Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 159 of 427
Found at i:43914895 original size:20 final size:20
Alignment explanation
Indices: 43914867--43914904 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
43914857 CAATGTTAAA
43914867 GTTGGGAAAGACTATGGTAT
1 GTTGGGAAAGACTATGGTAT
* *
43914887 GTTGTGAAAGATTATGGT
1 GTTGGGAAAGACTATGGT
43914905 GAGTTGCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.34, T:0.34
Consensus pattern (20 bp):
GTTGGGAAAGACTATGGTAT
Found at i:43914910 original size:20 final size:19
Alignment explanation
Indices: 43914866--43914910 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
43914856 GCAATGTTAA
43914866 AGTTGGGAAAGACTATGGT
1 AGTTGGGAAAGACTATGGT
* *
43914885 ATGTTGTGAAAGATTATGGT
1 A-GTTGGGAAAGACTATGGT
43914905 GAGTTG
1 -AGTTG
43914911 CAAGTGGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 20 0.91
21 1 0.05
ACGTcount: A:0.29, C:0.02, G:0.36, T:0.33
Consensus pattern (19 bp):
AGTTGGGAAAGACTATGGT
Found at i:43915525 original size:15 final size:15
Alignment explanation
Indices: 43915497--43915530 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
43915487 GTAATTGATG
*
43915497 TGTGGATGACTTGGT
1 TGTGGATGAATTGGT
*
43915512 TGTGGTTGAATTGGT
1 TGTGGATGAATTGGT
43915527 TGTG
1 TGTG
43915531 TGTATACGCT
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:0.12, C:0.03, G:0.41, T:0.44
Consensus pattern (15 bp):
TGTGGATGAATTGGT
Found at i:43919663 original size:28 final size:27
Alignment explanation
Indices: 43919600--43919669 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
43919590 ATAGTGAGTC
43919600 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
43919627 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
43919655 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43919670 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:43927492 original size:28 final size:27
Alignment explanation
Indices: 43927429--43927498 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
43927419 ATAGTGAGTC
43927429 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
43927456 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
43927484 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43927499 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:43932971 original size:46 final size:46
Alignment explanation
Indices: 43932921--43933096 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
43932911 TGTTTGGGCA
43932921 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*** * * * * *
43932967 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-ACG
* * *
43933014 TCTGAGCTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * **
43933060 GCCGAGCTCGTTGAGTTGAGTTTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43933097 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 69 0.67
47 34 0.33
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:43944966 original size:21 final size:20
Alignment explanation
Indices: 43944928--43944966 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
43944918 ATTACTAAGG
**
43944928 ATAAATTAGTAATTTAATAA
1 ATAAATTAGTAAAATAATAA
43944948 ATAAACTTAGTAAAATAAT
1 ATAAA-TTAGTAAAATAAT
43944967 GAAAACAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (20 bp):
ATAAATTAGTAAAATAATAA
Found at i:43958190 original size:31 final size:31
Alignment explanation
Indices: 43958155--43958214 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
43958145 AAAAAAACTT
* *
43958155 AATAGCCCAATGATTTAAATAAAAACTTTTA
1 AATAGCCCAATAACTTAAATAAAAACTTTTA
** *
43958186 AATAGTTCAATAACTTAAATGAAAACTTT
1 AATAGCCCAATAACTTAAATAAAAACTTT
43958215 CGAATAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (31 bp):
AATAGCCCAATAACTTAAATAAAAACTTTTA
Found at i:43959820 original size:21 final size:21
Alignment explanation
Indices: 43959796--43959835 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
43959786 TATTTTTTCA
*
43959796 ATTTTAATATATTATTTTGGT
1 ATTTCAATATATTATTTTGGT
* *
43959817 ATTTCATTTTATTATTTTG
1 ATTTCAATATATTATTTTG
43959836 AATAATAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.03, G:0.07, T:0.65
Consensus pattern (21 bp):
ATTTCAATATATTATTTTGGT
Found at i:43959985 original size:11 final size:11
Alignment explanation
Indices: 43959971--43959996 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
43959961 CAGAAAACGG
43959971 TTTTATTTTTA
1 TTTTATTTTTA
43959982 TTTTATTTTTA
1 TTTTATTTTTA
43959993 TTTT
1 TTTT
43959997 TTTGCATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:43966205 original size:7 final size:7
Alignment explanation
Indices: 43966193--43966226 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
43966183 TGGTGCTTTG
43966193 AAATTTA
1 AAATTTA
43966200 AAATTTA
1 AAATTTA
43966207 AAATTTA
1 AAATTTA
43966214 AAATTTA
1 AAATTTA
43966221 AAATTT
1 AAATTT
43966227 TTAAAATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AAATTTA
Found at i:43972521 original size:43 final size:43
Alignment explanation
Indices: 43972456--43972624 Score: 155
Period size: 43 Copynumber: 4.0 Consensus size: 43
43972446 ATAGCTCGTA
** * ** *
43972456 CAATGCC-ATATCCTAGTTATGGTCTTGCATGTTATCACATAT
1 CAATGCCAATATCCTAGACATGGTCTTACACATAATCACATAT
* *
43972498 CAATGCCAATATCCTAGACATGGTCTTACACAAAATCATATAAT
1 CAATGCCAATATCCTAGACATGGTCTTACACATAATCACAT-AT
* * * *
43972542 -GATGCCAATGTCCCAGACATGGTCTTACACATAATTACA-AT
1 CAATGCCAATATCCTAGACATGGTCTTACACATAATCACATAT
* * **
43972583 ACAATGCAAATGTCCTAGACATGGTCTTACATGTAATCACAT
1 -CAATGCCAATATCCTAGACATGGTCTTACACATAATCACAT
43972625 CTTGGTAATC
Statistics
Matches: 102, Mismatches: 20, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
41 2 0.02
42 7 0.07
43 91 0.89
44 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.30
Consensus pattern (43 bp):
CAATGCCAATATCCTAGACATGGTCTTACACATAATCACATAT
Found at i:43974165 original size:2 final size:2
Alignment explanation
Indices: 43974158--43974192 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
43974148 GTTGTTAATG
43974158 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43974193 GATTATAAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:43974397 original size:222 final size:222
Alignment explanation
Indices: 43973971--43974399 Score: 808
Period size: 220 Copynumber: 1.9 Consensus size: 222
43973961 TATTAAAAGG
43973971 GATTATAAGCTTAAGTGGATTAATTAAATGAAAAATATTAATTGATCAAGGAACGAAATAATTGG
1 GATTATAAGCTTAAGTGGATTAATTAAATGAAAAATATTAATTGATCAAGGAACGAAATAATTGG
43974036 ACTTCGATCATGGAAAAGCTAAATTATCAGATTAGTCGTTGGCCTTGTTTTTGCAACCGTTTTTG
66 ACTTCGATCATGGAAAAGCTAAATTATCAGATTAGTCGTTGGCCTTGTTTTTGCAACCGTTTTTG
* *
43974101 TTTAGTAAGTTCGTAACGTTATCTTTGGTTATAATTCATTAGTAGATGTTGTTAATGATATATAT
131 TTTAGTAAGTTCGTAACATTATCTTTGGTTATAATTCATTAGTAGATGTTGTCAATGATATATAT
43974166 ATATATATATATATATATATATATATA
196 ATATATATATATATATATATATATATA
*
43974193 GATTATAAGCTTAAGTGGATTAATTGAATGAAAAATATTAATTGATCAA-GAACGAAATAATTGG
1 GATTATAAGCTTAAGTGGATTAATTAAATGAAAAATATTAATTGATCAAGGAACGAAATAATTGG
43974257 ACTTCGATCATGGAAAAGCTAAATTATCA-ATTAGTCGTTGGCCTTGTTTTTGCAACCGTTTTTG
66 ACTTCGATCATGGAAAAGCTAAATTATCAGATTAGTCGTTGGCCTTGTTTTTGCAACCGTTTTTG
*
43974321 TTTAGTAAGTTCGTAACATTATCTTTGGTTATAATTCATTAGTAGATGTTGTCAATGATGTATAT
131 TTTAGTAAGTTCGTAACATTATCTTTGGTTATAATTCATTAGTAGATGTTGTCAATGATATATAT
43974386 ATATATATATATAT
196 ATATATATATATAT
43974400 TTAACACTGA
Statistics
Matches: 203, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
220 111 0.55
221 44 0.22
222 48 0.24
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.40
Consensus pattern (222 bp):
GATTATAAGCTTAAGTGGATTAATTAAATGAAAAATATTAATTGATCAAGGAACGAAATAATTGG
ACTTCGATCATGGAAAAGCTAAATTATCAGATTAGTCGTTGGCCTTGTTTTTGCAACCGTTTTTG
TTTAGTAAGTTCGTAACATTATCTTTGGTTATAATTCATTAGTAGATGTTGTCAATGATATATAT
ATATATATATATATATATATATATATA
Found at i:43974623 original size:37 final size:37
Alignment explanation
Indices: 43974563--43974654 Score: 121
Period size: 37 Copynumber: 2.5 Consensus size: 37
43974553 GTGACTCAGA
* * * *
43974563 TTTAGCCTGAACTGGTAATCCATTTTCGTTTTAAAGG
1 TTTAACCTGGACTGGTAATCCATTGTCATTTTAAAGG
* *
43974600 TTTAACTTGGACTGGTAATCCATTGTCATTTTAAATG
1 TTTAACCTGGACTGGTAATCCATTGTCATTTTAAAGG
*
43974637 TTTAGCCTGGACTGGTAA
1 TTTAACCTGGACTGGTAA
43974655 CCTTACATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (37 bp):
TTTAACCTGGACTGGTAATCCATTGTCATTTTAAAGG
Found at i:43977657 original size:31 final size:30
Alignment explanation
Indices: 43977617--43977675 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
43977607 CCACCTATTT
*
43977617 ATAACTAAAA-AATATTTAGATTTATTAAAAA
1 ATAACTAAAATAAT-TTTAAATTT-TTAAAAA
*
43977648 ATAATTAAAATAATTTTAAATTTTTAAA
1 ATAACTAAAATAATTTTAAATTTTTAAA
43977676 TTTCTTCTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 5 0.20
31 17 0.68
32 3 0.12
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (30 bp):
ATAACTAAAATAATTTTAAATTTTTAAAAA
Found at i:43978832 original size:47 final size:47
Alignment explanation
Indices: 43978761--43979359 Score: 1027
Period size: 47 Copynumber: 12.7 Consensus size: 47
43978751 CCCTTCGGGA
* * * * * *
43978761 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
43978808 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43978855 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43978902 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43978949 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43978996 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43979043 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43979090 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43979137 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43979186 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43979235 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43979282 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43979329 CTTATCTCATATATACACATTCACATTCATC
1 CTTATCACATATATACACTTTCACATTCATC
43979360 GCATAAAATC
Statistics
Matches: 533, Mismatches: 17, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 439 0.82
49 94 0.18
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43978839 original size:25 final size:25
Alignment explanation
Indices: 43978811--43978889 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
43978801 ACTCGGCCCT
43978811 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
43978836 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
43978858 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
43978883 ATCACAT
1 ATCACAT
43978890 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:43982359 original size:21 final size:21
Alignment explanation
Indices: 43982334--43982373 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
43982324 AATTTAGCCC
*
43982334 ATTTACTCTTTTGTTAAAAGT
1 ATTTACTCTTTTGTAAAAAGT
43982355 ATTTACTCTTTTGTAAAAA
1 ATTTACTCTTTTGTAAAAA
43982374 TGTGGACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (21 bp):
ATTTACTCTTTTGTAAAAAGT
Found at i:43991596 original size:40 final size:40
Alignment explanation
Indices: 43991494--43991677 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
43991484 AAATTGAATG
* * * * *
43991494 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
43991534 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
43991574 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
43991614 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
43991654 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
43991678 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:43999712 original size:40 final size:40
Alignment explanation
Indices: 43999610--43999793 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
43999600 AAATTGAATG
* * * * *
43999610 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
43999650 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
43999690 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
43999730 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
43999770 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
43999794 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:44004904 original size:28 final size:28
Alignment explanation
Indices: 44004872--44004970 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
44004862 GCAATAAGCC
*
44004872 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
44004900 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
44004928 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
44004957 CGCACACTTAGTGC
1 CGCACACTTAGTGC
44004971 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:44012257 original size:40 final size:40
Alignment explanation
Indices: 44012183--44012328 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
44012173 CCGCACCAAG
* * * * * *
44012183 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
44012223 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
44012263 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
44012303 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
44012329 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:44012343 original size:40 final size:40
Alignment explanation
Indices: 44012215--44012366 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
44012205 ATCACGATTT
* * * * *
44012215 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
44012255 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
44012295 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
44012335 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
44012367 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:44020945 original size:28 final size:28
Alignment explanation
Indices: 44020884--44020981 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
44020874 TCACAAATTG
** * *
44020884 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
44020913 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
44020941 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
44020969 GCACTAAGTGTGC
1 GCACTAAGTGTGC
44020982 GGGCTATTGC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:44023860 original size:2 final size:2
Alignment explanation
Indices: 44023853--44023879 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
44023843 TCGATCGGAG
44023853 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
44023880 GTACGCACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44024007 original size:29 final size:29
Alignment explanation
Indices: 44023969--44024041 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
44023959 CTTCGAGCTC
44023969 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
44023998 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
44024027 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
44024042 ATCTCGTCAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:44031818 original size:2 final size:2
Alignment explanation
Indices: 44031811--44031835 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44031801 TCGATCGGAG
44031811 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
44031836 GTACGCACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44031958 original size:29 final size:29
Alignment explanation
Indices: 44031926--44031998 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
44031916 CTTCGAGCTC
44031926 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
44031955 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
44031984 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
44031999 ATCTCGTCAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:44035123 original size:110 final size:110
Alignment explanation
Indices: 44034930--44035148 Score: 429
Period size: 110 Copynumber: 2.0 Consensus size: 110
44034920 TACCGATGAT
*
44034930 TTTAAACATTTTGAGAATATGGAATGTATAGGGACTTGGTTATTTTGTTATGTGTGTCTTTATGA
1 TTTAAACATTTTGAGAATATGGAATGTATAGGGACTTGGTTATTTTGTTATGTGTATCTTTATGA
44034995 ATTTGGCCAAATGTATTGGCTTGTAATAGTCATATGCTTGTTTTA
66 ATTTGGCCAAATGTATTGGCTTGTAATAGTCATATGCTTGTTTTA
44035040 TTTAAACATTTTGAGAATATGGAATGTATAGGGACTTGGTTATTTTGTTATGTGTATCTTTATGA
1 TTTAAACATTTTGAGAATATGGAATGTATAGGGACTTGGTTATTTTGTTATGTGTATCTTTATGA
44035105 ATTTGGCCAAATGTATTGGCTTGTAATAGTCATATGCTTGTTTT
66 ATTTGGCCAAATGTATTGGCTTGTAATAGTCATATGCTTGTTTT
44035149 GGTAATTGAC
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 108 1.00
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.46
Consensus pattern (110 bp):
TTTAAACATTTTGAGAATATGGAATGTATAGGGACTTGGTTATTTTGTTATGTGTATCTTTATGA
ATTTGGCCAAATGTATTGGCTTGTAATAGTCATATGCTTGTTTTA
Found at i:44041002 original size:42 final size:43
Alignment explanation
Indices: 44040893--44041018 Score: 123
Period size: 42 Copynumber: 3.0 Consensus size: 43
44040883 CTCGTACAAC
* * * * *
44040893 GCCAACGTCCTAGACGTGGTCTTACATGTAGTCAAATATTGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCGAT
* *
44040936 GCC-ACTATCCCATACAG-GGTCTTACACGAAATCAAATA-CGAT
1 GCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCAAATATCGAT
* * *
44040978 GCCAACGTCCCAGACGTGGCCTTACACGAAAACACATATCG
1 GCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
44041019 GATCCTATGT
Statistics
Matches: 66, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
41 1 0.02
42 33 0.50
43 31 0.47
44 1 0.02
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (43 bp):
GCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCGAT
Found at i:44047159 original size:20 final size:20
Alignment explanation
Indices: 44047134--44047247 Score: 84
Period size: 20 Copynumber: 5.7 Consensus size: 20
44047124 TACTTGCAAA
** *
44047134 TTGTCTACAATTTTGGTGGC
1 TTGTCTACAATACTGGTAGC
44047154 TTGTCTACAATACTGGTAGC
1 TTGTCTACAATACTGGTAGC
* * * **
44047174 TTGTCTATATTACTGGCAAT
1 TTGTCTACAATACTGGTAGC
* * * *
44047194 TTATCTGCATTACTGGTGGC
1 TTGTCTACAATACTGGTAGC
* * * *
44047214 TTGTCCATATTACCGGTAGC
1 TTGTCTACAATACTGGTAGC
44047234 TTGTCTACAATACT
1 TTGTCTACAATACT
44047248 AGTGGCATGT
Statistics
Matches: 69, Mismatches: 25, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 69 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (20 bp):
TTGTCTACAATACTGGTAGC
Found at i:44047253 original size:40 final size:40
Alignment explanation
Indices: 44047147--44047300 Score: 121
Period size: 40 Copynumber: 3.9 Consensus size: 40
44047137 TCTACAATTT
* * * * *
44047147 TGGTGGCTTGTCTACAATACTGGTAGCTTGTCTATATTAC
1 TGGTAGCTTATCTACAATACTAGTGGCTTGTCCATATTAC
* ** * * *
44047187 TGGCAATTTATCTGCATTACTGGTGGCTTGTCCATATTAC
1 TGGTAGCTTATCTACAATACTAGTGGCTTGTCCATATTAC
* * * * *
44047227 CGGTAGCTTGTCTACAATACTAGTGGCATGTCCACATTTC
1 TGGTAGCTTATCTACAATACTAGTGGCTTGTCCATATTAC
* * *
44047267 TGGTAGTTTATCTGCATTACTTA-TGGCTTGTCCA
1 TGGTAGCTTATCTACAATAC-TAGTGGCTTGTCCA
44047301 CAAACTGGTG
Statistics
Matches: 87, Mismatches: 26, Indels: 2
0.76 0.23 0.02
Matches are distributed among these distances:
40 85 0.98
41 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (40 bp):
TGGTAGCTTATCTACAATACTAGTGGCTTGTCCATATTAC
Found at i:44047277 original size:80 final size:80
Alignment explanation
Indices: 44047152--44047300 Score: 208
Period size: 80 Copynumber: 1.9 Consensus size: 80
44047142 AATTTTGGTG
* * * * *
44047152 GCTTGTCTACAATACTGGTAGCTTGTCTATATTACTGGCAATTTATCTGCATTACTGGTGGCTTG
1 GCTTGTCTACAATACTAGTAGCATGTCCACATTACTGGCAATTTATCTGCATTACTGATGGCTTG
44047217 TCCATATTACCGGTA
66 TCCATATTACCGGTA
* * * * *
44047232 GCTTGTCTACAATACTAGTGGCATGTCCACATTTCTGGTAGTTTATCTGCATTACTTATGGCTTG
1 GCTTGTCTACAATACTAGTAGCATGTCCACATTACTGGCAATTTATCTGCATTACTGATGGCTTG
44047297 TCCA
66 TCCA
44047301 CAAACTGGTG
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 59 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (80 bp):
GCTTGTCTACAATACTAGTAGCATGTCCACATTACTGGCAATTTATCTGCATTACTGATGGCTTG
TCCATATTACCGGTA
Found at i:44048939 original size:42 final size:42
Alignment explanation
Indices: 44048880--44049075 Score: 243
Period size: 42 Copynumber: 4.6 Consensus size: 42
44048870 TGAGGTTACA
*
44048880 TGTAAGACCATATCTGGGATATGTCATCGAGATGAGACTTTG
1 TGTAAGACCATATCTGGGATATGGCATCGAGATGAGACTTTG
*
44048922 TGTAAGACCATATCTGGGATATGGCATTG-GTATGAGACTTTG
1 TGTAAGACCATATCTGGGATATGGCATCGAG-ATGAGACTTTG
* * * * *
44048964 TGTAAGACCATAGCTAGGATATGGCATCGATATGGGACTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGAGATGAGACTTTG
* * * * *
44049006 TGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGA-TTTCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGAGATGAGACTTT-G
44049049 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
44049076 TGGTATGATA
Statistics
Matches: 134, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.01
42 100 0.75
43 33 0.25
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGAGATGAGACTTTG
Found at i:44049700 original size:29 final size:29
Alignment explanation
Indices: 44049658--44049714 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
44049648 GTTGTTAAAG
*
44049658 TAAACATTGTGACTAATTAAAATTATAAC
1 TAAACATTGTGACTAATTAAAACTATAAC
44049687 TAAACATTGTGACTAATTAAAACTATAA
1 TAAACATTGTGACTAATTAAAACTATAA
44049715 TTGTGAGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (29 bp):
TAAACATTGTGACTAATTAAAACTATAAC
Found at i:44049720 original size:22 final size:23
Alignment explanation
Indices: 44049678--44049720 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
44049668 GACTAATTAA
*
44049678 AATTATAACTAAACATTGTGACT
1 AATTAAAACTAAACATTGTGACT
*
44049701 AATTAAAACTATA-ATTGTGA
1 AATTAAAACTAAACATTGTGA
44049721 GATTTATAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (23 bp):
AATTAAAACTAAACATTGTGACT
Found at i:44056057 original size:19 final size:18
Alignment explanation
Indices: 44056029--44056068 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
44056019 ATGAAATTTT
44056029 AATTAGTATTATGAGATAA
1 AATTAGTATTATGAGA-AA
* *
44056048 AATTATTATTATTAGAAA
1 AATTAGTATTATGAGAAA
44056066 AAT
1 AAT
44056069 ATTCTGTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (18 bp):
AATTAGTATTATGAGAAA
Found at i:44058491 original size:25 final size:25
Alignment explanation
Indices: 44058462--44058509 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
44058452 TTATAACATG
* * *
44058462 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
44058487 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
44058510 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:44058576 original size:20 final size:20
Alignment explanation
Indices: 44058553--44058609 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
44058543 TAAACATGGT
44058553 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
44058573 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
44058593 ATGTATGATATGCACAT
1 ATGTATGATATGCACAT
44058610 AATGTATTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:44058593 original size:11 final size:11
Alignment explanation
Indices: 44058557--44058609 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
44058547 CATGGTATGT
44058557 ATGATATGCAC
1 ATGATATGCAC
* *
44058568 ATGACATG--T
1 ATGATATGCAC
44058577 ATGATATGCAC
1 ATGATATGCAC
*
44058588 ATGATATG--T
1 ATGATATGCAC
44058597 ATGATATGCAC
1 ATGATATGCAC
44058608 AT
1 AT
44058610 AATGTATTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.47
11 17 0.53
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:44058719 original size:25 final size:23
Alignment explanation
Indices: 44058663--44058759 Score: 151
Period size: 23 Copynumber: 4.1 Consensus size: 23
44058653 AGAAAGTGCA
44058663 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
44058686 AAAGGGCTTATGCCCCAATTATGAT
1 AAAGGGCTTATGCCCCAGTTAT--T
44058711 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
44058734 ACAAGGGCTT-TGCCCCAGTTATT
1 A-AAGGGCTTATGCCCCAGTTATT
44058757 AAA
1 AAA
44058760 AGAGGCTAGG
Statistics
Matches: 69, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
22 2 0.03
23 37 0.54
24 8 0.12
25 22 0.32
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:44058734 original size:48 final size:47
Alignment explanation
Indices: 44058662--44058780 Score: 161
Period size: 48 Copynumber: 2.5 Consensus size: 47
44058652 GAGAAAGTGC
44058662 AAAAGGGCTTATGCCCCAGTTATTA-AAGGGCTTATGCCCCAATTATG
1 AAAAGGGCTTATGCCCCAGTTATTACAAGGGCTT-TGCCCCAATTATG
* *
44058709 ATAAAGGGCTTATGCCCCAGTTATTACAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTATGCCCCAGTTATTACAAGGGCTTTGCCCCAATTATG
*
44058757 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
44058781 ATGATCAATC
Statistics
Matches: 65, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
47 10 0.15
48 47 0.72
49 8 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTACAAGGGCTTTGCCCCAATTATG
Found at i:44058776 original size:25 final size:23
Alignment explanation
Indices: 44058662--44058780 Score: 105
Period size: 23 Copynumber: 5.0 Consensus size: 23
44058652 GAGAAAGTGC
*
44058662 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGC-TAGGCCCCAGTTATT
* * *
44058686 -AAAGGGCTTATGCCCCAATTATG
1 AAAAGGGC-TAGGCCCCAGTTATT
*
44058709 ATAAAGGGCTTATGCCCCAGTTATT
1 A-AAAGGGC-TAGGCCCCAGTTATT
* **
44058734 ACAAGGGCTTTGCCCCAGTTATT
1 AAAAGGGCTAGGCCCCAGTTATT
44058757 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTAGGCC-CCAGTTAT
44058781 ATGATCAATC
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
23 39 0.48
24 13 0.16
25 30 0.37
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTAGGCCCCAGTTATT
Found at i:44061038 original size:17 final size:19
Alignment explanation
Indices: 44060996--44061039 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
44060986 ATAAAATTTT
*
44060996 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
44061015 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
44061033 AA-TATTA
1 AATTATTA
44061040 CTGTAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:44063463 original size:20 final size:20
Alignment explanation
Indices: 44063440--44063496 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
44063430 TAAACATGGT
44063440 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
44063460 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
44063480 ATGTATGATATGCACAT
1 ATGTATGATATGCACAT
44063497 AATGTATTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:44063480 original size:11 final size:11
Alignment explanation
Indices: 44063444--44063496 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
44063434 CATGGTATGT
44063444 ATGATATGCAC
1 ATGATATGCAC
* *
44063455 ATGACATG--T
1 ATGATATGCAC
44063464 ATGATATGCAC
1 ATGATATGCAC
*
44063475 ATGATATG--T
1 ATGATATGCAC
44063484 ATGATATGCAC
1 ATGATATGCAC
44063495 AT
1 AT
44063497 AATGTATTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.47
11 17 0.53
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:44063671 original size:23 final size:24
Alignment explanation
Indices: 44063549--44063690 Score: 209
Period size: 23 Copynumber: 5.9 Consensus size: 24
44063539 GAGGAAGTGC
44063549 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
44063573 -AAAGGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATT
44063596 ATAAAGGGCTTATGCCCCAGTTATT
1 A-AAAGGGCTTATGCCCCAGTTATT
*
44063621 AAAACGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
44063645 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
44063668 AAAAGAGGC-TAGGCCTCCAGTTA
1 AAAAG-GGCTTATGCC-CCAGTTA
44063691 CATGATCAAG
Statistics
Matches: 108, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
23 41 0.38
24 37 0.34
25 30 0.28
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:44063688 original size:48 final size:48
Alignment explanation
Indices: 44063549--44063690 Score: 209
Period size: 48 Copynumber: 3.0 Consensus size: 48
44063539 GAGGAAGTGC
44063549 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATG
* *
44063596 ATAAAGGGCTTATGCCCCAGTTATTAAAACGGCTTATGCCCCAGTTATT
1 A-AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATG
*
44063645 AAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTA
1 AAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTATGCC-CCAGTTA
44063691 CATGATCAAG
Statistics
Matches: 87, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
47 23 0.26
48 42 0.48
49 22 0.25
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATG
Found at i:44063688 original size:72 final size:72
Alignment explanation
Indices: 44063549--44063690 Score: 209
Period size: 72 Copynumber: 2.0 Consensus size: 72
44063539 GAGGAAGTGC
* *
44063549 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCC
1 AAAACGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGCCCC
44063614 AGTTATT
66 AGTTATT
*
44063621 AAAACGGCTTATGCCCCAGTTATTAAAAGGGCTT-TGCCCCAGTTATTA-AAAGAGGC-TAGGCC
1 AAAACGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATGATAAAG-GGCTTAGGCC
44063683 TCCAGTTA
64 -CCAGTTA
44063691 CATGATCAAG
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
71 9 0.14
72 46 0.72
73 9 0.14
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (72 bp):
AAAACGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGCCCC
AGTTATT
Found at i:44072781 original size:15 final size:15
Alignment explanation
Indices: 44072749--44072789 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
44072739 TAGAGAGATC
44072749 AAAAGAAAAAG-AGA
1 AAAAGAAAAAGAAGA
44072763 AAAAGAAAAAGAATG-
1 AAAAGAAAAAGAA-GA
44072778 AAAAGAAAAAGA
1 AAAAGAAAAAGA
44072790 GTCGAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 11 0.44
15 13 0.52
16 1 0.04
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (15 bp):
AAAAGAAAAAGAAGA
Found at i:44072991 original size:26 final size:26
Alignment explanation
Indices: 44072956--44073005 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
44072946 TGCTTGTTGA
44072956 AAACTAACAAGACAGAAAAAACTTGG
1 AAACTAACAAGACAGAAAAAACTTGG
* * *
44072982 AAACTGACAAGATAGAAAGAACTT
1 AAACTAACAAGACAGAAAAAACTT
44073006 TTCCTTCTCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.56, C:0.14, G:0.16, T:0.14
Consensus pattern (26 bp):
AAACTAACAAGACAGAAAAAACTTGG
Found at i:44080842 original size:28 final size:28
Alignment explanation
Indices: 44080773--44080873 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
44080763 GACAAGATTG
* * * *
44080773 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
44080803 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44080831 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
44080860 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44080874 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44083704 original size:27 final size:26
Alignment explanation
Indices: 44083657--44083712 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 26
44083647 GCTGTAACTA
44083657 ATTAAATTTGTCTCTAAACTAGACAC
1 ATTAAATTTGTCTCTAAACTAGACAC
44083683 ATTAAATTGATGTC-CTAAACTAGACAC
1 ATTAAATT--TGTCTCTAAACTAGACAC
44083710 ATT
1 ATT
44083713 TAAGCTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 8 0.29
27 16 0.57
28 4 0.14
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (26 bp):
ATTAAATTTGTCTCTAAACTAGACAC
Found at i:44086849 original size:20 final size:20
Alignment explanation
Indices: 44086826--44086864 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
44086816 TTTCCACTCT
44086826 TTTTCTT-TTCTTTCTTTTTA
1 TTTTCTTCTT-TTTCTTTTTA
*
44086846 TTTTGTTCTTTTTCTTTTT
1 TTTTCTTCTTTTTCTTTTT
44086865 CTCTTCCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.82
Consensus pattern (20 bp):
TTTTCTTCTTTTTCTTTTTA
Found at i:44086864 original size:15 final size:14
Alignment explanation
Indices: 44086823--44086869 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
44086813 CTTTTTCCAC
44086823 TCTTTTTCTTTTCTT
1 TCTTTTTCTTTT-TT
* *
44086838 TCTTTTTATTTTGT
1 TCTTTTTCTTTTTT
*
44086852 TCTTTTTCTTTTTC
1 TCTTTTTCTTTTTT
44086866 TCTT
1 TCTT
44086870 CCAATGGACT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (14 bp):
TCTTTTTCTTTTTT
Found at i:44092617 original size:23 final size:24
Alignment explanation
Indices: 44092589--44092644 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
44092579 AGCCCAAATA
* *
44092589 AGCTTCCCGATA-GGCTCTTTGTG
1 AGCTTCCCGAAATGGCTCTGTGTG
44092612 AGCTTCCCGAAATGGCTCTGTGTG
1 AGCTTCCCGAAATGGCTCTGTGTG
44092636 AGCTTCCCG
1 AGCTTCCCG
44092645 TTACAAGGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 11 0.37
24 19 0.63
ACGTcount: A:0.14, C:0.29, G:0.27, T:0.30
Consensus pattern (24 bp):
AGCTTCCCGAAATGGCTCTGTGTG
Found at i:44095667 original size:41 final size:40
Alignment explanation
Indices: 44095621--44095719 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 40
44095611 CCGGGCTAAG
* * *
44095621 TCCCGAAGGCTTTTGTGCTAAGTGA-CTAAATCCGGGTCAAC
1 TCCCGAAGGCATTTGTGC-AAGTCACCAAAAT-CGGGTCAAC
* *
44095662 TCCCGAAGGCATTTGTGCAAGTCACCAAAATCGGGTTAAG
1 TCCCGAAGGCATTTGTGCAAGTCACCAAAATCGGGTCAAC
*
44095702 TCCCGAAGGCATTCGTGC
1 TCCCGAAGGCATTTGTGC
44095720 GAGTTATTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
40 29 0.57
41 22 0.43
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (40 bp):
TCCCGAAGGCATTTGTGCAAGTCACCAAAATCGGGTCAAC
Found at i:44095708 original size:40 final size:41
Alignment explanation
Indices: 44095610--44095719 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 41
44095600 TCGAATGGTG
* * * *
44095610 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCTAAGTCACAAAA
* *
44095651 TCCGGGTCAACTCCCGAAGGCATTTGTGC-AAGTCACCAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCTAAGTCA-CAAAA
*
44095692 T-CGGGTTAAGTCCCGAAGGCATTCGTGC
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC
44095720 GAGTTATTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
40 29 0.49
41 30 0.51
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (41 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCTAAGTCACAAAA
Found at i:44095784 original size:79 final size:80
Alignment explanation
Indices: 44095611--44095802 Score: 192
Period size: 79 Copynumber: 2.4 Consensus size: 80
44095601 CGAATGGTGT
* * * *
44095611 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTGACTAAATCCGGCTCAACTCCCGAAGGCATTT
44095676 GTGCAAGTCACCAAAA
65 GTGCAAGTCACCAAAA
* * * * * *
44095692 TCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGCT-AATTCCTGAAGGCAATTG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGCTCAACTCCCGAAGGC-ATT-
* *
44095756 TGTG-AA-TCACTATAA
64 TGTGCAAGTCACCAAAA
* * * *
44095771 CCGGGCTATGTCCCGAAGACAATCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
44095803 CGCTATATCC
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
79 44 0.48
80 19 0.21
81 28 0.31
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGCTCAACTCCCGAAGGCATTTG
TGCAAGTCACCAAAA
Found at i:44098932 original size:22 final size:22
Alignment explanation
Indices: 44098907--44098950 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
44098897 TAAGAAAACA
44098907 AATAAATGAAAATAACATAGCT
1 AATAAATGAAAATAACATAGCT
*
44098929 AATAAATGAAAATAAGATAGCT
1 AATAAATGAAAATAACATAGCT
44098951 TAGTTCTAGA
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:0.59, C:0.07, G:0.11, T:0.23
Consensus pattern (22 bp):
AATAAATGAAAATAACATAGCT
Found at i:44105647 original size:16 final size:17
Alignment explanation
Indices: 44105628--44105661 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
44105618 AATTTTTATA
44105628 TATTTTTTGAAT-TTTT
1 TATTTTTTGAATATTTT
44105644 TATTTTTTGAATATTTT
1 TATTTTTTGAATATTTT
44105661 T
1 T
44105662 TTATAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (17 bp):
TATTTTTTGAATATTTT
Found at i:44106531 original size:16 final size:17
Alignment explanation
Indices: 44106502--44106541 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
44106492 AGGTGAATAT
44106502 ATTTTCTAATCTTTC-A
1 ATTTTCTAATCTTTCTA
44106518 ATTATTCT-ATCTTTCTA
1 ATT-TTCTAATCTTTCTA
44106535 ATTTTCT
1 ATTTTCT
44106542 TTCGTCTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTCTAATCTTTCTA
Found at i:44106818 original size:58 final size:58
Alignment explanation
Indices: 44106749--44106926 Score: 338
Period size: 58 Copynumber: 3.1 Consensus size: 58
44106739 TATCTCTAAA
* *
44106749 TTATATGGTTGATTTAAATTGGTTTTAAATTTTAAAATATTATAATTATATTTTTAAG
1 TTATATGGTTGATTTAAATTGATTTTAAACTTTAAAATATTATAATTATATTTTTAAG
44106807 TTATATGGTTGATTTAAATTGATTTTAAACTTTAAAATATTATAATTATATTTTTAAG
1 TTATATGGTTGATTTAAATTGATTTTAAACTTTAAAATATTATAATTATATTTTTAAG
44106865 TTATATGGTTGATTTAAATTGATTTTAAACTTTAAAATATTATAATTATATTTTTAAG
1 TTATATGGTTGATTTAAATTGATTTTAAACTTTAAAATATTATAATTATATTTTTAAG
44106923 TTAT
1 TTAT
44106927 TGATGTTATA
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 118 1.00
ACGTcount: A:0.37, C:0.01, G:0.09, T:0.53
Consensus pattern (58 bp):
TTATATGGTTGATTTAAATTGATTTTAAACTTTAAAATATTATAATTATATTTTTAAG
Found at i:44108600 original size:9 final size:9
Alignment explanation
Indices: 44108586--44108610 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
44108576 GAGACCTTCG
44108586 TTGTTATAT
1 TTGTTATAT
44108595 TTGTTATAT
1 TTGTTATAT
44108604 TTGTTAT
1 TTGTTAT
44108611 GGGGGATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (9 bp):
TTGTTATAT
Found at i:44111505 original size:40 final size:39
Alignment explanation
Indices: 44111447--44111639 Score: 140
Period size: 40 Copynumber: 4.8 Consensus size: 39
44111437 GGATATAGCG
* * * *
44111447 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTG
1 ACTCGCACAATTGCCTTCGGGACATAGCCCGGTT-TAGTA
* *
44111487 ATTCGCACAATTGCCTTCGGGA-ATTAGCCCGGATTTAATA
1 ACTCGCACAATTGCCTTCGGGACA-TAGCCCGG-TTTAGTA
* * *
44111527 ACTCGCACGAA-TGCCTTCGGGACTTAACCCGGTTTTGGTA
1 ACTCGCAC-AATTGCCTTCGGGACATAGCCCGG-TTTAGTA
* * * *
44111567 ACTCGCACAAATGCCTTCGGGA-GTTGACCCGGATTTAGTC
1 ACTCGCACAATTGCCTTCGGGACATAG-CCCGG-TTTAGTA
* ** *
44111607 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACAATTGCCTTCGGGACATAGCCCGG
44111640 ACACCATTCG
Statistics
Matches: 123, Mismatches: 22, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
39 4 0.03
40 90 0.73
41 27 0.22
42 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
ACTCGCACAATTGCCTTCGGGACATAGCCCGGTTTAGTA
Found at i:44111559 original size:80 final size:80
Alignment explanation
Indices: 44111447--44111639 Score: 217
Period size: 80 Copynumber: 2.4 Consensus size: 80
44111437 GGATATAGCG
* * * * * * *
44111447 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
44111512 -AGCCCGGATTTAATA
66 GA-CCCGGATTTAATA
* * * *
44111527 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAGTT
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
* *
44111592 GACCCGGATTTAGTC
66 GACCCGGATTTAATA
* * *
44111607 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACGAATGCCTTCGGGACTTAGCCCGG
44111640 ACACCATTCG
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
80 67 0.71
81 27 0.29
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
GACCCGGATTTAATA
Found at i:44111628 original size:41 final size:39
Alignment explanation
Indices: 44111489--44111640 Score: 160
Period size: 40 Copynumber: 3.8 Consensus size: 39
44111479 TTATAGTGAT
* *
44111489 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAATAAC
1 TCGCACAAATGCCTTCGGGAATTA-CCCGGATTTAGTAAC
* * * *
44111529 TCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
* *
44111569 TCGCACAAATGCCTTCGGGAGTTGACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
* * *
44111609 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGGAATTA-CCCGGA
44111641 CACCATTCGA
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
40 67 0.71
41 27 0.29
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
TCGCACAAATGCCTTCGGGAATTACCCGGATTTAGTAAC
Found at i:44119343 original size:29 final size:29
Alignment explanation
Indices: 44119311--44119383 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
44119301 CTTCGAGCTC
*
44119311 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
44119340 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
44119369 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
44119384 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:44122812 original size:41 final size:40
Alignment explanation
Indices: 44122767--44122919 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
44122757 TTATAGTGAT
* * *
44122767 TCGCACAATTGCCATTCGGGAATTAGCCCGGATTTAATAAC
1 TCGCACAAATGCC-TTCGGGACTTAGCCCGGATTTAGTAAC
* * * *
44122808 TCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAAC
* *
44122848 TCGCACAAATGCCTTCGGGAGTT-GACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGACTTAG-CCCGGATTTAGTAAC
* *
44122888 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGGACTTAGCCCGGA
44122920 CACCATTCGA
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
40 55 0.59
41 37 0.40
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAAC
Found at i:44122853 original size:81 final size:81
Alignment explanation
Indices: 44122767--44122918 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 81
44122757 TTATAGTGAT
* * * *
44122767 TCGCACAATTGCCATTCGGGAATT-AGCCCGGATTTAATAAC-TCGCACGAATGCCTTCGGGACT
1 TCGCACAAATGCC-TTCGGGAATTGA-CCCGGATTTAATAACTTAGCACAAAAGCCTTCGGGACT
44122830 TAACCCGGTTTTGGTAAC
64 TAACCCGGTTTTGGTAAC
* * *
44122848 TCGCACAAATGCCTTCGGGAGTTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTA
1 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAATAACTTAGCACAAAAGCCTTCGGGACTTA
*
44122913 GCCCGG
66 ACCCGG
44122919 ACACCATTCG
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 22 0.36
81 39 0.64
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (81 bp):
TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAATAACTTAGCACAAAAGCCTTCGGGACTTA
ACCCGGTTTTGGTAAC
Found at i:44127936 original size:40 final size:40
Alignment explanation
Indices: 44127881--44128088 Score: 303
Period size: 40 Copynumber: 5.2 Consensus size: 40
44127871 TGAATGATAC
* * *
44127881 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
44127921 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
44127961 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
44128001 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
44128041 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
44128081 CC-GGCTAA
1 CCGGGCTAA
44128089 ATTCCGAAGA
Statistics
Matches: 154, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 5 0.03
40 147 0.95
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:44131433 original size:6 final size:6
Alignment explanation
Indices: 44131403--44131564 Score: 91
Period size: 6 Copynumber: 26.3 Consensus size: 6
44131393 AAGAAACATT
* * * *
44131403 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAAA ATCAAA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
44131450 ATGACAGA ATCAAA ATCAAA ATCAGA ATCAGA ATCAGT ATGAGGTA A-CAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * * * *
44131501 ATCAGA ATCAGA ATTACGTA A-CATA ATCAGA ATTAGT ATCAGGTA A-CAAA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
44131551 ATCAGA ATCAGA AT
1 ATCAGA ATCAGA AT
44131565 GTGAATGCAA
Statistics
Matches: 120, Mismatches: 22, Indels: 28
0.71 0.13 0.16
Matches are distributed among these distances:
5 9 0.08
6 94 0.78
7 11 0.09
8 6 0.05
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:44131500 original size:43 final size:43
Alignment explanation
Indices: 44131412--44131510 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 43
44131402 TATCAGAACT
* * *
44131412 AGAATCAAAATGAGAATCAGAATCAAAATCAAAATCAGATGAC
1 AGAATCAAAATCAAAATCAGAATCAAAATCAAAATCAGATAAC
* ** * *
44131455 AGAATCAAAATCAAAATCAGAATCAGAATCAGTATGAGGTAAC
1 AGAATCAAAATCAAAATCAGAATCAAAATCAAAATCAGATAAC
*
44131498 AGAATCAGAATCA
1 AGAATCAAAATCA
44131511 GAATTACGTA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.54, C:0.14, G:0.15, T:0.17
Consensus pattern (43 bp):
AGAATCAAAATCAAAATCAGAATCAAAATCAAAATCAGATAAC
Found at i:44131504 original size:25 final size:25
Alignment explanation
Indices: 44131472--44131561 Score: 117
Period size: 25 Copynumber: 3.6 Consensus size: 25
44131462 AAATCAAAAT
*
44131472 CAGAATCAGAATCAGTATGAGGTAA
1 CAGAATCAGAATCAGTATCAGGTAA
* * *
44131497 CAGAATCAGAATCAGAATTACGTAA
1 CAGAATCAGAATCAGTATCAGGTAA
* *
44131522 CATAATCAGAATTAGTATCAGGTAA
1 CAGAATCAGAATCAGTATCAGGTAA
*
44131547 CAAAATCAGAATCAG
1 CAGAATCAGAATCAG
44131562 AATGTGAATG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGTATCAGGTAA
Found at i:44131532 original size:31 final size:31
Alignment explanation
Indices: 44131463--44131542 Score: 74
Period size: 31 Copynumber: 2.6 Consensus size: 31
44131453 ACAGAATCAA
* **
44131463 AATCAAAATCAGAATCAGAATCAGTATGAGGT
1 AATCAGAATCAGAATCAGAATCAGTA-GACAT
*
44131495 AA-CAGAATCAGAATCAGAATTACGTA-ACAT
1 AATCAGAATCAGAATCAGAATCA-GTAGACAT
* *
44131525 AATCAGAATTAGTATCAG
1 AATCAGAATCAGAATCAG
44131543 GTAACAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
30 4 0.10
31 31 0.77
32 5 0.12
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.23
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGAATCAGTAGACAT
Found at i:44131731 original size:27 final size:26
Alignment explanation
Indices: 44131683--44131742 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
44131673 AGGAGGCTGC
*
44131683 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
44131710 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
44131736 CAGATAT
1 CAGATAT
44131743 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:44132107 original size:27 final size:26
Alignment explanation
Indices: 44132081--44132247 Score: 163
Period size: 27 Copynumber: 6.2 Consensus size: 26
44132071 TAAAATGGTA
* *
44132081 ATTTTACCCCACAAGGGTATCTCGGT
1 ATTTTACCCTACAAGGGTATTTCGGT
* * * * **
44132107 AATTCTATCCTATAGGGGTATTTTAGT
1 -ATTTTACCCTACAAGGGTATTTCGGT
*
44132134 ATTTCTACCCTACAGGGGTATTTCGGT
1 ATTT-TACCCTACAAGGGTATTTCGGT
*
44132161 ATTTCTACCCTACAAGGGTATTTTGGT
1 ATTT-TACCCTACAAGGGTATTTCGGT
* *
44132188 ATTTCTACCCTATAAAGGTATTTCGGT
1 ATTT-TACCCTACAAGGGTATTTCGGT
*
44132215 ATTTTAACCTTACAAGGGTATTTCGGT
1 ATTTT-ACCCTACAAGGGTATTTCGGT
44132242 AATTTT
1 -ATTTT
44132248 GTAAATCGAG
Statistics
Matches: 116, Mismatches: 21, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
26 4 0.03
27 107 0.92
28 5 0.04
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (26 bp):
ATTTTACCCTACAAGGGTATTTCGGT
Found at i:44132143 original size:54 final size:54
Alignment explanation
Indices: 44132081--44132237 Score: 183
Period size: 54 Copynumber: 2.9 Consensus size: 54
44132071 TAAAATGGTA
* * * * *
44132081 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTATCCTATAGGGGTATTTTAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAGT
* * *
44132134 ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAGT
* * * *
44132188 ATTTCTACCCTATAAAGGTATTTCGGT-ATTTTAACCTTACAAGGGTATTT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCT-ACCCTACAAGGGTATTT
44132238 CGGTAATTTT
Statistics
Matches: 88, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
53 7 0.08
54 81 0.92
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAGT
Found at i:44132201 original size:81 final size:80
Alignment explanation
Indices: 44132081--44132247 Score: 201
Period size: 81 Copynumber: 2.1 Consensus size: 80
44132071 TAAAATGGTA
* ** *
44132081 ATTTTACCCCACAAGGGTATCTCGGTAATTCTATCCTATAGGGGTATTTTAGTATTTCT-ACCCT
1 ATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAAAGGTATTTCAGTATTT-TAACCCT
*
44132145 ACAGGGGTATTTCGGT
65 ACAAGGGTATTTCGGT
* * * * * *
44132161 ATTTCTACCCTACAAGGGTATTTTGGTATTTCTACCCTATAAAGGTATTTCGGTATTTTAACCTT
1 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTATAAAGGTATTTCAGTATTTTAACCCT
44132226 ACAAGGGTATTTCGGT
65 ACAAGGGTATTTCGGT
44132242 AATTTT
1 -ATTTT
44132248 GTAAATCGAG
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
80 5 0.07
81 64 0.88
82 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (80 bp):
ATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAAAGGTATTTCAGTATTTTAACCCTA
CAAGGGTATTTCGGT
Found at i:44132325 original size:27 final size:27
Alignment explanation
Indices: 44132295--44132722 Score: 130
Period size: 27 Copynumber: 15.9 Consensus size: 27
44132285 GGTACTTTGG
* *
44132295 TAATTTTACAAGTTAAGGGTATTTCAA
1 TAATTTTACAAATCAAGGGTATTTCAA
** * *
44132322 TAATTTTACAGGTCGAGGGTATTACAA
1 TAATTTTACAAATCAAGGGTATTTCAA
* * ***
44132349 TAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAATCAAGGGTATTTCAA
* **
44132376 TAATTTTACAAA-CTAGGGGTATTTTGA
1 TAATTTTACAAATC-AAGGGTATTTCAA
* ** ***
44132403 TAATTTTACAAACCTGGGGTATTTTGG
1 TAATTTTACAAATCAAGGGTATTTCAA
* * **
44132430 CAATTTTACAAA-CCAGGGTATGTT-GG
1 TAATTTTACAAATCAAGGGTAT-TTCAA
* ***
44132456 TAATTTTATAAA-CAAAGGGTATTTTGG
1 TAATTTTACAAATC-AAGGGTATTTCAA
* * * * *
44132483 TGATTTTATAAACCAAGGGTATTTTAG
1 TAATTTTACAAATCAAGGGTATTTCAA
* ***
44132510 TAATTTTACAAA-CTAGGGGTATTTTGG
1 TAATTTTACAAATC-AAGGGTATTTCAA
* ***
44132537 TAATTTTACAAA-CTAGGGGTATTTTGG
1 TAATTTTACAAATC-AAGGGTATTTCAA
* * * * ***
44132564 TGATTTTATAAACCAGGGGTATTTTGG
1 TAATTTTACAAATCAAGGGTATTTCAA
* * * * *
44132591 TGATTTTATAAACCAAGGGTATTTTAG
1 TAATTTTACAAATCAAGGGTATTTCAA
** * ***
44132618 TAATTTTGTAAACCAAGGGTATTTTGG
1 TAATTTTACAAATCAAGGGTATTTCAA
* * ***
44132645 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAATCAAGGGTATTTCAA
* * * * *
44132672 TGATTTTATAAACCAAGGGTATTTTAG
1 TAATTTTACAAATCAAGGGTATTTCAA
* *
44132699 TAATTTTACAAACCAGGGGTATTT
1 TAATTTTACAAATCAAGGGTATTT
44132723 TGGTAATTTA
Statistics
Matches: 347, Mismatches: 46, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
26 24 0.07
27 320 0.92
28 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAATCAAGGGTATTTCAA
Found at i:44132738 original size:27 final size:27
Alignment explanation
Indices: 44132349--44132731 Score: 498
Period size: 27 Copynumber: 14.2 Consensus size: 27
44132339 GGTATTACAA
* *
44132349 TAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* *
44132376 TAATTTTACAAACTAGGGGTATTTTGA
1 TAATTTTACAAACCAGGGGTATTTTGG
*
44132403 TAATTTTACAAACCTGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* *
44132430 CAATTTTACAAACCA-GGGTATGTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * *
44132456 TAATTTTATAAACAAAGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * * *
44132483 TGATTTTATAAACCAAGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
44132510 TAATTTTACAAACTAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
44132537 TAATTTTACAAACTAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* *
44132564 TGATTTTATAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * * *
44132591 TGATTTTATAAACCAAGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
** *
44132618 TAATTTTGTAAACCAAGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
44132645 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * * *
44132672 TGATTTTATAAACCAAGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
44132699 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
44132726 TAATTT
1 TAATTT
44132732 AGTAAACTAA
Statistics
Matches: 314, Mismatches: 41, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 22 0.07
27 292 0.93
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAACCAGGGGTATTTTGG
Found at i:44134573 original size:20 final size:19
Alignment explanation
Indices: 44134526--44134637 Score: 70
Period size: 20 Copynumber: 5.7 Consensus size: 19
44134516 AGATCAAATG
*
44134526 AGAGAGAAAGAAAAGAATGAA
1 AGAGAAAAAGAAAAGAA--AA
*
44134547 A-ATAAAAAGAAAAGAAAA
1 AGAGAAAAAGAAAAGAAAA
* * *
44134565 ATGAGAAAAGGAGAGGAAAA
1 A-GAGAAAAAGAAAAGAAAA
*
44134585 ATGA-TAAAAGAAAATGAGAAA
1 A-GAGAAAAAGAAAA-GA-AAA
*
44134606 A-AG-AAAAGAAAAGAGAA
1 AGAGAAAAAGAAAAGAAAA
44134623 AGAAGAAAAAGAAAA
1 AG-AGAAAAAGAAAA
44134638 AGATTGTGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
17 3 0.04
18 5 0.07
19 18 0.25
20 41 0.57
21 5 0.07
ACGTcount: A:0.71, C:0.00, G:0.23, T:0.05
Consensus pattern (19 bp):
AGAGAAAAAGAAAAGAAAA
Found at i:44134600 original size:13 final size:12
Alignment explanation
Indices: 44134582--44134637 Score: 51
Period size: 14 Copynumber: 4.3 Consensus size: 12
44134572 AAGGAGAGGA
44134582 AAAATGATAAAAG
1 AAAATGA-AAAAG
44134595 AAAATGAGAAAAAG
1 AAAAT--GAAAAAG
44134609 AAAA-GAAAAGAG
1 AAAATGAAAA-AG
*
44134621 AAAGAAGAAAAAG
1 AAA-ATGAAAAAG
44134634 AAAA
1 AAAA
44134638 AGATTGTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
11 5 0.13
12 6 0.16
13 11 0.29
14 14 0.37
15 2 0.05
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (12 bp):
AAAATGAAAAAG
Found at i:44134614 original size:19 final size:20
Alignment explanation
Indices: 44134590--44134637 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
44134580 GAAAAATGAT
44134590 AAAAGAAAATGAGAAA-AAG-
1 AAAAGAAAA-GAGAAAGAAGA
44134609 AAAAGAAAAGAGAAAGAAGA
1 AAAAGAAAAGAGAAAGAAGA
44134629 AAAAGAAAA
1 AAAAGAAAA
44134638 AGATTGTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.22
19 12 0.44
20 9 0.33
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (20 bp):
AAAAGAAAAGAGAAAGAAGA
Found at i:44134617 original size:33 final size:32
Alignment explanation
Indices: 44134544--44134640 Score: 87
Period size: 33 Copynumber: 3.1 Consensus size: 32
44134534 AGAAAAGAAT
* *
44134544 GAAAATAAAA-AG-AAAAGAAAAATGAGAAAAG
1 GAAAAGAAAAGAGAAAAAG-AAAATGAGAAAAA
* *
44134575 GAGAGGAAAA-ATGATAAAAGAAAATGAGAAAAA
1 GAAAAGAAAAGA-GA-AAAAGAAAATGAGAAAAA
44134608 GAAAAGAAAAGAGAAAGAAGAAAA--AGAAAAA
1 GAAAAGAAAAGAGAAA-AAGAAAATGAGAAAAA
44134639 GA
1 GA
44134641 TTGTGAAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
31 17 0.31
32 3 0.05
33 29 0.53
34 6 0.11
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (32 bp):
GAAAAGAAAAGAGAAAAAGAAAATGAGAAAAA
Found at i:44139996 original size:36 final size:36
Alignment explanation
Indices: 44139949--44140022 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
44139939 ATATGGAATG
44139949 TATGTTTAAAAGTGTTGTAAGTTTGGTAATGCTCCA
1 TATGTTTAAAAGTGTTGTAAGTTTGGTAATGCTCCA
44139985 TATGTTTAAAAGTGTTGTAAGTTTGGTAATGCTCCA
1 TATGTTTAAAAGTGTTGTAAGTTTGGTAATGCTCCA
44140021 TA
1 TA
44140023 ACCCTATTCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (36 bp):
TATGTTTAAAAGTGTTGTAAGTTTGGTAATGCTCCA
Found at i:44140561 original size:38 final size:38
Alignment explanation
Indices: 44140530--44140605 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
44140520 ATTAGAAAAG
44140530 TAAAGTTAAAAATTTAAAAAGATTAAGAATTAAATAAA
1 TAAAGTTAAAAATTTAAAAAGATTAAGAATTAAATAAA
*
44140568 TAAAGTTAAAAATTTAAAAAGATTAAGAATAAAATAAA
1 TAAAGTTAAAAATTTAAAAAGATTAAGAATTAAATAAA
44140606 ATATTTATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (38 bp):
TAAAGTTAAAAATTTAAAAAGATTAAGAATTAAATAAA
Found at i:44140572 original size:22 final size:21
Alignment explanation
Indices: 44140545--44140606 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
44140535 TTAAAAATTT
44140545 AAAAAGATTAAGAATTAAATA
1 AAAAAGATTAAGAATTAAATA
*
44140566 AATAAAG-TTAAAAATT---T-
1 AA-AAAGATTAAGAATTAAATA
*
44140583 AAAAAGATTAAGAATAAAATA
1 AAAAAGATTAAGAATTAAATA
44140604 AAA
1 AAA
44140607 TATTTATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 12
0.68 0.06 0.26
Matches are distributed among these distances:
16 4 0.12
17 9 0.28
18 1 0.03
20 1 0.03
21 13 0.41
22 4 0.12
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (21 bp):
AAAAAGATTAAGAATTAAATA
Found at i:44140588 original size:16 final size:17
Alignment explanation
Indices: 44140531--44140593 Score: 58
Period size: 17 Copynumber: 3.5 Consensus size: 17
44140521 TTAGAAAAGT
44140531 AAAG-TTAAAAATTTAA
1 AAAGATTAAAAATTTAA
*
44140547 AAAGATTAAGAATTAAATAA
1 AAAGATTAAAAATT---TAA
44140567 ATAA-AGTTAAAAATTTAA
1 A-AAGA-TTAAAAATTTAA
44140585 AAAGATTAA
1 AAAGATTAA
44140594 GAATAAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
16 4 0.11
17 14 0.37
18 5 0.13
20 5 0.13
21 10 0.26
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (17 bp):
AAAGATTAAAAATTTAA
Found at i:44141776 original size:35 final size:35
Alignment explanation
Indices: 44141730--44141800 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
44141720 TGCCATAATA
44141730 CAATTTCTATAATTTGAGATCCATATCACTAATCT
1 CAATTTCTATAATTTGAGATCCATATCACTAATCT
44141765 CAATTTCTATAATTTGAGATCCATATCACTAATCT
1 CAATTTCTATAATTTGAGATCCATATCACTAATCT
44141800 C
1 C
44141801 CCATAATTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.39
Consensus pattern (35 bp):
CAATTTCTATAATTTGAGATCCATATCACTAATCT
Found at i:44144505 original size:20 final size:20
Alignment explanation
Indices: 44144480--44144517 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
44144470 GTTTATTCGC
*
44144480 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
44144500 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
44144518 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:44146175 original size:28 final size:28
Alignment explanation
Indices: 44146143--44146211 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
44146133 GCGTAGATCA
44146143 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
44146171 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
44146199 CGATA-TACCCCTA
1 CGAAATTACCCCTA
44146212 GGGTTTTAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:44147922 original size:23 final size:24
Alignment explanation
Indices: 44147867--44147922 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
44147857 AGCCTTGTAA
* *
44147867 CGGGAAGCTCACACAGAGCCATTT
1 CGGGAAGCTCACAAAGAGCCATAT
* *
44147891 TGGGAAGCTCATAAAGAGCC-TAT
1 CGGGAAGCTCACAAAGAGCCATAT
44147914 CGGGAAGCT
1 CGGGAAGCT
44147923 TATCCGGGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.30, C:0.23, G:0.29, T:0.18
Consensus pattern (24 bp):
CGGGAAGCTCACAAAGAGCCATAT
Found at i:44163465 original size:25 final size:24
Alignment explanation
Indices: 44163409--44163485 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 24
44163399 CTATCAAATC
*
44163409 CTGTACAT-ATATGCTCAT-ATGAG
1 CTGTAAATCATATGCTC-TCATGAG
* *
44163432 CTATGAATCGATATGCTCTCATGAG
1 CTGTAAATC-ATATGCTCTCATGAG
* *
44163457 CTGTAAATCAGTAGGCTCTCACGAG
1 CTGTAAATCA-TATGCTCTCATGAG
44163482 CTGT
1 CTGT
44163486 GGGTCAAAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
23 5 0.12
24 2 0.05
25 36 0.84
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (24 bp):
CTGTAAATCATATGCTCTCATGAG
Found at i:44165494 original size:40 final size:40
Alignment explanation
Indices: 44165428--44165578 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
44165418 AAATTGAATG
* * *
44165428 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
44165467 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
44165507 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
44165547 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
44165579 ACATGGTTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:44165592 original size:40 final size:40
Alignment explanation
Indices: 44165465--44165594 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
44165455 ATGCTGGAAA
* * *
44165465 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
44165505 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
44165545 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
44165585 TTATATCCGG
1 TTATATCCGG
44165595 TTATATTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:44173195 original size:40 final size:40
Alignment explanation
Indices: 44173129--44173279 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
44173119 AAATTGAATG
* * *
44173129 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
44173168 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
44173208 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
44173248 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
44173280 ACATGGTTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:44173293 original size:40 final size:40
Alignment explanation
Indices: 44173166--44173295 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
44173156 ATGCTGGAAA
* * *
44173166 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
44173206 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
44173246 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
44173286 TTATATCCGG
1 TTATATCCGG
44173296 TTATATTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:44181231 original size:40 final size:39
Alignment explanation
Indices: 44181165--44181315 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
44181155 AAATTGAATG
* * *
44181165 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
* * ***
44181204 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
*
44181244 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCG-GTAATT
* *
44181284 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
44181316 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGGTAATT
Found at i:44181329 original size:40 final size:39
Alignment explanation
Indices: 44181202--44181331 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
44181192 ATGCTGGAAA
* *
44181202 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-TGG
* * * **
44181242 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
44181282 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
44181322 TTATATCCGG
1 TTATATCCGG
44181332 TTATATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:44183301 original size:16 final size:16
Alignment explanation
Indices: 44183280--44183311 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44183270 AATGTAACAC
44183280 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
*
44183296 CCCAAAAATCTCGAAA
1 CCCAAAAATCCCGAAA
44183312 TCCCGAACTT
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:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:44198365 original size:25 final size:25
Alignment explanation
Indices: 44198337--44198415 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
44198327 ACTCGGCCCT
*
44198337 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
44198362 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
44198384 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
44198409 ATCACAT
1 ATCACAT
44198416 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:44198461 original size:49 final size:49
Alignment explanation
Indices: 44198287--44198852 Score: 855
Period size: 49 Copynumber: 11.8 Consensus size: 49
44198277 CCCTTCGGGA
* * * * * * *
44198287 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
44198334 CCTATCACATATAT--ACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
44198381 CTTATCACATATATACAC-C-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
44198428 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44198477 CTTATCACATATATACACACTTTCACATTCATCAAATCAGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
44198526 CTTATCACAGATAT--ACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
44198573 CTTATCACATATATACAC-C-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44198620 CTTATCACATATATATACACTTTCCCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
44198669 CTTATCACATATATACACACTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
44198718 CTTATCACATATATACACAATTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44198767 CTTATCACATATATATACACTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44198816 CTTATCACATATATATACACATTCACATTCATCACAT
1 CTTATCACATATATACACACTTTCACATTCATCACAT
44198853 AAAATCCTAA
Statistics
Matches: 480, Mismatches: 29, Indels: 18
0.91 0.06 0.03
Matches are distributed among these distances:
47 180 0.38
48 5 0.01
49 295 0.61
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44198663 original size:192 final size:192
Alignment explanation
Indices: 44198331--44198852 Score: 900
Period size: 192 Copynumber: 2.7 Consensus size: 192
44198321 TTGGCCACTC
*
44198331 GGCCCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
*
44198396 CACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATC
66 CACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
44198461 ACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCAAATCAGCCATTA
131 ACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCAAATCAGCCATTA
*
44198523 GGCCTTATCACAGATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
*
44198588 CACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCCCATTCATC
66 CACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
* * *
44198653 ACATCGGCCATTAGGCCTTATCACATATATACACACTTTCGCATTCATCACATCGGCCATTA
131 ACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCAAATCAGCCATTA
* *
44198715 GGCCTTATCACATATATACACAATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 GGCCTTATCACATATATACAC--TTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATA
* * *
44198780 TATACACTTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACATTCACATT
62 TATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
44198845 CATCACAT
127 CATCACAT
44198853 AAAATCCTAA
Statistics
Matches: 312, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
192 205 0.66
194 35 0.11
196 72 0.23
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.31
Consensus pattern (192 bp):
GGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
CACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
ACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCAAATCAGCCATTA
Found at i:44198892 original size:147 final size:140
Alignment explanation
Indices: 44198308--44198874 Score: 553
Period size: 143 Copynumber: 4.0 Consensus size: 140
44198298 TATACACTTC
* * * * * * *
44198308 CACATCCATCACGTTGGCCACTCGGCCCTATCAC--ATATATACACTTTCACATTCATCACATTG
1 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
* * * **
44198371 GCCATTCGGCCTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATC
66 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACAT--G--A-AAATCCTTATC
*
44198434 ACATATATACA-CACTTT
126 A-AAATATA-ATCA-TTT
* * *
44198451 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCAAATCA
1 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
* ** *
44198516 GCCATTAGGCCTTATCAC--AGATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATC
66 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA-T-GAAAAT---CCTTATC
* *
44198579 -ACATAT-ATACACCTT
126 AAAATATAAT-CA-TTT
*
44198594 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCCCATTCATCACATCG
1 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
* * * **
44198659 GCCATTAGGCCTTATCACATATATACACACTTTCGCATTCATCACATCGGCCATTAGGCCTTATC
66 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACAT--G--A-AAATCCTTATC
*
44198724 ACATATATACA-CAATTT
126 A-AAATATA-ATC-ATTT
*
44198741 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCGCATTCATCACATCG
1 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
* *
44198806 GCCATTAGGCCTTATCACATATATATACACATTCACATTCATCACAT-AAAATCCTAAATCAAAA
66 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATGAAAATCCT-TATCAAAA
44198870 TATAA
130 TATAA
44198875 ATTTTCATGT
Statistics
Matches: 363, Mismatches: 41, Indels: 43
0.81 0.09 0.10
Matches are distributed among these distances:
140 1 0.00
141 11 0.03
142 6 0.02
143 117 0.32
144 1 0.00
145 107 0.29
146 1 0.00
147 116 0.32
148 2 0.01
149 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.31
Consensus pattern (140 bp):
CACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATGAAAATCCTTATCAAAAT
ATAATCATTT
Found at i:44198896 original size:241 final size:237
Alignment explanation
Indices: 44198287--44198852 Score: 740
Period size: 241 Copynumber: 2.3 Consensus size: 237
44198277 CCCTTCGGGA
** * * * * * * *
44198287 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACAGATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *** * * * *
44198352 TTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATACACCTTCACATTCATCACA
66 ATTCACATTCATCACA-T---CATAAAGCCTAATCACATATATATAAACTTTCCCATTCATCACA
44198415 TCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTT
127 TCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
44198480 ATCACATATATACACACTTTCACATTCATCAAATCAGCCATTAGGC
192 ATCACATATATACACAATTTCACATTCATCAAATCAGCCATTAGGC
* *
44198526 CTTATCACAGATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACAGATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * * * *
44198591 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCCCATTCATCACA
66 ATTCACATTCATCACAT----CATAAAGCCTAATCACATATATATAAACTTTCCCATTCATCACA
*
44198656 TCGGCCATTAGGCCTTATCACATATATACACACTTTCGCATTCATCACATCGGCCATTAGGCCTT
127 TCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTT
* *
44198721 ATCACATATATACACAATTTCACATTCATCACATCGGCCATTAGGC
192 ATCACATATATACACAATTTCACATTCATCAAATCAGCCATTAGGC
* *
44198767 CTTATCACATATATATACACTTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--AGATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
44198832 ACACATTCACATTCATCACAT
62 ACACATTCACATTCATCACAT
44198853 AAAATCCTAA
Statistics
Matches: 300, Mismatches: 20, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
238 1 0.00
239 91 0.30
241 139 0.46
243 43 0.14
245 26 0.09
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (237 bp):
CTTATCACAGATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
ATTCACATTCATCACATCATAAAGCCTAATCACATATATATAAACTTTCCCATTCATCACATCGG
CCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CATATATACACAATTTCACATTCATCAAATCAGCCATTAGGC
Found at i:44202378 original size:40 final size:40
Alignment explanation
Indices: 44202329--44202560 Score: 349
Period size: 40 Copynumber: 5.8 Consensus size: 40
44202319 CCAGCATGAT
* * *
44202329 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * *
44202369 TGCTCTTCGGGACTTAGTCCGGTTGCATTACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
44202409 TGCTCTTCAGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
44202449 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
44202489 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * *
44202529 TGCTCTTC-GAGATTTAGCCCGGATATATCACT
1 TGCTCTTCGGA-ACTTAGTCCGGATACATCACT
44202561 CTCAATTCTC
Statistics
Matches: 177, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 2 0.01
40 175 0.99
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:44204835 original size:49 final size:49
Alignment explanation
Indices: 44204679--44205192 Score: 751
Period size: 49 Copynumber: 10.7 Consensus size: 49
44204669 GCCCTTCGGA
* * * * * *
44204679 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
44204726 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44204773 CTTATCACATATATATAC-C-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44204820 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44204869 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44204916 CTTATCAC--ATATATACACCTTCACATTCATCACATTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACA-TCGGCCATTAGGC
*
44204964 CTTATCACATATATATACACTTTCACATTCATAACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44205013 CTTATCACATATATACACACTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44205062 CTTATCACATATATACACACTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
44205111 CTTATCACATATATACACACTTTCGCATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44205160 CTTATCACATGTATATACACATTCACATTCATC
1 CTTATCACATATATATACACTTTCACATTCATC
44205193 GCATAAAATC
Statistics
Matches: 435, Mismatches: 23, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 160 0.37
48 21 0.05
49 229 0.53
50 24 0.06
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44212158 original size:29 final size:29
Alignment explanation
Indices: 44212080--44212158 Score: 131
Period size: 29 Copynumber: 2.7 Consensus size: 29
44212070 GGTGCTTTGA
* *
44212080 GCCTGATAGGCCATATGAATATGAATTGG
1 GCCTGATGGGCCATATGAATGTGAATTGG
*
44212109 GCCTGATGGGCCATTTGAATGTGAATTGG
1 GCCTGATGGGCCATATGAATGTGAATTGG
44212138 GCCTGATGGGCCATATGAATG
1 GCCTGATGGGCCATATGAATG
44212159 AGATGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.28
Consensus pattern (29 bp):
GCCTGATGGGCCATATGAATGTGAATTGG
Found at i:44214393 original size:17 final size:17
Alignment explanation
Indices: 44214371--44214407 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
44214361 CAATTCAAGC
44214371 ATCTAATATGAAATTTT
1 ATCTAATATGAAATTTT
*
44214388 ATCTAATATGAGATTTT
1 ATCTAATATGAAATTTT
44214405 ATC
1 ATC
44214408 ATATTCATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (17 bp):
ATCTAATATGAAATTTT
Found at i:44216136 original size:64 final size:64
Alignment explanation
Indices: 44216056--44216239 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
44216046 AGACATTATG
* * * *
44216056 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGATCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
44216120 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
44216185 AA
63 AA
* * *
44216187 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
44216240 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 21 0.21
67 32 0.33
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:44221181 original size:79 final size:79
Alignment explanation
Indices: 44221037--44221207 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 79
44221027 GAATCAGGTA
* * *
44221037 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGT
1 CCTTCGGAACTTAACCGGATATAGCTACTCGTACAAATGCCTTCGGGACATAGCCCGGATATAGT
*
44221102 AGCTCGCACAAATG
66 AACTCGCACAAATG
* * * *
44221116 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGTACCAATGCCTTCGGG-CTTAGCCCGGGAT-T
1 CCTTCGGAACTTAA-CCGGATATAGCT-ACTCGTACAAATGCCTTCGGGACATAGCCC-GGATAT
44221178 AGTAACTCGCACAAATG
63 AGTAACTCGCACAAATG
*
44221195 CCTTCGGATCTTA
1 CCTTCGGAACTTA
44221208 GTCCAGATAT
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 48 0.61
80 31 0.39
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (79 bp):
CCTTCGGAACTTAACCGGATATAGCTACTCGTACAAATGCCTTCGGGACATAGCCCGGATATAGT
AACTCGCACAAATG
Found at i:44221184 original size:39 final size:39
Alignment explanation
Indices: 44221070--44221254 Score: 196
Period size: 40 Copynumber: 4.7 Consensus size: 39
44221060 GCTACTCGTT
* * *
44221070 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
* *
44221110 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
*
44221150 CCAATGCCTTCGGG-CTTAGCCCGGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GGATTAGTAACTCGCA
* * * * *
44221189 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
44221230 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44221255 CATCATTCGA
Statistics
Matches: 122, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:44223870 original size:68 final size:64
Alignment explanation
Indices: 44223753--44224006 Score: 178
Period size: 68 Copynumber: 3.9 Consensus size: 64
44223743 ATACAAATAG
* ** *
44223753 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACAGGAC
1 TATGTAGCTAGGTCGCATGCGTGGTGCT-ATGTGCACACCATGTAG-ACAAGAGAGCTAC-GG-C
44223816 ATTA
62 A-TA
* * * * *
44223820 TGATGTAGCTAGGTCGCATGGGTGATGCTATGTGTACACCATGTAGACAAGAGATCTACGGGATA
1 T-ATGTAGCTAGGTCGCATGCGTGGTGCTATGTGCACACCATGTAGACAAGAGAGCTACGGCATA
* * * *
44223885 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAG-
1 TATGTAGCTAGGTCGCATGCGTGGTGCTA--TG-TGCACACCATGTAGACAAGAGAGCTACG-GC
44223949 ATA
62 ATA
* * * * * **
44223952 AAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGCT
1 TATGTAGCTAGGTCGCATGCGTGGTGCT-ATGTGCACACCATGTAG-ACAAGAGAGCT
44224007 GAACTATATG
Statistics
Matches: 154, Mismatches: 24, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
62 1 0.01
63 20 0.13
64 25 0.16
65 3 0.02
66 22 0.14
67 35 0.23
68 47 0.31
69 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGCGTGGTGCTATGTGCACACCATGTAGACAAGAGAGCTACGGCATA
Found at i:44223902 original size:64 final size:64
Alignment explanation
Indices: 44223822--44224006 Score: 187
Period size: 67 Copynumber: 2.9 Consensus size: 64
44223812 GGACATTATG
* * * * *
44223822 ATGTAGCTAGGTCGCATGGGTGATGCTATGTGTACACCATGTAGACAAGAGATCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
44223886 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
44223951 AA
63 AA
* * *
44223953 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGCT
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCT
44224007 GAACTATATG
Statistics
Matches: 99, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 20 0.20
64 25 0.25
66 21 0.21
67 32 0.32
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:44225191 original size:47 final size:47
Alignment explanation
Indices: 44225131--44225322 Score: 285
Period size: 47 Copynumber: 4.1 Consensus size: 47
44225121 ACACATTTCG
* * * ** *
44225131 CATTAGCCATTCGGCCTTACCACATATATACATGTTCATATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
44225178 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
44225225 CATTGGCCATTCGGGCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
44225272 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
44225319 CATT
1 CATT
44225323 AAAATCCTAA
Statistics
Matches: 134, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 134 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:44225274 original size:23 final size:23
Alignment explanation
Indices: 44225247--44225321 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
44225237 GGGCTTATCG
44225247 CACATACGCATGTTCACATTCAT
1 CACATACGCATGTTCACATTCAT
** * *
44225270 CACATTGGCCA--TTCGGCCTT-AT
1 CACATACG-CATGTTC-ACATTCAT
44225292 CACACATACGCATGTTCACATTCAT
1 --CACATACGCATGTTCACATTCAT
44225317 CACAT
1 CACAT
44225322 TAAAATCCTA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 5 0.14
23 16 0.43
24 11 0.30
25 5 0.14
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.29
Consensus pattern (23 bp):
CACATACGCATGTTCACATTCAT
Found at i:44230915 original size:25 final size:25
Alignment explanation
Indices: 44230887--44230934 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
44230877 TTATACCATG
* * *
44230887 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
44230912 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
44230935 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:44231003 original size:20 final size:20
Alignment explanation
Indices: 44230978--44231036 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
44230968 TAAATATGGT
*
44230978 ATGTATGAGATGCACATGAC
1 ATGTATGATATGCACATGAC
*
44230998 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
44231018 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
44231037 GGTAATCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Done.