Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold33
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: 2032796
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 48244 characters in sequence are not A, C, G, or T
File 1 of 13
Found at i:2904 original size:52 final size:52
Alignment explanation
Indices: 2828--2967 Score: 192
Period size: 52 Copynumber: 2.7 Consensus size: 52
2818 ATTTAACTGG
* ** * *
2828 ATGTATCGATACATTGAATTATGTATTGATACATTTA-AGTCAAAAACCCAGA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTAGA-TCAAAAACCCAAA
*
2880 ATGTATCGATACAATGAAAAATGTATCGATACATTTAGATTAAAAACCCAAA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTAGATCAAAAACCCAAA
* *
2932 ATGTATCGATACAATAAAAAACGTATCGATACATTT
1 ATGTATCGATACAATGAAAAATGTATCGATACATTT
2968 TCTTTCCAGA
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
52 78 0.99
53 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (52 bp):
ATGTATCGATACAATGAAAAATGTATCGATACATTTAGATCAAAAACCCAAA
Found at i:3640 original size:47 final size:48
Alignment explanation
Indices: 3561--3667 Score: 144
Period size: 47 Copynumber: 2.2 Consensus size: 48
3551 ATGCAACATA
* * * *
3561 TATCGATACATCTAAGTTTTTCAGATTGTATCGATATAATGAATAATG
1 TATCGATACATCTAAATTTCTCAGATTGTATCGATACAATCAATAATG
* *
3609 TATTGATACATCTAAATTTCT-AGATTGTATCGATACAATCACTAATG
1 TATCGATACATCTAAATTTCTCAGATTGTATCGATACAATCAATAATG
*
3656 TATCGACACATC
1 TATCGATACATC
3668 CATTACATTA
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 33 0.65
48 18 0.35
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (48 bp):
TATCGATACATCTAAATTTCTCAGATTGTATCGATACAATCAATAATG
Found at i:3852 original size:22 final size:21
Alignment explanation
Indices: 3806--3855 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
3796 ATCCATCAAT
* *
3806 TCTTCTTCTTCCATTAACTCA
1 TCTTCTTCTTCCATAAAATCA
3827 TCTTCATTCTTCCATCAAAATC-
1 TCTTC-TTCTTCCAT-AAAATCA
3849 TCTTCTT
1 TCTTCTT
3856 AACCATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 7 0.28
22 14 0.56
23 4 0.16
ACGTcount: A:0.20, C:0.32, G:0.00, T:0.48
Consensus pattern (21 bp):
TCTTCTTCTTCCATAAAATCA
Found at i:6187 original size:21 final size:21
Alignment explanation
Indices: 6161--6219 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
6151 ATACAAGTGA
6161 AAATGTATCGATACATTATGT
1 AAATGTATCGATACATTATGT
* * *
6182 AAATGTATTGACACATCATGT
1 AAATGTATCGATACATTATGT
* *
6203 GAATATATCGATACATT
1 AAATGTATCGATACATT
6220 TTGTTGGCAG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.36
Consensus pattern (21 bp):
AAATGTATCGATACATTATGT
Found at i:6299 original size:20 final size:20
Alignment explanation
Indices: 6276--6341 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
6266 TACAAATGTG
6276 AATGTATCAACACAATTCA-A
1 AATGTATCAACA-AATTCATA
* *
6296 AATGTATCGATAAATTCATA
1 AATGTATCAACAAATTCATA
*
6316 AATGTATCATA-AATTTCAT-
1 AATGTATCA-ACAAATTCATA
6335 AATGTAT
1 AATGTAT
6342 TGATTCATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 13 0.32
20 26 0.65
21 1 0.03
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (20 bp):
AATGTATCAACAAATTCATA
Found at i:6313 original size:19 final size:18
Alignment explanation
Indices: 6289--6341 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 18
6279 GTATCAACAC
6289 AATTCAAAATGTATCGATA
1 AATTCAAAATGTATC-ATA
6308 AATTCATAAATGTATCATA
1 AATTCA-AAATGTATCATA
*
6327 AATTTCATAATGTAT
1 AA-TTCAAAATGTAT
6342 TGATTCATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (18 bp):
AATTCAAAATGTATCATA
Found at i:9907 original size:144 final size:153
Alignment explanation
Indices: 9753--10072 Score: 343
Period size: 144 Copynumber: 2.1 Consensus size: 153
9743 TACCTTATCA
* * * * *
9753 GAAGCCCGAAAATATATGAAAAATTTTTGAAATCTTTTATACCCCTATAGACGCCCA-TA-AAAA
1 GAAGCCCGAAAAGATACGAAAAACTTTTGAAACCTTTTATACCCCCATAGACGCCCATTAGAAAA
** * *
9816 T-ATAGA-AG-ATTATAATT-TTT-T-TCGAAAGTATTAATTCAATTTAA-TTTTATTTATTTCA
66 TCATAGATAGAAAAATAATTATTTATCTCAAAAGCATTAATTCAATTTAATTTTTATTTATTTCA
*
9874 AAAATACTATTTTATACCCTAAT
131 AAAATACCATTTTATACCCTAAT
* ** * * * * *
9897 GAAGCCCGAAAGGATACGAAATGCTTTTGAAACCTTTTATACCCCCATGGATGTCTATTAGAATA
1 GAAGCCCGAAAAGATACGAAAAACTTTTGAAACCTTTTATACCCCCATAGACGCCCATTAGAAAA
9962 TCATAGATTAGAAAAAATAATTAAAATTTATCTCAAAAGCATTAATTCAATTTAATTTTTATTTA
66 TCATAGA-TAG-AAAAATAATT---ATTTATCTCAAAAGCATTAATTCAATTTAATTTTTATTTA
*
10027 TTTCAAAAATACCATTTTGTACCCTAAT
126 TTTCAAAAATACCATTTTATACCCTAAT
*
10055 GAAAGCCCGAAAGGATAC
1 G-AAGCCCGAAAAGATAC
10073 TGTCGATATA
Statistics
Matches: 142, Mismatches: 19, Indels: 15
0.81 0.11 0.09
Matches are distributed among these distances:
144 45 0.32
145 2 0.01
146 4 0.03
147 5 0.04
149 2 0.01
151 7 0.05
155 3 0.02
156 1 0.01
157 21 0.15
158 36 0.25
159 16 0.11
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (153 bp):
GAAGCCCGAAAAGATACGAAAAACTTTTGAAACCTTTTATACCCCCATAGACGCCCATTAGAAAA
TCATAGATAGAAAAATAATTATTTATCTCAAAAGCATTAATTCAATTTAATTTTTATTTATTTCA
AAAATACCATTTTATACCCTAAT
Found at i:11445 original size:20 final size:20
Alignment explanation
Indices: 11417--11491 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
11407 TCATACCCTG
11417 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
11437 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
11457 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
11477 ATGTATCGATACATT
1 ATGTATCGATACATT
11492 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:11484 original size:40 final size:39
Alignment explanation
Indices: 11417--11494 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
11407 TCATACCCTG
* *
11417 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
11457 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
11495 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:23449 original size:11 final size:11
Alignment explanation
Indices: 23429--23463 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
23419 CCGTTACACC
23429 CAAAAAAAAAA
1 CAAAAAAAAAA
23440 CAAAACAAAAAAA
1 C-AAA-AAAAAAA
23453 CAAAAAAAAAA
1 CAAAAAAAAAA
23464 TAGCAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 8 0.36
12 6 0.27
13 8 0.36
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:23470 original size:14 final size:12
Alignment explanation
Indices: 23430--23473 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 12
23420 CGTTACACCC
23430 AAAAAAAAAACA
1 AAAAAAAAAACA
23442 AAACAAAAAAACA
1 AAA-AAAAAAACA
23455 AAAAAAAAATAGCA
1 AAAAAAAAA-A-CA
23469 AAAAA
1 AAAAA
23474 TAGAAGGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.31
13 13 0.45
14 7 0.24
ACGTcount: A:0.86, C:0.09, G:0.02, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAACA
Found at i:24883 original size:32 final size:32
Alignment explanation
Indices: 24695--25710 Score: 1575
Period size: 32 Copynumber: 32.2 Consensus size: 32
24685 TGTTCATCCC
*
24695 TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAAC-CCA
* * *
24724 TTTCAAAGCCCACA-AA-TCAGTGGC-ACTCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
24753 TTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
24781 TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAAC-CCA
* ** *
24810 TTTCAAAG-CC-TACAAGTTAGTGGC-ACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
24839 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
24871 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
24903 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
24935 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
24967 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
24999 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
25031 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
25063 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
25095 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
25127 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
25159 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
25191 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
25223 TTCCAAAGCCCACACAAGTCGGTGGCAACCCC
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
25255 TTTCAAAGCCCACACAAGTCGGTGGCAACTCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAAC-CCA
25287 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
25319 TTTCAAACCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
25351 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
25383 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
25415 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
25447 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
25479 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
25511 TTTCAAAGCCCACATAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
25543 TTTCAAAGCCCACACAAGTCGGTAGCAAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGC-AACCCA
*
25576 TTTCAAAACCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
25608 TTCCAAAGCCCACACAAGTCGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
25640 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* ** * *
25672 TTTAAAAGCCCATGCAAGTCAGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
25704 TTTCAAA
1 TTTCAAA
25711 TCACCATATT
Statistics
Matches: 938, Mismatches: 36, Indels: 23
0.94 0.04 0.02
Matches are distributed among these distances:
27 2 0.00
28 32 0.03
29 71 0.08
30 6 0.01
31 15 0.02
32 780 0.83
33 32 0.03
ACGTcount: A:0.31, C:0.35, G:0.18, T:0.16
Consensus pattern (32 bp):
TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
Found at i:25909 original size:49 final size:49
Alignment explanation
Indices: 25780--25898 Score: 229
Period size: 49 Copynumber: 2.4 Consensus size: 49
25770 ATTTATGACC
25780 CCAATGTCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGT
25829 CCAATGTCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGT
*
25878 CCAATGTCGCTGGTCTTGAAT
1 CCAATGTCGCTGGCCTTGAAT
25899 TGGCATATTG
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.18, C:0.29, G:0.19, T:0.33
Consensus pattern (49 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGT
Found at i:26315 original size:20 final size:20
Alignment explanation
Indices: 26287--26361 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
26277 TCATACCCTG
26287 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
26307 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
26327 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
26347 ATGTATCGATACATT
1 ATGTATCGATACATT
26362 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:26354 original size:40 final size:39
Alignment explanation
Indices: 26287--26364 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
26277 TCATACCCTG
* *
26287 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
26327 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
26365 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:33060 original size:42 final size:42
Alignment explanation
Indices: 32881--33421 Score: 342
Period size: 42 Copynumber: 13.0 Consensus size: 42
32871 ACTTGAGTAC
* * * *
32881 AAAAGGAAAAAAAGTACATCCTACT-TTTCGATGAC-AAAG-G
1 AAAAGGAAATAAAGTGCATCCTGCTCTTT-GAGGACAAAAGAG
* ** * * * *
32921 AATAAGGAGAATAAAATGTGTTCTGCTCTTTGAGGATAAAGGAAA
1 AA-AAGGA-AATAAAGTGCATCCTGCTCTTTGAGGACAAAAG-AG
* * * * * * *
32966 AAAAGGAGATGAAGTGCATCCTACTGTTTAAGGACAAAGGGAA
1 AAAAGGAAATAAAGTGCATCCTGCTCTTTGAGGACAAA-AGAG
* *
33009 AAGAAGGAAATAAAGTGCGTCCTGCTCTTTGAGGGCAAAAGAG
1 AA-AAGGAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAGAG
* * * *
33052 AAAAGGAAACAAAGTGTATCTTGCTCTTTGA-GA-ATAAAGAAA
1 AAAAGGAAATAAAGTGCATCCTGCTCTTTGAGGACA-AAAG-AG
* * * *
33094 AAAAGAAAATGAAGTGCGTCATGCTCTTTGAGGAC-AAAG-G
1 AAAAGGAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAGAG
*** * *
33134 AAAA--AAATAAAGTATGTCTTGCTCTTTGAGGAC-AAAGAAA
1 AAAAGGAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAG-AG
* * *
33174 AAAAAGAAATAAAGTGCATCTTACTCTTTGAGGACAAAAGAG
1 AAAAGGAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAGAG
* * * * * *
33216 CAAAGGAGATAAAGTGCATCCTACTCCTTGAGGACAAAGGAAA
1 AAAAGGAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAG-AG
** *
33259 AAAAGGAAATGTAGTGCATCCTGCTCTTTGAGGACAAAGGAG
1 AAAAGGAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAGAG
* * * * *
33301 AAAAGAAAATGAAA-TGCATCTTACTTTTTGAGGACAAAGGAG
1 AAAAGGAAAT-AAAGTGCATCCTGCTCTTTGAGGACAAAAGAG
* * *
33343 AAAAGGAAATAAA--GCATGTCCTACTTTTTGAAGACAAAA-AG
1 AAAAGGAAATAAAGTGCA--TCCTGCTCTTTGAGGACAAAAGAG
* *
33384 AAAA--AAAGAAA-TGCGTCCTGCTCTTTGAGGACTAAAAG
1 AAAAGGAAATAAAGTGCATCCTGCTCTTTGAGGAC-AAAAG
33422 GTGCCACCAA
Statistics
Matches: 395, Mismatches: 82, Indels: 48
0.75 0.16 0.09
Matches are distributed among these distances:
38 43 0.11
39 10 0.03
40 16 0.04
41 19 0.05
42 192 0.49
43 77 0.19
44 36 0.09
45 2 0.01
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.21
Consensus pattern (42 bp):
AAAAGGAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAGAG
Found at i:33365 original size:127 final size:122
Alignment explanation
Indices: 32946--33415 Score: 398
Period size: 122 Copynumber: 3.8 Consensus size: 122
32936 ATGTGTTCTG
* * * * * *
32946 CTCTTTGAGGATAAAGGAAAAAAAGGAGATGAAGTGCATCCTACTGTTTAAGGACAAAGGGAAAA
1 CTCTTTGAGGACAAAGG-AGAAAAGGAAATAAAGTG--TCCTACTCTTTGAGGACAAA-GGAAAA
* ** * * * * *
33011 GAAGGAAATAAAGTGCGTCCTGCTCTTTGAGGGCAAAAGAGAAAAGGAAACAAAGTGTATCTTG
62 -AAAGAAATGTAGTGC-TCCTGCTCTTTGAGGAC-AAAGAGAAAAGAAAATAAAGTGCATCTTA
* * * * * * * *
33075 CTCTTTGAGAATAAAGAAAAAAAGAAAATGAAGTGCGTCATGCTCTTTGAGGACAAAGGAAAAAA
1 CTCTTTGAGGACAAAGGAGAAAAGGAAATAAAGT--GTCCTACTCTTTGAGGACAAAGGAAAAAA
* * * *
33140 ATAAA-GTA-TG-TCTTGCTCTTTGAGGACAAAGAAAAAAAAGAAATAAAGTGCATCTTA
64 AGAAATGTAGTGCTCCTGCTCTTTGAGGACAAAGAGAAAAGA-AAATAAAGTGCATCTTA
* * * *
33197 CTCTTTGAGGACAAAAGAGCAAAGGAGATAAAGTGCATCCTACTCCTTGAGGACAAAGGAAAAAA
1 CTCTTTGAGGACAAAGGAGAAAAGGAAATAAAGTG--TCCTACTCTTTGAGGACAAAGGAAAAAA
33262 AGGAAATGTAGTGCATCCTGCTCTTTGAGGACAAAGGAGAAAAGAAAATGAAA-TGCATCTTA
64 A-GAAATGTAGTGC-TCCTGCTCTTTGAGGACAAA-GAGAAAAGAAAAT-AAAGTGCATCTTA
* * * *
33324 CTTTTTGAGGACAAAGGAGAAAAGGAAATAAAGCATGTCCTACTTTTTGAAGACAAAAAGAAAAA
1 CTCTTTGAGGACAAAGGAGAAAAGGAAATAAAG--TGTCCTACTCTTTGAGGAC-AAAGGAAAAA
*
33389 AAGAAA--T-GCG-TCCTGCTCTTTGAGGAC
63 AAGAAATGTAGTGCTCCTGCTCTTTGAGGAC
33416 TAAAAGGTGC
Statistics
Matches: 281, Mismatches: 45, Indels: 37
0.77 0.12 0.10
Matches are distributed among these distances:
120 1 0.00
121 9 0.03
122 97 0.35
123 3 0.01
124 7 0.02
125 4 0.01
126 5 0.02
127 85 0.30
128 52 0.19
129 17 0.06
130 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (122 bp):
CTCTTTGAGGACAAAGGAGAAAAGGAAATAAAGTGTCCTACTCTTTGAGGACAAAGGAAAAAAAG
AAATGTAGTGCTCCTGCTCTTTGAGGACAAAGAGAAAAGAAAATAAAGTGCATCTTA
Found at i:33617 original size:61 final size:61
Alignment explanation
Indices: 33399--34702 Score: 1030
Period size: 61 Copynumber: 21.4 Consensus size: 61
33389 AAGAAATGCG
* * *
33399 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAAAAAAGG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-G--AAAAAGAGC
* * * * * *
33463 TCCTCCTCTTTAAGGGCTAAAA-GTGCCACCAACTCGTGTGAGCTTTAAAAGAAAAAAAAATG-
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG--AAAAAGA-GC
** * **
33525 TTATGCTCTTTAAGGACTAAAAGGTATCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAGC
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAGC
* * * * * *
33586 TTCTACTTTTTGAGGACTAAAACGTGCCACCAACTCGTGTAGGCTTTAAAAGAAAAA-AGC
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAGC
* * ** * *
33646 ATCCTACTCTTTGAGGA-TCAAAAGGTGCCACCAACTCGTGTAAGCTTTAAAAAGAAAAAAAAC
1 -TCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGAGC
* * * * * * * *
33709 AT-CTCGCTTTTTGAGGACTATAAGAT-TCACTAACTTGTGTGGGCTCTAAAAG-GAAAGCG-
1 -TCCT-GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAGC
* * **
33768 TCCTACTCTTTGAGGACTAAAATGTGCCACCAACTCATGTGGGCTTT--AA-AAAAAG-GC
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAGC
* * *
33825 ATCCTACTCTTTCAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAG-GC
1 -TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAGC
* * * * * * *
33886 GTCTTGCTCTTTTACGACTAAAAAGTGCCACCAACTCT-TATGGGTTTTAAAA-AAAAAAAGC
1 -TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACT-TGTGTGGGCTTTAAAAGAAAAAGAGC
* *
33947 GTCCTGCTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAG-AAAAGA-C
1 -TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAGC
* * ** *
34007 GTCATGCTCTTTGAGGACTAAAAAGTGCCA-CAAGCTCATGTGAGCTTT--AA-AAAAAG-GC
1 -TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAA-CTTGTGTGGGCTTTAAAAGAAAAAGAGC
* * * ** * *
34065 ATCTTGCTCTTTGAGGACTACAAGGTGCTACCAACTCATGTGGCCTTTAAAAGAAAAAGGTGC
1 -TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAA-GAGC
* * * * *
34128 -CCTGCTCTTTAAGGACTAAAAGGTGCCACTAACTTATGTGGGCTTTAAAAGAAAAAAAGGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGA-G-C
* * * * * * *
34190 TCCTGCTTTTTGAGGACTAAAA-ATGCCACCAACTCT-TAG-AGGTTTTAAAAAGAGAAGGTGC
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACT-TGT-GTGGGCTTT-AAAAGAAAAAGAGC
* *
34251 -CCTACTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG-AAAAG-GC
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAGC
* * * * *
34309 GTCATGCTCTTTAAGGA-TAAAAAGTGACAGCAA-TTCGTGTGGGCTTTAAAA-ATAAAA-AGC
1 -TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTT-GTGTGGGCTTTAAAAGA-AAAAGAGC
* * * * * * * *
34369 ATCCTACTTTTTAAAGACTAAAAAGTGCCACCAACTCGTGTAGGTTTTAAAAAGAAAAAG-GC
1 -TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGAGC
* * ** *
34431 GTCCTGCTCTTTAAGGACTAAAAGTTGCCACCAACTCATATGGGCTTTAAAAAGAAAAAG-GC
1 -TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGAGC
* * *
34493 AACCTGCTCTTTGAGGACTAAAAGTTGCCACCAACTTGTGTGGGCTTCAAAAAGAAAAAGATG-
1 -TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTT-TAAAAGAAAAAGA-GC
* * * * * * *
34556 TCTTGCTCTTTAAGTACTAAAAGGTGCCACCAACTCGTTTGGTCTTTGAAAAGCAAAAG-GC
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGAGC
* * *
34617 ATCCTACTCTTTGAGAACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG-AAAATA-C
1 -TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGAGC
34678 TTCCTGCTCTTTGAGGACTAAAAGG
1 -TCCTGCTCTTTGAGGACTAAAAGG
34703 ATAAAAGGGG
Statistics
Matches: 1012, Mismatches: 171, Indels: 117
0.78 0.13 0.09
Matches are distributed among these distances:
56 1 0.00
57 6 0.01
58 110 0.11
59 55 0.05
60 113 0.11
61 322 0.32
62 282 0.28
63 102 0.10
64 21 0.02
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAGC
Found at i:33795 original size:121 final size:122
Alignment explanation
Indices: 33399--34674 Score: 732
Period size: 124 Copynumber: 10.5 Consensus size: 122
33389 AAGAAATGCG
* * * *
33399 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAAAAA-AGG
1 TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAAACA--
* * * * * **
33463 TCCTCCTCTTTAAGGGCTAAAA-GTGCCACCAACTCGTGT-GAGCTTTAAAAGAAAAAAAAA
64 T-CTACTTTTTGAGGACTAAAACGTGCCACCAACTCGTGTAG-GCTCTAAAAG-AAAAAGCA
** * ** * * * *
33523 TGTTATGCTCTTTAAGGACTAAAAGGTATCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGAGCT
1 TCCTA--CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAAACA
*
33587 TCTACTTTTTGAGGACTAAAACGTGCCACCAACTCGTGTAGGCTTTAAAAGAAAAAAGCA
64 TCTACTTTTTGAGGACTAAAACGTGCCACCAACTCGTGTAGGCTCTAAAAG-AAAAAGCA
**
33647 TCCTACTCTTTGAGGA-TCAAAAGGTGCCACCAACTCGTGTAAGCTTTAAAAAGAAAAAAAACAT
1 TCCTACTCTTTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAAACAT
* * * * * * * *
33711 CTCGCTTTTTGAGGACTATAA-GAT-TCACTAACTTGTGTGGGCTCTAAAAG-GAAAGCG
65 CT-ACTTTTTGAGGACTAAAACG-TGCCACCAACTCGTGTAGGCTCTAAAAGAAAAAGCA
* * **
33768 TCCTACTCTTTGAGGACTAAAATGTGCCACCAACTCATGTGGGCTTT----A-AAAAAAGGCATC
1 TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAAACAT-
* * * * * *
33828 CTACTCTTTCAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCG
65 CTACTTTTTGAGGACTAAAACGTGCCACCAACTCGTGTAGGCTCTAAAAGAAAAA-GCA
* * * * * * * * * *
33887 TCTTGCTCTTTTACGACTAAAAAGTGCCACCAACTCTTATGGG-TTTTAAAA-AAAAAAAGCGTC
1 TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAAACAT-
* * * * * * *
33950 CTGCTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAG-AAAAGACG
65 CTACTTTTTGAGGACTAAAACGTGCCACCAACTCGTGTAGGCTCTAAAAGAAAAAG-CA
* * * * * **
34008 TCATGCTCTTTGAGGACTAAAAAGTGCCA-CAAGCTCATGTGAGCTTT----A-AAAAAAGGCAT
1 TCCTACTCTTTGAGGACTAAAAGGTGCCACCAA-CTCGTGTGGGCTTTAAAAAGAAAAAAAACAT
* * * * * * * *
34067 CTTGCTCTTTGAGGACTACAAGGTGCTACCAACTCATGT-GGCCTTTAAAAGAAAAAG-G
65 C-TACTTTTTGAGGACTAAAACGTGCCACCAACTCGTGTAGG-CTCTAAAAGAAAAAGCA
* * * ** **
34125 TGCCCTGCTCTTTAAGGACTAAAAGGTGCCACTAACTTATGTGGGCTTT-AAAAGAAAAAAAGGT
1 T--CCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAA-AC
* * * * * * * * **
34189 GTCCTGCTTTTTGAGGACTAAAA-ATGCCACCAACTCTTAG-AGGTTTTAAAAAGAGAAGGTG
63 AT-CTACTTTTTGAGGACTAAAACGTGCCACCAACTCGT-GTAGGCTCT-AAAAGAAAAAGCA
* * * ** *
34250 CCCTACTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG--AAAAGGCGTC
1 TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAAACATC
* * * * * * * * * *
34312 ATGCTCTTTAAGGA-TAAAAAGTGACAGCAATTCGTGTGGGCTTTAAAAATAAAAAGCA
66 -TACTTTTTGAGGACTAAAACGTGCCACCAACTCGTGTAGGCTCT-AAAAGAAAAAGCA
* * * * * * ** *
34370 TCCTACTTTTTAAAGACTAAAAAGTGCCACCAACTCGTGTAGGTTTTAAAAAG-AAAAAGGCGTC
1 TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAAACAT-
* * * * * * *
34434 CTGCTCTTTAAGGACTAAAA-GTTGCCACCAACTCATATGGGCTTTAAAAAGAAAAAGGCA
65 CTACTTTTTGAGGACTAAAACG-TGCCACCAACTCGTGTAGGCTCT-AAAAGAAAAA-GCA
* * * * * * **
34494 ACCTGCTCTTTGAGGACTAAAAGTTGCCACCAACTTGTGTGGGCTTCAAAAAG-AAAAAGATGTC
1 TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAAACATC
* * * * * * * *
34558 TTGCTCTTTAAGTACTAAAAGGTGCCACCAACTCGT-TTGGTCTTTGAAAAGCAAAAGGCA
66 -TACTTTTTGAGGACTAAAACGTGCCACCAACTCGTGTAGG-CTCT-AAAAG-AAAAAGCA
* * *
34618 TCCTACTCTTTGAGAACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAA
1 TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAA
34675 TACTTCCTGC
Statistics
Matches: 946, Mismatches: 154, Indels: 103
0.79 0.13 0.09
Matches are distributed among these distances:
116 24 0.03
117 31 0.03
118 57 0.06
119 88 0.09
120 84 0.09
121 95 0.10
122 119 0.13
123 158 0.17
124 231 0.24
125 21 0.02
126 38 0.04
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (122 bp):
TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAAACATC
TACTTTTTGAGGACTAAAACGTGCCACCAACTCGTGTAGGCTCTAAAAGAAAAAGCA
Found at i:33916 original size:240 final size:241
Alignment explanation
Indices: 33399--34701 Score: 1136
Period size: 240 Copynumber: 5.4 Consensus size: 241
33389 AAGAAATGCG
* * * * * *
33399 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAAAAAAGGT
1 TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTAGGCTTTAAAAAG-AAAAAAAACGT
* * * ** *
33464 CCTCCTCTTTAAGGGCTAAAAG-TGCCACCAACTCGTGT-GAGCTTTAAAAGAAAAAAAAATGTT
65 CCTGCTCTTTAAGGACTAAAAGATGCCACCAACTTGTGTAG-GCTTTAAAAG----AAAAGCGTC
* * * ** * *
33527 ATGCTCTTTAAGGACTAAAAGGTATCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAGC-TTCTA
125 CTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT--AA-AAAAAG-GCATCCTG
* * * * *
33591 CTTTTTGAGGACTAAAACGTGCCACCAACTCGTGTAGGCTTTAAAAGAAAAAAGCA
186 CTCTTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCA
* *
33647 TCCTACTCTTTGAGGA-TCAAAAGGTGCCACCAACTCGTGTAAGCTTTAAAAAGAAAAAAAACAT
1 TCCTACTCTTTGAGGACT-AAAAGGTGCCACCAACTCGTGTAGGCTTTAAAAAGAAAAAAAACGT
* * * * * * * *
33711 -CTCGCTTTTTGAGGACTATAAGAT-TCACTAACTTGTGTGGGCTCTAAAAGGAAAGCGTCCTAC
65 CCT-GCTCTTTAAGGACTAAAAGATGCCACCAACTTGTGTAGGCTTTAAAAGAAAAGCGTCCTAC
* ** * *
33774 TCTTTGAGGACTAAAATGTGCCACCAACTCATGTGGGCTTTAAAAAAAGGCATCCTACTCTTTCA
129 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAGGCATCCTGCTCTTTAA
*
33839 GGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCG
194 GGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCA
* * * * * * * *
33887 TCTTGCTCTTTTACGACTAAAAAGTGCCACCAACTC-T-TATGGGTTTTAAAA-AAAAAAAGCGT
1 TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTA-GGCTTTAAAAAGAAAAAAAACGT
* * *
33949 CCTGCTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGAAAAGACGTCATGC
65 CCTGCTCTTTAAGGACTAAAAGATGCCACCAACTTGTGTAGGCTTTAAAAGAAAAG-CGTCCTAC
* ** * * *
34014 TCTTTGAGGACTAAAAAGTGCCA-CAAGCTCATGTGAGCTTTAAAAAAAGGCATCTTGCTCTTTG
129 TCTTTGAGGACTAAAAGGTGCCACCAA-CTTGTGTGGGCTTTAAAAAAAGGCATCCTGCTCTTTA
* * * * **
34078 AGGACTACAAGGTGCTACCAACTCATGTGGCCTTTAAAAGAAAAAGGTG
193 AGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCA
* * * * ** * **
34127 CCCTGCTCTTTAAGGACTAAAAGGTGCCACTAACTTATGTGGGCTTT-AAAAGAAAAAAAGGTGT
1 TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTAGGCTTTAAAAAGAAAAAAA-ACGT
* * * *
34191 CCTGCTTTTTGAGGACTAAAA-ATGCCACCAACTCT-TAG-AGGTTTTAAAAAGAGAAG-GTGCC
65 CCTGCTCTTTAAGGACTAAAAGATGCCACCAACT-TGT-GTAGGCTTT-AAAAGAAAAGCGT--C
* * *
34252 CTACTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCATGCT
125 CTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAA-AAAAGGCATCCTGCT
* * * * *
34317 CTTTAAGGA-TAAAAAGTGACAGCAATTCGTGTGGGCTTTAAAA-ATAAAAAGCA
188 CTTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGA-AAAAGGCA
* * * * * **
34370 TCCTACTTTTTAAAGACTAAAAAGTGCCACCAACTCGTGTAGGTTTTAAAAAG-AAAAAGGCGTC
1 TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTAGGCTTTAAAAAGAAAAAAAACGTC
* ** * * ** *
34434 CTGCTCTTTAAGGACTAAAAGTTGCCACCAACTCATATGGGCTTTAAAAAGAAAAAGGCAACCTG
66 CTGCTCTTTAAGGACTAAAAGATGCCACCAACTTGTGTAGGCTTT-AAAAG-AAAA-GCGTCCTA
* * * *
34499 CTCTTTGAGGACTAAAAGTTGCCACCAACTTGTGTGGGCTTCAAAAAGAAAAAG-ATGTCTTGCT
128 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTT--TAAA-AAAAGGCA--TCCTGCT
* * * *
34563 CTTTAAGTACTAAAAGGTGCCACCAACTCGTTTGGTCTTTGAAAAGCAAAAGGCA
188 CTTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCA
* * * * * *
34618 TCCTACTCTTTGAGAACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG--AAAATACTTC
1 TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTAGGCTTTAAAAAGAAAAAAAACGTC
*
34681 CTGCTCTTTGAGGACTAAAAG
66 CTGCTCTTTAAGGACTAAAAG
34702 GATAAAAGGG
Statistics
Matches: 863, Mismatches: 154, Indels: 77
0.79 0.14 0.07
Matches are distributed among these distances:
238 28 0.03
239 42 0.05
240 229 0.27
241 34 0.04
242 92 0.11
243 144 0.17
244 71 0.08
245 10 0.01
246 16 0.02
247 95 0.11
248 102 0.12
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (241 bp):
TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTAGGCTTTAAAAAGAAAAAAAACGTC
CTGCTCTTTAAGGACTAAAAGATGCCACCAACTTGTGTAGGCTTTAAAAGAAAAGCGTCCTACTC
TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAGGCATCCTGCTCTTTAAGG
ACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCA
Found at i:34759 original size:30 final size:30
Alignment explanation
Indices: 34720--34891 Score: 164
Period size: 30 Copynumber: 5.7 Consensus size: 30
34710 GGGTGCTATA
* *
34720 GAGTTGTGGACTTTAAAAAGAGATGCCGCT
1 GAGTCGTGGACTTTAAAAAGAGATGCCACT
* * * *
34750 AAGTCGTGGACTTTGAAGAAGGGATGCCACC
1 GAGTCGTGGACTTT-AAAAAGAGATGCCACT
* * *
34781 GAGTTGTGGACTTTGAAAATAGATGCCACT
1 GAGTCGTGGACTTTAAAAAGAGATGCCACT
* * *
34811 GAGTCATGGACTTTGAAAAGAGATACCACT
1 GAGTCGTGGACTTTAAAAAGAGATGCCACT
* * *
34841 GAGTCGTGGACTTTGGAGAAGGGATGCCACT
1 GAGTCGTGGACTTT-AAAAAGAGATGCCACT
** *
34872 GAGTTATGGACTTTGAAAAG
1 GAGTCGTGGACTTTAAAAAG
34892 GTTACTTTAC
Statistics
Matches: 116, Mismatches: 24, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
30 67 0.58
31 49 0.42
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (30 bp):
GAGTCGTGGACTTTAAAAAGAGATGCCACT
Found at i:34791 original size:61 final size:60
Alignment explanation
Indices: 34720--34891 Score: 200
Period size: 61 Copynumber: 2.8 Consensus size: 60
34710 GGGTGCTATA
* * * *
34720 GAGTTGTGGACTTTAAAAAGAGATGCCGCTAAGTCGTGGACTTTGAAGAAGGGATGCCACC
1 GAGTTGTGGACTTTAAAAAGAGATGCCACTAAGTCATGGACTTTGAA-AAGAGATACCACC
* * * *
34781 GAGTTGTGGACTTTGAAAATAGATGCCACTGAGTCATGGACTTTGAAAAGAGATACCACT
1 GAGTTGTGGACTTTAAAAAGAGATGCCACTAAGTCATGGACTTTGAAAAGAGATACCACC
* * * * * *
34841 GAGTCGTGGACTTTGGAGAAGGGATGCCACTGAGTTATGGACTTTGAAAAG
1 GAGTTGTGGACTTT-AAAAAGAGATGCCACTAAGTCATGGACTTTGAAAAG
34892 GTTACTTTAC
Statistics
Matches: 97, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
60 23 0.24
61 74 0.76
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (60 bp):
GAGTTGTGGACTTTAAAAAGAGATGCCACTAAGTCATGGACTTTGAAAAGAGATACCACC
Found at i:36055 original size:23 final size:23
Alignment explanation
Indices: 36013--36056 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
36003 TCTCTTTTTT
**
36013 TTTTCCATTTTTGTTTCTTTGTG
1 TTTTCCATTTTTGTGCCTTTGTG
36036 TTTTCCATTTTTGTGCCTTTG
1 TTTTCCATTTTTGTGCCTTTG
36057 CCCTTTTCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.05, C:0.16, G:0.14, T:0.66
Consensus pattern (23 bp):
TTTTCCATTTTTGTGCCTTTGTG
Found at i:40943 original size:51 final size:51
Alignment explanation
Indices: 40879--40995 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 51
40869 TCGAAATACG
* * * * ***
40879 GGGTTGGAATATCCTCAAGATGAAAAATTTAATATTTTTGAAATAAAAACA
1 GGGTTGGAGTATCCCCAAGATAAAAAATTTAATAGTTCAAAAATAAAAACA
* *
40930 GGGTTGGAGTATCCCCAAGATAAAAAATTTGATAGTTCAAAAATAAAAACG
1 GGGTTGGAGTATCCCCAAGATAAAAAATTTAATAGTTCAAAAATAAAAACA
40981 GGGTTGGAGTATCCC
1 GGGTTGGAGTATCCC
40996 TTCAGAATTT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCAAGATAAAAAATTTAATAGTTCAAAAATAAAAACA
Found at i:41071 original size:80 final size:79
Alignment explanation
Indices: 40970--41272 Score: 253
Period size: 80 Copynumber: 3.8 Consensus size: 79
40960 GATAGTTCAA
* * * *
40970 AAATAAAAACGGGGTTGGAGTATCCCTTCAGAATTTACAGGGTTGGAGTATCCTCGAGATGAAAA
1 AAATAAAAACAGGGTTGGAGTATCCCCTCAGAATTTA-AGGGTTAGAATATCCTCGAGATGAAAA
*
41035 AGTTACTATTTTTTT
65 AGTTACTATTTTTTG
* *
41050 AAATAAAAACAGGGTTAGAGTATCCCCTCGGTAA--TAATGGGATTAGAATATCCTCGAGATG--
1 AAATAAAAACAGGGTTGGAGTATCCCCTCAG-AATTTAA-GGG-TTAGAATATCCTCGAGATGAA
* * *
41111 AAAGAT-CGATATTTTG
63 AAAGTTACTATTTTTTG
* * * *
41127 AAAGTAAAAA-TGAGGTTGGAGTATCCCCTCAGAATTGATGGAGTTAGAGTATCCTCGAGAT-AA
1 AAA-TAAAAACAG-GGTTGGAGTATCCCCTCAGAATTTAAGG-GTTAGAATATCCTCGAGATGAA
* *
41190 AAATTTTAATA-TTTTTG
63 AAA-GTTACTATTTTTTG
* * * * * * * *
41207 AAATAGAAACAGGATTGAAGTATCCCCTCAAAAATAACAGGGTTGGAATATCCCCGAGATGAAAA
1 AAATAAAAACAGGGTTGGAGTATCCCCTCAGAATTTA-AGGGTTAGAATATCCTCGAGATGAAAA
41272 A
65 A
41273 TCGATATTTT
Statistics
Matches: 176, Mismatches: 32, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
77 13 0.07
78 48 0.27
79 51 0.29
80 61 0.35
81 3 0.02
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (79 bp):
AAATAAAAACAGGGTTGGAGTATCCCCTCAGAATTTAAGGGTTAGAATATCCTCGAGATGAAAAA
GTTACTATTTTTTG
Found at i:41259 original size:79 final size:79
Alignment explanation
Indices: 40926--41273 Score: 269
Period size: 79 Copynumber: 4.4 Consensus size: 79
40916 TTGAAATAAA
* * * * * *** * *
40926 AACAGGGTTGGAGTATCCCCAAGATAAAAAATTTGATAGTTCAAAAATAAAAACGGGGTTGGAGT
1 AACAGGGTTGGAGTATCCTCGAGATGAAAAATTTAATATTTTTGAAATAAAAACAGGGTTGAAGT
* *
40991 ATCCCTTCAGAATT
66 ATCCCCTCAGAAAT
* * * *
41005 TACAGGGTTGGAGTATCCTCGAGATGAAAAAGTTACTATTTTTTTAAATAAAAACAGGGTT-AGA
1 AACAGGGTTGGAGTATCCTCGAGATGAAAAATTTAATA-TTTTTGAAATAAAAACAGGGTTGA-A
* *
41069 GTATCCCCTCGGTAAT
64 GTATCCCCTCAGAAAT
* * * * ** * *
41085 AA-TGGGATTAGAATATCCTCGAGATGAAAGA-TCGATA-TTTTGAAAGTAAAAA-TGAGGTTGG
1 AACAGGG-TTGGAGTATCCTCGAGATGAAAAATTTAATATTTTTGAAA-TAAAAACAG-GGTTGA
*
41146 AGTATCCCCTCAGAATT
63 AGTATCCCCTCAGAAAT
* * * * *
41163 GA-TGGAGTTAGAGTATCCTCGAGAT-AAAAATTTTAATATTTTTGAAATAGAAACAGGATTGAA
1 AACAGG-GTTGGAGTATCCTCGAGATGAAAAA-TTTAATATTTTTGAAATAAAAACAGGGTTGAA
*
41226 GTATCCCCTCAAAAAT
64 GTATCCCCTCAGAAAT
* *
41242 AACAGGGTTGGAATATCCCCGAGATGAAAAAT
1 AACAGGGTTGGAGTATCCTCGAGATGAAAAAT
41274 CGATATTTTT
Statistics
Matches: 209, Mismatches: 47, Indels: 26
0.74 0.17 0.09
Matches are distributed among these distances:
77 12 0.06
78 45 0.22
79 84 0.40
80 68 0.33
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (79 bp):
AACAGGGTTGGAGTATCCTCGAGATGAAAAATTTAATATTTTTGAAATAAAAACAGGGTTGAAGT
ATCCCCTCAGAAAT
Found at i:41265 original size:157 final size:158
Alignment explanation
Indices: 40926--41295 Score: 401
Period size: 158 Copynumber: 2.3 Consensus size: 158
40916 TTGAAATAAA
* * * * * ** * * *
40926 AACAGGGTTGGAGTATCCCCAAGATAAAAAATTTGATAGTTCAAAAATAAAAACGGGGTTGGAGT
1 AACAGGGTTGGAATATCCCCGAGATGAAAAA-TCGATATTTTGAAAGTAAAAATGAGGTTGGAGT
* * * * *
40991 ATCCCTTCAGAATTTACAGGGTTGGAGTATCCTCGAGATGAAAAAGTTACTATTTTTTTAAATAA
65 ATCCCCTCAGAATTGACAGGGTTAGAGTATCCTCGAGATGAAAAAGTTAATATTTTTTGAAATAA
* ***
41056 AAACAGGGTTAGAGTATCCCCTCGGTAAT
130 AAACAGGATTAGAGTATCCCCTCAAAAAT
* * * *
41085 AA-TGGGATTAGAATATCCTCGAGATGAAAGATCGATATTTTGAAAGTAAAAATGAGGTTGGAGT
1 AACAGGG-TTGGAATATCCCCGAGATGAAAAATCGATATTTTGAAAGTAAAAATGAGGTTGGAGT
* *
41149 ATCCCCTCAGAATTGA-TGGAGTTAGAGTATCCTCGAGAT-AAAAATTTTAATA-TTTTTGAAAT
65 ATCCCCTCAGAATTGACAGG-GTTAGAGTATCCTCGAGATGAAAAA-GTTAATATTTTTTGAAAT
*
41211 AGAAACAGGATT-GAAGTATCCCCTCAAAAAT
128 AAAAACAGGATTAG-AGTATCCCCTCAAAAAT
41242 AACAGGGTTGGAATATCCCCGAGATGAAAAATCGATATTTTTGGAAAG-AAAAAT
1 AACAGGGTTGGAATATCCCCGAGATGAAAAATCGATA-TTTT-GAAAGTAAAAAT
41296 TTATAAATTT
Statistics
Matches: 174, Mismatches: 30, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
156 1 0.01
157 69 0.40
158 79 0.45
159 25 0.14
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.28
Consensus pattern (158 bp):
AACAGGGTTGGAATATCCCCGAGATGAAAAATCGATATTTTGAAAGTAAAAATGAGGTTGGAGTA
TCCCCTCAGAATTGACAGGGTTAGAGTATCCTCGAGATGAAAAAGTTAATATTTTTTGAAATAAA
AACAGGATTAGAGTATCCCCTCAAAAAT
Found at i:43673 original size:20 final size:21
Alignment explanation
Indices: 43644--43697 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
43634 CATTTTAGGC
43644 ATGTATCGATACATTCACT-T
1 ATGTATCGATACATTCACTGT
* *
43664 ATGTAACGATACATTTACTGT
1 ATGTATCGATACATTCACTGT
*
43685 TTGTATCGATACA
1 ATGTATCGATACA
43698 AATTGTAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (21 bp):
ATGTATCGATACATTCACTGT
Found at i:43694 original size:21 final size:21
Alignment explanation
Indices: 43624--43697 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
43614 AAGGTAGTTT
* *
43624 TGTATCGATACATTTTA-GGCA
1 TGTATCGATACA-TTTACTGTA
*
43645 TGTATCGATACATTCACT-TA
1 TGTATCGATACATTTACTGTA
* *
43665 TGTAACGATACATTTACTGTT
1 TGTATCGATACATTTACTGTA
43686 TGTATCGATACA
1 TGTATCGATACA
43698 AATTGTAGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 20 0.45
21 24 0.55
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (21 bp):
TGTATCGATACATTTACTGTA
Found at i:45042 original size:14 final size:14
Alignment explanation
Indices: 45019--45053 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
45009 CTTCTATTTT
45019 TCTC-TTTTTTCTC
1 TCTCTTTTTTTCTC
45032 TCTCTTTTTTTCTC
1 TCTCTTTTTTTCTC
45046 TCTTCTTT
1 TC-TCTTT
45054 CAATTGAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 4 0.20
14 11 0.55
15 5 0.25
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (14 bp):
TCTCTTTTTTTCTC
Found at i:45396 original size:26 final size:26
Alignment explanation
Indices: 45367--45418 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
45357 AATTTAAAAA
45367 ACTAAAAGGCTGAAACCAAATCAATT
1 ACTAAAAGGCTGAAACCAAATCAATT
45393 ACTAAAAGGCTGAAACCAAATCAATT
1 ACTAAAAGGCTGAAACCAAATCAATT
45419 CTCAGCAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.19, G:0.12, T:0.19
Consensus pattern (26 bp):
ACTAAAAGGCTGAAACCAAATCAATT
Found at i:45775 original size:166 final size:160
Alignment explanation
Indices: 45589--46001 Score: 431
Period size: 160 Copynumber: 2.5 Consensus size: 160
45579 GGAGTCAATG
* * *** * * * *
45589 ATAATATTAGATGCATTTTAAAAATTTTAGACCAAAGAAAATTCC-CCCCAAAATATTTATGGAA
1 ATAATATTTGATGAATTTTAAAAATAAAAAACCAAAGAAAA-TCCTCCCAAAAAAATTTATAGAA
* * *
45653 TAGAAAACT-CGATTTTTTGGAGAAAGGAGAATTTCAAGGAAAAAA-TTCAAATTTCATGGAAAT
65 TAGAAAACTCCG--TATTTCGA-AAA--A-AA-TTCAAGGAAAAAATTTAAAATTT-ATGGAAAT
* *
45716 GAATGGATTTTTGAAAATTGAATTAATATGAAATAAATA
122 GAATGAATTTTTGAAAAATGAATTAATATGAAATAAATA
* * * *
45755 ATAATATTTGATAAATTTTAAAAATAAAAAACTAAAGAAAATCCTCCCAAAAAAATTTGTAGAGT
1 ATAATATTTGATGAATTTTAAAAATAAAAAACCAAAGAAAATCCTCCCAAAAAAATTTATAGAAT
45820 AGAAAACTCCGTATTTCGAAAAAAATTCAAGGAAAAAATTTAAAATTTATGGAAATGAATGAATT
66 AGAAAACTCCGTATTTCGAAAAAAATTCAAGGAAAAAATTTAAAATTTATGGAAATGAATGAATT
*
45885 TTTGAAAAATGAATTACTATGAAATAAATA
131 TTTGAAAAATGAATTAATATGAAATAAATA
* * * * * * ** *
45915 ATAATATTTTATGGATTTTAAAAATGAAAAA-CTAAGAAAAAACCTTCCAAAAAAATTTACGGAG
1 ATAATATTTGATGAATTTTAAAAATAAAAAACCAAAG-AAAATCCTCCCAAAAAAATTTATAGAA
*
45979 TAGAAAACCCCGTAATTT-GAAAA
65 TAGAAAACTCCGT-ATTTCGAAAA
46002 TAAGAGGATT
Statistics
Matches: 211, Mismatches: 31, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
159 3 0.01
160 123 0.58
161 14 0.07
162 1 0.00
164 3 0.01
165 9 0.04
166 56 0.27
167 2 0.01
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (160 bp):
ATAATATTTGATGAATTTTAAAAATAAAAAACCAAAGAAAATCCTCCCAAAAAAATTTATAGAAT
AGAAAACTCCGTATTTCGAAAAAAATTCAAGGAAAAAATTTAAAATTTATGGAAATGAATGAATT
TTTGAAAAATGAATTAATATGAAATAAATA
Found at i:45891 original size:160 final size:160
Alignment explanation
Indices: 45685--46001 Score: 460
Period size: 160 Copynumber: 2.0 Consensus size: 160
45675 AAAGGAGAAT
* * *
45685 TTCAAGGAAAAAATTCAAATTTCATGGAAATGAATGGATTTTTGAAAATTGAATTAATATGAAAT
1 TTCAAGGAAAAAATTAAAATTTCATGGAAATGAATGAATTTTTGAAAAATGAATTAATATGAAAT
* *
45750 AAATAATAATATTTGATAAATTTTAAAAATAAAAAACTAA-AGAAAATCCTCCCAAAAAAATTTG
66 AAATAATAATATTTGATAAATTTTAAAAATAAAAAACTAAGA-AAAAACCTCCCAAAAAAATTTA
* *
45814 TAGAGTAGAAAACTCCGT-ATTTCGAAAAAAA
130 CAGAGTAGAAAACCCCGTAATTT-GAAAAAAA
*
45845 TTCAAGGAAAAAATTTAAAATTT-ATGGAAATGAATGAATTTTTGAAAAATGAATTACTATGAAA
1 TTCAAGGAAAAAA-TTAAAATTTCATGGAAATGAATGAATTTTTGAAAAATGAATTAATATGAAA
* ** * *
45909 TAAATAATAATATTTTATGGATTTTAAAAATGAAAAACTAAGAAAAAACCTTCCAAAAAAATTTA
65 TAAATAATAATATTTGATAAATTTTAAAAATAAAAAACTAAGAAAAAACCTCCCAAAAAAATTTA
*
45974 CGGAGTAGAAAACCCCGTAATTTGAAAA
130 CAGAGTAGAAAACCCCGTAATTTGAAAA
46002 TAAGAGGATT
Statistics
Matches: 140, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
160 127 0.91
161 13 0.09
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (160 bp):
TTCAAGGAAAAAATTAAAATTTCATGGAAATGAATGAATTTTTGAAAAATGAATTAATATGAAAT
AAATAATAATATTTGATAAATTTTAAAAATAAAAAACTAAGAAAAAACCTCCCAAAAAAATTTAC
AGAGTAGAAAACCCCGTAATTTGAAAAAAA
Found at i:57260 original size:149 final size:150
Alignment explanation
Indices: 57058--57344 Score: 384
Period size: 149 Copynumber: 1.9 Consensus size: 150
57048 TTCCAAACAT
* * *
57058 AAATAAATATCAATTATTTTTAAGTCTTTTATATTCTTATGGGTATCCCTAGAGGTA-TAAAAGA
1 AAATAAATATCAATTATTTTTAAGTCATTTATATTCCTATAGGTATCCCTAGAGGTATTAAAAGA
** *
57122 TTTCGAAAAGCTTTTCGTATATTTTCAGGTATCCATTAAGGCACGAAAT-AATTTTTT-AGAAAT
66 TTTC-AAAA-CTTTTCGTATATTGCCAGGTATCCATCAAGGCACGAAATGAATTTTTTGAGAAA-
*
57185 AATTGAATTAACTCTCCTCAATA
128 AATTAAATTAACTCTCCTCAATA
* *
57208 AAATAAATATCAATTGTTTTTAA-TCATTTATATTCCTATAGGTATCCGTAGAGGTATTAAAAGA
1 AAATAAATATCAATTATTTTTAAGTCATTTATATTCCTATAGGTATCCCTAGAGGTATTAAAAGA
* * * * * *
57272 TTTCAAAATTTTTTGTATCTTGCCAGGTTTCCATCAAGGTACGAAATGATTTTTTTGAGAAAAAT
66 TTTCAAAACTTTTCGTATATTGCCAGGTATCCATCAAGGCACGAAATGAATTTTTTGAGAAAAAT
57337 TAAATTAA
131 TAAATTAA
57345 ACATGTGAAA
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
148 31 0.26
149 50 0.42
150 38 0.32
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (150 bp):
AAATAAATATCAATTATTTTTAAGTCATTTATATTCCTATAGGTATCCCTAGAGGTATTAAAAGA
TTTCAAAACTTTTCGTATATTGCCAGGTATCCATCAAGGCACGAAATGAATTTTTTGAGAAAAAT
TAAATTAACTCTCCTCAATA
Found at i:67052 original size:13 final size:13
Alignment explanation
Indices: 67034--67058 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67024 CATTATTTGG
67034 TGTATCGATACAA
1 TGTATCGATACAA
67047 TGTATCGATACA
1 TGTATCGATACA
67059 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:67074 original size:32 final size:33
Alignment explanation
Indices: 67012--67078 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 33
67002 GTTACAAGCT
*
67012 AATGTATCGATACATTATTTGGTGTATCGATAC
1 AATGTATCGATACATTATGTGGTGTATCGATAC
67045 AATGTATCGATACA-TACTGT-GTGTATCGATAC
1 AATGTATCGATACATTA-TGTGGTGTATCGATAC
67077 AA
1 AA
67079 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 16 0.50
33 16 0.50
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (33 bp):
AATGTATCGATACATTATGTGGTGTATCGATAC
Found at i:67156 original size:20 final size:21
Alignment explanation
Indices: 67110--67162 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
67100 GCCAATGACT
** *
67110 TGTATCGATACATTCTTTTCG
1 TGTATCGATACATTCTGGTCA
67131 TGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
67151 TGTATCGATACA
1 TGTATCGATACA
67163 ATGTATCGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:67168 original size:13 final size:13
Alignment explanation
Indices: 67150--67174 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67140 ACATTTGGTC
67150 ATGTATCGATACA
1 ATGTATCGATACA
67163 ATGTATCGATAC
1 ATGTATCGATAC
67175 TATGCAACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:69177 original size:21 final size:20
Alignment explanation
Indices: 69146--69197 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
69136 GCGGCTAGTG
*
69146 TGGGGGCTGCCTGGTTGCGACC
1 TGGGGG-TGCC-GGTCGCGACC
*
69168 TGGGGGTGCCGGTCGTGACC
1 TGGGGGTGCCGGTCGCGACC
69188 TGGTGGGTGC
1 TGG-GGGTGC
69198 TTCATAGAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 11 0.41
21 10 0.37
22 6 0.22
ACGTcount: A:0.04, C:0.23, G:0.50, T:0.23
Consensus pattern (20 bp):
TGGGGGTGCCGGTCGCGACC
Found at i:69677 original size:17 final size:17
Alignment explanation
Indices: 69652--69684 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
69642 GGATAAAATG
69652 TTTTATTTTTTTTTTTT
1 TTTTATTTTTTTTTTTT
*
69669 TTTTCTTTTTTTTTTT
1 TTTTATTTTTTTTTTT
69685 AATGTGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.03, G:0.00, T:0.94
Consensus pattern (17 bp):
TTTTATTTTTTTTTTTT
Found at i:69860 original size:1 final size:1
Alignment explanation
Indices: 69849--69891 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
69839 CATTTGTAGC
* * * *
69849 TTTTATTTTTTTTTTTTCTTTTTTATTTTTTCTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
69892 AATTGGAACA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.05, C:0.05, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:69874 original size:20 final size:19
Alignment explanation
Indices: 69849--69892 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
69839 CATTTGTAGC
*
69849 TTTTATTTTTTTTTTTTCTT
1 TTTTATTTTTTCTTTTT-TT
69869 TTTTATTTTTTCTTTTTTT
1 TTTTATTTTTTCTTTTTTT
69888 TTTTA
1 TTTTA
69893 ATTGGAACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.07, C:0.05, G:0.00, T:0.89
Consensus pattern (19 bp):
TTTTATTTTTTCTTTTTTT
Found at i:69877 original size:14 final size:13
Alignment explanation
Indices: 69849--69891 Score: 68
Period size: 13 Copynumber: 3.2 Consensus size: 13
69839 CATTTGTAGC
*
69849 TTTTATTTTTTTT
1 TTTTCTTTTTTTT
69862 TTTTCTTTTTTATT
1 TTTTCTTTTTT-TT
69876 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
69889 TTT
1 TTT
69892 AATTGGAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
13 15 0.54
14 13 0.46
ACGTcount: A:0.05, C:0.05, G:0.00, T:0.91
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:70120 original size:1 final size:1
Alignment explanation
Indices: 70116--70161 Score: 56
Period size: 1 Copynumber: 46.0 Consensus size: 1
70106 TGAAAAAAAG
* * * *
70116 TTTTTTTTTTTATTTTTTTTTTTTTATCTTATTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
70162 CTTTAAATGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.07, C:0.02, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:70140 original size:19 final size:19
Alignment explanation
Indices: 70116--70166 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
70106 TGAAAAAAAG
70116 TTTTTTTTTTTATTTTTTT
1 TTTTTTTTTTTATTTTTTT
* *
70135 TTTTTTATCTTATTTTTTT
1 TTTTTTTTTTTATTTTTTT
70154 TTTTTTTTCTTTA
1 TTTTTTTT-TTTA
70167 AATGATATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 24 0.89
20 3 0.11
ACGTcount: A:0.08, C:0.04, G:0.00, T:0.88
Consensus pattern (19 bp):
TTTTTTTTTTTATTTTTTT
Found at i:70372 original size:24 final size:23
Alignment explanation
Indices: 70308--70373 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 23
70298 TGTGTGATGT
70308 TTGAAAAATG-AGATAAAAAACTG
1 TTGAAAAATGAAGA-AAAAAACTG
*
70331 TGTG-AAAGTGAAACGAAAAAAACTG
1 T-TGAAAAATG-AA-GAAAAAAACTG
70356 TTGAAAAATGAATGAAAA
1 TTGAAAAATGAA-GAAAA
70374 CGCAAATGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
23 6 0.17
24 11 0.31
25 16 0.46
26 2 0.06
ACGTcount: A:0.56, C:0.05, G:0.20, T:0.20
Consensus pattern (23 bp):
TTGAAAAATGAAGAAAAAAACTG
Found at i:70813 original size:1 final size:1
Alignment explanation
Indices: 70807--70837 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
70797 TTATTTGTTA
*
70807 TTTTTTTTTTTTTTTTTTTTTATTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
70838 AAAAAGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.03, C:0.00, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:70829 original size:22 final size:22
Alignment explanation
Indices: 70795--70837 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
70785 TTGAAAAGTC
70795 TTTTATTTGTTATTTTTTTTTT
1 TTTTATTTGTTATTTTTTTTTT
* *
70817 TTTTTTTTTTTATTTTTTTTT
1 TTTTATTTGTTATTTTTTTTT
70838 AAAAAGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.07, C:0.00, G:0.02, T:0.91
Consensus pattern (22 bp):
TTTTATTTGTTATTTTTTTTTT
Found at i:70881 original size:23 final size:21
Alignment explanation
Indices: 70839--70884 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
70829 TTTTTTTTTA
**
70839 AAAAGAAAAACAAATTGAATG
1 AAAAGAAAAACAAAAAGAATG
70860 AAAAGAAAAAACAAAAAAGAATG
1 AAAAG-AAAAAC-AAAAAGAATG
70883 AA
1 AA
70885 TGAAATGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 6 0.29
23 10 0.48
ACGTcount: A:0.74, C:0.04, G:0.13, T:0.09
Consensus pattern (21 bp):
AAAAGAAAAACAAAAAGAATG
Found at i:70955 original size:1 final size:1
Alignment explanation
Indices: 70949--70989 Score: 55
Period size: 1 Copynumber: 41.0 Consensus size: 1
70939 GTGTGAAGTC
* * *
70949 TTTTTTTCTTTTTTTTTCTTGTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
70990 CTTATTATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.05, G:0.02, T:0.93
Consensus pattern (1 bp):
T
Found at i:71196 original size:12 final size:13
Alignment explanation
Indices: 71168--71196 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
71158 TCTTTCCCCT
71168 CCCCTTTTCCTTC
1 CCCCTTTTCCTTC
71181 CCCCTTTT-CTTC
1 CCCCTTTTCCTTC
71193 CCCC
1 CCCC
71197 CTCTTTCCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (13 bp):
CCCCTTTTCCTTC
Found at i:71528 original size:26 final size:25
Alignment explanation
Indices: 71499--71559 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
71489 CCTTATCAAA
71499 AACAAAAAAAAAAAAAAATAATAATG
1 AACAAAAAAAAAAAAAAATAA-AATG
* ** *
71525 AACAACAAAAAAAATGAATAAATTG
1 AACAAAAAAAAAAAAAAATAAAATG
71550 AA-AAAAAAAA
1 AACAAAAAAAA
71560 TCTGAAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 7 0.23
25 5 0.17
26 18 0.60
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.11
Consensus pattern (25 bp):
AACAAAAAAAAAAAAAAATAAAATG
Found at i:71557 original size:23 final size:20
Alignment explanation
Indices: 71505--71559 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 20
71495 CAAAAACAAA
71505 AAAAAAAAAAAATAATAATG
1 AAAAAAAAAAAATAATAATG
71525 AACAACAAAAAAAATGAATAAATTG
1 AA-AA-AAAAAAAAT-AAT-AA-TG
71550 AAAAAAAAAA
1 AAAAAAAAAA
71560 TCTGAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 2 0.07
21 2 0.07
22 9 0.30
23 9 0.30
24 4 0.13
25 4 0.13
ACGTcount: A:0.78, C:0.04, G:0.05, T:0.13
Consensus pattern (20 bp):
AAAAAAAAAAAATAATAATG
Found at i:71567 original size:14 final size:13
Alignment explanation
Indices: 71544--71573 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
71534 AAAAATGAAT
71544 AAATTGAAAAAAA
1 AAATTGAAAAAAA
71557 AAATCTGAAAAAAA
1 AAAT-TGAAAAAAA
71571 AAA
1 AAA
71574 AAAAACCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.77, C:0.03, G:0.07, T:0.13
Consensus pattern (13 bp):
AAATTGAAAAAAA
Found at i:71906 original size:23 final size:23
Alignment explanation
Indices: 71872--71916 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
71862 AACCATGTGA
*
71872 AAAAATGAAAAAAATTGAAAAAT
1 AAAAATGAAAAAAATAGAAAAAT
*
71895 AAAAATGTAAAAAATAGAAAAA
1 AAAAATGAAAAAAATAGAAAAA
71917 AAACTGTTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.16
Consensus pattern (23 bp):
AAAAATGAAAAAAATAGAAAAAT
Found at i:72051 original size:16 final size:16
Alignment explanation
Indices: 72022--72055 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
72012 AAAACGGCTC
* *
72022 TTCTCTTCTTCTTTTT
1 TTCTCCTCTCCTTTTT
72038 TTCTCCTCTCCTTTTT
1 TTCTCCTCTCCTTTTT
72054 TT
1 TT
72056 TCTTTTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (16 bp):
TTCTCCTCTCCTTTTT
Found at i:72107 original size:18 final size:18
Alignment explanation
Indices: 72084--72118 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
72074 TCTTTCCTTT
72084 AAACAAGAA-AAAACAATC
1 AAACAA-AAGAAAACAATC
72102 AAACAAAAGAAAACAAT
1 AAACAAAAGAAAACAAT
72119 AAAAAACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.74, C:0.14, G:0.06, T:0.06
Consensus pattern (18 bp):
AAACAAAAGAAAACAATC
Found at i:72901 original size:18 final size:18
Alignment explanation
Indices: 72878--72918 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
72868 CCCTTATTTT
*
72878 TTTTTCCGTACTCTTTCC
1 TTTTTCCGTACTCTTCCC
* *
72896 TTTTTCCTTCCTCTTCCC
1 TTTTTCCGTACTCTTCCC
72914 TTTTT
1 TTTTT
72919 TTTTTTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.02, C:0.34, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTTTCCGTACTCTTCCC
Found at i:72928 original size:11 final size:11
Alignment explanation
Indices: 72914--72946 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
72904 TCCTCTTCCC
72914 TTTTTTT-TTT
1 TTTTTTTCTTT
*
72924 TTTTTTTGTTT
1 TTTTTTTCTTT
72935 TTTTTTTCTTT
1 TTTTTTTCTTT
72946 T
1 T
72947 CGAAAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.00, C:0.03, G:0.03, T:0.94
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:73013 original size:24 final size:25
Alignment explanation
Indices: 72977--73023 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
72967 TTTGTCTTTG
72977 TTTCCTCCCTTTT-TTGTTTTTTAT
1 TTTCCTCCCTTTTGTTGTTTTTTAT
* * *
73001 TTTCCTTCGTTTTGTTTTTTTTT
1 TTTCCTCCCTTTTGTTGTTTTTT
73024 CCCTCTCCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.02, C:0.17, G:0.06, T:0.74
Consensus pattern (25 bp):
TTTCCTCCCTTTTGTTGTTTTTTAT
Found at i:73266 original size:22 final size:22
Alignment explanation
Indices: 73239--73292 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
73229 TCTTTCCTCC
73239 TTTTTCCTCTTTGGTT-GGTTT
1 TTTTTCCTCTTTGGTTGGGTTT
* **
73260 TTTTTTCTCTTTTTTTGGGTTT
1 TTTTTCCTCTTTGGTTGGGTTT
73282 TTTTTCCTCTT
1 TTTTTCCTCTT
73293 CTCTTCGTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 13 0.46
22 15 0.54
ACGTcount: A:0.00, C:0.15, G:0.13, T:0.72
Consensus pattern (22 bp):
TTTTTCCTCTTTGGTTGGGTTT
Found at i:73347 original size:19 final size:19
Alignment explanation
Indices: 73310--73349 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
73300 TTCTGTTTTG
* * *
73310 TTCTTTTTTTTTCTTTCTT
1 TTCTTTTTCTCTCTCTCTT
73329 TTCTTTTTCTCTCTCTCTT
1 TTCTTTTTCTCTCTCTCTT
73348 TT
1 TT
73350 TTGTGTTTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (19 bp):
TTCTTTTTCTCTCTCTCTT
Found at i:73668 original size:21 final size:21
Alignment explanation
Indices: 73642--73681 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
73632 TTCTTCTTCG
73642 TTTTCT-GCTTTTTTCTTTTTT
1 TTTTCTAGCTTTTTT-TTTTTT
*
73663 TTTTCTAGGTTTTTTTTTT
1 TTTTCTAGCTTTTTTTTTT
73682 GCTTTTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.03, C:0.10, G:0.07, T:0.80
Consensus pattern (21 bp):
TTTTCTAGCTTTTTTTTTTTT
Found at i:78495 original size:3 final size:3
Alignment explanation
Indices: 78487--78529 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
78477 TCTGAGTCAC
* *
78487 CAT CAT CAT CAT CAT CAT CAT CAT CTT CAT CAT CTT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
78530 CTTGATGGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.28, C:0.35, G:0.00, T:0.37
Consensus pattern (3 bp):
CAT
Found at i:80152 original size:13 final size:13
Alignment explanation
Indices: 80134--80158 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80124 CATTATTTGG
80134 TGTATCGATACAA
1 TGTATCGATACAA
80147 TGTATCGATACA
1 TGTATCGATACA
80159 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:80177 original size:32 final size:33
Alignment explanation
Indices: 80111--80177 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
80101 TGTTACAAGC
* *
80111 CAATGTATCGATACATTATTTGGTGTATCGATA
1 CAATGTATCGATACATTATGTGGTGTATCAATA
80144 CAATGTATCGATACA-TACTGT-GTGTATCAATA
1 CAATGTATCGATACATTA-TGTGGTGTATCAATA
80176 CA
1 CA
80178 CGTTTGCCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 14 0.45
33 17 0.55
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (33 bp):
CAATGTATCGATACATTATGTGGTGTATCAATA
Found at i:80256 original size:20 final size:21
Alignment explanation
Indices: 80210--80262 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
80200 GCCAATGACT
** *
80210 TGTATCGATACATTCTTTTCG
1 TGTATCGATACATTCTGGTCA
80231 TGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
80251 TGTATCGATACA
1 TGTATCGATACA
80263 ATGTATCGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:80268 original size:13 final size:13
Alignment explanation
Indices: 80250--80274 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80240 ACATTTGGTC
80250 ATGTATCGATACA
1 ATGTATCGATACA
80263 ATGTATCGATAC
1 ATGTATCGATAC
80275 TGTGCAACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:81309 original size:129 final size:129
Alignment explanation
Indices: 81075--81309 Score: 321
Period size: 129 Copynumber: 1.8 Consensus size: 129
81065 TATTTCTAAG
* * * * * *
81075 AAATCATTTCATACCTTAATGGATATCTGAAAAGATATGAAAAACTTTTTGAAATCTTTTATACC
1 AAATCATTCCATACCTTAATGAATACCGGAAAAGATACGAAAAACTTTTTAAAATCTTTTATACC
81140 TCTACGGATACACATAAGAATATAAAAGACTTAAAAATAATTGATATTTATTTATGTTTGAAAA
66 TCTACGGATACACATAAGAATATAAAAGACTTAAAAATAATTGATATTTATTTATGTTTGAAAA
* * *
81204 AAATCATTCCGTACCTTGATGAATACCGGAAAAGATACG-AAAAGTTTTTCAAAATCTTTTATAC
1 AAATCATTCCATACCTTAATGAATACCGGAAAAGATACGAAAAACTTTTT-AAAATCTTTTATAC
* * * *
81268 GC-CTACGGATACTCATAGGAATATAAAAGATTTAAATATAAT
65 -CTCTACGGATACACATAAGAATATAAAAGACTTAAAAATAAT
81310 ATTTGTTTAA
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
128 9 0.10
129 81 0.89
130 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (129 bp):
AAATCATTCCATACCTTAATGAATACCGGAAAAGATACGAAAAACTTTTTAAAATCTTTTATACC
TCTACGGATACACATAAGAATATAAAAGACTTAAAAATAATTGATATTTATTTATGTTTGAAAA
Found at i:82113 original size:12 final size:11
Alignment explanation
Indices: 82076--82112 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
82066 CTAGCCTAGC
82076 TTTTCTAT-TT
1 TTTTCTATATT
82086 TTTTCTATATT
1 TTTTCTATATT
*
82097 TTCT-TATATT
1 TTTTCTATATT
82107 TTTTCT
1 TTTTCT
82113 TTTTTTCTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 17 0.74
11 6 0.26
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTCTATATT
Found at i:83334 original size:166 final size:167
Alignment explanation
Indices: 82761--83687 Score: 1075
Period size: 166 Copynumber: 5.6 Consensus size: 167
82751 TTTTTCGGAG
* * *
82761 AAAAGGGATTTCA-AGGAAAAAA-ATTAAAATTCATGGAAATGAATGAATTTTTGAAAACTGAAT
1 AAAAGGGATTTCAGAGGAAAAAATA-AAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAAT
* *
82824 TAATATGAAGTAAATAATAATATTTT-AT-AACTTTT-AAAATTAAAAATCAAGAAAAAT-CCCC
65 TAATATGAAATAAATAAAAATATTTTGATGAA-TTTTAAAAATTAAAAATCAAGAAAAATCCCCC
* *
82885 CTAAAAAAATTAC-GAAGTAGAAAACTCCATATTTCGAAA
129 CCAAAAAAATTACTG-AGTAGAAAACTCCGTATTTCGAAA
** * * * * *
82924 AAAATGAAATTTTAG-GGGAAAAATAAAAAACTTATGAAAGTGAATGAATTTTTAAAAACTGAAT
1 AAAA-GGGATTTCAGAGGAAAAAATAAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAAT
* *
82988 TAATATGAAATAAATAAAAAAATTTTGATGATTTTTAAAAATTAAAAATCAAGAAAAATCCCCCC
65 TAATATGAAATAAATAAAAATATTTTGATGAATTTTAAAAATTAAAAATCAAGAAAAATCCCCCC
* * *
83053 CAAAAAAATTACAGAATAGAAAACTCCGTATTTGGAAAA
130 CAAAAAAATTACTGAGTAGAAAACTCCGTATTTCG-AAA
*
83092 AAAAGGGATTTCAGA-GAAAAAATAAAAAACTCATGAAAATAAATGAATTTTTGAAAACTGAATT
1 AAAAGGGATTTCAGAGGAAAAAATAAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAATT
* * *
83156 AATATAAAATAAATAAAAAAATTTTGATGACTTTTAAAAATTAAAAATCAAGAAAAATTCCCCCC
66 AATATGAAATAAATAAAAATATTTTGATGAATTTTAAAAATTAAAAATCAAGAAAAA-TCCCCCC
83221 CAAAAAAATTACTGAGTAGAAAACTCCGTATTT-GAAA
130 CAAAAAAATTACTGAGTAGAAAACTCCGTATTTCGAAA
*
83258 AAAA-GGATTTCAGAGGAAAAAATAAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAAATT
1 AAAAGGGATTTCAGAGGAAAAAATAAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAATT
* * * * * *
83322 ACTATGAAATAAATAAAAATATTTT-ATTAATTTTAAAAATTTAAAA-CTAAGAAAAAT-TCTCT
66 AATATGAAATAAATAAAAATATTTTGATGAATTTTAAAAATTAAAAATC-AAGAAAAATCCCCCC
* * * *
83384 C-AAAAAATTACGGAGGAGAAAACTCTGTATTTTAGAAAA
130 CAAAAAAATTACTGAGTAGAAAACTCCGTA-TTTCG-AAA
* * *
83423 AAAAGGGATTTCAGGGGAAAAAATCAAAAGCTCATGAAAATGAATGAATTTTTGAAAACTGAATT
1 AAAAGGGATTTCAGAGGAAAAAATAAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAATT
** * ** *
83488 AATATGGTATAAATAAAAATA-TTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCATCA
66 AATATGAAATAAATAAAAATATTTTGATGAATTTTAAAAATTAAAAATCAAGAAAAATCCCCCCC
* * * *
83552 AAAAAAATTA-TGGAGGAAAAAACTTCGTATTTCG-GA
131 AAAAAAATTACT-GAGTAGAAAACTCCGTATTTCGAAA
* * * * * * *
83588 AAAAGGGAACTTCA-AGGAAAAAATTTAAAAGCTCATGAAAATGAAAGAATTTTTCAAAATTGAT
1 AAAAGGG-ATTTCAGAGGAAAAAA-TAAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAA
* * ** *
83652 TTTATGTGATTTAAATAACAATA-TTTGATGAATTTT
64 TTAATATGAAATAAATAAAAATATTTTGATGAATTTT
83688 GATGTTTGAA
Statistics
Matches: 664, Mismatches: 76, Indels: 45
0.85 0.10 0.06
Matches are distributed among these distances:
162 25 0.04
163 10 0.02
164 72 0.11
165 69 0.10
166 272 0.41
167 147 0.22
168 69 0.10
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.28
Consensus pattern (167 bp):
AAAAGGGATTTCAGAGGAAAAAATAAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAATT
AATATGAAATAAATAAAAATATTTTGATGAATTTTAAAAATTAAAAATCAAGAAAAATCCCCCCC
AAAAAAATTACTGAGTAGAAAACTCCGTATTTCGAAA
Found at i:83471 original size:332 final size:332
Alignment explanation
Indices: 82761--83646 Score: 1105
Period size: 331 Copynumber: 2.7 Consensus size: 332
82751 TTTTTCGGAG
* * * *
82761 AAAAGGGATTTCAAGGAAAAAAATTAAAATTCATGGAAATGAATGAATTTTTGAAAACTGAATTA
1 AAAAGGGATTTC-AGGGAAAAAATAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAATTA
* * * *
82826 ATATGAAGTAAATAATAATATTTT-ATAACTTTT-AAAATTAAAAATCAAGAAAAAT-CCCCCTA
65 ATATGAAATAAATAAAAATATTTTGATGACTTTTAAAAATTAAAAATCAAGAAAAATCCCCCCAA
* * * *
82888 AAAAAATTAC-GAAGTAGAAAACTCCATATTTCGAAAAAAATGAAATTTTAG-GGGAAAAATAAA
130 AAAAAATTACTG-AGTAGAAAACTCCGTATTTCGAAAAAAA-G-GATTTCAGAGGAAAAAATAAA
* * *
82951 AAACTTATGAAAGTGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATAAAAAAATTTTGA
192 AAACTCATGAAAATGAATGAATTTTTAAAAACTAAATTAATATGAAATAAATAAAAAAATTTTGA
* *
83016 TGATTTTTAAAAATTAAAAATCAAGAAAAATCCCCCCCAAAAAAATTACAGAATAGAAAACTCCG
257 TGAATTTTAAAAATTAAAAATCAAGAAAAATCCCCCCCAAAAAAATTACAGAAGAGAAAACTCCG
*
83081 TATTTGGAAAA
322 TATTTAGAAAA
* *
83092 AAAAGGGATTTCAGAGAAAAAATAAAAAACTCATGAAAATAAATGAATTTTTGAAAACTGAATTA
1 AAAAGGGATTTCAGGGAAAAAAT-AAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAATTA
* * *
83157 ATATAAAATAAATAAAAAAATTTTGATGACTTTTAAAAATTAAAAATCAAGAAAAATTCCCCCCC
65 ATATGAAATAAATAAAAATATTTTGATGACTTTTAAAAATTAAAAATCAAGAAAAA-TCCCCCCA
83222 AAAAAAATTACTGAGTAGAAAACTCCGTATTT-GAAAAAAAGGATTTCAGAGGAAAAAATAAAAA
129 AAAAAAATTACTGAGTAGAAAACTCCGTATTTCGAAAAAAAGGATTTCAGAGGAAAAAATAAAAA
* * * *
83286 ACTCATGAAAATGAATGAATTTTTGAAAACTAAATTACTATGAAATAAATAAAAATATTTT-ATT
194 ACTCATGAAAATGAATGAATTTTTAAAAACTAAATTAATATGAAATAAATAAAAAAATTTTGATG
* * * * * * *
83350 AATTTTAAAAATTTAAAA-CTAAGAAAAAT-TCTCTC-AAAAAATTACGGAGGAGAAAACTCTGT
259 AATTTTAAAAATTAAAAATC-AAGAAAAATCCCCCCCAAAAAAATTACAGAAGAGAAAACTCCGT
83412 ATTTTAGAAAA
323 A-TTTAGAAAA
*
83423 AAAAGGGATTTCAGGGGAAAAAATCAAAAGCTCATGAAAATGAATGAATTTTTGAAAACTGAATT
1 AAAAGGGATTTCA-GGGAAAAAAT-AAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAATT
** * * **
83488 AATATGGTATAAATAAAAATA-TTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCATCA
64 AATATGAAATAAATAAAAATATTTTGATGACTTTTAAAAATTAAAAATCAAGAAAAATCCCCCCA
* * * * * * *
83552 AAAAAAATTA-TGGAGGAAAAAACTTCGTATTTCGGAAAAAGGGAACTTCA-AGGAAAAAATTTA
129 AAAAAAATTACT-GAGTAGAAAACTCCGTATTTCGAAAAAAAGG-ATTTCAGAGGAAAAAA-TAA
* * *
83615 AAAGCTCATGAAAATGAAAGAATTTTTCAAAA
191 AAAACTCATGAAAATGAATGAATTTTTAAAAA
83647 TTGATTTTAT
Statistics
Matches: 485, Mismatches: 56, Indels: 27
0.85 0.10 0.05
Matches are distributed among these distances:
329 1 0.00
330 65 0.13
331 144 0.30
332 141 0.29
333 90 0.19
334 9 0.02
335 34 0.07
336 1 0.00
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (332 bp):
AAAAGGGATTTCAGGGAAAAAATAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAATTAA
TATGAAATAAATAAAAATATTTTGATGACTTTTAAAAATTAAAAATCAAGAAAAATCCCCCCAAA
AAAAATTACTGAGTAGAAAACTCCGTATTTCGAAAAAAAGGATTTCAGAGGAAAAAATAAAAAAC
TCATGAAAATGAATGAATTTTTAAAAACTAAATTAATATGAAATAAATAAAAAAATTTTGATGAA
TTTTAAAAATTAAAAATCAAGAAAAATCCCCCCCAAAAAAATTACAGAAGAGAAAACTCCGTATT
TAGAAAA
Found at i:99760 original size:34 final size:35
Alignment explanation
Indices: 99722--99788 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
99712 CCTTACAACA
99722 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
99756 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
99789 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:100261 original size:13 final size:13
Alignment explanation
Indices: 100243--100268 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
100233 CAATTTTTTG
100243 TGTATCGATACAT
1 TGTATCGATACAT
100256 TGTATCGATACAT
1 TGTATCGATACAT
100269 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:101026 original size:23 final size:23
Alignment explanation
Indices: 100996--101042 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
100986 ATCTCCCCCT
100996 TAATCAAGTAATTCATATCAAAA
1 TAATCAAGTAATTCATATCAAAA
101019 TAATCAAGTAATTCATATCAAAA
1 TAATCAAGTAATTCATATCAAAA
101042 T
1 T
101043 TTATTTGCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAATCAAGTAATTCATATCAAAA
Found at i:102314 original size:13 final size:13
Alignment explanation
Indices: 102296--102320 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
102286 ACTGAAGCAA
102296 TGTATCGATACAT
1 TGTATCGATACAT
102309 TGTATCGATACA
1 TGTATCGATACA
102321 ATTTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:105470 original size:34 final size:35
Alignment explanation
Indices: 105432--105498 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
105422 CCTTACAACA
105432 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
105466 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
105499 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:105973 original size:13 final size:13
Alignment explanation
Indices: 105955--105980 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
105945 CAATTTTTTG
105955 TGTATCGATACAT
1 TGTATCGATACAT
105968 TGTATCGATACAT
1 TGTATCGATACAT
105981 CTTTTTCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:105977 original size:33 final size:34
Alignment explanation
Indices: 105935--106044 Score: 125
Period size: 41 Copynumber: 3.1 Consensus size: 34
105925 TACAAGCCAA
*
105935 TGTATCGATACAAT-TTTTT-GTGTATCGATACAT
1 TGTATCGATAC-ATCTTTTTCATGTATCGATACAT
105968 TGTATCGATACATCTTTTTCATGTATCGATACATT
1 TGTATCGATACATCTTTTTCATGTATCGATACA-T
106003 GCAACATGTATCGATACATCTTTTTCATGTATCGATACAT
1 ------TGTATCGATACATCTTTTTCATGTATCGATACAT
106043 TG
1 TG
106045 CAACATGTAT
Statistics
Matches: 67, Mismatches: 1, Indels: 17
0.79 0.01 0.20
Matches are distributed among these distances:
32 2 0.03
33 16 0.24
34 14 0.21
35 1 0.01
40 1 0.01
41 33 0.49
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (34 bp):
TGTATCGATACATCTTTTTCATGTATCGATACAT
Found at i:105994 original size:21 final size:21
Alignment explanation
Indices: 105968--106042 Score: 107
Period size: 21 Copynumber: 3.6 Consensus size: 21
105958 ATCGATACAT
105968 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTTTTCA
****
105989 TGTATCGATACAT-TGCAACA
1 TGTATCGATACATCTTTTTCA
106009 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTTTTCA
106030 TGTATCGATACAT
1 TGTATCGATACAT
106043 TGCAACATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (21 bp):
TGTATCGATACATCTTTTTCA
Found at i:106012 original size:20 final size:20
Alignment explanation
Indices: 105987--106060 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
105977 ACATCTTTTT
105987 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
106007 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
106028 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
106048 CATGTATCGATAC
1 CATGTATCGATAC
106061 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:106025 original size:41 final size:41
Alignment explanation
Indices: 105968--106060 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
105958 ATCGATACAT
105968 TGTATCGATACATCTTTTTCATGTATCGATACATTGCAACA
1 TGTATCGATACATCTTTTTCATGTATCGATACATTGCAACA
106009 TGTATCGATACATCTTTTTCATGTATCGATACATTGCAACA
1 TGTATCGATACATCTTTTTCATGTATCGATACATTGCAACA
106050 TGTATCGATAC
1 TGTATCGATAC
106061 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (41 bp):
TGTATCGATACATCTTTTTCATGTATCGATACATTGCAACA
Found at i:106856 original size:15 final size:17
Alignment explanation
Indices: 106828--106874 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
106818 ATTCGAAAGC
*
106828 AAAAGCACAAAAAATG-
1 AAAAGCAAAAAAAATGT
106844 AAAAG-AAAAAAAATGT
1 AAAAGCAAAAAAAATGT
106860 AAAAGCAAAATAAAA
1 AAAAGCAAAA-AAAA
106875 AAGGGAACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 9 0.33
16 10 0.37
17 4 0.15
18 4 0.15
ACGTcount: A:0.74, C:0.06, G:0.11, T:0.09
Consensus pattern (17 bp):
AAAAGCAAAAAAAATGT
Found at i:106876 original size:20 final size:19
Alignment explanation
Indices: 106849--106897 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
106839 AAATGAAAAG
*
106849 AAAAAAAATGTAA-AAGCAA
1 AAAAAAAATGGAACAA-CAA
*
106868 AATAAAAAAGGGAACAACAA
1 AA-AAAAAATGGAACAACAA
106888 AAAAAAAATG
1 AAAAAAAATG
106898 AGGACATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 9 0.36
20 14 0.56
21 2 0.08
ACGTcount: A:0.73, C:0.06, G:0.12, T:0.08
Consensus pattern (19 bp):
AAAAAAAATGGAACAACAA
Found at i:107387 original size:13 final size:13
Alignment explanation
Indices: 107369--107394 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
107359 TACAGCAAGT
107369 ATGTATCGATACA
1 ATGTATCGATACA
107382 ATGTATCGATACA
1 ATGTATCGATACA
107395 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:112883 original size:13 final size:13
Alignment explanation
Indices: 112865--112903 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
112855 ACATTTTTCT
112865 TTGTATCGATACA
1 TTGTATCGATACA
112878 TTGTATCGATACA
1 TTGTATCGATACA
112891 TTGTATCGATACA
1 TTGTATCGATACA
112904 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:113067 original size:20 final size:20
Alignment explanation
Indices: 113024--113069 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
113014 AAATCTTTTG
113024 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
113045 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
113065 CAAAA
1 CAAAA
113070 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:119952 original size:19 final size:19
Alignment explanation
Indices: 119913--119952 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
119903 TTAAAATTTT
* **
119913 TAATTTAAATATATTTTAA
1 TAATTTAAAAATATTAAAA
119932 TAATTTAAAAATATTAAAA
1 TAATTTAAAAATATTAAAA
119951 TA
1 TA
119953 TTATTTTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAATTTAAAAATATTAAAA
Found at i:120293 original size:65 final size:63
Alignment explanation
Indices: 120191--120318 Score: 195
Period size: 65 Copynumber: 2.0 Consensus size: 63
120181 GGCACGATGT
* *
120191 CAAACACGAGACAATGAAGGACATCACATGGCTGTTTTCTTAA-CTTTCGGCACATACAACCCA
1 CAAACACGAGACAATGAAGGACATCACATGGCTGTTTTCTTAACCTTT-AGCAAATACAACCCA
*
120254 CAAACACGAGACACAATGAAGGACATCACATGGGTGTTTTCTTAACCTTTAGCAAATACAACCCA
1 CAAACACGAG--ACAATGAAGGACATCACATGGCTGTTTTCTTAACCTTTAGCAAATACAACCCA
120319 AGCAAGTTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
63 10 0.17
65 45 0.76
66 4 0.07
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.22
Consensus pattern (63 bp):
CAAACACGAGACAATGAAGGACATCACATGGCTGTTTTCTTAACCTTTAGCAAATACAACCCA
Found at i:122019 original size:13 final size:13
Alignment explanation
Indices: 122003--122027 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
121993 ATTTTTTTAT
122003 AATATTTATATTA
1 AATATTTATATTA
122016 AATATTTATATT
1 AATATTTATATT
122028 TAACACATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATATTTATATTA
Found at i:122065 original size:18 final size:17
Alignment explanation
Indices: 122039--122075 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
122029 AACACATATT
*
122039 TAATGATAAATATAAATA
1 TAATAATAAAT-TAAATA
122057 TAATAATAAATTAAATA
1 TAATAATAAATTAAATA
122074 TA
1 TA
122076 TTTATGATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
TAATAATAAATTAAATA
Found at i:122745 original size:12 final size:11
Alignment explanation
Indices: 122721--122759 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
122711 AAAAATCTTC
122721 TCTTTAATTTT
1 TCTTTAATTTT
122732 TCTTTAATTTT
1 TCTTTAATTTT
*
122743 T-TCTAATTTT
1 TCTTTAATTTT
*
122753 TCATTAA
1 TCTTTAA
122760 AAATAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (11 bp):
TCTTTAATTTT
Found at i:124222 original size:20 final size:20
Alignment explanation
Indices: 124197--124267 Score: 142
Period size: 20 Copynumber: 3.5 Consensus size: 20
124187 TTTTATCCAG
124197 ATGTATCGATACATTATTCA
1 ATGTATCGATACATTATTCA
124217 ATGTATCGATACATTATTCA
1 ATGTATCGATACATTATTCA
124237 ATGTATCGATACATTATTCA
1 ATGTATCGATACATTATTCA
124257 ATGTATCGATA
1 ATGTATCGATA
124268 TATGTAGGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTATTCA
Found at i:130520 original size:27 final size:27
Alignment explanation
Indices: 130446--130534 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 27
130436 ATTAATCTCC
130446 TTATAACAATTG---TTTCTTTATATT
1 TTATAACAATTGTTATTTCTTTATATT
* * *
130470 TTATAA-AA--ATTATTCCTTTGTATT
1 TTATAACAATTGTTATTTCTTTATATT
130494 TTATAACAATTGTTATTTCTTTATATT
1 TTATAACAATTGTTATTTCTTTATATT
130521 TTATAACAATTGTT
1 TTATAACAATTGTT
130535 TTTTTATATT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
23 2 0.04
24 22 0.42
25 2 0.04
27 27 0.51
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.56
Consensus pattern (27 bp):
TTATAACAATTGTTATTTCTTTATATT
Found at i:130551 original size:24 final size:24
Alignment explanation
Indices: 130446--130544 Score: 126
Period size: 24 Copynumber: 4.0 Consensus size: 24
130436 ATTAATCTCC
130446 TTATAACAATTGTTTCTTTATATT
1 TTATAACAATTGTTTCTTTATATT
* * * *
130470 TTATAAAAATTATTCCTTTGTATT
1 TTATAACAATTGTTTCTTTATATT
130494 TTATAACAATTGTTATTTCTTTATATT
1 TTATAACAATTG---TTTCTTTATATT
*
130521 TTATAACAATTGTTTTTTTATATT
1 TTATAACAATTGTTTCTTTATATT
130545 ATGTAACTTG
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
24 41 0.65
27 22 0.35
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (24 bp):
TTATAACAATTGTTTCTTTATATT
Found at i:133573 original size:23 final size:23
Alignment explanation
Indices: 133547--133591 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
133537 GTTTTTATAT
*
133547 TTAAACATATTGTAA-AATAAATG
1 TTAAACATAAT-TAATAATAAATG
*
133570 TTAAATATAATTAATAATAAAT
1 TTAAACATAATTAATAATAAAT
133592 AAAAATATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (23 bp):
TTAAACATAATTAATAATAAATG
Found at i:135875 original size:15 final size:16
Alignment explanation
Indices: 135857--135887 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
135847 AAATATAGCA
135857 ACTGAAAA-ATAATTT
1 ACTGAAAATATAATTT
135872 ACTGAAAATATAATTT
1 ACTGAAAATATAATTT
135888 TTTATGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (16 bp):
ACTGAAAATATAATTT
Found at i:138954 original size:22 final size:21
Alignment explanation
Indices: 138913--138954 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
138903 AAATCTTCAC
*
138913 TTTTCTTTTTTTTTTTAATTT
1 TTTTCTTTTTTTTTTCAATTT
138934 TTTTCTTTTTTTTTTACAATT
1 TTTTCTTTTTTTTTT-CAATT
138955 GCCATGCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTTCTTTTTTTTTTCAATTT
Found at i:152369 original size:52 final size:52
Alignment explanation
Indices: 152291--152406 Score: 180
Period size: 52 Copynumber: 2.2 Consensus size: 52
152281 TCATTGATAT
152291 TGATGATGCCATGATGGCGATCAGAGTCAAAGTGA-CTTGGCGTCACTAATAA
1 TGATGATGCCATGATGGCGATCAGAGTCAAAGTGATC-TGGCGTCACTAATAA
* * * *
152343 TGATGATGCCATGGTGGCGATTAGAGTCAGAGTGATCTGGTGTCACTAATAA
1 TGATGATGCCATGATGGCGATCAGAGTCAAAGTGATCTGGCGTCACTAATAA
152395 TGATGATGCCAT
1 TGATGATGCCAT
152407 AGCGAATATC
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
52 58 0.98
53 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (52 bp):
TGATGATGCCATGATGGCGATCAGAGTCAAAGTGATCTGGCGTCACTAATAA
Found at i:152421 original size:52 final size:52
Alignment explanation
Indices: 152309--152424 Score: 144
Period size: 52 Copynumber: 2.2 Consensus size: 52
152299 CCATGATGGC
* * **
152309 GATCAGAGTCAAAGTGACTTGGCGTCACTAATAATGATGATGCCATGGTGGC
1 GATCAGAGTCAAAGTGACTTGGCGTCACTAATAATGATGATGCCATAGCGAA
* * *
152361 GATTAGAGTCAGAGTGA-TCTGGTGTCACTAATAATGATGATGCCATAGCGAA
1 GATCAGAGTCAAAGTGACT-TGGCGTCACTAATAATGATGATGCCATAGCGAA
*
152413 TATCAGAGTCAA
1 GATCAGAGTCAA
152425 TAAGGAAAGA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
51 1 0.02
52 52 0.98
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.26
Consensus pattern (52 bp):
GATCAGAGTCAAAGTGACTTGGCGTCACTAATAATGATGATGCCATAGCGAA
Found at i:170755 original size:27 final size:27
Alignment explanation
Indices: 170717--170775 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
170707 CCCCACTACT
170717 CATTTTTAGTTTTCTTAATTATTAAAG
1 CATTTTTAGTTTTCTTAATTATTAAAG
170744 CATTTTTAGTTTTCTTAATTATTAAAG
1 CATTTTTAGTTTTCTTAATTATTAAAG
170771 CATTT
1 CATTT
170776 AAGCAAGCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.56
Consensus pattern (27 bp):
CATTTTTAGTTTTCTTAATTATTAAAG
Found at i:171054 original size:2 final size:2
Alignment explanation
Indices: 171047--171075 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
171037 ATTATCAATA
171047 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
171076 GGATATGCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:172468 original size:23 final size:22
Alignment explanation
Indices: 172444--172487 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
172434 CGGATTATGT
* *
172444 TTTTTATACGTATTAAATCTTG
1 TTTTGATACGTATTAAACCTTG
*
172466 TTTTGCTACGTATTAAACCTTG
1 TTTTGATACGTATTAAACCTTG
172488 GTTTAGTGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.50
Consensus pattern (22 bp):
TTTTGATACGTATTAAACCTTG
Found at i:172567 original size:17 final size:17
Alignment explanation
Indices: 172531--172569 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
172521 TTTTTTTAAT
*
172531 AAAAATGAAAAGCCAAA
1 AAAAATGAAAAGCAAAA
172548 AAAAATGAAAA-CAAAGA
1 AAAAATGAAAAGCAAA-A
172565 AAAAA
1 AAAAA
172570 AGCAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.77, C:0.08, G:0.10, T:0.05
Consensus pattern (17 bp):
AAAAATGAAAAGCAAAA
Found at i:173039 original size:3 final size:3
Alignment explanation
Indices: 173027--173062 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
173017 CAACAACAAC
*
173027 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
173063 GCCACCTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:173361 original size:4 final size:4
Alignment explanation
Indices: 173354--173398 Score: 72
Period size: 4 Copynumber: 11.2 Consensus size: 4
173344 ATATATATAT
* *
173354 ATAG ATAG ATAA ATAA ATAG ATAG ATAG ATAG ATAG ATAG ATAG A
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG A
173399 GAGAGTAGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.56, C:0.00, G:0.20, T:0.24
Consensus pattern (4 bp):
ATAG
Found at i:177359 original size:20 final size:20
Alignment explanation
Indices: 177334--177459 Score: 99
Period size: 20 Copynumber: 5.8 Consensus size: 20
177324 AATTAACTAG
177334 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
177354 ATGTATCGATACATCTAGGTAAAAAAATAGA
1 ATGTATCGATACAT-T--G------AA-A-A
177385 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
* * * * *
177405 ATATATCGATACAATCATAC
1 ATGTATCGATACATTGAAAA
*
177425 ATATATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
177445 ATGTATCGATACATT
1 ATGTATCGATACATT
177460 TGGGTAAAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 22
0.73 0.09 0.19
Matches are distributed among these distances:
20 60 0.71
21 2 0.02
22 2 0.02
23 1 0.01
28 1 0.01
29 2 0.02
30 2 0.02
31 15 0.18
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:179372 original size:32 final size:33
Alignment explanation
Indices: 179336--179414 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 33
179326 CTCGGTTCAA
* *
179336 GTTCTCTCAGGTT-TAGGTATTTTCGGGTTC-GG
1 GTTCTCTCAGGTTCGAGCT-TTTTCGGGTTCAGG
* *
179368 GTTCTTTCGGGTTCGAGCTTTTTCGGGTTCAGG
1 GTTCTCTCAGGTTCGAGCTTTTTCGGGTTCAGG
*
179401 CTT-TCTCAGGTTCG
1 GTTCTCTCAGGTTCG
179415 GGTTGTCTCG
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 31 0.82
33 7 0.18
ACGTcount: A:0.08, C:0.19, G:0.30, T:0.43
Consensus pattern (33 bp):
GTTCTCTCAGGTTCGAGCTTTTTCGGGTTCAGG
Found at i:179375 original size:16 final size:15
Alignment explanation
Indices: 179355--179415 Score: 68
Period size: 16 Copynumber: 3.9 Consensus size: 15
179345 GGTTTAGGTA
*
179355 TTTTCGGGTTCGGGT
1 TTTTCGGGTTCGGCT
179370 TCTTTCGGGTTCGAGCT
1 T-TTTCGGGTTCG-GCT
179387 TTTTCGGGTTCAGGCT
1 TTTTCGGGTTC-GGCT
* *
179403 TTCTCAGGTTCGG
1 TTTTCGGGTTCGG
179416 GTTGTCTCGG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
15 3 0.08
16 33 0.82
17 4 0.10
ACGTcount: A:0.05, C:0.20, G:0.33, T:0.43
Consensus pattern (15 bp):
TTTTCGGGTTCGGCT
Found at i:179456 original size:16 final size:15
Alignment explanation
Indices: 179431--179460 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
179421 CTCGGGTTTA
179431 GGGTATTTCGAGTTC
1 GGGTATTTCGAGTTC
179446 GGGTAATTTCGAGTT
1 GGGT-ATTTCGAGTT
179461 TAGGTTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.17, C:0.10, G:0.33, T:0.40
Consensus pattern (15 bp):
GGGTATTTCGAGTTC
Found at i:183033 original size:2 final size:2
Alignment explanation
Indices: 183026--183066 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
183016 AACAAAAGCA
183026 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
183066 A
1 A
183067 GTAATAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:183071 original size:11 final size:11
Alignment explanation
Indices: 183025--183072 Score: 64
Period size: 10 Copynumber: 4.4 Consensus size: 11
183015 AAACAAAAGC
183025 AATATATATAT
1 AATATATATAT
183036 -ATATATATAT
1 AATATATATAT
183046 ATATATATATAT
1 A-ATATATATAT
183058 AATAT-TATAGT
1 AATATATATA-T
183069 AATA
1 AATA
183073 ATAAATACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
10 14 0.41
11 9 0.26
12 11 0.32
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (11 bp):
AATATATATAT
Found at i:185063 original size:3 final size:3
Alignment explanation
Indices: 185050--185078 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
185040 TTTTGTCTAA
185050 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
185079 TACCTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:187849 original size:13 final size:13
Alignment explanation
Indices: 187831--187885 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 13
187821 TAAAGTGTTA
187831 TATCGATACAATG
1 TATCGATACAATG
187844 TATCGATACATAAGTGTTG
1 TATCGATAC--AA----TG
187863 TATCGATACAATG
1 TATCGATACAATG
187876 TATCGATACA
1 TATCGATACA
187886 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 21 0.58
15 2 0.06
17 2 0.06
19 11 0.31
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:187866 original size:19 final size:18
Alignment explanation
Indices: 187807--187904 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
187797 ATTTCAACGA
187807 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
*
187826 TGTTATATCGATAC--AA-
1 T-TTGTATCGATACATAAG
187842 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
187858 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
187874 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
187890 TTTTGTATCGATACA
1 -TTTGTATCGATACA
187905 ATATAAGCTA
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
19 24 0.38
20 11 0.17
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:187867 original size:32 final size:32
Alignment explanation
Indices: 187809--187906 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
187799 TTCAACGATT
*
187809 TGTATCGATACATAAAGTGTTATATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
187842 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
187874 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
187906 T
1 T
187907 ATAAGCTACT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 50 0.79
33 13 0.21
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:188014 original size:52 final size:52
Alignment explanation
Indices: 187978--188106 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
187968 CACTGATCTT
187978 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
188030 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
188082 TGTATCAATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
188107 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:193631 original size:20 final size:21
Alignment explanation
Indices: 193608--193660 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
193598 TAGGTTGCAT
**
193608 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
*
193628 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
193649 TGTATCGATACA
1 TGTATCGATACA
193661 AGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:193730 original size:13 final size:13
Alignment explanation
Indices: 193712--193737 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
193702 ACACACAATA
193712 TGTATCGATACAT
1 TGTATCGATACAT
193725 TGTATCGATACAT
1 TGTATCGATACAT
193738 CATAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:193733 original size:32 final size:33
Alignment explanation
Indices: 193692--193759 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
193682 GTAGCCAAAC
*
193692 TTGTATCGATACA-CACAATATGTATCGATACA
1 TTGTATCGATACATCACAAAATGTATCGATACA
* *
193724 TTGTATCGATACATCATAAAATGTATTGATACA
1 TTGTATCGATACATCACAAAATGTATCGATACA
193757 TTG
1 TTG
193760 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (33 bp):
TTGTATCGATACATCACAAAATGTATCGATACA
Done.