
39522904 TTATTATTACTCTTA
1 TTATTATTA-T-TTA
39522919 TTATTATTGATATTA
1 TTATTATT-AT-TTA
*
39522934 TTCTTA-TATTT
1 TTATTATTATTT
39522945 GGTTATATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
12 2 0.06
13 11 0.31
14 2 0.06
15 20 0.56
16 1 0.03
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.65
Consensus pattern (13 bp):
TTATTATTATTTA
Found at i:39527925 original size:10 final size:10
Alignment explanation
Indices: 39527904--39527941 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
39527894 AAATGATTAT
39527904 GAAAAAGAAAA
1 GAAAAAG-AAA
39527915 GAAAAAGAAA
1 GAAAAAGAAA
*
39527925 GAAAAGGAAA
1 GAAAAAGAAA
39527935 -AAAAAGA
1 GAAAAAGA
39527942 GCGCCTTGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 6 0.24
10 12 0.48
11 7 0.28
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
GAAAAAGAAA
Found at i:39527925 original size:15 final size:15
Alignment explanation
Indices: 39527905--39527941 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
39527895 AATGATTATG
39527905 AAAAAGAAAA-GAAA
1 AAAAAGAAAAGGAAA
39527919 AAGAAAGAAAAGGAAA
1 AA-AAAGAAAAGGAAA
39527935 AAAAAGA
1 AAAAAGA
39527942 GCGCCTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.10
15 13 0.62
16 6 0.29
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAGGAAA
Found at i:39530447 original size:46 final size:49
Alignment explanation
Indices: 39530363--39530493 Score: 169
Period size: 46 Copynumber: 2.7 Consensus size: 49
39530353 AAATACTTCG
** *
39530363 CCTAAAGAAGGAGAAGAGACCAAGGTGAAAACTTGTAAAGGGTGTCTTGAGT
1 CCTAAAGAA--AG-AGAGACCAAGGTGAAAACCCGTAAAGGGCGTCTTGAGT
39530415 CCTAAA-AAA-A-AGACCAAGGTGAAAACCCGTAAAGGGCGTCTTGAGT
1 CCTAAAGAAAGAGAGACCAAGGTGAAAACCCGTAAAGGGCGTCTTGAGT
*
39530461 CCTAAAGAAAGGAGAGGCCAAGGTGAAAACCCG
1 CCTAAAGAAA-GAGAGACCAAGGTGAAAACCCG
39530494 CAAAATGAGG
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
46 39 0.55
47 4 0.06
49 2 0.03
50 18 0.25
51 2 0.03
52 6 0.08
ACGTcount: A:0.40, C:0.17, G:0.28, T:0.15
Consensus pattern (49 bp):
CCTAAAGAAAGAGAGACCAAGGTGAAAACCCGTAAAGGGCGTCTTGAGT
Found at i:39531679 original size:51 final size:51
Alignment explanation
Indices: 39531608--39532600 Score: 764
Period size: 51 Copynumber: 20.2 Consensus size: 51
39531598 TCAAAATAGT
* *
39531608 GAATCTT-TTT-CCTCGAGCGTTGCAGTGGAGCAGATTAAAGCTGAAGGCAAC
1 GAATCTTATTTCCCT-G-GCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* *
39531659 GAATCTCATTTCCCTGGCGTTGCAGTGGAACAGATTGAAGCTGAAGGCAGC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* * ** * * *
39531710 AAATCTTATTGCCCTGATGTTGTAGTGGAATAGATTAAAGCTGAAGGTAGC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* * *
39531761 -AATCTTATTTCTCTGGCATTACAGTGGAACAGATTAAAGCTGAAGGCAGC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* * * * *
39531811 AAATCTGATTTCCTTAGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAAC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* * * *
39531862 GAAACTTATTTGCCTGGCGTTGTAGT-----AGATCAAAGCAT-AAGGCAGC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGC-TGAAGGCAGC
* * *
39531908 GAATCTTTTTTCTC-GGCTGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGT
1 GAATCTTATTTCCCTGGC-GTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* * *
39531959 GAATCTTATTTCCCTGACGTTGCAGTGGAACAGAGTAAAGCTAAAGGCAGC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* * * ** * * *
39532010 GAATTTTATTTCCTTAGTATTGTAGTGGAACAGATTAAAGTTGAAGGCGGC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
*
39532061 GAATCTTATTTCCCTGGCGTTGCA---G--CAGATTAAAGCTGAAGGCAGT
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* * * **
39532107 GAATCTTTTTTCCCGGGCGTTGTAGTGGAACAGATTAAAGCTGAAGGCAAT
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* * *
39532158 GAATCTTATTTCCCTGGCATTGTAGTGGAACAGATTAAAGTTGAAGGCAGC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* * * * * * *
39532209 AAACCTTATTTCCTTAGTGTTGCAGTGGAATAGATTAAAGCTGAAGGCAGT
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* * *
39532260 AAATC-T-TTT---T---GTTGCAGTGGAACAGATTAAAGCTGAAGGCCGT
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* * * * * *
39532303 TAATCTTTTTTCCCTGGTGATACAGT-----AGATTAAAGCTAAAGGCAGC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* * *** *
39532349 GAATCTTATTTCCCT-GCTGTTGCAGTGGAATAGATTAAAGCTACAAATTATGGT
1 GAATCTTATTTCCCTGGC-GTTGCAGTGGAACAGATTAAAGCT-GAAGGCA--GC
* ** * * * *
39532403 GGATCTTATCTT-CCTGAAGTTGTAGTGGAGC--A-T--A-TTGAAGCCA-C
1 GAATCTTAT-TTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* * * * ** * * * *
39532447 -CAGCTTATCTCCTTGAAGTTGTAGT-G-A-AG--CAAA-CTGAAGACAAC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* **
39532491 GAATCTTACTTCCCTGGCGTTGCAGTGGAACAGATTAAAATTGAAGGCAGC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
* *
39532542 GAATCTTATTTCCCTGGCATTGCAGTGGAACATATTAAAGCTGGAA-GCAGC
1 GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCT-GAAGGCAGC
39532593 GAAT-TTAT
1 GAATCTTAT
39532601 CCCTAAAGTT
Statistics
Matches: 745, Mismatches: 147, Indels: 101
0.75 0.15 0.10
Matches are distributed among these distances:
42 2 0.00
43 62 0.08
44 2 0.00
45 24 0.03
46 110 0.15
47 5 0.01
48 5 0.01
49 5 0.01
50 50 0.07
51 440 0.59
52 13 0.02
53 3 0.00
54 22 0.03
55 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (51 bp):
GAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC
Found at i:39531980 original size:148 final size:147
Alignment explanation
Indices: 39531608--39532600 Score: 709
Period size: 148 Copynumber: 6.7 Consensus size: 147
39531598 TCAAAATAGT
* ** *
39531608 GAATCTT-TTTCCTCGAGCGTTGCAGTGGAGCAGATTAAAGCTGAAGGCAACGAATCTCATTTCC
1 GAATCTTATTT-CTCG-GCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGTGAATCTTATTTCC
* * * * * *
39531672 CTGGCGTTGCAGTGGAACAGATTGAAGCTGAAGGCAGCAAATCTTATTGCCCTGATGTTGTAGTG
64 CTGACGTTGCAGTGGAACAGATTAAAGCTGAAGGCAACGAATCTTATTTCCCTGGTGTTGTA---
*
39531737 GAATAGATTAAAGCTGAAGGTAGC
126 G--TAGATTAAAGCTGAAGGCAGC
* * ** *
39531761 -AATCTTATTTCTCTGGCATTACAGTGGAACAGATTAAAGCTGAAGGCAGCAAATCTGATTT-CC
1 GAATCTTATTTCTC-GGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGTGAATCTTATTTCCC
* * * *
39531824 TTAGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAACGAAACTTATTTGCCTGGCGTTGTAGTA
65 TGA-CGTTGCAGTGGAACAGATTAAAGCTGAAGGCAACGAATCTTATTTCCCTGGTGTTGTAGTA
*
39531889 GATCAAAGCAT-AAGGCAGC
129 GATTAAAGC-TGAAGGCAGC
*
39531908 GAATCTTTTTTCTCGGCTGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGTGAATCTTATTTCCC
1 GAATCTTATTTCTCGGC-GTTGCAGTGGAACAGATTAAAGCTGAAGGCAGTGAATCTTATTTCCC
* * * * * * *
39531973 TGACGTTGCAGTGGAACAGAGTAAAGCTAAAGGCAGCGAATTTTATTTCCTTAGTATTGTAGTGG
65 TGACGTTGCAGTGGAACAGATTAAAGCTGAAGGCAACGAATCTTATTTCCCTGGTGTTGTAGT--
* *
39532038 AACAGATTAAAGTTGAAGGCGGC
128 ---AGATTAAAGCTGAAGGCAGC
* *
39532061 GAATCTTATTTCCCTGGCGTTGCA---G--CAGATTAAAGCTGAAGGCAGTGAATCTTTTTTCCC
1 GAATCTTATTTCTC-GGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGTGAATCTTATTTCCC
* * * * **
39532121 GGGCGTTGTAGTGGAACAGATTAAAGCTGAAGGCAATGAATCTTATTTCCCTGGCATTGTAGTGG
65 TGACGTTGCAGTGGAACAGATTAAAGCTGAAGGCAACGAATCTTATTTCCCTGGTGTTGTAGT--
*
39532186 AACAGATTAAAGTTGAAGGCAGC
128 ---AGATTAAAGCTGAAGGCAGC
* * ** * * *
39532209 AAACCTTATTTCCTTAGTGTTGCAGTGGAATAGATTAAAGCTGAAGGCAGTAAATC-T-TTT---
1 GAATCTTATTT-CTCGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGTGAATCTTATTTCCC
* * **
39532269 T---GTTGCAGTGGAACAGATTAAAGCTGAAGGC--CGTTAATCTTTTTTCCCTGGTGATACAGT
65 TGACGTTGCAGTGGAACAGATTAAAGCTGAAGGCAACG--AATCTTATTTCCCTGGTGTTGTAGT
*
39532329 AGATTAAAGCTAAAGGCAGC
128 AGATTAAAGCTGAAGGCAGC
* * * * *** *
39532349 GAATCTTATTTCCCTGCTGTTGCAGTGGAATAGATTAAAGCTACAAATTATGGTGGATCTTATCT
1 GAATCTTATTTCTCGGC-GTTGCAGTGGAACAGATTAAAGCT-GAAGGCA--GTGAATCTTAT-T
* * * * * * * * * **
39532414 T-CCTGAAGTTGTAGTGGAGC--A-T--A-TTGAA-GCCAC-CAGCTTATCTCCTTGAAGTTGTA
61 TCCCTGACGTTGCAGTGGAACAGATTAAAGCTGAAGGCAACGAATCTTATTTCCCTGGTGTTGTA
** * *
39532470 GT-GAAGCAAA-CTGAAGACAAC
126 GTAG-ATTAAAGCTGAAGGCAGC
* * ** *
39532491 GAATCTTACTTCCCTGGCGTTGCAGTGGAACAGATTAAAATTGAAGGCAGCGAATCTTATTTCCC
1 GAATCTTATTTCTC-GGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGTGAATCTTATTTCCC
* * * *
39532556 TGGCATTGCAGTGGAACATATTAAAGCTGGAA-GCAGCGAAT-TTAT
65 TGACGTTGCAGTGGAACAGATTAAAGCT-GAAGGCAACGAATCTTAT
39532601 CCCTAAAGTT
Statistics
Matches: 670, Mismatches: 123, Indels: 101
0.75 0.14 0.11
Matches are distributed among these distances:
138 2 0.00
139 25 0.04
140 51 0.08
141 7 0.01
142 44 0.07
143 27 0.04
144 4 0.01
145 54 0.08
146 14 0.02
147 21 0.03
148 230 0.34
149 7 0.01
150 1 0.00
151 18 0.03
152 101 0.15
153 61 0.09
154 3 0.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (147 bp):
GAATCTTATTTCTCGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGTGAATCTTATTTCCCT
GACGTTGCAGTGGAACAGATTAAAGCTGAAGGCAACGAATCTTATTTCCCTGGTGTTGTAGTAGA
TTAAAGCTGAAGGCAGC
Found at i:39532026 original size:199 final size:199
Alignment explanation
Indices: 39531609--39532390 Score: 829
Period size: 199 Copynumber: 3.9 Consensus size: 199
39531599 CAAAATAGTG
* * *
39531609 AATCTT-TTTCCTCGAGCGTTGCAGTGGAGCAGATTAAAGCTGAAGGCAACGAATCTCATTTCCC
1 AATCTTATTTCCT-TAGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAACGAATCTTATTTCCC
* * * * * *
39531673 TGGCGTTGCAGTGGAACAGATTGAAGCTGAAGGCAGCAAATCTTATTGCCCTGATGTTGTAGTGG
65 TGGCGTTGCAGT-----AGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCCGGCTGTTGTAGTGG
* * * * *
39531738 AATAGATTAAAGCTGAAGGTAG-CAATCTTATTTCTCTGGCATTACAGTGGAACAGATTAAAGCT
125 AACAGATTAAAGCTGAAGGCAGTGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCT
39531802 GAAGGCAGCA
190 GAAGGCAGCA
* * *
39531812 AATCTGATTTCCTTAGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAACGAAACTTATTTGCCT
1 AATCTTATTTCCTTAGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAACGAATCTTATTTCCCT
* * * *
39531877 GGCGTTGTAGTAGATCAAAGCAT-AAGGCAGCGAATCTTTTTTCTCGGCTGTTGCAGTGGAACAG
66 GGCGTTGCAGTAGATTAAAGC-TGAAGGCAGCGAATCTTTTTTCCCGGCTGTTGTAGTGGAACAG
* * * *
39531941 ATTAAAGCTGAAGGCAGTGAATCTTATTTCCCTGACGTTGCAGTGGAACAGAGTAAAGCTAAAGG
130 ATTAAAGCTGAAGGCAGTGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGAAGG
*
39532006 CAGCG
195 CAGCA
* ** * * **
39532011 AATTTTATTTCCTTAGTATTGTAGTGGAACAGATTAAAGTTGAAGGCGGCGAATCTTATTTCCCT
1 AATCTTATTTCCTTAGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAACGAATCTTATTTCCCT
* *
39532076 GGCGTTGCAGCAGATTAAAGCTGAAGGCAGTGAATCTTTTTTCCCGGGC-GTTGTAGTGGAACAG
66 GGCGTTGCAGTAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCC-GGCTGTTGTAGTGGAACAG
* * *
39532140 ATTAAAGCTGAAGGCAATGAATCTTATTTCCCTGGCATTGTAGTGGAACAGATTAAAGTTGAAGG
130 ATTAAAGCTGAAGGCAGTGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGAAGG
39532205 CAGCA
195 CAGCA
* * * *** *
39532210 AACCTTATTTCCTTAGTGTTGCAGTGGAATAGATTAAAGCTGAAGGCAGTAAATCTT-TTT--GT
1 AATCTTATTTCCTTAGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAACGAATCTTATTTCCCT
* * ** * ** * **
39532272 TGCAG-TGGAACAGATTAAAGCTGAAGGCCGTTAATCTTTTTTCCCTGG-TGATACAGT-----A
66 GGC-GTTGCAGTAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCC-GGCTGTTGTAGTGGAACA
* * * *
39532330 GATTAAAGCTAAAGGCAGCGAATCTTATTTCCCT-GCTGTTGCAGTGGAATAGATTAAAGCT
129 GATTAAAGCTGAAGGCAGTGAATCTTATTTCCCTGGC-ATTGCAGTGGAACAGATTAAAGCT
39532391 ACAAATTATG
Statistics
Matches: 495, Mismatches: 76, Indels: 28
0.83 0.13 0.05
Matches are distributed among these distances:
190 2 0.00
191 52 0.11
196 46 0.09
197 1 0.00
198 61 0.12
199 262 0.53
200 3 0.01
203 62 0.13
204 6 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (199 bp):
AATCTTATTTCCTTAGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAACGAATCTTATTTCCCT
GGCGTTGCAGTAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCCGGCTGTTGTAGTGGAACAGA
TTAAAGCTGAAGGCAGTGAATCTTATTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGC
AGCA
Found at i:39532287 original size:43 final size:43
Alignment explanation
Indices: 39532226--39532312 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
39532216 ATTTCCTTAG
*
39532226 TGTTGCAGTGGAATAGATTAAAGCTGAAGGCAGTAAATCTTTT
1 TGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGTAAATCTTTT
* *
39532269 TGTTGCAGTGGAACAGATTAAAGCTGAAGGCCGTTAATCTTTT
1 TGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGTAAATCTTTT
39532312 T
1 T
39532313 TCCCTGGTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGTAAATCTTTT
Found at i:39532715 original size:44 final size:45
Alignment explanation
Indices: 39532600--39532717 Score: 130
Period size: 44 Copynumber: 2.6 Consensus size: 45
39532590 AGCGAATTTA
* * * *
39532600 TCCCTAAAGTTGTAGTGAAGCAGACTAAAGATAGCAAATCTTATC
1 TCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATCATATC
* ** *
39532645 TCCCTAAAGTTGCAATGGAATAGATTAAAGCTA-CAAATCATATC
1 TCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATCATATC
* * *
39532689 TCCTTGAAGTTGCAGTGGAGCGGATTAAA
1 TCCCTAAAGTTGCAGTGGAGCAGATTAAA
39532718 ACGATGAATC
Statistics
Matches: 59, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
44 33 0.56
45 26 0.44
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27
Consensus pattern (45 bp):
TCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATCATATC
Found at i:39534198 original size:18 final size:19
Alignment explanation
Indices: 39534175--39534216 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
39534165 AGGTCCTTCC
39534175 AATTTT-TTTTATTATT-TT
1 AATTTTATTTT-TTATTCTT
39534193 AATTTTATTTTTTATTCTT
1 AATTTTATTTTTTATTCTT
39534212 AATTT
1 AATTT
39534217 ATACCCCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (19 bp):
AATTTTATTTTTTATTCTT
Found at i:39536012 original size:27 final size:28
Alignment explanation
Indices: 39535982--39536035 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
39535972 TAGCAGGCTT
39535982 TCCC-AAAGACTAACCTATAGGGTGTCA
1 TCCCTAAAGACTAACCTATAGGGTGTCA
39536009 TCCCTAAAGACTAACCTATAGGGTGTC
1 TCCCTAAAGACTAACCTATAGGGTGTC
39536036 TTATATCCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (28 bp):
TCCCTAAAGACTAACCTATAGGGTGTCA
Found at i:39538904 original size:28 final size:28
Alignment explanation
Indices: 39538873--39538939 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
39538863 TATACGACAT
39538873 GCAGTAACAGTCTAGGCCTGAGCCCTAA
1 GCAGTAACAGTCTAGGCCTGAGCCCTAA
*
39538901 GCAGTAACAGTCTAGGCCTTAGCCCTAA
1 GCAGTAACAGTCTAGGCCTGAGCCCTAA
39538929 GCAGTAACAGT
1 GCAGTAACAGT
39538940 GTAATATGGG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.19
Consensus pattern (28 bp):
GCAGTAACAGTCTAGGCCTGAGCCCTAA
Found at i:39539375 original size:27 final size:27
Alignment explanation
Indices: 39539332--39539593 Score: 278
Period size: 27 Copynumber: 9.7 Consensus size: 27
39539322 TATAACAGAT
* *
39539332 GAGGGTATTTCAGTCATTTTACCTTTG
1 GAGGGTATTTCAATCATTTTACCTTTC
* *
39539359 GGGGGTATTTCAATCATTTTACCCTTC
1 GAGGGTATTTCAATCATTTTACCTTTC
** *
39539386 GAGGGTATTTCGGTCATTTTACCTTTT
1 GAGGGTATTTCAATCATTTTACCTTTC
* * * *
39539413 TAGGGTTTTTCGATTATTTTACCCTTT-
1 GAGGGTATTTCAATCATTTTA-CCTTTC
* *
39539440 AAGGGTATTTCAATCATTTTACCCTTC
1 GAGGGTATTTCAATCATTTTACCTTTC
* *
39539467 GAGGGTATTTCAGTTATTTTATCC-TTC
1 GAGGGTATTTCAATCATTTTA-CCTTTC
*
39539494 GAGGGTATTTCGATCATTTTACCCTTT-
1 GAGGGTATTTCAATCATTTTA-CCTTTC
* *
39539521 GAGGGTATTTCAGTCATTTTATCTTTC
1 GAGGGTATTTCAATCATTTTACCTTTC
* * *
39539548 GAGGGGATTTCAGTCATTTTACCCTTC
1 GAGGGTATTTCAATCATTTTACCTTTC
*
39539575 GAGGGTATTTCGATCATTT
1 GAGGGTATTTCAATCATTT
39539594 GCCCATGAAT
Statistics
Matches: 196, Mismatches: 34, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
26 8 0.04
27 179 0.91
28 9 0.05
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (27 bp):
GAGGGTATTTCAATCATTTTACCTTTC
Found at i:39539468 original size:81 final size:80
Alignment explanation
Indices: 39539332--39539593 Score: 348
Period size: 81 Copynumber: 3.2 Consensus size: 80
39539322 TATAACAGAT
**
39539332 GAGGGTATTTC-AGTCATTTTA-CCTTTGGGGGGTATTTCAATCATTTTACCCTTCGAGGGTATT
1 GAGGGTATTTCGA-TCATTTTACCCTTT-AAGGGTATTTCAATCATTTTACCCTTCGAGGGTATT
* *
39539395 TCGGTCATTTTACCTTTT
64 TCAGTCATTTTACC-TTC
* * *
39539413 TAGGGTTTTTCGATTATTTTACCCTTTAAGGGTATTTCAATCATTTTACCCTTCGAGGGTATTTC
1 GAGGGTATTTCGATCATTTTACCCTTTAAGGGTATTTCAATCATTTTACCCTTCGAGGGTATTTC
*
39539478 AGTTATTTTATCCTTC
66 AGTCATTTTA-CCTTC
* * * * *
39539494 GAGGGTATTTCGATCATTTTACCCTTTGAGGGTATTTCAGTCATTTTATCTTTCGAGGGGATTTC
1 GAGGGTATTTCGATCATTTTACCCTTTAAGGGTATTTCAATCATTTTACCCTTCGAGGGTATTTC
39539559 AGTCATTTTACCCTTC
66 AGTCATTTTA-CCTTC
39539575 GAGGGTATTTCGATCATTT
1 GAGGGTATTTCGATCATTT
39539594 GCCCATGAAT
Statistics
Matches: 160, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
81 152 0.95
82 8 0.05
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (80 bp):
GAGGGTATTTCGATCATTTTACCCTTTAAGGGTATTTCAATCATTTTACCCTTCGAGGGTATTTC
AGTCATTTTACCTTC
Found at i:39545160 original size:42 final size:43
Alignment explanation
Indices: 39545027--39545234 Score: 147
Period size: 43 Copynumber: 4.9 Consensus size: 43
39545017 TTCCAATGTC
* * * * * *
39545027 CCAGTATATTTCCTTTGGTTTA-CCCAATGATGCACTGTATGTG
1 CCAGTATAGTTGCTTCGGTTTATCCC-ATGATGCACTTTGTCTG
* * * * * * * *
39545070 CTAGTATATTTCCTTTGGTTTATCCGATGATGCTCTGTGTGTG
1 CCAGTATAGTTGCTTCGGTTTATCCCATGATGCACTTTGTCTG
*
39545113 CCAGTATA-TTGCTTCGGTTTATCCCATAATGCACTTTGTCTG
1 CCAGTATAGTTGCTTCGGTTTATCCCATGATGCACTTTGTCTG
* * *
39545155 TCAGTATAGTTGCTTCGGTTT-TACCCAATGATGCAC-TTATCTT
1 CCAGTATAGTTGCTTCGGTTTAT-CCC-ATGATGCACTTTGTCTG
* * * *
39545198 CCAGTATAATT-CTGTCGGTTCATCCGATGATACACTT
1 CCAGTATAGTTGCT-TCGGTTTATCCCATGATGCACTT
39545235 ATGTGTCAGT
Statistics
Matches: 137, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
42 45 0.33
43 81 0.59
44 11 0.08
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.41
Consensus pattern (43 bp):
CCAGTATAGTTGCTTCGGTTTATCCCATGATGCACTTTGTCTG
Found at i:39545203 original size:43 final size:43
Alignment explanation
Indices: 39545027--39545205 Score: 166
Period size: 43 Copynumber: 4.2 Consensus size: 43
39545017 TTCCAATGTC
* *
39545027 CCAGTATATTTCCTTTGGTTTACCCAATGATGCACTGTATGTG
1 CCAGTATATTTCCTTCGGTTTACCCAATGATGCACTGTATCTG
* * * * * * *
39545070 CTAGTATATTTCCTTTGGTTTATCCGATGATGCTCTGTGTGTG
1 CCAGTATATTTCCTTCGGTTTACCCAATGATGCACTGTATCTG
* * * *
39545113 CCAGTATA-TTGCTTCGGTTTATCCC-ATAATGCACTTTGTCTG
1 CCAGTATATTTCCTTCGGTTTA-CCCAATGATGCACTGTATCTG
* * * *
39545155 TCAGTATAGTTGCTTCGGTTTTACCCAATGATGCACT-TATCTT
1 CCAGTATATTTCCTTCGG-TTTACCCAATGATGCACTGTATCTG
39545198 CCAGTATA
1 CCAGTATA
39545206 ATTCTGTCGG
Statistics
Matches: 114, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
42 31 0.27
43 70 0.61
44 13 0.11
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.41
Consensus pattern (43 bp):
CCAGTATATTTCCTTCGGTTTACCCAATGATGCACTGTATCTG
Found at i:39549284 original size:20 final size:20
Alignment explanation
Indices: 39549226--39549284 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
39549216 ATTATACCTA
39549226 AATGCACATACGTGCCCCT-
1 AATGCACATACGTGCCCCTG
* * * *
39549245 ATTGTAC-TTCGGTACCCCTG
1 AATGCACATAC-GTGCCCCTG
39549265 AATGCACATACGTGCCCCTG
1 AATGCACATACGTGCCCCTG
39549285 TTGTACTTCG
Statistics
Matches: 29, Mismatches: 8, Indels: 5
0.69 0.19 0.12
Matches are distributed among these distances:
18 2 0.07
19 12 0.41
20 13 0.45
21 2 0.07
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.25
Consensus pattern (20 bp):
AATGCACATACGTGCCCCTG
Found at i:39549349 original size:39 final size:39
Alignment explanation
Indices: 39549226--39549342 Score: 191
Period size: 39 Copynumber: 3.0 Consensus size: 39
39549216 ATTATACCTA
*
39549226 AATGCACATACGTGCCCCTATTGTACTTCGGTACCCCTG
1 AATGCACATACGTGCCCCTGTTGTACTTCGGTACCCCTG
*
39549265 AATGCACATACGTGCCCCTGTTGTACTTCGGTACCCTTG
1 AATGCACATACGTGCCCCTGTTGTACTTCGGTACCCCTG
* *
39549304 AATGCACATACGTG-TCCTGTAGTACTTCGGTACCCCTG
1 AATGCACATACGTGCCCCTGTTGTACTTCGGTACCCCTG
39549342 A
1 A
39549343 TTTGCACTTA
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
38 22 0.30
39 51 0.70
ACGTcount: A:0.21, C:0.31, G:0.20, T:0.29
Consensus pattern (39 bp):
AATGCACATACGTGCCCCTGTTGTACTTCGGTACCCCTG
Found at i:39551444 original size:15 final size:15
Alignment explanation
Indices: 39551424--39551640 Score: 119
Period size: 15 Copynumber: 14.5 Consensus size: 15
39551414 CCAGGCTTCG
*
39551424 TACTACTACTGCTGC
1 TACTACTACTGCTAC
39551439 TACTACTACTGCTAC
1 TACTACTACTGCTAC
* *
39551454 TGCTACTGCTGCTAC
1 TACTACTACTGCTAC
**
39551469 TACGGCTACTGCTAC
1 TACTACTACTGCTAC
** *
39551484 TGTTGCTACTGCTAC
1 TACTACTACTGCTAC
* * **
39551499 TACTGCTACTACGGC
1 TACTACTACTGCTAC
* * *
39551514 TACTGCTACTGTTGC
1 TACTACTACTGCTAC
* * *
39551529 TACTGCTACTACGAC
1 TACTACTACTGCTAC
* * *
39551544 TATTACTGCTACTAC
1 TACTACTACTGCTAC
* *
39551559 GACTACTACTGCTAT
1 TACTACTACTGCTAC
* * * *
39551574 TGCTACTACTACGAT
1 TACTACTACTGCTAC
*
39551589 TACTACTATTGCTAC
1 TACTACTACTGCTAC
** * * *
39551604 TACCGCTGCTACTGC
1 TACTACTACTGCTAC
*
39551619 TACTACTATTGCTAC
1 TACTACTACTGCTAC
*
39551634 TCCTACT
1 TACTACT
39551641 CCTACTGCTG
Statistics
Matches: 149, Mismatches: 53, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 149 1.00
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.34
Consensus pattern (15 bp):
TACTACTACTGCTAC
Found at i:39551462 original size:24 final size:24
Alignment explanation
Indices: 39551426--39551658 Score: 148
Period size: 24 Copynumber: 9.7 Consensus size: 24
39551416 AGGCTTCGTA
* *
39551426 CTACTACTGCTGCTACTACTACTG
1 CTACTGCTACTGCTACTACTACTG
* *
39551450 CTACTGCTACTGCTGCTACTACGG
1 CTACTGCTACTGCTACTACTACTG
* * * *
39551474 CTACTGCTACTGTTGCTACTGCTA
1 CTACTGCTACTGCTACTACTACTG
*
39551498 CTACTGCTACTACGGCTACTGCTACTG
1 CTACTGCTACT---GCTACTACTACTG
* *
39551525 -T--TGCTACTGCTACTACGACTA
1 CTACTGCTACTGCTACTACTACTG
* * *
39551546 TTACTGCTACTACGACTACTACTG
1 CTACTGCTACTGCTACTACTACTG
* * * * *
39551570 CTATTGCTACTACTACGATTACTA
1 CTACTGCTACTGCTACTACTACTG
* * ** *
39551594 CTATTGCTACTACCGCTGCTACTG
1 CTACTGCTACTGCTACTACTACTG
* * * *
39551618 CTACTACTATTGCTACTCCTACTC
1 CTACTGCTACTGCTACTACTACTG
* *
39551642 CTACTGCTGCTTCTACT
1 CTACTGCTACTGCTACT
39551659 CTCTTTTGGT
Statistics
Matches: 159, Mismatches: 44, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
21 10 0.06
22 1 0.01
24 139 0.87
26 1 0.01
27 8 0.05
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.34
Consensus pattern (24 bp):
CTACTGCTACTGCTACTACTACTG
Found at i:39551466 original size:30 final size:30
Alignment explanation
Indices: 39551438--39551646 Score: 165
Period size: 30 Copynumber: 7.0 Consensus size: 30
39551428 ACTACTGCTG
*
39551438 CTACTACTACTGCTACTGCTACTGCTGCTA
1 CTACTACTACTGCTACTGCTACTGCTACTA
**
39551468 CTACGGCTACTGCTACTGTTGCTACTGCTACTA
1 CTACTACTACTGCTAC---TGCTACTGCTACTA
* * * *
39551501 CTGCTACTACGGCTACTGCTACTGTTGCTA
1 CTACTACTACTGCTACTGCTACTGCTACTA
*
39551531 CTGCTACTAC-GACTA-T--TACTGCTACTA
1 CTACTACTACTG-CTACTGCTACTGCTACTA
* * * *
39551558 CGACTACTACTGCTATTGCTACTACTACGA
1 CTACTACTACTGCTACTGCTACTGCTACTA
* * * ** *
39551588 TTACTACTATTGCTACTACCGCTGCTACTG
1 CTACTACTACTGCTACTGCTACTGCTACTA
* * *
39551618 CTACTACTATTGCTACTCCTACTCCTACT
1 CTACTACTACTGCTACTGCTACTGCTACT
39551647 GCTGCTTCTA
Statistics
Matches: 141, Mismatches: 30, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
27 20 0.14
28 2 0.01
29 2 0.01
30 92 0.65
33 25 0.18
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (30 bp):
CTACTACTACTGCTACTGCTACTGCTACTA
Found at i:39551484 original size:39 final size:39
Alignment explanation
Indices: 39551426--39551625 Score: 177
Period size: 39 Copynumber: 5.0 Consensus size: 39
39551416 AGGCTTCGTA
* * * *
39551426 CTACTACTGCTGCTACTACTACTGCTACTGCTACTGCTG
1 CTACTACGGCTACTGCTACTACTGCTACTGCTACTACTG
**
39551465 CTACTACGGCTACTGCTACTGTTGCTACTGCTACTACTG
1 CTACTACGGCTACTGCTACTACTGCTACTGCTACTACTG
**
39551504 CTACTACGGCTACTGCTACTGTTGCTACTGCTACTAC-G
1 CTACTACGGCTACTGCTACTACTGCTACTGCTACTACTG
* * * *
39551542 ACTATTACTGCTACTACGACTACTACTGCTATTGCTACTACTA
1 -CTACTACGGCTACT--G-CTACTACTGCTACTGCTACTACTG
* * ** *
39551585 CGATTACTACTATTGCTACTACCGCTGCTACTGCTACTACT
1 CTACTACGGCTACTGCTACTA---CTGCTACTGCTACTACT
39551626 ATTGCTACTC
Statistics
Matches: 137, Mismatches: 16, Indels: 13
0.83 0.10 0.08
Matches are distributed among these distances:
38 1 0.01
39 88 0.64
40 1 0.01
41 1 0.01
42 46 0.34
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.34
Consensus pattern (39 bp):
CTACTACGGCTACTGCTACTACTGCTACTGCTACTACTG
Found at i:39551649 original size:18 final size:18
Alignment explanation
Indices: 39551609--39551659 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
39551599 GCTACTACCG
* *
39551609 CTGCTACTGCTACTACTA
1 CTGCTACTCCTACTCCTA
*
39551627 TTGCTACTCCTACTCCTA
1 CTGCTACTCCTACTCCTA
* *
39551645 CTGCTGCTTCTACTC
1 CTGCTACTCCTACTC
39551660 TCTTTTGGTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.16, C:0.37, G:0.10, T:0.37
Consensus pattern (18 bp):
CTGCTACTCCTACTCCTA
Found at i:39551651 original size:39 final size:39
Alignment explanation
Indices: 39551427--39551652 Score: 164
Period size: 39 Copynumber: 5.6 Consensus size: 39
39551417 GGCTTCGTAC
* * * * **
39551427 TACTACTGCTGCTACTACTACTGCTACTGCTACTGCTGC
1 TACTACTACTACTACTACTGCTGCTACTGCTACTACTAT
** * * **
39551466 TACTACGGCTACTGCTACTGTTGCTACTGCTACTACTGC
1 TACTACTACTACTACTACTGCTGCTACTGCTACTACTAT
** * *
39551505 TACTACGGCTACTGCTACTGTTGCTACTGCTACTACGACTAT
1 TACTACTACTACTACTACTGCTGCTACTGCTACT---ACTAT
* * * *
39551547 TACTGCTACTACGACTACTACTGCTATTGCTACTACTACGAT
1 TACTACTACTACTACTACTGCTGCTACTGCTACTACT---AT
* * *
39551589 TACTACTATTGCTACTACCGCTGCTACTGCTACTACTAT
1 TACTACTACTACTACTACTGCTGCTACTGCTACTACTAT
* * *
39551628 TGCTACTCCTACTCCTACTGCTGCT
1 TACTACTACTACTACTACTGCTGCT
39551653 TCTACTCTCT
Statistics
Matches: 152, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
39 91 0.60
42 61 0.40
ACGTcount: A:0.20, C:0.31, G:0.14, T:0.34
Consensus pattern (39 bp):
TACTACTACTACTACTACTGCTGCTACTGCTACTACTAT
Found at i:39552066 original size:12 final size:12
Alignment explanation
Indices: 39552049--39552075 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
39552039 TCAAAGAGTG
39552049 TTTTTTTTCCTT
1 TTTTTTTTCCTT
39552061 TTTTTTTTCCTT
1 TTTTTTTTCCTT
39552073 TTT
1 TTT
39552076 AAAAAAGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTTTCCTT
Found at i:39555194 original size:49 final size:50
Alignment explanation
Indices: 39555072--39555318 Score: 271
Period size: 50 Copynumber: 4.8 Consensus size: 50
39555062 ATTTGGGTAA
* * * * *
39555072 AGAGATCCCATGTAAGACCATGTCTGAGACATGACATTGGCATCATTGAGGTTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGA-G--ATG
*
39555128 AGAGGTCCCATGTAAGACAATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
39555178 AGAGGT-CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*** * * *
39555227 AGAGGTCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * *
39555277 AGAACTCCTATGTAAGACCATATCTGGGATATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
39555319 GTACAGAAAA
Statistics
Matches: 167, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
49 48 0.29
50 78 0.47
52 1 0.01
53 2 0.01
55 1 0.01
56 37 0.22
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:39555253 original size:99 final size:103
Alignment explanation
Indices: 39555079--39555318 Score: 281
Period size: 99 Copynumber: 2.3 Consensus size: 103
39555069 TAAAGAGATC
* * * **
39555079 CCATGTAAGACCATGTCTGAGACATGACATTGGCATCATTGAGGTTATGAGAGGTCCCATGTAAG
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CGAGG-TATGAGAGGTCCCACATAAG
* * **
39555144 ACAATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGT
64 ACAATGTCTGGGACATGGCATGGGCACCGAGATGAGAACT
* *
39555184 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C-CGA-G-ATGAGAGGTCCCCCATAAGAC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGGTATGAGAGGTCCCACATAAGAC
* *
39555245 CATGTCTGGGACATGGCATGGGCACCGATATGAGAACT
66 AATGTCTGGGACATGGCATGGGCACCGAGATGAGAACT
* * *
39555283 CCTATGTAAGACCATATCTGGGATATGGCTTTGGCA
1 CC-ATGTAAGACCATGTCTGGGACATGGCATTGGCA
39555319 GTACAGAAAA
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
99 52 0.44
100 30 0.25
101 1 0.01
102 2 0.02
104 1 0.01
105 32 0.27
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (103 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGGTATGAGAGGTCCCACATAAGAC
AATGTCTGGGACATGGCATGGGCACCGAGATGAGAACT
Found at i:39555342 original size:99 final size:98
Alignment explanation
Indices: 39555133--39555357 Score: 238
Period size: 99 Copynumber: 2.3 Consensus size: 98
39555123 TTATGAGAGG
* * **
39555133 TCCCATGTAAGACAATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCATGTAAGACCAT
1 TCCCATGTAAGACAATGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCCATGTAAGACCAT
* * * **
39555198 GTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
66 ATCTGGGACATGGCGTTGGCAACGAGA-GAAACA
*** * *
39555232 TCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCTATGTAAGACCA
1 TCCCATGTAAGACAATGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCC-ATGTAAGACCA
* *
39555297 TATCTGGGATATGGCTTTGGCAGTAC-AGA-AAACA
65 TATCTGGGACATGGCGTTGGCA--ACGAGAGAAACA
* *
39555331 TCCCATGTAAGACTATGTTTGGGACAT
1 TCCCATGTAAGACAATGTCTGGGACAT
39555358 AGCTTTGGCA
Statistics
Matches: 102, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
99 68 0.67
100 30 0.29
101 3 0.03
102 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (98 bp):
TCCCATGTAAGACAATGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCCATGTAAGACCAT
ATCTGGGACATGGCGTTGGCAACGAGAGAAACA
Found at i:39560631 original size:23 final size:23
Alignment explanation
Indices: 39560605--39560648 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
39560595 TTTCTTGTTG
39560605 TTTCTTAAGCC-CTTCTAACTTAT
1 TTTCTTAAGCCTC-TCTAACTTAT
*
39560628 TTTCTTGAGCCTCTCTAACTT
1 TTTCTTAAGCCTCTCTAACTT
39560649 CAGGTGGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.18, C:0.27, G:0.07, T:0.48
Consensus pattern (23 bp):
TTTCTTAAGCCTCTCTAACTTAT
Found at i:39562215 original size:20 final size:20
Alignment explanation
Indices: 39562190--39562228 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
39562180 TACTTTCTTC
39562190 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
39562210 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
39562229 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:39566441 original size:27 final size:27
Alignment explanation
Indices: 39566410--39566587 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
39566400 TAAATTGTAC
39566410 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
39566437 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39566463 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
39566491 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
39566519 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39566546 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
39566573 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39566588 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:39566524 original size:82 final size:81
Alignment explanation
Indices: 39566411--39566566 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
39566401 AAATTGTACA
* *
39566411 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
39566475 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
39566492 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
39566557 TGCGAGTTGA
65 TGCGAATTGA
39566567 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:39566578 original size:82 final size:81
Alignment explanation
Indices: 39566407--39566587 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
39566397 GATTAAATTG
* *
39566407 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
39566472 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
39566488 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
39566552 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
39566570 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
39566588 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:39575237 original size:42 final size:42
Alignment explanation
Indices: 39575189--39575417 Score: 129
Period size: 42 Copynumber: 5.3 Consensus size: 42
39575179 CACTCATTGT
39575189 TTGTAACATTAGAATCGTTCTAGTATGTCGAATCATGATTTC
1 TTGTAACATTAGAATCGTTCTAGTATGTCGAATCATGATTTC
* * * * *
39575231 TTGTAACTTAGGTAGAAATGATGCATTTCTAG-ATG-CCACTCAT--TGT-
1 TTGTAAC--A-TTAG--A--AT-C-GTTCTAGTATGTCGAATCATGATTTC
39575277 TTGTAACATTAGAATCGTTCTAGTATGTCGAATCATGATTTC
1 TTGTAACATTAGAATCGTTCTAGTATGTCGAATCATGATTTC
* * * * *
39575319 TTGTAACTTAGGTAGAAATGATGCATTTCTAG-ATG-CCACTCAT--TGT-
1 TTGTAAC--A-TTAG--A--AT-C-GTTCTAGTATGTCGAATCATGATTTC
39575365 TTGTAACATTAGAATCGTTCTAGTATGTCGAATCATGATTTC
1 TTGTAACATTAGAATCGTTCTAGTATGTCGAATCATGATTTC
39575407 TTGTAAC-TTAG
1 TTGTAACATTAG
39575418 GTAGAAATGA
Statistics
Matches: 139, Mismatches: 20, Indels: 57
0.64 0.09 0.26
Matches are distributed among these distances:
37 12 0.09
38 8 0.06
39 16 0.12
41 10 0.07
42 21 0.15
43 6 0.04
44 4 0.03
45 6 0.04
46 14 0.10
47 6 0.04
49 16 0.12
50 8 0.06
51 12 0.09
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.39
Consensus pattern (42 bp):
TTGTAACATTAGAATCGTTCTAGTATGTCGAATCATGATTTC
Found at i:39575273 original size:88 final size:88
Alignment explanation
Indices: 39575124--39575478 Score: 692
Period size: 88 Copynumber: 4.0 Consensus size: 88
39575114 CCGAAAAGGT
*
39575124 TATGTCGAATCATGATTTCTTGTAACTGAGGTAGAAATGATGCATTTCTAGATGCCACTCATTGT
1 TATGTCGAATCATGATTTCTTGTAACTTAGGTAGAAATGATGCATTTCTAGATGCCACTCATTGT
39575189 TTGTAACATTAGAATCGTTCTAG
66 TTGTAACATTAGAATCGTTCTAG
39575212 TATGTCGAATCATGATTTCTTGTAACTTAGGTAGAAATGATGCATTTCTAGATGCCACTCATTGT
1 TATGTCGAATCATGATTTCTTGTAACTTAGGTAGAAATGATGCATTTCTAGATGCCACTCATTGT
39575277 TTGTAACATTAGAATCGTTCTAG
66 TTGTAACATTAGAATCGTTCTAG
39575300 TATGTCGAATCATGATTTCTTGTAACTTAGGTAGAAATGATGCATTTCTAGATGCCACTCATTGT
1 TATGTCGAATCATGATTTCTTGTAACTTAGGTAGAAATGATGCATTTCTAGATGCCACTCATTGT
39575365 TTGTAACATTAGAATCGTTCTAG
66 TTGTAACATTAGAATCGTTCTAG
39575388 TATGTCGAATCATGATTTCTTGTAACTTAGGTAGAAATGATGCATTTCTAGATGCCACTCATTGT
1 TATGTCGAATCATGATTTCTTGTAACTTAGGTAGAAATGATGCATTTCTAGATGCCACTCATTGT
*
39575453 TTGTAACATTAGAATCATTCTAG
66 TTGTAACATTAGAATCGTTCTAG
39575476 TAT
1 TAT
39575479 TACTGTTAAC
Statistics
Matches: 265, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 265 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.39
Consensus pattern (88 bp):
TATGTCGAATCATGATTTCTTGTAACTTAGGTAGAAATGATGCATTTCTAGATGCCACTCATTGT
TTGTAACATTAGAATCGTTCTAG
Found at i:39577589 original size:79 final size:80
Alignment explanation
Indices: 39577478--39577662 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
39577468 GCTACTCGTT
* * * *
39577478 CAAACGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
39577541 GGATTTAGTAAC-TCGCA
63 GGATATAGTAACTTAGCA
* **
39577558 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
39577622 ATATGGTCACTTAGCA
65 ATATAGTAACTTAGCA
39577638 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
39577663 CATCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.60
80 33 0.37
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:39577662 original size:40 final size:40
Alignment explanation
Indices: 39577459--39577662 Score: 211
Period size: 40 Copynumber: 5.1 Consensus size: 40
39577449 CGGAATTTAA
** * *
39577459 CCGGATATAGCT-ACTCGTTCAAACGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
39577499 CCAGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
39577539 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39577578 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
39577618 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
39577658 CCGGA
1 CCGGA
39577663 CATCATTCAA
Statistics
Matches: 136, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 89 0.65
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:39581926 original size:78 final size:78
Alignment explanation
Indices: 39581797--39581951 Score: 301
Period size: 78 Copynumber: 2.0 Consensus size: 78
39581787 TGCTCAGCAT
39581797 GTTCGGTCTCATCTCTTGAATAGACCAAGATGTCATCAATGAACACAACTACGAACCGATCCAAA
1 GTTCGGTCTCATCTCTTGAATAGACCAAGATGTCATCAATGAACACAACTACGAACCGATCCAAA
39581862 TATGGTCTGAAGG
66 TATGGTCTGAAGG
*
39581875 GTTCGGTCTCATCTCTTGAATAGACCAATATGTCATCAATGAACACAACTACGAACCGATCCAAA
1 GTTCGGTCTCATCTCTTGAATAGACCAAGATGTCATCAATGAACACAACTACGAACCGATCCAAA
39581940 TATGGTCTGAAG
66 TATGGTCTGAAG
39581952 ATCCGATTCA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (78 bp):
GTTCGGTCTCATCTCTTGAATAGACCAAGATGTCATCAATGAACACAACTACGAACCGATCCAAA
TATGGTCTGAAGG
Found at i:39584277 original size:57 final size:57
Alignment explanation
Indices: 39584189--39584417 Score: 458
Period size: 57 Copynumber: 4.0 Consensus size: 57
39584179 GGCGCTGTCC
39584189 CTTGTGCGGGAGCAGGCGCTACACTCTCAAGATCATCAGCTACCGCTCGGTCGGGAT
1 CTTGTGCGGGAGCAGGCGCTACACTCTCAAGATCATCAGCTACCGCTCGGTCGGGAT
39584246 CTTGTGCGGGAGCAGGCGCTACACTCTCAAGATCATCAGCTACCGCTCGGTCGGGAT
1 CTTGTGCGGGAGCAGGCGCTACACTCTCAAGATCATCAGCTACCGCTCGGTCGGGAT
39584303 CTTGTGCGGGAGCAGGCGCTACACTCTCAAGATCATCAGCTACCGCTCGGTCGGGAT
1 CTTGTGCGGGAGCAGGCGCTACACTCTCAAGATCATCAGCTACCGCTCGGTCGGGAT
39584360 CTTGTGCGGGAGCAGGCGCTACACTCTCAAGATCATCAGCTACCGCTCGGTCGGGAT
1 CTTGTGCGGGAGCAGGCGCTACACTCTCAAGATCATCAGCTACCGCTCGGTCGGGAT
39584417 C
1 C
39584418 GGGATCCATT
Statistics
Matches: 172, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 172 1.00
ACGTcount: A:0.19, C:0.30, G:0.30, T:0.21
Consensus pattern (57 bp):
CTTGTGCGGGAGCAGGCGCTACACTCTCAAGATCATCAGCTACCGCTCGGTCGGGAT
Found at i:39592315 original size:32 final size:32
Alignment explanation
Indices: 39592274--39592337 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
39592264 TTTTTTTAAA
39592274 AATTTTAACAATTTTCCAAATTCAGGACAGGG
1 AATTTTAACAATTTTCCAAATTCAGGACAGGG
39592306 AATTTTAACAATTTTCCAAATTCAGGACAGGG
1 AATTTTAACAATTTTCCAAATTCAGGACAGGG
39592338 GATTCCAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (32 bp):
AATTTTAACAATTTTCCAAATTCAGGACAGGG
Found at i:39592767 original size:45 final size:45
Alignment explanation
Indices: 39592709--39592803 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
39592699 TAACAGATCC
* *
39592709 TCGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATAATGT
1 TCGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGT
*
39592754 TCGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 TCGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGT
39592799 TCGGT
1 TCGGT
39592804 TCATATAGTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (45 bp):
TCGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGT
Found at i:39592873 original size:51 final size:51
Alignment explanation
Indices: 39592809--39592995 Score: 177
Period size: 51 Copynumber: 3.7 Consensus size: 51
39592799 TCGGTTCATA
* *
39592809 TAGTAGCTTGCACATAGTACTACACATGTGACCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCCGATACACG
* * * * *
39592860 TAGTAGCCCGCACATAGTACTACACACGTGATCGA-AACTATCCAGTATGCA--
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATTACCATCC-G-ATACACG
* * * * * *
39592911 TAGTAGCCTGCACATAGTACTACACATGTTA-C-GTATCATTTCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCA-TCCGATACACG
*
39592961 TAGTAGCCTACACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
39592996 CACTTTCACT
Statistics
Matches: 106, Mismatches: 21, Indels: 17
0.74 0.15 0.12
Matches are distributed among these distances:
48 3 0.03
49 3 0.03
50 30 0.28
51 63 0.59
52 3 0.03
53 4 0.04
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATCCGATACACG
Found at i:39592985 original size:101 final size:102
Alignment explanation
Indices: 39592808--39592991 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 102
39592798 TTCGGTTCAT
* * *
39592808 ATAGTAGCTTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCCGCAC
1 ATAGTAGCCTGCACATAGTACTACACATGTGACCAGTACCATCCGATACACGTAGTAGCCCACAC
39592873 ATAGTACTACACACGTGATCGAAACTATCCAGTATGC
66 ATAGTACTACACACGTGATCGAAACTATCCAGTATGC
* * * * *
39592910 ATAGTAGCCTGCACATAGTACTACACATGTTA-C-GTATCATTTCGGTACACGTAGTAGCCTACA
1 ATAGTAGCCTGCACATAGTACTACACATGTGACCAGTACCA-TCCGATACACGTAGTAGCCCACA
39592973 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
39592992 CCATCACTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.53
102 30 0.41
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (102 bp):
ATAGTAGCCTGCACATAGTACTACACATGTGACCAGTACCATCCGATACACGTAGTAGCCCACAC
ATAGTACTACACACGTGATCGAAACTATCCAGTATGC
Found at i:39604964 original size:48 final size:48
Alignment explanation
Indices: 39604894--39604999 Score: 158
Period size: 48 Copynumber: 2.2 Consensus size: 48
39604884 TGTGGACAAG
*
39604894 CCACCACATAGATACCGATGAACGATCACATAGCACATCACGGATAAA
1 CCACCACATAGATACCAATGAACGATCACATAGCACATCACGGATAAA
* * * * *
39604942 CCACCACATAGATACCAATGAACGGTTATATAGCACATCATGGGTAAA
1 CCACCACATAGATACCAATGAACGATCACATAGCACATCACGGATAAA
39604990 CCACCACATA
1 CCACCACATA
39605000 ATTGCCAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.41, C:0.28, G:0.14, T:0.17
Consensus pattern (48 bp):
CCACCACATAGATACCAATGAACGATCACATAGCACATCACGGATAAA
Found at i:39605008 original size:48 final size:47
Alignment explanation
Indices: 39604894--39605013 Score: 143
Period size: 48 Copynumber: 2.5 Consensus size: 47
39604884 TGTGGACAAG
* * * *
39604894 CCACCACATAGATACCGATGAACGATCACATAGCACATCACGGATAAA
1 CCACCACATAGATACCAAT-AACGGTTATATAGCACATCACGGATAAA
* *
39604942 CCACCACATAGATACCAATGAACGGTTATATAGCACATCATGGGTAAA
1 CCACCACATAGATACCAAT-AACGGTTATATAGCACATCACGGATAAA
*
39604990 CCACCACATA-ATTGCCAATAACGG
1 CCACCACATAGA-TACCAATAACGG
39605014 CCACATAATT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
47 6 0.09
48 58 0.91
ACGTcount: A:0.40, C:0.28, G:0.15, T:0.17
Consensus pattern (47 bp):
CCACCACATAGATACCAATAACGGTTATATAGCACATCACGGATAAA
Found at i:39611402 original size:30 final size:30
Alignment explanation
Indices: 39611366--39611430 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
39611356 GGGCTTCATG
39611366 TATTTCAACACCCTCCTTCAAGTTGGTGCA
1 TATTTCAACACCCTCCTTCAAGTTGGTGCA
39611396 TATTTCAACACCCTCCTTCAAGTTGGTGCA
1 TATTTCAACACCCTCCTTCAAGTTGGTGCA
39611426 TATTT
1 TATTT
39611431 ATCAATCATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.37
Consensus pattern (30 bp):
TATTTCAACACCCTCCTTCAAGTTGGTGCA
Found at i:39624620 original size:40 final size:40
Alignment explanation
Indices: 39624576--39624759 Score: 201
Period size: 40 Copynumber: 4.6 Consensus size: 40
39624566 TCCTCGTTCA
* * *
39624576 AATGCCTTCGGGACATAGCCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
39624616 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
39624656 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
39624696 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
39624736 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
39624760 CAGCATTCAA
Statistics
Matches: 125, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.02
40 114 0.91
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:39624768 original size:41 final size:41
Alignment explanation
Indices: 39624691--39624768 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
39624681 TTAGTATCTC
* * *
39624691 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
39624732 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
39624769 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:39633638 original size:40 final size:39
Alignment explanation
Indices: 39633607--39633816 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
39633597 GGACTAAGAT
* *
39633607 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
39633647 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
39633687 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
39633727 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
39633767 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
39633806 CCGAAGGCATT
1 CCGAAGGCATT
39633817 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:39633770 original size:120 final size:120
Alignment explanation
Indices: 39633554--39633816 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
39633544 TTGAATGCTG
* *
39633554 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
39633618 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
39633674 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
39633737 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
39633793 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
39633817 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:39633836 original size:79 final size:80
Alignment explanation
Indices: 39633555--39633851 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
39633545 TGAATGCTGT
* ** * * * **
39633555 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
39633618 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
39633635 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
39633699 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
39633715 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
39633779 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
39633794 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
39633852 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:39641588 original size:40 final size:39
Alignment explanation
Indices: 39641557--39641766 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
39641547 GGACTAAGAT
* *
39641557 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
39641597 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
39641637 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
39641677 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
39641717 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
39641756 CCGAAGGCATT
1 CCGAAGGCATT
39641767 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:39641720 original size:120 final size:120
Alignment explanation
Indices: 39641504--39641766 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
39641494 TTGAATGCTG
* *
39641504 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
39641568 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
39641624 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
39641687 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
39641743 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
39641767 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:39641786 original size:79 final size:80
Alignment explanation
Indices: 39641505--39641801 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
39641495 TGAATGCTGT
* ** * * * **
39641505 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
39641568 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
39641585 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
39641649 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
39641665 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
39641729 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
39641744 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
39641802 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:39643537 original size:47 final size:47
Alignment explanation
Indices: 39643468--39643562 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 47
39643458 TGAAAGATAT
* * *
39643468 TGATACGAGTTACAAAGGCCCAACTTAAGCTCAAGAACGTGATGGGC
1 TGATACAAGTCACAAAGGCCCAACTCAAGCTCAAGAACGTGATGGGC
39643515 TGATACAAGTCACAAAGGCCCAACTCAAGCTCAAGAACGTGATGGGC
1 TGATACAAGTCACAAAGGCCCAACTCAAGCTCAAGAACGTGATGGGC
39643562 T
1 T
39643563 CAAATTACCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (47 bp):
TGATACAAGTCACAAAGGCCCAACTCAAGCTCAAGAACGTGATGGGC
Found at i:39645427 original size:43 final size:44
Alignment explanation
Indices: 39645362--39645489 Score: 144
Period size: 43 Copynumber: 3.0 Consensus size: 44
39645352 TAGGATTTCT
39645362 GATATGTG-TTATC-GTGTAAGACCACGTCTGGGACGTTGGCATC
1 GATATGTGATTA-CAGTGTAAGACCACGTCTGGGACGTTGGCATC
* *
39645405 GACT-TGTGTTTA-AGTGTAAGACC-CTATCTGGGACAG-TGGCATC
1 GA-TATGTGATTACAGTGTAAGACCAC-GTCTGGGAC-GTTGGCATC
*
39645448 GATATGTGATTACA-TGTAAGACCACGTCTGGGGCGTTGGCAT
1 GATATGTGATTACAGTGTAAGACCACGTCTGGGACGTTGGCAT
39645490 TGTACAAGTT
Statistics
Matches: 72, Mismatches: 4, Indels: 18
0.77 0.04 0.19
Matches are distributed among these distances:
42 3 0.04
43 62 0.86
44 7 0.10
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (44 bp):
GATATGTGATTACAGTGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:39651440 original size:43 final size:42
Alignment explanation
Indices: 39651388--39651515 Score: 111
Period size: 43 Copynumber: 3.0 Consensus size: 42
39651378 TAGGATTTCT
*
39651388 GATATGTGTTATCGTGTAAGACAACGTCTGGGATGTTGGCATC
1 GATATGTGTTATCGTGTAAGAC-ACGTCTGGGAAGTTGGCATC
* * *
39651431 GACT-TGTGTT-TAAGTGTAAGACCCTGTCTGGGACAG-TGGTATC
1 GA-TATGTGTTAT-CGTGTAAGACAC-GTCTGGGA-AGTTGGCATC
* *
39651474 GATATGTGATTA-CATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATATGTG-TTATCGTGTAAGA-CACGTCTGGGAAGTTGGCAT
39651516 TGTACAAGTT
Statistics
Matches: 67, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
42 4 0.06
43 57 0.85
44 6 0.09
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (42 bp):
GATATGTGTTATCGTGTAAGACACGTCTGGGAAGTTGGCATC
Found at i:39651616 original size:46 final size:46
Alignment explanation
Indices: 39651549--39651639 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
39651539 GTATCCTTTT
*
39651549 TAATTCCGAATGGTTCAATGGGAAATATGAAATAAAGTCCGTTCAA
1 TAATTCCGAATGGTTCAATGGGAAATAGGAAATAAAGTCCGTTCAA
* *
39651595 TAATTTCGAATGGTTCAATGGGCAATAGGAAATAAAGTCCGTTCA
1 TAATTCCGAATGGTTCAATGGGAAATAGGAAATAAAGTCCGTTCA
39651640 TGGAAATGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (46 bp):
TAATTCCGAATGGTTCAATGGGAAATAGGAAATAAAGTCCGTTCAA
Found at i:39651861 original size:3 final size:3
Alignment explanation
Indices: 39651853--39651881 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
39651843 ACATTAGAAA
39651853 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
39651882 AATGGTGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:39654617 original size:30 final size:30
Alignment explanation
Indices: 39654553--39654617 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
39654543 ATTTCCGAGC
**
39654553 TTGGGGACAAAAGTGTAATTATGCAAAACT
1 TTGGGGACAAAAGTGTAATTATGCAAAAAG
* * * *
39654583 TTGGGGGCAAAATTGTAATTTTTCAAAAAG
1 TTGGGGACAAAAGTGTAATTATGCAAAAAG
39654613 TTGGG
1 TTGGG
39654618 TGGTGGATTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.31
Consensus pattern (30 bp):
TTGGGGACAAAAGTGTAATTATGCAAAAAG
Found at i:39655106 original size:103 final size:104
Alignment explanation
Indices: 39654946--39655314 Score: 591
Period size: 103 Copynumber: 3.6 Consensus size: 104
39654936 TGTATATAAA
** * * * *
39654946 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGGGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGATGCTAAGTGCGAT-ATCCACCGTATCT
** *
39655010 TTGAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
65 TTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
39655050 AGGGGTTGCTAAGTGCTGATTCCCCGA-TCATTGGTGATGCTAAGTGCGATATCCACCGTATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGATGCTAAGTGCGATATCCACCGTATCTT
39655114 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
39655153 AGGGGTTGCTAAGTGCTGATTCCCCGA-TCATTGGTGATGCTAAGTGCGATATCCACCGTATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGATGCTAAGTGCGATATCCACCGTATCTT
39655217 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* * **
39655256 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCG
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGATGCTAAGTGCGATATCCACCG
39655315 ATAACGGTTA
Statistics
Matches: 250, Mismatches: 13, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
103 197 0.79
104 53 0.21
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGATGCTAAGTGCGATATCCACCGTATCTT
TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:39659464 original size:14 final size:14
Alignment explanation
Indices: 39659445--39659475 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
39659435 CTAGATTCTC
39659445 TTTGAGACACCTTA
1 TTTGAGACACCTTA
39659459 TTTGAGACACCTTA
1 TTTGAGACACCTTA
39659473 TTT
1 TTT
39659476 CATCCACATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (14 bp):
TTTGAGACACCTTA
Found at i:39662505 original size:16 final size:16
Alignment explanation
Indices: 39662484--39662520 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
39662474 AATAATTGTG
39662484 TTTTGTATTTTGTGTA
1 TTTTGTATTTTGTGTA
*
39662500 TTTTGTGTTTTGTGTA
1 TTTTGTATTTTGTGTA
*
39662516 CTTTG
1 TTTTG
39662521 CCATGTGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.08, C:0.03, G:0.22, T:0.68
Consensus pattern (16 bp):
TTTTGTATTTTGTGTA
Found at i:39681467 original size:2 final size:2
Alignment explanation
Indices: 39681460--39681510 Score: 52
Period size: 2 Copynumber: 26.0 Consensus size: 2
39681450 AATAAGCATG
* * *
39681460 TA TA TA TA TA TG TA TA TA TA TA -A TGC TA TA -A TA TA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA
39681501 TA TA TA TA TA
1 TA TA TA TA TA
39681511 AAAGTTATTG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
1 2 0.05
2 37 0.93
3 1 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:39681474 original size:12 final size:12
Alignment explanation
Indices: 39681457--39681509 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
39681447 TCGAATAAGC
39681457 ATGTATATATAT
1 ATGTATATATAT
39681469 ATGTATATATAT
1 ATGTATATATAT
39681481 AATGCTATAATATAT
1 -ATG-TAT-ATATAT
**
39681496 ATACATATATAT
1 ATGTATATATAT
39681508 AT
1 AT
39681510 AAAAGTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
12 20 0.56
13 5 0.14
14 5 0.14
15 6 0.17
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:39682234 original size:41 final size:41
Alignment explanation
Indices: 39682177--39682285 Score: 146
Period size: 41 Copynumber: 2.6 Consensus size: 41
39682167 TACTTTAAGT
* *
39682177 CTAGCAGGCTACGTGCCGGTGATCTGAATCAAGTTATAAAC
1 CTAGCAGGCTATGTGCCGGTGATCTGAATCAAGCTATAAAC
* * **
39682218 CTAGCAAGCTATGTGCCGGTGATCTGAATCAGGCTATAAGT
1 CTAGCAGGCTATGTGCCGGTGATCTGAATCAAGCTATAAAC
*
39682259 CTAGCAGGCTATGTGCCGTTGAATCTG
1 CTAGCAGGCTATGTGCCGGTG-ATCTG
39682286 TTTTAATTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 54 0.92
42 5 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (41 bp):
CTAGCAGGCTATGTGCCGGTGATCTGAATCAAGCTATAAAC
Found at i:39698477 original size:44 final size:42
Alignment explanation
Indices: 39698383--39698868 Score: 416
Period size: 44 Copynumber: 11.0 Consensus size: 42
39698373 ATTGATTTTA
* *
39698383 TAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAG
1 TAGATCGAAGAT-GCAGATCCTGTCTTCCTATATTGGT-GGAAG
* * *
39698427 TGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAG
1 TAGATCGAAGATGCAGATCCTGTCTTCCTATATTGGTGG--AAG
* * * * * *
39698471 TAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
1 TAGATCGAAG-ATGCAGATCCTGTCTTCCTATATTGGTG-GAAG
* *
39698515 TAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAG
1 TAGATCGAAGAT-GCAGATCCTGTCTTCCTATATTGGT-GGAAG
* *
39698559 TGGATCGAAGATGCAGATCCTGTCTTCCCATATTGGTGGCGAAG
1 TAGATCGAAGATGCAGATCCTGTCTTCCTATATTGGT-G-GAAG
* * * * * *
39698603 TAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
1 TAGATCGAAG-ATGCAGATCCTGTCTTCCTATATTGGTG-GAAG
* *
39698647 TAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAG
1 TAGATCGAAGAT-GCAGATCCTGTCTTCCTATATTGGT-GGAAG
* *
39698691 TGGATCGAAGATGCAGATCCTGTCTTCCCATATTGGTGGCGAAG
1 TAGATCGAAGATGCAGATCCTGTCTTCCTATATTGGT-G-GAAG
* * * * *
39698735 TAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCAT-GAAG
1 TAGATCGAAG-ATGCAGATCCTGTCTTCCTATATTGG--TGGAAG
* * * * * *
39698779 TAGATCAAAGACAGTAGATCTTGTCTTCCCATACTGGTGGCGAAG
1 TAGATCGAAGA-TGCAGATCCTGTCTTCCTATATTGGT-G-GAAG
*
39698824 TAGATCGAAGATAGCAGATCCTGCCTTCCTATATTGGTAGGAAG
1 TAGATCGAAGAT-GCAGATCCTGTCTTCCTATATTGGT-GGAAG
39698868 T
1 T
39698869 GGATTGAAAA
Statistics
Matches: 354, Mismatches: 69, Indels: 38
0.77 0.15 0.08
Matches are distributed among these distances:
42 3 0.01
43 71 0.20
44 176 0.50
45 102 0.29
46 1 0.00
47 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (42 bp):
TAGATCGAAGATGCAGATCCTGTCTTCCTATATTGGTGGAAG
Found at i:39698620 original size:132 final size:132
Alignment explanation
Indices: 39698383--39698861 Score: 805
Period size: 132 Copynumber: 3.6 Consensus size: 132
39698373 ATTGATTTTA
*
39698383 TAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTT
1 TAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCCT
*
39698448 GTCTTCCCATATTGGTGGCAAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
66 GTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
39698513 AG
131 AG
39698515 TAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCCT
1 TAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCCT
39698580 GTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
66 GTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
39698645 AG
131 AG
39698647 TAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCCT
1 TAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCCT
*
39698712 GTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCATGA
66 GTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
39698777 AG
131 AG
* ** * * * * * * *
39698779 TAGATCAAAGACAGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAGCAGATC
1 TAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATC
* *
39698844 CTGCCTTCCTATATTGGT
64 CTGTCTTCCCATATTGGT
39698862 AGGAAGTGGA
Statistics
Matches: 330, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
132 292 0.88
133 15 0.05
134 23 0.07
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (132 bp):
TAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCCT
GTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGA
AG
Found at i:39706895 original size:2 final size:2
Alignment explanation
Indices: 39706888--39706938 Score: 52
Period size: 2 Copynumber: 26.0 Consensus size: 2
39706878 AATAAGCATG
* * *
39706888 TA TA TA TA TA TG TA TA TA TA TA -A TGC TA TA -A TA TA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA
39706929 TA TA TA TA TA
1 TA TA TA TA TA
39706939 AAAGTTATTG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
1 2 0.05
2 37 0.93
3 1 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:39706902 original size:12 final size:12
Alignment explanation
Indices: 39706885--39706937 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
39706875 TCGAATAAGC
39706885 ATGTATATATAT
1 ATGTATATATAT
39706897 ATGTATATATAT
1 ATGTATATATAT
39706909 AATGCTATAATATAT
1 -ATG-TAT-ATATAT
**
39706924 ATACATATATAT
1 ATGTATATATAT
39706936 AT
1 AT
39706938 AAAAGTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
12 20 0.56
13 5 0.14
14 5 0.14
15 6 0.17
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:39707487 original size:41 final size:41
Alignment explanation
Indices: 39707440--39707518 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 41
39707430 ACAAGAACCT
*
39707440 GAATATCTCT-TACTGTACTGTTCATATGATTGTTTCGTCCC
1 GAATATCTCTAT-CTGTACTGTTCATATAATTGTTTCGTCCC
*
39707481 GAATATCTCTATCTGTACTGTTCCTATAATTGTTTCGT
1 GAATATCTCTATCTGTACTGTTCATATAATTGTTTCGT
39707519 TACTTTCATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 34 0.97
42 1 0.03
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (41 bp):
GAATATCTCTATCTGTACTGTTCATATAATTGTTTCGTCCC
Found at i:39708493 original size:40 final size:40
Alignment explanation
Indices: 39708395--39708777 Score: 608
Period size: 40 Copynumber: 9.6 Consensus size: 40
39708385 TCCTCGTTCA
* * * * *
39708395 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
39708434 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
39708474 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
39708514 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
39708554 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
39708594 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
39708634 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
39708674 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
39708714 AATGCCTTCGGAACTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCACG
* *
39708754 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
39708778 CAGCATTCAA
Statistics
Matches: 326, Mismatches: 16, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 35 0.11
40 286 0.88
41 5 0.02
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:39712889 original size:25 final size:25
Alignment explanation
Indices: 39712832--39712889 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
39712822 AAGTACTATA
*
39712832 CAGAGAGAACAGATGTGCTAATAAT
1 CAGAGAGCACAGATGTGCTAATAAT
* *
39712857 CAGAGAGCACTGATGTGTTAATAAT
1 CAGAGAGCACAGATGTGCTAATAAT
39712882 CAGAGAGC
1 CAGAGAGC
39712890 GTGCTAAGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.21
Consensus pattern (25 bp):
CAGAGAGCACAGATGTGCTAATAAT
Found at i:39715793 original size:28 final size:28
Alignment explanation
Indices: 39715740--39715801 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
39715730 GCATTATTGT
**
39715740 AAATGTGGAAGCCCGTTAGAACGATCTA
1 AAATGTGGAAGCCCGCAAGAACGATCTA
* *
39715768 AAATGTGGAAGCCCGCCAAG-ATGATCTT
1 AAATGTGGAAGCCCG-CAAGAACGATCTA
39715796 AAATGT
1 AAATGT
39715802 AGAAATTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (28 bp):
AAATGTGGAAGCCCGCAAGAACGATCTA
Found at i:39715821 original size:28 final size:28
Alignment explanation
Indices: 39715784--39715885 Score: 96
Period size: 28 Copynumber: 3.6 Consensus size: 28
39715774 GGAAGCCCGC
* *
39715784 CAAGATGATCTTAAATGTAGAAATTTGT
1 CAAGACGATCTTAAATGTAGAAATCTGT
* * *
39715812 CAGGACGATCTTAAATGTGGAAGTCTGT
1 CAAGACGATCTTAAATGTAGAAATCTGT
* * * * * *
39715840 CAAGACGATCTAAAACGCAGAAGTCCGC
1 CAAGACGATCTTAAATGTAGAAATCTGT
*
39715868 CAAGACAATCTTAAATGT
1 CAAGACGATCTTAAATGT
39715886 GGATGTCCGT
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (28 bp):
CAAGACGATCTTAAATGTAGAAATCTGT
Found at i:39715893 original size:28 final size:28
Alignment explanation
Indices: 39715763--39715894 Score: 93
Period size: 28 Copynumber: 4.7 Consensus size: 28
39715753 CGTTAGAACG
* * **
39715763 ATCTAAAATGTGGAAGCCCGCCAAGATG
1 ATCTTAAATGTGGAAGTCCGCCAAGACA
* * ** * * *
39715791 ATCTTAAATGTAGAAATTTGTCAGGACG
1 ATCTTAAATGTGGAAGTCCGCCAAGACA
* * *
39715819 ATCTTAAATGTGGAAGTCTGTCAAGACG
1 ATCTTAAATGTGGAAGTCCGCCAAGACA
* * **
39715847 ATCTAAAACGCAGAAGTCCGCCAAGACA
1 ATCTTAAATGTGGAAGTCCGCCAAGACA
*
39715875 ATCTTAAATGTGGATGTCCG
1 ATCTTAAATGTGGAAGTCCG
39715895 TGGGGACTAT
Statistics
Matches: 79, Mismatches: 25, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
28 79 1.00
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (28 bp):
ATCTTAAATGTGGAAGTCCGCCAAGACA
Found at i:39717900 original size:27 final size:27
Alignment explanation
Indices: 39717870--39718047 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
39717860 ATATTGAGCC
* *
39717870 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
39717897 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
39717924 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
39717952 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
39717979 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
39718006 CGCACAATTAGTGCAACATAATCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
39718033 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39718048 GTACAATTTA
Statistics
Matches: 125, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
27 100 0.80
28 25 0.20
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:39718009 original size:82 final size:81
Alignment explanation
Indices: 39717891--39718046 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
39717881 TGCTATATAA
* * * * *
39717891 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACAATTAGTGCAACATAATC-GAATCGCA
39717956 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
39717973 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACAATTAGTGCAACATAATCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACAATTAGTGCAACATAATCGAATCGCA
39718037 CACTTAGTGC
65 CACTTAGTGC
39718047 TGTACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 19 0.30
82 45 0.70
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACAATTAGTGCAACATAATCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:39719838 original size:40 final size:40
Alignment explanation
Indices: 39719740--39720134 Score: 318
Period size: 40 Copynumber: 9.6 Consensus size: 40
39719730 TCCTCGTTCA
* * * ** *
39719740 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* *
39719779 AATGCCTTCGGGACATAACCCGGATTTAACAACTTGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
39719819 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
39719859 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
*
39719899 AAAGCCCCTTCGGGACTTAACCCGGATTAACCCGGATTTAACAACTCGCACG
1 AATG--CCTTCGGG-----A--C---TTAACCCGGATTTAACAACTCGCACG
39719951 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
39719991 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
39720031 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
39720071 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
39720111 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
39720135 CAGCATTCAA
Statistics
Matches: 294, Mismatches: 40, Indels: 43
0.78 0.11 0.11
Matches are distributed among these distances:
39 39 0.13
40 200 0.68
41 13 0.04
42 5 0.02
43 3 0.01
45 1 0.00
48 1 0.00
49 1 0.00
50 8 0.03
51 6 0.02
52 17 0.06
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:39720697 original size:47 final size:47
Alignment explanation
Indices: 39720628--39720805 Score: 257
Period size: 47 Copynumber: 3.7 Consensus size: 47
39720618 TTTTTTTACG
39720628 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
* *
39720675 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCA
* * * *
39720724 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCTGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
* * *
39720771 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
39720806 TCCCGAAGGG
Statistics
Matches: 116, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
47 71 0.61
49 45 0.39
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
Found at i:39720790 original size:96 final size:94
Alignment explanation
Indices: 39720626--39720805 Score: 288
Period size: 96 Copynumber: 1.9 Consensus size: 94
39720616 TTTTTTTTTA
* *
39720626 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAA
39720691 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTGTATA-A-ATGTGATAAGGCCTAATGGC
* * * *
39720722 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCTGAGTGGCCAACGTGATGGATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAA
39720787 AGTGTATAAATGTGATAAG
66 AGTGTATAAATGTGATAAG
39720806 TCCCGAAGGG
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
94 10 0.13
95 1 0.01
96 67 0.86
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (94 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAA
AGTGTATAAATGTGATAAGGCCTAATGGC
Found at i:39722429 original size:21 final size:20
Alignment explanation
Indices: 39722405--39722444 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
39722395 TGGGCTTTGA
39722405 AGAACACGAAGAAACTATCAC
1 AGAA-ACGAAGAAACTATCAC
* *
39722426 AGAAACGTAGAAATTATCA
1 AGAAACGAAGAAACTATCA
39722445 AAAACGGACG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.53, C:0.17, G:0.15, T:0.15
Consensus pattern (20 bp):
AGAAACGAAGAAACTATCAC
Found at i:39725202 original size:20 final size:20
Alignment explanation
Indices: 39725136--39725202 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
39725126 ATTTTGATAA
* *
39725136 ACATGGTATGTATTATATGC
1 ACATGATATGTATGATATGC
*
39725156 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
39725176 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
39725196 ACGTGAT
1 ACATGAT
39725203 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:39725284 original size:24 final size:24
Alignment explanation
Indices: 39725252--39725405 Score: 263
Period size: 24 Copynumber: 6.4 Consensus size: 24
39725242 GAGGAAGTGC
39725252 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
39725276 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
39725300 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
39725324 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
39725348 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
39725372 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
39725396 AAAAGAGGCT
1 AAAAG-GGCT
39725406 AGGCCTCTAG
Statistics
Matches: 122, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
24 118 0.97
25 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:39727808 original size:40 final size:40
Alignment explanation
Indices: 39727764--39727839 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
39727754 CGGCTAATAA
39727764 TGGCAC-TTAGTGTGCGATTTG-GAATAGCTTCGGCTAAATG
1 TGGCACATT-GTGTGCGATTTGTG-ATAGCTTCGGCTAAATG
*
39727804 TGGCACATTGTGTGCGTTTTGTGATAGCTTCGGCTA
1 TGGCACATTGTGTGCGATTTGTGATAGCTTCGGCTA
39727840 TATATATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
40 30 0.91
41 3 0.09
ACGTcount: A:0.18, C:0.16, G:0.30, T:0.36
Consensus pattern (40 bp):
TGGCACATTGTGTGCGATTTGTGATAGCTTCGGCTAAATG
Found at i:39729363 original size:31 final size:31
Alignment explanation
Indices: 39729325--39729388 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
39729315 CCTTTTCATA
39729325 TTTCATATTTCATAACACTGGGCCGAAGACT
1 TTTCATATTTCATAACACTGGGCCGAAGACT
* * *
39729356 TTTCATATTTCATAACATTTGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGACT
39729387 TT
1 TT
39729389 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:0.27, C:0.22, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGACT
Found at i:39729626 original size:25 final size:24
Alignment explanation
Indices: 39729602--39729679 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 24
39729592 GACCTACCCT
39729602 CTTTTAAT-AACTGGGGCAAAGCC
1 CTTTTAATAAACTGGGGCAAAGCC
** **
39729625 CTTTCCATAAACTTGGGAAAAAGCC
1 CTTTTAATAAAC-TGGGGCAAAGCC
39729650 CTTTTAATAAACTGGGGCAAAAGCC
1 CTTTTAATAAACTGGGGC-AAAGCC
39729675 CTTTT
1 CTTTT
39729680 CGGTAAAGTG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
23 6 0.14
24 7 0.16
25 31 0.70
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (24 bp):
CTTTTAATAAACTGGGGCAAAGCC
Found at i:39729686 original size:26 final size:25
Alignment explanation
Indices: 39729602--39729704 Score: 88
Period size: 25 Copynumber: 4.2 Consensus size: 25
39729592 GACCTACCCT
39729602 CTTTT-AAT-AACTGGGGCAAAGCC
1 CTTTTCAATAAACTGGGGCAAAGCC
* **
39729625 C-TTTCCATAAACTTGGGAAAAAGCC
1 CTTTTCAATAAAC-TGGGGCAAAGCC
39729650 CTTTT-AATAAACTGGGGCAAAAGCC
1 CTTTTCAATAAACTGGGGC-AAAGCC
** * * *
39729675 CTTTTCGGTAAAGTGGAGCATAGCC
1 CTTTTCAATAAACTGGGGCAAAGCC
39729700 CTTTT
1 CTTTT
39729705 TGCACTCCCT
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
22 3 0.05
23 3 0.05
24 7 0.11
25 38 0.60
26 12 0.19
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (25 bp):
CTTTTCAATAAACTGGGGCAAAGCC
Found at i:39737449 original size:31 final size:31
Alignment explanation
Indices: 39737414--39737477 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
39737404 CCTTTTCATA
39737414 TTTCATATTTCATAACACTAGGCCAAAGCCT
1 TTTCATATTTCATAACACTAGGCCAAAGCCT
*
39737445 TTTCATATTTCATAACACTGGGCCAAAGCCT
1 TTTCATATTTCATAACACTAGGCCAAAGCCT
39737476 TT
1 TT
39737478 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCAAAGCCT
Found at i:39737742 original size:25 final size:25
Alignment explanation
Indices: 39737703--39737776 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 25
39737693 TTTAATAACT
*
39737703 GGGGC-AAATCCCTTTCGATAAACC
1 GGGGCAAAAGCCCTTTCGATAAACC
* ** *
39737727 GTGGCAAAAGCCCTTTTAATAAACT
1 GGGGCAAAAGCCCTTTCGATAAACC
* *
39737752 GGGGCAGAAGCCCTTTTCGGTAAAC
1 GGGGCAAAAGCCC-TTTCGATAAAC
39737777 TAGGGCATAA
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
24 4 0.11
25 26 0.68
26 8 0.21
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (25 bp):
GGGGCAAAAGCCCTTTCGATAAACC
Done.