Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 272 of 316
Found at i:90255541 original size:15 final size:15
Alignment explanation
Indices: 90255521--90255549 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
90255511 AGAATTTTGA
90255521 AATAAAACGTACCTT
1 AATAAAACGTACCTT
90255536 AATAAAACGTACCT
1 AATAAAACGTACCT
90255550 GGTCTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAACGTACCTT
Found at i:90256064 original size:183 final size:183
Alignment explanation
Indices: 90255745--90256119 Score: 669
Period size: 183 Copynumber: 2.0 Consensus size: 183
90255735 ATAGTACCTA
* *
90255745 AAACAGATGTAAGATTATAAGGGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTT
1 AAACACATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTT
*
90255810 ATCTATATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGT
66 ATCTATATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGC
* *
90255875 AGGAGGAGCAGGAAGTAGTAACTGAAATACATACAACATTAATTCACTAATAC
131 AGGAGGAGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATAC
*
90255928 AAACACATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATGAAAACTTT
1 AAACACATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTT
90255993 ATCTATATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGC
66 ATCTATATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGC
* *
90256058 AGGAGGAGCAGGAAGCAGTAACTGAAACATATACAACATTAATTCACTAATAT
131 AGGAGGAGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATAC
*
90256111 AGACACATG
1 AAACACATG
90256120 GAACTATATC
Statistics
Matches: 183, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
183 183 1.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (183 bp):
AAACACATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTT
ATCTATATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGC
AGGAGGAGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATAC
Found at i:90256209 original size:14 final size:13
Alignment explanation
Indices: 90256190--90256219 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
90256180 CAATATAATT
90256190 TTACTTCATATATA
1 TTACTTCATATA-A
90256204 TTACTTCATATAA
1 TTACTTCATATAA
90256217 TTA
1 TTA
90256220 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:90258546 original size:21 final size:21
Alignment explanation
Indices: 90258522--90258565 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
90258512 ATCCCTATAA
* *
90258522 CCTTAATCCCTAAAGTATATC
1 CCTTAAACCCTAAACTATATC
90258543 CCTTAAACCCTAAACTATATC
1 CCTTAAACCCTAAACTATATC
90258564 CC
1 CC
90258566 CTAACCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (21 bp):
CCTTAAACCCTAAACTATATC
Found at i:90258799 original size:7 final size:7
Alignment explanation
Indices: 90258787--90258813 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
90258777 CCCTAAGTAT
90258787 TAACCCC
1 TAACCCC
90258794 TAACCCC
1 TAACCCC
90258801 TAACCCC
1 TAACCCC
90258808 TAACCC
1 TAACCC
90258814 TTAAATCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.56, G:0.00, T:0.15
Consensus pattern (7 bp):
TAACCCC
Found at i:90258833 original size:21 final size:22
Alignment explanation
Indices: 90258802--90258845 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
90258792 CCTAACCCCT
*
90258802 AACCCCTAACCCTTAAATCATA
1 AACCCCTAACCCTTAAACCATA
90258824 AACCCC-AACCCTTAAACCATA
1 AACCCCTAACCCTTAAACCATA
90258845 A
1 A
90258846 TACATAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (22 bp):
AACCCCTAACCCTTAAACCATA
Found at i:90258976 original size:41 final size:41
Alignment explanation
Indices: 90258919--90259138 Score: 343
Period size: 41 Copynumber: 5.4 Consensus size: 41
90258909 AACCCTAAAC
*
90258919 TTTTTAGCGGCATTTTACCAAAAGCGCCGTTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGTTAATGCTCTTA
**
90258960 TTTTTAGCGGCGTTTTACCAAAAGCGCCGTTAATGCTCCGA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGTTAATGCTCTTA
* *
90259001 TTTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGTTAATGCTCTTA
90259042 TTTTTAGCGGCGTTTTACCAAAAGCGCCGTTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGTTAATGCTCTTA
* * * *
90259083 TTTTTAGCGACGTTTTACCAAAAGCGCCGCTATTGCTC-TG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGTTAATGCTCTTA
*
90259123 TTTTTAGCGACGTTTT
1 TTTTTAGCGGCGTTTT
90259139 TGGTAAAACG
Statistics
Matches: 166, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 17 0.10
41 149 0.90
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACCAAAAGCGCCGTTAATGCTCTTA
Found at i:90264636 original size:34 final size:34
Alignment explanation
Indices: 90264598--90264685 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 34
90264588 CATATTGTAC
* * * *
90264598 TGAAATGGGCTAAGTCCCAGACTGCCATTGTTAT
1 TGAAATGGGCTAAGGCCCAAACTGCCACTGCTAT
* *
90264632 TGAAATGGGCTTAGGCCCAAACTGCTACTGCTAT
1 TGAAATGGGCTAAGGCCCAAACTGCCACTGCTAT
*
90264666 TGAAAGAGGGGCTAAGGCCC
1 TG-AA-ATGGGCTAAGGCCC
90264686 TGAACTGGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
34 30 0.68
35 2 0.05
36 12 0.27
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (34 bp):
TGAAATGGGCTAAGGCCCAAACTGCCACTGCTAT
Found at i:90279749 original size:34 final size:34
Alignment explanation
Indices: 90279684--90279777 Score: 84
Period size: 34 Copynumber: 2.8 Consensus size: 34
90279674 TTGTTTGCAT
* * * *
90279684 ACTG-TACTGAAATGGGCTAAGGCCTAGACTGCC
1 ACTGCTACTGAAACGGGATAAGGCCCAAACTGCC
* * * *
90279717 ATTGTTACTGAAACGGGATCAGGCCCAAACTGCT
1 ACTGCTACTGAAACGGGATAAGGCCCAAACTGCC
90279751 ACTGCTACTGAAA-GAGGACTAAGGCCC
1 ACTGCTACTGAAACG-GGA-TAAGGCCC
90279778 CTAACTGGAA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
33 4 0.08
34 37 0.77
35 7 0.15
ACGTcount: A:0.30, C:0.24, G:0.26, T:0.20
Consensus pattern (34 bp):
ACTGCTACTGAAACGGGATAAGGCCCAAACTGCC
Found at i:90281945 original size:22 final size:22
Alignment explanation
Indices: 90281917--90281964 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
90281907 AAAAAGAGCG
90281917 ACAAGCAAATGATTTTTCTAAA
1 ACAAGCAAATGATTTTTCTAAA
*
90281939 ACAAGCAAATGATTTTTCTAGA
1 ACAAGCAAATGATTTTTCTAAA
90281961 ACAA
1 ACAA
90281965 CACTATCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (22 bp):
ACAAGCAAATGATTTTTCTAAA
Found at i:90285106 original size:30 final size:29
Alignment explanation
Indices: 90285070--90285127 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
90285060 TGAGATGATT
*
90285070 TATCAT-AGAAATGTATATGTTATATGGAAA
1 TATCATAAGAAAAG-ATATG-TATATGGAAA
*
90285100 TATCATAAGAAAAGATATGTGTATGGAA
1 TATCATAAGAAAAGATATGTATATGGAA
90285128 GTTATTACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 8 0.32
30 11 0.44
31 6 0.24
ACGTcount: A:0.45, C:0.03, G:0.19, T:0.33
Consensus pattern (29 bp):
TATCATAAGAAAAGATATGTATATGGAAA
Found at i:90289913 original size:40 final size:40
Alignment explanation
Indices: 90289861--90289962 Score: 125
Period size: 40 Copynumber: 2.5 Consensus size: 40
90289851 ATATCGGTCT
* *
90289861 CGCATACTAAGTGCCATATATAGCCAAATCTATT-CCGAAA
1 CGCACACTAAGTGCCATATATAGCCAAAGCT-TTGCCGAAA
** ** *
90289901 CGCACACTAAGTGCCATATATAGCTGAAGCTTTGTTGAAT
1 CGCACACTAAGTGCCATATATAGCCAAAGCTTTGCCGAAA
90289941 CGCACACTAAGTGCCATATATA
1 CGCACACTAAGTGCCATATATA
90289963 TATTTGAATT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 2 0.04
40 52 0.96
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (40 bp):
CGCACACTAAGTGCCATATATAGCCAAAGCTTTGCCGAAA
Found at i:90319020 original size:21 final size:20
Alignment explanation
Indices: 90318996--90319035 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
90318986 CATGTATTTT
90318996 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
90319017 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
90319036 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:90319043 original size:20 final size:21
Alignment explanation
Indices: 90319001--90319043 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
90318991 ATTTTAATGA
*
90319001 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
90319022 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
90319042 TT
1 TT
90319044 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:90330521 original size:16 final size:16
Alignment explanation
Indices: 90330500--90330538 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
90330490 AATAAGCAGA
90330500 GAATAGAATTTGTTGT
1 GAATAGAATTTGTTGT
90330516 GAATAGAATTTGTTGT
1 GAATAGAATTTGTTGT
*
90330532 AAATAGA
1 GAATAGA
90330539 GAAACTGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (16 bp):
GAATAGAATTTGTTGT
Found at i:90333330 original size:29 final size:29
Alignment explanation
Indices: 90333298--90333356 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
90333288 AAAACAAAGA
*
90333298 ATAAATTAAAAGTAAATCTAAATCCTAAT
1 ATAAACTAAAAGTAAATCTAAATCCTAAT
* *
90333327 ATAAACTGAAAGTAAATCTCAATCCTAAT
1 ATAAACTAAAAGTAAATCTAAATCCTAAT
90333356 A
1 A
90333357 AAAGAGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.29
Consensus pattern (29 bp):
ATAAACTAAAAGTAAATCTAAATCCTAAT
Found at i:90333768 original size:23 final size:23
Alignment explanation
Indices: 90333738--90333786 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
90333728 CATAGTGACC
90333738 AATATTGGTTTAGAACGCATTTT
1 AATATTGGTTTAGAACGCATTTT
*
90333761 AATATTGGTTTAGAATGCATTTT
1 AATATTGGTTTAGAACGCATTTT
90333784 AAT
1 AAT
90333787 GGTATCCTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.45
Consensus pattern (23 bp):
AATATTGGTTTAGAACGCATTTT
Found at i:90349997 original size:22 final size:22
Alignment explanation
Indices: 90349970--90350045 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
90349960 ATGTGCATAT
90349970 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
90349992 ATGTGATGAATGTG-AGCAT-GCATA
1 ATGTGAT-AA-G-GCCGAATGGC-CA
90350016 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
90350039 ATGTGAT
1 ATGTGAT
90350046 GAATGTGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:90350138 original size:47 final size:47
Alignment explanation
Indices: 90349963--90350129 Score: 280
Period size: 47 Copynumber: 3.6 Consensus size: 47
90349953 GATGTGAATG
90349963 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
1 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
90350010 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
1 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
* * * *
90350057 TGCATATGTGTGATAATGCCGAATGGCCAATGTGATGAATATGAACA
1 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
* *
90350104 TGCATATATGTGGTAAAGCCGAATGG
1 TGCATATATGTGATAAGGCCGAATGG
90350130 ATAGTGTGAA
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 113 1.00
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (47 bp):
TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
Found at i:90350348 original size:37 final size:37
Alignment explanation
Indices: 90350293--90350479 Score: 293
Period size: 37 Copynumber: 5.1 Consensus size: 37
90350283 GGAAATATAT
*
90350293 TCCGAGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
90350330 TCCGGGTAAGACCCGATGACTACGTGTGAAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
90350367 TCCGGGTAAGACCCGATGACTACGTGTGAAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
90350404 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * * *
90350441 TCTGAGTAAGACCCGATAACTTCGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
90350478 TC
1 TC
90350480 TGAGCTAAAG
Statistics
Matches: 142, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 142 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:90360548 original size:40 final size:41
Alignment explanation
Indices: 90360443--90360588 Score: 185
Period size: 40 Copynumber: 3.6 Consensus size: 41
90360433 GCTACTCGTT
*
90360443 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
*
90360483 CAAATGCCTTCGGGACTTAACCCGGATTA-AGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
* * * *
90360523 CAAATGCCTTC-GGATCTTAGTCCGGA-TATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAAC-TCGCA
90360564 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
90360589 CATCATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
39 5 0.05
40 74 0.80
41 14 0.15
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
Found at i:90368183 original size:48 final size:48
Alignment explanation
Indices: 90368119--90368356 Score: 225
Period size: 48 Copynumber: 5.0 Consensus size: 48
90368109 GGGTTATTGC
* * *
90368119 GATCCCGTATAGGACCATATCTGGGATATGGCATCGGCATCGATGTGA
1 GATCCCATATAAGACCATATCTGGGATATGGCATCGGCATCGATATGA
* * * *
90368167 GATCCTATATAAGACCATGTCTGGGACATGGCATCAGCATC-ATTATGA
1 GATCCCATATAAGACCATATCTGGGATATGGCATCGGCATCGA-TATGA
* * ** * *
90368215 -AACCCTATATAAGACCACATCTGGGACCTGGCATCGACGTCG-TATGA
1 GATCCC-ATATAAGACCATATCTGGGATATGGCATCGGCATCGATATGA
* * * * **
90368262 GGTCCCGTATAAGACTACATCTGGGATATGGCATCGGCGCCGAGT-TGA
1 GATCCCATATAAGACCATATCTGGGATATGGCATCGGCATCGA-TATGA
* *
90368310 GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCG-TATGA
1 GATCCCATATAAGACCATATCTGGGATATGGCATCGGCATCGATATGA
90368357 TATGTATGAG
Statistics
Matches: 152, Mismatches: 31, Indels: 15
0.77 0.16 0.08
Matches are distributed among these distances:
46 1 0.01
47 42 0.28
48 108 0.71
49 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (48 bp):
GATCCCATATAAGACCATATCTGGGATATGGCATCGGCATCGATATGA
Found at i:90368342 original size:95 final size:96
Alignment explanation
Indices: 90368126--90368356 Score: 218
Period size: 95 Copynumber: 2.4 Consensus size: 96
90368116 TGCGATCCCG
* * * * **
90368126 TATAGGACCATATCTGGGATATGGCATCGGCATCGATGTGAGATCCTATATAAGACCATGTCTGG
1 TATAAGACCATATCTGGGATATGGCATCGACATCGATATGAGATCCCATATAAGACCACATCTGG
* *
90368191 GACATGGCATCAGCATCATTATGAAACCCTA
66 GACATGGCATCAGCACCAGTATGAAACCCTA
* ** * * * *
90368222 TATAAGACCACATCTGGGACCTGGCATCGACGTCG-TATGAGGTCCCGTATAAGACTACATCTGG
1 TATAAGACCATATCTGGGATATGGCATCGACATCGATATGAGATCCCATATAAGACCACATCTGG
* * * *
90368286 GATATGGCATCGGCGCCGAGT-TGAGATCCC-A
66 GACATGGCATCAGCACC-AGTATGA-AACCCTA
* * *
90368317 TGTAAGACCATATCTGGGATATGGCATTGGCATCG-TATGA
1 TATAAGACCATATCTGGGATATGGCATCGACATCGATATGA
90368357 TATGTATGAG
Statistics
Matches: 107, Mismatches: 26, Indels: 5
0.78 0.19 0.04
Matches are distributed among these distances:
95 72 0.67
96 35 0.33
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (96 bp):
TATAAGACCATATCTGGGATATGGCATCGACATCGATATGAGATCCCATATAAGACCACATCTGG
GACATGGCATCAGCACCAGTATGAAACCCTA
Found at i:90379247 original size:47 final size:47
Alignment explanation
Indices: 90379193--90379575 Score: 532
Period size: 47 Copynumber: 8.1 Consensus size: 47
90379183 TTAGGATTTT
** * * *
90379193 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
90379240 ATGTGATGAATGTGAACCTGTATATATGTGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATA--T--GTGATAAGGCCGAATGGCCA
* * * *
90379291 ATGTGATGAATGTGAACACGCGTATGTGTGATATGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
90379338 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
90379385 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
90379432 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
90379479 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
** * *
90379526 ATGTGATGAATGTGAACATATATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
90379573 ATG
1 ATG
90379576 CGAAATGTGT
Statistics
Matches: 310, Mismatches: 22, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
47 269 0.87
49 2 0.01
51 39 0.13
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:90379685 original size:46 final size:46
Alignment explanation
Indices: 90379549--90379685 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
90379539 GAACATATAT
* * *
90379549 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAGATGTGTATGAGATGG
* *
90379595 ATATGAGGTAAAGCCGAATGGCTAATGCGAGACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAGATGTGTATGAGATGG
* * *
90379641 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAGATGTGTATGAGATG
90379686 TGTATATATA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.34, C:0.09, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAGATGTGTATGAGATGG
Found at i:90379898 original size:37 final size:36
Alignment explanation
Indices: 90379868--90379978 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 36
90379858 GTGGTGACTA
90379868 TGTCCGGGTAAGACCGGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAGACC-GATGACTACGTGTGGAGATTT
90379905 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAGA-CCGATGACTACGTGTGGAGATTT
* * *
90379942 TGTTCGGGTAAGACTCGATAACTTCGTGTGGAGATTT
1 TGTCCGGGTAAGAC-CGATGACTACGTGTGGAGATTT
90379979 CATCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
36 1 0.01
37 66 0.96
38 2 0.03
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (36 bp):
TGTCCGGGTAAGACCGATGACTACGTGTGGAGATTT
Found at i:90381593 original size:15 final size:15
Alignment explanation
Indices: 90381573--90381603 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
90381563 AGTGATTAGC
90381573 TCCTTATTGCTTTCA
1 TCCTTATTGCTTTCA
90381588 TCCTTATTGCTTTCA
1 TCCTTATTGCTTTCA
90381603 T
1 T
90381604 AAACAACATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.06, T:0.55
Consensus pattern (15 bp):
TCCTTATTGCTTTCA
Found at i:90385940 original size:13 final size:13
Alignment explanation
Indices: 90385922--90385948 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
90385912 GAAAATAGCT
90385922 ATGTTGATGATGA
1 ATGTTGATGATGA
90385935 ATGTTGATGATGA
1 ATGTTGATGATGA
90385948 A
1 A
90385949 GTTATTGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.37
Consensus pattern (13 bp):
ATGTTGATGATGA
Found at i:90389903 original size:84 final size:85
Alignment explanation
Indices: 90389727--90389907 Score: 217
Period size: 84 Copynumber: 2.2 Consensus size: 85
90389717 ATAACCTGAT
* * *
90389727 TTCATCACCGGCAATAAGCCTGCTAGACCTTTAAGTCCGATATCAGTTCATCGGCATTATGCCTG
1 TTCATCACCGGCAATAAGCCTACTAGACCTTTAAGTCCGATATCAGTTCACCGGCATTACGCCTG
**
90389792 CTAGGCTCGGAGCCCGATAA
66 CTAGGCTCAAAGCCCGATAA
* * * *
90389812 -T-ATTCACCGGC-TTAAAGCTTACTAGACCTTTAAGTCCGATATCATTTCACCGGTATTACGCC
1 TTCA-TCACCGGCAAT-AAGCCTACTAGACCTTTAAGTCCGATATCAGTTCACCGGCATTACGCC
* *
90389874 TGTTAGGCTCAAAGCTCGA-AA
64 TGCTAGGCTCAAAGCCCGATAA
90389895 TTCATCACCGGCA
1 TTCATCACCGGCA
90389908 CAAGGCCTGC
Statistics
Matches: 80, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
83 4 0.05
84 75 0.94
85 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (85 bp):
TTCATCACCGGCAATAAGCCTACTAGACCTTTAAGTCCGATATCAGTTCACCGGCATTACGCCTG
CTAGGCTCAAAGCCCGATAA
Found at i:90403694 original size:45 final size:45
Alignment explanation
Indices: 90403630--90403719 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
90403620 CATGAGCGTA
90403630 AGATCGTGGGAGTCGACCATGAGCGATTTCATGGGCTTAGGCCGT
1 AGATCGTGGGAGTCGACCATGAGCGATTTCATGGGCTTAGGCCGT
90403675 AGATCGTGGGAGTCGACCATGAGCGATTTCATGGGCTTAGGCCGT
1 AGATCGTGGGAGTCGACCATGAGCGATTTCATGGGCTTAGGCCGT
90403720 TTTGGGCCAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.24
Consensus pattern (45 bp):
AGATCGTGGGAGTCGACCATGAGCGATTTCATGGGCTTAGGCCGT
Found at i:90404375 original size:34 final size:34
Alignment explanation
Indices: 90404311--90404375 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 34
90404301 TTACCGTTGC
* * * *
90404311 TGTAATGGGTTAAGGCCCACACTGATACTGATAT
1 TGTAATGGGCTAAAGCCCACACTAAAACTGATAT
90404345 TGTAATGGGCTAAAGCCCTA-ACTAAAACTGA
1 TGTAATGGGCTAAAGCCC-ACACTAAAACTGA
90404376 ACTGTTACTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
34 25 0.96
35 1 0.04
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (34 bp):
TGTAATGGGCTAAAGCCCACACTAAAACTGATAT
Found at i:90404748 original size:22 final size:22
Alignment explanation
Indices: 90404720--90404769 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
90404710 CCACGTTCAT
90404720 GCAACATACTTTAAAAGCTTAC
1 GCAACATACTTTAAAAGCTTAC
* *
90404742 GCAACATATTTTAAAAGCTTCC
1 GCAACATACTTTAAAAGCTTAC
90404764 GCAACA
1 GCAACA
90404770 AACAATGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.26
Consensus pattern (22 bp):
GCAACATACTTTAAAAGCTTAC
Found at i:90408843 original size:15 final size:15
Alignment explanation
Indices: 90408820--90408853 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
90408810 ACGTGGTCTT
*
90408820 ACATGTATCGAAGTC
1 ACATATATCGAAGTC
90408835 ACATATATCGAAGTC
1 ACATATATCGAAGTC
90408850 ACAT
1 ACAT
90408854 GTCGATGCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (15 bp):
ACATATATCGAAGTC
Found at i:90408908 original size:56 final size:56
Alignment explanation
Indices: 90408834--90409179 Score: 459
Period size: 56 Copynumber: 6.2 Consensus size: 56
90408824 GTATCGAAGT
*
90408834 CACATATATC-GAAGTCACATGTCGATGCCAACGTATTAAACGTGGTCTTACTCGCA
1 CACATATATCGGAA-TCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCA
* * * *
90408890 CACATATATCGGAATCACAAATCGATGCC-AC-TTTCTCAGACAG-GTTCTTACTCGCA
1 CACATATATCGGAATCACATATCGATGCCAACGTAT-T-AAAC-GTGGTCTTACTCGCA
* *
90408946 CACATATATCGAAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTAGCA
1 CACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCA
* * *
90409002 CACATATATCGGAATCACATATCGATGCCAATGTAGTAAACGTGGTCTTACTCACA
1 CACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCA
** *
90409058 CACATATATC-GAAGTCACATATCGATGCCAACGTATTAAATATGGTCTTACTCTCA
1 CACATATATCGGAA-TCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCA
* * * *
90409114 CACATATATCAGAATCATATATCGATGCTAACGTATTAAACGTGGTCTTACTCACA
1 CACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCA
90409170 CACATATATC
1 CACATATATC
90409180 AATGCCATGA
Statistics
Matches: 255, Mismatches: 26, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
54 2 0.01
55 7 0.03
56 234 0.92
57 10 0.04
58 2 0.01
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (56 bp):
CACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCA
Found at i:90410335 original size:13 final size:13
Alignment explanation
Indices: 90410317--90410342 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90410307 ACAAACAATA
90410317 AAATTTTCACACG
1 AAATTTTCACACG
90410330 AAATTTTCACACG
1 AAATTTTCACACG
90410343 TATAATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:90415589 original size:56 final size:56
Alignment explanation
Indices: 90415529--90415888 Score: 491
Period size: 56 Copynumber: 6.4 Consensus size: 56
90415519 TCCCAAACAG
90415529 GGTCTTACTCACACACATATATC-GAAGTCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCACACACATATATCAGAA-TCACATATCGATGCCAACGTATTAAACGT
* * * *
90415585 GGTCTTACTCGCACACATATATCAGAATCACAAATCGATGCC-AC-TTTCTCAGACAG-
1 GGTCTTACTCACACACATATATCAGAATCACATATCGATGCCAACGTAT-T-AAAC-GT
* *
90415641 GTTCTTACTCGCACACATATATC-GAAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCACACACATATATCAG-AATCACATATCGATGCCAACGTATTAAACGT
* ** *
90415697 GGTCTTACT-AGCACACATATATCGGAATCACATATCGATGCCAATTTAGTAAACGT
1 GGTCTTACTCA-CACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* *
90415753 GGTCTTACTCACACACATATATC-GAAGTCATATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCACACACATATATCAGAA-TCACATATCGATGCCAACGTATTAAACGT
*
90415809 GGTCTTACTCTCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCACACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
90415865 GGTCTTACTCACACACATATATCA
1 GGTCTTACTCACACACATATATCA
90415889 ATTCCATGAT
Statistics
Matches: 269, Mismatches: 22, Indels: 26
0.85 0.07 0.08
Matches are distributed among these distances:
54 2 0.01
55 8 0.03
56 245 0.91
57 12 0.04
58 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCACACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:90415658 original size:112 final size:112
Alignment explanation
Indices: 90415498--90415887 Score: 556
Period size: 112 Copynumber: 3.5 Consensus size: 112
90415488 TCTTACATGT
* * *
90415498 AATCACATATTGATGCCACTGTCCCAAACAGGGTCTTACTCACACACATATATCGAAGTCACATA
1 AATCACATATCGATGCCACTTTCTCAAACAGGGTCTTACTCACACACATATATCGAAGTCACATA
90415563 TCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCAG
66 TCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCAG
* * * * *
90415610 AATCACAAATCGATGCCACTTTCTCAGACAGGTTCTTACTCGCACACATATATCGAAATCACATA
1 AATCACATATCGATGCCACTTTCTCAAACAGGGTCTTACTCACACACATATATCGAAGTCACATA
* *
90415675 TCGATGCCAACGTATTAAACGTGGTCTTACTAGCACACATATATCGG
66 TCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCAG
* * *
90415722 AATCACATATCGATGCCAATTTAGT-AAAC-GTGGTCTTACTCACACACATATATCGAAGTCATA
1 AATCACATATCGATGCCACTTT-CTCAAACAG-GGTCTTACTCACACACATATATCGAAGTCACA
* *
90415785 TATCGATGCCAACGTATTAAATGTGGTCTTACTCTCACACATATATCAG
64 TATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCAG
*
90415834 AATCACATATCGATGCCAACGTAT-T-AAAC-GTGGTCTTACTCACACACATATATC
1 AATCACATATCGATGCC-AC-TTTCTCAAACAG-GGTCTTACTCACACACATATATC
90415888 AATTCCATGA
Statistics
Matches: 250, Mismatches: 24, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
111 1 0.00
112 245 0.98
113 2 0.01
114 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.28
Consensus pattern (112 bp):
AATCACATATCGATGCCACTTTCTCAAACAGGGTCTTACTCACACACATATATCGAAGTCACATA
TCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCAG
Found at i:90420355 original size:12 final size:12
Alignment explanation
Indices: 90420338--90420363 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
90420328 TTCCACGGAG
90420338 ACACTTTCAAAA
1 ACACTTTCAAAA
90420350 ACACTTTCAAAA
1 ACACTTTCAAAA
90420362 AC
1 AC
90420364 TTTGGGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (12 bp):
ACACTTTCAAAA
Found at i:90421702 original size:43 final size:43
Alignment explanation
Indices: 90421634--90421846 Score: 218
Period size: 43 Copynumber: 5.0 Consensus size: 43
90421624 TAAAGCTCAT
* * * * *
90421634 ACAATGCC-ATATCCCAGATATGGTCTTTCATGTTATCACATA
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATA
* * * * * * *
90421676 TCGATGCCACTGTCCCAGACAGGGTCTTGCACGAAATTGA-ATA
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAA-TCACATA
* * * *
90421719 ACGATGCCAATGTCCCATACATGGTCTTACACGAAACCGA-ATA
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATC-ACATA
90421762 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-A
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATA
*
90421804 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
1 -ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
90421847 CTCGGTAACC
Statistics
Matches: 142, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
42 8 0.06
43 132 0.93
44 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATA
Found at i:90423858 original size:35 final size:35
Alignment explanation
Indices: 90423813--90423884 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
90423803 GATCAACCTG
90423813 TATACATTCCACTGAAACAATGTGCCCCAAAAATC
1 TATACATTCCACTGAAACAATGTGCCCCAAAAATC
*
90423848 TATACCTTCCACTGAAACAATGTGCCCCAAAAATC
1 TATACATTCCACTGAAACAATGTGCCCCAAAAATC
90423883 TA
1 TA
90423885 ACTTCTCGGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.29, G:0.08, T:0.24
Consensus pattern (35 bp):
TATACATTCCACTGAAACAATGTGCCCCAAAAATC
Found at i:90436022 original size:13 final size:13
Alignment explanation
Indices: 90436002--90436063 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 13
90435992 TTAGGATGAT
90436002 TTTA-TTTTAATA
1 TTTATTTTTAATA
90436014 TTTATTTTTAATTA
1 TTTATTTTTAA-TA
*
90436028 TTGTA-TTTAAATA
1 TT-TATTTTTAATA
90436041 -TTATTTTTAA-A
1 TTTATTTTTAATA
*
90436052 TATATTTATTAA
1 TTTATTT-TTAA
90436064 GAATTTAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
11 3 0.07
12 15 0.37
13 12 0.29
14 9 0.22
15 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (13 bp):
TTTATTTTTAATA
Found at i:90436061 original size:27 final size:26
Alignment explanation
Indices: 90436002--90436061 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 26
90435992 TTAGGATGAT
*
90436002 TTTATTTTAATATTTATTTTTAATTA
1 TTTATTTAAATATTTATTTTTAATTA
90436028 TTGTATTTAAATA-TTATTTTTAAATATA
1 TT-TATTTAAATATTTATTTTT-AAT-TA
90436056 TTTATT
1 TTTATT
90436062 AAGAATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 10 0.33
27 16 0.53
28 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTATTTAAATATTTATTTTTAATTA
Found at i:90437251 original size:22 final size:22
Alignment explanation
Indices: 90437223--90437267 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
90437213 TCAACAAAAG
90437223 TTAATTTATTATTAAAAACATA
1 TTAATTTATTATTAAAAACATA
90437245 TTAATTTATTATTAAAAACATA
1 TTAATTTATTATTAAAAACATA
90437267 T
1 T
90437268 ACTTTAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (22 bp):
TTAATTTATTATTAAAAACATA
Found at i:90439221 original size:9 final size:8
Alignment explanation
Indices: 90439202--90439309 Score: 55
Period size: 9 Copynumber: 12.9 Consensus size: 8
90439192 ATATGTATGC
90439202 TAATATGAA
1 TAATAT-AA
90439211 TAATGATAA
1 TAAT-ATAA
90439220 TAATACTAA
1 TAATA-TAA
90439229 TAATAATAA
1 TAAT-ATAA
*
90439238 -AATACGAA
1 TAATA-TAA
*
90439246 GAAGTATATA
1 TAA-TATA-A
90439256 TAATATAA
1 TAATATAA
90439264 TAATATTAA
1 TAATA-TAA
*
90439273 -AATACAA
1 TAATATAA
90439280 TAAT-TAA
1 TAATATAA
90439287 -AA-ATAA
1 TAATATAA
*
90439293 TATTATATA
1 TAATATA-A
90439302 TAAATATA
1 T-AATATA
90439310 TACAATATTC
Statistics
Matches: 78, Mismatches: 7, Indels: 27
0.70 0.06 0.24
Matches are distributed among these distances:
6 5 0.06
7 6 0.08
8 22 0.28
9 32 0.41
10 13 0.17
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (8 bp):
TAATATAA
Found at i:90441356 original size:126 final size:126
Alignment explanation
Indices: 90441116--90441423 Score: 553
Period size: 126 Copynumber: 2.4 Consensus size: 126
90441106 CAACTCATTT
* * **
90441116 CTCAGCGTGTCCTGAGGCTCAACTCATTTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATT
1 CTCATCGTATCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAAGTAGGAATT
*
90441181 AAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAGACAGAAATTGAAATTAC
65 AAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTAC
90441243 CTCATCGTATCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAGTAGGAATTA
1 CTCATCGTATCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAGTAGGAATTA
*
90441308 AAGGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTAC
66 AAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTAC
90441369 CTCATCGTATCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAA
1 CTCATCGTATCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAA
90441424 AGAAATTGAA
Statistics
Matches: 175, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
126 128 0.73
127 47 0.27
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (126 bp):
CTCATCGTATCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAGTAGGAATTA
AAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTAC
Found at i:90441462 original size:70 final size:71
Alignment explanation
Indices: 90441314--90441558 Score: 339
Period size: 72 Copynumber: 3.4 Consensus size: 71
90441304 ATTAAAGGGT
* * *
90441314 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTAT
1 TCAACTCACCTCTCGCAATATGAGTTGATT-TTGA-AAACAGAAATTGAAATTACCTCAACGTGT
*
90441379 CCTGAGGC
64 CTTGAGGC
* * *
90441387 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAA-AGAAATTGAAAATACCTTAACGTGTCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCT
90441451 TGAGGC
66 TGAGGC
** * *
90441457 TCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAATAGAAATTGAAATTACCTCAATGTGTC
1 TCAACTCACCTCTCGCAATATGAGTTG-ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTC
90441522 TTGAGGC
65 TTGAGGC
**
90441529 TCAACTCATTTCTCGCAATATGAGTTGATT
1 TCAACTCACCTCTCGCAATATGAGTTGATT
90441559 CTTTCAAAAA
Statistics
Matches: 157, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
70 52 0.33
71 16 0.10
72 61 0.39
73 28 0.18
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (71 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCT
TGAGGC
Found at i:90441731 original size:90 final size:87
Alignment explanation
Indices: 90441498--90441734 Score: 262
Period size: 88 Copynumber: 2.7 Consensus size: 87
90441488 TTGAAAATAG
* * ** * **
90441498 AAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTCTTT
1 AAATGGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTT
* *
90441563 CAAAAACATAATAATGAAAACAA
66 CAAAAACAGAAT-ATCAAAACAA
* * *
90441586 AAATGGAAAATACCTCGGTGTGACCTGGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATGGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTCTT
* *
90441651 TGAAAAACAGAAT-TCAAAAGGC-T
65 TCAAAAACAGAATATCAAAA--CAA
* *
90441674 TAATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAATGGAAAATACCTC-G-GTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
90441735 AATTAAAACA
Statistics
Matches: 126, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
87 5 0.04
88 64 0.51
89 17 0.13
90 40 0.32
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (87 bp):
AAATGGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTT
CAAAAACAGAATATCAAAACAA
Found at i:90442429 original size:74 final size:73
Alignment explanation
Indices: 90442301--90443022 Score: 920
Period size: 74 Copynumber: 9.7 Consensus size: 73
90442291 ACGTGAGCCA
* ** * * *
90442301 AGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTG-AAAGTAGAATTTGAAAATACCTCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAATTACCTCA
90442365 GCGTGCTCC-G
64 GCGTG-TCCTG
90442375 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTGAAATTACCTCAG
90442440 CGTGTCCTG
65 CGTGTCCTG
*
90442449 AGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAATAGGAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC----A--G---A--AATTGAA
* * *
90442514 AATACCTCAACGTGTCTTG
55 ATTACCTCAGCGTGTCCTG
* *
90442533 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAATTACCTCA
** *
90442598 ATGTGTCTTG
64 GCGTGTCCTG
*
90442608 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-ACAACAGAAATTGAAATTACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAATTACCTCA
*
90442672 GCGTGTTCTG
64 GCGTGTCCTG
*
90442682 AGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACA-AAATTGAAATTACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGC
90442745 GTGTCCTG
66 GTGTCCTG
** ** *
90442753 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTGTTTTACAACAGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TTGAAAAACAGAAATTGAAATTACCTCAG
90442818 CGTGTCCTG
65 CGTGTCCTG
* *
90442827 AGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATTGAAATTACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGC
90442891 GTGTCCTG
66 GTGTCCTG
** *
90442899 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTG-ACAACAGAAATTGAAATTACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAATTACCTCA
90442963 GCGTGTCCTG
64 GCGTGTCCTG
* *
90442973 AGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT
90443023 AAAAGGCTTA
Statistics
Matches: 577, Mismatches: 46, Indels: 52
0.85 0.07 0.08
Matches are distributed among these distances:
71 65 0.11
72 86 0.15
73 18 0.03
74 268 0.46
75 65 0.11
76 4 0.01
77 2 0.00
79 1 0.00
80 1 0.00
82 2 0.00
84 54 0.09
85 3 0.01
86 8 0.01
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (73 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGC
GTGTCCTG
Found at i:90442477 original size:233 final size:224
Alignment explanation
Indices: 90442113--90443008 Score: 972
Period size: 233 Copynumber: 4.0 Consensus size: 224
90442103 AATTGAAAAA
* * * * *
90442113 CAGAAATGGAAAATACCTCAGCATGTTCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGGTTT
1 CAGAAATTGAAAATACCTCAGCGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
** * * * * *
90442178 TTGCCAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGA
65 TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
90442243 GTTGATTTAGAAAACAGACATAAAAACAGAAATTGAAAGTGA-CTCAACACGTGAGCCAAGGCTC
130 GTTGATTT-G-AAA-AGACATAAAAACAGAAATTGAAA-T-ACCTC-A-ACGTG-TCCGAGGCTC
90442307 AACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAG
187 AACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAG
* * *
90442345 TAGAATTTGAAAATACCTCGGCGTGCTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
*
90442410 TTGAAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATG
65 TTG-AAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
* * *
90442475 AGTTGATTTTTGAAAA-ACATAAATTGAATAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTC
129 AGTTGA--TTTGAAAAGACATAAA---AACAGAAATTG-AAATACCTCAACGTGTC-CGAGGCTC
* *
90442539 AACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAG
187 AACTCACCTTTCGCAATATGAGTTGATTTTTTTG-AAAG
** *
90442578 CAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGTC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--T
* * *
90442643 TTTTG-ACAACAGAAATTGAAATTACCTCAGCGTGTTCTGAGGCTCAACTCACCTCTAGCAATAT
63 TTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
* *
90442707 GAGTTGATTT----TG----AAAAACA-AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACT
128 GAGTTGATTTGAAAAGACATAAAAACAGAAATTGAAA-TACCTCAACGTGTCC-GAGGCTCAACT
*
90442763 CA-TTTCTCGCAATATGAGTTGATTTGTTTT-ACAA-
191 CACCTT-TCGCAATATGAGTTGATTT-TTTTGA-AAG
* *
90442797 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TT
1 CAGAAATTGAAAATACCTCAGCGTGTCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* **
90442861 TTGAAAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
65 TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
**** *
90442926 GTTGATTT-TTTTGAC-----AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA
130 GTTGATTTGAAAAGACATAAAAACAGAAATTGAAA-TACCTCAACGTGTCC-GAGGCTCAACTCA
* *
90442985 CCTCTAGCAATATGAGTTGATTTT
193 CCTTTCGCAATATGAGTTGATTTT
90443009 GAAAAACAAA
Statistics
Matches: 580, Mismatches: 56, Indels: 69
0.82 0.08 0.10
Matches are distributed among these distances:
216 5 0.01
217 63 0.11
219 66 0.11
220 111 0.19
221 7 0.01
224 3 0.01
231 11 0.02
232 105 0.18
233 183 0.32
234 14 0.02
235 12 0.02
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (224 bp):
CAGAAATTGAAAATACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTGAAAAGACATAAAAACAGAAATTGAAATACCTCAACGTGTCCGAGGCTCAACTCACCT
TTCGCAATATGAGTTGATTTTTTTGAAAG
Found at i:90442955 original size:146 final size:146
Alignment explanation
Indices: 90442507--90443022 Score: 865
Period size: 146 Copynumber: 3.5 Consensus size: 146
90442497 ATTGAATAGG
* * * *
90442507 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTT
1 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA--TT-TT
* * * ** * **
90442572 GAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
63 GAAAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGT
90442637 TGATTTTTTTGACAACAGA
128 TGATTTTTTTGACAACAGA
*
90442656 AATTGAAATTACCTCAGCGTGTTCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAA
1 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAA
90442721 AAAC-AAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
66 AAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
90442785 TTTGTTTT-ACAACAGA
131 TTT-TTTTGACAACAGA
90442801 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAA
1 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAA
90442866 AAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
66 AAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
90442931 TTTTTTTGACAACAGA
131 TTTTTTTGACAACAGA
90442947 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAA
1 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAA
90443012 AAACAAAAATT
66 AAACAAAAATT
90443023 AAAAGGCTTA
Statistics
Matches: 350, Mismatches: 14, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
145 136 0.39
146 159 0.45
147 2 0.01
149 53 0.15
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (146 bp):
AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAA
AAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
TTTTTTTGACAACAGA
Found at i:90443145 original size:69 final size:70
Alignment explanation
Indices: 90443026--90443199 Score: 194
Period size: 69 Copynumber: 2.5 Consensus size: 70
90443016 AAAAATTAAA
* * * **
90443026 AGGCTTAACTCACTTCTCGCAATATGAGTCA-ATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTGATTTTTAAAACATAAACTAAAAATACCTCAACGTG
90443090 CCCCG
66 CCCCG
** *
90443095 AGGCTCAACTCACTTCTCGCAATATGAGATGATTTTTTTAA-A-AAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAG-TGATTTTTAAAACATAAACTAAAAATACCTCAACGT
* **
90443158 GTCTTG
65 GCCCCG
90443164 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAG-TGATTTT
90443200 CCTTGGAAAG
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
68 1 0.01
69 81 0.90
70 3 0.03
71 5 0.06
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.30
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTGATTTTTAAAACATAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:90458763 original size:3 final size:3
Alignment explanation
Indices: 90458748--90458839 Score: 50
Period size: 3 Copynumber: 31.3 Consensus size: 3
90458738 TGCTAATATG
* * ** *
90458748 AAT AAT GAT AAT AAT ACT AAT AAT AAT AAT AA- AAT ACG AAG AAGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
* * *
90458793 -AT ATAT AAT -AT AAT AAT AAT ATT AA- AAT -AC AAT AATT AAA AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
90458836 AAT A
1 AAT A
90458840 TTATATATAA
Statistics
Matches: 67, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
2 8 0.12
3 53 0.79
4 6 0.09
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:90458850 original size:38 final size:39
Alignment explanation
Indices: 90458757--90458852 Score: 99
Period size: 38 Copynumber: 2.5 Consensus size: 39
90458747 GAATAATGAT
* * *
90458757 AATAATACTA-ATAATAATAATAAAATACGAAGAAGTATA
1 AATAATATTATAT-ATAATATTAAAATACGAAGAAGTAAA
* * * *
90458796 TATAATATAATA-ATAATATTAAAATAC-AATAATTAAA
1 AATAATATTATATATAATATTAAAATACGAAGAAGTAAA
90458833 AATAATATTATATATAATAT
1 AATAATATTATATATAATAT
90458853 ATACAATATT
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
37 17 0.37
38 21 0.46
39 7 0.15
40 1 0.02
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (39 bp):
AATAATATTATATATAATATTAAAATACGAAGAAGTAAA
Found at i:90465307 original size:177 final size:177
Alignment explanation
Indices: 90464740--90465923 Score: 1346
Period size: 177 Copynumber: 6.7 Consensus size: 177
90464730 AATAGGACTG
* * * *
90464740 GTGGCTCAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCCTCGATGTACTCCTC
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCAC
* * *
90464805 CACTGCTTAGGGAAAT-AGATCTTCAATCTTCAGTCTGCTTCTTTGCTACCTCAGGAAGATAAGA
66 TACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGA
90464869 CTACCATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCC-
131 CTACCATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCA
* * * *
90464915 GATGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCGTCCTCGATCTGCTCCA
1 G-TGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCA
* * *
90464980 CTACTTCTTAAGGAGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTA---C-----GATAAG
65 CTACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAG
* ** * * **
90465037 ACTACAATCGCCAACCTGCTCTCTTGCTACCTTAAAGAGATAAGGCTG
130 ACTACCATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCA
* * * * *
90465085 GTAGCTCAAATCTACTCCATTGTCGATACATGGAGATAAGATTCGCCATCTTTGATCTACTCCAC
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCAC
*
90465150 TACTGCTTAGGGAGATAAGATATTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGA
66 TACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGA
* *
90465215 CTACCATCTTCAACCTACTCTCTTGTTACCTCAGAGAGATAAGGCCA
131 CTACCATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCA
* *
90465262 GTGGCTAAAATCTGCTCCATTGCCTG-TACATGGAGATACGATTCGCCATCTTCGATCTACTCCG
1 GTGGCTAAAATCTGCTCCATTGCC-GATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCA
* *
90465326 CTACTGCTTAGGGAGATAAGATCTTCAATCTTCAATCTACTTCCTTGCTACCTCAGGAAGATAAG
65 CTACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAG
* * * * * * * *
90465391 ACTA-TATCTTGAACCTGCTC-CACTACAACTTCAGGGAGATAAGGCTA
130 ACTACCATCTTCAACCTGCTCTC-TTGCTACCTCAGAGAGATAAGGCCA
* * * * * * * *
90465438 GTGACTTAAATCTGCTCCATTACCGGTACATAGAGATAAGATTTGTCGA-CTTCGACCTACTCCA
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCG-CCATCTTCGATCTACTCCA
* ** *
90465502 CTGCAACTTCAGGGAAATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAA
65 CTACTGCTT-AGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAA
* * *
90465567 GACTATCATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAATGTCA
129 GACTACCATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCA
* * *
90465616 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCGC
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCAC
* ** *
90465681 TACTGCTTAGGG-GATAAGATCTTTCAATCTTCAGTCTGCTTTCTTGCTATGTCAGAAAGATAAG
66 TACTGCTTAGGGAGATAAGATC-TTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAG
* * * * * * * **
90465745 ACTA-TATCTTGAACCTGCTC-CACTGCAACTTTAGGGAGATAAGGCTG
130 ACTACCATCTTCAACCTGCTCTC-TTGCTACCTCAGAGAGATAAGGCCA
* * * * * * **
90465792 GTGACTTAAATCTGCTCCATTGCCTG-TACATGGAGATAAGATTCGTCGTCTTTGGTCTGTTCCA
1 GTGGCTAAAATCTGCTCCATTGCC-GATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCA
* * * * * * * *
90465856 CTACTGTTTAGGGAAATAAGACCTGCAATCCTCAGTCT-ATTCCACTG-TAACCTCAGGGAGATA
65 CTACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCC-TTGCT-ACCTCAGGAAGATA
90465919 AGACT
128 AGACT
90465924 TGTCTATTGA
Statistics
Matches: 850, Mismatches: 134, Indels: 49
0.82 0.13 0.05
Matches are distributed among these distances:
169 148 0.17
170 1 0.00
172 1 0.00
174 1 0.00
175 8 0.01
176 291 0.34
177 311 0.37
178 88 0.10
179 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (177 bp):
GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCAC
TACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGA
CTACCATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCA
Found at i:90465587 original size:44 final size:45
Alignment explanation
Indices: 90465514--90465610 Score: 114
Period size: 44 Copynumber: 2.2 Consensus size: 45
90465504 GCAACTTCAG
**
90465514 GGAA-ATAAGATCTTCAATCTTCAGTCTGCT-TCCTTGCTACCTCA
1 GGAAGATAAGATCTTCAATCTTCAACCTGCTCT-CTTGCTACCTCA
90465558 GGAAGATAAGA-CTATC-ATCTTCAACCTGCTCTCTTGCTACCTCA
1 GGAAGATAAGATCT-TCAATCTTCAACCTGCTCTCTTGCTACCTCA
90465602 -GAGAGATAA
1 GGA-AGATAA
90465611 TGTCAGTGGC
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
43 2 0.04
44 36 0.77
45 9 0.19
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (45 bp):
GGAAGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCA
Found at i:90466113 original size:22 final size:22
Alignment explanation
Indices: 90466088--90466180 Score: 61
Period size: 22 Copynumber: 4.3 Consensus size: 22
90466078 ATGCTTATGC
90466088 CAAATAATTAGGATGCTATGAT
1 CAAATAATTAGGATGCTATGAT
* * **
90466110 CAAATGAATCA-AATGC--TCCT
1 CAAAT-AATTAGGATGCTATGAT
* * *
90466130 -AACTAAATATGATGCTTATG-T
1 CAAATAATTAGGATGC-TATGAT
90466151 CAAATAATTAGGATGCTATGAT
1 CAAATAATTAGGATGCTATGAT
90466173 CGAAATAA
1 C-AAATAA
90466181 ATCAAATGCT
Statistics
Matches: 51, Mismatches: 12, Indels: 15
0.65 0.15 0.19
Matches are distributed among these distances:
18 3 0.06
19 7 0.14
20 2 0.04
21 5 0.10
22 24 0.47
23 10 0.20
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (22 bp):
CAAATAATTAGGATGCTATGAT
Found at i:90466212 original size:64 final size:64
Alignment explanation
Indices: 90466078--90466523 Score: 732
Period size: 64 Copynumber: 7.0 Consensus size: 64
90466068 TCATGTATCT
* * * *
90466078 ATGCTTATGCCAAATAATTAGGATGCTATGATC-AAATGAATCAAATGCTCCTAACTAAATATG
1 ATGCTCATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
90466141 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTTCTAACTAGATGTG
1 ATGCTCATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* *
90466205 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTTCTAACTAGATGTG
1 ATGCTCATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* *
90466269 ATACTCATGTCAAATAATTAAGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTCATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
90466333 ATGCTCATGTCAAATAATTAGGATGTTATGATAGAAATGAATCGAATGCTCCTAACTAGATGTG
1 ATGCTCATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* *
90466397 ATGCTCATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAATGCTCTTAACTAGATGTG
1 ATGCTCATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
*
90466461 ATGCTCATGTCAAATAATTAGGATGATATGATCGAAATGAATCAAATGCTCCTAACTAGATGT
1 ATGCTCATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGT
90466524 ATTATGAATG
Statistics
Matches: 359, Mismatches: 23, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
63 32 0.09
64 327 0.91
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (64 bp):
ATGCTCATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:90467623 original size:6 final size:6
Alignment explanation
Indices: 90467614--90467671 Score: 82
Period size: 6 Copynumber: 9.7 Consensus size: 6
90467604 TGGCCTCTCC
* *
90467614 TTTTTA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTATT-T
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TT-TTAA
90467662 TTTTAA TTTT
1 TTTTAA TTTT
90467672 TCTTTTTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
5 2 0.04
6 43 0.91
7 2 0.04
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTTAA
Found at i:90467677 original size:15 final size:14
Alignment explanation
Indices: 90467659--90467697 Score: 62
Period size: 13 Copynumber: 2.8 Consensus size: 14
90467649 ATTTTAATTA
90467659 TTTTTTTAATTTTTC
1 TTTTTTT-ATTTTTC
90467674 TTTTTTTATTTTTC
1 TTTTTTTATTTTTC
90467688 -TTTTTTATTT
1 TTTTTTTATTT
90467698 CAATCTCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 10 0.42
14 7 0.29
15 7 0.29
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTTATTTTTC
Found at i:90467677 original size:24 final size:23
Alignment explanation
Indices: 90467614--90467686 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 23
90467604 TGGCCTCTCC
90467614 TTTTT-ATTTTAATTTTAATT-TT
1 TTTTTAATTTTAATTTT-ATTATT
*
90467636 AATTTTAATTTTAATTTTAATTATT
1 -TTTTTAATTTTAATTTT-ATTATT
** *
90467661 TTTTTAATTTTTCTTTTTTTATT
1 TTTTTAATTTTAATTTTATTATT
90467684 TTT
1 TTT
90467687 CTTTTTTATT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 12 0.28
24 29 0.67
25 2 0.05
ACGTcount: A:0.23, C:0.01, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTTAATTTTAATTTTATTATT
Found at i:90467679 original size:14 final size:14
Alignment explanation
Indices: 90467660--90467694 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
90467650 TTTTAATTAT
90467660 TTTTTTAATTTTTC
1 TTTTTTAATTTTTC
*
90467674 TTTTTTTATTTTTC
1 TTTTTTAATTTTTC
90467688 TTTTTTA
1 TTTTTTA
90467695 TTTCAATCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTAATTTTTC
Found at i:90467680 original size:18 final size:18
Alignment explanation
Indices: 90467644--90467714 Score: 51
Period size: 18 Copynumber: 4.1 Consensus size: 18
90467634 TTAATTTTAA
** *
90467644 TTTTAATTTTAATTATTT
1 TTTTAATTTTTCTTTTTT
90467662 TTTTAATTTTTC---TTT
1 TTTTAATTTTTCTTTTTT
90467677 TTTT-ATTTTTCTTTTTT
1 TTTTAATTTTTCTTTTTT
* * *
90467694 ATTTCAATCTCTCTTTTTT
1 -TTTTAATTTTTCTTTTTT
90467713 TT
1 TT
90467715 AAGGTCTCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
14 7 0.16
15 7 0.16
17 3 0.07
18 15 0.35
19 11 0.26
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTAATTTTTCTTTTTT
Found at i:90469191 original size:25 final size:25
Alignment explanation
Indices: 90469154--90469213 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
90469144 GAAAGAATAT
* *
90469154 AAAAAGAACGAAAGAATATTTACTC
1 AAAAAGAATGAAAGAATATTTACTA
*
90469179 AAAAGGAATGAAAGAATATTTACTA
1 AAAAAGAATGAAAGAATATTTACTA
90469204 AAAAAGAATG
1 AAAAAGAATG
90469214 CATTTCATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.58, C:0.07, G:0.15, T:0.20
Consensus pattern (25 bp):
AAAAAGAATGAAAGAATATTTACTA
Found at i:90474130 original size:23 final size:23
Alignment explanation
Indices: 90474096--90474141 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
90474086 CGGAGGTGAA
*
90474096 AACCTCATGAAAGCATAGTTTCT
1 AACCTCACGAAAGCATAGTTTCT
90474119 AACCTCACGAAAGCATAGTTTCT
1 AACCTCACGAAAGCATAGTTTCT
90474142 TACTCCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (23 bp):
AACCTCACGAAAGCATAGTTTCT
Found at i:90475911 original size:22 final size:24
Alignment explanation
Indices: 90475863--90475912 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
90475853 AAATACACAC
* *
90475863 AAAATATTTAAATGAGATATTATA
1 AAAATATTTAAATGAGATATGAAA
*
90475887 AAAATATTTAAGT-A-ATATGAAA
1 AAAATATTTAAATGAGATATGAAA
90475909 AAAA
1 AAAA
90475913 AACTTCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 10 0.43
23 1 0.04
24 12 0.52
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (24 bp):
AAAATATTTAAATGAGATATGAAA
Found at i:90477808 original size:3 final size:3
Alignment explanation
Indices: 90477791--90477901 Score: 84
Period size: 3 Copynumber: 37.7 Consensus size: 3
90477781 CATATGTGTC
* * * * *
90477791 ATT ATT ATA ACT ATT ATT ATT TTT ATT ACT ATT ATT ATT ATT -TT CATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
* * * * *
90477839 ACT ATT ATT ATT TTT ATT -TT ATT ATT ATT ATT ACT ATT -GT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
90477885 ACT ACT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
90477902 ATTGTTTTCC
Statistics
Matches: 84, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
2 5 0.06
3 78 0.93
4 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:90477818 original size:21 final size:19
Alignment explanation
Indices: 90477800--90477870 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 19
90477790 CATTATTATA
90477800 ACTATTATTATTTTTA-TT
1 ACTATTATTATTTTTATTT
*
90477818 ACTATTATTATTATTT-TCATC
1 ACTATTATTATT-TTTAT--TT
90477839 ACTATTATTATTTTTATTTT
1 ACTATTATTATTTTTA-TTT
*
90477859 ATTATTATTATT
1 ACTATTATTATT
90477871 ACTATTGTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
18 12 0.27
19 3 0.07
20 15 0.34
21 13 0.30
22 1 0.02
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (19 bp):
ACTATTATTATTTTTATTT
Found at i:90477996 original size:3 final size:3
Alignment explanation
Indices: 90477980--90478021 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
90477970 TTAAATACAT
* *
90477980 TTA TT- TTA -TA TTA TTA TTA TTA TCA TTA TTA TTA TCA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
90478022 TTCATCTCGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:90478009 original size:12 final size:12
Alignment explanation
Indices: 90477992--90478021 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
90477982 ATTTTATATT
90477992 ATTATTATTATC
1 ATTATTATTATC
90478004 ATTATTATTATC
1 ATTATTATTATC
90478016 ATTATT
1 ATTATT
90478022 TTCATCTCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:90481294 original size:19 final size:19
Alignment explanation
Indices: 90481272--90481317 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
90481262 CTTCCTTTCT
90481272 TTTGCATT-CATTCCATGCA
1 TTTGCATTGCATTCCAT-CA
* *
90481291 TTTGCATTGCATTGCATTA
1 TTTGCATTGCATTCCATCA
90481310 TTTGCATT
1 TTTGCATT
90481318 AAACTTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.48
Consensus pattern (19 bp):
TTTGCATTGCATTCCATCA
Found at i:90485280 original size:64 final size:64
Alignment explanation
Indices: 90485200--90485324 Score: 223
Period size: 64 Copynumber: 2.0 Consensus size: 64
90485190 ATAATAATAC
*
90485200 ATCTAGTTAGAAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATCAT
1 ATCTAGTTAGAAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCATCAT
* *
90485264 ATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGGCATAAGCAT
1 ATCTAGTTAGAAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
90485325 AGATACATGA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (64 bp):
ATCTAGTTAGAAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCATCAT
Found at i:90485620 original size:132 final size:132
Alignment explanation
Indices: 90485399--90486020 Score: 745
Period size: 132 Copynumber: 4.7 Consensus size: 132
90485389 TCACAAGCCT
* * * *
90485399 TATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGGTATTGTCTCCCTGAAGTTACAGTG
1 TATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTG
* * *
90485464 GAGCAGATCAAAGATGGTGAATCTTGTCT-TCCTAAAGTTGCAGTGAAGAAGATTTAAGCAACCA
66 GAGCAGATCGAAGACGGCGAATCTTGTCTCT-CTAAAGTTGCAGTGAAGAAGATTTAAGCAACCA
90485528 TCC
130 TCC
* ** * * * *
90485531 TATCTTCCTAAGTTGTAGTAGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAAGTTGCAATG
1 TATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTG
* * * * * *
90485596 GAGCAGATCGAAGACAGTGGATCTTGTCT-TCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCA
66 GAGCAGATCGAAGACGGCGAATCTTGTCTCT-CTAAAGTTGCAGTGAAGAAGATTTAAGCAACCA
*
90485660 TCT
130 TCC
** *
90485663 TATCTCCCTAAGTTGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTACAGTG
1 TATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTG
** * * *
90485728 GAATAGATCGAAGACGGCGAATCTTGTCTCTCTGAAGTTGCAGTGGAGCAGATTTAAGCCAA-CA
66 GAGCAGATCGAAGACGGCGAATCTTGTCTCTCTAAAGTTGCAGTGAAGAAGATTTAAG-CAACCA
90485792 TCC
130 TCC
90485795 TATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTG
1 TATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTG
* * * *
90485860 GAACAGATCGAAGACGGCAAATCTTGTCTCTCTGAAA-TTGCAATGAAGCAA-ATTTAAGCCACC
66 GAGCAGATCGAAGACGGCGAATCTTGTCTCTCT-AAAGTTGCAGTGAAG-AAGATTTAAGCAACC
90485923 ATCC
129 ATCC
* * * * * *
90485927 TATCTCCCTAAGCAGTAGTGGAGCAAGTTGAA-ATTACA-AGTCTTATCTCCCTAAAGTTGCAGT
1 TATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAGA-TCTTGTCTCCCTGAAGTTGCAGT
* * ** *
90485990 GGAGCACATTGAAGATAGCGAATCTTATCTC
65 GGAGCAGATCGAAGACGGCGAATCTTGTCTC
90486021 CTTGATGTTC
Statistics
Matches: 430, Mismatches: 54, Indels: 13
0.87 0.11 0.03
Matches are distributed among these distances:
130 1 0.00
131 52 0.12
132 371 0.86
133 6 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
TATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTG
GAGCAGATCGAAGACGGCGAATCTTGTCTCTCTAAAGTTGCAGTGAAGAAGATTTAAGCAACCAT
CC
Found at i:90485901 original size:45 final size:45
Alignment explanation
Indices: 90485571--90485901 Score: 189
Period size: 45 Copynumber: 7.5 Consensus size: 45
90485561 AAGATTGTAG
* * * * ***
90485571 ATCTTGTCTCCCTAAAGTTGCAATGGAGCAGATCGAAGACAGTGG
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCAA
* ** *
90485616 ATCTTGTCTTCCTGAAGTTGCAGT-GAAGCAGATTTAAG-C--CACC
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAA-CAGATCGAAGACGGCA-A
* * ** * ** *
90485659 ATCTTATCTCCCT-AAGTTGTAGTGGAGTAG-GCTGAAGATTGCAG
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATC-GAAGACGGCAA
* * *
90485703 ATCTTGTCTCCCTGAAGTTACAGTGGAATAGATCGAAGACGGCGA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCAA
* * **
90485748 ATCTTGTCTCTCTGAAGTTGCAGTGGAGCAGATTTAAG-C--CAA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCAA
* * ** * ** * ** *
90485790 CATCCTATCTCCCT-AAGCAGTAGTGGAGTAG-GCTGAAGATTGCAG
1 -ATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATC-GAAGACGGCAA
90485835 ATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCAA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCAA
* *
90485880 ATCTTGTCTCTCTGAAATTGCA
1 ATCTTGTCTCCCTGAAGTTGCA
90485902 ATGAAGCAAA
Statistics
Matches: 210, Mismatches: 60, Indels: 32
0.70 0.20 0.11
Matches are distributed among these distances:
42 32 0.15
43 23 0.11
44 27 0.13
45 126 0.60
46 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.28
Consensus pattern (45 bp):
ATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCAA
Found at i:90486035 original size:45 final size:44
Alignment explanation
Indices: 90485970--90486126 Score: 156
Period size: 44 Copynumber: 3.5 Consensus size: 44
90485960 TTACAAGTCT
*
90485970 TATCTCCCTAAAGTTGCAGTGGAGCACATTGAAGATAGCGAATCT
1 TATCTCCCTAAAGTTGCAGTGGAGCA-ATTGAAGATAGCGAATCG
* * * * * *
90486015 TATCTCCTTGATGTTCCAGTGGAGCAAGTTGAAGTTA-CAAATCG
1 TATCTCCCTAAAGTTGCAGTGGAGCAA-TTGAAGATAGCGAATCG
* * *
90486059 TATCTCTCTAAAGTTGCAGTGGGGCAGATTGAAGAT-GTGAATCG
1 TATCTCCCTAAAGTTGCAGTGGAGCA-ATTGAAGATAGCGAATCG
* * *
90486103 AATCTCCCTGAAGTTACAGTGGAG
1 TATCTCCCTAAAGTTGCAGTGGAG
90486127 TAGATCGAAG
Statistics
Matches: 88, Mismatches: 21, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
44 57 0.65
45 31 0.35
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (44 bp):
TATCTCCCTAAAGTTGCAGTGGAGCAATTGAAGATAGCGAATCG
Found at i:90486091 original size:44 final size:42
Alignment explanation
Indices: 90485943--90486092 Score: 147
Period size: 44 Copynumber: 3.4 Consensus size: 42
90485933 CCTAAGCAGT
* *
90485943 AGTGGAGCAAGTTGAAATTACAAGTCTTATCTCCCTAAAGTTGC
1 AGTGGAGCAA-TTGAAGTTACAAATCTTATCT-CCTAAAGTTGC
* * * * *
90485987 AGTGGAGCACATTGAAGATAGCGAATCTTATCTCCTTGATGTTCC
1 AGTGGAGCA-ATTGAAGTTA-CAAATCTTATCTCC-TAAAGTTGC
*
90486032 AGTGGAGCAAGTTGAAGTTACAAATCGTATCTCTCTAAAGTTGC
1 AGTGGAGCAA-TTGAAGTTACAAATCTTATCTC-CTAAAGTTGC
*
90486076 AGTGGGGCAGATTGAAG
1 AGTGGAGCA-ATTGAAG
90486093 ATGTGAATCG
Statistics
Matches: 86, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
44 50 0.58
45 36 0.42
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (42 bp):
AGTGGAGCAATTGAAGTTACAAATCTTATCTCCTAAAGTTGC
Found at i:90486094 original size:89 final size:88
Alignment explanation
Indices: 90485943--90486126 Score: 251
Period size: 89 Copynumber: 2.1 Consensus size: 88
90485933 CCTAAGCAGT
* *
90485943 AGTGGAGCAAGTTGAAATTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCACATTGAAGATAG
1 AGTGGAGCAAGTTGAAATTACAAATCGTATCTCCCTAAAGTTGCAGTGGAGCACATTGAAGAT-G
** * * *
90486008 CGAATCTTATCTCCTTGATGTTCC
65 CGAATCGAATCTCCCTGAAGTTAC
* * * * *
90486032 AGTGGAGCAAGTTGAAGTTACAAATCGTATCTCTCTAAAGTTGCAGTGGGGCAGATTGAAGATGT
1 AGTGGAGCAAGTTGAAATTACAAATCGTATCTCCCTAAAGTTGCAGTGGAGCACATTGAAGATGC
90486097 GAATCGAATCTCCCTGAAGTTAC
66 GAATCGAATCTCCCTGAAGTTAC
90486120 AGTGGAG
1 AGTGGAG
90486127 TAGATCGAAG
Statistics
Matches: 83, Mismatches: 12, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
88 26 0.31
89 57 0.69
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (88 bp):
AGTGGAGCAAGTTGAAATTACAAATCGTATCTCCCTAAAGTTGCAGTGGAGCACATTGAAGATGC
GAATCGAATCTCCCTGAAGTTAC
Found at i:90486111 original size:264 final size:264
Alignment explanation
Indices: 90485399--90486136 Score: 632
Period size: 264 Copynumber: 2.8 Consensus size: 264
90485389 TCACAAGCCT
* * ** * * * *
90485399 TATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGGTATTGTCTCCCTGAAGTTACAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCAAGCTGAAGATTACAGATCTTATCTCCCTAAAGTTACAGTG
* * * ** * * * * * * *
90485464 GAGCAGATCAAAGATGGTGAATCTTGTCT-TCCTAAAGTTGCAGTGAAGAAGATTTAAG-CAACC
66 GAACACATCGAAGACAGCGAATCTTATCTCT-CTGAAGTTCCAGTGGAGCAGATTGAAGACAA-C
* ** * * * * * *** *
90485527 ATCCTATCTTCCTAAGTTGTAGTAGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTAAAGTTGC
129 ATCCTATCTCCCTAAGCAGCAGTGGAGCAGACTGAAGATTGCAGATCGAATCTCCCTGAAGTTGC
* *** * * *
90485592 AATGGAGCAGATCGAAGACAGTGGATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCA
194 AGTGGAGCAGATCGAAGACAGCAAATCTTGTCTTCCTGAAATTGCAATGAAGCAAATTTAAGCCA
*
90485657 CCATCT
259 CCATCC
** * * * * *
90485663 TATCTCCCTAAGTTGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTACAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCAAGCTGAAGATTACAGATCTTATCTCCCTAAAGTTACAGTG
* * * * * * *
90485728 GAATAGATCGAAGACGGCGAATCTTGTCTCTCTGAAGTTGCAGTGGAGCAGATTTAAGCCAACAT
66 GAACACATCGAAGACAGCGAATCTTATCTCTCTGAAGTTCCAGTGGAGCAGATTGAAGACAACAT
* * * ***
90485793 CCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAG
131 CCTATCTCCCTAAGCAGCAGTGGAGCAGACTGAAGATTGCAGATCGAATCTCCCTGAAGTTGCAG
* *
90485858 TGGAACAGATCGAAGACGGCAAATCTTGTC-TCTCTGAAATTGCAATGAAGCAAATTTAAGCCAC
196 TGGAGCAGATCGAAGACAGCAAATCTTGTCTTC-CTGAAATTGCAATGAAGCAAATTTAAGCCAC
90485922 CATCC
260 CATCC
* *
90485927 TATCTCCCTAAGCAGTAGTGGAGCAAGTTGAA-ATTACA-AGTCTTATCTCCCTAAAGTTGCAGT
1 TATCTCCCTAAGCAGTAGTGGAGCAAGCTGAAGATTACAGA-TCTTATCTCCCTAAAGTTACAGT
* * * *
90485990 GGAGCACATTGAAGATAGCGAATCTTATCTC-CTTGATGTTCCAGTGGAGCA-AGTTGAAGTTAC
65 GGAACACATCGAAGACAGCGAATCTTATCTCTC-TGAAGTTCCAGTGGAGCAGA-TTGAAG--AC
* * ** * *
90486053 AA-ATCGTATCTCTCTAAAGTTGCAGTGGGGCAGATTGAAGATGTG-A-ATCGAATCTCCCTGAA
126 AACATCCTATCTCCCT-AAGCAGCAGTGGAGCAGACTGAAGAT-TGCAGATCGAATCTCCCTGAA
* *
90486115 GTTACAGTGGAGTAGATCGAAG
189 GTTGCAGTGGAGCAGATCGAAG
90486137 CACTAATACC
Statistics
Matches: 400, Mismatches: 64, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
262 3 0.01
263 72 0.18
264 296 0.74
265 27 0.07
266 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (264 bp):
TATCTCCCTAAGCAGTAGTGGAGCAAGCTGAAGATTACAGATCTTATCTCCCTAAAGTTACAGTG
GAACACATCGAAGACAGCGAATCTTATCTCTCTGAAGTTCCAGTGGAGCAGATTGAAGACAACAT
CCTATCTCCCTAAGCAGCAGTGGAGCAGACTGAAGATTGCAGATCGAATCTCCCTGAAGTTGCAG
TGGAGCAGATCGAAGACAGCAAATCTTGTCTTCCTGAAATTGCAATGAAGCAAATTTAAGCCACC
ATCC
Found at i:90487868 original size:3 final size:3
Alignment explanation
Indices: 90487851--90487960 Score: 84
Period size: 3 Copynumber: 37.7 Consensus size: 3
90487841 CATATGTGTC
* * * * *
90487851 ATT ATT ATA ACT ATT ATT ATT TTT ATT ACT ATT ATT ATT ATT -TT CATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
* * * *
90487899 ACT ATT ATT ATT -TT ATT -TT ATT ATT ATT ATT ACT ATT -GT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
90487944 ACT ACT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
90487961 ATTGTTTTCC
Statistics
Matches: 84, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
2 7 0.08
3 76 0.90
4 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:90487881 original size:18 final size:18
Alignment explanation
Indices: 90487855--90487929 Score: 78
Period size: 19 Copynumber: 3.9 Consensus size: 18
90487845 TGTGTCATTA
*
90487855 TTATAACTATTATTATTT
1 TTATTACTATTATTATTT
90487873 TTATTACTATTATTATTATT
1 TTATTACTATTATTA-T-TT
*
90487893 TTCATCACTATTATTATTT
1 TT-ATTACTATTATTATTT
* *
90487912 TATTTTATTATTATTATT
1 T-TATTACTATTATTATT
90487930 ACTATTGTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
18 14 0.29
19 16 0.33
20 6 0.12
21 12 0.25
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATTACTATTATTATTT
Found at i:90487958 original size:43 final size:44
Alignment explanation
Indices: 90487860--90487963 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 44
90487850 CATTATTATA
* * *
90487860 ACTATTATTATTTTTATTACTATTATTATTATTTTCATCACTATT
1 ACTATTATTA-TTTTATTACTATTATTACTATTGTCATCACTACT
* * *
90487905 ATTATT-TTATTTTATTATTATTATTACTATTGT-ATTACTACT
1 ACTATTATTATTTTATTACTATTATTACTATTGTCATCACTACT
*
90487947 ACTATTATTATTATATT
1 ACTATTATTATTTTATT
90487964 GTTTTCCCTT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 12 0.24
43 30 0.60
44 3 0.06
45 5 0.10
ACGTcount: A:0.30, C:0.09, G:0.01, T:0.61
Consensus pattern (44 bp):
ACTATTATTATTTTATTACTATTATTACTATTGTCATCACTACT
Found at i:90488052 original size:3 final size:3
Alignment explanation
Indices: 90488036--90488077 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
90488026 TTAAATACAT
* *
90488036 TTA TT- TTA -TA TTA TTA TTA TTA TCA TTA TTA TTA TCA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
90488078 TTCATCTCGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:90488065 original size:12 final size:12
Alignment explanation
Indices: 90488048--90488077 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
90488038 ATTTTATATT
90488048 ATTATTATTATC
1 ATTATTATTATC
90488060 ATTATTATTATC
1 ATTATTATTATC
90488072 ATTATT
1 ATTATT
90488078 TTCATCTCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:90494304 original size:23 final size:22
Alignment explanation
Indices: 90494261--90494306 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
90494251 TTTGTTTTTA
*
90494261 ACTTTAACTTTTATTTAAAAAC
1 ACTTTAACTTTTATATAAAAAC
* *
90494283 ACTTTAATTTGTTATATCAAAAC
1 ACTTTAACTT-TTATATAAAAAC
90494306 A
1 A
90494307 TAATATCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.41, C:0.13, G:0.02, T:0.43
Consensus pattern (22 bp):
ACTTTAACTTTTATATAAAAAC
Found at i:90494628 original size:31 final size:30
Alignment explanation
Indices: 90494571--90494653 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 30
90494561 AGTTGTGGAA
* *
90494571 TTAATCTTTATA-TTTTAATTTGATCAATT
1 TTAATCCTTATACTTTTAAATTGATCAATT
90494600 TTAATCCTTATACTTTTGAAATTGATCAATT
1 TTAATCCTTATACTTTT-AAATTGATCAATT
*
90494631 TTAATCAC-TGTACTTTTTAAATT
1 TTAATC-CTTATAC-TTTTAAATT
90494654 TTTAAATTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
29 11 0.23
30 4 0.09
31 27 0.57
32 5 0.11
ACGTcount: A:0.31, C:0.11, G:0.05, T:0.53
Consensus pattern (30 bp):
TTAATCCTTATACTTTTAAATTGATCAATT
Found at i:90494662 original size:31 final size:31
Alignment explanation
Indices: 90494571--90494664 Score: 86
Period size: 31 Copynumber: 3.1 Consensus size: 31
90494561 AGTTGTGGAA
* * *
90494571 TTAATCTTTATA-TTTT-AATTTGATCAATT
1 TTAATCCTTATACTTTTGAAATTGATAAATT
*
90494600 TTAATCCTTATACTTTTGAAATTGATCAATT
1 TTAATCCTTATACTTTTGAAATTGATAAATT
* * **
90494631 TTAATCAC-TGTACTTTTTAAATTTTTAAATT
1 TTAATC-CTTATACTTTTGAAATTGATAAATT
90494662 TTA
1 TTA
90494665 GTCTTAGCCC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
29 11 0.20
30 4 0.07
31 39 0.71
32 1 0.02
ACGTcount: A:0.32, C:0.10, G:0.04, T:0.54
Consensus pattern (31 bp):
TTAATCCTTATACTTTTGAAATTGATAAATT
Found at i:90495127 original size:14 final size:14
Alignment explanation
Indices: 90495108--90495145 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
90495098 GTTTGCCAGT
*
90495108 AAAATGTTTTCCGG
1 AAAATGATTTCCGG
*
90495122 AAAATGATTTCTGG
1 AAAATGATTTCCGG
90495136 AAAATGATTT
1 AAAATGATTT
90495146 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:90495161 original size:19 final size:20
Alignment explanation
Indices: 90495129--90495170 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
90495119 CGGAAAATGA
90495129 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
90495149 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
90495168 TTT
1 TTT
90495171 GATGTTTGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:90496728 original size:21 final size:21
Alignment explanation
Indices: 90496704--90496743 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
90496694 ATCAATGCCT
90496704 TTTTGTTCAACTCATCTACTG
1 TTTTGTTCAACTCATCTACTG
90496725 TTTTGTTCAACTCATCTAC
1 TTTTGTTCAACTCATCTAC
90496744 CTTCCTATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.25, G:0.07, T:0.47
Consensus pattern (21 bp):
TTTTGTTCAACTCATCTACTG
Found at i:90501619 original size:18 final size:18
Alignment explanation
Indices: 90501596--90501683 Score: 131
Period size: 18 Copynumber: 4.9 Consensus size: 18
90501586 CCCAACTACT
* *
90501596 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTATC
*
90501614 GTATACGTGAATAGTGTC
1 GTATACGTGAATAGTATC
* *
90501632 GTATATGTGAATAGTATT
1 GTATACGTGAATAGTATC
90501650 GTATACGTGAATAGTATC
1 GTATACGTGAATAGTATC
90501668 GTATACGTGAATAGTA
1 GTATACGTGAATAGTA
90501684 CCATAAACGG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 62 1.00
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (18 bp):
GTATACGTGAATAGTATC
Found at i:90509242 original size:30 final size:30
Alignment explanation
Indices: 90509206--90509266 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
90509196 GGTGGGGTGG
*
90509206 TTTTTTTGGACAATATATATGGAGTAATTA
1 TTTTTTTGGACAATAGATATGGAGTAATTA
90509236 TTTTTTTGGACAATAGATATGGAGTAATTA
1 TTTTTTTGGACAATAGATATGGAGTAATTA
90509266 T
1 T
90509267 GATAATTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (30 bp):
TTTTTTTGGACAATAGATATGGAGTAATTA
Found at i:90514050 original size:29 final size:29
Alignment explanation
Indices: 90514018--90514084 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
90514008 AAAGGCTTAA
90514018 ATATAATAGA-TTCTACCACTAGGGATCAC
1 ATATAATAGATTTC-ACCACTAGGGATCAC
* * * *
90514047 ATATAATTGATTTCGCCATTAGGGCTCAC
1 ATATAATAGATTTCACCACTAGGGATCAC
90514076 A-ATAATAGA
1 ATATAATAGA
90514085 GAACAGCCAC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 7 0.22
29 22 0.69
30 3 0.09
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (29 bp):
ATATAATAGATTTCACCACTAGGGATCAC
Found at i:90519074 original size:21 final size:20
Alignment explanation
Indices: 90519048--90519120 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 20
90519038 ACATATATGT
90519048 ATAATAATGATGAAAATAATA
1 ATAATAAT-ATGAAAATAATA
90519069 ATAATAATAGTGAAAATAAATA
1 ATAATAATA-TGAAAAT-AATA
90519091 AT-ATAATAAT-AAATATAATA
1 ATAATAAT-ATGAAA-ATAATA
* *
90519111 GTAACAATAT
1 ATAATAATAT
90519121 TAGTAATATG
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
20 11 0.24
21 27 0.60
22 7 0.16
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (20 bp):
ATAATAATATGAAAATAATA
Found at i:90519092 original size:16 final size:15
Alignment explanation
Indices: 90519063--90519105 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
90519053 AATGATGAAA
90519063 ATAATAAT-AATAAT
1 ATAATAATAAATAAT
90519077 AGTGAA-AATAAATAAT
1 A-T-AATAATAAATAAT
90519093 ATAATAATAAATA
1 ATAATAATAAATA
90519106 TAATAGTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 3 0.12
15 13 0.52
16 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:90519755 original size:22 final size:23
Alignment explanation
Indices: 90519728--90519775 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
90519718 ACTCTAATTT
* * *
90519728 TTTTTATTTTTTA-TTTCTTATA
1 TTTTTATATTATATTTTCGTATA
90519750 TTTTTATATTATATTTTCGTATA
1 TTTTTATATTATATTTTCGTATA
90519773 TTT
1 TTT
90519776 GTCGTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTTATATTATATTTTCGTATA
Found at i:90520312 original size:16 final size:16
Alignment explanation
Indices: 90520291--90520322 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
90520281 TTTTGTGTAA
*
90520291 TGGGCTGTTAGTTTAG
1 TGGGCTGGTAGTTTAG
90520307 TGGGCTGGTAGTTTAG
1 TGGGCTGGTAGTTTAG
90520323 GTTATTGGGC
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:0.12, C:0.06, G:0.41, T:0.41
Consensus pattern (16 bp):
TGGGCTGGTAGTTTAG
Found at i:90520352 original size:14 final size:15
Alignment explanation
Indices: 90520325--90520364 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
90520315 TAGTTTAGGT
*
90520325 TATTGGGCTTCAGGTA
1 TATTGGG-TTCAGGGA
90520341 TA-TGGGTTCAGGGA
1 TATTGGGTTCAGGGA
90520355 TATTGGGTTC
1 TATTGGGTTC
90520365 TGGTTGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 9 0.41
15 11 0.50
16 2 0.09
ACGTcount: A:0.17, C:0.10, G:0.35, T:0.38
Consensus pattern (15 bp):
TATTGGGTTCAGGGA
Found at i:90521194 original size:73 final size:72
Alignment explanation
Indices: 90521040--90521291 Score: 382
Period size: 73 Copynumber: 3.5 Consensus size: 72
90521030 ACATGTGAAC
* *
90521040 TGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCT
1 TGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
* *
90521104 CAGCGTGTCC
63 CAACGTGTCT
* * *
90521114 CGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCATAAATTGAAAATACCTCA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCA
90521179 ACGTGTCT
65 ACGTGTCT
90521187 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
*
90521252 TGTGTCT
66 CGTGTCT
90521259 TGAGGCTCAACT-ATTTCTCGCAATATGAGTTGA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
90521292 TTCTTTCAAA
Statistics
Matches: 165, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
71 21 0.13
72 45 0.27
73 70 0.42
74 29 0.18
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (72 bp):
TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
CGTGTCT
Found at i:90521308 original size:145 final size:147
Alignment explanation
Indices: 90521040--90521317 Score: 411
Period size: 145 Copynumber: 1.9 Consensus size: 147
90521030 ACATGTGAAC
* *
90521040 TGAGGCTCAACTCACTTTTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTC
1 TGAGGCTCAACTCACTTTTCGCAATATGAGTTGA-TATTTTGAAAACAGAAATTGAAATTACCTC
* * * *
90521105 AGCGTGTCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCATAA-ATTGA
65 AACGTGTCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTCAAAAACATAATAATGA
90521169 AAATACCTCAACGTGTCT
130 AAATACCTCAACGTGTCT
90521187 TGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTC
1 TGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATATTTTGAAAACAGAAATTGAAATTACCTC
* ** *
90521250 AATGTGTCTTGAGGCTCAACT-ATTTCTCGCAATATGAGTTGATTCTTTCAAAAACATAATAATG
65 AACGTGTCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT-TTTCAAAAACATAATAATG
90521314 AAAA
129 AAAA
90521318 CAGAAATGGA
Statistics
Matches: 118, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
144 22 0.19
145 56 0.47
146 10 0.08
147 30 0.25
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (147 bp):
TGAGGCTCAACTCACTTTTCGCAATATGAGTTGATATTTTGAAAACAGAAATTGAAATTACCTCA
ACGTGTCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTCAAAAACATAATAATGAA
AATACCTCAACGTGTCT
Found at i:90521418 original size:88 final size:88
Alignment explanation
Indices: 90521227--90521469 Score: 278
Period size: 87 Copynumber: 2.8 Consensus size: 88
90521217 TTGAATTTTG
* ** * **
90521227 AAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACT-ATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
90521291 ATTCTTTCAAAAACATAATAATG
66 ATTCTTTCAAAAACATAATAATC
* *
90521314 AAAACAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * *
90521379 ATTTTTTTGAAAAACA-GA-AATC
66 A-TTCTTTCAAAAACATAATAATC
** *
90521401 AAAAGGC-TTAATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCAACTCACCTCTCACAATATGA
1 AAAA--CAGAAATTGAAAATACCTC-G-GTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
90521465 GTTGA
62 GTTGA
90521470 AATTAAAACA
Statistics
Matches: 133, Mismatches: 17, Indels: 9
0.84 0.11 0.06
Matches are distributed among these distances:
87 45 0.34
88 34 0.26
89 14 0.11
90 40 0.30
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (88 bp):
AAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTCTTTCAAAAACATAATAATC
Found at i:90521667 original size:127 final size:123
Alignment explanation
Indices: 90521442--90521669 Score: 321
Period size: 127 Copynumber: 1.8 Consensus size: 123
90521432 GTCCTGAGGC
*
90521442 TCAACTCACCTCTCACAATATGAGTTGAAATTAAAACACAAATTGAAAATACCTCAGCGTGCCCC
1 TCAACCCACCTCTCACAATATGAGTTGAAATTAAAACACAAATTGAAAATACCTCAGCGTGCCCC
*
90521507 GAGCTCAACTCACCTCTTGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGT
66 GAGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGT
* ** * * * *
90521565 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGT
1 TCAACCCACCTCTCACAATATGAGTTGA-AATT-A-AAACACAAATTGAAAATACCTCAGCGTGC
* *
90521630 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
63 CCCGA-GCTCAACTCACCTCTCGCAATATGAGCTGATTTT
90521670 TTTAAAAACA
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
123 26 0.29
124 2 0.02
125 1 0.01
126 29 0.32
127 32 0.36
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (123 bp):
TCAACCCACCTCTCACAATATGAGTTGAAATTAAAACACAAATTGAAAATACCTCAGCGTGCCCC
GAGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGT
Found at i:90521932 original size:75 final size:73
Alignment explanation
Indices: 90521565--90521984 Score: 519
Period size: 72 Copynumber: 5.7 Consensus size: 73
90521555 ATTAAAAGGT
* * * * *
90521565 TCAACCCACCTCTCGCAATATGAGTTGA-TTCTTGACAAACAGAAATTGAAATTACCTCATCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTA-AAACAGAAATTAAAATTACCTCAGCGTG
90521629 TCCTGAGGC
65 TCCTGAGGC
90521638 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAA-TACCTCAGCAT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-AAAACAGAAATT-AAAATTACCTCAGC--
*
90521702 GTGAACC-GAGGC
62 GTG-TCCTGAGGC
* *
90521714 TCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAA-TACCTCAACGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-AAAACAGAAATT-AAAATTACCTCAGCGT
*
90521778 GTCTTGAGGC
64 GTCCTGAGGC
** * * * *
90521788 TCAACTCATTTCTCGCAATATAAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAACAGAAATTAAAATTACCTCAGCGTGT
90521852 CCTGAGGC
66 CCTGAGGC
**
90521860 TCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTAAAATTACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTAA-AACAGAAATTAAAATTACCTCAGCGT
90521925 GTCCTGAGGC
64 GTCCTGAGGC
* ** *
90521935 TCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAACAGAAATTAAAA
90521985 GGCTTAACTC
Statistics
Matches: 308, Mismatches: 28, Indels: 23
0.86 0.08 0.06
Matches are distributed among these distances:
71 3 0.01
72 71 0.23
73 38 0.12
74 63 0.20
75 64 0.21
76 67 0.22
77 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (73 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAACAGAAATTAAAATTACCTCAGCGTGT
CCTGAGGC
Found at i:90522103 original size:69 final size:71
Alignment explanation
Indices: 90521984--90522157 Score: 205
Period size: 69 Copynumber: 2.5 Consensus size: 71
90521974 AAAAATTAAA
* * * * **
90521984 AGGCTTAACTCACCTCTCGCAATATGAG-TCA-ATTTAAAACATAAACTAAAAATACCTCGGCGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAACATAAACTAAAAATACCTCAACGT
90522047 GCCCCG
66 GCCCCG
* *
90522053 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTAAA-A-AAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAACATAAACTAAAAATACCTCAACGT
* **
90522116 GTCTTG
66 GCCCCG
90522122 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
90522158 CCTTGGAAAG
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
68 1 0.01
69 81 0.89
70 3 0.03
71 6 0.07
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (71 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAACATAAACTAAAAATACCTCAACGT
GCCCCG
Found at i:90532630 original size:21 final size:20
Alignment explanation
Indices: 90532604--90532676 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 20
90532594 ACATATATGT
90532604 ATAATAATGATGAAAATAATA
1 ATAATAAT-ATGAAAATAATA
90532625 ATAATAATAGTGAAAATAAATA
1 ATAATAATA-TGAAAAT-AATA
90532647 AT-ATAATAAT-AAATATAATA
1 ATAATAAT-ATGAAA-ATAATA
* *
90532667 GTAACAATAT
1 ATAATAATAT
90532677 TAGTAATATG
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
20 11 0.24
21 27 0.60
22 7 0.16
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (20 bp):
ATAATAATATGAAAATAATA
Found at i:90532648 original size:16 final size:15
Alignment explanation
Indices: 90532619--90532661 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
90532609 AATGATGAAA
90532619 ATAATAAT-AATAAT
1 ATAATAATAAATAAT
90532633 AGTGAA-AATAAATAAT
1 A-T-AATAATAAATAAT
90532649 ATAATAATAAATA
1 ATAATAATAAATA
90532662 TAATAGTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 3 0.12
15 13 0.52
16 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:90552361 original size:18 final size:19
Alignment explanation
Indices: 90552338--90552380 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
90552328 ACATATATGT
90552338 ATAATAAT-GATGAAAAT-A
1 ATAATAATAG-TGAAAATAA
90552356 ATAATAATAGTGAAAATAA
1 ATAATAATAGTGAAAATAA
90552375 ATAATA
1 ATAATA
90552381 TAATAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (19 bp):
ATAATAATAGTGAAAATAA
Found at i:90552388 original size:15 final size:17
Alignment explanation
Indices: 90552352--90552392 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
90552342 TAATGATGAA
90552352 AATAAT-AATAATAGTG
1 AATAATAAATAATAGTG
90552368 AA-AATAAATAATA-T-
1 AATAATAAATAATAGTG
90552382 AATAATAAATA
1 AATAATAAATA
90552393 TAATAGTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 2 0.09
15 12 0.52
16 9 0.39
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (17 bp):
AATAATAAATAATAGTG
Found at i:90552892 original size:20 final size:20
Alignment explanation
Indices: 90552853--90552902 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
90552843 ACAGGAGAAA
90552853 GAAA-AAAAGA-AGAGGAGG
1 GAAAGAAAAGAGAGAGGAGG
*
90552871 GAGAGAAAAGAGAGAGCG-GG
1 GAAAGAAAAGAGAGAG-GAGG
*
90552891 GAAAGAAGAGAG
1 GAAAGAAAAGAG
90552903 GGGAAGGGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 3 0.12
19 6 0.23
20 16 0.62
21 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.44, T:0.00
Consensus pattern (20 bp):
GAAAGAAAAGAGAGAGGAGG
Found at i:90552899 original size:18 final size:17
Alignment explanation
Indices: 90552858--90552906 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
90552848 AGAAAGAAAA
90552858 AAAGAAGAG-GAGGGAG
1 AAAGAAGAGAGAGGGAG
*
90552874 AGAA-AAGAGAGAGCGGGG
1 A-AAGAAGAGAGAG-GGAG
90552892 AAAGAAGAGAG-GGGA
1 AAAGAAGAGAGAGGGA
90552907 AGGGGGGAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
16 8 0.30
17 8 0.30
18 11 0.41
ACGTcount: A:0.49, C:0.02, G:0.49, T:0.00
Consensus pattern (17 bp):
AAAGAAGAGAGAGGGAG
Found at i:90553031 original size:22 final size:23
Alignment explanation
Indices: 90553004--90553051 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
90552994 AACTCTAATT
* * *
90553004 TTTTTATTTTTTA-TTTCTTATA
1 TTTTTATATTATATTTTCGTATA
90553026 TTTTTATATTATATTTTCGTATA
1 TTTTTATATTATATTTTCGTATA
90553049 TTT
1 TTT
90553052 GTCGTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTTATATTATATTTTCGTATA
Found at i:90553590 original size:16 final size:16
Alignment explanation
Indices: 90553569--90553600 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
90553559 TTTTGTGTAA
*
90553569 TGGGCTGTTAGTTTAG
1 TGGGCTGGTAGTTTAG
90553585 TGGGCTGGTAGTTTAG
1 TGGGCTGGTAGTTTAG
90553601 GTTATTGGGC
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:0.12, C:0.06, G:0.41, T:0.41
Consensus pattern (16 bp):
TGGGCTGGTAGTTTAG
Found at i:90564218 original size:25 final size:25
Alignment explanation
Indices: 90564180--90564227 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
90564170 TCATATTCAT
90564180 GTATGCTCATACGAGCTATGAATTA
1 GTATGCTCATACGAGCTATGAATTA
*
90564205 GTATGCTC-TCACGAGCTGTGAAT
1 GTATGCTCAT-ACGAGCTATGAAT
90564228 CGGGAAGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (25 bp):
GTATGCTCATACGAGCTATGAATTA
Found at i:90574526 original size:24 final size:24
Alignment explanation
Indices: 90574475--90574526 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
90574465 TAATAATTGA
90574475 AATATTTTATAATTAATTATTTTT
1 AATATTTTATAATTAATTATTTTT
90574499 -ATATTTT-TAATTGTAATT-TTTTT
1 AATATTTTATAA-T-TAATTATTTTT
90574522 AATAT
1 AATAT
90574527 AAAGATTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
22 3 0.12
23 13 0.52
24 9 0.36
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (24 bp):
AATATTTTATAATTAATTATTTTT
Found at i:90575200 original size:114 final size:114
Alignment explanation
Indices: 90575061--90575276 Score: 353
Period size: 114 Copynumber: 1.9 Consensus size: 114
90575051 TTTAACAAGC
* *
90575061 CTTCAATTTTAGAAGTTTTTGTCTGCTCTTGTGATATGTTTTTTAGTCTTATTTATGCATGTAGT
1 CTTCAATTTTAGAAGTTTTTGTCTGCTCTTGTGACATGTTTTTTAGTCTTACTTATGCATGTAGT
*
90575126 CTTATTTTTGCAAGTGGTTTTAGAGATGGCTTTGTTGTTGTCCATAAGA
66 CTTACTTTTGCAAGTGGTTTTAGAGATGGCTTTGTTGTTGTCCATAAGA
* *
90575175 CTTCACTTTTAGAAG-TTTTGTTCTGCTCTTGTGACATGTTTTTTAGTCTTACTTCTGCATGTAG
1 CTTCAATTTTAGAAGTTTTTG-TCTGCTCTTGTGACATGTTTTTTAGTCTTACTTATGCATGTAG
* *
90575239 TCTTGCTTTTGCAAGTGGTTTTAGAGATGGTTTTGTTG
65 TCTTACTTTTGCAAGTGGTTTTAGAGATGGCTTTGTTG
90575277 CTGCCATCTT
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
113 5 0.05
114 89 0.95
ACGTcount: A:0.17, C:0.12, G:0.21, T:0.50
Consensus pattern (114 bp):
CTTCAATTTTAGAAGTTTTTGTCTGCTCTTGTGACATGTTTTTTAGTCTTACTTATGCATGTAGT
CTTACTTTTGCAAGTGGTTTTAGAGATGGCTTTGTTGTTGTCCATAAGA
Found at i:90577559 original size:28 final size:28
Alignment explanation
Indices: 90577527--90577592 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
90577517 AATTTTTAAT
** *
90577527 AATTTTAAATTCTTTTATATCTTTTATA
1 AATTTTAAATGATTTTATATATTTTATA
*
90577555 AATTTTAAATGATTTTGTATATTTTATA
1 AATTTTAAATGATTTTATATATTTTATA
*
90577583 ATTATTTAAA
1 AAT-TTTAAA
90577593 AAATTATTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 26 0.81
29 6 0.19
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (28 bp):
AATTTTAAATGATTTTATATATTTTATA
Found at i:90578815 original size:32 final size:30
Alignment explanation
Indices: 90578779--90578841 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 30
90578769 ATGTATTTAG
90578779 TTATATTATTTAATATAAAA-CATAAATTAAAA
1 TTATATT-TTT-ATATAAAATCAT-AATTAAAA
* *
90578811 TTATATTTTTTTATAAAATGATAATTAAAA
1 TTATATTTTTATATAAAATCATAATTAAAA
90578841 T
1 T
90578842 ATTAAAATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 16 0.57
31 5 0.18
32 7 0.25
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (30 bp):
TTATATTTTTATATAAAATCATAATTAAAA
Found at i:90578933 original size:35 final size:35
Alignment explanation
Indices: 90578867--90578942 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
90578857 AATAAAATTT
*
90578867 AAATATTTTTAAATTATATCCATAATAAAAT-ATCA
1 AAATATTTTCAAATTATATCCATAATAAAATAAT-A
** *
90578902 AAATATTTTACAAATTATATTTA-AATCAAATAATA
1 AAATATTTT-CAAATTATATCCATAATAAAATAATA
90578937 AAATAT
1 AAATAT
90578943 AAATTAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
35 23 0.66
36 12 0.34
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (35 bp):
AAATATTTTCAAATTATATCCATAATAAAATAATA
Found at i:90594610 original size:20 final size:20
Alignment explanation
Indices: 90594585--90594635 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
90594575 GTATCGATCC
90594585 GGTATCAATACT-TTTCTTAA
1 GGTATCAATA-TATTTCTTAA
*
90594605 GGTATCGATATATTTCTTAA
1 GGTATCAATATATTTCTTAA
* *
90594625 TGTATCGATAT
1 GGTATCAATAT
90594636 TCCTACTCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (20 bp):
GGTATCAATATATTTCTTAA
Found at i:90596040 original size:20 final size:19
Alignment explanation
Indices: 90595996--90596050 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
90595986 TCCCCGGCCC
* *
90595996 TTAAAATGTAAAATTATTT
1 TTAAAATTTTAAATTATTT
* *
90596015 TTAAAATTTTTAATTTTTT
1 TTAAAATTTTAAATTATTT
90596034 TTAAAAATTTTAAATTA
1 TT-AAAATTTTAAATTA
90596051 ATAAAAATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTAAAATTTTAAATTATTT
Found at i:90601750 original size:40 final size:39
Alignment explanation
Indices: 90601666--90601850 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
90601656 TTGAATAATG
* * * *
90601666 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
90601706 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
90601746 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
90601785 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
90601826 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
90601851 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:90601802 original size:79 final size:82
Alignment explanation
Indices: 90601661--90601848 Score: 217
Period size: 79 Copynumber: 2.4 Consensus size: 82
90601651 GTTAATTGAA
* * *
90601661 TAATGTCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG
1 TAATATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAG
*
90601725 GCATTTGTGCGAGATAC
66 GCATTTGTGCAAGATAC
* * * **
90601742 TAAT-TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAA
1 TAATATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAA
*
90601803 GGCATTTGTGCAAGTTAC
65 GGCATTTGTGCAAGATAC
* *
90601821 T-ATAACCGGGCTATGTCCCGAAGGCATT
1 TAATATCCGGGCTAAGTCCCGAAGGCATT
90601849 TGAACGAGGA
Statistics
Matches: 92, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 56 0.61
80 29 0.32
81 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (82 bp):
TAATATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAG
GCATTTGTGCAAGATAC
Done.