Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006550.1 Hibiscus syriacus cultivar Beakdansim tig00016004_pilon, whole genome shotgun sequence
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: 1576944
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 8
Found at i:1331392 original size:31 final size:31
Alignment explanation
Indices: 1331355--1331435 Score: 117
Period size: 31 Copynumber: 2.6 Consensus size: 31
1331345 ATCACAACCC
*
1331355 GACCCGACCCGTTGACCCGGCCCGAACCGTT
1 GACCCGACCCGTTGACCCGACCCGAACCGTT
* *
1331386 TACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGAACCGTT
* *
1331417 GACTCGCCCCGTTGACCCG
1 GACCCGACCCGTTGACCCG
1331436 TTGACCGTCG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.15, C:0.47, G:0.23, T:0.15
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGAACCGTT
Found at i:1331427 original size:18 final size:18
Alignment explanation
Indices: 1331351--1331419 Score: 76
Period size: 18 Copynumber: 4.1 Consensus size: 18
1331341 ACCGATCACA
1331351 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
* *
1331369 ACCCGGCCCGAACCGTT-
1 ACCCGACCCGACCCGTTG
*
1331386 ----TACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
1331400 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
1331418 AC
1 AC
1331420 TCGCCCCGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
13 10 0.25
18 30 0.75
ACGTcount: A:0.17, C:0.48, G:0.22, T:0.13
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:1332755 original size:18 final size:18
Alignment explanation
Indices: 1332729--1332763 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1332719 TCGAAAGGAC
*
1332729 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
1332747 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
1332764 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:1336554 original size:13 final size:13
Alignment explanation
Indices: 1336554--1336590 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1336544 CCGTTGACCC
*
1336554 GACCCGAACCGTT
1 GACCCGACCCGTT
*
1336567 TACCCGACCCGTT
1 GACCCGACCCGTT
1336580 GACCCGACCCG
1 GACCCGACCCG
1336591 ACCCGTTGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.19, C:0.46, G:0.22, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:1336573 original size:31 final size:31
Alignment explanation
Indices: 1336536--1336616 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
1336526 GTCACAACCC
1336536 GACCCGACCCGTTGACCCGACCCGAACCGTT
1 GACCCGACCCGTTGACCCGACCCGAACCGTT
* *
1336567 TACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGAACCGTT
* *
1336598 GACTCGCCCCGTTGACCCG
1 GACCCGACCCGTTGACCCG
1336617 TTGACCGTCG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.16, C:0.47, G:0.22, T:0.15
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGAACCGTT
Found at i:1336608 original size:18 final size:18
Alignment explanation
Indices: 1336532--1336600 Score: 85
Period size: 18 Copynumber: 4.1 Consensus size: 18
1336522 ACCGGTCACA
1336532 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
1336550 ACCCGACCCGAACCGTT-
1 ACCCGACCCGACCCGTTG
*
1336567 ----TACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
1336581 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
1336599 AC
1 AC
1336601 TCGCCCCGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
13 11 0.26
18 31 0.74
ACGTcount: A:0.19, C:0.48, G:0.20, T:0.13
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:1342386 original size:21 final size:21
Alignment explanation
Indices: 1342362--1342495 Score: 268
Period size: 21 Copynumber: 6.4 Consensus size: 21
1342352 AAGCATCGCC
1342362 TCGTCGCCTCCGACGACTGAA
1 TCGTCGCCTCCGACGACTGAA
1342383 TCGTCGCCTCCGACGACTGAA
1 TCGTCGCCTCCGACGACTGAA
1342404 TCGTCGCCTCCGACGACTGAA
1 TCGTCGCCTCCGACGACTGAA
1342425 TCGTCGCCTCCGACGACTGAA
1 TCGTCGCCTCCGACGACTGAA
1342446 TCGTCGCCTCCGACGACTGAA
1 TCGTCGCCTCCGACGACTGAA
1342467 TCGTCGCCTCCGACGACTGAA
1 TCGTCGCCTCCGACGACTGAA
1342488 TCGTCGCC
1 TCGTCGCC
1342496 GCCTTGGTGG
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 113 1.00
ACGTcount: A:0.18, C:0.39, G:0.24, T:0.19
Consensus pattern (21 bp):
TCGTCGCCTCCGACGACTGAA
Found at i:1344746 original size:2 final size:2
Alignment explanation
Indices: 1344739--1344769 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1344729 ATAAATGTTG
1344739 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1344770 GAAATAAGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1357012 original size:19 final size:19
Alignment explanation
Indices: 1356988--1357024 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1356978 CCAGGTTAGC
1356988 CCCGACCCGCCTGATCTGA
1 CCCGACCCGCCTGATCTGA
* *
1357007 CCCGACCTGCCTGGTCTG
1 CCCGACCCGCCTGATCTG
1357025 TTCTAGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.46, G:0.24, T:0.19
Consensus pattern (19 bp):
CCCGACCCGCCTGATCTGA
Found at i:1357887 original size:27 final size:27
Alignment explanation
Indices: 1357857--1357922 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
1357847 CGATATGATT
*
1357857 GAATGTAAAGATTAGTAAAGCACGTTG
1 GAATGAAAAGATTAGTAAAGCACGTTG
*
1357884 GAATGCAAAGATTAGTAAAGCACGTTG
1 GAATGAAAAGATTAGTAAAGCACGTTG
1357911 GAATGAAAAGAT
1 GAATGAAAAGAT
1357923 AACATACATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.44, C:0.08, G:0.26, T:0.23
Consensus pattern (27 bp):
GAATGAAAAGATTAGTAAAGCACGTTG
Found at i:1362572 original size:24 final size:24
Alignment explanation
Indices: 1362511--1362572 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
1362501 CCCAAAATAA
* * * *
1362511 AACATAATTTACATTAGATATCAG
1 AACATAATTCAGATCAGAAATCAG
*
1362535 AACAGAA-TCGAGATCAGAAATCAG
1 AACATAATTC-AGATCAGAAATCAG
1362559 AACATAATTCAGAT
1 AACATAATTCAGAT
1362573 AAAAACATTC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
23 1 0.03
24 27 0.90
25 2 0.07
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.24
Consensus pattern (24 bp):
AACATAATTCAGATCAGAAATCAG
Found at i:1374402 original size:15 final size:18
Alignment explanation
Indices: 1374357--1374401 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
1374347 ATCTTGGAGC
1374357 GATGAAGATGATTCTAAT
1 GATGAAGATGATTCTAAT
1374375 GATGAAGATGATTCTAAT
1 GATGAAGATGATTCTAAT
1374393 GATGAAGAT
1 GATGAAGAT
1374402 TAAGTAGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.40, C:0.04, G:0.24, T:0.31
Consensus pattern (18 bp):
GATGAAGATGATTCTAAT
Found at i:1375803 original size:28 final size:28
Alignment explanation
Indices: 1375768--1375859 Score: 166
Period size: 28 Copynumber: 3.3 Consensus size: 28
1375758 TATATTTTCC
1375768 AACAATTGGTAAGAATAGGTATCTTTTT
1 AACAATTGGTAAGAATAGGTATCTTTTT
*
1375796 AACAATTGGTAAGAATATGTATCTTTTT
1 AACAATTGGTAAGAATAGGTATCTTTTT
*
1375824 AACAATTGGTAACAATAGGTATCTTTTT
1 AACAATTGGTAAGAATAGGTATCTTTTT
1375852 AACAATTG
1 AACAATTG
1375860 ATATCATTTT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (28 bp):
AACAATTGGTAAGAATAGGTATCTTTTT
Found at i:1375856 original size:18 final size:18
Alignment explanation
Indices: 1375833--1375890 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
1375823 TAACAATTGG
*
1375833 TAACAATAGGTATCTTTT
1 TAACAATTGGTATCTTTT
*
1375851 TAACAATTGATATCATTTTGT
1 TAACAATTGGTATC--TTT-T
1375872 TAACAATTGGTATCTTTT
1 TAACAATTGGTATCTTTT
1375890 T
1 T
1375891 TATTAAACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 14 0.41
19 3 0.09
20 3 0.09
21 14 0.41
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.48
Consensus pattern (18 bp):
TAACAATTGGTATCTTTT
Found at i:1375876 original size:21 final size:21
Alignment explanation
Indices: 1375850--1375890 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1375840 AGGTATCTTT
1375850 TTAACAATTGATATCATTTTG
1 TTAACAATTGATATCATTTTG
* *
1375871 TTAACAATTGGTATCTTTTT
1 TTAACAATTGATATCATTTT
1375891 TATTAAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.51
Consensus pattern (21 bp):
TTAACAATTGATATCATTTTG
Found at i:1375896 original size:22 final size:21
Alignment explanation
Indices: 1375850--1375896 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1375840 AGGTATCTTT
*
1375850 TTAACAATTGATATCATTTTG
1 TTAACAATTGATATCATTTTA
* *
1375871 TTAACAATTGGTATCTTTTTTA
1 TTAACAATTGATATC-ATTTTA
1375893 TTAA
1 TTAA
1375897 ACATTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.51
Consensus pattern (21 bp):
TTAACAATTGATATCATTTTA
Found at i:1376312 original size:21 final size:21
Alignment explanation
Indices: 1376283--1376322 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
1376273 TTTCAGTAGA
1376283 AAAATCATCCCTAAACGGCTCC
1 AAAATCATCCC-AAACGGCTCC
*
1376305 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCAAACGGCT
1376323 ATATACGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCAAACGGCTCC
Found at i:1391797 original size:89 final size:90
Alignment explanation
Indices: 1391632--1391824 Score: 273
Period size: 89 Copynumber: 2.1 Consensus size: 90
1391622 TGATCCAGCT
* * *
1391632 GGTAAGACCTTACAGACCTAAGGATACCCTTGGGTAGGCCCATAAGCCCCAAGGCATATCATTAA
1 GGTAAG-CCCTACGGACCTAAGGATACCCTTGGGTAGGCCCATAAGCCCCAAGGAATATCATTAA
1391697 GTTGGATCCCTTTAT-TATGTGCTTAG
65 GTTGGATCCCTTT-TCTATGTGCTTAG
* * * *
1391723 GGTAA-CCCTACGGACCTAAGGATACCCTTGGGTAGGCCCATAGGCCCTAAGGAATATCCTTAGG
1 GGTAAGCCCTACGGACCTAAGGATACCCTTGGGTAGGCCCATAAGCCCCAAGGAATATCATTAAG
*
1391787 TTGGCTCCCTTTTGCTATGTGCTTAG
66 TTGGATCCCTTTT-CTATGTGCTTAG
1391813 GGTAAGCCCTAC
1 GGTAAGCCCTAC
1391825 TGACGCAGTT
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
88 1 0.01
89 63 0.69
90 16 0.18
91 11 0.12
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (90 bp):
GGTAAGCCCTACGGACCTAAGGATACCCTTGGGTAGGCCCATAAGCCCCAAGGAATATCATTAAG
TTGGATCCCTTTTCTATGTGCTTAG
Found at i:1401111 original size:89 final size:90
Alignment explanation
Indices: 1400946--1401141 Score: 295
Period size: 89 Copynumber: 2.2 Consensus size: 90
1400936 TGATCCAGTT
* * *
1400946 GGTAAGACCTTACAGACCTAAGGATACCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAG
1 GGTAAG-CCCTACGGACCTAAGGATACCCTTGGGTAGGCCCATAGGCCCCAAGGAATATCCTTAG
* * *
1401011 GTTGGTTCCCTTTGCTGTGTGCTTAG
65 GTTAGCTCCCTTTGCTATGTGCTTAG
* * *
1401037 GGTAA-CCCTACGGACCTAAGGATACCTTTGGGTAGGCCCATAGGCCGCAAGGAATATCCTTTGG
1 GGTAAGCCCTACGGACCTAAGGATACCCTTGGGTAGGCCCATAGGCCCCAAGGAATATCCTTAGG
1401101 TTAGCTCCCTTTGCTATGTGCTTAG
66 TTAGCTCCCTTTGCTATGTGCTTAG
1401126 GGTAAGCCCTACGGAC
1 GGTAAGCCCTACGGAC
1401142 GCAGTTCTGG
Statistics
Matches: 95, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
89 80 0.84
90 10 0.11
91 5 0.05
ACGTcount: A:0.21, C:0.26, G:0.27, T:0.27
Consensus pattern (90 bp):
GGTAAGCCCTACGGACCTAAGGATACCCTTGGGTAGGCCCATAGGCCCCAAGGAATATCCTTAGG
TTAGCTCCCTTTGCTATGTGCTTAG
Found at i:1402097 original size:14 final size:14
Alignment explanation
Indices: 1402063--1402105 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
1402053 CCGAAATACA
1402063 GAAATCAGATATCAG
1 GAAATCA-ATATCAG
1402078 GAAATCAATATTCAG
1 GAAATCAATA-TCAG
1402093 G-AATCAAGTATCA
1 GAAATCAA-TATCA
1402106 TGTATCATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.23
Consensus pattern (14 bp):
GAAATCAATATCAG
Found at i:1402870 original size:29 final size:29
Alignment explanation
Indices: 1402838--1403026 Score: 156
Period size: 29 Copynumber: 6.6 Consensus size: 29
1402828 TTTTTTTTTA
* * *
1402838 AATTACAAAAATAGTACCATTTTGAAATT
1 AATTACAAAAATAGCACCATTTTCAAAAT
* **
1402867 AATTACCAAAATAGCATTATTTTCAAAAT
1 AATTACAAAAATAGCACCATTTTCAAAAT
* * *
1402896 AATTACTAAAATATCACTATTTT-AAAA-
1 AATTACAAAAATAGCACCATTTTCAAAAT
* * *
1402923 AATTTAC-GAAATTGTCACC-TTTTTAAAA-
1 AA-TTACAAAAATAG-CACCATTTTCAAAAT
*
1402951 AATTACAAAAATAACACCATTTTCAAAAT
1 AATTACAAAAATAGCACCATTTTCAAAAT
* * *
1402980 AATTATC-AGAATAGCACCATTTCCTAAAT
1 AATTA-CAAAAATAGCACCATTTTCAAAAT
*
1403009 AATTACCAAAATAGCACC
1 AATTACAAAAATAGCACC
1403027 CGATCAACGG
Statistics
Matches: 130, Mismatches: 22, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
27 18 0.14
28 30 0.23
29 81 0.62
30 1 0.01
ACGTcount: A:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (29 bp):
AATTACAAAAATAGCACCATTTTCAAAAT
Found at i:1409321 original size:14 final size:14
Alignment explanation
Indices: 1409287--1409329 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
1409277 CCGAAATACA
1409287 GAAATCAGATATCAG
1 GAAATCA-ATATCAG
1409302 GAAATCAATATTCAG
1 GAAATCAATA-TCAG
1409317 G-AATCAAGTATCA
1 GAAATCAA-TATCA
1409330 TGTATCATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.23
Consensus pattern (14 bp):
GAAATCAATATCAG
Found at i:1410106 original size:29 final size:28
Alignment explanation
Indices: 1410074--1410148 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
1410064 TTTTTTTTAA
* *
1410074 AATTATGAAAATATCACCATTTTGAAATT
1 AATTAT-AAAATATCACCATTTTCAAAAT
* * *
1410103 AATTACCAAAATAGCATCATTTTCAAAAT
1 AATTA-TAAAATATCACCATTTTCAAAAT
1410132 AATTACTAAAATATCAC
1 AATTA-TAAAATATCAC
1410149 TTTTTAAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.33
Consensus pattern (28 bp):
AATTATAAAATATCACCATTTTCAAAAT
Found at i:1410219 original size:30 final size:30
Alignment explanation
Indices: 1410180--1410236 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
1410170 GTCACTTTTT
*
1410180 TTTTTAAAAAAAATTACAAGAATAGCATGC
1 TTTTCAAAAAAAATTACAAGAATAGCATGC
* **
1410210 TTTTCAAAAATAATTATTAGAATAGCA
1 TTTTCAAAAAAAATTACAAGAATAGCA
1410237 CCATTTCCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (30 bp):
TTTTCAAAAAAAATTACAAGAATAGCATGC
Found at i:1413033 original size:20 final size:20
Alignment explanation
Indices: 1413010--1413050 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1413000 AATTATTCTC
1413010 ACAAATTAAGAATCTTGACT
1 ACAAATTAAGAATCTTGACT
1413030 ACAAATTAAGAATCTTGACT
1 ACAAATTAAGAATCTTGACT
1413050 A
1 A
1413051 TGCTATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (20 bp):
ACAAATTAAGAATCTTGACT
Found at i:1417690 original size:24 final size:24
Alignment explanation
Indices: 1417637--1417704 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
1417627 ATAAACAGAG
* *
1417637 ATATCAGAAATCAAAACAGAATTC
1 ATATCAGAAATCAGAACAGAATCC
* *
1417661 AAATCAGATATCAGAACAGAATCC
1 ATATCAGAAATCAGAACAGAATCC
* *
1417685 ATATCATAAATTAGAACAGA
1 ATATCAGAAATCAGAACAGA
1417705 TTTCAAGTCA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.53, C:0.16, G:0.10, T:0.21
Consensus pattern (24 bp):
ATATCAGAAATCAGAACAGAATCC
Found at i:1423805 original size:36 final size:36
Alignment explanation
Indices: 1423752--1423824 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
1423742 GATAAATTAT
*
1423752 AATCTACATATCCATGGCT-ATTTCTTTTATCACTTA
1 AATCTACATATACATGGCTGA-TTCTTTTATCACTTA
*
1423788 AATCTACATATATATGGCTGATTCTTTTATCACTTA
1 AATCTACATATACATGGCTGATTCTTTTATCACTTA
1423824 A
1 A
1423825 TTCCAGAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 33 0.97
37 1 0.03
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (36 bp):
AATCTACATATACATGGCTGATTCTTTTATCACTTA
Found at i:1426423 original size:24 final size:24
Alignment explanation
Indices: 1426384--1426454 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
1426374 AAATGGAAAT
* *
1426384 ATCAGAAATCAAAACAAAATTCAA
1 ATCAGAAATCAGAACAGAATTCAA
* * * *
1426408 ATTAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAA
1426432 ATCAGAAATCAGAACAGAATTCA
1 ATCAGAAATCAGAACAGAATTCA
1426455 GGTAATGTAT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.54, C:0.17, G:0.11, T:0.18
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAA
Found at i:1426455 original size:12 final size:12
Alignment explanation
Indices: 1426416--1426455 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
1426406 AAATTAGATA
1426416 TCAGAACAGAAT
1 TCAGAACAGAAT
* * *
1426428 CCAGATCAGAAA
1 TCAGAACAGAAT
1426440 TCAGAACAGAAT
1 TCAGAACAGAAT
1426452 TCAG
1 TCAG
1426456 GTAATGTATC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.47, C:0.20, G:0.17, T:0.15
Consensus pattern (12 bp):
TCAGAACAGAAT
Found at i:1427784 original size:13 final size:13
Alignment explanation
Indices: 1427784--1427859 Score: 71
Period size: 13 Copynumber: 5.3 Consensus size: 13
1427774 CCGTTGACCC
1427784 GACCCGACCCGTT
1 GACCCGACCCGTT
*
1427797 TACCCGACCCGTT
1 GACCCGACCCGTT
1427810 GACCCGACCCGACCCGTT
1 -----GACCCGACCCGTT
1427828 GACCCGACCCGTT
1 GACCCGACCCGTT
*
1427841 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
1427856 GACC
1 GACC
1427860 GTTGACCGGA
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
13 29 0.55
15 12 0.23
18 12 0.23
ACGTcount: A:0.16, C:0.45, G:0.22, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:1427785 original size:18 final size:18
Alignment explanation
Indices: 1427762--1427838 Score: 110
Period size: 18 Copynumber: 4.6 Consensus size: 18
1427752 ACCAGTCACA
1427762 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
1427780 ACCCGACCCGACCCGTT-
1 ACCCGACCCGACCCGTTG
*
1427797 ----TACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
1427811 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
1427829 ACCCGACCCG
1 ACCCGACCCG
1427839 TTGACCGTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
13 12 0.23
18 40 0.77
ACGTcount: A:0.17, C:0.51, G:0.21, T:0.12
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:1427805 original size:31 final size:31
Alignment explanation
Indices: 1427766--1427844 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
1427756 GTCACAACCC
1427766 GACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
*
1427797 TACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
1427828 GACCCGACCCGTTGACC
1 GACCCGACCCGTTGACC
1427845 GTTGACCCGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.16, C:0.48, G:0.22, T:0.14
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCGTT
Found at i:1427831 original size:8 final size:8
Alignment explanation
Indices: 1427820--1427866 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
1427810 GACCCGACCC
1427820 GACCCGTT
1 GACCCGTT
1427828 GACCC---
1 GACCCGTT
1427833 GACCCGTT
1 GACCCGTT
1427841 GA-CCGTT
1 GACCCGTT
1427848 GACCCGTT
1 GACCCGTT
1427856 GA-CCGTT
1 GACCCGTT
1427863 GACC
1 GACC
1427867 GGAGTTGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.15
7 14 0.41
8 15 0.44
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:1427848 original size:7 final size:7
Alignment explanation
Indices: 1427836--1427867 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
1427826 TTGACCCGAC
1427836 CCGTTGA
1 CCGTTGA
1427843 CCGTTGA
1 CCGTTGA
1427850 CCCGTTGA
1 -CCGTTGA
1427858 CCGTTGA
1 CCGTTGA
1427865 CCG
1 CCG
1427868 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:1427853 original size:15 final size:15
Alignment explanation
Indices: 1427820--1427866 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
1427810 GACCCGACCC
*
1427820 GACCCGTTGACC--C
1 GACCCGTTGACCGTT
1427833 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
1427848 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
1427863 GACC
1 GACC
1427867 GGAGTTGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:1429205 original size:18 final size:18
Alignment explanation
Indices: 1429179--1429214 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1429169 TCGAAAGGAC
*
1429179 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
1429197 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
1429215 CGGATGAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:1430446 original size:24 final size:24
Alignment explanation
Indices: 1430342--1430448 Score: 88
Period size: 24 Copynumber: 4.5 Consensus size: 24
1430332 ATATTTTATC
*
1430342 TGATTTCTGATTTGAATTATGTTT
1 TGATTTCTGATCTGAATTATGTTT
** * * *
1430366 TGACATCTGATCTGAAATCTGTTC
1 TGATTTCTGATCTGAATTATGTTT
* * * * * *
1430390 TGATTCCTAACCTGGATTCTGTTA
1 TGATTTCTGATCTGAATTATGTTT
* *
1430414 TGATATCTGATCTGAATTATATTT
1 TGATTTCTGATCTGAATTATGTTT
1430438 TGATTTCTGAT
1 TGATTTCTGAT
1430449 ATCTCCGTTT
Statistics
Matches: 60, Mismatches: 23, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.23, C:0.13, G:0.16, T:0.48
Consensus pattern (24 bp):
TGATTTCTGATCTGAATTATGTTT
Found at i:1432564 original size:13 final size:13
Alignment explanation
Indices: 1432564--1432639 Score: 71
Period size: 13 Copynumber: 5.3 Consensus size: 13
1432554 CCGTTGACCC
1432564 GACCCGACCCGTT
1 GACCCGACCCGTT
*
1432577 TACCCGACCCGTT
1 GACCCGACCCGTT
1432590 GACCCGACCCGACCCGTT
1 -----GACCCGACCCGTT
1432608 GACCCGACCCGTT
1 GACCCGACCCGTT
*
1432621 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
1432636 GACC
1 GACC
1432640 GTTGACCGGA
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
13 29 0.55
15 12 0.23
18 12 0.23
ACGTcount: A:0.16, C:0.45, G:0.22, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:1432565 original size:18 final size:18
Alignment explanation
Indices: 1432542--1432618 Score: 110
Period size: 18 Copynumber: 4.6 Consensus size: 18
1432532 ACCAGTCACA
1432542 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
1432560 ACCCGACCCGACCCGTT-
1 ACCCGACCCGACCCGTTG
*
1432577 ----TACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
1432591 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
1432609 ACCCGACCCG
1 ACCCGACCCG
1432619 TTGACCGTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
13 12 0.23
18 40 0.77
ACGTcount: A:0.17, C:0.51, G:0.21, T:0.12
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:1432585 original size:31 final size:31
Alignment explanation
Indices: 1432546--1432624 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
1432536 GTCACAACCC
1432546 GACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
*
1432577 TACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
1432608 GACCCGACCCGTTGACC
1 GACCCGACCCGTTGACC
1432625 GTTGACCCGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.16, C:0.48, G:0.22, T:0.14
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCGTT
Found at i:1432611 original size:8 final size:8
Alignment explanation
Indices: 1432600--1432646 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
1432590 GACCCGACCC
1432600 GACCCGTT
1 GACCCGTT
1432608 GACCC---
1 GACCCGTT
1432613 GACCCGTT
1 GACCCGTT
1432621 GA-CCGTT
1 GACCCGTT
1432628 GACCCGTT
1 GACCCGTT
1432636 GA-CCGTT
1 GACCCGTT
1432643 GACC
1 GACC
1432647 GGAGTTGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.15
7 14 0.41
8 15 0.44
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:1432628 original size:7 final size:7
Alignment explanation
Indices: 1432616--1432647 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
1432606 TTGACCCGAC
1432616 CCGTTGA
1 CCGTTGA
1432623 CCGTTGA
1 CCGTTGA
1432630 CCCGTTGA
1 -CCGTTGA
1432638 CCGTTGA
1 CCGTTGA
1432645 CCG
1 CCG
1432648 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:1432633 original size:15 final size:15
Alignment explanation
Indices: 1432600--1432646 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
1432590 GACCCGACCC
*
1432600 GACCCGTTGACC--C
1 GACCCGTTGACCGTT
1432613 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
1432628 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
1432643 GACC
1 GACC
1432647 GGAGTTGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:1433985 original size:18 final size:18
Alignment explanation
Indices: 1433959--1433994 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1433949 TCGAAAGGAC
*
1433959 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
1433977 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
1433995 CGGATGAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:1435226 original size:24 final size:24
Alignment explanation
Indices: 1435122--1435228 Score: 88
Period size: 24 Copynumber: 4.5 Consensus size: 24
1435112 ATATTTTATC
*
1435122 TGATTTCTGATTTGAATTATGTTT
1 TGATTTCTGATCTGAATTATGTTT
** * * *
1435146 TGACATCTGATCTGAAATCTGTTC
1 TGATTTCTGATCTGAATTATGTTT
* * * * * *
1435170 TGATTCCTAACCTGGATTCTGTTA
1 TGATTTCTGATCTGAATTATGTTT
* *
1435194 TGATATCTGATCTGAATTATATTT
1 TGATTTCTGATCTGAATTATGTTT
1435218 TGATTTCTGAT
1 TGATTTCTGAT
1435229 ATCTCCGTTT
Statistics
Matches: 60, Mismatches: 23, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.23, C:0.13, G:0.16, T:0.48
Consensus pattern (24 bp):
TGATTTCTGATCTGAATTATGTTT
Found at i:1454949 original size:24 final size:24
Alignment explanation
Indices: 1454903--1454959 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
1454893 TCCCTGATCA
*
1454903 TATGATTATTTTATCTGATTTCTGT
1 TATGATT-TTTTATCTGAATTCTGT
* *
1454928 TATGATTTTTTCTTTGAATTCTGT
1 TATGATTTTTTATCTGAATTCTGT
1454952 TATGATTT
1 TATGATTT
1454960 CTGATATCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 22 0.76
25 7 0.24
ACGTcount: A:0.19, C:0.07, G:0.12, T:0.61
Consensus pattern (24 bp):
TATGATTTTTTATCTGAATTCTGT
Found at i:1455144 original size:31 final size:31
Alignment explanation
Indices: 1455106--1455182 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 31
1455096 TAAGGCGACC
* * *
1455106 CTTGGGTAGGCTCTGCGGTCCTGAGATTTTT
1 CTTGGGTAGGCTCTGCGGCCCCGAGAATTTT
*
1455137 CTTGGGTAGGCCTCTGTGGCCCCGAGAATTTT
1 CTTGGGTAGG-CTCTGCGGCCCCGAGAATTTT
1455169 CTTGGGGTAGGCTC
1 CTT-GGGTAGGCTC
1455183 ACAGGCCCCA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
31 10 0.25
32 23 0.57
33 7 0.17
ACGTcount: A:0.10, C:0.22, G:0.34, T:0.34
Consensus pattern (31 bp):
CTTGGGTAGGCTCTGCGGCCCCGAGAATTTT
Found at i:1455190 original size:32 final size:32
Alignment explanation
Indices: 1455128--1455191 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
1455118 CTGCGGTCCT
* ***
1455128 GAGATTTTTCTTGGGTAGGCCTCTGTGGCCCC
1 GAGAATTTTCTTGGGTAGGCCTCACAGGCCCC
1455160 GAGAATTTTCTTGGGGTAGG-CTCACAGGCCCC
1 GAGAATTTTCTT-GGGTAGGCCTCACAGGCCCC
1455192 AAGGTACTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 20 0.74
33 7 0.26
ACGTcount: A:0.14, C:0.25, G:0.31, T:0.30
Consensus pattern (32 bp):
GAGAATTTTCTTGGGTAGGCCTCACAGGCCCC
Found at i:1457464 original size:17 final size:18
Alignment explanation
Indices: 1457437--1457493 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 18
1457427 GGTCCGACCC
1457437 GACCTGTTGACCAGA-GTT
1 GACC-GTTGACCAGACGTT
*
1457455 GACCGTTGA-CTGACGTT
1 GACCGTTGACCAGACGTT
* *
1457472 GACCGTTAACCA-ACATT
1 GACCGTTGACCAGACGTT
1457489 GACCG
1 GACCG
1457494 GGCATTGAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
16 3 0.09
17 25 0.76
18 5 0.15
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (18 bp):
GACCGTTGACCAGACGTT
Found at i:1459615 original size:24 final size:24
Alignment explanation
Indices: 1459587--1459712 Score: 135
Period size: 24 Copynumber: 5.2 Consensus size: 24
1459577 ATGTTTTATC
* *
1459587 TGATTTCCGATTTGAATTCTGTTT
1 TGATTTCTGATCTGAATTCTGTTT
* * * *
1459611 TGATTTTTGATTTGAATTTTGTTA
1 TGATTTCTGATCTGAATTCTGTTT
* *
1459635 TGATTTCTGATCTGAAGTGTGTTT
1 TGATTTCTGATCTGAATTCTGTTT
* *
1459659 TGATTTCTGATCTGGATTCTGTTA
1 TGATTTCTGATCTGAATTCTGTTT
* * *
1459683 TGATATATGATATGAATTCTGTTT
1 TGATTTCTGATCTGAATTCTGTTT
1459707 TGATTT
1 TGATTT
1459713 AAGATATCTC
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 83 1.00
ACGTcount: A:0.20, C:0.07, G:0.19, T:0.54
Consensus pattern (24 bp):
TGATTTCTGATCTGAATTCTGTTT
Found at i:1459658 original size:48 final size:48
Alignment explanation
Indices: 1459587--1459712 Score: 153
Period size: 48 Copynumber: 2.6 Consensus size: 48
1459577 ATGTTTTATC
* * * * *
1459587 TGATTTCCGATTTGAATTCTGTTTTGATTTTTGATTTGAATTTTGTTA
1 TGATTTCTGATATGAATTCTGTTTTGATTTCTGATCTGAATTCTGTTA
* * * *
1459635 TGATTTCTGATCTGAAGTGTGTTTTGATTTCTGATCTGGATTCTGTTA
1 TGATTTCTGATATGAATTCTGTTTTGATTTCTGATCTGAATTCTGTTA
* *
1459683 TGATATATGATATGAATTCTGTTTTGATTT
1 TGATTTCTGATATGAATTCTGTTTTGATTT
1459713 AAGATATCTC
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 65 1.00
ACGTcount: A:0.20, C:0.07, G:0.19, T:0.54
Consensus pattern (48 bp):
TGATTTCTGATATGAATTCTGTTTTGATTTCTGATCTGAATTCTGTTA
Found at i:1461255 original size:32 final size:32
Alignment explanation
Indices: 1461218--1461293 Score: 152
Period size: 32 Copynumber: 2.4 Consensus size: 32
1461208 GAATTATAAA
1461218 CCCCCATTTCCCGTATGTTTCTACATAATTAT
1 CCCCCATTTCCCGTATGTTTCTACATAATTAT
1461250 CCCCCATTTCCCGTATGTTTCTACATAATTAT
1 CCCCCATTTCCCGTATGTTTCTACATAATTAT
1461282 CCCCCATTTCCC
1 CCCCCATTTCCC
1461294 TCCCCCGTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.20, C:0.37, G:0.05, T:0.38
Consensus pattern (32 bp):
CCCCCATTTCCCGTATGTTTCTACATAATTAT
Found at i:1464773 original size:22 final size:22
Alignment explanation
Indices: 1464745--1464787 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1464735 AACGGTCAAC
*
1464745 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGATCGGGTCG
1464767 GGTCAACGGTCGGATCGGGTC
1 GGTCAACGGTCGGATCGGGTC
1464788 AGACCGGTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.12, C:0.23, G:0.47, T:0.19
Consensus pattern (22 bp):
GGTCAACGGTCGGATCGGGTCG
Found at i:1464797 original size:19 final size:19
Alignment explanation
Indices: 1464757--1464815 Score: 95
Period size: 19 Copynumber: 3.2 Consensus size: 19
1464747 TCAACGGTCG
*
1464757 GGTCGGGTCGGGTCA-A-C
1 GGTCGGATCGGGTCAGACC
1464774 GGTCGGATCGGGTCAGACC
1 GGTCGGATCGGGTCAGACC
1464793 GGTCGGATCGGGTCAGACC
1 GGTCGGATCGGGTCAGACC
1464812 GGTC
1 GGTC
1464816 AAACCGGTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
17 14 0.36
18 1 0.03
19 24 0.62
ACGTcount: A:0.14, C:0.25, G:0.44, T:0.17
Consensus pattern (19 bp):
GGTCGGATCGGGTCAGACC
Found at i:1464841 original size:20 final size:22
Alignment explanation
Indices: 1464816--1464865 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
1464806 CAGACCGGTC
1464816 AAACCGGTTC-GAACCAATTG-
1 AAACCGGTTCAGAACCAATTGA
**
1464836 AAACCGG-TCAGAACCGGTTGA
1 AAACCGGTTCAGAACCAATTGA
1464857 AAACCGGTT
1 AAACCGGTT
1464866 AAACCGGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 2 0.08
20 15 0.60
21 7 0.28
22 1 0.04
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (22 bp):
AAACCGGTTCAGAACCAATTGA
Found at i:1464870 original size:20 final size:21
Alignment explanation
Indices: 1464836--1464874 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1464826 GAACCAATTG
1464836 AAACCGGTCAGAACCGGTTGA
1 AAACCGGTCAGAACCGGTTGA
*
1464857 AAACCGGTTA-AACCGGTT
1 AAACCGGTCAGAACCGGTT
1464875 TCCAGCAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (21 bp):
AAACCGGTCAGAACCGGTTGA
Found at i:1472061 original size:5 final size:5
Alignment explanation
Indices: 1472051--1472103 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 5
1472041 AACGGTCAAC
* *
1472051 GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG
1 GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG
1472100 GGTC
1 GGTC
1472104 AACGGTCGGA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 32 0.80
7 8 0.20
ACGTcount: A:0.08, C:0.23, G:0.51, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:1472066 original size:17 final size:17
Alignment explanation
Indices: 1472044--1472138 Score: 127
Period size: 17 Copynumber: 5.3 Consensus size: 17
1472034 AACGGTCAAC
1472044 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
1472061 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAA----C-GGTCGGGTCG
1472083 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
*
1472100 GGTCAACGGTCGGATCG
1 GGTCAACGGTCGGGTCG
*
1472117 GGTCAACGGTCGGATCG
1 GGTCAACGGTCGGGTCG
1472134 GGTCA
1 GGTCA
1472139 GACCGGTCAA
Statistics
Matches: 72, Mismatches: 1, Indels: 10
0.87 0.01 0.12
Matches are distributed among these distances:
17 54 0.75
18 1 0.01
21 1 0.01
22 16 0.22
ACGTcount: A:0.14, C:0.23, G:0.45, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:1472071 original size:7 final size:7
Alignment explanation
Indices: 1472024--1472054 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
1472014 GTCAAAGAAA
1472024 GTCAACG
1 GTCAACG
1472031 GTCAACG
1 GTCAACG
1472038 GTCAACG
1 GTCAACG
1472045 GTCAACG
1 GTCAACG
1472052 GTC
1 GTC
1472055 GGGTCGGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:1472079 original size:22 final size:22
Alignment explanation
Indices: 1472037--1472103 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
1472027 AACGGTCAAC
*
1472037 GGTCAACGGTCAACGGTCGGGTCG
1 GGTCAACGGTC--GGGTCGGGTCG
1472061 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
1472083 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
1472104 AACGGTCGGA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
22 31 0.74
24 11 0.26
ACGTcount: A:0.12, C:0.24, G:0.46, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:1472092 original size:39 final size:39
Alignment explanation
Indices: 1472044--1472120 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
1472034 AACGGTCAAC
*
1472044 GGTCAACGGTCGGGTCGGGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCAACGGTCGGATCGGGTCG
1472083 GGTCAACGGTCGGGTCGGGTCAACGGTCGGATCGGGTC
1 GGTCAACGGTCGGGTCGGGTCAACGGTCGGATCGGGTC
1472121 AACGGTCGGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.12, C:0.23, G:0.47, T:0.18
Consensus pattern (39 bp):
GGTCAACGGTCGGGTCGGGTCAACGGTCGGATCGGGTCG
Found at i:1472117 original size:22 final size:21
Alignment explanation
Indices: 1472050--1472120 Score: 96
Period size: 22 Copynumber: 3.5 Consensus size: 21
1472040 CAACGGTCAA
1472050 CGGTCGGGTCGGGTCAACGGT
1 CGGTCGGGTCGGGTCAACGGT
1472071 CGGGTCGGGTCGGGTCAA----
1 C-GGTCGGGTCGGGTCAACGGT
1472089 CGGTCGGGTCGGGTCAACGGT
1 CGGTCGGGTCGGGTCAACGGT
1472110 CGGATCGGGTC
1 CGG-TCGGGTC
1472121 AACGGTCGGA
Statistics
Matches: 44, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
17 16 0.36
18 1 0.02
21 4 0.09
22 23 0.52
ACGTcount: A:0.10, C:0.24, G:0.48, T:0.18
Consensus pattern (21 bp):
CGGTCGGGTCGGGTCAACGGT
Found at i:1472211 original size:19 final size:18
Alignment explanation
Indices: 1472134--1472212 Score: 79
Period size: 19 Copynumber: 4.2 Consensus size: 18
1472124 GGTCGGATCG
1472134 GGTCAGACCGGTCAAACC
1 GGTCAGACCGGTCAAACC
*
1472152 GATTCAGACCGGTCAAACC
1 G-GTCAGACCGGTCAAACC
*
1472171 GGTTC-GAACCGGTTGAAACC
1 GG-TCAG-ACCGG-TCAAACC
*
1472191 GGTCAAACCGGTCAGAACC
1 GGTCAGACCGGTCA-AACC
1472210 GGT
1 GGT
1472213 TGAAAACTGG
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
18 4 0.08
19 38 0.76
20 8 0.16
ACGTcount: A:0.28, C:0.29, G:0.28, T:0.15
Consensus pattern (18 bp):
GGTCAGACCGGTCAAACC
Found at i:1473779 original size:24 final size:24
Alignment explanation
Indices: 1473742--1473896 Score: 177
Period size: 24 Copynumber: 6.5 Consensus size: 24
1473732 GTTTTATCTA
*
1473742 ATTTCTGATTTGAATTCTGTTCTG
1 ATTTCTGATATGAATTCTGTTCTG
*
1473766 ATTAT-TGATATGAATTTTGTTCTG
1 ATT-TCTGATATGAATTCTGTTCTG
* *
1473790 ATTTCTGATCTAAATTCTGTTCTG
1 ATTTCTGATATGAATTCTGTTCTG
* * *
1473814 ATTTCTGATCTGAATTATGTTCTA
1 ATTTCTGATATGAATTCTGTTCTG
* * *
1473838 ATTTCTGATATGGATTCTATTATG
1 ATTTCTGATATGAATTCTGTTCTG
* * *
1473862 ATATATGATATGAATTCTGTTTTG
1 ATTTCTGATATGAATTCTGTTCTG
1473886 ATTTCTGATAT
1 ATTTCTGATAT
1473897 CTCCGTTTAT
Statistics
Matches: 108, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
23 1 0.01
24 106 0.98
25 1 0.01
ACGTcount: A:0.24, C:0.10, G:0.15, T:0.52
Consensus pattern (24 bp):
ATTTCTGATATGAATTCTGTTCTG
Found at i:1473819 original size:12 final size:12
Alignment explanation
Indices: 1473742--1473844 Score: 68
Period size: 12 Copynumber: 8.6 Consensus size: 12
1473732 GTTTTATCTA
1473742 ATTTCTGATT-TG
1 ATTTCTG-TTCTG
*
1473754 AATTCTGTTCTG
1 ATTTCTGTTCTG
* *
1473766 ATTAT-TGATATG
1 ATT-TCTGTTCTG
1473778 AATTT-TGTTCTG
1 -ATTTCTGTTCTG
* *
1473790 ATTTCTGATCTA
1 ATTTCTGTTCTG
*
1473802 AATTCTGTTCTG
1 ATTTCTGTTCTG
*
1473814 ATTTCTGATCTG
1 ATTTCTGTTCTG
* * *
1473826 AATTATGTTCTA
1 ATTTCTGTTCTG
1473838 ATTTCTG
1 ATTTCTG
1473845 ATATGGATTC
Statistics
Matches: 68, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
11 6 0.09
12 58 0.85
13 4 0.06
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.52
Consensus pattern (12 bp):
ATTTCTGTTCTG
Found at i:1480348 original size:31 final size:31
Alignment explanation
Indices: 1480310--1480384 Score: 96
Period size: 32 Copynumber: 2.4 Consensus size: 31
1480300 TAAGGCGACC
***
1480310 CTTGGGTAGGCTCTATAGCCTTGAGAATTTT
1 CTTGGGTAGGCTCTATAGCCCCAAGAATTTT
* *
1480341 CTTGGGTAGGCCTCTGTTGCCCCAAGAATTTT
1 CTTGGGTAGG-CTCTATAGCCCCAAGAATTTT
1480373 CTTGGGTAGGCT
1 CTTGGGTAGGCT
1480385 AGCAGGTCCC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
31 12 0.32
32 26 0.68
ACGTcount: A:0.16, C:0.20, G:0.28, T:0.36
Consensus pattern (31 bp):
CTTGGGTAGGCTCTATAGCCCCAAGAATTTT
Found at i:1483512 original size:24 final size:24
Alignment explanation
Indices: 1483480--1483532 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
1483470 AACCTTGACT
1483480 CGACCCAAACTATTTGGCCGGACC
1 CGACCCAAACTATTTGGCCGGACC
*
1483504 CGACCCAAACTGTTTGGCCGGACC
1 CGACCCAAACTATTTGGCCGGACC
1483528 CGACC
1 CGACC
1483533 TGTTGACTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.23, C:0.40, G:0.23, T:0.15
Consensus pattern (24 bp):
CGACCCAAACTATTTGGCCGGACC
Found at i:1483567 original size:16 final size:16
Alignment explanation
Indices: 1483534--1483578 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
1483524 GACCCGACCT
1483534 GTTGACTTTGACCAAA
1 GTTGACTTTGACCAAA
*
1483550 GTTGATTTTGA-CATAA
1 GTTGACTTTGACCA-AA
*
1483566 GTTGGCTTTGACC
1 GTTGACTTTGACC
1483579 CAAAAATTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 2 0.08
16 21 0.88
17 1 0.04
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (16 bp):
GTTGACTTTGACCAAA
Found at i:1484384 original size:32 final size:32
Alignment explanation
Indices: 1484332--1484406 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 32
1484322 TAAGGAGACC
* * *
1484332 CTTGGGT-AGGTTCTGCGGCCCCGAGATTTTT
1 CTTGGGTAAGCTTCTGCGGCCCCGAGAATTAT
* *
1484363 CTTGGGTAAGCTTCTGTGGCCCTGAGAATTAT
1 CTTGGGTAAGCTTCTGCGGCCCCGAGAATTAT
*
1484395 CCTGGGTAAGCT
1 CTTGGGTAAGCT
1484407 CTTAGGCCCC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 7 0.19
32 30 0.81
ACGTcount: A:0.15, C:0.21, G:0.31, T:0.33
Consensus pattern (32 bp):
CTTGGGTAAGCTTCTGCGGCCCCGAGAATTAT
Found at i:1488813 original size:12 final size:12
Alignment explanation
Indices: 1488796--1488849 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
1488786 ATTTTCTCTT
*
1488796 ATTTCTGTTTTG
1 ATTTCTGTTCTG
*
1488808 ATTTCTGCTCTG
1 ATTTCTGTTCTG
*
1488820 ATTTCTATTCTG
1 ATTTCTGTTCTG
* * *
1488832 ATTTTTGCTCTA
1 ATTTCTGTTCTG
1488844 ATTTCT
1 ATTTCT
1488850 AATATCTCTG
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.13, C:0.17, G:0.11, T:0.59
Consensus pattern (12 bp):
ATTTCTGTTCTG
Found at i:1488823 original size:24 final size:24
Alignment explanation
Indices: 1488791--1488850 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
1488781 TGGATATTTT
* * *
1488791 CTCTTATTTCTGTTTTGATTTCTG
1 CTCTAATTTCTATTCTGATTTCTG
* *
1488815 CTCTGATTTCTATTCTGATTTTTG
1 CTCTAATTTCTATTCTGATTTCTG
1488839 CTCTAATTTCTA
1 CTCTAATTTCTA
1488851 ATATCTCTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.13, C:0.18, G:0.10, T:0.58
Consensus pattern (24 bp):
CTCTAATTTCTATTCTGATTTCTG
Found at i:1494773 original size:24 final size:24
Alignment explanation
Indices: 1494746--1494791 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
1494736 TTGAATTATT
*
1494746 TGACCCGACCCGTTGACTTTGACC
1 TGACACGACCCGTTGACTTTGACC
*
1494770 TGACATGACCCGTTGACTTTGA
1 TGACACGACCCGTTGACTTTGA
1494792 TCAGAGTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.22, T:0.28
Consensus pattern (24 bp):
TGACACGACCCGTTGACTTTGACC
Found at i:1494802 original size:16 final size:16
Alignment explanation
Indices: 1494781--1494824 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
1494771 GACATGACCC
1494781 GTTGACTTTGATCAGA
1 GTTGACTTTGATCAGA
* *
1494797 GTTGACATTGACCAGA
1 GTTGACTTTGATCAGA
1494813 GTTGACTTTGAT
1 GTTGACTTTGAT
1494825 ATGAAAAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (16 bp):
GTTGACTTTGATCAGA
Found at i:1502935 original size:12 final size:12
Alignment explanation
Indices: 1502918--1502951 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
1502908 AATAATTTTT
1502918 AGGAATTTTTCC
1 AGGAATTTTTCC
1502930 AGGAATTTTTCC
1 AGGAATTTTTCC
*
1502942 GGGAATTTTT
1 AGGAATTTTT
1502952 GGACACCGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.44
Consensus pattern (12 bp):
AGGAATTTTTCC
Found at i:1509459 original size:19 final size:19
Alignment explanation
Indices: 1509435--1509480 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
1509425 ATTTTAGTTC
1509435 TGATTTTTGATCTCTGTTA
1 TGATTTTTGATCTCTGTTA
* *
1509454 TGATTTCTGATCTCTGTTC
1 TGATTTTTGATCTCTGTTA
1509473 TGATTTTT
1 TGATTTTT
1509481 CATATCTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.13, C:0.13, G:0.15, T:0.59
Consensus pattern (19 bp):
TGATTTTTGATCTCTGTTA
Found at i:1513285 original size:19 final size:19
Alignment explanation
Indices: 1513230--1513278 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
1513220 ATTTCTATTC
* * * *
1513230 TGATCTCAGTTCTGTTTTT
1 TGATCTCTGTTATGATTTA
*
1513249 TGATCTTTGTTATGATTTA
1 TGATCTCTGTTATGATTTA
1513268 TGATCTCTGTT
1 TGATCTCTGTT
1513279 TCGATTTCTG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.14, C:0.12, G:0.16, T:0.57
Consensus pattern (19 bp):
TGATCTCTGTTATGATTTA
Found at i:1513290 original size:19 final size:19
Alignment explanation
Indices: 1513227--1513290 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
1513217 CTGATTTCTA
* *
1513227 TTCTGATCTCAG-TTCTGTT
1 TTCTGATCTCTGTTTC-GAT
* *
1513246 TTTTGATCTTTGTTAT-GAT
1 TTCTGATCTCTGTT-TCGAT
*
1513265 TTATGATCTCTGTTTCGAT
1 TTCTGATCTCTGTTTCGAT
1513284 TTCTGAT
1 TTCTGAT
1513291 ATCTCTATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
18 1 0.03
19 32 0.91
20 1 0.03
21 1 0.03
ACGTcount: A:0.14, C:0.14, G:0.16, T:0.56
Consensus pattern (19 bp):
TTCTGATCTCTGTTTCGAT
Found at i:1513470 original size:31 final size:33
Alignment explanation
Indices: 1513432--1513507 Score: 104
Period size: 32 Copynumber: 2.4 Consensus size: 33
1513422 TATGGCGACC
*
1513432 CTTGGGTAGGCTC-T-GTAGCCCTGAGATTTTT
1 CTTGGGTAGGCTCTTCGTAGCCCTGAGAATTTT
* *
1513463 CTTGGGTAGGC-CTTCGTGGCCCTGATAATTTT
1 CTTGGGTAGGCTCTTCGTAGCCCTGAGAATTTT
1513495 CTTGGGTAGGCTC
1 CTTGGGTAGGCTC
1513508 GCAAGCCCCA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
30 1 0.03
31 12 0.31
32 25 0.64
33 1 0.03
ACGTcount: A:0.12, C:0.21, G:0.30, T:0.37
Consensus pattern (33 bp):
CTTGGGTAGGCTCTTCGTAGCCCTGAGAATTTT
Found at i:1514188 original size:92 final size:92
Alignment explanation
Indices: 1514031--1514214 Score: 237
Period size: 92 Copynumber: 2.0 Consensus size: 92
1514021 AATTTTATTT
* * * *
1514031 TGTATTTATAAATCATTTTATGATTTTACATATTTTGATAAAAGTTTAAAACTTTACGATATTTT
1 TGTATTCATAAATCATTTTATGAGTTTACATATTTTAATAAAAGTTTAAAACTTTACGAGATTTT
* *
1514096 TGCGGTAGGTCACT-TCGGTGGCCCTAA
66 TACGGTAGGTCACTCT-GGTGACCCTAA
* * *
1514123 TGTATTCATAAATCATTTTATGAGTTTACATGTTTTAATAAAAGTTTTAAA-TTTTCTGAGATTT
1 TGTATTCATAAATCATTTTATGAGTTTACATATTTTAATAAAAGTTTAAAACTTTAC-GAGATTT
* *
1514187 TTATGGTGGGTCACTCTGGTGACCCTAA
65 TTACGGTAGGTCACTCTGGTGACCCTAA
1514215 CGTGACACCC
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
91 4 0.05
92 74 0.94
93 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.44
Consensus pattern (92 bp):
TGTATTCATAAATCATTTTATGAGTTTACATATTTTAATAAAAGTTTAAAACTTTACGAGATTTT
TACGGTAGGTCACTCTGGTGACCCTAA
Found at i:1518623 original size:24 final size:24
Alignment explanation
Indices: 1518573--1518657 Score: 89
Period size: 24 Copynumber: 3.5 Consensus size: 24
1518563 GATATCAAAA
* * * * *
1518573 ATCAAAACATAATTCATGTAAGAT
1 ATCAAAACAGAATACAGGTCAGGT
1518597 ATCAAAACAGAATACAGGTCAGGT
1 ATCAAAACAGAATACAGGTCAGGT
* * *
1518621 ATCATAACAGAATCCAGGTCAAGT
1 ATCAAAACAGAATACAGGTCAGGT
*
1518645 ATCATAACAGAAT
1 ATCAAAACAGAAT
1518658 TCAAATAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.22
Consensus pattern (24 bp):
ATCAAAACAGAATACAGGTCAGGT
Found at i:1529839 original size:8 final size:8
Alignment explanation
Indices: 1529815--1529860 Score: 56
Period size: 8 Copynumber: 5.4 Consensus size: 8
1529805 CTCATCCAGC
1529815 AAAGAAAGA
1 AAAGAAA-A
1529824 AGAAGAAAA
1 A-AAGAAAA
1529833 AAAGAAAAA
1 AAAG-AAAA
1529842 AAAGAAAA
1 AAAGAAAA
*
1529850 AAGGAAAA
1 AAAGAAAA
1529858 AAA
1 AAA
1529861 AAAGGGGACA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
8 16 0.48
9 11 0.33
10 6 0.18
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (8 bp):
AAAGAAAA
Found at i:1529848 original size:17 final size:17
Alignment explanation
Indices: 1529815--1529861 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
1529805 CTCATCCAGC
*
1529815 AAAGAAAGAAGAAGAAAA
1 AAAGAAA-AAAAAGAAAA
1529833 AAAGAAAAAAAAGAAAA
1 AAAGAAAAAAAAGAAAA
*
1529850 AAGGAAAAAAAA
1 AAAGAAAAAAAA
1529862 AAGGGGACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 20 0.74
18 7 0.26
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAAAGAAAA
Found at i:1532183 original size:114 final size:114
Alignment explanation
Indices: 1531976--1532201 Score: 382
Period size: 114 Copynumber: 2.0 Consensus size: 114
1531966 AAGTGTCATG
*
1531976 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATC
* * * *
1532041 TGGTTTGGTTGGAATCCCAAAACTAATCATTAGATTTGAAAGATGAATT
66 TGGTTCGGTAGGAATCCCAAAACCAATCATTAGAATTGAAAGATGAATT
1532090 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATC
*
1532155 TGGTTCGGTAGGAA-CCACAGAACCAATCATTAGAATTGAAAGATGAA
66 TGGTTCGGTAGGAATCC-CAAAACCAATCATTAGAATTGAAAGATGAA
1532202 CTGCATGATC
Statistics
Matches: 105, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
113 2 0.02
114 103 0.98
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATC
TGGTTCGGTAGGAATCCCAAAACCAATCATTAGAATTGAAAGATGAATT
Found at i:1534420 original size:54 final size:54
Alignment explanation
Indices: 1534259--1534456 Score: 214
Period size: 54 Copynumber: 3.8 Consensus size: 54
1534249 GCTTCAATGA
* * * *
1534259 TTAAGAA-ATCTTG-GCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAACGCT
1 TTAAGAACATC-TGAGCAGAAACCACAGAAAAAGATGAATGTGTTGTCAAATGTT
* * * *
1534312 TTACGAACGTCTGAGCAAAAACCACA-AGAAATGATGAATGTGTTGTCAAATGTT
1 TTAAGAACATCTGAGCAGAAACCACAGA-AAAAGATGAATGTGTTGTCAAATGTT
* *
1534366 TTAAGAACATCTGAGCAGAAGCCACAGAAAAAGATGAATGTGTTGTCAAGTGTT
1 TTAAGAACATCTGAGCAGAAACCACAGAAAAAGATGAATGTGTTGTCAAATGTT
*
1534420 TT----ACATCTCGA-CAGAAACCACAGGAAAAGATGAATGT
1 TTAAGAACATCT-GAGCAGAAACCACAGAAAAAGATGAATGT
1534457 TACGAACCAG
Statistics
Matches: 125, Mismatches: 15, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
50 30 0.24
51 2 0.02
53 9 0.07
54 83 0.66
55 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.23
Consensus pattern (54 bp):
TTAAGAACATCTGAGCAGAAACCACAGAAAAAGATGAATGTGTTGTCAAATGTT
Found at i:1534861 original size:22 final size:22
Alignment explanation
Indices: 1534830--1534884 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
1534820 ATCTACACTC
*
1534830 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGACAGATTCCCTT
* *
1534852 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCCCTT
1534874 TTCAAAGATGA
1 TTCAAAGATGA
1534885 AAGCTTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCTT
Found at i:1535436 original size:113 final size:113
Alignment explanation
Indices: 1535238--1536571 Score: 2320
Period size: 113 Copynumber: 11.8 Consensus size: 113
1535228 TAGTAAAGAT
* * *
1535238 TCAAATCCATCAGTTGATGGATCAACTTTTCCAAAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
1535303 AGAATGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
1535351 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1535416 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
1535464 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* * *
1535529 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTATTCAATCTTTTTC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
1535577 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1535642 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
1535690 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1535755 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
1535803 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* *
1535868 AGAAGGAAGAAAAAATTCATAATGAGAATAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
1535916 TCAAATCCATCATTTGATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1535981 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
1536029 TCAAATCCATCATTTGATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1536094 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCATTTT-C
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACC-TTTTGC
*
1536142 TCAAATCCGTCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
1536207 AGGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * *
1536255 TCAAATCTATCACTTGATGAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* *
1536320 AGAAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG-
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* **
1536367 T---TTGAATCATTTGATGG-TCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* *
1536428 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * * ** *
1536476 TTAAATTCATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* *
1536541 AGAAAGAAGAAGAAGTTCATAATGAGAAGAA
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAA
1536572 CTTATCTGAA
Statistics
Matches: 1172, Mismatches: 42, Indels: 14
0.95 0.03 0.01
Matches are distributed among these distances:
108 89 0.08
109 12 0.01
112 18 0.02
113 1049 0.90
114 4 0.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (113 bp):
TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:1536600 original size:39 final size:40
Alignment explanation
Indices: 1536514--1536607 Score: 163
Period size: 40 Copynumber: 2.4 Consensus size: 40
1536504 TGCCAGGTAG
1536514 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGA
* *
1536554 AGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGA
1536593 AGTTCATAATGAGAA
1 AGTTCATAATGAGAA
1536608 AATTTTGTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
39 24 0.46
40 28 0.54
ACGTcount: A:0.48, C:0.09, G:0.23, T:0.20
Consensus pattern (40 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGA
Found at i:1536772 original size:124 final size:123
Alignment explanation
Indices: 1536548--1536894 Score: 420
Period size: 124 Copynumber: 2.8 Consensus size: 123
1536538 TGAAGAAAGA
* * * **
1536548 AGAAGAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAAATTT
1 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCT
* * * * *
1536613 TGTTCAACCTTTTTCATGACTCTATCATAAAAGGAGATAGATCAGCATCAACTTTTTC
66 TGTTCAACCTTTTGCATAACTCTATCACAAAAGGAGATAGATCAGCATCAACATTTCC
1536671 AG-AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAG
1 AGAAG-AAGTTCATAATGAGAAGAACTCATCTGAAG-AAGAAGAAGAAGTTCATAATGAGAAGAG
* * * * *
1536735 CTTGTTCGACCTTTTGCATAACTCTATCACAGAAGGAGATATATCATCATCAGCATTTCC
64 CTTGTTCAACCTTTTGCATAACTCTATCACAAAAGGAGATAGATCAGCATCAACATTTCC
* * *
1536795 AGAAGGAGTTCACAATGAGAAGAACTCATCT---GAAGAAGAAGAAGTTCACAATGAGAAGAGCT
1 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCT
* * *
1536857 TATTCAGCC-TTTGC-TAGATTAC-ATCACAAAAGGAGATA
66 TGTTCAACCTTTTGCATA-ACT-CTATCACAAAAGGAGATA
1536895 AATTGTCATC
Statistics
Matches: 196, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
118 2 0.01
119 22 0.11
120 36 0.18
121 1 0.01
122 2 0.01
123 31 0.16
124 100 0.51
125 2 0.01
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (123 bp):
AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCT
TGTTCAACCTTTTGCATAACTCTATCACAAAAGGAGATAGATCAGCATCAACATTTCC
Found at i:1536853 original size:17 final size:17
Alignment explanation
Indices: 1536795--1536853 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
1536785 CAGCATTTCC
*
1536795 AGAAGGAGTTCACAATG
1 AGAAGAAGTTCACAATG
*
1536812 AGAAGAA-CTCATCTGAA-G
1 AGAAGAAGTTCA-C--AATG
1536830 AAGAAGAAGTTCACAATG
1 -AGAAGAAGTTCACAATG
1536848 AGAAGA
1 AGAAGA
1536854 GCTTATTCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
16 3 0.09
17 15 0.45
18 2 0.06
19 10 0.30
20 3 0.09
ACGTcount: A:0.47, C:0.12, G:0.25, T:0.15
Consensus pattern (17 bp):
AGAAGAAGTTCACAATG
Found at i:1537099 original size:9 final size:10
Alignment explanation
Indices: 1537090--1537172 Score: 79
Period size: 9 Copynumber: 8.5 Consensus size: 10
1537080 TTTACCCATT
1537090 TTATTTA-T-
1 TTATTTATTA
1537098 TTATTTATTA
1 TTATTTATTA
*
1537108 TTA-TTGTTA
1 TTATTTATTA
1537117 TTA-TTATTA
1 TTATTTATTA
1537126 TTA-TTATTA
1 TTATTTATTA
1537135 TTATTATATATA
1 TTATT-TAT-TA
1537147 TTATTATATATA
1 TTATT-TAT-TA
1537159 TTA-TTATTA
1 TTATTTATTA
1537168 TTATT
1 TTATT
1537173 AAAAAATAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
8 7 0.10
9 31 0.46
10 8 0.12
11 4 0.06
12 17 0.25
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (10 bp):
TTATTTATTA
Found at i:1537110 original size:3 final size:3
Alignment explanation
Indices: 1537102--1537173 Score: 103
Period size: 3 Copynumber: 24.0 Consensus size: 3
1537092 ATTTATTTAT
*
1537102 TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
1537147 TTA TTA -TA TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA
1537174 AAAAATAATT
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
2 4 0.06
3 53 0.84
4 6 0.10
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:1538346 original size:15 final size:15
Alignment explanation
Indices: 1538301--1538348 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
1538291 TTTATTTTTG
*
1538301 ATTATTTTTTTATATT
1 ATTATATTTTTA-ATT
1538317 -TTATA-TTTTAA-T
1 ATTATATTTTTAATT
1538329 ATTATATTTTTAATT
1 ATTATATTTTTAATT
1538344 ATTAT
1 ATTAT
1538349 TTGCAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 1 0.04
13 6 0.21
14 11 0.39
15 10 0.36
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTATATTTTTAATT
Found at i:1538361 original size:3 final size:3
Alignment explanation
Indices: 1538355--1538400 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
1538345 TTATTTGCAA
*
1538355 TAT TAT T-T TAT TAT TAT TAT TACCT T-T TAT TAT TAT TCT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA--T TAT TAT TAT TAT TAT TAT TAT
1538400 T
1 T
1538401 TATATAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 4 0.11
3 31 0.84
5 2 0.05
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1538402 original size:19 final size:19
Alignment explanation
Indices: 1538355--1538403 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
1538345 TTATTTGCAA
1538355 TATTATTTTATTATTATTAT
1 TATTA-TTTATTATTATTAT
* *
1538375 TACCT-TTTATTATTATTCT
1 TA-TTATTTATTATTATTAT
1538394 TATTATTTAT
1 TATTATTTAT
1538404 ATAAATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
18 1 0.04
19 20 0.83
20 2 0.08
21 1 0.04
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTATTTATTATTATTAT
Found at i:1538424 original size:18 final size:16
Alignment explanation
Indices: 1538401--1538435 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1538391 TCTTATTATT
1538401 TATATA-AATAAATATA
1 TATATATAATAAATA-A
1538417 TATATATAATAAATAA
1 TATATATAATAAATAA
1538433 TAT
1 TAT
1538436 TTGTTTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TATATATAATAAATAA
Found at i:1538620 original size:20 final size:19
Alignment explanation
Indices: 1538595--1538636 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
1538585 TTATTTTATA
1538595 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
1538615 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
1538634 AAT
1 AAT
1538637 ATCAAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:1540570 original size:27 final size:29
Alignment explanation
Indices: 1540512--1540570 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
1540502 ATTTCTGTAC
*
1540512 TTATTAAAAACATATATGGTTAGTGTTTA
1 TTATTAAAAACATATATGGTTAGTGTTGA
* * *
1540541 TTATTTAAAATATATAT-TTTAG-GTTGA
1 TTATTAAAAACATATATGGTTAGTGTTGA
1540568 TTA
1 TTA
1540571 ATCAATATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 7 0.27
28 4 0.15
29 15 0.58
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (29 bp):
TTATTAAAAACATATATGGTTAGTGTTGA
Found at i:1542945 original size:27 final size:29
Alignment explanation
Indices: 1542887--1542945 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
1542877 ATTTCTGGAC
*
1542887 TTATTAAAAACATATATGGTTAGTGTTTA
1 TTATTAAAAACATATATGGTTAGTGTTGA
* * *
1542916 TTATTTAAAATATATAT-TTTAG-GTTGA
1 TTATTAAAAACATATATGGTTAGTGTTGA
1542943 TTA
1 TTA
1542946 ATCAATATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 7 0.27
28 4 0.15
29 15 0.58
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (29 bp):
TTATTAAAAACATATATGGTTAGTGTTGA
Found at i:1546721 original size:29 final size:29
Alignment explanation
Indices: 1546685--1546809 Score: 98
Period size: 29 Copynumber: 4.4 Consensus size: 29
1546675 CATTTTACAC
1546685 AAATAGCACCCTTTTTAAAATAATTACCA
1 AAATAGCACCCTTTTTAAAATAATTACCA
**
1546714 AAATAGCACCC-TTTTCGAATGAATT-CTCA
1 AAATAGCACCCTTTTTAAAAT-AATTAC-CA
** * * *
1546743 AAATAGCACCAATTTCAAATTAATTCCCA
1 AAATAGCACCCTTTTTAAAATAATTACCA
* * *
1546772 TAATATCA--ATTTTTCAAAA-AATTACCA
1 AAATAGCACCCTTTTT-AAAATAATTACCA
1546799 AAATAGCACCC
1 AAATAGCACCC
1546810 ATTTCGAATT
Statistics
Matches: 73, Mismatches: 16, Indels: 14
0.71 0.16 0.14
Matches are distributed among these distances:
27 17 0.23
28 11 0.15
29 39 0.53
30 6 0.08
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.30
Consensus pattern (29 bp):
AAATAGCACCCTTTTTAAAATAATTACCA
Found at i:1546832 original size:29 final size:29
Alignment explanation
Indices: 1546715--1546895 Score: 129
Period size: 29 Copynumber: 6.3 Consensus size: 29
1546705 TAATTACCAA
** * *
1546715 AATAGCACCCTTTTCGAATGAATTCTCAA
1 AATAGCACCAATTTCGAATTAATTCTCAG
* * *
1546744 AATAGCACCAATTTCAAATTAATTCCCAT
1 AATAGCACCAATTTCGAATTAATTCTCAG
* * ** *
1546773 AATATCA--ATTTTTC-AAAAAATTAC-CAA
1 AATAGCACCA-ATTTCGAATTAATT-CTCAG
*
1546800 AATAGCACCCATTTCGAATTAATTCTCAG
1 AATAGCACCAATTTCGAATTAATTCTCAG
**
1546829 AATAGCACCGAA-ACCGAATTAATTCTCAG
1 AATAGCACC-AATTTCGAATTAATTCTCAG
*** *
1546858 AATAGCACCAAAACCAAATTAATTCTCAG
1 AATAGCACCAATTTCGAATTAATTCTCAG
1546887 AATAGCACC
1 AATAGCACC
1546896 GGTCAACGGT
Statistics
Matches: 123, Mismatches: 21, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
27 15 0.12
28 12 0.10
29 95 0.77
30 1 0.01
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (29 bp):
AATAGCACCAATTTCGAATTAATTCTCAG
Found at i:1546849 original size:85 final size:85
Alignment explanation
Indices: 1546696--1546853 Score: 230
Period size: 85 Copynumber: 1.9 Consensus size: 85
1546686 AATAGCACCC
* **
1546696 TTTTTAAAATAATTACCAAAATAGCACCCTTTTCGAATGAATTCTCAAAATAGCACCAATTTCAA
1 TTTTTAAAATAATTACCAAAATAGCACCCATTTCGAATGAATTCTCAAAATAGCACCAATACCAA
1546761 ATTAATTCCCATAATATCAA
66 ATTAATTCCCATAATATCAA
* *
1546781 TTTTTCAAAA-AATTACCAAAATAGCACCCATTTCGAATTAATTCTCAGAATAGCACCGAA-ACC
1 TTTTT-AAAATAATTACCAAAATAGCACCCATTTCGAATGAATTCTCAAAATAGCACC-AATACC
*
1546844 GAATTAATTC
64 AAATTAATTC
1546854 TCAGAATAGC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
85 59 0.91
86 6 0.09
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (85 bp):
TTTTTAAAATAATTACCAAAATAGCACCCATTTCGAATGAATTCTCAAAATAGCACCAATACCAA
ATTAATTCCCATAATATCAA
Found at i:1546937 original size:18 final size:18
Alignment explanation
Indices: 1546903--1546949 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
1546893 ACCGGTCAAC
1546903 GGTCAAC-GGTCGAGTCG
1 GGTCAACGGGTCGAGTCG
*
1546920 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGAGTCG
*
1546938 AGTCAACGGGTC
1 GGTCAACGGGTC
1546950 ATGACCGGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 7 0.26
18 20 0.74
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (18 bp):
GGTCAACGGGTCGAGTCG
Found at i:1554063 original size:29 final size:29
Alignment explanation
Indices: 1554031--1554165 Score: 118
Period size: 29 Copynumber: 4.8 Consensus size: 29
1554021 TTTACACAAG
*
1554031 TAGCACCCTTTTTAAAATAATTACCAAAA
1 TAGCACCCTTTTCAAAATAATTACCAAAA
* *
1554060 TAGCACCCTTTTCGAATTAATT-CTCAAAA
1 TAGCACCCTTTTCAAAATAATTAC-CAAAA
* * *
1554089 TAGCACCAATTTT-AAATTAATTCCCAAAA
1 TAGCACC-CTTTTCAAAATAATTACCAAAA
* *
1554118 TATCA--CTTTTCGAAA-AATTACCAAAA
1 TAGCACCCTTTTCAAAATAATTACCAAAA
* * *
1554144 TAGCACCCATTTCGAATTAATT
1 TAGCACCCTTTTCAAAATAATT
1554166 CTCAGAATAG
Statistics
Matches: 86, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
26 18 0.21
27 2 0.02
28 9 0.10
29 52 0.60
30 5 0.06
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.33
Consensus pattern (29 bp):
TAGCACCCTTTTCAAAATAATTACCAAAA
Found at i:1554162 original size:55 final size:57
Alignment explanation
Indices: 1554048--1554175 Score: 145
Period size: 55 Copynumber: 2.3 Consensus size: 57
1554038 CTTTTTAAAA
* * *
1554048 TAATTACCAAAATAGCACCCTTTTCGAATTAATTCTCAAAATAGCACCAATTTTAAAT
1 TAATTCCCAAAATAGCA-CCTTTTCGAATAAATTCTCAAAATAGCACCAATTTCAAAT
* * *
1554106 TAATTCCCAAAATATCA-CTTTTCGAA-AAATTAC-CAAAATAGCACCCATTTCGAAT
1 TAATTCCCAAAATAGCACCTTTTCGAATAAATT-CTCAAAATAGCACCAATTTCAAAT
* *
1554161 TAATTCTCAGAATAG
1 TAATTCCCAAAATAG
1554176 TACCAGAACC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
55 35 0.58
56 10 0.17
58 15 0.25
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.31
Consensus pattern (57 bp):
TAATTCCCAAAATAGCACCTTTTCGAATAAATTCTCAAAATAGCACCAATTTCAAAT
Found at i:1554174 original size:29 final size:29
Alignment explanation
Indices: 1554055--1554208 Score: 129
Period size: 29 Copynumber: 5.4 Consensus size: 29
1554045 AAATAATTAC
*
1554055 CAAAATAGCACCCTTTTCGAATTAATTCT
1 CAAAATAGCACCCATTTCGAATTAATTCT
* ** *
1554084 CAAAATAGCACCAATTTTAAATTAATTCC
1 CAAAATAGCACCCATTTCGAATTAATTCT
* * *
1554113 CAAAATATCA--CTTTTCGAA-AAATTAC-
1 CAAAATAGCACCCATTTCGAATTAATT-CT
1554139 CAAAATAGCACCCATTTCGAATTAATTCT
1 CAAAATAGCACCCATTTCGAATTAATTCT
* * ***
1554168 CAGAATAGTA-CCAGAACCGAATTAATTCT
1 CAAAATAGCACCCA-TTTCGAATTAATTCT
*
1554197 CAGAATAGCACC
1 CAAAATAGCACC
1554209 GGTCAACGGT
Statistics
Matches: 98, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
26 13 0.13
27 6 0.06
28 12 0.12
29 66 0.67
30 1 0.01
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.29
Consensus pattern (29 bp):
CAAAATAGCACCCATTTCGAATTAATTCT
Found at i:1554246 original size:18 final size:18
Alignment explanation
Indices: 1554216--1554262 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
1554206 ACCGGTCAAC
1554216 GGTCAAC-GGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
1554233 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
1554251 GGTCAACGGGTC
1 GGTCAACGGGTC
1554263 ATGACCGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 7 0.24
18 22 0.76
ACGTcount: A:0.13, C:0.23, G:0.47, T:0.17
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:1555123 original size:27 final size:29
Alignment explanation
Indices: 1555065--1555123 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
1555055 ATTTTTGTAC
*
1555065 TTATTAAAAACATATATGGTTAGTGTTTA
1 TTATTAAAAACATATATGGTTAGTGTTGA
* * *
1555094 TTATTTAAAATATATAT-TTTAG-GTTGA
1 TTATTAAAAACATATATGGTTAGTGTTGA
1555121 TTA
1 TTA
1555124 ATCAATTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 7 0.27
28 4 0.15
29 15 0.58
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (29 bp):
TTATTAAAAACATATATGGTTAGTGTTGA
Found at i:1557486 original size:27 final size:29
Alignment explanation
Indices: 1557428--1557486 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
1557418 ATTTCTGTAC
*
1557428 TTATTAAAAACATATATAGTTAGTGTTTA
1 TTATTAAAAACATATATAGTTAGTGTTGA
* * *
1557457 TTATTTAAAATATATAT-TTTAG-GTTGA
1 TTATTAAAAACATATATAGTTAGTGTTGA
1557484 TTA
1 TTA
1557487 ATCAATATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 7 0.27
28 4 0.15
29 15 0.58
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (29 bp):
TTATTAAAAACATATATAGTTAGTGTTGA
Found at i:1561592 original size:560 final size:560
Alignment explanation
Indices: 1560533--1561656 Score: 2088
Period size: 560 Copynumber: 2.0 Consensus size: 560
1560523 AGTAGAAAAT
1560533 TTGTAGATCTGTTTTTTACTCAAATTGCTTCAAAAATATTATTAGAAATCCAAAATCCATAACCA
1 TTGTAGATCTGTTTTTTACTCAAATTGCTTCAAAAATATTATTAGAAATCCAAAATCCATAACCA
*
1560598 AAGCTTTGTGGTATTAAATAAATTTTAATATTGTTTTCTTTTTTACTTAATTGTATTCGCATTTT
66 AAGCTTTGTGGTATTAAATAAATATTAATATTGTTTTCTTTTTTACTTAATTGTATTCGCATTTT
1560663 TTAGTGTTTGTGGTTTGTCGTTAACATAATTGTACTTAACGCATTTTTATAGAGAATGACATTGC
131 TTAGTGTTTGTGGTTTGTCGTTAACATAATTGTACTTAACGCATTTTTATAGAGAATGACATTGC
*
1560728 TGAACCTAATTTCATGATCCAGTTAATTAATATCATAGCAATAAAAAGATGATGGATAAACGTAT
196 TGAACCTAATTTCATGATCCAGTTAATTAATATCATAACAATAAAAAGATGATGGATAAACGTAT
* *
1560793 GTTGTTAAATTATTATTATCATACAATAAATATTATTAAATGCATTTAACATGAAATGTATAACG
261 GTTGTTAAATTATTATTATCATAAAATAAATAATATTAAATGCATTTAACATGAAATGTATAACG
1560858 TTTCCTTTATTGCAACGCCTCTCATTACCATGCCTTTTAGCTCTACCTATAAATGATATTTTTCT
326 TTTCCTTTATTGCAACGCCTCTCATTACCATGCCTTTTAGCTCTACCTATAAATGATATTTTTCT
*
1560923 TGATAGCAAATCTCGTCCGAAATTAATCTTACGAGCCAAACTGAAGGAACGACACCACTCCTAGA
391 TGATAACAAATCTCGTCCGAAATTAATCTTACGAGCCAAACTGAAGGAACGACACCACTCCTAGA
1560988 CAACATGGCAAGCCTCAATACTTTTTCTTTCCTAGTGGTTTTATTCATAACGATGGGTGCGGTGA
456 CAACATGGCAAGCCTCAATACTTTTTCTTTCCTAGTGGTTTTATTCATAACGATGGGTGCGGTGA
*
1561053 TAGCTATAACCGAGAATGATCGGATAATTAAGGAGAATAA
521 TAACTATAACCGAGAATGATCGGATAATTAAGGAGAATAA
1561093 TTGTAGATCTGTTTTTTACTCAAATTGCTTCAAAAATATTATTAGAAATCCAAAATCCATAACCA
1 TTGTAGATCTGTTTTTTACTCAAATTGCTTCAAAAATATTATTAGAAATCCAAAATCCATAACCA
1561158 AAGCTTTGTGGTATTAAATAAATATTAATATTGTTTTCTTTTTTACTTAATTGTATTCGCATTTT
66 AAGCTTTGTGGTATTAAATAAATATTAATATTGTTTTCTTTTTTACTTAATTGTATTCGCATTTT
* *
1561223 TTAGTGTTTGTGGTTTTTCGTTAACATAATTGTACTTAATGCATTTTTATAGAGAATGACATTGC
131 TTAGTGTTTGTGGTTTGTCGTTAACATAATTGTACTTAACGCATTTTTATAGAGAATGACATTGC
*
1561288 TGGACCTAATTTCATGATCCAAG-TAATTAATATCATAACAATAAAAAGATGATGGATAAACGTA
196 TGAACCTAATTTCATGATCC-AGTTAATTAATATCATAACAATAAAAAGATGATGGATAAACGTA
* *
1561352 TGTTGTTAAATTTTTATTATCGTAAAATAAATAATATTAAATGCATTTAACATGAAATGTATAAC
260 TGTTGTTAAATTATTATTATCATAAAATAAATAATATTAAATGCATTTAACATGAAATGTATAAC
* *
1561417 GTTTCCTTTATTGCAACGCCTCTCATTACCATGCGTTTTAGCTCTACCTATAATTGATATTTTTC
325 GTTTCCTTTATTGCAACGCCTCTCATTACCATGCCTTTTAGCTCTACCTATAAATGATATTTTTC
1561482 TTGATAACAAATCTCGTCCGAAATTAATCTTACGAGCCAAACTGAAGGAACGACACCACTCCTAG
390 TTGATAACAAATCTCGTCCGAAATTAATCTTACGAGCCAAACTGAAGGAACGACACCACTCCTAG
* *
1561547 ACAACATGGCAAGCCTCAATACTTTTTCTTTCCTATTGGTTTTATTCATAACGATGGGTGTGGTG
455 ACAACATGGCAAGCCTCAATACTTTTTCTTTCCTAGTGGTTTTATTCATAACGATGGGTGCGGTG
*
1561612 ATAACTCTAACCGAGAATGATCGGATAATTAAGGAGAATAA
520 ATAACTATAACCGAGAATGATCGGATAATTAAGGAGAATAA
1561653 TTGT
1 TTGT
1561657 GAAGTTAAAA
Statistics
Matches: 547, Mismatches: 16, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
560 545 1.00
561 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (560 bp):
TTGTAGATCTGTTTTTTACTCAAATTGCTTCAAAAATATTATTAGAAATCCAAAATCCATAACCA
AAGCTTTGTGGTATTAAATAAATATTAATATTGTTTTCTTTTTTACTTAATTGTATTCGCATTTT
TTAGTGTTTGTGGTTTGTCGTTAACATAATTGTACTTAACGCATTTTTATAGAGAATGACATTGC
TGAACCTAATTTCATGATCCAGTTAATTAATATCATAACAATAAAAAGATGATGGATAAACGTAT
GTTGTTAAATTATTATTATCATAAAATAAATAATATTAAATGCATTTAACATGAAATGTATAACG
TTTCCTTTATTGCAACGCCTCTCATTACCATGCCTTTTAGCTCTACCTATAAATGATATTTTTCT
TGATAACAAATCTCGTCCGAAATTAATCTTACGAGCCAAACTGAAGGAACGACACCACTCCTAGA
CAACATGGCAAGCCTCAATACTTTTTCTTTCCTAGTGGTTTTATTCATAACGATGGGTGCGGTGA
TAACTATAACCGAGAATGATCGGATAATTAAGGAGAATAA
Found at i:1565183 original size:27 final size:29
Alignment explanation
Indices: 1565125--1565183 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
1565115 ATTTCTGTAC
*
1565125 TTATTAAAAACATATATGGTTAGTGTTTA
1 TTATTAAAAACATATATGGTTAGTGTTGA
* * *
1565154 TTATTTAAAATATATAT-TTTAG-GTTGA
1 TTATTAAAAACATATATGGTTAGTGTTGA
1565181 TTA
1 TTA
1565184 ATCAATATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 7 0.27
28 4 0.15
29 15 0.58
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (29 bp):
TTATTAAAAACATATATGGTTAGTGTTGA
Found at i:1569933 original size:27 final size:29
Alignment explanation
Indices: 1569875--1569933 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
1569865 ATTTCTGTAC
*
1569875 TTATTAAAAACATATATGGTTAGTGTTTA
1 TTATTAAAAACATATATGGTTAGTGTTGA
* * *
1569904 TTATTTAAAATATATAT-TTTAG-GTTGA
1 TTATTAAAAACATATATGGTTAGTGTTGA
1569931 TTA
1 TTA
1569934 ATCAATATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 7 0.27
28 4 0.15
29 15 0.58
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (29 bp):
TTATTAAAAACATATATGGTTAGTGTTGA
Found at i:1572310 original size:13 final size:13
Alignment explanation
Indices: 1572292--1572347 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
1572282 TGACCGGTCA
*
1572292 CGACCCGTTCACC
1 CGACCCGTTGACC
1572305 CGACCC---GACC
1 CGACCCGTTGACC
1572315 CGACCCGTTGACC
1 CGACCCGTTGACC
*
1572328 CGACTCGTTGACC
1 CGACCCGTTGACC
1572341 CGACCCG
1 CGACCCG
1572348 ATCGTTGACC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 9 0.24
13 28 0.76
ACGTcount: A:0.16, C:0.50, G:0.21, T:0.12
Consensus pattern (13 bp):
CGACCCGTTGACC
Found at i:1572354 original size:17 final size:18
Alignment explanation
Indices: 1572324--1572357 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1572314 CCGACCCGTT
1572324 GACCCGACTCGTTGACCC
1 GACCCGACTCGTTGACCC
1572342 GACCCGA-TCGTTGACC
1 GACCCGACTCGTTGACC
1572358 GTTGACCGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.18, C:0.41, G:0.24, T:0.18
Consensus pattern (18 bp):
GACCCGACTCGTTGACCC
Found at i:1572460 original size:29 final size:29
Alignment explanation
Indices: 1572365--1572446 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
1572355 ACCGTTGACC
1572365 GGTGCTATTCTGGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
*
1572394 GGTGCTATTATGGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
* *
1572423 GGTGTTATTCTGGTAATTAATTCG
1 GGTGCTATTCTGGTAAATAATTCG
1572447 AAATGAGTGC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.22, C:0.09, G:0.24, T:0.45
Consensus pattern (29 bp):
GGTGCTATTCTGGTAAATAATTCGGTTTT
Done.