Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 64 of 97
Found at i:25769884 original size:40 final size:40
Alignment explanation
Indices: 25769819--25769902 Score: 152
Period size: 39 Copynumber: 2.1 Consensus size: 40
25769809 TTTTTAAAAA
*
25769819 TTTTTAGAAATTTTAAAAATTAAAAAATA-TTTTTTTAAC
1 TTTTTAGAAATTATAAAAATTAAAAAATATTTTTTTTAAC
25769858 TTTTTAGAAATTATAAAAATTAAAAAATATTTTTTTTAAC
1 TTTTTAGAAATTATAAAAATTAAAAAATATTTTTTTTAAC
25769898 TTTTT
1 TTTTT
25769903 TTATAATTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 28 0.65
40 15 0.35
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (40 bp):
TTTTTAGAAATTATAAAAATTAAAAAATATTTTTTTTAAC
Found at i:25781396 original size:23 final size:23
Alignment explanation
Indices: 25781365--25781426 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
25781355 CCAAAATAAA
*
25781365 AATATAAAAATTTAATTAAATAT
1 AATAAAAAAATTTAATTAAATAT
* *
25781388 AATAAAAAAATTTATTTAAATTT
1 AATAAAAAAATTTAATTAAATAT
** *
25781411 TTTAAAATAATTTAAT
1 AATAAAAAAATTTAAT
25781427 AATTTTTTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
AATAAAAAAATTTAATTAAATAT
Found at i:25781909 original size:21 final size:20
Alignment explanation
Indices: 25781885--25781923 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25781875 AAAGGAACAT
25781885 AAAAAAATACTGAAAAAAAAG
1 AAAAAAATA-TGAAAAAAAAG
* *
25781906 AAAATAATATTAAAAAAA
1 AAAAAAATATGAAAAAAA
25781924 TTTAGAGAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
AAAAAAATATGAAAAAAAAG
Found at i:25786325 original size:36 final size:36
Alignment explanation
Indices: 25786285--25786355 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
25786275 CGTGGGAATT
*
25786285 ACCCACTTCACAAAATATAAATCGGGGCTTCAGGTA
1 ACCCACGTCACAAAATATAAATCGGGGCTTCAGGTA
*
25786321 ACCCACGTCACCAAATATAAATCGGGGCTTCAGGT
1 ACCCACGTCACAAAATATAAATCGGGGCTTCAGGT
25786356 CCCCCTTTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (36 bp):
ACCCACGTCACAAAATATAAATCGGGGCTTCAGGTA
Found at i:25786797 original size:2 final size:2
Alignment explanation
Indices: 25786790--25786841 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
25786780 AAACATGTAG
25786790 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25786832 AT AT AT AT AT
1 AT AT AT AT AT
25786842 CTATTAAAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25787150 original size:20 final size:21
Alignment explanation
Indices: 25787120--25787159 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
25787110 ACAGCCGGTG
25787120 CTTCTCTTTCTCTTCTTCCTT
1 CTTCTCTTTCTCTTCTTCCTT
25787141 CTTC-CTTTCTCTTCTTCCT
1 CTTCTCTTTCTCTTCTTCCT
25787160 CTTTCTCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (21 bp):
CTTCTCTTTCTCTTCTTCCTT
Found at i:25787213 original size:31 final size:31
Alignment explanation
Indices: 25787177--25787249 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
25787167 CTCTAGCATC
** * *
25787177 GTCGCTGCTTTTTCTCTCTTTTTTCTCTTTT
1 GTCGCTGCTCCTTCTCTCATTTTTCTCCTTT
25787208 GTCGCTGCTCCTTCTCTCATTTTTCTCCTTT
1 GTCGCTGCTCCTTCTCTCATTTTTCTCCTTT
25787239 GTCGCTGCTCC
1 GTCGCTGCTCC
25787250 ATTTCTCCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.01, C:0.33, G:0.12, T:0.53
Consensus pattern (31 bp):
GTCGCTGCTCCTTCTCTCATTTTTCTCCTTT
Found at i:25787347 original size:70 final size:70
Alignment explanation
Indices: 25787273--25787413 Score: 228
Period size: 70 Copynumber: 2.0 Consensus size: 70
25787263 CTTCGTTATA
* * * *
25787273 TTTCTCTTCTTTTTTCCCTCTCTTTCTTCTCCTCGTCATCGTGCTTCTTCTCTCTTTCTTCTTCT
1 TTTCTCTTCTTTCTTCCCTCTCTTTCTTCTCCTCGTCACCGTACTCCTTCTCTCTTTCTTCTTCT
25787338 ATTTC
66 ATTTC
*
25787343 TTTCTCTTCTTTCTTCCCTCTCTTTCTTCTTCTCGTCACCGTACTCCTTCTCTCTTTCTTCTTCT
1 TTTCTCTTCTTTCTTCCCTCTCTTTCTTCTCCTCGTCACCGTACTCCTTCTCTCTTTCTTCTTCT
*
25787408 CTTTC
66 ATTTC
25787413 T
1 T
25787414 CTTTTTTTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.03, C:0.36, G:0.04, T:0.57
Consensus pattern (70 bp):
TTTCTCTTCTTTCTTCCCTCTCTTTCTTCTCCTCGTCACCGTACTCCTTCTCTCTTTCTTCTTCT
ATTTC
Found at i:25787372 original size:20 final size:20
Alignment explanation
Indices: 25787347--25787417 Score: 56
Period size: 20 Copynumber: 3.4 Consensus size: 20
25787337 TATTTCTTTC
25787347 TCTTCTTTCTTCCCTCTCTT
1 TCTTCTTTCTTCCCTCTCTT
* *
25787367 TCTTCTTCTCGTCACCGTACTCCT
1 TCTTCTT-TCTTC-CC-T-CTCTT
*
25787391 TCTCTCTTTCTT-CTTCTCTT
1 TCT-TCTTTCTTCCCTCTCTT
25787411 TC-TCTTT
1 TCTTCTTT
25787418 TTTTTTTCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
18 5 0.12
20 13 0.32
21 5 0.12
22 3 0.07
23 1 0.02
24 10 0.24
25 4 0.10
ACGTcount: A:0.03, C:0.38, G:0.03, T:0.56
Consensus pattern (20 bp):
TCTTCTTTCTTCCCTCTCTT
Found at i:25787416 original size:14 final size:14
Alignment explanation
Indices: 25787316--25787409 Score: 63
Period size: 14 Copynumber: 6.7 Consensus size: 14
25787306 CGTCATCGTG
25787316 CTTCTTCTCTCTTT
1 CTTCTTCTCTCTTT
*
25787330 CTTC-T-TCTATTT
1 CTTCTTCTCTCTTT
25787342 C-T-TTCTCTTCTTT
1 CTTCTTCTC-TCTTT
*
25787355 CTTC-CCTCTCTTT
1 CTTCTTCTCTCTTT
* *
25787368 CTTCTTCTCGTCACCGTA
1 CTTCTTCTC-T---CTTT
*
25787386 CTCCTTCTCTCTTT
1 CTTCTTCTCTCTTT
25787400 CTTCTTCTCT
1 CTTCTTCTCT
25787410 TTCTCTTTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
11 2 0.03
12 9 0.15
13 15 0.25
14 22 0.37
15 1 0.02
17 1 0.02
18 10 0.17
ACGTcount: A:0.03, C:0.37, G:0.02, T:0.57
Consensus pattern (14 bp):
CTTCTTCTCTCTTT
Found at i:25787426 original size:70 final size:70
Alignment explanation
Indices: 25787273--25787433 Score: 218
Period size: 70 Copynumber: 2.3 Consensus size: 70
25787263 CTTCGTTATA
* * *
25787273 TTTCTCTTCTTTT-TTCCCTCTCTTTCTTCTCCTCGTCATCGTGCTTCTTCTCTCTTTCTTCTTC
1 TTTCTCTT-TTTTCTTCCCTCTCTTTCTTCTCCTCGTCACCGTACTCCTTCTCTCTTTCTTCTTC
25787337 TATTTC
65 TATTTC
* *
25787343 TTTCTCTTCTTTCTTCCCTCTCTTTCTTCTTCTCGTCACCGTACTCCTTCTCTCTTTCTTCTTCT
1 TTTCTCTTTTTTCTTCCCTCTCTTTCTTCTCCTCGTCACCGTACTCCTTCTCTCTTTCTTCTTCT
*
25787408 CTTTC
66 ATTTC
*
25787413 TCTT-TTTTTTTTCTTCTCCTC
1 T-TTCTCTTTTTTCTTC-CCTC
25787434 GAGATGTTGT
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
69 3 0.04
70 71 0.89
71 6 0.08
ACGTcount: A:0.02, C:0.35, G:0.03, T:0.59
Consensus pattern (70 bp):
TTTCTCTTTTTTCTTCCCTCTCTTTCTTCTCCTCGTCACCGTACTCCTTCTCTCTTTCTTCTTCT
ATTTC
Found at i:25787548 original size:13 final size:12
Alignment explanation
Indices: 25787502--25787549 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
25787492 CCAACTCTCT
25787502 TTCTTCTCTTTC
1 TTCTTCTCTTTC
* * *
25787514 CTCCTCTTTTTC
1 TTCTTCTCTTTC
25787526 TTCTTCTCTTTC
1 TTCTTCTCTTTC
*
25787538 TTTCTTGTCTTT
1 -TTCTTCTCTTT
25787550 TCTCCTTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
12 18 0.64
13 10 0.36
ACGTcount: A:0.00, C:0.31, G:0.02, T:0.67
Consensus pattern (12 bp):
TTCTTCTCTTTC
Found at i:25811824 original size:12 final size:12
Alignment explanation
Indices: 25811809--25811833 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25811799 CCAACAAATT
25811809 ATACATATATAC
1 ATACATATATAC
25811821 ATACATATATAC
1 ATACATATATAC
25811833 A
1 A
25811834 AATAAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATACATATATAC
Found at i:25813122 original size:29 final size:27
Alignment explanation
Indices: 25813037--25813123 Score: 70
Period size: 29 Copynumber: 3.0 Consensus size: 27
25813027 TATTTAACCC
* *
25813037 AAAATAAAAGTATAAAGGCTTATTTGA
1 AAAATAAAAATACAAAGGCTTATTTGA
*
25813064 CTCAAAATAAAACTAC-AAGCGCTTGA-TTGA
1 ---AAAATAAAAATACAAAG-GCTT-ATTTGA
25813094 AAGCAATAAAAATACAAAGGCTTATTTGA
1 AA--AATAAAAATACAAAGGCTTATTTGA
25813123 A
1 A
25813124 TTTTCTTGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
27 2 0.04
28 1 0.02
29 22 0.46
30 22 0.46
31 1 0.02
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.25
Consensus pattern (27 bp):
AAAATAAAAATACAAAGGCTTATTTGA
Found at i:25818954 original size:34 final size:34
Alignment explanation
Indices: 25818911--25818989 Score: 149
Period size: 34 Copynumber: 2.3 Consensus size: 34
25818901 TACTGTTCTG
25818911 GTGAGAGGGTGTACTGTTCTGCTGGCAGTGTCAT
1 GTGAGAGGGTGTACTGTTCTGCTGGCAGTGTCAT
25818945 GTGAGAGGGTGTACTGTTCTGCTGGCAGTGTCAT
1 GTGAGAGGGTGTACTGTTCTGCTGGCAGTGTCAT
*
25818979 GTGAAAGGGTG
1 GTGAGAGGGTG
25818990 AAAGGGTGAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.16, C:0.13, G:0.41, T:0.30
Consensus pattern (34 bp):
GTGAGAGGGTGTACTGTTCTGCTGGCAGTGTCAT
Found at i:25840058 original size:251 final size:252
Alignment explanation
Indices: 25839491--25841862 Score: 3020
Period size: 252 Copynumber: 9.5 Consensus size: 252
25839481 TTAACCAATT
* *
25839491 TATAAATTTAAATATTTATTTTTCATTAAATTGAGATTGTTTTTACTTAATTGACTTGTTACATT
1 TATAAATTTAAATATTTATTTTTCATTAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGTT
* * * *
25839556 AACTTTTACACACTTACGTTAAAATTTAAAATTTAGTTATTCCACCTTTATAAGTTTTTACATCA
66 AACTCTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGTTTTTACGTCA
* * * *
25839621 ATTCTTATTGTTTTACGTCAAGGCTTATCCATGTCAAATTTGAATTAAAATTATTTTTATCCTTA
131 ATTCTTATAGTTTTACGTCAAGGCTTTTCCATGTCAACTTTGAATTAGAATTATTTTTATCCTTA
* *
25839686 TTATTCTTTATTTAAAAATTAAAATTTGTACATCATTAAACACTTTTAATCTGAAAA
196 TTATTCTTTATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAATCCGAAAA
* *
25839743 TATAAATTTAAATATTTATTTTTTATTAAATTGAGATTGTTTTTACTTAATTGACTTGTTACGTT
1 TATAAATTTAAATATTTATTTTTCATTAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGTT
* * * * * *
25839808 AACTATTACACACTTATGTTAAGATTTAAAATTTAATTATTCCACTTTTATAAGTTTTTATGTCA
66 AACTCTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGTTTTTACGTCA
* * * * * * *
25839873 ATTCTTATAGTTTTACGTCAA-GATTTTCCATGTTAACTCTGAACTATAATTAATTTTATTCTTA
131 ATTCTTATAGTTTTACGTCAAGGCTTTTCCATGTCAACTTTGAATTAGAATTATTTTTATCCTTA
* * * *
25839937 TTATTCGTTATTTAAAAATTAAAATTTATATATCGTTAAACACTTTTAA-CTCGAGAA
196 TTATTCTTTATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAATC-CGAAAA
* *
25839994 TATAAATTTAAATATTTATTTTTCATAAAATTGAAATTGTTTTTACTTAATTGACTTATTACGTT
1 TATAAATTTAAATATTTATTTTTCATTAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGTT
* * * *
25840059 AACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTGCACCTTTACAAGTTTTTAAGTCA
66 AACTCTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGTTTTTACGTCA
* * * ** *
25840124 ATTCTTACAGTTTTACGTTAAGGCTTTTCTATACCAACTTTAAATTAG-A--A---TTA----T-
131 ATTCTTATAGTTTTACGTCAAGGCTTTTCCATGTCAACTTTGAATTAGAATTATTTTTATCCTTA
25840178 TT-TTCTTTATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAAT-CGAAAAA
196 TTATTCTTTATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAATCCG-AAAA
* *
25840234 TATAAATTTAAATATTTATTTTTCATCAAATTGAAATTATTTTTACTTAATTGACTTGTTACGTT
1 TATAAATTTAAATATTTATTTTTCATTAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGTT
* * * * * * *
25840299 AACTCTCACATATTTACGTTAATATTTAAAATTTAGTTACTGCACTTTTACAAGTTTTTACGTCA
66 AACTCTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGTTTTTACGTCA
* * * * * *
25840364 ATTCTTACAATTTTACGTTAAGACTTTTCCATATCAACTTTGAACTAGAATTATTTTTATCCTTA
131 ATTCTTATAGTTTTACGTCAAGGCTTTTCCATGTCAACTTTGAATTAGAATTATTTTTATCCTTA
* ** *
25840429 TTATTTTTTATTTAAAAATTAAAATTTACACATCGTTAAACACTTTTAATCCAAAAA
196 TTATTCTTTATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAATCCGAAAA
* * * * * *
25840486 TATAAATATAAATATTTATTTTTTATCAAATTGAAATTGTTTTTACTTAATTAACTCGTTATGTT
1 TATAAATTTAAATATTTATTTTTCATTAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGTT
* *
25840551 AACTCTTACATACTTACGTTAAGATTGAAAATTTAGTTATTCCACCTTTACAAGTTTTTACGTCA
66 AACTCTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGTTTTTACGTCA
* * * * * *
25840616 ATTCTTGCT-GATTTACGTTAAAGCTTTTCCATGTCAACTTTGAATTATAATTATTTTTATTCTT
131 ATTCTT-ATAGTTTTACGTCAAGGCTTTTCCATGTCAACTTTGAATTAGAATTATTTTTATCCTT
* * * *
25840680 ATTATTCTTTATTT-AAAATTAAAATTTGCACATTGTTAAACATTTTTAATCCGAGAA
195 ATTATTCTTTATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAATCCGAAAA
* *
25840737 TATAAATTTAAATATTTATTTTTCATTAAATTGAGATTGTTTTTATTTAATTGACTTGTTACGTT
1 TATAAATTTAAATATTTATTTTTCATTAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGTT
** * * *
25840802 AACTCTTACACACTTAAATTAAGATTTAAAATTTAGTTATTCTACCTTTATAAGTTTTTACGTTA
66 AACTCTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGTTTTTACGTCA
* * *
25840867 ATTCTTATTGTTTTACGTTAAGGCTTTTCCATGTCAAATTTGAATTAGAATTATTTTTATCCTTA
131 ATTCTTATAGTTTTACGTCAAGGCTTTTCCATGTCAACTTTGAATTAGAATTATTTTTATCCTTA
* *
25840932 TTATTTTTTATTTAAAAATTAAAATTTGTACATCGTTAAACATTTTTAATCCGAAAA
196 TTATTCTTTATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAATCCGAAAA
* *
25840989 TATAAATTTAAATATTTATTTTTCATTAAATTGATATTGGTTTTACTTAATTGACTTGTTACGTT
1 TATAAATTTAAATATTTATTTTTCATTAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGTT
* * * **
25841054 AACTATTACATACTTATGTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGTTTTTATATCA
66 AACTCTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGTTTTTACGTCA
* * ** * * * * *
25841119 ATTCTTATAATTTTATGTCAAGGCTTTTCTGTGTTAACTTTGAACTATAATTAATTTTATTCTTA
131 ATTCTTATAGTTTTACGTCAAGGCTTTTCCATGTCAACTTTGAATTAGAATTATTTTTATCCTTA
* * * * * *
25841184 TTATTCGTTATTTATAAATTAAAATTTATATATCGTTAAACACTTTTAACTAC-AGAA
196 TTATTCTTTATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAA-TCCGAAAA
* * *
25841241 TATAAATTTAAATATTTATTTTTCATAAAATTGAAATTATTTTTACTTAATTAACTTGTTACGTT
1 TATAAATTTAAATATTTATTTTTCATTAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGTT
* * * * * * *
25841306 AACTCTCACACATTTA-GTTAAAATTTAAAATTTAGTTATTACACTTTTACAAGTTTTTACTTTA
66 AACTCTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGTTTTTACGTCA
* * * * *
25841370 ATTCTTACAGTTTTACGTGAAGGCTTTTTCATGCCAACTTTGAATTAGAATTATTTTTATCCTTC
131 ATTCTTATAGTTTTACGTCAAGGCTTTTCCATGTCAACTTTGAATTAGAATTATTTTTATCCTTA
**
25841435 TTATTCTTTATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAATAGGAAAA
196 TTATTCTTTATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAATCCGAAAA
* * * *
25841492 TATAAATATAAATATTTATTTTTCATGAAATTGAAATTATTTTTACTTAATTGACTCGTTACGTT
1 TATAAATTTAAATATTTATTTTTCATTAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGTT
*
25841557 AACTCTTATACACTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGTTTTTACG---
66 AACTCTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGTTTTTACGTCA
* *
25841619 --TC----------A----AAGGCTTTTTCATGTCAACTTTGAATTAGAATTATTTTTTTCCTTA
131 ATTCTTATAGTTTTACGTCAAGGCTTTTCCATGTCAACTTTGAATTAGAATTATTTTTATCCTTA
* * * ** *
25841668 TTATTCGTTATTTAAAAGTTAAAATTTGTACATCGTTAAACATTTTTAATTTGAGAA
196 TTATTCTTTATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAATCCGAAAA
* * * * * *
25841725 TATAAATTTAAATATTTATTTTTCATCAAATTGAGATTATTTTTTCTTAATTGAATTGTTACATT
1 TATAAATTTAAATATTTATTTTTCATTAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGTT
* * * * * * **
25841790 AATTCTCACACATTTACGTTAAGATTTAAAATTTAATTATTTCTCCTTTATGAGTTTTTACGTCA
66 AACTCTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGTTTTTACGTCA
25841855 ATTCTTAT
131 ATTCTTAT
25841863 TACTTTATGT
Statistics
Matches: 1860, Mismatches: 228, Indels: 74
0.86 0.11 0.03
Matches are distributed among these distances:
233 205 0.11
237 1 0.00
238 2 0.00
239 2 0.00
240 210 0.11
241 3 0.00
242 1 0.00
243 1 0.00
246 6 0.00
247 2 0.00
249 1 0.00
250 5 0.00
251 659 0.35
252 759 0.41
253 3 0.00
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.47
Consensus pattern (252 bp):
TATAAATTTAAATATTTATTTTTCATTAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGTT
AACTCTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGTTTTTACGTCA
ATTCTTATAGTTTTACGTCAAGGCTTTTCCATGTCAACTTTGAATTAGAATTATTTTTATCCTTA
TTATTCTTTATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAATCCGAAAA
Found at i:25840948 original size:503 final size:501
Alignment explanation
Indices: 25839491--25841862 Score: 3050
Period size: 503 Copynumber: 4.8 Consensus size: 501
25839481 TTAACCAATT
* *
25839491 TATAAATTTAAATATTTATTTTTCATTAAATTGAGATTGTTTTTACTTAATTGACTTGTTACATT
1 TATAAATTTAAATATTTATTTTTCATTAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGTT
* * * *
25839556 AACTTTTACACACTTACGTTAAAATTTAAAATTTAGTTATTCCACCTTTATAAGTTTTTACATCA
66 AACTCTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGTTTTTACGTCA
* * * * * *
25839621 ATTCTTATTGTTTTACGTCAAGGCTTATCCATGTCAAATTTGAATTAAAATTATTTTTATCCTTA
131 ATTCTT-CTGATTTACGTCAAGGCTTTTCCATGTCAACTTTGAATTAGAATTATTTTTATTCTTA
* * *
25839686 TTATTCTTTATTTAAAAATTAAAATTTGTACATCATTAAACACTTTTAATCTGAAAATATAAATT
195 TTATTCTTTATTT-AAAATTAAAATTTGTACATCGTTAAACACTTTTAATCCGAGAATATAAATT
* * * * *
25839751 TAAATATTTATTTTTTATTAAATTGAGATTGTTTTTACTTAATTGACTTGTTACGTTAACTATTA
259 TAAATATTTATTTTTCATCAAATTGAGATTATTTTTACTTAATTGACTTGTTACGTTAACTCTCA
* * *
25839816 CACACTTATGTTAAGATTTAAAATTTAATTATTCCACTTTTATAAGTTTTTATGTCAATTCTTAT
324 CACACTTAAGTTAAGATTTAAAATTTAGTTATT-CACTTTTATAAGTTTTTACGTCAATTCTTAT
* * * * * * * *
25839881 AGTTTTACGTCAA-GATTTTCCATGTTAACTCTGAACTATAATTAATTTTATTCTTATTATTCGT
388 AGTTTTACGTTAAGGCTTTTCCATGTCAACTTTGAACTAGAATTATTTTTATCCTTATTATTCTT
* *
25839945 TATTTAAAAATTAAAATTTATATATCGTTAAACACTTTTAA-CTCGAGAA
453 TATTTAAAAATTAAAATTTATACATCGTTAAACACTTTTAATC-CGAAAA
* *
25839994 TATAAATTTAAATATTTATTTTTCATAAAATTGAAATTGTTTTTACTTAATTGACTTATTACGTT
1 TATAAATTTAAATATTTATTTTTCATTAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGTT
* * * *
25840059 AACTCTCACACATTTACGTTAAGATTTAAAATTTAGTTATTGCACCTTTACAAGTTTTTAAGTCA
66 AACTCTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGTTTTTACGTCA
* * * * ** *
25840124 ATTCTTACAGTTTTACGTTAAGGCTTTTCTATACCAACTTTAAATTAGAATTA--TTT-TTC-T-
131 ATTCTT-CTGATTTACGTCAAGGCTTTTCCATGTCAACTTTGAATTAGAATTATTTTTATTCTTA
*
25840184 TTA---TTTA---AAAATTAAAATTTGTACATCGTTAAACACTTTTAAT-CGAAAAATATAAATT
195 TTATTCTTTATTTAAAATTAAAATTTGTACATCGTTAAACACTTTTAATCCG-AGAATATAAATT
*
25840242 TAAATATTTATTTTTCATCAAATTGAAATTATTTTTACTTAATTGACTTGTTACGTTAACTCTCA
259 TAAATATTTATTTTTCATCAAATTGAGATTATTTTTACTTAATTGACTTGTTACGTTAACTCTCA
* * * * * * *
25840307 CATATTTACGTTAATATTTAAAATTTAGTTACTGCACTTTTACAAGTTTTTACGTCAATTCTTAC
324 CACACTTAAGTTAAGATTTAAAATTTAGTTA-TTCACTTTTATAAGTTTTTACGTCAATTCTTAT
* * * *
25840372 AATTTTACGTTAAGACTTTTCCATATCAACTTTGAACTAGAATTATTTTTATCCTTATTATTTTT
388 AGTTTTACGTTAAGGCTTTTCCATGTCAACTTTGAACTAGAATTATTTTTATCCTTATTATTCTT
* *
25840437 TATTTAAAAATTAAAATTTACACATCGTTAAACACTTTTAATCCAAAAA
453 TATTTAAAAATTAAAATTTATACATCGTTAAACACTTTTAATCCGAAAA
* * * * * *
25840486 TATAAATATAAATATTTATTTTTTATCAAATTGAAATTGTTTTTACTTAATTAACTCGTTATGTT
1 TATAAATTTAAATATTTATTTTTCATTAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGTT
* *
25840551 AACTCTTACATACTTACGTTAAGATTGAAAATTTAGTTATTCCACCTTTACAAGTTTTTACGTCA
66 AACTCTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGTTTTTACGTCA
* * *
25840616 ATTCTTGCTGATTTACGTTAAAGCTTTTCCATGTCAACTTTGAATTATAATTATTTTTATTCTTA
131 ATTCTT-CTGATTTACGTCAAGGCTTTTCCATGTCAACTTTGAATTAGAATTATTTTTATTCTTA
* * *
25840681 TTATTCTTTATTTAAAATTAAAATTTGCACATTGTTAAACATTTTTAATCCGAGAATATAAATTT
195 TTATTCTTTATTTAAAATTAAAATTTGTACATCGTTAAACACTTTTAATCCGAGAATATAAATTT
* * * *
25840746 AAATATTTATTTTTCATTAAATTGAGATTGTTTTTATTTAATTGACTTGTTACGTTAACTCTTAC
260 AAATATTTATTTTTCATCAAATTGAGATTATTTTTACTTAATTGACTTGTTACGTTAACTCTCAC
* * * *
25840811 ACACTTAAATTAAGATTTAAAATTTAGTTATTCTACCTTTATAAGTTTTTACGTTAATTCTTATT
325 ACACTTAAGTTAAGATTTAAAATTTAGTTATTC-ACTTTTATAAGTTTTTACGTCAATTCTTATA
* * *
25840876 GTTTTACGTTAAGGCTTTTCCATGTCAAATTTGAATTAGAATTATTTTTATCCTTATTATTTTTT
389 GTTTTACGTTAAGGCTTTTCCATGTCAACTTTGAACTAGAATTATTTTTATCCTTATTATTCTTT
* *
25840941 ATTTAAAAATTAAAATTTGTACATCGTTAAACATTTTTAATCCGAAAA
454 ATTTAAAAATTAAAATTTATACATCGTTAAACACTTTTAATCCGAAAA
* *
25840989 TATAAATTTAAATATTTATTTTTCATTAAATTGATATTGGTTTTACTTAATTGACTTGTTACGTT
1 TATAAATTTAAATATTTATTTTTCATTAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGTT
* * * **
25841054 AACTATTACATACTTATGTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGTTTTTATATCA
66 AACTCTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGTTTTTACGTCA
* * * ** * * * *
25841119 ATTCTTATAATTTTATGTCAAGGCTTTTCTGTGTTAACTTTGAACTATAATTAATTTTATTCTTA
131 ATTCTTCTGA-TTTACGTCAAGGCTTTTCCATGTCAACTTTGAATTAGAATTATTTTTATTCTTA
* * * *
25841184 TTATTCGTTATTTATAAATTAAAATTTATATATCGTTAAACACTTTTAACTAC-AGAATATAAAT
195 TTATTCTTTATTTA-AAATTAAAATTTGTACATCGTTAAACACTTTTAA-TCCGAGAATATAAAT
* * *
25841248 TTAAATATTTATTTTTCATAAAATTGAAATTATTTTTACTTAATTAACTTGTTACGTTAACTCTC
258 TTAAATATTTATTTTTCATCAAATTGAGATTATTTTTACTTAATTGACTTGTTACGTTAACTCTC
* * * * *
25841313 ACACA-TTTAGTTAAAATTTAAAATTTAGTTATTACACTTTTACAAGTTTTTACTTTAATTCTTA
323 ACACACTTAAGTTAAGATTTAAAATTTAGTTATT-CACTTTTATAAGTTTTTACGTCAATTCTTA
* * * * * *
25841377 CAGTTTTACGTGAAGGCTTTTTCATGCCAACTTTGAATTAGAATTATTTTTATCCTTCTTATTCT
387 TAGTTTTACGTTAAGGCTTTTCCATGTCAACTTTGAACTAGAATTATTTTTATCCTTATTATTCT
* **
25841442 TTATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAATAGGAAAA
452 TTATTTAAAAATTAAAATTTATACATCGTTAAACACTTTTAATCCGAAAA
* * * *
25841492 TATAAATATAAATATTTATTTTTCATGAAATTGAAATTATTTTTACTTAATTGACTCGTTACGTT
1 TATAAATTTAAATATTTATTTTTCATTAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGTT
*
25841557 AACTCTTATACACTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGTTTTTACG---
66 AACTCTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGTTTTTACGTCA
*
25841619 -----TC------A----AAGGCTTTTTCATGTCAACTTTGAATTAGAATTATTTTT-TTCCTTA
131 ATTCTTCTGATTTACGTCAAGGCTTTTCCATGTCAACTTTGAATTAGAATTATTTTTATT-CTTA
* * **
25841668 TTATTCGTTATTTAAAAGTTAAAATTTGTACATCGTTAAACATTTTTAATTTGAGAATATAAATT
195 TTATTCTTTATTTAAAA-TTAAAATTTGTACATCGTTAAACACTTTTAATCCGAGAATATAAATT
* * * *
25841733 TAAATATTTATTTTTCATCAAATTGAGATTATTTTTTCTTAATTGAATTGTTACATTAATTCTCA
259 TAAATATTTATTTTTCATCAAATTGAGATTATTTTTACTTAATTGACTTGTTACGTTAACTCTCA
* * * * * *
25841798 CACATTTACGTTAAGATTTAAAATTTAATTATTTCTCCTTTATGAGTTTTTACGTCAATTCTTAT
324 CACACTTAAGTTAAGATTTAAAATTTAGTTA-TTCACTTTTATAAGTTTTTACGTCAATTCTTAT
25841863 TACTTTATGT
Statistics
Matches: 1640, Mismatches: 203, Indels: 70
0.86 0.11 0.04
Matches are distributed among these distances:
483 6 0.00
484 152 0.09
485 46 0.03
486 2 0.00
488 1 0.00
490 1 0.00
491 171 0.10
492 246 0.15
493 1 0.00
494 3 0.00
495 8 0.00
496 1 0.00
497 3 0.00
498 3 0.00
499 1 0.00
500 6 0.00
501 3 0.00
502 4 0.00
503 873 0.53
504 107 0.07
505 2 0.00
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.47
Consensus pattern (501 bp):
TATAAATTTAAATATTTATTTTTCATTAAATTGAAATTGTTTTTACTTAATTGACTTGTTACGTT
AACTCTTACACACTTACGTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGTTTTTACGTCA
ATTCTTCTGATTTACGTCAAGGCTTTTCCATGTCAACTTTGAATTAGAATTATTTTTATTCTTAT
TATTCTTTATTTAAAATTAAAATTTGTACATCGTTAAACACTTTTAATCCGAGAATATAAATTTA
AATATTTATTTTTCATCAAATTGAGATTATTTTTACTTAATTGACTTGTTACGTTAACTCTCACA
CACTTAAGTTAAGATTTAAAATTTAGTTATTCACTTTTATAAGTTTTTACGTCAATTCTTATAGT
TTTACGTTAAGGCTTTTCCATGTCAACTTTGAACTAGAATTATTTTTATCCTTATTATTCTTTAT
TTAAAAATTAAAATTTATACATCGTTAAACACTTTTAATCCGAAAA
Found at i:25841809 original size:233 final size:233
Alignment explanation
Indices: 25841380--25841855 Score: 711
Period size: 233 Copynumber: 2.0 Consensus size: 233
25841370 ATTCTTACAG
* * *
25841380 TTTTACGT-GAAGGCTTTTTCATGCCAACTTTGAATTAGAATTATTTTTATCCTTCTTATTCTTT
1 TTTTACGTCAAAGGCTTTTTCATGCCAACTTTGAATTAGAATTATTTTTATCCTTATTATTCGTT
25841444 ATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAATAGGAAAATATAAATATAAATATTT
66 ATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAATAGGAAAATATAAATATAAATATTT
* * * * *
25841509 ATTTTTCATGAAATTGAAATTATTTTTACTTAATTGACTCGTTACGTTAACTCTTATACACTTAC
131 ATTTTTCATCAAATTGAAATTATTTTTACTTAATTGAATCGTTACATTAACTCTCACACACTTAC
*
25841574 GTTAAGATTTAAAATTTAGTTATTCCACCTTTACAAGT
196 GTTAAGATTTAAAATTTAATTATTCCACCTTTACAAGT
* *
25841612 TTTTACGTCAAAGGCTTTTTCATGTCAACTTTGAATTAGAATTATTTTTTTCCTTATTATTCGTT
1 TTTTACGTCAAAGGCTTTTTCATGCCAACTTTGAATTAGAATTATTTTTATCCTTATTATTCGTT
* * ** * *
25841677 ATTTAAAAGTTAAAATTTGTACATCGTTAAACATTTTTAATTTGAGAATATAAATTTAAATATTT
66 ATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAATAGGAAAATATAAATATAAATATTT
* * * * *
25841742 ATTTTTCATCAAATTGAGATTATTTTTTCTTAATTGAATTGTTACATTAATTCTCACACATTTAC
131 ATTTTTCATCAAATTGAAATTATTTTTACTTAATTGAATCGTTACATTAACTCTCACACACTTAC
* * **
25841807 GTTAAGATTTAAAATTTAATTATTTCTCCTTTATGAGT
196 GTTAAGATTTAAAATTTAATTATTCCACCTTTACAAGT
25841845 TTTTACGTCAA
1 TTTTACGTCAA
25841856 TTCTTATTAC
Statistics
Matches: 217, Mismatches: 26, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
232 8 0.04
233 209 0.96
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.47
Consensus pattern (233 bp):
TTTTACGTCAAAGGCTTTTTCATGCCAACTTTGAATTAGAATTATTTTTATCCTTATTATTCGTT
ATTTAAAAATTAAAATTTGTACATCGTTAAACACTTTTAATAGGAAAATATAAATATAAATATTT
ATTTTTCATCAAATTGAAATTATTTTTACTTAATTGAATCGTTACATTAACTCTCACACACTTAC
GTTAAGATTTAAAATTTAATTATTCCACCTTTACAAGT
Found at i:25842891 original size:19 final size:19
Alignment explanation
Indices: 25842867--25842904 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
25842857 CCATTTGACT
*
25842867 TATTGGGGAATGATTTGAG
1 TATTGGAGAATGATTTGAG
*
25842886 TATTGGAGTATGATTTGAG
1 TATTGGAGAATGATTTGAG
25842905 ATTTAGAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.39
Consensus pattern (19 bp):
TATTGGAGAATGATTTGAG
Found at i:25842979 original size:28 final size:30
Alignment explanation
Indices: 25842948--25843003 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 30
25842938 TTTGGAGTAT
*
25842948 AGGGGTAAAATGGT-AATTTT-ACCACTTC
1 AGGGGCAAAATGGTAAATTTTCACCACTTC
*
25842976 AGGGGCAAAATTGTAAATTTTCACCACT
1 AGGGGCAAAATGGTAAATTTTCACCACT
25843004 AGGACATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.50
29 6 0.25
30 6 0.25
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (30 bp):
AGGGGCAAAATGGTAAATTTTCACCACTTC
Found at i:25845650 original size:19 final size:19
Alignment explanation
Indices: 25845623--25845664 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
25845613 CCATTTGACT
25845623 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
25845642 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
25845661 -ATTA
1 TATTA
25845665 AGAAGTGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.43
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:25849675 original size:20 final size:20
Alignment explanation
Indices: 25849652--25849690 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25849642 AAAATAAAAT
*
25849652 ATAAAATATTAAAATTTTAA
1 ATAAAATAATAAAATTTTAA
*
25849672 ATAAAATAATAATATTTTA
1 ATAAAATAATAAAATTTTA
25849691 TTAAGCCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATAAAATAATAAAATTTTAA
Found at i:25852394 original size:16 final size:16
Alignment explanation
Indices: 25852373--25852405 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
25852363 TACTTTCTTG
25852373 TCTCATAAATTCCATT
1 TCTCATAAATTCCATT
25852389 TCTCATAAATTCCATT
1 TCTCATAAATTCCATT
25852405 T
1 T
25852406 TTATGAGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.45
Consensus pattern (16 bp):
TCTCATAAATTCCATT
Found at i:25854287 original size:28 final size:29
Alignment explanation
Indices: 25854246--25854305 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
25854236 GTCTATGGGC
*
25854246 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCAGTTTTAGGGGGCAAAAATGT
* * *
25854274 AATTTTTGATTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAGTTTTA-GGGGGCAAAAATGT
25854304 AA
1 AA
25854306 ATATCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (29 bp):
AATTTTTCAGTTTTAGGGGGCAAAAATGT
Found at i:25857824 original size:251 final size:250
Alignment explanation
Indices: 25857293--25858233 Score: 1067
Period size: 251 Copynumber: 3.8 Consensus size: 250
25857283 TTTTTAAGTT
* * * * * *
25857293 TTGACGTAAAATTGTAACAATTGACATAAGAACTTATAAAGAT-GAACTAACTAAATTTTAAATC
1 TTGACGTAAAACTATAACAATTAACGTAAAAACTTATAAAGGTGGAA-TAACTAAATTTTAAATC
* * * * * *
25857357 TTAACATAAATGTGTGAGAGTTAACGTAACAAATCAATTAAATAAAAAATTCTAATTTTAGTG--
65 TTAACGTAAATATGTGAAAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAA
* * * * * *
25857420 AAAGAAACATTTAAATTTATATTTTTGTGCTAAAAGTGGTTAACGATATAT-AAATTTTAATTTT
130 AAATAAACATTTAAATTTATATTATCGAGCTAAAAGTTG-TAATGATAT-TCAAATTTTAATTTT
* * * *
25857484 TAAATAAAGAATAATAATG--AAAAA-AATTATAGTTCAAAATTAACATAAATAAGCC
193 TAAATAAAGAATAATAAAGATAAAAATAATTATAGTTTAAAATTGACATAAAAAAGCC
* * *
25857539 TTGACATAAAACTATAAGAATTAACGTAAAAACTTAT-AAGAGTGGAATAACTGAATTTTAAATC
1 TTGACGTAAAACTATAACAATTAACGTAAAAACTTATAAAG-GTGGAATAACTAAATTTTAAATC
* * * * *
25857603 TTAACGTAAATATTTGAAAGTTAACGTAATAAGTTAATTAAGTAAAAAAATTTAATTTTAATGAA
65 TTAACGTAAATATGTGAAAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAA
* * *
25857668 AAATAAACATTTATATTTATATTATCGAGCTAAAAGTATGTAATGATATTCAAATTTTTACTTTT
130 AAATAAACATTTAAATTTATATTATCGAGCTAAAAGT-TGTAATGATATTCAAATTTTAATTTTT
*
25857733 AAATAAAGAATAATAAGGATAAAAATAATTATAGTTTAAAATTGACATAAAAAAGCC
194 AAATAAAGAATAATAAAGATAAAAATAATTATAGTTTAAAATTGACATAAAAAAGCC
*
25857790 TTGACGCAAAACTATAACAATTAACGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCT
1 TTGACGTAAAACTATAACAATTAACGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCT
* * * * *
25857855 TAACGTAAATGTGTGAAAGTTAACATAATAAGTCGATTAAGTACAAAAATCTAATTTTAGTGAAA
66 TAACGTAAATATGTGAAAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAA
* * * ** * * *
25857920 AAAAAACATTTATATTTATATTCTCGAATTAAAAG-TGTTTATCAATATACAAATTTTAATTTTT
131 AATAAACATTTAAATTTATATTATCGAGCTAAAAGTTG-TAAT-GATATTCAAATTTTAATTTTT
* * * * *
25857984 AAATAAACAATAATAAAGATAAAAATAATTATAATTTAAAATTGACATAGAAATGTC
194 AAATAAAGAATAATAAAGATAAAAATAATTATAGTTTAAAATTGACATAAAAAAGCC
* * * * * * * * * *
25858041 TTTACGTTAAACTGTGAGAATTGATGAAAAAACTTATAAATGTGGAATAACTAAATTTTTAATCT
1 TTGACGTAAAACTATAACAATTAACGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCT
* *
25858106 TAACGTAAACATGTGAAAGTTAACGTAACAAGTCAATTATGTAAAAAAAATCTAATTTTAGTGAA
66 TAACGTAAATATGTGAAAGTTAACGTAACAAGTCAATTAAGT-AAAAAAATCTAATTTTAGTGAA
* * * * * * *
25858171 AATTAAATATTTAAATTTATATTCTCAAAC-AAAAGTGTTTAACGATATAT-AAATTTTAATTTT
130 AAATAAACATTTAAATTTATATTATCGAGCTAAAAGT-TGTAATGATAT-TCAAATTTTAATTTT
25858234 AAAGTTTTGA
Statistics
Matches: 590, Mismatches: 89, Indels: 27
0.84 0.13 0.04
Matches are distributed among these distances:
245 3 0.01
246 99 0.17
247 4 0.01
248 69 0.12
249 3 0.01
250 8 0.01
251 353 0.60
252 50 0.08
253 1 0.00
ACGTcount: A:0.48, C:0.08, G:0.10, T:0.34
Consensus pattern (250 bp):
TTGACGTAAAACTATAACAATTAACGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCT
TAACGTAAATATGTGAAAGTTAACGTAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAA
AATAAACATTTAAATTTATATTATCGAGCTAAAAGTTGTAATGATATTCAAATTTTAATTTTTAA
ATAAAGAATAATAAAGATAAAAATAATTATAGTTTAAAATTGACATAAAAAAGCC
Found at i:25858410 original size:177 final size:178
Alignment explanation
Indices: 25858086--25858410 Score: 471
Period size: 177 Copynumber: 1.8 Consensus size: 178
25858076 ATAAATGTGG
* *
25858086 AATAACTAAATTTTTAATCTTAACGTAAACATGTGAAAGTTAACGTAACAAGTCAATTATGTAAA
1 AATAACTAAATTTTAAATCTTAACGTAAACATGTGAAAGTTAACGTAACAAGTCAATTAAGTAAA
* ** *
25858151 AAAAATCTAATTTTAGTGAAAATTAAATATTTAAATTTATATTCTCAAACAAAAGTGTTTAACGA
66 AAAAATATAATTTTAGTGAAAA-TAAATATTTAAATTTATATAATCAAACAAAAGTGGTTAACGA
25858216 TATATAAATTTTAATTTTAAAGTTTTGACGTAGAAACCTATAAAGATGA
130 TATATAAATTTTAATTTTAAAGTTTTGACGTAGAAACCTATAAAGATGA
*
25858265 AATAACTAAATTTTAAATCTTATCGT-AA-ATGTGTAAGAGTTAACGTAACAAGTCAATTAAGT-
1 AATAACTAAATTTTAAATCTTAACGTAAACATGTG-AA-AGTTAACGTAACAAGTCAATTAAGTA
* ** *
25858327 TAAAAAATATAA-TTTAGTGAAAA-AAATATTTAAATTTATATAAATTGAGCTAAAAGTGGTTAA
64 AAAAAAATATAATTTTAGTGAAAATAAATATTTAAATTTATAT-AATCAAAC-AAAAGTGGTTAA
25858390 CGATATATAAATTTTAATTTT
127 CGATATATAAATTTTAATTTT
25858411 TAAATAAAGA
Statistics
Matches: 131, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
175 18 0.14
176 3 0.02
177 48 0.37
178 14 0.11
179 48 0.37
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.36
Consensus pattern (178 bp):
AATAACTAAATTTTAAATCTTAACGTAAACATGTGAAAGTTAACGTAACAAGTCAATTAAGTAAA
AAAAATATAATTTTAGTGAAAATAAATATTTAAATTTATATAATCAAACAAAAGTGGTTAACGAT
ATATAAATTTTAATTTTAAAGTTTTGACGTAGAAACCTATAAAGATGA
Found at i:25858652 original size:425 final size:429
Alignment explanation
Indices: 25857813--25858662 Score: 1022
Period size: 425 Copynumber: 2.0 Consensus size: 429
25857803 ATAACAATTA
* * *
25857813 ACGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAAAGTTAA
1 ACGTAAAAACCTATAAAGATGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAAAGTTAA
* * * * **
25857878 CATAATAAGTCGATTAAGTACAAAAATCTAATTTTAGTGAAAAAAAAACATTTATATTTATATTC
66 CATAACAAGTCAATTAAGTACAAAAATATAATTTTAGTG-AAAAAAAACATTTAAATTTATATAA
* * *
25857943 TCGAATTAAAAGTGTTTATCAATATACAAATTTTAATTTTTAAATAAACAATAATAAAGATAAAA
130 TCGAACTAAAAGTGGTTAACAATATACAAATTTTAATTTTTAAATAAACAATAATAAAGA-AAAA
* * * * * *** * * *
25858008 ATAATTATAATTTAAAATTGACATAGAAATGTCTTTACGTTAAACTGTGAGAATTGATGAAAAAA
194 ATAATTATAATTTAAAATTAACATAGAAAAGCCTTGACGTAAAACTACAAAAATTAACGAAAAAA
* * *
25858073 CTTATAAATGTGGAATAACTAAATTTTTAATCTTAACGTAAACATGTGAAAGTTAACGTAACAAG
259 CTTATAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAACATGTGAAAGTTAACGTAACAAG
* * * * *
25858138 TCAATTATGTAAAAAAAATCTAATTTTAGTGAAAATTAAATATTTAAATTTATATTCTCAAACAA
324 TCAATTAAGTAAAAAAAATCTAAGTTTAATGAAAAATAAACATTTAAATTTATATTCTCAAACAA
* *
25858203 AAGTGTTTAACGATATATAAA-TTTTAATTTTAAAGTTTTG
389 AAGTATGTAACGATATATAAATTTTTAATTTTAAAGTTTTG
* *
25858243 ACGTAGAAACCTATAAAGATGAAATAACTAAATTTTAAATCTTATCGTAAATGTGT-AAGAGTTA
1 ACGTAAAAACCTATAAAGATGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAA-AGTTA
* *
25858307 ACGTAACAAGTCAATTAAGTTA-AAAAATATAA-TTTAGTG-AAAAAAATATTTAAATTTATATA
65 ACATAACAAGTCAATTAAG-TACAAAAATATAATTTTAGTGAAAAAAAACATTTAAATTTATAT-
* * * * * *
25858369 AATTGAGCTAAAAGTGGTTAACGATATATAAATTTTAATTTTTAAATAAAGAATAATAATG-AAA
128 AATCGAACTAAAAGTGGTTAACAATATACAAATTTTAATTTTTAAATAAACAATAATAAAGAAAA
*
25858433 AA-AATTATAGTTTAAAATTAACATA-AATAAGCCTTGACGTAAAACTACAAAAATTAACGTAAA
193 AATAATTATAATTTAAAATTAACATAGAA-AAGCCTTGACGTAAAACTACAAAAATTAACG-AAA
* * * *
25858496 AAA-TTATAAAGGTGAAATAATTAAATTTTAAATCTTAACGTAAATATTTGAAAGTTAATGTAAT
256 AAACTTATAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAACATGTGAAAGTTAACGTAA-
* * * * **
25858560 C-AGTTAATTAAGTAAAAAAAAT-TAAGTTTAATGAAAAATAAGCATTTATATTTATATTTTCGG
320 CAAGTCAATTAAGTAAAAAAAATCTAAGTTTAATGAAAAATAAACATTTAAATTTATATTCTCAA
* *
25858623 GCTAAAAGTATGTAATGATAT-TCAAATTTTTAATTTTAAA
385 AC-AAAAGTATGTAACGATATAT-AAATTTTTAATTTTAAA
25858663 TAAAGAATAA
Statistics
Matches: 355, Mismatches: 56, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
424 36 0.10
425 132 0.37
426 25 0.07
427 20 0.06
428 50 0.14
429 9 0.03
430 81 0.23
431 2 0.01
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.35
Consensus pattern (429 bp):
ACGTAAAAACCTATAAAGATGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAAAGTTAA
CATAACAAGTCAATTAAGTACAAAAATATAATTTTAGTGAAAAAAAACATTTAAATTTATATAAT
CGAACTAAAAGTGGTTAACAATATACAAATTTTAATTTTTAAATAAACAATAATAAAGAAAAAAT
AATTATAATTTAAAATTAACATAGAAAAGCCTTGACGTAAAACTACAAAAATTAACGAAAAAACT
TATAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAACATGTGAAAGTTAACGTAACAAGTC
AATTAAGTAAAAAAAATCTAAGTTTAATGAAAAATAAACATTTAAATTTATATTCTCAAACAAAA
GTATGTAACGATATATAAATTTTTAATTTTAAAGTTTTG
Found at i:25858684 original size:927 final size:932
Alignment explanation
Indices: 25856886--25859160 Score: 3329
Period size: 927 Copynumber: 2.4 Consensus size: 932
25856876 CGTAAATGTA
* * *
25856886 GAATAACTAAATTTAAAATCTTAACGTAAATGTATAAAAGTTAACATAATAAGTCAATTAAAG-A
1 GAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAAAGTTAACATAATAAGTCAATT-AAGTA
* * * * * * * *
25856950 -AAATAATTTAATTTTAATGAAAAATAAATATTTAAATTTAGATTCT-TAGACTAAAATTATTTA
65 CAAA-AATCTAATTTTAGTGAAAAATAAACATTTATATTTATATTCTCGA-ATTAAAAGTATTTA
* * * * *
25857013 ACGATATATAAATTTTAATTTTTAAATAAATAATAATAATA-ATAAAAATAATTATAGTTCAAAA
128 TCAATATACAAATTTTAATTTTTAAATAAACAATAATAA-AGATAAAAATAATTATAATTCAAAA
* * * * * * *
25857077 TTGACATAAATAAGTCTTGACGTAAAACTGTAACAGTTGACGTAAAAATTTATAAAGGTGGAATA
192 TTGACATAAA-AAGTCTTAACGTTAAACTGTGAGAATTGACGAAAAAACTTATAAAGGTGGAATA
* * * *
25857142 CCTAAATTTTAAATCTTAACGTAAATGTGTGAAAGTTAACGTAACAAGTCAGTTAAGTAAAAAAA
256 ACTAAATTTTTAATCTTAACGTAAACGTGTGAAAGTTAACGTAACAAGTCAATTAAGTAAAAAAA
* ** *
25857207 ATCTAATTTTAGTGAAAAATAAATATTTAAATTTATATTCTCTGATTAAAAGTGTTTAACAATAT
321 ATCTAATTTTAGTGAAAAATAAATATTTAAATTTATATTCTC-AAACAAAAGTGTTTAACGATAT
*
25857272 ACAAATTTTAATTTTTAAGTTTTGACGTAAAATTGTAACAATTGACATAAGAACTTATAAAGATG
385 ACAAATTTTAATTTTAAAGTTTTGACGT--AA-TG--A-AA-T-AC------ACTTATAAAGATG
* *
25857337 AACTAACTAAATTTTAAATCTTAACATAAATGTGTGAGAGTTAACGTAACAAATCAATTAAATAA
436 AAATAACTAAATTTTAAATCTTAACATAAATGTGTAAGAGTTAACGTAACAAATCAATTAAATAA
* * ** *
25857402 AAAATTCTAATTTTAGTGAAAGAAACATTTAAATTTATATTTTTGTGCTAAAAGTGGTTAACGAT
501 AAAATTATAATTTTAGTGAAAAAAACATTTAAATTTATATAATTGAGCTAAAAGTGGTTAACGAT
25857467 ATATAAATTTTAATTTTTAAATAAAGAATAATAATGAAAAAAATTATAGTTCAAAATTAACATAA
566 ATATAAATTTTAATTTTTAAATAAAGAATAATAATGAAAAAAATTATAGTTCAAAATTAACATAA
* * * * *
25857532 ATAAGCCTTGACATAAAACTATAAGAATTAACGTAAAAACTTATAAGAGTGGAATAACTGAATTT
631 ATAAGCCTTGACATAAAACTACAAAAATTAACGTAAAAAATTATAAGAGTGAAATAACTAAATTT
* *
25857597 TAAATCTTAACGTAAATATTTGAAAGTTAACGTAATAAGTTAATTAAGTAAAAAAATTTAATTTT
696 TAAATCTTAACGTAAATATTTGAAAGTTAACGTAATAAGTTAATTAAGTAAAAAAAATTAAGTTT
25857662 AATGAAAAATAAACATTTATATTTATATTATCGAGCTAAAAGTATGTAATGATATTCAAATTTTT
761 AATGAAAAATAAACATTTATATTTATATTATCGAGCTAAAAGTATGTAATGATATTCAAATTTTT
* * * * * *
25857727 ACTTTTAAATAAAGAATAATAAGGATAAAAATAATTATAGTTTAAAATTGACATAAAAAAGCCTT
826 AATTTTAAATAAAGAATAATAAAGATAAAAATAATTATAGTTCAAAATTGAAAAAAAAAAACCTT
*
25857792 GACGCAAAACTATAACAATTAACGTAAAAACTTATAAAGGTG
891 GACACAAAACTATAACAATTAACGTAAAAACTTATAAAGGTG
*
25857834 GAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAAAGTTAACATAATAAGTCGATTAAGTAC
1 GAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAAAGTTAACATAATAAGTCAATTAAGTAC
* *
25857899 AAAAATCTAATTTTAGTGAAAAAAAAACATTTATATTTATATTCTCGAATTAAAAGTGTTTATCA
66 AAAAATCTAATTTTAGTGAAAAATAAACATTTATATTTATATTCTCGAATTAAAAGTATTTATCA
*
25857964 ATATACAAATTTTAATTTTTAAATAAACAATAATAAAGATAAAAATAATTATAATTTAAAATTGA
131 ATATACAAATTTTAATTTTTAAATAAACAATAATAAAGATAAAAATAATTATAATTCAAAATTGA
* * * *
25858029 CATAGAAATGTCTTTACGTTAAACTGTGAGAATTGATGAAAAAACTTATAAATGTGGAATAACTA
196 CATA-AAAAGTCTTAACGTTAAACTGTGAGAATTGACGAAAAAACTTATAAAGGTGGAATAACTA
* *
25858094 AATTTTTAATCTTAACGTAAACATGTGAAAGTTAACGTAACAAGTCAATTATGTAAAAAAAATCT
260 AATTTTTAATCTTAACGTAAACGTGTGAAAGTTAACGTAACAAGTCAATTAAGTAAAAAAAATCT
* *
25858159 AATTTTAGTGAAAATTAAATATTTAAATTTATATTCTCAAACAAAAGTGTTTAACGATATATAAA
325 AATTTTAGTGAAAAATAAATATTTAAATTTATATTCTCAAACAAAAGTGTTTAACGATATACAAA
25858224 TTTTAATTTTAAAGTTTTGACGT-A-G-AA-AC-C-TATAAAGATGAAATAACTAAATTTTAAAT
390 TTTTAATTTTAAAGTTTTGACGTAATGAAATACACTTATAAAGATGAAATAACTAAATTTTAAAT
* * * *
25858283 CTTATCGTAAATGTGTAAGAGTTAACGTAACAAGTCAATTAAGTTAAAAAA-TATAA-TTTAGTG
455 CTTAACATAAATGTGTAAGAGTTAACGTAACAAATCAATTAA-ATAAAAAATTATAATTTTAGTG
*
25858346 AAAAAAATATTTAAATTTATATAAATTGAGCTAAAAGTGGTTAACGATATATAAATTTTAATTTT
519 AAAAAAACATTTAAATTTATAT-AATTGAGCTAAAAGTGGTTAACGATATATAAATTTTAATTTT
* *
25858411 TAAATAAAGAATAATAATGAAAAAAATTATAGTTTAAAATTAACATAAATAAGCCTTGACGTAAA
583 TAAATAAAGAATAATAATGAAAAAAATTATAGTTCAAAATTAACATAAATAAGCCTTGACATAAA
*
25858476 ACTACAAAAATTAACGTAAAAAATTATAA-AGGTGAAATAATTAAATTTTAAATCTTAACGTAAA
648 ACTACAAAAATTAACGTAAAAAATTATAAGA-GTGAAATAACTAAATTTTAAATCTTAACGTAAA
* * *
25858540 TATTTGAAAGTTAATGTAATCAGTTAATTAAGTAAAAAAAATTAAGTTTAATGAAAAATAAGCAT
712 TATTTGAAAGTTAACGTAATAAGTTAATTAAGTAAAAAAAATTAAGTTTAATGAAAAATAAACAT
* *
25858605 TTATATTTATATTTTCGGGCTAAAAGTATGTAATGATATTCAAATTTTTAATTTTAAATAAAGAA
777 TTATATTTATATTATCGAGCTAAAAGTATGTAATGATATTCAAATTTTTAATTTTAAATAAAGAA
* * * *
25858670 TAATAAATATAAAAATAATTATAGTTCAAAATTGAAAAAAAAAAATCTTGACATAAAACTGTAAC
842 TAATAAAGATAAAAATAATTATAGTTCAAAATTGAAAAAAAAAAACCTTGACACAAAACTATAAC
*
25858735 AATTGACGTAAAAACTTATAAAGGTG
907 AATTAACGTAAAAACTTATAAAGGTG
* * *
25858761 GAATAAATAAATTTTAAATCTTAATGTAAATGTGTGAAAGTTAACATAACAAGTCAATTAAGTAC
1 GAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAAAGTTAACATAATAAGTCAATTAAGTAC
* *
25858826 AAAAATCTAATTTTAGTGAAAACTAAACATTTATATTTATATTCTCGGATTAAAAGTATTTAAT-
66 AAAAATCTAATTTTAGTGAAAAATAAACATTTATATTTATATTCTCGAATTAAAAGTATTT-ATC
*
25858890 AATATACAAATTTTAATTTTTAAATAAACAATAATAAAGATAAAAATAATTATAATTCAAAATTA
130 AATATACAAATTTTAATTTTTAAATAAACAATAATAAAGATAAAAATAATTATAATTCAAAATTG
* *
25858955 ATATACAAAAGTCTTAACGTTAAACTGTGAGAATTGACGGAAAAACTTATAAAGGTGGAATAACT
195 ACATA-AAAAGTCTTAACGTTAAACTGTGAGAATTGACGAAAAAACTTATAAAGGTGGAATAACT
* *
25859020 AAATTTTTAATCTTAACGTAAACGTGTGAAAATTAACGTAACAAGTCAATTAAG-GAAAAAAATC
259 AAATTTTTAATCTTAACGTAAACGTGTGAAAGTTAACGTAACAAGTCAATTAAGTAAAAAAAATC
* * **
25859084 TAATTTTAGTGAAAAATAAATATTTAAATTTAGATTCTCAGACTAAAAGTGTTTAGTGATATACA
324 TAATTTTAGTGAAAAATAAATATTTAAATTTATATTCTCAAAC-AAAAGTGTTTAACGATATACA
25859149 AATTTTAATTTT
388 AATTTTAATTTT
25859161 TAAATAAAGA
Statistics
Matches: 1208, Mismatches: 109, Indels: 41
0.89 0.08 0.03
Matches are distributed among these distances:
926 77 0.06
927 750 0.62
928 10 0.01
935 2 0.00
938 2 0.00
942 1 0.00
944 1 0.00
947 48 0.04
948 311 0.26
949 6 0.00
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.34
Consensus pattern (932 bp):
GAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAAAGTTAACATAATAAGTCAATTAAGTAC
AAAAATCTAATTTTAGTGAAAAATAAACATTTATATTTATATTCTCGAATTAAAAGTATTTATCA
ATATACAAATTTTAATTTTTAAATAAACAATAATAAAGATAAAAATAATTATAATTCAAAATTGA
CATAAAAAGTCTTAACGTTAAACTGTGAGAATTGACGAAAAAACTTATAAAGGTGGAATAACTAA
ATTTTTAATCTTAACGTAAACGTGTGAAAGTTAACGTAACAAGTCAATTAAGTAAAAAAAATCTA
ATTTTAGTGAAAAATAAATATTTAAATTTATATTCTCAAACAAAAGTGTTTAACGATATACAAAT
TTTAATTTTAAAGTTTTGACGTAATGAAATACACTTATAAAGATGAAATAACTAAATTTTAAATC
TTAACATAAATGTGTAAGAGTTAACGTAACAAATCAATTAAATAAAAAATTATAATTTTAGTGAA
AAAAACATTTAAATTTATATAATTGAGCTAAAAGTGGTTAACGATATATAAATTTTAATTTTTAA
ATAAAGAATAATAATGAAAAAAATTATAGTTCAAAATTAACATAAATAAGCCTTGACATAAAACT
ACAAAAATTAACGTAAAAAATTATAAGAGTGAAATAACTAAATTTTAAATCTTAACGTAAATATT
TGAAAGTTAACGTAATAAGTTAATTAAGTAAAAAAAATTAAGTTTAATGAAAAATAAACATTTAT
ATTTATATTATCGAGCTAAAAGTATGTAATGATATTCAAATTTTTAATTTTAAATAAAGAATAAT
AAAGATAAAAATAATTATAGTTCAAAATTGAAAAAAAAAAACCTTGACACAAAACTATAACAATT
AACGTAAAAACTTATAAAGGTG
Found at i:25858774 original size:251 final size:251
Alignment explanation
Indices: 25858240--25859686 Score: 1726
Period size: 251 Copynumber: 5.8 Consensus size: 251
25858230 TTTTAAAGTT
* * * *
25858240 TTGACGTAGAAACCTATAAAGATGAAATAACTAAATTTTAAATCTTATCGTAAATGTGT-AAGAG
1 TTGACGTAAAAACTTATAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAA-AG
* * * *
25858304 TTAACGTAACAAGTCAATTAAGTTAAAAAATATAA-TTTAGTG-AAAA-AAATATTTAAATTTAT
65 TTAACATAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAAATAAACATTTAAATTTAT
* ** * * *
25858366 ATAAATT--GAGCTAAAAGTGGTTAACGATATATAAATTTTAATTTTTAAATAAAGAATAATAAT
130 AT--TTTCGGA-CTAAAAGTATTTAATGATATACAAATTTTAATTTTTAAATAAAGAATAATAAA
* * * ** *
25858429 G--AAAAA-AATTATAGTTTAAAATT-AACATAAATAAGCCTTGACGTAAAACTACAAAAA
192 GATAAAAATAATTATAGTTCAAAATTGAA-ATAAAAAAGTCTTGACGTAAAACTGTAACAA
* * * * *
25858486 TTAACGTAAAAAATTATAAAGGTGAAATAATTAAATTTTAAATCTTAACGTAAATATTTGAAAGT
1 TTGACGTAAAAACTTATAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAAAGT
** * * * * *
25858551 TAATGTAATC-AGTTAATTAAGTAAAAAAAAT-TAAGTTTAATGAAAAATAAGCATTTATATTTA
66 TAACATAA-CAAGTCAATTAAGT-AAAAAAATCTAATTTTAGTGAAAAATAAACATTTAAATTTA
* * * *
25858614 TATTTTCGGGCTAAAAGTATGTAATGATATTCAAATTTTTAA-TTTTAAATAAAGAATAATAAAT
129 TATTTTCGGACTAAAAGTATTTAATGATATACAAA-TTTTAATTTTTAAATAAAGAATAATAAAG
* * *
25858678 ATAAAAATAATTATAGTTCAAAATTGAAAAAAAAAAATCTTGACATAAAACTGTAACAA
193 ATAAAAATAATTATAGTTCAAAATTGAAATAAAAAAGTCTTGACGTAAAACTGTAACAA
* * *
25858737 TTGACGTAAAAACTTATAAAGGTGGAATAAATAAATTTTAAATCTTAATGTAAATGTGTGAAAGT
1 TTGACGTAAAAACTTATAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAAAGT
* * *
25858802 TAACATAACAAGTCAATTAAGTACAAAAATCTAATTTTAGTGAAAACTAAACATTTATATTTATA
66 TAACATAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAAATAAACATTTAAATTTATA
* * * *
25858867 TTCTCGGATTAAAAGTATTTAATAATATACAAATTTTAATTTTTAAATAAACAATAATAAAGATA
131 TTTTCGGACTAAAAGTATTTAATGATATACAAATTTTAATTTTTAAATAAAGAATAATAAAGATA
* * * * * *
25858932 AAAATAATTATAATTCAAAATT-AATATACAAAAGTCTTAACGTTAAACTGTGAGAA
196 AAAATAATTATAGTTCAAAATTGAA-ATAAAAAAGTCTTGACGTAAAACTGTAACAA
* * * * *
25858988 TTGACGGAAAAACTTATAAAGGTGGAATAACTAAATTTTTAATCTTAACGTAAACGTGTGAAAAT
1 TTGACGTAAAAACTTATAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAAAGT
* * * *
25859053 TAACGTAACAAGTCAATTAAGGAAAAAAATCTAATTTTAGTGAAAAATAAATATTTAAATTTAGA
66 TAACATAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAAATAAACATTTAAATTTATA
* * * * *
25859118 TTCTCAGACTAAAAGTGTTTAGTGATATACAAATTTTAATTTTTAAATAAAGAATAATAAGGATA
131 TTTTCGGACTAAAAGTATTTAATGATATACAAATTTTAATTTTTAAATAAAGAATAATAAAGATA
* * * * * * *
25859183 AAAATAATTATAGTTTAAAATGGACATAAAAAAATCTTGATGTAAAACTGTAAGAG
196 AAAATAATTATAGTTCAAAATTGAAATAAAAAAGTCTTGACGTAAAACTGTAACAA
* * * *
25859239 TTGACATAAAAACTTATAAAGTTGAAATAATTAAATTTTAAATCTTAACATAAATGTGTGAAAGT
1 TTGACGTAAAAACTTATAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAAAGT
* * * * * *
25859304 TAACATAATAAGTCAATTAAGTAAAAAATTTTAATTTTATTG--AAACAAATATTTAAATTTATA
66 TAACATAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAAATAAACATTTAAATTTATA
* *
25859367 TTCTT-GGAATAAAAGTATTTAACT-ATATACAAATTTTAATTTTTAAATAAA-AATAATAAGGA
131 TT-TTCGGACTAAAAGTATTTAA-TGATATACAAATTTTAATTTTTAAATAAAGAATAATAAAGA
* * * *
25859429 GAAAAATAATTATAGTTCAAAATTGACATAAATAAGTCTTGACGTAAAAGTGTAACAA
194 TAAAAATAATTATAGTTCAAAATTGAAATAAAAAAGTCTTGACGTAAAACTGTAACAA
*
25859487 TTGACGTAAAAACTTATAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATATGTGAAAGT
1 TTGACGTAAAAACTTATAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAAAGT
* * * *
25859552 TAACATAACAAGTCAATTAAGTACAAAAATCTAATATTAGTGAAAAACAAACATTTATATTTATA
66 TAACATAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAAATAAACATTTAAATTTATA
* * * * * * *
25859617 TTATCGGATTAAAAATGTTTAATAATATACAAATTTTATTTTTTAAATAAAGAATAATAAGGATA
131 TTTTCGGACTAAAAGTATTTAATGATATACAAATTTTAATTTTTAAATAAAGAATAATAAAGATA
25859682 AAAAT
196 AAAAT
25859687 TGTCACGACC
Statistics
Matches: 1028, Mismatches: 148, Indels: 45
0.84 0.12 0.04
Matches are distributed among these distances:
246 74 0.07
247 18 0.02
248 199 0.19
249 85 0.08
250 84 0.08
251 565 0.55
252 3 0.00
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (251 bp):
TTGACGTAAAAACTTATAAAGGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGTGAAAGT
TAACATAACAAGTCAATTAAGTAAAAAAATCTAATTTTAGTGAAAAATAAACATTTAAATTTATA
TTTTCGGACTAAAAGTATTTAATGATATACAAATTTTAATTTTTAAATAAAGAATAATAAAGATA
AAAATAATTATAGTTCAAAATTGAAATAAAAAAGTCTTGACGTAAAACTGTAACAA
Found at i:25895598 original size:34 final size:35
Alignment explanation
Indices: 25895537--25895602 Score: 107
Period size: 34 Copynumber: 1.9 Consensus size: 35
25895527 GCATAACCTT
25895537 TACAACATGCCTTTTGCAAGATCAGGCGTAACGTC
1 TACAACATGCCTTTTGCAAGATCAGGCGTAACGTC
* *
25895572 TACAACATGCC-TTTGCAGGATTAGGCGTAAC
1 TACAACATGCCTTTTGCAAGATCAGGCGTAAC
25895603 TTTTATCAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 18 0.62
35 11 0.38
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (35 bp):
TACAACATGCCTTTTGCAAGATCAGGCGTAACGTC
Found at i:25896469 original size:16 final size:17
Alignment explanation
Indices: 25896425--25896462 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
25896415 AATCGATTAT
25896425 TTCTTCGTTTTTCTGCC
1 TTCTTCGTTTTTCTGCC
25896442 TTCTTCGTTTTTCTGCC
1 TTCTTCGTTTTTCTGCC
25896459 TTCT
1 TTCT
25896463 GTATTTTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.00, C:0.29, G:0.11, T:0.61
Consensus pattern (17 bp):
TTCTTCGTTTTTCTGCC
Found at i:25899044 original size:51 final size:50
Alignment explanation
Indices: 25898950--25899046 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 50
25898940 AGTGAGGTTA
25898950 AAAAGTAGATTTTATTAAAAAATCTATATTAATAATATTTAAATATTATC
1 AAAAGTAGATTTTATTAAAAAATCTATATTAATAATATTTAAATATTATC
* *
25899000 AAAAGTAGA-TTTATTGAAAAGGAATTTATA-TATTAATATTTAAATAT
1 AAAAGTAGATTTTATT-AAAA--AATCTATATTAATAATATTTAAATAT
25899047 CACATGGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
49 6 0.14
50 13 0.31
51 16 0.38
52 7 0.17
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.41
Consensus pattern (50 bp):
AAAAGTAGATTTTATTAAAAAATCTATATTAATAATATTTAAATATTATC
Found at i:25899561 original size:18 final size:18
Alignment explanation
Indices: 25899525--25899562 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
25899515 ATCTAAGATC
*
25899525 ATATTTTATTTAATTCTA
1 ATATTTTATTTAATGCTA
25899543 ATATTTTAGTTT-ATGCTA
1 ATATTTTA-TTTAATGCTA
25899561 AT
1 AT
25899563 GAGTAGTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (18 bp):
ATATTTTATTTAATGCTA
Found at i:25902420 original size:2 final size:2
Alignment explanation
Indices: 25902413--25902455 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
25902403 ATGCTAATTA
25902413 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25902455 A
1 A
25902456 AGTTGGTTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25906740 original size:45 final size:45
Alignment explanation
Indices: 25906669--25906760 Score: 114
Period size: 45 Copynumber: 2.0 Consensus size: 45
25906659 TATATTAATG
* *
25906669 TTATTTAACTATAATAAATATTATAAAATATATTATTTAATATTA
1 TTATTTAACTATAATAAATATAATAAAAGATATTATTTAATATTA
* * * *
25906714 TTATTTGAA-TATGATAAATGTAATAAAGGATATTATTTAGTATTA
1 TTATTT-AACTATAATAAATATAATAAAAGATATTATTTAATATTA
25906759 TT
1 TT
25906761 TAAATTTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
45 38 0.95
46 2 0.05
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.48
Consensus pattern (45 bp):
TTATTTAACTATAATAAATATAATAAAAGATATTATTTAATATTA
Found at i:25906840 original size:23 final size:22
Alignment explanation
Indices: 25906801--25906910 Score: 82
Period size: 23 Copynumber: 5.0 Consensus size: 22
25906791 TAATATTAAG
*
25906801 TATTATTTAATTATAATAAAAGA
1 TATTATTAAATTATAATAAAA-A
* *
25906824 T-TTAATTAGATTTTAATATAAAA
1 TATT-ATTAAATTATAATA-AAAA
25906847 TATTATTAAATTATAATAAAAA
1 TATTATTAAATTATAATAAAAA
* ** *
25906869 TATGT-TTATA-TATGGTGAAAA
1 TAT-TATTAAATTATAATAAAAA
* *
25906890 TATTATTTAATTATAGTAAAA
1 TATTATTAAATTATAATAAAA
25906911 GTTATTTTGA
Statistics
Matches: 68, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
20 1 0.01
21 14 0.21
22 21 0.31
23 27 0.40
24 5 0.07
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (22 bp):
TATTATTAAATTATAATAAAAA
Found at i:25908176 original size:18 final size:18
Alignment explanation
Indices: 25908117--25908176 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 18
25908107 TTCATACAAC
25908117 AACAACATAAACTTAAAT
1 AACAACATAAACTTAAAT
* * *
25908135 AACTAAACACAAAAATCCAAAT
1 AAC--AACA-TAAACT-TAAAT
25908157 AACAACATAAACTTAAAT
1 AACAACATAAACTTAAAT
25908175 AA
1 AA
25908177 TTAAACACCA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
18 9 0.28
19 4 0.12
20 8 0.25
21 4 0.12
22 7 0.22
ACGTcount: A:0.63, C:0.18, G:0.00, T:0.18
Consensus pattern (18 bp):
AACAACATAAACTTAAAT
Found at i:25908214 original size:81 final size:83
Alignment explanation
Indices: 25908077--25908262 Score: 243
Period size: 81 Copynumber: 2.3 Consensus size: 83
25908067 AAAGATCTTA
*
25908077 AACATAAACTTAAATAATTAAAAACAAATGTTCATACAACAACAACATAAACTTAAATAACTAAA
1 AACATAAACTTAAATAATTAAAAACAAATGTCCATACAACAACAACATAAACTTAAATAACTAAA
*
25908142 CACAAAAATCCAAATAAC
66 CACAAAAATCCAAACAAC
* * **
25908160 AACATAAACTTAAATAATTAAACACCAA-GATCCA-A-ATGAACAACATAAACTTAAATAACTAA
1 AACATAAACTTAAATAATTAAAAACAAATG-TCCATACAACAACAACATAAACTTAAATAACTAA
* * *
25908222 ATACAAATATCCACACAAC
65 ACACAAAAATCCAAACAAC
* *
25908241 AACATACACTTAAATAACTAAA
1 AACATAAACTTAAATAATTAAA
25908263 TATGCTCAAG
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
81 60 0.66
82 2 0.02
83 29 0.32
ACGTcount: A:0.59, C:0.19, G:0.02, T:0.20
Consensus pattern (83 bp):
AACATAAACTTAAATAATTAAAAACAAATGTCCATACAACAACAACATAAACTTAAATAACTAAA
CACAAAAATCCAAACAAC
Found at i:25908264 original size:40 final size:40
Alignment explanation
Indices: 25908077--25908262 Score: 219
Period size: 40 Copynumber: 4.5 Consensus size: 40
25908067 AAAGATCTTA
* * * *
25908077 AACATAAACTTAAATAATTAAAAACAAATGTTCATACAACAAC
1 AACATAAACTTAAATAACTAAACACAAAT-ATC-CA-AACAAC
* *
25908120 AACATAAACTTAAATAACTAAACACAAAAATCCAAATAAC
1 AACATAAACTTAAATAACTAAACACAAATATCCAAACAAC
* * * *
25908160 AACATAAACTTAAATAATTAAACACCAAGATCCAAATGAAC
1 AACATAAACTTAAATAACTAAACACAAATATCCAAA-CAAC
* *
25908201 AACATAAACTTAAATAACTAAATACAAATATCCACACAAC
1 AACATAAACTTAAATAACTAAACACAAATATCCAAACAAC
*
25908241 AACATACACTTAAATAACTAAA
1 AACATAAACTTAAATAACTAAA
25908263 TATGCTCAAG
Statistics
Matches: 125, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
40 62 0.50
41 35 0.28
42 2 0.02
43 26 0.21
ACGTcount: A:0.59, C:0.19, G:0.02, T:0.20
Consensus pattern (40 bp):
AACATAAACTTAAATAACTAAACACAAATATCCAAACAAC
Found at i:25909276 original size:16 final size:15
Alignment explanation
Indices: 25909255--25909304 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
25909245 AGCGGTTGGC
25909255 TAAGGAAAGAAAAGAA
1 TAAGGAAAG-AAAGAA
*
25909271 TAAGGAAGGAAAGAA
1 TAAGGAAAGAAAGAA
* *
25909286 GAAGAAGAAGAAAGAA
1 TAAGGA-AAGAAAGAA
25909302 TAA
1 TAA
25909305 AAGAAGAACT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.66, C:0.00, G:0.28, T:0.06
Consensus pattern (15 bp):
TAAGGAAAGAAAGAA
Found at i:25909294 original size:24 final size:23
Alignment explanation
Indices: 25909261--25909312 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
25909251 TGGCTAAGGA
* * *
25909261 AAGAAAAGAATAAGGAAGGAAAG
1 AAGAAAAGAAGAAAGAAGAAAAG
*
25909284 AAGAAGAAGAAGAAAGAATAAAAG
1 AAGAA-AAGAAGAAAGAAGAAAAG
25909308 AAGAA
1 AAGAA
25909313 CTAGGCACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (23 bp):
AAGAAAAGAAGAAAGAAGAAAAG
Found at i:25909505 original size:137 final size:136
Alignment explanation
Indices: 25909357--25909630 Score: 532
Period size: 137 Copynumber: 2.0 Consensus size: 136
25909347 AAGAAAAAGG
25909357 AAGGAGCGACTAGCTAGAGGAAGAAAAGAAAGAAGAAGGAGCATCTGGTGGATGTGGCTAGGTAA
1 AAGGAGCGACTAGCTAGAGGAAGAAAAGAAAGAAGAAGGAGCATCTGGTGGATGTGGCTAGGTAA
25909422 AGAGAAGAAAGAAAGAAAAGAAAAAAGTGGTTTTATCCATTGATATATTATTATTAAATTATAAA
66 AGAGAAGAAAGAAAGAAAAGAAAAAAGTGGTTTTATCCATTGATATATTATTATTAAATTATAAA
25909487 AAAATC
131 AAAATC
25909493 NAAGGAGCGACTAGCTAGAGGAAGAAAAGAAAGAAGAAGGAGCATCTGGTGGATGTGGCTAGGTA
1 -AAGGAGCGACTAGCTAGAGGAAGAAAAGAAAGAAGAAGGAGCATCTGGTGGATGTGGCTAGGTA
25909558 AAGAGAAGAAAGAAAGAAAAGAAAAAAGTGGTTTTATCCATTGATATATTATTATTAAATTAT-A
65 AAGAGAAGAAAGAAAGAAAAGAAAAAAGTGGTTTTATCCATTGATATATTATTATTAAATTATAA
25909622 AAAAATC
130 AAAAATC
25909629 AA
1 AA
25909631 TATTATTATT
Statistics
Matches: 137, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
135 2 0.01
136 8 0.06
137 127 0.93
ACGTcount: A:0.47, C:0.07, G:0.25, T:0.21
Consensus pattern (136 bp):
AAGGAGCGACTAGCTAGAGGAAGAAAAGAAAGAAGAAGGAGCATCTGGTGGATGTGGCTAGGTAA
AGAGAAGAAAGAAAGAAAAGAAAAAAGTGGTTTTATCCATTGATATATTATTATTAAATTATAAA
AAAATC
Found at i:25909832 original size:16 final size:15
Alignment explanation
Indices: 25909798--25909835 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
25909788 TATATATATA
25909798 TTATAATTAATAATT
1 TTATAATTAATAATT
25909813 TTATAAGTT-ATAATTT
1 TTATAA-TTAATAA-TT
25909829 TTATAAT
1 TTATAAT
25909836 ATTAACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TTATAATTAATAATT
Found at i:25909869 original size:6 final size:7
Alignment explanation
Indices: 25909842--25909867 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
25909832 TAATATTAAC
25909842 AAAAAAT
1 AAAAAAT
25909849 AAAAAAT
1 AAAAAAT
25909856 AAAAAAT
1 AAAAAAT
25909863 AAAAA
1 AAAAA
25909868 TATTTATATC
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:25910492 original size:73 final size:73
Alignment explanation
Indices: 25910370--25910549 Score: 207
Period size: 73 Copynumber: 2.5 Consensus size: 73
25910360 AACAAAAAAG
* * * * * * * * *
25910370 ACTTAGTCGACCAAGAAATGAGTCAGTCGACTAAGAGTCTATTATCAGAAATTTGGACTTCAAGA
1 ACTTAATCGACCAAGAAGTAAGTTAGTCGACTAACAGTCTACTACCAGAAATATAGACTTCAAGA
* * *
25910435 TATAACCA
66 CAGAAACA
*
25910443 ACTTAATCGACCAAGAAGTAAGTTAGTCGACTAACAGTCTACTGCCAGAAATATAGACTTCAAGA
1 ACTTAATCGACCAAGAAGTAAGTTAGTCGACTAACAGTCTACTACCAGAAATATAGACTTCAAGA
*
25910508 CAGAAATA
66 CAGAAACA
* * *
25910516 ACTTAATCAACTAAGAAGGAAGTTAGTCGACTAA
1 ACTTAATCGACCAAGAAGTAAGTTAGTCGACTAA
25910550 GTGCTCATTG
Statistics
Matches: 90, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
73 90 1.00
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (73 bp):
ACTTAATCGACCAAGAAGTAAGTTAGTCGACTAACAGTCTACTACCAGAAATATAGACTTCAAGA
CAGAAACA
Found at i:25920071 original size:355 final size:351
Alignment explanation
Indices: 25919481--25920179 Score: 808
Period size: 355 Copynumber: 2.0 Consensus size: 351
25919471 TTGTGCAAAC
* *
25919481 AAAGGTATACATATTATAAGTAATAATTTCATAAGTTATAATTTTTGTAATATTAACACAAAATA
1 AAAGGTATACATATTATAAGTAATAATTTCACAAGTTACAATTTTTGTAATATTAACACAAAATA
* * *
25919546 GAAAGTAAATATGTTTATATTTAAAGTGTATACACACACACACACACACACTAAAAGTATTTTAA
66 GAAAGTAAATATATTTATAGTTAAAG-GTATA-ACACACACACACACACACTAAAAGTATTATAA
25919611 TATATATAATAGTAATTATATTTTTTATAAATAAACCCAATATATATAAAGTAAATATATTAAAA
129 TATATATAATAGTAATTATATTTTTTATAAATAAACCCAATATATATAAAGTAAATATATTAAAA
* * *
25919676 GACATAACAAGGTAATTAATAATCATAGTTTCATAATTAATTCAATTGATTATATGAGTTTGTCC
194 AACATAACAAGGTAATTAATAATCATAGTTTCATAATTAATTCAATTAACTATATGAGTTTGTCC
* * *
25919741 TTAATTACATGAAATTTTAAAAAATAA-CTAGGTTTCAAAACTATTCTAATCTCACA-ACTTCTC
259 TTAATTACATGAAA--TTAAAAAA-AAGCTAGATTTCAAAACTATTCTAATATCAAAGAC-TCTC
* * *
25919804 TTTAGGTTTTTATATTATAAGTTTATATAAAT
320 TTTAAGTATATATATTATAAGTTTATATAAAT
** * * *
25919836 AAAGGTATGTATATTATAATTAATAATTTTACAAGTTACAATTTTTGTAATGTTAACACAAAATA
1 AAAGGTATACATATTATAAGTAATAATTTCACAAGTTACAATTTTTGTAATATTAACACAAAATA
* * * * * **
25919901 GAAAGTAAATATATTTATAGTTAAA-GTAT-ATATATAC-TA-A-A-AGTATTAGTA-TAT-ATA
66 GAAAGTAAATATATTTATAGTTAAAGGTATAACACACACACACACACACTAAAAGTATTATAATA
* * * **
25919958 TATATAATATAGTAATTATATTTTGTATAATTTATAAATGAACCCAATATATGTAATGTATGTAT
131 TATAT-A-ATAGTAATTATA---T-T-T--TTTATAAATAAACCCAATATATATAAAGTAAATAT
** * *
25920023 ATTAAAAAACATTCCAAGTTAATTAATAATCATAGTCTT-ATGAATTAATTTAATTAACTATATG
187 ATTAAAAAACATAACAAGGTAATTAATAATCATAGT-TTCAT-AATTAATTCAATTAACTATATG
* * * * *
25920087 GGTTTGTCTTTAATTACATGGAATTAAAAAAAAGTTAGATTTCGAAACTATTCTAATATCAAAGA
250 AGTTTGTCCTTAATTACATGAAATTAAAAAAAAGCTAGATTTCAAAACTATTCTAATATCAAAGA
25920152 CTCTCTTTAAGTATATATATTATAAGTT
315 CTCTCTTTAAGTATATATATTATAAGTT
25920180 ATAATTTTTA
Statistics
Matches: 291, Mismatches: 40, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
345 8 0.03
346 3 0.01
347 19 0.07
348 1 0.00
349 1 0.00
350 2 0.01
351 6 0.02
352 3 0.01
353 60 0.21
354 66 0.23
355 122 0.42
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.39
Consensus pattern (351 bp):
AAAGGTATACATATTATAAGTAATAATTTCACAAGTTACAATTTTTGTAATATTAACACAAAATA
GAAAGTAAATATATTTATAGTTAAAGGTATAACACACACACACACACACTAAAAGTATTATAATA
TATATAATAGTAATTATATTTTTTATAAATAAACCCAATATATATAAAGTAAATATATTAAAAAA
CATAACAAGGTAATTAATAATCATAGTTTCATAATTAATTCAATTAACTATATGAGTTTGTCCTT
AATTACATGAAATTAAAAAAAAGCTAGATTTCAAAACTATTCTAATATCAAAGACTCTCTTTAAG
TATATATATTATAAGTTTATATAAAT
Found at i:25937506 original size:5 final size:5
Alignment explanation
Indices: 25937502--25937531 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
25937492 CTATTCAACC
*
25937502 TAACC TAACT TAACT TAACT TAACT TAACT
1 TAACT TAACT TAACT TAACT TAACT TAACT
25937532 AGGGGCCACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (5 bp):
TAACT
Found at i:25955822 original size:28 final size:28
Alignment explanation
Indices: 25955781--25955851 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
25955771 CTGGTGGTAG
* * *
25955781 AAAATTACTGTTTTGCCTATGGGGTGAC
1 AAAATTACTATTTTGCCCATAGGGTGAC
* *
25955809 AAAATTACTATTTTGCCCCTAGGGTGGC
1 AAAATTACTATTTTGCCCATAGGGTGAC
*
25955837 AAAATTACCATTTTG
1 AAAATTACTATTTTG
25955852 TCTTTATGCT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (28 bp):
AAAATTACTATTTTGCCCATAGGGTGAC
Found at i:25956684 original size:20 final size:20
Alignment explanation
Indices: 25956659--25956710 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
25956649 AATAATAATC
25956659 AAATTAACATGAA-TAACATA
1 AAATTAACAT-AACTAACATA
* *
25956679 AAATTAAAATAACTAACTTA
1 AAATTAACATAACTAACATA
*
25956699 AAAGTAACATAA
1 AAATTAACATAA
25956711 TTATAAAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.62, C:0.10, G:0.04, T:0.25
Consensus pattern (20 bp):
AAATTAACATAACTAACATA
Found at i:25957674 original size:22 final size:21
Alignment explanation
Indices: 25957630--25957675 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
25957620 TGCACCGATA
*
25957630 AAAATAATAATTATAATATAT
1 AAAATAATAATTATAATAAAT
25957651 AAAATATATAATTAATAA-AAAT
1 AAAATA-ATAATT-ATAATAAAT
25957673 AAA
1 AAA
25957676 TTAGAGAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 12 0.55
23 4 0.18
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATAATAATTATAATAAAT
Found at i:25958764 original size:15 final size:15
Alignment explanation
Indices: 25958744--25958772 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25958734 TATATTTTCA
25958744 TGCAATCACATTACT
1 TGCAATCACATTACT
25958759 TGCAATCACATTAC
1 TGCAATCACATTAC
25958773 CTATAATCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.28, G:0.07, T:0.31
Consensus pattern (15 bp):
TGCAATCACATTACT
Found at i:25958780 original size:15 final size:15
Alignment explanation
Indices: 25958746--25958785 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
25958736 TATTTTCATG
* *
25958746 CAATCACATTACTTG
1 CAATCACATTACCTA
25958761 CAATCACATTACCTA
1 CAATCACATTACCTA
*
25958776 TAATCACATT
1 CAATCACATT
25958786 GTATTGTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.38, C:0.28, G:0.03, T:0.33
Consensus pattern (15 bp):
CAATCACATTACCTA
Found at i:25960263 original size:3 final size:3
Alignment explanation
Indices: 25960255--25960300 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
25960245 TATGTGTGTG
25960255 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
25960301 TATGCACATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:25965711 original size:15 final size:15
Alignment explanation
Indices: 25965661--25965711 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
25965651 TTCTTAAAAC
*
25965661 AACTTTAAAACTAAA
1 AACTTTAAAACCAAA
25965676 AACTTTAAAATCC-AA
1 AACTTTAAAA-CCAAA
*
25965691 AGCTTTAAAACCAAA
1 AACTTTAAAACCAAA
*
25965706 ATCTTT
1 AACTTT
25965712 TATCTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 2 0.06
15 28 0.90
16 1 0.03
ACGTcount: A:0.51, C:0.18, G:0.02, T:0.29
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:25966864 original size:13 final size:13
Alignment explanation
Indices: 25966846--25966883 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
25966836 ATTTTCAAAA
25966846 ATTTTATAAAATT
1 ATTTTATAAAATT
25966859 ATTTTATAAAATT
1 ATTTTATAAAATT
25966872 ATTTTATAAAAT
1 ATTTTATAAAAT
25966884 CCTATTTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:25968100 original size:28 final size:29
Alignment explanation
Indices: 25968042--25968105 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
25968032 GTAAATTTTT
** *
25968042 AAAAATTACACTTTTACCCTCGTAAAGTG
1 AAAAATTACACTTTTACCCTCAAAAACTG
* *
25968071 AAAAATTATATTTTTACCC-CAAAAACTG
1 AAAAATTACACTTTTACCCTCAAAAACTG
25968099 AAAAATT
1 AAAAATT
25968106 GCCAATAGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 13 0.43
29 17 0.57
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.31
Consensus pattern (29 bp):
AAAAATTACACTTTTACCCTCAAAAACTG
Found at i:25968800 original size:23 final size:24
Alignment explanation
Indices: 25968767--25968812 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
25968757 ATTCTTTCCT
25968767 ATGTTACTATTTTT-TAGAGCATAA
1 ATGTTACTATTTTTCTA-AGCATAA
25968791 ATGTT-CTATTTTTCTAAGCATA
1 ATGTTACTATTTTTCTAAGCATA
25968813 CATATATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (24 bp):
ATGTTACTATTTTTCTAAGCATAA
Found at i:25968803 original size:24 final size:23
Alignment explanation
Indices: 25968767--25968812 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
25968757 ATTCTTTCCT
*
25968767 ATGTTACTATTTTTTAGAGCATAA
1 ATGTTACTATTTTCTA-AGCATAA
25968791 ATGTT-CTATTTTTCTAAGCATA
1 ATGTTACTA-TTTTCTAAGCATA
25968813 CATATATATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (23 bp):
ATGTTACTATTTTCTAAGCATAA
Found at i:25969013 original size:12 final size:13
Alignment explanation
Indices: 25968996--25969024 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
25968986 CAACTTTATC
25968996 TTATTTATT-TTT
1 TTATTTATTATTT
25969008 TTATTTATTATTT
1 TTATTTATTATTT
25969021 TTAT
1 TTAT
25969025 AAAACAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTATTTATTATTT
Found at i:25969022 original size:16 final size:17
Alignment explanation
Indices: 25968990--25969022 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
25968980 AGCAAACAAC
25968990 TTTATCTTATTTATTTT
1 TTTATCTTATTTATTTT
25969007 TTTAT-TTA-TTATTTT
1 TTTATCTTATTTATTTT
25969022 T
1 T
25969023 ATAAAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTATCTTATTTATTTT
Found at i:25974064 original size:20 final size:20
Alignment explanation
Indices: 25974019--25974056 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
25974009 TTTTGGCCCC
25974019 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
25974039 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
25974057 AGATTTGAGG
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:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:25977916 original size:25 final size:25
Alignment explanation
Indices: 25977888--25977974 Score: 113
Period size: 25 Copynumber: 3.5 Consensus size: 25
25977878 ATGTAGTCGC
25977888 AACCACGTATATCAA-CTCGTGGCCT
1 AACCACGTATATCAACCT-GTGGCCT
25977913 AACCACGTATATCAACCTGTGGCCT
1 AACCACGTATATCAACCTGTGGCCT
** *
25977938 TGCCACATATATCAACCTGTGGCCT
1 AACCACGTATATCAACCTGTGGCCT
**
25977963 TGCCACGTATAT
1 AACCACGTATAT
25977975 ATCATAAACC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
25 55 0.96
26 2 0.04
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.26
Consensus pattern (25 bp):
AACCACGTATATCAACCTGTGGCCT
Found at i:25977993 original size:24 final size:24
Alignment explanation
Indices: 25977962--25978010 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
25977952 ACCTGTGGCC
25977962 TTGCCACGTATATATCATAAACCA
1 TTGCCACGTATATATCATAAACCA
*
25977986 TTGCCACGTATATATCATAGACCA
1 TTGCCACGTATATATCATAAACCA
25978010 T
1 T
25978011 GGCCTAGCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.31
Consensus pattern (24 bp):
TTGCCACGTATATATCATAAACCA
Found at i:25980884 original size:28 final size:27
Alignment explanation
Indices: 25980846--25980899 Score: 99
Period size: 28 Copynumber: 2.0 Consensus size: 27
25980836 TTTGGAACAT
25980846 TAATAATTAACAAATAATTAAACATAAA
1 TAATAATTAACAAATAATTAAA-ATAAA
25980874 TAATAATTAACAAATAATTAAAATAA
1 TAATAATTAACAAATAATTAAAATAA
25980900 TCACAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.30
Consensus pattern (27 bp):
TAATAATTAACAAATAATTAAAATAAA
Found at i:25980888 original size:14 final size:14
Alignment explanation
Indices: 25980846--25980891 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
25980836 TTTGGAACAT
25980846 TAATAATTAACAAA
1 TAATAATTAACAAA
*
25980860 TAATTAA--ACATAAA
1 TAA-TAATTA-ACAAA
25980874 TAATAATTAACAAA
1 TAATAATTAACAAA
25980888 TAAT
1 TAAT
25980892 TAAAATAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
13 4 0.15
14 18 0.69
15 4 0.15
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (14 bp):
TAATAATTAACAAA
Found at i:25986400 original size:19 final size:18
Alignment explanation
Indices: 25986362--25986400 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
25986352 GTACTCTATT
* *
25986362 TTTCAAAATCATTATTAA
1 TTTCAAAATAATTATAAA
25986380 TTTCAAAATAATTTATAAA
1 TTTCAAAATAA-TTATAAA
25986399 TT
1 TT
25986401 AATTTCATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTCAAAATAATTATAAA
Found at i:25988681 original size:38 final size:39
Alignment explanation
Indices: 25988603--25988698 Score: 133
Period size: 38 Copynumber: 2.5 Consensus size: 39
25988593 ACCCAGCTCA
25988603 TGTACATCCCCCCACATCGTGCACATAACAGGCGTCATCG
1 TGTACATCCCCCCACATCGTG-ACATAACAGGCGTCATCG
* * *
25988643 TGTGCATCCCCCCACATCGTG-CATAATCA-GTGTTATCG
1 TGTACATCCCCCCACATCGTGACATAA-CAGGCGTCATCG
25988681 TGTACATCCCCCCACATC
1 TGTACATCCCCCCACATC
25988699 ATGCGCACGG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
38 29 0.57
39 2 0.04
40 20 0.39
ACGTcount: A:0.23, C:0.38, G:0.16, T:0.24
Consensus pattern (39 bp):
TGTACATCCCCCCACATCGTGACATAACAGGCGTCATCG
Found at i:25988830 original size:2 final size:2
Alignment explanation
Indices: 25988823--25988850 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25988813 CATGCACAAC
25988823 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25988851 CATCATAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25993258 original size:20 final size:22
Alignment explanation
Indices: 25993219--25993260 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
25993209 TTGCCCATGC
25993219 AAGAAAAGTAAAGAGAAAAGAA
1 AAGAAAAGTAAAGAGAAAAGAA
*
25993241 AAGAAAA-TAATG-GAAAAGAA
1 AAGAAAAGTAAAGAGAAAAGAA
25993261 TGTGGCCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 4 0.21
22 7 0.37
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.07
Consensus pattern (22 bp):
AAGAAAAGTAAAGAGAAAAGAA
Found at i:25993401 original size:28 final size:27
Alignment explanation
Indices: 25993369--25993440 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 27
25993359 CACAACCAAG
*
25993369 AAGAAAAGAGAAAGGAGAAGAAAGGAAA
1 AAGAAAAGAGAAAGGAGAA-AAAAGAAA
*
25993397 AAGAAAAGAGGAAGGAGAAAAAAGAAA
1 AAGAAAAGAGAAAGGAGAAAAAAGAAA
*
25993424 AAAAAAGAGAGAAAGGA
1 AAGAAA-AGAGAAAGGA
25993441 AGGAAGATTC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 12 0.31
28 27 0.69
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (27 bp):
AAGAAAAGAGAAAGGAGAAAAAAGAAA
Found at i:25993435 original size:21 final size:21
Alignment explanation
Indices: 25993394--25993437 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
25993384 AGAAGAAAGG
**
25993394 AAAAAGAAAAGAGGAAGGAGA
1 AAAAAGAAAAGAAAAAGGAGA
25993415 AAAAAGAAAA-AAAAAGAGAGA
1 AAAAAGAAAAGAAAAAG-GAGA
25993436 AA
1 AA
25993438 GGAAGGAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAAGAAAAAGGAGA
Found at i:25997921 original size:20 final size:20
Alignment explanation
Indices: 25997898--25997935 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
25997888 TAGTTGAAGC
25997898 TTGCTTTAACCAATTAAACT
1 TTGCTTTAACCAATTAAACT
*
25997918 TTGCTTTAATCAATTAAA
1 TTGCTTTAACCAATTAAA
25997936 GCATGAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (20 bp):
TTGCTTTAACCAATTAAACT
Found at i:26003111 original size:35 final size:35
Alignment explanation
Indices: 26003062--26003142 Score: 135
Period size: 35 Copynumber: 2.3 Consensus size: 35
26003052 AATAAAAAGG
* * *
26003062 GGGTGTTGGTTGTCGGTTTGTGAAGGAGAAAGCAA
1 GGGTGTTGGCTGTCGGTTTATGAAGAAGAAAGCAA
26003097 GGGTGTTGGCTGTCGGTTTATGAAGAAGAAAGCAA
1 GGGTGTTGGCTGTCGGTTTATGAAGAAGAAAGCAA
26003132 GGGTGTTGGCT
1 GGGTGTTGGCT
26003143 ACCGATTGGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.22, C:0.07, G:0.42, T:0.28
Consensus pattern (35 bp):
GGGTGTTGGCTGTCGGTTTATGAAGAAGAAAGCAA
Found at i:26003303 original size:28 final size:29
Alignment explanation
Indices: 26003272--26003329 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
26003262 AAGAAGAAAT
* * *
26003272 AAAGGAGAAGATAG-AGAAAAAAAGAGAG
1 AAAGGAAAAGAAAGAAGAAAAAAAAAGAG
*
26003300 AAAGGAAAAGAAAGAATAAAAAAAAAGAG
1 AAAGGAAAAGAAAGAAGAAAAAAAAAGAG
26003329 A
1 A
26003330 GAGTACATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (29 bp):
AAAGGAAAAGAAAGAAGAAAAAAAAAGAG
Found at i:26003718 original size:2 final size:2
Alignment explanation
Indices: 26003711--26003764 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
26003701 CTTTCGTATT
26003711 TA TA TA TA TA TA 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
26003753 TA TA TA TA TA TA
1 TA TA TA TA TA TA
26003765 CACATGATTN
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26011169 original size:24 final size:23
Alignment explanation
Indices: 26011142--26011200 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 23
26011132 TGGACTTCTC
26011142 CCATTTCTTCTAATTGGACCATGT
1 CCATTT-TTCTAATTGGACCATGT
*
26011166 CCATTTTTCCTTTATTGGACCATGT
1 CCATTTTT-C-TAATTGGACCATGT
26011191 CCATTTTTCT
1 CCATTTTTCT
26011201 TGCTTGTTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
23 3 0.09
24 8 0.25
25 21 0.66
ACGTcount: A:0.17, C:0.25, G:0.10, T:0.47
Consensus pattern (23 bp):
CCATTTTTCTAATTGGACCATGT
Found at i:26011243 original size:5 final size:5
Alignment explanation
Indices: 26011233--26011276 Score: 60
Period size: 5 Copynumber: 9.6 Consensus size: 5
26011223 GTCCTTGTTA
26011233 TTTTC TTTTC TTTTC TTTTC TTTTC -TTTC -TTTC -TTTC -TTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTT
26011277 CTCACCATCC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 16 0.42
5 22 0.58
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:26011263 original size:4 final size:4
Alignment explanation
Indices: 26011234--26011278 Score: 54
Period size: 4 Copynumber: 10.2 Consensus size: 4
26011224 TCCTTGTTAT
26011234 TTTC TTTTC TTTTC TTTTC TTTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC -TTTC -TTTC -TTTC -TTTC TTTC TTTC TTTC TTTC TTTC T
26011279 CACCATCCAG
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 21 0.52
5 19 0.47
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:26015430 original size:19 final size:19
Alignment explanation
Indices: 26015409--26015444 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
26015399 AAGATAAAAT
26015409 TTTTA-GAATAAAATAATG
1 TTTTATGAATAAAATAATG
*
26015427 TTTTATTAATAAAATAAT
1 TTTTATGAATAAAATAAT
26015445 ATTAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (19 bp):
TTTTATGAATAAAATAATG
Found at i:26032651 original size:20 final size:20
Alignment explanation
Indices: 26032626--26032671 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
26032616 TGTTGGCCCC
26032626 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
26032646 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
26032666 ATTTGA
1 ATTTGA
26032672 GGTTTAGAAG
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:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:26032746 original size:28 final size:27
Alignment explanation
Indices: 26032715--26032768 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
26032705 ATTTGGAGTA
*
26032715 TAGGGGTAAAATGGTAATTTTACCACCT
1 TAGGGGCAAAATGGTAATTTT-CCACCT
*
26032743 TAGGGGCAAAATTGTAATTTTCCACC
1 TAGGGGCAAAATGGTAATTTTCCACC
26032769 ACCAGGATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (27 bp):
TAGGGGCAAAATGGTAATTTTCCACCT
Found at i:26043180 original size:20 final size:20
Alignment explanation
Indices: 26043155--26043200 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
26043145 TTTTGACCCC
26043155 ATTTGACTTATT-AGAGTATA
1 ATTTGACTTATTGA-AGTATA
*
26043175 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
26043195 ATTTGA
1 ATTTGA
26043201 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:26043276 original size:28 final size:27
Alignment explanation
Indices: 26043245--26043297 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
26043235 TTTGGAGTAT
*
26043245 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
26043273 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
26043298 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:26043303 original size:28 final size:28
Alignment explanation
Indices: 26043245--26043303 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
26043235 TTTGGAGTAT
* *
26043245 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
26043273 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
26043301 AGG
1 AGG
26043304 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:26046979 original size:61 final size:62
Alignment explanation
Indices: 26046880--26047040 Score: 200
Period size: 61 Copynumber: 2.6 Consensus size: 62
26046870 TGTTGCATAG
* * * * * *
26046880 CGACTTGATGTTTGGTGGCATGGAGAGTTCCCACGAGTAGGTATAAGGGAAATGTGAAGCC-
1 CGACTTGATATTTGGTAGCATGGGGAGTTCCCACGAGTAAGTATAAGGGAAACGTAAAGCCT
* * * * *
26046941 CGACTTGATATTTGGCAGCATGGGGAGTTTCCATGAGTAATTATAAGGGGAACGTAAAGCCT
1 CGACTTGATATTTGGTAGCATGGGGAGTTCCCACGAGTAAGTATAAGGGAAACGTAAAGCCT
*
26047003 CGACTTGATATGTGGTAGCATGGGGAG-TCCCACGAGTA
1 CGACTTGATATTTGGTAGCATGGGGAGTTCCCACGAGTA
26047041 GGCATTTATA
Statistics
Matches: 84, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
61 59 0.70
62 25 0.30
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (62 bp):
CGACTTGATATTTGGTAGCATGGGGAGTTCCCACGAGTAAGTATAAGGGAAACGTAAAGCCT
Found at i:26049895 original size:22 final size:22
Alignment explanation
Indices: 26049864--26049933 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 22
26049854 AACCAGACAA
26049864 CATCGCTCAACGCATACAACTGC
1 CATC-CTCAACGCATACAACTGC
* *
26049887 CATCCTCAACTCA-GC-A-TG-
1 CATCCTCAACGCATACAACTGC
26049905 --T-CTCAACGCATACAACTGC
1 CATCCTCAACGCATACAACTGC
26049924 CATCCTCAAC
1 CATCCTCAAC
26049934 TCAACTCATG
Statistics
Matches: 36, Mismatches: 4, Indels: 15
0.65 0.07 0.27
Matches are distributed among these distances:
15 8 0.22
16 2 0.06
17 1 0.03
18 2 0.06
19 2 0.06
20 1 0.03
21 2 0.06
22 14 0.39
23 4 0.11
ACGTcount: A:0.30, C:0.40, G:0.10, T:0.20
Consensus pattern (22 bp):
CATCCTCAACGCATACAACTGC
Found at i:26050034 original size:39 final size:39
Alignment explanation
Indices: 26049939--26050076 Score: 131
Period size: 39 Copynumber: 3.6 Consensus size: 39
26049929 TCAACTCAAC
* * * **
26049939 TCATGTGCACTCCCACACTGCACATAGCTAATAT--TC-
1 TCATGTGCTCTCCCACACTACACATGGAAAATATCATCA
*
26049975 TCATGTGCACTCCCACACTACACATGGAAAATATCATCA
1 TCATGTGCTCTCCCACACTACACATGGAAAATATCATCA
* * * **
26050014 TCATGTGCTCTCTCATACTACACATGGCATTTATCATCA
1 TCATGTGCTCTCCCACACTACACATGGAAAATATCATCA
* *
26050053 -CGTGTGCTCTCCCACACCACACAT
1 TCATGTGCTCTCCCACACTACACAT
26050077 TACTAACACC
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
36 30 0.35
38 22 0.26
39 33 0.39
ACGTcount: A:0.28, C:0.33, G:0.11, T:0.28
Consensus pattern (39 bp):
TCATGTGCTCTCCCACACTACACATGGAAAATATCATCA
Found at i:26058402 original size:40 final size:40
Alignment explanation
Indices: 26058346--26058441 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 40
26058336 TGCTGGACAA
*
26058346 AAAGTTTCTAGCTGCAGTGAGATT-CAAGCAGCCA-AAACAG
1 AAAGTTTCTCGCTGCAGTGAG-TTACAAGCAG-CAGAAACAG
* *
26058386 AAAGTTTCTCGTTGCAGTGAGTTACAGGCAGCAGAAACAG
1 AAAGTTTCTCGCTGCAGTGAGTTACAAGCAGCAGAAACAG
*
26058426 AATGTTTCTCGCTGCA
1 AAAGTTTCTCGCTGCA
26058442 ACGAGAATCA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 4 0.08
40 45 0.92
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (40 bp):
AAAGTTTCTCGCTGCAGTGAGTTACAAGCAGCAGAAACAG
Found at i:26058719 original size:2 final size:2
Alignment explanation
Indices: 26058673--26058705 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
26058663 ACTTTCTATA
26058673 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
26058706 TATATATACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:26058828 original size:42 final size:42
Alignment explanation
Indices: 26058741--26058915 Score: 273
Period size: 42 Copynumber: 4.1 Consensus size: 42
26058731 ACCATCCCAC
*
26058741 CATCATCAGCTCATGTGCACTTCCCACTCGCACATAGCT-GAGT
1 CATCATCAGCTCATGTGCAC-TCCCACACGCACATAGCTAG-GT
26058784 CATCATCAGCTCATGTGCACT-CCACACCGCACATAGCTAGGT
1 CATCATCAGCTCATGTGCACTCCCACA-CGCACATAGCTAGGT
* *
26058826 CATCATCAGCTCATGTACACTCCCACACACACATAGCTAGGT
1 CATCATCAGCTCATGTGCACTCCCACACGCACATAGCTAGGT
*
26058868 CATCATCAGCTCATGTGCACTCCCACACGCACATAGCTGGGT
1 CATCATCAGCTCATGTGCACTCCCACACGCACATAGCTAGGT
26058910 CATCAT
1 CATCAT
26058916 TATCTTATAA
Statistics
Matches: 123, Mismatches: 6, Indels: 7
0.90 0.04 0.05
Matches are distributed among these distances:
41 4 0.03
42 93 0.76
43 26 0.21
ACGTcount: A:0.26, C:0.35, G:0.15, T:0.23
Consensus pattern (42 bp):
CATCATCAGCTCATGTGCACTCCCACACGCACATAGCTAGGT
Found at i:26061005 original size:36 final size:38
Alignment explanation
Indices: 26060952--26061054 Score: 113
Period size: 36 Copynumber: 2.7 Consensus size: 38
26060942 CAACTCAGCT
** *
26060952 CATGTGCACTCATACACCGCACATAGG-TAATATC-C-C
1 CATGTGCACTCCCACACCGCACAT-GGCAAATATCACAC
* *
26060988 CATGTGCACTCCCACACCACACATGGCAAATATCATCAT
1 CATGTGCACTCCCACACCGCACATGGCAAATATCA-CAC
*
26061027 CATGTGCTCTCCCACACCGCACATGGCA
1 CATGTGCACTCCCACACCGCACATGGCA
26061055 TGTATCATTG
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
35 2 0.04
36 27 0.48
38 1 0.02
39 26 0.46
ACGTcount: A:0.29, C:0.37, G:0.14, T:0.20
Consensus pattern (38 bp):
CATGTGCACTCCCACACCGCACATGGCAAATATCACAC
Found at i:26061041 original size:39 final size:39
Alignment explanation
Indices: 26060988--26061088 Score: 123
Period size: 39 Copynumber: 2.6 Consensus size: 39
26060978 GTAATATCCC
*
26060988 CATGTGCACTCCCACACCACACATGGCAAATATCA-TCA
1 CATGTGCTCTCCCACACCACACATGGCAAATATCATTCA
* ** *
26061026 TCATGTGCTCTCCCACACCGCACATGGCATGTATCATTGA
1 -CATGTGCTCTCCCACACCACACATGGCAAATATCATTCA
* *
26061066 CGTGTGCTCTCCCACATCACACA
1 CATGTGCTCTCCCACACCACACA
26061089 CTACCGACAC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 51 0.96
40 2 0.04
ACGTcount: A:0.27, C:0.37, G:0.14, T:0.23
Consensus pattern (39 bp):
CATGTGCTCTCCCACACCACACATGGCAAATATCATTCA
Found at i:26067421 original size:28 final size:29
Alignment explanation
Indices: 26067380--26067439 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
26067370 GTCCATGGGC
*
26067380 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCACTTTTATGGGGCAAAAATGT
* * *
26067408 AATTTTTGACTTTTACTGGGGTAAAAGTGT
1 AATTTTTCACTTTTA-TGGGGCAAAAATGT
26067438 AA
1 AA
26067440 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.42
Consensus pattern (29 bp):
AATTTTTCACTTTTATGGGGCAAAAATGT
Found at i:26070721 original size:42 final size:41
Alignment explanation
Indices: 26070657--26070779 Score: 165
Period size: 42 Copynumber: 2.9 Consensus size: 41
26070647 GACTCTGTCT
* * * * *
26070657 CAGCTTATGTGCACTACCACACCGCACATAGCCGGGTCGGCA
1 CAGCTCATGTGCACTA-TACACCGCACATGGCTGGGTCAGCA
26070699 CAGCTCATGTGCACTGATACACCGCACATGGCTGGGTCAGCA
1 CAGCTCATGTGCACT-ATACACCGCACATGGCTGGGTCAGCA
*
26070741 CAGCTCATGTGCACTCCTACACCGCACATGGCTGGGTCA
1 CAGCTCATGTGCACT-ATACACCGCACATGGCTGGGTCA
26070780 TAATTATCAC
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 72 0.99
43 1 0.01
ACGTcount: A:0.23, C:0.34, G:0.24, T:0.19
Consensus pattern (41 bp):
CAGCTCATGTGCACTATACACCGCACATGGCTGGGTCAGCA
Found at i:26081223 original size:19 final size:19
Alignment explanation
Indices: 26081163--26081223 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
26081153 TAGCCGGAGT
*
26081163 CATCGTGTGCATCCCCTCA
1 CATCGTGTACATCCCCTCA
* **
26081182 CATCGTGCACAGT-CAGTGC-
1 CATCGTGTACA-TCCCCT-CA
26081201 CATCGTGTACATCCCCTCA
1 CATCGTGTACATCCCCTCA
26081220 CATC
1 CATC
26081224 ATGCACACGA
Statistics
Matches: 31, Mismatches: 7, Indels: 8
0.67 0.15 0.17
Matches are distributed among these distances:
18 2 0.06
19 27 0.87
20 2 0.06
ACGTcount: A:0.20, C:0.39, G:0.16, T:0.25
Consensus pattern (19 bp):
CATCGTGTACATCCCCTCA
Found at i:26082673 original size:14 final size:15
Alignment explanation
Indices: 26082654--26082682 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
26082644 CCATAGATTA
26082654 CATTTCCTT-GATAT
1 CATTTCCTTGGATAT
26082668 CATTTCCTTGGATAT
1 CATTTCCTTGGATAT
26082683 TTCTCTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.48
Consensus pattern (15 bp):
CATTTCCTTGGATAT
Found at i:26088681 original size:23 final size:23
Alignment explanation
Indices: 26088651--26088700 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
26088641 CACGAGCCAG
26088651 TGTTAGAGAGATCTTAAAACGAA
1 TGTTAGAGAGATCTTAAAACGAA
26088674 TGTTAGAGAGATCTTAAAACGAA
1 TGTTAGAGAGATCTTAAAACGAA
26088697 TGTT
1 TGTT
26088701 CCTAATGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (23 bp):
TGTTAGAGAGATCTTAAAACGAA
Found at i:26096987 original size:38 final size:40
Alignment explanation
Indices: 26096901--26097006 Score: 135
Period size: 38 Copynumber: 2.7 Consensus size: 40
26096891 ACCCGGCTCA
26096901 TGTACATCCCCCCACATCATGCACATAGCCAACGCCATCG
1 TGTACATCCCCCCACATCATGCACATAGCCAACGCCATCG
* * * **
26096941 TGTGCATCCCCGCACATCATGCACA-A-TCAGTGCCATCG
1 TGTACATCCCCCCACATCATGCACATAGCCAACGCCATCG
* *
26096979 TGTACATCCCCCCACATCGTGCAAATAG
1 TGTACATCCCCCCACATCATGCACATAG
26097007 GCACTATCAT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
38 30 0.55
39 2 0.04
40 23 0.42
ACGTcount: A:0.26, C:0.39, G:0.15, T:0.20
Consensus pattern (40 bp):
TGTACATCCCCCCACATCATGCACATAGCCAACGCCATCG
Found at i:26105967 original size:20 final size:20
Alignment explanation
Indices: 26105942--26106017 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
26105932 CCTAAAGAAC
*
26105942 ATCTATGGATAGATGACCAG
1 ATCTATCGATAGATGACCAG
* *
26105962 ATCTATCTATAGAT-AGCTAG
1 ATCTATCGATAGATGA-CCAG
* *
26105982 ATCTATCCATAGATGGCCCA-
1 ATCTATCGATAGAT-GACCAG
*
26106002 ATCTATTGATAGATGA
1 ATCTATCGATAGATGA
26106018 TTTATCGATA
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
19 2 0.05
20 40 0.91
21 2 0.05
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (20 bp):
ATCTATCGATAGATGACCAG
Found at i:26106041 original size:35 final size:36
Alignment explanation
Indices: 26105966--26106052 Score: 97
Period size: 35 Copynumber: 2.4 Consensus size: 36
26105956 GACCAGATCT
*
26105966 ATCTATAGATAGCTAGATCTATCCATAGATGGCCCA
1 ATCTATAGATAGATAGATCTATCCATAGATGGCCCA
* * *
26106002 ATCTATTGATAGAT-GATTTATCGATAGATGGCTCC-
1 ATCTATAGATAGATAGATCTATCCATAGATGGC-CCA
* *
26106037 ATCTATCGATAAATAG
1 ATCTATAGATAGATAG
26106053 TAATTAGAGA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
35 28 0.65
36 15 0.35
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (36 bp):
ATCTATAGATAGATAGATCTATCCATAGATGGCCCA
Found at i:26106045 original size:20 final size:19
Alignment explanation
Indices: 26105941--26106047 Score: 60
Period size: 20 Copynumber: 5.6 Consensus size: 19
26105931 CCCTAAAGAA
* *
26105941 CATCTATGGATAGATGACC
1 CATCTATCGATAGATGGCC
* * * *
26105960 AGATCTATCTATAGATAGCTA
1 -CATCTATCGATAGATGGC-C
* *
26105981 GATCTATCCATAGATGGCC
1 CATCTATCGATAGATGGCC
*
26106000 CAATCTATTGATAGAT-G--
1 C-ATCTATCGATAGATGGCC
*
26106017 -ATTTATCGATAGATGGCTC
1 CATCTATCGATAGATGGC-C
26106036 CATCTATCGATA
1 CATCTATCGATA
26106048 AATAGTAATT
Statistics
Matches: 65, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
15 12 0.18
16 1 0.02
19 1 0.02
20 51 0.78
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (19 bp):
CATCTATCGATAGATGGCC
Found at i:26108750 original size:20 final size:20
Alignment explanation
Indices: 26108727--26108764 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
26108717 ACTTCAAAAC
26108727 AGAACCAAGTTAGTCAACCA
1 AGAACCAAGTTAGTCAACCA
**
26108747 AGAAGTAAGTTAGTCAAC
1 AGAACCAAGTTAGTCAAC
26108765 TAAGTGCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.18
Consensus pattern (20 bp):
AGAACCAAGTTAGTCAACCA
Found at i:26109237 original size:229 final size:229
Alignment explanation
Indices: 26108830--26109287 Score: 794
Period size: 229 Copynumber: 2.0 Consensus size: 229
26108820 AGACATAAGT
*
26108830 TAGTCGACTAAGAGCATTCTGCCAGAAAATTTGAATTGTCCATAAGAAGACAGATTAACGGCCAA
1 TAGTCGACTAAGAGCATTCTGCCAGAAAATTTGAATTGACCATAAGAAGACAGATTAACGGCCAA
26108895 AACTGTAACAAAACTATTTCCAACAGTCAAAAACTATCTAACTCACTTTAGAGCTAATTTTCCAA
66 AACTGTAACAAAACTATTTCCAACAGTCAAAAACTATCTAACTCACTTTAGAGCTAATTTTCCAA
26108960 GTATACAAGAGGGTTCCAACAATTAGAAATGTAATTAAGGGCTTCCAAAA-ACACAAAAGAGCTC
131 GTATACAAGAGGGTTCCAACAATTAGAAATGTAATTAAGGGCTTCCAAAACACA-AAAAGAGCTC
26109024 AAAAACCAGAAAATACTTGTTACTCGAAACAGAAC
195 AAAAACCAGAAAATACTTGTTACTCGAAACAGAAC
* * * ** * * *
26109059 NTAGTTGACTAAGATCATTTTGTTAGAAAATTTGAATTGAGCATTAGAAGATAGATTAACGGCCA
1 -TAGTCGACTAAGAGCATTCTGCCAGAAAATTTGAATTGACCATAAGAAGACAGATTAACGGCCA
*
26109124 GAACTGTAAC-AAACTATTTCCAACAGTCAAAAACTATCTAACTCACTTTAGAGCTAATTTTCCA
65 AAACTGTAACAAAACTATTTCCAACAGTCAAAAACTATCTAACTCACTTTAGAGCTAATTTTCCA
26109188 AGTATACAAGAGGGTTCCAACAATTAGAAATGTAATTAAGGGCTTCCAAAACACAAAAAGAGCTC
130 AGTATACAAGAGGGTTCCAACAATTAGAAATGTAATTAAGGGCTTCCAAAACACAAAAAGAGCTC
26109253 AAAAACCAGAAAATACTTGTTACTCGAAACAGAAC
195 AAAAACCAGAAAATACTTGTTACTCGAAACAGAAC
26109288 CGACTTAGTC
Statistics
Matches: 217, Mismatches: 10, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
229 150 0.69
230 67 0.31
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (229 bp):
TAGTCGACTAAGAGCATTCTGCCAGAAAATTTGAATTGACCATAAGAAGACAGATTAACGGCCAA
AACTGTAACAAAACTATTTCCAACAGTCAAAAACTATCTAACTCACTTTAGAGCTAATTTTCCAA
GTATACAAGAGGGTTCCAACAATTAGAAATGTAATTAAGGGCTTCCAAAACACAAAAAGAGCTCA
AAAACCAGAAAATACTTGTTACTCGAAACAGAAC
Found at i:26114983 original size:21 final size:21
Alignment explanation
Indices: 26114959--26115000 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
26114949 AAAAGACAAT
* *
26114959 AGGCACTTAGTCGACTAAGAG
1 AGGCACTTAGTCAACGAAGAG
26114980 AGGCACTTAGTCAACGAAGAG
1 AGGCACTTAGTCAACGAAGAG
26115001 CATTATGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.19, G:0.29, T:0.17
Consensus pattern (21 bp):
AGGCACTTAGTCAACGAAGAG
Found at i:26117788 original size:17 final size:17
Alignment explanation
Indices: 26117755--26117789 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
26117745 ATAAAACTAT
*
26117755 GCACACACTAAGGGGGA
1 GCACACACTAAGAGGGA
*
26117772 GCACACACTTAGAGGGA
1 GCACACACTAAGAGGGA
26117789 G
1 G
26117790 GAAAACCTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.23, G:0.34, T:0.09
Consensus pattern (17 bp):
GCACACACTAAGAGGGA
Found at i:26122329 original size:204 final size:204
Alignment explanation
Indices: 26121970--26122373 Score: 553
Period size: 204 Copynumber: 2.0 Consensus size: 204
26121960 AACTGGGTGC
26121970 TATATAAAAACAAGGCAGAAAAGCCTTAATCAGTTAGCACCAGGCTTAACTAATTAAAAAGGTGC
1 TATATAAAAACAAGGCAGAAAAGCCTTAATCAGTTAGCACCAGGCTTAACTAATTAAAAAGGTGC
* * *
26122035 TGGAAGCAAAACACAAAAGCTAGCTTACCAGTTATGCAAAAGGGTTAATTGGTTAAAGCTAGAGA
66 TGGAAGCAAAACACAAAAGCTAGCTAACCAGTTAAGCAAAAGGGTTAATCGGTTAAAGCTAGAGA
* ** * * *
26122100 CTTAAAGCACTTTGAAGGGCCAAAATTTAAATTCAAAATGAAGTTGACCGTTAAAGGATGTCAAA
131 CTTAAAGCACTTTAAAGCACCAAAATTTAAATTCAAAATGAAGTTGACCATTAAA-GAAGCCAAA
26122165 TGAGAGGCAA
195 TGAGAGGCAA
* * * * *
26122175 TATATAAAAGCAAGGTAGAAAAGCCTTAATTAGTTAGCACCAGTCTTAACTAATTAAGAA-GTG-
1 TATATAAAAACAAGGCAGAAAAGCCTTAATCAGTTAGCACCAGGCTTAACTAATTAAAAAGGTGC
* ** * *
26122238 TAGGAAGCAAAACATAAAAGCTTTCTAATCGGTTAAGCAAAAGGGTTAATCGGTTAAAGCTCA-A
66 T-GGAAGCAAAACACAAAAGCTAGCTAACCAGTTAAGCAAAAGGGTTAATCGGTTAAAGCT-AGA
* ** *
26122302 GACTTGAAGCACTTTAAAGCACCAAAATTTAAATTCAAGGTGAAGTTGACTATTAAAGAAGCCAA
129 GACTTAAAGCACTTTAAAGCACCAAAATTTAAATTCAAAATGAAGTTGACCATTAAAGAAGCCAA
26122367 ATGAGAG
194 ATGAGAG
26122374 ATTTCATATT
Statistics
Matches: 174, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
203 14 0.08
204 104 0.60
205 56 0.32
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.24
Consensus pattern (204 bp):
TATATAAAAACAAGGCAGAAAAGCCTTAATCAGTTAGCACCAGGCTTAACTAATTAAAAAGGTGC
TGGAAGCAAAACACAAAAGCTAGCTAACCAGTTAAGCAAAAGGGTTAATCGGTTAAAGCTAGAGA
CTTAAAGCACTTTAAAGCACCAAAATTTAAATTCAAAATGAAGTTGACCATTAAAGAAGCCAAAT
GAGAGGCAA
Found at i:26132410 original size:26 final size:26
Alignment explanation
Indices: 26132349--26132455 Score: 99
Period size: 27 Copynumber: 4.0 Consensus size: 26
26132339 GGCTGACAAA
*
26132349 TTAGGTTGCTTAGGCTAAACAATGGTT
1 TTAGGTTGTTTA-GCTAAACAATGGTT
* **
26132376 ATATTTTGTGTT-GCTAAACAATGGTT
1 TTAGGTTGT-TTAGCTAAACAATGGTT
**
26132402 TTAGGTTGTTTAGGCCGAACAATGGTT
1 TTAGGTTGTTTA-GCTAAACAATGGTT
**
26132429 TTAGGTTGTTTAGGCCGAACAATGGTT
1 TTAGGTTGTTTA-GCTAAACAATGGTT
26132456 AAATTTTGTG
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
25 2 0.03
26 20 0.29
27 44 0.65
28 2 0.03
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.39
Consensus pattern (26 bp):
TTAGGTTGTTTAGCTAAACAATGGTT
Found at i:26132427 original size:27 final size:27
Alignment explanation
Indices: 26132392--26132455 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
26132382 TGTGTTGCTA
26132392 AACAATGGTTTTAGGTTGTTTAGGCCG
1 AACAATGGTTTTAGGTTGTTTAGGCCG
26132419 AACAATGGTTTTAGGTTGTTTAGGCCG
1 AACAATGGTTTTAGGTTGTTTAGGCCG
26132446 AACAATGGTT
1 AACAATGGTT
26132456 AAATTTTGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.25, C:0.11, G:0.28, T:0.36
Consensus pattern (27 bp):
AACAATGGTTTTAGGTTGTTTAGGCCG
Found at i:26150521 original size:17 final size:16
Alignment explanation
Indices: 26150490--26150525 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
26150480 ATGCTGATGC
26150490 ATATATATATATATGG
1 ATATATATATATATGG
*
26150506 ATATATGATATGTATGG
1 ATATAT-ATATATATGG
26150523 ATA
1 ATA
26150526 AGTAATATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (16 bp):
ATATATATATATATGG
Found at i:26154458 original size:2 final size:2
Alignment explanation
Indices: 26154453--26154484 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
26154443 ATGTGTGCGT
26154453 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
26154485 TGTTTACCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:26167601 original size:18 final size:18
Alignment explanation
Indices: 26167578--26167615 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
26167568 TACATATAAG
26167578 AACCATCAGCCACAAACT
1 AACCATCAGCCACAAACT
26167596 AACCATCAGCCACAAACT
1 AACCATCAGCCACAAACT
26167614 AA
1 AA
26167616 GTAGGAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.37, G:0.05, T:0.11
Consensus pattern (18 bp):
AACCATCAGCCACAAACT
Found at i:26171416 original size:25 final size:25
Alignment explanation
Indices: 26171388--26171445 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
26171378 TTAATAAACG
26171388 TAATTATAGGAATTAGAAATCACCA
1 TAATTATAGGAATTAGAAATCACCA
* * *
26171413 TAATTATAGGAATTGGGAATCATCA
1 TAATTATAGGAATTAGAAATCACCA
26171438 TAATTATA
1 TAATTATA
26171446 AGGATTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.33
Consensus pattern (25 bp):
TAATTATAGGAATTAGAAATCACCA
Found at i:26179575 original size:20 final size:18
Alignment explanation
Indices: 26179533--26179577 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
26179523 GAGAGCTCAC
*
26179533 AGAGAAAAACCCTAAGAG
1 AGAGAAAAACACTAAGAG
26179551 AGAGAAAAACAACTATAGAG
1 AGAGAAAAAC-ACTA-AGAG
*
26179571 TGAGAAA
1 AGAGAAA
26179578 CAGAGACCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 10 0.43
19 3 0.13
20 10 0.43
ACGTcount: A:0.58, C:0.11, G:0.22, T:0.09
Consensus pattern (18 bp):
AGAGAAAAACACTAAGAG
Found at i:26181147 original size:26 final size:26
Alignment explanation
Indices: 26181118--26181175 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
26181108 AGAAGATCCT
*
26181118 TCCACAAGTGTTATGTCTTGTGATGA
1 TCCAAAAGTGTTATGTCTTGTGATGA
26181144 TCCAAAAGTGTTATGTCTTGTGATGA
1 TCCAAAAGTGTTATGTCTTGTGATGA
26181170 TCCAAA
1 TCCAAA
26181176 TGAAAATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.36
Consensus pattern (26 bp):
TCCAAAAGTGTTATGTCTTGTGATGA
Found at i:26198311 original size:30 final size:30
Alignment explanation
Indices: 26198275--26198333 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
26198265 GTCACATGAT
26198275 GTGGGTTATAACATGCCACAAGTAAAAAAA
1 GTGGGTTATAACATGCCACAAGTAAAAAAA
* * * *
26198305 GTGGGTTTTAACATGTCGCGAGTAAAAAA
1 GTGGGTTATAACATGCCACAAGTAAAAAA
26198334 TAAATTTCGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (30 bp):
GTGGGTTATAACATGCCACAAGTAAAAAAA
Found at i:26201765 original size:29 final size:29
Alignment explanation
Indices: 26201689--26201865 Score: 137
Period size: 29 Copynumber: 6.2 Consensus size: 29
26201679 TTTTATTTTT
* *
26201689 TTAGG-ATGGCATGTTGCATTTTCTCATG
1 TTAGGCATGGCATGTTGCATATTCGCATG
* * ***
26201717 TTAGGTACGATGTGTTGCATATTCGCATG
1 TTAGGCATGGCATGTTGCATATTCGCATG
* * * *
26201746 TTAGGGATGGCATGTGGCATATTGGCAAG
1 TTAGGCATGGCATGTTGCATATTCGCATG
* *
26201775 TTAGTCATGGCATGTTGCATAATCGCCA-G
1 TTAGGCATGGCATGTTGCATATTCG-CATG
* *
26201804 TTAGGCAT-G-ATGCTTGCATATTTGCTTG
1 TTAGGCATGGCATG-TTGCATATTCGCATG
* * *
26201832 TTAGGCATGGCATGTCGCATTTTCACATG
1 TTAGGCATGGCATGTTGCATATTCGCATG
*
26201861 GTAGG
1 TTAGG
26201866 GTTAGCGGGT
Statistics
Matches: 114, Mismatches: 29, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
27 4 0.04
28 24 0.21
29 81 0.71
30 5 0.04
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.36
Consensus pattern (29 bp):
TTAGGCATGGCATGTTGCATATTCGCATG
Found at i:26202181 original size:144 final size:144
Alignment explanation
Indices: 26201945--26202224 Score: 344
Period size: 144 Copynumber: 1.9 Consensus size: 144
26201935 TAGGCAAGGC
* * * ** *** * *
26201945 GTGTTGCATTTCGTTTGTTATGCATGGTGGCTCGCATATTTGCATAGTAGGCATGGCGTTTTACA
1 GTGTTGCATTTCGCTTGCTACGCATGGCAGCTCGCATATTCAAATAGTAGGCATGGCGTGTCACA
* * * *
26202010 TATTCCCATGTTAGGGTTAACGTGTGGCATATGCACATGTCAGGCATGGCGTTTCGCATAATCGC
66 TATTCCCATGTTAGGGTTAACATGTGGCATATGCACATGTCAGGCATGGCATGTCACATAATCGC
26202075 TAGTTATGTATGGT
131 TAGTTATGTATGGT
* * *
26202089 GTGTTGCATTTCGCTTGCTACGCATGGCATCTCGCATATTCAAATAGTATGCATGGCGTGTCGCA
1 GTGTTGCATTTCGCTTGCTACGCATGGCAGCTCGCATATTCAAATAGTAGGCATGGCGTGTCACA
* * ** * * *
26202154 TATTCGCATGTTAGGTTTGGCATGTGGCATATGCGCATGTTAGGCATGGTATGTCACATAATCGC
66 TATTCCCATGTTAGGGTTAACATGTGGCATATGCACATGTCAGGCATGGCATGTCACATAATCGC
26202219 TAGTTA
131 TAGTTA
26202225 GGCATGACAT
Statistics
Matches: 112, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
144 112 1.00
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.35
Consensus pattern (144 bp):
GTGTTGCATTTCGCTTGCTACGCATGGCAGCTCGCATATTCAAATAGTAGGCATGGCGTGTCACA
TATTCCCATGTTAGGGTTAACATGTGGCATATGCACATGTCAGGCATGGCATGTCACATAATCGC
TAGTTATGTATGGT
Found at i:26202313 original size:29 final size:29
Alignment explanation
Indices: 26202110--26202426 Score: 176
Period size: 29 Copynumber: 11.0 Consensus size: 29
26202100 CGCTTGCTAC
* ** *
26202110 GCATGGCATCTCGCATATTCAAATAG-TAT
1 GCATGGCATGTCGCATATTCGCAT-GTTAG
*
26202139 GCATGGCGTGTCGCATATTCGCATGTTAG
1 GCATGGCATGTCGCATATTCGCATGTTAG
** * *
26202168 GTTTGGCATGTGGCATATGCGCATGTTAG
1 GCATGGCATGTCGCATATTCGCATGTTAG
* * *
26202197 GCATGGTATGTCACATAATCGC-TAGTTAG
1 GCATGGCATGTCGCATATTCGCAT-GTTAG
* ** *
26202226 GCATGACATGTCGCATATTCGTTTGTTAT
1 GCATGGCATGTCGCATATTCGCATGTTAG
* * * *
26202255 GCATGGCGTGTC-CAGTTTTCACATGGTAG
1 GCATGGCATGTCGCA-TATTCGCATGTTAG
* *
26202284 GCATGGCATGTCGCATATTCGCCTATTAG
1 GCATGGCATGTCGCATATTCGCATGTTAG
* * * * *
26202313 G-GTTGCCTGTTGCATATTCG-TTAGTTAG
1 GCATGGCATGTCGCATATTCGCAT-GTTAG
* * * * ** *
26202341 GCATGTCTTGTCACATATTTGCCGGTTAT
1 GCATGGCATGTCGCATATTCGCATGTTAG
* * * *
26202370 GCATGGCTTGTTGCATATTTGCATGTTTG
1 GCATGGCATGTCGCATATTCGCATGTTAG
* * * * *
26202399 TCATTGCTTGTAGCATATGCGCATGTTA
1 GCATGGCATGTCGCATATTCGCATGTTA
26202427 TGAAGCGCAT
Statistics
Matches: 214, Mismatches: 66, Indels: 16
0.72 0.22 0.05
Matches are distributed among these distances:
27 1 0.00
28 24 0.11
29 186 0.87
30 3 0.01
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (29 bp):
GCATGGCATGTCGCATATTCGCATGTTAG
Found at i:26202452 original size:14 final size:14
Alignment explanation
Indices: 26202417--26202444 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
26202407 TGTAGCATAT
26202417 GCGCATGTTATGAA
1 GCGCATGTTATGAA
26202431 GCGCATGTTATGAA
1 GCGCATGTTATGAA
26202445 TGGCATGTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (14 bp):
GCGCATGTTATGAA
Found at i:26213485 original size:13 final size:14
Alignment explanation
Indices: 26213461--26213493 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
26213451 CCTAGACAAG
26213461 CAAAAT-CATA-TT
1 CAAAATCCATATTT
26213473 CAAAATCCATATTT
1 CAAAATCCATATTT
26213487 CAAAATC
1 CAAAATC
26213494 ATGGGTGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 4 0.21
14 9 0.47
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.30
Consensus pattern (14 bp):
CAAAATCCATATTT
Done.