Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007816.1 Hibiscus syriacus cultivar Beakdansim tig00110151_pilon, whole genome shotgun sequence
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: 3994936
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 14
Found at i:2565186 original size:59 final size:59
Alignment explanation
Indices: 2565093--2565598 Score: 417
Period size: 59 Copynumber: 8.5 Consensus size: 59
2565083 TAGGAAATTT
* * * * * *
2565093 ATACAATTCGTATAATTTCCTTATAATATTAGCACTCTCAGTGCTCTATATGGAATAT-C
1 ATACACTTAGTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCTATATGGAA-ATCC
* * ** **
2565152 ATATACTTAATATGATTTCCTCCTCATTTTAGCACACGAAGT-C-C-ACTATGCGAGAATCC
1 ATACACTTAGTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCTA-TATG-GA-AATCC
* * * *
2565211 ATAC-CATTAGTATGA-TTCCTTTACCATTTTTTTAGCACA-TGAAGTGCCCTATATGAAAATCC
1 ATACAC-TTAGTATGATTTCC-TTATCA---TTTTAGCACACT-CAGTGCTCTATATGGAAATCC
* * * * * *
2565273 ATACTA-TTAGTATGATTTCCTTATCCTTGTAGCACCCTTAGTGC-CTTTTTTGGAAATCC
1 ATAC-ACTTAGTATGATTTCCTTATCATTTTAGCACACTCAGTGCTC-TATATGGAAATCC
* * * * * *
2565332 ATACACTCAGTATGA-TTCTCTTACCTTTTTAGCACA-TATAGTGCCCTATCTGGAAATCC
1 ATACACTTAGTATGATTTC-CTTATCATTTTAGCACACT-CAGTGCTCTATATGGAAATCC
* * *
2565391 ATATA-TTCAATATGATTT-CTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATCC
1 ATACACTT-AGTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCTATATGGAAATCC
* * *
2565449 ATACACTCAGTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATCT
1 ATACACTTAGTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCTATATGGAAATCC
* * * *
2565508 ATACACTCATTATGATTTCCTTATCATTTTAGCACACTCAGTACTCCATATGGAAATCC
1 ATACACTTAGTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCTATATGGAAATCC
* * *
2565567 ATACACTCAGTATGATATCCTTACCATTTTAG
1 ATACACTTAGTATGATTTCCTTATCATTTTAG
2565599 TGCATATAGT
Statistics
Matches: 367, Mismatches: 53, Indels: 54
0.77 0.11 0.11
Matches are distributed among these distances:
56 1 0.00
57 5 0.01
58 62 0.17
59 247 0.67
60 4 0.01
62 36 0.10
63 6 0.02
64 5 0.01
65 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (59 bp):
ATACACTTAGTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCTATATGGAAATCC
Found at i:2565443 original size:443 final size:442
Alignment explanation
Indices: 2564586--2565476 Score: 1667
Period size: 443 Copynumber: 2.0 Consensus size: 442
2564576 TACAATTTGC
*
2564586 ATCACTGATGCCATTAACCTCATCTATTAATCGTTATTGGAATCCATACATTCCATAGGAAATTT
1 ATCATTGATGCCATTAACCTCATCTATTAATCGTTATTGGAATCCATACATTCCATAGGAAATTT
* *
2564651 ATACAATTCGTATAATTTCCTTGTAATATTAGCACTCTCAGTGCTCTATCTGGAATATCATATAC
66 ATACAATTCGTATAATTTCCTTATAATATTAGCACTCTCAGTGCTCTATATGGAATATCATATAC
*
2564716 TTAATATGATTTCCTCCTCATTTTAGCACACGAAGTGCCCTATGCGAGAATCTATACCATTAATA
131 TTAATATGATTTCCTCCTCATTTTAGCACACGAAGTGCCCTATGCGAGAATCCATACCATTAATA
*
2564781 TGATTTCTTTACCATTTTTTAGCACATGAAGTGCCCTATATGAAAATCCATACTATTAGTATGAT
196 TGATTCCTTTACCATTTTTTAGCACATGAAGTGCCCTATATGAAAATCCATACTATTAGTATGAT
*
2564846 TTCCTTATTCTTGTAGCACCCTTAGTGCCTTTTCTGGAAATCCATACACTCAGTATGATTCTCTT
261 TTCCTTATCCTTGTAGCACCCTTAGTGCCTTTTCTGGAAATCCATACACTCAGTATGATTCTCTT
*
2564911 ACCATTTTAGCACATATAGTGCCCTATTTGGAAATCCATATATTCAATATGATTTCTTATCATTT
326 ACCATTTTAGCACATATAGTGCCCTATCTGGAAATCCATATATTCAATATGATTTCTTATCATTT
2564976 TAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTT
391 TAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTT
2565028 ATCATTGATGCCATTAACCTCATCTATTAATCGTTATTGGAATCCATACATTCCATAGGAAATTT
1 ATCATTGATGCCATTAACCTCATCTATTAATCGTTATTGGAATCCATACATTCCATAGGAAATTT
2565093 ATACAATTCGTATAATTTCCTTATAATATTAGCACTCTCAGTGCTCTATATGGAATATCATATAC
66 ATACAATTCGTATAATTTCCTTATAATATTAGCACTCTCAGTGCTCTATATGGAATATCATATAC
*
2565158 TTAATATGATTTCCTCCTCATTTTAGCACACGAAGT-CCACTATGCGAGAATCCATACCATTAGT
131 TTAATATGATTTCCTCCTCATTTTAGCACACGAAGTGCC-CTATGCGAGAATCCATACCATTAAT
2565222 ATGATTCCTTTACCATTTTTTTAGCACATGAAGTGCCCTATATGAAAATCCATACTATTAGTATG
195 ATGATTCCTTTACCA-TTTTTTAGCACATGAAGTGCCCTATATGAAAATCCATACTATTAGTATG
*
2565287 ATTTCCTTATCCTTGTAGCACCCTTAGTGCCTTTTTTGGAAATCCATACACTCAGTATGATTCTC
259 ATTTCCTTATCCTTGTAGCACCCTTAGTGCCTTTTCTGGAAATCCATACACTCAGTATGATTCTC
*
2565352 TTACCTTTTTAGCACATATAGTGCCCTATCTGGAAATCCATATATTCAATATGATTTCTTATCAT
324 TTACCATTTTAGCACATATAGTGCCCTATCTGGAAATCCATATATTCAATATGATTTCTTATCAT
2565417 TTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTT
389 TTTAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTT
2565471 ATCATT
1 ATCATT
2565477 TTAGCACACT
Statistics
Matches: 437, Mismatches: 10, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
441 2 0.00
442 200 0.46
443 235 0.54
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (442 bp):
ATCATTGATGCCATTAACCTCATCTATTAATCGTTATTGGAATCCATACATTCCATAGGAAATTT
ATACAATTCGTATAATTTCCTTATAATATTAGCACTCTCAGTGCTCTATATGGAATATCATATAC
TTAATATGATTTCCTCCTCATTTTAGCACACGAAGTGCCCTATGCGAGAATCCATACCATTAATA
TGATTCCTTTACCATTTTTTAGCACATGAAGTGCCCTATATGAAAATCCATACTATTAGTATGAT
TTCCTTATCCTTGTAGCACCCTTAGTGCCTTTTCTGGAAATCCATACACTCAGTATGATTCTCTT
ACCATTTTAGCACATATAGTGCCCTATCTGGAAATCCATATATTCAATATGATTTCTTATCATTT
TAGCACACTCAGTGCTCCATATGGAAATCCATACACTCAGTATGATTTCCTT
Found at i:2565489 original size:31 final size:31
Alignment explanation
Indices: 2565451--2565550 Score: 84
Period size: 31 Copynumber: 3.3 Consensus size: 31
2565441 GGAAATCCAT
2565451 ACACTCAGTATGATTTCCTTATCATTTTAGC
1 ACACTCAGTATGATTTCCTTATCATTTTAGC
* * * * * *
2565482 ACACTCAG--TG--CTCCATATGGAAATCTA-T
1 ACACTCAGTATGATTTCCTTAT--CATTTTAGC
*
2565510 ACACTCATTATGATTTCCTTATCATTTTAGC
1 ACACTCAGTATGATTTCCTTATCATTTTAGC
2565541 ACACTCAGTA
1 ACACTCAGTA
2565551 CTCCATATGG
Statistics
Matches: 48, Mismatches: 14, Indels: 14
0.63 0.18 0.18
Matches are distributed among these distances:
27 6 0.12
28 7 0.15
29 6 0.12
30 6 0.12
31 17 0.35
32 6 0.12
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (31 bp):
ACACTCAGTATGATTTCCTTATCATTTTAGC
Found at i:2565564 original size:176 final size:174
Alignment explanation
Indices: 2565102--2565598 Score: 463
Period size: 176 Copynumber: 2.8 Consensus size: 174
2565092 TATACAATTC
* * * * * *
2565102 GTATAATTTCCTTATAATATTAGCACTCTCAGTGCTCTATATGGAATATCATATACTTAATATGA
1 GTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCTATATGGAA-ATCATACACTCAATATGA
** * *
2565167 TTTCCTCCTCATTTTAGCACA-C-GAAGTCCACTATGCGAGAATCCATACCATT-AGTATGATTC
65 TTTCCTTATCATTTTAGCACATCAGTACTCCA-TATG-GA-AATCCATA-CATTCAGTATGATTC
*
2565229 CTTTACCATTTTTTTAGCACATGAAGTGCCCTATATGAAAATCCATACTATTA
126 C-TTACCA---TTTTAGCACATGAAGTGCCCTATATGAAAATCCATACTATCA
* * * * * * *
2565282 GTATGATTTCCTTATCCTTGTAGCACCCTTAGTGC-CTTTTTTGGAAATCCATACACTCAGTATG
1 GTATGATTTCCTTATCATTTTAGCACACTCAGTGCTC-TATATGGAAAT-CATACACTCAATATG
* * * * * * * *
2565346 A-TTCTCTTACCTTTTTAGCACATATAGTGC-CCTATCTGGAAATCCATATATTCAATATGATTT
64 ATTTC-CTTATCATTTTAGCACAT-CAGTACTCC-ATATGGAAATCCATACATTCAGTATGATTC
* * *
2565409 CTTATCATTTTAGCACACT-CAGTGCTCC-ATATGGAAATCCATAC-ACTCA
126 CTTACCATTTTAGCACA-TGAAGTGC-CCTATATGAAAATCCATACTA-TCA
* *
2565458 GTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCATTATGA
1 GTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCTATATGGAAATC-ATACACTCAATATGA
*
2565523 TTTCCTTATCATTTTAGCACACTCAGTACTCCATATGGAAATCCATACACTCAGTATGATATCCT
65 TTTCCTTATCATTTTAGCACA-TCAGTACTCCATATGGAAATCCATACATTCAGTATGAT-TCCT
2565588 TACCATTTTAG
128 TACCATTTTAG
2565599 TGCATATAGT
Statistics
Matches: 254, Mismatches: 46, Indels: 37
0.75 0.14 0.11
Matches are distributed among these distances:
175 2 0.01
176 128 0.50
177 23 0.09
179 14 0.06
180 78 0.31
181 2 0.01
182 5 0.02
183 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (174 bp):
GTATGATTTCCTTATCATTTTAGCACACTCAGTGCTCTATATGGAAATCATACACTCAATATGAT
TTCCTTATCATTTTAGCACATCAGTACTCCATATGGAAATCCATACATTCAGTATGATTCCTTAC
CATTTTAGCACATGAAGTGCCCTATATGAAAATCCATACTATCA
Found at i:2565628 original size:118 final size:115
Alignment explanation
Indices: 2565323--2565630 Score: 390
Period size: 118 Copynumber: 2.6 Consensus size: 115
2565313 GTGCCTTTTT
* * *
2565323 TGGAAATCCATACACTCAGTATGATTCTCTTACCTTTTTAGCACATATAGTGCCCTATCTGGAAA
1 TGGAAATCCATACACTCAGTATGATTC-CTTACCATTTTAG-GCATATAGTGCCC-ATATGGAAA
* * *
2565388 TCC-ATATATTCAATATGATTTCTTATCATTTTAGCACACTCAGTGCTCCATA
63 TCCTATACACTCAATATGATTTCTTATCATTTTAGCACACTCAGTACTCCATA
* *
2565440 TGGAAATCCATACACTCAGTATGATTTCCTTATCATTTTA-GCACACTCAGTGCTCCATATGGAA
1 TGGAAATCCATACACTCAGTATGA-TTCCTTACCATTTTAGGCATA-T-AGTGC-CCATATGGAA
*
2565504 AT-CTATACACTCATTATGATTTCCTTATCATTTTAGCACACTCAGTACTCCATA
62 ATCCTATACACTCAATATGATTT-CTTATCATTTTAGCACACTCAGTACTCCATA
* *
2565558 TGGAAATCCATACACTCAGTATGATATCCTTACCATTTTAGTGCATATAGTG-CCATTTGGTAAT
1 TGGAAATCCATACACTCAGTATGAT-TCCTTACCATTTTAG-GCATATAGTGCCCATATGGAAAT
2565622 CACTATACA
64 C-CTATACA
2565631 TACATTAATA
Statistics
Matches: 167, Mismatches: 13, Indels: 21
0.83 0.06 0.10
Matches are distributed among these distances:
115 3 0.02
116 12 0.07
117 64 0.38
118 83 0.50
119 1 0.01
120 4 0.02
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (115 bp):
TGGAAATCCATACACTCAGTATGATTCCTTACCATTTTAGGCATATAGTGCCCATATGGAAATCC
TATACACTCAATATGATTTCTTATCATTTTAGCACACTCAGTACTCCATA
Found at i:2565630 original size:59 final size:58
Alignment explanation
Indices: 2565323--2565630 Score: 253
Period size: 59 Copynumber: 5.3 Consensus size: 58
2565313 GTGCCTTTTT
* * * *
2565323 TGGAAATCC-ATACACTCAGTATGA-TTCTCTTACCTTTTTAGCACATA-TAGTGCCCTATC
1 TGGAAATCCTATACACTCAGTATGATTTC-CTTATCATTTTAG-GCATACTAGTG-CC-ATA
* * * *
2565382 TGGAAATCC-ATATATTCAATATGATTT-CTTATCATTTTA-GCACACTCAGTGCTCCATA
1 TGGAAATCCTATACACTCAGTATGATTTCCTTATCATTTTAGGCATACT-AGTG--CCATA
*
2565440 TGGAAATCC-ATACACTCAGTATGATTTCCTTATCATTTTA-GCACACTCAGTGCTCCATA
1 TGGAAATCCTATACACTCAGTATGATTTCCTTATCATTTTAGGCATACT-AGTG--CCATA
* * *
2565499 TGGAAAT-CTATACACTCATTATGATTTCCTTATCATTTTA-GCACACTCAGTACTCCATA
1 TGGAAATCCTATACACTCAGTATGATTTCCTTATCATTTTAGGCATACT-AGT--GCCATA
* * *
2565558 TGGAAATCC-ATACACTCAGTATGATATCCTTACCATTTTAGTGCATA-TAGTGCCATT
1 TGGAAATCCTATACACTCAGTATGATTTCCTTATCATTTTAG-GCATACTAGTGCCATA
*
2565615 TGGTAATCACTATACA
1 TGGAAATC-CTATACA
2565631 TACATTAATA
Statistics
Matches: 215, Mismatches: 21, Indels: 26
0.82 0.08 0.10
Matches are distributed among these distances:
56 3 0.01
57 12 0.06
58 42 0.20
59 150 0.70
60 4 0.02
61 4 0.02
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (58 bp):
TGGAAATCCTATACACTCAGTATGATTTCCTTATCATTTTAGGCATACTAGTGCCATA
Found at i:2570607 original size:44 final size:44
Alignment explanation
Indices: 2570476--2570797 Score: 425
Period size: 44 Copynumber: 7.3 Consensus size: 44
2570466 AATTTCTTAT
*
2570476 CAATATACATACCATTTAATT-CATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCA-TT-ATTCCATAAGCTCGTAAGCTTATTTTAC
* * *
2570521 CAATATACTTACCATTAAATCCCTAAGCTCGTAAGCTTATTTTAG
1 CAATATACTTACCATT-ATTCCATAAGCTCGTAAGCTTATTTTAC
2570566 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
* * *
2570610 CAATATACTTACCAATAATCCATAAGCTTGTAAGCTTATTTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
* *
2570654 CCATATACTTACCATTATTCCATAAACTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
* * * * *
2570698 CAATATACTTACCATTAAATCCCTAATCTCGTAAGTTTATTTTAT
1 CAATATACTTACCATT-ATTCCATAAGCTCGTAAGCTTATTTTAC
* * *
2570743 CAATATACTTACTATAAATT-CATTAGCTCGTAAGCTTA-TTTAC
1 CAATATACTTACCAT-TATTCCATAAGCTCGTAAGCTTATTTTAC
2570786 CAATATACTTAC
1 CAATATACTTAC
2570798 TATAATTTCC
Statistics
Matches: 245, Mismatches: 29, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
43 16 0.07
44 139 0.57
45 90 0.37
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.38
Consensus pattern (44 bp):
CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTAC
Found at i:2570668 original size:88 final size:88
Alignment explanation
Indices: 2570476--2570797 Score: 468
Period size: 88 Copynumber: 3.6 Consensus size: 88
2570466 AATTTCTTAT
*
2570476 CAATATACATACCATTTAATTCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTAAAT
1 CAATATACTTACCA-TT-ATTCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTAAAT
*
2570541 CCCTAAGCTCGTAAGCTTATTTTAG
64 CCCTAAGCTCGTAAGCTTATTTTAC
*
2570566 CAATATACTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCAAT-AATC
1 CAATATACTTACCATTATT-CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTAAATC
* *
2570630 CATAAGCTTGTAAGCTTATTTTAC
65 CCTAAGCTCGTAAGCTTATTTTAC
* *
2570654 CCATATACTTACCATTATTCCATAAACTCGTAAGCTTATTTTACCAATATACTTACCATTAAATC
1 CAATATACTTACCATTATT-CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTAAATC
* * *
2570719 CCTAATCTCGTAAGTTTATTTTAT
65 CCTAAGCTCGTAAGCTTATTTTAC
* * *
2570743 CAATATACTTACTATAAATTCATTAGCTCGTAAGCTTA-TTTACCAATATACTTAC
1 CAATATACTTACCAT-TATTCATAAGCTCGTAAGCTTATTTTACCAATATACTTAC
2570798 TATAATTTCC
Statistics
Matches: 211, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
88 102 0.48
89 93 0.44
90 16 0.08
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.38
Consensus pattern (88 bp):
CAATATACTTACCATTATTCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTAAATCC
CTAAGCTCGTAAGCTTATTTTAC
Found at i:2571001 original size:59 final size:61
Alignment explanation
Indices: 2570938--2571073 Score: 161
Period size: 62 Copynumber: 2.2 Consensus size: 61
2570928 TATCATATAC
* *
2570938 TTAATATGATTTCCT-CC-TCATTTTAGCACACGAAGTGCCCTATGCGAGAATCCATACCA
1 TTAATATGATTTCCTACCATCATTTTAGCACACGAAGTGCCCTATACGAAAATCCATACCA
** * * *
2570997 TTAATATGA-TTCCTTTACCATTTTTTTAGCACATGAAGTGCCCTATATGAAAATCCATACTA
1 TTAATATGATTTCC--TACCATCATTTTAGCACACGAAGTGCCCTATACGAAAATCCATACCA
*
2571059 TTAGTATGATTTCCT
1 TTAATATGATTTCCT
2571074 TATCCTTGTA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
58 4 0.06
59 9 0.14
60 1 0.02
61 3 0.05
62 43 0.67
63 4 0.06
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (61 bp):
TTAATATGATTTCCTACCATCATTTTAGCACACGAAGTGCCCTATACGAAAATCCATACCA
Found at i:2571233 original size:117 final size:118
Alignment explanation
Indices: 2571020--2571233 Score: 265
Period size: 117 Copynumber: 1.8 Consensus size: 118
2571010 TTTACCATTT
* * * *
2571020 TTTTAGCACATGAAGTGCCCTATATGAAAATCCATACTATTAGTATGATTTCCTTATCCTTGTAG
1 TTTTAGCACATGAAATGCCCTATATGAAAATCCATACTATTAATATGAGTTCCTTATCATTGTAG
* ***
2571085 CACCCATAGTGCTTTTTATGGAAATCCATACACTCAGTATGTTTCTCTTACCA
66 CACACATAGTGCTCCATATGGAAATCCATACACTCAGTATGTTTCTCTTACCA
* * *
2571138 TTTTAGCACAT-ATAATGCCCTATCTGGAAATCCATA-TATTCAATATGAGTT-CTTATCATTTT
1 TTTTAGCACATGA-AATGCCCTATATGAAAATCCATACTATT-AATATGAGTTCCTTATCATTGT
*
2571200 AGCACAC-TCAGTGCTCCATATGGAAATTCATACA
64 AGCACACAT-AGTGCTCCATATGGAAATCCATACA
2571234 TTCCATAGGA
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
116 1 0.01
117 41 0.51
118 39 0.48
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (118 bp):
TTTTAGCACATGAAATGCCCTATATGAAAATCCATACTATTAATATGAGTTCCTTATCATTGTAG
CACACATAGTGCTCCATATGGAAATCCATACACTCAGTATGTTTCTCTTACCA
Found at i:2571246 original size:20 final size:21
Alignment explanation
Indices: 2571214--2571253 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2571204 CACTCAGTGC
2571214 TCCATATGGAAATTCATACAT
1 TCCATATGGAAATTCATACAT
*
2571235 TCCATA-GGAAATTTATACA
1 TCCATATGGAAATTCATACA
2571254 ATCAGTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (21 bp):
TCCATATGGAAATTCATACAT
Found at i:2571411 original size:61 final size:62
Alignment explanation
Indices: 2571334--2571449 Score: 171
Period size: 61 Copynumber: 1.9 Consensus size: 62
2571324 TTCCTCCTTA
* *
2571334 TTTTAGCACACGAAGTGCCTTATACGAGAATCCATACCATTAGTATGA-TTCCTTTACCATT
1 TTTTAGCACACGAAGTGCCCTATACGAAAATCCATACCATTAGTATGATTTCCTTTACCATT
* * * *
2571395 TTTTAGCATATGAAGTGCCCTATATGAAAATCCATACTATTAGTATGATTTCCTT
1 TTTTAGCACACGAAGTGCCCTATACGAAAATCCATACCATTAGTATGATTTCCTT
2571450 ATCCTTGTGG
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
61 42 0.88
62 6 0.12
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (62 bp):
TTTTAGCACACGAAGTGCCCTATACGAAAATCCATACCATTAGTATGATTTCCTTTACCATT
Found at i:2571569 original size:376 final size:375
Alignment explanation
Indices: 2570848--2571608 Score: 1312
Period size: 375 Copynumber: 2.0 Consensus size: 375
2570838 TCGTTATTGG
* *
2570848 AATCCATACATTCTATAGGAAATTTATACAATTCGTATACTTTCCTTATAATATTAGCACTCTCA
1 AATCCATACATTCCATAGGAAATTTATACAATTCGTATAATTTCCTTATAATATTAGCACTCTCA
2570913 GTGCTCTATCTGGAATATCATATACTTAATATGATTTCCTCCTCATTTTAGCACACGAAGTGCCC
66 GTGCTCTATCTGGAATATCATATACTTAATATGATTTCCTCCTCATTTTAGCACACGAAGTGCCC
*
2570978 TATGCGAGAATCCATACCATTAATATGATTCCTTTACCATTTTTTTAGCACATGAAGTGCCCTAT
131 TATACGAGAATCCATACCATTAATATGATTCCTTTACCATTTTTTTAGCACATGAAGTGCCCTAT
*
2571043 ATGAAAATCCATACTATTAGTATGATTTCCTTATCCTTGTAGCACCCATAGTGCTTTTTATGGAA
196 ATGAAAATCCATACTATTAGTATGATTTCCTTATCCTTGTAGCAACCATAGTGCTTTTTATGGAA
*
2571108 ATCCATACACTCAGTATGTTTCTCTTACCATTTTAGCACATATAATGCCCTATCTGGAAATCCAT
261 ATCCATACACTCAGTATGATTCTCTTACCATTTTAGCACATATAATGCCCTATCTGGAAATCCAT
2571173 ATATTCAATATGAGTTCTTATCATTTTAGCACACTCAGTGCTCCATATGGA
326 ATATTCAATATGAGTTCTTATCATTTTAG-ACACTCAGTGCTCCATATGGA
*
2571224 AATTCATACATTCCATAGGAAATTTATACAA-TCAGTATAATTTCCTTATAATATTAGCACTCTC
1 AATCCATACATTCCATAGGAAATTTATACAATTC-GTATAATTTCCTTATAATATTAGCACTCTC
* *
2571288 AGTTCTCTATCTGGAATATCATATACTTAATATGATTTCCTCCTTATTTTAGCACACGAAGTGCC
65 AGTGCTCTATCTGGAATATCATATACTTAATATGATTTCCTCCTCATTTTAGCACACGAAGTGCC
* * *
2571353 TTATACGAGAATCCATACCATTAGTATGATTCCTTTACCA-TTTTTTAGCATATGAAGTGCCCTA
130 CTATACGAGAATCCATACCATTAATATGATTCCTTTACCATTTTTTTAGCACATGAAGTGCCCTA
* * *
2571417 TATGAAAATCCATACTATTAGTATGATTTCCTTATCCTTGTGGCAACC-TGAGTGTTTTTTCTGG
195 TATGAAAATCCATACTATTAGTATGATTTCCTTATCCTTGTAGCAACCAT-AGTGCTTTTTATGG
2571481 AAATCCATACACTCAGTATGATTCTCTTACCATTTTAGCACATATAATGCCCTATCTGGAAATCC
259 AAATCCATACACTCAGTATGATTCTCTTACCATTTTAGCACATATAATGCCCTATCTGGAAATCC
* * *
2571546 ATATATTCAGTATTATTTTCTTATCATTTTAGACACTCAGTGCTCCATATGGA
324 ATATATTCAATATGA-GTTCTTATCATTTTAGACACTCAGTGCTCCATATGGA
2571599 AATCCATACA
1 AATCCATACA
2571609 CTAAGTATGA
Statistics
Matches: 364, Mismatches: 18, Indels: 7
0.94 0.05 0.02
Matches are distributed among these distances:
374 1 0.00
375 190 0.52
376 173 0.48
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.37
Consensus pattern (375 bp):
AATCCATACATTCCATAGGAAATTTATACAATTCGTATAATTTCCTTATAATATTAGCACTCTCA
GTGCTCTATCTGGAATATCATATACTTAATATGATTTCCTCCTCATTTTAGCACACGAAGTGCCC
TATACGAGAATCCATACCATTAATATGATTCCTTTACCATTTTTTTAGCACATGAAGTGCCCTAT
ATGAAAATCCATACTATTAGTATGATTTCCTTATCCTTGTAGCAACCATAGTGCTTTTTATGGAA
ATCCATACACTCAGTATGATTCTCTTACCATTTTAGCACATATAATGCCCTATCTGGAAATCCAT
ATATTCAATATGAGTTCTTATCATTTTAGACACTCAGTGCTCCATATGGA
Found at i:2571658 original size:117 final size:117
Alignment explanation
Indices: 2571478--2571690 Score: 281
Period size: 117 Copynumber: 1.8 Consensus size: 117
2571468 GTGTTTTTTC
* * *
2571478 TGGAAATCCATACACTCAGTATGATTCTCTTACCATTTTAGCACATATAATGCCCTATCTGGAAA
1 TGGAAATCCATACACTAAGTATGATTCTCTTACCATTTTAGCACATACAATGCCCTATATGGAAA
* * * *
2571543 TCCATAT-ATTCAGTATTATTTTCTTATCATTTTAGACACTCAGTGCTCCATA
66 TCCAT-TCACTCAGTATGATTTCCTTACCATTTTAGACACTCAGTGCTCCATA
* *
2571595 TGGAAATCCATACACTAAGTATGATT-TCTTTATCATTTTAGCACACT-CAGTGCTCC-ATATGG
1 TGGAAATCCATACACTAAGTATGATTCTC-TTACCATTTTAGCACA-TACAATGC-CCTATATGG
2571657 AAATCCATTCACTCAGTATGATTTCCTTACCATT
63 AAATCCATTCACTCAGTATGATTTCCTTACCATT
2571691 ATAGCGCATA
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
116 3 0.04
117 77 0.93
118 3 0.04
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.37
Consensus pattern (117 bp):
TGGAAATCCATACACTAAGTATGATTCTCTTACCATTTTAGCACATACAATGCCCTATATGGAAA
TCCATTCACTCAGTATGATTTCCTTACCATTTTAGACACTCAGTGCTCCATA
Found at i:2571706 original size:59 final size:59
Alignment explanation
Indices: 2571478--2571695 Score: 264
Period size: 59 Copynumber: 3.7 Consensus size: 59
2571468 GTGTTTTTTC
* * *
2571478 TGGAAATCCATACACTCAGTATGA-TTCTCTTACCATTTTAGCACA-TATAATGC-CCTATC
1 TGGAAATCCATACACTCAGTATGATTTC-CTTACCATTTTAGCACACT-CAGTGCTCC-ATA
* * * * *
2571537 TGGAAATCCATATATTCAGTATTATTTTCTTATCATTTTAG-ACACTCAGTGCTCCATA
1 TGGAAATCCATACACTCAGTATGATTTCCTTACCATTTTAGCACACTCAGTGCTCCATA
* * *
2571595 TGGAAATCCATACACTAAGTATGATTTCTTTATCATTTTAGCACACTCAGTGCTCCATA
1 TGGAAATCCATACACTCAGTATGATTTCCTTACCATTTTAGCACACTCAGTGCTCCATA
* *
2571654 TGGAAATCCATTCACTCAGTATGATTTCCTTACCATTATAGC
1 TGGAAATCCATACACTCAGTATGATTTCCTTACCATTTTAGC
2571696 GCATATAGTG
Statistics
Matches: 136, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
58 44 0.32
59 90 0.66
60 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (59 bp):
TGGAAATCCATACACTCAGTATGATTTCCTTACCATTTTAGCACACTCAGTGCTCCATA
Found at i:2573475 original size:24 final size:25
Alignment explanation
Indices: 2573448--2573499 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
2573438 AAGAAAAATC
* *
2573448 AGAAAAG-AAAGTGAAGCACTCAAA
1 AGAAAAGAAAAATCAAGCACTCAAA
*
2573472 AG-AAAGAAAAATCCAGCACTCAAA
1 AGAAAAGAAAAATCAAGCACTCAAA
2573496 AGAA
1 AGAA
2573500 TAAAAAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
23 4 0.17
24 18 0.78
25 1 0.04
ACGTcount: A:0.60, C:0.15, G:0.17, T:0.08
Consensus pattern (25 bp):
AGAAAAGAAAAATCAAGCACTCAAA
Found at i:2573510 original size:14 final size:14
Alignment explanation
Indices: 2573493--2573527 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
2573483 TCCAGCACTC
2573493 AAAAGAATAA-AAAG
1 AAAAGAA-AATAAAG
2573507 AAAAGAAAATAAAG
1 AAAAGAAAATAAAG
2573521 AAAAGAA
1 AAAAGAA
2573528 GTTTAAGCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 2 0.10
14 18 0.90
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (14 bp):
AAAAGAAAATAAAG
Found at i:2579993 original size:31 final size:30
Alignment explanation
Indices: 2579929--2579993 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
2579919 TTACTCTTTG
* *
2579929 TTTAAATTCAATTTTGTTTAAGTGTACAGTT
1 TTTAAAGTCAATTTTGTTTAAATGTACA-TT
2579960 TTTAAAGTCAATTTTTGTTTGAAATGTAC-TT
1 TTTAAAGTCAA-TTTTGTTT-AAATGTACATT
2579991 TTT
1 TTT
2579994 GAGGGGGATG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 15 0.50
32 8 0.27
33 7 0.23
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.54
Consensus pattern (30 bp):
TTTAAAGTCAATTTTGTTTAAATGTACATT
Found at i:2583293 original size:44 final size:44
Alignment explanation
Indices: 2583019--2583298 Score: 380
Period size: 44 Copynumber: 6.4 Consensus size: 44
2583009 GTATGAAAAT
* * *
2583019 GATGCCATAACTAAAATGTATAATGGTGCATTAAGGCATGAAAG
1 GATGCCATAACTGAAATGCATAACGGTGCATTAAGGCATGAAAG
*
2583063 GATGCCATAACTAAAATGCATAACGGTGCATTAAGGCATGAAAG
1 GATGCCATAACTGAAATGCATAACGGTGCATTAAGGCATGAAAG
* * *
2583107 GATGCCATAACTAAAATGCTTAATGGTGCATTAAGGCATGAAAG
1 GATGCCATAACTGAAATGCATAACGGTGCATTAAGGCATGAAAG
* * *
2583151 GATGCCATAAATGAAATGCATAATGGTGCATTAAGTCATGAAAG
1 GATGCCATAACTGAAATGCATAACGGTGCATTAAGGCATGAAAG
* * * *
2583195 GATGACATAACTGAAATGGATAACGGTGTATTAATGCATGAAAG
1 GATGCCATAACTGAAATGCATAACGGTGCATTAAGGCATGAAAG
* * * *
2583239 GATGCCATAAATGAAATGCATAACGGTGCAGTAAGACATGAAAA
1 GATGCCATAACTGAAATGCATAACGGTGCATTAAGGCATGAAAG
* *
2583283 TATGCCATAAATGAAA
1 GATGCCATAACTGAAA
2583299 ATAATAAATA
Statistics
Matches: 212, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 212 1.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (44 bp):
GATGCCATAACTGAAATGCATAACGGTGCATTAAGGCATGAAAG
Found at i:2585660 original size:81 final size:82
Alignment explanation
Indices: 2585448--2585666 Score: 307
Period size: 84 Copynumber: 2.7 Consensus size: 82
2585438 TAGACCAGAG
* * * * *
2585448 TTGATTTGTTCATCTTTCTCGGGTACTCAGATCAATTTTGGAAGACGGGTTTGTTCCACTCTTCT
1 TTGATTTGTTCTTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGATGGGTTTGTTCCACTCTTCT
*
2585513 TTCAGGGGAAATCAGAC
66 TTCAGGGGAAATAAGAC
* *
2585530 TTGATTTGTTCCTTTTTTTTTTGGGTAGTCAGATTAATTTTGGAAGATGGGTTTGTTCCACTCTT
1 TTGATTTGTT-C-TTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGATGGGTTTGTTCCACTCTT
* *
2585595 CTTTCA-TGGAGATAAGAC
64 CTTTCAGGGGAAATAAGAC
*
2585613 TTGATATGTTCTTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGAT-GGTTTGTT
1 TTGATTTGTTCTTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGATGGGTTTGTT
2585667 GAGTTAATCG
Statistics
Matches: 122, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
80 8 0.07
81 33 0.27
82 11 0.09
83 19 0.16
84 51 0.42
ACGTcount: A:0.20, C:0.14, G:0.22, T:0.44
Consensus pattern (82 bp):
TTGATTTGTTCTTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGATGGGTTTGTTCCACTCTTCT
TTCAGGGGAAATAAGAC
Found at i:2586502 original size:21 final size:21
Alignment explanation
Indices: 2586439--2586513 Score: 107
Period size: 23 Copynumber: 3.4 Consensus size: 21
2586429 AACCATTCAG
2586439 GGGGGAATCGGTACCGCCTTGT
1 GGGGGAATCGGTACC-CCTTGT
2586461 GGGGGAATCGGTACCCCCCTTGT
1 GGGGGAATCGGTA--CCCCTTGT
2586484 GGGGGAATCGGTACCCCTTG-
1 GGGGGAATCGGTACCCCTTGT
2586504 GGAGGGAATC
1 GG-GGGAATC
2586514 AATTCCCTCT
Statistics
Matches: 50, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
20 2 0.04
21 14 0.28
22 13 0.26
23 19 0.38
24 2 0.04
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (21 bp):
GGGGGAATCGGTACCCCTTGT
Found at i:2589054 original size:24 final size:23
Alignment explanation
Indices: 2589002--2589047 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
2588992 CGATTCCCTT
*
2589002 AAGGGGGAATCGGTTCCCATTCA
1 AAGGGGGAATCAGTTCCCATTCA
*
2589025 AAGGGGGAATCAGTTCCCCTTCA
1 AAGGGGGAATCAGTTCCCATTCA
2589048 TCGGGGGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (23 bp):
AAGGGGGAATCAGTTCCCATTCA
Found at i:2589064 original size:23 final size:22
Alignment explanation
Indices: 2588985--2589064 Score: 67
Period size: 23 Copynumber: 3.6 Consensus size: 22
2588975 GAACCCTTGT
*
2588985 GGGGTATCGATT-CCCTT-AAG
1 GGGGAATCGATTCCCCTTCAAG
* *
2589005 GGGGAATCGGTTCCCATTCAAAG
1 GGGGAATCGATTCCCCTTC-AAG
*
2589028 GGGGAATC-AGTTCCCCTTCATCG
1 GGGGAATCGA-TTCCCCTTCA-AG
*
2589051 GGGGTATCGATTCC
1 GGGGAATCGATTCC
2589065 TTCTGCCCTA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
20 10 0.21
21 4 0.09
22 1 0.02
23 31 0.66
24 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.26
Consensus pattern (22 bp):
GGGGAATCGATTCCCCTTCAAG
Found at i:2595260 original size:81 final size:81
Alignment explanation
Indices: 2595158--2595862 Score: 755
Period size: 81 Copynumber: 8.7 Consensus size: 81
2595148 TTCAACATGG
* *
2595158 GTCTGCTCCACTATTCTTTTAGGGAGATAAGACTTGATTTGTTCCTCTTTTTCGGGTAGTCATAT
1 GTCTGCTCCACTCTTCTTTTAGGGAGATAAGACTTGATTTGTTCCTCTTTTTCAGGTAGTCATAT
*
2595223 CAATTTTAGAAGACGA
66 CAATTTTGGAAGACGA
* * *
2595239 GTCTCCTCCACTCTTCTTTTAGGGAGATAAGACTTGATATGTTCCTCTATTTT-GGGTAGTCATA
1 GTCTGCTCCACTCTTCTTTTAGGGAGATAAGACTTGATTTGTTCCTCT-TTTTCAGGTAGTCATA
* * *
2595303 TCAATTTCGGAAGATGG
65 TCAATTTTGGAAGACGA
* * * * * *
2595320 GTTTGTTTCACTCTTCTTTTAGGGAAATAAGACTTTATATGTTCCTCTTTCTT-AGGTAGTCA-A
1 GTCTGCTCCACTCTTCTTTTAGGGAGATAAGACTTGATTTGTTCCTCTTT-TTCAGGTAGTCATA
2595383 CTCAATTTTGGAAGACGA
65 -TCAATTTTGGAAGACGA
* * * * *
2595401 GTATGCTCCACTCTTCTTTTAGGGAGATAAGACTTGATATGTTCCTCTTTCTAAGGTAGTCAGAT
1 GTCTGCTCCACTCTTCTTTTAGGGAGATAAGACTTGATTTGTTCCTCTTTTTCAGGTAGTCATAT
2595466 CAATTTTGGAAGACGA
66 CAATTTTGGAAGACGA
* * * * *
2595482 GTCAGCTCCACTGTTCTTTCAGGGAAATAAGACTTGATTTGTTCCTCTTTTTCGGGTAGTCATAT
1 GTCTGCTCCACTCTTCTTTTAGGGAGATAAGACTTGATTTGTTCCTCTTTTTCAGGTAGTCATAT
2595547 CAATTTTGGAAGACG-
66 CAATTTTGGAAGACGA
* * * * **
2595562 GATATGCTCCATTCTTCTTTCA-GGTGATAAGACTTGATTTGTTCCTCTTTTTCAGGTAGTCGGA
1 G-TCTGCTCCACTCTTCTTTTAGGGAGATAAGACTTGATTTGTTCCTCTTTTTCAGGTAGTCATA
2595626 TCAATTTTGGAAGACCG-
65 TCAATTTTGGAAGA-CGA
** * * * * * * *
2595643 GTCTAATCCACTATTCTTTCAAGGG-GATAAGACTTGATTCGTTCCCCTTTTCCGGGTAGTCAGA
1 GTCTGCTCCACTCTTCTTT-TAGGGAGATAAGACTTGATTTGTTCCTCTTTTTCAGGTAGTCATA
* * *
2595707 TCAATTTAGGAAGAAGG
65 TCAATTTTGGAAGACGA
* * * * *
2595724 GTCTAAC-CCACTATTC-TTTAAGGAGGATAAGATTTGATTCGTTCCTCTTTTTCAGGTAGTC-T
1 GTCT-GCTCCACTCTTCTTTTAGGGA-GATAAGACTTGATTTGTTCCTCTTTTTCAGGTAGTCAT
*
2595786 GATCAATTTTGGAAGACGG
64 -ATCAATTTTGGAAGACGA
* * * * * *
2595805 GTCTACTCAACTCTTCTTTCAGGGTAGATTAGACTTGATATGTTTCTCTTTTTCAGGT
1 GTCTGCTCCACTCTTCTTTTAGGG-AGATAAGACTTGATTTGTTCCTCTTTTTCAGGT
2595863 TTTTGAATTG
Statistics
Matches: 533, Mismatches: 74, Indels: 33
0.83 0.12 0.05
Matches are distributed among these distances:
79 3 0.01
80 74 0.14
81 415 0.78
82 40 0.08
83 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.38
Consensus pattern (81 bp):
GTCTGCTCCACTCTTCTTTTAGGGAGATAAGACTTGATTTGTTCCTCTTTTTCAGGTAGTCATAT
CAATTTTGGAAGACGA
Found at i:2595770 original size:242 final size:241
Alignment explanation
Indices: 2595164--2595862 Score: 794
Period size: 242 Copynumber: 2.9 Consensus size: 241
2595154 ATGGGTCTGC
* *
2595164 TCCACTATTCTTTTAGGGAGATAAGACTTGATTTGTTCCTCTTTTTCGGGTAGTCATATCAATTT
1 TCCACTATTCTTTTAGGGAGATAAGACTTGA-TTGTTCCTCTTTTCCGGGTAGTCAGATCAA-TT
* * *
2595229 TA-GAAGACGAGTCT-CCTCCACTCTTCTTTTAGGGAGATAAGACTTGATATGTTCCTCTATTTT
64 TAGGAAGACGAGTCTAACTCCACTATTCTTTAAGGGAGATAAGACTTGAT-TGTTCCTCT-TTTT
* * * * * *
2595292 -GGGTAGTCATATCAATTTCGGAAGATGGGTTTGTTTCACTCTTCTTTTAGG-GAAATAAGACTT
127 CGGGTAGTCATATCAATTTTGGAAGACGGGTATGCTCCACTCTTCTTTCAGGTG--ATAAGACTT
* **
2595355 TATATGTTCCTCTTTCTT-AGGTAGTCAACTCAATTTTGGAAGACGAGTATGC
190 GATATGTTCCTCTTT-TTCAGGTAGTCAACTCAATTTTGGAAGACGAGTATAA
* **
2595407 TCCACTCTTCTTTTAGGGAGATAAGACTTGATATGTTCCTC-TTTCTAAGGTAGTCAGATCAATT
1 TCCACTATTCTTTTAGGGAGATAAGACTTGAT-TGTTCCTCTTTTC-CGGGTAGTCAGATCAATT
* * * * *
2595471 TTGGAAGACGAGTC-AGCTCCACTGTTCTTTCAGGGAAATAAGACTTGATTTGTTCCTCTTTTTC
64 TAGGAAGACGAGTCTAACTCCACTATTCTTTAAGGGAGATAAGACTTGA-TTGTTCCTCTTTTTC
* *
2595535 GGGTAGTCATATCAATTTTGGAAGACGGATATGCTCCATTCTTCTTTCAGGTGATAAGACTTGAT
128 GGGTAGTCATATCAATTTTGGAAGACGGGTATGCTCCACTCTTCTTTCAGGTGATAAGACTTGAT
* * *
2595600 TTGTTCCTCTTTTTCAGGTAGTCGGA-TCAATTTTGGAAGACCG-GTCTAA
193 ATGTTCCTCTTTTTCAGGTAGTC-AACTCAATTTTGGAAGA-CGAGTATAA
* *
2595649 TCCACTATTCTTTCAAGGG-GATAAGACTTGATTCGTTCCCCTTTTCCGGGTAGTCAGATCAATT
1 TCCACTATTCTTT-TAGGGAGATAAGACTTGATT-GTTCCTCTTTTCCGGGTAGTCAGATCAATT
* * *
2595713 TAGGAAGAAGGGTCTAAC-CCACTATTCTTTAA-GGAGGATAAGATTTGATTCGTTCCTCTTTTT
64 TAGGAAGACGAGTCTAACTCCACTATTCTTTAAGGGA-GATAAGACTTGATT-GTTCCTCTTTTT
* * * * *
2595776 CAGGTAGTC-TGATCAATTTTGGAAGACGGGTCTACTCAACTCTTCTTTCAGGGTAGATTAGACT
127 CGGGTAGTCAT-ATCAATTTTGGAAGACGGGTATGCTCCACTCTTCTTTCA-GGT-GATAAGACT
*
2595840 TGATATGTTTCTCTTTTTCAGGT
189 TGATATGTTCCTCTTTTTCAGGT
2595863 TTTTGAATTG
Statistics
Matches: 391, Mismatches: 46, Indels: 37
0.82 0.10 0.08
Matches are distributed among these distances:
241 9 0.02
242 192 0.49
243 159 0.41
244 31 0.08
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (241 bp):
TCCACTATTCTTTTAGGGAGATAAGACTTGATTGTTCCTCTTTTCCGGGTAGTCAGATCAATTTA
GGAAGACGAGTCTAACTCCACTATTCTTTAAGGGAGATAAGACTTGATTGTTCCTCTTTTTCGGG
TAGTCATATCAATTTTGGAAGACGGGTATGCTCCACTCTTCTTTCAGGTGATAAGACTTGATATG
TTCCTCTTTTTCAGGTAGTCAACTCAATTTTGGAAGACGAGTATAA
Found at i:2608377 original size:59 final size:59
Alignment explanation
Indices: 2608282--2608402 Score: 154
Period size: 59 Copynumber: 2.1 Consensus size: 59
2608272 GGAGGGTTGG
* * * * ** *
2608282 TTAGAGCCATATTATAGAGTTTTCCTTTTTATTGCGACTAGGAGGGTTTTATATGACAC
1 TTAGAGCCATAATATAGAGTCTTCCTTTTTAATGCGACTAGGAAGGTTCGATAGGACAC
*
2608341 TTAGAGCCATAATATAGAG-CTTGCTTTTTCAATGCGACTAGGAAGGTTCGATAGGACAC
1 TTAGAGCCATAATATAGAGTCTTCCTTTTT-AATGCGACTAGGAAGGTTCGATAGGACAC
2608400 TTA
1 TTA
2608403 TCCATCTATT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 8 0.15
59 45 0.85
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (59 bp):
TTAGAGCCATAATATAGAGTCTTCCTTTTTAATGCGACTAGGAAGGTTCGATAGGACAC
Found at i:2610180 original size:54 final size:54
Alignment explanation
Indices: 2610122--2610535 Score: 521
Period size: 54 Copynumber: 7.7 Consensus size: 54
2610112 TCATGATATA
* *
2610122 AGTTTATGAATTTTCGTATTGGCACTATGTGTGAAACTTAAGAAATTTATAATG
1 AGTTTATGAATTTTCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATG
*
2610176 AGTTTATGAATTTTCGTATTGGAACTATGTGTGCAACTTACA-AAATTCATAATG
1 AGTTTATGAATTTTCGTATTGGCACTATGTGTGCAACTTA-AGAAATTCATAATG
* * * * *
2610230 AGTTTATGAATTTCCATATTGACACTATGTGTGAAACTTAATAAATTCATAATG
1 AGTTTATGAATTTTCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATG
* * *
2610284 AGTTTAT-AAATTTCTGTATTGGCACCATATGTGCAACTTAAGAAATTCATAATG
1 AGTTTATGAATTTTC-GTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATG
* ** *
2610338 AGTTTATGAATTTTCGTACTGAAACTATGTGTGCAACTTAAGAAATTCATAAAG
1 AGTTTATGAATTTTCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATG
* * * * *
2610392 AGTTTATGAATTTCCGTTTTGGCTCTATATGTGCAACTTAAGAAATTTATAATG
1 AGTTTATGAATTTTCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATG
* * * * *
2610446 AGTTTAT-AAATTTCTGTATTGGCACTATGTATGCAAATTAAAAAATTCATAATA
1 AGTTTATGAATTTTC-GTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATG
**
2610500 AGTTTATGAA-TTTCTGTATTGGCACTGGGTGTGCAA
1 AGTTTATGAATTTTC-GTATTGGCACTATGTGTGCAA
2610536 ACTACTTAAT
Statistics
Matches: 309, Mismatches: 45, Indels: 12
0.84 0.12 0.03
Matches are distributed among these distances:
53 11 0.04
54 289 0.94
55 9 0.03
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (54 bp):
AGTTTATGAATTTTCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATG
Found at i:2610590 original size:162 final size:160
Alignment explanation
Indices: 2610122--2610608 Score: 515
Period size: 162 Copynumber: 3.0 Consensus size: 160
2610112 TCATGATATA
* *
2610122 AGTTTATGAATTT-TCGTATTGGCACTATGTGTG-AAACTTAAGAAATTTATAATGAGTTTATGA
1 AGTTTATAAATTTCT-GTATTGGCACTATGTGTGCAAA-TTAAGAAATTCATAATGAGTTTATGA
* * *
2610185 ATTTTCGTATTGGAACTATGTGTGCAACTTACAAAATTCATAATGAGTTTATGAATTTCCATATT
64 ATTTTCGTATTGGAACTATGTGTGCAACTTACAAAATTCAT-ATAAATTTATGAATTTCCGTATT
* * * * *
2610250 GACAC-TATGTGTGAAACTTAATAAATTCATAATG
128 GGC-CTTAAG-GTGCAACTTAAGAAATTTATAATG
* * *
2610284 AGTTTATAAATTTCTGTATTGGCACCATATGTGCAACTTAAGAAATTCATAATGAGTTTATGAAT
1 AGTTTATAAATTTCTGTATTGGCACTATGTGTGCAAATTAAGAAATTCATAATGAGTTTATGAAT
* * *
2610349 TTTCGTACTGAAACTATGTGTGCAACTTA-AGAAATTCATA-AAGAGTTTATGAATTTCCGTTTT
66 TTTCGTATTGGAACTATGTGTGCAACTTACA-AAATTCATATAA-A-TTTATGAATTTCCGTATT
*
2610412 GG-CTCTATATGTGCAACTTAAGAAATTTATAATG
128 GGCCT-TA-AGGTGCAACTTAAGAAATTTATAATG
* * *
2610446 AGTTTATAAATTTCTGTATTGGCACTATGTATGCAAATTAAAAAATTCATAATAAGTTTATGAA-
1 AGTTTATAAATTTCTGTATTGGCACTATGTGTGCAAATTAAGAAATTCATAATGAGTTTATGAAT
* ** ** * *
2610510 TTTCTGTATTGGCACTGGGTGTGCAAAC-TACTTAATTTATAGTAAATTTGTGAATTTCCGTATT
66 TTTC-GTATTGGAACTATGTGTGC-AACTTACAAAATTCATA-TAAATTTATGAATTTCCGTATT
* *
2610574 GGCCTTACAGGTGCAACCTATAG-AGTTTATAATG
128 GGCCTTA-AGGTGCAACTTA-AGAAATTTATAATG
2610608 A
1 A
2610609 ATTAAAATAG
Statistics
Matches: 273, Mismatches: 37, Indels: 30
0.80 0.11 0.09
Matches are distributed among these distances:
160 2 0.01
161 6 0.02
162 252 0.92
163 11 0.04
164 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (160 bp):
AGTTTATAAATTTCTGTATTGGCACTATGTGTGCAAATTAAGAAATTCATAATGAGTTTATGAAT
TTTCGTATTGGAACTATGTGTGCAACTTACAAAATTCATATAAATTTATGAATTTCCGTATTGGC
CTTAAGGTGCAACTTAAGAAATTTATAATG
Found at i:2616568 original size:20 final size:20
Alignment explanation
Indices: 2616543--2616592 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
2616533 TACTGAGGTG
2616543 GGTATCGATACTATAAGGAA
1 GGTATCGATACTATAAGGAA
2616563 GGTATCGATACTATAAGGAA
1 GGTATCGATACTATAAGGAA
2616583 GGTATCGATA
1 GGTATCGATA
2616593 TCATTGATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (20 bp):
GGTATCGATACTATAAGGAA
Found at i:2616646 original size:19 final size:19
Alignment explanation
Indices: 2616618--2616684 Score: 125
Period size: 19 Copynumber: 3.5 Consensus size: 19
2616608 TACATAAATG
*
2616618 GTATCAATACTATAATAGA
1 GTATCGATACTATAATAGA
2616637 GTATCGATACTATAATAGA
1 GTATCGATACTATAATAGA
2616656 GTATCGATACTATAATAGA
1 GTATCGATACTATAATAGA
2616675 GTATCGATAC
1 GTATCGATAC
2616685 CATTGTATAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 47 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (19 bp):
GTATCGATACTATAATAGA
Found at i:2617230 original size:54 final size:54
Alignment explanation
Indices: 2617144--2617588 Score: 653
Period size: 54 Copynumber: 8.2 Consensus size: 54
2617134 ACCGAATGGT
* *
2617144 ACTACGTGTGTAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGC
1 ACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGC
* * * * *
2617198 ACTATGTGTGCAATTTAAGAAAATT-ATAATGAGTTTGTTAATTTCCGTATTCGC
1 ACTATGTGTGCAACTTAAG-AAATTCATAATGAGTTTATGAATTTTCGTATTGGC
* * *
2617252 ACTATGTGTGCAACTTAAGAAATTCGTAATGAGTTTATGAATTTCCATATTGGC
1 ACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGC
*
2617306 ACTATGTGTGCAACTTAAGAAATTCATAACGAGTTTATGAATTTTCGTATTGGC
1 ACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGC
* *
2617360 ACTATGTGTACAACTTAAGAAATTCATAAGGAGTTTATGAATTTTCGTATTGGC
1 ACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGC
* * *
2617414 ACAATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTACATATTGGC
1 ACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGC
*
2617468 ACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTTGTATTGGC
1 ACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGC
* *
2617522 ACTATGT-TAGCAACTTAAGAAATTCATAATAAGTTTTTGAA-TTTCTGTATTGGC
1 ACTATGTGT-GCAACTTAAGAAATTCATAATGAGTTTATGAATTTTC-GTATTGGC
**
2617576 ACTGGGTGTGCAA
1 ACTATGTGTGCAA
2617589 ACTACTTAAT
Statistics
Matches: 353, Mismatches: 33, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
53 9 0.03
54 338 0.96
55 6 0.02
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (54 bp):
ACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGC
Found at i:2624139 original size:84 final size:85
Alignment explanation
Indices: 2624031--2624188 Score: 248
Period size: 84 Copynumber: 1.9 Consensus size: 85
2624021 ACAATTTTAT
* * * *
2624031 TGACAGATAGCCCTTCTTGCCTTGAGTTATGTTGTAAATGATGT-TCCTT-ATAGCTGAGCATAG
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTTGA-AGCTGAGCATAA
2624094 TCGAACTCGAAGGTCTTTTGG
65 TCGAACTCGAAGGTCTTTTGG
*
2624115 TGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTTGAAGCTGAGTATAAT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTTGAAGCTGAGCATAAT
2624180 CGAACTCGA
66 CGAACTCGA
2624189 GGGTTTGGTG
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
84 42 0.63
85 24 0.36
86 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (85 bp):
TGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTTGAAGCTGAGCATAAT
CGAACTCGAAGGTCTTTTGG
Found at i:2624250 original size:39 final size:38
Alignment explanation
Indices: 2624196--2624272 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 38
2624186 CGAGGGTTTG
*
2624196 GTGTTTCAAGAGAAACATTTTCAAAGGTTTTTTGTGTGT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTT-TGTGT
* *
2624235 GTGTTTCAAGAGAAACAATTTCGAGGGTTTTTTTGTGT
1 GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTGTGT
2624273 TTCAAGAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
38 5 0.14
39 30 0.86
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.43
Consensus pattern (38 bp):
GTGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTGTGT
Found at i:2624364 original size:37 final size:36
Alignment explanation
Indices: 2624271--2624386 Score: 128
Period size: 36 Copynumber: 3.2 Consensus size: 36
2624261 GTTTTTTTGT
* * * *
2624271 GTTTCAAGAGAAACTGTCTCAAAAGGGACAAAATTT
1 GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTA
*
2624307 GTTTCAAAATAAACTGTCTCAAGAGAGACAAAACTTA
1 GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAA-TTA
* *
2624344 G-TTCTAAAAGAAACTGTCTCAAGGGAGACGAAATTTA
1 GTTTC-AAAAGAAACTGTCTCAAGAGAGAC-AAAATTA
2624381 -TTTCAA
1 GTTTCAA
2624387 GGAAAATATA
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
36 34 0.50
37 31 0.46
38 3 0.04
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (36 bp):
GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTA
Found at i:2624588 original size:37 final size:37
Alignment explanation
Indices: 2624532--2624720 Score: 123
Period size: 37 Copynumber: 5.4 Consensus size: 37
2624522 TCAAGGTTTA
* *
2624532 TGTTTCAAGAGAAATTATCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTT
*
2624569 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTT
** * * * *
2624605 AATTTCAAAGGAAA-TGTTTTCAA---TG------TTT
1 TGTTTCAAGGGAAACT-ATCTCAAGGGAGACAAAATTT
*
2624633 ATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTT
* * * * *
2624671 TGTTTTAAGGGAAACTACCCCAAGCGAGATAAAA-TT
1 TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTT
* *
2624707 TATTTAAAGGGAAA
1 TGTTTCAAGGGAAA
2624721 TGTTTTCAAT
Statistics
Matches: 115, Mismatches: 24, Indels: 27
0.69 0.14 0.16
Matches are distributed among these distances:
28 2 0.02
29 15 0.13
30 1 0.01
32 1 0.01
33 1 0.01
35 1 0.01
36 32 0.28
37 59 0.51
38 3 0.03
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.29
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTT
Found at i:2624633 original size:102 final size:102
Alignment explanation
Indices: 2624509--2624744 Score: 375
Period size: 102 Copynumber: 2.3 Consensus size: 102
2624499 TTTGTGTTTT
* * *
2624509 AAGGGAAACGTTTTCAAGGTTTATGTTTCAAGAGAAATTATCTCAAGGGAGACAAAATTTTGTTT
1 AAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTT
* *
2624574 CAAGGGAAACTATCTCAAGAGAGACAAAATTAATTTCA
66 CAAGGGAAACTACCCCAAGAGAGACAAAATTAATTT-A
2624612 AA-GGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTT
1 AAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTT
* * * *
2624676 TAAGGGAAACTACCCCAAGCGAGATAAAATTTATTTA
66 CAAGGGAAACTACCCCAAGAGAGACAAAATTAATTTA
2624713 AAGGGAAATGTTTTCAATGTTTATGTTTCAAG
1 AAGGGAAATGTTTTCAATGTTTATGTTTCAAG
2624745 GGAGACAAAA
Statistics
Matches: 123, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
101 3 0.02
102 118 0.96
103 2 0.02
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (102 bp):
AAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTT
CAAGGGAAACTACCCCAAGAGAGACAAAATTAATTTA
Found at i:2624786 original size:87 final size:87
Alignment explanation
Indices: 2624653--2624831 Score: 277
Period size: 87 Copynumber: 2.1 Consensus size: 87
2624643 AGAAACTATC
* * * *
2624653 TCAAGGGAGACAAAATTTTGTTTTAAGGGAAACTACCCCAAGCGAGATAAAATTTATTTAAAGGG
1 TCAAGGGAGACAAAATTTCGTTTCAAAGGAAACTACCCCAAGCGAGATAAAATTCATTTAAAGGG
*
2624718 AAATGTTTTCAATGTTTATGTT
66 AAATGTTTTCAATGTATATGTT
* * * *
2624740 TCAAGGGAGACAAAATTTCGTTTCAAAGGAAACTATCTCAATCGAGATAAAATTCATTTCAAGGG
1 TCAAGGGAGACAAAATTTCGTTTCAAAGGAAACTACCCCAAGCGAGATAAAATTCATTTAAAGGG
2624805 AAATGTTTTCAATGTATATGTT
66 AAATGTTTTCAATGTATATGTT
2624827 TCAAG
1 TCAAG
2624832 AGAAACTATC
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 83 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.32
Consensus pattern (87 bp):
TCAAGGGAGACAAAATTTCGTTTCAAAGGAAACTACCCCAAGCGAGATAAAATTCATTTAAAGGG
AAATGTTTTCAATGTATATGTT
Found at i:2624933 original size:189 final size:188
Alignment explanation
Indices: 2624546--2624936 Score: 464
Period size: 189 Copynumber: 2.1 Consensus size: 188
2624536 TCAAGAGAAA
* * *
2624546 TTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTAATTTC
1 TTATTTCAAGGGAGACAAAATTTCGTTTCAAAGGAAACTATCTCAAGAGAGACAAAATTAATTTC
* * *
2624611 AAAGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTT
66 AAAGGAAATGTTTTCAATGTATATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTAGTTC
* ** * ** ** * *
2624676 TAAGGGAAACTACCCCAAGCGAGATAAAATTTATTTAAAGGGAAATGTTTTCAATGTT
131 CAAAAGAAAATACCCCAAGCGAGATAAAATTTATTTAAAGAAAAACATATTCAATATT
* ** * *
2624734 TATGTTTCAAGGGAGACAAAATTTCGTTTCAAAGGAAACTATCTCAATCGAGATAAAATTCATTT
1 T-TATTTCAAGGGAGACAAAATTTCGTTTCAAAGGAAACTATCTCAAGAGAGACAAAATTAATTT
* *
2624799 CAAGGGAAATGTTTTCAATGTATATGTTTCAAGAGAAACTATCTCAAGGGAGGCAAAATTTAGTT
65 CAAAGGAAATGTTTTCAATGTATATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTAGTT
** * * *
2624864 CCAAAAGAAAATGTCTCAAG-G-GATACGAAA-TTAGTTTCAATAAAAACATATTCAAATATT
130 CCAAAAGAAAATACCCCAAGCGAGATA--AAATTTA-TTTAAAGAAAAACATATTC-AATATT
2624924 TTATTTCAAGGGA
1 TTATTTCAAGGGA
2624937 AACTTTGAAA
Statistics
Matches: 169, Mismatches: 29, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
187 4 0.02
188 5 0.03
189 154 0.91
190 6 0.04
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (188 bp):
TTATTTCAAGGGAGACAAAATTTCGTTTCAAAGGAAACTATCTCAAGAGAGACAAAATTAATTTC
AAAGGAAATGTTTTCAATGTATATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTAGTTC
CAAAAGAAAATACCCCAAGCGAGATAAAATTTATTTAAAGAAAAACATATTCAATATT
Found at i:2625860 original size:32 final size:32
Alignment explanation
Indices: 2625743--2625862 Score: 111
Period size: 32 Copynumber: 3.8 Consensus size: 32
2625733 TTTGCATCAG
* * *
2625743 GATGTTGAAT-TCCCAAAGATGCCCCAATATTC
1 GATGTTGAATCT-TCAAAGATGCCCCAACATTT
* * *
2625775 GATGTTCG-ATC-TCAAAAATTCCCCAGCATTT
1 GATGTT-GAATCTTCAAAGATGCCCCAACATTT
* ** *
2625806 GATGTTAAATCTAAAAATATGCCCCAACATTT
1 GATGTTGAATCTTCAAAGATGCCCCAACATTT
2625838 GATGTTGAATCTTCAAAGATGCCCC
1 GATGTTGAATCTTCAAAGATGCCCC
2625863 CATTGTTCCT
Statistics
Matches: 68, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
31 23 0.34
32 44 0.65
33 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (32 bp):
GATGTTGAATCTTCAAAGATGCCCCAACATTT
Found at i:2627013 original size:11 final size:12
Alignment explanation
Indices: 2626999--2627053 Score: 51
Period size: 13 Copynumber: 4.6 Consensus size: 12
2626989 CAATTTTCCC
2626999 TTTTTCTCTCTT
1 TTTTTCTCTCTT
*
2627011 TTTATTTTCTCTT
1 TTT-TTCTCTCTT
*
2627024 TGTTTTTTCTC-T
1 T-TTTTCTCTCTT
2627036 TTTTTCTCT-TT
1 TTTTTCTCTCTT
*
2627047 TTGTTCT
1 TTTTTCT
2627054 GATTGAATCT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
11 14 0.38
12 5 0.14
13 16 0.43
14 2 0.05
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.76
Consensus pattern (12 bp):
TTTTTCTCTCTT
Found at i:2627023 original size:13 final size:12
Alignment explanation
Indices: 2626999--2627040 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
2626989 CAATTTTCCC
*
2626999 TTTTTCTCTCTT
1 TTTTTTTCTCTT
2627011 TTTATTTTCTCTT
1 TTT-TTTTCTCTT
2627024 TGTTTTTTCTCTT
1 T-TTTTTTCTCTT
2627037 TTTT
1 TTTT
2627041 CTCTTTTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 6 0.22
13 19 0.70
14 2 0.07
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (12 bp):
TTTTTTTCTCTT
Found at i:2634112 original size:45 final size:45
Alignment explanation
Indices: 2634048--2634163 Score: 135
Period size: 45 Copynumber: 2.6 Consensus size: 45
2634038 ATATTTTATG
* * *
2634048 CTATATGATATTGATCTATGTGATTACATGAAAAGGTGATATAAC
1 CTATGTGACATTGACCTATGTGATTACATGAAAAGGTGATATAAC
* * * *
2634093 CTATGTGGCATTGACCTATGTGATTACATGAAAATGTGATGTAAG
1 CTATGTGACATTGACCTATGTGATTACATGAAAAGGTGATATAAC
* *
2634138 TTATGTGACAATG-CGCTATGTGATTA
1 CTATGTGACATTGAC-CTATGTGATTA
2634164 TATGTTATGT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 1 0.02
45 59 0.98
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (45 bp):
CTATGTGACATTGACCTATGTGATTACATGAAAAGGTGATATAAC
Found at i:2634300 original size:23 final size:23
Alignment explanation
Indices: 2634274--2634366 Score: 73
Period size: 23 Copynumber: 4.0 Consensus size: 23
2634264 GTTCTACGCA
*
2634274 GTCCTTCGGGATAATTATACGTG
1 GTCCTTCGAGATAATTATACGTG
* * * *
2634297 GTCCTTCGGGACATTTGTACGAT-
1 GTCCTTCGAGATAATTATACG-TG
*
2634320 GTCCTTCGAGATAA-TACTATGTG
1 GTCCTTCGAGATAATTA-TACGTG
* * *
2634343 GTCCTTTGAGATATTTCTACGTG
1 GTCCTTCGAGATAATTATACGTG
2634366 G
1 G
2634367 AACTTCAGTG
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
22 2 0.04
23 50 0.93
24 2 0.04
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (23 bp):
GTCCTTCGAGATAATTATACGTG
Found at i:2635961 original size:48 final size:49
Alignment explanation
Indices: 2635832--2636053 Score: 290
Period size: 49 Copynumber: 4.6 Consensus size: 49
2635822 GAGAGTCATG
* * *
2635832 GGTGCATTTCGGCATAAAAGGTGCCACTAATAAAAGTTAAATACAT-AC
1 GGTGTATTTCGGCATAAAAGGTGCCACTAATGAAAGTTAAATGCATAAC
* * *
2635880 TGGTGTATTTAGGCATAAAAGGTGTCACTAATGAAAGTTAAATGTATAAC
1 -GGTGTATTTCGGCATAAAAGGTGCCACTAATGAAAGTTAAATGCATAAC
* * *
2635930 GATGTAATTCGACAT-AAAGGTGCCACTAATGAAAGTTAAATGCATAAC
1 GGTGTATTTCGGCATAAAAGGTGCCACTAATGAAAGTTAAATGCATAAC
*
2635978 GGT-TATTTCGGCAT-AAAGGATGCCACTAATGAAATTTAAATGCATAAC
1 GGTGTATTTCGGCATAAAAGG-TGCCACTAATGAAAGTTAAATGCATAAC
* *
2636026 GGTGCATTTCAGCATAAAAGGTGCCACT
1 GGTGTATTTCGGCATAAAAGGTGCCACT
2636054 CATGGTATTC
Statistics
Matches: 151, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
47 14 0.09
48 63 0.42
49 67 0.44
50 7 0.05
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (49 bp):
GGTGTATTTCGGCATAAAAGGTGCCACTAATGAAAGTTAAATGCATAAC
Found at i:2637210 original size:12 final size:12
Alignment explanation
Indices: 2637188--2637213 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2637178 TTGAATTTCG
2637188 TTAATTATTTTA
1 TTAATTATTTTA
2637200 TTAATTATTTTA
1 TTAATTATTTTA
2637212 TT
1 TT
2637214 TAAGGATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTAATTATTTTA
Found at i:2643939 original size:12 final size:12
Alignment explanation
Indices: 2643907--2643945 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
2643897 GGAAGTCAAC
2643907 GGTCAACGGTCG
1 GGTCAACGGTCG
*
2643919 GGTC--GGGTCG
1 GGTCAACGGTCG
2643929 GGTCAACGGTCG
1 GGTCAACGGTCG
2643941 GGTCA
1 GGTCA
2643946 GACCGGTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 9 0.39
12 14 0.61
ACGTcount: A:0.13, C:0.23, G:0.46, T:0.18
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:2651259 original size:22 final size:22
Alignment explanation
Indices: 2651231--2651273 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2651221 AGAAGTCAAC
2651231 GGTCAACGATCGGGTCGGGTCG
1 GGTCAACGATCGGGTCGGGTCG
*
2651253 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGATCGGGTCGGGTC
2651274 AGACCGGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.12, C:0.23, G:0.47, T:0.19
Consensus pattern (22 bp):
GGTCAACGATCGGGTCGGGTCG
Found at i:2657216 original size:137 final size:138
Alignment explanation
Indices: 2656953--2657493 Score: 673
Period size: 138 Copynumber: 3.9 Consensus size: 138
2656943 CAAATTATAA
* * * *
2656953 CTAAAGATTGCTAGACGTCCTCATCATGTAGGAACAATGTCATCCACCGACCCAATCTCCTCTTC
1 CTAAAGATGGCTAGACATCCTCATCACGTAGGAACAATGTCATCCACCGACCCAATCTCCTCATC
** * * *
2657018 ACGTA-GAG-AAAATCATCCTTAGATAACCATACTTTCTCGTCACGTAGGAACCATGTTATCTCC
66 ACGTAGGAGCAACGTCATCCTTAGATAACCAGACTTCCTCATCACGTAGGAACCATGTTATCTCC
2657081 ATTTATCC
131 ATTTATCC
* * *
2657089 CTAAAGATGGGTAGACATCCTCATCACGTAGGAACAATGTCAT-CACCGACCCAATCTCTTAATC
1 CTAAAGATGGCTAGACATCCTCATCACGTAGGAACAATGTCATCCACCGACCCAATCTCCTCATC
** *
2657153 ACGTAGGAGCAGTGTCATCCTTAAATAACCAGACTTCCTCATCACGTAGGAACCATGTTATCTCC
66 ACGTAGGAGCAACGTCATCCTTAGATAACCAGACTTCCTCATCACGTAGGAACCATGTTATCTCC
2657218 ATTTATCC
131 ATTTATCC
* * *
2657226 CTAAAGATGGCTAGACGTCCTCATCACGTAGGAACAATGTCATTCACCGACCCGATCTCCTCATC
1 CTAAAGATGGCTAGACATCCTCATCACGTAGGAACAATGTCATCCACCGACCCAATCTCCTCATC
* ** * ** * *
2657291 ACATAGGAGCGGCGTCAT-CTGTAGATAACCAGATTTATTCATCACGTAGGAATCGTGTTATCTC
66 ACGTAGGAGCAACGTCATCCT-TAGATAACCAGACTTCCTCATCACGTAGGAACCATGTTATCTC
*
2657355 CATTTGTCC
130 CATTTATCC
* * * *
2657364 CTATAGATGGCTAGACATCCTCATCACATAGGAACAATGTCATCCACTGA-CCAGACCTCCTCAT
1 CTAAAGATGGCTAGACATCCTCATCACGTAGGAACAATGTCATCCACCGACCCA-ATCTCCTCAT
* * * * * *
2657428 CATGTAGGAACAACGTC-TCCCTTAGATAACCAAATTTCCTCATCACGTA-GAACCGTGTTGTCT
65 CACGTAGGAGCAACGTCAT-CCTTAGATAACCAGACTTCCTCATCACGTAGGAACCATGTTATCT
2657491 CCA
129 CCA
2657494 AATTTACCTA
Statistics
Matches: 352, Mismatches: 46, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
135 23 0.07
136 42 0.12
137 117 0.33
138 168 0.48
139 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (138 bp):
CTAAAGATGGCTAGACATCCTCATCACGTAGGAACAATGTCATCCACCGACCCAATCTCCTCATC
ACGTAGGAGCAACGTCATCCTTAGATAACCAGACTTCCTCATCACGTAGGAACCATGTTATCTCC
ATTTATCC
Found at i:2657852 original size:29 final size:28
Alignment explanation
Indices: 2657814--2657876 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
2657804 TAATTATCAT
* *
2657814 TTTTAATTATTAATTAATATTATTATTA
1 TTTTATTTATTAACTAATATTATTATTA
* *
2657842 TTATTATTTATTTACTAATTTTATTATTA
1 TT-TTATTTATTAACTAATATTATTATTA
2657871 TTTTAT
1 TTTTAT
2657877 AGGTTAGATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 6 0.20
29 24 0.80
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (28 bp):
TTTTATTTATTAACTAATATTATTATTA
Found at i:2663499 original size:17 final size:17
Alignment explanation
Indices: 2663472--2663521 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
2663462 AATATGAGAA
* *
2663472 AAGAGAAAAGAAGCAAAG
1 AAGAAAAAAGAA-AAAAG
2663490 -AGAAAAAAGAAAAAAG
1 AAGAAAAAAGAAAAAAG
2663506 AAGAAAGAAAGAAAAA
1 AAGAAA-AAAGAAAAA
2663522 CAAAGAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 4 0.14
17 15 0.54
18 9 0.32
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAGAAAAAAG
Found at i:2663504 original size:24 final size:24
Alignment explanation
Indices: 2663470--2663532 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
2663460 GAAATATGAG
* *
2663470 AAAAGAGAAAAGAAGCAAAGAGA-A
1 AAAAGAAAAAAGAAG-AAAGAAAGA
2663494 AAAAGAAAAAAGAAGAAAGAAAGA
1 AAAAGAAAAAAGAAGAAAGAAAGA
*
2663518 AAAACAAAGAAAGAA
1 AAAAGAAA-AAAGAA
2663533 AATGGATCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 6 0.18
24 22 0.65
25 6 0.18
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (24 bp):
AAAAGAAAAAAGAAGAAAGAAAGA
Found at i:2663512 original size:14 final size:13
Alignment explanation
Indices: 2663486--2663534 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
2663476 GAAAAGAAGC
*
2663486 AAAGAGAAAAAAG
1 AAAGAAAAAAAAG
2663499 AAA-AAAGAAGAAAG
1 AAAGAAA-AA-AAAG
2663513 AAAGAAAAACAAAG
1 AAAGAAAAA-AAAG
2663527 AAAGAAAA
1 AAAGAAAA
2663535 TGGATCAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 2 0.06
13 5 0.16
14 21 0.68
15 3 0.10
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAG
Found at i:2663518 original size:18 final size:18
Alignment explanation
Indices: 2663486--2663533 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
2663476 GAAAAGAAGC
2663486 AAAG-AGAAA-AAAGAAA
1 AAAGAAGAAAGAAAGAAA
2663502 AAAGAAGAAAGAAAGAAA
1 AAAGAAGAAAGAAAGAAA
2663520 AACA-AAGAAAGAAA
1 AA-AGAAGAAAGAAA
2663534 ATGGATCAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.14
17 5 0.17
18 19 0.66
19 1 0.03
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (18 bp):
AAAGAAGAAAGAAAGAAA
Found at i:2666316 original size:67 final size:67
Alignment explanation
Indices: 2666200--2666325 Score: 180
Period size: 67 Copynumber: 1.9 Consensus size: 67
2666190 TGATAAACCT
* * *
2666200 TTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGATATTTTCTCTTCAAACATTAAAA
1 TTGAGATTGTTTCCCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTCAAACATTAAAA
2666265 CA
66 CA
* * * * *
2666267 TTGAGATTTTTTCCCTTGAAACAATTTTTTTCTCGCTTGGGACAGTTTCTCTTGAAACA
1 TTGAGATTGTTTCCCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTCAAACA
2666326 AATTATTGCT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
67 51 1.00
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.43
Consensus pattern (67 bp):
TTGAGATTGTTTCCCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTCAAACATTAAAA
CA
Found at i:2666603 original size:138 final size:138
Alignment explanation
Indices: 2666334--2666876 Score: 705
Period size: 138 Copynumber: 3.9 Consensus size: 138
2666324 CAAATTATTG
* * * * * * *
2666334 CTAAAAATTGCTAGACGTCCACATCACGTAGGAACAATGTCATCCACCGACCCAATCTCCTCTTA
1 CTAAAGATGGCTAAACGTCCTCATCACGTAGGAACAATGTCATCCACCGACCCAATATCCTCATC
* *
2666399 ACGTAGGAGCAACATCATCCTTAGATAAACAGACTTCCTCGTCACGTAGG-ACTCGTGTTATCTC
66 ACGTAGGAGCAGCATCATCCTTAGATAAACAGACTTCCTCATCACGTAGGAAC-CGTGTTATCTC
2666463 CATTTATCC
130 CATTTATCC
* * * * *
2666472 TTAAAGATGGCTATACATCCTCATCACGTGGGAACAATGTCATCCACCAACCCAATATCCTCATC
1 CTAAAGATGGCTAAACGTCCTCATCACGTAGGAACAATGTCATCCACCGACCCAATATCCTCATC
** * *
2666537 ACGTAGGAGCAGTGTCATCCTTAGATAACCAGACTTCCTCATCATGTAGGAACCGTGTTATCTCC
66 ACGTAGGAGCAGCATCATCCTTAGATAAACAGACTTCCTCATCACGTAGGAACCGTGTTATCTCC
2666602 ATTTATCC
131 ATTTATCC
* * *
2666610 CTAAAAATGGCTAGACGTCCTCATCACGTAGGAACAATGTCATCCACCGACCCAATCTCCTCATC
1 CTAAAGATGGCTAAACGTCCTCATCACGTAGGAACAATGTCATCCACCGACCCAATATCCTCATC
** * * * *
2666675 ACGTAGGATTAGCATCATCCTTAGATAAACAGATTTCCTCATCATGTAGGAATCATGTTATCTCC
66 ACGTAGGAGCAGCATCATCCTTAGATAAACAGACTTCCTCATCACGTAGGAACCGTGTTATCTCC
2666740 ATTTATCC
131 ATTTATCC
* * * *
2666748 CTAAAGATGTCTAAATGTCCTCATCACGTAGGAACAATGTCATCCACTGA-CC-ATACCTCTGCA
1 CTAAAGATGGCTAAACGTCCTCATCACGTAGGAACAATGTCATCCACCGACCCAATATC-CT-CA
* * * * * *
2666811 TCACGTAGGAGCAGCGTCACCCTTAGATAACCAGATTTTCTCATCACGTAGGAACCGTGTTGTCT
64 TCACGTAGGAGCAGCATCATCCTTAGATAAACAGACTTCCTCATCACGTAGGAACCGTGTTATCT
2666876 C
129 C
2666877 GAAATTTACC
Statistics
Matches: 353, Mismatches: 49, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
136 3 0.01
137 4 0.01
138 344 0.97
139 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (138 bp):
CTAAAGATGGCTAAACGTCCTCATCACGTAGGAACAATGTCATCCACCGACCCAATATCCTCATC
ACGTAGGAGCAGCATCATCCTTAGATAAACAGACTTCCTCATCACGTAGGAACCGTGTTATCTCC
ATTTATCC
Found at i:2666837 original size:276 final size:276
Alignment explanation
Indices: 2666334--2666876 Score: 811
Period size: 276 Copynumber: 2.0 Consensus size: 276
2666324 CAAATTATTG
* *
2666334 CTAAAAATTGCTAGACGTCCACATCACGTAGGAACAATGTCATCCACCGACCCAATCTCCTCTTA
1 CTAAAAATGGCTAGACGTCCACATCACGTAGGAACAATGTCATCCACCGACCCAATCTCCTCATA
* * *
2666399 ACGTAGGAGCAACATCATCCTTAGATAAACAGACTTCCTCGTCACGTAGGACTCGTGTTATCTCC
66 ACGTAGGAGCAACATCATCCTTAGATAAACAGACTTCCTCATCACGTAGGAATCATGTTATCTCC
* * *
2666464 ATTTATCCTTAAAGATGGCTATACATCCTCATCACGTGGGAACAATGTCATCCACCAACCCAATA
131 ATTTATCCCTAAAGATGGCTAAACATCCTCATCACGTAGGAACAATGTCATCCACCAACCCAATA
* * * *
2666529 TCCTCATCACGTAGGAGCAGTGTCATCCTTAGATAACCAGACTTCCTCATCATGTAGGAACCGTG
196 CCCTCATCACGTAGGAGCAGCGTCACCCTTAGATAACCAGACTTCCTCATCACGTAGGAACCGTG
2666594 TTATCTCCATTTATCC
261 TTATCTCCATTTATCC
* *
2666610 CTAAAAATGGCTAGACGTCCTCATCACGTAGGAACAATGTCATCCACCGACCCAATCTCCTCATC
1 CTAAAAATGGCTAGACGTCCACATCACGTAGGAACAATGTCATCCACCGACCCAATCTCCTCATA
** * * *
2666675 ACGTAGGATTAGCATCATCCTTAGATAAACAGATTTCCTCATCATGTAGGAATCATGTTATCTCC
66 ACGTAGGAGCAACATCATCCTTAGATAAACAGACTTCCTCATCACGTAGGAATCATGTTATCTCC
* ** **
2666740 ATTTATCCCTAAAGATGTCTAAATGTCCTCATCACGTAGGAACAATGTCATCCACTGA-CC-ATA
131 ATTTATCCCTAAAGATGGCTAAACATCCTCATCACGTAGGAACAATGTCATCCACCAACCCAATA
* *
2666803 CCTCTGCATCACGTAGGAGCAGCGTCACCCTTAGATAACCAGATTTTCTCATCACGTAGGAACCG
196 CC-CT-CATCACGTAGGAGCAGCGTCACCCTTAGATAACCAGACTTCCTCATCACGTAGGAACCG
*
2666868 TGTTGTCTC
259 TGTTATCTC
2666877 GAAATTTACC
Statistics
Matches: 238, Mismatches: 27, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
274 4 0.02
275 4 0.02
276 230 0.97
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (276 bp):
CTAAAAATGGCTAGACGTCCACATCACGTAGGAACAATGTCATCCACCGACCCAATCTCCTCATA
ACGTAGGAGCAACATCATCCTTAGATAAACAGACTTCCTCATCACGTAGGAATCATGTTATCTCC
ATTTATCCCTAAAGATGGCTAAACATCCTCATCACGTAGGAACAATGTCATCCACCAACCCAATA
CCCTCATCACGTAGGAGCAGCGTCACCCTTAGATAACCAGACTTCCTCATCACGTAGGAACCGTG
TTATCTCCATTTATCC
Found at i:2674013 original size:24 final size:24
Alignment explanation
Indices: 2673927--2673993 Score: 116
Period size: 24 Copynumber: 2.8 Consensus size: 24
2673917 CGTTTATTAA
2673927 AATGATAAACGAACACAAATGAACG
1 AATG-TAAACGAACACAAATGAACG
2673952 AATGTAAACGAACACAAATGAACG
1 AATGTAAACGAACACAAATGAACG
*
2673976 AATGTAAATGAACACAAA
1 AATGTAAACGAACACAAA
2673994 CGAATGAACA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
24 37 0.90
25 4 0.10
ACGTcount: A:0.57, C:0.15, G:0.15, T:0.13
Consensus pattern (24 bp):
AATGTAAACGAACACAAATGAACG
Found at i:2683848 original size:2 final size:2
Alignment explanation
Indices: 2683843--2683884 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2683833 TATATATATA
2683843 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2683885 AATATGTCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:2692828 original size:26 final size:26
Alignment explanation
Indices: 2692792--2692863 Score: 117
Period size: 26 Copynumber: 2.8 Consensus size: 26
2692782 ACCGAAGTGC
2692792 TAATACACATAAGGTCGTGCCCACCA
1 TAATACACATAAGGTCGTGCCCACCA
* *
2692818 TAATACACATAAGGTCATGCCCATCA
1 TAATACACATAAGGTCGTGCCCACCA
*
2692844 TAATACACATAAGTTCGTGC
1 TAATACACATAAGGTCGTGC
2692864 TTACTATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (26 bp):
TAATACACATAAGGTCGTGCCCACCA
Found at i:2697276 original size:23 final size:24
Alignment explanation
Indices: 2697249--2697318 Score: 92
Period size: 23 Copynumber: 3.0 Consensus size: 24
2697239 CAGTCGCAAC
2697249 TGCCACATAGAAT-TGCACCGAAG
1 TGCCACATAGAATATGCACCGAAG
*
2697272 TGCCACGTAGAATATGCACCGAAG
1 TGCCACATAGAATATGCACCGAAG
*
2697296 -GACCACATAG-ATATGCCCCGAAG
1 TG-CCACATAGAATATGCACCGAAG
2697319 GACCGCGTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
23 25 0.60
24 17 0.40
ACGTcount: A:0.34, C:0.27, G:0.23, T:0.16
Consensus pattern (24 bp):
TGCCACATAGAATATGCACCGAAG
Found at i:2697380 original size:24 final size:24
Alignment explanation
Indices: 2697251--2697393 Score: 100
Period size: 24 Copynumber: 6.1 Consensus size: 24
2697241 GTCGCAACTG
2697251 CCACATAGAA-TTG-CACCGAAGTG-
1 CCACATAGAATTTGTC-CCGAAG-GA
* *
2697274 CCACGTAGAATATG-CACCGAAGGA
1 CCACATAGAATTTGTC-CCGAAGGA
* *
2697298 CCACATAG-ATATGCCCCGAAGGA
1 CCACATAGAATTTGTCCCGAAGGA
* * *
2697321 CCGCGTAGAATTTTTCCCGAAGGA
1 CCACATAGAATTTGTCCCGAAGGA
* * * *
2697345 CCGCGTAGAATTTGTCTCGAAAGA
1 CCACATAGAATTTGTCCCGAAGGA
* *
2697369 CCACATAGAA-TTATCTCGAAGGA
1 CCACATAGAATTTGTCCCGAAGGA
2697392 CC
1 CC
2697394 GTGTAGAACC
Statistics
Matches: 101, Mismatches: 15, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
23 42 0.42
24 59 0.58
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.19
Consensus pattern (24 bp):
CCACATAGAATTTGTCCCGAAGGA
Found at i:2700768 original size:16 final size:16
Alignment explanation
Indices: 2700747--2700779 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2700737 TAATAAATAA
2700747 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
2700763 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
2700779 A
1 A
2700780 AAAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:2700856 original size:16 final size:16
Alignment explanation
Indices: 2700835--2700878 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
2700825 CATGTTCGTT
2700835 CATAAACGAACACGAA
1 CATAAACGAACACGAA
*
2700851 CATAAATGAACACGAA
1 CATAAACGAACACGAA
2700867 CATAAACGAACA
1 CATAAACGAACA
2700879 TAAACGTTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.57, C:0.23, G:0.11, T:0.09
Consensus pattern (16 bp):
CATAAACGAACACGAA
Found at i:2701645 original size:24 final size:24
Alignment explanation
Indices: 2701610--2701684 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 24
2701600 GATTGGGTTA
*
2701610 AACATAAATGAATGAACATAAACG
1 AACATAAATGAACGAACATAAACG
*
2701634 AACATAATTGAACGAACATAAACG
1 AACATAAATGAACGAACATAAACG
* *** *
2701658 GACATAACCAAACGAACATAACCG
1 AACATAAATGAACGAACATAAACG
2701682 AAC
1 AAC
2701685 GTTCACAAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.55, C:0.20, G:0.12, T:0.13
Consensus pattern (24 bp):
AACATAAATGAACGAACATAAACG
Found at i:2703452 original size:20 final size:20
Alignment explanation
Indices: 2703427--2703479 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
2703417 AATGCAATTA
*
2703427 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTACT
* *
2703447 GTGCATCGATGCCTCTTACT
1 GTGCATCGATGCATCCTACT
*
2703467 GTGCATCCATGCA
1 GTGCATCGATGCA
2703480 CCAAGGCTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.17, C:0.30, G:0.23, T:0.30
Consensus pattern (20 bp):
GTGCATCGATGCATCCTACT
Found at i:2705949 original size:21 final size:21
Alignment explanation
Indices: 2705923--2705962 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2705913 CAACAATTGG
2705923 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
*
2705944 TAACAATTGGTATCATTTT
1 TAACAATTGATATCATTTT
2705963 CATTAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:2706209 original size:21 final size:21
Alignment explanation
Indices: 2706183--2706300 Score: 107
Period size: 21 Copynumber: 5.6 Consensus size: 21
2706173 AGGGTGTCAA
2706183 AGTGCATTCATGCACCCCTGT
1 AGTGCATTCATGCACCCCTGT
2706204 AGTGCATTCATGCACCCCTGT
1 AGTGCATTCATGCACCCCTGT
* * **
2706225 AGTGCATCCATGCATCTGCCACT
1 AGTGCATTCATGCA-C-CCCTGT
*
2706248 AGTGCA-TCGATGCA-CCATGT
1 AGTGCATTC-ATGCACCCCTGT
** *
2706268 AGTGCATGGATGCA-CCTTGT
1 AGTGCATTCATGCACCCCTGT
*
2706288 AGTGCATCCATGC
1 AGTGCATTCATGC
2706301 TCTCCATTTC
Statistics
Matches: 79, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
20 29 0.37
21 34 0.43
22 2 0.03
23 14 0.18
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (21 bp):
AGTGCATTCATGCACCCCTGT
Found at i:2706272 original size:20 final size:20
Alignment explanation
Indices: 2706247--2706300 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
2706237 CATCTGCCAC
2706247 TAGTGCATCGATGCACCATG
1 TAGTGCATCGATGCACCATG
* *
2706267 TAGTGCATGGATGCACCTTG
1 TAGTGCATCGATGCACCATG
*
2706287 TAGTGCATCCATGC
1 TAGTGCATCGATGC
2706301 TCTCCATTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (20 bp):
TAGTGCATCGATGCACCATG
Found at i:2706750 original size:34 final size:32
Alignment explanation
Indices: 2706711--2706780 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
2706701 TTTTGTAAAG
* *
2706711 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
2706745 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
2706777 GGGA
1 GGGA
2706781 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:2708824 original size:21 final size:21
Alignment explanation
Indices: 2708798--2708837 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2708788 CAACAATTGG
2708798 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
* *
2708819 TAACAATTGGTATCTTTTT
1 TAACAATTGATATCATTTT
2708838 CATTAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:2712117 original size:24 final size:23
Alignment explanation
Indices: 2712064--2712120 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
2712054 GTCGCAACTA
* *
2712064 CCACATAGAATTACGCCGAAGTG
1 CCACATAGAATTACACCAAAGTG
* * *
2712087 TCGCATAGAATATGCACCAAAGTG
1 CCACATAGAAT-TACACCAAAGTG
2712111 CCACATAGAA
1 CCACATAGAA
2712121 ATATCCCGAA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.18
Consensus pattern (23 bp):
CCACATAGAATTACACCAAAGTG
Found at i:2712140 original size:23 final size:23
Alignment explanation
Indices: 2712111--2712228 Score: 130
Period size: 24 Copynumber: 5.0 Consensus size: 23
2712101 CACCAAAGTG
* *
2712111 CCACATAGAAATATCCCGAAGGA
1 CCACATAGAATTGTCCCGAAGGA
2712134 CCACATAG-ATATGTCCCGAAGGA
1 CCACATAGAAT-TGTCCCGAAGGA
* *
2712157 CCGCGTAGAATTTGTCCCGAAGGA
1 CCACATAGAA-TTGTCCCGAAGGA
* * * *
2712181 CCGCGTAGAATTTATCCCGAATGA
1 CCACATAGAA-TTGTCCCGAAGGA
2712205 CCACATAGAATTGTCCCGAAGGA
1 CCACATAGAATTGTCCCGAAGGA
2712228 C
1 C
2712229 TGCGTAGAAC
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
22 1 0.01
23 37 0.45
24 43 0.52
25 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.19
Consensus pattern (23 bp):
CCACATAGAATTGTCCCGAAGGA
Found at i:2712175 original size:47 final size:47
Alignment explanation
Indices: 2712111--2712228 Score: 139
Period size: 47 Copynumber: 2.5 Consensus size: 47
2712101 CACCAAAGTG
* * *
2712111 CCACATAGAAATATCCCGAAGGACCACATAG-ATATGTCCCGAAGGA
1 CCACATAGAATTGTCCCGAAGGACCACATAGAATATATCCCGAAGGA
* * * * * *
2712157 CCGCGTAGAATTTGTCCCGAAGGACCGCGTAGAATTTATCCCGAATGA
1 CCACATAGAA-TTGTCCCGAAGGACCACATAGAATATATCCCGAAGGA
2712205 CCACATAGAATTGTCCCGAAGGAC
1 CCACATAGAATTGTCCCGAAGGAC
2712229 TGCGTAGAAC
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
46 8 0.14
47 31 0.53
48 20 0.34
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.19
Consensus pattern (47 bp):
CCACATAGAATTGTCCCGAAGGACCACATAGAATATATCCCGAAGGA
Found at i:2712177 original size:24 final size:24
Alignment explanation
Indices: 2712124--2712237 Score: 142
Period size: 24 Copynumber: 4.8 Consensus size: 24
2712114 CATAGAAATA
* * *
2712124 TCCCGAAGGACCACATAG-ATATG
1 TCCCGAAGGACCGCGTAGAATTTG
2712147 TCCCGAAGGACCGCGTAGAATTTG
1 TCCCGAAGGACCGCGTAGAATTTG
*
2712171 TCCCGAAGGACCGCGTAGAATTTA
1 TCCCGAAGGACCGCGTAGAATTTG
* * *
2712195 TCCCGAATGACCACATAGAA-TTG
1 TCCCGAAGGACCGCGTAGAATTTG
*
2712218 TCCCGAAGGACTGCGTAGAA
1 TCCCGAAGGACCGCGTAGAA
2712238 CCCTTGACTC
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
23 34 0.44
24 44 0.56
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.19
Consensus pattern (24 bp):
TCCCGAAGGACCGCGTAGAATTTG
Found at i:2712759 original size:29 final size:30
Alignment explanation
Indices: 2712708--2712768 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
2712698 CAATAACTTA
* *
2712708 AACTCAAAGAAACACCTAATTCATCATTTC
1 AACTCAAAAAAACACCTAATTCACCATTTC
2712738 AACT-AAAAAAACACCTAATTCACCATTTC
1 AACTCAAAAAAACACCTAATTCACCATTTC
2712767 AA
1 AA
2712769 GTTGAACAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.25
Consensus pattern (30 bp):
AACTCAAAAAAACACCTAATTCACCATTTC
Found at i:2719619 original size:44 final size:44
Alignment explanation
Indices: 2719570--2719659 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
2719560 GGTCCCTTTT
*
2719570 TTTGAAGAGAAAAAATACAAGGGCTCTTGCCCAGATTCAAAACA
1 TTTGAAGAGAAAAAATACAAGGGCTCTCGCCCAGATTCAAAACA
2719614 TTTGAAGAGAAAAAATACAAGGGCTCTCGCCCAGATTCAAAACA
1 TTTGAAGAGAAAAAATACAAGGGCTCTCGCCCAGATTCAAAACA
2719658 TT
1 TT
2719660 CCAAGGTTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (44 bp):
TTTGAAGAGAAAAAATACAAGGGCTCTCGCCCAGATTCAAAACA
Found at i:2721655 original size:5 final size:5
Alignment explanation
Indices: 2721641--2721676 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
2721631 AATAAAGAAT
2721641 TAAAA T-AAA TAAAA TAAAA TAAAA T-AAA T-AAA TAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
2721677 TTCAATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 12 0.41
5 17 0.59
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:2721655 original size:9 final size:9
Alignment explanation
Indices: 2721641--2721677 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
2721631 AATAAAGAAT
2721641 TAAAATAAA
1 TAAAATAAA
2721650 TAAAATAAAA
1 TAAAAT-AAA
2721660 TAAAATAAA
1 TAAAATAAA
2721669 T-AAATAAA
1 TAAAATAAA
2721677 T
1 T
2721678 TCAATTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.30
9 10 0.37
10 9 0.33
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
TAAAATAAA
Found at i:2721828 original size:2 final size:2
Alignment explanation
Indices: 2721821--2721847 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2721811 ATTTCGAGTG
2721821 TA 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 T
2721848 TTAGGAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2722930 original size:24 final size:23
Alignment explanation
Indices: 2722869--2722930 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
2722859 TCCCTTGCTT
*
2722869 TCTCT-TTTTTTTCCTTTATCTC
1 TCTCTGTTTTTTTCTTTTATCTC
* *
2722891 TCTGTGTTTTCTTTCTTTTTTCTC
1 TCTCTGTTTT-TTTCTTTTATCTC
2722915 TCTCTGGTTTTTTTCT
1 TCTCT-GTTTTTTTCT
2722931 CTTCGCTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 4 0.12
23 4 0.12
24 20 0.61
25 5 0.15
ACGTcount: A:0.02, C:0.23, G:0.06, T:0.69
Consensus pattern (23 bp):
TCTCTGTTTTTTTCTTTTATCTC
Found at i:2728315 original size:20 final size:20
Alignment explanation
Indices: 2728290--2728339 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
2728280 GAAGGTTATA
2728290 GTATCGATACAAGATGCTCG
1 GTATCGATACAAGATGCTCG
2728310 GTATCGATACAAGATGCTCG
1 GTATCGATACAAGATGCTCG
*
2728330 ATATCGATAC
1 GTATCGATAC
2728340 TAGTGGGCCG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (20 bp):
GTATCGATACAAGATGCTCG
Found at i:2731273 original size:64 final size:64
Alignment explanation
Indices: 2731203--2731360 Score: 205
Period size: 64 Copynumber: 2.5 Consensus size: 64
2731193 TACACTTGGA
* * * *
2731203 GTGTATCGGTACACTAATTGCATTTGATGTTTTAATAAAGCCAGA-GTGTATCGATGCATAGGAT
1 GTGTATCGGTACACAAAATGCATTCGATGTTTTAATAAAGCCA-ACATGTATCGATGCATAGGAT
*
2731267 GTGTATCGGTACACAAAATGCATTCGATGTTTTAATAAAGCCAACATGTATCGATGCAT-GGCT
1 GTGTATCGGTACACAAAATGCATTCGATGTTTTAATAAAGCCAACATGTATCGATGCATAGGAT
* **
2731330 GTGCATCCATACACAAAATAGC-TTCGATGTT
1 GTGTATCGGTACACAAAAT-GCATTCGATGTT
2731361 CGGTGTGCAT
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
63 29 0.35
64 55 0.65
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (64 bp):
GTGTATCGGTACACAAAATGCATTCGATGTTTTAATAAAGCCAACATGTATCGATGCATAGGAT
Found at i:2733697 original size:44 final size:43
Alignment explanation
Indices: 2733634--2733739 Score: 149
Period size: 44 Copynumber: 2.4 Consensus size: 43
2733624 CAGGACATTG
* * *
2733634 CATAGTGTATCGATACACATTCAAGGAATGCATCAATGCCCTT
1 CATAGTGTATCGATGCACATTCAAGGAATGCATCAATACACTT
**
2733677 ACATAGTGTATCGATGCACATTCAAGGAATGCATCGGTACACTT
1 -CATAGTGTATCGATGCACATTCAAGGAATGCATCAATACACTT
2733721 CAATAGTGTATCGATGCAC
1 C-ATAGTGTATCGATGCAC
2733740 TTTGCACAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 1 0.02
44 55 0.98
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (43 bp):
CATAGTGTATCGATGCACATTCAAGGAATGCATCAATACACTT
Found at i:2733712 original size:23 final size:23
Alignment explanation
Indices: 2733642--2733712 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
2733632 TGCATAGTGT
*
2733642 ATCGATACACATTCAAGGAATGC
1 ATCGATGCACATTCAAGGAATGC
* * *
2733665 ATCAATGC-CCTTACATA-G--TGT
1 ATCGATGCACATT-CA-AGGAATGC
2733686 ATCGATGCACATTCAAGGAATGC
1 ATCGATGCACATTCAAGGAATGC
2733709 ATCG
1 ATCG
2733713 GTACACTTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 12
0.65 0.13 0.22
Matches are distributed among these distances:
20 1 0.03
21 12 0.34
22 6 0.17
23 15 0.43
24 1 0.03
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (23 bp):
ATCGATGCACATTCAAGGAATGC
Found at i:2733740 original size:21 final size:21
Alignment explanation
Indices: 2733635--2733741 Score: 63
Period size: 21 Copynumber: 4.9 Consensus size: 21
2733625 AGGACATTGC
*
2733635 ATAGTGTATCGATACACATTCA
1 ATAGTGTATCGATGCAC-TTCA
* * * * *
2733657 AGGAATGCATCAATGCCCTT-A
1 A-TAGTGTATCGATGCACTTCA
2733678 CATAGTGTATCGATGCACATTCA
1 -ATAGTGTATCGATGCAC-TTCA
* * * * *
2733701 AGGAATGCATCGGTACACTTCA
1 A-TAGTGTATCGATGCACTTCA
2733723 ATAGTGTATCGATGCACTT
1 ATAGTGTATCGATGCACTT
2733742 TGCACAAAAT
Statistics
Matches: 59, Mismatches: 21, Indels: 11
0.65 0.23 0.12
Matches are distributed among these distances:
21 25 0.42
22 12 0.20
23 22 0.37
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (21 bp):
ATAGTGTATCGATGCACTTCA
Found at i:2739652 original size:64 final size:65
Alignment explanation
Indices: 2739502--2739656 Score: 210
Period size: 64 Copynumber: 2.4 Consensus size: 65
2739492 CTTGGGGTGT
* * * * *
2739502 ATCGGTACAC-TAATTGCATTCAATGTTTTAATAAAGCTAGAGTGTATCGATGCATAGGATGTGT
1 ATCGGTACACAAAATAGCATTCGATGTTTTAATAAAGCCAGAGTGTATCGATGCATAGGATGTGC
* *
2739566 ATCGGCACACAAAATA-CATTCGATGTTTTAATAAAGCCAGGAGTGTATCGATGCAT-GGCTGTG
1 ATCGGTACACAAAATAGCATTCGATGTTTTAATAAAGCCA-GAGTGTATCGATGCATAGGATGTG
2739629 C
65 C
2739630 ATCGGTACACAAAATAGC-TTCGATGTT
1 ATCGGTACACAAAATAGCATTCGATGTT
2739657 GGGTGTGCAT
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
64 60 0.75
65 20 0.25
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (65 bp):
ATCGGTACACAAAATAGCATTCGATGTTTTAATAAAGCCAGAGTGTATCGATGCATAGGATGTGC
Found at i:2744229 original size:20 final size:22
Alignment explanation
Indices: 2744204--2744248 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
2744194 ATCGATACCC
2744204 TATCGAGACTG-C-AAGAACAA
1 TATCGAGACTGACAAAGAACAA
*
2744224 TATCGATACTGACAAAGAACAA
1 TATCGAGACTGACAAAGAACAA
2744246 TAT
1 TAT
2744249 TGGTACTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.45
21 1 0.05
22 11 0.50
ACGTcount: A:0.47, C:0.18, G:0.16, T:0.20
Consensus pattern (22 bp):
TATCGAGACTGACAAAGAACAA
Found at i:2754335 original size:21 final size:21
Alignment explanation
Indices: 2754305--2754355 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
2754295 TTTTAATTAA
*
2754305 TATCGATACCCTGATGGAGAG
1 TATCGATACCCTGATAGAGAG
*
2754326 TATTGATACCCTGATAGAGAG
1 TATCGATACCCTGATAGAGAG
2754347 TATCGATAC
1 TATCGATAC
2754356 TTACCCCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (21 bp):
TATCGATACCCTGATAGAGAG
Found at i:2755627 original size:170 final size:173
Alignment explanation
Indices: 2755344--2755689 Score: 612
Period size: 170 Copynumber: 2.0 Consensus size: 173
2755334 TTGCTAATTA
*
2755344 TATATCATGTAATTCTTCCATTTGGTGAACAACTTTTGTTCAAATTATCTCATGGTTTATCCAAA
1 TATATCATGTAATTCTTCCATTTGGTGAACAACTTTTGTTCAAATTATCTCATGATTTATCCAAA
*
2755409 TAAATAATCTTTAGGTTTACAATCATATTAGAATAACCTAGCTAAGTTATTATCAATATTTTTGC
66 TAAATAATCTTTAGGTTTACAATCATATTAGAACAACCTAGCTAAGTTATTATCAATA-TTTT-C
2755474 AATGAATATCAC-TGCTTATTCTTCGCAT-TAAGC-A-ATAGATT
129 AATGAATATCACTTGCTTATTCTTCGCATATAAGCAAGATAGATT
2755515 TATATCATGTAATTCTTCCATTTGGTGAACAACTTTT-TTCAAATTATCTCATGATTTATCCAAA
1 TATATCATGTAATTCTTCCATTTGGTGAACAACTTTTGTTCAAATTATCTCATGATTTATCCAAA
*
2755579 TAAATAATCTTTAGGTTTCCAATCATATTAGAACAACCTAGCTAAGTTATTATCAATATTTTCAA
66 TAAATAATCTTTAGGTTTACAATCATATTAGAACAACCTAGCTAAGTTATTATCAATATTTTCAA
2755644 TGAATATCACTTGCTTATTCTTCGCATATAAGCAAGATAGATT
131 TGAATATCACTTGCTTATTCTTCGCATATAAGCAAGATAGATT
2755687 TAT
1 TAT
2755690 GTGCCATTGC
Statistics
Matches: 168, Mismatches: 3, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
168 13 0.08
169 20 0.12
170 87 0.52
171 38 0.23
172 10 0.06
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.41
Consensus pattern (173 bp):
TATATCATGTAATTCTTCCATTTGGTGAACAACTTTTGTTCAAATTATCTCATGATTTATCCAAA
TAAATAATCTTTAGGTTTACAATCATATTAGAACAACCTAGCTAAGTTATTATCAATATTTTCAA
TGAATATCACTTGCTTATTCTTCGCATATAAGCAAGATAGATT
Found at i:2758444 original size:66 final size:66
Alignment explanation
Indices: 2758338--2758469 Score: 255
Period size: 66 Copynumber: 2.0 Consensus size: 66
2758328 TCACAAGTGA
*
2758338 GAATAACTAGTGAATACATCAAAAGGTTAAGAATCTTGTGCAGTAAGATGCCATAAGACTTGCCC
1 GAATAACTAGTGAATACATCAAAAGGTTAAGAATATTGTGCAGTAAGATGCCATAAGACTTGCCC
2758403 C
66 C
2758404 GAATAACTAGTGAATACATCAAAAGGTTAAGAATATTGTGCAGTAAGATGCCATAAGACTTGCCC
1 GAATAACTAGTGAATACATCAAAAGGTTAAGAATATTGTGCAGTAAGATGCCATAAGACTTGCCC
2758469 C
66 C
2758470 TATGTGATGC
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (66 bp):
GAATAACTAGTGAATACATCAAAAGGTTAAGAATATTGTGCAGTAAGATGCCATAAGACTTGCCC
C
Found at i:2764549 original size:23 final size:23
Alignment explanation
Indices: 2764519--2764596 Score: 69
Period size: 23 Copynumber: 3.7 Consensus size: 23
2764509 TCTTTGTATC
*
2764519 CTAAATGATATTTGTTTTAGATT
1 CTAAATGACATTTGTTTTAGATT
*
2764542 CTAAATGACATTTG---T--ATC
1 CTAAATGACATTTGTTTTAGATT
* *
2764560 CTAAATGA-TTTTGTTTTAGGTT
1 CTAAATGACATTTGTTTTAGATT
*
2764582 CTAAATAACATTTGT
1 CTAAATGACATTTGT
2764597 ATTCTAAATG
Statistics
Matches: 42, Mismatches: 7, Indels: 12
0.69 0.11 0.20
Matches are distributed among these distances:
17 4 0.10
18 10 0.24
20 2 0.05
22 8 0.19
23 18 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (23 bp):
CTAAATGACATTTGTTTTAGATT
Found at i:2764584 original size:40 final size:41
Alignment explanation
Indices: 2764511--2764607 Score: 160
Period size: 40 Copynumber: 2.4 Consensus size: 41
2764501 TTACTAAATC
*
2764511 TTTGTATCCTAAATGATATTTGTTTTAGATTCTAAATGACA
1 TTTGTATCCTAAATGATATTTGTTTTAGATTCTAAATAACA
*
2764552 TTTGTATCCTAAATGAT-TTTGTTTTAGGTTCTAAATAACA
1 TTTGTATCCTAAATGATATTTGTTTTAGATTCTAAATAACA
*
2764592 TTTGTATTCTAAATGA
1 TTTGTATCCTAAATGA
2764608 CATTGGTTGA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 36 0.68
41 17 0.32
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.47
Consensus pattern (41 bp):
TTTGTATCCTAAATGATATTTGTTTTAGATTCTAAATAACA
Found at i:2766921 original size:20 final size:20
Alignment explanation
Indices: 2766896--2767157 Score: 105
Period size: 20 Copynumber: 11.6 Consensus size: 20
2766886 ACTAAAATGA
*
2766896 ATGAAATGATGCATTAAGGC
1 ATGAAAGGATGCATTAAGGC
*
2766916 ATGAAAGGATGACATAACTAAAATGC
1 ATGAAAGGATG-CAT---T--AAGGC
**
2766942 ATGAAATAATGCATTAAGGC
1 ATGAAAGGATGCATTAAGGC
* *
2766962 ATAAAAGGATGGCATAACTTAAATGC
1 ATGAAAGGAT-GC---A-TT-AAGGC
2766988 ATGAAAGGATGCATTAAGGC
1 ATGAAAGGATGCATTAAGGC
*
2767008 ATGAAAGGATGCCATAACTAAAATGC
1 ATGAAAGGATG-CAT---T--AAGGC
*
2767034 ATGAAAGTACT-CATTAAGGC
1 ATGAAAGGA-TGCATTAAGGC
2767054 ATGAAAGGATGCCATAAATAAAATGG-
1 ATGAAAGGATG-CAT---T--AA-GGC
**
2767080 ATGAAAGGATGCATTAAGTT
1 ATGAAAGGATGCATTAAGGC
* *
2767100 ATGAAAGGATACCATAACTAAAATGC
1 ATGAAAGGAT-GCAT---T--AAGGC
*
2767126 ATGAAATGATGCATTAAGGC
1 ATGAAAGGATGCATTAAGGC
2767146 ATGAAAGGATGC
1 ATGAAAGGATGC
2767158 TATGATTAAA
Statistics
Matches: 184, Mismatches: 24, Indels: 68
0.67 0.09 0.25
Matches are distributed among these distances:
19 2 0.01
20 75 0.41
21 16 0.09
22 5 0.03
24 5 0.03
25 16 0.09
26 62 0.34
27 3 0.02
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.22
Consensus pattern (20 bp):
ATGAAAGGATGCATTAAGGC
Found at i:2766994 original size:26 final size:26
Alignment explanation
Indices: 2766914--2767040 Score: 89
Period size: 26 Copynumber: 5.3 Consensus size: 26
2766904 ATGCATTAAG
* *
2766914 GCATGAAAGGATGACATAACTAAAAT
1 GCATGAAAGGATGGCATAACTTAAAT
** *
2766940 GCATGAAATAAT-GC---A-TT-AAG
1 GCATGAAAGGATGGCATAACTTAAAT
*
2766960 GCATAAAAGGATGGCATAACTTAAAT
1 GCATGAAAGGATGGCATAACTTAAAT
*
2766986 GCATGAAAGGAT-GC---A-TT-AAG
1 GCATGAAAGGATGGCATAACTTAAAT
* *
2767006 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATGGCATAACTTAAAT
2767032 GCATGAAAG
1 GCATGAAAG
2767041 TACTCATTAA
Statistics
Matches: 75, Mismatches: 14, Indels: 24
0.66 0.12 0.21
Matches are distributed among these distances:
20 25 0.33
21 6 0.08
22 2 0.03
24 2 0.03
25 6 0.08
26 34 0.45
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.20
Consensus pattern (26 bp):
GCATGAAAGGATGGCATAACTTAAAT
Found at i:2767129 original size:26 final size:25
Alignment explanation
Indices: 2767006--2767131 Score: 76
Period size: 26 Copynumber: 5.3 Consensus size: 25
2766996 ATGCATTAAG
*
2767006 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATACCATAA-TAAAAT
*
2767032 GCATGAAA-G-TACTCAT--T--AAG
1 GCATGAAAGGATAC-CATAATAAAAT
*
2767052 GCATGAAAGGATGCCATAAATAAAAT
1 GCATGAAAGGATACCAT-AATAAAAT
* * *
2767078 GGATGAAAGGAT-GCAT--T-AAGT
1 GCATGAAAGGATACCATAATAAAAT
*
2767099 -TATGAAAGGATACCATAACTAAAAT
1 GCATGAAAGGATACCATAA-TAAAAT
2767124 GCATGAAA
1 GCATGAAA
2767132 TGATGCATTA
Statistics
Matches: 75, Mismatches: 11, Indels: 28
0.66 0.10 0.25
Matches are distributed among these distances:
20 20 0.27
21 10 0.13
22 4 0.05
24 4 0.05
25 10 0.13
26 27 0.36
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (25 bp):
GCATGAAAGGATACCATAATAAAAT
Found at i:2767216 original size:46 final size:46
Alignment explanation
Indices: 2766882--2767215 Score: 420
Period size: 46 Copynumber: 7.3 Consensus size: 46
2766872 AAACCGAATT
* * *
2766882 CATAACTAAAATGAATGAAATGATGCATTAAGGCATGAAAGGATGA
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
** * *
2766928 CATAACTAAAATGCATGAAATAATGCATTAAGGCATAAAAGGATGG
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
*
2766974 CATAACTTAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
*
2767020 CATAACTAAAATGCATGAAAGTACT-CATTAAGGCATGAAAGGATGC
1 CATAACTAAAATGCATGAAAGGA-TGCATTAAGGCATGAAAGGATGC
* * ** *
2767066 CATAAATAAAATGGATGAAAGGATGCATTAAGTTATGAAAGGATAC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
*
2767112 CATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* * * * * * * *
2767158 TATGATTAAAATTCATGAACGGATGTATTAATGCATGAAAAGA-GAC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATG-C
*
2767204 CATAACTGAAAT
1 CATAACTAAAAT
2767216 TAATGAATAA
Statistics
Matches: 249, Mismatches: 36, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
45 2 0.01
46 246 0.99
47 1 0.00
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (46 bp):
CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
Found at i:2768308 original size:67 final size:67
Alignment explanation
Indices: 2768200--2768336 Score: 274
Period size: 67 Copynumber: 2.0 Consensus size: 67
2768190 TAAGTTCATT
2768200 TAATCATTTCCTTTACTTTTTTTATTATTCAAGTTACATAAATATTGAATATTGTTGAAGAATCG
1 TAATCATTTCCTTTACTTTTTTTATTATTCAAGTTACATAAATATTGAATATTGTTGAAGAATCG
2768265 GG
66 GG
2768267 TAATCATTTCCTTTACTTTTTTTATTATTCAAGTTACATAAATATTGAATATTGTTGAAGAATCG
1 TAATCATTTCCTTTACTTTTTTTATTATTCAAGTTACATAAATATTGAATATTGTTGAAGAATCG
2768332 GG
66 GG
2768334 TAA
1 TAA
2768337 AGAAAATGAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (67 bp):
TAATCATTTCCTTTACTTTTTTTATTATTCAAGTTACATAAATATTGAATATTGTTGAAGAATCG
GG
Found at i:2768529 original size:2 final size:2
Alignment explanation
Indices: 2768522--2768548 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2768512 AAATAAGTGC
2768522 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2768549 ACTACATCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2779113 original size:18 final size:18
Alignment explanation
Indices: 2779090--2779129 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
2779080 CACTCTTAGC
2779090 AACTTAGAATCACTAGGT
1 AACTTAGAATCACTAGGT
2779108 AACTTAGAATCACTAGGT
1 AACTTAGAATCACTAGGT
2779126 AACT
1 AACT
2779130 CACTTATAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (18 bp):
AACTTAGAATCACTAGGT
Found at i:2787186 original size:39 final size:39
Alignment explanation
Indices: 2787132--2787209 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
2787122 CCTCAACTTG
2787132 CATGCACAAGATCAAAATTGTAAAAGGAGCAAAGCCATC
1 CATGCACAAGATCAAAATTGTAAAAGGAGCAAAGCCATC
2787171 CATGCACAAGATCAAAATTGTAAAAGGAGCAAAGCCATC
1 CATGCACAAGATCAAAATTGTAAAAGGAGCAAAGCCATC
2787210 ACGAGAAGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.46, C:0.21, G:0.18, T:0.15
Consensus pattern (39 bp):
CATGCACAAGATCAAAATTGTAAAAGGAGCAAAGCCATC
Found at i:2789948 original size:5 final size:5
Alignment explanation
Indices: 2789938--2789982 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
2789928 TATTCATTCG
**
2789938 TTTAT TTTAT TTTAT TTTAT CGTAT GCTTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT --TTTAT TTTAT TTTAT TTT
2789983 TCTCTGAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
5 31 0.91
7 3 0.09
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:2795244 original size:82 final size:83
Alignment explanation
Indices: 2795107--2795265 Score: 203
Period size: 82 Copynumber: 1.9 Consensus size: 83
2795097 AATAATATTA
* * *
2795107 ATATATAGAGGCGTTTATTCAACAAATGTCGCAGCAAAGTAGTACTTTAGCGGCATTGTTAGACA
1 ATATATAGAGGCATTTATTCAACAAATGTCGCAGCAAAGTAGTAATTTAGAGGCATTGTTAGACA
* *
2795172 AATGCCTCAATAGGTTTC
66 AACGCCGCAATAGGTTTC
* * * ** * *
2795190 ATATATAGTGGCATTT-TTCACCAAATGTCGCATCGGAGTAGTAATTTAGAGGCATTTTTATACA
1 ATATATAGAGGCATTTATTCAACAAATGTCGCAGCAAAGTAGTAATTTAGAGGCATTGTTAGACA
2795254 AACGCCGCAATA
66 AACGCCGCAATA
2795266 AGTAAAATTT
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
82 50 0.78
83 14 0.22
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (83 bp):
ATATATAGAGGCATTTATTCAACAAATGTCGCAGCAAAGTAGTAATTTAGAGGCATTGTTAGACA
AACGCCGCAATAGGTTTC
Found at i:2797811 original size:43 final size:41
Alignment explanation
Indices: 2797749--2797944 Score: 176
Period size: 44 Copynumber: 4.5 Consensus size: 41
2797739 AAGTGGCTAT
* *
2797749 CTTGTTGTTTAGTTATATTTGGATCGGCATAGAAGGGATATCA
1 CTTGTCGTTTAGTTATATTTGGATCGGC-TAGATGGGAT-TCA
* *
2797792 CTTGTCGTTTAGTTGTATTTGGATCGGCCAGATGCGGATTCA
1 CTTGTCGTTTAGTTATATTTGGATCGGCTAGATG-GGATTCA
* * * * *
2797834 CTTGTCATTTAGTTATATTTAGATTGCCTTAGATGGGGTTTGCA
1 CTTGTCGTTTAGTTATATTTGGATCGGC-TAGAT-GGGATT-CA
* * *
2797878 CTTGTCGTTTAGTTATATTTGGACCGACTTAGATGGGAAAATCA
1 CTTGTCGTTTAGTTATATTTGGATCGGC-TAGATGGG--ATTCA
* *
2797922 CTCGTTGTTTAGTTAATATTTGG
1 CTTGTCGTTTAGTT-ATATTTGG
2797945 GTTGACTTAG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
42 30 0.24
43 41 0.33
44 46 0.37
45 9 0.07
ACGTcount: A:0.22, C:0.12, G:0.24, T:0.41
Consensus pattern (41 bp):
CTTGTCGTTTAGTTATATTTGGATCGGCTAGATGGGATTCA
Found at i:2797909 original size:44 final size:43
Alignment explanation
Indices: 2797749--2797914 Score: 181
Period size: 43 Copynumber: 3.9 Consensus size: 43
2797739 AAGTGGCTAT
* * * * *
2797749 CTTGTTGTTTAGTTATATTTGGATCGGCATAGAAGGGATATCA
1 CTTGTCGTTTAGTTATATTTGGATCGGCTTAGATGGGGTTTCA
* * * *
2797792 CTTGTCGTTTAGTTGTATTTGGATCGGC-CAGATGCGGATTCA
1 CTTGTCGTTTAGTTATATTTGGATCGGCTTAGATGGGGTTTCA
* * * *
2797834 CTTGTCATTTAGTTATATTTAGATTGCCTTAGATGGGGTTTGCA
1 CTTGTCGTTTAGTTATATTTGGATCGGCTTAGATGGGGTTT-CA
* *
2797878 CTTGTCGTTTAGTTATATTTGGACCGACTTAGATGGG
1 CTTGTCGTTTAGTTATATTTGGATCGGCTTAGATGGG
2797915 AAAATCACTC
Statistics
Matches: 100, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
42 31 0.31
43 35 0.35
44 34 0.34
ACGTcount: A:0.20, C:0.13, G:0.26, T:0.41
Consensus pattern (43 bp):
CTTGTCGTTTAGTTATATTTGGATCGGCTTAGATGGGGTTTCA
Found at i:2798278 original size:18 final size:19
Alignment explanation
Indices: 2798255--2798291 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
2798245 CTATTAACAC
2798255 AGTAAAATGT-CCGTTCTT
1 AGTAAAATGTCCCGTTCTT
2798273 AGTAAAATGTCCCGTTCTT
1 AGTAAAATGTCCCGTTCTT
2798292 CTTCGTGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (19 bp):
AGTAAAATGTCCCGTTCTT
Found at i:2798754 original size:45 final size:45
Alignment explanation
Indices: 2798690--2798775 Score: 163
Period size: 45 Copynumber: 1.9 Consensus size: 45
2798680 AAGGTTTATA
2798690 AATAAATTATAGATCATATCTATACCAATATACAACTATAATGAT
1 AATAAATTATAGATCATATCTATACCAATATACAACTATAATGAT
*
2798735 AATAAATTATTGATCATATCTATACCAATATACAACTATAA
1 AATAAATTATAGATCATATCTATACCAATATACAACTATAA
2798776 ATAAATTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.34
Consensus pattern (45 bp):
AATAAATTATAGATCATATCTATACCAATATACAACTATAATGAT
Found at i:2798786 original size:45 final size:43
Alignment explanation
Indices: 2798687--2798786 Score: 155
Period size: 45 Copynumber: 2.2 Consensus size: 43
2798677 TAGAAGGTTT
2798687 ATAAATAAATTATAGATCATATCTATACCAATATACAACTATA
1 ATAAATAAATTATAGATCATATCTATACCAATATACAACTATA
*
2798730 ATGATAATAAATTATTGATCATATCTATACCAATATACAACTATAA
1 AT-A-AATAAATTATAGATCATATCTATACCAATATACAACTAT-A
2798776 ATAAATTAAAT
1 ATAAA-TAAAT
2798787 GGTATAAATA
Statistics
Matches: 52, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
43 2 0.04
44 3 0.06
45 44 0.85
46 3 0.06
ACGTcount: A:0.51, C:0.12, G:0.03, T:0.34
Consensus pattern (43 bp):
ATAAATAAATTATAGATCATATCTATACCAATATACAACTATA
Found at i:2804568 original size:42 final size:42
Alignment explanation
Indices: 2804499--2804579 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
2804489 TTATTTAGGG
* *
2804499 GAAGGGATCGATCATTTTCAACGAGGGATTGATCCTTTTGGT
1 GAAGCGATCGATCATTTTCAACGAGGGATCGATCCTTTTGGT
** *
2804541 GAAGCGATCGATCATTTTCTTCTAGGGATCGATCCTTTT
1 GAAGCGATCGATCATTTTCAACGAGGGATCGATCCTTTT
2804580 TTTAAGGGAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (42 bp):
GAAGCGATCGATCATTTTCAACGAGGGATCGATCCTTTTGGT
Found at i:2804570 original size:21 final size:21
Alignment explanation
Indices: 2804500--2804579 Score: 61
Period size: 21 Copynumber: 3.8 Consensus size: 21
2804490 TATTTAGGGG
*
2804500 AAGGGATCGATCATTTTCAAC
1 AAGGGATCGATCATTTTCATC
* * * ** *
2804521 GAGGGATTGATCCTTTTGGTG
1 AAGGGATCGATCATTTTCATC
* *
2804542 AAGCGATCGATCATTTTCTTC
1 AAGGGATCGATCATTTTCATC
* *
2804563 TAGGGATCGATCCTTTT
1 AAGGGATCGATCATTTT
2804580 TTTAAGGGAC
Statistics
Matches: 42, Mismatches: 17, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (21 bp):
AAGGGATCGATCATTTTCATC
Found at i:2805154 original size:66 final size:65
Alignment explanation
Indices: 2805029--2805158 Score: 208
Period size: 67 Copynumber: 2.0 Consensus size: 65
2805019 TTTGAAAAAA
2805029 TGTTTTTGAAAATGCTCTCCATTTGAAAATAATAAAACAATTTGAGAATTTCTGAAAAATTTTAT
1 TGTTTTTGAAAATGCTCTCCATTTGAAAATAATAAAACAATTTGAGAATTTCTGAAAAATTTTAT
* * *
2805094 TGTTTTTGAAAAATGCTCTCCCTTTGAAAAATAATAAAATAATTTGAGAATTTGTG-AAAATTTT
1 TGTTTTTG-AAAATGCTCTCCATTTG-AAAATAATAAAACAATTTGAGAATTTCTGAAAAATTTT
2805158 A
64 A
2805159 AGATCCAATT
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
65 8 0.13
66 25 0.42
67 27 0.45
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (65 bp):
TGTTTTTGAAAATGCTCTCCATTTGAAAATAATAAAACAATTTGAGAATTTCTGAAAAATTTTAT
Found at i:2805446 original size:27 final size:26
Alignment explanation
Indices: 2805387--2805449 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 26
2805377 AGTCATAAAA
*
2805387 ATCCAAATAACCAAAAAAATATTCAAG
1 ATCCAAAT-ACCAAAAAAACATTCAAG
2805414 -TACCAAATACCAAATAAAACA-TCAAAG
1 AT-CCAAATACCAAA-AAAACATTC-AAG
2805441 ATCCAAATA
1 ATCCAAATA
2805450 TTATAAATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
26 9 0.29
27 21 0.68
28 1 0.03
ACGTcount: A:0.59, C:0.21, G:0.03, T:0.17
Consensus pattern (26 bp):
ATCCAAATACCAAAAAAACATTCAAG
Found at i:2806621 original size:31 final size:31
Alignment explanation
Indices: 2806580--2806645 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
2806570 GCAACTTGAG
*
2806580 GGTTGCTTGAGGATTGTCCCTTTAAAGCCAT
1 GGTTGCTTGAGGATTATCCCTTTAAAGCCAT
*
2806611 GGTTGTTTGAGGATTATCCCTTTAAAGCCAT
1 GGTTGCTTGAGGATTATCCCTTTAAAGCCAT
2806642 GGTT
1 GGTT
2806646 TTTCTTCTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.38
Consensus pattern (31 bp):
GGTTGCTTGAGGATTATCCCTTTAAAGCCAT
Found at i:2808262 original size:20 final size:20
Alignment explanation
Indices: 2808226--2808263 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2808216 TCTAAATCAT
*
2808226 TTTTCAAAATTTTATTTTGA
1 TTTTCAAAATTTAATTTTGA
2808246 TTTTC-AAATTCTAATTTT
1 TTTTCAAAATT-TAATTTT
2808264 TCTTTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTTCAAAATTTAATTTTGA
Found at i:2809517 original size:21 final size:21
Alignment explanation
Indices: 2809493--2809547 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
2809483 AATGCACAAG
*
2809493 GGATCAATCCTTT-GTTGAAAA
1 GGATCAATCCTTTAG-GGAAAA
* * *
2809514 GGATCGATACTTTAGGGAAAG
1 GGATCAATCCTTTAGGGAAAA
2809535 GGATCAATCCTTT
1 GGATCAATCCTTT
2809548 TCATCGAGGG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (21 bp):
GGATCAATCCTTTAGGGAAAA
Found at i:2809557 original size:21 final size:21
Alignment explanation
Indices: 2809533--2809607 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
2809523 CTTTAGGGAA
2809533 AGGGATCAATCCTTTTCATCG
1 AGGGATCAATCCTTTTCATCG
* *
2809554 AGGGATCGATCCTTTTGGA--G
1 AGGGATCAATCCTTTT-CATCG
* *
2809574 AAGGGATTAATCCTTTTCCTCG
1 -AGGGATCAATCCTTTTCATCG
*
2809596 GGGGATCAATCC
1 AGGGATCAATCC
2809608 AAAACCTATT
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
20 1 0.02
21 39 0.93
22 2 0.05
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (21 bp):
AGGGATCAATCCTTTTCATCG
Found at i:2809560 original size:42 final size:42
Alignment explanation
Indices: 2809514--2809602 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
2809504 TTGTTGAAAA
2809514 GGATCGATACTTTAGGGA-AAGGGATCAATCCTTTTCATCGAG
1 GGATCGATACTTT-GGGAGAAGGGATCAATCCTTTTCATCGAG
* * * * *
2809556 GGATCGATCCTTTTGGAGAAGGGATTAATCCTTTTCCTCGGG
1 GGATCGATACTTTGGGAGAAGGGATCAATCCTTTTCATCGAG
2809598 GGATC
1 GGATC
2809603 AATCCAAAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
41 3 0.07
42 38 0.93
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (42 bp):
GGATCGATACTTTGGGAGAAGGGATCAATCCTTTTCATCGAG
Found at i:2814665 original size:21 final size:21
Alignment explanation
Indices: 2814639--2814680 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2814629 CCACGATAGG
2814639 GGGTATC-AGTACCCCTTCATA
1 GGGTATCGA-TACCCCTTCATA
*
2814660 GGGTATCGATACTCCTTCATA
1 GGGTATCGATACCCCTTCATA
2814681 AAATTCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (21 bp):
GGGTATCGATACCCCTTCATA
Found at i:2814758 original size:17 final size:18
Alignment explanation
Indices: 2814710--2814762 Score: 72
Period size: 17 Copynumber: 3.0 Consensus size: 18
2814700 CGTTGCAGCC
*
2814710 AGGGGGTATAGATACCCT
1 AGGGGGTATAGATACCAT
* *
2814728 AGGAGGTATCGATACCAT
1 AGGGGGTATAGATACCAT
2814746 -GGGGGTATAGATACCAT
1 AGGGGGTATAGATACCAT
2814763 CCGAGCAATC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 15 0.50
18 15 0.50
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.23
Consensus pattern (18 bp):
AGGGGGTATAGATACCAT
Found at i:2818262 original size:17 final size:17
Alignment explanation
Indices: 2818205--2818271 Score: 66
Period size: 17 Copynumber: 4.0 Consensus size: 17
2818195 TTGTAGTCAG
*
2818205 GGGGGTATAGATACCCT
1 GGGGGTATAGATACCAT
* * *
2818222 AGGTGGTATCGATATCAT
1 -GGGGGTATAGATACCAT
*
2818240 --GGGTATCGATACCAT
1 GGGGGTATAGATACCAT
2818255 GGGGGTATAGATACCAT
1 GGGGGTATAGATACCAT
2818272 CCGAGCAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
15 13 0.32
17 14 0.35
18 13 0.32
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (17 bp):
GGGGGTATAGATACCAT
Found at i:2818685 original size:54 final size:54
Alignment explanation
Indices: 2818577--2818691 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 54
2818567 GCACCGAAGG
* *
2818577 GCCGAAATGGAAATTCACAAACTCATTATGAATTCCATGGATTGCACACATAGT
1 GCCGAAATGGAAATTCACAAACACATTATGAATACCATGGATTGCACACATAGT
* ** * * **
2818631 GCTGAAATGGTTATTCATAAACACATTATGAATACCATGGGTTGCACATTTAGT
1 GCCGAAATGGAAATTCACAAACACATTATGAATACCATGGATTGCACACATAGT
2818685 GCCGAAA
1 GCCGAAA
2818692 ATGCATCATT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (54 bp):
GCCGAAATGGAAATTCACAAACACATTATGAATACCATGGATTGCACACATAGT
Done.