Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 65 of 91
Found at i:23455735 original size:28 final size:29
Alignment explanation
Indices: 23455669--23455724 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
23455659 TCTAGTTCAA
23455669 AATAAAAATATAAAAACTTAATTAAATGT
1 AATAAAAATATAAAAACTTAATTAAATGT
* *
23455698 AATAAAAATATAAAAATTTATTTAAAT
1 AATAAAAATATAAAAACTTAATTAAAT
23455725 TTTTTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (29 bp):
AATAAAAATATAAAAACTTAATTAAATGT
Found at i:23458476 original size:44 final size:44
Alignment explanation
Indices: 23458408--23458582 Score: 327
Period size: 44 Copynumber: 4.0 Consensus size: 44
23458398 GCTTGTAATC
23458408 TTGTCTTGGTT--ACATCACTCTTCGTGCCTTCACTGCCATTCT
1 TTGTCTTGGTTACACATCACTCTTCGTGCCTTCACTGCCATTCT
23458450 TTGTCTTGGTTACACATCACTCTTCGTGCCTTCACTGCCATTCT
1 TTGTCTTGGTTACACATCACTCTTCGTGCCTTCACTGCCATTCT
23458494 TTGTCTTGGTTACACATCACTCTTCGTGCCTTCACTGCCATTCT
1 TTGTCTTGGTTACACATCACTCTTCGTGCCTTCACTGCCATTCT
*
23458538 TCGTCTTGGTTACACATCACTCTTCGTGCCTTCACTGCCATTCT
1 TTGTCTTGGTTACACATCACTCTTCGTGCCTTCACTGCCATTCT
23458582 T
1 T
23458583 CTTACTCCTC
Statistics
Matches: 130, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
42 11 0.08
44 119 0.92
ACGTcount: A:0.13, C:0.32, G:0.14, T:0.41
Consensus pattern (44 bp):
TTGTCTTGGTTACACATCACTCTTCGTGCCTTCACTGCCATTCT
Found at i:23458538 original size:21 final size:21
Alignment explanation
Indices: 23458514--23458583 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
23458504 TACACATCAC
23458514 TCTTCGTGCCTTCACTGCCAT
1 TCTTCGTGCCTTCACTGCCAT
* *
23458535 TCTTCGT-CTTGGTTACACAT--CAC
1 TCTTCGTGC---CTT-CAC-TGCCAT
23458558 TCTTCGTGCCTTCACTGCCAT
1 TCTTCGTGCCTTCACTGCCAT
23458579 TCTTC
1 TCTTC
23458584 TTACTCCTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 16
0.65 0.07 0.28
Matches are distributed among these distances:
19 1 0.03
20 4 0.11
21 16 0.43
23 11 0.30
24 4 0.11
25 1 0.03
ACGTcount: A:0.11, C:0.36, G:0.13, T:0.40
Consensus pattern (21 bp):
TCTTCGTGCCTTCACTGCCAT
Found at i:23465792 original size:16 final size:15
Alignment explanation
Indices: 23465771--23465800 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
23465761 ATATTTTTTC
23465771 AATAATATTTCAAAAA
1 AATAATATTT-AAAAA
23465787 AATAATATTTAAAA
1 AATAATATTTAAAA
23465801 TTTTTTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAATATTTAAAAA
Found at i:23470212 original size:2 final size:2
Alignment explanation
Indices: 23470205--23470233 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23470195 CCAAGTAAAC
23470205 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23470234 GTATGTCGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23472826 original size:2 final size:2
Alignment explanation
Indices: 23472819--23472844 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23472809 CTAATTTTAC
23472819 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
23472845 TTTGTTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23496214 original size:15 final size:15
Alignment explanation
Indices: 23496190--23496275 Score: 82
Period size: 15 Copynumber: 5.7 Consensus size: 15
23496180 ATAGCCACCG
* * *
23496190 CCACCTCCATAGTTT
1 CCACCACCATAGCTA
*
23496205 CCACCACCATAGTTA
1 CCACCACCATAGCTA
* * **
23496220 CCACCGCCATAACCG
1 CCACCACCATAGCTA
*
23496235 CCACCACCATAGCCA
1 CCACCACCATAGCTA
*
23496250 CCACCACCATAGCTG
1 CCACCACCATAGCTA
23496265 CCACCACCATA
1 CCACCACCATA
23496276 ACCACTATTA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 59 1.00
ACGTcount: A:0.29, C:0.48, G:0.08, T:0.15
Consensus pattern (15 bp):
CCACCACCATAGCTA
Found at i:23496224 original size:30 final size:30
Alignment explanation
Indices: 23496190--23496280 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
23496180 ATAGCCACCG
* * * **
23496190 CCACCTCCATAGTTTCCACCACCATAGTTA
1 CCACCACCATAGCTGCCACCACCATAGCCA
* * *
23496220 CCACCGCCATAACCGCCACCACCATAGCCA
1 CCACCACCATAGCTGCCACCACCATAGCCA
*
23496250 CCACCACCATAGCTGCCACCACCATAACCA
1 CCACCACCATAGCTGCCACCACCATAGCCA
23496280 C
1 C
23496281 TATTAAAACC
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.30, C:0.48, G:0.08, T:0.14
Consensus pattern (30 bp):
CCACCACCATAGCTGCCACCACCATAGCCA
Found at i:23496254 original size:45 final size:45
Alignment explanation
Indices: 23496186--23496278 Score: 123
Period size: 45 Copynumber: 2.1 Consensus size: 45
23496176 CATCATAGCC
* *** * *
23496186 ACCGCCACCTCCATAGTTTCCACCACCATAGTTACCACCGCCATA
1 ACCGCCACCACCATAGCCACCACCACCATAGCTACCACCACCATA
*
23496231 ACCGCCACCACCATAGCCACCACCACCATAGCTGCCACCACCATA
1 ACCGCCACCACCATAGCCACCACCACCATAGCTACCACCACCATA
23496276 ACC
1 ACC
23496279 ACTATTAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.29, C:0.48, G:0.09, T:0.14
Consensus pattern (45 bp):
ACCGCCACCACCATAGCCACCACCACCATAGCTACCACCACCATA
Found at i:23499605 original size:2 final size:2
Alignment explanation
Indices: 23499598--23499630 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
23499588 AAGATTAACG
23499598 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23499631 ACATATTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23516756 original size:27 final size:27
Alignment explanation
Indices: 23516724--23516786 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
23516714 AACAACTCCA
23516724 CAGACCCCTCCGGAAACCCCAAAGCCG
1 CAGACCCCTCCGGAAACCCCAAAGCCG
23516751 CAGACCCCTCCGGAAACCCCAAAGCCG
1 CAGACCCCTCCGGAAACCCCAAAGCCG
23516778 CAGACCCCT
1 CAGACCCCT
23516787 AAGCCAGAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.29, C:0.49, G:0.17, T:0.05
Consensus pattern (27 bp):
CAGACCCCTCCGGAAACCCCAAAGCCG
Found at i:23517262 original size:25 final size:24
Alignment explanation
Indices: 23517227--23517277 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
23517217 AAATAAACTC
23517227 TTATTATTAAAA-ATTAATTAATTA
1 TTATTATTAAAATATT-ATTAATTA
*
23517251 TTATTAATTAAAATATTATTTATTA
1 TTATT-ATTAAAATATTATTAATTA
23517276 TT
1 TT
23517278 TCTATGATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 5 0.21
25 16 0.67
26 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TTATTATTAAAATATTATTAATTA
Found at i:23517602 original size:63 final size:63
Alignment explanation
Indices: 23517523--23517646 Score: 185
Period size: 63 Copynumber: 2.0 Consensus size: 63
23517513 GCTCATCTTT
* *
23517523 CTCTCTCAGCTCTCTGAACTATCTCAACTATGTCAACTCTTTGTTGAGCACCATCGTCATCAG
1 CTCTCTCAGCTCTCTGAACTATATCAACTATGTCAACTCTTTGTTAAGCACCATCGTCATCAG
* * * * *
23517586 CTCTCTCAGCTCTCTGAACTGTATGAGCTCTGTTAACTCTTTGTTAAGCACCATCGTCATC
1 CTCTCTCAGCTCTCTGAACTATATCAACTATGTCAACTCTTTGTTAAGCACCATCGTCATC
23517647 GGGCTGTGGT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.35
Consensus pattern (63 bp):
CTCTCTCAGCTCTCTGAACTATATCAACTATGTCAACTCTTTGTTAAGCACCATCGTCATCAG
Found at i:23518030 original size:31 final size:31
Alignment explanation
Indices: 23517992--23518050 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
23517982 GTGTCAGCGT
*
23517992 TGGCATGTTACAACATTTTACGTTATATGCA
1 TGGCATGTTACAACATTTTACCTTATATGCA
23518023 TGGCATGTTACAACATTTTACCTTATAT
1 TGGCATGTTACAACATTTTACCTTATAT
23518051 TTTATGTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.41
Consensus pattern (31 bp):
TGGCATGTTACAACATTTTACCTTATATGCA
Found at i:23518054 original size:43 final size:43
Alignment explanation
Indices: 23518006--23518093 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 43
23517996 ATGTTACAAC
* *
23518006 ATTTTACGTTATATGCATGGCATGTTACAACATTTTACCTTAT
1 ATTTTACGTTATATACATGGCATGTTACAACATTTTACATTAT
* * *
23518049 ATTTTATGTTATATACCTGGCGTGTTACAACATTTTACATTAT
1 ATTTTACGTTATATACATGGCATGTTACAACATTTTACATTAT
23518092 AT
1 AT
23518094 GCCTGACGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.45
Consensus pattern (43 bp):
ATTTTACGTTATATACATGGCATGTTACAACATTTTACATTAT
Found at i:23518085 original size:31 final size:31
Alignment explanation
Indices: 23518049--23518123 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
23518039 TTTACCTTAT
* *
23518049 ATTTTATGTTATATACCTGGCGTGTTACAAC
1 ATTTTACGTTATATACCTGACGTGTTACAAC
* *
23518080 ATTTTACATTATATGCCTGACGTGTTACAAC
1 ATTTTACGTTATATACCTGACGTGTTACAAC
23518111 ATTTTACGTTATA
1 ATTTTACGTTATA
23518124 ACTGACAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (31 bp):
ATTTTACGTTATATACCTGACGTGTTACAAC
Found at i:23522129 original size:118 final size:116
Alignment explanation
Indices: 23521935--23522282 Score: 405
Period size: 118 Copynumber: 3.0 Consensus size: 116
23521925 ACGCTGACTG
* * *
23521935 CATGCAGATTTCTGTGGTGACACGCTGACTTCTTACATTATTGTGGGGTGACACGACACGC-CTC
1 CATGCAGATTTCTGTGGTGACACGCTAACTTCTTGCAATATTGTGGGGTGACACGACAC-CTC-C
* *
23521999 ATCTTGTGGTGACATGCTGAGTGGAAGCAGATAGTTAGCGTGACACACTAAGTA
64 ATCTT-TGGTGACATGCTGAGTGGAACCAGATACTTAGCGTGACACACTAAGTA
* * * * *
23522053 CATGCAAATTTATGTGGTGACACGCTAACTTTTTGTAGTATTGTGGGGTGACACGACACCTCCAG
1 CATGCAGATTTCTGTGGTGACACGCTAACTTCTTGCAATATTGTGGGGTGACACGACACCTCCA-
* * ** * *
23522118 TCTTATGGTGACACGTTGAGTGGAACCAGATACTTAGCGTGACATGCTGAGTG
65 TCTT-TGGTGACATGCTGAGTGGAACCAGATACTTAGCGTGACACACTAAGTA
* * * *
23522171 CATGCAGATTTCGGTGGTGACACACTAACTTCTTGCAATATTGTGGGGTGACACGGTACGCCTCA
1 CATGCAGATTTCTGTGGTGACACGCTAACTTCTTGCAATATTGTGGGGTGACAC-G-ACACCTCC
* *
23522236 AT-TTTGGTGACACT-CTGAATGGAACCAGATACTTGGCGTGACACACT
64 ATCTTTGGTGACA-TGCTGAGTGGAACCAGATACTTAGCGTGACACACT
23522283 GACTTGTTCT
Statistics
Matches: 194, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
117 39 0.20
118 146 0.75
119 2 0.01
120 7 0.04
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (116 bp):
CATGCAGATTTCTGTGGTGACACGCTAACTTCTTGCAATATTGTGGGGTGACACGACACCTCCAT
CTTTGGTGACATGCTGAGTGGAACCAGATACTTAGCGTGACACACTAAGTA
Found at i:23524738 original size:145 final size:145
Alignment explanation
Indices: 23524388--23524741 Score: 460
Period size: 145 Copynumber: 2.4 Consensus size: 145
23524378 GAAATTACTG
* * * * * **
23524388 TGTTACTCGATAAACATATATGAAAATGTTGAACACAAATCGTTAAAACTAAT-CTTACCGACGG
1 TGTTATTCGATAATCATATATGAAATTGTTGAACACAAATCGTTAAAAC-CATCCTTACCGGCTC
* *
23524452 GTCGTTAGCACTGTGCATCTGAGGAGGACCTCTCAGTGGTTAAGGAGCTGTCGTCGTATGGTCCA
65 GTCGTTAGCACTGTGCATCTGAGAAGGACCTCTCAGTGGTTAAGGAGCTGTCGTCGCATGGTCCA
* *
23524517 ATTGCAAACACAGATA
130 ACTACAAACACAGATA
* * *
23524533 TGTTATTCGATAATCATATATGGAATTGTTGAACATAAATCGTTATAACCATCCTTACCGGCTCG
1 TGTTATTCGATAATCATATATGAAATTGTTGAACACAAATCGTTAAAACCATCCTTACCGGCTCG
* * ** **
23524598 TTGTTAGCACTGTG-AGTCTGAGAAGGACCTTTTGGTGGTTGTGGAGCTGTCGTCGCATGGTCCA
66 TCGTTAGCACTGTGCA-TCTGAGAAGGACCTCTCAGTGGTTAAGGAGCTGTCGTCGCATGGTCCA
*
23524662 ACTACAAACATAGATA
130 ACTACAAACACAGATA
* * *
23524678 TGTTATTCGATAATCACATATGAAATTGTTGAACACAAATTGTTAGAACCATCCTTACCGGCTC
1 TGTTATTCGATAATCATATATGAAATTGTTGAACACAAATCGTTAAAACCATCCTTACCGGCTC
23524742 TTCACTGCCA
Statistics
Matches: 181, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
144 3 0.02
145 178 0.98
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (145 bp):
TGTTATTCGATAATCATATATGAAATTGTTGAACACAAATCGTTAAAACCATCCTTACCGGCTCG
TCGTTAGCACTGTGCATCTGAGAAGGACCTCTCAGTGGTTAAGGAGCTGTCGTCGCATGGTCCAA
CTACAAACACAGATA
Found at i:23526162 original size:31 final size:31
Alignment explanation
Indices: 23526127--23526356 Score: 282
Period size: 31 Copynumber: 7.4 Consensus size: 31
23526117 GTTAACCCAT
*
23526127 AATGTGGTAACACACCATGCATATAACGTAA
1 AATGTTGTAACACACCATGCATATAACGTAA
* *
23526158 AATGTGGTAACACACCATGCATGTAACGTAA
1 AATGTTGTAACACACCATGCATATAACGTAA
* ** *
23526189 AATGTTGTAACGCGTCATGCATATAATGTAA
1 AATGTTGTAACACACCATGCATATAACGTAA
* ** *
23526220 AATGTGGTAACATGCTATGCATATAACGTAA
1 AATGTTGTAACACACCATGCATATAACGTAA
* * *
23526251 AATGTTATAACACGCCATACATATAACGTAA
1 AATGTTGTAACACACCATGCATATAACGTAA
*
23526282 AATATTGTAACACACCATGCATATAACGTAA
1 AATGTTGTAACACACCATGCATATAACGTAA
* * *
23526313 AATGTTGTAACACCCCATGCGTATCAA-GTCA
1 AATGTTGTAACACACCATGCATAT-AACGTAA
23526344 AATGTTGTAACAC
1 AATGTTGTAACAC
23526357 TACAACACTA
Statistics
Matches: 172, Mismatches: 26, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
31 170 0.99
32 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (31 bp):
AATGTTGTAACACACCATGCATATAACGTAA
Found at i:23526792 original size:7 final size:7
Alignment explanation
Indices: 23526780--23526814 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
23526770 GGTATCTTTG
23526780 GGAATGA
1 GGAATGA
23526787 GGAATGA
1 GGAATGA
23526794 GGAATGA
1 GGAATGA
23526801 GGAATGA
1 GGAATGA
23526808 GGAATGA
1 GGAATGA
23526815 ACCTCTTCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.14
Consensus pattern (7 bp):
GGAATGA
Found at i:23527119 original size:46 final size:47
Alignment explanation
Indices: 23527051--23527157 Score: 135
Period size: 46 Copynumber: 2.3 Consensus size: 47
23527041 ATGGAGTCTG
* * *
23527051 ACAAACTCTGAACCCTGCCGTGTCATAGATTCCCTCCA-AGCGTGTC
1 ACAAACTCTAAACCCTGACGTGTCACAGATTCCCTCCATAGCGTGTC
* * ** *
23527097 ACGAACTCTAAACGCTGACGTGTCACAGATTCTTTCCATGGCGTGTC
1 ACAAACTCTAAACCCTGACGTGTCACAGATTCCCTCCATAGCGTGTC
23527144 ACAAACTCTAAACC
1 ACAAACTCTAAACC
23527158 TTGTTGTGTG
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
46 31 0.62
47 19 0.38
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (47 bp):
ACAAACTCTAAACCCTGACGTGTCACAGATTCCCTCCATAGCGTGTC
Found at i:23527203 original size:23 final size:23
Alignment explanation
Indices: 23527173--23527273 Score: 96
Period size: 23 Copynumber: 4.4 Consensus size: 23
23527163 GTGTGACAGC
23527173 CGTGTCACACATTCCCACCATGT
1 CGTGTCACACATTCCCACCATGT
* * ** * *
23527196 CGTGTCACAAACTCTAAACCTTGC
1 CGTGTCACACATTC-CCACCATGT
* *
23527220 CCTATCACA-ATTCCCACCATGT
1 CGTGTCACACATTCCCACCATGT
*
23527242 CGTGTCACACATTCCCAACATGT
1 CGTGTCACACATTCCCACCATGT
*
23527265 CGTTTCACA
1 CGTGTCACA
23527274 AACTCTAAAC
Statistics
Matches: 59, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
22 12 0.20
23 35 0.59
24 12 0.20
ACGTcount: A:0.26, C:0.37, G:0.11, T:0.27
Consensus pattern (23 bp):
CGTGTCACACATTCCCACCATGT
Found at i:23538716 original size:38 final size:38
Alignment explanation
Indices: 23538674--23538749 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
23538664 TAAGGCTTTC
* *
23538674 GGCAATAATATTGAATTTTAGCTCTCAATTATGTTTTA
1 GGCAATAATATTGAATTGTAACTCTCAATTATGTTTTA
23538712 GGCAATAATATTGAATTGTAACTCTCAATTATGTTTTA
1 GGCAATAATATTGAATTGTAACTCTCAATTATGTTTTA
23538750 AGTTCTCCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (38 bp):
GGCAATAATATTGAATTGTAACTCTCAATTATGTTTTA
Found at i:23540504 original size:35 final size:34
Alignment explanation
Indices: 23540465--23540572 Score: 94
Period size: 35 Copynumber: 3.1 Consensus size: 34
23540455 CAACTAGAGA
*
23540465 AAGTGAAACATTACTTCATGTAAAACAATTAGAAT
1 AAGTGAAA-ATTACTTCACGTAAAACAATTAGAAT
* * * * *
23540500 AAGTGAAATACTATTTCACGT-AAATAACTAAAAT
1 AAGTGAAA-ATTACTTCACGTAAAACAATTAGAAT
* *
23540534 AAGT-AAAGTGCTACTTCACATAAAACAATTAGAAT
1 AAGTGAAAAT--TACTTCACGTAAAACAATTAGAAT
23540569 AAGT
1 AAGT
23540573 AGAGCATTAC
Statistics
Matches: 56, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
33 3 0.05
34 22 0.39
35 31 0.55
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.28
Consensus pattern (34 bp):
AAGTGAAAATTACTTCACGTAAAACAATTAGAAT
Found at i:23544534 original size:29 final size:30
Alignment explanation
Indices: 23544452--23544542 Score: 111
Period size: 28 Copynumber: 3.2 Consensus size: 30
23544442 TCTCAAATAT
*
23544452 TTTTTTTAGTTTT-AATTTGGTCATT-TAAC
1 TTTTTTTA-TTTTCAATTTGGTCCTTCTAAC
23544481 TTTTTTTATTTTCAATTTGGT-CTTCTAA-
1 TTTTTTTATTTTCAATTTGGTCCTTCTAAC
*
23544509 TTTTTTTATTTTCAGTTTGGTCCTTC-AAC
1 TTTTTTTATTTTCAATTTGGTCCTTCTAAC
*
23544538 ATTTT
1 TTTTT
23544543 CATGCTTTTC
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
28 28 0.51
29 27 0.49
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.63
Consensus pattern (30 bp):
TTTTTTTATTTTCAATTTGGTCCTTCTAAC
Found at i:23556334 original size:93 final size:92
Alignment explanation
Indices: 23556166--23556345 Score: 218
Period size: 93 Copynumber: 1.9 Consensus size: 92
23556156 TTTACCATTG
* * ** * *
23556166 AAAAATATAATATGTAGTAATTCAATTTCTCTCAAAATTCTATCTTTAACTAGCTGATATACACC
1 AAAAATAGAATATGTAGTAACTCAAACTCTCTCAAAATCCTATCTCTAACTAGCTGATATACACC
* * *
23556231 ACTTTTCATTAGTTATATTTAATATTT
66 ACATTACATTAGTTACATTTAATATTT
** *
23556258 AAAACATAGAATATGTAGTAACTCAAACTCTCTCAAAA-CCGTATCTCTAGTTAGCTTATATACA
1 AAAA-ATAGAATATGTAGTAACTCAAACTCTCTCAAAATCC-TATCTCTAACTAGCTGATATACA
*
23556322 CCCCATTACATTAGTTACATTTAA
64 CCACATTACATTAGTTACATTTAA
23556346 CACTGAAAAA
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
92 5 0.07
93 68 0.93
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (92 bp):
AAAAATAGAATATGTAGTAACTCAAACTCTCTCAAAATCCTATCTCTAACTAGCTGATATACACC
ACATTACATTAGTTACATTTAATATTT
Found at i:23558808 original size:28 final size:29
Alignment explanation
Indices: 23558754--23558809 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
23558744 ATACATATTC
*
23558754 ACGTATAACTCATTCTTTTATATCTTTTT
1 ACGTATAACTCATTCTTTTATACCTTTTT
*
23558783 ACGTATACCTC-TTC-TTTATTACCTTTT
1 ACGTATAACTCATTCTTTTA-TACCTTTT
23558810 ACTAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.17
28 10 0.42
29 10 0.42
ACGTcount: A:0.21, C:0.21, G:0.04, T:0.54
Consensus pattern (29 bp):
ACGTATAACTCATTCTTTTATACCTTTTT
Found at i:23563894 original size:38 final size:39
Alignment explanation
Indices: 23563801--23563903 Score: 120
Period size: 38 Copynumber: 2.6 Consensus size: 39
23563791 ACCCGGCTCA
*
23563801 TGTACATCCCCCCACATCGTGCACATAGTCAGCACCATCG
1 TGTACAT-CCCCCACATCGTGCACATAGTCAGCACCACCG
* **
23563841 TGTGCATCTCCCCACATCGTGCACA-A-TCAGTGCCACCG
1 TGTACATC-CCCCACATCGTGCACATAGTCAGCACCACCG
*
23563879 TGTACATCCCTCCACATCATGCACA
1 TGTACATCCC-CCACATCGTGCACA
23563904 CGAGCACTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
37 2 0.04
38 29 0.53
39 2 0.04
40 22 0.40
ACGTcount: A:0.24, C:0.40, G:0.15, T:0.21
Consensus pattern (39 bp):
TGTACATCCCCCACATCGTGCACATAGTCAGCACCACCG
Found at i:23566782 original size:33 final size:35
Alignment explanation
Indices: 23566735--23566806 Score: 112
Period size: 33 Copynumber: 2.1 Consensus size: 35
23566725 TTTTTTTTTG
*
23566735 AAAATACAAGTAAGAAATTACAAAGAGAA-AAA-A
1 AAAATACAACTAAGAAATTACAAAGAGAAGAAAGA
*
23566768 AAAATACAACTAAGAAATTACAAGGAGAAGAAAGA
1 AAAATACAACTAAGAAATTACAAAGAGAAGAAAGA
23566803 AAAA
1 AAAA
23566807 CTTACTTGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 27 0.77
34 3 0.09
35 5 0.14
ACGTcount: A:0.68, C:0.07, G:0.14, T:0.11
Consensus pattern (35 bp):
AAAATACAACTAAGAAATTACAAAGAGAAGAAAGA
Found at i:23567117 original size:15 final size:15
Alignment explanation
Indices: 23567099--23567146 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
23567089 ACCTAAGACA
23567099 TTATTGGCTAAGGTG
1 TTATTGGCTAAGGTG
* * **
23567114 TTATTGCCTTAGGCA
1 TTATTGGCTAAGGTG
*
23567129 TTATTGGCTGAGGTG
1 TTATTGGCTAAGGTG
23567144 TTA
1 TTA
23567147 CTACGTGTTG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (15 bp):
TTATTGGCTAAGGTG
Found at i:23588764 original size:25 final size:25
Alignment explanation
Indices: 23588736--23588785 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
23588726 AGAGCTTAAC
*
23588736 AAAGAAATTGAAAGAGGCAAAAGAA
1 AAAGAAACTGAAAGAGGCAAAAGAA
*
23588761 AAAGAAACTGAAAGAGGGAAAAGAA
1 AAAGAAACTGAAAGAGGCAAAAGAA
23588786 CGTGACTCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.64, C:0.04, G:0.26, T:0.06
Consensus pattern (25 bp):
AAAGAAACTGAAAGAGGCAAAAGAA
Found at i:23589977 original size:9 final size:11
Alignment explanation
Indices: 23589949--23589983 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
23589939 ATTCCTTTAA
23589949 AAAAGAATAAG
1 AAAAGAATAAG
23589960 AAAAGAATAA-
1 AAAAGAATAAG
23589970 AAAA-AATAAG
1 AAAAGAATAAG
23589980 AAAA
1 AAAA
23589984 CAATCTACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.22
10 8 0.35
11 10 0.43
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (11 bp):
AAAAGAATAAG
Found at i:23591293 original size:39 final size:39
Alignment explanation
Indices: 23591239--23591316 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
23591229 ACCAATTTCT
* *
23591239 CTTCAATTGCATCTCCACTACTCTTAGGGATCCTAATTC
1 CTTCAATTACATCTCCACTACTCTTAGGAATCCTAATTC
* *
23591278 CTTCAATTACATCTCCACTTCTCTTCGGAATCCTAATTC
1 CTTCAATTACATCTCCACTACTCTTAGGAATCCTAATTC
23591317 TGTATTGCCG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.23, C:0.32, G:0.08, T:0.37
Consensus pattern (39 bp):
CTTCAATTACATCTCCACTACTCTTAGGAATCCTAATTC
Found at i:23592424 original size:150 final size:150
Alignment explanation
Indices: 23592153--23592453 Score: 593
Period size: 150 Copynumber: 2.0 Consensus size: 150
23592143 TAATTGCCTT
23592153 ATGGGAATATAAATGTAGCAAGTTGTTTACAAAAATTACCCAACTTGTATAGCAACTTGCAACAC
1 ATGGGAATATAAATGTAGCAAGTTGTTTACAAAAATTACCCAACTTGTATAGCAACTTGCAACAC
*
23592218 ACAAAAAATGTGTAGAACTCAAGCTTTCTTTCAATACCTAGCAAGTCCACATATTCTAGGTTTGC
66 ACAAAAAATGGGTAGAACTCAAGCTTTCTTTCAATACCTAGCAAGTCCACATATTCTAGGTTTGC
23592283 TGGAGATTAAACAAGATCAA
131 TGGAGATTAAACAAGATCAA
23592303 ATGGGAATATAAATGTAGCAAGTTGTTTACAAAAATTACCCAACTTGTATAGCAACTTGCAACAC
1 ATGGGAATATAAATGTAGCAAGTTGTTTACAAAAATTACCCAACTTGTATAGCAACTTGCAACAC
23592368 ACAAAAAATGGGTAGAACTCAAGCTTTCTTTCAATACCTAGCAAGTCCACATATTCTAGGTTTGC
66 ACAAAAAATGGGTAGAACTCAAGCTTTCTTTCAATACCTAGCAAGTCCACATATTCTAGGTTTGC
23592433 TGGAGATTAAACAAGATCAA
131 TGGAGATTAAACAAGATCAA
23592453 A
1 A
23592454 CAAAAATCTA
Statistics
Matches: 150, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 150 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.28
Consensus pattern (150 bp):
ATGGGAATATAAATGTAGCAAGTTGTTTACAAAAATTACCCAACTTGTATAGCAACTTGCAACAC
ACAAAAAATGGGTAGAACTCAAGCTTTCTTTCAATACCTAGCAAGTCCACATATTCTAGGTTTGC
TGGAGATTAAACAAGATCAA
Found at i:23592841 original size:35 final size:36
Alignment explanation
Indices: 23592797--23592866 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
23592787 AAAAATAAGA
*
23592797 TTCACTACAATGCC-TTTAGTGGAT-AAGCACAACCT
1 TTCAATACAATGCCTTTTA-TGGATAAAGCACAACCT
*
23592832 TTCAATACAATGCCTTTTATGGTTAAAGCACAACC
1 TTCAATACAATGCCTTTTATGGATAAAGCACAACC
23592867 ATTCTACTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
35 17 0.55
36 14 0.45
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (36 bp):
TTCAATACAATGCCTTTTATGGATAAAGCACAACCT
Found at i:23594724 original size:30 final size:30
Alignment explanation
Indices: 23594690--23594760 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
23594680 AATAATTAGT
*
23594690 TATAAAGACTTATTT-GACTCAAAATAAAAA
1 TATAAAAACTTATTTAG-CTCAAAATAAAAA
* *
23594720 TATAAAAATTTATTTAGTTCAAAATAAAAA
1 TATAAAAACTTATTTAGCTCAAAATAAAAA
*
23594750 TATATAAACTT
1 TATAAAAACTT
23594761 GATTGAATGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 34 0.97
31 1 0.03
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (30 bp):
TATAAAAACTTATTTAGCTCAAAATAAAAA
Found at i:23595763 original size:22 final size:20
Alignment explanation
Indices: 23595713--23595767 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
23595703 GATTTTTAAC
*
23595713 AATAAGTTATTATTAAATTT
1 AATAATTTATTATTAAATTT
* *
23595733 AATATTTTATTCTTAAAATATT
1 AATAATTTATTATT-AAAT-TT
23595755 AATAATTTATTAT
1 AATAATTTATTAT
23595768 CAACACATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 11 0.39
21 4 0.14
22 13 0.46
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
AATAATTTATTATTAAATTT
Found at i:23596138 original size:19 final size:20
Alignment explanation
Indices: 23596103--23596141 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
23596093 TTAATAATTT
23596103 ATTATTAATATAAAATTTTAA
1 ATTATTAATAT-AAATTTTAA
23596124 ATTATTAATAT-AATTTTA
1 ATTATTAATATAAATTTTA
23596142 TTTTTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTATTAATATAAATTTTAA
Found at i:23598825 original size:2 final size:2
Alignment explanation
Indices: 23598818--23598843 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23598808 AGTATAGGTG
23598818 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
23598844 TAATTACAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:23599296 original size:73 final size:73
Alignment explanation
Indices: 23599177--23599322 Score: 274
Period size: 73 Copynumber: 2.0 Consensus size: 73
23599167 GGTCCTAAAG
23599177 AATATGGTCCATATAGCTGACCTTATATAGTACGGATGAGGCTTAGTTGTTGTGTTAATCCATAT
1 AATATGGTCCATATAGCTGACCTTATATAGTACGGATGAGGCTTAGTTGTTGTGTTAATCCATAT
23599242 GTGATTCC
66 GTGATTCC
* *
23599250 AATATGGTCCATGTAGCTGACCTTATGTAGTACGGATGAGGCTTAGTTGTTGTGTTAATCCATAT
1 AATATGGTCCATATAGCTGACCTTATATAGTACGGATGAGGCTTAGTTGTTGTGTTAATCCATAT
23599315 GTGATTCC
66 GTGATTCC
23599323 TTGCACCATT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (73 bp):
AATATGGTCCATATAGCTGACCTTATATAGTACGGATGAGGCTTAGTTGTTGTGTTAATCCATAT
GTGATTCC
Found at i:23603407 original size:28 final size:28
Alignment explanation
Indices: 23603376--23603449 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
23603366 TTTCATTATT
*
23603376 CATCCACTTTTGATGGGTTGA-AAGTATC
1 CATCCACTTTTGATAGGTT-ATAAGTATC
*
23603404 CATCCACTTTTGGTAGGTTATAAGTATC
1 CATCCACTTTTGATAGGTTATAAGTATC
* *
23603432 CATCCATTTTTGGTAGGT
1 CATCCACTTTTGATAGGT
23603450 GATCCACCTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
27 1 0.02
28 41 0.98
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (28 bp):
CATCCACTTTTGATAGGTTATAAGTATC
Found at i:23603545 original size:26 final size:26
Alignment explanation
Indices: 23603516--23603616 Score: 98
Period size: 26 Copynumber: 3.9 Consensus size: 26
23603506 TAAGGTACCC
23603516 ATCCACTTTTGATGGTAAAATTATCT
1 ATCCACTTTTGATGGTAAAATTATCT
** *
23603542 ATCCACTCGTGGTGGTAAAATTATTCT
1 ATCCACTTTTGATGGTAAAATTA-TCT
** * *
23603569 -TAGA-TTCTGATGGTAAAATTATCC
1 ATCCACTTTTGATGGTAAAATTATCT
* *
23603593 ATCCACTTTTGGTGATAAAATTAT
1 ATCCACTTTTGATGGTAAAATTAT
23603617 TCTTAGAATA
Statistics
Matches: 58, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
24 2 0.03
25 16 0.28
26 37 0.64
27 3 0.05
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (26 bp):
ATCCACTTTTGATGGTAAAATTATCT
Found at i:23603585 original size:51 final size:51
Alignment explanation
Indices: 23603525--23603623 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
23603515 CATCCACTTT
* *
23603525 TGATGGTAAAATTATCTATCCACTCGTGGTGGTAAAATTATTCTTAGATTC
1 TGATGGTAAAATTATCCATCCACTCGTGGTGATAAAATTATTCTTAGATTC
**
23603576 TGATGGTAAAATTATCCATCCACTTTTGGTGATAAAATTATTCTTAGA
1 TGATGGTAAAATTATCCATCCACTCGTGGTGATAAAATTATTCTTAGA
23603624 ATAGTGATAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.39
Consensus pattern (51 bp):
TGATGGTAAAATTATCCATCCACTCGTGGTGATAAAATTATTCTTAGATTC
Found at i:23605341 original size:16 final size:16
Alignment explanation
Indices: 23605320--23605350 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
23605310 AAACGTTAAT
23605320 TAATTATATATATATA
1 TAATTATATATATATA
23605336 TAATTATATATATAT
1 TAATTATATATATAT
23605351 TTATAATTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTATATATATATA
Found at i:23605347 original size:18 final size:18
Alignment explanation
Indices: 23605324--23605358 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
23605314 GTTAATTAAT
23605324 TATATATATATATAATTA
1 TATATATATATATAATTA
*
23605342 TATATATATTTATAATT
1 TATATATATATATAATT
23605359 GGAGTAGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TATATATATATATAATTA
Found at i:23605439 original size:2 final size:2
Alignment explanation
Indices: 23605432--23605459 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23605422 NTTATTCTTA
23605432 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23605460 TTGCAGGGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23608886 original size:4 final size:4
Alignment explanation
Indices: 23608877--23608903 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
23608867 AGCCAGGCTT
23608877 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
23608904 GTTTTCTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:23620189 original size:33 final size:34
Alignment explanation
Indices: 23620115--23620189 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 34
23620105 TGTCCATTTT
* *
23620115 TTATTATTAATTATTATTTTCATTTTATTTTATT
1 TTATTATTAATCATTATTTTCATTTTATTTTATA
*
23620149 TTTTTATT-ATCA-TATTTTCTATTTTATTTCTA-A
1 TTATTATTAATCATTATTTTC-ATTTTATTT-TATA
23620182 TTATTATT
1 TTATTATT
23620190 GTTTATACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 7 0.20
33 19 0.54
34 9 0.26
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.69
Consensus pattern (34 bp):
TTATTATTAATCATTATTTTCATTTTATTTTATA
Found at i:23620332 original size:9 final size:9
Alignment explanation
Indices: 23620287--23620361 Score: 59
Period size: 9 Copynumber: 8.4 Consensus size: 9
23620277 ATGACAAAAA
23620287 TTTTATATT
1 TTTTATATT
23620296 TTTT-TATT
1 TTTTATATT
*
23620304 TTATTTTATAT
1 TT-TTATAT-T
*
23620315 TTTTGTATT
1 TTTTATATT
23620324 TTTTATA-T
1 TTTTATATT
23620332 TTTTATA-T
1 TTTTATATT
*
23620340 TATTAT-TAT
1 TTTTATAT-T
*
23620349 TATTATATT
1 TTTTATATT
23620358 TTTT
1 TTTT
23620362 CGTAAACAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
8 20 0.36
9 24 0.43
10 9 0.16
11 3 0.05
ACGTcount: A:0.23, C:0.00, G:0.01, T:0.76
Consensus pattern (9 bp):
TTTTATATT
Found at i:23620349 original size:17 final size:18
Alignment explanation
Indices: 23620289--23620357 Score: 70
Period size: 17 Copynumber: 3.9 Consensus size: 18
23620279 GACAAAAATT
* *
23620289 TTATATTTTTTTATTTTA
1 TTATATATTTTTATATTA
* *
23620307 TTTTATATTTTTGTATT-
1 TTATATATTTTTATATTA
*
23620324 TTTTATATTTTTATATTA
1 TTATATATTTTTATATTA
*
23620342 TTAT-TATTATTATATT
1 TTATATATTTTTATATT
23620358 TTTTCGTAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
17 27 0.63
18 16 0.37
ACGTcount: A:0.25, C:0.00, G:0.01, T:0.74
Consensus pattern (18 bp):
TTATATATTTTTATATTA
Found at i:23620541 original size:13 final size:13
Alignment explanation
Indices: 23620523--23620572 Score: 68
Period size: 13 Copynumber: 4.0 Consensus size: 13
23620513 GTTGTTTTAG
23620523 ATTTTTTATTATT
1 ATTTTTTATTATT
23620536 ATTTTTTATTA-T
1 ATTTTTTATTATT
*
23620548 ATTTTTT-TTATA
1 ATTTTTTATTATT
*
23620560 ATTTATTATTATT
1 ATTTTTTATTATT
23620573 TAATTGTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 3 0.09
12 14 0.44
13 15 0.47
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
ATTTTTTATTATT
Found at i:23620553 original size:24 final size:24
Alignment explanation
Indices: 23620525--23620571 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
23620515 TGTTTTAGAT
* *
23620525 TTTTTATTATTATTTTTTATTATA
1 TTTTTATTATAATTTATTATTATA
*
23620549 TTTTTTTTATAATTTATTATTAT
1 TTTTTATTATAATTTATTATTAT
23620572 TTAATTGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (24 bp):
TTTTTATTATAATTTATTATTATA
Found at i:23620637 original size:40 final size:42
Alignment explanation
Indices: 23620550--23620640 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 42
23620540 TTTATTATAT
23620550 TTTTTTTATAATTTATTATTATTTAATTGTTATTTATATTGCA
1 TTTTTTTATAATTTATTATTATTTAATTGTTATTTATATT-CA
23620593 -TTTTTTATAAATTTATTA-T-TTT-ATTGTATATTTGA-ATT-A
1 TTTTTTTAT-AATTTATTATTATTTAATTGT-TATTT-ATATTCA
23620632 TTTTTTTAT
1 TTTTTTTAT
23620641 TTATTATTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
39 1 0.02
40 13 0.30
41 11 0.25
42 10 0.23
43 9 0.20
ACGTcount: A:0.27, C:0.01, G:0.04, T:0.67
Consensus pattern (42 bp):
TTTTTTTATAATTTATTATTATTTAATTGTTATTTATATTCA
Found at i:23620650 original size:36 final size:36
Alignment explanation
Indices: 23620561--23620650 Score: 96
Period size: 36 Copynumber: 2.4 Consensus size: 36
23620551 TTTTTTATAA
*
23620561 TTTA-TTATTATTTAATTGTTATTTATATTGCATTTT
1 TTTATTTATTATTTTATTGTTATTTATATT-CATTTT
23620597 TTATAAATTTATTATTTTATTGTATATTTGA-ATT-ATTTT
1 TT-T--ATTTATTATTTTATTGT-TATTT-ATATTCATTTT
23620636 TTTATTTATTATTTT
1 TTTATTTATTATTTT
23620651 TATCCTCTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
36 14 0.30
37 1 0.02
38 1 0.02
39 8 0.17
40 14 0.30
41 8 0.17
42 1 0.02
ACGTcount: A:0.27, C:0.01, G:0.04, T:0.68
Consensus pattern (36 bp):
TTTATTTATTATTTTATTGTTATTTATATTCATTTT
Found at i:23621598 original size:62 final size:62
Alignment explanation
Indices: 23621392--23621602 Score: 224
Period size: 62 Copynumber: 3.4 Consensus size: 62
23621382 TAAATGGCGG
* * * * * * * * * *
23621392 CAACCCAAGCACCAAATCCAGCACCGGCTTTTCTTTCTCCCTCTACCCAGGTTAACCAACGG
1 CAACCCAAGCACCAGATCCAACGCCAGCTTCTCTCTCTCCCTCTACCCACGCTAACCGACGA
* * * *
23621454 CAACTCAAGCACCAGATCCAGCGCCGGCTTCTCTCTCTCCCTCTACCCACGCTAACCGACGG
1 CAACCCAAGCACCAGATCCAACGCCAGCTTCTCTCTCTCCCTCTACCCACGCTAACCGACGA
* * * * * * *
23621516 CAACCCAAGCACTAGATCCAATGCCATCTTCTTTCTCTCCCTCTACCCACTCTGACCGGCGA
1 CAACCCAAGCACCAGATCCAACGCCAGCTTCTCTCTCTCCCTCTACCCACGCTAACCGACGA
*
23621578 CAACCCAAACACCAGATCCAACGCC
1 CAACCCAAGCACCAGATCCAACGCC
23621603 GATAGGGCTT
Statistics
Matches: 127, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 127 1.00
ACGTcount: A:0.25, C:0.43, G:0.13, T:0.19
Consensus pattern (62 bp):
CAACCCAAGCACCAGATCCAACGCCAGCTTCTCTCTCTCCCTCTACCCACGCTAACCGACGA
Found at i:23629351 original size:2 final size:2
Alignment explanation
Indices: 23629344--23629446 Score: 90
Period size: 2 Copynumber: 53.0 Consensus size: 2
23629334 AAAATGCATG
**
23629344 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA NGG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
** * * *
23629387 CC T- TGC CA TG TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA -A
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23629427 TA -A TA -A TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
23629447 AAATGAAAAT
Statistics
Matches: 84, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
1 5 0.06
2 79 0.94
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:23634632 original size:7 final size:7
Alignment explanation
Indices: 23634596--23634630 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
23634586 ATATAATTTC
23634596 CTTCTTT
1 CTTCTTT
23634603 CTTCTTT
1 CTTCTTT
23634610 CTTCTTT
1 CTTCTTT
*
23634617 CCTCTTT
1 CTTCTTT
*
23634624 TTTCTTT
1 CTTCTTT
23634631 TTACTTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (7 bp):
CTTCTTT
Found at i:23642623 original size:29 final size:29
Alignment explanation
Indices: 23642560--23642626 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
23642550 GAAACATACA
23642560 AAAGAAGAAGCTATACATAAATAGAG-AC
1 AAAGAAGAAGCTATACATAAATAGAGTAC
* *
23642588 ACAAGAAGAAGCTGTACGTAAATAG-GTAC
1 A-AAGAAGAAGCTATACATAAATAGAGTAC
23642617 AAGAGAAGAA
1 AA-AGAAGAA
23642627 AGTGCATGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.54, C:0.10, G:0.22, T:0.13
Consensus pattern (29 bp):
AAAGAAGAAGCTATACATAAATAGAGTAC
Found at i:23643828 original size:13 final size:14
Alignment explanation
Indices: 23643763--23643843 Score: 55
Period size: 14 Copynumber: 5.9 Consensus size: 14
23643753 TATTTTTTAG
* **
23643763 TTATTATTAATTAA
1 TTATTATTATTTTC
*
23643777 TTATTATT-TTTATT
1 TTATTATTATTT-TC
23643791 TTATTA-TATTTT-
1 TTATTATTATTTTC
23643803 TTATTATCATATTTTC
1 TTATTAT--TATTTTC
*
23643819 -TATTCTTA-TTTC
1 TTATTATTATTTTC
23643831 TTATTATTATTTT
1 TTATTATTATTTT
23643844 TTTTTATACT
Statistics
Matches: 54, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
12 10 0.19
13 13 0.24
14 20 0.37
15 11 0.20
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATTATTATTTTC
Found at i:23643850 original size:13 final size:13
Alignment explanation
Indices: 23643777--23643850 Score: 58
Period size: 13 Copynumber: 5.3 Consensus size: 13
23643767 TATTAATTAA
23643777 TTATTATTTTTATT
1 TTATTATTTTT-TT
23643791 TTATTATATTTTTT
1 TTATTAT-TTTTTT
* *
23643805 ATTATCATATTTTCTA
1 -TTAT--TATTTTTTT
* * *
23643821 TTCTTATTTCTTA
1 TTATTATTTTTTT
23643834 TTATTATTTTTTT
1 TTATTATTTTTTT
23643847 TTAT
1 TTAT
23643851 ACTTTACATT
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
13 21 0.44
14 9 0.19
15 11 0.23
16 4 0.08
17 3 0.06
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (13 bp):
TTATTATTTTTTT
Found at i:23643968 original size:15 final size:15
Alignment explanation
Indices: 23643942--23643989 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
23643932 AACAAAAATT
*
23643942 TTATATATTTTTTTA
1 TTATATATTTTTATA
*
23643957 TTATACTATTTTTATT
1 TTATA-TATTTTTATA
23643973 TTATATATTTTTATA
1 TTATATATTTTTATA
23643988 TT
1 TT
23643990 TTTATTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 16 0.55
16 13 0.45
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATATATTTTTATA
Found at i:23643970 original size:14 final size:13
Alignment explanation
Indices: 23643940--23644009 Score: 63
Period size: 14 Copynumber: 5.3 Consensus size: 13
23643930 TGAACAAAAA
*
23643940 TTTTA-TATATTT
1 TTTTATTATATAT
23643952 TTTTATTATACTAT
1 TTTTATTATA-TAT
*
23643966 TTTTATTTTATAT
1 TTTTATTATATAT
* *
23643979 ATTT-TTATATTT
1 TTTTATTATATAT
23643991 TTATTATTATAATAT
1 TT-TTATTAT-ATAT
23644006 TTTT
1 TTTT
23644010 CATAGGCAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
12 12 0.26
13 12 0.26
14 17 0.37
15 5 0.11
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTATTATATAT
Found at i:23643989 original size:8 final size:8
Alignment explanation
Indices: 23643939--23644009 Score: 56
Period size: 8 Copynumber: 8.8 Consensus size: 8
23643929 GTGAACAAAA
23643939 ATTTTATAT
1 ATTTT-TAT
*
23643948 ATTTTTTT
1 ATTTTTAT
*
23643956 A-TTATACT
1 ATTTTTA-T
23643964 ATTTTTAT
1 ATTTTTAT
*
23643972 -TTTATAT
1 ATTTTTAT
23643979 ATTTTTAT
1 ATTTTTAT
23643987 ATTTTTATT
1 ATTTTTA-T
* *
23643996 ATTATAAT
1 ATTTTTAT
23644004 ATTTTT
1 ATTTTT
23644010 CATAGGCAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
7 9 0.19
8 24 0.50
9 15 0.31
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.70
Consensus pattern (8 bp):
ATTTTTAT
Found at i:23643989 original size:23 final size:25
Alignment explanation
Indices: 23643963--23644009 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 25
23643953 TTTATTATAC
23643963 TATTTTTATT-TTAT-ATATTTTTA
1 TATTTTTATTATTATAATATTTTTA
23643986 TATTTTTATTATTATAATATTTTT
1 TATTTTTATTATTATAATATTTTT
23644010 CATAGGCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 10 0.45
24 4 0.18
25 8 0.36
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (25 bp):
TATTTTTATTATTATAATATTTTTA
Found at i:23644861 original size:3 final size:3
Alignment explanation
Indices: 23644855--23644891 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
23644845 ATTCTTTTTT
23644855 TTA TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
23644892 TAAATACTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:23646097 original size:6 final size:6
Alignment explanation
Indices: 23646086--23646136 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
23646076 TCATTTCTTC
* *
23646086 TTTATT TTTATT TTTATT TTT-TAT TTT-TT ATTATT TTTATT ATATATT
1 TTTATT TTTATT TTTATT TTTAT-T TTTATT TTTATT TTTATT -TTTATT
23646134 TTT
1 TTT
23646137 TTGATTCATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
5 4 0.11
6 29 0.76
7 5 0.13
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:23646099 original size:23 final size:23
Alignment explanation
Indices: 23646073--23646122 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
23646063 TCTCCCATCT
*
23646073 TTTTCATTTCTTCTTTATTT-TTA
1 TTTTCATTTCTTATTT-TTTATTA
* *
23646096 TTTTTATTTTTTATTTTTTATTA
1 TTTTCATTTCTTATTTTTTATTA
23646119 TTTT
1 TTTT
23646123 TATTATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTCATTTCTTATTTTTTATTA
Found at i:23646108 original size:13 final size:13
Alignment explanation
Indices: 23646086--23646137 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
23646076 TCATTTCTTC
23646086 TTTA-TTTTTATT
1 TTTATTTTTTATT
23646098 TTTATTTTTTATTT
1 TTTATTTTTTA-TT
23646112 TTTATTATTTTTATT
1 TTTA-T-TTTTTATT
*
23646127 ATATATTTTTT
1 -TTTATTTTTT
23646138 TGATTCATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
12 4 0.12
13 6 0.18
14 11 0.32
15 4 0.12
16 9 0.26
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:23646123 original size:23 final size:23
Alignment explanation
Indices: 23646093--23646137 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
23646083 TTCTTTATTT
* *
23646093 TTATTTTTATTTTTTATTTTTTA
1 TTATTTTTATTATATATTTTTTA
23646116 TTATTTTTATTATATATTTTTT
1 TTATTTTTATTATATATTTTTT
23646138 TGATTCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (23 bp):
TTATTTTTATTATATATTTTTTA
Found at i:23649121 original size:2 final size:2
Alignment explanation
Indices: 23649114--23649142 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23649104 CATGAACTAC
23649114 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23649143 GAGGTATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23650047 original size:31 final size:31
Alignment explanation
Indices: 23650010--23650072 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
23650000 ATTTTAGGAT
* *
23650010 ATTGATTTTCCATGTTT-CTTCCCAGTTGCAG
1 ATTGA-TTACCATGTTTGCTTCCAAGTTGCAG
*
23650041 ATTGATTACCCTGTTTGCTTCCAAGTTGCAG
1 ATTGATTACCATGTTTGCTTCCAAGTTGCAG
23650072 A
1 A
23650073 GAGTCACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 9 0.32
31 19 0.68
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (31 bp):
ATTGATTACCATGTTTGCTTCCAAGTTGCAG
Found at i:23653315 original size:503 final size:508
Alignment explanation
Indices: 23652355--23653359 Score: 1750
Period size: 503 Copynumber: 2.0 Consensus size: 508
23652345 TGAAATGACT
*
23652355 TTCTATTAGTTCACATTTGCAGAAACACAGCAGCCTTCTAGTGAAAATATTGAGGGATGAACCGT
1 TTCTATTAGTTCACATTTGCAGAAACACAGCAGCCTTCTAGTGAAAACATTGAGGGATGAACCGT
23652420 AAACAAATCAGCTCAAGGTAGATGCTAAGAAAAGATGATAGTGAAAAAGCAAAGGACTTCCAATG
66 AAACAAATCAGCTCAA-G-AGA-GCT-----AAGATGATAGTGAAAAAGCAAAGGACTTCCAATG
* *
23652485 AGAATGTCACTACTATTAAGCAACCCTATATGTGGATGTTGATAGAATGAGTAAGAAACCTTAGC
123 AGAAAGTCACTACTATTAAGCAACCCTATATGCGGATGTTGATAGAATGAGTAAGAAACCTTAGC
23652550 CAACAGTTGGCCATAACATAGCAAGTCTTCATAAATATTACAACAAATTTCATGACACTTAACCC
188 CAACAGTTGGCCATAACATAGCAAGTCTTCATAAATATTACAACAAATTTCATGACACTTAACCC
*
23652615 CATAGCAGTCTATGAGTGGCTTCAGTTCCTCTTTAGTCAAACTAAACTTTACTAAAAGTGTTTGT
253 CACAGCAGTCTATGAGTGGCTTCAGTTCCTCTTTAGTCAAACTAAACTTTACTAAAAGTGTTTGT
*
23652680 TTTTTAGAAACAGCCAACATAAACAGAATTTATTAATTAAAAATAAAATAAAATGAACCACGCTA
318 TTTTAAGAAACAGCCAACATAAACAGAATTTATTAATTAAAAATAAAATAAAATGAACCACGCTA
23652745 GATTACTTAGGTTCAGTTTCGTCTATTTACGACTTTGAACATTCATACTTGGGATCCAATTGGCC
383 GATTACTTAGGTTCAGTTTCGTCTATTTACGACTTTGAACATTCATACTTGGGATCCAATTGGCC
23652810 AGATTGGATAGGTTTAGAGCTGTTGGGCATTAATATATGTGTTAAGTAATATTTGTCTATG
448 AGATTGGATAGGTTTAGAGCTGTTGGGCATTAATATATGTGTTAAGTAATATTTGTCTATG
*
23652871 TTCTATTAGTTCACATTTGCAGAAACACAGCAGCCTTCTAGTGAAAACATTGAGGGATGAACTGT
1 TTCTATTAGTTCACATTTGCAGAAACACAGCAGCCTTCTAGTGAAAACATTGAGGGATGAACCGT
*
23652936 AAACAAATCAGCTC-A-AG-G-T-AGATGATAGTGAAAAAGCAAAGGACTTTCAATGAGAAAGTC
66 AAACAAATCAGCTCAAGAGAGCTAAGATGATAGTGAAAAAGCAAAGGACTTCCAATGAGAAAGTC
*
23652996 ACTACTATTAAGCAACCCTATATGCGGATGTTGATAGAATGAGTAAGAAACCTTCGCCAACAGTT
131 ACTACTATTAAGCAACCCTATATGCGGATGTTGATAGAATGAGTAAGAAACCTTAGCCAACAGTT
* *
23653061 GGCCATAACATAGCAAGTCTTGATAACTATTACAACAAATTTCATGACACTTAACCCCACAGCAG
196 GGCCATAACATAGCAAGTCTTCATAAATATTACAACAAATTTCATGACACTTAACCCCACAGCAG
*
23653126 TCTATGAGTGGCTTCAGTTCCTCTTTAGTCAAACTAAACTTTACTACAAGTGTTTGTTTTTAAGA
261 TCTATGAGTGGCTTCAGTTCCTCTTTAGTCAAACTAAACTTTACTAAAAGTGTTTGTTTTTAAGA
* *
23653191 AACAGCCAACATAAACAGAATTTATTAATTAAAAATGAAATAAAATGATCCACGCTAGATTACTT
326 AACAGCCAACATAAACAGAATTTATTAATTAAAAATAAAATAAAATGAACCACGCTAGATTACTT
* *
23653256 AGGTTCGGTTTCGTCTATTTACTACTTTGAACATTCATACTTGGGATCCAATTGGCCAGATTGGA
391 AGGTTCAGTTTCGTCTATTTACGACTTTGAACATTCATACTTGGGATCCAATTGGCCAGATTGGA
**
23653321 TAGGTTTAGATTTGTTGGGCATTAATATATGTGTTAAGT
456 TAGGTTTAGAGCTGTTGGGCATTAATATATGTGTTAAGT
23653360 GTTAGATGGT
Statistics
Matches: 472, Mismatches: 17, Indels: 13
0.94 0.03 0.03
Matches are distributed among these distances:
503 390 0.83
509 1 0.00
510 1 0.00
512 2 0.00
515 1 0.00
516 77 0.16
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.30
Consensus pattern (508 bp):
TTCTATTAGTTCACATTTGCAGAAACACAGCAGCCTTCTAGTGAAAACATTGAGGGATGAACCGT
AAACAAATCAGCTCAAGAGAGCTAAGATGATAGTGAAAAAGCAAAGGACTTCCAATGAGAAAGTC
ACTACTATTAAGCAACCCTATATGCGGATGTTGATAGAATGAGTAAGAAACCTTAGCCAACAGTT
GGCCATAACATAGCAAGTCTTCATAAATATTACAACAAATTTCATGACACTTAACCCCACAGCAG
TCTATGAGTGGCTTCAGTTCCTCTTTAGTCAAACTAAACTTTACTAAAAGTGTTTGTTTTTAAGA
AACAGCCAACATAAACAGAATTTATTAATTAAAAATAAAATAAAATGAACCACGCTAGATTACTT
AGGTTCAGTTTCGTCTATTTACGACTTTGAACATTCATACTTGGGATCCAATTGGCCAGATTGGA
TAGGTTTAGAGCTGTTGGGCATTAATATATGTGTTAAGTAATATTTGTCTATG
Found at i:23656094 original size:372 final size:372
Alignment explanation
Indices: 23655409--23656153 Score: 1490
Period size: 372 Copynumber: 2.0 Consensus size: 372
23655399 CCTCCATTAA
23655409 TGAATTTGCCCCTTCCTTCAACCCTGACTCTAAACTAACATTCAGCTTAGACTCGACCCAGGAAT
1 TGAATTTGCCCCTTCCTTCAACCCTGACTCTAAACTAACATTCAGCTTAGACTCGACCCAGGAAT
23655474 CACTTTGAATTTCATCTATCAAAGCATTTTCTTTCCCATTTCTCAGCTCTACAGCAGACTTCTGA
66 CACTTTGAATTTCATCTATCAAAGCATTTTCTTTCCCATTTCTCAGCTCTACAGCAGACTTCTGA
23655539 TCCAATTTCTCAAATTGCCCAGCTTTAGCCATTTTGTGCTCCCTCTTCCTCTTTCTTTTCTTTTC
131 TCCAATTTCTCAAATTGCCCAGCTTTAGCCATTTTGTGCTCCCTCTTCCTCTTTCTTTTCTTTTC
23655604 TGAAGCAGCCGGTTGTTCATTCACTTGACTCCCCTTCAATGCAGGCTCTAAACTACTTTTCTCCA
196 TGAAGCAGCCGGTTGTTCATTCACTTGACTCCCCTTCAATGCAGGCTCTAAACTACTTTTCTCCA
23655669 CTGACTCTAAACTAACAGTCACCTTAGACTCCGCATGAGAATGACTTTGATTTTCATATATAATA
261 CTGACTCTAAACTAACAGTCACCTTAGACTCCGCATGAGAATGACTTTGATTTTCATATATAATA
23655734 GCATTTTCATTCCCATCTCTGAACAATAGAACAGACTTCGGCCCTTC
326 GCATTTTCATTCCCATCTCTGAACAATAGAACAGACTTCGGCCCTTC
23655781 TGAATTTGCCCCTTCCTTCAACCCTGACTCTAAACTAACATTCAGCTTAGACTCGACCCAGGAAT
1 TGAATTTGCCCCTTCCTTCAACCCTGACTCTAAACTAACATTCAGCTTAGACTCGACCCAGGAAT
23655846 CACTTTGAATTTCATCTATCAAAGCATTTTCTTTCCCATTTCTCAGCTCTACAGCAGACTTCTGA
66 CACTTTGAATTTCATCTATCAAAGCATTTTCTTTCCCATTTCTCAGCTCTACAGCAGACTTCTGA
23655911 TCCAATTTCTCAAATTGCCCAGCTTTAGCCATTTTGTGCTCCCTCTTCCTCTTTCTTTTCTTTTC
131 TCCAATTTCTCAAATTGCCCAGCTTTAGCCATTTTGTGCTCCCTCTTCCTCTTTCTTTTCTTTTC
23655976 TGAAGCAGCCGGTTGTTCATTCACTTGACTCCCCTTCAATGCAGGCTCTAAACTACTTTTCTCCA
196 TGAAGCAGCCGGTTGTTCATTCACTTGACTCCCCTTCAATGCAGGCTCTAAACTACTTTTCTCCA
23656041 CTGACTCTAAACTAACAGTCACCTTAGACTCCGCATGAGAATGACTTTGATTTTCATATATAATA
261 CTGACTCTAAACTAACAGTCACCTTAGACTCCGCATGAGAATGACTTTGATTTTCATATATAATA
23656106 GCATTTTCATTCCCATCTCTGAACAATAGAACAGACTTCGGCCCTTC
326 GCATTTTCATTCCCATCTCTGAACAATAGAACAGACTTCGGCCCTTC
23656153 T
1 T
23656154 TCCCCATATT
Statistics
Matches: 373, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
372 373 1.00
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (372 bp):
TGAATTTGCCCCTTCCTTCAACCCTGACTCTAAACTAACATTCAGCTTAGACTCGACCCAGGAAT
CACTTTGAATTTCATCTATCAAAGCATTTTCTTTCCCATTTCTCAGCTCTACAGCAGACTTCTGA
TCCAATTTCTCAAATTGCCCAGCTTTAGCCATTTTGTGCTCCCTCTTCCTCTTTCTTTTCTTTTC
TGAAGCAGCCGGTTGTTCATTCACTTGACTCCCCTTCAATGCAGGCTCTAAACTACTTTTCTCCA
CTGACTCTAAACTAACAGTCACCTTAGACTCCGCATGAGAATGACTTTGATTTTCATATATAATA
GCATTTTCATTCCCATCTCTGAACAATAGAACAGACTTCGGCCCTTC
Found at i:23662051 original size:30 final size:30
Alignment explanation
Indices: 23662015--23662141 Score: 173
Period size: 30 Copynumber: 4.2 Consensus size: 30
23662005 CCGAAAATTA
* * *
23662015 GGAGACCTGCTCTTGCTCCTATGATTTCTG
1 GGAGACCTGCTCCTGCTTCTACGATTTCTG
* *
23662045 GGAGACCTGCTCCTGCTTCTGCGAGTTCTG
1 GGAGACCTGCTCCTGCTTCTACGATTTCTG
* *
23662075 GGAGACCGGCTCCTGCTTCTACGATTTCTT
1 GGAGACCTGCTCCTGCTTCTACGATTTCTG
* *
23662105 GGAGACCTGCTCCTGCTTCTACAATTTCTT
1 GGAGACCTGCTCCTGCTTCTACGATTTCTG
23662135 GGAGACC
1 GGAGACC
23662142 AGCTAAAACA
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 86 1.00
ACGTcount: A:0.14, C:0.29, G:0.24, T:0.32
Consensus pattern (30 bp):
GGAGACCTGCTCCTGCTTCTACGATTTCTG
Found at i:23663848 original size:32 final size:32
Alignment explanation
Indices: 23663794--23663883 Score: 103
Period size: 32 Copynumber: 2.8 Consensus size: 32
23663784 TACATGATGT
* *
23663794 TAAAAGATTCTAAACTAATAGGAAGCCA-AAGC
1 TAAAAGATTCTGAAC-ATTAGGAAGCCAGAAGC
*
23663826 TAAAAGGATTCTGAACATTAGGAAG-CAGAAGT
1 TAAAA-GATTCTGAACATTAGGAAGCCAGAAGC
*
23663858 TAAAAAAATTCTGAACATTAGGAAGC
1 T-AAAAGATTCTGAACATTAGGAAGC
23663884 ATAACTATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
31 2 0.04
32 35 0.70
33 13 0.26
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (32 bp):
TAAAAGATTCTGAACATTAGGAAGCCAGAAGC
Found at i:23667446 original size:15 final size:15
Alignment explanation
Indices: 23667417--23667456 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
23667407 AACTTTTTCT
23667417 TGTAATGCATCTTGG
1 TGTAATGCATCTTGG
*
23667432 TTTAATTGCAT-TTGG
1 TGTAA-TGCATCTTGG
23667447 TGTAATGCAT
1 TGTAATGCAT
23667457 ATATGGTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 5 0.23
15 12 0.55
16 5 0.23
ACGTcount: A:0.23, C:0.10, G:0.23, T:0.45
Consensus pattern (15 bp):
TGTAATGCATCTTGG
Found at i:23669089 original size:12 final size:11
Alignment explanation
Indices: 23669059--23669103 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 11
23669049 TAGACACCTC
23669059 TAAAATAAAAA
1 TAAAATAAAAA
*
23669070 TGATAATAAAATA
1 T-AAAATAAAA-A
23669083 TAAAATACAAAA
1 TAAAATA-AAAA
23669095 TAAAATAAA
1 TAAAATAAA
23669104 TTAAAAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
11 3 0.10
12 21 0.72
13 5 0.17
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:23669101 original size:24 final size:24
Alignment explanation
Indices: 23669059--23669125 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 24
23669049 TAGACACCTC
*
23669059 TAAAATAAAAATGATAATAAAATA
1 TAAAATAAAAATGAAAATAAAATA
*
23669083 TAAAATACAAAAT-AAAATAAATTA
1 TAAAATA-AAAATGAAAATAAAATA
*
23669107 AAAAATGAAAAAATGAAAA
1 TAAAAT--AAAAATGAAAA
23669126 ATGATGAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
24 21 0.58
25 10 0.28
26 5 0.14
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.21
Consensus pattern (24 bp):
TAAAATAAAAATGAAAATAAAATA
Found at i:23669125 original size:15 final size:16
Alignment explanation
Indices: 23669107--23669140 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23669097 AAATAAATTA
23669107 AAAAATGA-AAAAATG
1 AAAAATGATAAAAATG
*
23669122 AAAAATGATGAAAATG
1 AAAAATGATAAAAATG
23669138 AAA
1 AAA
23669141 TGATGAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (16 bp):
AAAAATGATAAAAATG
Found at i:23670818 original size:21 final size:23
Alignment explanation
Indices: 23670778--23670823 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
23670768 TAAATATTAC
*
23670778 TAAATAAAGTTAATTTAATCGTT
1 TAAATAAAATTAATTTAATCGTT
23670801 TAAA-AAAATTAA-TTAATCGTT
1 TAAATAAAATTAATTTAATCGTT
23670822 TA
1 TA
23670824 TTTGATAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.50
22 7 0.32
23 4 0.18
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (23 bp):
TAAATAAAATTAATTTAATCGTT
Found at i:23679793 original size:13 final size:13
Alignment explanation
Indices: 23679775--23679803 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
23679765 GTAAAAACTT
23679775 TGATAAATTTCTC
1 TGATAAATTTCTC
23679788 TGATAAATTTCTC
1 TGATAAATTTCTC
23679801 TGA
1 TGA
23679804 ACAGGATCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (13 bp):
TGATAAATTTCTC
Found at i:23693169 original size:2 final size:2
Alignment explanation
Indices: 23693162--23693195 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
23693152 TTTGCCACAT
23693162 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
23693196 TCAAATGACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:23706308 original size:20 final size:20
Alignment explanation
Indices: 23706272--23706309 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23706262 ATGGTAATAC
*
23706272 AAGTTTATTAAGTTGAAGCA
1 AAGTTTATCAAGTTGAAGCA
23706292 AAGTTTGATCAAG-TGAAG
1 AAGTTT-ATCAAGTTGAAG
23706310 TCTAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (20 bp):
AAGTTTATCAAGTTGAAGCA
Found at i:23718517 original size:14 final size:15
Alignment explanation
Indices: 23718492--23718521 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
23718482 TTGGAATAAG
23718492 AAAAGAATAAAAAAT
1 AAAAGAATAAAAAAT
23718507 AAAAG-ATAAAAAAT
1 AAAAGAATAAAAAAT
23718521 A
1 A
23718522 TCATTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (15 bp):
AAAAGAATAAAAAAT
Found at i:23718593 original size:23 final size:23
Alignment explanation
Indices: 23718567--23718611 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
23718557 ATTTTTTAAG
23718567 TATT-AATAATTTATAATATAAAA
1 TATTAAATAA-TTATAATATAAAA
*
23718590 TATTAAATAATTATAATTTAAA
1 TATTAAATAATTATAATATAAA
23718612 TATCATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TATTAAATAATTATAATATAAAA
Found at i:23718607 original size:30 final size:31
Alignment explanation
Indices: 23718572--23718644 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 31
23718562 TTAAGTATTA
23718572 ATAATTTATAATATAAAATATTAA-ATAATT
1 ATAATTTATAATATAAAATATTAATATAATT
* * *
23718602 ATAATTTA-AATATCATATTTTAATATAATT
1 ATAATTTATAATATAAAATATTAATATAATT
23718632 -TAA-TTATTAATAT
1 ATAATTTA-TAATAT
23718645 TTTAATTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 3 0.08
29 15 0.41
30 19 0.51
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (31 bp):
ATAATTTATAATATAAAATATTAATATAATT
Found at i:23718630 original size:24 final size:25
Alignment explanation
Indices: 23718601--23718654 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
23718591 ATTAAATAAT
*
23718601 TATAATTTAAATA-TCATATTTTAA
1 TATAATTTAAATATTAATATTTTAA
*
23718625 TATAATTTAATTATTAATATTTTAA
1 TATAATTTAAATATTAATATTTTAA
23718650 T-TAAT
1 TATAAT
23718655 AATATTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (25 bp):
TATAATTTAAATATTAATATTTTAA
Found at i:23718650 original size:15 final size:15
Alignment explanation
Indices: 23718630--23718668 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
23718620 TTTAATATAA
23718630 TTTAATTATTAATAT
1 TTTAATTATTAATAT
*
23718645 TTTAATTAATAATAT
1 TTTAATTATTAATAT
*
23718660 TTTATTTAT
1 TTTAATTAT
23718669 AATTTAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTAATTATTAATAT
Found at i:23718676 original size:19 final size:19
Alignment explanation
Indices: 23718616--23718679 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
23718606 TTTAAATATC
*
23718616 ATATTTTA-ATATAATTTA
1 ATATTTTATTTATAATTTA
*
23718634 ATTATTAATATTT-TAATTAATA
1 A-TATT-TTATTTATAATT--TA
23718656 ATATTTTATTTATAATTTA
1 ATATTTTATTTATAATTTA
23718675 ATATT
1 ATATT
23718680 ATTTTGATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
18 1 0.03
19 11 0.30
20 12 0.32
21 10 0.27
22 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATATTTTATTTATAATTTA
Found at i:23718784 original size:16 final size:16
Alignment explanation
Indices: 23718741--23718775 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23718731 ATTTAATAAA
*
23718741 TAAAACATTAATAGTT
1 TAAAATATTAATAGTT
*
23718757 TAAAATATTAATATTT
1 TAAAATATTAATAGTT
23718773 TAA
1 TAA
23718776 TATTTTAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (16 bp):
TAAAATATTAATAGTT
Found at i:23718854 original size:29 final size:28
Alignment explanation
Indices: 23718760--23718849 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 28
23718750 AATAGTTTAA
*
23718760 AATATTAATATTTTAATATTTTAATCATAGT
1 AATATTAATATTTTAA-ATTTT-AT-ATAAT
*
23718791 AATATTAATAATGTTTAAATTATATATAA-
1 AATATTAAT-AT-TTTAAATTTTATATAAT
23718820 AATATTAATATTTTAAATTTTATA-AAT
1 AATATTAATATTTTAAATTTTATATAAT
23718847 AAT
1 AAT
23718850 TTATTCTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
26 2 0.04
27 15 0.28
28 2 0.04
29 9 0.17
30 3 0.06
31 11 0.21
32 6 0.11
33 5 0.09
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (28 bp):
AATATTAATATTTTAAATTTTATATAAT
Found at i:23720161 original size:22 final size:22
Alignment explanation
Indices: 23720125--23720168 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
23720115 AGAATTATAA
23720125 TCTTGATCTTCCAAA-TCTTCT
1 TCTTGATCTTCCAAATTCTTCT
*
23720146 TCTTGAATCTTTCAAATTCTTCT
1 TCTTG-ATCTTCCAAATTCTTCT
23720169 CAGCTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 9 0.45
23 6 0.30
ACGTcount: A:0.20, C:0.25, G:0.05, T:0.50
Consensus pattern (22 bp):
TCTTGATCTTCCAAATTCTTCT
Found at i:23724773 original size:20 final size:20
Alignment explanation
Indices: 23724729--23724766 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23724719 ACAGTCTCCA
*
23724729 ATTACTCAATTTCTAAAATC
1 ATTATTCAATTTCTAAAATC
23724749 ATTATTCAATTTC-AAAAT
1 ATTATTCAATTTCTAAAAT
23724767 GATTTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTATTCAATTTCTAAAATC
Found at i:23746441 original size:17 final size:17
Alignment explanation
Indices: 23746419--23746454 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
23746409 TAAAAGATGA
*
23746419 ATAGAACAATTGCAGAT
1 ATAGAACAATTGCACAT
23746436 ATAGAACAATTGCACAT
1 ATAGAACAATTGCACAT
23746453 AT
1 AT
23746455 GGCAAGGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (17 bp):
ATAGAACAATTGCACAT
Found at i:23756290 original size:13 final size:13
Alignment explanation
Indices: 23756272--23756307 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
23756262 TTCATCCTCC
23756272 ATGAAAGCTTGAT
1 ATGAAAGCTTGAT
23756285 ATGAAAGCTTGAT
1 ATGAAAGCTTGAT
23756298 ATGAAAGCTT
1 ATGAAAGCTT
23756308 TATAACCTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (13 bp):
ATGAAAGCTTGAT
Found at i:23758644 original size:48 final size:48
Alignment explanation
Indices: 23758556--23758693 Score: 163
Period size: 48 Copynumber: 2.9 Consensus size: 48
23758546 TTACATAATT
* * * * * *
23758556 TTAAAATGAATGGAAAAGGCTCTTCATCTTTAAACGAGGCTATGCAATT
1 TTAAAATGATTAGAAAAAGCTCTTCATCTTTGAACAAGGCTATGCAA-C
* *
23758605 TTAAAATTATTAG-ATAAGCTCTTCATCTTTGAACAAGGCTATGCAAC
1 TTAAAATGATTAGAAAAAGCTCTTCATCTTTGAACAAGGCTATGCAAC
*
23758652 TTAAAATGATTGGAAAAAGCTCCTT-ATCTTTGAACAAGGCTA
1 TTAAAATGATTAGAAAAAGCT-CTTCATCTTTGAACAAGGCTA
23758694 CTGTCACGAC
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
47 11 0.14
48 52 0.68
49 13 0.17
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (48 bp):
TTAAAATGATTAGAAAAAGCTCTTCATCTTTGAACAAGGCTATGCAAC
Found at i:23761750 original size:47 final size:48
Alignment explanation
Indices: 23761670--23761844 Score: 239
Period size: 48 Copynumber: 3.7 Consensus size: 48
23761660 AGGGCTTGAT
* *
23761670 GGCTACGCAACTTTAAAATGATTGGAAATGCTCTTTATCTCTAAACGA
1 GGCTACACAACTTTAAAATGATTGGAAAAGCTCTTTATCTCTAAACGA
23761718 GGCTA-AGCAACTTT-AAATGATTGGAAAAGCTCTTTATCTCTAAACGA
1 GGCTACA-CAACTTTAAAATGATTGGAAAAGCTCTTTATCTCTAAACGA
* * * * *
23761765 GGCTATATAACTTTAAAATGATTGGAAAAGCTCCTTGTC-CTTAAATGA
1 GGCTACACAACTTTAAAATGATTGGAAAAGCTCTTTATCTC-TAAACGA
*
23761813 GGCTACACAACTTTAAAATGATTAGAAAAGCT
1 GGCTACACAACTTTAAAATGATTGGAAAAGCT
23761845 TCTCACCTCC
Statistics
Matches: 114, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
47 44 0.39
48 70 0.61
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (48 bp):
GGCTACACAACTTTAAAATGATTGGAAAAGCTCTTTATCTCTAAACGA
Found at i:23761873 original size:48 final size:48
Alignment explanation
Indices: 23761678--23761877 Score: 151
Period size: 48 Copynumber: 4.2 Consensus size: 48
23761668 ATGGCTACGC
* * * * * *
23761678 AACTTTAAAATGATTGGAAATGCT-CTTTATCTCTAAACGAGGCTA-AGC
1 AACTTTAAAATGATTAGAAAAGCTCCTTCACCTC-AAATGAGGCTACA-T
* * * * *
23761726 AACTTT-AAATGATTGGAAAAGCT-CTTTATCTCTAAACGAGGCTATAT
1 AACTTTAAAATGATTAGAAAAGCTCCTTCACCTC-AAATGAGGCTACAT
* ** * *
23761773 AACTTTAAAATGATTGGAAAAGCTCCTTGTCCTTAAATGAGGCTACAC
1 AACTTTAAAATGATTAGAAAAGCTCCTTCACCTCAAATGAGGCTACAT
* * *
23761821 AACTTTAAAATGATTAGAAAAGCTTC-TCACCTCCAAATGAGGTTACGT
1 AACTTTAAAATGATTAGAAAAGCTCCTTCACCT-CAAATGAGGCTACAT
23761869 AAC-TTAAAA
1 AACTTTAAAA
23761878 CAATTGAAAA
Statistics
Matches: 131, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
47 53 0.40
48 73 0.56
49 5 0.04
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (48 bp):
AACTTTAAAATGATTAGAAAAGCTCCTTCACCTCAAATGAGGCTACAT
Found at i:23761876 original size:95 final size:95
Alignment explanation
Indices: 23761670--23761877 Score: 235
Period size: 95 Copynumber: 2.2 Consensus size: 95
23761660 AGGGCTTGAT
* * *
23761670 GGCTACGCAACTTTAAAATGATTGGAAATGCTCTTTATCTCTAAACGAGGCTAAGCAACTTTAAA
1 GGCTACGTAACTTTAAAATGATTGGAAAAGCTCCTTATCTCTAAACGAGGCTAAGCAACTTTAAA
* * * *
23761735 TGATTGGAAAAGCTCTTTATCTCTAAACGA
66 TGATTAGAAAAGCTCTTCACCTCCAAACGA
** * *
23761765 GGCTATATAACTTTAAAATGATTGGAAAAGCTCCTTGTC-CTTAAATGAGGCTACA-CAACTTTA
1 GGCTACGTAACTTTAAAATGATTGGAAAAGCTCCTTATCTC-TAAACGAGGCTA-AGCAACTTT-
*
23761828 AAATGATTAGAAAAGCT-TCTCACCTCCAAATGA
63 AAATGATTAGAAAAGCTCT-TCACCTCCAAACGA
*
23761861 GGTTACGTAAC-TTAAAA
1 GGCTACGTAACTTTAAAA
23761878 CAATTGAAAA
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
94 1 0.01
95 58 0.62
96 35 0.37
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.30
Consensus pattern (95 bp):
GGCTACGTAACTTTAAAATGATTGGAAAAGCTCCTTATCTCTAAACGAGGCTAAGCAACTTTAAA
TGATTAGAAAAGCTCTTCACCTCCAAACGA
Found at i:23764526 original size:23 final size:24
Alignment explanation
Indices: 23764498--23764543 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
23764488 CTTGAACTCT
23764498 TTCTTTTTTT-TTTTAATTTTTTC
1 TTCTTTTTTTGTTTTAATTTTTTC
*
23764521 TTCTTTTTTTGTTTTATTTTTTT
1 TTCTTTTTTTGTTTTAATTTTTT
23764544 AAGCTTAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.07, C:0.07, G:0.02, T:0.85
Consensus pattern (24 bp):
TTCTTTTTTTGTTTTAATTTTTTC
Found at i:23778846 original size:43 final size:43
Alignment explanation
Indices: 23778780--23778891 Score: 136
Period size: 43 Copynumber: 2.6 Consensus size: 43
23778770 TATTGACTCG
* * *
23778780 GTTATGTGCGAGTAGGGAGTGCGCATAAGCCTAAGATGACCC-
1 GTTATGTGCGAGTAGGGAATGCGCATAACCCGAAGATGACCCA
* **
23778822 GATTATGTGCAAGTAGGGAATGCGCATAACCCGGTGATGACCCA
1 G-TTATGTGCGAGTAGGGAATGCGCATAACCCGAAGATGACCCA
**
23778866 GCCATGTGCGAGTAGGGAATGCGCAT
1 GTTATGTGCGAGTAGGGAATGCGCAT
23778892 GAGTTGGTGA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 1 0.02
43 57 0.97
44 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.33, T:0.21
Consensus pattern (43 bp):
GTTATGTGCGAGTAGGGAATGCGCATAACCCGAAGATGACCCA
Found at i:23778931 original size:23 final size:23
Alignment explanation
Indices: 23778901--23778960 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
23778891 TGAGTTGGTG
* * *
23778901 ATGATGATGATGTGATGGTGTGT
1 ATGATGATGATGGGATGATGTGC
23778924 ATGATGATGATGGGATGATGTGC
1 ATGATGATGATGGGATGATGTGC
*
23778947 ATGATAATGATGGG
1 ATGATGATGATGGG
23778961 TATACGTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.27, C:0.02, G:0.38, T:0.33
Consensus pattern (23 bp):
ATGATGATGATGGGATGATGTGC
Found at i:23778979 original size:2 final size:2
Alignment explanation
Indices: 23778967--23779001 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
23778957 TGGGTATACG
*
23778967 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23779002 GTAAATATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:23780671 original size:20 final size:21
Alignment explanation
Indices: 23780632--23780673 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
23780622 TTTAAGTTCA
23780632 AAAGTACAGTTACGTGTGAGG
1 AAAGTACAGTTACGTGTGAGG
*
23780653 AAAGTATAGTTAC-TGTGAGG
1 AAAGTACAGTTACGTGTGAGG
23780673 A
1 A
23780674 TACTGTTAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.36, C:0.07, G:0.31, T:0.26
Consensus pattern (21 bp):
AAAGTACAGTTACGTGTGAGG
Found at i:23781298 original size:25 final size:27
Alignment explanation
Indices: 23781270--23781331 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 27
23781260 ATGAAACCTG
23781270 AAATATTATTTATTTT-TA-ATTTATA
1 AAATATTATTTATTTTCTATATTTATA
*
23781295 AAAT-TTA-TTATTTTCTATGTTTATA
1 AAATATTATTTATTTTCTATATTTATA
*
23781320 ATA-ATTATTTAT
1 AAATATTATTTAT
23781332 GAATAAATCT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
23 7 0.23
24 5 0.16
25 15 0.48
26 4 0.13
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (27 bp):
AAATATTATTTATTTTCTATATTTATA
Found at i:23788791 original size:21 final size:21
Alignment explanation
Indices: 23788752--23788791 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23788742 TAGCATTTTG
* *
23788752 CTACAGCGAGAATCATTTTCA
1 CTACAGCGAAAAACATTTTCA
*
23788773 CTACAGCGAAAAACTTTTT
1 CTACAGCGAAAAACATTTT
23788792 GTTTTATGGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (21 bp):
CTACAGCGAAAAACATTTTCA
Found at i:23792769 original size:23 final size:23
Alignment explanation
Indices: 23792743--23792790 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
23792733 ATTTAAGACC
23792743 TTGATTTAAATAATCTAACTTTT
1 TTGATTTAAATAATCTAACTTTT
** *
23792766 TTGATTTAAATTGTCTACCTTTT
1 TTGATTTAAATAATCTAACTTTT
23792789 TT
1 TT
23792791 CTTTTTAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.10, G:0.06, T:0.56
Consensus pattern (23 bp):
TTGATTTAAATAATCTAACTTTT
Found at i:23799419 original size:18 final size:18
Alignment explanation
Indices: 23799387--23799443 Score: 98
Period size: 18 Copynumber: 3.2 Consensus size: 18
23799377 GTAGCTTGAG
*
23799387 TGCTCGGTT-GTATTGTT
1 TGCTCAGTTGGTATTGTT
23799404 TGCTCAGTTGGTATTGTT
1 TGCTCAGTTGGTATTGTT
23799422 TGCTCAGTTGGTATTGTT
1 TGCTCAGTTGGTATTGTT
23799440 TGCT
1 TGCT
23799444 TAGCTATTAC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
17 8 0.21
18 30 0.79
ACGTcount: A:0.09, C:0.12, G:0.28, T:0.51
Consensus pattern (18 bp):
TGCTCAGTTGGTATTGTT
Found at i:23802822 original size:28 final size:30
Alignment explanation
Indices: 23802759--23802823 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
23802749 GCAAATTTTT
*
23802759 AAAAATTACACTTTTGCCCCCGTAAAAGTG
1 AAAAATTACACTTTTGCCCCCGAAAAAGTG
* * *
23802789 AAAAATTACATTTTTG-CCTC-AAAAATTG
1 AAAAATTACACTTTTGCCCCCGAAAAAGTG
23802817 AAAAATT
1 AAAAATT
23802824 GCCAAAATGC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 13 0.42
29 3 0.10
30 15 0.48
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (30 bp):
AAAAATTACACTTTTGCCCCCGAAAAAGTG
Found at i:23808413 original size:19 final size:19
Alignment explanation
Indices: 23808389--23808425 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
23808379 CTTCTAAGGT
23808389 TCAAATCATACTCCAATAC
1 TCAAATCATACTCCAATAC
23808408 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
23808426 AATCAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:23808437 original size:19 final size:19
Alignment explanation
Indices: 23808389--23808437 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
23808379 CTTCTAAGGT
*
23808389 TCAAATCATACTCCAATAC
1 TCAAATCATACTCCAATAA
23808408 TCAAATCATACTCCAATAAA
1 TCAAATCATACTCCAAT-AA
23808428 TCAAAT-ATAC
1 TCAAATCATAC
23808438 CAAAAAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (19 bp):
TCAAATCATACTCCAATAA
Found at i:23812252 original size:13 final size:13
Alignment explanation
Indices: 23812234--23812258 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23812224 TTCTAGAAAA
23812234 TTTATAAAATCAT
1 TTTATAAAATCAT
23812247 TTTATAAAATCA
1 TTTATAAAATCA
23812259 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:23813635 original size:19 final size:19
Alignment explanation
Indices: 23813611--23813649 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
23813601 CTGCCAAACC
*
23813611 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
23813630 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
23813649 C
1 C
23813650 ATTAAATGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:23819005 original size:72 final size:73
Alignment explanation
Indices: 23818888--23819056 Score: 241
Period size: 72 Copynumber: 2.3 Consensus size: 73
23818878 ATTGAGAAAT
* * * *
23818888 AGAACCGACTTAGTCAACCAAGAACTGAGTTAGTCGACTAAATGCTCTCTGCCAAAATCT-AGAC
1 AGAACCAACTTAGTCGACCAAGAAATGAGTTAGTCAACTAAATGCTCTCTGCCAAAATCTGAGAC
**
23818952 TTCAAGAC
66 CACAAGAC
* *
23818960 AGAACCAACTTAGTCGACCAAGAAATGAGTTAGTCAACTAAATGCTCTCTGCCAGAATCTGCGAC
1 AGAACCAACTTAGTCGACCAAGAAATGAGTTAGTCAACTAAATGCTCTCTGCCAAAATCTGAGAC
*
23819025 CAGAAGAC
66 CACAAGAC
*
23819033 AGAACCAACTTAGTAGACCAAGAA
1 AGAACCAACTTAGTCGACCAAGAA
23819057 GAAAGGTAGT
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
72 55 0.64
73 31 0.36
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (73 bp):
AGAACCAACTTAGTCGACCAAGAAATGAGTTAGTCAACTAAATGCTCTCTGCCAAAATCTGAGAC
CACAAGAC
Found at i:23821962 original size:20 final size:20
Alignment explanation
Indices: 23821937--23821974 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23821927 AAATCTCATA
*
23821937 TCATTTCATATAAATCAATT
1 TCATTTCATAAAAATCAATT
23821957 TCATTTCATAAAAATCAA
1 TCATTTCATAAAAATCAA
23821975 CAAGGCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (20 bp):
TCATTTCATAAAAATCAATT
Found at i:23824139 original size:13 final size:13
Alignment explanation
Indices: 23824121--23824145 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23824111 TTTCAAAAAA
23824121 TTTATAAAATCAT
1 TTTATAAAATCAT
23824134 TTTATAAAATCA
1 TTTATAAAATCA
23824146 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:23825513 original size:19 final size:19
Alignment explanation
Indices: 23825489--23825526 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
23825479 CTGCCAAACC
* *
23825489 CTCAAATTATGCTCCAATA
1 CTCAAATCATACTCCAATA
23825508 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
23825527 AGTTAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.29, G:0.03, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:23832080 original size:13 final size:13
Alignment explanation
Indices: 23832005--23832097 Score: 71
Period size: 13 Copynumber: 6.6 Consensus size: 13
23831995 CAATTATCTA
23832005 TATTTTTTAGTTAT
1 TATTTTTTA-TTAT
23832019 TATTAGTTAATTATTAT
1 TATT--TT--TTATTAT
*
23832036 TTTTATTTTATTA-
1 TATT-TTTTATTAT
*
23832049 TATTTTTTGTTAT
1 TATTTTTTATTAT
*
23832062 CATATTTTTTATTCT
1 --TATTTTTTATTAT
*
23832077 TATTTCTTATTAT
1 TATTTTTTATTAT
23832090 TATTTTTT
1 TATTTTTT
23832098 TATACTTTAC
Statistics
Matches: 63, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
12 7 0.11
13 21 0.33
14 10 0.16
15 11 0.17
16 4 0.06
17 7 0.11
18 3 0.05
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (13 bp):
TATTTTTTATTAT
Found at i:23832112 original size:58 final size:60
Alignment explanation
Indices: 23831998--23832117 Score: 149
Period size: 58 Copynumber: 2.0 Consensus size: 60
23831988 GCTAATGCAA
* * *
23831998 TTATCTATATTTTTTAGTTATTATTAGTTAATTATTATTTTTATTTTATTATATTTTTTG
1 TTATCTATATTTTTTAGTTATTATTACTTAATTATTATTTTTATTATATTACATTTTTTG
* *
23832058 TTATC-ATATTTTTTA-TTCTTATTTCTT-ATTATTATTTTT-TTATACTTTACATTTTTTG
1 TTATCTATATTTTTTAGTTATTATTACTTAATTATTATTTTTATTATA--TTACATTTTTTG
23832116 TT
1 TT
23832118 CTAAGTTCTT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
56 4 0.08
57 12 0.23
58 22 0.42
59 10 0.19
60 5 0.09
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (60 bp):
TTATCTATATTTTTTAGTTATTATTACTTAATTATTATTTTTATTATATTACATTTTTTG
Found at i:23832219 original size:14 final size:13
Alignment explanation
Indices: 23832190--23832257 Score: 63
Period size: 14 Copynumber: 5.3 Consensus size: 13
23832180 TGAACAAAAA
23832190 TTTTA-TATATATT
1 TTTTATTATATA-T
23832203 TTTTATTATACTAT
1 TTTTATTATA-TAT
*
23832217 TTTTATTTTATA-
1 TTTTATTATATAT
*
23832229 TATT-TT-TATAT
1 TTTTATTATATAT
23832240 TTTTATTATTATAT
1 TTTTATTA-TATAT
23832254 TTTT
1 TTTT
23832258 TCATAAGCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
10 4 0.09
11 5 0.11
12 5 0.11
13 7 0.15
14 23 0.50
15 2 0.04
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTATTATATAT
Done.