Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 612 of 770
Found at i:191418135 original size:29 final size:29
Alignment explanation
Indices: 191418103--191418205 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
191418093 GTGACGAGAT
* *
191418103 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
191418132 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
191418161 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
191418190 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
191418206 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:191424513 original size:16 final size:18
Alignment explanation
Indices: 191424492--191424528 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
191424482 AAGGGAGAAT
191424492 AAAG-AAATG-GAAAAAA
1 AAAGAAAATGAGAAAAAA
191424508 AAAGAAAATGATGAAAAAA
1 AAAGAAAATGA-GAAAAAA
191424527 AA
1 AA
191424529 TGTGTGTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.22
17 5 0.28
19 9 0.50
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (18 bp):
AAAGAAAATGAGAAAAAA
Found at i:191425869 original size:29 final size:29
Alignment explanation
Indices: 191425837--191425939 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
191425827 GTGACGAGAT
* *
191425837 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
191425866 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
191425895 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
191425924 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
191425940 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:191432055 original size:40 final size:39
Alignment explanation
Indices: 191431972--191432154 Score: 163
Period size: 40 Copynumber: 4.6 Consensus size: 39
191431962 TTGAATGATG
* * * * *
191431972 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGC-GAGTTAATAAA
* *
191432012 TCCGGACTAAGATCCGAAGGCGTTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTAATAAA
* * *
191432052 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
* * *
191432091 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGTTAATA-AA
**
191432132 -CCGGGCTTTGTCCCGAAGGCATT
1 TCCGGGCTAAGT-CCGAAGGCATT
191432155 TGAGCTAGTC
Statistics
Matches: 121, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
39 33 0.27
40 79 0.65
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
Found at i:191432117 original size:79 final size:82
Alignment explanation
Indices: 191431972--191432161 Score: 230
Period size: 79 Copynumber: 2.4 Consensus size: 82
191431962 TTGAATGATG
* * *
191431972 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCGTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
191432036 CGTGCGAGTTAATA-AA
66 CGTGCGAGTTAATATAA
* * **
191432052 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
191432114 TCGTGCGAGTTACTATAA
65 TCGTGCGAGTTAATATAA
** *
191432132 -CCGGGCTTTGTCCCGAAGGCATTTGAGCTA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTA
191432162 GTCGTTATAT
Statistics
Matches: 93, Mismatches: 12, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 56 0.60
80 36 0.39
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTAATATAA
Found at i:191432187 original size:79 final size:79
Alignment explanation
Indices: 191431972--191432189 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
191431962 TTGAATGATG
* * * * * ** *
191431972 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGA-TCCGAAGGCGT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-GAGTCACTAAACCCGGGTTAA-ATTCCGAAGGCAT
191432035 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTTAATAAA
* * * *
191432052 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCGAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
191432117 TGCGAGTTACTATAA
66 TGCGAGTTAATA-AA
** * ** * *
191432132 -CCGGGCTTTGTCCCGAAGGCATTTGAGCTAGTCGTTATA-TCGGGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCGAGTCACTAAACCCGGGTTAAATTCCGAAGG
191432190 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 71 0.63
80 42 0.37
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCGAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTTAATAAA
Found at i:191436210 original size:35 final size:35
Alignment explanation
Indices: 191436164--191436237 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 35
191436154 TCCGAAGAAG
* *
191436164 AAAGATGCCATTTGGGTAATTGTTGACCGGTTAAC
1 AAAGATGCCATTTGGGTAATTGTGGACCAGTTAAC
191436199 AAAGATGCCATTTGGGTAATTGTGGACCAGTTAAC
1 AAAGATGCCATTTGGGTAATTGTGGACCAGTTAAC
191436234 AAAG
1 AAAG
191436238 TCTGTACACT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (35 bp):
AAAGATGCCATTTGGGTAATTGTGGACCAGTTAAC
Found at i:191438498 original size:26 final size:27
Alignment explanation
Indices: 191438463--191438529 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 27
191438453 TTAGCTCTTA
*
191438463 TGAGCATCCCGATTAAA-GGCTCTTCG
1 TGAGCTTCCCGATTAAATGGCTCTTCG
*
191438489 TGAGCTTCCCG-TTAAATTTGGCTCTTTG
1 TGAGCTTCCCGATTAAA--TGGCTCTTCG
*
191438517 TGAGCTTCTCGAT
1 TGAGCTTCCCGAT
191438530 AGTGCTCGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 5 0.15
26 10 0.29
28 18 0.53
29 1 0.03
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGAGCTTCCCGATTAAATGGCTCTTCG
Found at i:191444568 original size:46 final size:48
Alignment explanation
Indices: 191444511--191444644 Score: 179
Period size: 46 Copynumber: 2.9 Consensus size: 48
191444501 GGGATATTTG
191444511 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGA
* * * *
191444558 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG--ACGA
191444604 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
191444645 GCGGGTTACA
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
43 4 0.05
45 2 0.03
46 33 0.45
47 31 0.42
48 2 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (48 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGA
Found at i:191447579 original size:15 final size:15
Alignment explanation
Indices: 191447559--191447627 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
191447549 GTATCTTGGG
191447559 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
191447574 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
191447589 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
191447604 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
191447619 TTTCTTTAT
1 TTTCTTTAT
191447628 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:191447628 original size:30 final size:30
Alignment explanation
Indices: 191447550--191447637 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
191447540 CATAGTATCG
* * * *
191447550 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
191447580 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
191447610 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
191447638 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:191450076 original size:46 final size:47
Alignment explanation
Indices: 191450020--191450153 Score: 177
Period size: 46 Copynumber: 2.9 Consensus size: 47
191450010 GGATATTTGG
191450020 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * *
191450066 GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGCGAACTA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A--A
191450113 GCATCCGAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
191450154 GCGGGTTACA
Statistics
Matches: 74, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
43 6 0.08
45 2 0.03
46 31 0.42
47 9 0.12
48 23 0.31
49 2 0.03
51 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:191459747 original size:40 final size:40
Alignment explanation
Indices: 191459688--191459829 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
191459678 AAATTGAATG
* * *
191459688 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
191459728 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
191459768 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
191459808 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
191459830 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:191459830 original size:40 final size:39
Alignment explanation
Indices: 191459727--191459855 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
191459717 TGCTGGAAAT
* * *
191459727 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
191459767 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
191459807 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
191459847 TATATCCGG
1 TATATCCGG
191459856 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:191462112 original size:46 final size:46
Alignment explanation
Indices: 191462062--191462237 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
191462052 TGGTTGAGCA
* * *
191462062 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * *
191462108 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
* *
191462155 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * *
191462201 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
191462238 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.57
47 29 0.27
48 3 0.03
50 6 0.06
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:191462218 original size:93 final size:93
Alignment explanation
Indices: 191462059--191462230 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
191462049 GGATGGTTGA
* * * *
191462059 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
191462124 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
** *
191462152 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
191462217 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
191462231 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:191468346 original size:47 final size:47
Alignment explanation
Indices: 191468275--191468760 Score: 783
Period size: 47 Copynumber: 10.3 Consensus size: 47
191468265 CCCTTCGGGA
* * * * *
191468275 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
191468322 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
191468369 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
191468416 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
191468463 CTTATCACATATATATACTCTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
191468512 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
191468559 CTTATCACATATATACACTTTCGCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
191468606 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
191468653 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
191468700 CTTATCACATATATACACTTTCACATACATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
191468747 CTTATCACATATAT
1 CTTATCACATATAT
191468761 GGCCTTATCA
Statistics
Matches: 410, Mismatches: 27, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 365 0.89
49 45 0.11
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:191468353 original size:25 final size:25
Alignment explanation
Indices: 191468325--191468403 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
191468315 ACTCGGCCCT
191468325 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
191468350 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
191468372 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
191468397 ATCACAT
1 ATCACAT
191468404 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:191468521 original size:22 final size:22
Alignment explanation
Indices: 191468493--191468615 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
191468483 TTTCACATTC
191468493 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
191468515 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
* *
191468539 CATCACATCGGCCATTAGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
** * *
191468562 ATCACATATATACACTTTC-GCATT
1 ATCACAT-T-GGC-CATTCGGCCTT
191468586 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
191468609 ATCACAT
1 ATCACAT
191468616 ATATATACTT
Statistics
Matches: 69, Mismatches: 22, Indels: 20
0.62 0.20 0.18
Matches are distributed among these distances:
22 28 0.41
23 10 0.14
24 10 0.14
25 21 0.30
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:191468766 original size:17 final size:17
Alignment explanation
Indices: 191468744--191468777 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
191468734 TTGGCCATTC
191468744 GGCCTTATCACATATAT
1 GGCCTTATCACATATAT
191468761 GGCCTTATCACATATAT
1 GGCCTTATCACATATAT
191468778 ACACTTTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (17 bp):
GGCCTTATCACATATAT
Found at i:191468774 original size:64 final size:64
Alignment explanation
Indices: 191468697--191468824 Score: 229
Period size: 64 Copynumber: 2.0 Consensus size: 64
191468687 TCGGCCATTA
* *
191468697 GGCCTTATCACATATATACACTTTCACATACATCACATTGGCCATTCGGCCTTATCACATATAT
1 GGCCTTATCACATATATACACTTTCACATACATCACATCGGCCATTAGGCCTTATCACATATAT
*
191468761 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 GGCCTTATCACATATATACACTTTCACATACATCACATCGGCCATTAGGCCTTATCACATATAT
191468825 ACACTTTCAC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (64 bp):
GGCCTTATCACATATATACACTTTCACATACATCACATCGGCCATTAGGCCTTATCACATATAT
Found at i:191475568 original size:14 final size:14
Alignment explanation
Indices: 191475549--191475581 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
191475539 TTGTTTTTAT
191475549 ATATATGTATATAG
1 ATATATGTATATAG
*
191475563 ATATATGTATATAT
1 ATATATGTATATAG
191475577 ATATA
1 ATATA
191475582 GTAATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (14 bp):
ATATATGTATATAG
Found at i:191475765 original size:23 final size:23
Alignment explanation
Indices: 191475724--191475772 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
191475714 TTGTTACACC
*
191475724 TTTTACTATTATTACTATTGTAT
1 TTTTACTATTATTACTATTATAT
**
191475747 TTTTACTATTATTGTTATTATAT
1 TTTTACTATTATTACTATTATAT
191475770 TTT
1 TTT
191475773 CCTCTTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.65
Consensus pattern (23 bp):
TTTTACTATTATTACTATTATAT
Found at i:191475986 original size:3 final size:3
Alignment explanation
Indices: 191475978--191476103 Score: 53
Period size: 3 Copynumber: 42.7 Consensus size: 3
191475968 TGTATTTACC
* * * *
191475978 ATT ATT ATT ACT ATT ATT -TT CATT -TT -TT ATT ACT ATT ACT AAT
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT
* ** * * * *
191476021 ATC ATT CCT -TT ATT ATT TTCT ATT ATT ATT ATC ACT ATT ATT AAT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
191476066 ATA AAT ATT AAT ACT CTT ATT ATT ATT TTT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
191476104 CATCAATATT
Statistics
Matches: 87, Mismatches: 31, Indels: 10
0.68 0.24 0.08
Matches are distributed among these distances:
2 7 0.08
3 76 0.87
4 4 0.05
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:191488464 original size:93 final size:93
Alignment explanation
Indices: 191488336--191488506 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
191488326 GCCCCTAAGT
* *
191488336 GAACTCGGACTCAACTCAATGACCTCTGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGACCTCTGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
191488401 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
** * *
191488429 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAGGTGAACTTGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGACCTCTGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
191488493 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
191488507 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGACCTCTGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:191488496 original size:46 final size:45
Alignment explanation
Indices: 191488333--191488503 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 45
191488323 CCCGCCCCTA
* ** *
191488333 AGTGAACTCGGACTCAACTCAATGACCTCTGG-CGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCAT
*
191488378 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-T
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCAT
*
191488426 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
*
191488471 AGGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 A-GTGAACTCGGACTCAACTCAACGAGTTCGGA
191488504 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 10, Indels: 22
0.76 0.07 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 3 0.03
46 54 0.52
47 29 0.28
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
Found at i:191488960 original size:30 final size:30
Alignment explanation
Indices: 191488926--191488985 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
191488916 ATTTAATATG
191488926 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * * *
191488956 AACTTTTGCATAATTATAGTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
191488986 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:191493564 original size:6 final size:6
Alignment explanation
Indices: 191493553--191493591 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
191493543 AATAGAAAGT
*
191493553 TAAAAA TAAAAA TAAAAA TAAAGA TAAAAA T-AAAA TAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAA
191493592 TGAGATGAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:191495145 original size:126 final size:127
Alignment explanation
Indices: 191494977--191495263 Score: 420
Period size: 126 Copynumber: 2.3 Consensus size: 127
191494967 CCGTGTCCTT
* *
191494977 CACACGG-CTAAGACACACAG-CCGTGTCTCTGCCC-ATATGTTTACTACTGGGCATTCTGTTTT
1 CACACGGCCT-AGACACAC-GTCCGTGTGTCTGCCCGATATGTTTACTACTGGGCATTCTATTTT
* * * * *
191495039 GCATTAATTAGGGTGCAGGGGACACATGGCTAGACCACACGCCCATGGGGTAGACCGTGTGTCA
64 GCATTAATTAGGGTGCAGGGGACACACGACCAGACCACACGCCCATGGGGTAAACCATGTGTCA
* *
191495103 CACATGGCCTAGACACACGTCCGTGTGTCTGCCCGA-GTGTTTACTACTGGGCATTCTATTTTGC
1 CACACGGCCTAGACACACGTCCGTGTGTCTGCCCGATATGTTTACTACTGGGCATTCTATTTTGC
*
191495167 ATTAATTAGGGTGCAGGGGACACACGACCGGACCACACGCCCATGGGGTAAACCATGTGTCA
66 ATTAATTAGGGTGCAGGGGACACACGACCAGACCACACGCCCATGGGGTAAACCATGTGTCA
* *
191495229 CACACGGCCTAGACACACGTCTGTGTGTCTACCCG
1 CACACGGCCTAGACACACGTCCGTGTGTCTGCCCG
191495264 TGTGACAACT
Statistics
Matches: 145, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
125 1 0.01
126 141 0.97
127 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.24
Consensus pattern (127 bp):
CACACGGCCTAGACACACGTCCGTGTGTCTGCCCGATATGTTTACTACTGGGCATTCTATTTTGC
ATTAATTAGGGTGCAGGGGACACACGACCAGACCACACGCCCATGGGGTAAACCATGTGTCA
Found at i:191497520 original size:2 final size:2
Alignment explanation
Indices: 191497508--191497545 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
191497498 TTATGAATGA
*
191497508 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
191497546 TATGAACTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:191497843 original size:26 final size:26
Alignment explanation
Indices: 191497814--191497865 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
191497804 AGGCTGGAAC
191497814 ATAGTTTTGAAATGTGGAATTTGGTT
1 ATAGTTTTGAAATGTGGAATTTGGTT
191497840 ATAGTTTTGAAATGTGGAATTTGGTT
1 ATAGTTTTGAAATGTGGAATTTGGTT
191497866 GTGTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (26 bp):
ATAGTTTTGAAATGTGGAATTTGGTT
Found at i:191503042 original size:36 final size:36
Alignment explanation
Indices: 191502995--191503066 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
191502985 TGACTATTAC
191502995 TCGGGAAAGGTAGCTGATGCTTTAAGCCTAAAATCA
1 TCGGGAAAGGTAGCTGATGCTTTAAGCCTAAAATCA
191503031 TCGGGAAAGGTAGCTGATGCTTTAAGCCTAAAATCA
1 TCGGGAAAGGTAGCTGATGCTTTAAGCCTAAAATCA
191503067 CTGTTTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (36 bp):
TCGGGAAAGGTAGCTGATGCTTTAAGCCTAAAATCA
Found at i:191512092 original size:40 final size:40
Alignment explanation
Indices: 191512047--191512213 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
191512037 CGGAATATAA
191512047 CCGGATATAATCACGT-GCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAATTGCCTTCGGGTCTTAGC
* * * *
191512087 CCGGATAGAATAACTCGCACGAA-TGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCAC-AATTGCCTTCGGGTCTTAGC
** *
191512127 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGC
** * * *
191512167 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGC
191512206 CCGGATAT
1 CCGGATAT
191512214 CATTCAATTT
Statistics
Matches: 106, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
39 16 0.15
40 88 0.83
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAATTGCCTTCGGGTCTTAGC
Found at i:191512197 original size:80 final size:79
Alignment explanation
Indices: 191512063--191512213 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 79
191512053 ATAATCACGT
*
191512063 GCACAATTGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
191512128 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* ** * *
191512143 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAATTGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
191512206 CCGGATAT
64 CCGGATAT
191512214 CATTCAATTT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 17 0.27
80 46 0.73
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAATTGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:191515796 original size:7 final size:6
Alignment explanation
Indices: 191515780--191515839 Score: 52
Period size: 6 Copynumber: 10.0 Consensus size: 6
191515770 TTTGAGTCCA
***
191515780 TTTATTT TTTATCT TTTATT TTTGCC T-TATT TTTATT TTTATT TTTA-T
1 TTTA-TT TTTAT-T TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
191515828 TTTATG TTTATT
1 TTTATT TTTATT
191515840 CTAAAGACTT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
5 7 0.17
6 25 0.60
7 10 0.24
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:191515821 original size:12 final size:12
Alignment explanation
Indices: 191515806--191515839 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
191515796 TATTTTTGCC
191515806 TTATTTTTATTT
1 TTATTTTTATTT
191515818 TTATTTTTA-TT
1 TTATTTTTATTT
*
191515829 TTATGTTTATT
1 TTATTTTTATT
191515840 CTAAAGACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (12 bp):
TTATTTTTATTT
Found at i:191515832 original size:23 final size:23
Alignment explanation
Indices: 191515780--191515839 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
191515770 TTTGAGTCCA
*
191515780 TTTATTTTTTATCTTTTATTTTTGC
1 TTTA-TTTTTAT-TTTTATTTTTAC
* *
191515805 CTTATTTTTATTTTTATTTTTAT
1 TTTATTTTTATTTTTATTTTTAC
*
191515828 TTTATGTTTATT
1 TTTATTTTTATT
191515840 CTAAAGACTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 20 0.67
24 7 0.23
25 3 0.10
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (23 bp):
TTTATTTTTATTTTTATTTTTAC
Found at i:191522472 original size:27 final size:27
Alignment explanation
Indices: 191522436--191522543 Score: 146
Period size: 27 Copynumber: 4.0 Consensus size: 27
191522426 GCCGAAATGG
191522436 TGACCGAAATACCCCTATAGGGTAAAA
1 TGACCGAAATACCCCTATAGGGTAAAA
** *
191522463 TGATTGAAATACCCC-ATAGAGTAAAAA
1 TGACCGAAATACCCCTATAGGGT-AAAA
*
191522490 TGACCGAAATATCCCTATAGGGTAAAA
1 TGACCGAAATACCCCTATAGGGTAAAA
*
191522517 TGACCGAAAATACCCCCATAGGGTAAA
1 TGACCG-AAATACCCCTATAGGGTAAA
191522544 NNNNNNNNNN
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 6 0.09
27 39 0.57
28 24 0.35
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (27 bp):
TGACCGAAATACCCCTATAGGGTAAAA
Found at i:191522515 original size:54 final size:56
Alignment explanation
Indices: 191522436--191522543 Score: 166
Period size: 54 Copynumber: 2.0 Consensus size: 56
191522426 GCCGAAATGG
**
191522436 TGACCGAAATACCCCTATAGGGTAAAATGATTG-AAATA-CCCCATAGAGTAAAAA
1 TGACCGAAATACCCCTATAGGGTAAAATGACCGAAAATACCCCCATAGAGTAAAAA
* *
191522490 TGACCGAAATATCCCTATAGGGTAAAATGACCGAAAATACCCCCATAGGGTAAA
1 TGACCGAAATACCCCTATAGGGTAAAATGACCGAAAATACCCCCATAGAGTAAA
191522544 NNNNNNNNNN
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 30 0.62
55 5 0.10
56 13 0.27
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (56 bp):
TGACCGAAATACCCCTATAGGGTAAAATGACCGAAAATACCCCCATAGAGTAAAAA
Found at i:191524399 original size:40 final size:40
Alignment explanation
Indices: 191524344--191524553 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
191524334 AACATTGGAA
191524344 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
191524384 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
191524424 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
191524464 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
191524503 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
191524544 CTATATCCGG
1 ATATATCCGG
191524554 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:191531614 original size:40 final size:40
Alignment explanation
Indices: 191531559--191531768 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
191531549 AACATTGGAA
191531559 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
191531599 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
191531639 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
191531679 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
191531718 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
191531759 CTATATCCGG
1 ATATATCCGG
191531769 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:191535023 original size:29 final size:29
Alignment explanation
Indices: 191534982--191535059 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 29
191534972 GACTGTAAAA
191534982 GTGATTGGGCCTAATGGGCCAC-AT-AGAT
1 GTGATTGGGCCTAATGGGCCACTATGA-AT
191535010 GTGATTTGGGCCTAATGGGCC-CTATGAAT
1 GTGA-TTGGGCCTAATGGGCCACTATGAAT
* *
191535039 GAGATTGGGCCTAGTGGGCCA
1 GTGATTGGGCCTAATGGGCCA
191535060 TAAACATATA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
28 20 0.45
29 23 0.52
30 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.35, T:0.26
Consensus pattern (29 bp):
GTGATTGGGCCTAATGGGCCACTATGAAT
Found at i:191535388 original size:27 final size:26
Alignment explanation
Indices: 191535341--191535395 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
191535331 AAACTCGTAA
* * *
191535341 TAAGGGAAAAATTACCGAAATTCCCC
1 TAAGGGAAAAATAACCAAAATACCCC
191535367 TAAGGGCAAAAATAACCAAAATACCCC
1 TAAGGG-AAAAATAACCAAAATACCCC
191535394 TA
1 TA
191535396 TGTGTGGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.47, C:0.24, G:0.13, T:0.16
Consensus pattern (26 bp):
TAAGGGAAAAATAACCAAAATACCCC
Found at i:191535756 original size:11 final size:11
Alignment explanation
Indices: 191535740--191535771 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
191535730 GCAAGTATGA
191535740 TATTATTGTGT
1 TATTATTGTGT
191535751 TATTATTGTGT
1 TATTATTGTGT
191535762 TATTATTGTG
1 TATTATTGTG
191535772 ATTTGGGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (11 bp):
TATTATTGTGT
Found at i:191538917 original size:28 final size:28
Alignment explanation
Indices: 191538846--191538923 Score: 113
Period size: 29 Copynumber: 2.8 Consensus size: 28
191538836 CTGTAAAAGT
* *
191538846 GATTGGGCCTAGTGGGCCATATAGATGC
1 GATTGGGCCTAATGGGCCATATAGATGA
191538874 GATTTGGGCCTAATGGGCCATAT-GAATGA
1 GA-TTGGGCCTAATGGGCCATATAG-ATGA
191538903 GATTGGGCCTAATGGGCCATA
1 GATTGGGCCTAATGGGCCATA
191538924 AACATGCAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 22 0.48
29 24 0.52
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (28 bp):
GATTGGGCCTAATGGGCCATATAGATGA
Found at i:191551199 original size:93 final size:93
Alignment explanation
Indices: 191551087--191551258 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
191551077 GCCCATAAGT
* *
191551087 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
191551152 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
191551180 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
191551245 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
191551259 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:191551254 original size:46 final size:46
Alignment explanation
Indices: 191551079--191551254 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
191551069 TGTAACCCGC
* * *
191551079 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
191551125 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
191551175 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
191551218 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
191551255 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:191553590 original size:30 final size:30
Alignment explanation
Indices: 191553546--191553634 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
191553536 CAAAGATAAC
191553546 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
191553575 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
191553605 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
191553635 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:191553594 original size:15 final size:15
Alignment explanation
Indices: 191553546--191553625 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
191553536 CAAAGATAAC
*
191553546 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
191553560 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
191553575 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
191553590 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
191553605 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
191553620 AAGAAA
1 AAGAAA
191553626 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:191553634 original size:15 final size:15
Alignment explanation
Indices: 191553557--191553634 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
191553547 AGAAAACCGA
191553557 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
191553572 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
191553586 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
191553601 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
191553617 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
191553632 ATA
1 ATA
191553635 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:191556691 original size:93 final size:93
Alignment explanation
Indices: 191556579--191556750 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
191556569 GCCCATAAGT
* *
191556579 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
191556644 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
191556672 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
191556737 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
191556751 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:191556746 original size:46 final size:46
Alignment explanation
Indices: 191556571--191556746 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
191556561 TGTAACCCGC
* * *
191556571 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
191556617 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
191556667 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
191556710 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
191556747 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:191557750 original size:41 final size:41
Alignment explanation
Indices: 191557693--191557776 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
191557683 TTACCCCTAA
191557693 ATGACCAAAATGCCCTTACTACTAAACTTTCCAAAAATTCC
1 ATGACCAAAATGCCCTTACTACTAAACTTTCCAAAAATTCC
191557734 ATGACCAAAATGCCCTTACTACTAAACTTTCCAAAAATTCC
1 ATGACCAAAATGCCCTTACTACTAAACTTTCCAAAAATTCC
191557775 AT
1 AT
191557777 CCATGTCCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.39, C:0.29, G:0.05, T:0.27
Consensus pattern (41 bp):
ATGACCAAAATGCCCTTACTACTAAACTTTCCAAAAATTCC
Found at i:191560551 original size:40 final size:40
Alignment explanation
Indices: 191560506--191560672 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
191560496 CGGAATATAA
191560506 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
191560546 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
191560586 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
191560626 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
191560665 CCGGATAT
1 CCGGATAT
191560673 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:191560656 original size:80 final size:79
Alignment explanation
Indices: 191560506--191560672 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
191560496 CGGAATATAA
* *
191560506 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
191560571 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
191560586 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
191560648 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
191560665 CCGGATAT
1 CCGGATAT
191560673 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:191561519 original size:17 final size:19
Alignment explanation
Indices: 191561496--191561541 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
191561486 AAGAAGCATG
191561496 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
191561514 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
191561532 AATCATGCTC
1 AATCATGCTC
191561542 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:191568543 original size:40 final size:40
Alignment explanation
Indices: 191568498--191568663 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
191568488 CGGAATATAA
191568498 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
191568538 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
191568578 CCGGATAT-ACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
191568617 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
191568656 CCGGATAT
1 CCGGATAT
191568664 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:191568620 original size:39 final size:38
Alignment explanation
Indices: 191568514--191568625 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 38
191568504 ATAATCACGT
* * *
191568514 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATA-TACAACTA
* *
191568554 GCACGAATGCCTTCGGGCCTTAGCCCGGATATACCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATACAACTA
*
191568593 GCACAATTGCCTTCGGGTCTTAACCCGGATATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATA
191568626 ATTTCCAGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 2 0.03
39 32 0.51
40 29 0.46
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATACAACTA
Found at i:191568647 original size:79 final size:78
Alignment explanation
Indices: 191568514--191568663 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 78
191568504 ATAATCACGT
*
191568514 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
191568579 CGGATATACCACTA
65 CGGATATACCACTA
* * ** * *
191568593 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
191568656 CCGGATAT
64 CCGGATAT
191568664 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 17 0.27
79 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATACCACTA
Found at i:191569509 original size:17 final size:19
Alignment explanation
Indices: 191569486--191569531 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
191569476 AAGAAGCATG
191569486 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
191569504 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
191569522 AATCATGCTC
1 AATCATGCTC
191569532 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:191571802 original size:24 final size:24
Alignment explanation
Indices: 191571762--191571823 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
191571752 GATTATGTAG
191571762 AAAGAATAAAGAAATGAA-AAAAAA
1 AAAGAA-AAAGAAATGAAGAAAAAA
* *
191571786 AAAGAAAGAGAATATGAAGAAAAAC
1 AAAGAAAAAGAA-ATGAAGAAAAAA
*
191571811 AAAGAAAAGGAAA
1 AAAGAAAAAGAAA
191571824 AAAAAAAGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 5 0.16
24 12 0.38
25 15 0.47
ACGTcount: A:0.74, C:0.02, G:0.18, T:0.06
Consensus pattern (24 bp):
AAAGAAAAAGAAATGAAGAAAAAA
Found at i:191573079 original size:29 final size:29
Alignment explanation
Indices: 191572977--191573078 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 29
191572967 GTGACGAGAT
*
191572977 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
191573006 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
* ** * ***
191573035 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAAAATA
191573064 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
191573079 GGATTGCGTG
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 60 0.98
30 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:191573115 original size:23 final size:22
Alignment explanation
Indices: 191573063--191573126 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
191573053 CTCGAAGGGT
*
191573063 ATGGCACTAAGTGTGCGGATTGC
1 ATGGCACTAAGTGTGC-GATTAC
*
191573086 GTGGCACTAAGTGTGCGATTAC
1 ATGGCACTAAGTGTGCGATTAC
* **
191573108 AATTGCACTGTGTGTGCGA
1 -ATGGCACTAAGTGTGCGA
191573127 CATTATCGAG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 5 0.15
23 29 0.85
ACGTcount: A:0.22, C:0.17, G:0.33, T:0.28
Consensus pattern (22 bp):
ATGGCACTAAGTGTGCGATTAC
Found at i:191579654 original size:24 final size:24
Alignment explanation
Indices: 191579614--191579675 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
191579604 GATTATGTAG
191579614 AAAGAATAAAGAAATGAA-AAAAAA
1 AAAGAA-AAAGAAATGAAGAAAAAA
* *
191579638 AAAGAAAGAGAATATGAAGAAAAAC
1 AAAGAAAAAGAA-ATGAAGAAAAAA
*
191579663 AAAGAAAAGGAAA
1 AAAGAAAAAGAAA
191579676 AAAAAAGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 5 0.16
24 12 0.38
25 15 0.47
ACGTcount: A:0.74, C:0.02, G:0.18, T:0.06
Consensus pattern (24 bp):
AAAGAAAAAGAAATGAAGAAAAAA
Found at i:191580875 original size:29 final size:29
Alignment explanation
Indices: 191580842--191580906 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
191580832 GTGACGAGAT
*
191580842 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
191580871 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
191580900 CGGCACT
1 TGGCACT
191580907 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:191587553 original size:24 final size:24
Alignment explanation
Indices: 191587513--191587574 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
191587503 GATTATGTAG
191587513 AAAGAATAAAGAAATGAA-AAAAAA
1 AAAGAA-AAAGAAATGAAGAAAAAA
* *
191587537 AAAGAAAGAGAATATGAAGAAAAAC
1 AAAGAAAAAGAA-ATGAAGAAAAAA
*
191587562 AAAGAAAAGGAAA
1 AAAGAAAAAGAAA
191587575 AAAAAAAGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 5 0.16
24 12 0.38
25 15 0.47
ACGTcount: A:0.74, C:0.02, G:0.18, T:0.06
Consensus pattern (24 bp):
AAAGAAAAAGAAATGAAGAAAAAA
Found at i:191588774 original size:29 final size:29
Alignment explanation
Indices: 191588741--191588805 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
191588731 GTGACGAGAT
*
191588741 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
191588770 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
191588799 CGGCACT
1 TGGCACT
191588806 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:191596923 original size:40 final size:40
Alignment explanation
Indices: 191596868--191597035 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
191596858 TGAATGATAC
* *
191596868 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
191596908 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
191596948 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
191596988 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
191597028 CC-GGCTAA
1 CCGGGCTAA
191597036 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:191605217 original size:40 final size:40
Alignment explanation
Indices: 191605162--191605328 Score: 194
Period size: 40 Copynumber: 4.2 Consensus size: 40
191605152 TTGAATGATA
* *
191605162 CGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATC
* *
191605202 CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATATC
* * ** *
191605242 CGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATC
* * * *
191605282 CGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATC
191605322 C-GGCTAA
1 CGGGCTAA
191605329 ATTCTGAAGA
Statistics
Matches: 105, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 97 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATC
Found at i:191615205 original size:20 final size:20
Alignment explanation
Indices: 191615149--191615205 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
191615139 ACATGGTTGA
*
191615149 TATGATATGCACATGACATG
1 TATGATATGCACATGATATG
191615169 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
191615189 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
191615206 GTATTCATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:191615355 original size:25 final size:26
Alignment explanation
Indices: 191615256--191615377 Score: 187
Period size: 26 Copynumber: 4.8 Consensus size: 26
191615246 GAGGAAGTGC
191615256 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
191615282 AAAAAGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
191615308 AAAAGGGCTTATACCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
191615334 AAAAGGGCTT-TGCCCCAGTTTA-TC
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
191615358 AAAAGGGCTT-TGCCTCAGTT
1 AAAAGGGCTTATGCCCCAGTT
191615378 GTTAAAAGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
24 20 0.22
25 11 0.12
26 59 0.66
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:191616019 original size:18 final size:18
Alignment explanation
Indices: 191615996--191616030 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
191615986 ACTTAGGACG
*
191615996 TGTTTTCAAAACGACACT
1 TGTTTTCAAAACAACACT
*
191616014 TGTTTTCCAAACAACAC
1 TGTTTTCAAAACAACAC
191616031 AACGTTACGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (18 bp):
TGTTTTCAAAACAACACT
Found at i:191617921 original size:34 final size:34
Alignment explanation
Indices: 191617853--191617923 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
191617843 ACTGAATTGA
* **
191617853 GCTAGGGCCCACACTGATATTGTTACTGTAATGG
1 GCTAAGGCCCACACTGATATTGCCACTGTAATGG
191617887 GCTAAGGCCCACACTGATATTGCCACTG-ATATGG
1 GCTAAGGCCCACACTGATATTGCCACTGTA-ATGG
191617921 GCT
1 GCT
191617924 TAAGCCTAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 1 0.03
34 32 0.97
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (34 bp):
GCTAAGGCCCACACTGATATTGCCACTGTAATGG
Found at i:191620320 original size:49 final size:49
Alignment explanation
Indices: 191620260--191620422 Score: 209
Period size: 49 Copynumber: 3.5 Consensus size: 49
191620250 TACATATGTG
* * *
191620260 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
*
191620309 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAA--G--TG--TA
1 TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
*
191620352 --TG-TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
*
191620398 TGTGATAAGGCCTAATGGCTAATGT
1 TGTGATAAGGCCTAATGGCCAATGT
191620423 AAAATATATG
Statistics
Matches: 99, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
40 33 0.33
41 2 0.02
42 1 0.01
43 2 0.02
44 2 0.02
45 2 0.02
46 2 0.02
47 1 0.01
48 2 0.02
49 52 0.53
ACGTcount: A:0.29, C:0.10, G:0.32, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:191620358 original size:40 final size:40
Alignment explanation
Indices: 191620314--191620395 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
191620304 GTATATGTGA
191620314 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
191620354 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
191620394 TA
1 TA
191620396 TATGTGATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.28, C:0.10, G:0.34, T:0.28
Consensus pattern (40 bp):
TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
Found at i:191620568 original size:37 final size:37
Alignment explanation
Indices: 191620518--191620602 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
191620508 GGAATATGTT
*
191620518 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
191620555 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
191620592 CCGGGTAAGAC
1 CCGGGTAAGAC
191620603 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:191624485 original size:40 final size:40
Alignment explanation
Indices: 191624377--191624586 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
191624367 CGGGATTTAA
* * * * *
191624377 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
191624417 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
191624457 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
191624497 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
191624537 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
191624577 CCGGATATAT
1 CCGGATATAT
191624587 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:191631646 original size:40 final size:40
Alignment explanation
Indices: 191631559--191631709 Score: 130
Period size: 40 Copynumber: 3.8 Consensus size: 40
191631549 AATTGAATGA
* * * * **
191631559 TATCCGGGCTAAGCCCCGAAGACAATTATGCTAGAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCA-TAC
* * *
191631599 TAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
191631640 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
* *
191631679 TATCCGGGCTAAGACCCGAAGGTATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
191631710 AAATCGTGAT
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 83 0.91
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:191631723 original size:40 final size:40
Alignment explanation
Indices: 191631640--191631741 Score: 105
Period size: 40 Copynumber: 2.5 Consensus size: 40
191631630 TAGTGGCTAC
* * **
191631640 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGAT
* * *
191631680 ATCCGGGCTAAGACCCGAAGGTATTTGTGCAAATCGTGAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGAT
* * * *
191631720 ATCCAGGTTAAGTCCCGTAGGC
1 ATCCGGGCTAAGACCCGAAGGC
191631742 CTTGGTGCGG
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGAT
Found at i:191633939 original size:10 final size:10
Alignment explanation
Indices: 191633924--191633948 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
191633914 TTGTGATGTA
191633924 TGAAATGTGG
1 TGAAATGTGG
191633934 TGAAATGTGG
1 TGAAATGTGG
191633944 TGAAA
1 TGAAA
191633949 ATGAATTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.28
Consensus pattern (10 bp):
TGAAATGTGG
Found at i:191639059 original size:28 final size:28
Alignment explanation
Indices: 191639028--191639083 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
191639018 TTACAAGAAG
191639028 CTTTGGGTACAAAATTGAATTTTAGTAC
1 CTTTGGGTACAAAATTGAATTTTAGTAC
191639056 CTTTGGGTACAAAATTGAATTTTAGTAC
1 CTTTGGGTACAAAATTGAATTTTAGTAC
191639084 TGCGTTTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (28 bp):
CTTTGGGTACAAAATTGAATTTTAGTAC
Found at i:191647732 original size:67 final size:67
Alignment explanation
Indices: 191647624--191647753 Score: 233
Period size: 67 Copynumber: 1.9 Consensus size: 67
191647614 AATAGAAAAA
* **
191647624 TATTATCATTTTATATCATCTTCCCCAAATTAAGACATGGAAACCCTAGGAAAGGGAAGTGTTTT
1 TATTATCATTTTATATCATATTCCCCAAATTAAGACATGGAAACCCTAGGAAAGAAAAGTGTTTT
191647689 TC
66 TC
191647691 TATTATCATTTTATATCATATTCCCCAAATTAAGACATGGAAACCCTAGGAAAGAAAAGTGTT
1 TATTATCATTTTATATCATATTCCCCAAATTAAGACATGGAAACCCTAGGAAAGAAAAGTGTT
191647754 CAAGCAAGCT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (67 bp):
TATTATCATTTTATATCATATTCCCCAAATTAAGACATGGAAACCCTAGGAAAGAAAAGTGTTTT
TC
Found at i:191651047 original size:43 final size:42
Alignment explanation
Indices: 191651018--191651145 Score: 127
Period size: 42 Copynumber: 3.0 Consensus size: 42
191651008 ATGTTATCAA
* *
191651018 ATAT-CGATGCCACTGTCCCAGACAGGGTCTCACACGAAATC
1 ATATGCGATGCCAATGTCCCAGACAGGGTCTTACACGAAATC
*
191651059 ATATGCGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTC
1 ATATGCGATGCCAATGTCCCAGACAGGGTCTTACACG-AAA--TC
* * * * *
191651104 AAAT-CGGTTCCAAGGTCCCAGA-TGTGGTCTTACACGAAATC
1 ATATGCGATGCCAATGTCCCAGACAG-GGTCTTACACGAAATC
191651145 A
1 A
191651146 GATATCGAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
41 7 0.10
42 29 0.40
43 6 0.08
44 26 0.36
45 5 0.07
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (42 bp):
ATATGCGATGCCAATGTCCCAGACAGGGTCTTACACGAAATC
Found at i:191654389 original size:46 final size:46
Alignment explanation
Indices: 191654339--191654514 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
191654329 TGGTTGAGCA
191654339 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
191654385 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
191654430 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
191654478 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
191654515 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:191654495 original size:93 final size:93
Alignment explanation
Indices: 191654336--191654507 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
191654326 GGATGGTTGA
* *
191654336 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
191654401 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
191654429 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
191654494 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
191654508 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:191662226 original size:22 final size:22
Alignment explanation
Indices: 191662201--191662244 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
191662191 TTCGTATAAC
191662201 ATAATTAAATCAAATACTTTCA
1 ATAATTAAATCAAATACTTTCA
191662223 ATAATTAAATCAAATACTTTCA
1 ATAATTAAATCAAATACTTTCA
191662245 CATACTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (22 bp):
ATAATTAAATCAAATACTTTCA
Found at i:191662951 original size:43 final size:43
Alignment explanation
Indices: 191662903--191663014 Score: 179
Period size: 43 Copynumber: 2.6 Consensus size: 43
191662893 CCGGCATTAC
* * *
191662903 GCCTGCTAGGCACAAAGGCCTGAATACACATCACCGGCAGGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
191662946 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
191662989 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
191663015 TAATACCAGC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.31, C:0.32, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:191671880 original size:40 final size:39
Alignment explanation
Indices: 191671770--191671882 Score: 165
Period size: 38 Copynumber: 2.9 Consensus size: 39
191671760 GAATGTTCGA
191671770 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
* *
191671809 ATGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
* * *
191671847 GTGATATCCGGGTTATGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
191671883 GGTTACCATA
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
38 36 0.55
39 13 0.20
40 17 0.26
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
Found at i:191671898 original size:40 final size:40
Alignment explanation
Indices: 191671777--191671912 Score: 134
Period size: 40 Copynumber: 3.5 Consensus size: 40
191671767 CGAGTGATAT
* * **
191671777 CCGGGCTA-AGCCCGAAGGCAATTGTGCGAGCTATGAT-A
1 CCGGGCTATATCCCGAAGGCAATTGTGCGAGTTACCATAA
* *** *
191671815 CCGGGCTA-AGCCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTATATCCCGAAGGCAATTGTGCGAGTTACCATAA
* * * *
191671854 CCGGGTTATGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTATATCCCGAAGGCAATTGTGCGAGTTACCATAA
191671894 CCGGGCTATATCCCGAAGG
1 CCGGGCTATATCCCGAAGG
191671913 TGTTTGAACA
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
38 35 0.43
39 7 0.09
40 40 0.49
ACGTcount: A:0.23, C:0.24, G:0.32, T:0.22
Consensus pattern (40 bp):
CCGGGCTATATCCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:191677422 original size:40 final size:40
Alignment explanation
Indices: 191677365--191677550 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
191677355 TCGAATGATG
* * *
191677365 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
191677405 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
191677445 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
191677485 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
191677526 -CCGGGCTATGTCCCGAAGACATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
191677551 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:191682272 original size:93 final size:93
Alignment explanation
Indices: 191682160--191682331 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
191682150 CGCCCATAAG
* *
191682160 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
191682225 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
191682253 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
191682318 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
191682332 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:191682328 original size:46 final size:46
Alignment explanation
Indices: 191682153--191682328 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
191682143 TGTAACCCGC
* * *
191682153 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
191682199 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
191682249 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
191682292 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
191682329 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:191689995 original size:143 final size:143
Alignment explanation
Indices: 191689787--191690083 Score: 585
Period size: 143 Copynumber: 2.1 Consensus size: 143
191689777 TGAGTTAAAT
*
191689787 TTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
191689852 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
191689917 GTGTGCATGAGTA
131 GTGTGCATGAGTA
191689930 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
191689995 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
191690060 GTGTGCATGAGTA
131 GTGTGCATGAGTA
191690073 TTCGGCCATGC
1 TTCGGCCATGC
191690084 TATAGAATTT
Statistics
Matches: 153, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 153 1.00
ACGTcount: A:0.21, C:0.10, G:0.29, T:0.39
Consensus pattern (143 bp):
TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
GTGTGCATGAGTA
Found at i:191690759 original size:29 final size:29
Alignment explanation
Indices: 191690726--191690857 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
191690716 GTGACGAGAT
*
191690726 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
191690755 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
191690784 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
191690813 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
191690842 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
191690858 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:191697952 original size:143 final size:143
Alignment explanation
Indices: 191697744--191698040 Score: 585
Period size: 143 Copynumber: 2.1 Consensus size: 143
191697734 TGAGTTAAAT
*
191697744 TTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
191697809 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
191697874 GTGTGCATGAGTA
131 GTGTGCATGAGTA
191697887 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
191697952 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
191698017 GTGTGCATGAGTA
131 GTGTGCATGAGTA
191698030 TTCGGCCATGC
1 TTCGGCCATGC
191698041 TATAGAATTT
Statistics
Matches: 153, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 153 1.00
ACGTcount: A:0.21, C:0.10, G:0.29, T:0.39
Consensus pattern (143 bp):
TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
GTGTGCATGAGTA
Found at i:191698714 original size:29 final size:29
Alignment explanation
Indices: 191698681--191698809 Score: 138
Period size: 29 Copynumber: 4.6 Consensus size: 29
191698671 GTGACGAGAT
*
191698681 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
191698710 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
191698739 AGGCACT-A--GTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
191698765 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
191698794 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
191698810 AGCTCGAAGG
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
26 21 0.25
28 1 0.01
29 63 0.74
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:191698758 original size:55 final size:55
Alignment explanation
Indices: 191698692--191698800 Score: 146
Period size: 55 Copynumber: 2.0 Consensus size: 55
191698682 GGCACTAAGT
* * * ** *
191698692 GTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATAAGGCACTA
1 GTGCATGCTGGAAAAATATGACACTAAGTGTGCAAGCTGGAAAAATAAGGCACTA
* *
191698747 GTGCATGCTGGAAAAATATGACACTATGTGTGCAAGCTGGAAAAATACGGCACT
1 GTGCATGCTGGAAAAATATGACACTAAGTGTGCAAGCTGGAAAAATAAGGCACT
191698801 GGGTGTGCGA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (55 bp):
GTGCATGCTGGAAAAATATGACACTAAGTGTGCAAGCTGGAAAAATAAGGCACTA
Found at i:191702775 original size:30 final size:30
Alignment explanation
Indices: 191702739--191702839 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
191702729 GACAAGATTG
* * *
191702739 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
191702769 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
191702797 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
191702826 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
191702840 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:191702851 original size:29 final size:28
Alignment explanation
Indices: 191702768--191702843 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
191702758 AAAATTGTAC
* *
191702768 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
191702796 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
191702825 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
191702844 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:191710658 original size:30 final size:30
Alignment explanation
Indices: 191710622--191710722 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
191710612 GACAAGATTG
* * *
191710622 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
191710652 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
191710680 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
191710709 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
191710723 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:191710734 original size:29 final size:28
Alignment explanation
Indices: 191710651--191710726 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
191710641 AAAATTGTAC
* *
191710651 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
191710679 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
191710708 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
191710727 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:191718544 original size:30 final size:30
Alignment explanation
Indices: 191718508--191718608 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
191718498 GACAAGATTG
* * *
191718508 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
191718538 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
191718566 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
191718595 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
191718609 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:191718620 original size:29 final size:28
Alignment explanation
Indices: 191718537--191718612 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
191718527 AAAATTGTAC
* *
191718537 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
191718565 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
191718594 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
191718613 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:191726407 original size:30 final size:30
Alignment explanation
Indices: 191726371--191726471 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
191726361 GACAAGATTG
* * *
191726371 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
191726401 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
191726429 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
191726458 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
191726472 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:191726483 original size:29 final size:28
Alignment explanation
Indices: 191726400--191726475 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
191726390 AAAATTGTAC
* *
191726400 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
191726428 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
191726457 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
191726476 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:191734288 original size:29 final size:28
Alignment explanation
Indices: 191734221--191734292 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
191734211 AAAATTGTAC
* * *
191734221 AGCACTAAGTGTGCGAGTTTGATTCTAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
191734249 AGCACTAAGTGTGCGAG-CTGAAAATATAT
1 AGCACTAAGTGTGCGAGTCTG--AATATAT
191734278 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
191734293 GATTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.05
28 17 0.44
29 20 0.51
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGAATATAT
Found at i:191741983 original size:70 final size:71
Alignment explanation
Indices: 191741900--191742062 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
191741890 CGATTTGTCT
191741900 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
191741964 CTTTCA
66 CTTTCA
*
191741970 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
191742035 CTTTCA
66 CTTTCA
191742041 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
191742063 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:191742100 original size:71 final size:70
Alignment explanation
Indices: 191741900--191742096 Score: 267
Period size: 70 Copynumber: 2.8 Consensus size: 70
191741890 CGATTTGTCT
* * *
191741900 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
191741964 CTTTCA
65 CTTTCA
* * *
191741970 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
191742035 CTTTCA
65 CTTTCA
* *
191742041 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
191742097 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 52 0.44
71 43 0.36
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:191745684 original size:31 final size:31
Alignment explanation
Indices: 191745641--191745704 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
191745631 CCTTTTCATA
191745641 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
191745672 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
191745703 TT
1 TT
191745705 ACTGTAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:191745973 original size:23 final size:24
Alignment explanation
Indices: 191745897--191746016 Score: 165
Period size: 24 Copynumber: 5.0 Consensus size: 24
191745887 GCTTTATCAT
*
191745897 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
191745922 ATAACTAGGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
191745947 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
191745970 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
191745994 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
191746017 GCACTTCCTC
Statistics
Matches: 87, Mismatches: 3, Indels: 11
0.86 0.03 0.11
Matches are distributed among these distances:
23 24 0.28
24 34 0.39
25 23 0.26
26 6 0.07
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:191746003 original size:47 final size:47
Alignment explanation
Indices: 191745918--191746015 Score: 162
Period size: 47 Copynumber: 2.1 Consensus size: 47
191745908 CCTAGCCTCT
191745918 TTTAATAACTAGGGCAAAGCCCTTTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTAGGGCAAAGCCC-TTTTTAATAACTGGGGCATAAGCCC
*
191745966 TTTAATAACTGGGGCATAAGCCC-TTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTAGGGCA-AAGCCCTTTTTAATAACTGGGGCATAAGCCC
191746013 TTT
1 TTT
191746016 TGCACTTCCT
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
47 27 0.56
48 15 0.31
49 6 0.12
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (47 bp):
TTTAATAACTAGGGCAAAGCCCTTTTTAATAACTGGGGCATAAGCCC
Found at i:191746080 original size:11 final size:11
Alignment explanation
Indices: 191746065--191746120 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
191746055 TCATAAATAC
191746065 ATCATGTGCAT
1 ATCATGTGCAT
*
191746076 GTCAT-T-CAT
1 ATCATGTGCAT
191746085 ATCATGTGCAT
1 ATCATGTGCAT
*
191746096 ATCA--TACAT
1 ATCATGTGCAT
*
191746105 GTCATGTGCAT
1 ATCATGTGCAT
191746116 ATCAT
1 ATCAT
191746121 AATACCATGT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 14 0.40
10 2 0.06
11 19 0.54
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:191746090 original size:20 final size:20
Alignment explanation
Indices: 191746065--191746130 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
191746055 TCATAAATAC
* *
191746065 ATCATGTGCATGTCATTCAT
1 ATCATGTGCATATCATACAT
191746085 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
191746105 GTCATGTGCATATCATA-AT
1 ATCATGTGCATATCATACAT
*
191746124 ACCATGT
1 ATCATGT
191746131 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
19 7 0.17
20 34 0.83
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:191747363 original size:18 final size:17
Alignment explanation
Indices: 191747336--191747369 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
191747326 TAGGGAAGAA
191747336 AATAAGAAGAGAAAACT
1 AATAAGAAGAGAAAACT
191747353 AATACAGAAGAGAAAAC
1 AATA-AGAAGAGAAAAC
191747370 GGCACAGCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.65, C:0.09, G:0.18, T:0.09
Consensus pattern (17 bp):
AATAAGAAGAGAAAACT
Found at i:191750288 original size:22 final size:21
Alignment explanation
Indices: 191750240--191750288 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
191750230 TACTTTAGCT
*
191750240 ATTTATTTTTCTTTCAATCTA
1 ATTTATTTTTATTTCAATCTA
* *
191750261 ATTTTATTTTTAATTTTATTCTA
1 A-TTTATTTTT-ATTTCAATCTA
191750284 ATTTA
1 ATTTA
191750289 CTAATTTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 13 0.57
23 9 0.39
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTATTTTTATTTCAATCTA
Found at i:191759728 original size:28 final size:28
Alignment explanation
Indices: 191759663--191759763 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
191759653 ATAGTGAATC
*
191759663 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
191759692 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
191759720 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
191759750 CGCACACTTAGTGC
1 CGCACACTTAGTGC
191759764 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:191763561 original size:40 final size:39
Alignment explanation
Indices: 191763396--191763579 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
191763386 AAATTGAATG
* * *
191763396 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
191763436 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
191763476 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
191763516 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
191763555 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
191763580 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:191763604 original size:80 final size:81
Alignment explanation
Indices: 191763436--191763624 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
191763426 GCTGGAAATT
* * * *
191763436 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
191763501 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
191763517 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
191763580 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
191763596 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
191763625 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:191777069 original size:40 final size:39
Alignment explanation
Indices: 191777024--191777153 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
191777014 CGGAATATAA
191777024 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
191777064 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
191777104 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
191777144 CCGGATATAA
1 CCGGATATAA
191777154 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:191777168 original size:40 final size:40
Alignment explanation
Indices: 191777040--191777191 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
191777030 ATAACCATGT
* * *
191777040 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
191777080 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
191777120 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
191777160 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
191777192 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Done.