Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 24 of 218
Found at i:8099135 original size:13 final size:13
Alignment explanation
Indices: 8099117--8099337 Score: 90
Period size: 13 Copynumber: 17.8 Consensus size: 13
8099107 GGTCAGTCTG
8099117 TTATGTATGTATA
1 TTATGTATGTATA
8099130 TTATGTATGT-TA
1 TTATGTATGTATA
8099142 TGCATAT-TACT-T-T-
1 T---TATGTA-TGTATA
* *
8099155 TTATGTATGTCTG
1 TTATGTATGTATA
8099168 TTATGTATGTATA
1 TTATGTATGTATA
8099181 TTATGTATG-ATA
1 TTATGTATGTATA
*
8099193 TGCATAT-TACTGTCTA
1 T---TATGTA-TGTATA
*
8099209 -T-T-TATGTCA-G
1 TTATGTATGT-ATA
8099219 TTATGTATGTATA
1 TTATGTATGTATA
8099232 TTATGTA-GTATA
1 TTATGTATGTATA
8099244 TTA--T-TG--T-
1 TTATGTATGTATA
*
8099251 TTATGTATGTATG
1 TTATGTATGTATA
*
8099264 TTATGTTATGTTTA
1 TTATG-TATGTATA
*
8099278 TTACTG-CT-TATA
1 TTA-TGTATGTATA
*
8099290 ATATGTATGTATA
1 TTATGTATGTATA
*
8099303 TCATGTATGTATA
1 TTATGTATGTATA
*
8099316 TTACAGT-T-TATA
1 TTA-TGTATGTATA
8099328 TTATGTATGT
1 TTATGTATGT
8099338 GCAGTGTTTT
Statistics
Matches: 159, Mismatches: 17, Indels: 64
0.66 0.07 0.27
Matches are distributed among these distances:
7 3 0.02
8 1 0.01
9 1 0.01
10 11 0.07
11 11 0.07
12 34 0.21
13 68 0.43
14 17 0.11
15 11 0.07
16 2 0.01
ACGTcount: A:0.27, C:0.05, G:0.15, T:0.53
Consensus pattern (13 bp):
TTATGTATGTATA
Found at i:8099136 original size:9 final size:9
Alignment explanation
Indices: 8099122--8099238 Score: 57
Period size: 9 Copynumber: 12.7 Consensus size: 9
8099112 GTCTGTTATG
8099122 TATGTATAT
1 TATGTATAT
*
8099131 TATGTATGT
1 TATGTATAT
*
8099140 TATGCATAT
1 TATGTATAT
8099149 TACT-T-T-T
1 TA-TGTATAT
*
8099156 TATGTAT-G
1 TATGTATAT
*
8099164 TCTGT-TAT
1 TATGTATAT
8099172 GTATGTATAT
1 -TATGTATAT
8099182 TATGTATGA-
1 TATGTAT-AT
*
8099191 TATGCATAT
1 TATGTATAT
*
8099200 TACTGTCTATT
1 TA-TGTATA-T
8099211 TATGTCAGTTAT
1 TATGT-A--TAT
8099223 GTATGTATAT
1 -TATGTATAT
8099233 TATGTA
1 TATGTA
8099239 GTATATTATT
Statistics
Matches: 82, Mismatches: 12, Indels: 28
0.67 0.10 0.23
Matches are distributed among these distances:
6 1 0.01
7 5 0.06
8 7 0.09
9 42 0.51
10 15 0.18
11 3 0.04
12 2 0.02
13 7 0.09
ACGTcount: A:0.26, C:0.06, G:0.15, T:0.52
Consensus pattern (9 bp):
TATGTATAT
Found at i:8099188 original size:51 final size:51
Alignment explanation
Indices: 8099112--8099238 Score: 209
Period size: 51 Copynumber: 2.5 Consensus size: 51
8099102 TGAAAGGTCA
* * *
8099112 GTCTGTTATGTATGTATATTATGTATGTTATGCATATTACTTTTTATGTAT
1 GTCTGTTATGTATGTATATTATGTATGATATGCATATTACTGTCTATGTAT
*
8099163 GTCTGTTATGTATGTATATTATGTATGATATGCATATTACTGTCTATTTAT
1 GTCTGTTATGTATGTATATTATGTATGATATGCATATTACTGTCTATGTAT
*
8099214 GTCAGTTATGTATGTATATTATGTA
1 GTCTGTTATGTATGTATATTATGTA
8099239 GTATATTATT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 71 1.00
ACGTcount: A:0.25, C:0.06, G:0.17, T:0.52
Consensus pattern (51 bp):
GTCTGTTATGTATGTATATTATGTATGATATGCATATTACTGTCTATGTAT
Found at i:8110930 original size:16 final size:18
Alignment explanation
Indices: 8110909--8110948 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
8110899 TTGCAATTAA
8110909 TTTTTTATAT-AAA-ATT
1 TTTTTTATATCAAAGATT
*
8110925 TTTTTTATTTCAAAGATT
1 TTTTTTATATCAAAGATT
8110943 TTTTTT
1 TTTTTT
8110949 GTTATGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.43
17 3 0.14
18 9 0.43
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTTTATATCAAAGATT
Found at i:8113782 original size:13 final size:13
Alignment explanation
Indices: 8113764--8113788 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8113754 AAATCTGTTT
8113764 TGAGTGCTGCTCA
1 TGAGTGCTGCTCA
8113777 TGAGTGCTGCTC
1 TGAGTGCTGCTC
8113789 TTGTTAAGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.24, G:0.32, T:0.32
Consensus pattern (13 bp):
TGAGTGCTGCTCA
Found at i:8115342 original size:9 final size:9
Alignment explanation
Indices: 8115330--8115388 Score: 66
Period size: 9 Copynumber: 6.4 Consensus size: 9
8115320 AAATAAAAAA
8115330 AATTCGGGT
1 AATTCGGGT
*
8115339 AATTTGGGT
1 AATTCGGGT
*
8115348 ATTTTTC-GGT
1 A--ATTCGGGT
*
8115358 AATTCGGTT
1 AATTCGGGT
8115367 AATTCGGGT
1 AATTCGGGT
8115376 AATTCGGGT
1 AATTCGGGT
8115385 AATT
1 AATT
8115389 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
8 3 0.07
9 32 0.78
10 4 0.10
11 2 0.05
ACGTcount: A:0.22, C:0.08, G:0.27, T:0.42
Consensus pattern (9 bp):
AATTCGGGT
Found at i:8116139 original size:18 final size:17
Alignment explanation
Indices: 8116111--8116145 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8116101 ATTATTAAGA
*
8116111 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
8116128 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
8116146 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:8116366 original size:44 final size:45
Alignment explanation
Indices: 8116302--8116398 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
8116292 CTATTACACA
*
8116302 TCCATTCCATTCAACCAAACACA-AGAA-TACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGAATTACTATTACGCCTCTAT
* * *
8116346 TCCATTACATTCAACTAAACAATTGAATTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
8116391 TCCATTAC
1 TCCATTAC
8116399 GCCTCTATTC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.47
45 24 0.51
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
Found at i:8116399 original size:16 final size:16
Alignment explanation
Indices: 8116378--8116410 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8116368 TTGAATTGCT
8116378 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
8116394 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
8116410 A
1 A
8116411 ATACAACGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.36, G:0.06, T:0.36
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:8129724 original size:17 final size:17
Alignment explanation
Indices: 8129702--8129765 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
8129692 CATCAAAGGC
*
8129702 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
*
8129719 TACAATTAGAA-CTCTAA
1 TACAATTAGAAGCTGT-A
*
8129736 GACATAATTAGAAGCTGTA
1 TAC--AATTAGAAGCTGTA
8129755 TACAATTAGAA
1 TACAATTAGAA
8129766 CTCTAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 3 0.08
17 21 0.55
19 11 0.29
20 3 0.08
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:8129746 original size:19 final size:17
Alignment explanation
Indices: 8129720--8129773 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
8129710 AAAGCTGTAT
8129720 ACAATTAGAACTCTAAG
1 ACAATTAGAACTCTAAG
* *
8129737 ACATAATTAGAAGCTGT-AT
1 AC--AATTAGAA-CTCTAAG
8129756 ACAATTAGAACTCTAAG
1 ACAATTAGAACTCTAAG
8129773 A
1 A
8129774 TTAAATAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
16 3 0.10
17 12 0.41
19 11 0.38
20 3 0.10
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (17 bp):
ACAATTAGAACTCTAAG
Found at i:8129752 original size:36 final size:36
Alignment explanation
Indices: 8129705--8129773 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
8129695 CAAAGGCTAC
8129705 AATTAAAAGCTGTATACAATTAGAACTCTAAGACAT
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGACAT
*
8129741 AATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGA
8129774 TTAAATAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (36 bp):
AATTAAAAGCTGTATACAATTAGAACTCTAAGACAT
Found at i:8130016 original size:21 final size:23
Alignment explanation
Indices: 8129975--8130018 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
8129965 CGACGCCCTC
*
8129975 GTCACATCTTCCTTATGGAACTG
1 GTCACATCTTCCCTATGGAACTG
8129998 GTCA-ATCTTCCCT-TGGAACTG
1 GTCACATCTTCCCTATGGAACTG
8130019 CCACAATGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 8 0.40
23 4 0.20
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.34
Consensus pattern (23 bp):
GTCACATCTTCCCTATGGAACTG
Found at i:8134831 original size:36 final size:36
Alignment explanation
Indices: 8134777--8134845 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
8134767 CAAAGGCTAC
8134777 AATTAAAAGCAGTATACAATTAGAACTCTAAGACAT
1 AATTAAAAGCAGTATACAATTAGAACTCTAAGACAT
* * *
8134813 AATTAGAAGCTGTTTACAATTAGAACTCTAAGA
1 AATTAAAAGCAGTATACAATTAGAACTCTAAGA
8134846 TTAAATAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (36 bp):
AATTAAAAGCAGTATACAATTAGAACTCTAAGACAT
Found at i:8135509 original size:18 final size:18
Alignment explanation
Indices: 8135486--8135520 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8135476 ATTTAACTCT
*
8135486 AATTTCTCCTTTTATTTC
1 AATTTCTCATTTTATTTC
*
8135504 AATTTCTTATTTTATTT
1 AATTTCTCATTTTATTT
8135521 ATATATAGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.14, G:0.00, T:0.66
Consensus pattern (18 bp):
AATTTCTCATTTTATTTC
Found at i:8137932 original size:21 final size:22
Alignment explanation
Indices: 8137908--8137950 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8137898 AACGTCCAGC
*
8137908 AACAAAAAAT-CAAGAAAATAG
1 AACAAAAAATGAAAGAAAATAG
*
8137929 AACAAGAAATGAAAGAAAATAG
1 AACAAAAAATGAAAGAAAATAG
8137951 GCGATAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.70, C:0.07, G:0.14, T:0.09
Consensus pattern (22 bp):
AACAAAAAATGAAAGAAAATAG
Found at i:8138134 original size:15 final size:16
Alignment explanation
Indices: 8138114--8138143 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8138104 GGGTTGGGAC
8138114 AAAAATT-AACAAAAA
1 AAAAATTAAACAAAAA
8138129 AAAAATTAAACAAAA
1 AAAAATTAAACAAAA
8138144 CGATTCAAAC
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:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAAATTAAACAAAAA
Found at i:8138362 original size:42 final size:42
Alignment explanation
Indices: 8138315--8138463 Score: 111
Period size: 42 Copynumber: 3.5 Consensus size: 42
8138305 AGGTTTATAC
* ** * * *
8138315 TTCGATTTATCCGACGATGCATTTGTGTGTTAGTATATTTGA
1 TTCGATTTATCCGATGATGCACCTATGTGTCAGTATAATTGA
* * *
8138357 TTCGATTCATCCAATGATGCACCTATGTGTCAGTATAATTGC
1 TTCGATTTATCCGATGATGCACCTATGTGTCAGTATAATTGA
* * * * ** **
8138399 TTCGACTTATTCGATGATGC-TCTATGTATGCCAGTATGTTTCC
1 TTCGATTTATCCGATGATGCACCTATG--TGTCAGTATAATTGA
*
8138442 TTCGACTTATCCGATGATGCAC
1 TTCGATTTATCCGATGATGCAC
8138464 TACAAGTGCT
Statistics
Matches: 84, Mismatches: 20, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
41 5 0.06
42 49 0.58
43 30 0.36
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (42 bp):
TTCGATTTATCCGATGATGCACCTATGTGTCAGTATAATTGA
Found at i:8139095 original size:22 final size:22
Alignment explanation
Indices: 8139065--8139107 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
8139055 ACACCAAAAC
*
8139065 AGGCTTTTAACGGCGCTTTTTT
1 AGGCCTTTAACGGCGCTTTTTT
*
8139087 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAACGGCGCTTTTT
8139108 AGCAACGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.21, G:0.26, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAACGGCGCTTTTTT
Found at i:8139409 original size:129 final size:128
Alignment explanation
Indices: 8139256--8139499 Score: 278
Period size: 129 Copynumber: 1.9 Consensus size: 128
8139246 GTGGGGAAAG
* * * * ** ** *
8139256 CGCCGCTAAAGATCAGGGTTTTTAGCG-GCATTTTTGCGACAGGCGCCGCTAAAGATTAAGGTCT
1 CGCCGCTAAAGACCAGGATCTTTAGCGCGC-TTTTT-CCACAAACGCCGCTAAAGACCAAGATCT
8139320 TTAGCGACGCTTTTCCCACAAAC-TC-CATTAAAGACCCTGATCTTTAGCGGCGCTTTCTCCACA
64 TTAGCGACGCTTTTCCCACAAACGTCGC--TAAAGACCCTGATCTTTAGCGGCGCTTTCTCCACA
8139383 AA
127 AA
* * *
8139385 CGCCGCTAAAGACCATGATCTTTAGTGTCGCTTTTTCCACAAACGCCGCTAAAGACCATGATCTT
1 CGCCGCTAAAGACCAGGATCTTTAGCG-CGCTTTTTCCACAAACGCCGCTAAAGACCAAGATCTT
* * * *
8139450 TAGTGTCGCTTTTTCCACAAACGTCGCTAAAGACCCTTATCTTTAGCGGC
65 TAGCGACGCTTTTCCCACAAACGTCGCTAAAGACCCTGATCTTTAGCGGC
8139500 ATTTTTTTAC
Statistics
Matches: 95, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
129 85 0.89
130 7 0.07
131 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (128 bp):
CGCCGCTAAAGACCAGGATCTTTAGCGCGCTTTTTCCACAAACGCCGCTAAAGACCAAGATCTTT
AGCGACGCTTTTCCCACAAACGTCGCTAAAGACCCTGATCTTTAGCGGCGCTTTCTCCACAAA
Found at i:8139506 original size:43 final size:43
Alignment explanation
Indices: 8139192--8139526 Score: 251
Period size: 43 Copynumber: 7.7 Consensus size: 43
8139182 TGTTGGTCTA
* ** * * *
8139192 TAGCGGCGCTTCTAGCACAAACGCCGTTAAAGATCATGGTCTT
1 TAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCATGATCTT
* **** * * * *
8139235 TAGCGGCG-TTTGTGGGGAAAGCGCCGCTAAAGATCAGGGTTTT
1 TAGCGGCGCTTTTTCCACAAA-CGCCGCTAAAGACCATGATCTT
* * ** ** * *
8139278 TAGCGGC-ATTTTTGCGACAGGCGCCGCTAAAGATTAAGGTCTT
1 TAGCGGCGCTTTTT-CCACAAACGCCGCTAAAGACCATGATCTT
* * * ** *
8139321 TAGCGACGCTTTTCCCACAAACTCCATTAAAGACCCTGATCTT
1 TAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCATGATCTT
*
8139364 TAGCGGCGCTTTCTCCACAAACGCCGCTAAAGACCATGATCTT
1 TAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCATGATCTT
* *
8139407 TAGTGTCGCTTTTTCCACAAACGCCGCTAAAGACCATGATCTT
1 TAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCATGATCTT
* * * * *
8139450 TAGTGTCGCTTTTTCCACAAACGTCGCTAAAGACCCTTATCTT
1 TAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCATGATCTT
** * *
8139493 TAGCGGCATTTTTTTACCAAAAACGCCACTAAAG
1 TAGCGGC-GCTTTTT-CCACAAACGCCGCTAAAG
8139527 GCCAACACCT
Statistics
Matches: 234, Mismatches: 52, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
42 6 0.03
43 202 0.86
44 11 0.05
45 15 0.06
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (43 bp):
TAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCATGATCTT
Found at i:8139907 original size:21 final size:21
Alignment explanation
Indices: 8139878--8139979 Score: 114
Period size: 21 Copynumber: 4.9 Consensus size: 21
8139868 TTTGACGCTG
* *
8139878 CTCTGCTTCCCTCACTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
**
8139899 CTCTACTTCCCTCGCTATAGC
1 CTCTACTTCCCTCGCTGCAGC
*
8139920 CTCTACTTCCCTCGCTGCCGC
1 CTCTACTTCCCTCGCTGCAGC
* * *
8139941 CTGTACTTCTCTCGCTGCCGC
1 CTCTACTTCCCTCGCTGCAGC
* *
8139962 CTCTACTTCTCTTGCTGC
1 CTCTACTTCCCTCGCTGC
8139980 CGCATCTGCT
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 70 1.00
ACGTcount: A:0.08, C:0.45, G:0.14, T:0.33
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGCAGC
Found at i:8140045 original size:66 final size:66
Alignment explanation
Indices: 8139967--8140107 Score: 205
Period size: 66 Copynumber: 2.1 Consensus size: 66
8139957 GCCGCCTCTA
*
8139967 CTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACCT
1 CTTCTCTCGCTGCCGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTGAACCT
8140030 CAG
64 CAG
* * * *
8140033 CTTCTCTCGCTGCTGTATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTCA
1 CTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTCA
8140098 G
66 G
8140099 CTTCTCTCG
1 CTTCTCTCG
8140108 ATGTTGCCTC
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
65 1 0.01
66 63 0.93
67 4 0.06
ACGTcount: A:0.13, C:0.27, G:0.18, T:0.41
Consensus pattern (66 bp):
CTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTCA
G
Found at i:8140123 original size:66 final size:65
Alignment explanation
Indices: 8139967--8140131 Score: 197
Period size: 66 Copynumber: 2.5 Consensus size: 65
8139957 GCCGCCTCTA
* * * * *
8139967 CTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGAACCTCA
1 CTTCTCTCGATGCTGCATCCGCTTTAAGTTG-TGCTGGAGTTCTTCATACTTTCGTTGAACCTCA
8140032 G
65 G
* * * *
8140033 CTTCTCTCGCTGCTGTATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTGAACCTC
1 CTTCTCTCGATGCTGCATCCGCTTTAAGTTGT-GCTGGAGTTCTTCATA-CTTTCGTTGAACCTC
8140097 AG
64 AG
* *
8140099 CTTCTCTCGATGTTGCCTCCGCTTTAAGTTGTG
1 CTTCTCTCGATGCTGCATCCGCTTTAAGTTGTG
8140132 TAATTTGCTC
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 2 0.02
66 81 0.93
67 4 0.05
ACGTcount: A:0.13, C:0.26, G:0.19, T:0.41
Consensus pattern (65 bp):
CTTCTCTCGATGCTGCATCCGCTTTAAGTTGTGCTGGAGTTCTTCATACTTTCGTTGAACCTCAG
Found at i:8143150 original size:16 final size:16
Alignment explanation
Indices: 8143129--8143161 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8143119 TACTCAATTA
8143129 TATCTTCAAACTTATT
1 TATCTTCAAACTTATT
8143145 TATCTTCAAACTTATT
1 TATCTTCAAACTTATT
8143161 T
1 T
8143162 CTACAAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.18, G:0.00, T:0.52
Consensus pattern (16 bp):
TATCTTCAAACTTATT
Found at i:8143271 original size:33 final size:33
Alignment explanation
Indices: 8143229--8143294 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
8143219 TATTTCTACA
8143229 TGATTAACTGACGCTGATACATTACAACAGAAG
1 TGATTAACTGACGCTGATACATTACAACAGAAG
8143262 TGATTAACTGACGCTGATACATTACAACAGAAG
1 TGATTAACTGACGCTGATACATTACAACAGAAG
8143295 AATGAAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (33 bp):
TGATTAACTGACGCTGATACATTACAACAGAAG
Found at i:8144129 original size:33 final size:32
Alignment explanation
Indices: 8144092--8144153 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
8144082 GAAAAATAAT
* *
8144092 AATTAAACTATACAACTAAAATATAACCAAAAA
1 AATTAAACTATACAA-AAAAAAATAACCAAAAA
8144125 AATTAAACTATACAAAAAAAAATAACCAA
1 AATTAAACTATACAAAAAAAAATAACCAA
8144154 CTTAAAGATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.66, C:0.15, G:0.00, T:0.19
Consensus pattern (32 bp):
AATTAAACTATACAAAAAAAAATAACCAAAAA
Found at i:8145668 original size:11 final size:11
Alignment explanation
Indices: 8145640--8145686 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
8145630 TAAATTTTAG
8145640 TTTTTTTTAT-
1 TTTTTTTTATA
*
8145650 TTCCTTTTTATA
1 TT-TTTTTTATA
8145662 TTTTTTTTATA
1 TTTTTTTTATA
*
8145673 -TTTTCTTATA
1 TTTTTTTTATA
8145683 TTTT
1 TTTT
8145687 GGTCCTGTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 11 0.35
11 18 0.58
12 2 0.06
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTTTATA
Found at i:8145681 original size:21 final size:21
Alignment explanation
Indices: 8145640--8145686 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
8145630 TAAATTTTAG
*
8145640 TTTTTTTTATTTCCTTTTTATA
1 TTTTTTTTATTT-CTTCTTATA
8145662 TTTTTTTTATATT-TTCTTATA
1 TTTTTTTTAT-TTCTTCTTATA
8145683 TTTT
1 TTTT
8145687 GGTCCTGTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 11 0.48
22 10 0.43
23 2 0.09
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTTTTATTTCTTCTTATA
Found at i:8146448 original size:89 final size:89
Alignment explanation
Indices: 8146348--8146588 Score: 455
Period size: 89 Copynumber: 2.7 Consensus size: 89
8146338 TACCCTTAAA
*
8146348 CCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCTTAAACCCTAACTC
1 CCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACCCTAACTC
8146413 GACCCCGAATCACTAACCACTAAC
66 GACCCCGAATCACTAACCACTAAC
8146437 CCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACCCTAACTC
1 CCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACCCTAACTC
*
8146502 GACCCCGAATCACTAACCCCTAAC
66 GACCCCGAATCACTAACCACTAAC
*
8146526 CCCTAAATATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACCCTAAC
1 CCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACCCTAAC
8146589 CCTAAATCCC
Statistics
Matches: 149, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 149 1.00
ACGTcount: A:0.46, C:0.25, G:0.02, T:0.28
Consensus pattern (89 bp):
CCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACCCTAACTC
GACCCCGAATCACTAACCACTAAC
Found at i:8146595 original size:20 final size:21
Alignment explanation
Indices: 8146570--8146608 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8146560 ACTAATTAAT
8146570 CTAAAT-CCTAAACCCTAACC
1 CTAAATCCCTAAACCCTAACC
*
8146590 CTAAATCCCTAACCCCTAA
1 CTAAATCCCTAAACCCTAA
8146609 ACATTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.21
Consensus pattern (21 bp):
CTAAATCCCTAAACCCTAACC
Found at i:8146660 original size:80 final size:77
Alignment explanation
Indices: 8146348--8146669 Score: 293
Period size: 89 Copynumber: 3.8 Consensus size: 77
8146338 TACCCTTAAA
* *
8146348 CCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCTTAAACCCTAACTC
1 CCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCT-A---
*
8146413 GACCCCGAATCACTAACCACTAAC
62 -A-CCCTAA--A-T--CC-CTAAC
*
8146437 CCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACCCTAACTC
1 CCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCT-A---
*
8146502 GACCCCGAATCACTAACCCCTAAC
62 -A-CCC---T-A--AATCCCTAAC
* *
8146526 CCCTAAATATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACCCTAACCC
1 CCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCTAACCC
8146591 TAAATCCCTAAC
66 TAAATCCCTAAC
* * * * *
8146603 CCCTAAACATTATTTAATATTATATAATTTAAAATATATTAATTAGTCTAAACCCTAAACTCTAA
1 CCCTAAACATTATTTAATA-TATA-AA-TTAAAAAACACTAATTAATCTAAACCCTAAACCCTAA
8146668 CC
63 CC
8146670 TAACACCGAA
Statistics
Matches: 212, Mismatches: 12, Indels: 27
0.84 0.05 0.11
Matches are distributed among these distances:
77 27 0.13
78 4 0.02
79 3 0.01
80 34 0.16
83 3 0.01
84 1 0.00
88 1 0.00
89 134 0.63
90 2 0.01
93 2 0.01
95 1 0.00
ACGTcount: A:0.45, C:0.24, G:0.02, T:0.30
Consensus pattern (77 bp):
CCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCTAACCC
TAAATCCCTAAC
Found at i:8147227 original size:41 final size:42
Alignment explanation
Indices: 8147169--8147283 Score: 148
Period size: 41 Copynumber: 2.8 Consensus size: 42
8147159 AAATGTTTTT
* *
8147169 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGTA-C-GAGCATTA
1 GCGGCGCTTATTAAAAAACGCCGCTAAAGG-ACCTGAGCATTA
* *
8147210 GCGGCGCTTATTTAAAAACGCCACTAAA-GACCTGAGCATTA
1 GCGGCGCTTATTAAAAAACGCCGCTAAAGGACCTGAGCATTA
*
8147251 GAGGCGCTTATTAAAAAACGCCGCTAAA-GACCT
1 GCGGCGCTTATTAAAAAACGCCGCTAAAGGACCT
8147284 CCGCTAAAGA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.02
40 2 0.03
41 63 0.95
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (42 bp):
GCGGCGCTTATTAAAAAACGCCGCTAAAGGACCTGAGCATTA
Found at i:8147287 original size:13 final size:13
Alignment explanation
Indices: 8147271--8147296 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8147261 TTAAAAAACG
8147271 CCGCTAAAGACCT
1 CCGCTAAAGACCT
8147284 CCGCTAAAGACCT
1 CCGCTAAAGACCT
8147297 GAGAATTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.38, G:0.15, T:0.15
Consensus pattern (13 bp):
CCGCTAAAGACCT
Found at i:8147315 original size:54 final size:54
Alignment explanation
Indices: 8147233--8147337 Score: 183
Period size: 54 Copynumber: 1.9 Consensus size: 54
8147223 AAAAACGCCA
*
8147233 CTAAAGACCTGAGCATTAGAGGCGCTTATTAAAAAACGCCGCTAAAGACCTCCG
1 CTAAAGACCTGAGAATTAGAGGCGCTTATTAAAAAACGCCGCTAAAGACCTCCG
* *
8147287 CTAAAGACCTGAGAATTAGCGGCGCTTATTAAAAAACGGCGCTAAAGACCT
1 CTAAAGACCTGAGAATTAGAGGCGCTTATTAAAAAACGCCGCTAAAGACCT
8147338 GAGCATTAGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (54 bp):
CTAAAGACCTGAGAATTAGAGGCGCTTATTAAAAAACGCCGCTAAAGACCTCCG
Found at i:8147346 original size:41 final size:41
Alignment explanation
Indices: 8147284--8147418 Score: 209
Period size: 41 Copynumber: 3.3 Consensus size: 41
8147274 CTAAAGACCT
*
8147284 CCGCTAAAGACCTGAGAATTAGCGGCGCTTATTAAAAAACG
1 CCGCTAAAGACCTGAGCATTAGCGGCGCTTATTAAAAAACG
* *
8147325 GCGCTAAAGACCTGAGCATTAGCGGCGCTTATTCAAAAACG
1 CCGCTAAAGACCTGAGCATTAGCGGCGCTTATTAAAAAACG
* *
8147366 CCGCTAAAGACCTGAGCATTAGCGGCGCTT-TTCAGAAAATG
1 CCGCTAAAGACCTGAGCATTAGCGGCGCTTATT-AAAAAACG
8147407 CCGCTAAAGACC
1 CCGCTAAAGACC
8147419 CCCAAAACTC
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 2 0.02
41 84 0.98
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (41 bp):
CCGCTAAAGACCTGAGCATTAGCGGCGCTTATTAAAAAACG
Found at i:8147352 original size:95 final size:95
Alignment explanation
Indices: 8147206--8147378 Score: 301
Period size: 95 Copynumber: 1.8 Consensus size: 95
8147196 AGGTACGAGC
*
8147206 ATTAGCGGCGCTTATTTAAAAACGCCACTAAAGACCTGAGCATTAGAGGCGCTTATTAAAAAACG
1 ATTAGCGGCGCTTATTAAAAAACGCCACTAAAGACCTGAGCATTAGAGGCGCTTATTAAAAAACG
8147271 CCGCTAAAGACCTCCGCTAAAGACCTGAGA
66 CCGCTAAAGACCTCCGCTAAAGACCTGAGA
* * * *
8147301 ATTAGCGGCGCTTATTAAAAAACGGCGCTAAAGACCTGAGCATTAGCGGCGCTTATTCAAAAACG
1 ATTAGCGGCGCTTATTAAAAAACGCCACTAAAGACCTGAGCATTAGAGGCGCTTATTAAAAAACG
8147366 CCGCTAAAGACCT
66 CCGCTAAAGACCT
8147379 GAGCATTAGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 73 1.00
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (95 bp):
ATTAGCGGCGCTTATTAAAAAACGCCACTAAAGACCTGAGCATTAGAGGCGCTTATTAAAAAACG
CCGCTAAAGACCTCCGCTAAAGACCTGAGA
Found at i:8147413 original size:136 final size:136
Alignment explanation
Indices: 8147169--8147418 Score: 380
Period size: 136 Copynumber: 1.8 Consensus size: 136
8147159 AAATGTTTTT
* * *
8147169 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGTACGAGCATTAGCGGCGCTTATTTAAAAACGCCAC
1 GCGGCGCTTATTAAAAAACGCCGCTAAAGGTACGAGCATTAGCGGCGCTTATTCAAAAACGCCAC
8147234 TAAAGACCTGAGCATTAGAGGCGCTTATTAAAAAACGCCGCTAAAGACCTCCGCTAAAGACCTGA
66 TAAAGACCTGAGCATTAGAGGCGCTTATTAAAAAACGCCGCTAAAGACCTCCGCTAAAGACCTGA
8147299 GAATTA
131 GAATTA
*
8147305 GCGGCGCTTATTAAAAAACGGCGCTAAA-G-ACCTGAGCATTAGCGGCGCTTATTCAAAAACGCC
1 GCGGCGCTTATTAAAAAACGCCGCTAAAGGTA-C-GAGCATTAGCGGCGCTTATTCAAAAACGCC
* * * *
8147368 GCTAAAGACCTGAGCATTAGCGGCGCTT-TTCAGAAAATGCCGCTAAAGACC
64 ACTAAAGACCTGAGCATTAGAGGCGCTTATT-AAAAAACGCCGCTAAAGACC
8147419 CCCAAAACTC
Statistics
Matches: 103, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
134 1 0.01
135 4 0.04
136 98 0.95
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (136 bp):
GCGGCGCTTATTAAAAAACGCCGCTAAAGGTACGAGCATTAGCGGCGCTTATTCAAAAACGCCAC
TAAAGACCTGAGCATTAGAGGCGCTTATTAAAAAACGCCGCTAAAGACCTCCGCTAAAGACCTGA
GAATTA
Found at i:8147579 original size:40 final size:40
Alignment explanation
Indices: 8147455--8147589 Score: 125
Period size: 40 Copynumber: 3.4 Consensus size: 40
8147445 GGGCTTAGGC
*
8147455 TTTTT-GCGGCG-CTTTCCAAAAAACGCCGCTAATGCTT-A
1 TTTTTAGCGGCGTTTTTCC-AAAAACGCCGCTAATGCTTGA
* * * *
8147493 TTTTTAGCGGCGTTTTT-TAAAAATCGCTGCTAATGATCGA
1 TTTTTAGCGGCGTTTTTCCAAAAA-CGCCGCTAATGCTTGA
** * * *
8147533 CCTTTAGCGGCGTTTTTCCAAAAGCGCCACTACTGCTTGA
1 TTTTTAGCGGCGTTTTTCCAAAAACGCCGCTAATGCTTGA
*
8147573 TTTTTAGTGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
8147590 TGTCCAAACG
Statistics
Matches: 75, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
38 10 0.13
39 17 0.23
40 44 0.59
41 4 0.05
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTCCAAAAACGCCGCTAATGCTTGA
Found at i:8154376 original size:40 final size:38
Alignment explanation
Indices: 8154321--8154400 Score: 142
Period size: 40 Copynumber: 2.1 Consensus size: 38
8154311 TTGCTCTTTG
8154321 ATCTAACGTATAAAGACTAATTTATTAATTTTTTGAGTAA
1 ATCTAACGTATAAAGACTAATTTATTAA--TTTTGAGTAA
8154361 ATCTAACGTATAAAGACTAATTTATTAATTTTGAGTAA
1 ATCTAACGTATAAAGACTAATTTATTAATTTTGAGTAA
8154399 AT
1 AT
8154401 AGAATAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 12 0.30
40 28 0.70
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (38 bp):
ATCTAACGTATAAAGACTAATTTATTAATTTTGAGTAA
Found at i:8155227 original size:34 final size:34
Alignment explanation
Indices: 8155184--8155254 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
8155174 TAGAATGCTT
8155184 TATGGCTGGAACCAACACCAAGTCGACATTCTTC
1 TATGGCTGGAACCAACACCAAGTCGACATTCTTC
8155218 TATGGCTGGAACCAACACCAAGTCGACATTCTTC
1 TATGGCTGGAACCAACACCAAGTCGACATTCTTC
8155252 TAT
1 TAT
8155255 AAATACTCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (34 bp):
TATGGCTGGAACCAACACCAAGTCGACATTCTTC
Found at i:8162320 original size:68 final size:68
Alignment explanation
Indices: 8162236--8162410 Score: 219
Period size: 68 Copynumber: 2.6 Consensus size: 68
8162226 GAGGTTTAAT
* * * *
8162236 GTGTAAGACTAAAGCTC-AGCTATGAAAACCAATAGAGTCCGCCAAGACATTAAATATGGGGTTA
1 GTGTAAGACCATAGCTCGA-CTATGACAACCAATAGAGTCCGCCAAGACATTAAACATGGGGTTA
*
8162300 CGAG
65 CAAG
* *
8162304 GTGTAAGACCATAGCTCGACTAT-AGCAACCAATAGAGTCCGCCAGGACATTAAACATGGGGTTG
1 GTGTAAGACCATAGCTCGACTATGA-CAACCAATAGAGTCCGCCAAGACATTAAACATGGGGTTA
8162368 CAAG
65 CAAG
* * * *
8162372 ATGTAAGACCATATCTCGACTATGGCAACCAATACAGTC
1 GTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTC
8162411 TACTAGGATG
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
67 1 0.01
68 91 0.98
69 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (68 bp):
GTGTAAGACCATAGCTCGACTATGACAACCAATAGAGTCCGCCAAGACATTAAACATGGGGTTAC
AAG
Found at i:8162445 original size:68 final size:68
Alignment explanation
Indices: 8162262--8162454 Score: 203
Period size: 68 Copynumber: 2.8 Consensus size: 68
8162252 CAGCTATGAA
* * * * * *
8162262 AACCAATAGAGTCCGCCAAGACATTAAATATGGGGTTACGAGGTGTAAGACCATAGCTCGACTAT
1 AACCAATACAGTCCACCAGGACATTAAACATGGGGTTGCAAGGTGTAAGACCATAGCTCGACTAT
8162327 AGC
66 AGC
* * * *
8162330 AACCAATAGAGTCCGCCAGGACATTAAACATGGGGTTGCAAGATGTAAGACCATATCTCGACTAT
1 AACCAATACAGTCCACCAGGACATTAAACATGGGGTTGCAAGGTGTAAGACCATAGCTCGACTAT
*
8162395 GGC
66 AGC
* * * *
8162398 AACCAATACAGTCTACTAGGATGA-TAAACAT-GGGTT-CAGGTTGTGTAAGACCATAGC
1 AACCAATACAGTCCACCAGGA-CATTAAACATGGGGTTGCAAG--GTGTAAGACCATAGC
8162455 GTCAGGTGAA
Statistics
Matches: 107, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
66 3 0.03
67 5 0.05
68 98 0.92
69 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (68 bp):
AACCAATACAGTCCACCAGGACATTAAACATGGGGTTGCAAGGTGTAAGACCATAGCTCGACTAT
AGC
Found at i:8164232 original size:42 final size:43
Alignment explanation
Indices: 8164185--8164282 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 43
8164175 CCCGGTATCG
* *
8164185 CACACTTAGTGCCC-GTTATTCAACATC-TCCATTTTAATTTCA
1 CACACTTAGTGCCCTGTTATTCAACACCAT-CATTTTAATTCCA
* * * *
8164227 CACACTTAGTGCCCTTTTATTCAACCCCATCATTTTAGTTCCG
1 CACACTTAGTGCCCTGTTATTCAACACCATCATTTTAATTCCA
8164270 CACACTTAGTGCC
1 CACACTTAGTGCC
8164283 GTTTACATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 14 0.29
43 33 0.69
44 1 0.02
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (43 bp):
CACACTTAGTGCCCTGTTATTCAACACCATCATTTTAATTCCA
Found at i:8168301 original size:14 final size:14
Alignment explanation
Indices: 8168282--8168310 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8168272 GAGCCTGACA
8168282 AACTCAAGCTCCAT
1 AACTCAAGCTCCAT
8168296 AACTCAAGCTCCAT
1 AACTCAAGCTCCAT
8168310 A
1 A
8168311 TTGATCTTGA
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:0.38, C:0.34, G:0.07, T:0.21
Consensus pattern (14 bp):
AACTCAAGCTCCAT
Found at i:8170048 original size:6 final size:6
Alignment explanation
Indices: 8170037--8170065 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
8170027 GCTCGTTTTT
8170037 AATTAA AATTAA AATTAA AATTAA AATTA
1 AATTAA AATTAA AATTAA AATTAA AATTA
8170066 GTTTTTTTAA
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AATTAA
Found at i:8170184 original size:59 final size:59
Alignment explanation
Indices: 8170116--8170403 Score: 540
Period size: 59 Copynumber: 4.9 Consensus size: 59
8170106 TCAAATTATT
* *
8170116 AATTGTTAATTATATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
8170175 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
8170234 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
*
8170293 AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
*
8170352 AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
8170404 ACAAACTTGA
Statistics
Matches: 226, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 226 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.45
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:8170499 original size:24 final size:22
Alignment explanation
Indices: 8170470--8170513 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 22
8170460 AGATAAACTT
8170470 AAAATAAAAAAATATTATATTTTA
1 AAAAT-AAAAAATA-TATATTTTA
8170494 AAAATAAAAAATATATATTT
1 AAAATAAAAAATATATATTT
8170514 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATAAAAAATATATATTTTA
Found at i:8171690 original size:25 final size:25
Alignment explanation
Indices: 8171655--8171706 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
8171645 CTTCAAAGGC
*
8171655 TAGATACATATAAAAAGCTTATAAA
1 TAGATAAATATAAAAAGCTTATAAA
* * *
8171680 TAGATAAATATACAAGGTTTATAAA
1 TAGATAAATATAAAAAGCTTATAAA
8171705 TA
1 TA
8171707 ATCTAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.31
Consensus pattern (25 bp):
TAGATAAATATAAAAAGCTTATAAA
Found at i:8180208 original size:21 final size:20
Alignment explanation
Indices: 8180184--8180229 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
8180174 GGTTAATGGT
8180184 GATTAAGGTAAAATAATTAAA
1 GATTAA-GTAAAATAATTAAA
* *
8180205 GATTAAGTTAATTAATTAAA
1 GATTAAGTAAAATAATTAAA
8180225 G-TTAA
1 GATTAA
8180230 TTAAGTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 13 0.57
21 6 0.26
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (20 bp):
GATTAAGTAAAATAATTAAA
Found at i:8180228 original size:14 final size:15
Alignment explanation
Indices: 8180209--8180239 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
8180199 ATTAAAGATT
8180209 AAGTTAATTAA-TTA
1 AAGTTAATTAAGTTA
8180223 AAGTTAATTAAGTTA
1 AAGTTAATTAAGTTA
8180238 AA
1 AA
8180240 CCATGGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (15 bp):
AAGTTAATTAAGTTA
Found at i:8188409 original size:9 final size:9
Alignment explanation
Indices: 8188389--8188455 Score: 98
Period size: 9 Copynumber: 7.4 Consensus size: 9
8188379 TTTGGTTAAA
*
8188389 AATTAACTG
1 AATTAACCG
*
8188398 AATTACCCG
1 AATTAACCG
8188407 AATTAACCG
1 AATTAACCG
8188416 AATTAACCG
1 AATTAACCG
*
8188425 AATTACCCG
1 AATTAACCG
*
8188434 AATTACCCG
1 AATTAACCG
8188443 AATTAACCG
1 AATTAACCG
8188452 AATT
1 AATT
8188456 GAATTACTAC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:8188420 original size:27 final size:27
Alignment explanation
Indices: 8188389--8188455 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
8188379 TTTGGTTAAA
*
8188389 AATTAACTGAATTACCCGAATTAACCG
1 AATTAACCGAATTACCCGAATTAACCG
*
8188416 AATTAACCGAATTACCCGAATTACCCG
1 AATTAACCGAATTACCCGAATTAACCG
8188443 AATTAACCGAATT
1 AATTAACCGAATT
8188456 GAATTACTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.25
Consensus pattern (27 bp):
AATTAACCGAATTACCCGAATTAACCG
Found at i:8188522 original size:17 final size:17
Alignment explanation
Indices: 8188463--8188525 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
8188453 ATTGAATTAC
*
8188463 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
** * *
8188480 TACATAAGTCTTTGAACCAC
1 TACATAA---TTAAAAACAT
8188500 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
8188517 TACATAATT
1 TACATAATT
8188526 CTTGAAATTA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 22 0.65
20 12 0.35
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:8189733 original size:21 final size:21
Alignment explanation
Indices: 8189701--8189747 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
8189691 ACTATTTGAA
8189701 ATATACTAAGTACTGATACCT
1 ATATACTAAGTACTGATACCT
*
8189722 ATAT-CTAGAGTATTGATACCT
1 ATATACTA-AGTACTGATACCT
8189743 A-ATAC
1 ATATAC
8189748 CAAATATGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (21 bp):
ATATACTAAGTACTGATACCT
Found at i:8194922 original size:2 final size:2
Alignment explanation
Indices: 8194915--8194942 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8194905 TGCTTAACAA
8194915 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8194943 TCCCTAGCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8208891 original size:15 final size:16
Alignment explanation
Indices: 8208867--8208906 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
8208857 ATTAAAAGTT
8208867 TTTATTAAATCTTTAA
1 TTTATTAAATCTTTAA
*
8208883 TTT-TTAAATTTTTAA
1 TTTATTAAATCTTTAA
8208898 TTTATTAAA
1 TTTATTAAA
8208907 AATATTGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTATTAAATCTTTAA
Found at i:8210147 original size:14 final size:14
Alignment explanation
Indices: 8210128--8210167 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
8210118 TTGATTGCCA
8210128 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
8210142 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
8210156 GAAAAATGTTTT
1 GTAAAATGTTTT
8210168 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:8210180 original size:34 final size:35
Alignment explanation
Indices: 8210136--8210202 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
8210126 CAGTAAAATG
* *
8210136 TTTTCCGTAAAATGATTT-CTGAAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGAAAAATATTTTAC
* *
8210170 TTTTCTGTAAAATAATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGAAAAATATTTT
8210203 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGAAAAATATTTTAC
Found at i:8210188 original size:20 final size:20
Alignment explanation
Indices: 8210151--8210190 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
8210141 CGTAAAATGA
**
8210151 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATAATTTACT
*
8210171 TTTCTGTAAAATAATTTACT
1 TTTCTGAAAAATAATTTACT
8210191 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATAATTTACT
Found at i:8211152 original size:114 final size:113
Alignment explanation
Indices: 8210953--8211321 Score: 542
Period size: 114 Copynumber: 3.2 Consensus size: 113
8210943 GAAATAAGAA
* ** * *
8210953 TTAGCGGTGTTTTCCAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTACTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGTTT
* * ** *
8211017 TCGGGGATTTTGTGGCGTTTTTAAGAAAGCGCCGCTAATTTTCAAGGCT
66 TCGGGG-TTTAGTGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGCT
8211066 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGTTT
* *
8211131 TCGTGGGTTTAGCGGCGTTTTTAAGGAAGCGCCACTAATGCTCAGGGCT
66 TCG-GGGTTTAGTGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGCT
* *
8211180 TTAGCGGCGTTTTTGAGAAAGCGCCGGAAAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAG-TT
* *
8211245 TTCGGGTGTTTAGTGGCGATTTTAAGAAAGCGCCTCTAATGCTCAGGGCT
65 TTCGGG-GTTTAGTGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGCT
*
8211295 TTAGCAGCGTTTTTGAGAAAGCGCCGC
1 TTAGCGGCGTTTTTGAGAAAGCGCCGC
8211322 TAATGCTCAT
Statistics
Matches: 232, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
113 24 0.10
114 135 0.58
115 73 0.31
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (113 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGTTT
TCGGGGTTTAGTGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGCT
Found at i:8211314 original size:41 final size:41
Alignment explanation
Indices: 8211264--8211362 Score: 144
Period size: 41 Copynumber: 2.4 Consensus size: 41
8211254 TTAGTGGCGA
* *
8211264 TTTTAAGAAAGCGCCTCTAATGCTCAGGGCTTTAGCAGCGT
1 TTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCAGCGT
* *
8211305 TTTTGAGAAAGCGCCGCTAATGCTCATGGCTTTAGCGGCGT
1 TTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCAGCGT
* *
8211346 TTTTGGGGAAGCGCCGC
1 TTTTGAGAAAGCGCCGC
8211363 AAAAAAACCT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.28
Consensus pattern (41 bp):
TTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCAGCGT
Found at i:8211461 original size:73 final size:73
Alignment explanation
Indices: 8211336--8211508 Score: 233
Period size: 73 Copynumber: 2.4 Consensus size: 73
8211326 GCTCATGGCT
* * *
8211336 TTAGCGGCGTTTTTGGGGAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCT-TAGCT
1 TTAGCGGCGTTTTTGGGAAAGCACCGCAAAAAAACCTAAGCCAAACGACGCCGTTTTCTAT-GCT
8211400 TTCGGGGAA
65 TTCGGGGAA
* *
8211409 TTAGCGGCGTTTTTGGGAAAGCACCGCGAGAAAAA-CTAAGCCAAACGGCGCCGTTTTCTATGCT
1 TTAGCGGCGTTTTTGGGAAAGCACCGC-AAAAAAACCTAAGCCAAACGACGCCGTTTTCTATGCT
*
8211473 TTCGGGGAT
65 TTCGGGGAA
* **
8211482 TTGGCGGCGTTTTTATGAAAGCACCGC
1 TTAGCGGCGTTTTTGGGAAAGCACCGC
8211509 TAATGCTTAG
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
73 82 0.92
74 7 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (73 bp):
TTAGCGGCGTTTTTGGGAAAGCACCGCAAAAAAACCTAAGCCAAACGACGCCGTTTTCTATGCTT
TCGGGGAA
Found at i:8211816 original size:15 final size:15
Alignment explanation
Indices: 8211785--8211840 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
8211775 ATTATGCTTT
8211785 AGGGTTAGTGAGATTTA
1 AGGGTTAG-G-GATTTA
8211802 AGGGTTAGGGATTTA
1 AGGGTTAGGGATTTA
* *
8211817 GGGGTTAGGGTTTTA
1 AGGGTTAGGGATTTA
*
8211832 ACGGTTAGG
1 AGGGTTAGG
8211841 TTAGAGTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 26 0.74
16 1 0.03
17 8 0.23
ACGTcount: A:0.23, C:0.02, G:0.41, T:0.34
Consensus pattern (15 bp):
AGGGTTAGGGATTTA
Found at i:8212143 original size:20 final size:20
Alignment explanation
Indices: 8212119--8212185 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
8212109 TATGCTTTAG
*
8212119 GGGGTTTGGGTTATGTTTCA
1 GGGGTTAGGGTTATGTTTCA
* *
8212139 AGGGTTAGGGGTA--TTT-A
1 GGGGTTAGGGTTATGTTTCA
8212156 GGGGTTAGGGTTATGTTTCA
1 GGGGTTAGGGTTATGTTTCA
8212176 GGGGTTAGGG
1 GGGGTTAGGG
8212186 AGATTTAGGG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 12 0.31
18 3 0.08
19 3 0.08
20 21 0.54
ACGTcount: A:0.15, C:0.03, G:0.45, T:0.37
Consensus pattern (20 bp):
GGGGTTAGGGTTATGTTTCA
Found at i:8212160 original size:37 final size:37
Alignment explanation
Indices: 8212114--8212205 Score: 132
Period size: 37 Copynumber: 2.4 Consensus size: 37
8212104 GGGGGTATGC
8212114 TTTAGGGGGTTTGGGTTATGTTTCAAGGGTTAGGG-GTA
1 TTTA-GGGGTTTGGGTTATGTTTCAAGGGTTAGGGAG-A
* *
8212152 TTTAGGGGTTAGGGTTATGTTTCAGGGGTTAGGGAGA
1 TTTAGGGGTTTGGGTTATGTTTCAAGGGTTAGGGAGA
8212189 TTTAGGGGTTATGGGTT
1 TTTAGGGGTT-TGGGTT
8212206 TAGGGTTAGG
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
37 39 0.80
38 10 0.20
ACGTcount: A:0.16, C:0.02, G:0.42, T:0.39
Consensus pattern (37 bp):
TTTAGGGGTTTGGGTTATGTTTCAAGGGTTAGGGAGA
Found at i:8212162 original size:17 final size:16
Alignment explanation
Indices: 8212140--8212230 Score: 78
Period size: 17 Copynumber: 5.4 Consensus size: 16
8212130 TATGTTTCAA
8212140 GGGTTAGGGGTATTTAG
1 GGGTTAGGGG-ATTTAG
*
8212157 GGGTTAGGGTTATGTTTCAG
1 GGGTTAGGG-GA--TTT-AG
8212177 GGGTTAGGGAGATTTAG
1 GGGTTAGGG-GATTTAG
*
8212194 GGGTTATGGG-TTTA-
1 GGGTTAGGGGATTTAG
*
8212208 GGGTTAGGGGGATTTAT
1 GGGTTA-GGGGATTTAG
8212225 GGGTTA
1 GGGTTA
8212231 TTAAATTTTA
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
14 6 0.10
15 7 0.11
16 5 0.08
17 26 0.42
18 3 0.05
19 3 0.05
20 12 0.19
ACGTcount: A:0.18, C:0.01, G:0.45, T:0.36
Consensus pattern (16 bp):
GGGTTAGGGGATTTAG
Found at i:8212201 original size:31 final size:30
Alignment explanation
Indices: 8212163--8212231 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 30
8212153 TTAGGGGTTA
8212163 GGGTTAT-GTTTCAGGGGTTAGGGAGATTTAG
1 GGGTTATGGTTT-A-GGGTTAGGGAGATTTAG
* *
8212194 GGGTTATGGGTTTAGGGTTAGGGGGATTTAT
1 GGGTTAT-GGTTTAGGGTTAGGGAGATTTAG
8212225 GGGTTAT
1 GGGTTAT
8212232 TAAATTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 29 0.85
32 1 0.03
33 4 0.12
ACGTcount: A:0.17, C:0.01, G:0.43, T:0.38
Consensus pattern (30 bp):
GGGTTATGGTTTAGGGTTAGGGAGATTTAG
Found at i:8212757 original size:109 final size:109
Alignment explanation
Indices: 8212632--8212866 Score: 443
Period size: 109 Copynumber: 2.2 Consensus size: 109
8212622 CCTTTTCCGA
* *
8212632 CGTTTTTCATAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACTTCGTTTTGTTATG
1 CGTTTTTCGTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTTTGTTATG
8212697 CTAAAAATCCTTTATTTTATCTGCTAAAAATTATTAGTTTGCGG
66 CTAAAAATCCTTTATTTTATCTGCTAAAAATTATTAGTTTGCGG
8212741 CGTTTTTCGTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTTTGTTATG
1 CGTTTTTCGTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTTTGTTATG
*
8212806 CTAAAAATCCTTTATTTTATCTGCTAAAAATTATTAGTTTGTGG
66 CTAAAAATCCTTTATTTTATCTGCTAAAAATTATTAGTTTGCGG
8212850 CGTTTTTCGTAAAAACG
1 CGTTTTTCGTAAAAACG
8212867 TCGCTATTGC
Statistics
Matches: 123, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
109 123 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.38
Consensus pattern (109 bp):
CGTTTTTCGTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTTTGTTATG
CTAAAAATCCTTTATTTTATCTGCTAAAAATTATTAGTTTGCGG
Found at i:8213004 original size:149 final size:149
Alignment explanation
Indices: 8212734--8213015 Score: 501
Period size: 149 Copynumber: 1.9 Consensus size: 149
8212724 AAATTATTAG
*
8212734 TTTGCGGCGTTTTTCGTAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTT
1 TTTGCGGCGTTTTTCATAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTT
* ** *
8212799 TGTTATGCTAAAAATCCTTTATTTTATCTGCTAAAAATTATTAGTTTGTGGCGTTTTTCGTAAAA
66 TGTTATGCTAAAAAGCCTTTATTTTATCTGCTAAAAATTATTAGTTTGCAGCGTTTTTCGAAAAA
8212864 ACGTCGCTATTGCTTACCT
131 ACGTCGCTATTGCTTACCT
**
8212883 TTTGCGGCGTTTTTCATAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGATTTCGTTT
1 TTTGCGGCGTTTTTCATAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTT
8212948 TGTTATGCTAAAAAGCCTTTATTTTATCTGCTAAAAATTATTAGTTTGCAGCGTTTTTCGAAAAA
66 TGTTATGCTAAAAAGCCTTTATTTTATCTGCTAAAAATTATTAGTTTGCAGCGTTTTTCGAAAAA
8213013 ACG
131 ACG
8213016 CCACAAAAAA
Statistics
Matches: 126, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
149 126 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (149 bp):
TTTGCGGCGTTTTTCATAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTT
TGTTATGCTAAAAAGCCTTTATTTTATCTGCTAAAAATTATTAGTTTGCAGCGTTTTTCGAAAAA
ACGTCGCTATTGCTTACCT
Found at i:8213013 original size:109 final size:109
Alignment explanation
Indices: 8212883--8213114 Score: 403
Period size: 109 Copynumber: 2.1 Consensus size: 109
8212873 TTGCTTACCT
**
8212883 TTTGCGGCGTTTTTCATAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGATTTCGTTT
1 TTTGCGGCGTTTTTCATAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTT
*
8212948 TGTTATGCTAAAAAGCCTTTATTTTATCTGCTAAAAATTATTAG
66 TGTTATGCTAAAAAGCATTTATTTTATCTGCTAAAAATTATTAG
*
8212992 TTTGCAGCGTTTTTCGA-AAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTT
1 TTTGCGGCGTTTTTC-ATAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTT
*
8213056 TTGTTATGCTAAAAATCATTTATTTTATCTGCTAAAAATTATTAG
65 TTGTTATGCTAAAAAGCATTTATTTTATCTGCTAAAAATTATTAG
8213101 TTTGCGGCGTTTTT
1 TTTGCGGCGTTTTT
8213115 ACGGTGTTTT
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
109 115 0.99
110 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.39
Consensus pattern (109 bp):
TTTGCGGCGTTTTTCATAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTT
TGTTATGCTAAAAAGCATTTATTTTATCTGCTAAAAATTATTAG
Found at i:8213042 original size:258 final size:258
Alignment explanation
Indices: 8212585--8213248 Score: 1076
Period size: 258 Copynumber: 2.5 Consensus size: 258
8212575 GAAATAATTT
** * * *
8212585 TTTGTGGCGTTTTTTATAAAAACGCCGCTATTACTTACCTTTTCCGACGTTTTTCATAAAAACGC
1 TTTGTGGCGTTTTTCGTAAAAACGCCGCTATTGCTTACCTTTTGCGGCGTTTTTCATAAAAACGC
8212650 CACAAAAAATCATTTCATTTTGAACAAAACGACTTCGTTTTGTTATGCTAAAAATCCTTTATTTT
66 CACAAAAAATCATTTCATTTTGAACAAAACGACTTCGTTTTGTTATGCTAAAAATCCTTTATTTT
* *
8212715 ATCTGCTAAAAATTATTAGTTTGCGGCGTTTTTCGTAAAAACGCCACAAAAAATCATTTCATTTT
131 ATCTGCTAAAAATTATTAGTTTGCAGCGTTTTTCGAAAAAACGCCACAAAAAATCATTTCATTTT
*
8212780 GAACAAAACGACGTCGTTTTGTTATGCTAAAAATCCTTTATTTTATCTGCTAAAAATTATTAG
196 GAACAAAACGACGTCGTTTTGTTATGCTAAAAATCATTTATTTTATCTGCTAAAAATTATTAG
*
8212843 TTTGTGGCGTTTTTCGTAAAAACGTCGCTATTGCTTACCTTTTGCGGCGTTTTTCATAAAAACGC
1 TTTGTGGCGTTTTTCGTAAAAACGCCGCTATTGCTTACCTTTTGCGGCGTTTTTCATAAAAACGC
* *
8212908 CACAAAAAATCATTTCATTTTGAACAAAACGATTTCGTTTTGTTATGCTAAAAAGCCTTTATTTT
66 CACAAAAAATCATTTCATTTTGAACAAAACGACTTCGTTTTGTTATGCTAAAAATCCTTTATTTT
8212973 ATCTGCTAAAAATTATTAGTTTGCAGCGTTTTTCGAAAAAACGCCACAAAAAATCATTTCATTTT
131 ATCTGCTAAAAATTATTAGTTTGCAGCGTTTTTCGAAAAAACGCCACAAAAAATCATTTCATTTT
8213038 GAACAAAACGACGTCGTTTTGTTATGCTAAAAATCATTTATTTTATCTGCTAAAAATTATTAG
196 GAACAAAACGACGTCGTTTTGTTATGCTAAAAATCATTTATTTTATCTGCTAAAAATTATTAG
* *
8213101 TTTGCGGCGTTTTTACGGTGTTTTTCGTAAAAACGCCGCTATTGCTTATCTTTTGCGGCGTTTTT
1 TTT-----G----T--GGCGTTTTTCGTAAAAACGCCGCTATTGCTTACCTTTTGCGGCGTTTTT
* * *
8213166 GATAAAAACGTCACAAAAAATCATTTCATTTTGAACAAAACGACGTCGTTTTGTTATGCTAAAAA
55 CATAAAAACGCCACAAAAAATCATTTCATTTTGAACAAAACGACTTCGTTTTGTTATGCTAAAAA
*
8213231 TCTTTTATTTTATCTGCT
120 TCCTTTATTTTATCTGCT
8213249 TAAATGAAAT
Statistics
Matches: 375, Mismatches: 20, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
258 250 0.67
263 1 0.00
267 1 0.00
269 123 0.33
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (258 bp):
TTTGTGGCGTTTTTCGTAAAAACGCCGCTATTGCTTACCTTTTGCGGCGTTTTTCATAAAAACGC
CACAAAAAATCATTTCATTTTGAACAAAACGACTTCGTTTTGTTATGCTAAAAATCCTTTATTTT
ATCTGCTAAAAATTATTAGTTTGCAGCGTTTTTCGAAAAAACGCCACAAAAAATCATTTCATTTT
GAACAAAACGACGTCGTTTTGTTATGCTAAAAATCATTTATTTTATCTGCTAAAAATTATTAG
Found at i:8213709 original size:26 final size:27
Alignment explanation
Indices: 8213669--8213719 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
8213659 CTTATATTTT
8213669 AGCTAGAAATCGACGATG-CCAGAAGA
1 AGCTAGAAATCGACGATGACCAGAAGA
*
8213695 AGCTAGAAATTGACGATGACCAGAA
1 AGCTAGAAATCGACGATGACCAGAA
8213720 ACTGTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.43, C:0.18, G:0.25, T:0.14
Consensus pattern (27 bp):
AGCTAGAAATCGACGATGACCAGAAGA
Found at i:8215922 original size:13 final size:13
Alignment explanation
Indices: 8215904--8215929 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8215894 GAAAGTGCCG
8215904 TTTATAATAATTT
1 TTTATAATAATTT
8215917 TTTATAATAATTT
1 TTTATAATAATTT
8215930 GTGGTGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTATAATAATTT
Found at i:8216031 original size:43 final size:42
Alignment explanation
Indices: 8215977--8216170 Score: 253
Period size: 43 Copynumber: 4.5 Consensus size: 42
8215967 GTGGCGCTTT
*
8215977 CTAAAGGTCTTGCTCTTTAGCGGCGTTTTTAGGTAAAGCGCCG
1 CTAAAGGTCTTGTTCTTTAGCGGCGTTTTTAGG-AAAGCGCCG
* * *
8216020 TTAAAAGTCTTGTTCTTTAGCGGCGTTTTCAGGGAAAGCGCCG
1 CTAAAGGTCTTGTTCTTTAGCGGCGTTTTTA-GGAAAGCGCCG
* *
8216063 CTAAAGGTCTTGTTCTTTAGCGGCATTTTTATGGAAAGTGCCG
1 CTAAAGGTCTTGTTCTTTAGCGGCGTTTTTA-GGAAAGCGCCG
* * *
8216106 TTAAAGTTCTTGTTCTTTAGCGGCGTTTTTGGGAAAAGCGCCG
1 CTAAAGGTCTTGTTCTTTAGCGGCGTTTTTAGG-AAAGCGCCG
* *
8216149 CTAAAGGTCATGATCTTTAGCG
1 CTAAAGGTCTTGTTCTTTAGCG
8216171 TCTCTTATTT
Statistics
Matches: 130, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
42 2 0.02
43 126 0.97
44 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.35
Consensus pattern (42 bp):
CTAAAGGTCTTGTTCTTTAGCGGCGTTTTTAGGAAAGCGCCG
Found at i:8216122 original size:86 final size:86
Alignment explanation
Indices: 8215977--8216170 Score: 286
Period size: 86 Copynumber: 2.3 Consensus size: 86
8215967 GTGGCGCTTT
* *
8215977 CTAAAGGTCTTGCTCTTTAGCGGCGTTTTTAGGTAAAGCGCCGTTAAAAGTCTTGTTCTTTAGCG
1 CTAAAGGTCTTGATCTTTAGCGGCATTTTTAGGTAAAGCGCCGTTAAAAGTCTTGTTCTTTAGCG
8216042 GCGTTTTCAGGG-AAAGCGCCG
66 GCGTTTT-AGGGAAAAGCGCCG
* *
8216063 CTAAAGGTCTTGTTCTTTAGCGGCATTTTTATGG-AAAGTGCCGTT-AAAGTTCTTGTTCTTTAG
1 CTAAAGGTCTTGATCTTTAGCGGCATTTTTA-GGTAAAGCGCCGTTAAAAG-TCTTGTTCTTTAG
*
8216126 CGGCGTTTTTGGGAAAAGCGCCG
64 CGGCGTTTTAGGGAAAAGCGCCG
*
8216149 CTAAAGGTCATGATCTTTAGCG
1 CTAAAGGTCTTGATCTTTAGCG
8216171 TCTCTTATTT
Statistics
Matches: 99, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
85 7 0.07
86 90 0.91
87 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.35
Consensus pattern (86 bp):
CTAAAGGTCTTGATCTTTAGCGGCATTTTTAGGTAAAGCGCCGTTAAAAGTCTTGTTCTTTAGCG
GCGTTTTAGGGAAAAGCGCCG
Found at i:8217185 original size:21 final size:21
Alignment explanation
Indices: 8217160--8217202 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
8217150 TATAAACAAA
*
8217160 AAATGCTCGTAACAGCAGCAC
1 AAATGCTCGTAACAGCAACAC
*
8217181 AAATGCTTGTAACAGCAACAC
1 AAATGCTCGTAACAGCAACAC
8217202 A
1 A
8217203 TAACAATCCT
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:0.42, C:0.26, G:0.16, T:0.16
Consensus pattern (21 bp):
AAATGCTCGTAACAGCAACAC
Found at i:8219890 original size:4 final size:4
Alignment explanation
Indices: 8219883--8219917 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
8219873 TATAAATAAA
8219883 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
8219918 AAAACAGAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:8222029 original size:47 final size:47
Alignment explanation
Indices: 8221893--8222099 Score: 175
Period size: 47 Copynumber: 4.3 Consensus size: 47
8221883 ATAGTAAAAT
* * * * *
8221893 TATGGTCTTGTACA-TAGTCACATATCACATACCGAGGCCATAGCTCAGC
1 TATGGTCTTATACAGTAG-CACATATCAC--ACCGATGCCATATCCCAGA
* * * *
8221942 CATGGTCTTATAC-GGATCACATATCACACTGATGCCATATCCCAGA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCAGA
* *
8221988 TATGGTCTTATACAGTAGCACATATCACACCGATGCTATATCCCGGA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCAGA
* * * * * *
8222035 TATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAAGCCATAGCCCAGC
1 TATGGTCTTATACAGTAGCACATATCACA-----CCGATGCCATATCCCAGA
8222087 TATGGTCTTATAC
1 TATGGTCTTATAC
8222100 GGAAATCACA
Statistics
Matches: 128, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
46 26 0.20
47 54 0.42
48 10 0.08
49 12 0.09
52 26 0.20
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (47 bp):
TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCAGA
Found at i:8231454 original size:194 final size:195
Alignment explanation
Indices: 8231137--8231737 Score: 830
Period size: 194 Copynumber: 3.0 Consensus size: 195
8231127 TATTTTTACC
*
8231137 ATATTAGTAACATTTTTATTTATGTAAAATC-ATATTTTAATTTAACTATATTTAGTAATTATGT
1 ATATTAGTAACATTTTTATTTATG-AAAATCAAT-TTTTAATTTAA-TATATTTAGTAATTATCT
* *
8231201 TACATGTTTTTATTGTGAAAAAATAAGTATCGTATGCATTTTCATATTTTCATTTTCATTTAACA
63 TACATGTTTTTATTGTG-AAAAATAAGTATCATATGCATTTTGATATTTTCATTTTCATTTAACA
*
8231266 AACATGATTTTTTCAATTTTTAAAATTAAAGAATCAAAATTATTTTTTTAAAATAAAATTTATTT
127 AACATGATTTTTTCAATTTTTAAAATTAAAGAATCAAAATTATTTTTTAAAAATAAAATTTATTT
8231331 TATT
192 TATT
* * *
8231335 TTATTAGTAACATTTTTATTTATCGAAAATCAATTTTTAATTT-A-ATATTTAGTAGTTAACTTA
1 ATATTAGTAACATTTTTATTTAT-GAAAATCAATTTTTAATTTAATATATTTAGTAATTATCTTA
8231398 CATGTTTTTATTGTGAAAAATAAGTATCATATGCATTTTGATATTTTCATTTTCATTTAACAAAC
65 CATGTTTTTATTGTGAAAAATAAGTATCATATGCATTTTGATATTTTCATTTTCATTTAACAAAC
* *
8231463 ATGATTTTTTTAATTTTTAAAATTAAAGAATCAAAATTATTTTTTAAAAAACAAAATTAAATAAT
130 ATGATTTTTTCAATTTTTAAAATTAAAGAATCAAAATTATTTTTT-AAAAATAAAATT---T-AT
8231528 TTTATT
190 TTTATT
* * * *
8231534 ATATTAGTAACATTTTCATTTATAAAAAATCATATTTTTAATTTGATTATATTTAGTAATTATTT
1 ATATTAGTAACATTTTTATTTAT-GAAAATCA-ATTTTTAATTT-AATATATTTAGTAATTATCT
*
8231599 TATATGTTTTTATTGTGAAAAATAAGTATCATATGCATTTTGATATTTTCATTTTCATTTTCATT
63 TACATGTTTTTATTGTGAAAAATAAGTATCATATGCATTTTGATATTTTCATTTTCA---T--TT
* * *
8231664 AAACAAACATAATTTTTTCTAATTTTTAAAATTAAAGAATAAAAAATATTTTTTAAAAATAAAAA
123 -AACAAACATGATTTTTTC-AATTTTTAAAATTAAAGAATCAAAATTATTTTTTAAAAAT-AAAA
8231729 TATTATTTT
185 T-TTATTTT
8231738 TAAAAGACAA
Statistics
Matches: 360, Mismatches: 23, Indels: 31
0.87 0.06 0.07
Matches are distributed among these distances:
194 92 0.26
195 41 0.11
197 1 0.00
198 38 0.11
199 39 0.11
200 11 0.03
203 70 0.19
206 1 0.00
207 5 0.01
208 3 0.01
209 21 0.06
210 37 0.10
211 1 0.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (195 bp):
ATATTAGTAACATTTTTATTTATGAAAATCAATTTTTAATTTAATATATTTAGTAATTATCTTAC
ATGTTTTTATTGTGAAAAATAAGTATCATATGCATTTTGATATTTTCATTTTCATTTAACAAACA
TGATTTTTTCAATTTTTAAAATTAAAGAATCAAAATTATTTTTTAAAAATAAAATTTATTTTATT
Found at i:8231726 original size:20 final size:21
Alignment explanation
Indices: 8231695--8231742 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
8231685 ATTTTTAAAA
8231695 TTAAAGAATAAAAA-A-TATTTT
1 TTAAA-AATAAAAATATTA-TTT
8231716 TTAAAAATAAAAATATTATTT
1 TTAAAAATAAAAATATTATTT
8231737 TTAAAA
1 TTAAAA
8231743 GACAAATAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.32
21 15 0.60
22 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
TTAAAAATAAAAATATTATTT
Found at i:8231749 original size:20 final size:19
Alignment explanation
Indices: 8231705--8231750 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
8231695 TTAAAGAATA
*
8231705 AAAAATATTTTTTAAAAAT
1 AAAAATATTTTTTAAAAAG
*
8231724 AAAAATATTATTTTTAAAAG
1 AAAAATATT-TTTTAAAAAG
*
8231744 ACAAATA
1 AAAAATA
8231751 GATTGTCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAAATATTTTTTAAAAAG
Found at i:8249314 original size:5 final size:5
Alignment explanation
Indices: 8249304--8249339 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
8249294 AAAGCATAGA
8249304 ATGGG ATGGG ATGGG ATGGG ATGGG ATGGG ATGGG A
1 ATGGG ATGGG ATGGG ATGGG ATGGG ATGGG ATGGG A
8249340 GAAAATGGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.22, C:0.00, G:0.58, T:0.19
Consensus pattern (5 bp):
ATGGG
Found at i:8254043 original size:27 final size:27
Alignment explanation
Indices: 8253979--8254034 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
8253969 GTTCGTTTGT
*
8253979 AAATGTAATCTTTATTTGATTGTTTTC
1 AAATGTATTCTTTATTTGATTGTTTTC
*
8254006 AAATGTATTCTTTATTTGGTTGTTTTC
1 AAATGTATTCTTTATTTGATTGTTTTC
8254033 AA
1 AA
8254035 GTTAATTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.07, G:0.12, T:0.55
Consensus pattern (27 bp):
AAATGTATTCTTTATTTGATTGTTTTC
Found at i:8256086 original size:18 final size:18
Alignment explanation
Indices: 8256063--8256100 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
8256053 AGGTTGTGAC
8256063 ATGTATAT-AGTTGTCTTG
1 ATGTATATAAG-TGTCTTG
8256081 ATGTATATAAGTGTCTTG
1 ATGTATATAAGTGTCTTG
8256099 AT
1 AT
8256101 ACATATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.47
Consensus pattern (18 bp):
ATGTATATAAGTGTCTTG
Found at i:8258606 original size:25 final size:25
Alignment explanation
Indices: 8258572--8258624 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
8258562 TCTCTAAAAC
8258572 TTTGAGATGTATGATTTGGATGAAA
1 TTTGAGATGTATGATTTGGATGAAA
8258597 TTTGAGATGTATGATTTGGATGAAA
1 TTTGAGATGTATGATTTGGATGAAA
8258622 TTT
1 TTT
8258625 TTGAAGTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.43
Consensus pattern (25 bp):
TTTGAGATGTATGATTTGGATGAAA
Found at i:8260938 original size:32 final size:31
Alignment explanation
Indices: 8260893--8260988 Score: 156
Period size: 31 Copynumber: 3.1 Consensus size: 31
8260883 CTTAGATAAT
*
8260893 TTTAAAGAGTTTTATTAGAATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
*
8260924 TTTAAAGAGTTTTTATCAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
8260956 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
8260987 TT
1 TT
8260989 GTAATTTGCC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
31 32 0.53
32 28 0.47
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.45
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:8266619 original size:32 final size:31
Alignment explanation
Indices: 8266574--8266669 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
8266564 CTTAGATAAT
8266574 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
8266605 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
8266637 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
8266668 TT
1 TT
8266670 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:8267713 original size:28 final size:26
Alignment explanation
Indices: 8267674--8267726 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
8267664 ATTTTTTTAA
*
8267674 TTATAATTATTTGATATTTTT-AGATT
1 TTATAATTATTT-AAATTTTTCAGATT
8267700 TTATATATATATTTAAATTTTTCAGAT
1 TTATA-AT-TATTTAAATTTTTCAGAT
8267727 GATGATGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 5 0.22
27 9 0.39
28 9 0.39
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (26 bp):
TTATAATTATTTAAATTTTTCAGATT
Found at i:8269805 original size:20 final size:20
Alignment explanation
Indices: 8269780--8269819 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8269770 CGTAAAATGA
*
8269780 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
8269800 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
8269820 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:8269809 original size:34 final size:35
Alignment explanation
Indices: 8269765--8269831 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
8269755 CAGTAAAATA
*
8269765 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
8269799 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
8269832 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:8269835 original size:14 final size:15
Alignment explanation
Indices: 8269759--8269835 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
8269749 GATTGCCAGT
* *
8269759 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
8269773 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
8269787 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
8269807 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
8269822 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
8269836 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:8269947 original size:28 final size:28
Alignment explanation
Indices: 8269909--8269971 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
8269899 GGAAAAGTTG
* *
8269909 TTTTTACATATATTAATATGTATTAATAAA
1 TTTTTATATATA-TAAT-TGCATTAATAAA
* *
8269939 TTTTTATATTTATAATTGCATTAATAAT
1 TTTTTATATATATAATTGCATTAATAAA
8269967 TTTTT
1 TTTTT
8269972 GAGAAATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 15 0.52
29 4 0.14
30 10 0.34
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (28 bp):
TTTTTATATATATAATTGCATTAATAAA
Found at i:8270184 original size:26 final size:26
Alignment explanation
Indices: 8270153--8270203 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
8270143 CAAAATTTAT
8270153 AGAGACCAATTTAAAATCTAGATTAG
1 AGAGACCAATTTAAAATCTAGATTAG
*
8270179 AGAGACCAATTTAATATCTAGATTA
1 AGAGACCAATTTAAAATCTAGATTA
8270204 TAGTTTGAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (26 bp):
AGAGACCAATTTAAAATCTAGATTAG
Found at i:8275507 original size:2 final size:2
Alignment explanation
Indices: 8275502--8275528 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8275492 ATGGATCGTT
8275502 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8275529 TTTTTTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8277632 original size:18 final size:18
Alignment explanation
Indices: 8277611--8277648 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
8277601 TAGCGAATAA
8277611 AAATATATA-AATATAAAT
1 AAATATATATAATA-AAAT
8277629 AAATATATATAATAAAAT
1 AAATATATATAATAAAAT
8277647 AA
1 AA
8277649 TTTGAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATATATATAATAAAAT
Found at i:8279103 original size:11 final size:11
Alignment explanation
Indices: 8279033--8279103 Score: 58
Period size: 11 Copynumber: 6.3 Consensus size: 11
8279023 TTCATAAGCT
8279033 AATTCTCTCTCA
1 AATT-TCTCTCA
8279045 AATTTCTTCTC-
1 AATTTC-TCTCA
*
8279056 AATTTGCCCTC-
1 AATTT-CTCTCA
8279067 AATTTGCTCTCA
1 AATTT-CTCTCA
*
8279079 AATTCCT-TCAA
1 AATTTCTCTC-A
8279090 AATTTCTCTCA
1 AATTTCTCTCA
8279101 AAT
1 AAT
8279104 CCATATTTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
10 2 0.04
11 33 0.66
12 15 0.30
ACGTcount: A:0.27, C:0.28, G:0.03, T:0.42
Consensus pattern (11 bp):
AATTTCTCTCA
Found at i:8279162 original size:51 final size:51
Alignment explanation
Indices: 8279065--8279162 Score: 119
Period size: 51 Copynumber: 1.9 Consensus size: 51
8279055 CAATTTGCCC
*
8279065 TCAATTTGCTCTCAAATTCCTTCAAAATTTCTCTCAAATCCATATTTAATT
1 TCAATTTGCTCTCAAATTCCTTCAAAATTTCTCTCAAACCCATATTTAATT
* * * *
8279116 TCAATTTGCTCTTAAGTT-CTTCTTAAAA-TTCTCTTAAACCCCTATTT
1 TCAATTTGCTCTCAAATTCCTTC--AAAATTTCTCTCAAACCCATATTT
8279163 TTAAATAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 4 0.10
51 32 0.80
52 4 0.10
ACGTcount: A:0.29, C:0.23, G:0.03, T:0.45
Consensus pattern (51 bp):
TCAATTTGCTCTCAAATTCCTTCAAAATTTCTCTCAAACCCATATTTAATT
Found at i:8279189 original size:15 final size:16
Alignment explanation
Indices: 8279165--8279199 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8279155 CCCTATTTTT
8279165 AAATA-ATTTTAAAAA
1 AAATATATTTTAAAAA
*
8279180 AAATATTTTTTAAAAA
1 AAATATATTTTAAAAA
8279196 AAAT
1 AAAT
8279200 TATACCGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATATATTTTAAAAA
Found at i:8281295 original size:5 final size:5
Alignment explanation
Indices: 8281285--8281322 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
8281275 TAATTGCATT
*
8281285 CATAA CATAA CATAA CATAA CAAAA CATAA CATAA CAT
1 CATAA CATAA CATAA CATAA CATAA CATAA CATAA CAT
8281323 TTTCATGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.61, C:0.21, G:0.00, T:0.18
Consensus pattern (5 bp):
CATAA
Found at i:8290146 original size:24 final size:24
Alignment explanation
Indices: 8290114--8290159 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
8290104 ATTATAATTT
8290114 TTTTTATTTATCAAAAAATATATA
1 TTTTTATTTATCAAAAAATATATA
*
8290138 TTTTTATTTATCAAAATATATA
1 TTTTTATTTATCAAAAAATATA
8290160 AAAAACAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTTTATTTATCAAAAAATATATA
Found at i:8290296 original size:4 final size:4
Alignment explanation
Indices: 8290287--8290425 Score: 92
Period size: 4 Copynumber: 34.0 Consensus size: 4
8290277 AGAAGGAGAG
* *
8290287 GAAA GAAA GAAA GAAA GAAA GAAA GGAAG GAGAG GAAA GAAA G-AA -AAA
1 GAAA GAAA GAAA GAAA GAAA GAAA -GAAA GA-AA GAAA GAAA GAAA GAAA
* * *
8290335 GAAG GAAA GAAAA GGAAA G-GA GAAGA GAAA AAAA GAAA GAAA G-AA G-AA
1 GAAA GAAA G-AAA -GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAAA GAAA
* *
8290383 GAAAA GGAAA GGAGAA GAAA -AAG GAAA GAAA GAAG GAAA GAAA
1 G-AAA -GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
8290426 AGGAAAGGAG
Statistics
Matches: 110, Mismatches: 12, Indels: 26
0.74 0.08 0.18
Matches are distributed among these distances:
3 14 0.13
4 65 0.59
5 27 0.25
6 4 0.04
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:8290318 original size:34 final size:36
Alignment explanation
Indices: 8290279--8290436 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 36
8290269 GGGTGGGCAG
8290279 AAGGAGAGGAAAGAAAGAAAGAAAGAAAG-AAAGG-
1 AAGGAGAGGAAAGAAAGAAAGAAAGAAAGAAAAGGA
*
8290313 AAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGA
1 AAGGAGAGGAAAGAAAG--AAAGAAAGAAAGAAAAGGA
*
8290351 AAGGAGAAGAGAAAAAAAGAAAGAAAGAAGAAGAAAAGGA
1 AAGGAG-AG-GAAAGAAAGAAAGAAAG-A-AAGAAAAGGA
* *
8290391 AAGGAGAAGAAAAAGGAAAGAAAGAAGGAAAGAAAAGGA
1 AAGGAG-AG-GAAA-GAAAGAAAGAAAGAAAGAAAAGGA
8290430 AAGGAGA
1 AAGGAGA
8290437 AGAGAAAAAA
Statistics
Matches: 109, Mismatches: 6, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
34 17 0.16
36 11 0.10
37 5 0.05
38 14 0.13
39 19 0.17
40 32 0.29
41 11 0.10
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (36 bp):
AAGGAGAGGAAAGAAAGAAAGAAAGAAAGAAAAGGA
Found at i:8290415 original size:45 final size:46
Alignment explanation
Indices: 8290321--8290446 Score: 147
Period size: 45 Copynumber: 2.8 Consensus size: 46
8290311 GGAAGGAGAG
* * *
8290321 GAAAGAAAGAAA-AAGAAGGAAAGAAAAGGA-AAGGAGAAGAGAAA
1 GAAAGAAAGAAAGAAGAAGGAAAGGAAAGGAGAAGAAAAAGAGAAA
* *
8290365 AAAAGAAAGAAAGAAGAAGAAAAGGAAAGGAGAAGAAAAAG-GAAA
1 GAAAGAAAGAAAGAAGAAGGAAAGGAAAGGAGAAGAAAAAGAGAAA
*
8290410 GAAAGAAGGAAAGAA-AAGGAAAGGAGAA-GAGAA-AAAA
1 GAAAGAAAGAAAGAAGAAGGAAAGGA-AAGGAGAAGAAAA
8290447 TAAAAGAAGA
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
43 4 0.06
44 25 0.35
45 35 0.49
46 7 0.10
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (46 bp):
GAAAGAAAGAAAGAAGAAGGAAAGGAAAGGAGAAGAAAAAGAGAAA
Found at i:8290436 original size:79 final size:78
Alignment explanation
Indices: 8290288--8290454 Score: 243
Period size: 79 Copynumber: 2.1 Consensus size: 78
8290278 GAAGGAGAGG
*
8290288 AAAGAAAGAAAGAAAGAAAGAAAGGAAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAA
1 AAAGAAAGAAAGAAAGAAAGAAAGGAAGGAGAAGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAA
8290353 GGAGAAGAGAAAA
66 GGAGAAGAGAAAA
*
8290366 AAAGAAAGAAAG-AAG-AAGAAAAGGAAAGGAGAAGAAA-AAGGAAAGAAAGAAGGAAAGAAAAG
1 AAAGAAAGAAAGAAAGAAAG-AAAGG-AAGGAGAAGAAAGAAAG-AA-AAAGAAGGAAAGAAAAG
8290428 GAAAGGAGAAGAGAAAA
62 GAAAGGAGAAGAGAAAA
8290445 AATA-AAAGAA
1 AA-AGAAAGAA
8290455 GAGGAGGGAA
Statistics
Matches: 82, Mismatches: 2, Indels: 9
0.88 0.02 0.10
Matches are distributed among these distances:
76 3 0.04
77 11 0.13
78 25 0.30
79 42 0.51
80 1 0.01
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.01
Consensus pattern (78 bp):
AAAGAAAGAAAGAAAGAAAGAAAGGAAGGAGAAGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAA
GGAGAAGAGAAAA
Found at i:8294208 original size:19 final size:21
Alignment explanation
Indices: 8294184--8294222 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
8294174 CTAAAACAAA
*
8294184 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
8294203 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
8294223 ATCAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:8294590 original size:18 final size:18
Alignment explanation
Indices: 8294567--8294602 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
8294557 ATATCTAGGG
8294567 TAAAATTCTAAAAAAAGT
1 TAAAATTCTAAAAAAAGT
8294585 TAAAATTCTAAAAAAAGT
1 TAAAATTCTAAAAAAAGT
8294603 CACTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (18 bp):
TAAAATTCTAAAAAAAGT
Found at i:8294984 original size:11 final size:11
Alignment explanation
Indices: 8294962--8295019 Score: 71
Period size: 11 Copynumber: 5.2 Consensus size: 11
8294952 CAAAAATCCT
8294962 CTCTCAAATTTC
1 CTCTC-AATTTC
8294974 CTCTCAATTTC
1 CTCTCAATTTC
*
8294985 CTCTAAATTTC
1 CTCTCAATTTC
* *
8294996 CTCTAAATTTG
1 CTCTCAATTTC
*
8295007 CTCTCAAATTC
1 CTCTCAATTTC
8295018 CT
1 CT
8295020 TCCAAATTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
11 36 0.88
12 5 0.12
ACGTcount: A:0.24, C:0.31, G:0.02, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:8294995 original size:22 final size:23
Alignment explanation
Indices: 8294962--8295029 Score: 86
Period size: 22 Copynumber: 3.0 Consensus size: 23
8294952 CAAAAATCCT
*
8294962 CTCTCAAATTTCCTCTCAATTTC
1 CTCTCAAATTTCCTCTAAATTTC
*
8294985 CTCT-AAATTTCCTCTAAATTTG
1 CTCTCAAATTTCCTCTAAATTTC
*
8295007 CTCTCAAA-TTCCTTCCAAATTTC
1 CTCTCAAATTTCC-TCTAAATTTC
8295030 TTTGAAATCC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
22 24 0.62
23 15 0.38
ACGTcount: A:0.25, C:0.31, G:0.01, T:0.43
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTAAATTTC
Found at i:8295005 original size:33 final size:35
Alignment explanation
Indices: 8294962--8295029 Score: 95
Period size: 33 Copynumber: 2.0 Consensus size: 35
8294952 CAAAAATCCT
* *
8294962 CTCTCAAATTTCCTCTCAATTTCC-TCTAAATTTC
1 CTCTCAAATTTCCTCTCAAATTCCTTCCAAATTTC
*
8294996 CTCT-AAATTTGCTCTCAAATTCCTTCCAAATTTC
1 CTCTCAAATTTCCTCTCAAATTCCTTCCAAATTTC
8295030 TTTGAAATCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 17 0.57
34 13 0.43
ACGTcount: A:0.25, C:0.31, G:0.01, T:0.43
Consensus pattern (35 bp):
CTCTCAAATTTCCTCTCAAATTCCTTCCAAATTTC
Found at i:8295068 original size:11 final size:11
Alignment explanation
Indices: 8295048--8295072 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8295038 CCATATTTAA
8295048 TCTCAATTTGC
1 TCTCAATTTGC
8295059 TCTCAATTTGC
1 TCTCAATTTGC
8295070 TCT
1 TCT
8295073 TAAATTTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.28, G:0.08, T:0.48
Consensus pattern (11 bp):
TCTCAATTTGC
Found at i:8295083 original size:11 final size:12
Alignment explanation
Indices: 8295052--8295088 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
8295042 ATTTAATCTC
*
8295052 AATTTGCTC-TC
1 AATTTGCTCTTA
8295063 AATTTGCTCTTA
1 AATTTGCTCTTA
8295075 AATTT-CTCTTA
1 AATTTGCTCTTA
8295086 AAT
1 AAT
8295089 CCCTATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 18 0.75
12 6 0.25
ACGTcount: A:0.27, C:0.19, G:0.05, T:0.49
Consensus pattern (12 bp):
AATTTGCTCTTA
Found at i:8296255 original size:7 final size:7
Alignment explanation
Indices: 8296243--8296267 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8296233 AGTCGGTTGA
8296243 TATTTAG
1 TATTTAG
8296250 TATTTAG
1 TATTTAG
8296257 TATTTAG
1 TATTTAG
8296264 TATT
1 TATT
8296268 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:8297518 original size:27 final size:29
Alignment explanation
Indices: 8297477--8297557 Score: 94
Period size: 28 Copynumber: 2.8 Consensus size: 29
8297467 TTAATTAACA
*
8297477 AACCCTAAACTCTTAAC-TTAAAAACCTT
1 AACCCTAAACCCTTAACTTTAAAAACCTT
*
8297505 AACCCT-AACCCTTAACTTTAAAACCCTT
1 AACCCTAAACCCTTAACTTTAAAAACCTT
** *
8297533 AACTTTAAAGCCTTTAACTTTAAAA
1 AACCCTAAA-CCCTTAACTTTAAAA
8297558 CCCTAAACTC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
27 9 0.20
28 20 0.44
29 2 0.04
30 14 0.31
ACGTcount: A:0.41, C:0.27, G:0.01, T:0.31
Consensus pattern (29 bp):
AACCCTAAACCCTTAACTTTAAAAACCTT
Found at i:8297531 original size:15 final size:15
Alignment explanation
Indices: 8297511--8297571 Score: 86
Period size: 15 Copynumber: 4.0 Consensus size: 15
8297501 CCTTAACCCT
8297511 AACCCTTAACTTTAA
1 AACCCTTAACTTTAA
8297526 AACCCTTAACTTTAA
1 AACCCTTAACTTTAA
* *
8297541 AGCCTTTAACTTTAA
1 AACCCTTAACTTTAA
*
8297556 AACCCTAAACTCTTAA
1 AACCCTTAACT-TTAA
8297572 CTTAAAAAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
15 36 0.90
16 4 0.10
ACGTcount: A:0.39, C:0.26, G:0.02, T:0.33
Consensus pattern (15 bp):
AACCCTTAACTTTAA
Found at i:8297573 original size:22 final size:21
Alignment explanation
Indices: 8297546--8297629 Score: 105
Period size: 22 Copynumber: 3.9 Consensus size: 21
8297536 TTTAAAGCCT
* *
8297546 TTAACTTTAAAACCCTAAACTC
1 TTAACTTAAAAACCCT-AACCC
8297568 TTAACTTAAAAAACCCTAACCC
1 TTAACTT-AAAAACCCTAACCC
8297590 TTAACTTAAAAACCACTAACCC
1 TTAACTTAAAAACC-CTAACCC
**
8297612 TTAACTTTTAAACCCTAA
1 TTAACTTAAAAACCCTAA
8297630 AGTAGCAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
21 11 0.20
22 37 0.66
23 8 0.14
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (21 bp):
TTAACTTAAAAACCCTAACCC
Found at i:8298051 original size:125 final size:125
Alignment explanation
Indices: 8297645--8298056 Score: 648
Period size: 126 Copynumber: 3.3 Consensus size: 125
8297635 CAAAAATGCT
*
8297645 ATTTCACAAATTCTTCTCA-AATAGCATCCTGCTAGAAGCGTTTTTTTAAAACTATTTGCTCAGA
1 ATTTCACAAATTCTTCTCATAA-AGCATCCTGCTTGAAGCG-TTTTTT-AAACTATTTGCTCAGA
*
8297709 AACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAAGGCGCG
63 AACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGCGCG
8297772 ATTTCACAAATTCTTCTCA-AATAGCATCCTGCTTGAAGCGTTTTTTAAACTATTTGCTCAGAAA
1 ATTTCACAAATTCTTCTCATAA-AGCATCCTGCTTGAAGCGTTTTTTAAACTATTTGCTCAGAAA
* *
8297836 CGTCAACTCGAAATTATTTCTTCCAAGACCTACTATAGCAAAAGCGCGTCCACGAGGGCGCG
65 CGTCAACTCGAAATTATTT-TTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGCGCG
* *
8297898 ATTTCACAATTTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTATACTATTTGCTCAGAAAC
1 ATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTAAACTATTTGCTCAGAAAC
* * *
8297963 GTCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAAAAGCGCGTACACGTGGGCGCG
66 GTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGCGCG
* * * *
8298023 ACTTCAGAAATCCTTCTGATAAAGCATCCTGCTT
1 ATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
8298057 TGATTTTATC
Statistics
Matches: 267, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
125 103 0.39
126 123 0.46
127 41 0.15
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (125 bp):
ATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTAAACTATTTGCTCAGAAAC
GTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGCGCG
Found at i:8304856 original size:17 final size:16
Alignment explanation
Indices: 8304834--8304866 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
8304824 AGTAAAAATT
8304834 AAAGCATGAAACAACAA
1 AAAGCATGAAA-AACAA
8304851 AAAGCATGAAAAACAA
1 AAAGCATGAAAAACAA
8304867 GAGAGTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.67, C:0.15, G:0.12, T:0.06
Consensus pattern (16 bp):
AAAGCATGAAAAACAA
Found at i:8308783 original size:78 final size:78
Alignment explanation
Indices: 8308665--8308989 Score: 334
Period size: 78 Copynumber: 4.2 Consensus size: 78
8308655 TAGAATTGAG
* * * * * *
8308665 GAAATCGAACAAATCCTGTTGAACGACAGGAATAAAAATCCTGAAATAGGAGTGTTCAATAGAGA
1 GAAATCAAACAAATCCTGTTAAATGACAGGAA-AAAAATCCTGAAACAGGAGTGTTCAATTGATA
*
8308730 TTCTATTTGAAACA
65 TTCTGTTTGAAACA
* * * * ** *
8308744 AAAATAAAAAAAATCTTGTTAAATGACAGGAAAAAAATCCAAAAATAGGAGTGTTCAATT-A-AT
1 GAAATCAAACAAATCCTGTTAAATGACAGGAAAAAAATCCTGAAACAGGAGTGTTCAATTGATAT
*
8308807 TCTTTGTTTGAAAGA
66 TC--TGTTTGAAACA
* * *** *
8308822 GAAGTCAAACAAATCCTGTTAAA-CAGCAGGAATGGAATCCTGAAACAGGAGTGTTCAATTGATT
1 GAAATCAAACAAATCCTGTTAAATGA-CAGGAAAAAAATCCTGAAACAGGAGTGTTCAATTGATA
*
8308886 TTCTGTTTGAAATA
65 TTCTGTTTGAAACA
** * * *
8308900 GAAATCAAACAAATCCTGTTAAACTG-CAGGAGTAAAATCCTGAAACAGGAATGTTTAATTGATT
1 GAAATCAAACAAATCCTGTTAAA-TGACAGGAAAAAAATCCTGAAACAGGAGTGTTCAATTGATA
8308964 TTCTGTTTGAAACA
65 TTCTGTTTGAAACA
8308978 GAAATCAAACAA
1 GAAATCAAACAA
8308990 TCTCTCGTTG
Statistics
Matches: 205, Mismatches: 34, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
76 4 0.02
77 2 0.01
78 170 0.83
79 26 0.13
80 3 0.01
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (78 bp):
GAAATCAAACAAATCCTGTTAAATGACAGGAAAAAAATCCTGAAACAGGAGTGTTCAATTGATAT
TCTGTTTGAAACA
Found at i:8308971 original size:156 final size:157
Alignment explanation
Indices: 8308665--8308989 Score: 379
Period size: 156 Copynumber: 2.1 Consensus size: 157
8308655 TAGAATTGAG
* * *
8308665 GAAATCGAACAAATCCTGTTGAACGACAGGAATAAAAATCCTGAAATAGGAGTGTTCAATAGAGA
1 GAAATCAAACAAATCCTGTTAAACGACAGGAATAAAAATCCTGAAACAGGAGTGTTCAATAGAGA
* * *
8308730 TTCTATTTGAAACAAAAATAAAAAAAATCTTGTTAAATGACAGGAAAAAAATCCAAAAATAGGAG
66 TTCTATTTGAAACAAAAATAAAAAAAATCCTGTTAAATGACAGGAAAAAAATCCAAAAACAGGAA
*
8308795 TGTTCAATTAATTCTTTGTTTGAAAGA
131 TGTTCAATTAATTCTTTGTTTGAAACA
* ** * *
8308822 GAAGTCAAACAAATCCTGTTAAAC-AGCAGGAAT-GGAATCCTGAAACAGGAGTGTTCAATTGAT
1 GAAATCAAACAAATCCTGTTAAACGA-CAGGAATAAAAATCCTGAAACAGGAGTGTTCAATAGAG
* * * * * * ** **
8308885 TTTCTGTTTGAAATAGAAATCAAACAAATCCTGTTAAACTG-CAGGAGTAAAATCCTGAAACAGG
65 ATTCTATTTGAAACAAAAATAAAAAAAATCCTGTTAAA-TGACAGGAAAAAAATCCAAAAACAGG
* *
8308949 AATGTTTAATTGATT-TTCTGTTTGAAACA
129 AATGTTCAATTAATTCTT-TGTTTGAAACA
8308978 GAAATCAAACAA
1 GAAATCAAACAA
8308990 TCTCTCGTTG
Statistics
Matches: 140, Mismatches: 25, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
155 2 0.01
156 108 0.77
157 30 0.21
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (157 bp):
GAAATCAAACAAATCCTGTTAAACGACAGGAATAAAAATCCTGAAACAGGAGTGTTCAATAGAGA
TTCTATTTGAAACAAAAATAAAAAAAATCCTGTTAAATGACAGGAAAAAAATCCAAAAACAGGAA
TGTTCAATTAATTCTTTGTTTGAAACA
Done.