Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 91 of 208
Found at i:26915255 original size:15 final size:16
Alignment explanation
Indices: 26915230--26915259 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
26915220 ATCAATGTAA
26915230 TAATATAAATCATATC
1 TAATATAAATCATATC
26915246 TAAT-TAAATCATAT
1 TAATATAAATCATAT
26915260 GAACTTATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATATAAATCATATC
Found at i:26915966 original size:15 final size:14
Alignment explanation
Indices: 26915923--26915966 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 14
26915913 AATGCCACCA
26915923 TTTTTTTATGTTTTC
1 TTTTTTTAT-TTTTC
*
26915938 TTTCTTTTAATTTTAC
1 TTT-TTTT-ATTTTTC
26915954 TTTTTTTATTTTT
1 TTTTTTTATTTTT
26915967 TTTATTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 5 0.20
15 7 0.28
16 11 0.44
17 2 0.08
ACGTcount: A:0.11, C:0.07, G:0.02, T:0.80
Consensus pattern (14 bp):
TTTTTTTATTTTTC
Found at i:26917395 original size:28 final size:28
Alignment explanation
Indices: 26917328--26917520 Score: 210
Period size: 28 Copynumber: 6.9 Consensus size: 28
26917318 TAAAAATGGA
* *
26917328 CCTTTATGGCTATCTCTG--AAAGGATG
1 CCTTTGTGGCTATCTCTGTTAAAGGAAG
* * *
26917354 TCTTTATGGCTATCACTGTTAAAGGAAG
1 CCTTTGTGGCTATCTCTGTTAAAGGAAG
* * * * * *
26917382 CCGTTGTTGTTATCTTTATTAAAGGATG
1 CCTTTGTGGCTATCTCTGTTAAAGGAAG
* *
26917410 CCTTTATGGCTATCTCTGTTAAAGGATG
1 CCTTTGTGGCTATCTCTGTTAAAGGAAG
26917438 CCTTTGTGGCTATCTCTGTTAAAGGAAG
1 CCTTTGTGGCTATCTCTGTTAAAGGAAG
* * * *
26917466 CCTTTGTGACTATCTTTCTTAAAGGATG
1 CCTTTGTGGCTATCTCTGTTAAAGGAAG
26917494 CCTTTGTGGCTATCTCTGTTCAAAGGA
1 CCTTTGTGGCTATCTCTGTT-AAAGGA
26917521 CACCTTCATG
Statistics
Matches: 137, Mismatches: 27, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
26 16 0.12
28 115 0.84
29 6 0.04
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (28 bp):
CCTTTGTGGCTATCTCTGTTAAAGGAAG
Found at i:26917462 original size:84 final size:84
Alignment explanation
Indices: 26917328--26917520 Score: 284
Period size: 84 Copynumber: 2.3 Consensus size: 84
26917318 TAAAAATGGA
*
26917328 CCTTTATGGCTATCTCTG--AAAGGATGTCTTTATGGCTATCACTGTTAAAGGAAGCCGTTGTTG
1 CCTTTATGGCTATCTCTGTTAAAGGATGCCTTTATGGCTATCACTGTTAAAGGAAGCCGTTG-TG
*
26917391 -TTATCTTTATTAAAGGATG
65 ACTATCTTTATTAAAGGATG
* * *
26917410 CCTTTATGGCTATCTCTGTTAAAGGATGCCTTTGTGGCTATCTCTGTTAAAGGAAGCCTTTGTGA
1 CCTTTATGGCTATCTCTGTTAAAGGATGCCTTTATGGCTATCACTGTTAAAGGAAGCCGTTGTGA
*
26917475 CTATCTTTCTTAAAGGATG
66 CTATCTTTATTAAAGGATG
*
26917494 CCTTTGTGGCTATCTCTGTTCAAAGGA
1 CCTTTATGGCTATCTCTGTT-AAAGGA
26917521 CACCTTCATG
Statistics
Matches: 100, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
82 18 0.18
83 2 0.02
84 74 0.74
85 6 0.06
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (84 bp):
CCTTTATGGCTATCTCTGTTAAAGGATGCCTTTATGGCTATCACTGTTAAAGGAAGCCGTTGTGA
CTATCTTTATTAAAGGATG
Found at i:26917546 original size:84 final size:82
Alignment explanation
Indices: 26917328--26917567 Score: 211
Period size: 84 Copynumber: 2.9 Consensus size: 82
26917318 TAAAAATGGA
*** * * *
26917328 CCTTTATGGCTATCTCTG--AAAGGATGTCTTTATGGCTATCACT-GTTAAAGGAAGCCGTTGTT
1 CCTTTATGGCTATCTCTGTTAAAGGACACCTTCATGGCTA--ACTCGTAAAAGGAAGCCTTTG-T
*
26917390 GTTATCTTTATTAAAGGATG
63 GCTATCTTTATTAAAGGATG
** ** * *
26917410 CCTTTATGGCTATCTCTGTTAAAGGATGCCTTTGTGGCTATCTCTGTTAAAGGAAGCCTTTGTGA
1 CCTTTATGGCTATCTCTGTTAAAGGACACCTTCATGGCTAACTC-GTAAAAGGAAGCCTTTGTG-
*
26917475 CTATCTTTCTTAAAGGATG
64 CTATCTTTATTAAAGGATG
* *
26917494 CCTTTGTGGCTATCTCTGTTCAAAGGACACCTTCATGG-TGAGACTC-TAAAAGGAAAGCCTCTG
1 CCTTTATGGCTATCTCTGTT-AAAGGACACCTTCATGGCT-A-ACTCGTAAAAGG-AAGCCTTTG
26917557 TGGCTATCTTT
62 T-GCTATCTTT
26917568 GGAAAGGAAT
Statistics
Matches: 134, Mismatches: 14, Indels: 17
0.81 0.08 0.10
Matches are distributed among these distances:
82 20 0.15
83 2 0.01
84 77 0.57
85 31 0.23
86 4 0.03
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (82 bp):
CCTTTATGGCTATCTCTGTTAAAGGACACCTTCATGGCTAACTCGTAAAAGGAAGCCTTTGTGCT
ATCTTTATTAAAGGATG
Found at i:26917574 original size:84 final size:83
Alignment explanation
Indices: 26917402--26917587 Score: 189
Period size: 85 Copynumber: 2.2 Consensus size: 83
26917392 TATCTTTATT
* ** ** * *
26917402 AAAGGATGCCTTTATGGCTATCTCTGTTAAAGGATGCCTTTGTGGCTATCTCTGTTAAAGGAAGC
1 AAAGGATGCCTTTGTGGCTATCTCTGTTAAAGGACACCTTCATGGCTAACTC-GTAAAAGGAAGC
* **
26917467 CTTTGTGACTATCTTTCTT
65 CTCTGTGACTATCTTTCGG
26917486 AAAGGATGCCTTTGTGGCTATCTCTGTTCAAAGGACACCTTCATGG-TGAGACTC-TAAAAGGAA
1 AAAGGATGCCTTTGTGGCTATCTCTGTT-AAAGGACACCTTCATGGCT-A-ACTCGTAAAAGG-A
*
26917549 AGCCTCTGTGGCTATCTTT-GG
62 AGCCTCTGTGACTATCTTTCGG
*
26917570 AAAGGAATGCCTTCGTGG
1 AAAGG-ATGCCTTTGTGG
26917588 AGAAATCTGA
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
84 39 0.46
85 43 0.51
86 3 0.04
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (83 bp):
AAAGGATGCCTTTGTGGCTATCTCTGTTAAAGGACACCTTCATGGCTAACTCGTAAAAGGAAGCC
TCTGTGACTATCTTTCGG
Found at i:26918395 original size:31 final size:31
Alignment explanation
Indices: 26918354--26918416 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
26918344 TATCCATAGA
*
26918354 TAGTGAAACCAATAGTGGTTACATCCTGAGT
1 TAGTGAAACCAAGAGTGGTTACATCCTGAGT
*
26918385 TAGTGGAACCAAGAGTGGTTACATCCTGAGT
1 TAGTGAAACCAAGAGTGGTTACATCCTGAGT
26918416 T
1 T
26918417 TGAGTTAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (31 bp):
TAGTGAAACCAAGAGTGGTTACATCCTGAGT
Found at i:26918816 original size:22 final size:23
Alignment explanation
Indices: 26918791--26918834 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
26918781 ACATTCAACC
*
26918791 ATTACTCTTTT-CTTTTGTTTCT
1 ATTACTCTTTTCCTTTTATTTCT
*
26918813 ATTATTCTTTTCCTTTTATTTC
1 ATTACTCTTTTCCTTTTATTTC
26918835 CTTCCGTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.11, C:0.18, G:0.02, T:0.68
Consensus pattern (23 bp):
ATTACTCTTTTCCTTTTATTTCT
Found at i:26921801 original size:16 final size:16
Alignment explanation
Indices: 26921780--26921811 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
26921770 GTTTTGTTGC
*
26921780 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
26921796 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
26921812 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:26922085 original size:51 final size:48
Alignment explanation
Indices: 26921993--26922176 Score: 176
Period size: 51 Copynumber: 3.6 Consensus size: 48
26921983 CCGGTTCACA
* *
26921993 TAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACA-GTGA-CA-AACTATCCGATACACG
* *
26922044 TAGTAGCCTGCACATAGTACTACACTAGTGATCAAAGCTATCC-AGTACGCA
1 TAGTAGCCTGCACATAGTACTACAC-AGTGA-CAAA-CTATCCGA-TACACG
* * *
26922095 TAGTAGCCTGCACATAGTACTACACA-TG-CGACCTATCACTTTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACAGTGACAAACTATC-C---GATACACG
26922145 TAGTAGCCTGCACATAGTACTACACACGTGAC
1 TAGTAGCCTGCACATAGTACTACACA-GTGAC
26922177 CATCACTTCC
Statistics
Matches: 112, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
46 5 0.04
47 3 0.03
49 2 0.02
50 33 0.29
51 65 0.58
52 3 0.03
53 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (48 bp):
TAGTAGCCTGCACATAGTACTACACAGTGACAAACTATCCGATACACG
Found at i:26922198 original size:101 final size:102
Alignment explanation
Indices: 26921986--26922213 Score: 295
Period size: 101 Copynumber: 2.2 Consensus size: 102
26921976 AATGATACCG
*
26921986 GTTCACATAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGC
1 GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGC
*
26922051 CTGCACATAGTACTACACTAGTGATCAAAGCTATCCA
66 CTGCACATAGTACTACACTAGTGACCAAAGCTATCCA
* * * * *
26922088 GTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCACT-T-TGGTACACGTAGTAG
1 GTTCACATAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAG
*
26922151 CCTGCACATAGTACTACAC-ACGTGACCATCA-CT-TCCA
65 CCTGCACATAGTACTACACTA-GTGACCA-AAGCTATCCA
* *
26922188 CTTTCACATAGTGGCCTACACATAGT
1 -GTTCACATAGTAGCCTACACATAGT
26922214 CCATGCCACA
Statistics
Matches: 109, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
100 5 0.05
101 60 0.55
102 38 0.35
103 6 0.06
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.25
Consensus pattern (102 bp):
GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGC
CTGCACATAGTACTACACTAGTGACCAAAGCTATCCA
Found at i:26925232 original size:19 final size:19
Alignment explanation
Indices: 26925210--26925247 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
26925200 TCAATCATCC
26925210 CTCATCCAATCA-TCTCTCA
1 CTCATCC-ATCATTCTCTCA
*
26925229 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
26925248 ACTATTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.24, C:0.39, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:26931784 original size:22 final size:22
Alignment explanation
Indices: 26931742--26931784 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
26931732 AATGTAGCTA
* *
26931742 AATTTTTGCTATATGATACCCT
1 AATTTTTCCTATATGAAACCCT
26931764 AATTTTTCCCTATAT-AAACCC
1 AATTTTT-CCTATATGAAACCC
26931785 CTCTTCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.42
Consensus pattern (22 bp):
AATTTTTCCTATATGAAACCCT
Found at i:26935575 original size:19 final size:19
Alignment explanation
Indices: 26935553--26935590 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
26935543 TCAATCATCC
26935553 CTCATCCAATCA-TCTCTCA
1 CTCATCC-ATCATTCTCTCA
*
26935572 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
26935591 ACTATTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.24, C:0.39, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:26946097 original size:648 final size:647
Alignment explanation
Indices: 26941745--26946489 Score: 7219
Period size: 647 Copynumber: 7.3 Consensus size: 647
26941735 CCACACGGCC
* * * * * * *
26941745 GTGTGACCCTTGTAGTGTG-AATTTTTGTAACCTTTTCCTTATGGTTTCATATGTTCCCGATTTA
1 GTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCTTTAAGATTTCATATGTTCTCGATTTA
* * * * * ** *
26941809 GTCCAAAATAATTTTTAAAGTGTTTTTAAGGCCTCGAGGAG-TCTATTAAGGGACGATATACATG
66 GTCCGAGATCATTTTTAAA-TTTTTTTAAGGCCTCGAGG-GCTCGATTAAGGGATAATATGCATG
* * * * ** * * * *
26941873 TGTTTC-ATGGAATTATGGTAAGATTTATCCAATGTTTAAAAACGACTGTTTTAAGTTACGATTT
129 TGTTTCAAT-GAATTATGCTATGAGTTATCGAATGTTTGGAAATGAATTTTTTATGTTACGATTT
* *
26941937 TACGGTAATGCTTTGTAACCCTATTTTAGTGACGAATACGATTAGGGGTGTTACATTTAGTGGTA
193 TACGGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACATTTAGTGGTA
*
26942002 TCAGAGCTACAATTTAGTCGATTCTCGGAC-ACAACTTAGCATGGATAGAGTCTAGAAATACATG
258 TCAGAGCTACAATTTAGTCGATTCTCAGACTA-AACTTAGCATGGATAGAGTCTAGAAATACATG
*
26942066 ACACTTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATTTTTAAAATGTTCTTATATAGGTA
322 ACACTTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTATATAGGTA
26942131 AAAGATGTCGTCGGGATCTAATCAAGTAGGTTCTGATGAGGTAGAAAGTTTTATTCCACCTACTA
387 AAAGATGTCGTCGGGATCTAATCAAGTAGGTTCTGATGAGGTAGAAAGTTTTATTCCACCTACTA
* *
26942196 ACGAGGAAAGTACGCGGAATGAACCTGTACCGCAAGAATCTAGAGAAGTAGCACCTAATTTATTT
452 ACGAGGAAAGTACGCGGAATGAACCTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTT
*
26942261 CTTCGTATGATGCATGACATGTACGATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCA
517 CTTTGTATGATGCATGACATGTACGATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCA
26942326 ATCTCCTCACCATCAAGGTTCAAGTAAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAA
582 ATCTCCTCACCATCAAGGTTCAAGTAAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAA
26942391 A
647 A
26942392 GTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCTTTAAGATTTCATATGTTCTCGATTTA
1 GTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCTTTAAGATTTCATATGTTCTCGATTTA
*
26942457 GTCCGAGATCATTTTTAAATTTTTTTAAGGCCTCGAGGGCTCAATTAAGGGATAATATGCATGTG
66 GTCCGAGATCATTTTTAAATTTTTTTAAGGCCTCGAGGGCTCGATTAAGGGATAATATGCATGTG
*
26942522 TTTCAATGAATTATGCTATGAGTTAGCGAATGTTTGGAAATGAATTTTTTATGTTACGATTTTAC
131 TTTCAATGAATTATGCTATGAGTTATCGAATGTTTGGAAATGAATTTTTTATGTTACGATTTTAC
* * *
26942587 GGTAATGCTGTGTAACCCTATTTTTGTGACGAATACGGTTAGGGGTG-TACATTTAGTGATATCA
196 GGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACATTTAGTGGTATCA
* * * *
26942651 GAGCTACAATTTAGTCGATTCTCAAATTAAACTTAGGATGGAAAGAGTCTAGAAATACATGACAC
261 GAGCTACAATTTAGTCGATTCTCAGACTAAACTTAGCATGGATAGAGTCTAGAAATACATGACAC
*
26942716 TTGACTAACCAGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTATATAGGTAAAAG
326 TTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTATATAGGTAAAAG
* *
26942781 ATGTTGTCGGGATCTAATCAAGTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACCTACTAACGA
391 ATGTCGTCGGGATCTAATCAAGTAGGTTCTGATGAGGTAGAAAGTTTTATTCCACCTACTAACGA
26942846 GGAAAGTACGCGGAATGAACCTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTT
456 GGAAAGTACGCGGAATGAACCTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTT
*
26942911 GTATGATGCATGACATGTAC-ATGTGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCT
521 GTATGATGCATGACATGTACGATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCT
* *
26942975 GCTCACCATCAAGGTTCAAGTAAGTAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAA
586 CCTCACCATCAAGGTTCAAGTAAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAA
*
26943037 GTGTGACCCTTGTAGTGTGCATTTTTTTCTAACTTTTTCTTTAAGGTTTCATATGTTCTCGATTT
1 GTGTGACCCTTGTAGTGTGCA-TTTTTTCTAACTTTTTCTTTAAGATTTCATATGTTCTCGATTT
* *
26943102 AGTCCGGGATCATTTTTAAAATTTTTTAAGGCCTCGAGGGCTCGATTAAGGGATAATATGCATGT
65 AGTCCGAGATCATTTTTAAATTTTTTTAAGGCCTCGAGGGCTCGATTAAGGGATAATATGCATGT
* *
26943167 GTTTCAATGAATTATGCTATGATTTATCTAATGTTTGGAAATGAATTTTTTATGTTACGATTTTA
130 GTTTCAATGAATTATGCTATGAGTTATCGAATGTTTGGAAATGAATTTTTTATGTTACGATTTTA
**
26943232 CGGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTATGTTTAGTGGTATC
195 CGGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACATTTAGTGGTATC
26943297 AGAGCTACAATTTAGTCGATTCTCAGACTAAACTTAGCATGGATAGAGTCTAGAAATACATGACA
260 AGAGCTACAATTTAGTCGATTCTCAGACTAAACTTAGCATGGATAGAGTCTAGAAATACATGACA
*
26943362 CTTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTGTATAGGTAAAA
325 CTTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTATATAGGTAAAA
*
26943427 GATGTCGTCGGGATCTAATCAAGTAGGTTCTGATGAGGTAGAAAGTTTTATTCCACCTACTAATG
390 GATGTCGTCGGGATCTAATCAAGTAGGTTCTGATGAGGTAGAAAGTTTTATTCCACCTACTAACG
*
26943492 AGGAAAGTACGCGGAATGAACTTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTT-TT
455 AGGAAAGTACGCGGAATGAACCTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTT
26943556 TCGTATGATGCATGACATGTACGATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAAT
520 T-GTATGATGCATGACATGTACGATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAAT
26943621 CTCCTCACCATCAAGGTTCAAGTAAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAA
584 CTCCTCACCATCAAGGTTCAAGTAAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAA
26943685 GTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCTTTAAGATTTCATATGTTCTCGATTTA
1 GTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCTTTAAGATTTCATATGTTCTCGATTTA
*
26943750 GTCCGAGATCATTTTTAAATTTTTTTAAGGCCTCGAGGGCTCAATTAAGGGATAATATGCATGTG
66 GTCCGAGATCATTTTTAAATTTTTTTAAGGCCTCGAGGGCTCGATTAAGGGATAATATGCATGTG
*
26943815 TTTCAATGAATTATGCTATGAGTTAGCGAATGTTTGGAAATGAATTTTTTATGTTACGATTTTAC
131 TTTCAATGAATTATGCTATGAGTTATCGAATGTTTGGAAATGAATTTTTTATGTTACGATTTTAC
* *
26943880 GGTAATGCTCTGTAACCCTATTTTTGTGACGAATACGGTTAGGGGTG-TACATTTAGTGATATCA
196 GGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACATTTAGTGGTATCA
* * * *
26943944 GAGCTACAATTTAGTCGATTCTCAAATTAAACTTAGGATGGAAAGAGTCTAGAAATACATGACAC
261 GAGCTACAATTTAGTCGATTCTCAGACTAAACTTAGCATGGATAGAGTCTAGAAATACATGACAC
*
26944009 TTGACTAACCAGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTATATAGGTAAAAG
326 TTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTATATAGGTAAAAG
* *
26944074 ATGTTGTCGGGATCTAATCAAGTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACCTACTAACGA
391 ATGTCGTCGGGATCTAATCAAGTAGGTTCTGATGAGGTAGAAAGTTTTATTCCACCTACTAACGA
26944139 GGAAAGTACGCGGAATGAACCTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTT
456 GGAAAGTACGCGGAATGAACCTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTT
*
26944204 GTATGATGCATGACATGTAC-ATGTGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCT
521 GTATGATGCATGACATGTACGATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCT
* *
26944268 GCTCACCATCAAGGTTCAAGTAAGTAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAA
586 CCTCACCATCAAGGTTCAAGTAAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAA
***************************************************
26944330 GTGTGACCCTTGTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
1 GTGTGACCCTTGT-AGTGTGCATTTTTTCTAACTTTTTCTTTAAGATTTCATATGTTCTCGATTT
*****************************************************************
26944395 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
65 AGTCCGAGATCATTTTTAAATTTTTTTAAGGCCTCGAGGGCTCGATTAAGGGATAATATGCATGT
********** * *
26944460 NNNNNNNNNNATTATGCTATGATTTATCTAATGTTTGGAAATGAATTTTTTATGTTACGATTTTA
130 GTTTCAATGAATTATGCTATGAGTTATCGAATGTTTGGAAATGAATTTTTTATGTTACGATTTTA
*
26944525 CGGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACGTTTAGTGGTATC
195 CGGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACATTTAGTGGTATC
26944590 AGAGCTACAATTTAGTCGATTCTCAGACTAAACTTAGCATGGATAGAGTCTAGAAATACATGACA
260 AGAGCTACAATTTAGTCGATTCTCAGACTAAACTTAGCATGGATAGAGTCTAGAAATACATGACA
*
26944655 CTTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTGTATAGGTAAAA
325 CTTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTATATAGGTAAAA
*
26944720 GATGTCGTCGGGATCTAATCAAGTAGGTTCTGATGAGGTAGAAAGTTTTATTCCACCTACTAATG
390 GATGTCGTCGGGATCTAATCAAGTAGGTTCTGATGAGGTAGAAAGTTTTATTCCACCTACTAACG
*
26944785 AGGAAAGTACGCGGAATGAACTTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTT-TT
455 AGGAAAGTACGCGGAATGAACCTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTT
26944849 TCGTATGATGCATGACATGTACGATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAAT
520 T-GTATGATGCATGACATGTACGATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAAT
26944914 CTCCTCACCATCAAGGTTCAAGTAAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAA
584 CTCCTCACCATCAAGGTTCAAGTAAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAA
26944978 GTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCTTTAAGATTTCATATGTTCTCGATTTA
1 GTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCTTTAAGATTTCATATGTTCTCGATTTA
26945043 GTCCGAGATCATTTTTAAATTTTTTTAAGGCCTCGAGGGCTCGATTAAGGGATAATATGCATGTG
66 GTCCGAGATCATTTTTAAATTTTTTTAAGGCCTCGAGGGCTCGATTAAGGGATAATATGCATGTG
*
26945108 TTTCAATGAATTATGCTATGAGTTAGCGAATGTTTGGAAATGAATTTTTTATGTTACGATTTTAC
131 TTTCAATGAATTATGCTATGAGTTATCGAATGTTTGGAAATGAATTTTTTATGTTACGATTTTAC
* *
26945173 GGTAATGCTCTGTAACCCTATTTTTGTGACGAATACGGTTAGGGGTG-TACATTTAGTGATATCA
196 GGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACATTTAGTGGTATCA
* * * * *
26945237 GAGCTACCATTTAGTCGATTCTCAAATTAAACTTAGGATGGAAAGAGTCTAGAAATACATGACAC
261 GAGCTACAATTTAGTCGATTCTCAGACTAAACTTAGCATGGATAGAGTCTAGAAATACATGACAC
* *
26945302 TTGACTAACCAGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTATATAGTTAAAAG
326 TTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTATATAGGTAAAAG
* *
26945367 ATGTTGTCGGGATCTAATCAAGTAGGTTCTAATGAGGTAGAAAGTTTTATTCCACCTACTAACGA
391 ATGTCGTCGGGATCTAATCAAGTAGGTTCTGATGAGGTAGAAAGTTTTATTCCACCTACTAACGA
26945432 GGAAAGTACGCGGAATGAACCTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTT
456 GGAAAGTACGCGGAATGAACCTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTT
26945497 GTATGATGCATGACATGTACGATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCT
521 GTATGATGCATGACATGTACGATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCT
*
26945562 GCTCACCATCAAGGTTCAAGTAAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAA
586 CCTCACCATCAAGGTTCAAGTAAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAA
*
26945624 GTGTGACCCTTGTAGTGTGCATTTTTTTCTAACTTTTTCTTTAAGGTTTCATATGTTCTCGATTT
1 GTGTGACCCTTGTAGTGTGCA-TTTTTTCTAACTTTTTCTTTAAGATTTCATATGTTCTCGATTT
* *
26945689 AGTCCGGGATCATTTTTAAAATTTTTTAAGGCCTCGAGGGCTCGATTAAGGGATAATATGCATGT
65 AGTCCGAGATCATTTTTAAATTTTTTTAAGGCCTCGAGGGCTCGATTAAGGGATAATATGCATGT
* *
26945754 GTTTCAATGAATTATGCTATGATTTATCTAATGTTTGGAAATGAATTTTTTATGTTACGATTTTA
130 GTTTCAATGAATTATGCTATGAGTTATCGAATGTTTGGAAATGAATTTTTTATGTTACGATTTTA
*
26945819 CGGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACGTTTAGTGGTATC
195 CGGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACATTTAGTGGTATC
26945884 AGAGCTACAATTTAGTCGATTCTCAGACTAAACTTAGCATGGATAGAGTCTAGAAATACATGACA
260 AGAGCTACAATTTAGTCGATTCTCAGACTAAACTTAGCATGGATAGAGTCTAGAAATACATGACA
*
26945949 CTTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTGTATAGGTAAAA
325 CTTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTATATAGGTAAAA
*
26946014 GATGTCGTCGGGATCTAATCAAGTAGGTTCTGATGAGGTAGAAAGTTTTATTCCACCTACTAATG
390 GATGTCGTCGGGATCTAATCAAGTAGGTTCTGATGAGGTAGAAAGTTTTATTCCACCTACTAACG
*
26946079 AGGAAAGTACGCGGAATGAACTTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTT-TT
455 AGGAAAGTACGCGGAATGAACCTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTT
*
26946143 TCGTATGATGCATGACATGTACAATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAAT
520 T-GTATGATGCATGACATGTACGATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAAT
26946208 CTCCTCACCATCAAGGTTCAAGTAAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAA
584 CTCCTCACCATCAAGGTTCAAGTAAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAA
* * *
26946272 GTGTGACCCTTGTAGTGTGCTTTTTTTCTAACTCTTTCCTTAAGATTTCATATGTTCTCGATTTA
1 GTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCTTTAAGATTTCATATGTTCTCGATTTA
* *
26946337 GTCCGGGATCATTTTTAAATTTTTTTAAGGCCTCAAGGGCTCGATTAAGGGATAATATGCATGTG
66 GTCCGAGATCATTTTTAAATTTTTTTAAGGCCTCGAGGGCTCGATTAAGGGATAATATGCATGTG
* *
26946402 TTTCAATGAATTATGCTATGAGTTATCGAATTTTTGGAAATGATTTTTTTATGTTACGATTTTAC
131 TTTCAATGAATTATGCTATGAGTTATCGAATGTTTGGAAATGAATTTTTTATGTTACGATTTTAC
26946467 GGTAATGCTCTGTAACCCTATTT
196 GGTAATGCTCTGTAACCCTATTT
26946490 CGACAACAAA
Statistics
Matches: 3664, Mismatches: 417, Indels: 34
0.89 0.10 0.01
Matches are distributed among these distances:
645 240 0.07
646 1286 0.35
647 1438 0.39
648 700 0.19
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.34
Consensus pattern (647 bp):
GTGTGACCCTTGTAGTGTGCATTTTTTCTAACTTTTTCTTTAAGATTTCATATGTTCTCGATTTA
GTCCGAGATCATTTTTAAATTTTTTTAAGGCCTCGAGGGCTCGATTAAGGGATAATATGCATGTG
TTTCAATGAATTATGCTATGAGTTATCGAATGTTTGGAAATGAATTTTTTATGTTACGATTTTAC
GGTAATGCTCTGTAACCCTATTTTAGTGACGAATACGGTTAGGGGTGTTACATTTAGTGGTATCA
GAGCTACAATTTAGTCGATTCTCAGACTAAACTTAGCATGGATAGAGTCTAGAAATACATGACAC
TTGACTAACCGGAGATAGTGTGATAGCTTTTGATTATTTTTGAAATGTTCTTATATAGGTAAAAG
ATGTCGTCGGGATCTAATCAAGTAGGTTCTGATGAGGTAGAAAGTTTTATTCCACCTACTAACGA
GGAAAGTACGCGGAATGAACCTGGACCGTAAGAATCTAGAGAAGTAGCACCTAATTTATTTCTTT
GTATGATGCATGACATGTACGATGCGCATTTAATGGTAAACTCCACAGTTCCACAACCTCAATCT
CCTCACCATCAAGGTTCAAGTAAGCAATGTGCTCATAGAGTGACCATGTATAAAGTTAGAAA
Found at i:26966105 original size:2 final size:2
Alignment explanation
Indices: 26966098--26966132 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
26966088 TCTTATACTT
*
26966098 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26966133 GCACTTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26969198 original size:15 final size:14
Alignment explanation
Indices: 26969172--26969202 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
26969162 ATCAAGCTTC
*
26969172 TTCTAAAATTTTTA
1 TTCTTAAATTTTTA
26969186 TTCTTAAATTTTTA
1 TTCTTAAATTTTTA
26969200 TTC
1 TTC
26969203 ATGTCTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (14 bp):
TTCTTAAATTTTTA
Found at i:26973161 original size:50 final size:50
Alignment explanation
Indices: 26973032--26973328 Score: 218
Period size: 50 Copynumber: 5.8 Consensus size: 50
26973022 GAACACAACA
* * * ** * * * *
26973032 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTA-C
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * * * * * ** *
26973081 TGCCAATGTCATATCCCAGATATGGCCTTACATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * ** *
26973131 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* *
26973181 TGCCAACGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * * * * *
26973231 TGCCAACGCCATATTCTAGACAAGGTCTTACATGTGACCTCTCATAATCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCT--A-GG
* ** *
26973287 TGCCAATGCCATGTCTTAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
26973329 TTACCCAAAT
Statistics
Matches: 194, Mismatches: 47, Indels: 7
0.78 0.19 0.03
Matches are distributed among these distances:
49 35 0.18
50 119 0.61
53 4 0.02
56 36 0.19
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
Found at i:26973459 original size:50 final size:52
Alignment explanation
Indices: 26973405--26973522 Score: 150
Period size: 56 Copynumber: 2.2 Consensus size: 52
26973395 GATTCTCTGT
* *
26973405 CATGGGACCTCTC-ATCTC-GGTGCCAATGCCATATCCTAGACATGGTCTTA
1 CATGGGACCTCTCAATCTCAGATGCCAATGCCATATCCCAGACATGGTCTTA
*
26973455 CATGGGACCTCTCATAATCTCAATGATGCCAATGCCATGTCCCAGACATGGTCTTA
1 CATGGGACCTCTC--AATCTC-A-GATGCCAATGCCATATCCCAGACATGGTCTTA
*
26973511 CATGGGATCTCT
1 CATGGGACCTCT
26973523 TTACCCAAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
50 13 0.22
53 5 0.09
56 40 0.69
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (52 bp):
CATGGGACCTCTCAATCTCAGATGCCAATGCCATATCCCAGACATGGTCTTA
Found at i:26973545 original size:194 final size:194
Alignment explanation
Indices: 26973212--26973794 Score: 1026
Period size: 194 Copynumber: 3.0 Consensus size: 194
26973202 ATGGTCTTAT
* * *
26973212 ATGGGACCTCTCATCTCGGTGCCAACGCCATATTCTAGACAAGGTCTTACATGTGACCTCTCATA
1 ATGGGACCTCTCATCTCGGTGCCAACGCCATATCCTAGACATGGTCTTACATGGGACCTCTCATA
**
26973277 ATCTCAATGATGCCAATGCCATGTCTTAGACATGGTCTTACATGGGATCTCTTTACCCAAATGTC
66 ATCTCAATGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTTTACCCAAATGTC
*
26973342 ATGACATTTATATCCAATACATTCCTCATGTTTCAATGGGGCCTTTTAACACTGATTCTCTGTC
131 ATGACATTTATATCCAATACATTCCTCATGTTTCAACGGGGCCTTTTAACACTGATTCTCTGTC
*
26973406 ATGGGACCTCTCATCTCGGTGCCAATGCCATATCCTAGACATGGTCTTACATGGGACCTCTCATA
1 ATGGGACCTCTCATCTCGGTGCCAACGCCATATCCTAGACATGGTCTTACATGGGACCTCTCATA
26973471 ATCTCAATGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTTTACCCAAATGTC
66 ATCTCAATGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTTTACCCAAATGTC
*
26973536 ATAACATTTATATCCAATACATTCCTCATGTTTCAACGGGGCCTTTTAACACTGATTCTCTGTC
131 ATGACATTTATATCCAATACATTCCTCATGTTTCAACGGGGCCTTTTAACACTGATTCTCTGTC
* * *
26973600 ATGGGACCTGTCATCTCGGTGCCAACGCCATATCCCAAACATGGTCTTACAT-GGACCCTCTCAT
1 ATGGGACCTCTCATCTCGGTGCCAACGCCATATCCTAGACATGGTCTTACATGGGA-CCTCTCAT
* *
26973664 AATCTCAATGATGCCAATGCCATGTCCCAGACATGGTCTTACACGGGATATCTTTACCCAAATGT
65 AATCTCAATGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTTTACCCAAATGT
26973729 CATGACATTTATATCCAATACATTCCTCATGTTTCAACGGGGCC-TTTAACACTGATTCTCTGTC
130 CATGACATTTATATCCAATACATTCCTCATGTTTCAACGGGGCCTTTTAACACTGATTCTCTGTC
26973793 AT
1 AT
26973795 CTCATACTTG
Statistics
Matches: 373, Mismatches: 15, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
193 25 0.07
194 348 0.93
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (194 bp):
ATGGGACCTCTCATCTCGGTGCCAACGCCATATCCTAGACATGGTCTTACATGGGACCTCTCATA
ATCTCAATGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTTTACCCAAATGTC
ATGACATTTATATCCAATACATTCCTCATGTTTCAACGGGGCCTTTTAACACTGATTCTCTGTC
Found at i:26990142 original size:50 final size:50
Alignment explanation
Indices: 26990067--26990356 Score: 329
Period size: 50 Copynumber: 5.8 Consensus size: 50
26990057 TTTGGGTAAT
* *
26990067 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATAA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAA
*
26990117 GAGGTCCCATGTAAAACCATGTCTGGGACATGGCATTGGCACCGAGATAA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAA
*** *
26990167 GAGGTCCCATGTAAGACCATGTCTGGGACATGATGTTGGCACCGAGATGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAA
* * *
26990217 GAGGTCCC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGA
1 GAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAA
** * * * *
26990267 GAACTCCCATGTAAGACCATATCTGGGATATGACATTCGTAGTA-C-AGA-AA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATT-G--GCACCGAGATAA
** * *
26990317 -ACATCCCATGTAATACCATGTCTGGGACATGGCTTTGGCA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
26990357 TGTTATTATC
Statistics
Matches: 205, Mismatches: 30, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
46 2 0.01
48 1 0.00
49 30 0.15
50 165 0.80
51 4 0.02
52 1 0.00
53 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAA
Found at i:26995995 original size:26 final size:26
Alignment explanation
Indices: 26995966--26996029 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 26
26995956 AATTAATTTC
26995966 AAAAAATTAA-TTCAATCTAGAGGCCT
1 AAAAAA-TAACTTCAATCTAGAGGCCT
*
26995992 AAAAGATAACTTTCAATCTAGAGGCCT
1 AAAAAATAAC-TTCAATCTAGAGGCCT
*
26996019 AAAATATAACT
1 AAAAAATAACT
26996030 CTTTTCAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 3 0.09
26 6 0.18
27 25 0.74
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.27
Consensus pattern (26 bp):
AAAAAATAACTTCAATCTAGAGGCCT
Found at i:26996006 original size:27 final size:27
Alignment explanation
Indices: 26995976--26996029 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
26995966 AAAAAATTAA
26995976 TTCAATCTAGAGGCCTAAAAGATAACT
1 TTCAATCTAGAGGCCTAAAAGATAACT
*
26996003 TTCAATCTAGAGGCCTAAAATATAACT
1 TTCAATCTAGAGGCCTAAAAGATAACT
26996030 CTTTTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.28
Consensus pattern (27 bp):
TTCAATCTAGAGGCCTAAAAGATAACT
Found at i:26999026 original size:22 final size:22
Alignment explanation
Indices: 26998977--26999027 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
26998967 TGGACCAGCC
26998977 ACCACTAATTTGCACATAAACT
1 ACCACTAATTTGCACATAAACT
** * * *
26998999 GTCACTAATTTGTAGATATACT
1 ACCACTAATTTGCACATAAACT
26999021 ACCACTA
1 ACCACTA
26999028 CATCCAGCTT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (22 bp):
ACCACTAATTTGCACATAAACT
Found at i:26999503 original size:20 final size:20
Alignment explanation
Indices: 26999478--26999516 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
26999468 TGAGTTATTT
26999478 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
26999498 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
26999517 AAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:27006651 original size:12 final size:12
Alignment explanation
Indices: 27006634--27006676 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
27006624 ATGAGTTATT
*
27006634 TAAGTAAGCTAG
1 TAAGTAAGCAAG
27006646 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
27006658 CAAGTAAG-AGAG
1 TAAGTAAGCA-AG
27006670 TAAGTAA
1 TAAGTAA
27006677 AGAAGAAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 1 0.04
12 26 0.96
ACGTcount: A:0.49, C:0.07, G:0.26, T:0.19
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:27006686 original size:24 final size:24
Alignment explanation
Indices: 27006635--27006688 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
27006625 TGAGTTATTT
** * *
27006635 AAGTAAGCTAGTAAGTAAGCAAGC
1 AAGTAAGAGAGTAAGTAAACAAGA
*
27006659 AAGTAAGAGAGTAAGTAAAGAAGA
1 AAGTAAGAGAGTAAGTAAACAAGA
27006683 AAGTAA
1 AAGTAA
27006689 AGATCATGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.06, G:0.26, T:0.15
Consensus pattern (24 bp):
AAGTAAGAGAGTAAGTAAACAAGA
Found at i:27015879 original size:26 final size:26
Alignment explanation
Indices: 27015827--27015879 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
27015817 CACCAATATC
* *
27015827 GCAGCATAGCTGCCAGTAGTAATAAT
1 GCAGCAAAGCTGCCAGTAGTAAGAAT
* *
27015853 GCAGCAAAGCTGGCAGTAGTCAGAAT
1 GCAGCAAAGCTGCCAGTAGTAAGAAT
27015879 G
1 G
27015880 GCTAAGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.19
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAGTAAGAAT
Found at i:27015927 original size:22 final size:22
Alignment explanation
Indices: 27015873--27015927 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
27015863 TGGCAGTAGT
*
27015873 CAGAATGGCTAAGAGCTCTAAA
1 CAGAATGGCTAAGAGCTATAAA
*
27015895 CA-AGATAGCTATA-AGCTATAAA
1 CAGA-ATGGCTA-AGAGCTATAAA
27015917 CAGAATGGCTA
1 CAGAATGGCTA
27015928 CAAAGCCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
21 1 0.04
22 24 0.89
23 2 0.07
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (22 bp):
CAGAATGGCTAAGAGCTATAAA
Found at i:27015998 original size:32 final size:32
Alignment explanation
Indices: 27015927--27016102 Score: 173
Period size: 32 Copynumber: 5.6 Consensus size: 32
27015917 CAGAATGGCT
* * * *
27015927 ACAAAGCCATAAGTA-CAATAATGTGATTGGC
1 ACAAAGCCATCAGTAGCAGTAATATGATCGGC
*
27015958 ACAAAGCCATCAGTAGCAGTGATATGATCGGC
1 ACAAAGCCATCAGTAGCAGTAATATGATCGGC
* * *
27015990 ACACAGCCATCAGTAAG-AGTAAAATGATCAGC
1 ACAAAGCCATCAGT-AGCAGTAATATGATCGGC
* *
27016022 ACACAGCCATC-G-AGAATGGTAATATGATCGGC
1 ACAAAGCCATCAGTAGCA--GTAATATGATCGGC
* * *
27016054 ACAAAGCCATCAGTAACGGT-CTATGATCGGC
1 ACAAAGCCATCAGTAGCAGTAATATGATCGGC
27016085 ACAAAGCCATCAGTAGCA
1 ACAAAGCCATCAGTAGCA
27016103 TCACAGTAAA
Statistics
Matches: 120, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
29 2 0.02
30 1 0.01
31 41 0.34
32 72 0.60
33 3 0.03
34 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (32 bp):
ACAAAGCCATCAGTAGCAGTAATATGATCGGC
Found at i:27016425 original size:27 final size:27
Alignment explanation
Indices: 27016324--27016548 Score: 126
Period size: 27 Copynumber: 8.4 Consensus size: 27
27016314 GACAAAACAA
** * *
27016324 TCATTTTACCCTA-CAAGGGTATTACGA
1 TCATTTTACCCTATGGA-GGTATTATGG
*** * *
27016351 TCATTTTACCCTACAAAGGCATTACGG
1 TCATTTTACCCTATGGAGGTATTATGG
*
27016378 TCATTTTACCCTGTAGG-GGTATTATGG
1 TCATTTTACCCTAT-GGAGGTATTATGG
*
27016405 TCATTTTACCCTATGGAGGTATTTTAGG
1 TCATTTTACCCTATGGAGGTATTAT-GG
* * **
27016433 --ATTCTACCCTACGG-GGATATTCCGG
1 TCATTTTACCCTATGGAGG-TATTATGG
* *
27016458 TCATTTTACCCTATGGGGGTAATT-TAG
1 TCATTTTACCCTATGGAGGT-ATTATGG
* *
27016485 TCATTTTA-CCTATCGAAGGTATTTTGG
1 TCATTTTACCCTAT-GGAGGTATTATGG
* *
27016512 TCATTTTACCC-ATCGAGGGTATT-TCGA
1 TCATTTTACCCTATGGA-GGTATTAT-GG
27016539 TCATTTTACC
1 TCATTTTACC
27016549 TTTCGGGGTG
Statistics
Matches: 159, Mismatches: 25, Indels: 28
0.75 0.12 0.13
Matches are distributed among these distances:
25 4 0.03
26 28 0.18
27 116 0.73
28 11 0.07
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (27 bp):
TCATTTTACCCTATGGAGGTATTATGG
Found at i:27034839 original size:18 final size:18
Alignment explanation
Indices: 27034816--27034850 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
27034806 GAATTTGACC
27034816 TTGCATGGCCGCATGGTT
1 TTGCATGGCCGCATGGTT
27034834 TTGCATGGCCGCATGGT
1 TTGCATGGCCGCATGGT
27034851 CAGTAAATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.23, G:0.34, T:0.31
Consensus pattern (18 bp):
TTGCATGGCCGCATGGTT
Found at i:27045268 original size:20 final size:20
Alignment explanation
Indices: 27045243--27045365 Score: 149
Period size: 20 Copynumber: 6.2 Consensus size: 20
27045233 TCAAAATGCT
**
27045243 AACAGAGGTGCCGAAGTGTA
1 AACAGAGGCACCGAAGTGTA
*
27045263 AACAGAGGCACCGAATTGTA
1 AACAGAGGCACCGAAGTGTA
*
27045283 AACAGAGGCACC-AATGTGCA
1 AACAGAGGCACCGAA-GTGTA
* *
27045303 AACAGAGGCACCAAAGTGCA
1 AACAGAGGCACCGAAGTGTA
* * *
27045323 AACAGTGGCACCAAAGTATA
1 AACAGAGGCACCGAAGTGTA
27045343 AACAGAGGCACCGAAGTGTA
1 AACAGAGGCACCGAAGTGTA
27045363 AAC
1 AAC
27045366 CCATACAAGA
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
19 2 0.02
20 86 0.96
21 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.26, T:0.11
Consensus pattern (20 bp):
AACAGAGGCACCGAAGTGTA
Found at i:27051848 original size:9 final size:9
Alignment explanation
Indices: 27051833--27051894 Score: 56
Period size: 9 Copynumber: 6.9 Consensus size: 9
27051823 AGTGAAAGTA
27051833 AAATAAAAT
1 AAATAAAAT
*
27051842 TAATAAAAT
1 AAATAAAAT
27051851 AAAT-AAAT
1 AAATAAAAT
*
27051859 AAAAGAAAAT
1 -AAATAAAAT
27051869 AAAT-AAAT
1 AAATAAAAT
*
27051877 AAAAGAAAAT
1 -AAATAAAAT
*
27051887 AACTAAAA
1 AAATAAAA
27051895 AGAAAATATG
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
8 8 0.19
9 26 0.62
10 8 0.19
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:27051850 original size:14 final size:14
Alignment explanation
Indices: 27051831--27051880 Score: 68
Period size: 13 Copynumber: 3.7 Consensus size: 14
27051821 AAAGTGAAAG
*
27051831 TAAAATAAAATTAA
1 TAAAATAAAATAAA
27051845 TAAAAT-AAATAAA
1 TAAAATAAAATAAA
*
27051858 TAAAAGAAAATAAA
1 TAAAATAAAATAAA
27051872 T-AAATAAAA
1 TAAAATAAAA
27051881 GAAAATAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 18 0.56
14 14 0.44
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (14 bp):
TAAAATAAAATAAA
Found at i:27051856 original size:18 final size:19
Alignment explanation
Indices: 27051833--27051894 Score: 76
Period size: 18 Copynumber: 3.4 Consensus size: 19
27051823 AGTGAAAGTA
* *
27051833 AAATAAAAT-TAATAAAAT
1 AAATAAAATAAAAGAAAAT
27051851 AAAT-AAATAAAAGAAAAT
1 AAATAAAATAAAAGAAAAT
27051869 AAAT-AAATAAAAGAAAAT
1 AAATAAAATAAAAGAAAAT
*
27051887 AACTAAAA
1 AAATAAAA
27051895 AGAAAATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
17 4 0.10
18 32 0.82
19 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (19 bp):
AAATAAAATAAAAGAAAAT
Found at i:27051888 original size:14 final size:13
Alignment explanation
Indices: 27051831--27051880 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
27051821 AAAGTGAAAG
*
27051831 TAAAATAAAATTAA
1 TAAAA-AAAATAAA
*
27051845 TAAAATAAATAAA
1 TAAAAAAAATAAA
27051858 TAAAAGAAAATAAA
1 TAAAA-AAAATAAA
27051872 TAAATAAAA
1 TAAA-AAAA
27051881 GAAAATAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 11 0.35
14 19 0.61
15 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (13 bp):
TAAAAAAAATAAA
Found at i:27051893 original size:14 final size:15
Alignment explanation
Indices: 27051851--27051902 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 15
27051841 TTAATAAAAT
27051851 AAATAAAT-AAAAGA
1 AAATAAATAAAAAGA
27051865 AAATAAATAAATAAAAGA
1 AAATAAAT--A-AAAAGA
*
27051883 AAATAACTAAAAAGA
1 AAATAAATAAAAAGA
27051898 AAATA
1 AAATA
27051903 TGTATCTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
14 8 0.24
15 11 0.33
16 1 0.03
18 13 0.39
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (15 bp):
AAATAAATAAAAAGA
Found at i:27053009 original size:22 final size:20
Alignment explanation
Indices: 27052984--27053030 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 20
27052974 TGTAATATTT
27052984 ATGTTTGAATTGTATAA-TTAGA
1 ATGTTTGAA-TGTA-AACTTA-A
27053006 ATGTTTGAATGTAAACTTAA
1 ATGTTTGAATGTAAACTTAA
27053026 ATGTT
1 ATGTT
27053031 GTAATTGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.33
21 7 0.29
22 9 0.38
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (20 bp):
ATGTTTGAATGTAAACTTAA
Found at i:27062445 original size:12 final size:13
Alignment explanation
Indices: 27062420--27062449 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
27062410 TAGGCTACAA
27062420 TTATTGCATTTAT
1 TTATTGCATTTAT
27062433 TTATTGC-TTTAT
1 TTATTGCATTTAT
27062445 TTATT
1 TTATT
27062450 CATGTATGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (13 bp):
TTATTGCATTTAT
Found at i:27069278 original size:4 final size:4
Alignment explanation
Indices: 27069269--27069310 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
27069259 TTAGTTTAGT
27069269 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
27069311 AGGTTTTTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:27082903 original size:38 final size:38
Alignment explanation
Indices: 27082852--27082931 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
27082842 AAAAGATTGT
*
27082852 TTAAATATTTTGTCATTTATGTTGTTTTATTTAGTTAA
1 TTAAACATTTTGTCATTTATGTTGTTTTATTTAGTTAA
27082890 TTAAACATTTTGTCATTTATGTTGTTTTATTTAGTTAA
1 TTAAACATTTTGTCATTTATGTTGTTTTATTTAGTTAA
27082928 TTAA
1 TTAA
27082932 GCTGTTAGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.28, C:0.04, G:0.10, T:0.59
Consensus pattern (38 bp):
TTAAACATTTTGTCATTTATGTTGTTTTATTTAGTTAA
Found at i:27083914 original size:18 final size:17
Alignment explanation
Indices: 27083881--27083919 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
27083871 TTTTATAAAT
27083881 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
27083899 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
27083916 TGTG
1 TGTG
27083920 GAAGGAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:27084172 original size:23 final size:23
Alignment explanation
Indices: 27084146--27084282 Score: 177
Period size: 23 Copynumber: 6.0 Consensus size: 23
27084136 GTGTTATTGA
* *
27084146 TCAGTGGCAGCTTCGGTTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
27084169 TCAGTGGTAGCTACGGCTACATAT
1 TCAGTGGTAGCTTCGGCTACAT-T
27084193 T-AGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
27084215 TTAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
* ** *
27084238 TCAGTGGTAGCTACGGCTATGTG
1 TCAGTGGTAGCTTCGGCTACATT
*
27084261 TCAGTGGTAGCTTCGACTACAT
1 TCAGTGGTAGCTTCGGCTACAT
27084283 ATTAGTGTGG
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
22 2 0.02
23 95 0.96
24 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.34
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:27084267 original size:69 final size:69
Alignment explanation
Indices: 27084148--27084289 Score: 212
Period size: 69 Copynumber: 2.1 Consensus size: 69
27084138 GTTATTGATC
* * *
27084148 AGTGGCAGCTTCGGTTACATTTCAGTGGTAGCTACGGCTACATATTAGTGGTAGCTTCGGCTACA
1 AGTGGCAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGACTACA
*
27084213 TTTT
66 TATT
* ** *
27084217 AGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTATGTGTCAGTGGTAGCTTCGACTACA
1 AGTGGCAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGACTACA
27084282 TATT
66 TATT
27084286 AGTG
1 AGTG
27084290 TGGCACTTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.34
Consensus pattern (69 bp):
AGTGGCAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGACTACA
TATT
Found at i:27088728 original size:43 final size:43
Alignment explanation
Indices: 27088669--27089259 Score: 429
Period size: 43 Copynumber: 13.6 Consensus size: 43
27088659 ATACAGATGA
* * * *
27088669 TACTTCGGTATCTTCGATGATGCATTATGTGTGCCAGTACAGT
1 TACTTCGGTTTATTCGATGATGCACTATGTGTGCCAGTATAGT
** *
27088712 TACTTTAGTTTATTCGATGATGCACTGTGTGTGCCAGTATAGT
1 TACTTCGGTTTATTCGATGATGCACTATGTGTGCCAGTATAGT
* * * **
27088755 TGCTTCAGTTTATCCGATGATGCACTATGTGTGTTAGTATAGT
1 TACTTCGGTTTATTCGATGATGCACTATGTGTGCCAGTATAGT
* * *
27088798 TACTTCGGTTTATTCGATGATGCATTGTGTGTGCCAATATAGT
1 TACTTCGGTTTATTCGATGATGCACTATGTGTGCCAGTATAGT
* * * * *
27088841 TACTTCGGTTTATCCAACGATGCATTATGTGTGCCAATATAGT
1 TACTTCGGTTTATTCGATGATGCACTATGTGTGCCAGTATAGT
* * * * * * *
27088884 TGCTTTGGTTTATCCGATGATGCACTGTGTATGCTAGTATGGT
1 TACTTCGGTTTATTCGATGATGCACTATGTGTGCCAGTATAGT
* *
27088927 TACTTCGATTTATTCGATGATGCACTATGTGTGCCAATATAGT
1 TACTTCGGTTTATTCGATGATGCACTATGTGTGCCAGTATAGT
* ** * * *
27088970 TGCTTCGACTTA-TCTAGTGATGCACTGTGTATGCCAGTATAGT
1 TACTTCGGTTTATTCGA-TGATGCACTATGTGTGCCAGTATAGT
* * * * * *
27089013 TGCTTAGGTTTA-TCTGATGATGTACTGTGTGTGTCAGTATACT
1 TACTTCGGTTTATTC-GATGATGCACTATGTGTGCCAGTATAGT
** * * * * *
27089056 TGTTTCAGTTTATCCGATGATGCACCGCGTGTACCAGTGTGCTAGTATAAT
1 TACTTCGGTTTATTCGATGATGCA---C---TA--TGTGTGCCAGTATAGT
* * * * * *
27089107 TGCTTCGGTTTATTTGATGATGCACT-CGTGCGCTAATATAGT
1 TACTTCGGTTTATTCGATGATGCACTATGTGTGCCAGTATAGT
* * *
27089149 TGCTTCTGTTTA-TCTGATAATGCA-T-TGGTGTGCCAGTATAGT
1 TACTTCGGTTTATTC-GATGATGCACTAT-GTGTGCCAGTATAGT
* * * * *
27089191 TGCTTCGGATTATCCGATGATGCATTACGTGTGCCAGTATAGT
1 TACTTCGGTTTATTCGATGATGCACTATGTGTGCCAGTATAGT
* * ** *
27089234 TGCTTCAGTTTACCCGGTGATGCACT
1 TACTTCGGTTTATTCGATGATGCACT
27089260 CATCTGCCAA
Statistics
Matches: 439, Mismatches: 93, Indels: 32
0.78 0.16 0.06
Matches are distributed among these distances:
41 2 0.00
42 64 0.15
43 335 0.76
44 2 0.00
45 1 0.00
46 1 0.00
48 1 0.00
49 1 0.00
51 32 0.07
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (43 bp):
TACTTCGGTTTATTCGATGATGCACTATGTGTGCCAGTATAGT
Found at i:27088828 original size:86 final size:86
Alignment explanation
Indices: 27088683--27089259 Score: 534
Period size: 86 Copynumber: 6.6 Consensus size: 86
27088673 TCGGTATCTT
* * * *
27088683 CGATGATGCATTATGTGTGCCAGTACAGTTACTTTAGTTTATTCGATGATGCACTGTGTGTGCCA
1 CGATGATGCACTATGTGTGCCAGTATAGTTGCTTCAGTTTATTCGATGATGCACTGTGTGTGCCA
*
27088748 GTATAGTTGCTTCAGTTTATC
66 GTATAGTTGCTTCGGTTTATC
** * * *
27088769 CGATGATGCACTATGTGTGTTAGTATAGTTACTTCGGTTTATTCGATGATGCATTGTGTGTGCCA
1 CGATGATGCACTATGTGTGCCAGTATAGTTGCTTCAGTTTATTCGATGATGCACTGTGTGTGCCA
* *
27088834 ATATAGTTACTTCGGTTTATC
66 GTATAGTTGCTTCGGTTTATC
* * * * ** * * *
27088855 CAACGATGCATTATGTGTGCCAATATAGTTGCTTTGGTTTATCCGATGATGCACTGTGTATGCTA
1 CGATGATGCACTATGTGTGCCAGTATAGTTGCTTCAGTTTATTCGATGATGCACTGTGTGTGCCA
* * * *
27088920 GTATGGTTACTTCGATTTATT
66 GTATAGTTGCTTCGGTTTATC
* * * *
27088941 CGATGATGCACTATGTGTGCCAATATAGTTGCTTC-GACTTA-TCTAGTGATGCACTGTGTATGC
1 CGATGATGCACTATGTGTGCCAGTATAGTTGCTTCAG-TTTATTCGA-TGATGCACTGTGTGTGC
*
27089004 CAGTATAGTTGCTTAGGTTTATC
64 CAGTATAGTTGCTTCGGTTTATC
* * * * * * *
27089027 TGATGATGTACTGTGTGTGTCAGTATACTTGTTTCAGTTTATCCGATGATGCACCGCGTGTACCA
1 CGATGATGCACTATGTGTGCCAGTATAGTTGCTTCAGTTTATTCGATGATGCA---C-TGT----
* * *
27089092 GTGTGCTAGTATAATTGCTTCGGTTTATT
58 GTGTGCCAGTATAGTTGCTTCGGTTTATC
* * * * * * * *
27089121 TGATGATGCACT-CGTGCGCTAATATAGTTGCTTCTGTTTA-TCTGATAATGCATTG-GTGTGCC
1 CGATGATGCACTATGTGTGCCAGTATAGTTGCTTCAGTTTATTC-GATGATGCACTGTGTGTGCC
*
27089183 AGTATAGTTGCTTCGGATTATC
65 AGTATAGTTGCTTCGGTTTATC
* * ** *
27089205 CGATGATGCATTACGTGTGCCAGTATAGTTGCTTCAGTTTACCCGGTGATGCACT
1 CGATGATGCACTATGTGTGCCAGTATAGTTGCTTCAGTTTATTCGATGATGCACT
27089260 CATCTGCCAA
Statistics
Matches: 396, Mismatches: 80, Indels: 31
0.78 0.16 0.06
Matches are distributed among these distances:
84 35 0.09
85 35 0.09
86 253 0.64
87 3 0.01
89 3 0.01
90 3 0.01
92 1 0.00
93 28 0.07
94 35 0.09
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.39
Consensus pattern (86 bp):
CGATGATGCACTATGTGTGCCAGTATAGTTGCTTCAGTTTATTCGATGATGCACTGTGTGTGCCA
GTATAGTTGCTTCGGTTTATC
Found at i:27088899 original size:129 final size:129
Alignment explanation
Indices: 27088669--27089259 Score: 513
Period size: 129 Copynumber: 4.5 Consensus size: 129
27088659 ATACAGATGA
* * * * ** * *
27088669 TACTTCGGTATCTTCGATGATGCATTATGTGTGCCAGTACAGTTACTTTAGTTTATTCGATGATG
1 TACTTCGGTTTATTCGATGATGCATTATGTGTGCCAATATAGTTACTTCGGTTTATCCAATGATG
*
27088734 CACTGTGTGTGCCAGTATAGTTGCTTCA-GTTTATCCGATGATGCACTATGTGTGTTAGTATAGT
66 CACTGTGTGTGCCAGTATAGTTGCTT-AGGTTTATCCGATGATGCACTGTGTGTGTTAGTATAGT
* *
27088798 TACTTCGGTTTATTCGATGATGCATTGTGTGTGCCAATATAGTTACTTCGGTTTATCCAACGATG
1 TACTTCGGTTTATTCGATGATGCATTATGTGTGCCAATATAGTTACTTCGGTTTATCCAATGATG
* * * * * * *
27088863 CATTATGTGTGCCAATATAGTTGCTTTGGTTTATCCGATGATGCACTGTGTATGCTAGTATGGT
66 CACTGTGTGTGCCAGTATAGTTGCTTAGGTTTATCCGATGATGCACTGTGTGTGTTAGTATAGT
* * * ** * *
27088927 TACTTCGATTTATTCGATGATGCACTATGTGTGCCAATATAGTTGCTTCGACTTATCTAGTGATG
1 TACTTCGGTTTATTCGATGATGCATTATGTGTGCCAATATAGTTACTTCGGTTTATCCAATGATG
* * * * *
27088992 CACTGTGTATGCCAGTATAGTTGCTTAGGTTTATCTGATGATGTACTGTGTGTGTCAGTATACT
66 CACTGTGTGTGCCAGTATAGTTGCTTAGGTTTATCCGATGATGCACTGTGTGTGTTAGTATAGT
** * * * * * * * *
27089056 TGTTTCAGTTTATCCGATGATGCACCGCGTGTACCAGTGTGCTAGTATAATTGCTTCGGTTTATT
1 TACTTCGGTTTATTCGATGATGCA-----T-TA--TGTGTGCCAATATAGTTACTTCGGTTTATC
** * * * * ** * * * **
27089121 TGATGATGCACT-CGTGCGCTAATATAGTTGCTTCTGTTTATCTGATAATGCATTG-GTGTGCCA
58 CAATGATGCACTGTGTGTGCCAGTATAGTTGCTTAGGTTTATCCGATGATGCACTGTGTGTGTTA
27089184 GTATAGT
123 GTATAGT
* * * * * * * * **
27089191 TGCTTCGGATTATCCGATGATGCATTACGTGTGCCAGTATAGTTGCTTCAGTTTACCCGGTGATG
1 TACTTCGGTTTATTCGATGATGCATTATGTGTGCCAATATAGTTACTTCGGTTTATCCAATGATG
27089256 CACT
66 CACT
27089260 CATCTGCCAA
Statistics
Matches: 376, Mismatches: 77, Indels: 20
0.79 0.16 0.04
Matches are distributed among these distances:
127 34 0.09
129 239 0.64
130 1 0.00
135 36 0.10
136 33 0.09
137 33 0.09
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (129 bp):
TACTTCGGTTTATTCGATGATGCATTATGTGTGCCAATATAGTTACTTCGGTTTATCCAATGATG
CACTGTGTGTGCCAGTATAGTTGCTTAGGTTTATCCGATGATGCACTGTGTGTGTTAGTATAGT
Found at i:27090589 original size:20 final size:20
Alignment explanation
Indices: 27090566--27090707 Score: 106
Period size: 20 Copynumber: 7.1 Consensus size: 20
27090556 CACTTACATG
27090566 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
** * ** *
27090586 CCCCTAATTGCACTTATGTG
1 CCCCTGTTTGTACTTCGGTA
* *
27090606 CCCTTGTTTGTACTTCAGTA
1 CCCCTGTTTGTACTTCGGTA
* * * *
27090626 ACCCTGATTGCACTTAC-GTG
1 CCCCTGTTTGTACTT-CGGTA
27090646 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* ** ** *
27090666 CCCCTGATTACACTTATGTG
1 CCCCTGTTTGTACTTCGGTA
27090686 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
27090706 CC
1 CC
27090708 TCTGATTGCA
Statistics
Matches: 86, Mismatches: 34, Indels: 4
0.69 0.27 0.03
Matches are distributed among these distances:
19 1 0.01
20 84 0.98
21 1 0.01
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.37
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:27090614 original size:40 final size:40
Alignment explanation
Indices: 27090554--27090766 Score: 275
Period size: 40 Copynumber: 5.3 Consensus size: 40
27090544 ATTGAATGAC
* *
27090554 TGCACTTACATGCCCCTGTTTGTACTTCGGTACCCCTAAT
1 TGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTGAT
* * * *
27090594 TGCACTTATGTGCCCTTGTTTGTACTTCAGTAACCCTGAT
1 TGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTGAT
27090634 TGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTGAT
1 TGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTGAT
* * *
27090674 TACACTTATGTGCCCCTGTTTGTACTTCGGTACCTCTGAT
1 TGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTGAT
* * * * **
27090714 TGCACTTACGTGCCCTTCTTTGCACTTCGGTGCCTTTGAT
1 TGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTGAT
27090754 TGCACATT-CGTGC
1 TGCAC-TTACGTGC
27090767 TCTTAATTGC
Statistics
Matches: 152, Mismatches: 20, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
40 150 0.99
41 2 0.01
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.38
Consensus pattern (40 bp):
TGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTGAT
Found at i:27090746 original size:20 final size:19
Alignment explanation
Indices: 27090712--27090791 Score: 70
Period size: 20 Copynumber: 4.0 Consensus size: 19
27090702 GGTACCTCTG
*
27090712 ATTGCACTTACGTGCCCTTC
1 ATTGCACTT-CGTGCCCTTA
* * *
27090732 TTTGCACTTCGGTGCCTTTG
1 ATTGCACTTC-GTGCCCTTA
*
27090752 ATTGCACATTCGTGCTCTTA
1 ATTGCAC-TTCGTGCCCTTA
*
27090772 ATTGCACTTTGGTGCCCTTA
1 ATTGCAC-TTCGTGCCCTTA
27090792 TTATGTATCT
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
19 1 0.02
20 44 0.92
21 3 0.06
ACGTcount: A:0.14, C:0.28, G:0.19, T:0.40
Consensus pattern (19 bp):
ATTGCACTTCGTGCCCTTA
Found at i:27094426 original size:19 final size:17
Alignment explanation
Indices: 27094385--27094427 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 17
27094375 ATTTTCTTTC
27094385 TTCATTCTTTCCTTTTT
1 TTCATTCTTTCCTTTTT
27094402 TT--TTCTTTCCTGGTTTT
1 TTCATTCTTTCCT--TTTT
27094419 TTCATTCTT
1 TTCATTCTT
27094428 CCCGATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 9 0.41
17 8 0.36
19 5 0.23
ACGTcount: A:0.05, C:0.21, G:0.05, T:0.70
Consensus pattern (17 bp):
TTCATTCTTTCCTTTTT
Found at i:27095320 original size:62 final size:62
Alignment explanation
Indices: 27095221--27095358 Score: 149
Period size: 62 Copynumber: 2.2 Consensus size: 62
27095211 TAGTAAACAC
*
27095221 ATATTCAAACCACATATGTATAATTCACAACATTAAA-TACAGCTCAAGGAATTTGTAACCT
1 ATATTCAAACCACATATGTATAATTCACAACATTAAATTACAGCTCAAAGAATTTGTAACCT
* * * * *
27095282 ATATTCTAACACATATATGTATAAGATTCA-TACA-TAAATTTCAGCTCAAAGAATTTG-AACAT
1 ATATTCAAAC-CACATATGTAT-A-ATTCACAACATTAAATTACAGCTCAAAGAATTTGTAACCT
* *
27095344 ACATTCGAACCACAT
1 ATATTCAAACCACAT
27095359 GTGAATAAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
61 13 0.20
62 26 0.41
63 20 0.31
64 5 0.08
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (62 bp):
ATATTCAAACCACATATGTATAATTCACAACATTAAATTACAGCTCAAAGAATTTGTAACCT
Found at i:27098826 original size:42 final size:42
Alignment explanation
Indices: 27098779--27098861 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
27098769 AATATGTGTG
27098779 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
1 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
*
27098821 AAACGTTTGAAATTCAAACATTTGAACTTTTGTTCTTATCC
1 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
27098862 CATTGAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.40
Consensus pattern (42 bp):
AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
Found at i:27106981 original size:114 final size:114
Alignment explanation
Indices: 27106758--27107054 Score: 334
Period size: 114 Copynumber: 2.6 Consensus size: 114
27106748 ATCTTTTGGA
* * * * * *
27106758 GAAGAAGAAGACAAGC-GTGCTAATAGAGATAGGA-GCGAAGAAAGTGAGAGAATTCATG-C--T
1 GAAGAAGATGACAAGCATTCCT-ATAGAGATAGAAGGCGTA-AAAGAGAGAGAATTCATGACGGT
* *
27106818 GATAATGGTGGTAAGGATAGGCAGAGAGAAAAACGTCCTAGATCCTCTGAT
64 GATAATGATGGTAAGGATAGGCAGAGAGAAAAACGTCCAAGATCCTCTGAT
*
27106869 GAAGAAGATGGCAAGCATTCCTATAGAGATAGAAGGCGTAAAAGAGAGAGAATTCATGACGGTGA
1 GAAGAAGATGACAAGCATTCCTATAGAGATAGAAGGCGTAAAAGAGAGAGAATTCATGACGGTGA
* * * * * *
27106934 TGATGATGGTAAGGATAGGCGGAGAGAAGAAGGTTCAAGATCTTCTGAT
66 TAATGATGGTAAGGATAGGCAGAGAGAAAAACGTCCAAGATCCTCTGAT
* * * * * * *
27106983 GAAGAAGATGACAAGCCTTCCTTTAGAGATAGAAGGCATGAAAGAGATAGAATTCGTGATGGTGA
1 GAAGAAGATGACAAGCATTCCTATAGAGATAGAAGGCGTAAAAGAGAGAGAATTCATGACGGTGA
*
27107048 AAATGAT
66 TAATGAT
27107055 TCCAAGGCTA
Statistics
Matches: 156, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
111 42 0.27
112 8 0.05
114 106 0.68
ACGTcount: A:0.39, C:0.10, G:0.31, T:0.20
Consensus pattern (114 bp):
GAAGAAGATGACAAGCATTCCTATAGAGATAGAAGGCGTAAAAGAGAGAGAATTCATGACGGTGA
TAATGATGGTAAGGATAGGCAGAGAGAAAAACGTCCAAGATCCTCTGAT
Found at i:27116338 original size:33 final size:33
Alignment explanation
Indices: 27116301--27116411 Score: 141
Period size: 33 Copynumber: 3.3 Consensus size: 33
27116291 TAACATTCGT
27116301 CCCCTTAGCCAAATTGTATTTCATATAATTCAC
1 CCCCTTAGCCAAATTGTATTTCATATAATTCAC
* * * *
27116334 CCCCTTGGCTAAATTATATTTCATACAATTCAC
1 CCCCTTAGCCAAATTGTATTTCATATAATTCAC
* * *
27116367 CTCCTTGGCCAAATTGTATTTCATATAATTTAC
1 CCCCTTAGCCAAATTGTATTTCATATAATTCAC
*
27116400 CCCTTTAAGCCA
1 CCCCTT-AGCCA
27116412 TAAGGTTATA
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
33 61 0.94
34 4 0.06
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (33 bp):
CCCCTTAGCCAAATTGTATTTCATATAATTCAC
Found at i:27138009 original size:27 final size:28
Alignment explanation
Indices: 27137979--27138043 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 28
27137969 AATTTGCCAT
27137979 AAAGGC-ATCCCTTTCAGAGTTCACCAC
1 AAAGGCTATCCCTTTCAGAGTTCACCAC
* * *
27138006 AAAGGCTAT-TCTTTTAGAGTTCGCCAC
1 AAAGGCTATCCCTTTCAGAGTTCACCAC
27138033 AAAGGCTATCC
1 AAAGGCTATCC
27138044 TTAGCTATCG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (28 bp):
AAAGGCTATCCCTTTCAGAGTTCACCAC
Found at i:27143629 original size:21 final size:21
Alignment explanation
Indices: 27143604--27143646 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
27143594 CTGTACTTTG
* *
27143604 TCTCTTTATTTCAACATTATT
1 TCTCTCTATTACAACATTATT
*
27143625 TCTCTCTATTACAATATTATT
1 TCTCTCTATTACAACATTATT
27143646 T
1 T
27143647 TTTCATACAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.19, G:0.00, T:0.56
Consensus pattern (21 bp):
TCTCTCTATTACAACATTATT
Found at i:27145866 original size:3 final size:3
Alignment explanation
Indices: 27145860--27145897 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
27145850 ATATCACTTA
27145860 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
27145898 AGAATAATCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:27146051 original size:6 final size:6
Alignment explanation
Indices: 27146040--27146081 Score: 75
Period size: 6 Copynumber: 6.8 Consensus size: 6
27146030 GTGTCTAACC
27146040 AAATAT AAATAT AAATAT AAATAT AAATAT AAAATAT AAATA
1 AAATAT AAATAT AAATAT AAATAT AAATAT -AAATAT AAATA
27146082 AGTATTGCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATAT
Found at i:27166448 original size:100 final size:100
Alignment explanation
Indices: 27166327--27166528 Score: 334
Period size: 100 Copynumber: 2.0 Consensus size: 100
27166317 GGCTTATCAG
***
27166327 ATATAAATTTGACATCTGTCAAAGAGTAAGTTAAGTAACAGTTT-AAATCACGAGAGTAATCGTG
1 ATATAAATTTGACATCTGTCAAAGAGTAAGTTAAGTAAC-GTTTGAAATCACGAGAGTAATCACA
* *
27166391 AAATTCTGAATCCACCAATTGAAACGGACTATTAGC
65 AAATTCTAAATCCACCAATTGAAACAGACTATTAGC
*
27166427 ATATAAATTTGACATCTGTCAAAGAGTAAGTTAAGTAACGTTTGAAATCACGATAGTAATCACAA
1 ATATAAATTTGACATCTGTCAAAGAGTAAGTTAAGTAACGTTTGAAATCACGAGAGTAATCACAA
27166492 AATTCTAAATCCACCAATTGAAACAGACTATTAGC
66 AATTCTAAATCCACCAATTGAAACAGACTATTAGC
27166527 AT
1 AT
27166529 TCTCACCGAT
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
99 4 0.04
100 91 0.96
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (100 bp):
ATATAAATTTGACATCTGTCAAAGAGTAAGTTAAGTAACGTTTGAAATCACGAGAGTAATCACAA
AATTCTAAATCCACCAATTGAAACAGACTATTAGC
Found at i:27167234 original size:17 final size:17
Alignment explanation
Indices: 27167212--27167245 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27167202 TCGGCTAGAG
*
27167212 TGGTATGCTCCTCATTT
1 TGGTATACTCCTCATTT
*
27167229 TGGTATACTCTTCATTT
1 TGGTATACTCCTCATTT
27167246 CGGTTTTGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.50
Consensus pattern (17 bp):
TGGTATACTCCTCATTT
Found at i:27169327 original size:27 final size:27
Alignment explanation
Indices: 27169216--27169406 Score: 122
Period size: 27 Copynumber: 7.1 Consensus size: 27
27169206 TACCCGCGAT
* * *
27169216 GGGTAAAATGACCGAAATA-CCTTGAAA
1 GGGTAAAATGACCGTAATACCCCT-ATA
*
27169243 GGGTAAAAGGACCG-AGATACCCTCGT-TA
1 GGGTAAAATGACCGTA-ATACCC-C-TATA
* * * * *
27169271 -GGTAAAATAAACGAAATACACTCGAT-
1 GGGTAAAATGACCGTAATAC-CCCTATA
* *
27169297 GGGTAAAATGATCGTAATGCCCCTATA
1 GGGTAAAATGACCGTAATACCCCTATA
* ** **
27169324 GGGTAAAATGACCGTAATGCTTCTGCA
1 GGGTAAAATGACCGTAATACCCCTATA
* * *
27169351 GAGTAAAATAATCGTAATACCCCTATA
1 GGGTAAAATGACCGTAATACCCCTATA
*
27169378 GGGTAAAATGACCGTAATACCCCTGTA
1 GGGTAAAATGACCGTAATACCCCTATA
27169405 GG
1 GG
27169407 CTTTGCTTCG
Statistics
Matches: 124, Mismatches: 31, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
26 5 0.04
27 113 0.91
28 5 0.04
30 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (27 bp):
GGGTAAAATGACCGTAATACCCCTATA
Found at i:27169484 original size:32 final size:32
Alignment explanation
Indices: 27169447--27169702 Score: 194
Period size: 32 Copynumber: 8.0 Consensus size: 32
27169437 GCCACGATGC
* *
27169447 TACTGATTGCTTTGTGCCGATCATAGTACTGT
1 TACTGATGGCTTTGTGCCAATCATAGTACTGT
* ** * *
27169479 TACTGATGGCTTTGTACTGATTATAGTACCGT
1 TACTGATGGCTTTGTGCCAATCATAGTACTGT
* * *
27169511 TACTGATGGCTTTGTACCGATCATATTACTGT
1 TACTGATGGCTTTGTGCCAATCATAGTACTGT
** * * * **
27169543 TACCAATGGGTGTATGCCAATCATTTTACTGT
1 TACTGATGGCTTTGTGCCAATCATAGTACTGT
* ** *
27169575 TACTGATGGCTGTGTGCTGATCATA-TCACTGC
1 TACTGATGGCTTTGTGCCAATCATAGT-ACTGT
* * * *
27169607 CACTGATGGCTTCGTACCAATCAT-GTTACCGT
1 TACTGATGGCTTTGTGCCAATCATAG-TACTGT
* * *
27169639 TACTGATGGATGTGTGCCAATCATA-TCACTGC
1 TACTGATGGCTTTGTGCCAATCATAGT-ACTGT
* *
27169671 TACTGATGGCTTTGTGCCAATCACATTACTGT
1 TACTGATGGCTTTGTGCCAATCATAGTACTGT
27169703 ACTTATGACT
Statistics
Matches: 174, Mismatches: 44, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
31 2 0.01
32 170 0.98
33 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCAATCATAGTACTGT
Found at i:27169612 original size:96 final size:96
Alignment explanation
Indices: 27169461--27169687 Score: 267
Period size: 96 Copynumber: 2.4 Consensus size: 96
27169451 GATTGCTTTG
* * * * ** *
27169461 TGCCGATCATAGTACTGTTACTGATGGCTTTGTACTGATTATAGTACCGTTACTGATGGCTTTGT
1 TGCCAATCATATTACTGTTACTGATGGCTTTGTGCTGATCATAGTACCGCCACTGATGGCTTCGT
* * *
27169526 ACCGATCATATTACTGTTACCAATGGGTGTA
66 ACCAATCATATTACCGTTACCAATGGATGTA
* * *
27169557 TGCCAATCATTTTACTGTTACTGATGGCTGTGTGCTGATCATA-TCACTGCCACTGATGGCTTCG
1 TGCCAATCATATTACTGTTACTGATGGCTTTGTGCTGATCATAGT-ACCGCCACTGATGGCTTCG
* ** *
27169621 TACCAATCATGTTACCGTTACTGATGGATGTG
65 TACCAATCATATTACCGTTACCAATGGATGTA
* *
27169653 TGCCAATCATATCACTGCTACTGATGGCTTTGTGC
1 TGCCAATCATATTACTGTTACTGATGGCTTTGTGC
27169688 CAATCACATT
Statistics
Matches: 109, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
95 1 0.01
96 108 0.99
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (96 bp):
TGCCAATCATATTACTGTTACTGATGGCTTTGTGCTGATCATAGTACCGCCACTGATGGCTTCGT
ACCAATCATATTACCGTTACCAATGGATGTA
Found at i:27169740 original size:22 final size:22
Alignment explanation
Indices: 27169715--27169768 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
27169705 TTATGACTTG
*
27169715 TAGCCATTCTGTTTATAGCT-T
1 TAGCCATTCTGTTTACAGCTCT
* * *
27169736 ATAGCTATCCTGTTTACGGCTCT
1 -TAGCCATTCTGTTTACAGCTCT
27169759 TAGCCATTCT
1 TAGCCATTCT
27169769 CACTACTAGC
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.43
Consensus pattern (22 bp):
TAGCCATTCTGTTTACAGCTCT
Found at i:27177791 original size:27 final size:27
Alignment explanation
Indices: 27177746--27177987 Score: 233
Period size: 27 Copynumber: 9.0 Consensus size: 27
27177736 ATCTAGACTT
* * * *
27177746 AAATACCCTCGATGTGTAAAATAACCA
1 AAATACCCTCGAAGGGTAAAATGACCG
*
27177773 AAATACCCTCAAAGGGTAAAATGACCG
1 AAATACCCTCGAAGGGTAAAATGACCG
*
27177800 AAATACCCTCGATGGGTAAAATGACCG
1 AAATACCCTCGAAGGGTAAAATGACCG
* * **
27177827 AAATATCCTCGAAGGGTAAAATAACTT
1 AAATACCCTCGAAGGGTAAAATGACCG
* *
27177854 AAATACCCTCGATGGGTAAAATGACTG
1 AAATACCCTCGAAGGGTAAAATGACCG
* *
27177881 AAATGCCC-CCACAGGGTAAAATGACCG
1 AAATACCCTCGA-AGGGTAAAATGACCG
* *
27177908 AAATAACCC-CGTAGGGTAGAAT-ACCG
1 AAAT-ACCCTCGAAGGGTAAAATGACCG
*
27177934 AAATA-CCTCCATAGGGTAAAATGACCG
1 AAATACCCTCGA-AGGGTAAAATGACCG
* * *
27177961 TAATACCC-CTATAGGATAAAATGACCG
1 AAATACCCTCGA-AGGGTAAAATGACCG
27177988 TAATGGCGCT
Statistics
Matches: 179, Mismatches: 30, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
24 2 0.01
25 2 0.01
26 19 0.11
27 150 0.84
28 6 0.03
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (27 bp):
AAATACCCTCGAAGGGTAAAATGACCG
Found at i:27177831 original size:54 final size:54
Alignment explanation
Indices: 27177746--27177987 Score: 260
Period size: 54 Copynumber: 4.5 Consensus size: 54
27177736 ATCTAGACTT
* * *
27177746 AAATACCCTCGATGTGTAAAATAACCAAAATACCCTCAAAGGGTAAAATGACCG
1 AAATACCCTCGATGGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACCG
* * * **
27177800 AAATACCCTCGATGGGTAAAATGACCGAAATATCCTCGAAGGGTAAAATAACTT
1 AAATACCCTCGATGGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACCG
* * * *
27177854 AAATACCCTCGATGGGTAAAATGACTGAAATGCCCCCACAGGGTAAAATGACCG
1 AAATACCCTCGATGGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACCG
* *
27177908 AAATAACCC-CG-TAGGGTAGAAT-ACCGAAATA-CCTCCATAGGGTAAAATGACCG
1 AAAT-ACCCTCGAT-GGGTAAAATGACCGAAATACCCT-CAAAGGGTAAAATGACCG
* * *
27177961 TAATACCC-CTATAGGATAAAATGACCG
1 AAATACCCTCGAT-GGGTAAAATGACCG
27177988 TAATGGCGCT
Statistics
Matches: 157, Mismatches: 26, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
52 7 0.04
53 37 0.24
54 109 0.69
55 4 0.03
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (54 bp):
AAATACCCTCGATGGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACCG
Found at i:27178076 original size:27 final size:27
Alignment explanation
Indices: 27177785--27178072 Score: 230
Period size: 27 Copynumber: 10.7 Consensus size: 27
27177775 ATACCCTCAA
* *
27177785 AGGGTAAAATGACCGAAATACCCTCGAT
1 AGGGTAAAATGACCGTAATACCC-CTAT
* * *
27177813 -GGGTAAAATGACCGAAATATCCTCGA-
1 AGGGTAAAATGACCGTAATA-CCCCTAT
* * *
27177839 AGGGTAAAAT-AACTTAAATACCCTCGAT
1 AGGGTAAAATGACCGT-AATACCC-CTAT
* * * * *
27177867 -GGGTAAAATGACTGAAATGCCCCCAC
1 AGGGTAAAATGACCGTAATACCCCTAT
* *
27177893 AGGGTAAAATGACCGAAATAACCCC-GT
1 AGGGTAAAATGACCGTAAT-ACCCCTAT
* *
27177920 AGGGTAGAAT-ACCGAAATACCTCC-AT
1 AGGGTAAAATGACCGTAATACC-CCTAT
27177946 AGGGTAAAATGACCGTAATACCCCTAT
1 AGGGTAAAATGACCGTAATACCCCTAT
* ** *
27177973 AGGATAAAATGACCGTAATGGCGCTAT
1 AGGGTAAAATGACCGTAATACCCCTAT
* * *
27178000 ACGGTAAAATGATCGTAATACCCCTGT
1 AGGGTAAAATGACCGTAATACCCCTAT
* * *
27178027 AGGGTAAAATGATCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATACCCCTAT
27178054 AGGGTAAAATGACCGTAAT
1 AGGGTAAAATGACCGTAAT
27178073 GCCCTGGTGG
Statistics
Matches: 215, Mismatches: 34, Indels: 23
0.79 0.12 0.08
Matches are distributed among these distances:
25 3 0.01
26 28 0.13
27 177 0.82
28 7 0.03
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.21
Consensus pattern (27 bp):
AGGGTAAAATGACCGTAATACCCCTAT
Found at i:27178187 original size:24 final size:24
Alignment explanation
Indices: 27178135--27178193 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
27178125 TCTGTGGTTT
27178135 AATGACTGATTTGTCTGTGTTTGG
1 AATGACTGATTTGTCTGTGTTTGG
* *
27178159 TATGAATGATTTGTCAT-TGATTT-G
1 AATGACTGATTTGTC-TGTG-TTTGG
27178183 AATGACTGATT
1 AATGACTGATT
27178194 CTGAGCATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.46
Consensus pattern (24 bp):
AATGACTGATTTGTCTGTGTTTGG
Found at i:27178377 original size:38 final size:38
Alignment explanation
Indices: 27178321--27178395 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
27178311 ATAGTAGCGG
27178321 TACTGATGGCTTTATGCCGATCATATCACTTCCACTGT
1 TACTGATGGCTTTATGCCGATCATATCACTTCCACTGT
*
27178359 TACTGATGG-TTGTGTGCCGATCATATCACTTCCACTG
1 TACTGATGGCTT-TATGCCGATCATATCACTTCCACTG
27178396 GTGGCTTTGG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 2 0.06
38 33 0.94
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (38 bp):
TACTGATGGCTTTATGCCGATCATATCACTTCCACTGT
Found at i:27178567 original size:26 final size:26
Alignment explanation
Indices: 27178538--27178590 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
27178528 GGCTCTTAGC
* *
27178538 CATTCTGACCACTGGCAGCTCTGCTG
1 CATTATGACCACTGGCAGCTATGCTG
* *
27178564 CATTATTACTACTGGCAGCTATGCTG
1 CATTATGACCACTGGCAGCTATGCTG
27178590 C
1 C
27178591 GATATTGGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.30
Consensus pattern (26 bp):
CATTATGACCACTGGCAGCTATGCTG
Found at i:27179510 original size:23 final size:22
Alignment explanation
Indices: 27179478--27179552 Score: 96
Period size: 23 Copynumber: 3.3 Consensus size: 22
27179468 ATGGGCTATG
*
27179478 TGGGCTCACATGGGCTCGCATTA
1 TGGGCCCACATGGGC-CGCATTA
*
27179501 TGGGCCCACATGGGCCCGTATTA
1 TGGGCCCACATGGG-CCGCATTA
*
27179524 TAGGCCCACATGGGCCAGCATTA
1 TGGGCCCACATGGGCC-GCATTA
27179547 TGGGCC
1 TGGGCC
27179553 TTGGGCCCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
22 2 0.04
23 42 0.93
24 1 0.02
ACGTcount: A:0.19, C:0.29, G:0.31, T:0.21
Consensus pattern (22 bp):
TGGGCCCACATGGGCCGCATTA
Found at i:27179715 original size:27 final size:27
Alignment explanation
Indices: 27179685--27179825 Score: 167
Period size: 27 Copynumber: 5.2 Consensus size: 27
27179675 CCTCACTTGG
27179685 TAAAATGACTATTATGCCCCTATGTTA
1 TAAAATGACTATTATGCCCCTATGTTA
* * *
27179712 TAAAATGA-TGGTTATACCCCTATGTTG
1 TAAAATGACT-ATTATGCCCCTATGTTA
*
27179739 TAAAATGACTATTATGCCCCTATATTA
1 TAAAATGACTATTATGCCCCTATGTTA
** * *
27179766 TAAAATGACGGTTATGCTCCTATGTTG
1 TAAAATGACTATTATGCCCCTATGTTA
** *
27179793 TAAAATGACTATTATGCGTCTATATTA
1 TAAAATGACTATTATGCCCCTATGTTA
27179820 TAAAAT
1 TAAAAT
27179826 AACTGTATGC
Statistics
Matches: 94, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
26 1 0.01
27 92 0.98
28 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (27 bp):
TAAAATGACTATTATGCCCCTATGTTA
Found at i:27179717 original size:54 final size:54
Alignment explanation
Indices: 27179655--27179835 Score: 219
Period size: 54 Copynumber: 3.4 Consensus size: 54
27179645 CCCCAAATTG
* *
27179655 TTATAAAATAACTGTTATGCCCTCACT-TGGTAAAATGACTATTATGCCCCTATG
1 TTATAAAATAACTGTTATGCCCTCA-TGTTGTAAAATGACTATTATGCCCCTATA
* *
27179709 TTATAAAATGA-TGGTTATACCC-CTATGTTGTAAAATGACTATTATGCCCCTATA
1 TTATAAAATAACT-GTTATGCCCTC-ATGTTGTAAAATGACTATTATGCCCCTATA
* * **
27179763 TTATAAAATGACGGTTATGCTCCT-ATGTTGTAAAATGACTATTATGCGTCTATA
1 TTATAAAATAACTGTTATGC-CCTCATGTTGTAAAATGACTATTATGCCCCTATA
27179817 TTATAAAATAACTG-TATGC
1 TTATAAAATAACTGTTATGC
27179836 TTAATGTTAT
Statistics
Matches: 111, Mismatches: 10, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
53 8 0.07
54 101 0.91
55 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (54 bp):
TTATAAAATAACTGTTATGCCCTCATGTTGTAAAATGACTATTATGCCCCTATA
Found at i:27180058 original size:22 final size:23
Alignment explanation
Indices: 27180033--27180075 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
27180023 TATCCCCACA
*
27180033 TGGAGTGT-TAGGCTGGATGGAG
1 TGGAGTGTAGAGGCTGGATGGAG
27180055 TGGAGTGTAGAGGCTGGATGG
1 TGGAGTGTAGAGGCTGGATGG
27180076 GTAGGATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.19, C:0.05, G:0.51, T:0.26
Consensus pattern (23 bp):
TGGAGTGTAGAGGCTGGATGGAG
Found at i:27180156 original size:34 final size:32
Alignment explanation
Indices: 27180113--27180176 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 32
27180103 TGTTACTGCC
*
27180113 ACTGTAATGGGCTAAGGCCCACACTGATACTGGT
1 ACTGAAATGGGCTAAGGCCCA-ACTGA-ACTGGT
27180147 ACTGAAATGGGCTAAGGCCCAACTGAACTG
1 ACTGAAATGGGCTAAGGCCCAACTGAACTG
27180177 AACTGTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 4 0.14
33 5 0.17
34 20 0.69
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (32 bp):
ACTGAAATGGGCTAAGGCCCAACTGAACTGGT
Found at i:27183050 original size:24 final size:24
Alignment explanation
Indices: 27183014--27183103 Score: 135
Period size: 24 Copynumber: 3.8 Consensus size: 24
27183004 ACACGTGTTC
27183014 TGTAAGTGCCTTTGTGGCATATTT
1 TGTAAGTGCCTTTGTGGCATATTT
* *
27183038 TGTAAGTGTCTTTGTGGAATATTT
1 TGTAAGTGCCTTTGTGGCATATTT
*
27183062 TGTAAGTGCCTTTGTGGCATATTC
1 TGTAAGTGCCTTTGTGGCATATTT
* *
27183086 TGCAAGTGCCTTCGTGGC
1 TGTAAGTGCCTTTGTGGC
27183104 GCATTCGAGG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.17, C:0.14, G:0.27, T:0.42
Consensus pattern (24 bp):
TGTAAGTGCCTTTGTGGCATATTT
Found at i:27190269 original size:20 final size:19
Alignment explanation
Indices: 27190244--27190321 Score: 77
Period size: 20 Copynumber: 3.9 Consensus size: 19
27190234 AATGCGTAAC
27190244 AGAGGCACTGAAGTGCAGAA
1 AGAGGCACTGAAGTGCA-AA
* *
27190264 AGAGGCAC-AAATGTGCAATT
1 AGAGGCACTGAA-GTGCAA-A
*
27190284 AGAGGCATTGAAGTGCAAA
1 AGAGGCACTGAAGTGCAAA
*
27190303 TAGAGGCACCGAAGTGCAA
1 -AGAGGCACTGAAGTGCAA
27190322 TCCCGTACAA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
19 3 0.06
20 42 0.89
21 2 0.04
ACGTcount: A:0.40, C:0.15, G:0.31, T:0.14
Consensus pattern (19 bp):
AGAGGCACTGAAGTGCAAA
Found at i:27197135 original size:23 final size:23
Alignment explanation
Indices: 27197106--27197180 Score: 105
Period size: 23 Copynumber: 3.3 Consensus size: 23
27197096 TAGGCATTAT
*
27197106 AGAATATGCCACAAAGGCTCCAC
1 AGAATATGACACAAAGGCTCCAC
*
27197129 AGTATATGACACAAAGGCTCCAC
1 AGAATATGACACAAAGGCTCCAC
* * *
27197152 AGAATATGGCACAAAGGGTGCAC
1 AGAATATGACACAAAGGCTCCAC
27197175 AGAATA
1 AGAATA
27197181 ACATGCCTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.41, C:0.23, G:0.21, T:0.15
Consensus pattern (23 bp):
AGAATATGACACAAAGGCTCCAC
Found at i:27200469 original size:109 final size:109
Alignment explanation
Indices: 27200278--27200506 Score: 422
Period size: 109 Copynumber: 2.1 Consensus size: 109
27200268 ATGAAACCAC
*
27200278 AATTTAATATAAAGCTAGAAACGTACCAATCTACATAAATAATGTAAGATTTGTGATACATAAAA
1 AATTTAATATAAAGCTAGAAACATACCAATCTACATAAATAATGTAAGATTTGTGATACATAAAA
27200343 TATTATGCTTTCCAGAAATGCATGGAGATATATTATTAGGTAAT
66 TATTATGCTTTCCAGAAATGCATGGAGATATATTATTAGGTAAT
*
27200387 AATTTAATATAAAGCTAGAAACATACCAATCTACATAAATAATGTAAGATTTGTGATACCTAAAA
1 AATTTAATATAAAGCTAGAAACATACCAATCTACATAAATAATGTAAGATTTGTGATACATAAAA
*
27200452 TATTATGCTTTCTAGAAATGCATGGAGATATATTATTAGGTAAT
66 TATTATGCTTTCCAGAAATGCATGGAGATATATTATTAGGTAAT
*
27200496 AATTTTATATA
1 AATTTAATATA
27200507 TCAACATTTA
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 116 1.00
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (109 bp):
AATTTAATATAAAGCTAGAAACATACCAATCTACATAAATAATGTAAGATTTGTGATACATAAAA
TATTATGCTTTCCAGAAATGCATGGAGATATATTATTAGGTAAT
Found at i:27202885 original size:24 final size:22
Alignment explanation
Indices: 27202858--27202902 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
27202848 GCAGTTCAAA
27202858 ATTTTTCTTTCCATTTATTAAAAG
1 ATTTTTC--TCCATTTATTAAAAG
*
27202882 ATTTTTCTGCATTTATTAAAA
1 ATTTTTCTCCATTTATTAAAA
27202903 CTATATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
24 7 0.35
ACGTcount: A:0.31, C:0.11, G:0.04, T:0.53
Consensus pattern (22 bp):
ATTTTTCTCCATTTATTAAAAG
Found at i:27211232 original size:18 final size:18
Alignment explanation
Indices: 27211201--27211236 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27211191 AGGGAAAGCT
*
27211201 CACACGCCCATGTGGGCC
1 CACACACCCATGTGGGCC
*
27211219 CACACACCCGTGTGGGCC
1 CACACACCCATGTGGGCC
27211237 ACTTGGCCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.44, G:0.28, T:0.11
Consensus pattern (18 bp):
CACACACCCATGTGGGCC
Found at i:27212924 original size:15 final size:16
Alignment explanation
Indices: 27212904--27212937 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
27212894 GGACTATTAG
*
27212904 TTTTTTCTATTAA-TC
1 TTTTTTCTAATAATTC
27212919 TTTTTTCTAATAATTC
1 TTTTTTCTAATAATTC
27212935 TTT
1 TTT
27212938 AATTTGTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTTCTAATAATTC
Found at i:27223914 original size:29 final size:29
Alignment explanation
Indices: 27223825--27223915 Score: 78
Period size: 28 Copynumber: 3.2 Consensus size: 29
27223815 AACACCCCAA
* * *
27223825 AAAGGATAAG-CTTTATGGTGAACTTGTT
1 AAAGGATAAGCCTTTGTGGTGAACCTCTT
* ** * *
27223853 AAAGGACAA-CCTTTGTGGAAAAACTCTG
1 AAAGGATAAGCCTTTGTGGTGAACCTCTT
* *
27223881 GAAGGATAAGCCTTTGTGGTGGACCTCTT
1 AAAGGATAAGCCTTTGTGGTGAACCTCTT
27223910 AAAGGA
1 AAAGGA
27223916 CGCCTTTGTG
Statistics
Matches: 45, Mismatches: 16, Indels: 3
0.70 0.25 0.05
Matches are distributed among these distances:
28 26 0.58
29 19 0.42
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.27
Consensus pattern (29 bp):
AAAGGATAAGCCTTTGTGGTGAACCTCTT
Found at i:27229772 original size:30 final size:30
Alignment explanation
Indices: 27229716--27229774 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
27229706 CTTTTTGAAA
* *
27229716 ATATTTACAAAAAGAGGCATCTAATTTTTC
1 ATATTTACAAAAAGAGGCACCAAATTTTTC
27229746 ATATTTACAAAAAGA-GCAACCAAATTTTT
1 ATATTTACAAAAAGAGGC-ACCAAATTTTT
27229775 AGAAGTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (30 bp):
ATATTTACAAAAAGAGGCACCAAATTTTTC
Found at i:27238618 original size:41 final size:41
Alignment explanation
Indices: 27238559--27238643 Score: 143
Period size: 41 Copynumber: 2.1 Consensus size: 41
27238549 TAAATTAATT
* *
27238559 TTATAGTTATGATTTTTATTTTAATTCTTTTTATTTTTAAA
1 TTATAGATATGATATTTATTTTAATTCTTTTTATTTTTAAA
*
27238600 TTATAGATATGATATTTATTTTACTTCTTTTTATTTTTAAA
1 TTATAGATATGATATTTATTTTAATTCTTTTTATTTTTAAA
27238641 TTA
1 TTA
27238644 ATTTTCTAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.28, C:0.04, G:0.05, T:0.64
Consensus pattern (41 bp):
TTATAGATATGATATTTATTTTAATTCTTTTTATTTTTAAA
Found at i:27240645 original size:23 final size:23
Alignment explanation
Indices: 27240602--27240647 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
27240592 AAATCAAATC
* *
27240602 TCTAAGATTATAGAATCATATCT
1 TCTAAGATTATACAATAATATCT
27240625 TCTAAGATT-TACATATAATATCT
1 TCTAAGATTATACA-ATAATATCT
27240648 AGGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (23 bp):
TCTAAGATTATACAATAATATCT
Found at i:27245518 original size:25 final size:25
Alignment explanation
Indices: 27245490--27245597 Score: 135
Period size: 25 Copynumber: 4.3 Consensus size: 25
27245480 TGTAAACGAA
* *
27245490 AAGCTCATGTGAGTTGAATAACGGG
1 AAGCTCATGTGAGCTGAATAATGGG
* **
27245515 AAGCTCATGTCAGCTGAATAAAAGG
1 AAGCTCATGTGAGCTGAATAATGGG
* *
27245540 AAGCTCATGCGACCTGAATAATGGG
1 AAGCTCATGTGAGCTGAATAATGGG
* *
27245565 AAGCTCATGTGAGCTGAGTATTGGG
1 AAGCTCATGTGAGCTGAATAATGGG
27245590 AAGCTCAT
1 AAGCTCAT
27245598 AAGAGTTGAA
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 70 1.00
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (25 bp):
AAGCTCATGTGAGCTGAATAATGGG
Found at i:27250499 original size:19 final size:19
Alignment explanation
Indices: 27250475--27250513 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
27250465 AATAAATTAC
* *
27250475 TCATCTTGGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
27250494 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
27250513 T
1 T
27250514 GCTGGAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.49
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:27250568 original size:54 final size:53
Alignment explanation
Indices: 27250402--27250578 Score: 230
Period size: 54 Copynumber: 3.3 Consensus size: 53
27250392 ATAAGTATTT
* *
27250402 AGTTACTGGAATAAATTACTCATCTTAGTTAATTGGGTTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTTA-TTAATTGAGTTCATCTTAGTTAATTA
* *
27250456 AGTTGCCGGAATAAATTACTCATCTTGGTTAATTGAGTTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTT-ATTAATTGAGTTCATCTTAGTTAATTA
* * * *
27250510 AGTTGCTGGAATAAATTACTCATATTCATTAATTAAGTTCAACTTAGTTCACTT-
1 AGTTGCTGGAATAAATTACTCATCTT-ATTAATTGAGTTCATCTTAGTT-AATTA
*
27250564 AGTTGCTGGATTAAA
1 AGTTGCTGGAATAAA
27250579 CTTTTAATGT
Statistics
Matches: 109, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
54 106 0.97
55 3 0.03
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (53 bp):
AGTTGCTGGAATAAATTACTCATCTTATTAATTGAGTTCATCTTAGTTAATTA
Found at i:27252471 original size:20 final size:20
Alignment explanation
Indices: 27252446--27252485 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
27252436 TTCCTTATTC
27252446 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
27252466 TTTACTTACTTGCTTACTTG
1 TTTACTTACTTGCTTACTTG
27252486 AATAACTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.15, C:0.23, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:27252737 original size:49 final size:49
Alignment explanation
Indices: 27252675--27252809 Score: 216
Period size: 49 Copynumber: 2.8 Consensus size: 49
27252665 GATAATAACA
* * *
27252675 TGCCAAAGCCATATCCCAGACATGGTCTTACATGGGATGTTTTCTGTAC
1 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGATGTTTTCTGTAC
* *
27252724 TGCCAATGTCATATCCTAGATATGGTTTTACATGGGATGTTTTCTGTAC
1 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGATGTTTTCTGTAC
*
27252773 TGCCAATGTCATATCCCATATATGGTCTTACATGGGA
1 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGA
27252810 GTTCTCATAT
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 78 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (49 bp):
TGCCAATGTCATATCCCAGATATGGTCTTACATGGGATGTTTTCTGTAC
Found at i:27257001 original size:56 final size:51
Alignment explanation
Indices: 27256936--27257173 Score: 167
Period size: 50 Copynumber: 4.6 Consensus size: 51
27256926 TGTGAGCCAG
* ** *
27256936 TGTAAGACCATGTCTAGGACATGGCATTGGCATTATTGAAATTATGAGAGGTCACA
1 TGTAAGACCATGTCTAGGACATAGCATTGGCA--ACCG--A-GATGAGAGGTCACA
* * *
27256992 TGTAAGACCATGTCTGGGACATAGCGTTGGC-ACCGAGATGAGAGGTCCCA
1 TGTAAGACCATGTCTAGGACATAGCATTGGCAACCGAGATGAGAGGTCACA
* * * * * *
27257042 TGTAAGACCATGTCTTGGACATTGCATTGGC-ACTGAGTTGAGAAGTCTCA
1 TGTAAGACCATGTCTAGGACATAGCATTGGCAACCGAGATGAGAGGTCACA
* * * * * * * * * *
27257092 TGTAAGGCCATGTTTGGGACATGGCGTTGGC-CCCAAGATGAGAAGTCCCC
1 TGTAAGACCATGTCTAGGACATAGCATTGGCAACCGAGATGAGAGGTCACA
* * * *
27257142 CGTAAGACCATGTTTGGGACATAGCATGGGCA
1 TGTAAGACCATGTCTAGGACATAGCATTGGCA
27257174 CTGATATGAG
Statistics
Matches: 151, Mismatches: 30, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
50 120 0.79
51 1 0.01
53 2 0.01
56 28 0.19
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (51 bp):
TGTAAGACCATGTCTAGGACATAGCATTGGCAACCGAGATGAGAGGTCACA
Found at i:27257038 original size:50 final size:50
Alignment explanation
Indices: 27256979--27257219 Score: 248
Period size: 50 Copynumber: 4.8 Consensus size: 50
27256969 TATTGAAATT
* * *
27256979 ATGAGAGGTCACATGTAAGACCATGTCTGGGACATAGCGTTGGCACCGAG
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATAGCATTGGCACCGAG
* * * *
27257029 ATGAGAGGTCCCATGTAAGACCATGTCTTGGACATTGCATTGGCACTGAG
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATAGCATTGGCACCGAG
* * * * * * * *
27257079 TTGAGAAGTCTCATGTAAGGCCATGTTTGGGACATGGCGTTGGCCCCAAG
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATAGCATTGGCACCGAG
** * * * *
27257129 ATGAGAAGTCCCCCGTAAGACCATGTTTGGGACATAGCATGGGCACTGAT
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATAGCATTGGCACCGAG
* * * * *
27257179 ATGAGAACTCCCATGTAAAACCATATCTGGGATATGGCATT
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATAGCATT
27257220 AGCAGTACGG
Statistics
Matches: 154, Mismatches: 37, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 154 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (50 bp):
ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATAGCATTGGCACCGAG
Found at i:27257111 original size:100 final size:100
Alignment explanation
Indices: 27256978--27257210 Score: 290
Period size: 100 Copynumber: 2.3 Consensus size: 100
27256968 TTATTGAAAT
* * * *
27256978 TATGAGAGGTCACATGTAAGACCATGTCTGGGACATAGCGTTGGCACCGAGATGAGAGGTCCCAT
1 TATGAGAAGTCACATGTAAGACCATGTCTGGGACATAGCGTTGGCACCAAGATGAGAAGTCCCAC
* *
27257043 GTAAGACCATGTCTT-GGACATTGCATTGGCACTGA
66 GTAAGACCATGT-TTGGGACATAGCATGGGCACTGA
* * * * * *
27257078 GT-TGAGAAGTCTCATGTAAGGCCATGTTTGGGACATGGCGTTGGCCCCAAGATGAGAAGTCCCC
1 -TATGAGAAGTCACATGTAAGACCATGTCTGGGACATAGCGTTGGCACCAAGATGAGAAGTCCCA
27257142 CGTAAGACCATGTTTGGGACATAGCATGGGCACTGA
65 CGTAAGACCATGTTTGGGACATAGCATGGGCACTGA
* * * *
27257178 TATGAGAACTCCCATGTAAAACCATATCTGGGA
1 TATGAGAAGTCACATGTAAGACCATGTCTGGGA
27257211 TATGGCATTA
Statistics
Matches: 112, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
99 3 0.03
100 108 0.96
101 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (100 bp):
TATGAGAAGTCACATGTAAGACCATGTCTGGGACATAGCGTTGGCACCAAGATGAGAAGTCCCAC
GTAAGACCATGTTTGGGACATAGCATGGGCACTGA
Found at i:27258204 original size:25 final size:25
Alignment explanation
Indices: 27258176--27258223 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
27258166 GGAGTTTAGC
*
27258176 GTGCTCTCTGATTATTAGCACATCG
1 GTGCTATCTGATTATTAGCACATCG
27258201 GTGCTATCTGATTATTAGCACAT
1 GTGCTATCTGATTATTAGCACAT
27258224 TTATGTTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (25 bp):
GTGCTATCTGATTATTAGCACATCG
Found at i:27267744 original size:14 final size:14
Alignment explanation
Indices: 27267725--27267753 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
27267715 TAATGTTATA
27267725 TTTTAATAATTCAT
1 TTTTAATAATTCAT
27267739 TTTTAATAATTCAT
1 TTTTAATAATTCAT
27267753 T
1 T
27267754 AATAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTAATAATTCAT
Found at i:27273611 original size:50 final size:50
Alignment explanation
Indices: 27273490--27273668 Score: 193
Period size: 50 Copynumber: 3.6 Consensus size: 50
27273480 ACATGCTAAA
*
27273490 GCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCATGTAC--TGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGGTGCCAAT
* * * *
27273539 GCCATATCCAAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGCCAAT
*** ** * * *
27273589 GCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGGTGCTAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGCCAAT
*
27273639 GCCATGTCCCAAACATGGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
27273669 CCTCATCCTC
Statistics
Matches: 106, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
48 4 0.04
49 32 0.30
50 70 0.66
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.28
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGCCAAT
Found at i:27275932 original size:20 final size:20
Alignment explanation
Indices: 27275901--27276027 Score: 130
Period size: 20 Copynumber: 6.3 Consensus size: 20
27275891 GCATCATAGA
27275901 TGCATAACAGGGGCACCGAAG
1 TGCA-AACAGGGGCACCGAAG
* *
27275922 TGCAGACAGGGGCA-CAAATG
1 TGCAAACAGGGGCACCGAA-G
* *
27275942 TGCAAATAGGGGCACCGTAG
1 TGCAAACAGGGGCACCGAAG
* ** *
27275962 TGCGAACAGGAACACCAAAG
1 TGCAAACAGGGGCACCGAAG
* *
27275982 TGTATACAGGGGCACCGAAG
1 TGCAAACAGGGGCACCGAAG
*
27276002 TGCAAACAAGGGCACCGAAG
1 TGCAAACAGGGGCACCGAAG
27276022 TGCAAA
1 TGCAAA
27276028 TCCTTTACAA
Statistics
Matches: 83, Mismatches: 21, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
19 3 0.04
20 74 0.89
21 6 0.07
ACGTcount: A:0.36, C:0.22, G:0.31, T:0.10
Consensus pattern (20 bp):
TGCAAACAGGGGCACCGAAG
Found at i:27277621 original size:18 final size:18
Alignment explanation
Indices: 27277598--27277634 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
27277588 CAAGTTTACG
27277598 AGCAGTCTCTTCACACAT
1 AGCAGTCTCTTCACACAT
27277616 AGCAGTCTCTTCACACAT
1 AGCAGTCTCTTCACACAT
27277634 A
1 A
27277635 AGAAAATCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.32, G:0.11, T:0.27
Consensus pattern (18 bp):
AGCAGTCTCTTCACACAT
Found at i:27285341 original size:27 final size:27
Alignment explanation
Indices: 27285303--27285499 Score: 159
Period size: 27 Copynumber: 7.3 Consensus size: 27
27285293 ATTCGTGGGC
* *
27285303 AAATGACCGAAATACCCTTGCAGGGTA
1 AAATGACTGAAATACCCTTGAAGGGTA
* **
27285330 AAATAACTGAAATACCCCCGAAGGGTA
1 AAATGACTGAAATACCCTTGAAGGGTA
* ** *
27285357 AACTGACCAAAATA-CCTTCAAAGGGTA
1 AAATGACTGAAATACCCTT-GAAGGGTA
* *
27285384 AAATGACTGAAATATCC-TGAAAGGTA
1 AAATGACTGAAATACCCTTGAAGGGTA
** * *
27285410 AAATGACCAAAATACCCTCGAAGGATA
1 AAATGACTGAAATACCCTTGAAGGGTA
* *
27285437 AAATGGCTGAAATACCGTTGAAGGGTA
1 AAATGACTGAAATACCCTTGAAGGGTA
* **
27285464 AAAT-AATCGAAATACCC-CCATAGGGTA
1 AAATGACT-GAAATACCCTTGA-AGGGTA
27285491 AAATGACTG
1 AAATGACTG
27285500 TTATACCCCT
Statistics
Matches: 129, Mismatches: 35, Indels: 12
0.73 0.20 0.07
Matches are distributed among these distances:
26 24 0.19
27 101 0.78
28 4 0.03
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (27 bp):
AAATGACTGAAATACCCTTGAAGGGTA
Found at i:27285371 original size:54 final size:54
Alignment explanation
Indices: 27285303--27285452 Score: 171
Period size: 53 Copynumber: 2.8 Consensus size: 54
27285293 ATTCGTGGGC
* * *
27285303 AAATGACCGAAATACCCTTGCAGGGTAAAATAACTGAAATACCCCCGAAGGGTA
1 AAATGACCAAAATACCCTTGCAGGGTAAAATGACTGAAATACCCCCGAAAGGTA
* * *
27285357 AACTGACCAAAATA-CCTT-CAAAGGGTAAAATGACTGAAATA-TCCTGAAAGGTA
1 AAATGACCAAAATACCCTTGC--AGGGTAAAATGACTGAAATACCCCCGAAAGGTA
* * * *
27285410 AAATGACCAAAATACCCTCGAAGGATAAAATGGCTGAAATACC
1 AAATGACCAAAATACCCTTGCAGGGTAAAATGACTGAAATACC
27285453 GTTGAAGGGT
Statistics
Matches: 79, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
52 1 0.01
53 44 0.56
54 34 0.43
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (54 bp):
AAATGACCAAAATACCCTTGCAGGGTAAAATGACTGAAATACCCCCGAAAGGTA
Found at i:27285479 original size:54 final size:52
Alignment explanation
Indices: 27285303--27285499 Score: 198
Period size: 54 Copynumber: 3.7 Consensus size: 52
27285293 ATTCGTGGGC
* * * * *
27285303 AAATGACCGAAATACCCTTGCAGGGTAAAATAACTGAAATACCCCCGAAGGGTA
1 AAATGACCAAAATACCCTCGAAGGGTAAAATGACTGAAATA--CCTGAAGGGTA
* * * *
27285357 AACTGACCAAAATACCTTCAAAGGGTAAAATGACTGAAATATCCTGAAAGGTA
1 AAATGACCAAAATACCCTCGAAGGGTAAAATGACTGAAATA-CCTGAAGGGTA
* *
27285410 AAATGACCAAAATACCCTCGAAGGATAAAATGGCTGAAATACCGTTGAAGGGTA
1 AAATGACCAAAATACCCTCGAAGGGTAAAATGACTGAAATACC--TGAAGGGTA
* * * *
27285464 AAATAATCGAAATACCC-CCATAGGGTAAAATGACTG
1 AAATGACCAAAATACCCTCGA-AGGGTAAAATGACTG
27285500 TTATACCCCT
Statistics
Matches: 118, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
52 2 0.02
53 47 0.40
54 69 0.58
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (52 bp):
AAATGACCAAAATACCCTCGAAGGGTAAAATGACTGAAATACCTGAAGGGTA
Found at i:27285489 original size:107 final size:107
Alignment explanation
Indices: 27285303--27285499 Score: 250
Period size: 107 Copynumber: 1.8 Consensus size: 107
27285293 ATTCGTGGGC
* * * * * *
27285303 AAATGACCGAAATACCCTTGCAGGGTAAAATAACTGAAATACCCCCGAAGGGTAAACTGACCAAA
1 AAATGACCAAAATACCCTCGAAGGATAAAATAACTGAAATACCCCCGAAGGGTAAAATAACCAAA
**
27285368 ATACCTTCAAAGGGTAAAATGACTGAAATATCCTGAAAGGTA
66 ATACCCCCAAAGGGTAAAATGACTGAAATATCCTGAAAGGTA
** *** * *
27285410 AAATGACCAAAATACCCTCGAAGGATAAAATGGCTGAAATACCGTTGAAGGGTAAAATAATCGAA
1 AAATGACCAAAATACCCTCGAAGGATAAAATAACTGAAATACCCCCGAAGGGTAAAATAACCAAA
*
27285475 ATACCCCCATAGGGTAAAATGACTG
66 ATACCCCCAAAGGGTAAAATGACTG
27285500 TTATACCCCT
Statistics
Matches: 74, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
107 74 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (107 bp):
AAATGACCAAAATACCCTCGAAGGATAAAATAACTGAAATACCCCCGAAGGGTAAAATAACCAAA
ATACCCCCAAAGGGTAAAATGACTGAAATATCCTGAAAGGTA
Found at i:27292319 original size:27 final size:26
Alignment explanation
Indices: 27292276--27292433 Score: 151
Period size: 27 Copynumber: 5.9 Consensus size: 26
27292266 TGCGATTCAT
*
27292276 GGGT-AAATGACTAAAATACCCTCGAA
1 GGGTAAAATGACTGAAATACCC-CGAA
27292302 GGGTAAAATGA-TCGAAATACTCCCGAA
1 GGGTAAAATGACT-GAAATAC-CCCGAA
* *
27292329 GGATAAAATGA-TCGAAATACCCTTGAA
1 GGGTAAAATGACT-GAAATACCC-CGAA
*
27292356 GGGTAAAATGACTAAAATACCCCTGAA
1 GGGTAAAATGACTGAAATACCCC-GAA
* *
27292383 GGATAAAATGACTGAAATACCCCCCATA
1 GGGTAAAATGACTGAAATA-CCCCGA-A
**
27292411 GGGTAAAATGACTGTTATACCCC
1 GGGTAAAATGACTGAAATACCCC
27292434 TAGGAGATGG
Statistics
Matches: 112, Mismatches: 12, Indels: 15
0.81 0.09 0.11
Matches are distributed among these distances:
26 7 0.06
27 81 0.72
28 24 0.21
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (26 bp):
GGGTAAAATGACTGAAATACCCCGAA
Found at i:27292347 original size:54 final size:54
Alignment explanation
Indices: 27292280--27292423 Score: 186
Period size: 54 Copynumber: 2.6 Consensus size: 54
27292270 ATTCATGGGT
* *
27292280 AAATGACTAAAATACCCTCGAAGGGTAAAATGA-TCGAAATACTCCC-GAAGGATA
1 AAATGACTGAAATACCCTCGAAGGGTAAAATGACT-AAAATAC-CCCTGAAGGATA
*
27292334 AAATGA-TCGAAATACCCTTGAAGGGTAAAATGACTAAAATACCCCTGAAGGATA
1 AAATGACT-GAAATACCCTCGAAGGGTAAAATGACTAAAATACCCCTGAAGGATA
* *
27292388 AAATGACTGAAATACCCCCCATAGGGTAAAATGACT
1 AAATGACTGAAATACCCTCGA-AGGGTAAAATGACT
27292424 GTTATACCCC
Statistics
Matches: 79, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
53 4 0.05
54 59 0.75
55 16 0.20
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (54 bp):
AAATGACTGAAATACCCTCGAAGGGTAAAATGACTAAAATACCCCTGAAGGATA
Found at i:27296660 original size:13 final size:13
Alignment explanation
Indices: 27296642--27296667 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27296632 TCTTGGCTCA
27296642 GTGGAAACCCAAG
1 GTGGAAACCCAAG
27296655 GTGGAAACCCAAG
1 GTGGAAACCCAAG
27296668 CTTAGACAGG
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:0.23, G:0.31, T:0.08
Consensus pattern (13 bp):
GTGGAAACCCAAG
Found at i:27304322 original size:18 final size:18
Alignment explanation
Indices: 27304299--27304341 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
27304289 AGTGTTTTTC
27304299 GAAAACCATGTTTTCATT
1 GAAAACCATGTTTTCATT
*
27304317 GAAAACCATGTTTTTATT
1 GAAAACCATGTTTTCATT
27304335 GAAAACC
1 GAAAACC
27304342 CTTATTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
GAAAACCATGTTTTCATT
Found at i:27305377 original size:27 final size:27
Alignment explanation
Indices: 27305339--27305453 Score: 151
Period size: 27 Copynumber: 4.3 Consensus size: 27
27305329 CATAACAGTC
*
27305339 AATTTTACCCATCGGGGGTATTTTAAT
1 AATTTTACCCATCGGGGGTATTTCAAT
**
27305366 AATTTTACCCATCGGGGGTATTTCGGT
1 AATTTTACCCATCGGGGGTATTTCAAT
* * *
27305393 AATTTTACCCATTGAGGGTATTTCGAT
1 AATTTTACCCATCGGGGGTATTTCAAT
* *
27305420 AATTTTACCCATC-GAGGTATTTCAGT
1 AATTTTACCCATCGGGGGTATTTCAAT
27305446 AATTTTAC
1 AATTTTAC
27305454 TAATCAAGGG
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 17 0.22
27 60 0.78
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (27 bp):
AATTTTACCCATCGGGGGTATTTCAAT
Found at i:27305422 original size:54 final size:53
Alignment explanation
Indices: 27305334--27305468 Score: 171
Period size: 54 Copynumber: 2.5 Consensus size: 53
27305324 AAGGCCATAA
* * *
27305334 CAGTCAATTTTACCCATCGGGGGTATTTTAATAATTTTACCCATCGGGGGTATTT
1 CAGT-AATTTTACCCATCGAGGGTATTTCAATAATTTTACCCATC-GAGGTATTT
* * *
27305389 CGGTAATTTTACCCATTGAGGGTATTTCGATAATTTTACCCATCGAGGTATTT
1 CAGTAATTTTACCCATCGAGGGTATTTCAATAATTTTACCCATCGAGGTATTT
** *
27305442 CAGTAATTTTACTAATCAAGGGTATTT
1 CAGTAATTTTACCCATCGAGGGTATTT
27305469 TGCTAATTTA
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
53 30 0.43
54 36 0.52
55 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (53 bp):
CAGTAATTTTACCCATCGAGGGTATTTCAATAATTTTACCCATCGAGGTATTT
Found at i:27305464 original size:53 final size:54
Alignment explanation
Indices: 27305334--27305477 Score: 164
Period size: 53 Copynumber: 2.7 Consensus size: 54
27305324 AAGGCCATAA
* ** * *
27305334 CAGTCAATTTTACCCATCGGGGGTATTTTAATAATTTTACCCATCGGGGGTATTT
1 CAGT-AATTTTACCAATCAAGGGTATTTTGATAATTTTACCCATCGGAGGTATTT
* * ** *
27305389 CGGTAATTTTACCCATTGAGGGTATTTCGATAATTTTACCCATC-GAGGTATTT
1 CAGTAATTTTACCAATCAAGGGTATTTTGATAATTTTACCCATCGGAGGTATTT
* *
27305442 CAGTAATTTTACTAATCAAGGGTATTTTGCTAATTT
1 CAGTAATTTTACCAATCAAGGGTATTTTGATAATTT
27305478 AACGTCCTTT
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
53 37 0.49
54 36 0.47
55 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (54 bp):
CAGTAATTTTACCAATCAAGGGTATTTTGATAATTTTACCCATCGGAGGTATTT
Found at i:27307010 original size:25 final size:25
Alignment explanation
Indices: 27306973--27307026 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
27306963 TAAACCTCTG
27306973 ACCTCCTTACCACACCTGTGACGCC
1 ACCTCCTTACCACACCTGTGACGCC
* *
27306998 ACCTCCTTGCCACACCTGTGTCGCC
1 ACCTCCTTACCACACCTGTGACGCC
27307023 ACCT
1 ACCT
27307027 TTCCAATACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.17, C:0.48, G:0.13, T:0.22
Consensus pattern (25 bp):
ACCTCCTTACCACACCTGTGACGCC
Found at i:27309459 original size:15 final size:16
Alignment explanation
Indices: 27309432--27309472 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
27309422 CTGCAATAGG
27309432 CTGTTGGTT-CTAC-AT
1 CTGTT-GTTGCTACTAT
27309447 CTGTTGTTGCTACTAT
1 CTGTTGTTGCTACTAT
27309463 -TGTTGTTGCT
1 CTGTTGTTGCT
27309473 GTCGATGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.12
15 19 0.79
16 2 0.08
ACGTcount: A:0.10, C:0.17, G:0.22, T:0.51
Consensus pattern (16 bp):
CTGTTGTTGCTACTAT
Found at i:27311196 original size:25 final size:26
Alignment explanation
Indices: 27311163--27311211 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
27311153 CATCCTCAAA
27311163 ACCCAAATTTGGT-AAATTT-TAATCG
1 ACCCAAA-TTGGTAAAATTTGTAATCG
*
27311188 ACCCTAATTGGTAAAATTTGTAAT
1 ACCCAAATTGGTAAAATTTGTAAT
27311212 TGAGGAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 12 0.57
26 4 0.19
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (26 bp):
ACCCAAATTGGTAAAATTTGTAATCG
Found at i:27312351 original size:114 final size:114
Alignment explanation
Indices: 27312159--27312383 Score: 396
Period size: 114 Copynumber: 2.0 Consensus size: 114
27312149 CTAAATACAC
*
27312159 TGATGTATTTCCTAAAGGATTGCGAGGTTTACCGTCAAGGTGAGAAAAGTTGAAATTGTTATTAA
1 TGATGTATTTCCTAAAGGATTGCGAGGTTTACCATCAAGGTGAGAAAAGTTGAAATTGTTATTAA
*
27312224 AGTAACAGCTGGAACTGCTTCGATCTCGATTACACCGTAGAAAATACGT
66 AGTAACAGCTGGAACTACTTCGATCTCGATTACACCGTAGAAAATACGT
* *
27312273 TGATGTATTTCCTAAAGGATTGCGAGGTTTACCATCAAGGTGAGAAAATTTGAAATTGTTATTGA
1 TGATGTATTTCCTAAAGGATTGCGAGGTTTACCATCAAGGTGAGAAAAGTTGAAATTGTTATTAA
* *
27312338 AGTAATAGCTGGAACTACTTCGATCTCGATTACACTGTAGAAAATA
66 AGTAACAGCTGGAACTACTTCGATCTCGATTACACCGTAGAAAATA
27312384 GTACAGAAAG
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 105 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (114 bp):
TGATGTATTTCCTAAAGGATTGCGAGGTTTACCATCAAGGTGAGAAAAGTTGAAATTGTTATTAA
AGTAACAGCTGGAACTACTTCGATCTCGATTACACCGTAGAAAATACGT
Found at i:27315024 original size:21 final size:21
Alignment explanation
Indices: 27314993--27315043 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
27314983 TGTTTATTCA
27314993 TAATATAGTTTATTTAAAG-TAC
1 TAAT-TAGTTTATTTAAAGAT-C
*
27315015 TAATTAGTTTATTTATAGATC
1 TAATTAGTTTATTTAAAGATC
27315036 TAATTAGT
1 TAATTAGT
27315044 ACTTTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (21 bp):
TAATTAGTTTATTTAAAGATC
Found at i:27316909 original size:20 final size:22
Alignment explanation
Indices: 27316884--27316931 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
27316874 TATTTAATTA
27316884 ATAATT-TTTAATAAA-AT-ATT
1 ATAATTATTT-ATAAATATCATT
*
27316904 ATAATTATTTTTAAATATCATT
1 ATAATTATTTATAAATATCATT
27316926 ATAATT
1 ATAATT
27316932 GTAACACCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 10 0.42
21 5 0.21
22 9 0.38
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
ATAATTATTTATAAATATCATT
Found at i:27318408 original size:33 final size:33
Alignment explanation
Indices: 27318371--27318510 Score: 183
Period size: 33 Copynumber: 4.2 Consensus size: 33
27318361 TACTCTTTAT
*
27318371 TTGGTGTGCTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
* * *
27318404 TTGGTGTGATGGTTGGTTTGGCTCTTATAAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
*
27318437 TTGGTGTGATGGTTGGTTTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
* * *
27318470 TTGGTGTGATGGATGGATTGGCTC-AAGTGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTA-TGAGCA
27318503 TCTGGTGT
1 T-TGGTGT
27318511 ATTTGGTTGG
Statistics
Matches: 95, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
32 1 0.01
33 88 0.93
34 6 0.06
ACGTcount: A:0.16, C:0.10, G:0.35, T:0.39
Consensus pattern (33 bp):
TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
Found at i:27320371 original size:43 final size:42
Alignment explanation
Indices: 27320279--27320395 Score: 119
Period size: 43 Copynumber: 2.8 Consensus size: 42
27320269 GCCTCACACG
*
27320279 GTTGAGACACACGCCCATGTCTCAGGCCGTGTAATAATCGAA
1 GTTGGGACACACGCCCATGTCTCAGGCCGTGTAATAATCGAA
* * * * *
27320321 ATAGGGACACACGCCCATGTGTCCAGGCCGTGTGACT-CTCGAA
1 GTTGGGACACACGCCCATGTCT-CAGGCCGTGT-AATAATCGAA
* * * *
27320364 GTTGGGACATACGGCCATGTCCCAGCCCGTGT
1 GTTGGGACACACGCCCATGTCTCAGGCCGTGT
27320396 CCTTTCCCAT
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
42 27 0.45
43 31 0.52
44 2 0.03
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.21
Consensus pattern (42 bp):
GTTGGGACACACGCCCATGTCTCAGGCCGTGTAATAATCGAA
Done.