Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 49 of 362
Found at i:14379787 original size:96 final size:96
Alignment explanation
Indices: 14379636--14379911 Score: 358
Period size: 96 Copynumber: 2.9 Consensus size: 96
14379626 TATGTGTACC
* *
14379636 AGTGTAAGACCATGTCTGGGACATGGTATCGGCCAGGAT-ATGAGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CATCATGAGAGCCAGTGTAAGACCATGTT
* ** * * * *
14379700 TGGAATATGGCATCGGCGTTGATATGTGCGCT
65 TGGAACATGGCATCGGCAATGAGACGAGAGCT
* * *
14379732 AGTGTAAGACCAGGTCTAGGACATGGCATCGGCCACATCATGAGAGCTAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATGAGAGCCAGTGTAAGACCATGTTT
* **
14379797 GGTACATGGCATCAACAATGAGACGAGAGCT
66 GGAACATGGCATCGGCAATGAGACGAGAGCT
* * *
14379828 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC-TGCATGTGAGCCAATGTAAGACCATGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT-CATGAGAGCCAGTGTAAGACCATGTT
14379892 TGGAACATGGCATCGGCAAT
65 TGGAACATGGCATCGGCAAT
14379912 TCACCCTCTT
Statistics
Matches: 154, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
95 3 0.02
96 151 0.98
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATGAGAGCCAGTGTAAGACCATGTTT
GGAACATGGCATCGGCAATGAGACGAGAGCT
Found at i:14379900 original size:144 final size:144
Alignment explanation
Indices: 14379636--14379908 Score: 334
Period size: 144 Copynumber: 1.9 Consensus size: 144
14379626 TATGTGTACC
* ** * * * *
14379636 AGTGTAAGACCATGTCTGGGACATGGTATCGGCCAGGATATGAGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACAAGGAGACGAGAGCCAGTGTAAGACCATGTCT
* * * * * *
14379701 GGAATATGGCATCGGCGTTGATATGTGCGCTAGTGTAAGACCAGGTCTAGGACATGGCATCGGCC
66 GGAACATGGCATCGGCCTTGACATGTGAGCCAATGTAAGACCAGGTCTAGGACATGGCATCGGCC
14379766 ACATCATGAGAGCT
131 ACATCATGAGAGCT
* * * *
14379780 AGTGTAAGACCATGTTTGGTACATGGCATCAACAATGAGACGAGAGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAACAAGGAGACGAGAGCCAGTGTAAGACCATGTCT
* * *
14379845 GGGACATGGCATCGGCCTCTG-CATGTGAGCCAATGTAAGACCATGT-TTGGAACATGGCATCGG
66 GGAACATGGCATCGGCCT-TGACATGTGAGCCAATGTAAGACCAGGTCTAGG-ACATGGCATCGG
14379908 C
129 C
14379909 AATTCACCCT
Statistics
Matches: 107, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
143 3 0.03
144 102 0.95
145 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (144 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAACAAGGAGACGAGAGCCAGTGTAAGACCATGTCT
GGAACATGGCATCGGCCTTGACATGTGAGCCAATGTAAGACCAGGTCTAGGACATGGCATCGGCC
ACATCATGAGAGCT
Found at i:14380187 original size:18 final size:20
Alignment explanation
Indices: 14380152--14380188 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
14380142 GTTTATACTT
*
14380152 GTGATATATATAAGCATGTA
1 GTGATATATATAACCATGTA
14380172 GTGATAT-T-TAACCATGT
1 GTGATATATATAACCATGT
14380189 TCACTCAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 1 0.06
20 7 0.44
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (20 bp):
GTGATATATATAACCATGTA
Found at i:14380583 original size:30 final size:32
Alignment explanation
Indices: 14380547--14380607 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 32
14380537 CAAATTTCTC
*
14380547 ATGCTTGTGGTTGG-TTTGGTT-ATA-TGTGTT
1 ATGCTTG-GATTGGTTTTGGTTGATATTGTGTT
14380577 ATGCTTGGATTGGTTTTGGTTGATATTGTGT
1 ATGCTTGGATTGGTTTTGGTTGATATTGTGT
14380608 AGGTTGGTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 5 0.19
30 14 0.52
31 3 0.11
32 5 0.19
ACGTcount: A:0.11, C:0.03, G:0.33, T:0.52
Consensus pattern (32 bp):
ATGCTTGGATTGGTTTTGGTTGATATTGTGTT
Found at i:14381296 original size:22 final size:22
Alignment explanation
Indices: 14381271--14381314 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
14381261 AGTACATATC
14381271 ATACTTATCAATACAACCTATT
1 ATACTTATCAATACAACCTATT
14381293 ATACTTATCAATACAACCTATT
1 ATACTTATCAATACAACCTATT
14381315 TCAATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (22 bp):
ATACTTATCAATACAACCTATT
Found at i:14381873 original size:34 final size:34
Alignment explanation
Indices: 14381834--14381901 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
14381824 AATTCATGCA
14381834 CATAGATTATCAAGATTTTCATGAGTTTATTCAT
1 CATAGATTATCAAGATTTTCATGAGTTTATTCAT
14381868 CATAGATTATCAAGATTTTCATGAGTTTATTCAT
1 CATAGATTATCAAGATTTTCATGAGTTTATTCAT
14381902 TCAAAACACG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (34 bp):
CATAGATTATCAAGATTTTCATGAGTTTATTCAT
Found at i:14382399 original size:43 final size:43
Alignment explanation
Indices: 14382332--14382500 Score: 182
Period size: 43 Copynumber: 4.0 Consensus size: 43
14382322 AAAGCTCGTA
* *
14382332 CAATGCC-ATATCCCAAATATGGTCTTACATGTTATCACATAT
1 CAATGCCAATATCCCAAACATGGTCTTACATGTAATCACATAT
* * * * * *
14382374 CTATGCCACTATCCCAGACAGGGTCTTACATGAAATCGA-ATAA
1 CAATGCCAATATCCCAAACATGGTCTTACATGTAATC-ACATAT
* * *
14382417 CGATGCTAATATCCCAGACATGGTCTTACATGTAATCACA-AT
1 CAATGCCAATATCCCAAACATGGTCTTACATGTAATCACATAT
* *
14382459 AAAATGCCAATTTCCCAAACATGGTCTTACATGTAATCACAT
1 -CAATGCCAATATCCCAAACATGGTCTTACATGTAATCACAT
14382501 CTCGGTAATC
Statistics
Matches: 103, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
42 8 0.08
43 94 0.91
44 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.28
Consensus pattern (43 bp):
CAATGCCAATATCCCAAACATGGTCTTACATGTAATCACATAT
Found at i:14382485 original size:86 final size:86
Alignment explanation
Indices: 14382339--14382496 Score: 210
Period size: 86 Copynumber: 1.8 Consensus size: 86
14382329 GTACAATGCC
* * ** * *
14382339 ATATCCCAAATATGGTCTTACATGTTATCACATATCTATGCCACTATCCCAGACAGGGTCTTACA
1 ATATCCCAAACATGGTCTTACATGTAATCACATATAAATGCCAATATCCCAAACAGGGTCTTACA
14382404 TGAAATCGAATAACGATGCTA
66 TGAAATCGAATAACGATGCTA
* * *
14382425 ATATCCCAGACATGGTCTTACATGTAATCACA-ATAAAATGCCAATTTCCCAAACATGGTCTTAC
1 ATATCCCAAACATGGTCTTACATGTAATCACATAT-AAATGCCAATATCCCAAACAGGGTCTTAC
*
14382489 ATGTAATC
65 ATGAAATC
14382497 ACATCTCGGT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
85 2 0.03
86 59 0.97
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (86 bp):
ATATCCCAAACATGGTCTTACATGTAATCACATATAAATGCCAATATCCCAAACAGGGTCTTACA
TGAAATCGAATAACGATGCTA
Found at i:14385433 original size:40 final size:40
Alignment explanation
Indices: 14385378--14385522 Score: 200
Period size: 40 Copynumber: 3.6 Consensus size: 40
14385368 TGTATAATTA
* * *
14385378 CACATACATGTCCCTATTTGTACTTCGGTACCCCTAATTG
1 CACATACATGCCCCTATTTGTACTTCGGTACCCATGATTG
*** * *
14385418 CACATATGGGCCCCTATTTGTACTTCAGTACCCTTGATTG
1 CACATACATGCCCCTATTTGTACTTCGGTACCCATGATTG
*
14385458 CACATACATGCCCCTGTTTGTACTTCGGTACCCATGATTG
1 CACATACATGCCCCTATTTGTACTTCGGTACCCATGATTG
*
14385498 CACATACATGCCCCTGTTTGTACTT
1 CACATACATGCCCCTATTTGTACTT
14385523 TAGCACCCTA
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 92 1.00
ACGTcount: A:0.21, C:0.30, G:0.15, T:0.34
Consensus pattern (40 bp):
CACATACATGCCCCTATTTGTACTTCGGTACCCATGATTG
Found at i:14387602 original size:43 final size:42
Alignment explanation
Indices: 14387555--14387724 Score: 173
Period size: 43 Copynumber: 4.0 Consensus size: 42
14387545 ACAAAAGCGC
* * *
14387555 TGCTATAGAACATGACCTTTAGCAGCGCTTTTCCCACAAACA
1 TGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCACAAACA
14387597 TTGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCAC-AA-A
1 -TGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCACAAACA
* * * *
14387638 TGCCATTAAAAAACATGACCTTTCGTGGTGCTTTCCCCACAAACA
1 TG-C--TAAAGAACATGACCTTTAGCGGCGCTTTCCCCACAAACA
** * * *
14387683 CCACTAAAGAACATTACCTTTAGCGTCGCTTTTCCCACAAAC
1 -TGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCACAAAC
14387725 GCTGCTAAGG
Statistics
Matches: 105, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
40 2 0.02
41 2 0.02
42 2 0.02
43 95 0.90
44 2 0.02
45 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.26
Consensus pattern (42 bp):
TGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCACAAACA
Found at i:14387671 original size:86 final size:86
Alignment explanation
Indices: 14387563--14387723 Score: 223
Period size: 86 Copynumber: 1.9 Consensus size: 86
14387553 GCTGCTATAG
* ***
14387563 AACATGACCTTTAGCAGCGCTTTTCCCACAAACATTGCTAAAGAACATGACCTTTAGCGGCGCTT
1 AACATGACCTTTAGCAGCGCTTTCCCCACAAACACCACTAAAGAACATGACCTTTAGCGGCGCTT
14387628 TCCCCACAAATGCCATTAAAA
66 TCCCCACAAATGCCATTAAAA
* ** * * *
14387649 AACATGACCTTTCGTGGTGCTTTCCCCACAAACACCACTAAAGAACATTACCTTTAGCGTCGCTT
1 AACATGACCTTTAGCAGCGCTTTCCCCACAAACACCACTAAAGAACATGACCTTTAGCGGCGCTT
*
14387714 TTCCCACAAA
66 TCCCCACAAA
14387724 CGCTGCTAAG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
86 64 1.00
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.25
Consensus pattern (86 bp):
AACATGACCTTTAGCAGCGCTTTCCCCACAAACACCACTAAAGAACATGACCTTTAGCGGCGCTT
TCCCCACAAATGCCATTAAAA
Found at i:14389160 original size:21 final size:22
Alignment explanation
Indices: 14389115--14389168 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
14389105 TGCAAGGCTC
*
14389115 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGGACCAAGGG
**
14389137 ACACGCCCGTGT-GACCCTGGG
1 ACACGCCCGTGTGGACCAAGGG
*
14389158 ACACACCCGTG
1 ACACGCCCGTG
14389169 CTAGAGGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 16 0.57
22 12 0.43
ACGTcount: A:0.19, C:0.37, G:0.31, T:0.13
Consensus pattern (22 bp):
ACACGCCCGTGTGGACCAAGGG
Found at i:14390669 original size:49 final size:49
Alignment explanation
Indices: 14390592--14390836 Score: 274
Period size: 49 Copynumber: 4.9 Consensus size: 49
14390582 TAGCCAAAGC
* * *
14390592 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
14390641 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * * * *
14390691 CATCTGATACACGTAGAAGCTTGCACTTAGTGCTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * *
14390742 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
14390791 AATCTGGTACAGGTAGTAGCCTGTACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
14390837 TCACAATAGA
Statistics
Matches: 160, Mismatches: 33, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 80 0.50
50 45 0.28
51 35 0.22
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:14390766 original size:101 final size:98
Alignment explanation
Indices: 14390609--14390836 Score: 285
Period size: 100 Copynumber: 2.3 Consensus size: 98
14390599 TACGCATAGT
* * *
14390609 AGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTAGTAC
1 AGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTAGTAC
* *
14390674 TACACACGTGACCTAACCATCTGATACACGTAGA
66 TACACACGCGACC-AACAATCTGATACACGTAGA
* * * * *
14390708 AGCTTGCACTTAGTGCTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACTTAGT
1 AGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACTTAGT
* * * * *
14390773 ACTACACATGCGACCAATAATCTGGTACAGGTAGT
64 ACTACACACGCGACCAACAATCTGATACACGTAGA
*
14390808 AGCCTGTACTTAGTACTACACACGTGACC
1 AGCCTGCACTTAGTACTACACACGTGACC
14390837 TCACAATAGA
Statistics
Matches: 108, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
99 24 0.22
100 42 0.39
101 42 0.39
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (98 bp):
AGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTAGTAC
TACACACGCGACCAACAATCTGATACACGTAGA
Found at i:14396947 original size:40 final size:38
Alignment explanation
Indices: 14396823--14397005 Score: 152
Period size: 40 Copynumber: 4.6 Consensus size: 38
14396813 TTGAATGCTG
* * * * *
14396823 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGT-TATAAA
** * * *
14396863 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACAAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTATAA-A
*
14396903 TCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTA-TAAA
*
14396943 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTA-TAAA
* * *
14396982 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
14397006 TGAACGAGGA
Statistics
Matches: 117, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
39 38 0.32
40 70 0.60
41 9 0.08
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (38 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTATAAA
Found at i:14404832 original size:39 final size:40
Alignment explanation
Indices: 14404785--14404915 Score: 135
Period size: 39 Copynumber: 3.3 Consensus size: 40
14404775 GGACTAAGAT
*
14404785 CCGAAGGCATTTGTGCGAGATA-CAAGTTCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGATATCAA-ATCCGGGTTAAGTC
* * *
14404824 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGTC
* * * * *
14404864 CCGAAGGCA-TTGTGTGAGTTA-CTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATATC-AAATCCGGGTTAAGTC
14404903 CCGAAGGCATTTG
1 CCGAAGGCATTTG
14404916 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
39 63 0.81
40 15 0.19
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGTC
Found at i:14408362 original size:47 final size:47
Alignment explanation
Indices: 14408288--14408488 Score: 348
Period size: 47 Copynumber: 4.3 Consensus size: 47
14408278 TCCTTCGGGA
*
14408288 CTTATCACATATATACACTTTCCCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
14408335 CTTATCACATATATACACTTTCACATTCATCACATTTGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
14408382 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
14408429 CTTATCACATATATACACTTTCACATTCATCACATCGGCCCTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14408476 CTTATCACATATA
1 CTTATCACATATA
14408489 CATATCTTGT
Statistics
Matches: 144, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 144 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:14413446 original size:9 final size:9
Alignment explanation
Indices: 14413432--14413596 Score: 85
Period size: 9 Copynumber: 18.6 Consensus size: 9
14413422 CTTTAAATGT
14413432 TTATGTAAG
1 TTATGTAAG
14413441 TTATGTAAG
1 TTATGTAAG
14413450 TTATG-ATA-
1 TTATGTA-AG
* *
14413458 TGATGTATAT
1 TTATGTA-AG
14413468 TTATG-AA-
1 TTATGTAAG
*
14413475 CTATGTAAG
1 TTATGTAAG
*
14413484 TTATGATATG
1 TTATG-TAAG
* * *
14413494 ATATATATAT
1 TTATGTA-AG
14413504 TTATGTAA-
1 TTATGTAAG
*
14413512 TTAATGTAAT
1 TT-ATGTAAG
14413522 TTATGTAAG
1 TTATGTAAG
14413531 TTATGTAAG
1 TTATGTAAG
*
14413540 TTATGTAAT
1 TTATGTAAG
*
14413549 TTATGATATG
1 TTATG-TAAG
* * *
14413559 ATATAT-AT
1 TTATGTAAG
*
14413567 TTCTGT-A-
1 TTATGTAAG
*
14413574 TTGTGTAAG
1 TTATGTAAG
14413583 TTATGTAAG
1 TTATGTAAG
14413592 TTATG
1 TTATG
14413597 ATCCAAAGTT
Statistics
Matches: 120, Mismatches: 24, Indels: 24
0.71 0.14 0.14
Matches are distributed among these distances:
7 9 0.08
8 15 0.12
9 74 0.62
10 22 0.18
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:14413554 original size:65 final size:61
Alignment explanation
Indices: 14413476--14413596 Score: 170
Period size: 61 Copynumber: 1.9 Consensus size: 61
14413466 ATTTATGAAC
*
14413476 TATGTAAGTTATGATATGATATATATATTTATGTAATTAATGTAATTTATGTAAGTTATGTAAGT
1 TATGTAAGTTATGATATG--ATATATATTTATGT-ATT-ATGTAAGTTATGTAAGTTATGTAAGT
* * *
14413541 TATGTAATTTATGATATGATATATATTTCTGTATTGTGTAAGTTATGTAAGTTATG
1 TATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATG
14413597 ATCCAAAGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
61 19 0.37
62 3 0.06
63 13 0.25
65 17 0.33
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.49
Consensus pattern (61 bp):
TATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATGTAAGT
Found at i:14413634 original size:99 final size:99
Alignment explanation
Indices: 14413388--14413648 Score: 245
Period size: 99 Copynumber: 2.7 Consensus size: 99
14413378 TGATATATAT
* *
14413388 TTATGTAAGTTATGATCCAAAG---TTTTTTTTTATTCTTTAAATGTTTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGATCCAAAGTTTTTTTTTTTTAATCTTTAAATGTTTATGTAAGTTATGTAAT
*
14413450 TTATGATATGATGTATATTTATGAACTATGTAAG
66 TTATGATATGATATATATTTATGAACTATGTAAG
* * * ** * *
14413484 TTATGATATGATAT-AT--ATA-TTTATGTAATTAATGTAAT-TTATGTAA-G-TTATGTAAGTT
1 TTATG-TAAGTTATGATCCAAAGTTT-T-T--TTTTTTTAATCTT-T-AAATGTTTATGTAAGTT
* * * *
14413542 ATGTAATTTATGATATGATATATATTTCTGTATTGTGTAAG
59 ATGTAATTTATGATATGATATATATTTATGAACTATGTAAG
*
14413583 TTATGTAAGTTATGATCCAAAGTTTTTTTTTTTTAATCTTTAAATGTTTATGTAAGTCATGATAA
1 TTATGTAAGTTATGATCCAAAGTTTTTTTTTTTTAATCTTTAAATGTTTATGTAAGTTATG-TAA
14413648 T
65 T
14413649 CATAAACTTT
Statistics
Matches: 125, Mismatches: 22, Indels: 32
0.70 0.12 0.18
Matches are distributed among these distances:
94 2 0.02
96 7 0.06
97 9 0.07
98 16 0.13
99 70 0.56
100 13 0.10
101 5 0.04
102 3 0.02
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.50
Consensus pattern (99 bp):
TTATGTAAGTTATGATCCAAAGTTTTTTTTTTTTAATCTTTAAATGTTTATGTAAGTTATGTAAT
TTATGATATGATATATATTTATGAACTATGTAAG
Found at i:14413659 original size:35 final size:35
Alignment explanation
Indices: 14413620--14413686 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
14413610 TTTTTTTAAT
14413620 CTTTAAATGTTTATGTAAGTCATGATAATCATAAA
1 CTTTAAATGTTTATGTAAGTCATGATAATCATAAA
* *
14413655 CTTTAAATGTTTATGTAAGTTATGATTATCAT
1 CTTTAAATGTTTATGTAAGTCATGATAATCAT
14413687 CTTTAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (35 bp):
CTTTAAATGTTTATGTAAGTCATGATAATCATAAA
Found at i:14413703 original size:26 final size:26
Alignment explanation
Indices: 14413674--14413725 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
14413664 TTTATGTAAG
14413674 TTATGATTATCATCTTTAAATTTTAA
1 TTATGATTATCATCTTTAAATTTTAA
14413700 TTATGATTATCATCTTTAAATTTTAA
1 TTATGATTATCATCTTTAAATTTTAA
14413726 CTTTAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.54
Consensus pattern (26 bp):
TTATGATTATCATCTTTAAATTTTAA
Found at i:14413731 original size:13 final size:13
Alignment explanation
Indices: 14413713--14413739 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14413703 TGATTATCAT
14413713 CTTTAAATTTTAA
1 CTTTAAATTTTAA
14413726 CTTTAAATTTTAA
1 CTTTAAATTTTAA
14413739 C
1 C
14413740 CCTTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (13 bp):
CTTTAAATTTTAA
Found at i:14414761 original size:72 final size:74
Alignment explanation
Indices: 14414649--14414846 Score: 210
Period size: 71 Copynumber: 2.7 Consensus size: 74
14414639 GAATAAATGG
* * *
14414649 TTTCACTTAATATCAACAAACTCAATAAGTTGAATTAAATTAACCTTTTTAAAAAT-TCATAATT
1 TTTCACTTAATATCAA-AAATTCAATAAATTGAATTAAATTAACCTTTTTAAAAATGT-ATAACT
*
14414713 GAACAAAC-GT
64 AAACAAACGGT
* ** * * *
14414723 TTTCACTTAATATC-AAATTTCAATAAATCAAATTAAATTAAGC-TTCTGAAAATGTATAACTAA
1 TTTCACTTAATATCAAAAATTCAATAAATTGAATTAAATTAACCTTTTTAAAAATGTATAACTAA
*
14414786 ATAAACGGT
66 ACAAACGGT
* * *
14414795 TTT-GCTTAATATCAAAACTT-AATAAATTGAACTAAATTAACCTTTTTAAAAA
1 TTTCACTTAATATCAAAAATTCAATAAATTGAATTAAATTAACCTTTTTAAAAA
14414847 CAAATAATTA
Statistics
Matches: 101, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
71 46 0.46
72 40 0.40
73 1 0.01
74 14 0.14
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.36
Consensus pattern (74 bp):
TTTCACTTAATATCAAAAATTCAATAAATTGAATTAAATTAACCTTTTTAAAAATGTATAACTAA
ACAAACGGT
Found at i:14414831 original size:71 final size:72
Alignment explanation
Indices: 14414630--14414873 Score: 201
Period size: 72 Copynumber: 3.4 Consensus size: 72
14414620 GGTTTTACTT
* * * *
14414630 TGTATAAC-AGAATAAATGGTTTCACTTAATATCAACAAACTCAATAAGTTGAATTAAATTAACC
1 TGTATAACTA-AATAAACGGTTTTACTTAATATC-A-AAACTTAATAAATTGAATTAAATTAACC
*
14414694 TTTTTAAAAA
63 TTTCTAAAAA
* * * * ** *
14414704 T-TCATAATTGAACAAAC-GTTTTCACTTAATATC-AAATTTCAATAAATCAAATTAAATTAAGC
1 TGT-ATAACTAAATAAACGGTTTT-ACTTAATATCAAAACTT-AATAAATTGAATTAAATTAACC
*
14414766 -TTCTGAAAA
63 TTTCTAAAAA
* *
14414775 TGTATAACTAAATAAACGGTTTTGCTTAATATCAAAACTTAATAAATTGAACTAAATTAACCTTT
1 TGTATAACTAAATAAACGGTTTTACTTAATATCAAAACTTAATAAATTGAATTAAATTAACCTTT
*
14414840 TTAAAAA
66 CTAAAAA
*** * **
14414847 CAAATAATTAAATAAACTATTTTACTT
1 TGTATAACTAAATAAACGGTTTTACTT
14414874 GACAATTAAT
Statistics
Matches: 131, Mismatches: 31, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
71 50 0.38
72 56 0.43
73 5 0.04
74 20 0.15
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.36
Consensus pattern (72 bp):
TGTATAACTAAATAAACGGTTTTACTTAATATCAAAACTTAATAAATTGAATTAAATTAACCTTT
CTAAAAA
Found at i:14415549 original size:22 final size:22
Alignment explanation
Indices: 14415524--14415569 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
14415514 TAAAAGAGAA
14415524 AGAAAAAGATAATTAGGAGCTC
1 AGAAAAAGATAATTAGGAGCTC
14415546 AGAAAAAGATAATTAGGAGCTC
1 AGAAAAAGATAATTAGGAGCTC
14415568 AG
1 AG
14415570 TAACTGCCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.50, C:0.09, G:0.24, T:0.17
Consensus pattern (22 bp):
AGAAAAAGATAATTAGGAGCTC
Found at i:14418784 original size:22 final size:22
Alignment explanation
Indices: 14418741--14418784 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
14418731 AACATATAAT
*
14418741 TAAATTAATCAAAATTTACAAA
1 TAAATTAATCAAAAATTACAAA
*
14418763 TAAA-TAATCCAAAAATTGCAAA
1 TAAATTAAT-CAAAAATTACAAA
14418785 CAATAGCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.27
Consensus pattern (22 bp):
TAAATTAATCAAAAATTACAAA
Found at i:14428742 original size:21 final size:21
Alignment explanation
Indices: 14428693--14428742 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
14428683 CACCACATAA
* *
14428693 GTGCCTAAAACGACACACGAG
1 GTGCCTGATACGACACACGAG
14428714 GT-CCTGATACGACACACGAG
1 GTGCCTGATACGACACACGAG
14428734 GTGCCTGAT
1 GTGCCTGAT
14428743 CAGCAAAGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
GTGCCTGATACGACACACGAG
Found at i:14437090 original size:200 final size:200
Alignment explanation
Indices: 14436749--14437120 Score: 442
Period size: 200 Copynumber: 1.9 Consensus size: 200
14436739 CACGGAGTTA
* * *
14436749 TATTATGTAAGACCGTAGCTAGAAGATGCTACAACATCATAGATAGTCCACCTGGACAATAAACA
1 TATTATGTAAGACCATAGCTAGAAGAAGCTACAACATCATAGATAGTCCACCGGGACAATAAACA
* ** * * *
14436814 TGGGATAGCCGCCCAAGACAATAATCACATAGTTATATTGTGTAAGATTATAGCTGGAATATGCT
66 TGGGATAGCCGCCCAAGACAATAATCACAGAGTTATATTGTGTAAGACCATAGCTGAAAGATACT
** * *
14436879 ACGGTATCATAGATAATCCTCCAAGACCATAAACATAGGATAATCTGTCAGGTTGGTAATCAAAA
131 ACGACATCATAGATAATCCACCAAGACAATAAACATAGGATAATCTGTCAGGTTGGTAATCAAAA
14436944 AATTT
196 AATTT
* * * *** * *
14436949 TATTGTGTAAGACCATAGCTTGAAGAAGCTACGACATCATAGATAGTCTGTCGGGATAATAAA-T
1 TATTATGTAAGACCATAGCTAGAAGAAGCTACAACATCATAGATAGTCCACCGGGACAATAAACA
* * ** *
14437013 TCGGGATAGTCTG-CCAGGACAATAATCATGGAGTTATATTGTGTAAGACCATGGCTGAAAGATA
66 T-GGGATAG-CCGCCCAAGACAATAATCACAGAGTTATATTGTGTAAGACCATAGCTGAAAGATA
* * * *
14437077 CTATGACATCATAGATAGTCCACCAGGACAATAAACATGGGATA
129 CTACGACATCATAGATAATCCACCAAGACAATAAACATAGGATA
14437121 GTCCACTGGG
Statistics
Matches: 140, Mismatches: 30, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
199 1 0.01
200 137 0.98
201 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (200 bp):
TATTATGTAAGACCATAGCTAGAAGAAGCTACAACATCATAGATAGTCCACCGGGACAATAAACA
TGGGATAGCCGCCCAAGACAATAATCACAGAGTTATATTGTGTAAGACCATAGCTGAAAGATACT
ACGACATCATAGATAATCCACCAAGACAATAAACATAGGATAATCTGTCAGGTTGGTAATCAAAA
AATTT
Found at i:14437110 original size:100 final size:100
Alignment explanation
Indices: 14436735--14437123 Score: 329
Period size: 100 Copynumber: 3.9 Consensus size: 100
14436725 GTTGGGATAG
* * * * *
14436735 TAATCACGGAGTTATATTATGTAAGACCGTAGCT-AGAAGATGCTACAACATCATAGATAGTCCA
1 TAATCACAGAGTTATATTGTGTAAGACCATAGCTGA-AAGATACTACGACATCATAGATAGTCCA
* * *
14436799 CCTGGACAATAAACATGGGATAG-CCGCCCAAGACAA
65 CCAGGACAATAAACATGGGATAGTCTG-CCAGGACAA
* ** * * * ** * *
14436835 TAATCACATAGTTATATTGTGTAAGATTATAGCTGGAATATGCTACGGTATCATAGATAATCCTC
1 TAATCACAGAGTTATATTGTGTAAGACCATAGCTGAAAGATACTACGACATCATAGATAGTCCAC
* * * * * ****
14436900 CAAGACCATAAACATAGGATAATCTGTCAGGTTGG
66 CAGGACAATAAACATGGGATAGTCTGCCAGGACAA
* * * * *
14436935 TAATCAAAAAATTTTATTGTGTAAGACCATAGCTTG-AAGA-AGCTACGACATCATAGATAGTCT
1 TAATCACAGAGTTATATTGTGTAAGACCATAGC-TGAAAGATA-CTACGACATCATAGATAGTCC
** * * *
14436998 GTCGGGATAATAAA-TTCGGGATAGTCTGCCAGGACAA
64 ACCAGGACAATAAACAT-GGGATAGTCTGCCAGGACAA
** * *
14437035 TAATCATGGAGTTATATTGTGTAAGACCATGGCTGAAAGATACTATGACATCATAGATAGTCCAC
1 TAATCACAGAGTTATATTGTGTAAGACCATAGCTGAAAGATACTACGACATCATAGATAGTCCAC
14437100 CAGGACAATAAACATGGGATAGTC
66 CAGGACAATAAACATGGGATAGTC
14437124 CACTGGGACA
Statistics
Matches: 217, Mismatches: 64, Indels: 16
0.73 0.22 0.05
Matches are distributed among these distances:
99 3 0.01
100 208 0.96
101 6 0.03
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (100 bp):
TAATCACAGAGTTATATTGTGTAAGACCATAGCTGAAAGATACTACGACATCATAGATAGTCCAC
CAGGACAATAAACATGGGATAGTCTGCCAGGACAA
Found at i:14437122 original size:27 final size:27
Alignment explanation
Indices: 14437090--14437151 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
14437080 TGACATCATA
14437090 GATAGTCCACCAGGACAATAAACATGG
1 GATAGTCCACCAGGACAATAAACATGG
**
14437117 GATAGTCCACTGGGACAATAAACATGG
1 GATAGTCCACCAGGACAATAAACATGG
*
14437144 GGTAGTCC
1 GATAGTCC
14437152 GTCGAGATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (27 bp):
GATAGTCCACCAGGACAATAAACATGG
Found at i:14441382 original size:28 final size:27
Alignment explanation
Indices: 14441321--14441383 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 27
14441311 TCCCATCGAG
*
14441321 CTTACCATGTGTTTATTGCCTTGGTAAA
1 CTTACC-TGTGTTTACTGCCTTGGTAAA
* *
14441349 CATACCTCGTGTTTACTGCCTTGGTAGA
1 CTTACCT-GTGTTTACTGCCTTGGTAAA
14441377 CTTACCT
1 CTTACCT
14441384 TCTATTTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.03
28 29 0.97
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.40
Consensus pattern (27 bp):
CTTACCTGTGTTTACTGCCTTGGTAAA
Found at i:14441391 original size:28 final size:28
Alignment explanation
Indices: 14441332--14441394 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
14441322 TTACCATGTG
* *
14441332 TTTATTGCCTTGGTAAACATACCTCGTG
1 TTTACTGCCTTGGTAAACATACCTCGTA
* *
14441360 TTTACTGCCTTGGTAGACTTACCTTC-TA
1 TTTACTGCCTTGGTAAACATACC-TCGTA
14441388 TTTACTG
1 TTTACTG
14441395 TCCCAGCGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 28 0.93
29 2 0.07
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (28 bp):
TTTACTGCCTTGGTAAACATACCTCGTA
Found at i:14442737 original size:21 final size:21
Alignment explanation
Indices: 14442713--14442754 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
14442703 AGATCTAATT
14442713 AGTACTTTAAATTAGTTATAG
1 AGTACTTTAAATTAGTTATAG
*
14442734 AGTACTTTAAATTATTTATAG
1 AGTACTTTAAATTAGTTATAG
14442755 TACGAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (21 bp):
AGTACTTTAAATTAGTTATAG
Found at i:14449767 original size:39 final size:39
Alignment explanation
Indices: 14449722--14449957 Score: 339
Period size: 39 Copynumber: 6.1 Consensus size: 39
14449712 ATGCAAGACA
*
14449722 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
* * *
14449761 GTGGAAATATATCTGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
* *
14449800 CTGGAAATGTATCCGGGCTAAAGTCTCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
* ** *
14449839 CTGGAAATATATCTAGGCCAAAGTCCCACAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
14449878 CTGGAAATGTATCCGGGCCAAAG-CCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
** * *
14449916 CTGGAAATGTATCCGGGTTAAAGTCCCGTAGGCTTTGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
14449955 CTG
1 CTG
14449958 ATAATATAAT
Statistics
Matches: 173, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
38 35 0.20
39 138 0.80
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
Found at i:14449949 original size:116 final size:117
Alignment explanation
Indices: 14449722--14449965 Score: 357
Period size: 116 Copynumber: 2.1 Consensus size: 117
14449712 ATGCAAGACA
* * * * * *
14449722 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGGTGGAAATATATCTGGGCCAAAGTCC
1 CTGGAAATATATCCAGGCCAAAGTCCCACAGGCTTCGTGCTGGAAATATATCCGGGCCAAAGTCC
*
14449787 CGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCTCGCAGGCTTCGTG
66 CGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
14449839 CTGGAAATATATCTAGGCCAAAGTCCCACAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAG-CC
1 CTGGAAATATATCCAGGCCAAAGTCCCACAGGCTTCGTGCTGGAAATATATCCGGGCCAAAGTCC
* * *
14449903 CGCAGGCTTCGTGCTGGAAATGTATCCGGGTTAAAGTCCCGTAGGCTTTGTG
66 CGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
14449955 CT-GATAATATA
1 CTGGA-AATATA
14449966 ATTCGGGTTT
Statistics
Matches: 114, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
115 2 0.02
116 58 0.51
117 54 0.47
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (117 bp):
CTGGAAATATATCCAGGCCAAAGTCCCACAGGCTTCGTGCTGGAAATATATCCGGGCCAAAGTCC
CGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:14472489 original size:26 final size:26
Alignment explanation
Indices: 14472460--14472541 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 26
14472450 TGGTACAAAT
*
14472460 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
14472486 TGATAATGGATTAGGTTAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
14472512 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
14472538 TGAT
1 TGAT
14472542 GGGCATTTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.38
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:14472774 original size:20 final size:20
Alignment explanation
Indices: 14472744--14472795 Score: 95
Period size: 20 Copynumber: 2.5 Consensus size: 20
14472734 GGTAGTTTGC
14472744 TTCTATCTTGATGTTCATGAG
1 TTCT-TCTTGATGTTCATGAG
14472765 TTCTTCTTGATGTTCATGAG
1 TTCTTCTTGATGTTCATGAG
14472785 TTCTTCTTGAT
1 TTCTTCTTGAT
14472796 TCTACCTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 27 0.87
21 4 0.13
ACGTcount: A:0.15, C:0.15, G:0.17, T:0.52
Consensus pattern (20 bp):
TTCTTCTTGATGTTCATGAG
Found at i:14474199 original size:27 final size:27
Alignment explanation
Indices: 14474159--14474317 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
14474149 AGGAAGCATC
*
14474159 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
14474186 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
14474212 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
14474240 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
14474267 CTGGTGGCTCTGCCACAA-TATTTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
14474294 CTGGTGACTCCGTCACAA-TATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
14474318 GCAGCCTCGC
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.09
27 101 0.88
28 4 0.03
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:14474239 original size:54 final size:54
Alignment explanation
Indices: 14474157--14474317 Score: 245
Period size: 54 Copynumber: 3.0 Consensus size: 54
14474147 GGAGGAAGCA
14474157 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
14474211 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
* * * * * *
14474265 TTCTGGTGGCTCTGCCACAA-TATTTGTATCTGGTGACTCCGTCACA-ATATCTG
1 TCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCTG
14474318 GCAGCCTCGC
Statistics
Matches: 100, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
53 12 0.12
54 88 0.88
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (54 bp):
TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
Found at i:14474311 original size:81 final size:80
Alignment explanation
Indices: 14474159--14474317 Score: 205
Period size: 81 Copynumber: 2.0 Consensus size: 80
14474149 AGGAAGCATC
* *
14474159 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAC
14474224 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * * *
14474240 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATTTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
* *
14474303 CCGTCACAATATCTG
64 ACGCCACAATATCTG
14474318 GCAGCCTCGC
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
80 15 0.22
81 53 0.78
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAC
GCCACAATATCTGAT
Found at i:14476227 original size:27 final size:26
Alignment explanation
Indices: 14476193--14476281 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 26
14476183 TATGCCACAA
14476193 ATTATCTGATTTGGTGGCTCTGCTAC
1 ATTATCTGATTTGGTGGCTCTGCTAC
*
14476219 ATATATCTG-TTCTGGTGGCTCTGCCAC
1 AT-TATCTGATT-TGGTGGCTCTGCTAC
* *
14476246 GATTATCTGTATCTGGTGACTCTG-TCAC
1 -ATTATCTG-ATTTGGTGGCTCTGCT-AC
14476274 ATTATCTG
1 ATTATCTG
14476282 TTCTGGCAGC
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
26 4 0.08
27 34 0.64
28 14 0.26
29 1 0.02
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTATCTGATTTGGTGGCTCTGCTAC
Found at i:14476263 original size:55 final size:54
Alignment explanation
Indices: 14476175--14476287 Score: 140
Period size: 55 Copynumber: 2.1 Consensus size: 54
14476165 AGGTAGCGTC
* *
14476175 CTGGTGGATATGCCACAAATTATCTGATTTGGTGGCTCTG-CTACATATATCTGTT
1 CTGGTGGATATGCCACAAATTATCTGATCTGGTGACTCTGTC-ACAT-TATCTGTT
* * *
14476230 CTGGTGGCTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGATATGCCACAAATTATCTG-ATCTGGTGACTCTGTCACATTATCTGTT
14476284 CTGG
1 CTGG
14476288 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 20 0.39
55 30 0.59
56 1 0.02
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGATATGCCACAAATTATCTGATCTGGTGACTCTGTCACATTATCTGTT
Found at i:14509616 original size:23 final size:21
Alignment explanation
Indices: 14509582--14509626 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
14509572 GGCGCGACCC
14509582 ATTTTTTTAATAATATAATTT
1 ATTTTTTTAATAATATAATTT
*
14509603 ATTTTTTTAA-AATATTA-TT
1 ATTTTTTTAATAATATAATTT
14509622 ATTTT
1 ATTTT
14509627 ATTATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.30
20 6 0.26
21 10 0.43
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTTTTTAATAATATAATTT
Found at i:14509758 original size:27 final size:27
Alignment explanation
Indices: 14509694--14509758 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
14509684 GCCAGACCCG
* *
14509694 GAGGCGCGACCAGTCGCTCCTGTTGCA
1 GAGGCGCGACTAGTCGCTCCTGCTGCA
*
14509721 GAGGCGTGACTAGTCGCTCCTGCTGCA
1 GAGGCGCGACTAGTCGCTCCTGCTGCA
14509748 GAGGCGCGACT
1 GAGGCGCGACT
14509759 CCCCTGCAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.15, C:0.31, G:0.35, T:0.18
Consensus pattern (27 bp):
GAGGCGCGACTAGTCGCTCCTGCTGCA
Found at i:14512095 original size:79 final size:81
Alignment explanation
Indices: 14511959--14512141 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
14511949 TCGAATGATG
* *
14511959 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
14512023 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
14512038 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
14512100 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
14512118 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
14512142 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:14512157 original size:40 final size:41
Alignment explanation
Indices: 14511959--14512143 Score: 231
Period size: 40 Copynumber: 4.6 Consensus size: 41
14511949 TCGAATGATG
* * *
14511959 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
14511999 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
14512039 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
14512078 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
14512119 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
14512144 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 35 0.28
40 82 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:14517220 original size:12 final size:12
Alignment explanation
Indices: 14517179--14517245 Score: 73
Period size: 12 Copynumber: 5.6 Consensus size: 12
14517169 CCTGAGTGTA
14517179 GCTCCGGCTCTG
1 GCTCCGGCTCTG
*
14517191 GC-CGCCGCTCTG
1 GCTC-CGGCTCTG
* *
14517203 GGTCCGGCACTG
1 GCTCCGGCTCTG
*
14517215 CCTCCGGCTCTG
1 GCTCCGGCTCTG
*
14517227 GCTCTGGCTCTG
1 GCTCCGGCTCTG
14517239 GCTCCGG
1 GCTCCGG
14517246 AGCTGGTGCA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
11 1 0.02
12 41 0.95
13 1 0.02
ACGTcount: A:0.01, C:0.42, G:0.34, T:0.22
Consensus pattern (12 bp):
GCTCCGGCTCTG
Found at i:14519935 original size:3 final size:3
Alignment explanation
Indices: 14519929--14520003 Score: 89
Period size: 3 Copynumber: 24.7 Consensus size: 3
14519919 ACTAACATTT
* * * *
14519929 TTC TTC TTTC TCC TCC TTC TCC TTC TTC TTC TTC TTC TTT TTC TTC
1 TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
14519975 TTC TTC TTC TTC TTC TTC TT- TTC TCTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC T-TC TT
14520004 TGCTGCTGCA
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.03
3 55 0.87
4 6 0.10
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:14534078 original size:43 final size:43
Alignment explanation
Indices: 14534030--14534181 Score: 223
Period size: 43 Copynumber: 3.5 Consensus size: 43
14534020 GCTAGTATTA
* * * * *
14534030 TATTCGGGCCTTCGTGGCTAGTATGCTTTGTGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
14534073 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
14534116 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
14534159 TATTCGGGCCTTTGAGCCTAGCA
1 TATTCGGGCCTTCGTGCCTAGCA
14534182 TGCTATAATG
Statistics
Matches: 98, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 98 1.00
ACGTcount: A:0.12, C:0.23, G:0.32, T:0.33
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:14538434 original size:23 final size:23
Alignment explanation
Indices: 14538390--14538434 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
14538380 ATTCATATGG
* **
14538390 CCAAATTCATTAACAAGTTATAA
1 CCAAAATCATTAACAACCTATAA
*
14538413 CCAAAATCATTATCAACCTATA
1 CCAAAATCATTAACAACCTATA
14538435 TTCAAAATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.29
Consensus pattern (23 bp):
CCAAAATCATTAACAACCTATAA
Found at i:14539852 original size:20 final size:20
Alignment explanation
Indices: 14539827--14539871 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
14539817 AAGGACTAAA
* *
14539827 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
14539847 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
14539867 ATGAA
1 ATGAA
14539872 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:14542056 original size:42 final size:43
Alignment explanation
Indices: 14541955--14542068 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
14541945 AGCTCGTACA
* * *
14541955 ATGCCAAC-ATCCCAGAC-GTGGTCTTACATGTAATCAAATATTG
1 ATGCC-ACTATCCCAGACAG-GGTCTTACACGAAATCAAATATCG
*
14541998 ATGCCACTATCCCAGACAGGGTCTTACACGAAATCATATA-CG
1 ATGCCACTATCCCAGACAGGGTCTTACACGAAATCAAATATCG
* *
14542040 ATGCCGA-TGTCCCAGACATGGTCTTACAC
1 ATGCC-ACTATCCCAGACAGGGTCTTACAC
14542069 ATAAATCTCA
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
42 28 0.45
43 33 0.53
44 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCACTATCCCAGACAGGGTCTTACACGAAATCAAATATCG
Found at i:14550585 original size:26 final size:26
Alignment explanation
Indices: 14550549--14550658 Score: 186
Period size: 26 Copynumber: 4.2 Consensus size: 26
14550539 TGATACAAAT
14550549 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
14550575 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
14550601 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
14550627 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
14550653 TGATAA
1 TGATAA
14550659 GAATTTCATG
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 77 0.97
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:14552322 original size:27 final size:27
Alignment explanation
Indices: 14552284--14552419 Score: 168
Period size: 27 Copynumber: 5.0 Consensus size: 27
14552274 AAGCGTTCTA
*
14552284 GTGGCTATGCCACAAATATCTGATCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
14552311 GTGGCTCTGCCACAAATATCTGATCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
*
14552338 GTGGCTCTGCCACATATATCT-ATTCTG
1 GTGGCTCTGCCACAAATATCTGA-TCTG
* *
14552365 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCACAAATATCTG-ATCTG
* * * *
14552393 GTGACTCTGTCAC-ATTATCTGTTCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
14552419 G
1 G
14552420 CAGCCATGCT
Statistics
Matches: 98, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
26 6 0.06
27 76 0.78
28 15 0.15
29 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
GTGGCTCTGCCACAAATATCTGATCTG
Found at i:14554472 original size:14 final size:13
Alignment explanation
Indices: 14554435--14554476 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
14554425 CCCATGATTG
14554435 ATATATATATA-C
1 ATATATATATAGC
14554447 ATATATTCATATAGC
1 ATATA-T-ATATAGC
14554462 ATAATATATATAGC
1 AT-ATATATATAGC
14554476 A
1 A
14554477 AAAACACCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 5 0.19
13 1 0.04
14 13 0.50
15 4 0.15
16 3 0.12
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.38
Consensus pattern (13 bp):
ATATATATATAGC
Found at i:14554507 original size:23 final size:23
Alignment explanation
Indices: 14554481--14554554 Score: 58
Period size: 23 Copynumber: 3.0 Consensus size: 23
14554471 ATAGCAAAAA
14554481 CACCGACTTAACCTTCATGCAAT
1 CACCGACTTAACCTTCATGCAAT
** *
14554504 CACCGTGTTGAAACATAGATCATGCAAT
1 CACCGACTT--AACCT---TCATGCAAT
* *
14554532 GACCGACTTGACCTTCATGCAAT
1 CACCGACTTAACCTTCATGCAAT
14554555 ATTTATTTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
23 16 0.42
25 4 0.11
26 3 0.08
28 15 0.39
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (23 bp):
CACCGACTTAACCTTCATGCAAT
Found at i:14555839 original size:24 final size:24
Alignment explanation
Indices: 14555782--14555841 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
14555772 ATGAAAATAA
**
14555782 AAAAATACAAAAAATTTTAAAAAAT
1 AAAAATA-AAAAAATTACAAAAAAT
** *
14555807 AAATTTAAAAAAATTACAGAAAAT
1 AAAAATAAAAAAATTACAAAAAAT
14555831 AAAAATAAAAA
1 AAAAATAAAAA
14555842 CAAAAAAGAA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.73, C:0.03, G:0.02, T:0.22
Consensus pattern (24 bp):
AAAAATAAAAAAATTACAAAAAAT
Found at i:14557207 original size:86 final size:89
Alignment explanation
Indices: 14557103--14557277 Score: 275
Period size: 86 Copynumber: 2.0 Consensus size: 89
14557093 TTATTATGTC
* *
14557103 ATGTTTAATAGTATAAATTGTAATTACACAATTATATAATTTATAT-T-TTTTT-AAAATATTAA
1 ATGTTTAATAGTACAAATTGTAATTACACAATTACATAATTTATATATATTTTTAAAAATATTAA
*
14557165 TTATTATAAAAATTATTAGTATGA
66 TTACTATAAAAATTATTAGTATGA
* * *
14557189 ATGTTTAGTAGTACAAATTGTAATTGCACAGTTACATAATTTATATATATTTTTAAAAATATTAA
1 ATGTTTAATAGTACAAATTGTAATTACACAATTACATAATTTATATATATTTTTAAAAATATTAA
14557254 TTACTATAAAAATTATTAGTATGA
66 TTACTATAAAAATTATTAGTATGA
14557278 TAAATATAAT
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
86 41 0.51
87 1 0.01
88 5 0.06
89 33 0.41
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.45
Consensus pattern (89 bp):
ATGTTTAATAGTACAAATTGTAATTACACAATTACATAATTTATATATATTTTTAAAAATATTAA
TTACTATAAAAATTATTAGTATGA
Found at i:14566276 original size:38 final size:37
Alignment explanation
Indices: 14566214--14566429 Score: 200
Period size: 38 Copynumber: 5.6 Consensus size: 37
14566204 ATTTTATGTG
*
14566214 TATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGTATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TATGCTGGTATTA
* * *
14566254 TATCCAGGTTAAATCCCACAGGCTT-TGAGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTAT--GCTGGTATTA
* * *
14566292 TATCCGGGTTAAATCCCGCAAGCTTTGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGC-TTATGCTGGTATTA
* * *
14566330 TATCCGAGTTAAATCCCGCAGGCTTCGTGTTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTT-ATGCTGGTATTA
** *
14566368 TATCCGGGTTAAATCTTGCAAGCTTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTA-TGCTGGTATTA
* *
14566406 TATTCGAGCTTAAAGTCCCGCAGG
1 TATCCG-GGTTAAA-TCCCGCAGG
14566430 TTTTGTGCTG
Statistics
Matches: 146, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
36 1 0.01
37 3 0.02
38 115 0.79
39 13 0.09
40 14 0.10
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (37 bp):
TATCCGGGTTAAATCCCGCAGGCTTATGCTGGTATTA
Found at i:14566323 original size:76 final size:76
Alignment explanation
Indices: 14566214--14566440 Score: 258
Period size: 76 Copynumber: 2.9 Consensus size: 76
14566204 ATTTTATGTG
* * * * *
14566214 TATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGTATTATATCCAGGTTAAATCCCACAGGCTT
1 TATCCGGG-TTAAA-TCCCGCAAGCTTTGTGCTGGTATTATATCCAGGTTAAATCCCGCAGGCTT
*
14566279 TGAGCTGGTAATA
64 TGTGCTGGTAATA
* *
14566292 TATCCGGGTTAAATCCCGCAAGCTTTGTGCTGGTAATATATCC-GAGTTAAATCCCGCAGGCTTC
1 TATCCGGGTTAAATCCCGCAAGCTTTGTGCTGGTATTATATCCAG-GTTAAATCCCGCAGGCTTT
* *
14566356 GTGTTGGTATTA
65 GTGCTGGTAATA
** * * * *
14566368 TATCCGGGTTAAATCTTGCAAGCTTAGTGCTGGTATTATATTCGAGCTTAAAGTCCCGCAGGTTT
1 TATCCGGGTTAAATCCCGCAAGCTTTGTGCTGGTATTATA-TCCAGGTTAAA-TCCCGCAGGCTT
14566433 TGTGCTGG
64 TGTGCTGG
14566441 CGACCGGATT
Statistics
Matches: 126, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
75 1 0.01
76 87 0.69
77 12 0.10
78 26 0.21
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (76 bp):
TATCCGGGTTAAATCCCGCAAGCTTTGTGCTGGTATTATATCCAGGTTAAATCCCGCAGGCTTTG
TGCTGGTAATA
Found at i:14572913 original size:38 final size:38
Alignment explanation
Indices: 14572862--14573019 Score: 163
Period size: 38 Copynumber: 4.1 Consensus size: 38
14572852 ATAAATTAGA
14572862 TGGTAATATATCCGGGTTAAATCCCGCAAGCTTTGTGC
1 TGGTAATATATCCGGGTTAAATCCCGCAAGCTTTGTGC
* * *
14572900 TGGTAATATATCCGAGTTAAATCCCGCAAGCTTCGTGT
1 TGGTAATATATCCGGGTTAAATCCCGCAAGCTTTGTGC
* * ** * *
14572938 TGGTATTATATCCAGGTTAAATCTTGCAGGCTTAGTGC
1 TGGTAATATATCCGGGTTAAATCCCGCAAGCTTTGTGC
* * * * * *
14572976 TGGTATTATATTCGAGCTTAAAGTCCCACAGGTTTTGTGC
1 TGGTAATATATCCG-GGTTAAA-TCCCGCAAGCTTTGTGC
14573016 TGGT
1 TGGT
14573020 GACTGGATTC
Statistics
Matches: 99, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
38 77 0.78
39 6 0.06
40 16 0.16
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (38 bp):
TGGTAATATATCCGGGTTAAATCCCGCAAGCTTTGTGC
Found at i:14575732 original size:41 final size:42
Alignment explanation
Indices: 14575622--14575767 Score: 132
Period size: 43 Copynumber: 3.5 Consensus size: 42
14575612 TATCGAGATG
* * *
14575622 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGAATTG
1 TGATTACATATAAGACCATGTCTGGGACATTGGCATCG-ATTA
* * *
14575665 TTATTACATGTAAGACCATGTTTGGGACATTGGCATCG-TTA
1 TGATTACATATAAGACCATGTCTGGGACATTGGCATCGATTA
* * * * ** *
14575706 TGATTTCGTATAAGACCCTGTCTGGGATAGCGGCATCGATATG
1 TGATTACATATAAGACCATGTCTGGGACATTGGCATCGAT-TA
* *
14575749 TGATAACATGTAAGACCAT
1 TGATTACATATAAGACCAT
14575768 ATCCGGGATA
Statistics
Matches: 82, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
41 31 0.38
42 1 0.01
43 50 0.61
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (42 bp):
TGATTACATATAAGACCATGTCTGGGACATTGGCATCGATTA
Found at i:14580812 original size:43 final size:43
Alignment explanation
Indices: 14580667--14580812 Score: 138
Period size: 44 Copynumber: 3.4 Consensus size: 43
14580657 TGTGTTTTCG
* * * *
14580667 TGTAAGACCATGTCTGGGACGTTGGTATCGAT-TTATGAATTGCA
1 TGTAAGACCACGTCTGGGACGCTGGCATCGATATT-TG-ATTACA
* * * *
14580711 TGTAAGACAACGTCTGGGATGCTGGCATCG-TATTTGATTTCG
1 TGTAAGACCACGTCTGGGACGCTGGCATCGATATTTGATTACA
* *
14580753 TATAAGACC-CTATCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GCTGGCATCGATATTTGATTACA
14580796 TGTAAGACCACGTCTGG
1 TGTAAGACCACGTCTGG
14580813 AACGTTGACA
Statistics
Matches: 82, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
41 1 0.01
42 26 0.32
43 27 0.33
44 28 0.34
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGCTGGCATCGATATTTGATTACA
Found at i:14581573 original size:22 final size:20
Alignment explanation
Indices: 14581543--14581595 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 20
14581533 TATTGTAACA
*
14581543 TATGCTTTGGTATGATGTTGG
1 TATGATTTGGTATGAT-TTGG
*
14581564 TTTAGATTTGGTATGATTTGG
1 TAT-GATTTGGTATGATTTGG
14581585 TATGATTTGGT
1 TATGATTTGGT
14581596 TGGTGAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.29
21 8 0.29
22 12 0.43
ACGTcount: A:0.17, C:0.02, G:0.30, T:0.51
Consensus pattern (20 bp):
TATGATTTGGTATGATTTGG
Found at i:14581583 original size:10 final size:10
Alignment explanation
Indices: 14581543--14581595 Score: 70
Period size: 10 Copynumber: 5.1 Consensus size: 10
14581533 TATTGTAACA
*
14581543 TATGCTTTGG
1 TATGATTTGG
14581553 TATGATGTTGG
1 TATGAT-TTGG
*
14581564 TTTAGATTTGG
1 TAT-GATTTGG
14581575 TATGATTTGG
1 TATGATTTGG
14581585 TATGATTTGG
1 TATGATTTGG
14581595 T
1 T
14581596 TGGTGAATTG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
10 23 0.61
11 12 0.32
12 3 0.08
ACGTcount: A:0.17, C:0.02, G:0.30, T:0.51
Consensus pattern (10 bp):
TATGATTTGG
Found at i:14584607 original size:43 final size:42
Alignment explanation
Indices: 14584472--14584633 Score: 139
Period size: 43 Copynumber: 3.8 Consensus size: 42
14584462 TGTATTTTCG
** * *
14584472 TGTAAGACCATGAATGGGACGTTGGCATCG-ATTTATGAATTGCG
1 TGTAAGACCATGTCTGGGACGTTGGCATCGTA-TT-TG-ATTACA
* * * * ***
14584516 TGTAAGACAACGTTTGGGATGTTGGCATCGTATTTGATTTTG
1 TGTAAGACCATGTCTGGGACGTTGGCATCGTATTTGATTACA
* *
14584558 TGTAAGACCCTTTCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGAC-GTTGGCATCG-TATTTGATTACA
*
14584601 TGTAAGACCATGTCTGGGACGTTGGCATTGTAT
1 TGTAAGACCATGTCTGGGACGTTGGCATCGTAT
14584634 GAGCTTTTCG
Statistics
Matches: 95, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
42 30 0.32
43 37 0.39
44 27 0.28
45 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGTATTTGATTACA
Found at i:14586734 original size:42 final size:41
Alignment explanation
Indices: 14586660--14586817 Score: 203
Period size: 41 Copynumber: 3.8 Consensus size: 41
14586650 ATAATAATGA
* * *
14586660 TGAATT-GCACATACATGCCCCTGTTTGTACTTCGATACCCT
1 TGAATTAG-ACATACGTGCCCTTATTTGTACTTCGATACCCT
* * *
14586701 TGACTTAGACATATGTGCCCTTTATTTGTACTTCGGTACCCT
1 TGAATTAGACATACGTGCCC-TTATTTGTACTTCGATACCCT
*
14586743 TGAATTAGACATACGTGCCCTTATTTGTAGTTC-AGTACCCT
1 TGAATTAGACATACGTGCCCTTATTTGTACTTCGA-TACCCT
*
14586784 TGAATTAGACATACATGCCCTTATTTGTACTTCG
1 TGAATTAGACATACGTGCCCTTATTTGTACTTCG
14586818 GTAGCCCTGG
Statistics
Matches: 101, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
41 64 0.63
42 37 0.37
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (41 bp):
TGAATTAGACATACGTGCCCTTATTTGTACTTCGATACCCT
Found at i:14586803 original size:83 final size:83
Alignment explanation
Indices: 14586660--14586825 Score: 221
Period size: 83 Copynumber: 2.0 Consensus size: 83
14586650 ATAATAATGA
* * **
14586660 TGAATTGCACATACATGCCCCTGTTTGTACTTCGATACCCTTGACTTAGACATATGTGCCCTTTA
1 TGAATTGCACATACATGCCCCTATTTGTACTTCGATACCCTTGAATTAGACATACATGCCC-TTA
14586725 TTTGTACTTCGGTA-CCCT
65 TTTGTACTTCGGTAGCCCT
* * *
14586743 TGAATTAG-ACATACGTGCCCTTATTTGTAGTTC-AGTACCCTTGAATTAGACATACATGCCCTT
1 TGAATT-GCACATACATGCCCCTATTTGTACTTCGA-TACCCTTGAATTAGACATACATGCCCTT
14586806 ATTTGTACTTCGGTAGCCCT
64 ATTTGTACTTCGGTAGCCCT
14586826 GGATGTACTT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
82 18 0.25
83 54 0.74
84 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (83 bp):
TGAATTGCACATACATGCCCCTATTTGTACTTCGATACCCTTGAATTAGACATACATGCCCTTAT
TTGTACTTCGGTAGCCCT
Found at i:14590714 original size:46 final size:46
Alignment explanation
Indices: 14590650--14590822 Score: 265
Period size: 46 Copynumber: 3.8 Consensus size: 46
14590640 ATATGTGGCG
*
14590650 AAGCCGAATGACTAATGCGAAACATGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACATGTATGAGATGGATATGAGGTA
* * *
14590696 AAGTCGAAAGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACATGTATGAGATGGATATGAGGTA
* *
14590742 AAGCCGAATGACTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACATGTATGAGATGGATATGAGGTA
* * *
14590788 AAGCCGAATGGCTAATGTGAGATATGTATGAGATG
1 AAGCCGAATGGCTAATGCGAAACATGTATGAGATG
14590823 TGTATATATA
Statistics
Matches: 115, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 115 1.00
ACGTcount: A:0.37, C:0.10, G:0.31, T:0.23
Consensus pattern (46 bp):
AAGCCGAATGGCTAATGCGAAACATGTATGAGATGGATATGAGGTA
Found at i:14593671 original size:14 final size:14
Alignment explanation
Indices: 14593652--14593680 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14593642 AAACATAGCT
14593652 AAGCAACTATTCCA
1 AAGCAACTATTCCA
14593666 AAGCAACTATTCCA
1 AAGCAACTATTCCA
14593680 A
1 A
14593681 CTCAAATCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.28, G:0.07, T:0.21
Consensus pattern (14 bp):
AAGCAACTATTCCA
Found at i:14607313 original size:41 final size:39
Alignment explanation
Indices: 14607254--14607368 Score: 133
Period size: 40 Copynumber: 2.9 Consensus size: 39
14607244 AGAATAATGA
*
14607254 TGAATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATTGCACATATGTGCCCCTGTTTGTACTTCGG--CACC
* * * *
14607295 TGAATTGCACATACGTG-CCCTATTTGTAGTTCGGCATC
1 TGAATTGCACATATGTGCCCCTGTTTGTACTTCGGCACC
*
14607333 TGATAATTGCACATATGTGCCCCTGTCTGTACTTCG
1 TG--AATTGCACATATGTGCCCCTGTTTGTACTTCG
14607369 ATACACTTGG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
38 4 0.06
40 29 0.47
41 29 0.47
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (39 bp):
TGAATTGCACATATGTGCCCCTGTTTGTACTTCGGCACC
Found at i:14608983 original size:21 final size:22
Alignment explanation
Indices: 14608943--14608983 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
14608933 TTCCAAATAA
* *
14608943 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
14608965 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
14608984 CGGGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:14609698 original size:21 final size:22
Alignment explanation
Indices: 14609658--14609698 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
14609648 TTCCAAATAA
* *
14609658 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
14609680 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
14609699 CGGGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:14613488 original size:42 final size:41
Alignment explanation
Indices: 14613379--14613540 Score: 157
Period size: 43 Copynumber: 3.8 Consensus size: 41
14613369 AGCTCGTACA
* * *
14613379 ATGCCAATGTCCCAGACGTGGTCTTACATGTAACCAAATATCG
1 ATGCC-ATGTCCCAGACATGGTCTTACATGAAATCAAATA-CG
*
14613422 ATGCCACTGTCCCAGACAAGGTCTTACATGAAATCAAATACG
1 ATGCCA-TGTCCCAGACATGGTCTTACATGAAATCAAATACG
* *
14613464 ATACCGATGTCCCAGGCATGGTCTTACACAT-AAATCATAAGT-CG
1 ATGCC-ATGTCCCAGACATGGTCTT--ACATGAAATCA-AA-TACG
* *
14613508 ATGCCAACGTCCCAGACGTGGTCTTACATGAAA
1 ATGCC-ATGTCCCAGACATGGTCTTACATGAAA
14613541 ACACATATCG
Statistics
Matches: 100, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
42 27 0.27
43 44 0.44
44 28 0.28
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (41 bp):
ATGCCATGTCCCAGACATGGTCTTACATGAAATCAAATACG
Found at i:14615309 original size:6 final size:5
Alignment explanation
Indices: 14615295--14615380 Score: 50
Period size: 6 Copynumber: 15.6 Consensus size: 5
14615285 TAATTAGGTA
*
14615295 ATTTT ATTGTT ATTGTT ATTCTT AGTTTT ATTTT ATTTT A-TAT ATTTTT
1 ATTTT ATT-TT ATT-TT ATT-TT A-TTTT ATTTT ATTTT ATTTT A-TTTT
*
14615344 AGTATT ATTATT ATTGTT ATTTT -TTATT ATTTCT ATT
1 A-TTTT ATT-TT ATT-TT ATTTT ATT-TT ATTT-T ATT
14615381 ATCTTTATTA
Statistics
Matches: 66, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
4 5 0.08
5 19 0.29
6 40 0.61
7 2 0.03
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.70
Consensus pattern (5 bp):
ATTTT
Found at i:14615342 original size:9 final size:8
Alignment explanation
Indices: 14615327--14615390 Score: 58
Period size: 9 Copynumber: 7.4 Consensus size: 8
14615317 TAGTTTTATT
14615327 TTATTTTA
1 TTATTTTA
14615335 TATATTTTTA
1 T-TA-TTTTA
*
14615345 GTATTATTA
1 TTATT-TTA
14615354 TTATTGTTA
1 TTATT-TTA
14615363 TT-TTTTA
1 TTATTTTA
14615370 TTATTTCTA
1 TTATTT-TA
14615379 TTATCTTTA
1 TTAT-TTTA
14615388 TTA
1 TTA
14615391 CCATTTTTCT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
7 5 0.11
8 8 0.17
9 27 0.57
10 7 0.15
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (8 bp):
TTATTTTA
Found at i:14615344 original size:44 final size:43
Alignment explanation
Indices: 14615296--14615390 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 43
14615286 AATTAGGTAA
* *
14615296 TTTTATTGTTATTGTTATTCTTAGTTTTATT-TTATTT-TATATAT
1 TTTTATTATTATTATTATTCTTA-TTTT-TTATTATTTCTAT-TAT
* *
14615340 TTTTAGTATTATTATTATTGTTATTTTTTATTATTTCTATTAT
1 TTTTATTATTATTATTATTCTTATTTTTTATTATTTCTATTAT
*
14615383 CTTTATTA
1 TTTTATTA
14615391 CCATTTTTCT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
42 2 0.05
43 19 0.44
44 22 0.51
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.69
Consensus pattern (43 bp):
TTTTATTATTATTATTATTCTTATTTTTTATTATTTCTATTAT
Found at i:14615345 original size:26 final size:28
Alignment explanation
Indices: 14615311--14615363 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
14615301 TTGTTATTGT
*
14615311 TATTCTTAGTTTTATT-TTATT-TTATA
1 TATTCTTAGTATTATTATTATTGTTATA
*
14615337 TATTTTTAGTATTATTATTATTGTTAT
1 TATTCTTAGTATTATTATTATTGTTAT
14615364 TTTTTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 14 0.61
27 5 0.22
28 4 0.17
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.68
Consensus pattern (28 bp):
TATTCTTAGTATTATTATTATTGTTATA
Found at i:14617216 original size:14 final size:12
Alignment explanation
Indices: 14617186--14617227 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
14617176 TGTATCTACT
14617186 CGTGTGTCTGCC
1 CGTGTGTCTGCC
14617198 CGTGTGTCTGCC
1 CGTGTGTCTGCC
*
14617210 CATGTGTCTGCC
1 CGTGTGTCTGCC
14617222 CGTGTG
1 CGTGTG
14617228 GACAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.02, C:0.31, G:0.33, T:0.33
Consensus pattern (12 bp):
CGTGTGTCTGCC
Found at i:14619590 original size:16 final size:16
Alignment explanation
Indices: 14619577--14619608 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
14619567 AGAATGGTCA
14619577 TGGCATAAAATGGTAT
1 TGGCATAAAATGGTAT
14619593 TGGCATAAAATGGTAT
1 TGGCATAAAATGGTAT
14619609 GTGGTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (16 bp):
TGGCATAAAATGGTAT
Found at i:14623325 original size:5 final size:6
Alignment explanation
Indices: 14623310--14623334 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14623300 TGAACTATGT
14623310 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
14623335 GGTTGTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:14637321 original size:27 final size:26
Alignment explanation
Indices: 14637290--14637475 Score: 86
Period size: 27 Copynumber: 6.9 Consensus size: 26
14637280 GAATACTTTA
*
14637290 GTTTACCAAATTACTGAAATACCCTTG
1 GTTTACAAAATTACT-AAATACCCTTG
*
14637317 GTTTACAAAATTACTAAATACCC-TC
1 GTTTACAAAATTACTAAATACCCTTG
** * * *
14637342 AATTAGAAAAATTACGATAATACCCCTG
1 GTTTA-CAAAATTACTA-AATACCCTTG
** * * *
14637370 GTTTGTAAAATTACCAAAATACCCCTA
1 GTTTACAAAATTA-CTAAATACCCTTG
** * *
14637397 GTTTGTAAAATTACCAAAATACCCCTG
1 GTTTACAAAATTA-CTAAATACCCTTG
** * *
14637424 GTTTGTAAAATTACCAAAATACCCCTG
1 GTTTACAAAATTA-CTAAATACCCTTG
* ***
14637451 ATTTGTGAAATTACTAAAATACCCT
1 GTTTACAAAATTACT-AAATACCCT
14637476 CAACCTATAA
Statistics
Matches: 136, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
25 4 0.03
26 18 0.13
27 109 0.80
28 5 0.04
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (26 bp):
GTTTACAAAATTACTAAATACCCTTG
Found at i:14637418 original size:54 final size:54
Alignment explanation
Indices: 14637297--14637474 Score: 209
Period size: 54 Copynumber: 3.3 Consensus size: 54
14637287 TTAGTTTACC
* * ** * * * *
14637297 AAATTACTGAAATACCCTTGGTTTACAAAATTA-CTAAATA-CCCTCAATTAGAA
1 AAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTA
* *
14637350 AAATTACGATAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
* *
14637404 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCT-GATTTGTG
1 AAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAG-TTTGTA
14637458 AAATTACTAAAATACCC
1 AAATTACTAAAATACCC
14637475 TCAACCTATA
Statistics
Matches: 108, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
53 28 0.26
54 76 0.70
55 4 0.04
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
AAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
Found at i:14637487 original size:54 final size:54
Alignment explanation
Indices: 14637375--14637562 Score: 184
Period size: 54 Copynumber: 3.5 Consensus size: 54
14637365 CCCTGGTTTG
* ** *
14637375 TAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC-CTGGTTTG
1 TAAAATTACCAAAATACCCCTGA-TTTGTAAAATTACTAAAATACCCTC-GACTTA
* * *
14637429 TAAAATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATACCCTCAACCTA
1 TAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTCGACTTA
* * ** * *
14637483 TAAAATTACTAAAATA-CCTTCGACCTATAAAATTACTGAAATACCCTCGACTTA
1 TAAAATTACCAAAATACCCCT-GATTTGTAAAATTACTAAAATACCCTCGACTTA
* * *
14637537 CAAAATTACCAAAGTACCCCTAATTT
1 TAAAATTACCAAAATACCCCTGATTT
14637563 ACATAATTAC
Statistics
Matches: 107, Mismatches: 23, Indels: 8
0.78 0.17 0.06
Matches are distributed among these distances:
53 3 0.03
54 99 0.93
55 5 0.05
ACGTcount: A:0.41, C:0.23, G:0.06, T:0.29
Consensus pattern (54 bp):
TAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTCGACTTA
Found at i:14637487 original size:81 final size:81
Alignment explanation
Indices: 14637349--14637500 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 81
14637339 CTCAATTAGA
* * * *** *
14637349 AAAATTACGATAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAACCTATAAAATTACCAA
14637414 AATACCCCTGGTTTGT
66 AATACCCCTGGTTTGT
* * *
14637430 AAAATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATA-CCCTCAACCTATAAAATTACTA
1 AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCT-AACCTATAAAATTACCA
14637494 AAATACC
65 AAATACC
14637501 TTCGACCTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
80 4 0.07
81 56 0.93
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAACCTATAAAATTACCAA
AATACCCCTGGTTTGT
Found at i:14637488 original size:27 final size:27
Alignment explanation
Indices: 14637458--14637555 Score: 133
Period size: 27 Copynumber: 3.6 Consensus size: 27
14637448 CTGATTTGTG
*
14637458 AAATTACTAAAATACCCTCAACCTATA
1 AAATTACTAAAATACCCTCGACCTATA
*
14637485 AAATTACTAAAATACCTTCGACCTATA
1 AAATTACTAAAATACCCTCGACCTATA
* * *
14637512 AAATTACTGAAATACCCTCGACTTACA
1 AAATTACTAAAATACCCTCGACCTATA
* *
14637539 AAATTACCAAAGTACCC
1 AAATTACTAAAATACCC
14637556 CTAATTTACA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.45, C:0.26, G:0.04, T:0.26
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGACCTATA
Found at i:14637608 original size:27 final size:27
Alignment explanation
Indices: 14637458--14637608 Score: 108
Period size: 27 Copynumber: 5.6 Consensus size: 27
14637448 CTGATTTGTG
* * * *
14637458 AAATTACTAAAATACCCTCAACCTATA
1 AAATTACTGAAATACCCTCGACTTACA
* * * *
14637485 AAATTACTAAAATACCTTCGACCTATA
1 AAATTACTGAAATACCCTCGACTTACA
14637512 AAATTACTGAAATACCCTCGACTTACA
1 AAATTACTGAAATACCCTCGACTTACA
* * *
14637539 AAATTAC-CAAAGTACCC-CTAATTTACA
1 AAATTACTGAAA-TACCCTC-GACTTACA
* * *** *
14637566 TAATTACCGTTTTACCCTCGATTTACA
1 AAATTACTGAAATACCCTCGACTTACA
*
14637593 AAATTATTGAAATACC
1 AAATTACTGAAATACC
14637609 TCTGTAGGGT
Statistics
Matches: 99, Mismatches: 21, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
26 4 0.04
27 94 0.95
28 1 0.01
ACGTcount: A:0.42, C:0.24, G:0.05, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACTTACA
Found at i:14637624 original size:27 final size:27
Alignment explanation
Indices: 14637601--14637735 Score: 182
Period size: 27 Copynumber: 5.0 Consensus size: 27
14637591 CAAAATTATT
*
14637601 GAAATA-CCTCTGTAGGGTAGAATTACT
1 GAAATACCCT-TGTAGGGTAGAATTACC
* *
14637628 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
14637655 GAAATACCCTTGTAGGGTCGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
14637682 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
14637709 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
14637736 ATTTTACCCC
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 93 0.98
28 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACC
Found at i:14638530 original size:6 final size:6
Alignment explanation
Indices: 14638519--14638628 Score: 118
Period size: 6 Copynumber: 18.0 Consensus size: 6
14638509 CCATTCACAA
*
14638519 TCTGAT TCTGAT TCTG-T TACCTGAT ACTGAT TCTGAT TCTGAT TCTGAT
1 TCTGAT TCTGAT TCTGAT T--CTGAT TCTGAT TCTGAT TCTGAT TCTGAT
* * *
14638568 TCTGAT TCTGAT TCTG-T CACCTGAT TCTGAT TCTGAT TCTCAT TTTGAT
1 TCTGAT TCTGAT TCTGAT --TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT
14638617 TCT-AGT TCTGAT
1 TCTGA-T TCTGAT
14638629 AATGTTTCTT
Statistics
Matches: 88, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
5 4 0.05
6 75 0.85
7 7 0.08
8 2 0.02
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
TCTGAT
Found at i:14638576 original size:49 final size:49
Alignment explanation
Indices: 14638519--14638628 Score: 168
Period size: 49 Copynumber: 2.2 Consensus size: 49
14638509 CCATTCACAA
* *
14638519 TCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGATTCTGAT
1 TCTGATTCTGATTCTGTCACCTGATACTGATTCTGATTCTCATTCTGAT
* *
14638568 TCTGATTCTGATTCTGTCACCTGATTCTGATTCTGATTCTCATTTTGAT
1 TCTGATTCTGATTCTGTCACCTGATACTGATTCTGATTCTCATTCTGAT
14638617 TCT-AGTTCTGAT
1 TCTGA-TTCTGAT
14638629 AATGTTTCTT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
48 1 0.02
49 55 0.98
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.48
Consensus pattern (49 bp):
TCTGATTCTGATTCTGTCACCTGATACTGATTCTGATTCTCATTCTGAT
Found at i:14650757 original size:45 final size:45
Alignment explanation
Indices: 14650683--14650897 Score: 265
Period size: 45 Copynumber: 4.8 Consensus size: 45
14650673 CCTTTGATTC
* * *
14650683 GTGATGCCATAACGTCTTTCAG-CTTTGGTCTTACTCGTTAGAATA
1 GTGATGCCATAATGTCTTTCAGTC-ATGGTCTTACTCGATAGAATA
* * * *
14650728 GTGATGCCATAATGCCTTTTACTCATGGTCTTACTCGATAGAATT
1 GTGATGCCATAATGTCTTTCAGTCATGGTCTTACTCGATAGAATA
14650773 GTGATGCCATAATGTCTTTCAGTCATGGTCTTACTCGATAGAATCA
1 GTGATGCCATAATGTCTTTCAGTCATGGTCTTACTCGATAGAAT-A
* * * * *
14650819 -TGATGCCATAAAT-TCTATCAATCATGGTCTAACTCAATAGAATC
1 GTGATGCCAT-AATGTCTTTCAGTCATGGTCTTACTCGATAGAATA
*
14650863 GTGATGCCATAACGTCTTTCAGTCATGGTCTTACT
1 GTGATGCCATAATGTCTTTCAGTCATGGTCTTACT
14650898 TGTTTCTTGT
Statistics
Matches: 145, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
44 2 0.01
45 139 0.96
46 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (45 bp):
GTGATGCCATAATGTCTTTCAGTCATGGTCTTACTCGATAGAATA
Found at i:14650918 original size:90 final size:90
Alignment explanation
Indices: 14650681--14650897 Score: 296
Period size: 90 Copynumber: 2.4 Consensus size: 90
14650671 TTCCTTTGAT
* * *
14650681 TCGTGATGCCATAACGTCTTTCAG-CTTTGGTCTTACTCGTTAGAAT-AGTGATGCCAT-AATGC
1 TCGTGATGCCATAACGTCTTTCAGTC-ATGGTCTTACTCGATAGAATCA-TGATGCCATAAAT-T
* * * * *
14650743 CTTTTACTCATGGTCTTACTCGATAGAA
63 CTATCAATCATGGTCTAACTCAATAGAA
* *
14650771 TTGTGATGCCATAATGTCTTTCAGTCATGGTCTTACTCGATAGAATCATGATGCCATAAATTCTA
1 TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCATGATGCCATAAATTCTA
14650836 TCAATCATGGTCTAACTCAATAGAA
66 TCAATCATGGTCTAACTCAATAGAA
14650861 TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACT
1 TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACT
14650898 TGTTTCTTGT
Statistics
Matches: 112, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
90 107 0.96
91 5 0.04
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (90 bp):
TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCATGATGCCATAAATTCTA
TCAATCATGGTCTAACTCAATAGAA
Found at i:14652907 original size:48 final size:47
Alignment explanation
Indices: 14652789--14652911 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 47
14652779 TTGATAAGTT
* * * * *
14652789 CCTATACAATGGCCTGTAGCCAAATCAAGGTAACTTATCCCGGAGTA
1 CCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGAAATA
* * * **
14652836 CCTATACCATGGCTCGCAGCCAAATCAAGGTAACTCCTCTTGAAAATA
1 CCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCG-AAATA
*
14652884 CTTATACCATGGCCCGTAGCCAAATCAA
1 CCTATACCATGGCCCGTAGCCAAATCAA
14652912 TGTATAACCT
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
47 34 0.55
48 28 0.45
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (47 bp):
CCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGAAATA
Found at i:14653051 original size:21 final size:22
Alignment explanation
Indices: 14653025--14653074 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
14653015 TTTCCAATAC
14653025 CAAATCA-TAGTCGAATCATT-T
1 CAAATCACT-GTCGAATCATTGT
*
14653046 CAAATCACTGTTGAATCATTGT
1 CAAATCACTGTCGAATCATTGT
*
14653068 CGAATCA
1 CAAATCA
14653075 AGTTCATAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (22 bp):
CAAATCACTGTCGAATCATTGT
Found at i:14656288 original size:43 final size:42
Alignment explanation
Indices: 14656196--14656343 Score: 136
Period size: 43 Copynumber: 3.5 Consensus size: 42
14656186 TAGCCCAGAT
* ** ** ** *
14656196 ATGGTCTTACATGTTATCATATATCGATGCCTCTGTCCCCGAT
1 ATGGTCTTACATGTAATCATA-ATAAATGCCAATGTCCCAAAC
* * *
14656239 AGGGTCTTACATGAAATCGAATAAT-GATGCCAATGTCCCAAAC
1 ATGGTCTTACATGTAATC--ATAATAAATGCCAATGTCCCAAAC
* *
14656282 ATGGTCTTACATGTATTCATAATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCATAATA-AATGCCAATGTCCCAAAC
14656325 ATGGTCTTACATGTAATCA
1 ATGGTCTTACATGTAATCA
14656344 CATCTCGATA
Statistics
Matches: 87, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
41 5 0.06
43 77 0.89
44 2 0.02
45 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGGTCTTACATGTAATCATAATAAATGCCAATGTCCCAAAC
Found at i:14656650 original size:21 final size:22
Alignment explanation
Indices: 14656624--14656670 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
14656614 TATATACATT
*
14656624 CAAAATTAATCCATTTAAT-CA
1 CAAAATTAATCAATTTAATCCA
* *
14656645 CAAAATTATTCAATTTCATCCA
1 CAAAATTAATCAATTTAATCCA
14656667 CAAA
1 CAAA
14656671 CACATATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (22 bp):
CAAAATTAATCAATTTAATCCA
Found at i:14662705 original size:13 final size:14
Alignment explanation
Indices: 14662682--14662715 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
14662672 ATCTAATCAA
*
14662682 ATACTTATAAAATC
1 ATACTTCTAAAATC
14662696 A-ACTTCTAAAATC
1 ATACTTCTAAAATC
14662709 ATACTTC
1 ATACTTC
14662716 ATCAAAGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (14 bp):
ATACTTCTAAAATC
Found at i:14663441 original size:47 final size:47
Alignment explanation
Indices: 14663371--14663462 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 47
14663361 TTAATCGATA
*
14663371 AGTACCTATACCATGGCCTGTAGCCAAATC-AAGATAACTTATCTCGG
1 AGTACCTATACCATGGCCTGTAGCCAAATCAAAG-TAACTCATCTCGG
* *
14663418 AGTACCTATACCATTG-TTCGTAGCCAAATCAAAGTAACTCATCTC
1 AGTACCTATACCATGGCCT-GTAGCCAAATCAAAGTAACTCATCTC
14663463 CAAAATACTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
46 1 0.03
47 36 0.90
48 3 0.08
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (47 bp):
AGTACCTATACCATGGCCTGTAGCCAAATCAAAGTAACTCATCTCGG
Found at i:14664594 original size:15 final size:15
Alignment explanation
Indices: 14664574--14664604 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
14664564 TAGAATGCAA
14664574 CTTTTGCATTTTACG
1 CTTTTGCATTTTACG
14664589 CTTTTGCATTTTACG
1 CTTTTGCATTTTACG
14664604 C
1 C
14664605 GATTTAGTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.23, G:0.13, T:0.52
Consensus pattern (15 bp):
CTTTTGCATTTTACG
Found at i:14667013 original size:37 final size:37
Alignment explanation
Indices: 14666963--14667038 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
14666953 CTAGGTATTG
14666963 TTTCTCTTATTGGTTATTATTTAATTATTTTCCTAAT
1 TTTCTCTTATTGGTTATTATTTAATTATTTTCCTAAT
14667000 TTTCTCTTATTGGTTATTATTTAATTATTTTCCTAAT
1 TTTCTCTTATTGGTTATTATTTAATTATTTTCCTAAT
14667037 TT
1 TT
14667039 ATTCTCTGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.21, C:0.11, G:0.05, T:0.63
Consensus pattern (37 bp):
TTTCTCTTATTGGTTATTATTTAATTATTTTCCTAAT
Found at i:14670542 original size:13 final size:13
Alignment explanation
Indices: 14670526--14670553 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14670516 GGGAAAGTAA
14670526 AGCAAAATATGGG
1 AGCAAAATATGGG
14670539 AGCAAAATATGGG
1 AGCAAAATATGGG
14670552 AG
1 AG
14670554 AATCAAACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.32, T:0.14
Consensus pattern (13 bp):
AGCAAAATATGGG
Found at i:14672423 original size:17 final size:18
Alignment explanation
Indices: 14672391--14672424 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14672381 TTGTTCCAAA
*
14672391 ACATTATTCATTTTCAAC
1 ACATTATACATTTTCAAC
14672409 ACATTATAC-TTTTCAA
1 ACATTATACATTTTCAA
14672425 TTAATTACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (18 bp):
ACATTATACATTTTCAAC
Found at i:14674601 original size:46 final size:46
Alignment explanation
Indices: 14674438--14674655 Score: 179
Period size: 46 Copynumber: 4.7 Consensus size: 46
14674428 TGTAACCCCC
* * * * *
14674438 CCATAAGTGAACTCGGACTCAACTCAATAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGACGCTCGCAA
* * * * * **
14674484 CCATAAGTGAACTCAGACTCAACTTAACGAGTTCGGATGCCTAGTTA
1 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGACG-CTCGCAA
* * * * **
14674531 -CATTTCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAA
1 CCA--TAAGTGAACTCGGACTCAACTCAACAAGTTCGGACGCTCGCAA
* * *
14674577 CCATAAGTGAACTCGGACTCAACTCAACCAGTTCGGATGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGACGCTCGCAA
* * *
14674623 CCATAACTAAAATCGGACTCAACTCAACAAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGTT
14674656 TGGATGCCCA
Statistics
Matches: 132, Mismatches: 35, Indels: 10
0.75 0.20 0.06
Matches are distributed among these distances:
45 2 0.02
46 98 0.74
47 30 0.23
48 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGACGCTCGCAA
Found at i:14674610 original size:93 final size:93
Alignment explanation
Indices: 14674446--14674616 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
14674436 CCCCATAAGT
* * * * * *
14674446 GAACTCGGACTCAACTCAATAAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTTAA
1 GAACTCGGACTCAACTCAACAAGCTCAGACATTCGCAACCATAAGTGAACTCAGACTCAACTCAA
*
14674511 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CCAGTTCGGATGCCTAGTTACATTTCAC
* * *
14674539 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAACCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCAGACATTCGCAACCATAAGTGAACTCAGACTCAACTCAA
14674604 CCAGTTCGGATGC
66 CCAGTTCGGATGC
14674617 TCGCATCCAT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCAGACATTCGCAACCATAAGTGAACTCAGACTCAACTCAA
CCAGTTCGGATGCCTAGTTACATTTCAC
Found at i:14700567 original size:22 final size:22
Alignment explanation
Indices: 14700542--14700585 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14700532 AATTATTAAA
*
14700542 ATAATGAATTTTAATTAATTTT
1 ATAATAAATTTTAATTAATTTT
* *
14700564 ATAATAAATTTTGATTATTTTT
1 ATAATAAATTTTAATTAATTTT
14700586 TATTATTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
ATAATAAATTTTAATTAATTTT
Found at i:14706711 original size:33 final size:35
Alignment explanation
Indices: 14706646--14706712 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 35
14706636 CTCATCTCTT
* *
14706646 CATTTTTCTCTCATTTTTTTCTCTCCATTCCCTTC
1 CATTGTTCTCTCATTTTCTTCTCTCCATTCCCTTC
14706681 CATTGTTCT-TCATTTTCTTC-C-CCTATTCCCTT
1 CATTGTTCTCTCATTTTCTTCTCTCC-ATTCCCTT
14706713 GCCGATTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 2 0.07
33 9 0.31
34 10 0.34
35 8 0.28
ACGTcount: A:0.09, C:0.34, G:0.01, T:0.55
Consensus pattern (35 bp):
CATTGTTCTCTCATTTTCTTCTCTCCATTCCCTTC
Found at i:14713700 original size:24 final size:25
Alignment explanation
Indices: 14713673--14713747 Score: 120
Period size: 23 Copynumber: 3.1 Consensus size: 25
14713663 GCCTAGCCTC
*
14713673 TTTTAGTAACTGGGGCA-AAGCCCT
1 TTTTAATAACTGGGGCATAAGCCCT
14713697 TTTTAATAACTGGGGCATAAGCCC-
1 TTTTAATAACTGGGGCATAAGCCCT
14713721 -TTTAATAACTGGGGCATAAGCCCT
1 TTTTAATAACTGGGGCATAAGCCCT
14713745 TTT
1 TTT
14713748 GCACTTCCTC
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
23 23 0.49
24 16 0.34
25 8 0.17
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (25 bp):
TTTTAATAACTGGGGCATAAGCCCT
Found at i:14713819 original size:9 final size:9
Alignment explanation
Indices: 14713805--14713861 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
14713795 ATCTCGTGTG
14713805 CATATCATA
1 CATATCATA
*
14713814 CATATCATGTG
1 CATATCA--TA
14713825 CATATCATA
1 CATATCATA
* *
14713834 CATGTCATGTG
1 CATATCA--TA
14713845 CATATCATA
1 CATATCATA
14713854 CATATCAT
1 CATATCAT
14713862 GTTTATCAAA
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:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:14713824 original size:20 final size:20
Alignment explanation
Indices: 14713801--14713863 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
14713791 GAACATCTCG
14713801 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
14713821 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
14713841 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
14713861 TGT
1 TGT
14713864 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:14720773 original size:17 final size:17
Alignment explanation
Indices: 14720751--14720785 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
14720741 GGGGTGTTAC
14720751 ATCTTAGCAGTTTGCAA
1 ATCTTAGCAGTTTGCAA
*
14720768 ATCTTAGTAGTTTGCAA
1 ATCTTAGCAGTTTGCAA
14720785 A
1 A
14720786 CTTTTTACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (17 bp):
ATCTTAGCAGTTTGCAA
Found at i:14732724 original size:39 final size:40
Alignment explanation
Indices: 14732647--14732793 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
14732637 TAGCTCCTCG
* * *
14732647 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
14732687 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
14732726 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
14732766 GACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
14732794 ATTAATAACT
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 27 0.30
40 64 0.70
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:14732736 original size:79 final size:80
Alignment explanation
Indices: 14732653--14732820 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
14732643 CTCGTTCAAG
* * ** * *
14732653 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGGAAT-TAGTAACTCAGACAAAGGCCTTCGGGACTTAACCCGGA-A
*
14732716 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * *
14732732 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGGACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCAGACAAAGGCCTTCGGGACTTAACCCGGAATT
14732797 AATAACTCGCACAAA
66 AATAACTCGCACAAA
*
14732812 TACCTTCGG
1 TGCCTTCGG
14732821 ATCTTAGTCC
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
79 32 0.43
80 43 0.57
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCAGACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:14732742 original size:40 final size:39
Alignment explanation
Indices: 14732690--14732873 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 39
14732680 TAACTCATTC
* *
14732690 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAAAACTCGCACA
* * *
14732730 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGGACA
1 AATGCCTTCGGGACTTAACCCGGAATTA-AAACTCGCACA
*
14732770 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAA-AACTCGCACA
* ** * *
14732810 AATACCTTC-GGATCTTAGTCCGG-ATATAATCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAA-AAC-TCGCACA
*
14732851 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
14732874 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
39 8 0.07
40 101 0.84
41 11 0.09
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGAATTAAAACTCGCACA
Found at i:14732857 original size:80 final size:80
Alignment explanation
Indices: 14732693--14732873 Score: 201
Period size: 80 Copynumber: 2.3 Consensus size: 80
14732683 CTCATTCAAT
* * *
14732693 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGGAATTA
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGAATTA
* * *
14732758 GTATCTCGGACAAAG
66 ATATCTAGCACAAAG
**
14732773 GCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTC-GGATCTTAGTCCGG-AT
1 GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGGA-CTTAACCCGGAAT
14732835 ATAATCA-CTTAGCACAAA-
64 -TAAT-ATC-TAGCACAAAG
*
14732853 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
14732874 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
79 9 0.10
80 70 0.80
81 8 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGAATTA
ATATCTAGCACAAAG
Found at i:14743279 original size:22 final size:22
Alignment explanation
Indices: 14743251--14743325 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
14743241 TTCCACATCC
14743251 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
14743273 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
14743297 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
14743320 ATCACA
1 ATCACA
14743326 CATACACATG
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 17 0.45
23 5 0.13
24 5 0.13
25 11 0.29
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:14743286 original size:47 final size:47
Alignment explanation
Indices: 14743223--14743430 Score: 303
Period size: 47 Copynumber: 4.4 Consensus size: 47
14743213 CCCTTCGGGA
* * *
14743223 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
14743270 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
14743317 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
14743364 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
14743411 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
14743431 GTACATCAAT
Statistics
Matches: 150, Mismatches: 9, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.01
47 148 0.99
48 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:14769179 original size:30 final size:31
Alignment explanation
Indices: 14769103--14769185 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
14769093 TCAGTCTCGA
14769103 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
14769133 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
14769164 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
14769186 ACTGTAAGCG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 18 0.35
31 34 0.65
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:14769419 original size:24 final size:25
Alignment explanation
Indices: 14769392--14769464 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 25
14769382 CTGGAGGCCT
* *
14769392 AGCCTCTTTTAAT-AATTGGGGCAA
1 AGCCTCTTTTAATAAACTGAGGCAA
* *
14769416 AGCCTTTTTTGATAAACTGAGGCAA
1 AGCCTCTTTTAATAAACTGAGGCAA
* *
14769441 AGCC-CTTTTCAGTAAACTGGGGCA
1 AGCCTCTTTT-AATAAACTGAGGCA
14769465 TACCCCTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
24 15 0.38
25 24 0.62
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (25 bp):
AGCCTCTTTTAATAAACTGAGGCAA
Found at i:14769456 original size:25 final size:26
Alignment explanation
Indices: 14769411--14769474 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
14769401 TAATAATTGG
**
14769411 GGCAAAG-CCTTTTTTGATAAACTGA
1 GGCAAAGCCCTTTTCAGATAAACTGA
*
14769436 GGCAAAGCCCTTTTCAG-TAAACTGG
1 GGCAAAGCCCTTTTCAGATAAACTGA
* *
14769461 GGCATACCCCTTTT
1 GGCAAAGCCCTTTT
14769475 AGCACTTCCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
25 26 0.79
26 7 0.21
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (26 bp):
GGCAAAGCCCTTTTCAGATAAACTGA
Done.