Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 107 of 132
Found at i:32537413 original size:43 final size:44
Alignment explanation
Indices: 32537366--32537470 Score: 110
Period size: 41 Copynumber: 2.5 Consensus size: 44
32537356 AGGGAAATTC
* *
32537366 CAAAAAAACGCTTCAATGTGAGAGA-ATTTTTCCTTGACTGAAA
1 CAAAAAAACGCTTCAATGTGAGAAACAGTTTTCCTTGACTGAAA
* * * *
32537409 C--AAAAACGCTGCTATGTG-GAAACAGTTTTCCTTGATTGAGA
1 CAAAAAAACGCTTCAATGTGAGAAACAGTTTTCCTTGACTGAAA
* *
32537450 GAAAAAAACGCTTCCATGTGA
1 CAAAAAAACGCTTCAATGTGA
32537471 AATCACTTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
40 3 0.06
41 30 0.61
43 16 0.33
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (44 bp):
CAAAAAAACGCTTCAATGTGAGAAACAGTTTTCCTTGACTGAAA
Found at i:32537486 original size:43 final size:41
Alignment explanation
Indices: 32537367--32537498 Score: 124
Period size: 43 Copynumber: 3.1 Consensus size: 41
32537357 GGGAAATTCC
* *
32537367 AAAAAAACGCTTCAATGTGAGAGA-ATTTTTCCTTGACTGA-A
1 AAAAAAACGCTTCAATGTGA-A-ACACTTTTCCTTGATTGAGA
* * * *
32537408 ACAAAAACGCTGCTATGTGGAAACAGTTTTCCTTGATTGAGA
1 AAAAAAACGCTTCAATGT-GAAACACTTTTCCTTGATTGAGA
* *
32537450 GAAAAAAACGCTTCCATGTGAAATCACTTTTACTTGATTGAGA
1 -AAAAAAACGCTTCAATGTGAAA-CACTTTTCCTTGATTGAGA
*
32537493 TAAAAA
1 AAAAAA
32537499 TGCTCCTACA
Statistics
Matches: 75, Mismatches: 11, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
40 1 0.01
41 30 0.40
42 12 0.16
43 32 0.43
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (41 bp):
AAAAAAACGCTTCAATGTGAAACACTTTTCCTTGATTGAGA
Found at i:32538925 original size:43 final size:41
Alignment explanation
Indices: 32538846--32538947 Score: 132
Period size: 43 Copynumber: 2.4 Consensus size: 41
32538836 TTGAATTTAA
* *
32538846 TTTAATAATTTTATTTTTTATTTTGAAGCAAGTAAGATTAATTT
1 TTTAATTATTTTA-TTTTTATTTTGAAGCAAATAAGATT-A-TT
* *
32538890 TTTAATTGTTTTATTTTTATTTTGAAGTAAATAAGATTATT
1 TTTAATTATTTTATTTTTATTTTGAAGCAAATAAGATTATT
32538931 TTTAATTATATTTATTT
1 TTTAATTAT-TTTATTT
32538948 ATTGACAACA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
41 10 0.19
42 8 0.15
43 23 0.44
44 11 0.21
ACGTcount: A:0.32, C:0.01, G:0.08, T:0.59
Consensus pattern (41 bp):
TTTAATTATTTTATTTTTATTTTGAAGCAAATAAGATTATT
Found at i:32541366 original size:20 final size:19
Alignment explanation
Indices: 32541341--32541379 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
32541331 TAACTCTTTA
32541341 AAAATTATAAAATTACTATT
1 AAAATTATAAAATTA-TATT
32541361 AAAATTATAAAATTATATT
1 AAAATTATAAAATTATATT
32541380 TTTATTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATTATAAAATTATATT
Found at i:32542795 original size:3 final size:3
Alignment explanation
Indices: 32542787--32542825 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
32542777 AAAAGCAATA
32542787 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32542826 TGTCGAAACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:32545508 original size:18 final size:18
Alignment explanation
Indices: 32545482--32545516 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
32545472 TTTATTTAGA
*
32545482 ATAATTTTAAATTTAAAC
1 ATAAATTTAAATTTAAAC
32545500 ATAAATTTAAATTTAAA
1 ATAAATTTAAATTTAAA
32545517 TTTTAACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
ATAAATTTAAATTTAAAC
Found at i:32546290 original size:100 final size:100
Alignment explanation
Indices: 32546165--32547071 Score: 1395
Period size: 100 Copynumber: 9.1 Consensus size: 100
32546155 GGCTTAAATT
* * *
32546165 TTTCCTTTCATGTTTCTCAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCCCTTTAGTATCT
1 TTTCCCTTCATGTTTCTGAGGTACACGGTCCGCCGTTGCGACTTACACCTTTCCCTTTAGTATCT
* *
32546230 TTGTGGTACTGGATCTGTCATTGCGGTCTTAGATC
66 TTGTGGTACTGGATCCGCCATTGCGGTCTTAGATC
* *
32546265 TTTCCCTTCATGTTTCTGAGATACACGGTCCGCCGTTGCTACTTACACCTTTCCCTTTAGTATCT
1 TTTCCCTTCATGTTTCTGAGGTACACGGTCCGCCGTTGCGACTTACACCTTTCCCTTTAGTATCT
* *
32546330 TTGTGGTACTGGATCCGCCATTGCGGTCTTACATT
66 TTGTGGTACTGGATCCGCCATTGCGGTCTTAGATC
* * * * *
32546365 TTTCCCTTCATGTTTCTCAGGTACACGGTCTGTCGTTGCGACTTAGACCTTTCCCTTTAGTATGT
1 TTTCCCTTCATGTTTCTGAGGTACACGGTCCGCCGTTGCGACTTACACCTTTCCCTTTAGTATCT
* *
32546430 TTGTGGTACTGGATCTGCCATTGCAGTCTTAGATC
66 TTGTGGTACTGGATCCGCCATTGCGGTCTTAGATC
32546465 TTTCCCTTCATGTTTCTGAGGTACACGGTCCGCCGTTGCGACTTACACCTTTCCCTTTAGTATCT
1 TTTCCCTTCATGTTTCTGAGGTACACGGTCCGCCGTTGCGACTTACACCTTTCCCTTTAGTATCT
32546530 TTGTGGTACTGGATCCGCCATTGCGGTCTTAGATC
66 TTGTGGTACTGGATCCGCCATTGCGGTCTTAGATC
* * * *
32546565 TTTCCGTTCATGTTTCTGAGATACACAGTCCGCCGTTGTGACTTACACCTTTCCCTTTAGTATCT
1 TTTCCCTTCATGTTTCTGAGGTACACGGTCCGCCGTTGCGACTTACACCTTTCCCTTTAGTATCT
32546630 TTGTGGTACTGGATCCGCCATTGCGGTCTTAGATC
66 TTGTGGTACTGGATCCGCCATTGCGGTCTTAGATC
* *
32546665 TTTCCTTTCATGTTTCTGAGGTACACGGTCCGCCGTTGCGACTTACACATTTCCCTTT-GTATCT
1 TTTCCCTTCATGTTTCTGAGGTACACGGTCCGCCGTTGCGACTTACACCTTTCCCTTTAGTATCT
*
32546729 TTATGGTACTGGATCCGCCATTGCGGTCTTAGATC
66 TTGTGGTACTGGATCCGCCATTGCGGTCTTAGATC
* * *
32546764 TTTCCCTTCATGTTTTTGAGGTACACGGTCCGCCGTTGCGACTTACACCTTTCCTTTTAGTATAT
1 TTTCCCTTCATGTTTCTGAGGTACACGGTCCGCCGTTGCGACTTACACCTTTCCCTTTAGTATCT
* **
32546829 TTGTGGTACTGGATCTGCCATTGTAGTCTTAGATC
66 TTGTGGTACTGGATCCGCCATTGCGGTCTTAGATC
*
32546864 TTTCCCTTCATGTTTCTGAGGTACACGGTCTGCCGTTGCGACTTACACCTTTCCCTTTAGTATCT
1 TTTCCCTTCATGTTTCTGAGGTACACGGTCCGCCGTTGCGACTTACACCTTTCCCTTTAGTATCT
* *
32546929 TTGTTGTACTGGATCCGCCATTGCGATCTTAGATC
66 TTGTGGTACTGGATCCGCCATTGCGGTCTTAGATC
* * * * * ***
32546964 TTTCCTTTCATGTTTCTAAGGTACACGGTCTGTCGTTACGACTTGGTCCTTTCCCTTTAGTATCT
1 TTTCCCTTCATGTTTCTGAGGTACACGGTCCGCCGTTGCGACTTACACCTTTCCCTTTAGTATCT
*** *
32547029 TTACAGTACTGGATCCACCATTGCGGTCTTA-AGTC
66 TTGTGGTACTGGATCCGCCATTGCGGTCTTAGA-TC
32547064 TTTCCCTT
1 TTTCCCTT
32547072 TTGTATCTTT
Statistics
Matches: 737, Mismatches: 68, Indels: 4
0.91 0.08 0.00
Matches are distributed among these distances:
99 95 0.13
100 642 0.87
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.39
Consensus pattern (100 bp):
TTTCCCTTCATGTTTCTGAGGTACACGGTCCGCCGTTGCGACTTACACCTTTCCCTTTAGTATCT
TTGTGGTACTGGATCCGCCATTGCGGTCTTAGATC
Found at i:32546910 original size:399 final size:400
Alignment explanation
Indices: 32546165--32547071 Score: 1467
Period size: 399 Copynumber: 2.3 Consensus size: 400
32546155 GGCTTAAATT
*
32546165 TTTCCTTTCATGTTTCTCAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCCCTTTAGTATCT
1 TTTCCTTTCATGTTTCTAAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCCCTTTAGTATCT
* *
32546230 TTGTGGTACTGGATCTGTCATTGCGGTCTTAGATCTTTCCCTTCATGTTTCTGAGATACACGGTC
66 TTGTGGTACTGGATCCGCCATTGCGGTCTTAGATCTTTCCCTTCATGTTTCTGAGATACACGGTC
* * *
32546295 CGCCGTTGCTACTTACACCTTTCCCTTTAGTATCTTTGTGGTACTGGATCCGCCATTGCGGTCTT
131 CGCCGTTGCGACTTACACATTTCCCTTTAGTATCTTTATGGTACTGGATCCGCCATTGCGGTCTT
* * * *
32546360 ACATTTTTCCCTTCATGTTTCTCAGGTACACGGTCTGTCGTTGCGACTTAGACCTTTCCCTTTAG
196 ACATCTTTCCCTTCATGTTTCTCAGGTACACGGTCCGCCGTTGCGACTTACACCTTTCCCTTTAG
*
32546425 TATGTTTGTGGTACTGGATCTGCCATTGCAGTCTTAGATCTTTCCCTTCATGTTTCTGAGGTACA
261 TATATTTGTGGTACTGGATCTGCCATTGCAGTCTTAGATCTTTCCCTTCATGTTTCTGAGGTACA
32546490 CGGTCCGCCGTTGCGACTTACACCTTTCCCTTTAGTATCTTTGTGGTACTGGATCCGCCATTGCG
326 CGGTCCGCCGTTGCGACTTACACCTTTCCCTTTAGTATCTTTGTGGTACTGGATCCGCCATTGCG
*
32546555 GTCTTAGATC
391 ATCTTAGATC
* * * * * *
32546565 TTTCCGTTCATGTTTCTGAGATACACAGTCCGCCGTTGTGACTTACACCTTTCCCTTTAGTATCT
1 TTTCCTTTCATGTTTCTAAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCCCTTTAGTATCT
* *
32546630 TTGTGGTACTGGATCCGCCATTGCGGTCTTAGATCTTTCCTTTCATGTTTCTGAGGTACACGGTC
66 TTGTGGTACTGGATCCGCCATTGCGGTCTTAGATCTTTCCCTTCATGTTTCTGAGATACACGGTC
32546695 CGCCGTTGCGACTTACACATTTCCCTTT-GTATCTTTATGGTACTGGATCCGCCATTGCGGTCTT
131 CGCCGTTGCGACTTACACATTTCCCTTTAGTATCTTTATGGTACTGGATCCGCCATTGCGGTCTT
* * * *
32546759 AGATCTTTCCCTTCATGTTTTTGAGGTACACGGTCCGCCGTTGCGACTTACACCTTTCCTTTTAG
196 ACATCTTTCCCTTCATGTTTCTCAGGTACACGGTCCGCCGTTGCGACTTACACCTTTCCCTTTAG
*
32546824 TATATTTGTGGTACTGGATCTGCCATTGTAGTCTTAGATCTTTCCCTTCATGTTTCTGAGGTACA
261 TATATTTGTGGTACTGGATCTGCCATTGCAGTCTTAGATCTTTCCCTTCATGTTTCTGAGGTACA
* *
32546889 CGGTCTGCCGTTGCGACTTACACCTTTCCCTTTAGTATCTTTGTTGTACTGGATCCGCCATTGCG
326 CGGTCCGCCGTTGCGACTTACACCTTTCCCTTTAGTATCTTTGTGGTACTGGATCCGCCATTGCG
32546954 ATCTTAGATC
391 ATCTTAGATC
* * * * *
32546964 TTTCCTTTCATGTTTCTAAGGTACACGGTCTGTCGTTACGACTTGGTCCTTTCCCTTTAGTATCT
1 TTTCCTTTCATGTTTCTAAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCCCTTTAGTATCT
*** *
32547029 TTACAGTACTGGATCCACCATTGCGGTCTTA-AGTCTTTCCCTT
66 TTGTGGTACTGGATCCGCCATTGCGGTCTTAGA-TCTTTCCCTT
32547072 TTGTATCTTT
Statistics
Matches: 464, Mismatches: 42, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
398 1 0.00
399 317 0.68
400 146 0.31
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.39
Consensus pattern (400 bp):
TTTCCTTTCATGTTTCTAAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCCCTTTAGTATCT
TTGTGGTACTGGATCCGCCATTGCGGTCTTAGATCTTTCCCTTCATGTTTCTGAGATACACGGTC
CGCCGTTGCGACTTACACATTTCCCTTTAGTATCTTTATGGTACTGGATCCGCCATTGCGGTCTT
ACATCTTTCCCTTCATGTTTCTCAGGTACACGGTCCGCCGTTGCGACTTACACCTTTCCCTTTAG
TATATTTGTGGTACTGGATCTGCCATTGCAGTCTTAGATCTTTCCCTTCATGTTTCTGAGGTACA
CGGTCCGCCGTTGCGACTTACACCTTTCCCTTTAGTATCTTTGTGGTACTGGATCCGCCATTGCG
ATCTTAGATC
Found at i:32547192 original size:98 final size:97
Alignment explanation
Indices: 32547063--32547382 Score: 370
Period size: 98 Copynumber: 3.3 Consensus size: 97
32547053 GGTCTTAAGT
* * * * * * *
32547063 CTTTCCCTTTTGTATCTTTGTGGTACTGGATTTGCCGTTGTGACTTAAATCTTTCCCTTTATGTT
1 CTTTCCC-TTTATATCTTCGTGGTAC-GGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCT
* * * **
32547128 TCTGAGGTACACGGTCCGCCGTTGCGACTTGGAC
64 TCTGAGGTACAAGGTTCGTCGTTGCGACTTAAAC
* * *
32547162 CTTTCCCTTTATATCTTCGTGGTGCAGGATTCACCGTTGCGGCTTAAATCTTTCTCTTCATGCTT
1 CTTTCCCTTTATATCTTCGTGGTAC-GGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTT
*
32547227 CTGAGGTACAAGGTTCGTCGTTGCAACTTAAAC
65 CTGAGGTACAAGGTTCGTCGTTGCGACTTAAAC
* * * *
32547260 CTTTCCATTCAAATCTTCTTGGTATCGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTT
1 CTTTCCCTTTATATCTTCGTGGTA-CGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTT
* * *
32547325 CTGGGGTACAAGGTTTGTCATTGCGACTTAAAC
65 CTGAGGTACAAGGTTCGTCGTTGCGACTTAAAC
***
32547358 CTTTCCCTTTGCGTCTTCGTGGTAC
1 CTTTCCCTTTATATCTTCGTGGTAC
32547383 TGAAACCTAT
Statistics
Matches: 186, Mismatches: 34, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
97 1 0.01
98 177 0.95
99 8 0.04
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.39
Consensus pattern (97 bp):
CTTTCCCTTTATATCTTCGTGGTACGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTC
TGAGGTACAAGGTTCGTCGTTGCGACTTAAAC
Found at i:32547201 original size:399 final size:398
Alignment explanation
Indices: 32546165--32547207 Score: 1226
Period size: 399 Copynumber: 2.6 Consensus size: 398
32546155 GGCTTAAATT
* * * * * *
32546165 TTTCCTTTCATGTTTCTCAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCCCTTTAGTATCT
1 TTTCCGTTCATGTTTCTAAGATACACAGTCCGCCGTTACGACTTACACCTTTCCCTTTAGTATCT
*** *** * *
32546230 TTGTGGTACTGGATCTGTCATTGCGGTCTTAGATCTTTCCCTTCATGTTTCTGAGATACACGGTC
66 TTACAGTACTGGATCCACCATTGCGGTCTTAGATCTTT-CCTTTATGTTTCTGAGGTACACGGTC
* * * * *
32546295 CGCCGTTGCTACTTACACCTTTCCCTTTAGTATCTTTG-TGGTACTGGATCCGCCATTGCGGTCT
130 CGCCGTTGCGACTTAAACATTTCCCTTT-GTATC-TTGATGGTACCGGATCCGCCATTGCGGACT
* ** * * *** *
32546359 TACATTTTTCCCTTCATGT-TTCTCAGGTACACGGTCTGTCGTTGCGACTTAGACCTTTCCCTTT
193 TAGACCTTTCCCTTCATATCTTC-GAGGTACACGGTCCACCGTTGCGACTTACACCTTTCCCTTT
*
32546423 AGTATGTTTGTGGTACTGGATCTGCCATTGCAGTCTTAGATCTTTCCCTTCATGTTTCTGAGGTA
257 AGTATATTTGTGGTACTGGATCTGCCATTGCAGTCTTAGATCTTTCCCTTCATGTTTCTGAGGTA
32546488 CACGGTCCGCCGTTGCGACTTACACCTTTCCCTTTAGTATCTTTGTGGTACTGGATCCGCCATTG
322 CACGGTCCGCCGTTGCGACTTACACCTTTCCCTTTAGTATCTTTGTGGTACTGGATCCGCCATTG
*
32546553 CGGTCTTAGATC
387 CGATCTTAGATC
* **
32546565 TTTCCGTTCATGTTTCTGAGATACACAGTCCGCCGTTGTGACTTACACCTTTCCCTTTAGTATCT
1 TTTCCGTTCATGTTTCTAAGATACACAGTCCGCCGTTACGACTTACACCTTTCCCTTTAGTATCT
*** *
32546630 TTGTGGTACTGGATCCGCCATTGCGGTCTTAGATCTTTCCTTTCATGTTTCTGAGGTACACGGTC
66 TTACAGTACTGGATCCACCATTGCGGTCTTAGATCTTTCCTTT-ATGTTTCTGAGGTACACGGTC
* * * *
32546695 CGCCGTTGCGACTTACACATTTCCCTTTGTATCTTTATGGTACTGGATCCGCCATTGCGGTCTTA
130 CGCCGTTGCGACTTAAACATTTCCCTTTGTATCTTGATGGTACCGGATCCGCCATTGCGGACTTA
* * * * * *
32546760 GATCTTTCCCTTCATGTTTTTGAGGTACACGGTCCGCCGTTGCGACTTACACCTTTCCTTTTAGT
195 GACCTTTCCCTTCATATCTTCGAGGTACACGGTCCACCGTTGCGACTTACACCTTTCCCTTTAGT
*
32546825 ATATTTGTGGTACTGGATCTGCCATTGTAGTCTTAGATCTTTCCCTTCATGTTTCTGAGGTACAC
260 ATATTTGTGGTACTGGATCTGCCATTGCAGTCTTAGATCTTTCCCTTCATGTTTCTGAGGTACAC
* *
32546890 GGTCTGCCGTTGCGACTTACACCTTTCCCTTTAGTATCTTTGTTGTACTGGATCCGCCATTGCGA
325 GGTCCGCCGTTGCGACTTACACCTTTCCCTTTAGTATCTTTGTGGTACTGGATCCGCCATTGCGA
32546955 TCTTAGATC
390 TCTTAGATC
* * * * * ***
32546964 TTTCCTTTCATGTTTCTAAGGTACACGGTCTGTCGTTACGACTTGGTCCTTTCCCTTTAGTATCT
1 TTTCCGTTCATGTTTCTAAGATACACAGTCCGCCGTTACGACTTACACCTTTCCCTTTAGTATCT
* * *
32547029 TTACAGTACTGGATCCACCATTGCGGTCTTA-AGTCTTTCCCTTT-TGTATCTTTGTGGTAC-TG
66 TTACAGTACTGGATCCACCATTGCGGTCTTAGA-TCTTT-CCTTTATGT-T-TCTGAGGTACACG
** * * *
32547091 GATTTGCCGTTGTGACTTAAATC-TTTCCCTTTATGTTTC-TGA-GGTACACGG-TCCGCCGTTG
127 G-TCCGCCGTTGCGACTTAAA-CATTTCCC-TT-TGTATCTTGATGGTAC-CGGATCCGCCATTG
* * * * * *
32547152 C-GACTTGGACCTTTCCCTTTATATCTTCGTGGTGCA-GGATTCACCGTTGCGGCTTA
187 CGGACTTAGACCTTTCCCTTCATATCTTCGAGGTACACGG-TCCACCGTTGCGACTTA
32547208 AATCTTTCTC
Statistics
Matches: 566, Mismatches: 64, Indels: 27
0.86 0.10 0.04
Matches are distributed among these distances:
398 8 0.01
399 354 0.63
400 192 0.34
401 7 0.01
402 5 0.01
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.39
Consensus pattern (398 bp):
TTTCCGTTCATGTTTCTAAGATACACAGTCCGCCGTTACGACTTACACCTTTCCCTTTAGTATCT
TTACAGTACTGGATCCACCATTGCGGTCTTAGATCTTTCCTTTATGTTTCTGAGGTACACGGTCC
GCCGTTGCGACTTAAACATTTCCCTTTGTATCTTGATGGTACCGGATCCGCCATTGCGGACTTAG
ACCTTTCCCTTCATATCTTCGAGGTACACGGTCCACCGTTGCGACTTACACCTTTCCCTTTAGTA
TATTTGTGGTACTGGATCTGCCATTGCAGTCTTAGATCTTTCCCTTCATGTTTCTGAGGTACACG
GTCCGCCGTTGCGACTTACACCTTTCCCTTTAGTATCTTTGTGGTACTGGATCCGCCATTGCGAT
CTTAGATC
Found at i:32555173 original size:7 final size:7
Alignment explanation
Indices: 32555161--32555186 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
32555151 GGAGCTGAGG
32555161 GGTCAAA
1 GGTCAAA
32555168 GGTCAAA
1 GGTCAAA
32555175 GGTCAAA
1 GGTCAAA
32555182 GGTCA
1 GGTCA
32555187 GCAGACAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.31, T:0.15
Consensus pattern (7 bp):
GGTCAAA
Found at i:32555217 original size:11 final size:11
Alignment explanation
Indices: 32555201--32555240 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
32555191 ACAATGCTGA
*
32555201 GCTGACGTGGT
1 GCTGACGTGGC
32555212 GCTGACGTGGCAC
1 GCTGACGTGG--C
32555225 GCTGACGTGGC
1 GCTGACGTGGC
32555236 GCTGA
1 GCTGA
32555241 TGGCTGGACA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 16 0.62
13 10 0.38
ACGTcount: A:0.12, C:0.25, G:0.42, T:0.20
Consensus pattern (11 bp):
GCTGACGTGGC
Found at i:32555436 original size:18 final size:18
Alignment explanation
Indices: 32555410--32555444 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32555400 ATTATTTAGA
*
32555410 ATAATTTTAAAATTAAAC
1 ATAAATTTAAAATTAAAC
*
32555428 ATAAATTTAAATTTAAA
1 ATAAATTTAAAATTAAA
32555445 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAATTTAAAATTAAAC
Found at i:32555438 original size:6 final size:6
Alignment explanation
Indices: 32555415--32555490 Score: 71
Period size: 6 Copynumber: 12.0 Consensus size: 6
32555405 TTAGAATAAT
* **
32555415 TTTAAA ATTAAA CATAAA TTTAAA TTTAAA TTTAAA TTTTAACA TATTCAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAA-A T-TT-AAA
**
32555467 TTTAAA AATAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
32555491 ATAAATCCAA
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
6 42 0.74
7 8 0.14
8 5 0.09
9 2 0.04
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:32555549 original size:3 final size:3
Alignment explanation
Indices: 32555541--32555578 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
32555531 GGGTTTCTAC
32555541 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
32555579 AGTAACTGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:32565781 original size:138 final size:138
Alignment explanation
Indices: 32565533--32565811 Score: 531
Period size: 138 Copynumber: 2.0 Consensus size: 138
32565523 TTCTGAATGG
32565533 TTGAATTGTTACAATTTTTTGAGGACTTTAAGGTTGGTTTATTTGACTGAAAATGTTTTCTGGAA
1 TTGAATTGTTACAATTTTTTGAGGACTTTAAGGTTGGTTTATTTGACTGAAAATGTTTTCTGGAA
*
32565598 AATGAATTATTTTTTTGGAAAAGTTAATATTTTTTAGTGTTTGGATGAATCTGTGTAAAATATTT
66 AATGAATTATTTTTTTGAAAAAGTTAATATTTTTTAGTGTTTGGATGAATCTGTGTAAAATATTT
*
32565663 TTTATTGT
131 TCTATTGT
*
32565671 TTGAATTGTTACAATTTTTTGAGGACTTTAAGGTTGGTTTATTTGATTGAAAATGTTTTCTGGAA
1 TTGAATTGTTACAATTTTTTGAGGACTTTAAGGTTGGTTTATTTGACTGAAAATGTTTTCTGGAA
32565736 AATGAATTATTTTTTTGAAAAAGTTAATATTTTTTAGTGTTTGGATGAATCTGTGTAAAATATTT
66 AATGAATTATTTTTTTGAAAAAGTTAATATTTTTTAGTGTTTGGATGAATCTGTGTAAAATATTT
32565801 TCTATTGT
131 TCTATTGT
32565809 TTG
1 TTG
32565812 GTAGATTTCC
Statistics
Matches: 138, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
138 138 1.00
ACGTcount: A:0.28, C:0.04, G:0.19, T:0.49
Consensus pattern (138 bp):
TTGAATTGTTACAATTTTTTGAGGACTTTAAGGTTGGTTTATTTGACTGAAAATGTTTTCTGGAA
AATGAATTATTTTTTTGAAAAAGTTAATATTTTTTAGTGTTTGGATGAATCTGTGTAAAATATTT
TCTATTGT
Found at i:32568702 original size:65 final size:64
Alignment explanation
Indices: 32568503--32568710 Score: 274
Period size: 65 Copynumber: 3.2 Consensus size: 64
32568493 GGACAATATT
* * *
32568503 GAAGAAGAAGAGATTATTTCTCTAAAAATCTCTAGAGTTTTTATTTCTCAAAAGA-AGGAATCGC
1 GAAGAAGAA-AAATTATTTCTCTAAAAATCTCTAGAGTTTTTGTTTCTCAAAAGAGA-GAATCGA
32568567 A
64 A
* * * * *
32568568 GAAGGAGAATAGATTGTTTCTCTAAAAATCTCTAGAGTTTTTTGTTTTTCAAAAGAGAGAATCAA
1 GAAGAAGAA-AAATTATTTCTCTAAAAATCTCTAGAG-TTTTTGTTTCTCAAAAGAGAGAATCGA
32568633 A
64 A
*
32568634 GAAGAAGAAACAATTATTTCTCTAAAGATCTCTAGAGTTTTTGTTTCTCAAAAGAGAGAATCGAA
1 GAAGAAGAAA-AATTATTTCTCTAAAAATCTCTAGAGTTTTTGTTTCTCAAAAGAGAGAATCGAA
*
32568699 GAAGATGAAAAA
1 GAAGAAGAAAAA
32568711 AAGAAGGGAA
Statistics
Matches: 126, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
64 2 0.02
65 70 0.56
66 53 0.42
67 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.31
Consensus pattern (64 bp):
GAAGAAGAAAAATTATTTCTCTAAAAATCTCTAGAGTTTTTGTTTCTCAAAAGAGAGAATCGAA
Found at i:32570368 original size:42 final size:42
Alignment explanation
Indices: 32570298--32570381 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
32570288 AAAAAGAGTT
* *
32570298 GTTTATGAGTGTTATTTAGGAATAAAATTATATTTGGGTTTA
1 GTTTATAAGTGTTATTTAAGAATAAAATTATATTTGGGTTTA
* *
32570340 GTTTATAAGTGTTTTTTAAGAATGAAATTATATTTGGGTTTA
1 GTTTATAAGTGTTATTTAAGAATAAAATTATATTTGGGTTTA
32570382 AAAATATTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (42 bp):
GTTTATAAGTGTTATTTAAGAATAAAATTATATTTGGGTTTA
Found at i:32578650 original size:13 final size:13
Alignment explanation
Indices: 32578628--32578661 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
32578618 AAAAAAATCT
32578628 AAATATTAAAAATA
1 AAATA-TAAAAATA
*
32578642 AAATATAAACATA
1 AAATATAAAAATA
32578655 AAATATA
1 AAATATA
32578662 CAAGTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (13 bp):
AAATATAAAAATA
Found at i:32578779 original size:13 final size:14
Alignment explanation
Indices: 32578755--32578783 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
32578745 ACAAAAAAAA
32578755 AAATCTTAAATATT
1 AAATCTTAAATATT
32578769 AAATC-TAAATATT
1 AAATCTTAAATATT
32578782 AA
1 AA
32578784 CAATAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATCTTAAATATT
Found at i:32587618 original size:16 final size:15
Alignment explanation
Indices: 32587579--32587621 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
32587569 TTAAATTAAA
*
32587579 AAAAATCATAAAAACT
1 AAAAATAAT-AAAACT
*
32587595 AAAAATAATAAAATT
1 AAAAATAATAAAACT
32587610 AAAATATAATAA
1 AAAA-ATAATAA
32587622 TTAAATCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAATAATAAAACT
Found at i:32597371 original size:37 final size:37
Alignment explanation
Indices: 32597321--32597399 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
32597311 TTCGAAGCAA
**
32597321 TAAAGTGACACCCAGTGTCTCATCG-TCTTAGCCGAAG
1 TAAAGTGACACCCAGTACCTCATCGATC-TAGCCGAAG
** *
32597358 TAAAGTGGTACCCAGTACCTCATCGAATCTATCCGAAG
1 TAAAGTGACACCCAGTACCTCATCG-ATCTAGCCGAAG
32597396 TAAA
1 TAAA
32597400 ATAATGACAC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
37 21 0.60
38 12 0.34
39 2 0.06
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (37 bp):
TAAAGTGACACCCAGTACCTCATCGATCTAGCCGAAG
Found at i:32598160 original size:2 final size:2
Alignment explanation
Indices: 32598143--32598185 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
32598133 TTTTCCCTTT
32598143 TA TA T- TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32598183 TA T
1 TA T
32598186 TAGTTAATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:32604515 original size:6 final size:6
Alignment explanation
Indices: 32604504--32604532 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
32604494 AAGCGGCGGT
32604504 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
32604533 TAAGTTCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:32606918 original size:20 final size:20
Alignment explanation
Indices: 32606882--32606919 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32606872 AATAATAACA
*
32606882 AGTAAGTATTATAAATATTT
1 AGTAAGTATCATAAATATTT
32606902 AGTAAGT-TCATACAATAT
1 AGTAAGTATCATA-AATAT
32606920 AAACAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (20 bp):
AGTAAGTATCATAAATATTT
Found at i:32610637 original size:24 final size:24
Alignment explanation
Indices: 32610609--32610658 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
32610599 CTAAATTCTT
*
32610609 ATGTAAAATAAATTATGCTAATAA
1 ATGTAAAATAAATTATACTAATAA
* *
32610633 ATGTAATATATATTATACTAATAA
1 ATGTAAAATAAATTATACTAATAA
32610657 AT
1 AT
32610659 ACTAAATCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (24 bp):
ATGTAAAATAAATTATACTAATAA
Found at i:32612414 original size:24 final size:24
Alignment explanation
Indices: 32612381--32612432 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
32612371 TTAATAAGTT
*
32612381 AAATAAATTATGCTAATAAATACA
1 AAATAAATTATACTAATAAATACA
* * *
32612405 AAATATATTATATTAATAAATACT
1 AAATAAATTATACTAATAAATACA
32612429 AAAT
1 AAAT
32612433 CTTTTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACA
Found at i:32612777 original size:21 final size:23
Alignment explanation
Indices: 32612730--32612777 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
32612720 TTAAGACACT
32612730 GAAATAAAACAATCCCAGTAACA
1 GAAATAAAACAATCCCAGTAACA
* *
32612753 GAAATAAAGC-ATCCCA-TAACG
1 GAAATAAAACAATCCCAGTAACA
32612774 GAAA
1 GAAA
32612778 AGAGAGCTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.35
22 6 0.26
23 9 0.39
ACGTcount: A:0.54, C:0.21, G:0.12, T:0.12
Consensus pattern (23 bp):
GAAATAAAACAATCCCAGTAACA
Found at i:32613474 original size:19 final size:19
Alignment explanation
Indices: 32613450--32613490 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
32613440 AACCTGACAT
32613450 TTTAACCCATGCGCATTAA
1 TTTAACCCATGCGCATTAA
32613469 TTTAACCCATGCGCATTAA
1 TTTAACCCATGCGCATTAA
32613488 TTT
1 TTT
32613491 TGTTGTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (19 bp):
TTTAACCCATGCGCATTAA
Found at i:32613651 original size:16 final size:16
Alignment explanation
Indices: 32613614--32613652 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
32613604 TTTTACCTCA
**
32613614 AATTGTTTTTTTATTT
1 AATTGTTTTTTTACGT
*
32613630 ATTTGTTTTTTTACGT
1 AATTGTTTTTTTACGT
32613646 AATTGTT
1 AATTGTT
32613653 GTGTTTAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.18, C:0.03, G:0.10, T:0.69
Consensus pattern (16 bp):
AATTGTTTTTTTACGT
Found at i:32618531 original size:8 final size:8
Alignment explanation
Indices: 32618520--32618555 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
32618510 ATATTTAATG
32618520 ATTTTATA
1 ATTTTATA
32618528 ATTTTATA
1 ATTTTATA
32618536 ATTTTATA
1 ATTTTATA
*
32618544 AATTTATTA
1 ATTTTA-TA
32618553 ATT
1 ATT
32618556 AATAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 21 0.84
9 4 0.16
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
ATTTTATA
Found at i:32621636 original size:68 final size:69
Alignment explanation
Indices: 32621531--32622156 Score: 396
Period size: 68 Copynumber: 9.2 Consensus size: 69
32621521 TCATCCCCTT
* * *
32621531 GAAATTGAAGTAGAGTGGATAAC-ACGTCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTC
1 GAAATTGAAGTAGAG-AGA-AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTC
*
32621595 ATCTCC
64 ACCTCC
* * *
32621601 GAAATTGAAGTA-AGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCAT
1 GAAATTGAAGTAGAGAGAAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCAC
32621665 CTCC
66 CTCC
* *
32621669 GAAATTGAAGTA-AGAGCAACGTCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTC--C-
1 GAAATTGAAGTAGAGAGAAACGTCATCCCC-TTGAAATTGAAGTAGAGTGGATAAAACGTCTTCA
*
32621730 CCT-T
65 CCTCC
* * ** * **
32621734 GAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATTGAAGTA-A---GAGCAAA-GTC
1 GAAATTGAAGTAGA---GA-GAAACGTCATCCCCT-TGAAATTGAAGTAGAGTGGATAAAACGTC
* * *
32621794 ATCCCCT-T
61 TTCACCTCC
* * ** * **
32621802 GAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATTGAAGTA-A---GAGCAAA-GTC
1 GAAATTGAAGTAGA---GA-GAAACGTCATCCCCT-TGAAATTGAAGTAGAGTGGATAAAACGTC
* * *
32621862 ATCCCCT-T
61 TTCACCTCC
* * ** * **
32621870 GAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCCGAAATTGAAGTA-A---GA-GCAACGTC
1 GAAATTGAAGTAGA---GAGAA-ACGTCATCCCCT-TGAAATTGAAGTAGAGTGGATAAAACGTC
* * **
32621930 ATCCCCTTT
61 TTCACCTCC
* * *
32621939 GAAATTGAAGTAGAGTGGATAAC-ACGTCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTC
1 GAAATTGAAGTAGAG-AGA-AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTC
*
32622003 ATCTCC
64 ACCTCC
* * *
32622009 GAAATTGAAGTA-AGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCAT
1 GAAATTGAAGTAGAGAGAAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCAC
32622073 CTCC
66 CTCC
*
32622077 GAAATTGAAGTA-AGAGAAACGTCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTC--C-
1 GAAATTGAAGTAGAGAGAAACGTCATCCCC-TTGAAATTGAAGTAGAGTGGATAAAACGTCTTCA
*
32622138 CCT-T
65 CCTCC
32622142 GAAATTGAAGTAGAG
1 GAAATTGAAGTAGAG
32622157 TGGATAAAAC
Statistics
Matches: 491, Mismatches: 41, Indels: 52
0.84 0.07 0.09
Matches are distributed among these distances:
65 39 0.08
66 18 0.04
67 16 0.03
68 278 0.57
69 85 0.17
70 55 0.11
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (69 bp):
GAAATTGAAGTAGAGAGAAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCAC
CTCC
Found at i:32621811 original size:170 final size:169
Alignment explanation
Indices: 32621521--32622302 Score: 1005
Period size: 170 Copynumber: 4.6 Consensus size: 169
32621511 CTCCACGTCT
*
32621521 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTC-C-CCT-TGAAATTGAAGTAGAGTGGA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTCACCTCCGAAATTGAAGTA-A---GA
* * *
32621583 TAAAACGTCTTCATCTCCGAAATTGAAGTA-AGAGC--AACGTCATCCCCTTGAAATTGAAGTAG
62 -AAAACGTCATCACCTCCGAAATTGAAGTAGAGAGCATAAC-ACATCCCCTTGAAATTGAAGTAG
* *
32621645 AGTGGATAACACGTCTTCATCTCCGAAATTGAAGTAAGAGCAACG
125 AGTGGATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAG
*
32621690 TCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTC-C-CCT-TGAAATTGAAGTAGAGTGG
1 TCATCCCC-TTGAAATTGAAGTAGAGTGGATAACACGTCTCACCTCCGAAATTGAAGTA-A---G
* * **
32621752 ATAAAACGTCTTCATCTCCGAAATTGAAGTA-AGAGCA-AAGTCATCCCCTTGAAATTGAAGTAG
61 A-AAAACGTCATCACCTCCGAAATTGAAGTAGAGAGCATAACACATCCCCTTGAAATTGAAGTAG
32621815 AGTGGATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAG
125 AGTGGATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAG
* **
32621860 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCCGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTC-TCACCTCCGAAATTGAAGTAAGAAAA
* ** * * *
32621925 ACGTCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCCCCTTGAAATTGAAGTAGAGTGG
65 ACGTCATCACCTCCGAAATTGAAGTAGAGAGCATAACACATCCCCTTGAAATTGAAGTAGAGTGG
*
32621990 ATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAACG
130 ATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAG
* *
32622030 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCCGAAATTGAAGTAAGAGAA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTC-TCACCTCCGAAATTGAAGTAAGAAAA
* ** * * *
32622095 ACGTCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCCCCTTGAAATTGAAGTAGAGTGG
65 ACGTCATCACCTCCGAAATTGAAGTAGAGAGCATAACACATCCCCTTGAAATTGAAGTAGAGTGG
32622160 ATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAG
130 ATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAG
* * *
32622200 TCATCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTC-TCACCTCCGAAATTGAAGTAAGA-AA
* * * *
32622265 AA-GTCATCCCCT-TGAAATTGAAGTAGAGTGGATAACAC
64 AACGTCATCACCTCCGAAATTGAAGTAGAGAGCATAACAC
32622303 GTCTTCATCT
Statistics
Matches: 582, Mismatches: 22, Indels: 18
0.94 0.04 0.03
Matches are distributed among these distances:
168 22 0.04
169 70 0.12
170 469 0.81
171 6 0.01
172 3 0.01
173 12 0.02
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (169 bp):
TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTCACCTCCGAAATTGAAGTAAGAAAAA
CGTCATCACCTCCGAAATTGAAGTAGAGAGCATAACACATCCCCTTGAAATTGAAGTAGAGTGGA
TAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAG
Found at i:32621975 original size:238 final size:239
Alignment explanation
Indices: 32621557--32622436 Score: 1402
Period size: 238 Copynumber: 3.7 Consensus size: 239
32621547 GGATAACACG
*
32621557 TCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAACG
1 TCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAG
32621622 TCATCCCC-TTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCCGAAATTGAAGTAAGAGC
66 TCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCCGAAATTGAAGTAAGAGC
32621686 AACGTCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCCCCTTGAAATTGAAGTAGAGTG
131 AACGTCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCCCCTTGAAATTGAAGTAGAGTG
32621751 GATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAGTCA
196 GATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAGTCA
32621795 TCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAG
1 TCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAG
32621860 TCATCCCC-TTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCCGAAATTGAAGTAAGAGC
66 TCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCCGAAATTGAAGTAAGAGC
32621924 AACGTCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCCCCTTGAAATTGAAGTAGAGTG
131 AACGTCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCCCCTTGAAATTGAAGTAGAGTG
*
32621989 GATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAACGTCA
196 GATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAGTCA
*
32622033 TCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCCGAAATTGAAGTAAGAG-AAAC
1 TCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAA-
* *
32622097 GTCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTC--C-CCT-TGAAATTGAAGTAGAGT
65 GTCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCCGAAATTGAAGTA-A--
** * ** ** * * ** *
32622158 GGATAAAACGTCTTCATCTCCGAAATTGAAGTA-AGAGCA-AAGTCATCCCCTTGAAATTGAAGT
127 -GA-GCAACGTCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCCCCTTGAAATTGAAGT
32622221 AGAGTGGATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAGTCA
190 AGAGTGGATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAGTCA
* *
32622271 TCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCCGAAATTGAAGTAAGAGCAACG
1 TCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAG
* * *
32622336 TCATCCCCTTTGAAATTGAAGTGGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGGGC
66 TCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCCGAAATTGAAGTAAGAGC
* * *
32622401 AATGTCATCCTC-TTGAAATTGAAGTAAAGTTGGATA
131 AACGTCATCCCCTTTGAAATTGAAGTAGAG-TGGATA
32622437 GCGAAGTCTT
Statistics
Matches: 596, Mismatches: 31, Indels: 29
0.91 0.05 0.04
Matches are distributed among these distances:
235 12 0.02
236 15 0.03
237 15 0.03
238 476 0.80
239 39 0.07
240 23 0.04
241 3 0.01
242 13 0.02
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (239 bp):
TCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAG
TCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCCGAAATTGAAGTAAGAGC
AACGTCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCCCCTTGAAATTGAAGTAGAGTG
GATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAGTCA
Found at i:32622221 original size:68 final size:68
Alignment explanation
Indices: 32622135--32622436 Score: 505
Period size: 68 Copynumber: 4.4 Consensus size: 68
32622125 GGATAACACG
32622135 TCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAG
1 TCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAG
32622200 TCA
66 TCA
32622203 TCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAG
1 TCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAG
32622268 TCA
66 TCA
* *
32622271 TCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCCGAAATTGAAGTAAGAGCAACG
1 TCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAG
32622336 TCA
66 TCA
* * * * *
32622339 TCCCCTTTGAAATTGAAGTGGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGGGCAAT
1 TCCCC-TTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAA
32622404 GTCA
65 GTCA
* *
32622408 TCCTCTTGAAATTGAAGTAAAGTTGGATA
1 TCCCCTTGAAATTGAAGTAGAG-TGGATA
32622437 GCGAAGTCTT
Statistics
Matches: 223, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
68 154 0.69
69 69 0.31
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (68 bp):
TCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAAAG
TCA
Found at i:32622284 original size:408 final size:408
Alignment explanation
Indices: 32621521--32622374 Score: 1683
Period size: 408 Copynumber: 2.1 Consensus size: 408
32621511 CTCCACGTCT
32621521 TCATCCCC-TTGAAATTGAAGTAGAGTGGATAACACGTCCCCTTGAAATTGAAGTAGAGTGGATA
1 TCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCCCCTTGAAATTGAAGTAGAGTGGATA
32621585 AAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGG
66 AAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGG
*
32621650 ATAACACGTCTTCATCTCCGAAATTGAAGTAAGAGCAACGTCATCCCCTTTGAAATTGAAGTAGA
131 ATAACACGTCTTCATCTCCGAAATTGAAGTAAGAGAAACGTCATCCCCTTTGAAATTGAAGTAGA
32621715 GTGGATAACACGTCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATTGAA
196 GTGGATAACACGTCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATTGAA
32621780 GTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATT
261 GTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATT
32621845 GAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCCGAA
326 GAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCCGAA
32621910 ATTGAAGTAAGAGCAACG
391 ATTGAAGTAAGAGCAACG
32621928 TCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCCCCTTGAAATTGAAGTAGAGTGGATA
1 TCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCCCCTTGAAATTGAAGTAGAGTGGATA
32621993 AAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGG
66 AAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGG
32622058 ATAACACGTCTTCATCTCCGAAATTGAAGTAAGAGAAACGTCATCCCCTTTGAAATTGAAGTAGA
131 ATAACACGTCTTCATCTCCGAAATTGAAGTAAGAGAAACGTCATCCCCTTTGAAATTGAAGTAGA
32622123 GTGGATAACACGTCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATTGAA
196 GTGGATAACACGTCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATTGAA
32622188 GTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATT
261 GTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATT
32622253 GAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCCGAA
326 GAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCCGAA
32622318 ATTGAAGTAAGAGCAACG
391 ATTGAAGTAAGAGCAACG
*
32622336 TCATCCCCTTTGAAATTGAAGTGGAGTGGATAACACGTC
1 TCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTC
32622375 TTCATCTCTG
Statistics
Matches: 444, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
407 8 0.02
408 436 0.98
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (408 bp):
TCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCCCCTTGAAATTGAAGTAGAGTGGATA
AAACGTCTTCATCTCCGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGG
ATAACACGTCTTCATCTCCGAAATTGAAGTAAGAGAAACGTCATCCCCTTTGAAATTGAAGTAGA
GTGGATAACACGTCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATTGAA
GTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAAAACGTCTTCATCTCCGAAATT
GAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCCGAA
ATTGAAGTAAGAGCAACG
Found at i:32622757 original size:6 final size:6
Alignment explanation
Indices: 32622735--32622807 Score: 62
Period size: 6 Copynumber: 12.0 Consensus size: 6
32622725 TTAAATTGAT
* * *
32622735 TTTAAA TTTATAA --TAAA TTTAAA TTTAATTA TTTGAA TTT-AC CTTAAA
1 TTTAAA TTTA-AA TTTAAA TTTAAA TTTAA--A TTTAAA TTTAAA TTTAAA
32622783 TTTAAA TTTAAA TTTAAA TTATAAA
1 TTTAAA TTTAAA TTTAAA TT-TAAA
32622808 ACAAATTTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
4 2 0.04
5 5 0.09
6 37 0.67
7 6 0.11
8 5 0.09
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (6 bp):
TTTAAA
Found at i:32624529 original size:161 final size:163
Alignment explanation
Indices: 32624356--32624669 Score: 474
Period size: 162 Copynumber: 1.9 Consensus size: 163
32624346 CTTTTCAATT
32624356 TAGTCCTTTGACTGTTTGACTATGCCAGAGACTGCCACGTGTCA-CTTTTTGGATTATTTATGCA
1 TAGTCCTTTGACTGTTTGACTATGCCAGAGACTGCCACGTGTCATCTTTTTGGATTATTTATGCA
* *
32624420 TTTAGTCC-TTTTATTTTTTTATTTGTTTTAATTTAATCC-CAAATCAAC-TTTATTTTAATTAC
66 CTTAGTCCTTTTTA-TTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTA-TTTAATTAC
* *
32624482 GAAATTGGCCCAATAATTTTTCAAGGTTTATAAAC
129 AAAATTGGCCCAAAAATTTTTCAAGGTTTATAAAC
* * * *
32624517 TAGTCCTTTGACTGTTTGACTATGCTAGAGACTGTCACGTGTCATTTTTTTGGATTATTTATGTA
1 TAGTCCTTTGACTGTTTGACTATGCCAGAGACTGCCACGTGTCATCTTTTTGGATTATTTATGCA
* * *
32624582 CTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTCATCCTTAAATCGACTTTTATTTAATTACAA
66 CTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAA
*
32624647 AATTGGTCCAAAAATTTTTCAAG
131 AATTGGCCCAAAAATTTTTCAAG
32624670 ATTTTCAAAT
Statistics
Matches: 137, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
161 42 0.31
162 48 0.35
163 43 0.31
164 4 0.03
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.47
Consensus pattern (163 bp):
TAGTCCTTTGACTGTTTGACTATGCCAGAGACTGCCACGTGTCATCTTTTTGGATTATTTATGCA
CTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTATTTAATTACAA
AATTGGCCCAAAAATTTTTCAAGGTTTATAAAC
Found at i:32624722 original size:162 final size:161
Alignment explanation
Indices: 32624356--32624691 Score: 417
Period size: 163 Copynumber: 2.1 Consensus size: 161
32624346 CTTTTCAATT
* * * * *
32624356 TAGTCCTTTGACTGTTTGACTATGCCAGAGACTGCCACGTGTCACTTTTTGGATTATTTATGCAT
1 TAGTCCCTTGACTGCTGGACTATGCTAGAGACTGCCACGTGTCACTTTTTGGATTATTTATGCAC
* *
32624421 TTAGTCCTTTTATTTTTTTATTTGTTTTAATTTAATCCCAAATCAACTTTATTTTAATTACGAAA
66 TTAGTCCTTTTATTTTTTAATTTGTTTTAATTTAATCCCAAATCAACTTTATTTTAATTACAAAA
* *
32624486 TTGGCCCAATAATTTTTCAAGGTTTATAAAC
131 TTGGCCCAAAAATTTTTCAAGATTTATAAAC
* * * * * *
32624517 TAGTCCTTTGACTGTTTGACTATGCTAGAGACTGTCACGTGTCATTTTTTTGGATTATTTATGTA
1 TAGTCCCTTGACTGCTGGACTATGCTAGAGACTGCCACGTGTCA-CTTTTTGGATTATTTATGCA
* * *
32624582 CTTAGTCCTTTT-TATTTTTAATTTGTTTTAATTTCATCCTTAAATCGACTTT-TATTTAATTAC
65 CTTAGTCCTTTTAT-TTTTTAATTTGTTTTAATTTAATCC-CAAATCAACTTTAT-TTTAATTAC
* *
32624645 AAAATTGGTCCAAAAATTTTTCAAGATTT-TCAAAT
127 AAAATTGGCCCAAAAATTTTTCAAGATTTAT-AAAC
*
32624680 TGGTCCCTTGAC
1 TAGTCCCTTGAC
32624692 CTCTGGATAC
Statistics
Matches: 154, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
161 43 0.28
162 54 0.35
163 57 0.37
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.46
Consensus pattern (161 bp):
TAGTCCCTTGACTGCTGGACTATGCTAGAGACTGCCACGTGTCACTTTTTGGATTATTTATGCAC
TTAGTCCTTTTATTTTTTAATTTGTTTTAATTTAATCCCAAATCAACTTTATTTTAATTACAAAA
TTGGCCCAAAAATTTTTCAAGATTTATAAAC
Found at i:32624808 original size:30 final size:30
Alignment explanation
Indices: 32624762--32624933 Score: 258
Period size: 30 Copynumber: 5.7 Consensus size: 30
32624752 CCCTAAATTA
*
32624762 TCCAGAAATTATATTTTGACCCTAAAACTTT
1 TCCA-AAATTACATTTTGACCCTAAAACTTT
*
32624793 TCGAAAATTACATTTTGACCAC-AAAACTTT
1 TCCAAAATTACATTTTGACC-CTAAAACTTT
*
32624823 CCCAAAATTACATTTTGACCCTAAAACTTT
1 TCCAAAATTACATTTTGACCCTAAAACTTT
*
32624853 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCTAAAACTTT
32624883 TCCAAAATTACATTTTGA-CCTAAAACTTT
1 TCCAAAATTACATTTTGACCCTAAAACTTT
*
32624912 TCCAAAATTATATTTTTGACCC
1 TCCAAAATTACA-TTTTGACCC
32624934 GATTTCACCG
Statistics
Matches: 129, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
29 22 0.17
30 101 0.78
31 6 0.05
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.36
Consensus pattern (30 bp):
TCCAAAATTACATTTTGACCCTAAAACTTT
Found at i:32624956 original size:59 final size:60
Alignment explanation
Indices: 32624774--32625193 Score: 256
Period size: 59 Copynumber: 7.1 Consensus size: 60
32624764 CAGAAATTAT
* *
32624774 ATTTTGACCCTAAAACTTTTCGAAAATTACA-TTTTGACCACAAAACTTTC-CCAAAATTA-C
1 ATTTTGACCCTAAAACTTTTCCAAAATTACATTTTTGACC-C-AGA-TTTCACCAAAATTACC
* *
32624834 ATTTTGACCCTAAAACTTTTCCAAAATTACA-TTTTGACCCCAAAACTTT-TCCAAAATTA-C
1 ATTTTGACCCTAAAACTTTTCCAAAATTACATTTTTGA-CCC-AGA-TTTCACCAAAATTACC
* *
32624894 ATTTTGA-CCTAAAACTTTTCCAAAATTATATTTTTGACCC-GATTTCACCGACAATTACC
1 ATTTTGACCCTAAAACTTTTCCAAAATTACATTTTTGACCCAGATTTCACC-AAAATTACC
* * * * *
32624953 ATTTT-ACCCCTGAATC-TTT-CAAAATCT-CATTTTTAACCCTGATTTCATCAAAAATTACC
1 ATTTTGA-CCCTAAAACTTTTCCAAAAT-TACATTTTTGACCCAGATTTCA-CCAAAATTACC
* * * * *
32625012 ATTTT-ACCCTCGAAGC--TTCTAAAATT-CTATTTTTAACCCCGATTTCACCGAAAATTACC
1 ATTTTGACCCT-AAAACTTTTCCAAAATTAC-ATTTTTGACCCAGATTTCACC-AAAATTACC
** * * * * * *
32625071 ATTTT-ACCCCCGAAGC--TTCTAAAATTCCGTTTTTAACCTC-GATTTCATCAAAAATTACC
1 ATTTTGA-CCCTAAAACTTTTCCAAAATTACATTTTTGACC-CAGATTTCA-CCAAAATTACC
** * * * *
32625130 ATTTT-ACCCCCGAATCTTTT--AAAATTCCATTTTTAACCCCGATTTCACCAAAATTACC
1 ATTTTGA-CCCTAAAACTTTTCCAAAATTACATTTTTGACCCAGATTTCACCAAAATTACC
32625188 ATTTTG
1 ATTTTG
32625194 CCCCCGGGTA
Statistics
Matches: 316, Mismatches: 21, Indels: 47
0.82 0.05 0.12
Matches are distributed among these distances:
56 3 0.01
57 3 0.01
58 48 0.15
59 177 0.56
60 81 0.26
61 4 0.01
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.36
Consensus pattern (60 bp):
ATTTTGACCCTAAAACTTTTCCAAAATTACATTTTTGACCCAGATTTCACCAAAATTACC
Found at i:32625020 original size:29 final size:29
Alignment explanation
Indices: 32624983--32625138 Score: 86
Period size: 30 Copynumber: 5.3 Consensus size: 29
32624973 AAAATCTCAT
32624983 TTTTAACCCTGATTTCATCAAAAATTACCA
1 TTTT-ACCCTGATTTCATCAAAAATTACCA
** * * *
32625013 TTTTACCCTCGA-AGCTTCTAAAATT-CTA
1 TTTTACCCT-GATTTCATCAAAAATTACCA
* * *
32625041 TTTTTAACCCCGATTTCACCGAAAATTACCA
1 -TTTT-ACCCTGATTTCATCAAAAATTACCA
* ** * * *
32625072 TTTTACCCCCGA-AGCTTCTAAAATT-CCGT
1 TTTTA-CCCTGATTTCATCAAAAATTACC-A
*
32625101 TTTTAACCTCGATTTCATCAAAAATTACCA
1 TTTTACCCT-GATTTCATCAAAAATTACCA
32625131 TTTTACCC
1 TTTTACCC
32625139 CCGAATCTTT
Statistics
Matches: 90, Mismatches: 26, Indels: 20
0.66 0.19 0.15
Matches are distributed among these distances:
28 6 0.07
29 36 0.40
30 44 0.49
31 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.37
Consensus pattern (29 bp):
TTTTACCCTGATTTCATCAAAAATTACCA
Found at i:32625076 original size:118 final size:118
Alignment explanation
Indices: 32624915--32625199 Score: 409
Period size: 118 Copynumber: 2.4 Consensus size: 118
32624905 AAACTTTTCC
* * * * *
32624915 AAAATTATATTTTTGA-CCCGATTTCACCGACAATTACCATTTTACCCCTGAATCTT-TCAAAA-
1 AAAATTCTATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAAGCTTCT-AAAAT
*
32624977 TCTCATTTTTAACC-CTGATTTCATCAAAAATTACCATTTTACCCTCGAAGCTTCT
65 TC-CATTTTTAACCTC-GATTTCATCAAAAATTACCATTTTACCCCCGAAGCTTCT
32625032 AAAATTCTATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAAGCTTCTAAAATT
1 AAAATTCTATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAAGCTTCTAAAATT
* * *
32625097 CCGTTTTTAACCTCGATTTCATCAAAAATTACCATTTTACCCCCGAATCTTTT
66 CCATTTTTAACCTCGATTTCATCAAAAATTACCATTTTACCCCCGAAGCTTCT
* *
32625150 AAAATTCCATTTTTAACCCCGATTTCACC-AAAATTACCATTTTGCCCCCG
1 AAAATTCTATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCG
32625200 GGTATCCATA
Statistics
Matches: 153, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
117 34 0.22
118 115 0.75
119 4 0.03
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (118 bp):
AAAATTCTATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAAGCTTCTAAAATT
CCATTTTTAACCTCGATTTCATCAAAAATTACCATTTTACCCCCGAAGCTTCT
Found at i:32625163 original size:29 final size:29
Alignment explanation
Indices: 32624946--32625192 Score: 127
Period size: 29 Copynumber: 8.4 Consensus size: 29
32624936 TTTCACCGAC
32624946 AATTACCATTTT-ACCCCTGAATCTT-TCAA
1 AATTACCATTTTAACCCC-GAATCTTCT-AA
* * * *
32624975 AA-T-CTCATTTTTAACCCTGATTTCATCAAA
1 AATTAC-CA-TTTTAACCCCGA-ATCTTCTAA
*
32625005 AATTACCATTTT-ACCCTCGAAGCTTCTAA
1 AATTACCATTTTAACCC-CGAATCTTCTAA
* * ** *
32625034 AATT-CTATTTTTAACCCCGATTTCACCGAA
1 AATTACCA-TTTTAACCCCGA-ATCTTCTAA
* *
32625064 AATTACCATTTTACCCCCGAAGCTTCTAA
1 AATTACCATTTTAACCCCGAATCTTCTAA
* * * * *
32625093 AATT-CCGTTTTTAACCTCGATTTCATCAAA
1 AATTACC-ATTTTAACCCCGA-ATCTTCTAA
* *
32625123 AATTACCATTTTACCCCCGAATCTTTTAA
1 AATTACCATTTTAACCCCGAATCTTCTAA
*
32625152 AATT-CCATTTTTAACCCCG-AT-TTCACCAA
1 AATTACCA-TTTTAACCCCGAATCTT--CTAA
32625181 AATTACCATTTT
1 AATTACCATTTT
32625193 GCCCCCGGGT
Statistics
Matches: 160, Mismatches: 39, Indels: 38
0.68 0.16 0.16
Matches are distributed among these distances:
27 3 0.02
28 12 0.08
29 75 0.47
30 62 0.39
31 7 0.04
32 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.37
Consensus pattern (29 bp):
AATTACCATTTTAACCCCGAATCTTCTAA
Found at i:32645419 original size:6 final size:6
Alignment explanation
Indices: 32645408--32645435 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
32645398 TCCTGCATAA
32645408 AGACTG AGACTG AGACTG AGACTG AGAC
1 AGACTG AGACTG AGACTG AGACTG AGAC
32645436 AGGTCATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.32, T:0.14
Consensus pattern (6 bp):
AGACTG
Found at i:32647294 original size:45 final size:45
Alignment explanation
Indices: 32647230--32647464 Score: 319
Period size: 45 Copynumber: 5.2 Consensus size: 45
32647220 TGACAATCCT
* *
32647230 ACTGCTCGTAGGCTT-AATGAAATGAGAGGTGAATGCACCAGCCCC
1 ACTGCTCGTAAG-TTGAATGAAATGAGAGGTGAATGTACCAGCCCC
* *
32647275 ACTGCTCGTAGGTTGAATGAAATGAGAGGTGAATGTCCCAGCCCC
1 ACTGCTCGTAAGTTGAATGAAATGAGAGGTGAATGTACCAGCCCC
* **
32647320 ACTGCTCGTAAGTTGAATGAATTGAGAATTGAATGTACCAGCCCC
1 ACTGCTCGTAAGTTGAATGAAATGAGAGGTGAATGTACCAGCCCC
* * *
32647365 ACCGCTCGTAAGTTGAATGAACTGAGAGCTGAATGTACCAGCCCC
1 ACTGCTCGTAAGTTGAATGAAATGAGAGGTGAATGTACCAGCCCC
* * * **
32647410 ACTGCTCGTAAGTTCAGTGAATTGAGAATTGAATGTACCAGCCCC
1 ACTGCTCGTAAGTTGAATGAAATGAGAGGTGAATGTACCAGCCCC
32647455 ACTGCTCGTA
1 ACTGCTCGTA
32647465 GGCTTAATGA
Statistics
Matches: 172, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
44 2 0.01
45 170 0.99
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (45 bp):
ACTGCTCGTAAGTTGAATGAAATGAGAGGTGAATGTACCAGCCCC
Found at i:32647474 original size:90 final size:90
Alignment explanation
Indices: 32647230--32647475 Score: 352
Period size: 90 Copynumber: 2.7 Consensus size: 90
32647220 TGACAATCCT
* * ** *
32647230 ACTGCTCGTAGGCTT-AATGAAATGAGAGGTGAATGCACCAGCCCCACTGCTCGTAGGTTGAATG
1 ACTGCTCGTAAG-TTCAATGAATTGAGAATTGAATGTACCAGCCCCACTGCTCGTAGGTTGAATG
* *
32647294 AAATGAGAGGTGAATGTCCCAGCCCC
65 AAATGAGAGCTGAATGTACCAGCCCC
* * *
32647320 ACTGCTCGTAAGTTGAATGAATTGAGAATTGAATGTACCAGCCCCACCGCTCGTAAGTTGAATGA
1 ACTGCTCGTAAGTTCAATGAATTGAGAATTGAATGTACCAGCCCCACTGCTCGTAGGTTGAATGA
*
32647385 ACTGAGAGCTGAATGTACCAGCCCC
66 AATGAGAGCTGAATGTACCAGCCCC
*
32647410 ACTGCTCGTAAGTTCAGTGAATTGAGAATTGAATGTACCAGCCCCACTGCTCGTAGGCTT-AATG
1 ACTGCTCGTAAGTTCAATGAATTGAGAATTGAATGTACCAGCCCCACTGCTCGTAGG-TTGAATG
32647474 AA
65 AA
32647476 GGGTCCGATG
Statistics
Matches: 140, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
89 2 0.01
90 136 0.97
91 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.24
Consensus pattern (90 bp):
ACTGCTCGTAAGTTCAATGAATTGAGAATTGAATGTACCAGCCCCACTGCTCGTAGGTTGAATGA
AATGAGAGCTGAATGTACCAGCCCC
Found at i:32649266 original size:21 final size:23
Alignment explanation
Indices: 32649241--32649282 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
32649231 GATTGGTGAA
32649241 TTATCTT-TTTATCC-TCTCTTT
1 TTATCTTCTTTATCCTTCTCTTT
*
32649262 TTATCTTCTTTGTCCTTCTCT
1 TTATCTTCTTTATCCTTCTCT
32649283 GTGCTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 6 0.33
23 5 0.28
ACGTcount: A:0.07, C:0.26, G:0.02, T:0.64
Consensus pattern (23 bp):
TTATCTTCTTTATCCTTCTCTTT
Found at i:32651044 original size:12 final size:13
Alignment explanation
Indices: 32651005--32651037 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
32650995 TCAAACACAA
*
32651005 TTAAT-TTTAATC
1 TTAATATTTAATT
32651017 TTAATATTTAATT
1 TTAATATTTAATT
32651030 TTAATATT
1 TTAATATT
32651038 GATTTTACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (13 bp):
TTAATATTTAATT
Found at i:32654968 original size:24 final size:23
Alignment explanation
Indices: 32654918--32654968 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
32654908 TGAATAAAAT
*
32654918 TTTATAATTTTTAATAAGATTTA
1 TTTATAATTTTTAATAAAATTTA
32654941 TTTAGTAATTTTT-ATAATAATTTA
1 TTTA-TAATTTTTAATAA-AATTTA
32654965 TTTA
1 TTTA
32654969 ATTAAAAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (23 bp):
TTTATAATTTTTAATAAAATTTA
Found at i:32656589 original size:19 final size:19
Alignment explanation
Indices: 32656565--32656613 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
32656555 TACCTACGTG
*
32656565 ATCAAATTTGTCTACCATA
1 ATCAAATTTGTCCACCATA
32656584 ATCAAATTTGTCCACCATA
1 ATCAAATTTGTCCACCATA
*
32656603 ATCAAAATTGT
1 ATCAAATTTGT
32656614 TATTAACTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (19 bp):
ATCAAATTTGTCCACCATA
Found at i:32657776 original size:40 final size:40
Alignment explanation
Indices: 32657730--32657947 Score: 224
Period size: 40 Copynumber: 5.5 Consensus size: 40
32657720 GACACGTTGC
* * *
32657730 AGTGTTTTCAGTGTCATTGTCAATTCAGTGGTAATCTTGT
1 AGTGTTTACAGTGTCACTGTCAGTTCAGTGGTAATCTTGT
** * *
32657770 AGTGTTTACAGTGTCACTGTCAGTTCAGTTATAATATTGC
1 AGTGTTTACAGTGTCACTGTCAGTTCAGTGGTAATCTTGT
* * *
32657810 AGTGTTTAAAGTGTCACTG-CTAGTTCAATGGTAACCTTGT
1 AGTGTTTACAGTGTCACTGTC-AGTTCAGTGGTAATCTTGT
* ** *
32657850 AGT-TTCTACAGTGTCACTGTCGGTTCAGTTATAATGTTGT
1 AGTGTT-TACAGTGTCACTGTCAGTTCAGTGGTAATCTTGT
* * * * *
32657890 AGTGTTCACAGTGTCACTGCCAGTTCGGTGGTAACCTTGC
1 AGTGTTTACAGTGTCACTGTCAGTTCAGTGGTAATCTTGT
*
32657930 AGTTTTTACAGTGTCACT
1 AGTGTTTACAGTGTCACT
32657948 ACCGATTCAA
Statistics
Matches: 142, Mismatches: 32, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
39 3 0.02
40 136 0.96
41 3 0.02
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (40 bp):
AGTGTTTACAGTGTCACTGTCAGTTCAGTGGTAATCTTGT
Found at i:32657860 original size:80 final size:79
Alignment explanation
Indices: 32657725--32657987 Score: 296
Period size: 80 Copynumber: 3.3 Consensus size: 79
32657715 AATATGACAC
** * * *
32657725 GTTGCAGTGTTTTCAGTGTCATTG-TCAATTCAGTGGTAATCTTGTAGTGTTTACAGTGTCACTG
1 GTTGCAGTGTTTAAAGTGTCACTGCT-AGTTCAGTGGTAACCTTGTAGT-TTTACAGTGTCACTG
32657789 TCAGTTCAGTTATAAT
64 TCAGTTCAGTTATAAT
* *
32657805 ATTGCAGTGTTTAAAGTGTCACTGCTAGTTCAATGGTAACCTTGTAGTTTCTACAGTGTCACTGT
1 GTTGCAGTGTTTAAAGTGTCACTGCTAGTTCAGTGGTAACCTTGTAGTTT-TACAGTGTCACTGT
*
32657870 CGGTTCAGTTATAAT
65 CAGTTCAGTTATAAT
* * * * * * *
32657885 GTTGTAGTGTTCACAGTGTCACTGCCAGTTCGGTGGTAACCTTGCAGTTTTTACAGTGTCACT-A
1 GTTGCAGTGTTTAAAGTGTCACTGCTAGTTCAGTGGTAACCTTGTAG-TTTTACAGTGTCACTGT
* *
32657949 CCGATTCAATTATAAT
65 CAG-TTCAGTTATAAT
* *
32657965 GTTACAATGTTTAAAGTGTCACT
1 GTTGCAGTGTTTAAAGTGTCACT
32657988 ACCGGTTCAG
Statistics
Matches: 155, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
79 4 0.03
80 147 0.95
81 4 0.03
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.39
Consensus pattern (79 bp):
GTTGCAGTGTTTAAAGTGTCACTGCTAGTTCAGTGGTAACCTTGTAGTTTTACAGTGTCACTGTC
AGTTCAGTTATAAT
Found at i:32657957 original size:120 final size:120
Alignment explanation
Indices: 32657738--32657958 Score: 273
Period size: 120 Copynumber: 1.8 Consensus size: 120
32657728 GCAGTGTTTT
* * * * *
32657738 CAGTGTCATTGTCAATTCAGTGGTAATCTTGTAGTGTTTACAGTGTCACTGTCAGTTCAGTTATA
1 CAGTGTCACTGTCAATTCAGTGATAATCTTGTAGTGTTCACAGTGTCACTGCCAGTTCAGTGATA
* * *
32657803 ATATTGCAGTGTTTAAAGTGTCACTGCTAGTTCAATGGTAACCTTGTAGTTTCTA
66 ACATTGCAGTGTTTAAAGTGTCACTCCGAGTTCAATGGTAACCTTGTAGTTTCTA
** * * * *
32657858 CAGTGTCACTGTCGGTTCAGTTATAATGTTGTAGTGTTCACAGTGTCACTGCCAGTTCGGTGGTA
1 CAGTGTCACTGTCAATTCAGTGATAATCTTGTAGTGTTCACAGTGTCACTGCCAGTTCAGTGATA
* * *
32657923 ACCTTGCAGTTTTTACAGTGTCACTACCGA-TTCAAT
66 ACATTGCAGTGTTTAAAGTGTCACT-CCGAGTTCAAT
32657959 TATAATGTTA
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
120 81 0.98
121 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (120 bp):
CAGTGTCACTGTCAATTCAGTGATAATCTTGTAGTGTTCACAGTGTCACTGCCAGTTCAGTGATA
ACATTGCAGTGTTTAAAGTGTCACTCCGAGTTCAATGGTAACCTTGTAGTTTCTA
Found at i:32658520 original size:53 final size:52
Alignment explanation
Indices: 32658440--32658598 Score: 140
Period size: 53 Copynumber: 3.0 Consensus size: 52
32658430 ACCCACACCT
* * * *
32658440 ATGTGTCAGCTCATGTTCCCCAAAATAGTATACACACACCCTGACACATGCCC
1 ATGTGTCAGCTCGTGTGCCTC-AAATAGTATACACACACCCTGACACACGCCC
* * * * **
32658493 ATGTGTCAGCTTGTGTGCCTCAGAATAGCATATACACACCCTAACACACGCTT
1 ATGTGTCAGCTCGTGTGCCTCA-AATAGTATACACACACCCTGACACACGCCC
* * *
32658546 ATGT-ACTAGCCCGTGTGCCTCCAAATAGTATAGACACACACCCTGACATACGC
1 ATGTGTC-AGCTCGTGTGCCT-CAAATAGTAT--ACACACACCCTGACACACGC
32658599 TCGTATGCCT
Statistics
Matches: 84, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
52 2 0.02
53 63 0.75
54 2 0.02
55 17 0.20
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (52 bp):
ATGTGTCAGCTCGTGTGCCTCAAATAGTATACACACACCCTGACACACGCCC
Found at i:32662099 original size:28 final size:28
Alignment explanation
Indices: 32662068--32662219 Score: 89
Period size: 28 Copynumber: 5.3 Consensus size: 28
32662058 GCAAAATAGT
*
32662068 AATTTTGGTGTAATTGGGGTTAAAATGG
1 AATTTTGGTGAAATTGGGGTTAAAATGG
* *
32662096 AATTTT-GAG-ACTTCGAGGG-TAAAATGG
1 AATTTTGGTGAAATT-G-GGGTTAAAATGG
* *
32662123 TAATTTTGGTGAAATCGGAGTTAAAAATGG
1 -AATTTTGGTGAAATTGGGGTT-AAAATGG
* **
32662153 AATTTTAG-GAGGTTTAGGGG-TAAAATGG
1 AATTTTGGTGA-AATT-GGGGTTAAAATGG
* * *
32662181 TAATTTTTAGTGAAATCGGGGTTAAAAATAG
1 -AA-TTTTGGTGAAATTGGGGTT-AAAATGG
32662212 AATTTTGG
1 AATTTTGG
32662220 AAAGTTTAGG
Statistics
Matches: 94, Mismatches: 16, Indels: 27
0.69 0.12 0.20
Matches are distributed among these distances:
26 3 0.03
27 11 0.12
28 26 0.28
29 24 0.26
30 22 0.23
31 8 0.09
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.35
Consensus pattern (28 bp):
AATTTTGGTGAAATTGGGGTTAAAATGG
Found at i:32662156 original size:29 final size:29
Alignment explanation
Indices: 32662060--32662219 Score: 82
Period size: 29 Copynumber: 5.6 Consensus size: 29
32662050 ACTCGAGGGC
* * *
32662060 AAAATAGTAATTTTGGTGTAATTGGGGTT-
1 AAAATGGTAATTTTGGTG-AAATCGGGTTA
* ** *
32662089 AAAATGG-AATTTT-GAGACTTCGAGGGT-
1 AAAATGGTAATTTTGGTGAAATCG-GGTTA
32662116 AAAATGGTAATTTTGGTGAAATCGGAGTTA
1 AAAATGGTAATTTTGGTGAAATCGG-GTTA
* *** * *
32662146 AAAATGG-AATTTTAGGAGGTTTAGGGGT-
1 AAAATGGTAATTTT-GGTGAAATCGGGTTA
*
32662174 AAAATGGTAATTTTTAGTGAAATCGGGGTTA
1 AAAATGGTAA-TTTTGGTGAAATC-GGGTTA
*
32662205 AAAATAG-AATTTTGG
1 AAAATGGTAATTTTGG
32662220 AAAGTTTAGG
Statistics
Matches: 97, Mismatches: 24, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
26 4 0.04
27 12 0.12
28 20 0.21
29 32 0.33
30 23 0.24
31 6 0.06
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (29 bp):
AAAATGGTAATTTTGGTGAAATCGGGTTA
Found at i:32662208 original size:59 final size:57
Alignment explanation
Indices: 32662017--32662245 Score: 216
Period size: 59 Copynumber: 4.0 Consensus size: 57
32662007 AAAGAAACGA
* * * * *
32662017 TGAAATCGGGGTTGAAAAATGAGACTTTTGGA--TACTCGAGGGCAAAATAGTAATTTTGG
1 TGAAATCGGGGTT-AAAAATG-GAATTTTGGAGGT-TTAG-GGGTAAAATGGTAATTTTGG
* * ** *
32662076 TGTAATTGGGGTT-AAAATGGAATTTT-GAGACTTCGAGGGTAAAATGGTAATTTTGG
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAGGTTTAG-GGGTAAAATGGTAATTTTGG
* *
32662132 TGAAATCGGAGTTAAAAATGGAATTTTAGGAGGTTTAGGGGTAAAATGGTAATTTTTAG
1 TGAAATCGGGGTTAAAAATGGAATTTT-GGAGGTTTAGGGGTAAAATGGTAA-TTTTGG
* * *
32662191 TGAAATCGGGGTTAAAAATAGAATTTTGGAAAGTTTAGGGG-GAAATGGTAATTTT
1 TGAAATCGGGGTTAAAAATGGAATTTTGG-AGGTTTAGGGGTAAAATGGTAATTTT
32662246 TGGAAGTTTC
Statistics
Matches: 145, Mismatches: 18, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
55 2 0.01
56 38 0.26
57 23 0.16
58 25 0.17
59 57 0.39
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (57 bp):
TGAAATCGGGGTTAAAAATGGAATTTTGGAGGTTTAGGGGTAAAATGGTAATTTTGG
Found at i:32662270 original size:29 final size:29
Alignment explanation
Indices: 32662219--32662304 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
32662209 TAGAATTTTG
**
32662219 GAAAGTTTAGGG-GGAAATGGTAATTT-TT
1 GAAAGTTTAGGGTCAAAAT-GTAATTTCTT
* *
32662247 GGAAGTTTCGAGGTCAAAATGTAATTTCTT
1 GAAAGTTTAG-GGTCAAAATGTAATTTCTT
* *
32662277 GAAATTTTAGGGTCAAAATGCAATTTCT
1 GAAAGTTTAGGGTCAAAATGTAATTTCT
32662305 AGACTGTTTG
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
28 8 0.17
29 26 0.55
30 13 0.28
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (29 bp):
GAAAGTTTAGGGTCAAAATGTAATTTCTT
Found at i:32662572 original size:162 final size:162
Alignment explanation
Indices: 32662395--32662714 Score: 478
Period size: 162 Copynumber: 2.0 Consensus size: 162
32662385 GATTAAATTG
*
32662395 TAAATCTTAAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGTTGATTTAGGGATTAAATTA
1 TAAATCTTAAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGTTGATTTAAGGATTAAATTA
* *
32662460 AGACAAATTAAAAATAAAAAGGACTAAATGCATAAATAAGCCAAAAAGTGACACGTGGCAGCCCC
66 AAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAAGCCAAAAAGTAACACGTGGCAGCCCC
* * *
32662525 TGATGCAGTCAAACAGTTAAAGGACTAATTTA
131 AGATACAGTCAAACAGTCAAAGGACTAATTTA
* *
32662557 TAAATCTTGAAAAATTGTTGGGCCAATTTTGTAATTAAATAAAAGTTGATTTAAGGATTAAATTA
1 TAAATCTTAAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGTTGATTTAAGGATTAAATTA
* *** * * * *
32662622 AAACAAATTAAAGATGTCAGGGACTAGATGCATAAATAATCCAAAAAGTAACACGTGGCAGCCTC
66 AAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAAGCCAAAAAGTAACACGTGGCAGCCCC
* *
32662687 AGGTATAGTCAAACAGTCAAAGGACTAA
131 AGATACAGTCAAACAGTCAAAGGACTAA
32662715 ATTGAAAGCT
Statistics
Matches: 140, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
162 140 1.00
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (162 bp):
TAAATCTTAAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGTTGATTTAAGGATTAAATTA
AAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAAGCCAAAAAGTAACACGTGGCAGCCCC
AGATACAGTCAAACAGTCAAAGGACTAATTTA
Found at i:32664283 original size:6 final size:6
Alignment explanation
Indices: 32664274--32664339 Score: 50
Period size: 6 Copynumber: 11.7 Consensus size: 6
32664264 TATAATAATG
* * * *
32664274 TTAAAT TTAAA- TTAAAT TCAAAT TTAAA- TTGAAT TCAAA- ATAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* *
32664319 TTAAAA TTAAA- ATAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAA
32664340 TTTCAAAATG
Statistics
Matches: 45, Mismatches: 11, Indels: 8
0.70 0.17 0.12
Matches are distributed among these distances:
5 16 0.36
6 29 0.64
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (6 bp):
TTAAAT
Found at i:32664290 original size:11 final size:11
Alignment explanation
Indices: 32664274--32664342 Score: 52
Period size: 11 Copynumber: 6.2 Consensus size: 11
32664264 TATAATAATG
32664274 TTAAATTTAAA-
1 TTAAA-TTAAAT
32664285 TTAAATTCAAAT
1 TTAAATT-AAAT
*
32664297 TTAAATTGAAT
1 TTAAATTAAAT
* *
32664308 TCAAAATAAAT
1 TTAAATTAAAT
32664319 TTAAAATTAAA-
1 TT-AAATTAAAT
* *
32664330 ATAAATTTAAT
1 TTAAATTAAAT
32664341 TT
1 TT
32664343 CAAAATGGTT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
10 9 0.20
11 22 0.49
12 14 0.31
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:32664296 original size:17 final size:17
Alignment explanation
Indices: 32664276--32664312 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
32664266 TAATAATGTT
32664276 AAATTTAAATTAAATTC
1 AAATTTAAATTAAATTC
*
32664293 AAATTTAAATTGAATTC
1 AAATTTAAATTAAATTC
32664310 AAA
1 AAA
32664313 ATAAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATTTAAATTAAATTC
Found at i:32664330 original size:17 final size:18
Alignment explanation
Indices: 32664305--32664348 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
32664295 ATTTAAATTG
32664305 AATTCAAAATAAATTTAA
1 AATTCAAAATAAATTTAA
32664323 AATT-AAAATAAATTT-A
1 AATTCAAAATAAATTTAA
*
32664339 ATTTCAAAAT
1 AATTCAAAAT
32664349 GGTTTGGGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 16 0.67
18 4 0.17
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTCAAAATAAATTTAA
Found at i:32664842 original size:76 final size:76
Alignment explanation
Indices: 32664658--32665180 Score: 745
Period size: 76 Copynumber: 6.9 Consensus size: 76
32664648 TGCTTCATCT
*
32664658 TTCAATTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAAAT
1 TTCAATTTC--AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAA-
*
32664723 GATGTTGCTCTTAC
63 GATCTTGCTCTTAC
* * * *
32664737 TTCAATTACAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTTAAGAGTATAGGAAAAGAT
1 TTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGAT
*
32664802 CTCGCTCTTAC
66 CTTGCTCTTAC
**
32664813 TTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATTAT
1 TTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGAT
32664878 CTTGCTCTTAC
66 CTTGCTCTTAC
*
32664889 TTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAAAGAT
1 TTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGAT
32664954 CTTGCTCTTAC
66 CTTGCTCTTAC
* * *
32664965 TTCAATTTTAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAAAGAT
1 TTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGAT
*
32665030 CTTACTCTTAC
66 CTTGCTCTTAC
* * * *
32665041 TTCAATTTTAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGCGGAT--G--ACG--
1 TTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGAT
*
32665100 -TTACTCTTAC
66 CTTGCTCTTAC
* * * * * *
32665110 TTCAATTTCGGAGATAAAGACGTGTTATCCAACTCTATTTCAATTTCAGGCGGATAGAAAAAGAT
1 TTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGAT
32665175 CTTGCT
66 CTTGCT
32665181 GTGGTCTGAT
Statistics
Matches: 405, Mismatches: 32, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
69 59 0.15
72 2 0.00
73 2 0.00
74 1 0.00
76 284 0.70
77 49 0.12
79 8 0.02
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (76 bp):
TTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGAT
CTTGCTCTTAC
Found at i:32677352 original size:29 final size:28
Alignment explanation
Indices: 32677318--32677596 Score: 126
Period size: 29 Copynumber: 9.5 Consensus size: 28
32677308 ACCCGTGGAC
* *
32677318 AAAATGGTAATTTTGGTGTAATTGGGGTT
1 AAAATGG-AATTTTGGTGAAATCGGGGTT
* **
32677347 AAAATGGAATTTT-GAGACTTCGAGGG-T
1 AAAATGGAATTTTGGTGAAATCG-GGGTT
32677374 AAAATGGTAATTTTTGGTGAAATCGGGGTT
1 AAAATGG-AA-TTTTGGTGAAATCGGGGTT
** ** *
32677404 AAAAATGGAATTTT-AAGAGGTTCGGGGGT
1 -AAAATGGAATTTTGGTGA-AATCGGGGTT
*
32677433 AAAATGGTAATTTTTGGTGAAATCGAGGTT
1 AAAATGG-AA-TTTTGGTGAAATCGGGGTT
*
32677463 AGAAATGGAATTTT-G-GAAGGTTCAGGGG-T
1 A-AAATGGAATTTTGGTGAA--ATC-GGGGTT
* * *
32677492 AAAATGGTAATTTTTGGTGAAACCAGGGTCA
1 AAAATGG-AA-TTTTGGTGAAATCGGGGT-T
*
32677523 AAAATGGAATTTT--AGAAAGTTCGAGGG-T
1 AAAATGGAATTTTGGTGAAA--TCG-GGGTT
* **
32677551 AAAATGGTAATTTTTAGTGAAATTAGGGTT
1 AAAATGG-AA-TTTTGGTGAAATCGGGGTT
*
32677581 AAAAATAGAATTTTGG
1 -AAAATGGAATTTTGG
32677597 AAAGTTTGGG
Statistics
Matches: 187, Mismatches: 34, Indels: 58
0.67 0.12 0.21
Matches are distributed among these distances:
27 19 0.10
28 34 0.18
29 55 0.29
30 43 0.23
31 29 0.16
32 7 0.04
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (28 bp):
AAAATGGAATTTTGGTGAAATCGGGGTT
Found at i:32677621 original size:29 final size:29
Alignment explanation
Indices: 32677523--32677651 Score: 101
Period size: 30 Copynumber: 4.4 Consensus size: 29
32677513 ACCAGGGTCA
* *
32677523 AAAATGG-AATTTTAGAAAGTTCGAGGGT
1 AAAATGGTAATTTTGGAAAGTTTGAGGGT
32677551 AAAATGGTAATTTTTAGTGAAA--TT-AGGGTT
1 AAAATGGTAA-TTTT-G-GAAAGTTTGAGGG-T
* *
32677581 AAAAATAG-AATTTTGGAAAGTTTGGGGGT
1 -AAAATGGTAATTTTGGAAAGTTTGAGGGT
*
32677610 AAAATGGTAATTTTTGG-AAGTTTCGAGGTT
1 AAAATGGTAA-TTTTGGAAAGTTT-GAGGGT
32677640 AAAAT-GTAATTT
1 AAAATGGTAATTT
32677652 CCTAAAATTT
Statistics
Matches: 82, Mismatches: 7, Indels: 24
0.73 0.06 0.21
Matches are distributed among these distances:
27 4 0.05
28 17 0.21
29 25 0.30
30 26 0.32
31 6 0.07
32 4 0.05
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.36
Consensus pattern (29 bp):
AAAATGGTAATTTTGGAAAGTTTGAGGGT
Found at i:32677643 original size:59 final size:59
Alignment explanation
Indices: 32677318--32677626 Score: 371
Period size: 59 Copynumber: 5.3 Consensus size: 59
32677308 ACCCGTGGAC
* * * * * *
32677318 AAAATGGTAA-TTTTGGTGTAATTGGGGTT-AAAATGGAATTTT-GAGACTTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGT
*
32677374 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTT--AAGAGGTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAA-A-GTTCGGGGGT
* * *
32677433 AAAATGGTAATTTTTGGTGAAATCGAGGTTAGAAATGGAATTTTGGAAGGTTCAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGT
* * * *
32677492 AAAATGGTAATTTTTGGTGAAA-CCAGGGTCAAAAATGGAATTTTAGAAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGA-GGTTAAAAATGGAATTTTGGAAAGTTCGGGGGT
* * * *
32677551 AAAATGGTAATTTTTAGTGAAAT-TAGGGTTAAAAATAGAATTTTGGAAAGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGA-GGTTAAAAATGGAATTTTGGAAAGTTCGGGGGT
32677610 AAAATGGTAATTTTTGG
1 AAAATGGTAATTTTTGG
32677627 AAGTTTCGAG
Statistics
Matches: 221, Mismatches: 24, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
56 10 0.05
57 18 0.08
58 16 0.07
59 175 0.79
61 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.33
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGT
Found at i:32677950 original size:162 final size:162
Alignment explanation
Indices: 32677724--32678095 Score: 487
Period size: 162 Copynumber: 2.3 Consensus size: 162
32677714 CAAAGAGTGG
* * * * * * *
32677724 GTGACACGTGGCAGCCTCTCAGGCA-TCCAGCAGTCAAGGGATTAAATTGTAAATCTTAAAAAAT
1 GTGACACGTGGCAGCCTCTGATGCAGTCAAACAGTCAAAGGACTAAATTATAAATCTTAAAAAAT
** *
32677788 TCTTGGGCCAATTTCGTAATTAAATAAAAGTTGATTTGGGGATTAAATTTAGAA-AAATTAAAAA
66 TCTTGGGCCAATTTCGTAATTAAATAAAAGTTGATTTAAGGATTAAA-TTAAAACAAATTAAAAA
32677852 TAAAAAGGACTAAATGCATAAATAAGCCAAAAA
130 TAAAAAGGACTAAATGCATAAATAAGCCAAAAA
* * *
32677885 GTGACACGTGGCAGCCCCTGATGCAGTCAAACAGTCAAAGGACTAATTTATAAATCTTGAAAAAT
1 GTGACACGTGGCAGCCTCTGATGCAGTCAAACAGTCAAAGGACTAAATTATAAATCTTAAAAAAT
* * *
32677950 TGTTGGGCCAATTTTGTAATTAAATAAAAGTTGATTTAAGGATTAAATTAAAACAAATTAAAGAT
66 TCTTGGGCCAATTTCGTAATTAAATAAAAGTTGATTTAAGGATTAAATTAAAACAAATTAAAAAT
** * * *
32678015 ATCAGGGACTAGATGCATAAATAATCCAAAAA
131 AAAAAGGACTAAATGCATAAATAAGCCAAAAA
* * * **
32678047 GTAACACGTGGCAGCCTCAGGTATAGTCAAACAGTCAAAGGACTAAATT
1 GTGACACGTGGCAGCCTCTGATGCAGTCAAACAGTCAAAGGACTAAATT
32678096 GAAAGCTAAT
Statistics
Matches: 181, Mismatches: 28, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
161 27 0.15
162 154 0.85
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (162 bp):
GTGACACGTGGCAGCCTCTGATGCAGTCAAACAGTCAAAGGACTAAATTATAAATCTTAAAAAAT
TCTTGGGCCAATTTCGTAATTAAATAAAAGTTGATTTAAGGATTAAATTAAAACAAATTAAAAAT
AAAAAGGACTAAATGCATAAATAAGCCAAAAA
Found at i:32679707 original size:16 final size:17
Alignment explanation
Indices: 32679686--32679719 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
32679676 ATGTTAAATT
32679686 TAAATTGAA-TTCAAAA
1 TAAATTGAATTTCAAAA
*
32679702 TAAATTTAATTTCAAAA
1 TAAATTGAATTTCAAAA
32679719 T
1 T
32679720 GGTTTGGGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (17 bp):
TAAATTGAATTTCAAAA
Found at i:32679803 original size:29 final size:29
Alignment explanation
Indices: 32679771--32679842 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
32679761 GATATAATCG
32679771 TGTCACAGATACAGTTTCA-G-ATACAGTCA
1 TGTCACAGATACAG--TCACGAATACAGTCA
* *
32679800 TGTCACAAATACAGTCACGAATGCAGTCA
1 TGTCACAGATACAGTCACGAATACAGTCA
32679829 TGTCACAGATACAG
1 TGTCACAGATACAG
32679843 CTACGGATGT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 3 0.08
28 1 0.03
29 34 0.89
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (29 bp):
TGTCACAGATACAGTCACGAATACAGTCA
Found at i:32679859 original size:29 final size:28
Alignment explanation
Indices: 32679771--32679882 Score: 91
Period size: 29 Copynumber: 3.9 Consensus size: 28
32679761 GATATAATCG
* * *
32679771 TGTCACAGATACAGTTTCAGATACAGTCA
1 TGTCACAGATACAG-TACGGATGCAGTCA
* *
32679800 TGTCACAAATACAGTCACGAATGCAGTCA
1 TGTCACAGATACAGT-ACGGATGCAGTCA
* *
32679829 TGTCACAGATACAGCTACGGATGTAGACA
1 TGTCACAGATACAG-TACGGATGCAGTCA
* *
32679858 TGAT-ACAAATACAGTTACAGATGCA
1 TG-TCACAGATACAG-TACGGATGCA
32679883 AACGTGATAC
Statistics
Matches: 67, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
28 1 0.01
29 64 0.96
30 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.23
Consensus pattern (28 bp):
TGTCACAGATACAGTACGGATGCAGTCA
Found at i:32680025 original size:40 final size:40
Alignment explanation
Indices: 32679954--32680106 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
32679944 GTATGACACA
* * *
32679954 TTGCAGTGTTTACAGTGTTACTGTCAATTCAGTGGTAACC
1 TTGCAGTATTTACAGTGTCACTGTCAGTTCAGTGGTAACC
* * * ** **
32679994 TTGCAGTTTTTACAATGTCACTG-CTGGTTCAGTTATAATA
1 TTGCAGTATTTACAGTGTCACTGTC-AGTTCAGTGGTAACC
** * *
32680034 TTATAGTATTTATAGTGTCACTGTCAGTTTAGTGGTAACC
1 TTGCAGTATTTACAGTGTCACTGTCAGTTCAGTGGTAACC
32680074 TTGCAGTATTTACAGTGTCACTGTC-GATTCAGT
1 TTGCAGTATTTACAGTGTCACTGTCAG-TTCAGT
32680107 AAATATTCTC
Statistics
Matches: 86, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
39 2 0.02
40 83 0.97
41 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.41
Consensus pattern (40 bp):
TTGCAGTATTTACAGTGTCACTGTCAGTTCAGTGGTAACC
Found at i:32680105 original size:80 final size:78
Alignment explanation
Indices: 32679962--32680113 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 78
32679952 CATTGCAGTG
* * *
32679962 TTTACAGTGTTACTGTCAATTCAGTGGTAACCTTGCAGTTTTTACAATGTCACTGCTGGTTCAGT
1 TTTACAGTGTCACTGTCAATTCAGTGGTAACCTTGCAGTATTTACAATGTCACTGCTGATTCAG-
32680027 TATAATATTATAGTA
65 TA-AATATTATAGTA
* * * *
32680042 TTTATAGTGTCACTGTCAGTTTAGTGGTAACCTTGCAGTATTTACAGTGTCACTG-TCGATTCAG
1 TTTACAGTGTCACTGTCAATTCAGTGGTAACCTTGCAGTATTTACAATGTCACTGCT-GATTCAG
32680106 TAAATATT
65 TAAATATT
32680114 CTCAAGTGGT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
78 6 0.09
79 3 0.05
80 55 0.86
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (78 bp):
TTTACAGTGTCACTGTCAATTCAGTGGTAACCTTGCAGTATTTACAATGTCACTGCTGATTCAGT
AAATATTATAGTA
Found at i:32680540 original size:55 final size:55
Alignment explanation
Indices: 32680475--32680694 Score: 281
Period size: 55 Copynumber: 4.1 Consensus size: 55
32680465 CATGTGTGCC
* * *
32680475 ACACACACCTTGACCCACGCCCGTGTGCCAACCCGTGTTCCTCCAAATAGTATAG
1 ACACACACCTTGACACACGCTCGTGTGCCAACCCGTGTTCCTCCAAACAGTATAG
* * * * *
32680530 ACACACACCTTGACACACGCTCATGTGCTAGCCCGTGTTCTTCCAAATAGTATAG
1 ACACACACCTTGACACACGCTCGTGTGCCAACCCGTGTTCCTCCAAACAGTATAG
* *
32680585 ACACACACCCTGACACACGCTCGTGTGCCAGCCC--G-T--TCCAAACAGTATAG
1 ACACACACCTTGACACACGCTCGTGTGCCAACCCGTGTTCCTCCAAACAGTATAG
* * *
32680635 ATACATACCTTGACACACGCTC-TGTGCCAACCCGTGTGCCTCCAAACAGTATAG
1 ACACACACCTTGACACACGCTCGTGTGCCAACCCGTGTTCCTCCAAACAGTATAG
32680689 ACACAC
1 ACACAC
32680695 CCCCGTGTGC
Statistics
Matches: 143, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
49 10 0.07
50 32 0.22
51 1 0.01
52 1 0.01
53 1 0.01
54 18 0.13
55 80 0.56
ACGTcount: A:0.28, C:0.35, G:0.16, T:0.20
Consensus pattern (55 bp):
ACACACACCTTGACACACGCTCGTGTGCCAACCCGTGTTCCTCCAAACAGTATAG
Found at i:32688469 original size:20 final size:20
Alignment explanation
Indices: 32688444--32688489 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
32688434 ACATGCATAA
32688444 GCAAGAATAATAAACGTGCT
1 GCAAGAATAATAAACGTGCT
32688464 GCAAGAATAATAAACGTGCT
1 GCAAGAATAATAAACGTGCT
*
32688484 ACAAGA
1 GCAAGA
32688490 GTAGACAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.17
Consensus pattern (20 bp):
GCAAGAATAATAAACGTGCT
Found at i:32689213 original size:15 final size:15
Alignment explanation
Indices: 32689164--32689213 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 15
32689154 TGTTTATCCC
* **
32689164 AAATAAAAATTTGAA
1 AAATAAATATTTTTA
32689179 AAAT-AA-ATTTTTA
1 AAATAAATATTTTTA
32689192 AAA-AAATATTTTTA
1 AAATAAATATTTTTA
32689206 AAATAAAT
1 AAATAAAT
32689214 CAGACATTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
13 10 0.33
14 12 0.40
15 8 0.27
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (15 bp):
AAATAAATATTTTTA
Found at i:32694497 original size:4 final size:4
Alignment explanation
Indices: 32694488--32694533 Score: 60
Period size: 4 Copynumber: 12.0 Consensus size: 4
32694478 ATTCATTAGC
* *
32694488 ATGT ATGT ATGT ATGT GTGT ATGT GTGT ATGT ATGT A--T ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
32694534 GTGTGTGTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
4 34 0.94
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:32694538 original size:4 final size:4
Alignment explanation
Indices: 32694501--32694555 Score: 56
Period size: 4 Copynumber: 13.8 Consensus size: 4
32694491 TATGTATGTA
* * * * * *
32694501 TGTG TGTA TGTG TGTA TGTA TGTA TATG TATG TGTG TGTG TGTG TGTG
1 TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG
32694549 TGTG TGT
1 TGTG TGT
32694556 CTGATATGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.11, C:0.00, G:0.38, T:0.51
Consensus pattern (4 bp):
TGTG
Found at i:32694540 original size:6 final size:6
Alignment explanation
Indices: 32694501--32694555 Score: 56
Period size: 6 Copynumber: 9.2 Consensus size: 6
32694491 TATGTATGTA
* * * * * *
32694501 TGTGTG TATGTG TGTATG TATGTA TATGTA TGTGTG TGTGTG TGTGTG
1 TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG
32694549 TGTGTG T
1 TGTGTG T
32694556 CTGATATGGT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.11, C:0.00, G:0.38, T:0.51
Consensus pattern (6 bp):
TGTGTG
Found at i:32694555 original size:8 final size:8
Alignment explanation
Indices: 32694489--32694553 Score: 71
Period size: 8 Copynumber: 8.4 Consensus size: 8
32694479 TTCATTAGCA
*
32694489 TGTATGTA
1 TGTATGTG
32694497 TGTATGTG
1 TGTATGTG
32694505 TGTATGTG
1 TGTATGTG
*
32694513 TGTATGTA
1 TGTATGTG
*
32694521 TGTA--TA
1 TGTATGTG
32694527 TGTATGTG
1 TGTATGTG
*
32694535 TGTGTGTG
1 TGTATGTG
*
32694543 TGTGTGTG
1 TGTATGTG
32694551 TGT
1 TGT
32694554 GTCTGATATG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
6 6 0.12
8 45 0.88
ACGTcount: A:0.14, C:0.00, G:0.35, T:0.51
Consensus pattern (8 bp):
TGTATGTG
Found at i:32699907 original size:50 final size:51
Alignment explanation
Indices: 32699850--32699950 Score: 168
Period size: 51 Copynumber: 2.0 Consensus size: 51
32699840 TTATGTTCTT
32699850 GATGGAATTTCCAT-ATATTTTTTGTAACATTTAATTAATCAAGTCATCAC
1 GATGGAATTTCCATCATATTTTTTGTAACATTTAATTAATCAAGTCATCAC
* **
32699900 GATGGAATTTCCATCATTTTTTTTGTATTATTTAATTAATCAAGTCATCAC
1 GATGGAATTTCCATCATATTTTTTGTAACATTTAATTAATCAAGTCATCAC
32699951 CATTAGAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 14 0.30
51 33 0.70
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.45
Consensus pattern (51 bp):
GATGGAATTTCCATCATATTTTTTGTAACATTTAATTAATCAAGTCATCAC
Found at i:32714892 original size:59 final size:61
Alignment explanation
Indices: 32714746--32714892 Score: 145
Period size: 61 Copynumber: 2.4 Consensus size: 61
32714736 ATAATTGTTT
* * * * * *
32714746 AGTTCAGGCCCCATTATGGGAACAATTACTAAGTTCAAGGACTAATTTGAACAAAAAAAAA
1 AGTTCAAGCCCCAATGTGAGAACAATTACCAAGTTCAAGGACTAACTTGAACAAAAAAAAA
**** * * * * *
32714807 AGTTCAAGTTTTAATGTGGGAACAATTACCAAGTTCAGGGATTAACTTGGA-TAAAAAAAA
1 AGTTCAAGCCCCAATGTGAGAACAATTACCAAGTTCAAGGACTAACTTGAACAAAAAAAAA
32714867 A-TTCAAGCCCCAATGTGAGAACAATT
1 AGTTCAAGCCCCAATGTGAGAACAATT
32714893 GTCTAGTTCT
Statistics
Matches: 68, Mismatches: 18, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
59 20 0.29
60 9 0.13
61 39 0.57
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (61 bp):
AGTTCAAGCCCCAATGTGAGAACAATTACCAAGTTCAAGGACTAACTTGAACAAAAAAAAA
Found at i:32719805 original size:2 final size:2
Alignment explanation
Indices: 32719800--32719832 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
32719790 TTACCAAAAA
*
32719800 AT AT AT AT AT GT AT AT A- AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32719833 TAAAACTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32719821 original size:17 final size:17
Alignment explanation
Indices: 32719799--32719832 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
32719789 ATTACCAAAA
*
32719799 AATATATATATGTATAT
1 AATATATATATATATAT
32719816 AATATATATATATATAT
1 AATATATATATATATAT
32719833 TAAAACTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
AATATATATATATATAT
Found at i:32719822 original size:15 final size:15
Alignment explanation
Indices: 32719802--32719831 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32719792 ACCAAAAAAT
*
32719802 ATATATATGTATATA
1 ATATATATATATATA
32719817 ATATATATATATATA
1 ATATATATATATATA
32719832 TTAAAACTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:32721656 original size:18 final size:19
Alignment explanation
Indices: 32721624--32721665 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
32721614 AATATTATTT
32721624 TAAAATATATCTTTTCAAA
1 TAAAATATATCTTTTCAAA
* *
32721643 -AAAATTTATGTTTTCAAA
1 TAAAATATATCTTTTCAAA
32721661 TAAAA
1 TAAAA
32721666 ATAATTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.40
Consensus pattern (19 bp):
TAAAATATATCTTTTCAAA
Found at i:32721769 original size:26 final size:27
Alignment explanation
Indices: 32721732--32721783 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
32721722 CTTCCTTTTT
*
32721732 ATTTTTCATTTTTATTTTTAGAAAATA
1 ATTTTTCATTTTCATTTTTAGAAAATA
*
32721759 ATTTTT-ATTTTCATTTTTCGAAAAT
1 ATTTTTCATTTTCATTTTTAGAAAAT
32721784 TGAAAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (27 bp):
ATTTTTCATTTTCATTTTTAGAAAATA
Found at i:32726404 original size:15 final size:15
Alignment explanation
Indices: 32726384--32726415 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
32726374 ATTGATACCT
32726384 CTTTTAATTCAATAA
1 CTTTTAATTCAATAA
32726399 CTTTTAATTCAATAA
1 CTTTTAATTCAATAA
32726414 CT
1 CT
32726416 AGTCACACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.47
Consensus pattern (15 bp):
CTTTTAATTCAATAA
Found at i:32736631 original size:3 final size:3
Alignment explanation
Indices: 32736623--32736652 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
32736613 TTGGCTTTCC
32736623 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32736653 ACTATGGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:32737025 original size:23 final size:23
Alignment explanation
Indices: 32736980--32737027 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
32736970 TTATATATTC
* *
32736980 ATGAACATGTTCGATTAAGTTAA
1 ATGAACATGTTCGATAAAATTAA
32737003 ATGAACATGTTCG-TAAACATTAA
1 ATGAACATGTTCGATAAA-ATTAA
32737026 AT
1 AT
32737028 AAACGAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (23 bp):
ATGAACATGTTCGATAAAATTAA
Found at i:32737553 original size:21 final size:20
Alignment explanation
Indices: 32737524--32737562 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
32737514 GATTTGACTA
32737524 TTTTTTTTCTTACTTATTTT
1 TTTTTTTTCTTACTTATTTT
*
32737544 TTTTTCTTTCTTTCTTATT
1 TTTTT-TTTCTTACTTATT
32737563 ATATATACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTTTTCTTACTTATTTT
Found at i:32739220 original size:28 final size:28
Alignment explanation
Indices: 32739187--32739247 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
32739177 AAAATGAGAC
32739187 TTTGGA-TACTCGGGGGCAAAATGGTAAT
1 TTTGGACT-CTCGGGGGCAAAATGGTAAT
32739215 TTTGGACTCTCGGGGGCAAAATGGTAAT
1 TTTGGACTCTCGGGGGCAAAATGGTAAT
32739243 TTTGG
1 TTTGG
32739248 GGAAATTTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 31 0.97
29 1 0.03
ACGTcount: A:0.25, C:0.11, G:0.33, T:0.31
Consensus pattern (28 bp):
TTTGGACTCTCGGGGGCAAAATGGTAAT
Found at i:32739286 original size:58 final size:59
Alignment explanation
Indices: 32739224--32739362 Score: 149
Period size: 58 Copynumber: 2.4 Consensus size: 59
32739214 TTTTGGACTC
* * * * *
32739224 TCGGGGGCAAAATGGTAATTTTGGGGAAATTTG-GAGTTAAAAA-TGACA-TTTTAGACAT
1 TCGGGGGTAAAATGGTAATTTTGAGAAAAATTGAGA-TCAAAAATTGA-ATTTTTAGACAT
* * * *
32739282 TCGGGGGTAAAACGATAATTTTTAGAAAAATTGAGATCAAAAATTGAATTTTTGGACAT
1 TCGGGGGTAAAATGGTAATTTTGAGAAAAATTGAGATCAAAAATTGAATTTTTAGACAT
*
32739341 TCGGGGGTAAATTGGTAATTTT
1 TCGGGGGTAAAATGGTAATTTT
32739363 TAAAAGTTTT
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
58 33 0.50
59 33 0.50
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.33
Consensus pattern (59 bp):
TCGGGGGTAAAATGGTAATTTTGAGAAAAATTGAGATCAAAAATTGAATTTTTAGACAT
Found at i:32739348 original size:59 final size:59
Alignment explanation
Indices: 32739272--32739411 Score: 156
Period size: 59 Copynumber: 2.4 Consensus size: 59
32739262 AAAAATGACA
* *
32739272 TTTTAGACATTCGGGGGTAAAACGATAATTTTTAGAAA-AATTGAGATCAAAAATTGAAT
1 TTTTGGACATTCGGGGGTAAAACGATAATTTTTA-AAAGAATTGAGATCAAAAATAGAAT
** * ** * * *
32739331 TTTTGGACATTCGGGGGTAAATTGGTAATTTTTAAAAGTTTTGGGGTCAAAAATAGAGT
1 TTTTGGACATTCGGGGGTAAAACGATAATTTTTAAAAGAATTGAGATCAAAAATAGAAT
* *
32739390 TTTTGGACATTTGAGGGTAAAA
1 TTTTGGACATTCGGGGGTAAAA
32739412 ATAGAATTTT
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
58 3 0.04
59 64 0.96
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.35
Consensus pattern (59 bp):
TTTTGGACATTCGGGGGTAAAACGATAATTTTTAAAAGAATTGAGATCAAAAATAGAAT
Found at i:32739402 original size:29 final size:28
Alignment explanation
Indices: 32739370--32739458 Score: 117
Period size: 29 Copynumber: 3.1 Consensus size: 28
32739360 TTTTAAAAGT
*
32739370 TTTGGGGTCAAAAATAGAGTTTTTGGACA-
1 TTTGGGGT-AAAAATAGAATTTTTGGA-AG
32739399 TTTGAGGGTAAAAATAGAATTTTTGGAAG
1 TTTG-GGGTAAAAATAGAATTTTTGGAAG
*
32739428 TTTGGGGGTAAAAATGGAATTTTTGGAAG
1 TTT-GGGGTAAAAATAGAATTTTTGGAAG
32739457 TT
1 TT
32739459 AAAAATGTAA
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
28 1 0.02
29 49 0.89
30 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.29, T:0.36
Consensus pattern (28 bp):
TTTGGGGTAAAAATAGAATTTTTGGAAG
Found at i:32739420 original size:59 final size:59
Alignment explanation
Indices: 32739318--32739454 Score: 161
Period size: 59 Copynumber: 2.3 Consensus size: 59
32739308 AAAATTGAGA
* * * * *
32739318 TCAAAAATTGAATTTTTGGACATTCGGGGGTAAATTGGTAATTTTTAAAAGTTTTGGGG
1 TCAAAAATAGAATTTTTGGACATTCGAGGGTAAAATAGTAATTTTTAAAAGTTTGGGGG
* * **
32739377 TCAAAAATAGAGTTTTTGGACATTTGAGGGTAAAAATAG-AATTTTTGGAAGTTTGGGGG
1 TCAAAAATAGAATTTTTGGACATTCGAGGGT-AAAATAGTAATTTTTAAAAGTTTGGGGG
*
32739436 T-AAAAATGGAATTTTTGGA
1 TCAAAAATAGAATTTTTGGA
32739455 AGTTAAAAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
58 16 0.24
59 45 0.68
60 5 0.08
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (59 bp):
TCAAAAATAGAATTTTTGGACATTCGAGGGTAAAATAGTAATTTTTAAAAGTTTGGGGG
Found at i:32739471 original size:51 final size:52
Alignment explanation
Indices: 32739407--32739506 Score: 123
Period size: 51 Copynumber: 1.9 Consensus size: 52
32739397 CATTTGAGGG
* * ** **
32739407 TAAAAATAGAATTTTTGGAAGTTTGGGGGT-AAAAATGGAATTTTTGGAAGT
1 TAAAAATAGAATTTTCGAAAGTTTAAGGGTCAAAAATACAATTTTTGGAAGT
32739458 TAAAAAT-GTAATTTTCGAAAGTTTAAGGGTCAAAAATACAATTTTTGGA
1 TAAAAATAG-AATTTTCGAAAGTTTAAGGGTCAAAAATACAATTTTTGGA
32739507 TAACTTAGGG
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
50 1 0.02
51 24 0.59
52 16 0.39
ACGTcount: A:0.40, C:0.03, G:0.22, T:0.35
Consensus pattern (52 bp):
TAAAAATAGAATTTTCGAAAGTTTAAGGGTCAAAAATACAATTTTTGGAAGT
Found at i:32739479 original size:22 final size:22
Alignment explanation
Indices: 32739436--32739480 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
32739426 AGTTTGGGGG
* *
32739436 TAAAAATGGAATTTTTGGAAGT
1 TAAAAATGGAATTTTCGAAAGT
*
32739458 TAAAAATGTAATTTTCGAAAGT
1 TAAAAATGGAATTTTCGAAAGT
32739480 T
1 T
32739481 TAAGGGTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (22 bp):
TAAAAATGGAATTTTCGAAAGT
Found at i:32740512 original size:10 final size:10
Alignment explanation
Indices: 32740497--32740526 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
32740487 TAAAAAATTT
32740497 ATTATTATTA
1 ATTATTATTA
32740507 ATTATTATTA
1 ATTATTATTA
*
32740517 AATATTATTA
1 ATTATTATTA
32740527 CTGTTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
ATTATTATTA
Found at i:32741295 original size:17 final size:17
Alignment explanation
Indices: 32741270--32741364 Score: 83
Period size: 17 Copynumber: 5.7 Consensus size: 17
32741260 GTTTAAAATT
32741270 ATTTCAAATTTAAACTAA
1 ATTT-AAATTTAAACTAA
32741288 ATTTAAATTTAAAGC-AA
1 ATTTAAATTTAAA-CTAA
32741305 ATTTAAATTT----TAA
1 ATTTAAATTTAAACTAA
**
32741318 ATTTAAATTTAATGTAA
1 ATTTAAATTTAAACTAA
*
32741335 ATTTAAATTTAGAAATAA
1 ATTTAAATTTA-AACTAA
* *
32741353 ATCTAAAATTAA
1 ATTTAAATTTAA
32741365 TTCAAGCTCA
Statistics
Matches: 66, Mismatches: 4, Indels: 15
0.78 0.05 0.18
Matches are distributed among these distances:
13 12 0.18
17 36 0.55
18 18 0.27
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (17 bp):
ATTTAAATTTAAACTAA
Found at i:32741296 original size:6 final size:6
Alignment explanation
Indices: 32741270--32741345 Score: 77
Period size: 6 Copynumber: 12.8 Consensus size: 6
32741260 GTTTAAAATT
* **
32741270 ATTTCAA ATTTAA A-CTAA ATTTAA ATTTAA A-GCAA ATTTAA ATTTTAA
1 ATTT-AA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A-TTTAA
*
32741318 ATTTAA ATTT-A ATGTAA ATTTAA ATTTA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTA
32741346 GAAATAAATC
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
5 11 0.19
6 36 0.63
7 10 0.18
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.45
Consensus pattern (6 bp):
ATTTAA
Found at i:32741321 original size:30 final size:30
Alignment explanation
Indices: 32741285--32741344 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
32741275 AAATTTAAAC
32741285 TAAATTTAAATTTAAAGCAAATTTAAATTT
1 TAAATTTAAATTTAAAGCAAATTTAAATTT
* *
32741315 TAAATTTAAATTTAATGTAAATTTAAATTT
1 TAAATTTAAATTTAAAGCAAATTTAAATTT
32741345 AGAAATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (30 bp):
TAAATTTAAATTTAAAGCAAATTTAAATTT
Found at i:32741359 original size:24 final size:23
Alignment explanation
Indices: 32741280--32741364 Score: 82
Period size: 24 Copynumber: 3.7 Consensus size: 23
32741270 ATTTCAAATT
*
32741280 TAAA-CTAAATTTAAATTTAAAG
1 TAAATCTAAATTTAAATTTAAAA
* * *
32741302 CAAATTTAAATTTTAAATTTAAAT
1 TAAATCTAAA-TTTAAATTTAAAA
* *
32741326 TTAATGTAAATTTAAATTTAGAAA
1 TAAATCTAAATTTAAATTTA-AAA
*
32741350 TAAATCTAAAATTAA
1 TAAATCTAAATTTAA
32741365 TTCAAGCTCA
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
22 3 0.06
23 14 0.28
24 33 0.66
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (23 bp):
TAAATCTAAATTTAAATTTAAAA
Found at i:32760272 original size:31 final size:30
Alignment explanation
Indices: 32760237--32760346 Score: 93
Period size: 31 Copynumber: 3.6 Consensus size: 30
32760227 AAAAGATTAG
*
32760237 GTACCAAATTAGGAAAAAATGCCAAGTTCAA
1 GTACCAAATTAGGAAAAAATG-CAAGTTTAA
* *
32760268 GTACCAAATTGGGTTCAAAAA---AAGTTTAA
1 GTACCAAATTAGG--AAAAAATGCAAGTTTAA
*
32760297 GTACCAAATTAGAAAAAAATGTCAAGTTTAA
1 GTACCAAATTAGGAAAAAATG-CAAGTTTAA
* *
32760328 ATATCAAATT-GGATAAAAA
1 GTACCAAATTAGGA-AAAAA
32760347 AAATTTAGGT
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
27 5 0.08
29 18 0.29
30 2 0.03
31 33 0.52
33 5 0.08
ACGTcount: A:0.50, C:0.11, G:0.15, T:0.25
Consensus pattern (30 bp):
GTACCAAATTAGGAAAAAATGCAAGTTTAA
Found at i:32760301 original size:60 final size:59
Alignment explanation
Indices: 32760209--32760372 Score: 188
Period size: 60 Copynumber: 2.8 Consensus size: 59
32760199 TAAATTTAGG
* * * * *
32760209 TACCAATTTGAATCCAAAAAAAGATTAGGTACCAAATTAGGAAAAAATGCCAAGTTCAAG
1 TACCAAATTGGAT-CAAAAAAAGTTTAGGTACCAAATTAGAAAAAAATGCCAAGTTCAAA
* * * *
32760269 TACCAAATTGGGTTCAAAAAAAGTTTAAGTACCAAATTAGAAAAAAATGTCAAGTTTAAA
1 TACCAAATT-GGATCAAAAAAAGTTTAGGTACCAAATTAGAAAAAAATGCCAAGTTCAAA
* * *
32760329 TATCAAATTGGAT-AAAAAAAATTTAGGTATCAAATTA-AAAAAAA
1 TACCAAATTGGATCAAAAAAAGTTTAGGTACCAAATTAGAAAAAAA
32760373 GTATCAAATT
Statistics
Matches: 89, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
57 7 0.08
58 21 0.24
59 3 0.03
60 56 0.63
61 2 0.02
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.25
Consensus pattern (59 bp):
TACCAAATTGGATCAAAAAAAGTTTAGGTACCAAATTAGAAAAAAATGCCAAGTTCAAA
Found at i:32766240 original size:24 final size:24
Alignment explanation
Indices: 32766187--32766240 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
32766177 TATAAAGATC
*
32766187 ATAATTAAATTATATATTTTTATA
1 ATAATTAAAATATATATTTTTATA
*
32766211 AAAATTAAAATATA-ATTTTTTATA
1 ATAATTAAAATATATA-TTTTTATA
*
32766235 TTAATT
1 ATAATT
32766241 TAGGATGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
ATAATTAAAATATATATTTTTATA
Found at i:32767523 original size:22 final size:20
Alignment explanation
Indices: 32767503--32767540 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
32767493 AAATTTTTAA
32767503 TTAT-TATATTATGT-ATTT
1 TTATATATATTATGTGATTT
32767521 TTATATATATTATGTGATTT
1 TTATATATATTATGTGATTT
32767541 ATTACACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 10 0.56
20 4 0.22
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (20 bp):
TTATATATATTATGTGATTT
Found at i:32767543 original size:24 final size:22
Alignment explanation
Indices: 32767495--32767543 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
32767485 TGTTTTCTAA
*
32767495 ATTTTTAATTATTATATTATGT
1 ATTTTTAATTATTATATGATGT
* *
32767517 ATTTTTATATATATTATGTGATTT
1 ATTTTTA-AT-TATTATATGATGT
32767541 ATT
1 ATT
32767544 ACACATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 7 0.32
23 2 0.09
24 13 0.59
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (22 bp):
ATTTTTAATTATTATATGATGT
Found at i:32768568 original size:11 final size:11
Alignment explanation
Indices: 32768560--32768590 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
32768550 TAGAATTTTT
*
32768560 TAATTATTTAA
1 TAATTTTTTAA
32768571 TAATTTTTTAA
1 TAATTTTTTAA
32768582 TAATTTTTT
1 TAATTTTTT
32768591 TCATTTATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TAATTTTTTAA
Found at i:32769135 original size:24 final size:24
Alignment explanation
Indices: 32769084--32769135 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
32769074 TTTGTAATTC
* *
32769084 AAATAAATTATGTTAATAAATGCA
1 AAATAAATTATATTAATAAATACA
* *
32769108 AAATATATTATATTAATAAATACT
1 AAATAAATTATATTAATAAATACA
32769132 AAAT
1 AAAT
32769136 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATAAATTATATTAATAAATACA
Found at i:32769546 original size:28 final size:28
Alignment explanation
Indices: 32769493--32769546 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
32769483 GGGATTTAGG
* *
32769493 GTTTAGAGTTTATGATTCAAGGTTCAAT
1 GTTTAGAGTTTAGGATTCAAGATTCAAT
* *
32769521 GTTTAGAGTTTAGGATTGATGATTCA
1 GTTTAGAGTTTAGGATTCAAGATTCA
32769547 GAGTAAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.43
Consensus pattern (28 bp):
GTTTAGAGTTTAGGATTCAAGATTCAAT
Found at i:32771073 original size:20 final size:20
Alignment explanation
Indices: 32771048--32771085 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
32771038 CAAAGTGAGC
32771048 ATTTGATTCAAATACTTAGA
1 ATTTGATTCAAATACTTAGA
32771068 ATTTGATTCAAATACTTA
1 ATTTGATTCAAATACTTA
32771086 AAATGGCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (20 bp):
ATTTGATTCAAATACTTAGA
Found at i:32776085 original size:54 final size:54
Alignment explanation
Indices: 32776003--32776111 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
32775993 CACACAAGAA
32776003 GGCATGTTGTACGCATAATCACAAATATAAATACAATAGACATGTGTATTTCAT
1 GGCATGTTGTACGCATAATCACAAATATAAATACAATAGACATGTGTATTTCAT
32776057 GGCATGTTGTACGCATAATCACAAATATAAATACAATAGACATGTGTATTTCAT
1 GGCATGTTGTACGCATAATCACAAATATAAATACAATAGACATGTGTATTTCAT
32776111 G
1 G
32776112 CAAATATTCA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (54 bp):
GGCATGTTGTACGCATAATCACAAATATAAATACAATAGACATGTGTATTTCAT
Found at i:32776316 original size:29 final size:29
Alignment explanation
Indices: 32776284--32776405 Score: 119
Period size: 28 Copynumber: 4.3 Consensus size: 29
32776274 TTTTTTAAAG
* *
32776284 TAGGGGATAAAATTGTAAAATTTGAAAAA
1 TAGGGGACAAAATTGTAAAATATGAAAAA
*
32776313 TAGGGG-CAAAATTGAAAAATAT-AAAAA
1 TAGGGGACAAAATTGTAAAATATGAAAAA
32776340 TAGGGGA-AAAACTT-TAAAAATATGAAAAA
1 TAGGGGACAAAA-TTGT-AAAATATGAAAAA
* * * * *
32776369 TAGTGG-CAAAACTATAAAATCTAAAAAA
1 TAGGGGACAAAATTGTAAAATATGAAAAA
32776397 TAGGGGACA
1 TAGGGGACA
32776406 TGCGGTCTTA
Statistics
Matches: 77, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
27 15 0.19
28 39 0.51
29 23 0.30
ACGTcount: A:0.55, C:0.05, G:0.19, T:0.21
Consensus pattern (29 bp):
TAGGGGACAAAATTGTAAAATATGAAAAA
Found at i:32776360 original size:56 final size:57
Alignment explanation
Indices: 32776284--32776403 Score: 149
Period size: 56 Copynumber: 2.1 Consensus size: 57
32776274 TTTTTTAAAG
* *
32776284 TAGGGGATAAAATTGTAAAATTTGAAAAATAGGGGCAAAATTGA-AAAATAT-AAAAA
1 TAGGGGATAAAATTGTAAAATATGAAAAATAGGGGCAAAACT-ATAAAATATAAAAAA
* *
32776340 TAGGGGA-AAAACTT-TAAAAATATGAAAAATAGTGGCAAAACTATAAAATCTAAAAAA
1 TAGGGGATAAAA-TTGT-AAAATATGAAAAATAGGGGCAAAACTATAAAATATAAAAAA
32776397 TAGGGGA
1 TAGGGGA
32776404 CATGCGGTCT
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
55 6 0.11
56 38 0.68
57 12 0.21
ACGTcount: A:0.55, C:0.04, G:0.19, T:0.22
Consensus pattern (57 bp):
TAGGGGATAAAATTGTAAAATATGAAAAATAGGGGCAAAACTATAAAATATAAAAAA
Found at i:32778550 original size:20 final size:21
Alignment explanation
Indices: 32778525--32778563 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
32778515 ACTTTTGTAA
*
32778525 TATTACTATTATT-ATTAATT
1 TATTACTATAATTGATTAATT
32778545 TATTACTATAATTGATTAA
1 TATTACTATAATTGATTAA
32778564 CTTTTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTACTATAATTGATTAATT
Found at i:32782097 original size:56 final size:56
Alignment explanation
Indices: 32782030--32782144 Score: 230
Period size: 56 Copynumber: 2.1 Consensus size: 56
32782020 TGCGAAGACA
32782030 ATAAGAAAAAGAGATATGGAGCGCTCGACAACAATTCAATAATTATTTTTATTTCT
1 ATAAGAAAAAGAGATATGGAGCGCTCGACAACAATTCAATAATTATTTTTATTTCT
32782086 ATAAGAAAAAGAGATATGGAGCGCTCGACAACAATTCAATAATTATTTTTATTTCT
1 ATAAGAAAAAGAGATATGGAGCGCTCGACAACAATTCAATAATTATTTTTATTTCT
32782142 ATA
1 ATA
32782145 TAATTTATTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (56 bp):
ATAAGAAAAAGAGATATGGAGCGCTCGACAACAATTCAATAATTATTTTTATTTCT
Found at i:32782161 original size:20 final size:20
Alignment explanation
Indices: 32782124--32782161 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32782114 CAACAATTCA
*
32782124 ATAATTATTTTTATTTCTAT
1 ATAATTATTTTTACTTCTAT
32782144 ATAATTTATTTTT-CTTCT
1 ATAA-TTATTTTTACTTCT
32782162 TCTCAATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (20 bp):
ATAATTATTTTTACTTCTAT
Found at i:32784117 original size:15 final size:15
Alignment explanation
Indices: 32784097--32784164 Score: 59
Period size: 15 Copynumber: 4.4 Consensus size: 15
32784087 ATACTACAAA
32784097 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
32784112 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
32784129 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
*
32784146 ATA-TTAATATTAA-
1 ATATTTATTATTAAT
32784159 ATATTT
1 ATATTT
32784165 TCAATAATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
13 3 0.07
14 11 0.25
15 12 0.27
16 1 0.02
17 7 0.16
18 1 0.02
19 9 0.20
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (15 bp):
ATATTTATTATTAAT
Done.