Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 81 of 187
Found at i:23698755 original size:39 final size:39
Alignment explanation
Indices: 23698704--23698908 Score: 293
Period size: 39 Copynumber: 5.3 Consensus size: 39
23698694 AATCTTATTT
* *
23698704 AGTATAACCAGTGGATAATGCTCGTTTGAGCAAGCATTT
1 AGTATAATCAGTGGATAATGCTCGTTTGAGCAAGCATTC
* * *
23698743 AGTATAATCAGTGAATATTACTCGTTTGAGCAAGCATTC
1 AGTATAATCAGTGGATAATGCTCGTTTGAGCAAGCATTC
*
23698782 AGTATAATCAGTGGATAATGCTTGTTTGAGCAAGCATTC
1 AGTATAATCAGTGGATAATGCTCGTTTGAGCAAGCATTC
* * * *
23698821 AGTATAATTAGTGGATAATACTCGTTTAAGCAAGCATTT
1 AGTATAATCAGTGGATAATGCTCGTTTGAGCAAGCATTC
* *
23698860 AGTATAATTAGTGCATAATGCTCGTTTGAGCAAGCATTC
1 AGTATAATCAGTGGATAATGCTCGTTTGAGCAAGCATTC
*
23698899 CGTATAATCA
1 AGTATAATCA
23698909 ATATTCCATT
Statistics
Matches: 146, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 146 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (39 bp):
AGTATAATCAGTGGATAATGCTCGTTTGAGCAAGCATTC
Found at i:23701436 original size:13 final size:13
Alignment explanation
Indices: 23701413--23701540 Score: 105
Period size: 13 Copynumber: 9.7 Consensus size: 13
23701403 CTTTATAATT
23701413 ATTTCCATATAACC
1 ATTT-CATATAACC
* *
23701427 AATTCATATAATC
1 ATTTCATATAACC
* *
23701440 ATTT-AGTATATCT
1 ATTTCA-TATAACC
23701453 ATTTCCATATAACC
1 ATTT-CATATAACC
* *
23701467 AATTCATATAATC
1 ATTTCATATAACC
**
23701480 ATTTCATATATTC
1 ATTTCATATAACC
*
23701493 ATTTTATATAACC
1 ATTTCATATAACC
* *
23701506 ATTTCGTATAATC
1 ATTTCATATAACC
* *
23701519 GTCTCATATAACC
1 ATTTCATATAACC
23701532 ATTTCATAT
1 ATTTCATAT
23701541 TACACATTTA
Statistics
Matches: 87, Mismatches: 24, Indels: 7
0.74 0.20 0.06
Matches are distributed among these distances:
12 1 0.01
13 74 0.85
14 11 0.13
15 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.02, T:0.43
Consensus pattern (13 bp):
ATTTCATATAACC
Found at i:23701462 original size:40 final size:39
Alignment explanation
Indices: 23701410--23701528 Score: 152
Period size: 40 Copynumber: 3.0 Consensus size: 39
23701400 ACACTTTATA
23701410 ATTATTTCCATATAACCAATTCATATAATCATTT-AGTAT
1 ATTATTTCCATATAACCAATTCATATAATCATTTCA-TAT
23701449 ATCTATTTCCATATAACCAATTCATATAATCATTTCATAT
1 AT-TATTTCCATATAACCAATTCATATAATCATTTCATAT
* * * * *
23701489 ATTCATTT-TATATAACCATTTCGTATAATCGTCTCATAT
1 ATT-ATTTCCATATAACCAATTCATATAATCATTTCATAT
23701528 A
1 A
23701529 ACCATTTCAT
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
39 30 0.42
40 41 0.57
41 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.44
Consensus pattern (39 bp):
ATTATTTCCATATAACCAATTCATATAATCATTTCATAT
Found at i:23701501 original size:26 final size:26
Alignment explanation
Indices: 23701381--23701540 Score: 128
Period size: 26 Copynumber: 6.2 Consensus size: 26
23701371 ATATCTATCT
* * * *
23701381 ATATAAACATTTCGTATAAACACTT-
1 ATATAATCATTTCATATAACCATTTC
* *
23701406 -TATAATTATTTCCATATAACCAATTC
1 ATATAATCATTT-CATATAACCATTTC
* *
23701432 ATATAATCATTT-AGTATATCTATTTCC
1 ATATAATCATTTCA-TATAACCATTT-C
* * *
23701459 ATATAACCAATTCATATAATCATTTC
1 ATATAATCATTTCATATAACCATTTC
* *
23701485 ATATATTCATTTTATATAACCATTTC
1 ATATAATCATTTCATATAACCATTTC
* * *
23701511 GTATAATCGTCTCATATAACCATTTC
1 ATATAATCATTTCATATAACCATTTC
23701537 ATAT
1 ATAT
23701541 TACACATTTA
Statistics
Matches: 104, Mismatches: 25, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
24 9 0.09
25 11 0.11
26 54 0.52
27 29 0.28
28 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.03, T:0.42
Consensus pattern (26 bp):
ATATAATCATTTCATATAACCATTTC
Found at i:23701535 original size:39 final size:39
Alignment explanation
Indices: 23701413--23701549 Score: 123
Period size: 40 Copynumber: 3.4 Consensus size: 39
23701403 CTTTATAATT
* * * *
23701413 ATTTCCATATAACCAATTCATATAATCAT-TTAGTATATCT
1 ATTT-CATATAACCATTTCATATAATCATCTCA-TATAACC
* * **
23701453 ATTTCCATATAACCAATTCATATAATCATTTCATATATTC
1 ATTT-CATATAACCATTTCATATAATCATCTCATATAACC
* * *
23701493 ATTTTATATAACCATTTCGTATAATCGTCTCATATAACC
1 ATTTCATATAACCATTTCATATAATCATCTCATATAACC
*
23701532 ATTTCATATTACACATTT
1 ATTTCATATAAC-CATTT
23701550 AACACAAAAT
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 38 0.46
40 43 0.52
41 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.02, T:0.43
Consensus pattern (39 bp):
ATTTCATATAACCATTTCATATAATCATCTCATATAACC
Found at i:23701709 original size:135 final size:135
Alignment explanation
Indices: 23701554--23701825 Score: 490
Period size: 135 Copynumber: 2.0 Consensus size: 135
23701544 ACATTTAACA
* * * *
23701554 CAAAATCATTTTGTAAATTACATTTTGTTTAAATAATTCATATCAGTCTCTTATTCTATATAACT
1 CAAAATCATTTTATAAATTACATTTCGTTTAAATAATTCATATCAGTCTCTCATTCCATATAACT
23701619 ATTTTATATACCCGTTTCATTTTATACATTTAACACAATGTTAATAAACATTAATCCTGTCAACC
66 ATTTTATATACCCGTTTCATTTTATACATTTAACACAATGTTAATAAACATTAATCCTGTCAACC
23701684 ACAAT
131 ACAAT
23701689 CAAAATCATTTTATAAATTACATTTCGTTTAAATAATTCATATCAGTCTCTCATTCCATATAACT
1 CAAAATCATTTTATAAATTACATTTCGTTTAAATAATTCATATCAGTCTCTCATTCCATATAACT
* *
23701754 GTTTTATATACCCGTTTCATTTTATACATTTAACACAATGTTAATAAACATTAATCTTGTCAACC
66 ATTTTATATACCCGTTTCATTTTATACATTTAACACAATGTTAATAAACATTAATCCTGTCAACC
23701819 ACAAT
131 ACAAT
23701824 CA
1 CA
23701826 TTCAACAAGT
Statistics
Matches: 131, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
135 131 1.00
ACGTcount: A:0.36, C:0.18, G:0.04, T:0.41
Consensus pattern (135 bp):
CAAAATCATTTTATAAATTACATTTCGTTTAAATAATTCATATCAGTCTCTCATTCCATATAACT
ATTTTATATACCCGTTTCATTTTATACATTTAACACAATGTTAATAAACATTAATCCTGTCAACC
ACAAT
Found at i:23709903 original size:2 final size:2
Alignment explanation
Indices: 23709896--23709929 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
23709886 TCCTTTCTTT
23709896 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
23709930 GCCTCGGTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:23719572 original size:22 final size:22
Alignment explanation
Indices: 23719547--23719589 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
23719537 CTTGATTTTA
23719547 TTTCTACATTATGGTGATCGGC
1 TTTCTACATTATGGTGATCGGC
23719569 TTTCTACATTATGGTGATCGG
1 TTTCTACATTATGGTGATCGG
23719590 GTCTCTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.42
Consensus pattern (22 bp):
TTTCTACATTATGGTGATCGGC
Found at i:23723495 original size:17 final size:18
Alignment explanation
Indices: 23723469--23723502 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
23723459 TAAATGTGAC
*
23723469 ATAAATTTTCA-AAATAT
1 ATAAAATTTCATAAATAT
23723486 ATAAAATTTCATAAATA
1 ATAAAATTTCATAAATA
23723503 GTTTAAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAAAATTTCATAAATAT
Found at i:23725136 original size:7 final size:7
Alignment explanation
Indices: 23725124--23725151 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
23725114 AAGATGGAAA
23725124 GTTAAAG
1 GTTAAAG
23725131 GTTAAAG
1 GTTAAAG
23725138 GTTAAAG
1 GTTAAAG
23725145 GTTAAAG
1 GTTAAAG
23725152 AAGATGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (7 bp):
GTTAAAG
Found at i:23726505 original size:43 final size:43
Alignment explanation
Indices: 23726458--23726544 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
23726448 GTACCACGAT
23726458 GCCTTCCTGCAAAATAGGAAACATTGGTCAAATACCAAGAAAA
1 GCCTTCCTGCAAAATAGGAAACATTGGTCAAATACCAAGAAAA
23726501 GCCTTCCTGCAAAATAGGAAACATTGGTCAAATACCAAGAAAA
1 GCCTTCCTGCAAAATAGGAAACATTGGTCAAATACCAAGAAAA
23726544 G
1 G
23726545 GAAGATAACC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.18
Consensus pattern (43 bp):
GCCTTCCTGCAAAATAGGAAACATTGGTCAAATACCAAGAAAA
Found at i:23726754 original size:11 final size:11
Alignment explanation
Indices: 23726738--23726783 Score: 92
Period size: 11 Copynumber: 4.2 Consensus size: 11
23726728 ACATACTGTA
23726738 AATTTTCCACT
1 AATTTTCCACT
23726749 AATTTTCCACT
1 AATTTTCCACT
23726760 AATTTTCCACT
1 AATTTTCCACT
23726771 AATTTTCCACT
1 AATTTTCCACT
23726782 AA
1 AA
23726784 GACAAAATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.43
Consensus pattern (11 bp):
AATTTTCCACT
Found at i:23734221 original size:61 final size:57
Alignment explanation
Indices: 23734101--23734223 Score: 131
Period size: 61 Copynumber: 2.1 Consensus size: 57
23734091 ATAAAGTATT
* * * * *
23734101 AAAAATAAATATTAAAAGAAAAATACATGACAATTTTTTAAGTCTGCTTATAGATTA
1 AAAAATAAATATTAAAAAAAAAATACATGACAATTTTTTAAGACTACTCATAGAATA
* *
23734158 AAAAATTAAATATTTTAAAAAAAGAAATACGTGACAATTTTTTAAGACTACTCGT-GAAATA
1 AAAAA-TAAATA--TTAAAAAAA-AAATACATGACAATTTTTTAAGACTACTCATAG-AATA
23734219 AAAAA
1 AAAAA
23734224 AGTACACCGC
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
57 5 0.09
58 6 0.11
60 9 0.17
61 34 0.63
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (57 bp):
AAAAATAAATATTAAAAAAAAAATACATGACAATTTTTTAAGACTACTCATAGAATA
Found at i:23749289 original size:17 final size:17
Alignment explanation
Indices: 23749216--23749324 Score: 65
Period size: 17 Copynumber: 5.8 Consensus size: 17
23749206 TGTTTTATAC
23749216 TTAAAATTATTAAAAATAA
1 TTAAAATTA-TAAAAAT-A
* * *
23749235 TAAAAATCATAAAAAAA
1 TTAAAATTATAAAAATA
*
23749252 TTATAGATAATCATAAAAAATA
1 -T-TA-A-AATTAT-AAAAATA
23749274 TTAAAATTATAAAAATA
1 TTAAAATTATAAAAATA
* * *
23749291 TTAAAGTTACAAAAAAA
1 TTAAAATTATAAAAATA
23749308 TTGTAAAATATATAAAA
1 -T-TAAAAT-TATAAAA
23749325 GTGCAAAAAA
Statistics
Matches: 71, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
17 22 0.31
18 13 0.18
19 14 0.20
20 9 0.13
21 7 0.10
22 6 0.08
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (17 bp):
TTAAAATTATAAAAATA
Found at i:23749295 original size:9 final size:9
Alignment explanation
Indices: 23749216--23749295 Score: 56
Period size: 9 Copynumber: 8.6 Consensus size: 9
23749206 TGTTTTATAC
*
23749216 TTAAAATTA
1 TTAAAAATA
23749225 TTAAAAATA
1 TTAAAAATA
*
23749234 ATAAAAATCA
1 TTAAAAAT-A
*
23749244 -TAAAAAAA
1 TTAAAAATA
23749252 TTATAGATAATCA
1 TTA-A-A-AAT-A
*
23749265 TAAAAAATA
1 TTAAAAATA
*
23749274 TTAAAATTA
1 TTAAAAATA
23749283 -TAAAAATA
1 TTAAAAATA
23749291 TTAAA
1 TTAAA
23749296 GTTACAAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
8 8 0.14
9 35 0.62
10 5 0.09
11 2 0.04
12 3 0.05
13 3 0.05
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (9 bp):
TTAAAAATA
Found at i:23749306 original size:27 final size:27
Alignment explanation
Indices: 23749276--23749371 Score: 95
Period size: 27 Copynumber: 3.4 Consensus size: 27
23749266 AAAAAATATT
23749276 AAAATTATAAAAATATTAAAGTTACAAA
1 AAAATTATAAAAATATTAAAGTTAC-AA
* * *
23749304 AAAATTGTAAAATATATAAAAG-TGCAA
1 AAAATTATAAAA-ATATTAAAGTTACAA
* *
23749331 AAAAATATAAAAAGTATTATAGCTTACAA
1 AAAATTATAAAAA-TATTAAAG-TTACAA
23749360 AAAATATATAAA
1 AAAAT-TATAAA
23749372 TTATAAAATT
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.02
27 18 0.33
28 13 0.24
29 16 0.30
30 6 0.11
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.27
Consensus pattern (27 bp):
AAAATTATAAAAATATTAAAGTTACAA
Found at i:23749307 original size:28 final size:28
Alignment explanation
Indices: 23749276--23749371 Score: 99
Period size: 28 Copynumber: 3.4 Consensus size: 28
23749266 AAAAAATATT
23749276 AAAATTATAAAAATATTAAAGTTACAAA
1 AAAATTATAAAAATATTAAAGTTACAAA
* * *
23749304 AAAATTGTAAAATATATAAAAG-TGCAAA
1 AAAATTATAAAA-ATATTAAAGTTACAAA
*
23749332 AAAA-TATAAAAAGTATTATAGCTTAC-AA
1 AAAATTATAAAAA-TATTAAAG-TTACAAA
23749360 AAAATATATAAA
1 AAAAT-TATAAA
23749372 TTATAAAATT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.02
27 12 0.22
28 26 0.47
29 10 0.18
30 6 0.11
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.27
Consensus pattern (28 bp):
AAAATTATAAAAATATTAAAGTTACAAA
Found at i:23749333 original size:29 final size:28
Alignment explanation
Indices: 23749218--23749343 Score: 80
Period size: 28 Copynumber: 4.5 Consensus size: 28
23749208 TTTTATACTT
* *
23749218 AAAATTATTAAAAATAATAAAAATCATAAA
1 AAAATTA-TAAAAAT-ATAAAAGTCACAAA
* * * **
23749248 AAAATTATAGATAATCATAAAA--AATATT
1 AAAATTATA-AAAAT-ATAAAAGTCACAAA
* *
23749276 AAAATTATAAAAATATTAAAGTTACAAA
1 AAAATTATAAAAATATAAAAGTCACAAA
* *
23749304 AAAATTGTAAAATATATAAAAGT-GCAAA
1 AAAATTATAAAA-ATATAAAAGTCACAAA
23749332 AAAA-TATAAAAA
1 AAAATTATAAAAA
23749344 GTATTATAGC
Statistics
Matches: 77, Mismatches: 15, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
26 6 0.08
27 10 0.13
28 33 0.43
29 11 0.14
30 17 0.22
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (28 bp):
AAAATTATAAAAATATAAAAGTCACAAA
Found at i:23749379 original size:18 final size:18
Alignment explanation
Indices: 23749219--23749379 Score: 53
Period size: 19 Copynumber: 8.6 Consensus size: 18
23749209 TTTATACTTA
* *
23749219 AAATTATTAAAAATAATAA
1 AAATTATAAAAAAT-ATAT
* *
23749238 AAATCATAAAAAAATTATAG
1 AAATTAT-AAAAAA-TATAT
*
23749258 ATAATCATAAAAAATAT-T
1 A-AATTATAAAAAATATAT
23749276 AAAATTAT-AAAAATAT-T
1 -AAATTATAAAAAATATAT
* *
23749293 AAAGTTACAAAAAA-ATTGT
1 AAA-TTATAAAAAATA-TAT
* * *
23749312 AAAATATATAAAAGTGCA-AA
1 AAATTATA-AAAAAT--ATAT
* *
23749332 AAAATATAAAAAGTATTAT
1 AAATTATAAAAAATA-TAT
** *
23749351 AGCTTACAAAAAATATAT
1 AAATTATAAAAAATATAT
23749369 AAATTATAAAA
1 AAATTATAAAA
23749380 TTTATTAAAG
Statistics
Matches: 108, Mismatches: 20, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
16 3 0.03
17 14 0.13
18 25 0.23
19 35 0.32
20 23 0.21
21 7 0.06
22 1 0.01
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (18 bp):
AAATTATAAAAAATATAT
Found at i:23749460 original size:17 final size:16
Alignment explanation
Indices: 23749417--23749534 Score: 62
Period size: 17 Copynumber: 6.9 Consensus size: 16
23749407 AAAATTATTT
23749417 AAAATA-AAAAA-ATG
1 AAAATATAAAAATATG
* *
23749431 AAAATATGTAAATTATG
1 AAAATAT-AAAAATATG
*
23749448 AAAATATAAAAATATTA
1 AAAATATAAAAATA-TG
23749465 AAAATTTTATAAAAATATAG
1 AAAA---TATAAAAATAT-G
*
23749485 AAAAGTACAAAAGAATAT-
1 AAAA-TA-TAAA-AATATG
* * *
23749503 AAAAAATTAAAATATA
1 AAAATATAAAAATATG
23749519 AAAATTATAAAAATAT
1 AAAA-TATAAAAATAT
23749535 ATGAATTACA
Statistics
Matches: 79, Mismatches: 13, Indels: 21
0.70 0.12 0.19
Matches are distributed among these distances:
14 6 0.08
15 5 0.06
16 14 0.18
17 25 0.32
18 6 0.08
19 4 0.05
20 19 0.24
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.27
Consensus pattern (16 bp):
AAAATATAAAAATATG
Found at i:23749483 original size:8 final size:8
Alignment explanation
Indices: 23749417--23749535 Score: 73
Period size: 8 Copynumber: 14.0 Consensus size: 8
23749407 AAAATTATTT
23749417 AAAATA-A
1 AAAATATA
*
23749424 AAAA-ATG
1 AAAATATA
*
23749431 AAAATATGT
1 AAAATAT-A
* *
23749440 AAATTATG
1 AAAATATA
23749448 AAAATATA
1 AAAATATA
23749456 AAAATATTA
1 AAAATA-TA
23749465 AAAATTTTATA
1 AAAA---TATA
23749476 AAAATATA
1 AAAATATA
*
23749484 GAAAAGTACAA
1 -AAAA-TA-TA
23749495 AAGAATATA
1 AA-AATATA
*
23749504 AAAA-ATT
1 AAAATATA
23749511 AAAATATA
1 AAAATATA
23749519 AAAATTATA
1 AAAA-TATA
23749528 AAAATATA
1 AAAATATA
23749536 TGAATTACAA
Statistics
Matches: 89, Mismatches: 10, Indels: 25
0.72 0.08 0.20
Matches are distributed among these distances:
6 1 0.01
7 14 0.16
8 30 0.34
9 27 0.30
10 6 0.07
11 9 0.10
12 2 0.02
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.27
Consensus pattern (8 bp):
AAAATATA
Found at i:23749541 original size:17 final size:17
Alignment explanation
Indices: 23749455--23749552 Score: 60
Period size: 20 Copynumber: 5.6 Consensus size: 17
23749445 ATGAAAATAT
*
23749455 AAAAATATTAAAAATTTTAT
1 AAAAATA-TAAAAA--TTAC
*
23749475 AAAAATATAGAAAAGTAC
1 AAAAATATA-AAAATTAC
23749493 AAAAGAATATAAAAAATT--
1 -AAA-AATAT-AAAAATTAC
*
23749511 -AAAATATAAAAATTAT
1 AAAAATATAAAAATTAC
**
23749527 AAAAATATATGAATTAC
1 AAAAATATAAAAATTAC
23749544 AAAAA-ATAA
1 AAAAATATAA
23749553 GAAAATGAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
14 7 0.11
15 5 0.08
16 5 0.08
17 18 0.28
18 2 0.03
19 5 0.08
20 21 0.33
21 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (17 bp):
AAAAATATAAAAATTAC
Found at i:23749652 original size:20 final size:20
Alignment explanation
Indices: 23749623--23749665 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
23749613 AAAATTAATT
* * *
23749623 AAATTTAAAATTTTTATAAA
1 AAATTAAAAATTATAATAAA
23749643 AAATTAAAAATTATAATAAA
1 AAATTAAAAATTATAATAAA
23749663 AAA
1 AAA
23749666 GTAAGTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATTAAAAATTATAATAAA
Found at i:23749653 original size:27 final size:27
Alignment explanation
Indices: 23749601--23749654 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
23749591 AAAGCTATTA
23749601 AAAATATTTTAAAAAATTAATTAAATTT
1 AAAATATTTTAAAAAATTAA-TAAATTT
*
23749629 AAAATTTTTATAAAAAATTAA-AAATT
1 AAAATATTT-TAAAAAATTAATAAATT
23749655 ATAATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 5 0.21
28 8 0.33
29 11 0.46
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (27 bp):
AAAATATTTTAAAAAATTAATAAATTT
Found at i:23750049 original size:21 final size:22
Alignment explanation
Indices: 23750025--23750076 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
23750015 TTTAGTAATA
23750025 TTTTAAATAATTTT-ATA-TGTT
1 TTTTAAA-AATTTTCATATTGTT
* *
23750046 TTTTAAAATTTTTCATATTTTT
1 TTTTAAAAATTTTCATATTGTT
23750068 TTTTAAAAA
1 TTTTAAAAA
23750077 ATTATTGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 10 0.38
22 11 0.42
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTTAAAAATTTTCATATTGTT
Found at i:23750155 original size:19 final size:19
Alignment explanation
Indices: 23750120--23750192 Score: 62
Period size: 19 Copynumber: 3.8 Consensus size: 19
23750110 TTTTTGAGTC
*
23750120 ATTTATGATATTTTTATAATA
1 ATTTATAATA-TTTTATAA-A
* *
23750141 ATTTTTAA-ATTTTATTAA
1 ATTTATAATATTTTATAAA
23750159 ATTTATAATATTTTA-AAA
1 ATTTATAATATTTTATAAA
23750177 AGTTTA-ATATATTTTA
1 A-TTTATA-ATATTTTA
23750193 CAATTATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 12 0.27
19 25 0.57
20 1 0.02
21 6 0.14
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
ATTTATAATATTTTATAAA
Found at i:23750190 original size:28 final size:28
Alignment explanation
Indices: 23750127--23750190 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
23750117 GTCATTTATG
* * *
23750127 ATATTTTTATAATAATTTTTAAATTTTA
1 ATATATTTATAATAATTTTAAAAGTTTA
* *
23750155 TTAAATTTATAAT-ATTTTAAAAAGTTTA
1 ATATATTTATAATAATTTT-AAAAGTTTA
23750183 ATATATTT
1 ATATATTT
23750191 TACAATTATA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (28 bp):
ATATATTTATAATAATTTTAAAAGTTTA
Found at i:23750321 original size:19 final size:16
Alignment explanation
Indices: 23750299--23750346 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 16
23750289 TTATAATCAT
23750299 TTTTATAACTTTTTTGCA
1 TTTTATAA-TTTTTTG-A
23750317 CTTTTATATATTTTTTGA
1 -TTTTATA-ATTTTTTGA
23750335 TTTTATAATTTT
1 TTTTATAATTTT
23750347 CTATAGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 5 0.18
17 7 0.25
18 1 0.04
19 14 0.50
20 1 0.04
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.67
Consensus pattern (16 bp):
TTTTATAATTTTTTGA
Found at i:23753068 original size:10 final size:11
Alignment explanation
Indices: 23753053--23753081 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
23753043 CTCTCATTTC
23753053 TTTATTTTA-T
1 TTTATTTTATT
23753063 TTTATTTTATT
1 TTTATTTTATT
23753074 TTTATTTT
1 TTTATTTT
23753082 CAGCAACCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:23766388 original size:21 final size:20
Alignment explanation
Indices: 23766328--23766388 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
23766318 TCATCAGCTC
*
23766328 CATCATCATCTTTTTCATCTG
1 CATCATCATCCTTTT-ATCTG
* *
23766349 CATTATCATCCTCTTTATCTT
1 CATCATCATCCT-TTTATCTG
23766370 CATCATCATCCTTTGTATC
1 CATCATCATCCTTT-TATC
23766389 ACTGACATCT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 2 0.06
21 29 0.85
22 3 0.09
ACGTcount: A:0.20, C:0.30, G:0.03, T:0.48
Consensus pattern (20 bp):
CATCATCATCCTTTTATCTG
Found at i:23770157 original size:18 final size:19
Alignment explanation
Indices: 23770130--23770166 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
23770120 TTTCTTCTTC
*
23770130 GTTTTCTCTTA-TTTATTT
1 GTTTTATCTTATTTTATTT
23770148 GTTTTATCTTATTTTATTT
1 GTTTTATCTTATTTTATTT
23770167 TACTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.14, C:0.08, G:0.05, T:0.73
Consensus pattern (19 bp):
GTTTTATCTTATTTTATTT
Found at i:23771645 original size:16 final size:16
Alignment explanation
Indices: 23771613--23771646 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23771603 ATATCTTTTT
* *
23771613 AAATTTCAAACACATA
1 AAATTTCAAAAAAATA
23771629 AAATTTCAAAAAAATA
1 AAATTTCAAAAAAATA
23771645 AA
1 AA
23771647 GGCAATACTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATTTCAAAAAAATA
Found at i:23774916 original size:31 final size:31
Alignment explanation
Indices: 23774878--23774946 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
23774868 CTTAACTGCC
23774878 CAGTGACTTAAATAAAAACTTTTGAATAATT
1 CAGTGACTTAAATAAAAACTTTTGAATAATT
* *
23774909 CAGTGACTTAAATGAAAACTTTTGAATAGTT
1 CAGTGACTTAAATAAAAACTTTTGAATAATT
*
23774940 AAGTGAC
1 CAGTGAC
23774947 CAAATTGTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.33
Consensus pattern (31 bp):
CAGTGACTTAAATAAAAACTTTTGAATAATT
Found at i:23777806 original size:31 final size:30
Alignment explanation
Indices: 23777778--23777837 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
23777768 ATATAAAAGC
23777778 ATGTACCA-GTATATATTTAC-AAAATAAAA
1 ATGTA-CATGTATATATTTACAAAAATAAAA
*
23777807 ATGTATATGTATATATTTACAAAAATAAAA
1 ATGTACATGTATATATTTACAAAAATAAAA
23777837 A
1 A
23777838 AGTGTGTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 1 0.04
29 17 0.61
30 10 0.36
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (30 bp):
ATGTACATGTATATATTTACAAAAATAAAA
Found at i:23778094 original size:20 final size:20
Alignment explanation
Indices: 23778071--23778111 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
23778061 TAATAATGGC
23778071 ATAATAATAGTA-AAAAAAAG
1 ATAATAATA-TATAAAAAAAG
*
23778091 ATAATGATATATAAAAAAAG
1 ATAATAATATATAAAAAAAG
23778111 A
1 A
23778112 AAAAATGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.22
Consensus pattern (20 bp):
ATAATAATATATAAAAAAAG
Found at i:23786116 original size:33 final size:33
Alignment explanation
Indices: 23786077--23786145 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
23786067 GCTATTTTTA
23786077 CACTCACAGATAAACGCACCGCCCATCCAAATT
1 CACTCACAGATAAACGCACCGCCCATCCAAATT
* *
23786110 CACTCACAGTTAAATGCACCGCCCATCCAAATT
1 CACTCACAGATAAACGCACCGCCCATCCAAATT
23786143 CAC
1 CAC
23786146 CCTTAAACAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.35, C:0.39, G:0.09, T:0.17
Consensus pattern (33 bp):
CACTCACAGATAAACGCACCGCCCATCCAAATT
Found at i:23788577 original size:7 final size:7
Alignment explanation
Indices: 23788567--23788598 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
23788557 AAACAAATAC
23788567 AAAATCA
1 AAAATCA
23788574 AAAATCA
1 AAAATCA
23788581 AAAATCA
1 AAAATCA
*
23788588 AAAACCA
1 AAAATCA
23788595 AAAA
1 AAAA
23788599 ATTAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.75, C:0.16, G:0.00, T:0.09
Consensus pattern (7 bp):
AAAATCA
Found at i:23789343 original size:22 final size:22
Alignment explanation
Indices: 23789309--23789352 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
23789299 GATATTTTGA
23789309 TGTTTTTATTTTTTTAACCTTT
1 TGTTTTTATTTTTTTAACCTTT
23789331 TGTTATTTATTTTTTTAACCTT
1 TGTT-TTTATTTTTTTAACCTT
23789353 AATCAACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.16, C:0.09, G:0.05, T:0.70
Consensus pattern (22 bp):
TGTTTTTATTTTTTTAACCTTT
Found at i:23790992 original size:26 final size:26
Alignment explanation
Indices: 23790962--23791034 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
23790952 TCTTATCTCT
23790962 ATTTTACCTCC-AACAAAATTTTGACG
1 ATTTTACC-CCTAACAAAATTTTGACG
** *
23790988 ATTTTACCCCTAGTAAAATTTTGACT
1 ATTTTACCCCTAACAAAATTTTGACG
* **
23791014 ATTTTAGCCCTAGTAAAATTT
1 ATTTTACCCCTAACAAAATTT
23791035 CAAGAAAACA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
25 2 0.05
26 40 0.95
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (26 bp):
ATTTTACCCCTAACAAAATTTTGACG
Found at i:23794493 original size:14 final size:13
Alignment explanation
Indices: 23794443--23794493 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
23794433 CCCTGACTTG
23794443 TTTTTATTA-TTTC
1 TTTTT-TTATTTTC
*
23794456 TTTTTTTTATTTTG
1 -TTTTTTTATTTTC
*
23794470 TTTATTTATTGTTC
1 TTTTTTTATT-TTC
23794484 TTTTTTTATT
1 TTTTTTTATT
23794494 CCCATTTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 12 0.39
14 19 0.61
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.80
Consensus pattern (13 bp):
TTTTTTTATTTTC
Found at i:23800868 original size:24 final size:24
Alignment explanation
Indices: 23800841--23800886 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
23800831 AAATTACCGT
*
23800841 GGATTTAACCTTAAAGATTACAAC
1 GGATTGAACCTTAAAGATTACAAC
* *
23800865 GGATTGAACTTTGAAGATTACA
1 GGATTGAACCTTAAAGATTACA
23800887 GTGGGGGCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.30
Consensus pattern (24 bp):
GGATTGAACCTTAAAGATTACAAC
Found at i:23801264 original size:50 final size:50
Alignment explanation
Indices: 23801210--23801948 Score: 321
Period size: 50 Copynumber: 14.9 Consensus size: 50
23801200 ACAGTGGAGC
* * * **
23801210 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATGGAAA
** * * * **
23801260 AGATTGAAGCCGCAATGGCGAATCTTACTTCCCT-AGCGA-TGCAGTGGATC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGA-C-ATTGCAATGGAAA
* * * **
23801310 AGATTGAAGCTACGACGGCGAATCCTGCTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATGGAAA
* * * * **** * **
23801360 AGATTGAAG-TCGCAACGGTGAATCTTACTTCCTTGGTGGTGCAGTGGAGC
1 AGATTGAAGCT-ACAACGGCGAATCTTGCTTCCCTGACATTGCAATGGAAA
* * * * **
23801410 TGATTGAAGCTACAACGGTGAATCGTG-TTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATGGAAA
** * * * **** * **
23801459 AGATTGAAGCCGCAACGGCAAATCTTACTTCCTTGGTGGTGCAGTGGAGC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATGGAAA
* * * ** * *
23801509 AGATTAAAGCTACGACGGCGAATCTTGGTTTGCTGAAATTGCAAAT-TAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGC-AATGGAAA
* ** * * **
23801559 AGATTGAAGCTACAACGGCGAATCTTACTTCTATGGCGA-TGCAGTGGAGC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGAC-ATTGCAATGGAAA
* * * * **
23801609 AGATTAAAGCTACAAAGGCGAATCTTGCTTCCCCGACATTACAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATGGAAA
* * * * ** * * **
23801659 AGATTGAAG-TCGCAACGGCGAATCTTACTTCCATGGCGGTGTAGTGGAGC
1 AGATTGAAGCT-ACAACGGCGAATCTTGCTTCCCTGACATTGCAATGGAAA
* * * * **
23801709 AGATTAAAGCCACAATGG-GAATCTTG-TT-CCTCAACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCT-GACATTGCAATGGAAA
* * * ** * * * ** **
23801757 ATATTAAAGCCACAACGGCGAATCTCACTTCTCTGGCAGTAAAATGGAGC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATGGAAA
* * ** **
23801807 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATGGAAA
* * * * ** * **
23801857 AGATTGAAGCTGCAACGACGAATCTTACTTCCCTGGCGGTGCAGTGGAGC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATGGAAA
* * * *
23801907 AGATTAAAGCTACAATGGCGAATCTTG-TTCCCCGATATTGCA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCA
23801949 GTCAATTTGA
Statistics
Matches: 472, Mismatches: 200, Indels: 35
0.67 0.28 0.05
Matches are distributed among these distances:
47 2 0.00
48 24 0.05
49 61 0.13
50 377 0.80
51 8 0.02
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTGCTTCCCTGACATTGCAATGGAAA
Found at i:23801360 original size:100 final size:100
Alignment explanation
Indices: 23801201--23801948 Score: 905
Period size: 100 Copynumber: 7.5 Consensus size: 100
23801191 CCTAGCAGTA
*
23801201 CAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTG
1 CAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTG
* *
23801266 AAGCCGCAATGGCGAATCTTACTTCCCTAGCGATG
66 AAGCCGCAACGGCGAATCTTACTTCCCTGGCGATG
* * * *
23801301 CAGTGGATCAGATTGAAGCTACGACGGCGAATCCTGCTTCCCCGACATTGCAATTAAAAAGATTG
1 CAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTG
* * * * *
23801366 AAGTCGCAACGGTGAATCTTACTTCCTTGGTGGTG
66 AAGCCGCAACGGCGAATCTTACTTCCCTGGCGATG
* * * *
23801401 CAGTGGAGCTGATTGAAGCTACAACGGTGAATCGTG-TTCCCCGACATTGCAATTAAAAAGATTG
1 CAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTG
* * * *
23801465 AAGCCGCAACGGCAAATCTTACTTCCTTGGTGGTG
66 AAGCCGCAACGGCGAATCTTACTTCCCTGGCGATG
* * ** * *
23801500 CAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGGTTTGCTGAAATTGCAAATT-AAAAGATT
1 CAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGC-AATTAAAAAGATT
** **
23801564 GAAGCTACAACGGCGAATCTTACTTCTATGGCGATG
65 GAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATG
* * *
23801600 CAGTGGAGCAGATTAAAGCTACAAAGGCGAATCTTGCTTCCCCGACATTACAATTTAAAAGATTG
1 CAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTG
* * *
23801665 AAGTCGCAACGGCGAATCTTACTTCCATGGCGGTG
66 AAGCCGCAACGGCGAATCTTACTTCCCTGGCGATG
* * * * * * *
23801700 TAGTGGAGCAGATTAAAGCCACAATGG-GAATCTTG-TTCCTCAACATTGCAATTAAAAATATTA
1 CAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTG
* * * *
23801763 AAGCCACAACGGCGAATCTCACTTCTCTGGC-AGTA
66 AAGCCGCAACGGCGAATCTTACTTCCCTGGCGA-TG
* * * * ** *
23801798 AAATGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGGTATTGCAATTTAAAAGATTG
1 CAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTG
* * *
23801863 AAGCTGCAACGACGAATCTTACTTCCCTGGCGGTG
66 AAGCCGCAACGGCGAATCTTACTTCCCTGGCGATG
* *
23801898 CAGTGGAGCAGATTAAAGCTACAATGGCGAATCTTG-TTCCCCGATATTGCA
1 CAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCA
23801949 GTCAATTTGA
Statistics
Matches: 552, Mismatches: 89, Indels: 15
0.84 0.14 0.02
Matches are distributed among these distances:
98 71 0.13
99 124 0.22
100 353 0.64
101 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.25
Consensus pattern (100 bp):
CAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTG
AAGCCGCAACGGCGAATCTTACTTCCCTGGCGATG
Found at i:23802013 original size:40 final size:40
Alignment explanation
Indices: 23801969--23802201 Score: 324
Period size: 40 Copynumber: 5.8 Consensus size: 40
23801959 AAGAAACCGA
* * *
23801969 TCTTATCTCCCTAAGCAGTAATGAAGCAGATCGCCTCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
* *
23802009 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GCATCA-AG
*
23802050 ATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
*
23802091 TCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
*
23802131 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
* **
23802171 TCTTATCTCCTTGAAGTTGTAGTGGAGCAGA
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA
23802202 CAAAAGAAGC
Statistics
Matches: 173, Mismatches: 15, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 118 0.68
41 20 0.12
42 33 0.19
43 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.26
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
Found at i:23802105 original size:82 final size:80
Alignment explanation
Indices: 23801967--23802203 Score: 325
Period size: 82 Copynumber: 2.9 Consensus size: 80
23801957 GAAAGAAACC
* * *
23801967 GATCTTATCTCCCTAAGCAGTAATGAAGCAGATCGCCTCAAGTCTTATCTCCCTAAGCAGTAGTG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCT-CCTAAGCAGTAGTG
23802032 GAGCAGACAGAACCACA
65 GAGCAGACAGAACCA-A
*
23802049 GATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGCATCAAGTCTTATCTCTCTAAGCAGTAGTG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTC-CTAAGCAGTAGTG
* *
23802114 GAGCAGATC-GCATCAA
65 GAGCAGA-CAGAACCAA
* **
23802130 G-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCCAGTCTTATCTCCTTGAAGTTGTAGT
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCC-T-AAGCAGTAGT
23802194 GGAGCAGACA
64 GGAGCAGACA
23802204 AAAGAAGCCA
Statistics
Matches: 140, Mismatches: 10, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
79 1 0.01
80 49 0.35
81 19 0.14
82 70 0.50
83 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (80 bp):
GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCTAAGCAGTAGTGG
AGCAGACAGAACCAA
Found at i:23807558 original size:11 final size:11
Alignment explanation
Indices: 23807521--23807558 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
23807511 CATGGTTTTT
23807521 TTTTTTAA-AA
1 TTTTTTAATAA
*
23807531 TTATTTAATAA
1 TTTTTTAATAA
*
23807542 TATTTTAATAA
1 TTTTTTAATAA
23807553 TTTTTT
1 TTTTTT
23807559 CATGTTATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
10 7 0.30
11 16 0.70
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTTTAATAA
Found at i:23835840 original size:10 final size:10
Alignment explanation
Indices: 23835825--23835858 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
23835815 TTCAATTTTC
*
23835825 TGCCGTGCCG
1 TGCCGTGCCA
23835835 TGCCGTGCCA
1 TGCCGTGCCA
*
23835845 TGCCATGCCA
1 TGCCGTGCCA
23835855 TGCC
1 TGCC
23835859 ATACTTCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.09, C:0.41, G:0.29, T:0.21
Consensus pattern (10 bp):
TGCCGTGCCA
Found at i:23836589 original size:58 final size:59
Alignment explanation
Indices: 23836521--23836641 Score: 183
Period size: 58 Copynumber: 2.1 Consensus size: 59
23836511 CCCTCCCCAA
* * *
23836521 TCCCAAAAGGT-AGAATTCGGATACCGTTACATGTTCGGTACCCAATAATGAATGAATCG
1 TCCCAAAAGGTAAG-ATTAGGATACCGTTACATGTCCGGTACCCAACAATGAATGAATCG
*
23836580 TCCC-AAAGGTAAGATTAGGATACCGTTGCATGTCCGGTACCCAACAATGAATGAATCG
1 TCCCAAAAGGTAAGATTAGGATACCGTTACATGTCCGGTACCCAACAATGAATGAATCG
23836638 TCCC
1 TCCC
23836642 TGTCCCTCCC
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
58 51 0.89
59 6 0.11
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (59 bp):
TCCCAAAAGGTAAGATTAGGATACCGTTACATGTCCGGTACCCAACAATGAATGAATCG
Found at i:23837069 original size:24 final size:24
Alignment explanation
Indices: 23837037--23837088 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
23837027 CCGGTTAGGT
23837037 TCCCGGCGGTGCTCCAGCGAGCCA
1 TCCCGGCGGTGCTCCAGCGAGCCA
*
23837061 TCCCGGCGGTGCTGCAGCGAGCCA
1 TCCCGGCGGTGCTCCAGCGAGCCA
23837085 TCCC
1 TCCC
23837089 AGAATATCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.12, C:0.42, G:0.33, T:0.13
Consensus pattern (24 bp):
TCCCGGCGGTGCTCCAGCGAGCCA
Found at i:23837422 original size:85 final size:85
Alignment explanation
Indices: 23837324--23837692 Score: 456
Period size: 85 Copynumber: 4.4 Consensus size: 85
23837314 TAGGACGTTT
* * * * * * *
23837324 GTCGTGCGAGAGCCTCGGGCACCACCGGC-ACCTTGGTGCTTGGAT-GTGCGGGAGCCCCGGGCA
1 GTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCGCTTGG-TCGTGCGAGAGCCTCGGGCA
23837387 CCATCGGCAACCTAGGCCCCTG
65 CCATCGGC-ACCTAGGCCCCTG
* * * *
23837409 GTCGCGTGGGAGCCTC-GATACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGGCAC
1 GTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCGCTTGGTCGTGCGAGAGCCTCGGGCAC
*
23837473 CATCGGAACCTAGGCCCCTG
66 CATCGGCACCTAGGCCCCTG
* * * * *
23837493 GTCGTGCGGGAGCATCGGCCACCATCGGCAACCTAGGCGCTTGGTCGTGCGGGAGCCTTGGCCAC
1 GTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCGCTTGGTCGTGCGAGAGCCTCGGGCAC
23837558 CATCGGCACCTAGGCCCCTG
66 CATCGGCACCTAGGCCCCTG
* ** * * * * *
23837578 GTCATGTAGGAGCTTCGGCCACCATCGTCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGGAAC
1 GTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCGCTTGGTCGTGCGAGAGCCTCGGGCAC
*
23837643 CATCGGCACCTAGGCCCTTG
66 CATCGGCACCTAGGCCCCTG
*
23837663 GTCGTGCGGGAGCCTCGGACACCACCGGCA
1 GTCGTGCGGGAGCCTCGGACACCATCGGCA
23837693 CCTTGGTGCT
Statistics
Matches: 241, Mismatches: 40, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
84 36 0.15
85 205 0.85
ACGTcount: A:0.16, C:0.35, G:0.33, T:0.17
Consensus pattern (85 bp):
GTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCGCTTGGTCGTGCGAGAGCCTCGGGCAC
CATCGGCACCTAGGCCCCTG
Found at i:23837432 original size:42 final size:43
Alignment explanation
Indices: 23837302--23837692 Score: 434
Period size: 42 Copynumber: 9.2 Consensus size: 43
23837292 GCCTTCGACG
* * * * *
23837302 CCATCGGCAACCTAGGACGTTTGTCGTGCGAGAGCCTCGGGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCA
* * ** * *
23837345 CCACCGGC-ACCTTGGTGCTTGGAT-GTGCGGGAGCCCCGGGCA
1 CCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGCCA
* * * **
23837387 CCATCGGCAACCTAGGCCCCTGGTCGCGTGGGAGCCTC-GATA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCA
* *
23837429 CCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGGCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCA
* *
23837472 CCATCGG-AACCTAGGCCCCTGGTCGTGCGGGAGCATCGGCCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCA
* *
23837514 CCATCGGCAACCTAGGCGCTTGGTCGTGCGGGAGCCTTGGCCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCA
* * ** *
23837557 CCATCGGC-ACCTAGGCCCCTGGTCATGTAGGAGCTTCGGCCA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCA
* * **
23837599 CCATCGTCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGGAA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCA
*
23837642 CCATCGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGACA
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCA
*
23837684 CCACCGGCA
1 CCATCGGCA
23837693 CCTTGGTGCT
Statistics
Matches: 288, Mismatches: 53, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
42 179 0.62
43 109 0.38
ACGTcount: A:0.16, C:0.35, G:0.32, T:0.17
Consensus pattern (43 bp):
CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCA
Found at i:23837455 original size:127 final size:127
Alignment explanation
Indices: 23837277--23837692 Score: 471
Period size: 127 Copynumber: 3.3 Consensus size: 127
23837267 CACATTGCTG
* * * * * *
23837277 CTTGGACGTGCTGGAGCCTTCGACGCCATCGGCAACCTAGGACGTTTGTCGTGCGAGAGCCTCGG
1 CTTGGTCGTGCGGGAGCC-TCGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGG
* * ** *
23837342 GCACCACCGGCACCTTGGTGCTTGGAT-GTGCGGGAGCCCCGGGCACCATCGGCAACCTAGGCC
65 GCACCATCGGCACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
* * * *
23837405 CCTGGTCGCGTGGGAGCCTCGATACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGG
1 CTTGGTCGTGCGGGAGCCTCGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGG
* * * * *
23837470 CACCATCGGAACCTAGGCCCCTGGTCGTGCGGGAGCATCGGCCACCATCGGCAACCTAGGCG
66 CACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
* * * * * *
23837532 CTTGGTCGTGCGGGAGCCTTGGCCACCATCGGC-ACCTAGGCCCCTGGTCATG-TAGGAGCTTCG
1 CTTGGTCGTGCGGGAGCC-TCGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGA-GAGCCTCG
* * * *
23837595 GCCACCATCGTCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGGAACCATCGGC-ACCTAGGCC
64 GGCACCATCGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
*
23837659 CTTGGTCGTGCGGGAGCCTCGGACACCACCGGCA
1 CTTGGTCGTGCGGGAGCCTC-GACACCATCGGCA
23837693 CCTTGGTGCT
Statistics
Matches: 240, Mismatches: 42, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
126 3 0.01
127 176 0.73
128 61 0.25
ACGTcount: A:0.16, C:0.34, G:0.33, T:0.17
Consensus pattern (127 bp):
CTTGGTCGTGCGGGAGCCTCGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGG
CACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
Found at i:23838564 original size:85 final size:86
Alignment explanation
Indices: 23837842--23838603 Score: 822
Period size: 85 Copynumber: 9.0 Consensus size: 86
23837832 NNNNNNNCCC
* * * * *
23837842 TGGTCGTGCGGGAGCCTCAGACACTATCGG-AACTTAGGCCCCTGGTCGTGCGGGAGCCTCGGGC
1 TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
23837906 ACCATCGGCAACCTAGGCCCT
66 ACCATCGGCAACCTAGGCCCT
* * * * * *
23837927 TGGTCGTGCAGGAGCCTCGGGCACCATCGGC-ACCTTGGTGCCTCGGAT-GTGCGAGAGCCTCGA
1 TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGG-CCCTTGG-TCGTGCGGGAGCCTCGG
* * * * **
23837990 GTAGCATTGGC-ACCTTGGTGCT
64 GCACCATCGGCAACCTAGGCCCT
* * * * * * * *
23838012 TGGAT-GTACGGGAGCCTCGGACACCATAGGCAACCTAGGACGTTGGAT-GTGCGAGTGCCTCGA
1 TGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGG
* ** *
23838075 GCAGCAGGGGCACCCTAGTG-CCT
64 GCACCATCGGCAACCTAG-GCCCT
* * * * *
23838098 CGAAT-GTGCCGGGAGCCTCGGGCACCATCGGCAACCAAGGCCCCTGGTCGTGGGGGAGCCTCGG
1 TG-GTCGTG-CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGG
* *
23838162 GCACCATCGGCACCCTAGGCCCC
64 GCACCATCGGCAACCTAGGCCCT
* *
23838185 TGGTCGTGCGAGAGCCTC-GGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGG-
1 TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
*
23838248 ACCATTGGC-ACCTAGGCCCT
66 ACCATCGGCAACCTAGGCCCT
* * *
23838268 TGGTTGTGCGGGAGCCTCGGCCACCATCGGC-ACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGC
1 TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
23838332 ACCATCGGCAACCTAGGCCCT
66 ACCATCGGCAACCTAGGCCCT
* * * * *
23838353 TGGTCGTGTGAGAGCCTTGGG-ACCATTGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGCC
1 TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
23838416 ACCATCGGC-ACCTAGGCCCT
66 ACCATCGGCAACCTAGGCCCT
* *
23838436 TGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACCTAGGCCCTTGGAT-GTGGGGGAGCCTCGGG
1 TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGG
*
23838499 CACCATCGGCAACCTAGGCCCC
65 CACCATCGGCAACCTAGGCCCT
* * * * * *
23838521 TGGTTGTACGGGAGCCTCGGGCACCATCGGCAACCTAGG-CCTTGATCGTACGAGAACCTCGGGC
1 TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
23838585 ACCATCGGCAACCTAGGCC
66 ACCATCGGCAACCTAGGCC
23838604 TTGATCCTGC
Statistics
Matches: 568, Mismatches: 89, Indels: 40
0.81 0.13 0.06
Matches are distributed among these distances:
83 83 0.15
84 122 0.21
85 236 0.42
86 61 0.11
87 66 0.12
ACGTcount: A:0.16, C:0.33, G:0.34, T:0.17
Consensus pattern (86 bp):
TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
ACCATCGGCAACCTAGGCCCT
Found at i:23838622 original size:42 final size:43
Alignment explanation
Indices: 23837842--23838603 Score: 822
Period size: 42 Copynumber: 18.0 Consensus size: 43
23837832 NNNNNNNCCC
* * * * *
23837842 TGGTCGTGCGGGAGCCTCAGACACTATCGG-AACTTAGGCCCC
1 TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT
23837884 TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT
1 TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT
* * *
23837927 TGGTCGTGCAGGAGCCTCGGGCACCATCGGC-ACCTTGGTGCCT
1 TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGG-CCCT
* * * * * * * **
23837970 CGGAT-GTGCGAGAGCCTCGAGTAGCATTGGC-ACCTTGGTGCT
1 TGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT
* * * * *
23838012 TGGAT-GTACGGGAGCCTCGGACACCATAGGCAACCTAGGACGT
1 TGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT
* * * * ** *
23838055 TGGAT-GTGCGAGTGCCTCGAGCAGCAGGGGCACCCTAGTG-CCT
1 TGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAG-GCCCT
* * * *
23838098 CGAAT-GTGCCGGGAGCCTCGGGCACCATCGGCAACCAAGGCCCC
1 TG-GTCGTG-CGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT
* * *
23838142 TGGTCGTGGGGGAGCCTCGGGCACCATCGGCACCCTAGGCCCC
1 TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT
*
23838185 TGGTCGTGCGAGAGCCTC-GGCACCATCGGCAACCTAGGCCCT
1 TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT
* *
23838227 TGGTCGTGCGAGAGCCTCGGG-ACCATTGGC-ACCTAGGCCCT
1 TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT
* * *
23838268 TGGTTGTGCGGGAGCCTCGGCCACCATCGGC-ACCTAGGCCCC
1 TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT
23838310 TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT
1 TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT
* * * *
23838353 TGGTCGTGTGAGAGCCTTGGG-ACCATTGGC-ACCTAGGCCCT
1 TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT
*
23838394 TGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACCTAGGCCCT
1 TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT
*
23838436 TGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACCTAGGCCCT
1 TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT
* *
23838478 TGGAT-GTGGGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCC
1 TGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT
* *
23838521 TGGTTGTACGGGAGCCTCGGGCACCATCGGCAACCTAGG-CCT
1 TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT
* * * *
23838563 TGATCGTACGAGAACCTCGGGCACCATCGGCAACCTAGGCC
1 TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
23838604 TTGATCCTGC
Statistics
Matches: 616, Mismatches: 87, Indels: 33
0.84 0.12 0.04
Matches are distributed among these distances:
41 57 0.09
42 287 0.47
43 242 0.39
44 30 0.05
ACGTcount: A:0.16, C:0.33, G:0.34, T:0.17
Consensus pattern (43 bp):
TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT
Found at i:23838680 original size:43 final size:43
Alignment explanation
Indices: 23838626--23838860 Score: 253
Period size: 43 Copynumber: 5.5 Consensus size: 43
23838616 GAACCTCAGG
**
23838626 CTTGGATGTGCGGGAGCCTCGAACACCATCGGCAACCTCGGCC
1 CTTGGATGTGCGGGAGCCTCGGGCACCATCGGCAACCTCGGCC
23838669 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTCGGCC
1 CTTGGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTCGGCC
* * **
23838712 CTTGG-TCGTGCGGGAGCCTCGGGCGCCATCGGC-ACCTTGGTGG
1 CTTGGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTCGG-CC
* * * * **
23838755 CTTGGATGTGCGGGAGCCTCGAGCAGCATTGGC-ACCTTGGTG
1 CTTGGATGTGCGGGAGCCTCGGGCACCATCGGCAACCTCGGCC
* * *
23838797 CTTGGATGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGAC
1 CTTGGATGTGCGGGAGCCTCGGGCACCATCGGCAACCTCGGCC
* * *
23838840 GTTAGATGTGCGGGTGCCTCG
1 CTTGGATGTGCGGGAGCCTCG
23838861 AGCAGCAGGG
Statistics
Matches: 167, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
42 37 0.22
43 129 0.77
44 1 0.01
ACGTcount: A:0.14, C:0.30, G:0.36, T:0.20
Consensus pattern (43 bp):
CTTGGATGTGCGGGAGCCTCGGGCACCATCGGCAACCTCGGCC
Found at i:23838731 original size:86 final size:86
Alignment explanation
Indices: 23838626--23838864 Score: 263
Period size: 85 Copynumber: 2.8 Consensus size: 86
23838616 GAACCTCAGG
*
23838626 CTTGGATGTGCGGGAGCCTCGAACACCATCGGCAACCTCGG-CCCTTGG-TCGTGCGGGAGCCTC
1 CTTGGATGTGCGGGAGCCTCGGACACCATCGGCAACCTCGGTCCCTTGGAT-GTGCGGGAGCCTC
*
23838689 GGGCACCATCGGCAACCTCGGCC
65 GAGCACCATCGGC-ACCTCGGCC
* * * **
23838712 CTTGG-TCGTGCGGGAGCCTCGGGCGCCATCGGC-ACCTTGGTGGCTTGGATGTGCGGGAGCCTC
1 CTTGGAT-GTGCGGGAGCCTCGGACACCATCGGCAACCTCGGTCCCTTGGATGTGCGGGAGCCTC
* * * **
23838775 GAGCAGCATTGGCACCTTGGTG
65 GAGCACCATCGGCACCTCGGCC
* * * * *
23838797 CTTGGATGTGCGGGAGCCTCGGACACCATCGGCAACCTAGG-ACGTTAGATGTGCGGGTGCCTCG
1 CTTGGATGTGCGGGAGCCTCGGACACCATCGGCAACCTCGGTCCCTTGGATGTGCGGGAGCCTCG
23838861 AGCA
66 AGCA
23838865 GCAGGGGCAC
Statistics
Matches: 128, Mismatches: 20, Indels: 11
0.81 0.13 0.07
Matches are distributed among these distances:
85 64 0.50
86 63 0.49
87 1 0.01
ACGTcount: A:0.15, C:0.30, G:0.36, T:0.19
Consensus pattern (86 bp):
CTTGGATGTGCGGGAGCCTCGGACACCATCGGCAACCTCGGTCCCTTGGATGTGCGGGAGCCTCG
AGCACCATCGGCACCTCGGCC
Found at i:23838824 original size:128 final size:129
Alignment explanation
Indices: 23838624--23838896 Score: 338
Period size: 128 Copynumber: 2.1 Consensus size: 129
23838614 GAGAACCTCA
23838624 GGCTTGGATGTGCGGGAGCCTCGAACACCATCGGCAACCTCGGCCCTTGGTCGTGCGGGAGCCTC
1 GGCTTGGATGTGCGGGAGCCTCGAACACCATCGGCAACCTCGGCCCTTGGTCGTGCGGGAGCCTC
* * * * * * *
23838689 GGGCACCATCGGCAACCTCGGCCCTT-GGTCGTGCGGGAGCCTCGGGC-GCCATCGGCACCTTGG
66 GGACACCATCGGCAACCTAGGACCTTAGAT-GTGCGGGAGCCTCGAGCAG-CAGCGGCACCCTGG
23838752 T
129 T
* * * * **
23838753 GGCTTGGATGTGCGGGAGCCTCGAGCAGCATTGGC-ACCTTGGTGCTTGGAT-GTGCGGGAGCCT
1 GGCTTGGATGTGCGGGAGCCTCGAACACCATCGGCAACCTCGGCCCTTGG-TCGTGCGGGAGCCT
* * *
23838816 CGGACACCATCGGCAACCTAGGACGTTAGATGTGCGGGTGCCTCGAGCAGCAGGGGCACCCTGGT
65 CGGACACCATCGGCAACCTAGGACCTTAGATGTGCGGGAGCCTCGAGCAGCAGCGGCACCCTGGT
*
23838881 GGCTCGGATGTGCGGG
1 GGCTTGGATGTGCGGG
23838897 CTAAAGAAAA
Statistics
Matches: 124, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
128 88 0.71
129 36 0.29
ACGTcount: A:0.14, C:0.29, G:0.38, T:0.19
Consensus pattern (129 bp):
GGCTTGGATGTGCGGGAGCCTCGAACACCATCGGCAACCTCGGCCCTTGGTCGTGCGGGAGCCTC
GGACACCATCGGCAACCTAGGACCTTAGATGTGCGGGAGCCTCGAGCAGCAGCGGCACCCTGGT
Found at i:23838891 original size:43 final size:43
Alignment explanation
Indices: 23838624--23838896 Score: 220
Period size: 43 Copynumber: 6.4 Consensus size: 43
23838614 GAGAACCTCA
* * *
23838624 GGCTTGGATGTGCGGGAGCCTCGAACACCATCGGCAACCTCGG-
1 GGCTTGGATGTGCGGGAGCCTCGAGCAGCATCGGCACCCT-GGT
** * * *
23838667 CCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTCGG-
1 GGCTTGGAT-GTGCGGGAGCCTCGAGCAGCATCGGCACCCT-GGT
** * *
23838710 CCCTTGG-TCGTGCGGGAGCCTCGGGC-GCCATCGGCACCTTGGT
1 GGCTTGGAT-GTGCGGGAGCCTCGAGCAG-CATCGGCACCCTGGT
* *
23838753 GGCTTGGATGTGCGGGAGCCTCGAGCAGCATTGGCACCTTGGT
1 GGCTTGGATGTGCGGGAGCCTCGAGCAGCATCGGCACCCTGGT
* * *
23838796 -GCTTGGATGTGCGGGAGCCTCG-GACACCATCGGCAACCTAG-
1 GGCTTGGATGTGCGGGAGCCTCGAG-CAGCATCGGCACCCTGGT
* * * **
23838837 GACGTTAGATGTGCGGGTGCCTCGAGCAGCAGGGGCACCCTGGT
1 GGC-TTGGATGTGCGGGAGCCTCGAGCAGCATCGGCACCCTGGT
*
23838881 GGCTCGGATGTGCGGG
1 GGCTTGGATGTGCGGG
23838897 CTAAAGAAAA
Statistics
Matches: 193, Mismatches: 27, Indels: 20
0.80 0.11 0.08
Matches are distributed among these distances:
41 1 0.01
42 38 0.20
43 149 0.77
44 5 0.03
ACGTcount: A:0.14, C:0.29, G:0.38, T:0.19
Consensus pattern (43 bp):
GGCTTGGATGTGCGGGAGCCTCGAGCAGCATCGGCACCCTGGT
Found at i:23841180 original size:20 final size:20
Alignment explanation
Indices: 23841133--23841181 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
23841123 AACCCTTTCG
*
23841133 GCATCGCAAGGACGGTACTC
1 GCATCGCGAGGACGGTACTC
*
23841153 GCATCGCGAGGACGGTGCTC
1 GCATCGCGAGGACGGTACTC
23841173 GCATCGCGA
1 GCATCGCGA
23841182 CCCCAGGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.20, C:0.31, G:0.35, T:0.14
Consensus pattern (20 bp):
GCATCGCGAGGACGGTACTC
Found at i:23843514 original size:259 final size:259
Alignment explanation
Indices: 23843050--23843566 Score: 874
Period size: 259 Copynumber: 2.0 Consensus size: 259
23843040 GGTGAACAGC
* * *
23843050 CTCTGGTCAATGGAACAATGTAGGCAAGGGAAGTCGGCAAAATGGATCCGTAACATCGGGAAAAG
1 CTCTAGTCAATGGAACAATGTAGGCAAGGGAAGTAGGAAAAATGGATCCGTAACATCGGGAAAAG
* * * *
23843115 GAATGGCTCTGAGGGCTGGGCACGGGGGTCCCAGTCCTGAACCCGTCGGCTGCCGGCGCATTGCT
66 GAATGGCTCTGAGGGCTGGGCACGGGGGTCCAAGTCCCGAACCCGTCGACTGCCGGCGCACTGCT
* *
23843180 CGAGCTGCTCCCGCAGCGACAGCGGGTCGCCGCGTGTCGGCCGGGGGACGGACTGGGAACGACTC
131 CGAGCTGCTCCCGCAGCGACAGCGGGTCACCGCGTGCCGGCCGGGGGACGGACTGGGAACGACTC
*
23843245 CCTCGGGGGCCTTCCCCGGGCGACGAACAGTCGACTCAGAACTGGTACGGACAAGGGGAATCTA
196 CCTCGGGGGCCTTCCCCGGGCGACGAACAGTCGACTCAGAACTGGTACGAACAAGGGGAATCTA
* *
23843309 CTCTAGTCAATGGAACAATGTAGGCAAGGGAAGTAGGAAAAATGGATCTGTAACCTCGGGAAAAG
1 CTCTAGTCAATGGAACAATGTAGGCAAGGGAAGTAGGAAAAATGGATCCGTAACATCGGGAAAAG
*
23843374 GATTGGCTCTGAGGGCTGGGCACGGGGGTCCAAGTCCCGAACCCGTCGACTGCCGGCGCACTGCT
66 GAATGGCTCTGAGGGCTGGGCACGGGGGTCCAAGTCCCGAACCCGTCGACTGCCGGCGCACTGCT
* *
23843439 CGAGCTGCTCCCGCGGCGAGAGCGGGTCACCGCGTGCCGGCCGGGGGACGGACTGGGAAC-AGCT
131 CGAGCTGCTCCCGCAGCGACAGCGGGTCACCGCGTGCCGGCCGGGGGACGGACTGGGAACGA-CT
*
23843503 CCGTCGGGGGCCTTCCCCGGGCGACGAACAGTCGACTCAGAACTGGTACGAACAAGGGGAATCT
195 CCCTCGGGGGCCTTCCCCGGGCGACGAACAGTCGACTCAGAACTGGTACGAACAAGGGGAATCT
23843567 GACTGTTTAA
Statistics
Matches: 241, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
258 1 0.00
259 240 1.00
ACGTcount: A:0.22, C:0.27, G:0.36, T:0.15
Consensus pattern (259 bp):
CTCTAGTCAATGGAACAATGTAGGCAAGGGAAGTAGGAAAAATGGATCCGTAACATCGGGAAAAG
GAATGGCTCTGAGGGCTGGGCACGGGGGTCCAAGTCCCGAACCCGTCGACTGCCGGCGCACTGCT
CGAGCTGCTCCCGCAGCGACAGCGGGTCACCGCGTGCCGGCCGGGGGACGGACTGGGAACGACTC
CCTCGGGGGCCTTCCCCGGGCGACGAACAGTCGACTCAGAACTGGTACGAACAAGGGGAATCTA
Found at i:23844520 original size:43 final size:42
Alignment explanation
Indices: 23844406--23845250 Score: 330
Period size: 43 Copynumber: 19.5 Consensus size: 42
23844396 ACCGTCGGCC
* * **
23844406 CCTAGGTCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCC
1 CCTAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGAA
** * *
23844448 CCTAGGTGCTGGGAT-GTCCGGGAGCCTCGGACACCATCGGTAA
1 CCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGACACCATCGG-AA
** * * *
23844491 AGTAGGCCCTTGGTCGTGCGGGAGGCTCGGGCACCATCGGCA
1 CCTAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGAA
* ** * **
23844533 CCTCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAA
1 CCTAGGCCCT-TGGTCGTGCGGGAGCCTCGGACACCATCGG-AA
*
23844576 CCTAGGCCCTTGGTCGTGCGGGAGCCTC-GAGCACCATCGGCA
1 CCTAGGCCCTTGGTCGTGCGGGAGCCTCGGA-CACCATCGGAA
* * * *
23844618 CCTTGGTCTTTGGAT-GTGCGGGAGCCTTCCG-CACCATCGAGAA
1 CCTAGGCCCTTGG-TCGTGCGGGAGCC-TCGGACACCATCG-GAA
* * *
23844661 CCTAGGCCCTTGGTCGTGCGTGAGCCTCGGGCACTATCGGTAA
1 CCTAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGG-AA
** *
23844704 AATAGGCCCTTGGTCGTGCGGGAGCCTC-GAGCACCATCGGCA
1 CCTAGGCCCTTGGTCGTGCGGGAGCCTCGGA-CACCATCGGAA
* * * *
23844746 CCTTGGTCTTTGGAT-GTGCGGGAGCCTTCCG-CACCATCGAGAA
1 CCTAGGCCCTTGG-TCGTGCGGGAGCC-TCGGACACCATCG-GAA
* * *** * * * * * *
23844789 CCTA-GCCATCGG-CAAACTAGG-CCCTTGG---TCGTGCGGGAG
1 CCTAGGCCCTTGGTCGTGC-GGGAGCCTCGGACACCAT-C-GGAA
* * ** *
23844828 CCTCGGGCACCATCGGCACCTCGTTGCTATGATG--TGCGGGAGCCTCGGACACTGTCGGTAA
1 CCT-AGGC-CC-TTGG----TCG-TGC-GGGA-GCCT-C-GGA--CAC---CA---TCGG-AA
*
23844889 CCTAGGCCCTTGGTCGTGCGGGAGCCTC-GAGCACCATCGGCA
1 CCTAGGCCCTTGGTCGTGCGGGAGCCTCGGA-CACCATCGGAA
* ** *
23844931 CCTTGGTGCTTGGAT-GTGCGGGAGCCTCCCG-CACCATCGGCAA
1 CCTAGGCCCTTGG-TCGTGCGGGAGCCT-CGGACACCATCGG-AA
* * * *
23844974 CCTAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATTGGCAA
1 CCTAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGG-AA
* * * * *
23845017 ACTAAGCCCTTGGTCGTGCGGGAACCTGGGGCACCATCGGCAA
1 CCTAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGG-AA
** * * * * * **
23845060 AATAGGCCATTGGTCGTGCGGGAGTCGCGGCCACTATCGGCC
1 CCTAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGAA
** * *
23845102 CCTAGGTGCTGGGAT-GTGAGGGAGCCTCGGACACCATCGGCAA
1 CCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGACACCATCGG-AA
* *
23845145 ACTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATC-GACA
1 CCTAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGA-A
* ** * * * *
23845187 CCTCGGTGCTATGAT-GGGCGGGAACCTCGGGCACCATCGGCAA
1 CCTAGGCCCT-TGGTCGTGCGGGAGCCTCGGACACCATCGG-AA
23845230 CCTAGGCCCTTGGTCGTGCGG
1 CCTAGGCCCTTGGTCGTGCGG
23845251 ACCCCCGGCC
Statistics
Matches: 591, Mismatches: 147, Indels: 129
0.68 0.17 0.15
Matches are distributed among these distances:
38 2 0.00
39 6 0.01
40 3 0.01
41 6 0.01
42 234 0.40
43 294 0.50
44 4 0.01
46 2 0.00
48 1 0.00
49 7 0.01
50 2 0.00
51 3 0.01
52 3 0.01
53 4 0.01
54 3 0.01
58 3 0.01
59 3 0.01
60 5 0.01
61 5 0.01
62 1 0.00
ACGTcount: A:0.16, C:0.31, G:0.34, T:0.19
Consensus pattern (42 bp):
CCTAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGAA
Found at i:23844556 original size:85 final size:84
Alignment explanation
Indices: 23844406--23844700 Score: 369
Period size: 85 Copynumber: 3.5 Consensus size: 84
23844396 ACCGTCGGCC
* * * ** *
23844406 CCTAGGTCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCCCCTAGGTGCTGGGATGTCCGGGA
1 CCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGTGCTATGATGTGCGGGA
23844471 GCCTCGGACACCATCGGTAA
66 GCCTCGGACACCATCGG-AA
** * *
23844491 AGTAGGCCCTTGGTCGTGCGGGAGGCTCGGGCACCATCGGCACCTCGGTGCTATGATGTGCGGGA
1 CCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGTGCTATGATGTGCGGGA
**
23844556 GCCTCGGACACTGTCGGCAA
66 GCCTCGGACACCATCGG-AA
* * *
23844576 CCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGT-CTTTGGATGTGCGGG
1 CCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGTGCTAT-GATGTGCGGG
*
23844640 AGCCTTCCG-CACCATCGAGAA
65 AGCC-TCGGACACCATCG-GAA
* *
23844661 CCTAGGCCCTTGGTCGTGCGTGAGCCTCGGGCACTATCGG
1 CCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGG
23844701 TAAAATAGGC
Statistics
Matches: 182, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
84 3 0.02
85 175 0.96
86 4 0.02
ACGTcount: A:0.14, C:0.31, G:0.35, T:0.20
Consensus pattern (84 bp):
CCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGTGCTATGATGTGCGGGA
GCCTCGGACACCATCGGAA
Found at i:23844688 original size:128 final size:128
Alignment explanation
Indices: 23844548--23844793 Score: 438
Period size: 128 Copynumber: 1.9 Consensus size: 128
23844538 GTGCTATGAT
* **
23844548 GTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCAT
1 GTGCGGGAGCCTCGGACACTATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCAT
23844613 CGGCACCTTGGTCTTTGGATGTGCGGGAGCCTTCCGCACCATCGAGAACCTAGGCCCTTGGTC
66 CGGCACCTTGGTCTTTGGATGTGCGGGAGCCTTCCGCACCATCGAGAACCTAGGCCCTTGGTC
* * *
23844676 GTGCGTGAGCCTCGGGCACTATCGGTAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCAT
1 GTGCGGGAGCCTCGGACACTATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCAT
23844741 CGGCACCTTGGTCTTTGGATGTGCGGGAGCCTTCCGCACCATCGAGAACCTAG
66 CGGCACCTTGGTCTTTGGATGTGCGGGAGCCTTCCGCACCATCGAGAACCTAG
23844794 CCATCGGCAA
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 112 1.00
ACGTcount: A:0.16, C:0.30, G:0.33, T:0.21
Consensus pattern (128 bp):
GTGCGGGAGCCTCGGACACTATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCAT
CGGCACCTTGGTCTTTGGATGTGCGGGAGCCTTCCGCACCATCGAGAACCTAGGCCCTTGGTC
Found at i:23844948 original size:85 final size:85
Alignment explanation
Indices: 23844794--23845250 Score: 526
Period size: 85 Copynumber: 5.4 Consensus size: 85
23844784 GAGAACCTAG
* * *
23844794 CCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGTTGCTAT-
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGTGCT-TG
23844858 GATGTGCGGGAGCCTCGGACA
65 GATGTGCGGGAGCCTCGGACA
** * * *
23844879 CTGTCGGTAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGG
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGTGCTTGG
*
23844944 ATGTGCGGGAGCCTCCCG-CA
66 ATGTGCGGGAGCCT-CGGACA
* * * * * **
23844964 CCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATTGGCAAACTAAGCCCTTG
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGGTGCTTG
* * *
23845029 G-TCGTGCGGGAACCTGGGGCA
65 GAT-GTGCGGGAGCCTCGGACA
** * * * * * * *
23845050 CCATCGGCAAAATAGGCCATTGGTCGTGCGGGAGTCGCGGCCACTATCGGCCCCTAGGTGCTGGG
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGTGCTTGG
*
23845115 ATGTGAGGGAGCCTCGGACA
66 ATGTGCGGGAGCCTCGGACA
* * *
23845135 CCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGACACCTCGGTGCTAT-
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGTGCT-TG
* * *
23845199 GATGGGCGGGAACCTCGGGCA
65 GATGTGCGGGAGCCTCGGACA
23845220 CCATCGGCAACCTAGGCCCTTGGTCGTGCGG
1 CCATCGGCAACCTAGGCCCTTGGTCGTGCGG
23845251 ACCCCCGGCC
Statistics
Matches: 308, Mismatches: 57, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
84 1 0.00
85 240 0.78
86 67 0.22
ACGTcount: A:0.17, C:0.31, G:0.34, T:0.18
Consensus pattern (85 bp):
CCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGTGCTTGG
ATGTGCGGGAGCCTCGGACA
Found at i:23845010 original size:228 final size:228
Alignment explanation
Indices: 23844569--23844997 Score: 555
Period size: 228 Copynumber: 1.9 Consensus size: 228
23844559 TCGGACACTG
* * *
23844569 TCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTCTTTGGATG
1 TCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTCGGTCTATGGATG
* * *
23844634 TGCGGGAGCCTTCCGCACCATCGAGAACCTAGGCCCTTGGTCGTGCGTGAGCCTCGGGCACTATC
66 TGCGGGAGCCTTCCGCACCATCGAGAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATC
* * * *
23844699 GGTAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTCTTTGGATGTG
131 GGTAAAATAGGCCCTTGGTCGTGCGGGAGCCTCCAGCACCATCGGCACCTAGGCCCTTGGATGTG
*
23844764 CGGGAGCCTTCCGCACCATCGAGAACCTAGCCA
196 CGAGAGCCTTCCGCACCATCGAGAACCTAGCCA
* *
23844797 TCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGTTGCTAT-GAT
1 TCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTCGGT-CTATGGAT
* **
23844861 GTGCGGGAGCC-TCGGACACTGTCG-GTAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACC
65 GTGCGGGAGCCTTCCG-CACCATCGAG-AACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACC
* ** * ** *
23844924 ATCGG-CACCTTGGTGCTTGGAT-GTGCGGGAGCCTCCCGCACCATCGGCAACCTAGGCCCTTGG
128 ATCGGTAAAATAGGCCCTTGG-TCGTGCGGGAGCCTCCAGCACCATCGGC-ACCTAGGCCCTTGG
23844987 -TCGTGCGAGAG
191 AT-GTGCGAGAG
23844998 GCTCGGGCAC
Statistics
Matches: 172, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
227 38 0.22
228 131 0.76
229 3 0.02
ACGTcount: A:0.16, C:0.31, G:0.32, T:0.21
Consensus pattern (228 bp):
TCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTCGGTCTATGGATG
TGCGGGAGCCTTCCGCACCATCGAGAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATC
GGTAAAATAGGCCCTTGGTCGTGCGGGAGCCTCCAGCACCATCGGCACCTAGGCCCTTGGATGTG
CGAGAGCCTTCCGCACCATCGAGAACCTAGCCA
Found at i:23845053 original size:313 final size:313
Alignment explanation
Indices: 23844481--23845058 Score: 980
Period size: 313 Copynumber: 1.8 Consensus size: 313
23844471 GCCTCGGACA
* * *
23844481 CCATCGGTAAAGTAGGCCCTTGGTCGTGCGGGAGGCTCGGGCACCATCGGCACCTCGGTGCTATG
1 CCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTATG
23844546 ATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACC
66 ATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACC
*
23844611 ATCGGCACCTTGGTCTTTGGATGTGCGGGAGCCTTCCGCACCATCGAGAACCTAGGCCCTTGGTC
131 ATCGGCACCTTGGTCTTTGGATGTGCGGGAGCCTCCCGCACCATCGAGAACCTAGGCCCTTGGTC
* * * * *
23844676 GTGCGTGAGCCTCGGGCACTATCGGTAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCAT
196 GTGCGAGAGCCTCGGGCACCATCGGCAAAATAAGCCCTTGGTCGTGCGGGAACCTCGAGCACCAT
23844741 CGGCACCTTGGTCTTTGGATGTGCGGGAGCCTTCCGCACCATCGAGAACCTAG
261 CGGCACCTTGGTCTTTGGATGTGCGGGAGCCTTCCGCACCATCGAGAACCTAG
*
23844794 CCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGTTGCTATG
1 CCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTATG
*
23844859 ATGTGCGGGAGCCTCGGACACTGTCGGTAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACC
66 ATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACC
23844924 ATCGGCACCTTGGTGC-TTGGATGTGCGGGAGCCTCCCGCACCATCG-GCAACCTAGGCCCTTGG
131 ATCGGCACCTTGGT-CTTTGGATGTGCGGGAGCCTCCCGCACCATCGAG-AACCTAGGCCCTTGG
* * * * *
23844987 TCGTGCGAGAGGCTCGGGCACCATTGGCAAACTAAGCCCTTGGTCGTGCGGGAACCTGGGGCACC
194 TCGTGCGAGAGCCTCGGGCACCATCGGCAAAATAAGCCCTTGGTCGTGCGGGAACCTCGAGCACC
23845052 ATCGGCA
259 ATCGGCA
23845059 AAATAGGCCA
Statistics
Matches: 247, Mismatches: 16, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
312 1 0.00
313 245 0.99
314 1 0.00
ACGTcount: A:0.16, C:0.31, G:0.33, T:0.20
Consensus pattern (313 bp):
CCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTATG
ATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACC
ATCGGCACCTTGGTCTTTGGATGTGCGGGAGCCTCCCGCACCATCGAGAACCTAGGCCCTTGGTC
GTGCGAGAGCCTCGGGCACCATCGGCAAAATAAGCCCTTGGTCGTGCGGGAACCTCGAGCACCAT
CGGCACCTTGGTCTTTGGATGTGCGGGAGCCTTCCGCACCATCGAGAACCTAG
Found at i:23845055 original size:128 final size:128
Alignment explanation
Indices: 23844819--23845249 Score: 403
Period size: 128 Copynumber: 3.4 Consensus size: 128
23844809 GCCCTTGGTC
* * *** * * **
23844819 GTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGTTGCTATGAT-GTGCGGGAGCCTCGGACACTG
1 GTGCGGGAGCCTCCGGCACCATCGGCAACCTAGGCCCT-TGGTCGTGCGAGAGCCTCGGACACCA
* * * * *
23844882 TCGGTAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGAT
65 TCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGTGCTTGGAT
* * *
23844946 GTGCGGGAGCCTCCCGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCAT
1 GTGCGGGAGCCTCCGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGACACCAT
* * * ** *
23845011 TGGCAAACTAAGCCCTTGGTCGTGCGGGAACCTGGGGCACCATCGGCAAAATAGG-CCATTGG-T
66 CGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTAGGTGC-TTGGAT
* * ** * * *
23845074 CGTGCGGGAG--TCGCGGCCACTATCGGC-CCCTAGGTGCTGGGAT-GTGAGGGAGCCTCGGACA
1 -GTGCGGGAGCCTC-CGG-CACCATCGGCAACCTAGGCCCTTGG-TCGTGCGAGAGCCTCGGACA
* * *
23845135 CCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGACACCTCGGTGCTAT-
62 CCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGTGCT-TG
23845199 GAT
126 GAT
* * *
23845202 GGGCGGGAACCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
1 GTGCGGGAGCCTCCGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
23845250 GACCCCCGGC
Statistics
Matches: 238, Mismatches: 51, Indels: 29
0.75 0.16 0.09
Matches are distributed among these distances:
127 52 0.22
128 157 0.66
129 29 0.12
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (128 bp):
GTGCGGGAGCCTCCGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGACACCAT
CGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTAGGTGCTTGGAT
Found at i:23846974 original size:114 final size:115
Alignment explanation
Indices: 23846765--23846983 Score: 245
Period size: 114 Copynumber: 1.9 Consensus size: 115
23846755 AATCATTTGA
* * **
23846765 AAAAGGAATTGTTGCTTTTGATGACAATTTCTTTTTTATAATTCTGTTTTTGGTGCTTTTTTTTT
1 AAAAGGAATTGTTGCTTTTGATGACAATTTCTTTTTTATAATTCTGGTTCTGGTGCTTTTGCTTT
**
23846830 CTGAAGTTGAGAAATTTGTTGATTGAATTGTGTTTGTGTTCTTGGTTTCTC
66 CTGAAGTTGAGAAATTTGTTGATT-AATTGTAATTGTGTTCTTGGTTTCTC
* *
23846881 AAAA-GAA-TGTTGC-TTTGATGACAATTTCTTATTATTCT-ATTCTGGGTTCTGGTTCTTTCTG
1 AAAAGGAATTGTTGCTTTTGATGACAATTTCTT-TT-TTATAATTCT-GGTTCTGGTGCTTT-TG
*
23846942 CTTT-T-AAGTTGAGAATTTTGTTGCTATT-ATTGTAATTGTGTT
62 CTTTCTGAAGTTGAGAAATTTGTTG--ATTAATTGTAATTGTGTT
23846984 ATAGCCAATT
Statistics
Matches: 88, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
113 17 0.19
114 42 0.48
115 18 0.20
116 11 0.12
ACGTcount: A:0.20, C:0.09, G:0.19, T:0.52
Consensus pattern (115 bp):
AAAAGGAATTGTTGCTTTTGATGACAATTTCTTTTTTATAATTCTGGTTCTGGTGCTTTTGCTTT
CTGAAGTTGAGAAATTTGTTGATTAATTGTAATTGTGTTCTTGGTTTCTC
Found at i:23862824 original size:92 final size:90
Alignment explanation
Indices: 23862591--23862852 Score: 269
Period size: 93 Copynumber: 2.8 Consensus size: 90
23862581 ACAAGTCACT
* *
23862591 GCATCTTCACTAAATTAAGATTCAAGAGGAAGTGCTTCAGTTTGGTTTGGTTTTGGACTCCACTA
1 GCATCTTCACTAAA-T-AGA-TCAAGAGGAAGTGCTTCAGTTTGGTTTTGTTTTGGACT-CACTG
*
23862656 ATCCTTTGAAAACATCAAAAGATACATCA
62 ATCCTTTGAAAGCATCAAAAGATACATCA
* * **
23862685 -CATCTTCACTAGATAAAGGTTCATA-AGGAAGCACTTCAGTTTGGTTTTGTTTTGGACTCAGCT
1 GCATCTTCACTA-A-ATA-GATCA-AGAGGAAGTGCTTCAGTTTGGTTTTGTTTTGGACTCA-CT
* * *
23862748 GATCCCTTGAAAGCAT-AAAAGGTGCATCGCA
61 GATCCTTTGAAAGCATCAAAAGATACAT--CA
* ** *
23862779 GCATCTTCACTAAATAGATCACGAGGAAGTGCTTCAACTTGGTTTTGTTTTGGACTCAAATGATC
1 GCATCTTCACTAAATAGATCAAGAGGAAGTGCTTCAGTTTGGTTTTGTTTTGGACTC-ACTGATC
23862844 CTTTGAAAG
65 CTTTGAAAG
23862853 TACTAAAAAA
Statistics
Matches: 139, Mismatches: 19, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
92 58 0.42
93 63 0.45
94 6 0.04
95 12 0.09
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (90 bp):
GCATCTTCACTAAATAGATCAAGAGGAAGTGCTTCAGTTTGGTTTTGTTTTGGACTCACTGATCC
TTTGAAAGCATCAAAAGATACATCA
Found at i:23863033 original size:15 final size:15
Alignment explanation
Indices: 23863015--23863046 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
23863005 CTCGCTAGAC
23863015 GGTTCATGTTTGAAA
1 GGTTCATGTTTGAAA
*
23863030 GGTTCATGTTTGGAA
1 GGTTCATGTTTGAAA
23863045 GG
1 GG
23863047 ACAACTAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.06, G:0.34, T:0.38
Consensus pattern (15 bp):
GGTTCATGTTTGAAA
Found at i:23865074 original size:6 final size:6
Alignment explanation
Indices: 23865063--23865872 Score: 1620
Period size: 6 Copynumber: 135.0 Consensus size: 6
23865053 AGCTGAACCC
23865063 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
23865111 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
23865159 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
23865207 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
23865255 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
23865303 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
23865351 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
23865399 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
23865447 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
23865495 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
23865543 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
23865591 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
23865639 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
23865687 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
23865735 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
23865783 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
23865831 TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT
23865873 ATCTTAAATA
Statistics
Matches: 804, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 804 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:23874202 original size:13 final size:13
Alignment explanation
Indices: 23874184--23874209 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23874174 TCCTTTTACT
23874184 ATATATTTTGTAG
1 ATATATTTTGTAG
23874197 ATATATTTTGTAG
1 ATATATTTTGTAG
23874210 GTATCTTTGT
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:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
ATATATTTTGTAG
Found at i:23874906 original size:20 final size:20
Alignment explanation
Indices: 23874853--23874924 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
23874843 AAATATTAAA
*
23874853 TTAA-ATTAAA-TAATTATC
1 TTAATATTAAATTTATTATC
* *
23874871 TTAATAGT-ATTTTATTAAT-
1 TTAATATTAAATTTATT-ATC
23874890 TTAATATTAAATTTATTATC
1 TTAATATTAAATTTATTATC
23874910 TTAATATTAAATTTA
1 TTAATATTAAATTTA
23874925 ATTTAATGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 5 0.11
19 15 0.34
20 24 0.55
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (20 bp):
TTAATATTAAATTTATTATC
Found at i:23874981 original size:62 final size:59
Alignment explanation
Indices: 23874910--23875026 Score: 164
Period size: 62 Copynumber: 1.9 Consensus size: 59
23874900 ATTTATTATC
* * *
23874910 TTAATATTAAATTTAATT-TAATGTTTATCTTATAGATAAATATTCTATTTATTTAATAAGAT
1 TTAATATTAAATTT-ATTATAATATTTATC--A-AGATAAATATTATATTAATTTAATAAGAT
23874972 TTAATATTAAATTTATTATAATATTTATCAAGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTATTATAATATTTATCAAGATAAATATTATATTAATTTAATA
23875027 TTAAAGTGAT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
59 23 0.45
60 1 0.02
61 3 0.06
62 24 0.47
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTATTATAATATTTATCAAGATAAATATTATATTAATTTAATAAGAT
Found at i:23879546 original size:9 final size:9
Alignment explanation
Indices: 23879495--23879622 Score: 50
Period size: 9 Copynumber: 13.9 Consensus size: 9
23879485 ACTTTATAAA
23879495 AATTTTCTAT
1 AATTTT-TAT
23879505 -ATTTTATAT
1 AATTTT-TAT
23879514 ACATTTTTCAT
1 A-ATTTTT-AT
*
23879525 GATTTTTA-
1 AATTTTTAT
*
23879533 CATTTTTAT
1 AATTTTTAT
*
23879542 AATTTATAT
1 AATTTTTAT
* *
23879551 AAATTTGA-
1 AATTTTTAT
**
23879559 ACCTTTTA-
1 AATTTTTAT
23879567 AATATTTTAT
1 AAT-TTTTAT
23879577 AATTCTTTAT
1 AATT-TTTAT
*
23879587 -ATATATTAT
1 AAT-TTTTAT
* *
23879596 GAATCTCTAT
1 -AATTTTTAT
23879606 AATTTTTAT
1 AATTTTTAT
*
23879615 GATTTTTA
1 AATTTTTA
23879623 ATATAAAATA
Statistics
Matches: 88, Mismatches: 20, Indels: 21
0.68 0.16 0.16
Matches are distributed among these distances:
8 13 0.15
9 47 0.53
10 19 0.22
11 9 0.10
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (9 bp):
AATTTTTAT
Found at i:23884134 original size:29 final size:29
Alignment explanation
Indices: 23884085--23884165 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 29
23884075 TGGTCCTATT
*
23884085 TTTTTTAATTTCTT-TTA-AATTACCCCCA
1 TTTTTTAGTTT-TTATTACAATTACCCCCA
* *
23884113 TTTTTTCGTTTTTAATT-CAATTTA-GCCCA
1 TTTTTTAGTTTTT-ATTACAA-TTACCCCCA
23884142 TTTTTTAGTTTTTATTACAATTAC
1 TTTTTTAGTTTTTATTACAATTAC
23884166 GCCATACTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
27 2 0.05
28 15 0.35
29 23 0.53
30 3 0.07
ACGTcount: A:0.23, C:0.16, G:0.04, T:0.57
Consensus pattern (29 bp):
TTTTTTAGTTTTTATTACAATTACCCCCA
Found at i:23884475 original size:16 final size:16
Alignment explanation
Indices: 23884454--23884487 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23884444 CATATTGTAC
* *
23884454 ATATATATGTATTTGA
1 ATATATACGTATATGA
23884470 ATATATACGTATATGA
1 ATATATACGTATATGA
23884486 AT
1 AT
23884488 TTTCACGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (16 bp):
ATATATACGTATATGA
Found at i:23886856 original size:22 final size:22
Alignment explanation
Indices: 23886831--23886873 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
23886821 ATAAGTTCCT
*
23886831 TTACATTCAATTAATAAATGTA
1 TTACATTCAATCAATAAATGTA
23886853 TTACATTCAATCAATAAATGT
1 TTACATTCAATCAATAAATGT
23886874 GAATTAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.40
Consensus pattern (22 bp):
TTACATTCAATCAATAAATGTA
Found at i:23888466 original size:5 final size:5
Alignment explanation
Indices: 23888456--23888504 Score: 53
Period size: 5 Copynumber: 9.0 Consensus size: 5
23888446 GGAAGATGGT
*
23888456 TTTTA TTTTA TTTTA TTTTA TTTTA TGTTTTA TGCTTTA TTATA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA --TTTTA T--TTTA TTTTA TTTTA
23888505 ATTAATTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
5 28 0.74
7 10 0.26
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:23889463 original size:109 final size:109
Alignment explanation
Indices: 23889268--23889466 Score: 249
Period size: 109 Copynumber: 1.8 Consensus size: 109
23889258 GAAAAAAAAA
* ** *
23889268 ATCATATGCCTTAGTCATCGCCAAAGTCTTGGCGAAATGATGTAGCACGTCCTTGGTCCACTCCC
1 ATCATATGCCTCAACCATCGCCAAAGTCTTGGCGAAATGATATAGCACGTCCTTGGTCCACTCCC
* * * *
23889333 AAATATTTGTTGATGTTTCCAAAAATCTCGAAGTAAGCTTGAGC
66 AAAGATTTGTCGAAGTCTCCAAAAATCTCGAAGTAAGCTTGAGC
* * *
23889377 ATCATATGCCTCAACCATCGCCAAAGTCTTGGCGGAATGATATAGCACGT-CTTCGGTTCGC-CC
1 ATCATATGCCTCAACCATCGCCAAAGTCTTGGCGAAATGATATAGCACGTCCTT-GGTCCACTCC
**
23889440 TTTAAGATTTGTCGAAGTCTCCAAAAA
65 -CAAAGATTTGTCGAAGTCTCCAAAAA
23889467 ATCTTGAGCT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
108 5 0.07
109 70 0.93
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (109 bp):
ATCATATGCCTCAACCATCGCCAAAGTCTTGGCGAAATGATATAGCACGTCCTTGGTCCACTCCC
AAAGATTTGTCGAAGTCTCCAAAAATCTCGAAGTAAGCTTGAGC
Found at i:23889786 original size:16 final size:15
Alignment explanation
Indices: 23889743--23889790 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
23889733 TGATAAGTTG
23889743 AAAAAAAAAAGTAAAA
1 AAAAAAAAAAG-AAAA
**
23889759 AAAAATCCAAAGAAAA
1 AAAAA-AAAAAGAAAA
23889775 AAGAAAAAAAAGAAAA
1 AA-AAAAAAAAGAAAA
23889791 GAAGTTTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 19 0.73
17 7 0.27
ACGTcount: A:0.83, C:0.04, G:0.08, T:0.04
Consensus pattern (15 bp):
AAAAAAAAAAGAAAA
Found at i:23901819 original size:20 final size:18
Alignment explanation
Indices: 23901791--23901831 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
23901781 TAAAAGATAG
23901791 ATAAAATT-AA-T-AACT
1 ATAAAATTAAATTAAACT
23901806 ATAAAATTAAATTAAACT
1 ATAAAATTAAATTAAACT
23901824 ATAAAATT
1 ATAAAATT
23901832 TAAAACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.35
16 2 0.09
17 1 0.04
18 12 0.52
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAAAATTAAATTAAACT
Found at i:23902376 original size:31 final size:31
Alignment explanation
Indices: 23902341--23902408 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
23902331 ATTTGATTTG
* *
23902341 ATTATACATATTAAAATTTGATTTTAAATT-A
1 ATTATACAAATAAAAATTTGATTTT-AATTCA
*
23902372 ATTATATAAATAAAAATTTGATTTTAATTCA
1 ATTATACAAATAAAAATTTGATTTTAATTCA
23902403 ATTATA
1 ATTATA
23902409 AATCTTTAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 4 0.12
31 29 0.88
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (31 bp):
ATTATACAAATAAAAATTTGATTTTAATTCA
Found at i:23902464 original size:93 final size:93
Alignment explanation
Indices: 23902357--23902537 Score: 247
Period size: 93 Copynumber: 1.9 Consensus size: 93
23902347 CATATTAAAA
* * * *
23902357 TTTGATTTTAAATTAATTATATAAATAAAAATTTGA-TTTTAATTCAATTATAAATCTTTAGAAA
1 TTTGATTTCAAATTAATTATACAAAT-AAAATTTGAGTTTTAATTCAATTATAAACCATTAGAAA
*
23902421 AACAAATAAGTTATGTTATTTAATAATTT
65 AACAAATAAGTTAAGTTATTTAATAATTT
* * * * *
23902450 TTTGATTTCGAATTAATTATACAAATAAAATTTTAGTTTTGATTCAATTATAAACCATTATAAAT
1 TTTGATTTCAAATTAATTATACAAATAAAATTTGAGTTTTAATTCAATTATAAACCATTAGAAAA
*
23902515 ATAAATAAGTTAAGTTATTTAAT
66 ACAAATAAGTTAAGTTATTTAAT
23902538 GACTTAGGAA
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
92 8 0.11
93 68 0.89
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.45
Consensus pattern (93 bp):
TTTGATTTCAAATTAATTATACAAATAAAATTTGAGTTTTAATTCAATTATAAACCATTAGAAAA
ACAAATAAGTTAAGTTATTTAATAATTT
Found at i:23909081 original size:254 final size:253
Alignment explanation
Indices: 23908605--23909116 Score: 792
Period size: 254 Copynumber: 2.0 Consensus size: 253
23908595 AAATTAAATT
* *
23908605 TTATGGAAAGAGCCTTCTTATTTCAAGTTAATTAAGAAAAAATGATCATATTCCGTAAGTTAGGG
1 TTATGGAAAGAGCCTTCTTATTTCAAGTTAATTAAGAAAAAAAGATCATAGTCCGTAAGTTAGGG
* * * * *
23908670 TACGATATCTCGAATCCTCGAAAATAAGAATACTCGTCATTTGATTATTACCTAAGTCCTATGTT
66 CAAGATATCTCAAATCCTCGAAAATAAGAATACTCGTCATTTGATTATAACCTAAGTCCTATGTG
* * *
23908735 TCTTGAATTTTAAATAAGATGTTTGATTATTTCGGTTCTAGAAAGATGTCATATTCCGTAAGTTA
131 TCTTGAATTTTAAATAAGATGTTTGATTATTTCGGTTCTAGAAAGAGGCCATACTCCGTAAGTTA
* * * **
23908800 GGAGCACGACTCCTCGAATCTCAAAAATAATGAACATTGCCTTGGTTTTAATTACTTC
196 GGAACACGACTCCTCAAATCCCAAAAATAATGAACATTGCCTCAGTTTTAATTACTTC
* * *
23908858 TTATNGAAAGAGCCTTCTTATTTCTAGTTAATTGAGAAAAAAAGTATCAT-GTCCTGTAAGTTAG
1 TTATGGAAAGAGCCTTCTTATTTCAAGTTAATTAAGAAAAAAAG-ATCATAGTCC-GTAAGTTAG
*
23908922 GGCAAGATATCTCAAATCCTCGAAAATAAGAATACTCGTCATTTGATTATAACCTAAGTTCTATG
64 GGCAAGATATCTCAAATCCTCGAAAATAAGAATACTCGTCATTTGATTATAACCTAAGTCCTATG
* * *
23908987 TGTCTTGAATTTTAAATAGGATGTTTGGTTATTTCGGTTCTAGGAAGAGGCCATACTCCGTAAGT
129 TGTCTTGAATTTTAAATAAGATGTTTGATTATTTCGGTTCTAGAAAGAGGCCATACTCCGTAAGT
*
23909052 TAGGAACACGGCTCCTCAAATCCCAAAAATAATGAACATTGCCTCAGTTTTAATTACTTC
194 TAGGAACACGACTCCTCAAATCCCAAAAATAATGAACATTGCCTCAGTTTTAATTACTTC
23909112 TTATG
1 TTATG
23909117 CATCATGTAA
Statistics
Matches: 233, Mismatches: 24, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
253 43 0.18
254 190 0.82
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (253 bp):
TTATGGAAAGAGCCTTCTTATTTCAAGTTAATTAAGAAAAAAAGATCATAGTCCGTAAGTTAGGG
CAAGATATCTCAAATCCTCGAAAATAAGAATACTCGTCATTTGATTATAACCTAAGTCCTATGTG
TCTTGAATTTTAAATAAGATGTTTGATTATTTCGGTTCTAGAAAGAGGCCATACTCCGTAAGTTA
GGAACACGACTCCTCAAATCCCAAAAATAATGAACATTGCCTCAGTTTTAATTACTTC
Found at i:23909399 original size:34 final size:34
Alignment explanation
Indices: 23909339--23909405 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 34
23909329 TCACTATAAT
*
23909339 CAAATAGTGATAATGCAACTATAATAACAACAACA
1 CAAATAGTGATAAT-CAACAATAATAACAACAACA
*
23909374 CAAATAGATGATAAT-AACAATAATAATAACAA
1 CAAATAG-TGATAATCAACAATAATAACAACAA
23909406 TTATGACATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 15 0.52
35 7 0.24
36 7 0.24
ACGTcount: A:0.58, C:0.13, G:0.07, T:0.21
Consensus pattern (34 bp):
CAAATAGTGATAATCAACAATAATAACAACAACA
Found at i:23909514 original size:21 final size:21
Alignment explanation
Indices: 23909475--23909514 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
23909465 TTTAAAGGGC
*
23909475 AAAAATGTAAATAATAAAATT
1 AAAAATGTAAATAACAAAATT
23909496 AAAAATGCTAAA-AACAAAA
1 AAAAATG-TAAATAACAAAA
23909515 ATACACTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (21 bp):
AAAAATGTAAATAACAAAATT
Found at i:23914569 original size:29 final size:29
Alignment explanation
Indices: 23914531--23914615 Score: 84
Period size: 31 Copynumber: 2.8 Consensus size: 29
23914521 TTTTATGTGT
*
23914531 AATTTAATACATAAACTTTGATTTGGTGC
1 AATTTGATACATAAACTTTGATTTGGTGC
*
23914560 AATTTGATACATGAAAC-TTGAATTGTGGTTC
1 AATTTGATACAT-AAACTTTG-ATT-TGGTGC
*
23914591 -ATATGTATACATTAAACTTTGATTT
1 AATTTG-ATACA-TAAACTTTGATTT
23914616 TAGTTAAACT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
29 14 0.30
30 12 0.26
31 17 0.36
32 4 0.09
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.42
Consensus pattern (29 bp):
AATTTGATACATAAACTTTGATTTGGTGC
Found at i:23917174 original size:15 final size:14
Alignment explanation
Indices: 23917156--23917206 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
23917146 ATTTTAAAAA
23917156 TTAAAAAAAAGTATT
1 TTAAAAAAAA-TATT
*
23917171 TTAAAATTAAAA-AAT
1 TTAAAA--AAAATATT
*
23917186 TAAAAAAAAATATT
1 TTAAAAAAAATATT
23917200 TTAAAAA
1 TTAAAAA
23917207 TATTTTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
13 4 0.14
14 8 0.28
15 13 0.45
17 4 0.14
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (14 bp):
TTAAAAAAAATATT
Found at i:23917174 original size:31 final size:31
Alignment explanation
Indices: 23917136--23917228 Score: 118
Period size: 29 Copynumber: 3.0 Consensus size: 31
23917126 GGCCCATTTT
*
23917136 TATTTTAAAAATTTTAAAAATTAAAAAAAAG
1 TATTTTAAAAATTTTAAAAATTAAAAAAAAA
*
23917167 TATTTT-AAAA-TTAAAAAATTAAAAAAAAA
1 TATTTTAAAAATTTTAAAAATTAAAAAAAAA
* * *
23917196 TATTTTAAAAATATTTTAAATTTTAAAAAAAA
1 TATTTTAAAAAT-TTTAAAAATTAAAAAAAAA
23917228 T
1 T
23917229 TAAAAAAGTA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
29 23 0.43
30 8 0.15
31 6 0.11
32 16 0.30
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (31 bp):
TATTTTAAAAATTTTAAAAATTAAAAAAAAA
Found at i:23917257 original size:10 final size:11
Alignment explanation
Indices: 23917191--23917256 Score: 52
Period size: 11 Copynumber: 6.4 Consensus size: 11
23917181 AAAATTAAAA
23917191 AAAAATATTTT
1 AAAAATATTTT
23917202 AAAAATATTTT
1 AAAAATATTTT
23917213 ---AA-ATTTT
1 AAAAATATTTT
* * *
23917220 AAAAAAAATTA
1 AAAAATATTTT
*
23917231 AAAAAGTA-TGT
1 AAAAA-TATTTT
23917242 AAAAATATTTT
1 AAAAATATTTT
23917253 AAAA
1 AAAA
23917257 TTAAAAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
7 5 0.12
8 2 0.05
10 4 0.09
11 31 0.72
12 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:23917265 original size:41 final size:40
Alignment explanation
Indices: 23917161--23917271 Score: 127
Period size: 40 Copynumber: 2.7 Consensus size: 40
23917151 AAAAATTAAA
* *
23917161 AAAAAGTATTTTAAAATTAAAAAATTAAA-AAAAAATATTTT
1 AAAAA-TATTTTAAAATTAAAAAA-AAAATAAAAAATATTGT
* * *
23917202 AAAAATATTTTAAATTTTAAAAAAAATTAAAAAAGTA-TGT
1 AAAAATATTTTAAAATTAAAAAAAAAATAAAAAA-TATTGT
23917242 AAAAATATTTTAAAATTAAAAAAATAAATA
1 AAAAATATTTTAAAATTAAAAAAA-AAATA
23917272 TATTTATTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
39 2 0.03
40 46 0.78
41 11 0.19
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (40 bp):
AAAAATATTTTAAAATTAAAAAAAAAATAAAAAATATTGT
Found at i:23918991 original size:19 final size:20
Alignment explanation
Indices: 23918953--23918997 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
23918943 TAATTACTAT
*
23918953 AAAAATTTATTAACACAATA
1 AAAAATTTATAAACACAATA
*
23918973 AAAAATTTCTAAACA-AATA
1 AAAAATTTATAAACACAATA
23918992 ACAAAA
1 A-AAAA
23918998 AATCGTATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAATTTATAAACACAATA
Found at i:23920077 original size:19 final size:21
Alignment explanation
Indices: 23920033--23920077 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
23920023 AAATTTATAA
*
23920033 AATATACATAAATTAGTTTTAT
1 AATATACATAAATTA-TTTTAC
23920055 AATATA-ATAAATT-TTTTAC
1 AATATACATAAATTATTTTAC
23920074 AATA
1 AATA
23920078 ACCATCCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 9 0.41
21 7 0.32
22 6 0.27
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (21 bp):
AATATACATAAATTATTTTAC
Found at i:23921909 original size:18 final size:18
Alignment explanation
Indices: 23921872--23921914 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
23921862 GAATAGGTTT
23921872 TTAATTAAATAAATTTAA
1 TTAATTAAATAAATTTAA
* *
23921890 TTGATTAAA-AATTTTAAA
1 TTAATTAAATAAATTT-AA
23921908 TTAATTA
1 TTAATTA
23921915 CATATTGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAATAAATTTAA
Found at i:23925035 original size:17 final size:17
Alignment explanation
Indices: 23925002--23925036 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
23924992 TCCTCTATGT
* *
23925002 TAGAATAAATATTAAAA
1 TAGAATAAAAATCAAAA
23925019 TAGAATAAAAATCAAAA
1 TAGAATAAAAATCAAAA
23925036 T
1 T
23925037 CAAATAGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.26
Consensus pattern (17 bp):
TAGAATAAAAATCAAAA
Found at i:23930873 original size:12 final size:12
Alignment explanation
Indices: 23930838--23930880 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
23930828 TTTTCTATTA
*
23930838 TTTAATAATTTT
1 TTTAAAAATTTT
23930850 TTTAAAATAATTTT
1 TTT-AAA-AATTTT
23930864 TTTAAAAATTGTT
1 TTTAAAAATT-TT
23930877 TTTA
1 TTTA
23930881 GTGAAACAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 7 0.26
13 11 0.41
14 9 0.33
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (12 bp):
TTTAAAAATTTT
Found at i:23930879 original size:15 final size:14
Alignment explanation
Indices: 23930841--23930870 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
23930831 TCTATTATTT
23930841 AATAATTTTTTTAA
1 AATAATTTTTTTAA
23930855 AATAATTTTTTTAA
1 AATAATTTTTTTAA
23930869 AA
1 AA
23930871 ATTGTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
AATAATTTTTTTAA
Found at i:23934138 original size:16 final size:16
Alignment explanation
Indices: 23934117--23934184 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
23934107 TTTGGTTCGC
23934117 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
23934133 TGTATTGGATTAGATG
1 TGTATTGGATTAGAGG
23934149 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
23934165 TGTATTGGATTAGAGT
1 TGTATTGGATTAGAGG
23934181 TGTA
1 TGTA
23934185 ATAGCTAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.25, C:0.00, G:0.34, T:0.41
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:23934447 original size:18 final size:18
Alignment explanation
Indices: 23934408--23934454 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
23934398 ATTTAAACAC
23934408 AATTATAATT-AAATATAT
1 AATT-TAATTAAAATATAT
23934426 --TTTAATTAAAATATAT
1 AATTTAATTAAAATATAT
23934442 AATTTAA-TAAAAT
1 AATTTAATTAAAAT
23934455 TCTTATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 5 0.19
16 10 0.38
17 6 0.23
18 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTTAATTAAAATATAT
Found at i:23934591 original size:156 final size:157
Alignment explanation
Indices: 23934307--23934622 Score: 553
Period size: 156 Copynumber: 2.0 Consensus size: 157
23934297 TAGAATACCC
* * *
23934307 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTATTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
* * *
23934372 TTATCAGTAATAAATATTTTAATCATATTTAAACACAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAATAATAAATAATTTAATCATATTTAAACACAATTATAATTAAATATATTATAATTAAAA
23934437 TATATAATTTAATAAAATTCTT-ATAA
131 TATATAATTTAATAAAATTCTTAATAA
23934463 TTAGCAGAAAATTATTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTATTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
* *
23934528 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 TTATCAATAATAAATAATTTAATCATATTTAAACACAATTATAATTAAATATATTATAATTAAAA
23934593 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
23934620 TTA
1 TTA
23934623 ATATTCTTAT
Statistics
Matches: 151, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
156 144 0.95
157 7 0.05
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.46
Consensus pattern (157 bp):
TTAGCAGAAAATTATTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
TTATCAATAATAAATAATTTAATCATATTTAAACACAATTATAATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:23934593 original size:16 final size:16
Alignment explanation
Indices: 23934556--23934597 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
23934546 TTAATCATAT
*
23934556 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
23934572 TT-AAATATATTATAA
1 TTAAAATATATTATAA
23934587 TTAAAATATAT
1 TTAAAATATAT
23934598 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:23934604 original size:14 final size:15
Alignment explanation
Indices: 23934565--23934606 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
23934555 TTTAAACATA
*
23934565 ATTATTATTAAATAT
1 ATTATAATTAAATAT
23934580 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
23934594 A-TATAATTTAATA
1 ATTATAATTAAATA
23934607 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:23934818 original size:24 final size:25
Alignment explanation
Indices: 23934772--23934819 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
23934762 TATGAATTTG
23934772 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
23934798 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
23934820 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:23934823 original size:92 final size:92
Alignment explanation
Indices: 23934727--23934955 Score: 236
Period size: 92 Copynumber: 2.5 Consensus size: 92
23934717 TGATTTAATA
* * *
23934727 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
23934789 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
23934819 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
23934884 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
23934909 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
23934956 CTAAAATCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 81 0.68
93 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:23937541 original size:20 final size:20
Alignment explanation
Indices: 23937502--23937546 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
23937492 AGTGGGTGAA
* **
23937502 CGGTGATGTGACCATGGCGG
1 CGGTGATGTGACAACAGCGG
*
23937522 TGGTGATGTGACAACAGCGG
1 CGGTGATGTGACAACAGCGG
23937542 CGGTG
1 CGGTG
23937547 GCAGGGAGCC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.18, C:0.18, G:0.44, T:0.20
Consensus pattern (20 bp):
CGGTGATGTGACAACAGCGG
Found at i:23939155 original size:33 final size:33
Alignment explanation
Indices: 23939116--23939225 Score: 136
Period size: 33 Copynumber: 3.3 Consensus size: 33
23939106 ATTATAAAGC
23939116 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
23939149 ATGTATAATTGACCTAAAATTACTTGTTGGTTT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
23939182 AATGT-T-ATTGTCCCTAAAA-AACATTGTTGGTGT
1 -ATGTATAATTG-ACCTAAAATTA-ATTGTTGGTGT
23939215 ATGTATAATTG
1 ATGTATAATTG
23939226 TTGGTTTAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
32 9 0.14
33 49 0.74
34 8 0.12
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTGT
Found at i:23939232 original size:51 final size:51
Alignment explanation
Indices: 23939172--23939376 Score: 385
Period size: 51 Copynumber: 4.0 Consensus size: 51
23939162 CTAAAATTAC
23939172 TTGTTGGTTTAATGTTATTGT-CCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATT-TACCCTAAAAAACATTGTTGGTGTATGTATAA
*
23939223 TTGTTGGTTTAATGTTATTTACCCTAAAAAATATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
23939274 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
23939325 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
23939376 T
1 T
23939377 CTTTTAATTT
Statistics
Matches: 151, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
50 1 0.01
51 150 0.99
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (51 bp):
TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
Found at i:23939554 original size:86 final size:86
Alignment explanation
Indices: 23939451--23939717 Score: 527
Period size: 86 Copynumber: 3.1 Consensus size: 86
23939441 TTCTCTCCAC
23939451 ATAA-AATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
1 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
23939515 TTAATATTAAAGATAAAAATT
66 TTAATATTAAAGATAAAAATT
23939536 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
1 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
23939601 TTAATATTAAAGATAAAAATT
66 TTAATATTAAAGATAAAAATT
23939622 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
1 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
23939687 TTAATATTAAAGATAAAAATT
66 TTAATATTAAAGATAAAAATT
23939708 ATAATAATTA
1 ATAATAATTA
23939718 CAATTATATT
Statistics
Matches: 181, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 4 0.02
86 177 0.98
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.40
Consensus pattern (86 bp):
ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
TTAATATTAAAGATAAAAATT
Found at i:23950324 original size:17 final size:18
Alignment explanation
Indices: 23950286--23950329 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
23950276 TATTTTCAAG
*
23950286 AAAATATAATAATAAATTA
1 AAAATAT-ATAATAAATAA
23950305 AAAATATATAA-AAATAA
1 AAAATATATAATAAATAA
23950322 AAAATATA
1 AAAATATA
23950330 GTTGGCAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 13 0.54
18 4 0.17
19 7 0.29
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAATATATAATAAATAA
Found at i:23950431 original size:25 final size:24
Alignment explanation
Indices: 23950403--23950451 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
23950393 ATTTAAATTT
*
23950403 TATATTAATATTAAATAAATATAAA
1 TATATTAATACTAAATAAA-ATAAA
23950428 TATATTAATACTAAATAAAATAAA
1 TATATTAATACTAAATAAAATAAA
23950452 AATCCCCCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
TATATTAATACTAAATAAAATAAA
Found at i:23950432 original size:19 final size:20
Alignment explanation
Indices: 23950410--23950449 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
23950400 TTTTATATTA
23950410 ATATTAA-A-TAAATATAAAT
1 ATATTAATACTAAATA-AAAT
23950429 ATATTAATACTAAATAAAAT
1 ATATTAATACTAAATAAAAT
23950449 A
1 A
23950450 AAAATCCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 6 0.32
21 6 0.32
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
ATATTAATACTAAATAAAAT
Found at i:23950792 original size:10 final size:10
Alignment explanation
Indices: 23950777--23950819 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
23950767 TTTGAAATAT
23950777 TTTAATATAA
1 TTTAATATAA
23950787 TTTAATATTTAA
1 TTTAATA--TAA
*
23950799 TATTAATTTAA
1 T-TTAATATAA
23950810 TTTAATATAA
1 TTTAATATAA
23950820 AACATTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
10 15 0.54
11 4 0.14
12 4 0.14
13 5 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TTTAATATAA
Found at i:23950795 original size:18 final size:18
Alignment explanation
Indices: 23950772--23950810 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
23950762 AAATATTTGA
23950772 AATATTTTAATA-TAATTT
1 AATA-TTTAATATTAATTT
23950790 AATATTTAATATTAATTT
1 AATATTTAATATTAATTT
23950808 AAT
1 AAT
23950811 TTAATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AATATTTAATATTAATTT
Found at i:23950941 original size:29 final size:29
Alignment explanation
Indices: 23950909--23950994 Score: 83
Period size: 29 Copynumber: 3.1 Consensus size: 29
23950899 TAAATTATAT
23950909 ATTATTTTATTAAATTATATTTAATAACA
1 ATTATTTTATTAAATTATATTTAATAACA
* **
23950938 ATTA---TATTAAAATATGA-TTAA-AGTA
1 ATTATTTTATTAAATTAT-ATTTAATAACA
*
23950963 TTTATTATTATTAAATTATATTTAATAACA
1 ATTATT-TTATTAAATTATATTTAATAACA
23950993 AT
1 AT
23950995 CCTATTAAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 13
0.67 0.13 0.21
Matches are distributed among these distances:
25 5 0.12
26 14 0.33
27 1 0.02
28 1 0.02
29 18 0.43
30 3 0.07
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (29 bp):
ATTATTTTATTAAATTATATTTAATAACA
Found at i:23950946 original size:26 final size:26
Alignment explanation
Indices: 23950916--23951005 Score: 90
Period size: 26 Copynumber: 3.3 Consensus size: 26
23950906 TATATTATTT
23950916 TATTAAATTATATTTAATAACAATTA
1 TATTAAATTATATTTAATAACAATTA
* * ***
23950942 TATTAAAATATGATTAAAGTATTTATTA
1 TATTAAATTAT-ATTTAA-TAACAATTA
**
23950970 TTATTAAATTATATTTAATAACAATCC
1 -TATTAAATTATATTTAATAACAATTA
23950997 TATTAAATT
1 TATTAAATT
23951006 TTAATAACAA
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
26 19 0.39
27 9 0.18
28 11 0.22
29 10 0.20
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (26 bp):
TATTAAATTATATTTAATAACAATTA
Found at i:23950991 original size:55 final size:56
Alignment explanation
Indices: 23950879--23951003 Score: 171
Period size: 55 Copynumber: 2.2 Consensus size: 56
23950869 AATATAAAAT
* * *
23950879 AATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTATATTTAATAAC
1 AATTATATTAA-AATATGATTAAAGTATATATTA-TTTATTAAATTATATTTAATAAC
*
23950937 AATTATATTAAAATATGATTAAAGTATTTATTA-TTATTAAATTATATTTAATAAC
1 AATTATATTAAAATATGATTAAAGTATATATTATTTATTAAATTATATTTAATAAC
**
23950992 AATCCTATTAAA
1 AATTATATTAAA
23951004 TTTTAATAAC
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
55 32 0.52
57 18 0.30
58 11 0.18
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (56 bp):
AATTATATTAAAATATGATTAAAGTATATATTATTTATTAAATTATATTTAATAAC
Found at i:23951582 original size:22 final size:22
Alignment explanation
Indices: 23951551--23951601 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
23951541 TAAACCTTTT
* *
23951551 TTTTGTTGTTGCTTTACTGTCA
1 TTTTGCTGTTGCTTTACTATCA
** *
23951573 TTTTGCTGTTTTTTTTCTATCA
1 TTTTGCTGTTGCTTTACTATCA
23951595 TTTTGCT
1 TTTTGCT
23951602 ATTATATTGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.08, C:0.14, G:0.14, T:0.65
Consensus pattern (22 bp):
TTTTGCTGTTGCTTTACTATCA
Found at i:23954956 original size:21 final size:21
Alignment explanation
Indices: 23954932--23954981 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
23954922 TTTACCTAAG
*
23954932 ATATAAATTGAATTGAATTGA
1 ATATAAATTGAATTAAATTGA
* *
23954953 ATATGAATTGTATTAAATTGA
1 ATATAAATTGAATTAAATTGA
*
23954974 GT-TAAATT
1 ATATAAATT
23954982 TACTTGTATA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (21 bp):
ATATAAATTGAATTAAATTGA
Found at i:23957150 original size:21 final size:18
Alignment explanation
Indices: 23957122--23957178 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 18
23957112 CTTTACACCA
23957122 CATTGTGGATAAACCACT
1 CATTGTGGATAAACCACT
**
23957140 CATCGTTGTGGACGAACCACT
1 CA---TTGTGGATAAACCACT
23957161 CATTGTGGATAAACCACT
1 CATTGTGGATAAACCACT
23957179 AGTAATAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 16 0.50
21 16 0.50
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (18 bp):
CATTGTGGATAAACCACT
Done.