Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 68 of 425
Found at i:19036236 original size:29 final size:29
Alignment explanation
Indices: 19036204--19036287 Score: 123
Period size: 29 Copynumber: 2.9 Consensus size: 29
19036194 CCCAATGCCG
* *
19036204 TATTTTTCCAGCTTGCACACATAGTGTCA
1 TATTTTTCCAGCATGCACACTTAGTGTCA
*
19036233 TATTTTTCCAGCATGCACACTTAGTGTCT
1 TATTTTTCCAGCATGCACACTTAGTGTCA
* *
19036262 TATATTTCCAGCACGCACACTTAGTG
1 TATTTTTCCAGCATGCACACTTAGTG
19036288 CCAATCTCGT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (29 bp):
TATTTTTCCAGCATGCACACTTAGTGTCA
Found at i:19040927 original size:6 final size:6
Alignment explanation
Indices: 19040916--19040944 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
19040906 TAGAGAGAGT
19040916 TCAAGC TCAAGC TCAAGC TCAAGC TCAAG
1 TCAAGC TCAAGC TCAAGC TCAAGC TCAAG
19040945 TTACAAAGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.31, G:0.17, T:0.17
Consensus pattern (6 bp):
TCAAGC
Found at i:19048482 original size:14 final size:14
Alignment explanation
Indices: 19048442--19048478 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
19048432 ATTCAAAACA
19048442 TTTATAAAAATTAT
1 TTTATAAAAATTAT
19048456 TTTATAAAAATTAT
1 TTTATAAAAATTAT
19048470 TTT-TAAAAA
1 TTTATAAAAA
19048479 ATTAAAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TTTATAAAAATTAT
Found at i:19053155 original size:3 final size:3
Alignment explanation
Indices: 19053147--19053225 Score: 65
Period size: 3 Copynumber: 26.7 Consensus size: 3
19053137 ATTTTTAAAG
** **
19053147 TTA TTA TTA CCA TTA TTA TTA TTA TTA TTA TTA CCA TT- TT- TTA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* *
19053194 TTA TTA TT- TGTA TTA TTG TTG TTA TTA TTA TT
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TT
19053226 CTTGATTTTA
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
2 5 0.08
3 53 0.85
4 4 0.06
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:19053236 original size:15 final size:15
Alignment explanation
Indices: 19053159--19053241 Score: 50
Period size: 15 Copynumber: 5.6 Consensus size: 15
19053149 ATTATTACCA
19053159 TTATTATTATT-ATT
1 TTATTATTATTGATT
**
19053173 ATTATTACCATT--TT
1 -TTATTATTATTGATT
19053187 TTATGTATTATT-ATT
1 TTAT-TATTATTGATT
*
19053202 TGTATTATTGTTG-TT
1 T-TATTATTATTGATT
*
19053217 ATTATTATTCTTGATT
1 -TTATTATTATTGATT
*
19053233 TTATCATTA
1 TTATTATTA
19053242 ATACACTATT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
13 4 0.07
14 7 0.13
15 37 0.69
16 6 0.11
ACGTcount: A:0.25, C:0.05, G:0.06, T:0.64
Consensus pattern (15 bp):
TTATTATTATTGATT
Found at i:19055592 original size:26 final size:26
Alignment explanation
Indices: 19055563--19055669 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
19055553 TGGTACAAAT
19055563 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
19055589 TGATAATGGATTAGGTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
19055614 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
19055640 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19055666 TGAT
1 TGAT
19055670 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 23 0.31
26 52 0.69
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:19055623 original size:51 final size:52
Alignment explanation
Indices: 19055563--19055669 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
19055553 TGGTACAAAT
19055563 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
19055614 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
19055666 TGAT
1 TGAT
19055670 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 47 0.89
52 6 0.11
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:19060787 original size:15 final size:16
Alignment explanation
Indices: 19060751--19060780 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19060741 ACATATCATT
19060751 TATTTCATTATATCAA
1 TATTTCATTATATCAA
19060767 TATTTCA-TATATCA
1 TATTTCATTATATCA
19060781 TAGTTTCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTTCATTATATCAA
Found at i:19062734 original size:30 final size:30
Alignment explanation
Indices: 19062700--19062760 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
19062690 TCCTTAGCTC
19062700 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
19062730 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
19062760 A
1 A
19062761 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:19066747 original size:42 final size:42
Alignment explanation
Indices: 19066679--19066836 Score: 172
Period size: 42 Copynumber: 3.7 Consensus size: 42
19066669 AAGACGTCGA
* * * * *
19066679 ATCTTGTCTCTCTAAGTAGTATTGGAGCAAATTTAAGCCACC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACC
* * ** * ** *
19066721 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGCCTGAAGATTACAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAG-CCAC-C
*
19066765 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCATC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACC
19066807 ATCTTATCTCCCTAAGCAGTAGTGGAGCAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAG
19066837 GTTGAAATCA
Statistics
Matches: 92, Mismatches: 22, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
42 57 0.62
43 3 0.03
44 32 0.35
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (42 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACC
Found at i:19066778 original size:44 final size:41
Alignment explanation
Indices: 19066635--19066836 Score: 138
Period size: 44 Copynumber: 4.7 Consensus size: 41
19066625 GAATTCACAG
* * * * *
19066635 ATCTTATTTCCCTAAGTAGTAGTGGAGTA-AATCGAAGACGTC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGACT-GAAG-CATC
* * * * * * * *
19066677 GAATCTTGTCTCTCTAAGTAGTATTGGAGCAAATTTAAGCCACC
1 --ATCTTATCTCCCTAAGCAGTAGTGGAGCAGACTGAAG-CATC
* * *
19066721 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGCCTGAAG-ATTAC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGACTGAAGCA-T-C
* *
19066763 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCATC
1 --ATCTTATCTCCCTAAGCAGTAGTGGAGCAGACTGAAG-CATC
19066807 ATCTTATCTCCCTAAGCAGTAGTGGAGCAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAG
19066837 GTTGAAATCA
Statistics
Matches: 125, Mismatches: 26, Indels: 16
0.75 0.16 0.10
Matches are distributed among these distances:
40 1 0.01
42 58 0.46
44 62 0.50
45 3 0.02
46 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (41 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGACTGAAGCATC
Found at i:19066856 original size:86 final size:86
Alignment explanation
Indices: 19066679--19066861 Score: 235
Period size: 86 Copynumber: 2.1 Consensus size: 86
19066669 AAGACGTCGA
* * * *
19066679 ATCTTGTCTCTCTAAGTAGTATTGGAGCAAATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGT
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAAATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGT
* *
19066744 GGAGTAGCCTGAAGATTACAG
66 GGAGCAGCCTGAAGATAACAG
* * *
19066765 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCATCATCTTATCTCCCTAAGCAGTAGT
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAAATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGT
**
19066830 GGAGCAGGTTGAA-ATCAACA-
66 GGAGCAGCCTGAAGAT-AACAG
19066850 ATTCTTATCTCC
1 A-TCTTATCTCC
19066862 TGAAAGTTCC
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
85 3 0.04
86 81 0.96
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (86 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAAATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGT
GGAGCAGCCTGAAGATAACAG
Found at i:19066923 original size:44 final size:44
Alignment explanation
Indices: 19066874--19067539 Score: 294
Period size: 44 Copynumber: 15.0 Consensus size: 44
19066864 AAAGTTCCAG
19066874 TGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCAC
1 TGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCAC
* * * * ** *
19066918 TGGAGTGGCTCGAAGCCAC-AAT-TCGTATC-CCCTTAAAGTTTCAG
1 TGGAGTAGATCGAAGCTACAAATCTC-T-TCTCCCTGAAA-TGGCAC
* *
19066962 TGGAGTAGATCGAAGCTACAAATCTCTTCTCCCCGAAATGGCAT
1 TGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCAC
* * * * * * **
19067006 TGGAGCAGCTCAAAGCCAC-AAT-TCGTATCTCCTTGAAGTTCCAGC
1 TGGAGTAGATCGAAGCTACAAATCTC-T-TCTCCCTGAAATGGCA-C
*
19067051 -GGAGTAGATCGAAGCTACAAATCTCTTCTCCCTAAAATGGCAC
1 TGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCAC
* * * * * * *** *
19067094 TGGAGTGGCTCGAAGCTCGAAGCCACAATTCACATCTCCTTGAAGTTTTAG
1 TGGAGTAGATCGAAGCT---A--CA-AA-TCTCTTCTCCCTGAAATGGCAC
* *
19067145 TGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAGATGGCAT
1 TGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCAC
** * * * * *
19067189 TGGAGCGGCTCGAAGCCAC-AAT-TCGTATCTCCTTGAAGT-TCTAAC
1 TGGAGTAGATCGAAGCTACAAATCTC-T-TCTCCCTGAAATGGC--AC
* * * *
19067234 -GGAGTAGATTGAAGTTGCAAATCTTTTCTCCCTGAAATGGCAC
1 TGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCAC
* ** * * * * * ** *
19067277 TAGAGCGGCTCGAAGCCAC-AAT-TCATATCTCCTTGTAGTTTCTGC
1 TGGAGTAGATCGAAGCTACAAATCTC-T-TCTCCCTGAAATGGC-AC
19067322 T-GAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCAC
1 TGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCAC
* ** * * * **
19067365 TAGAGCGGCTCGAAGCTAC-AAT-TCGTATCTCCTTGAAGTTCCAAC
1 TGGAGTAGATCGAAGCTACAAATCTC-T-TCTCCCTGAAATGGC-AC
* *
19067410 -GGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAATGGTAC
1 TGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCAC
*** * * * *
19067453 TGGAACGGCTCGAAGCCAC-AAT-TCATATCT-CCTTAAA-GTTCTAGC
1 TGGAGTAGATCGAAGCTACAAATCTC-T-TCTCCCTGAAATG-GC-A-C
* *
19067498 -AGAGTAGATCGAAGCTACAAGTCTCTTCTCCCTGAAATGGCA
1 TGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCA
19067540 TTAGAGTGAT
Statistics
Matches: 438, Mismatches: 136, Indels: 96
0.65 0.20 0.14
Matches are distributed among these distances:
42 12 0.03
43 45 0.10
44 288 0.66
45 45 0.10
46 14 0.03
47 1 0.00
48 1 0.00
49 2 0.00
50 2 0.00
51 28 0.06
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (44 bp):
TGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCAC
Found at i:19066939 original size:88 final size:88
Alignment explanation
Indices: 19066847--19067539 Score: 929
Period size: 88 Copynumber: 7.8 Consensus size: 88
19066837 GTTGAAATCA
* *
19066847 ACAATTCTTATCTCC-TGAAAGTTCCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAA
1 ACAATTCGTATCTCCTTG-AAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAA
*
19066911 ATGGCACTGGAGTGGCTCGAAGCC
65 ATGGCACTGGAGCGGCTCGAAGCC
* * * * *
19066935 ACAATTCGTATCCCCTTAAAGTTTCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCCGAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* * *
19067000 TGGCATTGGAGCAGCTCAAAGCC
66 TGGCACTGGAGCGGCTCGAAGCC
*
19067023 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTAAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
19067088 TGGCACTGGAGTGGCTCGAAGCTCGAAGCC
66 TGGCACTGGA---G--CG--GCTCGAAGCC
** ** * *
19067118 ACAATTCACATCTCCTTGAAGTTTTAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAGA
1 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
*
19067183 TGGCATTGGAGCGGCTCGAAGCC
66 TGGCACTGGAGCGGCTCGAAGCC
* * * * * *
19067206 ACAATTCGTATCTCCTTGAAGTTCTAACGGAGTAGATTGAAGTTGCAAATCTTTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
*
19067271 TGGCACTAGAGCGGCTCGAAGCC
66 TGGCACTGGAGCGGCTCGAAGCC
* * * * *
19067294 ACAATTCATATCTCCTTGTAGTTTCTGCTGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* *
19067359 TGGCACTAGAGCGGCTCGAAGCT
66 TGGCACTGGAGCGGCTCGAAGCC
* *
19067382 ACAATTCGTATCTCCTTGAAGTTCCAACGGAGTAGATCAAAGCTACAAATCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
* *
19067447 TGGTACTGGAACGGCTCGAAGCC
66 TGGCACTGGAGCGGCTCGAAGCC
* * * * *
19067470 ACAATTCATATCTCCTTAAAGTTCTAGCAGAGTAGATCGAAGCTACAAGTCTCTTCTCCCTGAAA
1 ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
19067535 TGGCA
66 TGGCA
19067540 TTAGAGTGAT
Statistics
Matches: 528, Mismatches: 69, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
88 446 0.84
89 1 0.00
90 2 0.00
91 1 0.00
92 1 0.00
93 1 0.00
95 76 0.14
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (88 bp):
ACAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAA
TGGCACTGGAGCGGCTCGAAGCC
Found at i:19067633 original size:44 final size:44
Alignment explanation
Indices: 19067563--19067726 Score: 184
Period size: 44 Copynumber: 3.7 Consensus size: 44
19067553 AGCTATAAAC
*
19067563 CTTATCTCCCTGAAGTTACAGTGGGGCAGGTAGAAGTTACGAGT
1 CTTATCCCCCTGAAGTTACAGTGGGGCAGGTAGAAGTTACGAGT
* * * *
19067607 CCTATCCCCCTGAAGCTGCAGTGGGGCAGGTTGAAGTTACGAGT
1 CTTATCCCCCTGAAGTTACAGTGGGGCAGGTAGAAGTTACGAGT
* * * * * *
19067651 CATTATCCCTCTAAAGTTGCAGTGGGGAAAGTTGAGAAGTTACAAGT
1 C-TTATCCCCCTGAAGTTACAGTGGGG-CAGGT-AGAAGTTACGAGT
* *
19067698 CTTATCTCCCTGAAGTTACAGTGGAGCAG
1 CTTATCCCCCTGAAGTTACAGTGGGGCAG
19067727 ACTGAAGAAA
Statistics
Matches: 98, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
44 40 0.41
45 23 0.23
46 23 0.23
47 12 0.12
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (44 bp):
CTTATCCCCCTGAAGTTACAGTGGGGCAGGTAGAAGTTACGAGT
Found at i:19069566 original size:3 final size:3
Alignment explanation
Indices: 19069558--19069636 Score: 65
Period size: 3 Copynumber: 26.7 Consensus size: 3
19069548 ATTTTTAAAG
** **
19069558 TTA TTA TTA CCA TTA TTA TTA TTA TTA TTA TTA CCA TT- TT- TTA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* *
19069605 TTA TTA TT- TGTA TTA TTG TTG TTA TTA TTA TT
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TT
19069637 CTTGATTTTA
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
2 5 0.08
3 53 0.85
4 4 0.06
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:19069647 original size:15 final size:15
Alignment explanation
Indices: 19069570--19069652 Score: 50
Period size: 15 Copynumber: 5.6 Consensus size: 15
19069560 ATTATTACCA
19069570 TTATTATTATT-ATT
1 TTATTATTATTGATT
**
19069584 ATTATTACCATT--TT
1 -TTATTATTATTGATT
19069598 TTATGTATTATT-ATT
1 TTAT-TATTATTGATT
*
19069613 TGTATTATTGTTG-TT
1 T-TATTATTATTGATT
*
19069628 ATTATTATTCTTGATT
1 -TTATTATTATTGATT
*
19069644 TTATCATTA
1 TTATTATTA
19069653 ATACACTATT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
13 4 0.07
14 7 0.13
15 37 0.69
16 6 0.11
ACGTcount: A:0.25, C:0.05, G:0.06, T:0.64
Consensus pattern (15 bp):
TTATTATTATTGATT
Found at i:19076255 original size:21 final size:21
Alignment explanation
Indices: 19076216--19076257 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19076206 TTTATTTTCT
* * *
19076216 CACACATACATATATAAAAAA
1 CACACATAAAAATAAAAAAAA
19076237 CACACATAAAAATAAAAAAAA
1 CACACATAAAAATAAAAAAAA
19076258 TAAAAAAGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.69, C:0.17, G:0.00, T:0.14
Consensus pattern (21 bp):
CACACATAAAAATAAAAAAAA
Found at i:19077005 original size:3 final size:3
Alignment explanation
Indices: 19076850--19076989 Score: 133
Period size: 3 Copynumber: 46.3 Consensus size: 3
19076840 TTTTTTATAT
* * * * *
19076850 TTA TTA TTA TTA -TG TTA TTTA TTG TTA TTA TTA -CA TTT TTA TGCA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * * * *
19076895 TATA ATA TT- TATA TTA TTA CTA TTA CTA TTA CTA TTA CTA TTA TTA
1 T-TA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19076941 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19076989 T
1 T
19076990 ATTTCTACTA
Statistics
Matches: 110, Mismatches: 21, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
2 3 0.03
3 100 0.91
4 7 0.06
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:19077240 original size:24 final size:26
Alignment explanation
Indices: 19077213--19077276 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
19077203 ATATATCATC
19077213 TTATGTATATATTCTTAAATA-C-TA
1 TTATGTATATATTCTTAAATAGCATA
* * *
19077237 TTATATATATATTTTTTTAATAGCATA
1 TTATGTATATA-TTCTTAAATAGCATA
*
19077264 TTGTGTATATATT
1 TTATGTATATATT
19077277 ATTATTACTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
24 10 0.31
25 8 0.25
26 3 0.09
27 11 0.34
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.55
Consensus pattern (26 bp):
TTATGTATATATTCTTAAATAGCATA
Found at i:19077281 original size:3 final size:3
Alignment explanation
Indices: 19077273--19077328 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
19077263 ATTGTGTATA
* ** * *
19077273 TAT TAT TAT TACT AAT TAT TAT TAT TGC TAG TAT TGT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19077319 TAT TA- TAT TA
1 TAT TAT TAT TA
19077329 GTGTATATCT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
2 2 0.05
3 38 0.90
4 2 0.05
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:19077451 original size:16 final size:17
Alignment explanation
Indices: 19077411--19077454 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
19077401 GCTTTTGTAT
19077411 TTTA-ATATTATTATTA
1 TTTATATATTATTATTA
19077427 TTTAT-TATTATT-TT-
1 TTTATATATTATTATTA
19077441 TTGTATATATTATT
1 TT-TATATATTATT
19077455 CATACTATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 2 0.08
15 5 0.20
16 18 0.72
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTATATATTATTATTA
Found at i:19077674 original size:27 final size:27
Alignment explanation
Indices: 19077620--19077670 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
19077610 ATATTTACCC
* *
19077620 TTTTTACTATTATTACCTATTATTTTA
1 TTTTTAATATTATTAACTATTATTTTA
19077647 TTTTTAATATTATTAA--ATTATTTT
1 TTTTTAATATTATTAACTATTATTTT
19077671 TTATATTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 8 0.36
27 14 0.64
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTTTAATATTATTAACTATTATTTTA
Found at i:19082934 original size:12 final size:12
Alignment explanation
Indices: 19082901--19082925 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19082891 CAAAAATTGA
19082901 AATAAATAAGTG
1 AATAAATAAGTG
19082913 AATAAATAAGTG
1 AATAAATAAGTG
19082925 A
1 A
19082926 GTAATTAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.16, T:0.24
Consensus pattern (12 bp):
AATAAATAAGTG
Found at i:19083542 original size:61 final size:57
Alignment explanation
Indices: 19083415--19083534 Score: 134
Period size: 61 Copynumber: 2.0 Consensus size: 57
19083405 CTTTCATATT
* * * * *
19083415 AAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATTTAAATCTTATT
1 AAATTAATAAAATATTTATCAAGATAAACATTAAATTAAATTTAATTTAAA-CTAATC
19083473 AAATTAATAAAATATTTATCTATAAGATAAACATTAAATTAAATTTAATATTAAGA-TAATC
1 AAATTAATAAAATATTTATC---AAGATAAACATTAAATTAAATTTAAT-TTAA-ACTAATC
19083534 A
1 A
19083535 CTTTAATATT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
58 19 0.37
61 28 0.54
62 4 0.08
63 1 0.02
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (57 bp):
AAATTAATAAAATATTTATCAAGATAAACATTAAATTAAATTTAATTTAAACTAATC
Found at i:19083552 original size:20 final size:18
Alignment explanation
Indices: 19083505--19083553 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
19083495 TAAGATAAAC
19083505 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
19083522 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
19083542 ATTAAATTAATA
1 ATTAAATTAATA
19083554 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:19086355 original size:27 final size:27
Alignment explanation
Indices: 19086307--19086466 Score: 186
Period size: 27 Copynumber: 5.9 Consensus size: 27
19086297 ACGAGGCTGC
* *
19086307 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
19086334 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
19086360 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
19086387 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
19086414 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
19086441 TAGATAATTGTGGCATAGCCACCAGA
1 CAGAT-ATTGTGGCAGAGCCACCAGA
19086467 CGCTTCCTCC
Statistics
Matches: 117, Mismatches: 8, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 102 0.87
28 5 0.04
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:19086397 original size:54 final size:54
Alignment explanation
Indices: 19086325--19086466 Score: 241
Period size: 54 Copynumber: 2.6 Consensus size: 54
19086315 GTGACGAAGT
*
19086325 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
19086379 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
19086433 CACCAGATTAGATAATTGTGGCATAGCCACCAGA
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGA
19086467 CGCTTCCTCC
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:19086869 original size:8 final size:8
Alignment explanation
Indices: 19086853--19086882 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
19086843 CTCAAAATAC
19086853 CGGCTTTT
1 CGGCTTTT
*
19086861 CGGCATTT
1 CGGCTTTT
19086869 CGGCTTTT
1 CGGCTTTT
19086877 CGGCTT
1 CGGCTT
19086883 GTGCCGATCT
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:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:19088398 original size:19 final size:22
Alignment explanation
Indices: 19088359--19088398 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
19088349 AGAAACCCAA
19088359 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
19088381 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
19088399 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:19088514 original size:27 final size:27
Alignment explanation
Indices: 19088460--19088570 Score: 124
Period size: 26 Copynumber: 4.2 Consensus size: 27
19088450 AGCATGGCTG
* *
19088460 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
19088486 CCA-ATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
19088513 CCAGA-ACAGATATATGTGGCA-AGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
* *
19088539 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
19088566 CCAGA
1 CCAGA
19088571 ATGCTTCCTC
Statistics
Matches: 76, Mismatches: 3, Indels: 11
0.84 0.03 0.12
Matches are distributed among these distances:
25 1 0.01
26 36 0.47
27 36 0.47
28 3 0.04
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:19088518 original size:53 final size:53
Alignment explanation
Indices: 19088460--19088571 Score: 147
Period size: 53 Copynumber: 2.1 Consensus size: 53
19088450 AGCATGGCTG
*
19088460 CCAGAACAGATA-ATGTGACAGAGTCACCA-ATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACA-AGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
19088513 CCAGAACAGATATATGTGGCAAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAAGCCACCAGATCAGATAATCGTGGCAGAGCCA
19088566 CCAGAA
1 CCAGAA
19088572 TGCTTCCTCC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
53 43 0.83
54 9 0.17
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (53 bp):
CCAGAACAGATATATGTGACAAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:19090252 original size:25 final size:26
Alignment explanation
Indices: 19090184--19090291 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
19090174 CATGAAATTC
* *
19090184 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
19090210 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
19090236 TTATCAT-GAACATTTACCTAACC-A
1 TTATCATGGAACATTTACCTAACCTA
19090260 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
19090286 TTATCA
1 TTATCA
19090292 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
24 8 0.10
25 32 0.41
26 38 0.49
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:19090271 original size:50 final size:52
Alignment explanation
Indices: 19090184--19090291 Score: 202
Period size: 50 Copynumber: 2.1 Consensus size: 52
19090174 CATGAAATTC
19090184 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
19090236 TTATCATG-AACATTTACCTAA-CCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
19090286 TTATCA
1 TTATCA
19090292 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
50 35 0.62
51 13 0.23
52 8 0.14
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
Found at i:19091171 original size:26 final size:26
Alignment explanation
Indices: 19091140--19091247 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
19091130 TGAAATGCCC
* *
19091140 ATCATGAAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
19091166 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
19091192 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
19091218 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19091244 ATCA
1 ATCA
19091248 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:19094028 original size:75 final size:73
Alignment explanation
Indices: 19093940--19094111 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
19093930 GGTTTTCCTC
*** * * **
19093940 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
19094004 TCAGTATGG
65 TCAGTATGG
*
19094013 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
19094078 CTCAGTATGG
64 CTCAGTATGG
19094088 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
19094112 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:19094109 original size:35 final size:35
Alignment explanation
Indices: 19093945--19094111 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
19093935 TCCTCATTGA
*** *
19093945 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
19093980 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
19094020 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
19094055 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
19094090 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
19094112 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:19101525 original size:75 final size:73
Alignment explanation
Indices: 19101437--19101608 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
19101427 GGTTTTCCTC
*** * * **
19101437 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
19101501 TCAGTATGG
65 TCAGTATGG
*
19101510 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
19101575 CTCAGTATGG
64 CTCAGTATGG
19101585 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
19101609 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:19101606 original size:35 final size:35
Alignment explanation
Indices: 19101442--19101608 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
19101432 TCCTCATTGA
*** *
19101442 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
19101477 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
19101517 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
19101552 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
19101587 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
19101609 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:19105508 original size:25 final size:24
Alignment explanation
Indices: 19105480--19105561 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 24
19105470 CGAATACTCA
19105480 ATAGCTCATGAGAACATACCGATTT
1 ATAGCTCATGAG-ACATACCGATTT
* * *
19105505 ATAGCTCGTGAGAGCATATCGATCT
1 ATAGCTCATGAGA-CATACCGATTT
19105530 ATAGCTCAAATGAG-CATACCGATTT
1 ATAGCTC--ATGAGACATACCGATTT
*
19105555 ACAGCTC
1 ATAGCTC
19105562 GTAGGAGCAT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
24 1 0.02
25 42 0.89
27 4 0.09
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (24 bp):
ATAGCTCATGAGACATACCGATTT
Found at i:19105569 original size:25 final size:25
Alignment explanation
Indices: 19105494--19105573 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
19105484 CTCATGAGAA
19105494 CATACCGATTTATAGCTCGT-GAGAG
1 CATACCGATTTATAGCTCGTAG-GAG
* * ** *
19105519 CATATCGATCTATAGCTCAAATGAG
1 CATACCGATTTATAGCTCGTAGGAG
*
19105544 CATACCGATTTACAGCTCGTAGGAG
1 CATACCGATTTATAGCTCGTAGGAG
19105569 CATAC
1 CATAC
19105574 ATGTACACGA
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (25 bp):
CATACCGATTTATAGCTCGTAGGAG
Found at i:19106107 original size:22 final size:22
Alignment explanation
Indices: 19106079--19106124 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
19106069 TTGATTTTTG
19106079 TTATAATGGCATGTATAGGTAT
1 TTATAATGGCATGTATAGGTAT
19106101 TTATAATGGCATGTATAGGTAT
1 TTATAATGGCATGTATAGGTAT
19106123 TT
1 TT
19106125 TGGCTAATGT
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:0.30, C:0.04, G:0.22, T:0.43
Consensus pattern (22 bp):
TTATAATGGCATGTATAGGTAT
Found at i:19108018 original size:16 final size:17
Alignment explanation
Indices: 19107997--19108031 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19107987 AATTTGGATA
19107997 AGAAAATT-ATTTAATT
1 AGAAAATTAATTTAATT
*
19108013 AGAAAATTAATTTAGTT
1 AGAAAATTAATTTAATT
19108030 AG
1 AG
19108032 TTTAATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (17 bp):
AGAAAATTAATTTAATT
Found at i:19111138 original size:42 final size:43
Alignment explanation
Indices: 19111055--19111139 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 43
19111045 ACATACTCGT
* * **
19111055 GTACTACACGGCTGAGACACACGCCCTTGTTCTAGGTCGTGTG
1 GTACTACACGGCTGAGACACACACCCGTGTTCTAGCCCGTGTG
19111098 GTAC-ACACGGCTGAGACACACACCCGTGTCTCTA-CCCGTGTG
1 GTACTACACGGCTGAGACACACACCCGTGT-TCTAGCCCGTGTG
19111140 CCCAATTCTG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 29 0.78
43 8 0.22
ACGTcount: A:0.20, C:0.32, G:0.26, T:0.22
Consensus pattern (43 bp):
GTACTACACGGCTGAGACACACACCCGTGTTCTAGCCCGTGTG
Found at i:19119186 original size:79 final size:79
Alignment explanation
Indices: 19119065--19119212 Score: 226
Period size: 79 Copynumber: 1.9 Consensus size: 79
19119055 TCCTCCCGAT
* * ** * *
19119065 TTTTAATATTTTTAGTTGGCTTTGAAATTTTTCAGGAGGAAAAGGAAATCAAGAGGAAAAATCTG
1 TTTTAATATTTTTAGTTGGATTTGAAATTTTTCAGGAAGAAAAAAAAATCAAGAGAAAAAATCTA
19119130 ATTTTCCTCCTGGG
66 ATTTTCCTCCTGGG
19119144 TTTTAATATTTTTAGTTGGATTT-AAATTTTTTCAGGAAGAAAAAAAAATCAAGAGAAAAAATCT
1 TTTTAATATTTTTAGTTGGATTTGAAA-TTTTTCAGGAAGAAAAAAAAATCAAGAGAAAAAATCT
19119208 AATTT
65 AATTT
19119213 GTCATTCTCC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
78 3 0.05
79 59 0.95
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (79 bp):
TTTTAATATTTTTAGTTGGATTTGAAATTTTTCAGGAAGAAAAAAAAATCAAGAGAAAAAATCTA
ATTTTCCTCCTGGG
Found at i:19119856 original size:14 final size:15
Alignment explanation
Indices: 19119832--19119860 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19119822 AGAACTGGAA
19119832 AAATAAAATAAAATT
1 AAATAAAATAAAATT
19119847 AAAT-AAATAAAATT
1 AAATAAAATAAAATT
19119861 TGAGGGCGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAATAAAATAAAATT
Found at i:19120414 original size:28 final size:27
Alignment explanation
Indices: 19120365--19120419 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
19120355 TGAACTGATA
*
19120365 TAATAATTTTTGTATTTTAAATTATTT
1 TAATAATTTTTGAATTTTAAATTATTT
*
19120392 TAATATTTTTATGAATTTTAAATTATTT
1 TAATAATTTT-TGAATTTTAAATTATTT
19120420 ATTTAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 9 0.36
28 16 0.64
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (27 bp):
TAATAATTTTTGAATTTTAAATTATTT
Found at i:19121654 original size:13 final size:13
Alignment explanation
Indices: 19121623--19121661 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
19121613 ATGAAAGAAT
*
19121623 AATAAAAT-AAGA
1 AATAAAATAAAAA
*
19121635 GATAAAATAAAAA
1 AATAAAATAAAAA
19121648 AATAAAATAAAAA
1 AATAAAATAAAAA
19121661 A
1 A
19121662 GAGATGACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (13 bp):
AATAAAATAAAAA
Found at i:19121659 original size:12 final size:12
Alignment explanation
Indices: 19121623--19121661 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
19121613 ATGAAAGAAT
*
19121623 AATAAAATAAGA
1 AATAAAATAAAA
*
19121635 GATAAAATAAAAA
1 AATAAAAT-AAAA
19121648 AATAAAATAAAA
1 AATAAAATAAAA
19121660 AA
1 AA
19121662 GAGATGACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (12 bp):
AATAAAATAAAA
Found at i:19121936 original size:3 final size:3
Alignment explanation
Indices: 19121930--19121980 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
19121920 AAAAAAGATG
19121930 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19121978 ATA
1 ATA
19121981 GACTAGATAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19123503 original size:97 final size:96
Alignment explanation
Indices: 19123402--19123582 Score: 263
Period size: 97 Copynumber: 1.9 Consensus size: 96
19123392 TTGTAATTTC
* * * * *
19123402 TAGCTTTAATCTGTTCCACTACAACTTTAGGGAAATGAGATTTGCTATCTTTAGTCTACTCCTAC
1 TAGCTTCAATCTGCTCCACTACAACTTTAGGGAAATAAGATCTGATATCTTTAGTCTACTCCT-C
19123467 TACAACTTCAAGGAGATAAGACTCGCAACTTT
65 TACAACTTCAAGGAGATAAGACTCGCAACTTT
** *
19123499 TAGCTTCAATCTGCTCCACTGTAACTTTAGGGAAATAAGATCTGATATCTTTAGTCTGCTCCTCT
1 TAGCTTCAATCTGCTCCACTACAACTTTAGGGAAATAAGATCTGATATCTTTAGTCTACTCCTCT
* *
19123564 GCAACTTCAGGGAGATAAG
66 ACAACTTCAAGGAGATAAG
19123583 GCTGGTGGCT
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
96 19 0.26
97 55 0.74
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (96 bp):
TAGCTTCAATCTGCTCCACTACAACTTTAGGGAAATAAGATCTGATATCTTTAGTCTACTCCTCT
ACAACTTCAAGGAGATAAGACTCGCAACTTT
Found at i:19123576 original size:45 final size:45
Alignment explanation
Indices: 19123499--19123630 Score: 151
Period size: 45 Copynumber: 3.0 Consensus size: 45
19123489 TCGCAACTTT
*
19123499 TAGCTTCAATCTGCTCCACTGTAACTTTAGGGAAATAAGATCTGA
1 TAGCTTCAATCTGCTCCACTGCAACTTTAGGGAAATAAGATCTGA
* * * * * * * *
19123544 TATCTTTAGTCTGCTCCTCTGCAACTTCAGGGAGATAAG-GCTGG
1 TAGCTTCAATCTGCTCCACTGCAACTTTAGGGAAATAAGATCTGA
*
19123588 TGGCTTCAATCTGCTCCACTGCAACTTTA-GGAAGATAAGATCT
1 TAGCTTCAATCTGCTCCACTGCAACTTTAGGGAA-ATAAGATCT
19123631 ACCATAATTT
Statistics
Matches: 68, Mismatches: 17, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
43 3 0.04
44 31 0.46
45 34 0.50
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (45 bp):
TAGCTTCAATCTGCTCCACTGCAACTTTAGGGAAATAAGATCTGA
Found at i:19123868 original size:45 final size:44
Alignment explanation
Indices: 19123787--19124297 Score: 223
Period size: 45 Copynumber: 10.8 Consensus size: 44
19123777 ATAATTTGTA
* * * *
19123787 GCTTTAATCTGTTCCACTGCAACGTCAGGGAAATAAGATTCGCTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GCTG
* * * * * * *
19123832 TCTTCAGTCTGCTTCGCTGCAACTTTAGGGAGATAAGGTTGGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGCTG
* *
19123876 GCTTCAATCTGCTCCACTACAACTTCAGGAAGATAAGATCTGTCATAATTTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TG-C------TG
* * *
19123928 TAGCTTCAATCTGTTCCACTGTAACTTCAGGGAAATAAGATTTGCTG
1 --GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTG
* * * * * *
19123975 TCTTCAATCTGTTCCACTGTAATTTCAGGGAGATAAGACTGGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGCTG
* * * * * *
19124019 ACTTCAATATGCTCCAATACAACTTCAGGAAGATAGGATTCGGCATAAATTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT--GC------TG
* * * * * * *
19124071 TAGCTTTAATCTGTTCCACTACAACGTCAGGTAAATAAGATTCTCTG
1 --GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GCTG
* * * * * *
19124118 TCTTCAGTCTGCTCCACAGTAACTTCAGGGAGATAAGGCTAG-TG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA-GATTGCTG
* ** *
19124162 GCTTCAATCTGCTCCATTGCAACTTCAGAAAGATAAGATCTACCATAATTTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T-GC------TG
* * *
19124214 TAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTG
1 --GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTG
* * * * *
19124261 TCTTCAGTCTACTCCGCTGCAACTTCAGAGAGATAAG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
19124298 GCTTATGACT
Statistics
Matches: 342, Mismatches: 90, Indels: 68
0.68 0.18 0.14
Matches are distributed among these distances:
43 2 0.01
44 99 0.29
45 122 0.36
46 3 0.01
47 6 0.02
52 6 0.02
53 3 0.01
54 99 0.29
55 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGCTG
Found at i:19124298 original size:429 final size:427
Alignment explanation
Indices: 19123460--19124298 Score: 1163
Period size: 429 Copynumber: 2.0 Consensus size: 427
19123450 CTTTAGTCTA
*
19123460 CTCCTACTACAACTTCAAGGAGATAAGACTCGCAACTTTTAGCTTCAATCTGCTCCACTGTAACT
1 CTCCTACTACAACTTCAAGGAGATAAGACTCGCAAATTTTAGCTTCAATCTGCTCCACTGTAACT
* * * * *
19123525 TTAGGGAAATAAGATCTGATATCTTTAGTCTGCTCCTCTGCAACTTCAGGGAGATAAGGCTGGTG
66 TCAGGGAAATAAGATCTGATATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGTG
* * * * * *
19123590 GCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATCTACCATAATTTGTAGCTTTAATCTA
131 ACTTCAATATGCTCCAATACAACTTCAGGAAGATAAGATCTACCATAAATTGTAGCTTTAATCTA
* * * * *
19123655 TTCCACTGCAACGTCAAGGAAATAAGATTCGCTGTTTTTAGTCTGCTCCGCTATAAATTTAGGGA
196 TTCCACTACAACGTCAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCACTATAAATTCAGGGA
* *
19123720 GATAAGGCTGGTGGTTTCAATCTGCTCCAATACAACTTCAAGAAGATAAGATCCACCATAATTTG
261 GATAAGGCTAGTGGCTTCAATCTGCTCCAATACAACTTCAAGAAGATAAGATCCACCATAATTTG
* * * *
19123785 TAGCTTTAATCTGTTCCACTGCAACGTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTTCGCT
326 TAGCTTCAATCTGTTCCACTACAACGTCAGGGAAATAAGATTCGCTGTCTTCAGTCTACTCCGCT
* *
19123850 GCAACTTTAGGGAGATAAGGTTGGTGGCTTCAATCTG
391 GCAACTTCAGAGAGATAAGGTTGGTGGCTTCAATCTG
*
19123887 CTCC-ACTACAACTTC-AGGAAGATAAGA-TCTGTCATAATTTGTAGCTTCAATCTGTTCCACTG
1 CTCCTACTACAACTTCAAGG-AGATAAGACTC-G-CA-AATTT-TAGCTTCAATCTGCTCCACTG
* * * * * *
19123949 TAACTTCAGGGAAATAAGATTTGCTGTCTTCAATCTGTTCCACTGTAATTTCAGGGAGATAAGAC
61 TAACTTCAGGGAAATAAGATCTGATATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAC
*
19124014 TGGTGACTTCAATATGCTCCAATACAACTTCAGGAAGATAGGAT-T-CGGCATAAATTGTAGCTT
126 TGGTGACTTCAATATGCTCCAATACAACTTCAGGAAGATAAGATCTAC--CATAAATTGTAGCTT
* *
19124077 TAATCTGTTCCACTACAACGTC-AGGTAAATAAGATTCTCTGTCTTCAGTCTGCTCCAC-AGTAA
189 TAATCTATTCCACTACAACGTCAAGG-AAATAAGATTCGCTGTCTTCAGTCTGCTCCACTA-TAA
* * * *
19124140 CTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCATTGCAACTTC-AGAAAGATAAGATCTA
252 ATTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCAATACAACTTCAAG-AAGATAAGATCCA
* *
19124204 CCATAATTTGTAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTGTCTTCAGT
316 CCATAATTTGTAGCTTCAATCTGTTCCACTACAACGTCAGGGAAATAAGATTCGCTGTCTTCAGT
19124269 CTACTCCGCTGCAACTTCAGAGAGATAAGG
381 CTACTCCGCTGCAACTTCAGAGAGATAAGG
19124299 CTTATGACTT
Statistics
Matches: 361, Mismatches: 41, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
425 5 0.01
426 20 0.06
427 7 0.02
428 11 0.03
429 318 0.88
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (427 bp):
CTCCTACTACAACTTCAAGGAGATAAGACTCGCAAATTTTAGCTTCAATCTGCTCCACTGTAACT
TCAGGGAAATAAGATCTGATATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGTG
ACTTCAATATGCTCCAATACAACTTCAGGAAGATAAGATCTACCATAAATTGTAGCTTTAATCTA
TTCCACTACAACGTCAAGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCACTATAAATTCAGGGA
GATAAGGCTAGTGGCTTCAATCTGCTCCAATACAACTTCAAGAAGATAAGATCCACCATAATTTG
TAGCTTCAATCTGTTCCACTACAACGTCAGGGAAATAAGATTCGCTGTCTTCAGTCTACTCCGCT
GCAACTTCAGAGAGATAAGGTTGGTGGCTTCAATCTG
Found at i:19124343 original size:143 final size:143
Alignment explanation
Indices: 19123460--19124300 Score: 1032
Period size: 143 Copynumber: 5.9 Consensus size: 143
19123450 CTTTAGTCTA
* *
19123460 CTCCTACTACAACTTCAAGG-AGATAAGA-CT-CGCA-ACTTT-TAGCTTCAATCTGCTCCACTG
1 CTCC-ACTACAACTTC-AGGAAGATAAGATCTAC-CATAATTTGTAGCTTCAATCTGTTCCACTG
* * * * * * * *
19123520 TAACTTTAGGGAAATAAGATCTGATATCTTTAGTCTGCTCCTCTGCAACTTCAGGGAGATAAGGC
63 CAACGTCAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGC
19123585 TGGTGGCTTCAATCTG
128 TGGTGGCTTCAATCTG
* * * *
19123601 CTCCACTGCAACTTTAGGAAGATAAGATCTACCATAATTTGTAGCTTTAATCTATTCCACTGCAA
1 CTCCACTACAACTTCAGGAAGATAAGATCTACCATAATTTGTAGCTTCAATCTGTTCCACTGCAA
* * * * ** * *
19123666 CGTCAAGGAAATAAGATTCGCTGTTTTTAGTCTGCTCCGCTATAAATTTAGGGAGATAAGGCTGG
66 CGTCAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGG
*
19123731 TGGTTTCAATCTG
131 TGGCTTCAATCTG
* * * *
19123744 CTCCAATACAACTTCAAGAAGATAAGATCCACCATAATTTGTAGCTTTAATCTGTTCCACTGCAA
1 CTCCACTACAACTTCAGGAAGATAAGATCTACCATAATTTGTAGCTTCAATCTGTTCCACTGCAA
* * * *
19123809 CGTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTTCGCTGCAACTTTAGGGAGATAAGGTTGG
66 CGTCAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGG
19123874 TGGCTTCAATCTG
131 TGGCTTCAATCTG
** *
19123887 CTCCACTACAACTTCAGGAAGATAAGATCTGTCATAATTTGTAGCTTCAATCTGTTCCACTGTAA
1 CTCCACTACAACTTCAGGAAGATAAGATCTACCATAATTTGTAGCTTCAATCTGTTCCACTGCAA
* * * * * * *
19123952 CTTCAGGGAAATAAGATTTGCTGTCTTCAATCTGTTCCACTGTAATTTCAGGGAGATAAGACTGG
66 CGTCAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGG
* *
19124017 TGACTTCAATATG
131 TGGCTTCAATCTG
* * * * *
19124030 CTCCAATACAACTTCAGGAAGATAGGAT-T-CGGCATAAATTGTAGCTTTAATCTGTTCCACTAC
1 CTCCACTACAACTTCAGGAAGATAAGATCTAC--CATAATTTGTAGCTTCAATCTGTTCCACTGC
* * * *
19124093 AACGTCAGGTAAATAAGATTCT-CTGTCTTCAGTCTGCTCCACAGTAACTTCAGGGAGATAAGGC
64 AACGTCAGGGAAATAAGATT-TGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGC
*
19124157 TAGTGGCTTCAATCTG
128 TGGTGGCTTCAATCTG
* * * *
19124173 CTCCATTGCAACTTCAGAAAGATAAGATCTACCATAATTTGTAGCTTCAATCTGTTCCACTACAA
1 CTCCACTACAACTTCAGGAAGATAAGATCTACCATAATTTGTAGCTTCAATCTGTTCCACTGCAA
* * *
19124238 CTTCAGGGAAATAAGATTTGCTGTCTTCAGTCTACTCCGCTGCAACTTCAGAGAGATAAGGCT
66 CGTCAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCT
19124301 TATGACTTTG
Statistics
Matches: 603, Mismatches: 86, Indels: 20
0.85 0.12 0.03
Matches are distributed among these distances:
139 3 0.00
140 17 0.03
141 8 0.01
142 7 0.01
143 565 0.94
144 2 0.00
145 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (143 bp):
CTCCACTACAACTTCAGGAAGATAAGATCTACCATAATTTGTAGCTTCAATCTGTTCCACTGCAA
CGTCAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGG
TGGCTTCAATCTG
Found at i:19128770 original size:15 final size:15
Alignment explanation
Indices: 19128747--19128791 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
19128737 GTATCGTATC
*
19128747 TTGGGTTTCTTTATT
1 TTGGATTTCTTTATT
* *
19128762 TTGGATTTCTCTATC
1 TTGGATTTCTTTATT
19128777 TTGGATTTCTTTATT
1 TTGGATTTCTTTATT
19128792 CGGTTTCCTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.11, C:0.11, G:0.16, T:0.62
Consensus pattern (15 bp):
TTGGATTTCTTTATT
Found at i:19133045 original size:29 final size:29
Alignment explanation
Indices: 19133013--19133115 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
19133003 ATGACGAGAT
* *
19133013 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
19133042 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
19133071 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
19133100 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
19133116 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:19139840 original size:47 final size:46
Alignment explanation
Indices: 19139787--19139957 Score: 180
Period size: 47 Copynumber: 3.6 Consensus size: 46
19139777 TGTGCTTCCG
* * *
19139787 TATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTA
1 TATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATAC-A
* * * *
19139834 TATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTCA
1 TATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATACA
* ** * *
19139880 TGTAAGACCATAGCTGGCCTATGGCATCGATATGTGATATGTGATTACG
1 TATAAGACCATAGCTGGGATATGGCATCG--GTGTGATATGTGA-TACA
* *
19139929 TGTAAGACCATAGCTGGGCTATGGCATCG
1 TATAAGACCATAGCTGGGATATGGCATCG
19139958 ATATATGAAT
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
46 25 0.24
47 40 0.38
48 11 0.10
49 30 0.28
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (46 bp):
TATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATACA
Found at i:19139952 original size:95 final size:97
Alignment explanation
Indices: 19139708--19139958 Score: 246
Period size: 95 Copynumber: 2.6 Consensus size: 97
19139698 TGGTTGGACC
* *
19139708 ATGGCAAC-ATGTGATATGTGATTTTCGTATAAGACCATAGCT-GGCTATGGCATCGTAGAGATG
1 ATGGCATCGATGTGATATGTGA-TTACGTATAAGACCATAGCTGGGCTATGGCATC---GAGATG
* * * * *
19139771 TGATTATGTGCTTCCGTATAAGACCATATCTGGGAT
62 AGATTATGTGATTCCATATAAGACCATAGCTGGCAT
* * * * * *
19139807 ATGGCATCGGTGTGATATATG-CTACTATATAAGACCATATCTGGGATATGGCATC-AG-TGAGA
1 ATGGCATCGATGTGATATGTGATTAC-GTATAAGACCATAGCTGGGCTATGGCATCGAGATGAGA
* *
19139869 -TATGTGATT-CATGTAAGACCATAGCTGGCCT
65 TTATGTGATTCCATATAAGACCATAGCTGGCAT
*
19139900 ATGGCATCGATATGTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGA
1 ATGGCATCG--ATGTGATATGTGATTACGTATAAGACCATAGCTGGGCTATGGCATCGA
19139959 TATATGAATA
Statistics
Matches: 123, Mismatches: 22, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
93 26 0.21
94 8 0.07
95 39 0.32
96 6 0.05
98 2 0.02
99 21 0.17
100 21 0.17
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (97 bp):
ATGGCATCGATGTGATATGTGATTACGTATAAGACCATAGCTGGGCTATGGCATCGAGATGAGAT
TATGTGATTCCATATAAGACCATAGCTGGCAT
Found at i:19139974 original size:42 final size:43
Alignment explanation
Indices: 19139880--19140042 Score: 170
Period size: 42 Copynumber: 3.7 Consensus size: 43
19139870 ATGTGATTCA
* *
19139880 TGTAAGACCATAGCTGGCCTATGGCATCGATATGTGATATG-TGATTACG
1 TGTAAGACCATAGCTGGGCTATGGCATCG--AT-T-ATATGAAGA-T--G
*
19139929 TGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATG
* *
19139971 TGTAAGACAATAGCTGGGCTATGGCATC-ATTATGTGAAGATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATG
* **
19140013 TGTAAGACCATAGTTGAACTATGGCATCGA
1 TGTAAGACCATAGCTGGGCTATGGCATCGA
19140043 GAAAATGAAG
Statistics
Matches: 101, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
41 1 0.01
42 62 0.61
43 1 0.01
44 6 0.06
45 2 0.02
47 1 0.01
49 28 0.28
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATG
Found at i:19145911 original size:40 final size:39
Alignment explanation
Indices: 19145853--19146055 Score: 271
Period size: 39 Copynumber: 5.2 Consensus size: 39
19145843 GTTCAAAACA
* * ** * *
19145853 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
19145893 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
19145933 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
19145972 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
19146011 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
19146050 CCTTCG
1 CCTTCG
19146056 CATCTTTGTT
Statistics
Matches: 149, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 109 0.73
40 40 0.27
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:19145964 original size:39 final size:39
Alignment explanation
Indices: 19145883--19146055 Score: 283
Period size: 39 Copynumber: 4.4 Consensus size: 39
19145873 TATGGTAACC
* *
19145883 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
19145923 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
19145962 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
19146001 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
19146040 CGCACAATTGCCTTCG
1 CGCACAATTGCCTTCG
19146056 CATCTTTGTT
Statistics
Matches: 126, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 109 0.87
40 17 0.13
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:19148737 original size:32 final size:32
Alignment explanation
Indices: 19148672--19148737 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
19148662 AACAAGAGTA
*
19148672 ATAAAAAAATAATAAAATAACATATAAAGGAG
1 ATAAAAAAATAATAAAATAACATAAAAAGGAG
*
19148704 ATAAAATAAA-AATAAAATAA-AGTAAAAATGAG
1 ATAAAA-AAATAATAAAATAACA-TAAAAAGGAG
19148736 AT
1 AT
19148738 GACAATATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 1 0.03
32 26 0.87
33 3 0.10
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.20
Consensus pattern (32 bp):
ATAAAAAAATAATAAAATAACATAAAAAGGAG
Found at i:19149015 original size:15 final size:15
Alignment explanation
Indices: 19148992--19149025 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
19148982 TTTTAAAATT
19148992 ATAACAATAATAGTA
1 ATAACAATAATAGTA
*
19149007 ATAATAATAATAGTA
1 ATAACAATAATAGTA
19149022 ATAA
1 ATAA
19149026 AAGACTAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (15 bp):
ATAACAATAATAGTA
Found at i:19150185 original size:20 final size:18
Alignment explanation
Indices: 19150149--19150199 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
19150139 AAGGGCTATT
*
19150149 TTGTAAAGTTGTAAAATAA
1 TTGTAAA-TTGTGAAATAA
19150168 GTTGTAAATATGTGAAATAA
1 -TTGTAAAT-TGTGAAATAA
19150188 TTG-AAATTGTGA
1 TTGTAAATTGTGA
19150200 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (18 bp):
TTGTAAATTGTGAAATAA
Found at i:19150974 original size:43 final size:44
Alignment explanation
Indices: 19150918--19151004 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 44
19150908 TATATATAAG
* * * *
19150918 GCATCTGAGCTCGTTGAGTTGAT-CAAGTTCATTATGGATGCGA
1 GCATCCGAACTCGTTGAATTGATCCAAGTTCATAATGGATGCGA
*
19150961 GCATCCGAACTCGTTGAATTGGTCCAAGTTCATAATGGATGCGA
1 GCATCCGAACTCGTTGAATTGATCCAAGTTCATAATGGATGCGA
19151005 TACATGTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
43 19 0.50
44 19 0.50
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (44 bp):
GCATCCGAACTCGTTGAATTGATCCAAGTTCATAATGGATGCGA
Found at i:19153036 original size:19 final size:22
Alignment explanation
Indices: 19153012--19153064 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
19153002 CGGCTTGAGG
19153012 ACACGGGCGTGT-CCTG-G-GC
1 ACACGGGCGTGTCCCTGTGCGC
* *
19153031 ACACGGGTGTGTCCCTGTGCTC
1 ACACGGGCGTGTCCCTGTGCGC
19153053 ACACGGGCGTGT
1 ACACGGGCGTGT
19153065 GACCCTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 11 0.39
20 4 0.14
21 1 0.04
22 12 0.43
ACGTcount: A:0.11, C:0.30, G:0.38, T:0.21
Consensus pattern (22 bp):
ACACGGGCGTGTCCCTGTGCGC
Found at i:19154739 original size:14 final size:14
Alignment explanation
Indices: 19154720--19154757 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
19154710 GTTTGTCAGT
* *
19154720 AAAATATTTTTTGG
1 AAAATAATTTCTGG
19154734 AAAATAATTTCTGG
1 AAAATAATTTCTGG
19154748 AAAATAATTT
1 AAAATAATTT
19154758 ACTTTTCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.42
Consensus pattern (14 bp):
AAAATAATTTCTGG
Found at i:19154776 original size:19 final size:19
Alignment explanation
Indices: 19154749--19154786 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
19154739 AATTTCTGGA
19154749 AAATAATTTACTTTTCTAG
1 AAATAATTTACTTTTCTAG
*
19154768 AAATGATTTACTTTTCTAG
1 AAATAATTTACTTTTCTAG
19154787 TGTTTGGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (19 bp):
AAATAATTTACTTTTCTAG
Found at i:19157638 original size:15 final size:15
Alignment explanation
Indices: 19157593--19157638 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
19157583 GCCAATTCAA
19157593 GGAGTTGAGGATTAT
1 GGAGTTGAGGATTAT
*
19157608 GGA--AGAGGATCT-T
1 GGAGTTGAGGAT-TAT
19157621 GGAGTTGAGGATTAT
1 GGAGTTGAGGATTAT
19157636 GGA
1 GGA
19157639 AGACAAGCCG
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
13 10 0.40
14 2 0.08
15 13 0.52
ACGTcount: A:0.28, C:0.02, G:0.41, T:0.28
Consensus pattern (15 bp):
GGAGTTGAGGATTAT
Found at i:19164023 original size:33 final size:33
Alignment explanation
Indices: 19163986--19164055 Score: 83
Period size: 33 Copynumber: 2.1 Consensus size: 33
19163976 TATTTATACA
19163986 ATTATAATATT-TTATT-TAAATT-AGTAGATATTT
1 ATTAT-ATATTATTATTAT-AATTAAG-AGATATTT
*
19164019 ATTATTTATTATTATTATAATTAAGAGATATTT
1 ATTATATATTATTATTATAATTAAGAGATATTT
19164052 ATTA
1 ATTA
19164056 ATTAAATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
32 4 0.12
33 26 0.79
34 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (33 bp):
ATTATATATTATTATTATAATTAAGAGATATTT
Found at i:19164310 original size:12 final size:12
Alignment explanation
Indices: 19164295--19164343 Score: 73
Period size: 12 Copynumber: 4.2 Consensus size: 12
19164285 GAAAACAGGG
19164295 AAGAAAAAGAGA
1 AAGAAAAAGAGA
*
19164307 AAGAAAAAGGGA
1 AAGAAAAAGAGA
*
19164319 AAGAAAAAGAAA
1 AAGAAAAAGAGA
19164331 AAGAAAAAG-GA
1 AAGAAAAAGAGA
19164342 AA
1 AA
19164344 AACTAGAGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
11 3 0.09
12 30 0.91
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAGAAAAAGAGA
Found at i:19164312 original size:24 final size:24
Alignment explanation
Indices: 19164285--19164340 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
19164275 AGAAGCATTC
*
19164285 GAAAACAGGG-AAGAAAAAGAGAAA
1 GAAAA-AGGGAAAGAAAAAGAAAAA
19164309 GAAAAAGGGAAAGAAAAAGAAAAA
1 GAAAAAGGGAAAGAAAAAGAAAAA
19164333 GAAAAAGG
1 GAAAAAGG
19164341 AAAAACTAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 4 0.13
24 26 0.87
ACGTcount: A:0.70, C:0.02, G:0.29, T:0.00
Consensus pattern (24 bp):
GAAAAAGGGAAAGAAAAAGAAAAA
Found at i:19164338 original size:7 final size:6
Alignment explanation
Indices: 19164295--19164345 Score: 66
Period size: 6 Copynumber: 8.3 Consensus size: 6
19164285 GAAAACAGGG
* **
19164295 AAGAAA AAGAGA AAGAAA AAGGGA AAGAAA AAGAAA AAGAAA AAGGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AA-GAAA
19164344 AA
1 AA
19164346 CTAGAGATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
6 32 0.84
7 6 0.16
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:19165390 original size:45 final size:45
Alignment explanation
Indices: 19165325--19165424 Score: 159
Period size: 45 Copynumber: 2.2 Consensus size: 45
19165315 ATGTGCCGAC
*
19165325 TACCGTTACTGTTACCGATTC-GACACTTTGTGTGTCGAATACTGT
1 TACCGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAATACTGT
*
19165370 TACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGT
19165415 TA-CGTTACTG
1 TACCGTTACTG
19165425 CTACTGCTAC
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
44 8 0.15
45 43 0.83
46 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (45 bp):
TACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGT
Found at i:19171803 original size:33 final size:33
Alignment explanation
Indices: 19171766--19171835 Score: 83
Period size: 33 Copynumber: 2.1 Consensus size: 33
19171756 TATTTATACA
19171766 ATTATAATATT-TTATT-TAAATT-AGTAGATATTT
1 ATTAT-ATATTATTATTAT-AATTAAG-AGATATTT
*
19171799 ATTATTTATTATTATTATAATTAAGAGATATTT
1 ATTATATATTATTATTATAATTAAGAGATATTT
19171832 ATTA
1 ATTA
19171836 ATTAAATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
32 4 0.12
33 26 0.79
34 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (33 bp):
ATTATATATTATTATTATAATTAAGAGATATTT
Found at i:19173163 original size:45 final size:45
Alignment explanation
Indices: 19173098--19173198 Score: 168
Period size: 45 Copynumber: 2.2 Consensus size: 45
19173088 ATGTGCCGAC
*
19173098 TACCGTTACTGTTACCGATTC-GACACTTTGTGTGTCGAATACTGT
1 TACCGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAATACTGT
*
19173143 TACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGT
19173188 TACCGTTACTG
1 TACCGTTACTG
19173199 CTACTGCTAC
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
45 52 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.39
Consensus pattern (45 bp):
TACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGT
Found at i:19173209 original size:18 final size:18
Alignment explanation
Indices: 19173182--19173216 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19173172 GTGTGTTGAA
*
19173182 TACTGTTACCGTTACTGC
1 TACTGCTACCGTTACTGC
19173200 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
19173217 ATTACTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:19174290 original size:28 final size:27
Alignment explanation
Indices: 19174259--19174323 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
19174249 AGATAAATAA
19174259 AATAAAATCCTAAAATTTAAATAATCCT
1 AATAAAATCCTAAAATTT-AATAATCCT
* * * *
19174287 AATAATTATCTTAATATTTAATTATCCT
1 AATAA-AATCCTAAAATTTAATAATCCT
19174315 AATATAAAT
1 AATA-AAAT
19174324 AAAATGGAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (27 bp):
AATAAAATCCTAAAATTTAATAATCCT
Found at i:19174310 original size:16 final size:16
Alignment explanation
Indices: 19174289--19174319 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19174279 ATAATCCTAA
*
19174289 TAATTATCTTAATATT
1 TAATTATCCTAATATT
19174305 TAATTATCCTAATAT
1 TAATTATCCTAATAT
19174320 AAATAAAATG
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:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTATCCTAATATT
Found at i:19188377 original size:4 final size:4
Alignment explanation
Indices: 19188368--19188396 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
19188358 TGATATTTTA
19188368 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
19188397 TTAGTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:19190629 original size:25 final size:25
Alignment explanation
Indices: 19190600--19190664 Score: 80
Period size: 24 Copynumber: 2.7 Consensus size: 25
19190590 ATCTCTTGAA
* *
19190600 CTTCCCGATATATGGCTATTCGGAG
1 CTTCCCGTTATATGGCTATACGGAG
*
19190625 CTTCCCGTTA-ATGGCTCTACGGAG
1 CTTCCCGTTATATGGCTATACGGAG
*
19190649 CTACCCGTTAT-TGGCT
1 CTTCCCGTTATATGGCT
19190665 CGCATGAGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 26 0.74
25 9 0.26
ACGTcount: A:0.17, C:0.28, G:0.23, T:0.32
Consensus pattern (25 bp):
CTTCCCGTTATATGGCTATACGGAG
Found at i:19190800 original size:15 final size:15
Alignment explanation
Indices: 19190771--19190806 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
19190761 GCTCGAGAGA
19190771 GTGCT-TCCCATTAT
1 GTGCTCTCCCATTAT
*
19190785 GTGCTCTCCTATTAT
1 GTGCTCTCCCATTAT
19190800 GTGCTCT
1 GTGCTCT
19190807 AATAAGCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.11, C:0.28, G:0.17, T:0.44
Consensus pattern (15 bp):
GTGCTCTCCCATTAT
Found at i:19191071 original size:17 final size:17
Alignment explanation
Indices: 19191027--19191072 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 17
19191017 GAAATACATG
*
19191027 GAAATG-ATGGTAT-AT
1 GAAATGAATGATATAAT
*
19191042 GAAAT-ATTGATATAAT
1 GAAATGAATGATATAAT
19191058 GAAATGAATGATATA
1 GAAATGAATGATATA
19191073 TGTTTATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 10 0.40
16 7 0.28
17 8 0.32
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.33
Consensus pattern (17 bp):
GAAATGAATGATATAAT
Found at i:19195685 original size:48 final size:48
Alignment explanation
Indices: 19195614--19195807 Score: 361
Period size: 48 Copynumber: 4.0 Consensus size: 48
19195604 GAAGATAAAT
19195614 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
19195662 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
19195710 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
19195758 ATATGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
19195806 AT
1 AT
19195808 GTGTGTATAT
Statistics
Matches: 143, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 143 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:19196001 original size:37 final size:37
Alignment explanation
Indices: 19195951--19196056 Score: 178
Period size: 37 Copynumber: 2.9 Consensus size: 37
19195941 AATATATTCT
19195951 GGGTAAGACCCGAAGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGAAGACTACGTGTGGAGATTTTGTCC
19195988 GGGTAAGACCCGAAGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGAAGACTACGTGTGGAGATTTTGTCC
**
19196025 GGGTAAGACCCGATA-ACTTTGTGTGGAGATTT
1 GGGTAAGACCCGA-AGACTACGTGTGGAGATTT
19196057 CATCTGAGCT
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
37 65 0.98
38 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (37 bp):
GGGTAAGACCCGAAGACTACGTGTGGAGATTTTGTCC
Found at i:19199393 original size:40 final size:39
Alignment explanation
Indices: 19199334--19199511 Score: 218
Period size: 40 Copynumber: 4.6 Consensus size: 39
19199324 TCGTTCAAAC
* * * *
19199334 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATGGCAACCCGCACAATT
* * *
19199374 GCCTTCGGGACTTAACCCGGTTATGGTAACCCGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATGGCAACCCGCACAATT
** *
19199414 GCCTTCGGGCTTAGCCCGGATATCACAA-CTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATGGCAACCCGCACAATT
*
19199452 GCCTTCGGGCTTAGCCCGGATAT--CAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATGGCAACCCGCACAATT
19199489 GCCTTCGGGCTTAGCCCGGATAT
1 GCCTTCGGGCTTAGCCCGGATAT
19199512 CACAATTCGC
Statistics
Matches: 126, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
36 3 0.02
37 31 0.25
38 32 0.25
39 14 0.11
40 46 0.37
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATGGCAACCCGCACAATT
Found at i:19199453 original size:38 final size:39
Alignment explanation
Indices: 19199365--19199524 Score: 218
Period size: 37 Copynumber: 4.2 Consensus size: 39
19199355 TATGGTAACC
* * * *** *
19199365 CGCACAAATGCCTTCGGGACTTAACCCGGTTATGGTAACC
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
19199405 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
19199444 -GCACAATTGCCTTCGGGCTTAGCCCGGATAT--CAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
19199480 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
19199519 CGCACA
1 CGCACA
19199525 TTCATACACA
Statistics
Matches: 109, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
36 5 0.05
37 31 0.28
38 31 0.28
39 25 0.23
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:19199495 original size:75 final size:77
Alignment explanation
Indices: 19199366--19199516 Score: 234
Period size: 75 Copynumber: 2.0 Consensus size: 77
19199356 ATGGTAACCC
* *
19199366 GCACAAATGCCTTCGGGACTTAACCCGGTTATGGTAACCCGCACAATTGCCTTCGGGCTTAGCCC
1 GCACAAATGCCTTCGGGACTTAACCCGGATAT-GCAACCCGCACAATTGCCTTCGGGCTTAGCCC
19199431 GGATATCACAACT
65 GGATATCACAACT
* * *
19199444 GCACAATTGCCTTCGGG-CTTAGCCCGGATAT-CAACTCGCACAATTGCCTTCGGGCTTAGCCCG
1 GCACAAATGCCTTCGGGACTTAACCCGGATATGCAACCCGCACAATTGCCTTCGGGCTTAGCCCG
19199507 GATATCACAA
66 GATATCACAA
19199517 TTCGCACATT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
75 40 0.59
77 12 0.18
78 16 0.24
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.23
Consensus pattern (77 bp):
GCACAAATGCCTTCGGGACTTAACCCGGATATGCAACCCGCACAATTGCCTTCGGGCTTAGCCCG
GATATCACAACT
Found at i:19207303 original size:39 final size:37
Alignment explanation
Indices: 19207255--19207433 Score: 168
Period size: 39 Copynumber: 4.8 Consensus size: 37
19207245 GCTACTCGTT
* * * *
19207255 CAAACGCCTTCGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGACTTAGCCCGG-TAT-ATAACTCGCA
*
19207294 CAAATGCCTTCGGGACTTAACCCGG-ATATAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGTATATAACTCGCA
* * *
19207331 CAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGG-TAT-ATAACTCGCA
* *
19207370 CAATTGCCTTCGGGCTTAGCCCGG-ATATCAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGTATAT-AACTCGCA
* *
19207407 C-ATTGCCTTCGGGCTTAGCCCGG-ATAT
1 CAAATGCCTTCGGACTTAGCCCGGTATAT
19207434 CACAATTCGC
Statistics
Matches: 125, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
36 38 0.30
37 29 0.23
38 4 0.03
39 43 0.34
40 11 0.09
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.23
Consensus pattern (37 bp):
CAAATGCCTTCGGACTTAGCCCGGTATATAACTCGCA
Found at i:19207419 original size:36 final size:37
Alignment explanation
Indices: 19207290--19207435 Score: 233
Period size: 36 Copynumber: 3.9 Consensus size: 37
19207280 TATGGTAACC
* *
19207290 CGCACAAATGCCTTCGGGACTTAACCCGGATAT-AACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCAACT
19207327 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT--CAACT
19207366 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAACT
19207403 CGCAC-ATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
19207436 CAATTCGCAC
Statistics
Matches: 104, Mismatches: 2, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
36 41 0.39
37 27 0.26
39 36 0.35
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.23
Consensus pattern (37 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAACT
Found at i:19207430 original size:75 final size:76
Alignment explanation
Indices: 19207290--19207446 Score: 264
Period size: 75 Copynumber: 2.1 Consensus size: 76
19207280 TATGGTAACC
19207290 CGCACAAATGCCTTCGGGACTTAACCCGGATATAACTCGCACAATTGCCTTCGGGCTTAGCCCGG
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATAACTCGCACAATTGCCTTCGGGCTTAGCCCGG
19207355 ATATCACAACT
66 ATATCACAACT
* *
19207366 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCAACTCGCAC-ATTGCCTTCGGGCTTAGCCCG
1 CGCACAAATGCCTTCGGGACTTAACCCGGATAT-AACTCGCACAATTGCCTTCGGGCTTAGCCCG
*
19207429 GATATCACAATT
65 GATATCACAACT
19207441 CGCACA
1 CGCACA
19207447 TTCATACACA
Statistics
Matches: 77, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
75 51 0.66
76 26 0.34
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (76 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGATATAACTCGCACAATTGCCTTCGGGCTTAGCCCGG
ATATCACAACT
Found at i:19211263 original size:21 final size:22
Alignment explanation
Indices: 19211230--19211278 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
19211220 GCATTTTTTT
19211230 AAAAT-TAAATTAAA-A-ATAA
1 AAAATATAAATTAAATATATAA
*
19211249 AAAATATAATATTAAATATTTAA
1 AAAATATAA-ATTAAATATATAA
19211272 AAAATAT
1 AAAATAT
19211279 TTTTGACTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 5 0.20
20 3 0.12
21 6 0.24
22 1 0.04
23 10 0.40
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAATATAAATTAAATATATAA
Found at i:19211571 original size:24 final size:25
Alignment explanation
Indices: 19211544--19211593 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
19211534 TAATTATATG
19211544 TTTTAAAATTTTAATAAAAA-ATTA
1 TTTTAAAATTTTAATAAAAATATTA
* * *
19211568 TTTTTAATTTTTTATAAAAATATTA
1 TTTTAAAATTTTAATAAAAATATTA
19211593 T
1 T
19211594 ATATATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TTTTAAAATTTTAATAAAAATATTA
Found at i:19211580 original size:25 final size:27
Alignment explanation
Indices: 19211552--19211607 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 27
19211542 TGTTTTAAAA
* *
19211552 TTTTAATAAAAA-ATTAT-T-TTTAAT
1 TTTTTATAAAAATATTATATATATAAT
19211576 TTTTTATAAAAATATTATATATATAAT
1 TTTTTATAAAAATATTATATATATAAT
19211603 TTTTT
1 TTTTT
19211608 TTACATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 11 0.41
25 5 0.19
26 1 0.04
27 10 0.37
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTTTATAAAAATATTATATATATAAT
Found at i:19211633 original size:38 final size:37
Alignment explanation
Indices: 19211563--19211634 Score: 90
Period size: 38 Copynumber: 1.9 Consensus size: 37
19211553 TTTAATAAAA
* *
19211563 AATTATTTTTAATTTTTTATAAAAATATTATATATAT
1 AATTATTTTTAATTTTTAATAAAAATAATATATATAT
* * *
19211600 AATTTTTTTTACATTTTTAATCAATATAATATATA
1 AATTATTTTTA-ATTTTTAATAAAAATAATATATA
19211635 ATATTAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 10 0.34
38 19 0.66
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (37 bp):
AATTATTTTTAATTTTTAATAAAAATAATATATATAT
Found at i:19216061 original size:6 final size:6
Alignment explanation
Indices: 19216036--19216072 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
19216026 CAATAAATTA
19216036 ATAAAT ATTAAAT -T-AAT ATAAAT ATAAAT ATAAAT AT
1 ATAAAT A-TAAAT ATAAAT ATAAAT ATAAAT ATAAAT AT
19216073 TTTTTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
4 3 0.11
5 2 0.07
6 18 0.64
7 5 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
ATAAAT
Found at i:19216731 original size:12 final size:12
Alignment explanation
Indices: 19216716--19216741 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19216706 ATACATTTAA
19216716 AAATATTAAAAC
1 AAATATTAAAAC
19216728 AAATATTAAAAC
1 AAATATTAAAAC
19216740 AA
1 AA
19216742 GAAACAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATATTAAAAC
Found at i:19223344 original size:21 final size:21
Alignment explanation
Indices: 19223320--19223362 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
19223310 TCTCGAGGTA
*
19223320 GAGGTGAACGGCCTCATTGTG
1 GAGGTGAACGACCTCATTGTG
*
19223341 GAGGTGAACGACCTCGTTGTG
1 GAGGTGAACGACCTCATTGTG
19223362 G
1 G
19223363 TCTCCCCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.40, T:0.23
Consensus pattern (21 bp):
GAGGTGAACGACCTCATTGTG
Found at i:19223830 original size:17 final size:17
Alignment explanation
Indices: 19223808--19223848 Score: 66
Period size: 16 Copynumber: 2.4 Consensus size: 17
19223798 TATAATTTTT
19223808 TTAAATTTTTTTTCAAC
1 TTAAATTTTTTTTCAAC
19223825 TTAAA-TTTTTTTCAAC
1 TTAAATTTTTTTTCAAC
19223841 TTCAAATT
1 TT-AAATT
19223849 GTTGTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 13 0.59
17 8 0.36
18 1 0.05
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAATTTTTTTTCAAC
Found at i:19223895 original size:23 final size:22
Alignment explanation
Indices: 19223857--19223907 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 22
19223847 TTGTTGTTTC
*
19223857 TTTTTCAAATTTTTTTCACTTT
1 TTTTTCAAATTCTTTTCACTTT
*
19223879 TGTTTTCATATTCTTTTCACTTT
1 T-TTTTCAAATTCTTTTCACTTT
19223902 TTTTTC
1 TTTTTC
19223908 TTTTTTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.14, C:0.16, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTTCAAATTCTTTTCACTTT
Found at i:19231065 original size:15 final size:15
Alignment explanation
Indices: 19231045--19231074 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19231035 CATTTTATTT
*
19231045 ATATTAGGATAATTA
1 ATATTAAGATAATTA
19231060 ATATTAAGATAATTA
1 ATATTAAGATAATTA
19231075 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:19231118 original size:10 final size:10
Alignment explanation
Indices: 19231099--19231130 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
19231089 ATTTAGGATT
19231099 TTAT-TTTAA
1 TTATCTTTAA
19231108 TTATCTTTAA
1 TTATCTTTAA
19231118 TTATCTTTAA
1 TTATCTTTAA
19231128 TTA
1 TTA
19231131 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:19237421 original size:6 final size:6
Alignment explanation
Indices: 19237419--19237520 Score: 116
Period size: 6 Copynumber: 16.0 Consensus size: 6
19237409 AATTTTTATT
*
19237419 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA TTTTT- TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
19237466 TTTTTA TTTTTA TTTTATT TATTTTA TCTTATTA TTTTATTA TTTATTA
1 TTTTTA TTTTTA TTTT-TA T-TTTTA T-TT-TTA -TTT-TTA TTT-TTA
19237515 TTTTTA
1 TTTTTA
19237521 GATATTAATA
Statistics
Matches: 86, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
5 5 0.06
6 52 0.60
7 16 0.19
8 12 0.14
9 1 0.01
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:19237463 original size:29 final size:29
Alignment explanation
Indices: 19237417--19237520 Score: 110
Period size: 29 Copynumber: 3.7 Consensus size: 29
19237407 CCAATTTTTA
19237417 TTTTTTTATTTTTATTTTTATTTTTATTT
1 TTTTTTTATTTTTATTTTTATTTTTATTT
*
19237446 TTATTTTCATTTTT-TTTTTATTTTTATTT
1 TT-TTTTTATTTTTATTTTTATTTTTATTT
* * *
19237475 TTATTTTA--TTTA-TTTTA-TCTTATTA
1 TTTTTTTATTTTTATTTTTATTTTTATTT
*
19237500 TTTTATTATTTATTATTTTTA
1 TTTTTTTATTT-TTATTTTTA
19237521 GATATTAATA
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
25 12 0.19
26 8 0.13
27 1 0.02
28 7 0.11
29 24 0.39
30 10 0.16
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (29 bp):
TTTTTTTATTTTTATTTTTATTTTTATTT
Found at i:19239144 original size:20 final size:20
Alignment explanation
Indices: 19239116--19239163 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
19239106 AATTTAGGAT
* *
19239116 TTTAT-TTTAATTATATTTA
1 TTTATCTTTAATTAAATGTA
19239135 TTTATCTTTAATTAAATGTA
1 TTTATCTTTAATTAAATGTA
19239155 TTTATCTTT
1 TTTATCTTT
19239164 TTAGAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTATCTTTAATTAAATGTA
Found at i:19247805 original size:21 final size:21
Alignment explanation
Indices: 19247781--19247820 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19247771 AACAAAATAA
*
19247781 AAAACATTT-GAAACATTGAGG
1 AAAA-ATTTAGAAAAATTGAGG
19247802 AAAAATTTAGAAAAATTGA
1 AAAAATTTAGAAAAATTGA
19247821 ACTGTAGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.55, C:0.05, G:0.15, T:0.25
Consensus pattern (21 bp):
AAAAATTTAGAAAAATTGAGG
Found at i:19248785 original size:41 final size:41
Alignment explanation
Indices: 19248720--19248969 Score: 198
Period size: 41 Copynumber: 6.1 Consensus size: 41
19248710 ACTTTACTCC
* * ** *
19248720 ATTCAAGGTTACCAGAGTGTAAACAAGGGCACGTATGTGCT
1 ATTCAAGGGTACCAAAGTACAAACAAGGGCACGTATGTGCA
* * * * *
19248761 ATTCAAGAGTACCGAAGTACAAAC-AGAGGTACATTTGTGCA
1 ATTCAAGGGTACCAAAGTACAAACAAG-GGCACGTATGTGCA
* ** *
19248802 ATT-TAGGGTACCAAAGTACAAACAAGGGCATTTATATGCA
1 ATTCAAGGGTACCAAAGTACAAACAAGGGCACGTATGTGCA
* * * *
19248842 ATTCATGGGTGCCAAAGTACAAACAAGGGCATGTATGTGAA
1 ATTCAAGGGTACCAAAGTACAAACAAGGGCACGTATGTGCA
* ** * * ** *
19248883 ATTCAGGGGTAATAAAGTACAAATAATGGCATATATGTGTA
1 ATTCAAGGGTACCAAAGTACAAACAAGGGCACGTATGTGCA
* * * * *
19248924 ATTTAGGGGTACCGAAGTACAAACAGGGGCACGTATATGCA
1 ATTCAAGGGTACCAAAGTACAAACAAGGGCACGTATGTGCA
19248965 ATTCA
1 ATTCA
19248970 GGGAATGATT
Statistics
Matches: 162, Mismatches: 44, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
40 31 0.19
41 131 0.81
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (41 bp):
ATTCAAGGGTACCAAAGTACAAACAAGGGCACGTATGTGCA
Found at i:19251945 original size:68 final size:68
Alignment explanation
Indices: 19251836--19252019 Score: 253
Period size: 68 Copynumber: 2.7 Consensus size: 68
19251826 AAATACATGT
* * * *
19251836 TAAGCAAGCTTATTGCTTCTGTAATGATCTATTTTAAGCATGATAATCT-CTATAGTATCGACTC
1 TAAGCATGATTATTGCTACTATAATGATCTATTTTAAGCATGATAAT-TACTATAGTATCGACTC
19251900 ATTA
65 ATTA
* * *
19251904 TAAGCATGATTATTGCTGCTTTAATGATCTATTTTAAGCATGATAATTACTATTGTATCGACTCA
1 TAAGCATGATTATTGCTACTATAATGATCTATTTTAAGCATGATAATTACTATAGTATCGACTCA
19251969 TTA
66 TTA
* * * *
19251972 TAAGCATGTTTATTACTACTATAATGATCTTTTTTAAGCATAATAATT
1 TAAGCATGATTATTGCTACTATAATGATCTATTTTAAGCATGATAATT
19252020 GTTACTGTAT
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
67 1 0.01
68 103 0.99
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (68 bp):
TAAGCATGATTATTGCTACTATAATGATCTATTTTAAGCATGATAATTACTATAGTATCGACTCA
TTA
Found at i:19252010 original size:34 final size:34
Alignment explanation
Indices: 19251857--19252012 Score: 117
Period size: 34 Copynumber: 4.6 Consensus size: 34
19251847 ATTGCTTCTG
*
19251857 TAATGATCTATTTTAAGCATGA-TAAT-CT-CTA
1 TAATGATCTATTTTAAGCATGATTATTACTACTA
* * * *
19251888 TAGTATCGA-CTCATTATAAGCATGATTATTGCTGCTT
1 TA--AT-GATCT-ATTTTAAGCATGATTATTACTACTA
* * *
19251925 TAATGATCTATTTTAAGCATGATAATTACTATTG
1 TAATGATCTATTTTAAGCATGATTATTACTACTA
* *
19251959 T-ATCGA-CTCATTATAAGCATGTTTATTACTACTA
1 TAAT-GATCT-ATTTTAAGCATGATTATTACTACTA
*
19251993 TAATGATCTTTTTTAAGCAT
1 TAATGATCTATTTTAAGCAT
19252013 AATAATTGTT
Statistics
Matches: 97, Mismatches: 16, Indels: 21
0.72 0.12 0.16
Matches are distributed among these distances:
31 2 0.02
33 8 0.08
34 70 0.72
35 11 0.11
36 2 0.02
37 4 0.04
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (34 bp):
TAATGATCTATTTTAAGCATGATTATTACTACTA
Found at i:19253088 original size:24 final size:24
Alignment explanation
Indices: 19253055--19253103 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
19253045 TCAAAGTATT
19253055 AGGATAAAATTATAATTTTTCATA
1 AGGATAAAATTATAATTTTTCATA
* *
19253079 AGGATTAAATTGTAATTTTTCATA
1 AGGATAAAATTATAATTTTTCATA
19253103 A
1 A
19253104 ATATGAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (24 bp):
AGGATAAAATTATAATTTTTCATA
Found at i:19255057 original size:40 final size:40
Alignment explanation
Indices: 19254955--19255138 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
19254945 AAATTGAATG
* * * * *
19254955 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
19254995 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
19255035 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
19255075 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
19255115 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
19255139 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:19258107 original size:29 final size:29
Alignment explanation
Indices: 19258075--19258206 Score: 133
Period size: 29 Copynumber: 4.6 Consensus size: 29
19258065 GTCCATCCGG
* *
19258075 CCCAATTCACGTTCATATGGCCCACTAGA
1 CCCAAATCACATTCATATGGCCCACTAGA
* * * *
19258104 CCC-AATTATATTCACATGGCCCACTAGG
1 CCCAAATCACATTCATATGGCCCACTAGA
* ** *
19258132 CCCAAATCACATTTATATGGCCCTTTAGG
1 CCCAAATCACATTCATATGGCCCACTAGA
* * *
19258161 CCCAAATCACATTTATGTGGCCCATTAGA
1 CCCAAATCACATTCATATGGCCCACTAGA
19258190 CCCAAATCACATT-ATAT
1 CCCAAATCACATTCATAT
19258207 TCATGCTCAT
Statistics
Matches: 86, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
28 25 0.29
29 61 0.71
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.27
Consensus pattern (29 bp):
CCCAAATCACATTCATATGGCCCACTAGA
Found at i:19258165 original size:57 final size:58
Alignment explanation
Indices: 19258073--19258206 Score: 137
Period size: 57 Copynumber: 2.3 Consensus size: 58
19258063 TGGTCCATCC
* * * * *
19258073 GGCCCAATTCACGTTCATATGGCCCACTAGACCC-AATTATATTCACATGGCCCACTA
1 GGCCCAAATCACATTTATATGGCCCACTAGACCCAAATCACATTCACATGGCCCACTA
** * * ** *
19258130 GGCCCAAATCACATTTATATGGCCCTTTAGGCCCAAATCACATTTATGTGGCCCATTA
1 GGCCCAAATCACATTTATATGGCCCACTAGACCCAAATCACATTCACATGGCCCACTA
*
19258188 GACCCAAATCACA-TTATAT
1 GGCCCAAATCACATTTATAT
19258207 TCATGCTCAT
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
57 34 0.54
58 29 0.46
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.27
Consensus pattern (58 bp):
GGCCCAAATCACATTTATATGGCCCACTAGACCCAAATCACATTCACATGGCCCACTA
Found at i:19259669 original size:7 final size:7
Alignment explanation
Indices: 19259657--19259682 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19259647 ATTTATAAAA
19259657 CCCAAAG
1 CCCAAAG
19259664 CCCAAAG
1 CCCAAAG
19259671 CCCAAAG
1 CCCAAAG
19259678 CCCAA
1 CCCAA
19259683 TTCATCTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.46, G:0.12, T:0.00
Consensus pattern (7 bp):
CCCAAAG
Found at i:19264798 original size:11 final size:11
Alignment explanation
Indices: 19264782--19264811 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
19264772 TAACATTAAG
19264782 AATATATATAT
1 AATATATATAT
*
19264793 AATATAAATAT
1 AATATATATAT
19264804 AATATATA
1 AATATATA
19264812 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:19265071 original size:30 final size:30
Alignment explanation
Indices: 19265045--19265105 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
19265035 ATTAATATTT
* *
19265045 AAAGCTAAATTAAATA-GCAAAATAATATG
1 AAAGCTAAAGTAAATACGAAAAATAATATG
*
19265074 AAATCTAAAGTAAATACGAAAAATAA-ATG
1 AAAGCTAAAGTAAATACGAAAAATAATATG
19265103 AAA
1 AAA
19265106 AAAGAAGAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 20 0.71
30 8 0.29
ACGTcount: A:0.62, C:0.07, G:0.10, T:0.21
Consensus pattern (30 bp):
AAAGCTAAAGTAAATACGAAAAATAATATG
Found at i:19265276 original size:13 final size:13
Alignment explanation
Indices: 19265234--19265282 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
19265224 AAAAATGTAA
19265234 TTTT-TTATATTT
1 TTTTATTATATTT
* *
19265246 GTTTTGTATATATAT
1 -TTTTAT-TATATTT
19265261 TTTTATTATATTT
1 TTTTATTATATTT
19265274 TTTTATTAT
1 TTTTATTAT
19265283 GATGTATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 19 0.61
14 6 0.19
15 6 0.19
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (13 bp):
TTTTATTATATTT
Found at i:19265343 original size:6 final size:6
Alignment explanation
Indices: 19265320--19265353 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
19265310 GAAAAAAGGA
* *
19265320 AAAAAA AAAAAT AAAAAT AAAAAT AAGAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
19265354 TAATAAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:19265350 original size:18 final size:19
Alignment explanation
Indices: 19265329--19265370 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
19265319 AAAAAAAAAA
*
19265329 AATAAAAATAA-AAATAAG
1 AATAAAAATAATAAAGAAG
19265347 AAT-AAAATAATAAAGAAG
1 AATAAAAATAATAAAGAAG
19265365 -ATAAAA
1 AATAAAA
19265371 TCACCTTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (19 bp):
AATAAAAATAATAAAGAAG
Done.