Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 571 of 770
Found at i:178069571 original size:40 final size:40
Alignment explanation
Indices: 178069374--178069608 Score: 203
Period size: 39 Copynumber: 6.0 Consensus size: 40
178069364 ACTTGAAACC
* * * *
178069374 AATTACCAGCACA-AGCCTACAGGAATTTAAACCCGG-TAT
1 AATT-CCAGCACATAGCCTGCGGGACTTTAAGCCCGGATAT
* * * *
178069413 AATACCAGCTCGA-AGCCTGCGGGACTTT-TGCCCGGACAT
1 AATTCCAGCAC-ATAGCCTGCGGGACTTTAAGCCCGGATAT
* * * * ** *
178069452 ATTTCCAGCGCGTAGCCTGC-GGACCTTAAGTTCGGTTAT
1 AATTCCAGCACATAGCCTGCGGGACTTTAAGCCCGGATAT
* * * *
178069491 AATTCCAGCACATAGCCTG-TGGACCTTAAGTCCGGGTAT
1 AATTCCAGCACATAGCCTGCGGGACTTTAAGCCCGGATAT
* *
178069530 AATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATAT
1 AATTCCAGCACATAGCCTGCGGGACTTTAAGCCCGGATAT
* *
178069570 AATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATA
1 AATTCCAGCACATAGCCTGCGGGACTTTAAGCCCGGATA
178069609 CACATAAAAT
Statistics
Matches: 161, Mismatches: 29, Indels: 11
0.80 0.14 0.05
Matches are distributed among these distances:
38 17 0.11
39 90 0.56
40 54 0.34
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
AATTCCAGCACATAGCCTGCGGGACTTTAAGCCCGGATAT
Found at i:178075609 original size:29 final size:28
Alignment explanation
Indices: 178075566--178075669 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 28
178075556 CATGATTATG
* *
178075566 AATGTGACTGGGCCTAACGGGCCATATA
1 AATGTGATTGGGCCTAATGGGCCATATA
178075594 AATGTGATTTGGGCCTAATGGGCCATATA
1 AATGTGA-TTGGGCCTAATGGGCCATATA
* * *
178075623 CAGGTGATTTGGGCCTAATGGGCCATATG
1 AATGTGA-TTGGGCCTAATGGGCCATATA
* *
178075652 AATATGATTGGGCTTAAT
1 AATGTGATTGGGCCTAAT
178075670 TGGCTAGATA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
28 17 0.26
29 49 0.74
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATA
Found at i:178085361 original size:65 final size:65
Alignment explanation
Indices: 178085221--178085378 Score: 192
Period size: 65 Copynumber: 2.4 Consensus size: 65
178085211 TTGCGACTAC
** * *
178085221 CGCAGCTCTTTATGAGCATCCTGTTTAT-TGATTTGTTGTGATCCTGCATATGTTGTAGACACAA
1 CGCAGCTCTTTATGAGCATCCTG-TTATGTGATCGGTTGTGATCCTGAATATGTTGCAGACACAA
178085285 A
65 A
* * * * *
178085286 TGTAGTTCTTTATGAGAATCCTGTTATGTGATCGGTTGTGGTCCTGAATATGTTGCAGACACAAA
1 CGCAGCTCTTTATGAGCATCCTGTTATGTGATCGGTTGTGATCCTGAATATGTTGCAGACACAAA
* * *
178085351 CGCAACTCTTTATAAGCATCCTGATATG
1 CGCAGCTCTTTATGAGCATCCTGTTATG
178085379 GCTCGCCTGA
Statistics
Matches: 76, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
64 4 0.05
65 72 0.95
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (65 bp):
CGCAGCTCTTTATGAGCATCCTGTTATGTGATCGGTTGTGATCCTGAATATGTTGCAGACACAAA
Found at i:178088336 original size:60 final size:60
Alignment explanation
Indices: 178088242--178088363 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
178088232 CTTACCAATG
178088242 TAATTTTATTCCCTTTATTCAAGATTAAGCTGTAATCATTAAGTTTAACTTATGTCTTCA
1 TAATTTTATTCCCTTTATTCAAGATTAAGCTGTAATCATTAAGTTTAACTTATGTCTTCA
*
178088302 TAATTTTATTCCCTTTATTCAAGATTAAGTTGTAATCATTAAGTTTAACTTATGTCTTCA
1 TAATTTTATTCCCTTTATTCAAGATTAAGCTGTAATCATTAAGTTTAACTTATGTCTTCA
178088362 TA
1 TA
178088364 TGTTGTACGA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.48
Consensus pattern (60 bp):
TAATTTTATTCCCTTTATTCAAGATTAAGCTGTAATCATTAAGTTTAACTTATGTCTTCA
Found at i:178089812 original size:85 final size:85
Alignment explanation
Indices: 178089662--178089817 Score: 197
Period size: 85 Copynumber: 1.8 Consensus size: 85
178089652 ATCTAAGATA
** * * * * * *
178089662 TCGTGTAAGACTGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCCTGTCTGGAACACAGGCATCGATTGAGAATTACGTATAAGACCACGCCCGGGA
178089727 CATCGGTATCATATCTGATT
66 CATCGGTATCATATCTGATT
* * *
178089747 TCGTGTAAGACCCTGTCTGGAACAGAGGCATCGATATTA-AATTACGTGTAAGACCACGCCCGGG
1 TCGTGTAAGACCCTGTCTGGAACACAGGCATCGAT-TGAGAATTACGTATAAGACCACGCCCGGG
178089811 ACATCGG
65 ACATCGG
178089818 CATTGTACTT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
85 57 0.97
86 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (85 bp):
TCGTGTAAGACCCTGTCTGGAACACAGGCATCGATTGAGAATTACGTATAAGACCACGCCCGGGA
CATCGGTATCATATCTGATT
Found at i:178095635 original size:47 final size:47
Alignment explanation
Indices: 178095560--178095670 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
178095550 CCCCTCGGGA
* * *
178095560 CTTATCACATT-TATACACTTTCATATTCATCGCATTGGCCATTCGGC
1 CTTATCAC-TTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
178095607 CTTATCACTTATATACACTTTGACATTCATCACATCGGCCATTCGGC
1 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
178095654 CTTATCACATATATACA
1 CTTATCACTTATATACA
178095671 TCTCATACAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.03
47 56 0.97
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.36
Consensus pattern (47 bp):
CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:178095726 original size:46 final size:46
Alignment explanation
Indices: 178095674--178095901 Score: 429
Period size: 46 Copynumber: 5.0 Consensus size: 46
178095664 ATATACATCT
* * *
178095674 CATACATGTTTCATACTAGCCATTTGGCTTTACCACACATATATCT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
178095720 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
178095766 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
178095812 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
178095858 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
178095902 ATATTTAACT
Statistics
Matches: 179, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 179 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.34
Consensus pattern (46 bp):
CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
Found at i:178098650 original size:39 final size:40
Alignment explanation
Indices: 178098602--178098706 Score: 106
Period size: 40 Copynumber: 2.6 Consensus size: 40
178098592 GACTCGCTCG
* * *
178098602 ATTGTCTTCGGGACATAGCCCGG-TATAGTGATTCACACA
1 ATTGCCTTCGGGACATAGCCCGGATATAGTAACTCACACA
* *
178098641 ATTGCCTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACA
1 ATTGCCTTCGGGACA-TAGCCCGGATATAGTAACTCACACA
** * *
178098681 AAAGCCTTCGGGACTTAGCCCAGATA
1 ATTGCCTTCGGGACATAGCCCGGATA
178098707 CCATTCGAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.02
39 20 0.38
40 32 0.60
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.26
Consensus pattern (40 bp):
ATTGCCTTCGGGACATAGCCCGGATATAGTAACTCACACA
Found at i:178099475 original size:40 final size:40
Alignment explanation
Indices: 178099364--178099626 Score: 412
Period size: 40 Copynumber: 6.7 Consensus size: 40
178099354 CCAGCATGAT
*
178099364 TGCTCTTCGG-ACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
178099403 TGCTC-TCGGAACTTAG-TCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * *
178099441 TGCTCTTCGGAACTTAGTCCGGATACGTCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
178099481 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
178099521 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
178099561 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
178099601 TGCTCTTCGG-ACTTAG-CCGGAT-CATC
1 TGCTCTTCGGAACTTAGCCCGGATACATC
178099627 GTCGAGACCT
Statistics
Matches: 211, Mismatches: 10, Indels: 8
0.92 0.04 0.03
Matches are distributed among these distances:
37 3 0.01
38 36 0.17
39 27 0.13
40 145 0.69
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:178106946 original size:25 final size:25
Alignment explanation
Indices: 178106917--178106964 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
178106907 TTATAATATG
* * *
178106917 AAAATGACCGTTTTGCCCCTAGGTT
1 AAAATGACCATTATACCCCTAGGTT
178106942 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
178106965 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTT
Found at i:178107015 original size:9 final size:9
Alignment explanation
Indices: 178107003--178107059 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
178106993 TTTGATAAAC
178107003 ATGATATGT
1 ATGATATGT
*
178107012 ATGATATGCAC
1 ATGATATG--T
*
178107023 ATGACATGT
1 ATGATATGT
*
178107032 ATGATATGCAC
1 ATGATATG--T
178107043 ATGATATGT
1 ATGATATGT
178107052 ATGATATG
1 ATGATATG
178107060 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:178107026 original size:20 final size:20
Alignment explanation
Indices: 178107001--178107071 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
178106991 ATTTTGATAA
178107001 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
178107021 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
178107041 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
178107061 ACATGAGATGT
1 ACATGATATGT
178107072 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:178107048 original size:11 final size:11
Alignment explanation
Indices: 178107012--178107066 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
178107002 CATGATATGT
178107012 ATGATATGCAC
1 ATGATATGCAC
* *
178107023 ATGACATG--T
1 ATGATATGCAC
178107032 ATGATATGCAC
1 ATGATATGCAC
*
178107043 ATGATATG--T
1 ATGATATGCAC
178107052 ATGATATGCAC
1 ATGATATGCAC
178107063 ATGA
1 ATGA
178107067 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:178107148 original size:23 final size:23
Alignment explanation
Indices: 178107118--178107283 Score: 278
Period size: 23 Copynumber: 7.1 Consensus size: 23
178107108 AGGAAGTGCA
178107118 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
178107141 AAAGGGCTTATGCCCCAGTTATC
1 AAAGGGCTTATGCCCCAGTTATT
*
178107164 AAAAGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
178107187 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
178107211 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
178107234 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
178107257 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
178107281 AAA
1 AAA
178107284 AGAGGCTAGG
Statistics
Matches: 134, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
23 90 0.67
24 44 0.33
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:178107219 original size:24 final size:23
Alignment explanation
Indices: 178107117--178107305 Score: 265
Period size: 23 Copynumber: 8.0 Consensus size: 23
178107107 GAGGAAGTGC
178107117 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
178107140 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
178107163 CAAAA-GGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
178107186 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
178107209 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
178107233 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
178107257 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
178107281 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
178107305 A
1 A
178107306 TGATAAAGCA
Statistics
Matches: 151, Mismatches: 9, Indels: 11
0.88 0.05 0.06
Matches are distributed among these distances:
22 3 0.02
23 79 0.52
24 59 0.39
25 10 0.07
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:178107237 original size:47 final size:47
Alignment explanation
Indices: 178107116--178107283 Score: 311
Period size: 47 Copynumber: 3.6 Consensus size: 47
178107106 GGAGGAAGTG
178107116 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
178107163 CAAAA-GGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
178107209 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
178107256 TAAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
178107284 AGAGGCTAGG
Statistics
Matches: 118, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
46 46 0.39
47 72 0.61
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:178109608 original size:48 final size:48
Alignment explanation
Indices: 178109537--178109775 Score: 277
Period size: 48 Copynumber: 5.0 Consensus size: 48
178109527 GAGGGTAAAT
* * ** *
178109537 TGCCGATGCCATGTCCCAGACATGGACTTACACTAGCTTTTGTCTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAA
* * *
178109585 TGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCAT-T-ATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA-A
* * * *
178109632 TGGCTGATGCCATGTCCCAGGCATGGTCTTACACTAGCGCACATATCAA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAA
*
178109681 TGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-A
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAA
* * * *
178109728 TGGCCGACGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA
178109776 CCCAAATGTC
Statistics
Matches: 163, Mismatches: 22, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.01
47 4 0.02
48 155 0.95
49 2 0.01
50 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAA
Found at i:178109705 original size:96 final size:96
Alignment explanation
Indices: 178109538--178109775 Score: 316
Period size: 96 Copynumber: 2.5 Consensus size: 96
178109528 AGGGTAAATT
* ***** * *
178109538 GCCGATGCCATGTCCCAGACATGGACTTACACTAGCTTTTGTCTCAATGCCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGCCGACGCCATGTCCCA
* * *
178109603 GACATGGTCTTACATTGGCTCTCATTAT-GTG
66 GACATGGTCTTACACTAGCTCTCA-TATCATG
* * *
178109634 GCTGATGCCATGTCCCAGGCATGGTCTTACACTAGCGCACATATCAATGCCGACGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGCCGACGCCATGTCCCA
178109699 GACATGGTCTTACACTAGCTCTCATATCATG
66 GACATGGTCTTACACTAGCTCTCATATCATG
* *
178109730 GCCGACGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
178109776 CCCAAATGTC
Statistics
Matches: 123, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
95 3 0.02
96 120 0.98
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGCCGACGCCATGTCCCA
GACATGGTCTTACACTAGCTCTCATATCATG
Found at i:178111731 original size:27 final size:27
Alignment explanation
Indices: 178111617--178112061 Score: 364
Period size: 27 Copynumber: 16.8 Consensus size: 27
178111607 AGTTTACCAC
* * *
178111617 ATTACTGAAATACCC-CCAGTTGTAAA
1 ATTACCGAAATACCCTCGATTTGTAAA
* *
178111643 ATTACC-AAAGTACCC-CTGGTTTAT-AA
1 ATTACCGAAA-TACCCTC-GATTTGTAAA
* *
178111669 ATTACCGAAATACCGTTGA-TTGTAAA
1 ATTACCGAAATACCCTCGATTTGTAAA
**
178111695 ATTATTGAAATACCCTCGATTTGTAAA
1 ATTACCGAAATACCCTCGATTTGTAAA
* *
178111722 ATTACCGAAATATCCTC-AGTTTGCAAA
1 ATTACCGAAATACCCTCGA-TTTGTAAA
* *
178111749 ATTACTGAAATACCCTGGATTTGTAAA
1 ATTACCGAAATACCCTCGATTTGTAAA
** *
178111776 ATTATTGAAATACCCTCGACTTGTAAA
1 ATTACCGAAATACCCTCGATTTGTAAA
* *
178111803 ATTACC-AAAGTACCCCCTG-TTTATAAA
1 ATTACCGAAA-TACCCTC-GATTTGTAAA
* *
178111830 ATTACCCAAATATCCTCGATTTGTAAA
1 ATTACCGAAATACCCTCGATTTGTAAA
***
178111857 ATTACCGAAATATTGTCGA-TTGTAAA
1 ATTACCGAAATACCCTCGATTTGTAAA
* *
178111883 ATTACTGAAATACCCTTGATTTGTAAA
1 ATTACCGAAATACCCTCGATTTGTAAA
* * **
178111910 ATTATCAAAATACGGTCGA-TTGTAAA
1 ATTACCGAAATACCCTCGATTTGTAAA
**
178111936 ATTATTGAAATACCCTCGATTTGTAAA
1 ATTACCGAAATACCCTCGATTTGTAAA
* *
178111963 ATTATCGAAATA-CCTC-AGTTTGCAAA
1 ATTACCGAAATACCCTCGA-TTTGTAAA
* * *
178111989 ATTACTGAAATACCCTTGATTTATAAA
1 ATTACCGAAATACCCTCGATTTGTAAA
*
178112016 ATT---GAAATACCCTCGACTTGTAAA
1 ATTACCGAAATACCCTCGATTTGTAAA
* *
178112040 ATTATC-AAAGTACCCCCGATTT
1 ATTACCGAAA-TACCCTCGATTT
178112062 ACAGAATTAC
Statistics
Matches: 336, Mismatches: 62, Indels: 41
0.77 0.14 0.09
Matches are distributed among these distances:
24 21 0.06
25 7 0.02
26 113 0.34
27 189 0.56
28 6 0.02
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (27 bp):
ATTACCGAAATACCCTCGATTTGTAAA
Found at i:178111760 original size:54 final size:53
Alignment explanation
Indices: 178111617--178112061 Score: 358
Period size: 53 Copynumber: 8.4 Consensus size: 53
178111607 AGTTTACCAC
* * ** * *
178111617 ATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCC-CTGGTTTAT-AA
1 ATTACTGAAATACCCTCGATTTGTAAAATTATGAAA-TACCCTC-GATTTGTAAA
* * *
178111669 ATTACCGAAATACCGTTGA-TTGTAAAATTATTGAAATACCCTCGATTTGTAAA
1 ATTACTGAAATACCCTCGATTTGTAAAATTA-TGAAATACCCTCGATTTGTAAA
* * * *
178111722 ATTACCGAAATATCCTC-AGTTTGCAAAATTACTGAAATACCCTGGATTTGTAAA
1 ATTACTGAAATACCCTCGA-TTTGTAAAATTA-TGAAATACCCTCGATTTGTAAA
* * ** * *
178111776 ATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCTG-TTTATAAA
1 ATTACTGAAATACCCTCGATTTGTAAAATTATGAAA-TACCCTC-GATTTGTAAA
** * * ***
178111830 ATTACCCAAATATCCTCGATTTGTAAAATTACCGAAATATTGTCGA-TTGTAAA
1 ATTACTGAAATACCCTCGATTTGTAAAATTA-TGAAATACCCTCGATTTGTAAA
* * **
178111883 ATTACTGAAATACCCTTGATTTGTAAAATTATCAAAATACGGTCGA-TTGTAAA
1 ATTACTGAAATACCCTCGATTTGTAAAATTAT-GAAATACCCTCGATTTGTAAA
* *
178111936 ATTATTGAAATACCCTCGATTTGTAAAATTATCGAAATA-CCTC-AGTTTGCAAA
1 ATTACTGAAATACCCTCGATTTGTAAAATTAT-GAAATACCCTCGA-TTTGTAAA
* * *
178111989 ATTACTGAAATACCCTTGATTTATAAAA-T-TGAAATACCCTCGACTTGTAAA
1 ATTACTGAAATACCCTCGATTTGTAAAATTATGAAATACCCTCGATTTGTAAA
* *
178112040 ATTA-TCAAAGTACCCCCGATTT
1 ATTACTGAAA-TACCCTCGATTT
178112062 ACAGAATTAC
Statistics
Matches: 319, Mismatches: 57, Indels: 35
0.78 0.14 0.09
Matches are distributed among these distances:
50 10 0.03
51 26 0.08
52 39 0.12
53 142 0.45
54 96 0.30
55 6 0.02
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (53 bp):
ATTACTGAAATACCCTCGATTTGTAAAATTATGAAATACCCTCGATTTGTAAA
Found at i:178112025 original size:24 final size:24
Alignment explanation
Indices: 178111994--178112042 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
178111984 GCAAAATTAC
* *
178111994 TGAAATACCCTTGATTTATAAAAT
1 TGAAATACCCTCGACTTATAAAAT
*
178112018 TGAAATACCCTCGACTTGTAAAAT
1 TGAAATACCCTCGACTTATAAAAT
178112042 T
1 T
178112043 ATCAAAGTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (24 bp):
TGAAATACCCTCGACTTATAAAAT
Found at i:178112123 original size:27 final size:27
Alignment explanation
Indices: 178112101--178112501 Score: 446
Period size: 27 Copynumber: 14.9 Consensus size: 27
178112091 AAAATTATTA
*
178112101 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * * **
178112128 AAATACCCTTGTAAGGTAGAAATACCA
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
178112155 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
178112182 AAATACCCCTGTAGGGTAGAATTACGG
1 AAATACCCCTGTAGGGTAGAATTACTG
178112209 AAATA-CCCTGTAGGGT-GAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
178112234 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * * * **
178112261 AAAGACCCTTGTAGGGTAAAAATACCA
1 AAATACCCCTGTAGGGTAGAATTACTG
*
178112288 AAATACCCCTGTAGGGTAGAATTATTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
178112315 AAATACCCCTGTAGGATAAAAATACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
178112342 AAATACCCTTGTAGGGTAGAAATATTG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
178112369 AAATACCCCTATAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
178112396 AAATACCCCTGTAGGATAAAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
178112423 AAATACCCTTGTAGGGTAGAAATACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
178112450 AAATACCCCTGTAGGGTGGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * * *
178112477 AGATGCCCTTGTAGGGTAAAATTAC
1 AAATACCCCTGTAGGGTAGAATTAC
178112502 CATTTTGCCC
Statistics
Matches: 319, Mismatches: 53, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
25 13 0.04
26 21 0.07
27 285 0.89
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACTG
Found at i:178112982 original size:22 final size:22
Alignment explanation
Indices: 178112930--178112994 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
178112920 TTAAAGCCTT
* *
178112930 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTATGTGCCAAC
* **
178112952 CT-ACATATGGCTCCGTGCCAAC
1 CTGA-TTATGGCTATGTGCCAAC
178112974 CTGATTATGGCTATGTGCCAA
1 CTGATTATGGCTATGTGCCAA
178112995 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.29
Consensus pattern (22 bp):
CTGATTATGGCTATGTGCCAAC
Found at i:178116642 original size:27 final size:28
Alignment explanation
Indices: 178116585--178116654 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
178116575 AAATTTGTAC
**
178116585 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
178116613 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
178116640 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
178116655 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:178124016 original size:2 final size:2
Alignment explanation
Indices: 178124009--178124033 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
178123999 CGTGATGCCC
178124009 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
178124034 CACATAAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:178124515 original size:30 final size:30
Alignment explanation
Indices: 178124479--178124636 Score: 229
Period size: 29 Copynumber: 5.5 Consensus size: 30
178124469 GACAAGATTG
* * * * *
178124479 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
178124509 GCACTAAGTGTGCGAG-TG---ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
178124535 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
178124564 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
178124594 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
178124623 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
178124637 GATTCACTAT
Statistics
Matches: 119, Mismatches: 4, Indels: 11
0.89 0.03 0.08
Matches are distributed among these distances:
26 22 0.18
27 2 0.02
29 50 0.42
30 45 0.38
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:178124604 original size:59 final size:55
Alignment explanation
Indices: 178124479--178124636 Score: 226
Period size: 59 Copynumber: 2.8 Consensus size: 55
178124469 GACAAGATTG
* * * * *
178124479 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTGATTATATA
178124535 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-TG---ATTATATA
178124594 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
178124637 GATTCACTAT
Statistics
Matches: 93, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
55 20 0.22
56 22 0.24
59 51 0.55
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.27
Consensus pattern (55 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTGATTATATA
Found at i:178127779 original size:27 final size:28
Alignment explanation
Indices: 178127722--178127791 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
178127712 AAATTTGTAC
**
178127722 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
178127750 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
178127777 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
178127792 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:178130240 original size:40 final size:40
Alignment explanation
Indices: 178130174--178130324 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
178130164 AAATTGAATG
* * *
178130174 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
178130213 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
178130253 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
178130293 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
178130325 ACATGTTATA
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:178138217 original size:40 final size:40
Alignment explanation
Indices: 178138158--178138299 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
178138148 AAATTGAATG
* * *
178138158 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
178138198 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
178138238 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
178138278 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
178138300 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:178138300 original size:40 final size:39
Alignment explanation
Indices: 178138197--178138309 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 39
178138187 TGCTGGAAAT
* * **
178138197 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTCAC
*
178138237 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
*
178138277 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGC
178138310 ACATGTTATA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.05
40 60 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
Found at i:178142018 original size:41 final size:41
Alignment explanation
Indices: 178141973--178142090 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
178141963 TGAAAGATAA
178141973 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
178142014 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
178142044 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
178142085 ATGTAG
1 ATGTAG
178142091 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:178142029 original size:71 final size:71
Alignment explanation
Indices: 178141941--178142104 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
178141931 GAGATGTATC
178141941 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
178142006 AGGACA
66 AGGACA
178142012 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
178142077 AGGACA
66 AGGACA
178142083 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
178142105 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:178149629 original size:70 final size:71
Alignment explanation
Indices: 178149478--178149640 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
178149468 GAGATGTATC
178149478 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
178149543 AGGACA
66 AGGACA
178149549 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
178149613 CGGACA
66 AGGACA
178149619 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
178149641 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:178153883 original size:93 final size:92
Alignment explanation
Indices: 178153771--178153940 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 92
178153761 GCCCCTAAGT
* *
178153771 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
*
178153836 CGAGTTTGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
*
178153864 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
178153929 GAGTTCGGATGC
66 GAGTTCGGATGC
178153941 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 34 0.47
93 39 0.53
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:178160978 original size:47 final size:49
Alignment explanation
Indices: 178160861--178161035 Score: 183
Period size: 45 Copynumber: 3.8 Consensus size: 49
178160851 AACCCGCCCC
* * * *
178160861 TAAGTGAACTCGGACTCAACTCAACGAGCTC-G--G-CGTTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
*
178160906 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATCCA
* *
178160954 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
*
178160999 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
178161036 TCAACCATCC
Statistics
Matches: 109, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 32 0.29
46 30 0.28
47 29 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
Found at i:178161024 original size:93 final size:92
Alignment explanation
Indices: 178160866--178161035 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 92
178160856 GCCCCTAAGT
*
178160866 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
178160931 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
178160958 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
178161023 CGAGTTCGGATGC
65 CGAGTTCGGATGC
178161036 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 27 0.36
93 48 0.64
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:178166684 original size:29 final size:29
Alignment explanation
Indices: 178166651--178166780 Score: 242
Period size: 29 Copynumber: 4.4 Consensus size: 29
178166641 TAGTGAATCC
178166651 CACACTTAGTGCTATATATTTTCAGCTCG
1 CACACTTAGTGCTATATATTTTCAGCTCG
178166680 CACACTTAGTGCTATATAATTTTCAGCTCG
1 CACACTTAGTGCTATAT-ATTTTCAGCTCG
178166710 CACACTTAGTGCTATATATTTTCAGCTCG
1 CACACTTAGTGCTATATATTTTCAGCTCG
*
178166739 CACACTTAGTGCTATATATTTTCAGTTCG
1 CACACTTAGTGCTATATATTTTCAGCTCG
178166768 CACACTTAGTGCT
1 CACACTTAGTGCT
178166781 GTACAATTTT
Statistics
Matches: 99, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 70 0.71
30 29 0.29
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.38
Consensus pattern (29 bp):
CACACTTAGTGCTATATATTTTCAGCTCG
Found at i:178166790 original size:59 final size:59
Alignment explanation
Indices: 178166651--178166780 Score: 244
Period size: 59 Copynumber: 2.2 Consensus size: 59
178166641 TAGTGAATCC
178166651 CACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCG
1 CACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCG
*
178166710 CACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTTCG
1 CACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCG
178166768 CACACTTAGTGCT
1 CACACTTAGTGCT
178166781 GTACAATTTT
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.34
59 46 0.66
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.38
Consensus pattern (59 bp):
CACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCG
Found at i:178170608 original size:29 final size:29
Alignment explanation
Indices: 178170575--178170648 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
178170565 CCTTCGAGCT
178170575 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
178170604 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
178170633 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
178170649 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:178170609 original size:58 final size:58
Alignment explanation
Indices: 178170516--178170648 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
178170506 ATACTCGATT
* * * * *
178170516 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
178170574 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
178170632 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
178170649 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:178177322 original size:29 final size:29
Alignment explanation
Indices: 178177290--178177421 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
178177280 ATAGTGAATC
178177290 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
178177319 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
178177349 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
178177378 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
178177407 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
178177422 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:178177431 original size:59 final size:59
Alignment explanation
Indices: 178177290--178177421 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
178177280 ATAGTGAATC
178177290 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
178177349 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
178177407 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
178177422 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:178185302 original size:39 final size:40
Alignment explanation
Indices: 178185247--178185417 Score: 233
Period size: 39 Copynumber: 4.3 Consensus size: 40
178185237 GGACTAAGAT
* *
178185247 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
178185286 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* *
178185325 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* * *
178185365 CCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTC
1 CCGAAGGCATTTGTGCGAGTTAATA-AATCC-GGGTTAAGTC
178185405 CCGAAGGCATTTG
1 CCGAAGGCATTTG
178185418 AGCTAGTCGT
Statistics
Matches: 122, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
39 73 0.60
40 42 0.34
41 7 0.06
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
Found at i:178188153 original size:39 final size:40
Alignment explanation
Indices: 178188098--178188268 Score: 224
Period size: 39 Copynumber: 4.3 Consensus size: 40
178188088 GGACTAAGAT
* *
178188098 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
178188137 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* * *
178188176 CCGACGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* * *
178188216 CCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTC
1 CCGAAGGCATTTGTGCGAGTTAATA-AATCC-GGGTTAAGTC
178188256 CCGAAGGCATTTG
1 CCGAAGGCATTTG
178188269 AGCTAGTCGT
Statistics
Matches: 120, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
39 72 0.60
40 41 0.34
41 7 0.06
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
Found at i:178189743 original size:48 final size:48
Alignment explanation
Indices: 178189668--178189939 Score: 278
Period size: 48 Copynumber: 5.6 Consensus size: 48
178189658 GGGTGTTACA
* * *
178189668 GTAAGACCATGTTTGGGACATGACATCGGCCTCAATATGTGAGCCAGT
1 GTAAGACCATGTTTGGAACATGGCATCGGCCTCAATATGAGAGCCAGT
* * *** * * *
178189716 GTAAGACCATGTATGGAACATGGCATCGGCATTGTTGTGAGAGCTATT
1 GTAAGACCATGTTTGGAACATGGCATCGGCCTCAATATGAGAGCCAGT
* *
178189764 GTAAGACCATGTTTGGAACATTGCATCGGCCTCAATATGCA-AGCCAAT
1 GTAAGACCATGTTTGGAACATGGCATCGGCCTCAATATG-AGAGCCAGT
* * * *** *
178189812 GTAAGACCATGTTTGGAACATGGCAGCAGCATTGTTATGTGAGCCAGT
1 GTAAGACCATGTTTGGAACATGGCATCGGCCTCAATATGAGAGCCAGT
* *
178189860 GTAAGACCATGTCTGGGACATGGCATCGGCAC-CAATGTATGAGAGCCAGT
1 GTAAGACCATGTTTGGAACATGGCATCGGC-CTCAA--TATGAGAGCCAGT
* *
178189910 GTAAGACCATGTCTGGGACATGGCATCGGC
1 GTAAGACCATGTTTGGAACATGGCATCGGC
178189940 ATTTTACCCT
Statistics
Matches: 181, Mismatches: 38, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
48 138 0.76
49 1 0.01
50 42 0.23
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (48 bp):
GTAAGACCATGTTTGGAACATGGCATCGGCCTCAATATGAGAGCCAGT
Found at i:178189832 original size:96 final size:95
Alignment explanation
Indices: 178189668--178189942 Score: 347
Period size: 96 Copynumber: 2.8 Consensus size: 95
178189658 GGGTGTTACA
*
178189668 GTAAGACCATGTTTGGGACA-TGACATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTATGG
1 GTAAGACCATGTTTGGGACATTG-CATCGGCCTCAATATG-AAGCCAGTGTAAGACCATGTATGG
* * *
178189732 AACATGGCATCGGCATTGTTGTGAGAGCTATT
64 AACATGGCATCGGCATTGTTATGAGAGCCAGT
* * *
178189764 GTAAGACCATGTTTGGAACATTGCATCGGCCTCAATATGCAAGCCAATGTAAGACCATGTTTGGA
1 GTAAGACCATGTTTGGGACATTGCATCGGCCTCAATATG-AAGCCAGTGTAAGACCATGTATGGA
* * *
178189829 ACATGGCAGCAGCATTGTTATGTGAGCCAGT
65 ACATGGCATCGGCATTGTTATGAGAGCCAGT
* * *
178189860 GTAAGACCATGTCTGGGACATGGCATCGGCAC-CAATGTATGAGAGCCAGTGTAAGACCATGTCT
1 GTAAGACCATGTTTGGGACATTGCATCGGC-CTCAA--TATGA-AGCCAGTGTAAGACCATGTAT
*
178189924 GGGACATGGCATCGGCATT
62 GGAACATGGCATCGGCATT
178189943 TTACCCTTTT
Statistics
Matches: 155, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
96 112 0.72
97 4 0.03
98 39 0.25
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (95 bp):
GTAAGACCATGTTTGGGACATTGCATCGGCCTCAATATGAAGCCAGTGTAAGACCATGTATGGAA
CATGGCATCGGCATTGTTATGAGAGCCAGT
Found at i:178190497 original size:21 final size:19
Alignment explanation
Indices: 178190465--178190503 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
178190455 CCTTTGTCTT
*
178190465 AAATTTGGAAAATCATTAA
1 AAATTTGGAAAATAATTAA
178190484 AAATTGTGTGAAAATAATTA
1 AAATT-TG-GAAAATAATTA
178190504 TGGGTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 10 0.59
ACGTcount: A:0.51, C:0.03, G:0.13, T:0.33
Consensus pattern (19 bp):
AAATTTGGAAAATAATTAA
Found at i:178197189 original size:24 final size:24
Alignment explanation
Indices: 178197162--178197217 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
178197152 TCCTAAAATC
*
178197162 TCTCCATAATCCTCTCCTTGATTT
1 TCTCCACAATCCTCTCCTTGATTT
* *
178197186 TCTCCCCAATCCTCTCCTTGATTC
1 TCTCCACAATCCTCTCCTTGATTT
*
178197210 CCTCCACA
1 TCTCCACA
178197218 TAACACTCCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.16, C:0.43, G:0.04, T:0.38
Consensus pattern (24 bp):
TCTCCACAATCCTCTCCTTGATTT
Found at i:178200754 original size:49 final size:48
Alignment explanation
Indices: 178200693--178200863 Score: 177
Period size: 49 Copynumber: 3.5 Consensus size: 48
178200683 AAAGTCGATG
178200693 CCATGTCCCAGACAGGTCTTACACTGACTTTCATATCTCGAGACTGACT
1 CCATGTCCCAGACAGGTCTTACACTGACTTTCATATCTCGAGACTGA-T
* * * * ** *
178200742 CCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCG-GTGTCAAT
1 CCATGTCCCAGACAGGTCTTACACTGACTTTCATATCTCGAGACT-GAT
* *
178200790 GCCATGTCCCAGACAGGTCTTACACT-AGCTTGT-ATATCTCGAGGCCGAT
1 -CCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATCTCGAGACTGAT
* *
178200839 GCATGTCCCAGACATGTCTTACACT
1 CCATGTCCCAGACAGGTCTTACACT
178200864 AGCTCTCGTC
Statistics
Matches: 100, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
48 26 0.26
49 72 0.72
50 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
CCATGTCCCAGACAGGTCTTACACTGACTTTCATATCTCGAGACTGAT
Found at i:178200900 original size:46 final size:46
Alignment explanation
Indices: 178200641--178201016 Score: 224
Period size: 48 Copynumber: 7.9 Consensus size: 46
178200631 ATACGATGCT
* * ** * * *
178200641 GATGCCATGTCCCAGACATGGTCTTACATTGGCTAGCACATCAAAGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATATCAAGGCC
* * * * *
178200689 GATGCCATGTCCCAGACAGGTCTTACACT-GACTTTCATATCTCGAGACT
1 GATG-CATGTCCCAGACATGTCTTACACTAG-CTCTCATA--TCAAGGCC
* * * * *
178200738 GACTCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATC-GGTGTC
1 GA-TGCATGTCCCAGACATGTCTTACACTAGCTCTCA--TATCAAG-GCC
* * * *
178200787 AATGCCATGTCCCAGACAGGTCTTACACTAGCT-TGTATATCTCGAGGCC
1 GATG-CATGTCCCAGACATGTCTTACACTAGCTCT-CATA--TCAAGGCC
* * *
178200836 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCAAGGCC
* ** *
178200882 GATGCATGTCCCATACATGTCTTACACTAGCT-TGTTTATCTAGAGGTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATATC-A-AGGCC
* * * * *
178200930 GATGCATGTCCCATACTTGTCTTACACTGGCCCTCATA--ATGTTGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCAAG--GCC
* *
178200976 GATGCATGTCCCAGACATGTCTTACACTAGCACACATATCA
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCA
178201017 CCCAATGTCA
Statistics
Matches: 259, Mismatches: 47, Indels: 44
0.74 0.13 0.13
Matches are distributed among these distances:
44 1 0.00
45 2 0.01
46 76 0.29
47 17 0.07
48 84 0.32
49 74 0.29
50 3 0.01
51 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCAAGGCC
Found at i:178200922 original size:94 final size:95
Alignment explanation
Indices: 178200641--178201006 Score: 366
Period size: 94 Copynumber: 3.8 Consensus size: 95
178200631 ATACGATGCT
* ** * * *
178200641 GATGCCATGTCCCAGACATGGTCTTACATTGGCTAGCA-CATCAAAGTCGATGCCATGTCCCAGA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATC-TCGATGCCGATGCCATGTCCCAGA
* *
178200705 CAGGTCTTACACT-GACTT-TCATATCTCGAGACT
63 CAGGTCTTACACTAG-CTTGT-ATATCTCGAGGCC
* * * * *
178200738 GACTCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCAATGCCATGTCCCAGA
1 GA-TGCATGTCCCAGACATGTCTTACACTGGCTCTCATC--TCGATGCCGATGCCATGTCCCAGA
178200803 CAGGTCTTACACTAGCTTGTATATCTCGAGGCC
63 CAGGTCTTACACTAGCTTGTATATCTCGAGGCC
* * * * *
178200836 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG-CATGTCCCATACAT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGATGCCGATGCCATGTCCCAGACAG
* * *
178200900 GTCTTACACTAGCTTGTTTATCTAGAGGTC
66 GTCTTACACTAGCTTGTATATCTCGAGGCC
* * * * *
178200930 GATGCATGTCCCATACTTGTCTTACACTGGCCCTCATAAT-GTTGCCGATG-CATGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCAT-CTCGATGCCGATGCCATGTCCCAGACA
*
178200993 TGTCTTACACTAGC
65 GGTCTTACACTAGC
178201007 ACACATATCA
Statistics
Matches: 230, Mismatches: 33, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
94 105 0.46
95 9 0.04
96 15 0.07
97 48 0.21
98 51 0.22
99 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (95 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGATGCCGATGCCATGTCCCAGACAG
GTCTTACACTAGCTTGTATATCTCGAGGCC
Found at i:178201693 original size:20 final size:18
Alignment explanation
Indices: 178201656--178201698 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
178201646 CTATAGCAAC
178201656 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
178201673 TCACATATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
178201693 TTACAA
1 TCACAA
178201699 ACTTTACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 4 0.18
20 9 0.41
ACGTcount: A:0.37, C:0.19, G:0.00, T:0.44
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:178213464 original size:40 final size:39
Alignment explanation
Indices: 178213299--178213482 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
178213289 GAATTGAATG
* * *
178213299 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
178213339 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
178213379 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
178213419 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
178213458 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
178213483 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:178213507 original size:80 final size:81
Alignment explanation
Indices: 178213339--178213527 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
178213329 GCTGGAAATT
* * * *
178213339 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
178213404 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
178213420 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
178213483 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
178213499 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
178213528 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:178226654 original size:40 final size:40
Alignment explanation
Indices: 178226595--178226725 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
178226585 CGGGACTTTA
* * *
178226595 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
178226635 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
178226675 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
178226715 CCCGGATATAA
1 CCCGGATATAA
178226726 TTTCAGCATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:178226758 original size:39 final size:40
Alignment explanation
Indices: 178226612--178226762 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
178226602 ATCACGATTT
* * * *
178226612 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
178226652 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
178226692 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
178226731 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
178226763 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 31 0.32
40 64 0.66
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:178229413 original size:16 final size:16
Alignment explanation
Indices: 178229394--178229424 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
178229384 GAATAAAATA
178229394 ATGAAAAAAAAGGAAT
1 ATGAAAAAAAAGGAAT
*
178229410 ATGAAAACAAAGGAA
1 ATGAAAAAAAAGGAA
178229425 AAAAAAAGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.03, G:0.19, T:0.10
Consensus pattern (16 bp):
ATGAAAAAAAAGGAAT
Found at i:178230541 original size:28 final size:29
Alignment explanation
Indices: 178230509--178230604 Score: 141
Period size: 27 Copynumber: 3.5 Consensus size: 29
178230499 AATGAGATTG
178230509 GCACTAAGTGTGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
178230537 GCACTAAGTGT--GAGTTTGAATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
178230564 GCACTAAGTGTGCG-GTTTGAATAT-TA-A
1 GCACTAAGTGTGCGAGTTTGAAT-TGTATA
178230591 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
178230605 GACTTACTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 9
0.88 0.00 0.12
Matches are distributed among these distances:
26 6 0.09
27 35 0.55
28 21 0.33
29 2 0.03
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.33
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTGAATTGTATA
Found at i:178233258 original size:80 final size:80
Alignment explanation
Indices: 178233145--178233306 Score: 315
Period size: 80 Copynumber: 2.0 Consensus size: 80
178233135 GTTTGAATAA
178233145 AATTACGATTATGATGAGTTTCGATTCAGAAAAGTATGAATAAAAGTTTATGATATATATATGTG
1 AATTACGATTATGATGAGTTTCGATTCAGAAAAGTATGAATAAAAGTTTATGATATATATATGTG
178233210 ATAACACGTGAGATG
66 ATAACACGTGAGATG
*
178233225 AATTACGATTATGATGAGTTTCGATTCAGAAAAGTATGAATAAAAGTTTATGGTATATATATGTG
1 AATTACGATTATGATGAGTTTCGATTCAGAAAAGTATGAATAAAAGTTTATGATATATATATGTG
178233290 ATAACACGTGAGATG
66 ATAACACGTGAGATG
178233305 AA
1 AA
178233307 AGTTCATGTT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.33
Consensus pattern (80 bp):
AATTACGATTATGATGAGTTTCGATTCAGAAAAGTATGAATAAAAGTTTATGATATATATATGTG
ATAACACGTGAGATG
Found at i:178237686 original size:46 final size:46
Alignment explanation
Indices: 178237629--178237894 Score: 229
Period size: 46 Copynumber: 5.7 Consensus size: 46
178237619 TTGGGCATCT
*
178237629 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAAGGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGGCCC
* * * * *
178237675 AAAATCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AGGC--CC
* * *
178237722 GAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGGCCC
* * * *
178237768 GAACTCGTTGAGGTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AGGC--CC
* * * **
178237815 GAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGGCCC
** *
178237861 GAGTTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
178237895 GCGGGTTACA
Statistics
Matches: 173, Mismatches: 33, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
43 11 0.06
45 11 0.06
46 82 0.47
47 50 0.29
48 9 0.05
50 10 0.06
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGGCCC
Found at i:178237739 original size:47 final size:47
Alignment explanation
Indices: 178237679--178237840 Score: 190
Period size: 47 Copynumber: 3.5 Consensus size: 47
178237669 AGGCCCAAAA
178237679 TCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAAC
1 TCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAAC
* * * *
178237726 TCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAA-T--GC--CCGAAC
1 TCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCGAAC
* *
178237772 TCGTTGAGGTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAAC
*
178237819 TCATTGAGTTGAGTCCGAGTTC
1 TCGTTGAGTTGAGTCCGAGTTC
178237841 ACTTATGGAT
Statistics
Matches: 94, Mismatches: 12, Indels: 18
0.76 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 26 0.28
47 46 0.49
48 4 0.04
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (47 bp):
TCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAAC
Found at i:178237785 original size:93 final size:93
Alignment explanation
Indices: 178237622--178237887 Score: 406
Period size: 93 Copynumber: 2.9 Consensus size: 93
178237612 AGGATATTTG
* * * * *
178237622 GGCATCTGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAAGGCCCAAAATCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAAATCGTTGAG
178237687 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
178237715 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAAATCGTTGAG
*
178237780 GTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * **
178237808 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGTTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAAATCGTTGAG
178237873 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
178237888 CTTATGGGCG
Statistics
Matches: 157, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 157 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAAATCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:178239404 original size:40 final size:40
Alignment explanation
Indices: 178239342--178239559 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
178239332 AAGCCAAGTA
* * * *
178239342 CCTTCGGGAGTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
178239381 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
178239421 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
178239461 CCTTCGGAACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
178239501 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
178239541 CCTTCGGGACTTGGCCCGG
1 CCTTCGGGACTTAGCCCGG
178239560 TTATCATCCG
Statistics
Matches: 157, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 12 0.08
40 145 0.92
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:178244432 original size:34 final size:32
Alignment explanation
Indices: 178244369--178244433 Score: 94
Period size: 34 Copynumber: 2.0 Consensus size: 32
178244359 CTCGTTTCAG
* *
178244369 TACAGTCCAATATTAGTTGGGCCTTAGCCCAT
1 TACAGTCCAATATCAGTTGGGCCTCAGCCCAT
178244401 TACAGTACCAATATCAGTGTGGGCCTCAGCCCA
1 TACAGT-CCAATATCAGT-TGGGCCTCAGCCCA
178244434 ATTTAGTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 6 0.21
33 10 0.34
34 13 0.45
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (32 bp):
TACAGTCCAATATCAGTTGGGCCTCAGCCCAT
Found at i:178244450 original size:34 final size:34
Alignment explanation
Indices: 178244376--178244452 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
178244366 CAGTACAGTC
* * *
178244376 CAATATTAGT-TGGGCCTTAGCCCATTACAGTAC
1 CAATATCAGTGTGGGCCTCAGCCCATTACAGTAA
*
178244409 CAATATCAGTGTGGGCCTCAGCCCAATT-TAGTAA
1 CAATATCAGTGTGGGCCTCAGCCC-ATTACAGTAA
*
178244443 CAGTATCAGT
1 CAATATCAGT
178244453 ATAGAATGCA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
33 9 0.24
34 25 0.68
35 3 0.08
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (34 bp):
CAATATCAGTGTGGGCCTCAGCCCATTACAGTAA
Found at i:178248775 original size:40 final size:40
Alignment explanation
Indices: 178248583--178248768 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
178248573 TCGAATGATG
* * *
178248583 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
178248623 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
178248663 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
178248703 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
178248744 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
178248769 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:178248775 original size:80 final size:80
Alignment explanation
Indices: 178248583--178248801 Score: 261
Period size: 80 Copynumber: 2.8 Consensus size: 80
178248573 TCGAATGATG
* * **
178248583 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
178248647 TGTACGAGTTACTAAA
65 TGTACGAGTTACTAAA
* *
178248663 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCATT
*
178248727 TGTGCGAGTTACTATAA
65 TGTACGAGTTACTA-AA
* **
178248744 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
178248802 TACGTGATTC
Statistics
Matches: 121, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
79 16 0.13
80 96 0.79
81 9 0.07
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTT
GTACGAGTTACTAAA
Found at i:178248782 original size:40 final size:40
Alignment explanation
Indices: 178248583--178248791 Score: 230
Period size: 40 Copynumber: 5.2 Consensus size: 40
178248573 TCGAATGATG
* * * * *
178248583 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAA
**
178248623 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAA
*
178248663 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
*
178248703 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTA-AA
* * * *
178248744 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTA-CTAAA
178248783 TCC-GGTTAA
1 TCCGGGTTAA
178248792 ACTCCGAAGG
Statistics
Matches: 148, Mismatches: 15, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 8 0.05
40 131 0.89
41 9 0.06
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
Found at i:178261417 original size:27 final size:28
Alignment explanation
Indices: 178261387--178261456 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
178261377 ATAATAAGTC
*
178261387 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
178261414 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
178261442 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
178261457 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:178269336 original size:27 final size:28
Alignment explanation
Indices: 178269306--178269375 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
178269296 ATAATAAGTC
*
178269306 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
178269333 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
178269361 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
178269376 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:178277369 original size:47 final size:47
Alignment explanation
Indices: 178277291--178277607 Score: 379
Period size: 47 Copynumber: 6.7 Consensus size: 47
178277281 CCCTTCGGAA
* * * * *
178277291 CTTATCACATTTATACACTTTCACATCCATCACGTCGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
178277338 CCTACCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
** * *
178277385 CTTATCACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
178277432 CTTATCAGACATATGCA-TGCTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
178277479 CTTATCACATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
178277526 CTTATCACATATATGCA-TGTTCACGTTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
178277573 CTTATCTCATATATACTCATTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
178277608 AAAATCCTAA
Statistics
Matches: 236, Mismatches: 32, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
46 1 0.00
47 235 1.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:178277485 original size:22 final size:22
Alignment explanation
Indices: 178277460--178277578 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 22
178277450 GCTCACTTTC
178277460 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
178277482 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
178277506 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
178277529 ATCACATATATG-CATGTTC-ACGTT
1 ATCACAT-T-GGCCA--TTCGGCCTT
178277553 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
178277576 ATC
1 ATC
178277579 TCATATATAC
Statistics
Matches: 71, Mismatches: 12, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
22 23 0.32
23 14 0.20
24 14 0.20
25 20 0.28
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:178281509 original size:40 final size:40
Alignment explanation
Indices: 178281401--178281610 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
178281391 CGGGATTTAA
* * * * *
178281401 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
178281441 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
178281481 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
178281521 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
178281561 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
178281601 CCGGATATAT
1 CCGGATATAT
178281611 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:178283464 original size:22 final size:20
Alignment explanation
Indices: 178283424--178283464 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
178283414 AGTCCTATTA
*
178283424 ACTAAATTCACATGCAATTG
1 ACTAAATTCACATGAAATTG
178283444 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
178283465 TTCACACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTG
Found at i:178285153 original size:39 final size:39
Alignment explanation
Indices: 178284969--178285210 Score: 351
Period size: 40 Copynumber: 6.1 Consensus size: 39
178284959 CGAATACGCG
* * * *
178284969 TCACTAGCATGATTGCTCTTCGGGACCTAGCTCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGC-CGGGTACA
* * *
178285009 TTACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAG-CCGGGTACA
178285049 TCACTAGCACGAATGCTCTTCGGGACTTAGCCTGGGTACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCC-GGGTACA
178285089 TCACTAGCACGAATGCTCTTC-GGACTTAGCCGGGTACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCGGGTACA
178285127 TCACTAGCACGAATGCTCTTCGGGACTTAGCCGGGTACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCGGGTACA
* * *
178285166 TCACTAGCACTAATGCTCTTCGGGACTTAACCCGGGTATA
1 TCACTAGCACGAATGCTCTTCGGGACTT-AGCCGGGTACA
178285206 TCACT
1 TCACT
178285211 CTCAATTCTC
Statistics
Matches: 187, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
38 28 0.15
39 56 0.30
40 102 0.55
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
TCACTAGCACGAATGCTCTTCGGGACTTAGCCGGGTACA
Found at i:178286701 original size:47 final size:47
Alignment explanation
Indices: 178286623--178287033 Score: 483
Period size: 47 Copynumber: 8.7 Consensus size: 47
178286613 CCCTTCGGAA
* * * * *
178286623 CTTATCACATTTATACACTTTCACATCCATCACGTCGGCCACTCAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
* * *
178286670 CCTACCACATATATACACTTTCACATTCATCACATCGGCCATT-AGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
* * * * *
178286717 CTTATCACATATGTACGCTTCCACATTCATCACATGGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
178286764 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATT-AGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
* *
178286811 CTTATCACATATATAAACTTTCACATTCATCACATCGGCCATT-AGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
* * * * *
178286858 CTTATCACACATATGCA-TGCTCACTTTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCAGC
* *
178286905 CTTATCACATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCAGC
* *
178286952 CTTATCACATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCAGC
* * *
178286999 CTTATCTCATATATACTCATTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
178287034 AAAATCCTAA
Statistics
Matches: 324, Mismatches: 34, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
46 2 0.01
47 322 0.99
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
Found at i:178286784 original size:94 final size:94
Alignment explanation
Indices: 178286623--178287033 Score: 540
Period size: 94 Copynumber: 4.4 Consensus size: 94
178286613 CCCTTCGGAA
* * * * * * *
178286623 CTTATCACATTTATACACTTTCACATCCATCACGTCGGCCACTCAGCCCTACCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACA-
*
178286688 T-TTCACATTCATCACATCGGCCATTAGGC
65 TGTTCACATTCATCACATTGGCCATTAGGC
* * * *
178286717 CTTATCACATATGTACGCTTCCACATTCATCACATGGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACA-
178286782 T-TTCACATTCATCACATTGGCCATTAGGC
65 TGTTCACATTCATCACATTGGCCATTAGGC
* * * *
178286811 CTTATCACATATATAAACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATGCAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACAT
* * *
178286876 GCTCACTTTCATCACATTGGCCATTCGGC
66 GTTCACATTCATCACATTGGCCATTAGGC
* * *
178286905 CTTATCACATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCA
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACA
*
178286969 TGTTCACATTCATCACATTGGCCATTCGGC
65 TGTTCACATTCATCACATTGGCCATTAGGC
* * *
178286999 CTTATCTCATATATACTCATTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
178287034 AAAATCCTAA
Statistics
Matches: 280, Mismatches: 34, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
93 2 0.01
94 278 0.99
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACAT
GTTCACATTCATCACATTGGCCATTAGGC
Found at i:178286887 original size:141 final size:142
Alignment explanation
Indices: 178286623--178287033 Score: 534
Period size: 141 Copynumber: 2.9 Consensus size: 142
178286613 CCCTTCGGAA
* * * * * * *
178286623 CTTATCACATTTATACACTTTCACATCCATCACGTCGGCCACTCA-GCCCTACCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCA-TTAGGCCTTATCACATATATACA
*
178286687 CTTTCACATTCATCACATCGGCCATTAGGCCTTAT-CACATATGTACGCTTCCACATTCATCACA
65 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCCACATATGCACGCTTCCACATTCATCACA
178286751 TGGGCCATTCGGC
130 TGGGCCATTCGGC
*
178286764 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAAAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
* *
178286829 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATGCATGC-T-CACTTTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATC-CACATATGCACGCTTCCACATTCATCACA
*
178286892 TTGGCCATTCGGC
130 TGGGCCATTCGGC
* * *
178286905 CTTATCACATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCA
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACA
* * * *
178286969 -TGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATAT--ACTCATT-CACATTCATC
65 CT-TTCACATTCATCACATCGGCCATTAGGCCTTATC-CACATATGCACGC-TTCCACATTCATC
178287030 ACAT
127 ACAT
178287034 AAAATCCTAA
Statistics
Matches: 240, Mismatches: 23, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
139 2 0.01
140 4 0.02
141 222 0.93
142 1 0.00
143 11 0.05
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.32
Consensus pattern (142 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCCACATATGCACGCTTCCACATTCATCACAT
GGGCCATTCGGC
Found at i:178286913 original size:22 final size:22
Alignment explanation
Indices: 178286886--178287004 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 22
178286876 GCTCACTTTC
178286886 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
178286908 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
178286932 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
178286955 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
178286979 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
178287002 ATC
1 ATC
178287005 TCATATATAC
Statistics
Matches: 71, Mismatches: 12, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
22 23 0.32
23 14 0.20
24 14 0.20
25 20 0.28
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:178297416 original size:71 final size:71
Alignment explanation
Indices: 178297335--178297498 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
178297325 CGATTTGTCT
178297335 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
178297400 CTTTCA
66 CTTTCA
178297406 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
178297471 CTTTCA
66 CTTTCA
178297477 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
178297499 GATACATAGC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:178300415 original size:40 final size:40
Alignment explanation
Indices: 178300362--178300515 Score: 173
Period size: 40 Copynumber: 3.9 Consensus size: 40
178300352 TTATAGTGAT
* * * * ***
178300362 TCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTAAC
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
*
178300402 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
* **
178300442 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTAC
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
* * * *
178300482 TAGCATAATTGCCTTCGGGACTTAGCCCGGATAT
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
178300516 CATTCCAATG
Statistics
Matches: 97, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
Found at i:178300447 original size:80 final size:80
Alignment explanation
Indices: 178300362--178300515 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
178300352 TTATAGTGAT
* * ** * *
178300362 TCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAG
1 TCGCACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAG
178300427 CCCGGATATAACAAC
66 CCCGGATATAACAAC
* * * *
178300442 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAATTGCCTTCGGGACTTAG
1 TCGCACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAG
178300507 CCCGGATAT
66 CCCGGATAT
178300516 CATTCCAATG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (80 bp):
TCGCACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAG
CCCGGATATAACAAC
Found at i:178308374 original size:40 final size:40
Alignment explanation
Indices: 178308310--178308494 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
178308300 GCGACTCGCT
* * * * *
178308310 CGATTGTCTTCGGGACCTAGCCCGGTTATAGTGATTTGCA
1 CGATTGCCTTCGGGTCTTAGCCCGGTTATAGTAACTTGCA
* *
178308350 CGATTGCCTTCGGGTCTTAACCCGGATT-TGGTAACTTGCA
1 CGATTGCCTTCGGGTCTTAGCCCGG-TTATAGTAACTTGCA
* * * * ** *
178308390 CAAATACCTTCGGGTCTTAGCCCGGATATAACAACTCGCA
1 CGATTGCCTTCGGGTCTTAGCCCGGTTATAGTAACTTGCA
* * * * * *
178308430 CGAATGCCTTTGGGTCTTAGCCCGGATATAATTACTAGCA
1 CGATTGCCTTCGGGTCTTAGCCCGGTTATAGTAACTTGCA
** *
178308470 TAATTGCCTTCGGGACTTAGCCCGG
1 CGATTGCCTTCGGGTCTTAGCCCGG
178308495 ATATCATTCC
Statistics
Matches: 116, Mismatches: 27, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 113 0.97
41 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (40 bp):
CGATTGCCTTCGGGTCTTAGCCCGGTTATAGTAACTTGCA
Found at i:178308495 original size:40 final size:40
Alignment explanation
Indices: 178308347--178308498 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 40
178308337 ATAGTGATTT
* * * *** *
178308347 GCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
178308387 GCACAAATACCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* **
178308427 GCACGAATGCCTTTGGGTCTTAGCCCGGATATAATTACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
178308467 GCA-TAATTGCCTTCGGGACTTAGCCCGGATAT
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATAT
178308499 CATTCCAATG
Statistics
Matches: 93, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 2 0.02
40 91 0.98
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:178311979 original size:15 final size:15
Alignment explanation
Indices: 178311959--178311987 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
178311949 GCATGACCTT
178311959 ATGAGAAATTGAGTC
1 ATGAGAAATTGAGTC
178311974 ATGAGAAATTGAGT
1 ATGAGAAATTGAGT
178311988 GGTCTGAACT
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:0.41, C:0.03, G:0.28, T:0.28
Consensus pattern (15 bp):
ATGAGAAATTGAGTC
Found at i:178314268 original size:24 final size:24
Alignment explanation
Indices: 178314000--178314266 Score: 471
Period size: 24 Copynumber: 11.1 Consensus size: 24
178313990 GCAAAGACCA
178314000 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
178314024 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
178314048 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
178314072 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
178314096 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
178314120 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
178314144 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
178314168 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
178314192 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
178314216 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
178314240 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
178314264 TAT
1 TAT
178314267 AGTCACATTC
Statistics
Matches: 237, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 237 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:178322297 original size:24 final size:24
Alignment explanation
Indices: 178322029--178322295 Score: 471
Period size: 24 Copynumber: 11.1 Consensus size: 24
178322019 GCAAAGACCA
178322029 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
178322053 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
178322077 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
178322101 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
178322125 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
178322149 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
178322173 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
178322197 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
178322221 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
178322245 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
178322269 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
178322293 TAT
1 TAT
178322296 AGTCACATTC
Statistics
Matches: 237, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 237 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:178324966 original size:19 final size:20
Alignment explanation
Indices: 178324926--178324974 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
178324916 TTTGATAATT
* *
178324926 GTAACTCATCCATTTAAACA
1 GTAATTCATCCATATAAACA
*
178324946 GTACTTCATCCATAT-AACA
1 GTAATTCATCCATATAAACA
178324965 GTAATTCATC
1 GTAATTCATC
178324975 TGTATAACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (20 bp):
GTAATTCATCCATATAAACA
Found at i:178325207 original size:24 final size:24
Alignment explanation
Indices: 178325138--178325232 Score: 86
Period size: 24 Copynumber: 3.9 Consensus size: 24
178325128 GAGTTGATGG
* *
178325138 ACAGTAAGCTC-TATTGAGCT-AAA
1 ACAGTAAGCTCTTA-CGAGCTGATA
* * *
178325161 ACAGTAAGCTCTGACAAGTTGATA
1 ACAGTAAGCTCTTACGAGCTGATA
178325185 ACAGTAAGCTCTTACGAGCTGATA
1 ACAGTAAGCTCTTACGAGCTGATA
* *
178325209 TATCGGTAAGCTCATACGAGCTGA
1 -A-CAGTAAGCTCTTACGAGCTGA
178325233 GGTGAGTCCG
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
23 14 0.24
24 24 0.41
25 1 0.02
26 19 0.33
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (24 bp):
ACAGTAAGCTCTTACGAGCTGATA
Found at i:178327180 original size:14 final size:14
Alignment explanation
Indices: 178327161--178327199 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
178327151 TAGTTCTTTT
*
178327161 GAATAAGGCAATAG
1 GAATAATGCAATAG
178327175 GAATAATGCAATAG
1 GAATAATGCAATAG
178327189 GAATAATGCAA
1 GAATAATGCAA
178327200 CATAGTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.51, C:0.08, G:0.23, T:0.18
Consensus pattern (14 bp):
GAATAATGCAATAG
Found at i:178329840 original size:40 final size:40
Alignment explanation
Indices: 178329796--178330013 Score: 341
Period size: 40 Copynumber: 5.5 Consensus size: 40
178329786 TGCTCGAATA
*
178329796 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
178329836 CCTTCGGGACTTAGCCCGGATATAGTATCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
178329876 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
178329916 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
178329956 CCTTCTGGACTTAGCCC-GAAACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
178329996 CCTTC-GGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
178330014 TTATCATCCA
Statistics
Matches: 166, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.08
40 152 0.92
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:178337930 original size:40 final size:40
Alignment explanation
Indices: 178337882--178338160 Score: 426
Period size: 40 Copynumber: 7.1 Consensus size: 40
178337872 TTCGGATTAA
* * * *
178337882 CCGGATATAGCT-ACTCGCTCGAATACCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
178337922 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
178337962 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
178338002 CCGGATATAGTATCTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
178338042 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
178338082 CCGGATA-AGTAACTCGCA-AAATG-CTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
178338119 CCGGA-CTAGTCACTAGCGC-AATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
178338157 CCGG
1 CCGG
178338161 TTATCATCCA
Statistics
Matches: 225, Mismatches: 10, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
37 31 0.14
38 23 0.10
39 12 0.05
40 159 0.71
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:178340874 original size:24 final size:23
Alignment explanation
Indices: 178340842--178340983 Score: 248
Period size: 24 Copynumber: 6.0 Consensus size: 23
178340832 TATCTCAAAT
178340842 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATT-ACTATG
178340866 GCACTATGTGTGCGATTACTATG
1 GCACTATGTGTGCGATTACTATG
178340889 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATT-ACTATG
178340913 GCACTATGTGTGCGATTACTATG
1 GCACTATGTGTGCGATTACTATG
178340936 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGA-TTACTATG
178340960 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGA-TTACTATG
178340984 TGCGATTACT
Statistics
Matches: 116, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
23 44 0.38
24 72 0.62
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.35
Consensus pattern (23 bp):
GCACTATGTGTGCGATTACTATG
Found at i:178340896 original size:47 final size:47
Alignment explanation
Indices: 178340842--178340983 Score: 266
Period size: 47 Copynumber: 3.0 Consensus size: 47
178340832 TATCTCAAAT
178340842 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTACTATG
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTACTATG
178340889 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTACTATG
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTACTATG
*
178340936 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGA-TTACTATG
178340984 TGCGATTACT
Statistics
Matches: 93, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
47 85 0.91
48 8 0.09
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.35
Consensus pattern (47 bp):
GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTACTATG
Found at i:178340922 original size:71 final size:71
Alignment explanation
Indices: 178340842--178341057 Score: 278
Period size: 71 Copynumber: 3.2 Consensus size: 71
178340832 TATCTCAAAT
178340842 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGA-TTACTATGGCACTATGTGTGCGATT
1 GCACTATGTGTGCGATT-ACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATT
178340906 CACTATG
65 CACTATG
178340913 GCACTATGTGTGCGATTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGA-T-
1 GCACTATGTGTGCGATTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTC
178340976 --T-T-
66 ACTATG
* * *
178340978 --ACTA--TGTGCGATTACTAT-GCACTA-GTGTGCGATTTACTATAGCACTACGTGTGCGATTT
1 GCACTATGTGTGCGATTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTC
* *
178341037 GCTATA
66 ACTATG
*
178341043 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
178341058 ACATAATAAG
Statistics
Matches: 131, Mismatches: 3, Indels: 24
0.83 0.02 0.15
Matches are distributed among these distances:
59 30 0.23
60 7 0.05
61 14 0.11
63 5 0.04
64 1 0.01
66 1 0.01
67 4 0.03
69 7 0.05
70 22 0.17
71 40 0.31
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (71 bp):
GCACTATGTGTGCGATTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTC
ACTATG
Found at i:178340987 original size:14 final size:13
Alignment explanation
Indices: 178340874--178340996 Score: 63
Period size: 13 Copynumber: 10.2 Consensus size: 13
178340864 TGGCACTATG
178340874 TGTGCGATTACTA
1 TGTGCGATTACTA
* *
178340887 TG-GC-ACTA-TG
1 TGTGCGATTACTA
178340897 TGTGCGATTCACTA
1 TGTGCGATT-ACTA
* *
178340911 TG-GC-ACTA-TG
1 TGTGCGATTACTA
178340921 TGTGCGATTACTA
1 TGTGCGATTACTA
* *
178340934 TG-GC-ACTA-TG
1 TGTGCGATTACTA
178340944 TGTGCGATTTACTA
1 TGTGCGA-TTACTA
* *
178340958 TG-GC-ACTA-TG
1 TGTGCGATTACTA
178340968 TGTGCGATTTACTA
1 TGTGCGA-TTACTA
178340982 TGTGCGATTACTA
1 TGTGCGATTACTA
178340995 TG
1 TG
178340997 CACTAGTGTG
Statistics
Matches: 79, Mismatches: 16, Indels: 30
0.63 0.13 0.24
Matches are distributed among these distances:
10 12 0.15
11 17 0.22
12 14 0.18
13 22 0.28
14 14 0.18
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (13 bp):
TGTGCGATTACTA
Found at i:178341010 original size:35 final size:38
Alignment explanation
Indices: 178340944--178341017 Score: 127
Period size: 35 Copynumber: 2.0 Consensus size: 38
178340934 TGGCACTATG
178340944 TGTGCGATTTACTATGGCACTATGTGTGCGATTTACTA
1 TGTGCGATTTACTATGGCACTATGTGTGCGATTTACTA
178340982 TGTGCGA-TTACTAT-GCACTA-GTGTGCGATTTACTA
1 TGTGCGATTTACTATGGCACTATGTGTGCGATTTACTA
178341017 T
1 T
178341018 AGCACTACGT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
35 16 0.44
36 6 0.17
37 7 0.19
38 7 0.19
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.39
Consensus pattern (38 bp):
TGTGCGATTTACTATGGCACTATGTGTGCGATTTACTA
Found at i:178341016 original size:59 final size:61
Alignment explanation
Indices: 178340921--178341041 Score: 201
Period size: 59 Copynumber: 2.0 Consensus size: 61
178340911 TGGCACTATG
* *
178340921 TGTGCGATTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTA
1 TGTGCGATTACTATGGCACTATGTGTGCGATTTACTATAGCACTACGTGTGCGATTTACTA
*
178340982 TGTGCGATTACTAT-GCACTA-GTGTGCGATTTACTATAGCACTACGTGTGCGATTTGCTA
1 TGTGCGATTACTATGGCACTATGTGTGCGATTTACTATAGCACTACGTGTGCGATTTACTA
178341041 T
1 T
178341042 AGCTCTATGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 37 0.65
60 6 0.11
61 14 0.25
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.37
Consensus pattern (61 bp):
TGTGCGATTACTATGGCACTATGTGTGCGATTTACTATAGCACTACGTGTGCGATTTACTA
Found at i:178341016 original size:83 final size:85
Alignment explanation
Indices: 178340897--178341057 Score: 247
Period size: 83 Copynumber: 1.9 Consensus size: 85
178340887 TGGCACTATG
* * *
178340897 TGTGCGATTCACTATGGCACTATGTGTGCGATTACTATGGCACTATGTGTGCGATTTACTATGGC
1 TGTGCGATTCACTATGGCACTATGTGTGCGATTACTATAGCACTACGTGTGCGATTTACTATAGC
178340962 ACTATGTGTGCGATTTACTA
66 ACTATGTGTGCGATTTACTA
*
178340982 TGTGCGATT-ACTAT-GCACTA-GTGTGCGATTTACTATAGCACTACGTGTGCGATTTGCTATAG
1 TGTGCGATTCACTATGGCACTATGTGTGCGA-TTACTATAGCACTACGTGTGCGATTTACTATAG
*
178341044 CTCTATGTGTGCGA
65 CACTATGTGTGCGA
178341058 ACATAATAAG
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
82 8 0.11
83 48 0.69
84 5 0.07
85 9 0.13
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (85 bp):
TGTGCGATTCACTATGGCACTATGTGTGCGATTACTATAGCACTACGTGTGCGATTTACTATAGC
ACTATGTGTGCGATTTACTA
Found at i:178341032 original size:24 final size:23
Alignment explanation
Indices: 178340978--178341057 Score: 103
Period size: 24 Copynumber: 3.5 Consensus size: 23
178340968 TGTGCGATTT
178340978 ACTA-TGTGCGA-TTACTAT-GC
1 ACTAGTGTGCGATTTACTATAGC
178340998 ACTAGTGTGCGATTTACTATAGC
1 ACTAGTGTGCGATTTACTATAGC
*
178341021 ACTACGTGTGCGATTTGCTATAGC
1 ACTA-GTGTGCGATTTACTATAGC
*
178341045 TCTATGTGTGCGA
1 ACTA-GTGTGCGA
178341058 ACATAATAAG
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
20 4 0.08
21 7 0.13
22 7 0.13
23 6 0.11
24 29 0.55
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.35
Consensus pattern (23 bp):
ACTAGTGTGCGATTTACTATAGC
Found at i:178348620 original size:24 final size:24
Alignment explanation
Indices: 178348588--178348818 Score: 349
Period size: 24 Copynumber: 9.6 Consensus size: 24
178348578 TATCTCAAAT
178348588 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTCACTATG
178348612 GCACTATGTGTGCGACTT-ACTATG
1 GCACTATGTGTGCGA-TTCACTATG
178348636 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTCACTATG
178348660 GCACTATGTGTGCGACTT-ACTATG
1 GCACTATGTGTGCGA-TTCACTATG
178348684 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTCACTATG
178348708 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTCACTATG
*
178348732 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTCACTATG
* * *
178348756 GCACTAAGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTCACTATG
* ** *
178348780 GCACTACGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTCACTATG
*
178348804 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
178348819 ACATAATAAG
Statistics
Matches: 196, Mismatches: 7, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
23 4 0.02
24 188 0.96
25 4 0.02
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTCACTATG
Found at i:178351847 original size:10 final size:10
Alignment explanation
Indices: 178351841--178351897 Score: 60
Period size: 10 Copynumber: 5.4 Consensus size: 10
178351831 GTGTAAAAAT
*
178351841 AAATAAATAT
1 AAATAAATAA
*
178351851 AAATAGACATGA
1 AAATA-A-ATAA
178351863 AAATAAATAA
1 AAATAAATAA
178351873 AAATGAAATAA
1 AAAT-AAATAA
*
178351884 GAATAAATAA
1 AAATAAATAA
178351894 AAAT
1 AAAT
178351898 TATACAAGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
10 21 0.54
11 11 0.28
12 7 0.18
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.21
Consensus pattern (10 bp):
AAATAAATAA
Found at i:178351890 original size:21 final size:22
Alignment explanation
Indices: 178351841--178351897 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
178351831 GTGTAAAAAT
* *
178351841 AAATAAATATAAATAGACATGA
1 AAATAAATAAAAATAGAAATGA
178351863 AAATAAATAAAAAT-GAAAT-A
1 AAATAAATAAAAATAGAAATGA
178351883 AGAATAAATAAAAAT
1 A-AATAAATAAAAAT
178351898 TATACAAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 2 0.06
21 17 0.53
22 13 0.41
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.21
Consensus pattern (22 bp):
AAATAAATAAAAATAGAAATGA
Found at i:178353602 original size:24 final size:22
Alignment explanation
Indices: 178353562--178353607 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 22
178353552 AGATAAAAAA
*
178353562 ATTTTTTACCAACTTTAAAATT
1 ATTTTTTACCAAATTTAAAATT
178353584 ATTTTATTAACCAAATTTAAAATT
1 ATTTT-TT-ACCAAATTTAAAATT
178353608 TAAACTTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.24
23 2 0.10
24 14 0.67
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTTTTACCAAATTTAAAATT
Found at i:178356916 original size:46 final size:46
Alignment explanation
Indices: 178356863--178357044 Score: 215
Period size: 46 Copynumber: 4.0 Consensus size: 46
178356853 AGTTCTTGCC
* *
178356863 CAGGTTCCCAGCTCCTACATATGTTGCAGATAGGAGAATACAGTTT
1 CAGGTTCCCAGCTCCTACATATGTTGTAGACAGGAGAATACAGTTT
* * * * * *
178356909 CAGGTTCCCAGTTTC-AGCATATGTTGTGGACTGGAGAATATAGATT
1 CAGGTTCCCAGCTCCTA-CATATGTTGTAGACAGGAGAATACAGTTT
* *
178356955 CAGGTTCCCAGCTCCTGCATATGTTGGAGACAGGAGAATACATGTTT
1 CAGGTTCCCAGCTCCTACATATGTTGTAGACAGGAGAATACA-GTTT
* * *
178357002 -AGATTCCCAGCTCCTATATATGTTGTGGACAGGAGAATACAGT
1 CAGGTTCCCAGCTCCTACATATGTTGTAGACAGGAGAATACAGT
178357045 AATAATAAGC
Statistics
Matches: 112, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
45 3 0.03
46 106 0.95
47 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (46 bp):
CAGGTTCCCAGCTCCTACATATGTTGTAGACAGGAGAATACAGTTT
Found at i:178357023 original size:92 final size:92
Alignment explanation
Indices: 178356863--178357040 Score: 252
Period size: 92 Copynumber: 1.9 Consensus size: 92
178356853 AGTTCTTGCC
* * * *
178356863 CAGGTTCCCAGCTCCTACATATGTTGCAGATAGGAGAATACAGTTTCAGGTTCCCAGTTTCAGCA
1 CAGGTTCCCAGCTCCTACATATGTTGCAGACAGGAGAATACAGTTTCAGATTCCCAGCTCCAGCA
*
178356928 TATGTTGTGGACTGGAGAATATAGATT
66 TATGTTGTGGACAGGAGAATATAGATT
* *
178356955 CAGGTTCCCAGCTCCTGCATATGTTGGAGACAGGAGAATACATGTTT-AGATTCCCAGCTCCTA-
1 CAGGTTCCCAGCTCCTACATATGTTGCAGACAGGAGAATACA-GTTTCAGATTCCCAGCTCC-AG
*
178357018 TATATGTTGTGGACAGGAGAATA
64 CATATGTTGTGGACAGGAGAATA
178357041 CAGTAATAAT
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
92 71 0.93
93 5 0.07
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (92 bp):
CAGGTTCCCAGCTCCTACATATGTTGCAGACAGGAGAATACAGTTTCAGATTCCCAGCTCCAGCA
TATGTTGTGGACAGGAGAATATAGATT
Found at i:178363798 original size:40 final size:39
Alignment explanation
Indices: 178363714--178363808 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 39
178363704 GACTATGTTT
*
178363714 GGCACTAAGTGTGCGATTCAAACTGCTTTGGCTATAAATA
1 GGCACTAAGTGTGCGATTCAAACTACTTTGGCTAT-AATA
** *
178363754 -GCACTAAGTGTGCGAGTTGGAATTACTTTGGCTAT-ATGA
1 GGCACTAAGTGTGCGA-TTCAAACTACTTTGGCTATAAT-A
178363793 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
178363809 CACTGAGATA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
38 2 0.04
39 16 0.33
40 30 0.62
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (39 bp):
GGCACTAAGTGTGCGATTCAAACTACTTTGGCTATAATA
Found at i:178365684 original size:26 final size:26
Alignment explanation
Indices: 178365655--178365711 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
178365645 ACATCTCATA
178365655 AGGGC-ATAACAGTCATTTTACCACAC
1 AGGGCAAT-ACAGTCATTTTACCACAC
* *
178365681 AGGGGCAATACAGTTATTTTACCACAT
1 A-GGGCAATACAGTCATTTTACCACAC
178365708 AGGG
1 AGGG
178365712 GGTCTAGGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 4 0.15
27 21 0.78
28 2 0.07
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (26 bp):
AGGGCAATACAGTCATTTTACCACAC
Found at i:178366996 original size:8 final size:8
Alignment explanation
Indices: 178366985--178367014 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
178366975 AAAAATTCAA
178366985 GATTTTGG
1 GATTTTGG
*
178366993 GATTTTTG
1 GATTTTGG
178367001 GATTTTGG
1 GATTTTGG
178367009 GATTTT
1 GATTTT
178367015 TGGGGCGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.13, C:0.00, G:0.30, T:0.57
Consensus pattern (8 bp):
GATTTTGG
Found at i:178367001 original size:9 final size:9
Alignment explanation
Indices: 178366987--178367018 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
178366977 AAATTCAAGA
178366987 TTTTGGGAT
1 TTTTGGGAT
178366996 TTTT-GGA-
1 TTTTGGGAT
178367003 TTTTGGGAT
1 TTTTGGGAT
178367012 TTTTGGG
1 TTTTGGG
178367019 GCGTTACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 4 0.19
8 6 0.29
9 11 0.52
ACGTcount: A:0.09, C:0.00, G:0.34, T:0.56
Consensus pattern (9 bp):
TTTTGGGAT
Found at i:178367006 original size:16 final size:16
Alignment explanation
Indices: 178366985--178367017 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
178366975 AAAAATTCAA
178366985 GATTTTGGGATTTTTG
1 GATTTTGGGATTTTTG
178367001 GATTTTGGGATTTTTG
1 GATTTTGGGATTTTTG
178367017 G
1 G
178367018 GGCGTTACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.33, T:0.55
Consensus pattern (16 bp):
GATTTTGGGATTTTTG
Found at i:178368815 original size:29 final size:29
Alignment explanation
Indices: 178368776--178368854 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
178368766 CTTAATAATC
*
178368776 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
178368806 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
178368835 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
178368855 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:178369292 original size:29 final size:29
Alignment explanation
Indices: 178369246--178369312 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
178369236 TTATCTTGAT
* *
178369246 ACCTTATGTTCTTCGCTATTCGGCTAATA
1 ACCTTATGCTCTTAGCTATTCGGCTAATA
178369275 ACCTTATGCTCTTAGCTATTCGGCTAATA
1 ACCTTATGCTCTTAGCTATTCGGCTAATA
178369304 ACCTTATGC
1 ACCTTATGC
178369313 AATTACCATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.39
Consensus pattern (29 bp):
ACCTTATGCTCTTAGCTATTCGGCTAATA
Found at i:178376920 original size:29 final size:29
Alignment explanation
Indices: 178376881--178376959 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
178376871 CTTAATAATC
*
178376881 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
178376911 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
178376940 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
178376960 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:178380341 original size:29 final size:29
Alignment explanation
Indices: 178380308--178380381 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
178380298 CCTTCGAGCT
178380308 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
178380337 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
178380366 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
178380382 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:178380342 original size:58 final size:58
Alignment explanation
Indices: 178380249--178380381 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
178380239 ATACTCGATT
* * * * *
178380249 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
178380307 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
178380365 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
178380382 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:178388206 original size:29 final size:29
Alignment explanation
Indices: 178388173--178388246 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
178388163 CCTTCGAGCT
178388173 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
178388202 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
178388231 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
178388247 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:178388207 original size:58 final size:58
Alignment explanation
Indices: 178388114--178388246 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
178388104 ATACTCGATT
* * * * *
178388114 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
178388172 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
178388230 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
178388247 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:178390347 original size:31 final size:31
Alignment explanation
Indices: 178390303--178390404 Score: 123
Period size: 31 Copynumber: 3.1 Consensus size: 31
178390293 CCTTTTCATA
*
178390303 TTTCATATCTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
178390340 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
178390372 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
178390403 TT
1 TT
178390405 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
31 32 0.52
32 1 0.02
33 1 0.02
37 1 0.02
38 27 0.44
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Done.