Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 126 of 141
Found at i:37549331 original size:28 final size:28
Alignment explanation
Indices: 37549291--37549352 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
37549281 GTCATTATTT
37549291 TGTCTTAGCATATGACATATTTAAA-TCA
1 TGTCTTAGCATATGACATA-TTAAATTCA
* *
37549319 TGTCTTAGTATATTACATATTAAATTCA
1 TGTCTTAGCATATGACATATTAAATTCA
37549347 TGTCTT
1 TGTCTT
37549353 TATTTGTCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 5 0.16
28 26 0.84
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (28 bp):
TGTCTTAGCATATGACATATTAAATTCA
Found at i:37557189 original size:23 final size:23
Alignment explanation
Indices: 37557163--37557221 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 23
37557153 TCGGAATGGT
37557163 TTAGGATTAGGTATGAAAA-TGAG
1 TTAGG-TTAGGTATGAAAAGTGAG
* *
37557186 TTAGGTTTAGGTTTGAAAAGTGAT
1 TTAGG-TTAGGTATGAAAAGTGAG
37557210 TTAGGTTAGGTA
1 TTAGGTTAGGTA
37557222 CGATTTGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 23 0.74
24 8 0.26
ACGTcount: A:0.32, C:0.00, G:0.31, T:0.37
Consensus pattern (23 bp):
TTAGGTTAGGTATGAAAAGTGAG
Found at i:37559027 original size:50 final size:52
Alignment explanation
Indices: 37558902--37559032 Score: 135
Period size: 50 Copynumber: 2.6 Consensus size: 52
37558892 TGAACAAATG
* * * *
37558902 AGTTACTTAATGCA-AGACTTAATTTAATGATGCAGACTTAAAGTAACATGGT
1 AGTTACATAATGCATA-ACTTTATTTAATGATGCAGACTTAAACTAACATGGA
** * *
37558954 AGTTACATAATGCATGTCATTATTT-ATGATGCATG-CTT-AACTAGCATGGA
1 AGTTACATAATGCATAACTTTATTTAATGATGCA-GACTTAAACTAACATGGA
*
37559004 AGTTACATAATGCATAACTTTATTAAATG
1 AGTTACATAATGCATAACTTTATTTAATG
37559033 CAGAACACAC
Statistics
Matches: 64, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
50 30 0.47
51 14 0.22
52 20 0.31
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (52 bp):
AGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATGGA
Found at i:37566176 original size:39 final size:40
Alignment explanation
Indices: 37566128--37566299 Score: 186
Period size: 40 Copynumber: 4.3 Consensus size: 40
37566118 GCTCCTCGTT
* * * *
37566128 CAAAGGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
** *
37566168 C-AATGCCTTCGGGACATAACCCGGATTTAACAACACGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
37566207 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
37566247 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
*
37566287 CAAAAGCCTTCGG
1 CAAATGCCTTCGG
37566300 ATCTTAGTCC
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 32 0.28
40 78 0.68
41 4 0.04
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:37566361 original size:41 final size:41
Alignment explanation
Indices: 37566284--37566361 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
37566274 TTTGTATCTC
* * *
37566284 GCACAAAAGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
37566325 GCAC-AAAGCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAAGCCTTC-GGATCTTAGCCCGGACA-CATTCA
37566362 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 20 0.62
41 12 0.38
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:37587585 original size:34 final size:34
Alignment explanation
Indices: 37587542--37587611 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
37587532 TAGCTCTGAT
37587542 ACCAATCAAATGTAACACCCCGAACCCGAAACCG
1 ACCAATCAAATGTAACACCCCGAACCCGAAACCG
*
37587576 ACCAATCAAATGTAACACCCTGAACCCGAAACCG
1 ACCAATCAAATGTAACACCCCGAACCCGAAACCG
37587610 AC
1 AC
37587612 ACCGGAGTCG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.37, G:0.11, T:0.10
Consensus pattern (34 bp):
ACCAATCAAATGTAACACCCCGAACCCGAAACCG
Found at i:37587891 original size:77 final size:76
Alignment explanation
Indices: 37587764--37587917 Score: 281
Period size: 77 Copynumber: 2.0 Consensus size: 76
37587754 AGAAACTAGA
*
37587764 CTCATGTGCCCATCTATGTATTTTTTTCAAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTA
1 CTCATGTGCCCATCTATGTATTTTTTTCAAGAATTTTTGGTCAGGCCAATTAGTACAGTTTATT-
37587829 GTCAAAGTCTCC
65 GTCAAAGTCTCC
*
37587841 CTCATGTGCCCATCTATGTATTTTTTTCTAGAATTTTTGGTCAGGCCAATTAGTACAGTTTATTG
1 CTCATGTGCCCATCTATGTATTTTTTTCAAGAATTTTTGGTCAGGCCAATTAGTACAGTTTATTG
37587906 TCAAAGTCTCC
66 TCAAAGTCTCC
37587917 C
1 C
37587918 ATGTTGCAGG
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
76 13 0.17
77 62 0.83
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (76 bp):
CTCATGTGCCCATCTATGTATTTTTTTCAAGAATTTTTGGTCAGGCCAATTAGTACAGTTTATTG
TCAAAGTCTCC
Found at i:37589042 original size:27 final size:27
Alignment explanation
Indices: 37589012--37589188 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
37589002 ATATTGAGTC
* *
37589012 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
37589039 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
37589066 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
37589094 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
*
37589121 CGCACACTTAGTGC-ATCATATTC-ACTT
1 CGCACACTTAGTGCTA-CATAATCAAC-T
* * *
37589148 CGCACACTTAGTGCAACATAGTCTA-T
1 CGCACACTTAGTGCTACATAATCAACT
37589174 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37589189 GTACAATTTA
Statistics
Matches: 128, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
26 16 0.12
27 87 0.68
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:37589104 original size:55 final size:54
Alignment explanation
Indices: 37589012--37589188 Score: 198
Period size: 55 Copynumber: 3.3 Consensus size: 54
37589002 ATATTGAGTC
* * * * *
37589012 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
37589066 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* *
37589121 CGCACACTTAGTGC-ATCATATTC-ACTTCGCACACTTAGTGCAACATAGTC-TAT
1 CGCACACTTAGTGCTA-CATAATCAAC-TCGCACACTTAGTGCAACATAGTCAAAT
37589174 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37589189 GTACAATTTA
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
53 17 0.16
54 42 0.40
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:37589151 original size:82 final size:80
Alignment explanation
Indices: 37589033--37589187 Score: 213
Period size: 82 Copynumber: 1.9 Consensus size: 80
37589023 TGCTATATAA
* *
37589033 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-AA-TCGCA
37589098 CACTTAGTGCCGCATGG
64 CACTTAGTGCCGCATGG
* * ** *
37589115 TCAATTCGCACACTTAGTGC-ATCATATTCACTTCGCACACTTAGTGCAACATAGTCTATCGCAC
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAATCGCAC
37589179 ACTTAGTGC
65 ACTTAGTGC
37589188 TGTACAATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 15 0.23
81 2 0.03
82 48 0.74
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAATCGCACA
CTTAGTGCCGCATGG
Found at i:37589915 original size:116 final size:116
Alignment explanation
Indices: 37589708--37589938 Score: 453
Period size: 116 Copynumber: 2.0 Consensus size: 116
37589698 GTTTTCCTGC
37589708 GCAGTAGTCGCTAAATTGTTTATAACTGGAGCTACAAAACTCCAAATCACTAGCCGTTAATTTTA
1 GCAGTAGTCGCTAAATTGTTTATAACTGGAGCTACAAAACTCCAAATCACTAGCCGTTAATTTTA
37589773 CCTGAATATAGACTCGTATATATTCCATCCATAAAATTTTCAGAATTTTTA
66 CCTGAATATAGACTCGTATATATTCCATCCATAAAATTTTCAGAATTTTTA
37589824 GCAGTAGTCGCTAAATTGTTTATAACTGGAGCTACAAAACTCCAAATCACTAGCCGTTAATTTTA
1 GCAGTAGTCGCTAAATTGTTTATAACTGGAGCTACAAAACTCCAAATCACTAGCCGTTAATTTTA
*
37589889 CCTGAATATAGACTCGTATATCTTCCATCCATAAAATTTTCAGAATTTTT
66 CCTGAATATAGACTCGTATATATTCCATCCATAAAATTTTCAGAATTTTT
37589939 GGCTTGGCCA
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 114 1.00
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (116 bp):
GCAGTAGTCGCTAAATTGTTTATAACTGGAGCTACAAAACTCCAAATCACTAGCCGTTAATTTTA
CCTGAATATAGACTCGTATATATTCCATCCATAAAATTTTCAGAATTTTTA
Found at i:37599910 original size:51 final size:49
Alignment explanation
Indices: 37599832--37599972 Score: 192
Period size: 49 Copynumber: 2.8 Consensus size: 49
37599822 TGTAAGGTCG
*
37599832 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT-GATCA
* * * * * *
37599883 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGATCA
*
37599932 CATGTGTAGTACCAAGTGCAGGCTACTATGCGTACCAGATA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
37599973 GCTTTGGCTA
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
49 39 0.49
50 2 0.03
51 38 0.48
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGATCA
Found at i:37599957 original size:49 final size:51
Alignment explanation
Indices: 37599827--37599972 Score: 197
Period size: 51 Copynumber: 2.9 Consensus size: 51
37599817 TCTATTGTAA
* *
37599827 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAACTTC
* * * *
37599878 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAACTTC
* * *
37599927 GGTCGCATGTGTAGTACCAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATA
37599973 GCTTTGGCTA
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 39 0.48
50 2 0.02
51 41 0.50
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (51 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAACTTC
Found at i:37605616 original size:50 final size:50
Alignment explanation
Indices: 37605484--37605680 Score: 243
Period size: 50 Copynumber: 3.9 Consensus size: 50
37605474 ATCTATTGTG
* * *
37605484 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT-ACTT
* * * * * * **
37605535 CGATCACGTGTGTAGTACTAAGTGCATGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATACTT
*
37605585 AGGTCACATTTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATACTT
** *
37605635 -GGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
37605681 GCTTTGGCTA
Statistics
Matches: 122, Mismatches: 24, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
49 42 0.34
50 43 0.35
51 37 0.30
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATACTT
Found at i:37605660 original size:49 final size:49
Alignment explanation
Indices: 37605489--37605680 Score: 224
Period size: 49 Copynumber: 3.9 Consensus size: 49
37605479 TTGTGAGGTC
* * *
37605489 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGAT
1 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT-ACTTGGTT
* * * * ** *
37605539 -CACGTGTGTAGTACTAAGTGCATGCTACTACGTGTATCAGATGGTTAGGTC
1 GCA--TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATACTT-GGTT
* * *
37605590 ACATTTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATACTTGGTT
1 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATACTTGGTT
37605639 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
37605681 GCTTTGGCTA
Statistics
Matches: 118, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
49 44 0.37
50 38 0.32
51 34 0.29
52 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (49 bp):
GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATACTTGGTT
Found at i:37609742 original size:47 final size:46
Alignment explanation
Indices: 37609673--37609834 Score: 175
Period size: 46 Copynumber: 3.5 Consensus size: 46
37609663 GCCAATGCCC
* *
37609673 TGTCCCAGACACAGTCTTACACTGGCTCATATCTC-AAGTCGAAGTCA
1 TGTCCCAGACA-TGTCTTACACTGGCTCATATCTCGAAGCCGAAG-CA
* * *
37609720 TGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTAGCCGACGCA
1 TGTCCCAGACAT-GTCTTACACTGGCTCAT-ATCTCGAAGCCGAAGCA
* * * * * *
37609767 TATCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGGCTCATATCTCGAAGCCGAAGCA
37609813 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
37609835 AGCACTCGTA
Statistics
Matches: 98, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
46 49 0.50
47 43 0.44
48 6 0.06
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (46 bp):
TGTCCCAGACATGTCTTACACTGGCTCATATCTCGAAGCCGAAGCA
Found at i:37617855 original size:40 final size:40
Alignment explanation
Indices: 37617818--37618001 Score: 182
Period size: 40 Copynumber: 4.6 Consensus size: 40
37617808 GCTACTCGTT
*
37617818 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
37617858 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* **
37617898 TC-AATGCCTTTGGG-CTTAGCCC-GAAATTAGTAACTCGCA
1 -CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
37617937 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
*
37617978 CAAA-GCCTTCAGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
37618002 ACATCATTCG
Statistics
Matches: 121, Mismatches: 13, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
38 4 0.03
39 27 0.22
40 73 0.60
41 17 0.14
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:37617918 original size:79 final size:79
Alignment explanation
Indices: 37617785--37617965 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 79
37617775 GAATCACGTA
* **
37617785 CCTTCGGAACTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCG-GTTATAG
1 CCTTCGGAACTTAACCGGATATAGCTACTCGATCAAATGCCTTCGGGACATAGCCCGAAAT-TAG
37617849 TAACTCGCACAAATG
65 TAACTCGCACAAATG
* * * *
37617864 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGCATC-AATGCCTTTGGG-CTTAGCCCGAAATT
1 CCTTCGGAACTTAA-CCGGATATAGCT-ACTCG-ATCAAATGCCTTCGGGACATAGCCCGAAATT
37617926 AGTAACTCGCACAAATG
63 AGTAACTCGCACAAATG
* *
37617943 CCTTCGGATCTTAGTCCGGATAT
1 CCTTCGGAACTTA-ACCGGATAT
37617966 GGTCACTTAG
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
79 58 0.67
80 26 0.30
81 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (79 bp):
CCTTCGGAACTTAACCGGATATAGCTACTCGATCAAATGCCTTCGGGACATAGCCCGAAATTAGT
AACTCGCACAAATG
Found at i:37617986 original size:79 final size:80
Alignment explanation
Indices: 37617785--37618000 Score: 194
Period size: 79 Copynumber: 2.7 Consensus size: 80
37617775 GAATCACGTA
* * * * * **
37617785 CCTTCGGAACTTAA-CCGGATATAGCT-ACTCG-TTCAAATGCCTTCGGGACATAGCCCG-GTTA
1 CCTTCGGGACTTAACCCGGATATAG-TAACTAGCATCAAA-GCCTTCAGGACTTAGCCCGAAAT-
37617846 TAGTAACTCGCACAAATG
63 TAGTAACTCGCACAAATG
* * * * *
37617864 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCATCAATGCCTT-TGGGCTTAGCCCGAAATTAG
1 CCTTCGGGACTTAACCCGGATATAGTAACTAGCATCAAAGCCTTCAGGACTTAGCCCGAAATTAG
37617928 TAACTCGCACAAATG
66 TAACTCGCACAAATG
** * *
37617943 CCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCAGGACTTAGCCCG
1 CCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCATCAAAGCCTTCAGGACTTAGCCCG
37618001 GACATCATTC
Statistics
Matches: 112, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
78 3 0.03
79 70 0.62
80 35 0.31
81 4 0.04
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTAACTAGCATCAAAGCCTTCAGGACTTAGCCCGAAATTAG
TAACTCGCACAAATG
Found at i:37618784 original size:38 final size:38
Alignment explanation
Indices: 37618742--37618820 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
37618732 CAAGTTCAAA
*
37618742 ACTTGGCTAATACACACATATACACTAGTAAATCAATC
1 ACTTGGCTAATACACACATATACACTAGTAAATCAAGC
*
37618780 ACTTGGCTAATGCACACATATACACTAGTAAATCAAGC
1 ACTTGGCTAATACACACATATACACTAGTAAATCAAGC
37618818 ACT
1 ACT
37618821 AACATTTGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.25
Consensus pattern (38 bp):
ACTTGGCTAATACACACATATACACTAGTAAATCAAGC
Found at i:37619332 original size:23 final size:24
Alignment explanation
Indices: 37619280--37619337 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
37619270 AAAGGATGGA
*
37619280 CACATTTT-TTTTTCTTTTGTTTT
1 CACATTTTCTTTCTCTTTTGTTTT
*
37619303 CATCATTTTCTTTCTCTTTTTTTTT
1 CA-CATTTTCTTTCTCTTTTGTTTT
37619328 C-CA-TTTCTTT
1 CACATTTTCTTT
37619338 ATTACTAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 7 0.23
23 4 0.13
24 6 0.19
25 14 0.45
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.71
Consensus pattern (24 bp):
CACATTTTCTTTCTCTTTTGTTTT
Found at i:37625906 original size:39 final size:39
Alignment explanation
Indices: 37625852--37626101 Score: 235
Period size: 40 Copynumber: 6.3 Consensus size: 39
37625842 GAATCACGTA
* * **
37625852 CCTTCGGAATTTAACCGGATATAGCT-ACTCGTTCAAATG
1 CCTTCGGGACTTAACCGGATATAG-TAACTCGCACAAATG
* *
37625891 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATG
1 CCTTCGGGACTTAA-CCGGATATAGTAACTCGCACAAATG
*
37625931 CCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTA-ACCGGATA-TAGTAACTCGCACAAATG
* *
37625970 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATG
1 CCTTCGGGACTTAA-CCGGATATAGTAACTCGCACAAATG
*
37626010 CCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTA-ACCGGATA-TAGTAACTCGCACAAATG
* * * *
37626049 CCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-G
1 CCTTCGGGA-CTTA-ACCGGATATAGTAAC-TCGCACAAATG
37626089 CCTTCGGGACTTA
1 CCTTCGGGACTTA
37626102 GCCCGGACAT
Statistics
Matches: 178, Mismatches: 19, Indels: 27
0.79 0.08 0.12
Matches are distributed among these distances:
38 2 0.01
39 78 0.44
40 86 0.48
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCGGATATAGTAACTCGCACAAATG
Found at i:37625922 original size:40 final size:40
Alignment explanation
Indices: 37625885--37626108 Score: 285
Period size: 40 Copynumber: 5.7 Consensus size: 40
37625875 GCTACTCGTT
37625885 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
37625925 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
37625964 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
37626004 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
37626043 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
37626084 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
37626109 CATTATTCGA
Statistics
Matches: 162, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 69 0.43
40 80 0.49
41 11 0.07
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:37625983 original size:79 final size:79
Alignment explanation
Indices: 37625885--37626113 Score: 345
Period size: 79 Copynumber: 2.9 Consensus size: 79
37625875 GCTACTCGTT
37625885 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGA
37625950 ATTAGTAACTCGCA
66 ATTAGTAACTCGCA
37625964 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGA
37626029 ATTAGTAACTCGCA
66 ATTAGTAACTCGCA
** * * * * *
37626043 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACCAATGCCTTCGGG-CTTAGCCC
37626106 GGACATTA
63 GGA-ATTA
37626114 TTCGAATAAC
Statistics
Matches: 139, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
78 3 0.02
79 117 0.84
80 15 0.11
81 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:37629387 original size:50 final size:50
Alignment explanation
Indices: 37629330--37629454 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 50
37629320 TATCCAAGAT
* ** * * * *
37629330 ATGGTCTTATATGGGAGTTCTCATATTGGTGCCCACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATCTCCCAAAC
* ** *
37629380 ATTGTCTTACCGGGGACCTCTCATCTCGGTGCCAACGCCATCTCCCAAAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATCTCCCAAAC
37629430 ATGGTCTTACATGGGACCTCTCATA
1 ATGGTCTTACATGGGACCTCTCATA
37629455 ATCTCAATGA
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATCTCCCAAAC
Found at i:37634249 original size:13 final size:13
Alignment explanation
Indices: 37634231--37634256 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37634221 ATTCTAAGAG
37634231 GAAATAATTTCAA
1 GAAATAATTTCAA
37634244 GAAATAATTTCAA
1 GAAATAATTTCAA
37634257 TTTTTCGATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
GAAATAATTTCAA
Found at i:37634978 original size:3 final size:3
Alignment explanation
Indices: 37634965--37635014 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
37634955 CTCTATGAGA
* *
37634965 TCT TTT TCT TCT TCT TCT TCT TCT TCT TCTT TCT TCT ACT TC- TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC-T TCT TCT TCT TCT TCT
37635010 TCT TC
1 TCT TC
37635015 GGGATCCTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:37656923 original size:50 final size:50
Alignment explanation
Indices: 37656789--37657030 Score: 222
Period size: 50 Copynumber: 4.7 Consensus size: 50
37656779 GATAATAACA
* * * *
37656789 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-TGT-T--TCTTGTAC
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACT-TCTAATCTCG--G
* * * * * *
37656838 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTAATATCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTAATCTCGG
* * * *
37656888 TGCCCATGCCATGTCTCAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTAATCTCGG
* *
37656938 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA-CT-TC-TAATCTC--GG
*
37656993 ATGCCAATGCCATATCCCAAACATGGTCTTACATGGGA
1 -TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
37657031 TCTCTTTACC
Statistics
Matches: 159, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
49 34 0.21
50 76 0.48
51 1 0.01
52 5 0.03
53 6 0.04
55 2 0.01
56 35 0.22
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACTTCTAATCTCGG
Found at i:37659892 original size:18 final size:18
Alignment explanation
Indices: 37659870--37659913 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
37659860 CTCTTTCTTT
*
37659870 CTCTTCTTCAACAACTTC
1 CTCTTCTGCAACAACTTC
* * *
37659888 TTCTTCAGCAACAATTTC
1 CTCTTCTGCAACAACTTC
37659906 CTCTTCTG
1 CTCTTCTG
37659914 TAGCAGCAGC
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.34, G:0.05, T:0.41
Consensus pattern (18 bp):
CTCTTCTGCAACAACTTC
Found at i:37666810 original size:25 final size:25
Alignment explanation
Indices: 37666776--37666825 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
37666766 AGGTATCATC
37666776 AGGAATGCCTTGTTGACTAAAGGAA
1 AGGAATGCCTTGTTGACTAAAGGAA
*
37666801 AGGAATGCCTTGTTGGCTAAAGGAA
1 AGGAATGCCTTGTTGACTAAAGGAA
37666826 GCACAGATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.12, G:0.30, T:0.24
Consensus pattern (25 bp):
AGGAATGCCTTGTTGACTAAAGGAA
Found at i:37670787 original size:25 final size:25
Alignment explanation
Indices: 37670758--37670877 Score: 134
Period size: 25 Copynumber: 4.8 Consensus size: 25
37670748 GCAAATACTC
* *
37670758 TATAGCTCGTGAGAGCATACTGATT
1 TATAGCTCGTAAGAGCATACCGATT
* *
37670783 TATAGCTCGTAAGACCATACCAATT
1 TATAGCTCGTAAGAGCATACCGATT
* *
37670808 TATAGCTCGTGAGAGCATACCGATC
1 TATAGCTCGTAAGAGCATACCGATT
*
37670833 TACAGCTCG-AATGAGCATACCGATT
1 TATAGCTCGTAA-GAGCATACCGATT
* * *
37670858 CACAGCTCGTATGAGCATAC
1 TATAGCTCGTAAGAGCATAC
37670878 ATTTGCATGA
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
24 1 0.01
25 78 0.98
26 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (25 bp):
TATAGCTCGTAAGAGCATACCGATT
Found at i:37671553 original size:22 final size:22
Alignment explanation
Indices: 37671509--37671549 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
37671499 TATGTATATA
37671509 AGTAACCTTAAAATGGTTGATG
1 AGTAACCTTAAAATGGTTGATG
*
37671531 AGTAA-CTTAATATGGTTGA
1 AGTAACCTTAAAATGGTTGA
37671550 ATGATGGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (22 bp):
AGTAACCTTAAAATGGTTGATG
Found at i:37677865 original size:29 final size:29
Alignment explanation
Indices: 37677830--37677903 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
37677820 GTTGTGAGAT
* *
37677830 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
37677859 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
37677888 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
37677904 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:37684339 original size:47 final size:47
Alignment explanation
Indices: 37684286--37684696 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
37684276 TTAGGATTCT
37684286 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
37684333 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
37684380 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
37684427 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
37684474 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
37684521 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
37684568 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
37684615 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
37684662 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
37684697 TCCCGAAGGG
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:37684871 original size:37 final size:37
Alignment explanation
Indices: 37684815--37684893 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
37684805 CCGAGCTCTA
* *
37684815 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
37684852 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
37684889 AAGAC
1 AAGAC
37684894 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:37691858 original size:21 final size:22
Alignment explanation
Indices: 37691822--37691862 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
37691812 TATGTATATA
37691822 AGTAACCTTAAAATGGTTGACG
1 AGTAACCTTAAAATGGTTGACG
*
37691844 AGTAA-CTTAATATGGTTGA
1 AGTAACCTTAAAATGGTTGA
37691863 ATGATGGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.32
Consensus pattern (22 bp):
AGTAACCTTAAAATGGTTGACG
Found at i:37695694 original size:28 final size:29
Alignment explanation
Indices: 37695662--37695760 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
37695652 ATAATAAGCC
*
37695662 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
37695690 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * * *
37695718 CGTACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
37695747 CGCACACTTAGTGC
1 CGCACACTTAGTGC
37695761 CAATCTCATG
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.61
29 18 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:37697599 original size:14 final size:14
Alignment explanation
Indices: 37697580--37697627 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
37697570 TTCAAAGCAA
37697580 TCCAATTTCTCATT
1 TCCAATTTCTCATT
*
37697594 TCCAA-TT-TCA-A
1 TCCAATTTCTCATT
*
37697605 GCCAATTTCTCATT
1 TCCAATTTCTCATT
37697619 TCCAATTTC
1 TCCAATTTC
37697628 AAGTCAATCT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
11 4 0.15
12 5 0.19
13 5 0.19
14 13 0.48
ACGTcount: A:0.25, C:0.29, G:0.02, T:0.44
Consensus pattern (14 bp):
TCCAATTTCTCATT
Found at i:37697611 original size:25 final size:25
Alignment explanation
Indices: 37697581--37697635 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
37697571 TCAAAGCAAT
37697581 CCAATTTCTCATTTCCAATTTCAAG
1 CCAATTTCTCATTTCCAATTTCAAG
37697606 CCAATTTCTCATTTCCAATTTCAAG
1 CCAATTTCTCATTTCCAATTTCAAG
*
37697631 TCAAT
1 CCAAT
37697636 CTTCAATTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.29, C:0.27, G:0.04, T:0.40
Consensus pattern (25 bp):
CCAATTTCTCATTTCCAATTTCAAG
Found at i:37701514 original size:40 final size:39
Alignment explanation
Indices: 37701447--37701536 Score: 126
Period size: 40 Copynumber: 2.3 Consensus size: 39
37701437 GGACTAAGAT
* *
37701447 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTT-AGTC
* **
37701487 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAGTC
37701526 CCGAAGGCATT
1 CCGAAGGCATT
37701537 TGAACGAGGA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 15 0.33
40 30 0.67
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAGTC
Found at i:37701556 original size:39 final size:40
Alignment explanation
Indices: 37701469--37701571 Score: 120
Period size: 39 Copynumber: 2.6 Consensus size: 40
37701459 GTGCGAGATA
** **
37701469 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGAACGAGGAG
* *
37701509 TTAAATCCGGGTT-AGTCCCGAAGGCATTTGAACGAGGAG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGAACGAGGAG
* *
37701548 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
37701572 TACGTGATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
38 4 0.08
39 37 0.70
40 12 0.23
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGAACGAGGAG
Found at i:37701926 original size:230 final size:229
Alignment explanation
Indices: 37701510--37701958 Score: 871
Period size: 230 Copynumber: 2.0 Consensus size: 229
37701500 TGCGAGTTGT
* *
37701510 TAAATCCGGGTTAGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAATCCCGAAGGTAC
1 TAAAACCGGGCTAGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAATCCCGAAGGTAC
37701575 GTGATTTGGTAATGAATGAGCTTGCTGTAAAATTCCAGCGAATACTCGAAAAACATCCCAATATG
66 GTGATTTGGTAATGAATGAGCTTGCTGTAAAATTCCAGCGAATACTCGAAAAACATCCCAATATG
37701640 GGGATATGTTACGTATGTGTTGAATTTAATCGAGCCCTTACAAATAAATGTTCGCTCAGTTGATA
131 GGGATATGTTACGTATGTGTTGAATTTAATCGAGCCCTTACAAATAAATGTTCGCTCAGTTGATA
37701705 AACGAGCTACCGGCCTTCGGCCAATGTGAGTTAC
196 AACGAGCTACCGGCCTTCGGCCAATGTGAGTTAC
37701739 TAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAATCCCGAAGGTA
1 TAAAACCGGGCTA-GTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAATCCCGAAGGTA
37701804 CGTGATTTGGTAATGAATGAGCTTGCTGTAAAATTCCAGCGAATACTCGAAAAACATCCCAATAT
65 CGTGATTTGGTAATGAATGAGCTTGCTGTAAAATTCCAGCGAATACTCGAAAAACATCCCAATAT
37701869 GGGGATATGTTACGTATGTGTTGAATTTAATCGAGCCCTTACAAATAAATGTTCGCTCAGTTGAT
130 GGGGATATGTTACGTATGTGTTGAATTTAATCGAGCCCTTACAAATAAATGTTCGCTCAGTTGAT
37701934 AAACGAGCTACCGGCCTTCGGCCAA
195 AAACGAGCTACCGGCCTTCGGCCAA
37701959 GTTAGTTTAT
Statistics
Matches: 217, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
229 11 0.05
230 206 0.95
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (229 bp):
TAAAACCGGGCTAGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAATCCCGAAGGTAC
GTGATTTGGTAATGAATGAGCTTGCTGTAAAATTCCAGCGAATACTCGAAAAACATCCCAATATG
GGGATATGTTACGTATGTGTTGAATTTAATCGAGCCCTTACAAATAAATGTTCGCTCAGTTGATA
AACGAGCTACCGGCCTTCGGCCAATGTGAGTTAC
Found at i:37702325 original size:70 final size:70
Alignment explanation
Indices: 37702212--37702355 Score: 270
Period size: 70 Copynumber: 2.1 Consensus size: 70
37702202 ATCAAAGGCT
*
37702212 CTTTTGGGTACTATTTTGGTTGAATTTTGATATGGCATGTATAGGACTACCCATTGTTGTCTTTC
1 CTTTTGGGTACTATTTTGGTTGAATTTTGATATGGCATGTATAGGACTACCCATCGTTGTCTTTC
37702277 GAGTA
66 GAGTA
*
37702282 CTTTTGGGTACTATTTTGGTTGGATTTTGATATGGCATGTATAGGACTACCCATCGTTGTCTTTC
1 CTTTTGGGTACTATTTTGGTTGAATTTTGATATGGCATGTATAGGACTACCCATCGTTGTCTTTC
37702347 GAGTA
66 GAGTA
37702352 CTTT
1 CTTT
37702356 ATGAAATGTA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.19, C:0.14, G:0.23, T:0.44
Consensus pattern (70 bp):
CTTTTGGGTACTATTTTGGTTGAATTTTGATATGGCATGTATAGGACTACCCATCGTTGTCTTTC
GAGTA
Found at i:37710110 original size:102 final size:102
Alignment explanation
Indices: 37709934--37710136 Score: 397
Period size: 102 Copynumber: 2.0 Consensus size: 102
37709924 GAAATTAAAT
*
37709934 CTTAATGAGTCTAGTTTCTTATAAAAGAAACCGTGTAAGCAAAGGGATTTCCGATAATGAGATAC
1 CTTAATGAGTCTAGTTTCTTATAAAAGAAACCGTGTAAGCAAAGAGATTTCCGATAATGAGATAC
37709999 TTAAAGTTGTGTGAGACAGCGCAGAATGACACTGTAG
66 TTAAAGTTGTGTGAGACAGCGCAGAATGACACTGTAG
37710036 CTTAATGAGTCTAGTTTCTTATAAAAGAAACCGTGTAAGCAAAGAGATTTCCGATAATGAGATAC
1 CTTAATGAGTCTAGTTTCTTATAAAAGAAACCGTGTAAGCAAAGAGATTTCCGATAATGAGATAC
37710101 TTAAAGTTGTGTGAGACAGCGCAGAATGACACTGTA
66 TTAAAGTTGTGTGAGACAGCGCAGAATGACACTGTA
37710137 ATCCTCTGTT
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 100 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (102 bp):
CTTAATGAGTCTAGTTTCTTATAAAAGAAACCGTGTAAGCAAAGAGATTTCCGATAATGAGATAC
TTAAAGTTGTGTGAGACAGCGCAGAATGACACTGTAG
Found at i:37711147 original size:15 final size:15
Alignment explanation
Indices: 37711127--37711157 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
37711117 CTTTTTCCCT
37711127 AAATCTGTCCAACAC
1 AAATCTGTCCAACAC
*
37711142 AAATCTGTCCTACAC
1 AAATCTGTCCAACAC
37711157 A
1 A
37711158 TGTAGCACTA
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:0.39, C:0.32, G:0.06, T:0.23
Consensus pattern (15 bp):
AAATCTGTCCAACAC
Found at i:37741755 original size:50 final size:51
Alignment explanation
Indices: 37741686--37741817 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 51
37741676 ATCATTCGAT
* * * * ** *
37741686 ACACGTAGTAGCCTTCACATAGTACTACACACATGATCAAAA-TTTTTGGT
1 ACACATAGTAGCCTCCACATAGTACTACACACATGACCAAAACCTTTCAGC
* *
37741736 TCACATAGTAGCCTCCACATATTACTACACACATGACCAAAACCTTTCAGC
1 ACACATAGTAGCCTCCACATAGTACTACACACATGACCAAAACCTTTCAGC
*
37741787 ACACATAGTAGCCTGCACATAGTACTACACA
1 ACACATAGTAGCCTCCACATAGTACTACACA
37741818 TGTGGCCATT
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 37 0.54
51 32 0.46
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.25
Consensus pattern (51 bp):
ACACATAGTAGCCTCCACATAGTACTACACACATGACCAAAACCTTTCAGC
Found at i:37743823 original size:21 final size:20
Alignment explanation
Indices: 37743794--37743839 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
37743784 CGAAAGGCAA
37743794 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
37743815 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
37743835 T-AACC
1 TCAACC
37743840 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:37744444 original size:14 final size:14
Alignment explanation
Indices: 37744425--37744451 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37744415 CATTTCTTGT
37744425 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
37744439 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
37744452 ACTGGACCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:37748185 original size:13 final size:14
Alignment explanation
Indices: 37748157--37748196 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
37748147 ATAAAGCTGA
37748157 TAATAATTAATATAT
1 TAATAATT-ATATAT
*
37748172 ATTATAATTATATAT
1 -TAATAATTATATAT
37748187 TAATAATTAT
1 TAATAATTAT
37748197 CACCTTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 9 0.41
15 6 0.27
16 7 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATAATTATATAT
Found at i:37756427 original size:19 final size:20
Alignment explanation
Indices: 37756389--37756427 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
37756379 ATTTTTAAGG
*
37756389 TTAAAATGGTAAATAGGTAA
1 TTAAAATGGTAAATAAGTAA
*
37756409 TTAAAAT-GTAATTAAGTAA
1 TTAAAATGGTAAATAAGTAA
37756428 AGAAAAATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.33
Consensus pattern (20 bp):
TTAAAATGGTAAATAAGTAA
Found at i:37757083 original size:42 final size:43
Alignment explanation
Indices: 37757012--37757131 Score: 143
Period size: 42 Copynumber: 2.7 Consensus size: 43
37757002 TTCTTAGGGT
* * * *
37757012 GCAAGTCAGTGAGTTACACAGCTTGGCACACGAGCATGT-GGA
1 GCAACTCAGTGAGTTACACTGCCTAGCACACGAGCATGTCGGA
* *
37757054 GTAACTCAGTGAGTTACACTGCCTAGCACACGGGCATGTCACACGGA
1 GCAACTCAGTGAGTTACACTGCCTAGCACACGAGCATGT----CGGA
37757101 GCAACTCAGTGAGTTACACTGCCTAGCACAC
1 GCAACTCAGTGAGTTACACTGCCTAGCACAC
37757132 AGGCTTGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
42 33 0.50
47 33 0.50
ACGTcount: A:0.28, C:0.27, G:0.26, T:0.19
Consensus pattern (43 bp):
GCAACTCAGTGAGTTACACTGCCTAGCACACGAGCATGTCGGA
Found at i:37757125 original size:47 final size:47
Alignment explanation
Indices: 37757051--37757146 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
37757041 ACGAGCATGT
* *
37757051 GGAGTAACTCAGTGAGTTACACTGCCTAGCACACGGGCATGTCACAC
1 GGAGCAACTCAGTGAGTTACACTGCCTAGCACACAGGCATGTCACAC
*
37757098 GGAGCAACTCAGTGAGTTACACTGCCTAGCACACAGGCTTGTCACAC
1 GGAGCAACTCAGTGAGTTACACTGCCTAGCACACAGGCATGTCACAC
37757145 GG
1 GG
37757147 CCATGTGTCC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.27, C:0.28, G:0.26, T:0.19
Consensus pattern (47 bp):
GGAGCAACTCAGTGAGTTACACTGCCTAGCACACAGGCATGTCACAC
Found at i:37762937 original size:23 final size:23
Alignment explanation
Indices: 37762897--37762949 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
37762887 CTAAAAAGCT
*
37762897 CTTGTGGTGTATTCTGTGATACC
1 CTTGTGGCGTATTCTGTGATACC
*
37762920 CTTGTGGCGTAATT-TGTGATGCC
1 CTTGTGGCGT-ATTCTGTGATACC
*
37762943 TTTGTGG
1 CTTGTGG
37762950 TGAAATCTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.11, C:0.15, G:0.30, T:0.43
Consensus pattern (23 bp):
CTTGTGGCGTATTCTGTGATACC
Found at i:37770174 original size:12 final size:12
Alignment explanation
Indices: 37770157--37770189 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
37770147 CAAGTCAATC
37770157 CCAAACTGATGA
1 CCAAACTGATGA
37770169 CCAAACTGATGA
1 CCAAACTGATGA
37770181 CCAAACTGA
1 CCAAACTGA
37770190 AGTAGTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.27, G:0.15, T:0.15
Consensus pattern (12 bp):
CCAAACTGATGA
Found at i:37774378 original size:42 final size:42
Alignment explanation
Indices: 37774313--37774411 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 42
37774303 GTGGATACTT
*
37774313 CACAGCTCATGTGAACAGCATCATGTAGCTTACA-TTCTGACC
1 CACAGCTCATGTGAGCAGCATCATGTAGCTTACATTTC-GACC
* *
37774355 CACAGCTCGTGTGAGCAGTATCATGTAGCTTACATTTCGACC
1 CACAGCTCATGTGAGCAGCATCATGTAGCTTACATTTCGACC
*
37774397 CACGGCTCATGTGAG
1 CACAGCTCATGTGAG
37774412 TAGGCCCATT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 48 0.94
43 3 0.06
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (42 bp):
CACAGCTCATGTGAGCAGCATCATGTAGCTTACATTTCGACC
Found at i:37779551 original size:56 final size:56
Alignment explanation
Indices: 37779465--37779608 Score: 288
Period size: 56 Copynumber: 2.6 Consensus size: 56
37779455 TTACGCCCCG
37779465 ATTACGCGCGTATTACATTACGCCCCTAATCCGGCGTTTGGTTCGCTGTATTAGCC
1 ATTACGCGCGTATTACATTACGCCCCTAATCCGGCGTTTGGTTCGCTGTATTAGCC
37779521 ATTACGCGCGTATTACATTACGCCCCTAATCCGGCGTTTGGTTCGCTGTATTAGCC
1 ATTACGCGCGTATTACATTACGCCCCTAATCCGGCGTTTGGTTCGCTGTATTAGCC
37779577 ATTACGCGCGTATTACATTACGCCCCTAATCC
1 ATTACGCGCGTATTACATTACGCCCCTAATCC
37779609 CCAAATTCCC
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 88 1.00
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.31
Consensus pattern (56 bp):
ATTACGCGCGTATTACATTACGCCCCTAATCCGGCGTTTGGTTCGCTGTATTAGCC
Found at i:37783934 original size:25 final size:26
Alignment explanation
Indices: 37783902--37783956 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
37783892 TTATTAAATT
*
37783902 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
37783927 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
37783952 A-ATAT
1 ATATAT
37783957 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:37784144 original size:44 final size:45
Alignment explanation
Indices: 37784095--37784188 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
37784085 TACACCTCTG
* *
37784095 TTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCCA
1 TTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCCA
** *
37784139 TTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCCA
1 TTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCCA
37784184 TTACA
1 TTACA
37784189 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 17 0.39
45 27 0.61
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (45 bp):
TTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCCA
Found at i:37784188 original size:16 final size:16
Alignment explanation
Indices: 37784169--37784220 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
37784159 GATTTGCTAT
* *
37784169 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
37784185 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
37784201 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
37784217 TACA
1 TACA
37784221 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:37789408 original size:269 final size:270
Alignment explanation
Indices: 37788912--37789439 Score: 986
Period size: 269 Copynumber: 2.0 Consensus size: 270
37788902 GCTAATATAT
* *
37788912 ATAAATAAACGAATTGCTTCCAAAATCTTTGTCAAGCATGATTTACAGATACATCCTCCCAGCAT
1 ATAAATAAACGAATTGCTTCCAAAAACTTTGTCAAGCATGATTTACAGATACATCCTCCAAGCAT
*
37788977 AATAATGCTCTAATACATTAACAAAAACAAACTTCACTAACTGGAAAAATTTAGCATGCTGGTTG
66 AATAATACTCTAATACATTAACAAAAACAAACTTCACTAACTGGAAAAATTTAGCATGCTGGTTG
37789042 TGTTCTACCTGTTTAAAATCCAATTCTCGAAAGTAAATTTTACTCTAGCATCCCCCAATGGTGCA
131 TGTTCTACCTGTTTAAAATCCAATTCTCGAAAGTAAATTTTACTCTAGCATCCCCCAATGGTGCA
*
37789107 TAAAACTGCCCTAAACATGCTAAGAGAAACAAATGCATGCAACCAAAGATTACAAGCAGAGTTGC
196 TAAAACTGCCCTAAACAAGCTAAGAGAAACAAATGCATGCAACCAAAGATTACAAGCAGAGTTGC
37789172 TTCCAAATAA
261 TTCCAAATAA
*
37789182 ATAAATAAATGAATTGCTTCCAAAAACTTTGTCAAGCATGATTTACAGATACATCCTCCAAGCAT
1 ATAAATAAACGAATTGCTTCCAAAAACTTTGTCAAGCATGATTTACAGATACATCCTCCAAGCAT
37789247 AATAATACTCTAATACATTAACAAAAACAAACTTCACTAACTGG-AAAATTTAGCATGCTGGTTG
66 AATAATACTCTAATACATTAACAAAAACAAACTTCACTAACTGGAAAAATTTAGCATGCTGGTTG
*
37789311 TGTTCTACCTGTTTAAAATCCAATTCTTGAAAGTAAATTTTACTCTAGCATCCCCCAATGGTGCA
131 TGTTCTACCTGTTTAAAATCCAATTCTCGAAAGTAAATTTTACTCTAGCATCCCCCAATGGTGCA
*
37789376 TAAAACTGCCTTAAACAAGCTAAGAGAAACAAATGCATGCAACCAAAGATTACAAGCAGAGTTG
196 TAAAACTGCCCTAAACAAGCTAAGAGAAACAAATGCATGCAACCAAAGATTACAAGCAGAGTTG
37789440 TCAAGGGCAC
Statistics
Matches: 251, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
269 146 0.58
270 105 0.42
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (270 bp):
ATAAATAAACGAATTGCTTCCAAAAACTTTGTCAAGCATGATTTACAGATACATCCTCCAAGCAT
AATAATACTCTAATACATTAACAAAAACAAACTTCACTAACTGGAAAAATTTAGCATGCTGGTTG
TGTTCTACCTGTTTAAAATCCAATTCTCGAAAGTAAATTTTACTCTAGCATCCCCCAATGGTGCA
TAAAACTGCCCTAAACAAGCTAAGAGAAACAAATGCATGCAACCAAAGATTACAAGCAGAGTTGC
TTCCAAATAA
Found at i:37805541 original size:22 final size:22
Alignment explanation
Indices: 37805513--37805556 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
37805503 TGGTGGGTCC
37805513 ATTGAATTAAGTACAATTTGAG
1 ATTGAATTAAGTACAATTTGAG
*
37805535 ATTGAATTAAGTATAATTTGAG
1 ATTGAATTAAGTACAATTTGAG
37805557 TACCTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (22 bp):
ATTGAATTAAGTACAATTTGAG
Found at i:37808341 original size:16 final size:16
Alignment explanation
Indices: 37808320--37808351 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37808310 GTTTTGTTGC
*
37808320 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
37808336 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
37808352 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:37808636 original size:51 final size:51
Alignment explanation
Indices: 37808574--37808718 Score: 195
Period size: 51 Copynumber: 2.8 Consensus size: 51
37808564 GATACTGGTT
* *
37808574 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATTCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATA
* * * *
37808625 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCGA--AGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGATA
*
37808676 CGCATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
37808719 TTCACTTTCA
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
50 3 0.04
51 74 0.93
52 3 0.04
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATA
Found at i:37808733 original size:51 final size:50
Alignment explanation
Indices: 37808574--37808744 Score: 170
Period size: 51 Copynumber: 3.4 Consensus size: 50
37808564 GATACTGGTT
*
37808574 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATTCGA-TA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT-TTC-ACTA
* * * *
37808625 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCGA--AGCTATC-CGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTTTCAC--TA
* *
37808676 CGCATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTTCACTTT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTTCAC-TA
* *
37808727 CACATAGTGGCCTACACA
1 CACATAGTAGCCTGCACA
37808745 CAGTTCATGC
Statistics
Matches: 97, Mismatches: 15, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
50 5 0.05
51 88 0.91
52 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTTCACTA
Found at i:37810211 original size:16 final size:16
Alignment explanation
Indices: 37810183--37810251 Score: 50
Period size: 16 Copynumber: 4.0 Consensus size: 16
37810173 CTTGATTAAC
*
37810183 ACTA-GCACAAAGCCT
1 ACTAGGCACTAAGCCT
37810198 ACTAGGCACTAAGCCT
1 ACTAGGCACTAAGCCT
*
37810214 GAATAACACCGGCACTAAGCCT
1 -ACT---A--GGCACTAAGCCT
*
37810236 GCTAGGCACTAAGCCT
1 ACTAGGCACTAAGCCT
37810252 GAATAACACC
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
15 4 0.09
16 22 0.51
17 2 0.05
18 1 0.02
20 1 0.02
21 1 0.02
22 12 0.28
ACGTcount: A:0.33, C:0.32, G:0.19, T:0.16
Consensus pattern (16 bp):
ACTAGGCACTAAGCCT
Found at i:37810227 original size:22 final size:22
Alignment explanation
Indices: 37810202--37810312 Score: 93
Period size: 22 Copynumber: 5.6 Consensus size: 22
37810192 AAGCCTACTA
37810202 GGCACTAAGCCTGAATAACACC
1 GGCACTAAGCCTGAATAACACC
*
37810224 GGCACTAAGCCTG-CT---A--
1 GGCACTAAGCCTGAATAACACC
37810240 GGCACTAAGCCTGAATAACACC
1 GGCACTAAGCCTGAATAACACC
* *
37810262 GGCACTAAGCTTG-CT---A--
1 GGCACTAAGCCTGAATAACACC
*
37810278 GGCACTAAGCTTGAATAACACC
1 GGCACTAAGCCTGAATAACACC
*
37810300 AGCACTAAGCCTG
1 GGCACTAAGCCTG
37810313 CTAGGCACTA
Statistics
Matches: 70, Mismatches: 7, Indels: 24
0.69 0.07 0.24
Matches are distributed among these distances:
16 26 0.37
17 2 0.03
18 2 0.03
20 2 0.03
21 2 0.03
22 36 0.51
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.17
Consensus pattern (22 bp):
GGCACTAAGCCTGAATAACACC
Found at i:37810329 original size:38 final size:38
Alignment explanation
Indices: 37810158--37810331 Score: 240
Period size: 38 Copynumber: 4.6 Consensus size: 38
37810148 GGCTCAAAGT
* * * * *
37810158 CTGCTAGGCAATATGCTTGATTAACACTAGCACAAAGC
1 CTGCTAGGCACTAAGCTTGAATAACACCAGCACTAAGC
* * *
37810196 CTACTAGGCACTAAGCCTGAATAACACCGGCACTAAGC
1 CTGCTAGGCACTAAGCTTGAATAACACCAGCACTAAGC
* *
37810234 CTGCTAGGCACTAAGCCTGAATAACACCGGCACTAAGC
1 CTGCTAGGCACTAAGCTTGAATAACACCAGCACTAAGC
*
37810272 TTGCTAGGCACTAAGCTTGAATAACACCAGCACTAAGC
1 CTGCTAGGCACTAAGCTTGAATAACACCAGCACTAAGC
*
37810310 CTGCTAGGCACTAAACTTGAAT
1 CTGCTAGGCACTAAGCTTGAAT
37810332 CAATACATTC
Statistics
Matches: 122, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 122 1.00
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (38 bp):
CTGCTAGGCACTAAGCTTGAATAACACCAGCACTAAGC
Found at i:37812988 original size:31 final size:31
Alignment explanation
Indices: 37812936--37812996 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
37812926 CTGTGTCTCA
*
37812936 GGCCATGTGGACATTCGAAGTAGGGACACAC
1 GGCCATGTGGACATTCAAAGTAGGGACACAC
* *
37812967 GGCCTTGTGGACGTTCAAAGTAGGGACACA
1 GGCCATGTGGACATTCAAAGTAGGGACACA
37812997 TGGCTGTGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.21, G:0.33, T:0.18
Consensus pattern (31 bp):
GGCCATGTGGACATTCAAAGTAGGGACACAC
Found at i:37821307 original size:4 final size:4
Alignment explanation
Indices: 37821273--37821330 Score: 53
Period size: 4 Copynumber: 14.5 Consensus size: 4
37821263 TGAATAAACA
* * * * * **
37821273 AATG AACG AATG AGTG AACG AATG GATG AATG AATG AATG AATT AAAA
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG
37821321 AATG AATG AA
1 AATG AATG AA
37821331 ATTGGGGCAC
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.52, C:0.03, G:0.24, T:0.21
Consensus pattern (4 bp):
AATG
Found at i:37844447 original size:27 final size:27
Alignment explanation
Indices: 37844427--37844555 Score: 188
Period size: 27 Copynumber: 4.8 Consensus size: 27
37844417 GGGTATAACA
37844427 GTCATTTTACCCTATGGGGGTACTTT-G
1 GTCATTTTACCCTATGGGGGTA-TTTCG
* *
37844454 GTCATTTTATCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
37844481 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
37844508 GTCATTTTACCCTATTGGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
37844535 GTCATTTTACCTTATGGGGGT
1 GTCATTTTACCCTATGGGGGT
37844556 CTCAGTGCAG
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
26 3 0.03
27 89 0.97
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:37845349 original size:22 final size:21
Alignment explanation
Indices: 37845320--37845395 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
37845310 AATGGTATAC
*
37845320 AAAATCGGCAGAGAGCAATGA
1 AAAATCGGCAGAGAGCAAGGA
* * *
37845341 AAAAGTCGGCACAAAG-AGGGTA
1 AAAA-TCGGCAGAGAGCAAGG-A
*
37845363 GAAAATCGGAAGAGAGCAAGGA
1 -AAAATCGGCAGAGAGCAAGGA
37845385 AAAAGTCGGCA
1 AAAA-TCGGCA
37845396 CAAAGAGGGT
Statistics
Matches: 41, Mismatches: 9, Indels: 9
0.69 0.15 0.15
Matches are distributed among these distances:
21 10 0.24
22 24 0.59
23 7 0.17
ACGTcount: A:0.47, C:0.13, G:0.32, T:0.08
Consensus pattern (21 bp):
AAAATCGGCAGAGAGCAAGGA
Found at i:37845387 original size:44 final size:44
Alignment explanation
Indices: 37845320--37845405 Score: 154
Period size: 44 Copynumber: 2.0 Consensus size: 44
37845310 AATGGTATAC
* *
37845320 AAAATCGGCAGAGAGCAATGAAAAAGTCGGCACAAAGAGGGTAG
1 AAAATCGGAAGAGAGCAAGGAAAAAGTCGGCACAAAGAGGGTAG
37845364 AAAATCGGAAGAGAGCAAGGAAAAAGTCGGCACAAAGAGGGT
1 AAAATCGGAAGAGAGCAAGGAAAAAGTCGGCACAAAGAGGGT
37845406 GAAGAAGGAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.47, C:0.13, G:0.33, T:0.08
Consensus pattern (44 bp):
AAAATCGGAAGAGAGCAAGGAAAAAGTCGGCACAAAGAGGGTAG
Found at i:37858251 original size:51 final size:51
Alignment explanation
Indices: 37858175--37858354 Score: 170
Period size: 51 Copynumber: 3.5 Consensus size: 51
37858165 TATAAACACG
* *
37858175 TGTGTAGTACTAAGTGCAGGCTACTACGAGTATC-GATAGATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGAGTACCGGA-AGATAATGGTCACA
* * * ** *
37858226 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAGGTTTTGGTCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGAGTACCGGAAGATAATGGTCACA
* * * * *
37858277 TGTGTAGTACTATGTGCAGGATACTAC-ATGAACCGGAA-AGT-TTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGA-GTACCGGAAGA-TAATGGTCACA
* *
37858327 TGTGTAGTACTAAGTGAAGGCTACTACG
1 TGTGTAGTACTATGTGCAGGCTACTACG
37858355 TGTATCGAAT
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
50 32 0.30
51 74 0.69
52 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGAGTACCGGAAGATAATGGTCACA
Found at i:37860981 original size:20 final size:20
Alignment explanation
Indices: 37860956--37860994 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
37860946 TACTTTCTTC
37860956 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
37860976 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
37860995 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:37861837 original size:28 final size:28
Alignment explanation
Indices: 37861801--37862702 Score: 1427
Period size: 28 Copynumber: 32.2 Consensus size: 28
37861791 CAGTGATAGT
37861801 ACAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
37861829 ACAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
*
37861857 ATAGTGTGGGCCTTAGCCCAATACAG-A
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
37861884 ATCAGTGTGGGCCTTAGCCCAATACAGTA
1 A-CAGTGTGGGCCTTAGCCCAATACAGTA
*
37861913 ATAGTGTGGGCCTTAGCCCAATACAG-A
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
37861940 ATCAGTGTGGGCCTTAGCCCAATACAGTA
1 A-CAGTGTGGGCCTTAGCCCAATACAGTA
*
37861969 ATAGTGTGGGCCTTAGCCCAATACAG-A
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
37861996 ATCAGTGTGGGCCTTAGCCCAATACAGTA
1 A-CAGTGTGGGCCTTAGCCCAATACAGTA
*
37862025 ATAGTGTGGGCCTTAGCCCAATACAG-A
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
37862052 ATCAGTGTGGGCCTTAGCCCAATACAGTA
1 A-CAGTGTGGGCCTTAGCCCAATACAGTA
*
37862081 ATAGTGTGGGCCTTAGCCCAATACAG-A
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
37862108 ATCAGTGTGGGCCTTAGCCCAATACAGTA
1 A-CAGTGTGGGCCTTAGCCCAATACAGTA
*
37862137 ATAGTGTGGGCCTTAGCCCAATACAG-A
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
37862164 ATCAGTGTGGGCCTTAGCCCAATACAGTA
1 A-CAGTGTGGGCCTTAGCCCAATACAGTA
*
37862193 ATAGTGTGGGCCTTAGCCCAATACAG-A
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
37862220 ATCAGTGTGGGCCTTAGCCCAATACAGTA
1 A-CAGTGTGGGCCTTAGCCCAATACAGTA
*
37862249 ATAGTGTGGGCCTTAGCCCAATACAG-A
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
37862276 ATCAGTGTGGGCCTTAGCCCAATACAGTA
1 A-CAGTGTGGGCCTTAGCCCAATACAGTA
*
37862305 ATAGTGTGGGCCTTAGCCCAATACAG-A
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
37862332 ATCAGTGTGGGCCTTAGCCCAATACAGTA
1 A-CAGTGTGGGCCTTAGCCCAATACAGTA
*
37862361 ATAGTGTGGGCCTTAGCCCAATACAG-A
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
37862388 ATCAGTGTGGGCCTTAGCCCAATACAGTA
1 A-CAGTGTGGGCCTTAGCCCAATACAGTA
*
37862417 ATAGTGTGGGCCTTAGCCCAATACAG-A
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
37862444 ATCAGTGTGGGCCTTAGCCCAATACAGTA
1 A-CAGTGTGGGCCTTAGCCCAATACAGTA
*
37862473 ATAGTGTGGGCCTTAGCCCAATACAG-A
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
37862500 ATCAGTGTGGGCCTTAGCCCAATACAGTA
1 A-CAGTGTGGGCCTTAGCCCAATACAGTA
*
37862529 ATAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
37862557 ACAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
*
37862585 ATAGTGTGGGCCTTAGCCCAATACAG-A
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
37862612 ATCAGTGTGGGCCTTAGCCCAATACAGTA
1 A-CAGTGTGGGCCTTAGCCCAATACAGTA
*
37862641 ACAGTGTGGGCCTTAGCCCAATATAG-A
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
* *
37862668 ATCAGTGTAGGCCTTAGCCCAATATAGTA
1 A-CAGTGTGGGCCTTAGCCCAATACAGTA
37862697 ACAGTG
1 ACAGTG
37862703 CAGTGCAATA
Statistics
Matches: 816, Mismatches: 30, Indels: 56
0.90 0.03 0.06
Matches are distributed among these distances:
27 28 0.03
28 760 0.93
29 28 0.03
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAGTA
Found at i:37861890 original size:56 final size:56
Alignment explanation
Indices: 37861803--37862702 Score: 1723
Period size: 56 Copynumber: 16.1 Consensus size: 56
37861793 GTGATAGTAC
37861803 AGTGTGGGCCTTAGCCCAATACAGTAA-CAGTGTGGGCCTTAGCCCAATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAG-AATCAGTGTGGGCCTTAGCCCAATACAGTAAT
37861859 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
37861915 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
37861971 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
37862027 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
37862083 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
37862139 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
37862195 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
37862251 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
37862307 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
37862363 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
37862419 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
37862475 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
37862531 AGTGTGGGCCTTAGCCCAATACAGTAA-CAGTGTGGGCCTTAGCCCAATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAG-AATCAGTGTGGGCCTTAGCCCAATACAGTAAT
*
37862587 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
* * * *
37862643 AGTGTGGGCCTTAGCCCAATATAGAATCAGTGTAGGCCTTAGCCCAATATAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
37862699 AGTG
1 AGTG
37862703 CAGTGCAATA
Statistics
Matches: 837, Mismatches: 4, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
55 4 0.00
56 831 0.99
57 2 0.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (56 bp):
AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATACAGTAAT
Found at i:37863446 original size:27 final size:27
Alignment explanation
Indices: 37863120--37863449 Score: 373
Period size: 27 Copynumber: 12.2 Consensus size: 27
37863110 GGTATAACAG
* *
37863120 TCATTTTACCCTATTGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
37863147 TTATTTTACCCTATAGGGGTATTTC-A
1 TCATTTTACCCTATGGGGGTATTTCGA
* * *
37863173 GCTATTTTACCCTATGGAGGTATTTCGG
1 TC-ATTTTACCCTATGGGGGTATTTCGA
* *
37863201 TCATTTTACCCTATGAGGGTATTTCAA
1 TCATTTTACCCTATGGGGGTATTTCGA
*
37863228 TCATTTTACCCTATAGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
37863255 TCATTTTACCCTGTGGGGGTAATTT-GG
1 TCATTTTACCCTATGGGGGT-ATTTCGA
* *
37863282 TCATTTTACCCTGTGGGGGTAATTC-A
1 TCATTTTACCCTATGGGGGTATTTCGA
*
37863308 GTCATTTTACCCTATGGGGGTAATTCTG-
1 -TCATTTTACCCTATGGGGGTATTTC-GA
*
37863336 TCATTTTACCCTATGGGGGTAATTT-GG
1 TCATTTTACCCTATGGGGGT-ATTTCGA
* * *
37863363 TTATTTTACCCTGTGGGGGTAATTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
** * *
37863390 TCATTTTACCCTGCGGGGGTAATTCAA
1 TCATTTTACCCTATGGGGGTATTTCGA
37863417 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
37863444 TCATTT
1 TCATTT
37863450 ATCGACCTCT
Statistics
Matches: 259, Mismatches: 34, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
26 7 0.03
27 244 0.94
28 8 0.03
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGA
Found at i:37863675 original size:17 final size:17
Alignment explanation
Indices: 37863653--37863687 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
37863643 TTCATCCGTG
37863653 TGGGCCCAAAAGCCCAT
1 TGGGCCCAAAAGCCCAT
*
37863670 TGGGCCCAACAGCCCAT
1 TGGGCCCAAAAGCCCAT
37863687 T
1 T
37863688 TCGACCCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.37, G:0.23, T:0.14
Consensus pattern (17 bp):
TGGGCCCAAAAGCCCAT
Found at i:37865020 original size:50 final size:50
Alignment explanation
Indices: 37864954--37865144 Score: 202
Period size: 50 Copynumber: 3.7 Consensus size: 50
37864944 TCCTGTACTA
* * **
37864954 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGATG
* * * *
37865004 CCCATGCCATGTCCCAGACATGATCTTACAGGGGACCTCTCATCTCGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGATG
* * * *
37865054 CCAACGCCATGTCCTAGACATGGTCTTACGTGGGACCTCTCATAACCTCAATAATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GATG
* *
37865110 CCAATTCCATGTCCCAAACATGGTCTTACATGGGA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
37865145 TCCCATCCCC
Statistics
Matches: 114, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
50 79 0.69
53 2 0.02
56 33 0.29
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGATG
Found at i:37869251 original size:27 final size:27
Alignment explanation
Indices: 37869221--37869297 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
37869211 CAATGATTCG
37869221 GGGAATCAGCACTTAGCAACCCCTCGA
1 GGGAATCAGCACTTAGCAACCCCTCGA
* *
37869248 GGGAATCAGCACTTAGCAACCCCTTGG
1 GGGAATCAGCACTTAGCAACCCCTCGA
37869275 GGGAATC-GACACTTAGCAACCCC
1 GGGAATCAG-CACTTAGCAACCCC
37869298 CTTCACATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 1 0.02
27 46 0.98
ACGTcount: A:0.29, C:0.32, G:0.23, T:0.16
Consensus pattern (27 bp):
GGGAATCAGCACTTAGCAACCCCTCGA
Found at i:37869368 original size:33 final size:27
Alignment explanation
Indices: 37869347--37869399 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
37869337 CACCAATGAA
37869347 TAGGGGAATCAACACTTAGCAACCCCT
1 TAGGGGAATCAACACTTAGCAACCCCT
*
37869374 TGGGGGAATCAACACTTAGCAACCCC
1 TAGGGGAATCAACACTTAGCAACCCC
37869400 CTTTTTATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.17
Consensus pattern (27 bp):
TAGGGGAATCAACACTTAGCAACCCCT
Found at i:37869390 original size:129 final size:129
Alignment explanation
Indices: 37869155--37869399 Score: 418
Period size: 129 Copynumber: 1.9 Consensus size: 129
37869145 GTGGATTCAG
* * * *
37869155 CACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAACCACCAATGATTC
1 CACTTAGCAACCCCCTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCACCAATGAATA
* *
37869220 GGGGAATCAGCACTTAGCAACCCCTCGAGGGAATCAGCACTTAGCAACCCCTTGGGGGAATCGA
66 GGGGAATCAACACTTAGCAACCCCTCGAGGGAATCAACACTTAGCAACCCCTTGGGGGAATCGA
37869284 CACTTAGCAACCCCCTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCACCAATGAATA
1 CACTTAGCAACCCCCTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCACCAATGAATA
* *
37869349 GGGGAATCAACACTTAGCAACCCCTTGGGGGAATCAACACTTAGCAACCCC
66 GGGGAATCAACACTTAGCAACCCCTCGAGGGAATCAACACTTAGCAACCCC
37869400 CTTTTTATTC
Statistics
Matches: 108, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 108 1.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (129 bp):
CACTTAGCAACCCCCTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCACCAATGAATA
GGGGAATCAACACTTAGCAACCCCTCGAGGGAATCAACACTTAGCAACCCCTTGGGGGAATCGA
Found at i:37870044 original size:33 final size:33
Alignment explanation
Indices: 37870002--37870156 Score: 124
Period size: 33 Copynumber: 4.6 Consensus size: 33
37869992 AAGATACGGT
37870002 GGAATCAGCACTTAGCAACCACCAATGAGTAGG
1 GGAATCAGCACTTAGCAACCACCAATGAGTAGG
* *
37870035 GGAATCAGCACTTAGCAAGC-CC--T---TGGG
1 GGAATCAGCACTTAGCAACCACCAATGAGTAGG
* * *
37870062 GGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGG
1 GGAATCAGCACTTAGCAA-CCAC--CA-A--TGAG-TA-GG
* *
37870103 TGGAATCAGCACTTAGCAACCAACAATGAATAGG
1 -GGAATCAGCACTTAGCAACCACCAATGAGTAGG
37870137 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
37870157 CCCTTTTTAT
Statistics
Matches: 97, Mismatches: 10, Indels: 30
0.71 0.07 0.22
Matches are distributed among these distances:
27 20 0.21
28 1 0.01
29 1 0.01
30 1 0.01
31 1 0.01
32 2 0.02
33 39 0.40
34 2 0.02
35 2 0.02
36 3 0.03
38 1 0.01
39 2 0.02
40 1 0.01
41 4 0.04
42 17 0.18
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.18
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAGTAGG
Found at i:37879460 original size:27 final size:26
Alignment explanation
Indices: 37879410--37879591 Score: 184
Period size: 27 Copynumber: 6.7 Consensus size: 26
37879400 GGGTAAAACA
* * *
37879410 ATCATTTTATCCTATAGGGGTATTTTG
1 ATCATTTTACCCT-TCGGGGTATTTCG
* * *
37879437 GTTATTTTACCTTTCGGGGCTATTTCG
1 ATCATTTTACCCTTCGGGG-TATTTCG
* *
37879464 ATAATTTTACCCTTCGAGGGTATTTCA
1 ATCATTTTACCCTTCG-GGGTATTTCG
*
37879491 ATCATTTTACCCTTCGGGGGTAATTCG
1 ATCATTTTACCCTTC-GGGGTATTTCG
* *
37879518 GTCATTTTACCCTTCGGGGGTAATTCG
1 ATCATTTTACCCTTC-GGGGTATTTCG
* *
37879545 ATCATTTTACCCTCTAGGGGTAATTCG
1 ATCATTTTACCCT-TCGGGGTATTTCG
37879572 ATCATTTTTACCCTTCGGGG
1 ATCA-TTTTACCCTTCGGGG
37879592 GTAACTCGGC
Statistics
Matches: 133, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 5 0.04
27 114 0.86
28 14 0.11
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (26 bp):
ATCATTTTACCCTTCGGGGTATTTCG
Found at i:37879535 original size:81 final size:81
Alignment explanation
Indices: 37879398--37879606 Score: 233
Period size: 81 Copynumber: 2.6 Consensus size: 81
37879388 TTCCACTCTT
** * * * * * * *
37879398 AGGGGTAAAACAATCATTTTATCCTAT-AGGGGTATTTTGGTTATTTTACCTTTCGGGGCTATTT
1 AGGGGTAATTCAATCATTTTACCCT-TCGGGGGTAATTCGGTCATTTTACCCTTCGGGGCTAATT
37879462 CGATAATTTTACCCTTCG
65 CGATAATTTTACCC-TCG
* *
37879480 A-GGGTATTTCAATCATTTTACCCTTCGGGGGTAATTCGGTCATTTTACCCTTCGGGGGTAATTC
1 AGGGGTAATTCAATCATTTTACCCTTCGGGGGTAATTCGGTCATTTTACCCTTCGGGGCTAATTC
* *
37879544 GATCATTTTACCCTCT
66 GATAATTTTACCCTCG
* * *
37879560 AGGGGTAATTCGATCATTTTTACCCTTCGGGGGTAACTCGGCCATTT
1 AGGGGTAATTCAATCA-TTTTACCCTTCGGGGGTAATTCGGTCATTT
37879607 AACAACCTTT
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
80 4 0.04
81 74 0.69
82 29 0.27
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGGGTAATTCAATCATTTTACCCTTCGGGGGTAATTCGGTCATTTTACCCTTCGGGGCTAATTC
GATAATTTTACCCTCG
Found at i:37881164 original size:25 final size:25
Alignment explanation
Indices: 37881113--37881166 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
37881103 TGAACCTCTG
*
37881113 ACCTCCTTACCACACCTATGACGCC
1 ACCTCCTTACCACACCTATGACACC
* * *
37881138 ACCTCCTTGCCACACCTGTGTCACC
1 ACCTCCTTACCACACCTATGACACC
37881163 ACCT
1 ACCT
37881167 TGCCACTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.48, G:0.09, T:0.22
Consensus pattern (25 bp):
ACCTCCTTACCACACCTATGACACC
Found at i:37886393 original size:42 final size:43
Alignment explanation
Indices: 37886346--37886449 Score: 129
Period size: 42 Copynumber: 2.4 Consensus size: 43
37886336 TTCTGAGGTG
* * *
37886346 TGATTTCATGTAAGACCATGTCTGGGGCATTGGCATCG-TATA
1 TGATTTCATGTAAGACCATGTCTGGGACAGTGACATCGATATA
* * *
37886388 TGATTTCGTGTAAGACCCTGTTTGGGACAGTGACATCGATATA
1 TGATTTCATGTAAGACCATGTCTGGGACAGTGACATCGATATA
* *
37886431 TTATATCATGTAAGACCAT
1 TGATTTCATGTAAGACCAT
37886450 ATCTAGGATA
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 32 0.63
43 19 0.37
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (43 bp):
TGATTTCATGTAAGACCATGTCTGGGACAGTGACATCGATATA
Found at i:37889110 original size:47 final size:49
Alignment explanation
Indices: 37889059--37889162 Score: 131
Period size: 51 Copynumber: 2.1 Consensus size: 49
37889049 TTAGGATTTT
* * *
37889059 ATGTGATGGATGTGAA-C-ATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACCGATACATATGTGTGATAAGGCCGAATGGCCA
* *
37889106 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAA-CCG-ATACATATGTGTGATAAGGCCGAATGGCCA
37889157 ATGTGA
1 ATGTGA
37889163 AATATATCAT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
47 15 0.31
49 1 0.02
51 32 0.67
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.28
Consensus pattern (49 bp):
ATGTGATGAATGTGAACCGATACATATGTGTGATAAGGCCGAATGGCCA
Found at i:37889335 original size:47 final size:47
Alignment explanation
Indices: 37889284--37889521 Score: 201
Period size: 47 Copynumber: 5.0 Consensus size: 47
37889274 TTAGGATTTT
** * * *
37889284 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATAAATGTGAACATGCATATATGTGATAAAGCCGAATGGCCA
* ** * *
37889331 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAAGCCGAATGGCTA
1 ATGTGATAAATGTGAA--C--ATGCATATATGTGATAAAGCCGAATGGCCA
* * * *
37889382 ATGTGAAATATATGTGTGATATG--TATATGTGGTAAAGCCGAATGGCCA
1 ATGTG--ATAAATGTG-AACATGCATATATGTGATAAAGCCGAATGGCCA
* *
37889430 ATGTGATAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAATGTGAACATGCATATATGTGATAAAGCCGAATGGCCA
* * * * * *
37889477 ATGTGGTGAATATGAAAATGCATATATGCGGTAAAGCCGAATGGC
1 ATGTGATAAATGTGAACATGCATATATGTGATAAAGCCGAATGGC
37889522 TAGTGTGAAA
Statistics
Matches: 154, Mismatches: 28, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
45 3 0.02
46 8 0.05
47 75 0.49
48 27 0.18
49 1 0.01
50 2 0.01
51 30 0.19
53 7 0.05
54 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATAAATGTGAACATGCATATATGTGATAAAGCCGAATGGCCA
Found at i:37889337 original size:225 final size:225
Alignment explanation
Indices: 37888946--37889394 Score: 889
Period size: 225 Copynumber: 2.0 Consensus size: 225
37888936 AAAATGATAG
37888946 ATGTAGATTCAGCCAAGACAGTGTGTATACGTGAAAGTATATGTGATATGTGAAGTATATTTGGA
1 ATGTAGATTCAGCCAAGACAGTGTGTATACGTGAAAGTATATGTGATATGTGAAGTATATTTGGA
37889011 TAATTGTGATGTGAATACATGAAAATTTATATTTTGATTTAGGATTTTATGTGATGGATGTGAAC
66 TAATTGTGATGTGAATACATGAAAATTTATATTTTGATTTAGGATTTTATGTGATGGATGTGAAC
37889076 ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGA
131 ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGA
*
37889141 TAAGGCCGAATGGCTAATGTGAAATATATC
196 TAAAGCCGAATGGCTAATGTGAAATATATC
37889171 ATGTAGATTCAGCCAAGACAGTGTGTATACGTGAAAGTATATGTGATATGTGAAGTATATTTGGA
1 ATGTAGATTCAGCCAAGACAGTGTGTATACGTGAAAGTATATGTGATATGTGAAGTATATTTGGA
37889236 TAATTGTGATGTGAATACATGAAAATTTATATTTTGATTTAGGATTTTATGTGATGGATGTGAAC
66 TAATTGTGATGTGAATACATGAAAATTTATATTTTGATTTAGGATTTTATGTGATGGATGTGAAC
37889301 ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGA
131 ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGA
37889366 TAAAGCCGAATGGCTAATGTGAAATATAT
196 TAAAGCCGAATGGCTAATGTGAAATATAT
37889395 GTGTGATATG
Statistics
Matches: 223, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
225 223 1.00
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.34
Consensus pattern (225 bp):
ATGTAGATTCAGCCAAGACAGTGTGTATACGTGAAAGTATATGTGATATGTGAAGTATATTTGGA
TAATTGTGATGTGAATACATGAAAATTTATATTTTGATTTAGGATTTTATGTGATGGATGTGAAC
ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGA
TAAAGCCGAATGGCTAATGTGAAATATATC
Found at i:37889490 original size:95 final size:97
Alignment explanation
Indices: 37889305--37889481 Score: 232
Period size: 99 Copynumber: 1.8 Consensus size: 97
37889295 GTGAACATGC
* * * * * *
37889305 GTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAA
1 GTATATGTGATAAAGCCGAATGGCCAATGTGATAAATGTGAA--CGCATACATATATGTGATAAA
*
37889370 GCCGAATGGCTAATGTGAAATATATGTGTGATAT
64 GCCGAATGGCCAATGTGAAATATATGTGTGATAT
* * *
37889404 GTATATGTGGTAAAGCCGAATGGCCAATGTGATAAATGTG-A-GCATGCATATATGTGATAAGGC
1 GTATATGTGATAAAGCCGAATGGCCAATGTGATAAATGTGAACGCATACATATATGTGATAAAGC
37889467 CGAATGGCCAATGTG
66 CGAATGGCCAATGTG
37889482 GTGAATATGA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
95 31 0.46
98 1 0.01
99 36 0.53
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.28
Consensus pattern (97 bp):
GTATATGTGATAAAGCCGAATGGCCAATGTGATAAATGTGAACGCATACATATATGTGATAAAGC
CGAATGGCCAATGTGAAATATATGTGTGATAT
Found at i:37889734 original size:37 final size:37
Alignment explanation
Indices: 37889684--37889835 Score: 241
Period size: 37 Copynumber: 4.1 Consensus size: 37
37889674 GGAAATATAT
*
37889684 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
37889721 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
37889758 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
37889795 TCCGGGTAAGATCCGATAACTTCGTGTGGAGATTACG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
37889832 TCCG
1 TCCG
37889836 AGCTAAAGGT
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:37899785 original size:15 final size:15
Alignment explanation
Indices: 37899765--37899794 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
37899755 CCATTCCAGA
37899765 GCTACTACAATTGGT
1 GCTACTACAATTGGT
37899780 GCTACTACAATTGGT
1 GCTACTACAATTGGT
37899795 ACAATTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (15 bp):
GCTACTACAATTGGT
Found at i:37902865 original size:53 final size:53
Alignment explanation
Indices: 37902807--37902912 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
37902797 CCAAGTTTCA
37902807 TATAGTGTTTCATCCTCCAATTGCCAAAATTATGTGGCTCTAAGCTTGTCATT
1 TATAGTGTTTCATCCTCCAATTGCCAAAATTATGTGGCTCTAAGCTTGTCATT
37902860 TATAGTGTTTCATCCTCCAATTGCCAAAATTATGTGGCTCTAAGCTTGTCATT
1 TATAGTGTTTCATCCTCCAATTGCCAAAATTATGTGGCTCTAAGCTTGTCATT
37902913 CATATTTGGG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.40
Consensus pattern (53 bp):
TATAGTGTTTCATCCTCCAATTGCCAAAATTATGTGGCTCTAAGCTTGTCATT
Found at i:37906493 original size:24 final size:26
Alignment explanation
Indices: 37906457--37906504 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
37906447 CAATTGCTGG
37906457 AAATTTGAAAACGAAAA-AAGGAGTC
1 AAATTTGAAAACGAAAACAAGGAGTC
37906482 AAATTT-AAAACGAAAACAAGGAG
1 AAATTTGAAAACGAAAACAAGGAG
37906505 ATGAAATGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.58, C:0.08, G:0.19, T:0.15
Consensus pattern (26 bp):
AAATTTGAAAACGAAAACAAGGAGTC
Found at i:37915271 original size:77 final size:78
Alignment explanation
Indices: 37915185--37915338 Score: 229
Period size: 77 Copynumber: 2.0 Consensus size: 78
37915175 AGATGTTTTT
* * * * *
37915185 GAGTATTGTGATATATGCTTAAATGTTATGCGATTATATGAGTA-GGTGATATATGCTTGAATTT
1 GAGTATTGTGACATATGCTTAAATGTTATGAGATTATATGAGTATGGTGACATATGCTAGAATGT
*
37915249 TATGTGATTATAC
66 TAGGTGATTATAC
* *
37915262 GAGTATTGTGACATATGCTTAAATGTTATGAGATTATATGAGTATTGTGACATATGCTAGTATGT
1 GAGTATTGTGACATATGCTTAAATGTTATGAGATTATATGAGTATGGTGACATATGCTAGAATGT
37915327 TAGGTGATTATA
66 TAGGTGATTATA
37915339 TGTGTAATAT
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
77 42 0.62
78 26 0.38
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.42
Consensus pattern (78 bp):
GAGTATTGTGACATATGCTTAAATGTTATGAGATTATATGAGTATGGTGACATATGCTAGAATGT
TAGGTGATTATAC
Found at i:37915327 original size:39 final size:39
Alignment explanation
Indices: 37915184--37915340 Score: 201
Period size: 39 Copynumber: 4.1 Consensus size: 39
37915174 AAGATGTTTT
* *
37915184 TGAGTATTGTGATATATGCTTAAATGTTATGCGATTATA
1 TGAGTATTGTGACATATGCTTAAATGTTATGTGATTATA
* * * *
37915223 TGAGTA-GGTGATATATGCTTGAATTTTATGTGATTATA
1 TGAGTATTGTGACATATGCTTAAATGTTATGTGATTATA
* *
37915261 CGAGTATTGTGACATATGCTTAAATGTTATGAGATTATA
1 TGAGTATTGTGACATATGCTTAAATGTTATGTGATTATA
* *
37915300 TGAGTATTGTGACATATGC-TAGTATGTTAGGTGATTATA
1 TGAGTATTGTGACATATGCTTA-AATGTTATGTGATTATA
37915339 TG
1 TG
37915341 TGTAATATGG
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
38 35 0.34
39 67 0.66
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.42
Consensus pattern (39 bp):
TGAGTATTGTGACATATGCTTAAATGTTATGTGATTATA
Found at i:37919222 original size:24 final size:23
Alignment explanation
Indices: 37919195--37919244 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
37919185 GATAATAATG
*
37919195 TGCAGAAAATTCTGCAAATAAAAA
1 TGCAGAAAA-GCTGCAAATAAAAA
* *
37919219 TGCAGACAAGCTGCCAATAAAAA
1 TGCAGAAAAGCTGCAAATAAAAA
37919242 TGC
1 TGC
37919245 GATAAATCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.48, C:0.18, G:0.16, T:0.18
Consensus pattern (23 bp):
TGCAGAAAAGCTGCAAATAAAAA
Found at i:37934882 original size:15 final size:15
Alignment explanation
Indices: 37934864--37934897 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
37934854 GATTATTCAT
37934864 TTTTTGTGTATTTTA
1 TTTTTGTGTATTTTA
* *
37934879 TTTTTGTTTTTTTTA
1 TTTTTGTGTATTTTA
37934894 TTTT
1 TTTT
37934898 GATTGATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (15 bp):
TTTTTGTGTATTTTA
Found at i:37938713 original size:19 final size:19
Alignment explanation
Indices: 37938689--37938735 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
37938679 TGACGCCTTT
*
37938689 TTTGCATT-CATTTCATACA
1 TTTGCATTACATTACAT-CA
37938708 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
37938727 TATGCATTA
1 TTTGCATTA
37938736 AAGTCCACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:37940974 original size:4 final size:4
Alignment explanation
Indices: 37940965--37940992 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
37940955 TTCTTCCAAA
37940965 TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT
37940993 AATCATACTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
TCAT
Found at i:37941826 original size:18 final size:16
Alignment explanation
Indices: 37941788--37941830 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
37941778 AAAAATATTT
37941788 TCAAAAAAAAAGAAAA
1 TCAAAAAAAAAGAAAA
*
37941804 -GAAAAAAAAAGAACAAA
1 TCAAAAAAAAAG-A-AAA
37941821 TCAAAAAAAA
1 TCAAAAAAAA
37941831 TATTTTTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 10 0.45
16 1 0.05
17 3 0.14
18 8 0.36
ACGTcount: A:0.81, C:0.07, G:0.07, T:0.05
Consensus pattern (16 bp):
TCAAAAAAAAAGAAAA
Found at i:37941892 original size:12 final size:11
Alignment explanation
Indices: 37941866--37941907 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
37941856 AAAATGATGG
*
37941866 AAAAGAAAAGA
1 AAAAGAAAGGA
37941877 AAAAGAGAAGGA
1 AAAAGA-AAGGA
37941889 AAAAGAAAAGG-
1 AAAAG-AAAGGA
37941900 AAAAGAAA
1 AAAAGAAA
37941908 AAAGAGAGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 3 0.11
11 11 0.39
12 13 0.46
13 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
AAAAGAAAGGA
Found at i:37941894 original size:18 final size:18
Alignment explanation
Indices: 37941871--37941912 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
37941861 GATGGAAAAG
* *
37941871 AAAAGAAAAAGAGAAGGA
1 AAAAGAAAAAGAAAAGAA
*
37941889 AAAAGAAAAGGAAAAGAA
1 AAAAGAAAAAGAAAAGAA
37941907 AAAAGA
1 AAAAGA
37941913 GAGGCCAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAGAAAAGAA
Found at i:37941909 original size:12 final size:11
Alignment explanation
Indices: 37941864--37941908 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
37941854 TGAAAATGAT
37941864 GGAAAAGAAAA
1 GGAAAAGAAAA
* *
37941875 GAAAAAGAGAA
1 GGAAAAGAAAA
37941886 GGAAAAAGAAAA
1 GG-AAAAGAAAA
37941898 GGAAAAGAAAA
1 GGAAAAGAAAA
37941909 AAGAGAGGCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 19 0.66
12 10 0.34
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (11 bp):
GGAAAAGAAAA
Found at i:37944320 original size:45 final size:45
Alignment explanation
Indices: 37944174--37945147 Score: 387
Period size: 44 Copynumber: 21.8 Consensus size: 45
37944164 TGGCAAATCA
* * * * * *
37944174 TATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCAA-TAA-TCC
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAG-AAAGCAAGTCT
* * * * * ***
37944218 TATCTCCTTGAAGTTGCAGTGGAACGGATTAAATTTA-CAAGTCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * * *
37944262 TATCTCCTTGAAGTTGCAGTGGAACAGACTGAAGAAAGTAAGTCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * ** *
37944307 TATCCCCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGCAAATCT
1 TATCCCCCTGAAGTTGCAGTGGA-GCAGATTGAAGAAAGCAAGTCT
* * * * ** *
37944352 TATCTCCCTGAAGTTACAGTGGAGTAGATTAAAGCCAGTAA-TCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * * ** *
37944396 TATCCCCTTAAAGTTGCAGTGGAGCGGATTAAAGTTA-CAAGCCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * *
37944440 TATCCCCCTGAAGTTGAAGTGAAGCAGACTGAAGAAAGTAAGTCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * ** * * *
37944485 TATCCCCCTGAAGTTGTAGTGGGGCAGGTTGAAGATGGAAAATAT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * * * * *
37944530 TATCTCCCTGAAGTTGCAGTAGAGCAAATTAAAGCCAA-TAA-TCC
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAG-AAAGCAAGTCT
* * * **
37944574 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTTA-CAAGTCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * *
37944618 TATCTCTCTAAAGTTGCAGT-GAGCAGACTGAAGAAAGCAAGTCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* *
37944662 TATCCCCCTAAAGTTGCAGTGGAACAGATTGAAGTTGTAAATTGC-AGATCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAA---G-AAA--GCAAG-TCT
* ** ** * * **
37944713 TATCTCTTTGAAGTTGCAGT--AG-AGA--GATCATATCAAACCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * * * * *
37944753 TATCTCCCTGAATTTGTAGTGGAACAGGTTGAAGATACCAA-TCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * ** *
37944797 TGTCTCCCTGAAGTTGCAGTGGAGCATATTGAAGCTA-CTAA-TCC
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGC-AAGTCT
* * *
37944841 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGAAA--AA-TCC
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATT-GAA-GAAAGCAAGTCT
* * * * * * ** * *
37944885 TATACCTCTGAAGTTGTAGTAGGTCGGATCAAATTCACCAAATCCAAGTTT
1 TATCCCCCTGAAG-T-T-GCA-GT-GGAGCAGATTGAAGAAA-GCAAGTCT
* * * * * **
37944936 TATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATATCAAACCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* * * * * * * * *
37944981 TATCTCCCTAAATTTTCAATGGAGCAGGTTGAAGATA-CAAATCG
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* **
37945025 TATCCCCCTGAAGTTGCAGTGGGGCAGATTGAAGCCA-CAAGTCT
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
** * * * *
37945069 TATATCCCTG-AGATTGCAGTGGAGTAGACTGAAGATAGCAAATCT
1 TATCCCCCTGAAG-TTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
* ** * * *
37945114 CATTTCCCTGAAATTGCAGTGGAACAAATTGAAG
1 TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAG
37945148 CTATAATTTG
Statistics
Matches: 701, Mismatches: 191, Indels: 75
0.72 0.20 0.08
Matches are distributed among these distances:
40 19 0.03
41 1 0.00
42 3 0.00
43 25 0.04
44 346 0.49
45 224 0.32
46 18 0.03
47 7 0.01
48 8 0.01
49 13 0.02
50 5 0.01
51 32 0.05
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (45 bp):
TATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAGCAAGTCT
Found at i:37944358 original size:178 final size:177
Alignment explanation
Indices: 37944163--37944682 Score: 745
Period size: 178 Copynumber: 2.9 Consensus size: 177
37944153 AGAATAGATC
* *
37944163 ATGGCAAATCATATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCAATAATCCTATCTCCTTG
1 ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCTTG
* *
37944228 AAGTTGCAGTGGAACGGATTAAATTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAACAGACTG
66 AAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGT-GAACAGACTG
37944293 AAGAAAGTAAGTCTTATCCCCCTGAAGTTGTAGTGAGGCAGACTGAAG
130 AAGAAAGTAAGTCTTATCCCCCTGAAGTTGTAGTGAGGCAGACTGAAG
* * * * * *
37944341 ATGGCAAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAGCCAGTAATCTTATCCCCTTA
1 ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCTTG
* * * *
37944406 AAGTTGCAGTGGAGCGGATTAAAGTTACAAGCCTTATCCCCCTGAAGTTGAAGTGAAGCAGACTG
66 AAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGAA-CAGACTG
* **
37944471 AAGAAAGTAAGTCTTATCCCCCTGAAGTTGTAGTGGGGCAGGTTGAAG
130 AAGAAAGTAAGTCTTATCCCCCTGAAGTTGTAGTGAGGCAGACTGAAG
* * * * *
37944519 ATGGAAAATATTATCTCCCTGAAGTTGCAGTAGAGCAAATTAAAGCCAATAATCCTATCTCCCTG
1 ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCTTG
* * * *
37944584 AAGTTACAGTGGAGCAGATTAAAGTTACAAGTCTTATCT-CTCTAAAGTTGCAGTGAGCAGACTG
66 AAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCT-TGAAGTTGCAGTGAACAGACTG
* * *
37944648 AAGAAAGCAAGTCTTATCCCCCTAAAGTTGCAGTG
130 AAGAAAGTAAGTCTTATCCCCCTGAAGTTGTAGTG
37944683 GAACAGATTG
Statistics
Matches: 301, Mismatches: 39, Indels: 5
0.87 0.11 0.01
Matches are distributed among these distances:
177 43 0.14
178 258 0.86
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (177 bp):
ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCTTG
AAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGAACAGACTGA
AGAAAGTAAGTCTTATCCCCCTGAAGTTGTAGTGAGGCAGACTGAAG
Found at i:37946715 original size:20 final size:20
Alignment explanation
Indices: 37946691--37946729 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
37946681 AATTATTCAT
*
37946691 TTTTTGTGTATTTTATTTTTG
1 TTTTTGTAT-TTTTATTTTTG
*
37946712 TTTTTTTATTTTTATTTT
1 TTTTTGTATTTTTATTTT
37946730 GTTGTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.10, C:0.00, G:0.08, T:0.82
Consensus pattern (20 bp):
TTTTTGTATTTTTATTTTTG
Found at i:37946718 original size:14 final size:14
Alignment explanation
Indices: 37946691--37946729 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
37946681 AATTATTCAT
*
37946691 TTTTTGTGTATTTTA
1 TTTTTGT-TTTTTTA
37946706 TTTTTGTTTTTTTA
1 TTTTTGTTTTTTTA
*
37946720 TTTTTATTTT
1 TTTTTGTTTT
37946730 GTTGTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.10, C:0.00, G:0.08, T:0.82
Consensus pattern (14 bp):
TTTTTGTTTTTTTA
Found at i:37946723 original size:19 final size:19
Alignment explanation
Indices: 37946701--37946740 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
37946691 TTTTTGTGTA
*
37946701 TTTTATTTTTGTTTTTTTAT
1 TTTTA-TTTTGTTGTTTTAT
37946721 TTTTATTTTGTTGTTTTAT
1 TTTTATTTTGTTGTTTTAT
37946740 T
1 T
37946741 ATTTCTATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.82
Consensus pattern (19 bp):
TTTTATTTTGTTGTTTTAT
Found at i:37946734 original size:22 final size:21
Alignment explanation
Indices: 37946701--37946749 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
37946691 TTTTTGTGTA
*
37946701 TTTTA-TTTTTGTTTTTTTAT
1 TTTTATTTTTTGTTTTATTAT
37946721 TTTTATTTTGTTGTTTTATTAT
1 TTTTATTTT-TTGTTTTATTAT
*
37946743 TTCTATT
1 TTTTATT
37946750 GATTATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 5 0.20
21 3 0.12
22 17 0.68
ACGTcount: A:0.12, C:0.02, G:0.06, T:0.80
Consensus pattern (21 bp):
TTTTATTTTTTGTTTTATTAT
Found at i:37971198 original size:27 final size:27
Alignment explanation
Indices: 37971168--37971266 Score: 119
Period size: 27 Copynumber: 3.7 Consensus size: 27
37971158 CCTATAGGCC
*
37971168 TATTTCGGTAATTTTACCCATCAAGGG
1 TATTTCAGTAATTTTACCCATCAAGGG
* * * **
37971195 TATTTCAATCATTTTACCCTTCGGGGG
1 TATTTCAGTAATTTTACCCATCAAGGG
37971222 TATTTTCA-TAATTTTACCCATCAAGGG
1 TA-TTTCAGTAATTTTACCCATCAAGGG
*
37971249 TATTTCAGAAATTTTACC
1 TATTTCAGTAATTTTACC
37971267 TAATAAGGGT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
26 5 0.08
27 49 0.83
28 5 0.08
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (27 bp):
TATTTCAGTAATTTTACCCATCAAGGG
Found at i:37971207 original size:54 final size:54
Alignment explanation
Indices: 37971149--37971255 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
37971139 GGTATAACGG
* *
37971149 TCATTTTAGCCTAT-AGGCCTA-TTTCGGTAATTTTACCCATCAAGGGTATTTCAA
1 TCATTTTACCCT-TCAGGCCTATTTTC-ATAATTTTACCCATCAAGGGTATTTCAA
* **
37971203 TCATTTTACCCTTCGGGGGTATTTTCATAATTTTACCCATCAAGGGTATTTCA
1 TCATTTTACCCTTCAGGCCTATTTTCATAATTTTACCCATCAAGGGTATTTCA
37971256 GAAATTTTAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 1 0.02
54 41 0.89
55 4 0.09
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (54 bp):
TCATTTTACCCTTCAGGCCTATTTTCATAATTTTACCCATCAAGGGTATTTCAA
Found at i:37973601 original size:24 final size:24
Alignment explanation
Indices: 37973573--37973619 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
37973563 GTTAAAACTC
37973573 ATTCTAAAGAAAACTC-AAGAGAAA
1 ATTCT-AAGAAAACTCAAAGAGAAA
* *
37973597 ATTCTTAGAGAACTCAAAGAGAA
1 ATTCTAAGAAAACTCAAAGAGAA
37973620 TTTTCACTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.53, C:0.13, G:0.15, T:0.19
Consensus pattern (24 bp):
ATTCTAAGAAAACTCAAAGAGAAA
Found at i:37989048 original size:24 final size:24
Alignment explanation
Indices: 37989001--37989049 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
37988991 TTTCACATTT
*
37989001 AAATCAATTTCATGAAAATCTGAA
1 AAATCAATTTCATGAAAATATGAA
*
37989025 AAATCAA-TTCATGAAGATGATGAA
1 AAATCAATTTCATGAAAAT-ATGAA
37989049 A
1 A
37989050 TTCGGATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (24 bp):
AAATCAATTTCATGAAAATATGAA
Found at i:38000339 original size:16 final size:16
Alignment explanation
Indices: 38000318--38000349 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
38000308 TCCATAGCTC
38000318 CTCCATCCTGATGATT
1 CTCCATCCTGATGATT
38000334 CTCCATCCTGATGATT
1 CTCCATCCTGATGATT
38000350 ATCTACACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.31, G:0.12, T:0.38
Consensus pattern (16 bp):
CTCCATCCTGATGATT
Found at i:38005773 original size:27 final size:27
Alignment explanation
Indices: 38005742--38005810 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
38005732 CTAATAGATG
38005742 AAAATGACTGAAATACCCCCATAGGGT
1 AAAATGACTGAAATACCCCCATAGGGT
*
38005769 AAAATGACTGAAATACTCCCATAGGGT
1 AAAATGACTGAAATACCCCCATAGGGT
*
38005796 AAAATGACCGAAATA
1 AAAATGACTGAAATA
38005811 TCCTTGAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.45, C:0.19, G:0.17, T:0.19
Consensus pattern (27 bp):
AAAATGACTGAAATACCCCCATAGGGT
Found at i:38018379 original size:103 final size:103
Alignment explanation
Indices: 38018193--38018396 Score: 309
Period size: 103 Copynumber: 2.0 Consensus size: 103
38018183 TAGCTAGCTG
* * **
38018193 GTGGCATCAATCCGAACTCAATTGAACTTATCACCAAACCGGTGTGGCGTTCAACCGTTGTTTTA
1 GTGGCATCAATCCGAACTCAATTGAACCTATCACCAAACCGGTGTGGCGTTCAACCATCATTTTA
* * * *
38018258 TACCTTTGATTCTTACCTCATTATTGGTAACGGGTCAA
66 TACATTTGATCCTAACCTCATTATAGGTAACGGGTCAA
*
38018296 GTGGCGTCAATCCGAACTCAATTGAACCTATCACCAAACCGGTGTGGCGTTCAACCATCATTTTA
1 GTGGCATCAATCCGAACTCAATTGAACCTATCACCAAACCGGTGTGGCGTTCAACCATCATTTTA
* *
38018361 TACATTTGGTCCTAACCTCATTATAGGTAATGGGTC
66 TACATTTGATCCTAACCTCATTATAGGTAACGGGTC
38018397 TAGGCCTACC
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
103 90 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (103 bp):
GTGGCATCAATCCGAACTCAATTGAACCTATCACCAAACCGGTGTGGCGTTCAACCATCATTTTA
TACATTTGATCCTAACCTCATTATAGGTAACGGGTCAA
Found at i:38036343 original size:5 final size:5
Alignment explanation
Indices: 38036333--38036364 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
38036323 AGTTCTATAC
*
38036333 TAATT TAATT TAATT TAATT TGATT TAATT TA
1 TAATT TAATT TAATT TAATT TAATT TAATT TA
38036365 TGTTTGTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (5 bp):
TAATT
Found at i:38036722 original size:12 final size:12
Alignment explanation
Indices: 38036705--38036730 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38036695 ATAAGGCTTA
38036705 TGCATGACATAT
1 TGCATGACATAT
38036717 TGCATGACATAT
1 TGCATGACATAT
38036729 TG
1 TG
38036731 GAGAACTAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (12 bp):
TGCATGACATAT
Done.