Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_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: 7920512
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 39
Found at i:1290541 original size:6 final size:6
Alignment explanation
Indices: 1290447--1290541 Score: 64
Period size: 6 Copynumber: 15.3 Consensus size: 6
1290437 GTTTGGATCA
* * * * * *
1290447 TCATCT TCATCA TCATCA TCATCGT CATCATCT TCATCG CCAGCT TCATCG
1 TCATCT TCATCT TCATCT TCATC-T --TCATCT TCATCT TCATCT TCATCT
* * * * *
1290498 TCATCA TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
1290542 TGCGACCGAT
Statistics
Matches: 70, Mismatches: 16, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
6 64 0.91
8 1 0.01
9 5 0.07
ACGTcount: A:0.21, C:0.35, G:0.07, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:1292929 original size:199 final size:199
Alignment explanation
Indices: 1291998--1293421 Score: 2645
Period size: 199 Copynumber: 7.1 Consensus size: 199
1291988 TTTAAATTAG
* *
1291998 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1292063 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
1292128 CGACACTTTTTAAATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
1292193 AAAA
196 AAAA
1292197 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
1292262 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1292327 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCT-GGAA
1292392 AAAAAA
194 AAAAAA
1292398 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1292463 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
1292528 CGACACTTTTTTATATATGGATCGACACTTTATGGGTACACCTTGTTTTTAATTCATTCTGGGAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCT-GGAA
1292593 AAAAAA
194 AAAAAA
1292599 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1292664 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1292729 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
1292794 AAAA
196 AAAA
1292798 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
1292863 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1292928 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
1292993 AAAA
196 AAAA
*
1292997 TATCGACACAAACTATATTAGTATCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
* *
1293062 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGTTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1293127 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
1293191 AAAA
196 AAAA
*
1293195 TATCCACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
1293260 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1293324 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
1293389 AAAA
196 AAAA
*
1293393 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
1293422 TGACCCTTAA
Statistics
Matches: 1198, Mismatches: 24, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
197 68 0.06
198 157 0.13
199 527 0.44
200 102 0.09
201 344 0.29
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
AAAA
Found at i:1293528 original size:19 final size:19
Alignment explanation
Indices: 1293501--1293545 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
1293491 ATTCACATAA
*
1293501 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
1293520 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
1293539 AAAATTA
1 AAAATTA
1293546 ACTCGACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:1295370 original size:33 final size:33
Alignment explanation
Indices: 1295333--1295398 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1295323 CATCTTAATA
*
1295333 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
1295366 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
1295399 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:1297538 original size:24 final size:24
Alignment explanation
Indices: 1297501--1297553 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1297491 CCGTTCTATC
1297501 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
1297525 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
1297549 TATTT
1 TATTT
1297554 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:1297744 original size:20 final size:19
Alignment explanation
Indices: 1297698--1297744 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
1297688 TCCGGTATCA
*
1297698 TTTTACCGTTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
1297717 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
1297738 TTTTACC
1 TTTTACC
1297745 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:1297892 original size:20 final size:20
Alignment explanation
Indices: 1297866--1297911 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
1297856 CACTTTTAAA
1297866 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
1297885 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
1297906 TTTACC
1 TTTACC
1297912 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:1300948 original size:16 final size:16
Alignment explanation
Indices: 1300929--1300962 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1300919 AAATAGAGTG
1300929 AAGAGCTCTTAATAAT
1 AAGAGCTCTTAATAAT
1300945 AAGAGCTCTTAATAAT
1 AAGAGCTCTTAATAAT
1300961 AA
1 AA
1300963 TAGAGACTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (16 bp):
AAGAGCTCTTAATAAT
Found at i:1306209 original size:20 final size:21
Alignment explanation
Indices: 1306172--1306210 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1306162 AAATATATTT
1306172 TTAAATATATTATTTACATAA
1 TTAAATATATTATTTACATAA
1306193 TTAAATATATT-TTTACAT
1 TTAAATATATTATTTACAT
1306211 GTTCTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAAATATATTATTTACATAA
Found at i:1306888 original size:7 final size:7
Alignment explanation
Indices: 1306876--1306916 Score: 75
Period size: 7 Copynumber: 6.0 Consensus size: 7
1306866 AATGTGGTTT
1306876 GGAAGGG
1 GGAAGGG
1306883 GGAAGGG
1 GGAAGGG
1306890 GGAAGGG
1 GGAAGGG
1306897 GGAAGGG
1 GGAAGGG
1306904 GGAA-GG
1 GGAAGGG
1306910 GGAAGGG
1 GGAAGGG
1306917 TGGTATCTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.18
7 27 0.82
ACGTcount: A:0.29, C:0.00, G:0.71, T:0.00
Consensus pattern (7 bp):
GGAAGGG
Found at i:1312062 original size:23 final size:23
Alignment explanation
Indices: 1312033--1312152 Score: 66
Period size: 23 Copynumber: 5.2 Consensus size: 23
1312023 CTACGCGTCT
1312033 TTCGGGAAAATTCTACGTGGTCC
1 TTCGGGAAAATTCTACGTGGTCC
* * * *
1312056 TTCGGGATATTTAATAC--GGTCA
1 TTCGGGAAAATT-CTACGTGGTCC
* * * *
1312078 TTCAGGATAATACTATGTGGTCC
1 TTCGGGAAAATTCTACGTGGTCC
* * * *
1312101 TTCGGGACATTTCTATGTGGTAC
1 TTCGGGAAAATTCTACGTGGTCC
* *
1312124 TTTGGTGCAAATTCTACGTGG-CAC
1 TTCGG-GAAAATTCTACGTGGTC-C
1312148 TTCGG
1 TTCGG
1312153 TGTAATTTAT
Statistics
Matches: 70, Mismatches: 22, Indels: 9
0.69 0.22 0.09
Matches are distributed among these distances:
21 2 0.03
22 13 0.19
23 36 0.51
24 19 0.27
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (23 bp):
TTCGGGAAAATTCTACGTGGTCC
Found at i:1313988 original size:24 final size:26
Alignment explanation
Indices: 1313961--1314021 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 26
1313951 ATATATATAT
*
1313961 ATAATATTAATA-A-ATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
1313985 ATAA-A-AAATATATATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
*
1314009 AT-ATATATATATA
1 ATAATATAAATATA
1314022 CCCGACCCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
22 4 0.13
23 3 0.10
24 18 0.58
25 6 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
ATAATATAAATATATATTTAATTTAA
Found at i:1314003 original size:19 final size:19
Alignment explanation
Indices: 1313979--1314018 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1313969 AATAAATTTA
1313979 ATTTAAATAAAAAATATAT
1 ATTTAAATAAAAAATATAT
* * *
1313998 ATTTAATTTAAATATATAT
1 ATTTAAATAAAAAATATAT
1314017 AT
1 AT
1314019 ATACCCGACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATAAAAAATATAT
Found at i:1314063 original size:12 final size:12
Alignment explanation
Indices: 1314019--1314082 Score: 69
Period size: 12 Copynumber: 5.4 Consensus size: 12
1314009 ATATATATAT
*
1314019 ATACCCGACCCG
1 ATACCCGACCCA
*
1314031 ATTCCC-AGCCCA
1 ATACCCGA-CCCA
1314043 ATA-CCGACCCA
1 ATACCCGACCCA
1314054 ATACCCGACCCA
1 ATACCCGACCCA
* *
1314066 ATACCTGGCCCA
1 ATACCCGACCCA
1314078 ATACC
1 ATACC
1314083 AGTTTAAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
11 10 0.23
12 34 0.77
ACGTcount: A:0.30, C:0.47, G:0.11, T:0.12
Consensus pattern (12 bp):
ATACCCGACCCA
Found at i:1330171 original size:106 final size:106
Alignment explanation
Indices: 1329938--1330369 Score: 636
Period size: 106 Copynumber: 4.0 Consensus size: 106
1329928 ATATCGCGCC
* * * * *
1329938 ACTCGAGACAACACAAGTTCAACTTCACGACGAAGGGACAACTGGTTGTCAATAAACCACTTT-T
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACAAA-CAATTTCC
*
1330002 CAGTTTCATTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGG
65 CAG--T--TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
1330048 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACAAACAATTTCCT
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACAAACAATTTCCC
* *
1330113 AATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGG
66 AGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
1330154 ACTCGAGACAACACAAGTTCAATTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACAAACAATTTCCC
*
1330219 AGTTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
1330260 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGAC-GACTGGTTGTCAACAAACAATTTCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACAG-CTGGTTGTCAACAAACAATTTCC
* *
1330324 CAGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
65 CAGTTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
1330366 ACTC
1 ACTC
1330370 AGAACAGTAC
Statistics
Matches: 296, Mismatches: 23, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
105 1 0.00
106 236 0.80
108 1 0.00
109 5 0.02
110 53 0.18
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACAAACAATTTCCC
AGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:1331718 original size:12 final size:12
Alignment explanation
Indices: 1331703--1331736 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
1331693 AATTTAACCC
1331703 TTTATTTATTAT
1 TTTATTTATTAT
1331715 TTTATTTATTAT
1 TTTATTTATTAT
*
1331727 TTTTTTTATT
1 TTTATTTATT
1331737 TCTATTATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTATTTATTAT
Found at i:1331922 original size:2 final size:2
Alignment explanation
Indices: 1331911--1331958 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
1331901 ATTTCATTAC
1331911 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1331952 AT AT AT A
1 AT AT AT A
1331959 CACTACCAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1335099 original size:23 final size:23
Alignment explanation
Indices: 1335068--1335148 Score: 63
Period size: 23 Copynumber: 3.5 Consensus size: 23
1335058 TCGAGGTTTT
* *
1335068 TACGAGGTCCTTTAGGATAATTC
1 TACGTGGTCCTTTAGGAAAATTC
* * *
1335091 TACGTGGTCCTTTGGGACATTTC
1 TACGTGGTCCTTTAGGAAAATTC
** * * *
1335114 TACACGGTCCTTCAAGAAAATAC
1 TACGTGGTCCTTTAGGAAAATTC
*
1335137 TATGTGGTCCTT
1 TACGTGGTCCTT
1335149 CGGGACATTT
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (23 bp):
TACGTGGTCCTTTAGGAAAATTC
Found at i:1335165 original size:23 final size:23
Alignment explanation
Indices: 1335088--1335161 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
1335078 TTTAGGATAA
*
1335088 TTCTACGTGGTCCTTTGGGACAT
1 TTCTACGTGGTCCTTCGGGACAT
** ** * *
1335111 TTCTACACGGTCCTTCAAGAAAA
1 TTCTACGTGGTCCTTCGGGACAT
* *
1335134 TACTATGTGGTCCTTCGGGACAT
1 TTCTACGTGGTCCTTCGGGACAT
1335157 TTCTA
1 TTCTA
1335162 TGTGCACTTT
Statistics
Matches: 35, Mismatches: 16, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCGGGACAT
Found at i:1335210 original size:24 final size:24
Alignment explanation
Indices: 1335165--1335210 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
1335155 ATTTCTATGT
* * *
1335165 GCACTTTGGTGTAAATTCTACGTG
1 GCACTTCGGTGCAAATTATACGTG
*
1335189 GCACTTCGGTGCAATTTATACG
1 GCACTTCGGTGCAAATTATACG
1335211 AGATGTGGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (24 bp):
GCACTTCGGTGCAAATTATACGTG
Found at i:1336442 original size:37 final size:37
Alignment explanation
Indices: 1336392--1337294 Score: 228
Period size: 38 Copynumber: 24.6 Consensus size: 37
1336382 AAGAGGAACT
* * *
1336392 ATCTCAGGTGAGATAAATTTTGTTTCGAGTGAAAACT
1 ATCTCAAGTGAGATAAATTTTGTTTCAAGTGAAAACA
* * * * * *
1336429 GTCTTAAGTGAGATGAAGTTTGTTTTAAG-AAAAACA
1 ATCTCAAGTGAGATAAATTTTGTTTCAAGTGAAAACA
1336465 ATCTCAAGTGAGATAAAATTCTTGTTTCAAGTG-AAACA
1 ATCTCAAGTGAGAT-AAATT-TTGTTTCAAGTGAAAACA
* * * * *
1336503 ATTTC-A---A-AT---TTTATATTTCATG-GGAAACT
1 ATCTCAAGTGAGATAAATTT-TGTTTCAAGTGAAAACA
* * * * *
1336532 TTCTCAAGCGAGATGAAATTTTCTTT-AAG-AAAAATA
1 ATCTCAAGTGAGAT-AAATTTTGTTTCAAGTGAAAACA
* * * * **
1336568 ATCTTGAA-TGAAATGAAATTTCTTGTTTCGAGTAAAAATT
1 ATC-TCAAGTGAGAT-AAA-TT-TTGTTTCAAGTGAAAACA
* * * * * *
1336608 GTCTAAAATGAGACAAAGTTTGTTTTAA--GAATAACA
1 ATCTCAAGTGAGATAAATTTTGTTTCAAGTGAA-AACA
* ** * *
1336644 ATCTCAAGTGACAT-TTTTTTGGTTT-GAGTGAAAACC
1 ATCTCAAGTGAGATAAATTTT-GTTTCAAGTGAAAACA
* * ** * * * *
1336680 GTCTCAAGCGAGACGAAGTTTATTTTAAG-AAAAACA
1 ATCTCAAGTGAGATAAATTTTGTTTCAAGTGAAAACA
* * * ** *
1336716 ATCTCATGTGAGAAACAAATTCTGTTTTGAGTGAAAACT
1 ATCTCAAGTGAG--ATAAATTTTGTTTCAAGTGAAAACA
* * * * * *
1336755 ACCTCAAGCGAGATAAGTTCT-TTT-AAG-AAAAACC
1 ATCTCAAGTGAGATAAATTTTGTTTCAAGTGAAAACA
* *
1336789 ATCTCAAGTGAGATAAAATTTATGTTTCGAGTGAAAACG
1 ATCTCAAGTGAGAT-AAATTT-TGTTTCAAGTGAAAACA
* * * *
1336828 GTCTCAAGCGAGATAAA-TTTGTTTTAAG-AAAAACA
1 ATCTCAAGTGAGATAAATTTTGTTTCAAGTGAAAACA
* * *
1336863 ATCTCAAGTGAGATAAAATTTCTGTTTCGAGTG-GAACT
1 ATCTCAAGTGAGAT-AAATTT-TGTTTCAAGTGAAAACA
* * * * *
1336901 ATCTCAAGCGAGATAAAACATTTGCTTCGAGTG-AAACT
1 ATCTCAAGTGAGAT-AAA-TTTTGTTTCAAGTGAAAACA
** * * * **
1336939 ATCTCAAGCAAGATGAATATTGTTTTAAGAAAAAACA
1 ATCTCAAGTGAGATAAATTTTGTTTCAAGTGAAAACA
* * * **
1336976 ATCTCAAGTGAGATAAAATTTCTATTTCGATTG-AAATT
1 ATCTCAAGTGAGAT-AAATTT-TGTTTCAAGTGAAAACA
* * *
1337014 ATCTCAAATGAGATAAGATTTT-TACTTCGAGTG-AAACT
1 ATCTCAAGTGAGATAA-ATTTTGT--TTCAAGTGAAAACA
* * * * *
1337052 ATCTCAAGCGAGATGAATCTTGTTTTAAG-AAAAACA
1 ATCTCAAGTGAGATAAATTTTGTTTCAAGTGAAAACA
* * * * *
1337088 ATCTTAAGTGAGATAAAATTTCGTATT-AAATG-AGACT
1 ATCTCAAGTGAGAT-AAATTTTGT-TTCAAGTGAAAACA
* * * * * *
1337125 GTCTCAAGCGATATAAAACTTTT-TCTTCTACTG-AAACT
1 ATCTCAAGTGAGAT-AAA-TTTTGT-TTCAAGTGAAAACA
* * * * *
1337163 ATCTCAAGCGAGATGAATATTGTTTTAAG-AAAAACA
1 ATCTCAAGTGAGATAAATTTTGTTTCAAGTGAAAACA
* * *
1337199 ATCTCAAGTGGGATAAAATTTATGTTTCGAGTG-AAACT
1 ATCTCAAGTGAGAT-AAATTT-TGTTTCAAGTGAAAACA
* * *
1337237 ATCTCAAGCGAGATGAAA-CTTGTTTTAA--GAAAACCA
1 ATCTCAAGTGAGAT-AAATTTTGTTTCAAGTGAAAA-CA
1337273 ATCTCAAGTGAGATAAAATTTT
1 ATCTCAAGTGAGAT-AAATTTT
1337295 TGTATTAAAT
Statistics
Matches: 621, Mismatches: 185, Indels: 120
0.67 0.20 0.13
Matches are distributed among these distances:
28 2 0.00
29 16 0.03
30 1 0.00
33 3 0.00
34 21 0.03
35 32 0.05
36 164 0.26
37 127 0.20
38 197 0.32
39 46 0.07
40 12 0.02
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.32
Consensus pattern (37 bp):
ATCTCAAGTGAGATAAATTTTGTTTCAAGTGAAAACA
Found at i:1336502 original size:38 final size:36
Alignment explanation
Indices: 1336374--1336509 Score: 110
Period size: 37 Copynumber: 3.7 Consensus size: 36
1336364 TGAAAAGAAA
* * * * *
1336374 TTTGTTTGAAGAGGAACTATCTCAGGTGAGATAAAT
1 TTTGTTTCAAGTGAAACAATCTCAAGTGAGATAAAT
* ** * * *
1336410 TTTGTTTCGAGTGAAAACTGTCTTAAGTGAGATGAAG
1 TTTGTTTCAAGTG-AAACAATCTCAAGTGAGATAAAT
* **
1336447 TTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAAT
1 TTTGTTTCAAGTGAAACAATCTCAAGTGAGAT-AAAT
*
1336484 TCTTGTTTCAAGTGAAACAATTTCAA
1 T-TTGTTTCAAGTGAAACAATCTCAA
1336510 ATTTTATATT
Statistics
Matches: 75, Mismatches: 22, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
36 26 0.35
37 29 0.39
38 20 0.27
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.35
Consensus pattern (36 bp):
TTTGTTTCAAGTGAAACAATCTCAAGTGAGATAAAT
Found at i:1336800 original size:73 final size:73
Alignment explanation
Indices: 1336527--1336916 Score: 326
Period size: 73 Copynumber: 5.3 Consensus size: 73
1336517 ATTTCATGGG
* * * * * * *
1336527 AAACTTTCTCAAGCGAGATGAAATTTTCTTTAAGAAAAATAATCTTGAA-TGAAATGAAATTTCT
1 AAACTATCTCAAGCGAGAT-AAGTTAT-TTTAAGAAAAACAATC-TCAAGTGAGATAAAATTTC-
*
1336591 TGTTTCGAGTAA
62 TGTTTCGAGTGA
* * * ** * * * * * *
1336603 AAATTGTCTAAAATGAGACAAAGTTTGTTTTAAGAATAACAATCTCAAGTGACAT---TTTTTTG
1 AAACTATCTCAAGCGAGA-TAAG-TTATTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCT-
1336665 GTTT-GAGTGA
63 GTTTCGAGTGA
** * * *
1336675 AAACCGTCTCAAGCGAGACGAAGTTTATTTTAAGAAAAACAATCTCATGTGAGA-AACAAATTCT
1 AAACTATCTCAAGCGAGA-TAAG-TTATTTTAAGAAAAACAATCTCAAGTGAGATAA-AATTTCT
*
1336739 GTTTTGAGTGA
63 GTTTCGAGTGA
* * * *
1336750 AAACTACCTCAAGCGAGATAAGTTCTTTTAAGAAAAACCATCTCAAGTGAGATAAAATTTATGTT
1 AAACTATCTCAAGCGAGATAAGTTATTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTGTT
1336815 TCGAGTGA
66 TCGAGTGA
** * *
1336823 AAACGGTCTCAAGCGAGATAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTGT
1 AAACTATCTCAAGCGAGAT-AAGTTATTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTGT
1336888 TTCGAGTG-
65 TTCGAGTGA
*
1336896 GAACTATCTCAAGCGAGATAA
1 AAACTATCTCAAGCGAGATAA
1336917 AACATTTGCT
Statistics
Matches: 255, Mismatches: 48, Indels: 26
0.78 0.15 0.08
Matches are distributed among these distances:
72 52 0.20
73 81 0.32
74 58 0.23
75 27 0.11
76 34 0.13
77 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (73 bp):
AAACTATCTCAAGCGAGATAAGTTATTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTGTT
TCGAGTGA
Found at i:1336905 original size:38 final size:37
Alignment explanation
Indices: 1336732--1337294 Score: 288
Period size: 38 Copynumber: 15.2 Consensus size: 37
1336722 TGTGAGAAAC
* * *
1336732 AAATTCTGTTTTGAGTGAAAACTACCTCAAGCGAGAT-
1 AAATTTTGTTTCGAGTG-AAACTATCTCAAGCGAGATA
* * * ** * *
1336769 AAGTTCT-TTT-AAGAAAAACCATCTCAAGTGAGATA
1 AAATTTTGTTTCGAGTGAAACTATCTCAAGCGAGATA
**
1336804 AAATTTATGTTTCGAGTGAAAACGGTCTCAAGCGAGAT-
1 AAATTT-TGTTTCGAGTG-AAACTATCTCAAGCGAGATA
** ** * *
1336842 AAA-TTTGTTTTAAGAAAAACAATCTCAAGTGAGATA
1 AAATTTTGTTTCGAGTGAAACTATCTCAAGCGAGATA
*
1336878 AAATTTCTGTTTCGAGTGGAACTATCTCAAGCGAGATA
1 AAATTT-TGTTTCGAGTGAAACTATCTCAAGCGAGATA
* * *
1336916 AAACATTTGCTTCGAGTGAAACTATCTCAAGCAAGAT-
1 AAA-TTTTGTTTCGAGTGAAACTATCTCAAGCGAGATA
* * ** ** * *
1336953 GAATATTGTTTTAAGAAAAAACAATCTCAAGTGAGATA
1 AAATTTTGTTTCGAG-TGAAACTATCTCAAGCGAGATA
* * * **
1336991 AAATTTCTATTTCGATTGAAATTATCTCAAATGAGATA
1 AAATTT-TGTTTCGAGTGAAACTATCTCAAGCGAGATA
*
1337029 AGATTTT-TACTTCGAGTGAAACTATCTCAAGCGAGAT-
1 AAATTTTGT--TTCGAGTGAAACTATCTCAAGCGAGATA
* * ** ** * * *
1337066 GAATCTTGTTTTAAGAAAAACAATCTTAAGTGAGATA
1 AAATTTTGTTTCGAGTGAAACTATCTCAAGCGAGATA
* * * * * *
1337103 AAATTTCGTATT-AAATGAGACTGTCTCAAGCGATATA
1 AAATTTTGT-TTCGAGTGAAACTATCTCAAGCGAGATA
* *
1337140 AAACTTTT-TCTTCTACTGAAACTATCTCAAGCGAGAT-
1 AAA-TTTTGT-TTCGAGTGAAACTATCTCAAGCGAGATA
* * ** ** * * *
1337177 GAATATTGTTTTAAGAAAAACAATCTCAAGTGGGATA
1 AAATTTTGTTTCGAGTGAAACTATCTCAAGCGAGATA
*
1337214 AAATTTATGTTTCGAGTGAAACTATCTCAAGCGAGATG
1 AAATTT-TGTTTCGAGTGAAACTATCTCAAGCGAGATA
* ** * * *
1337252 AAA-CTTGTTTTAAG-AAAACCAATCTCAAGTGAGATA
1 AAATTTTGTTTCGAGTGAAA-CTATCTCAAGCGAGATA
1337288 AAATTTT
1 AAATTTT
1337295 TGTATTAAAT
Statistics
Matches: 385, Mismatches: 117, Indels: 48
0.70 0.21 0.09
Matches are distributed among these distances:
34 16 0.04
35 25 0.06
36 88 0.23
37 74 0.19
38 159 0.41
39 23 0.06
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (37 bp):
AAATTTTGTTTCGAGTGAAACTATCTCAAGCGAGATA
Found at i:1337019 original size:113 final size:112
Alignment explanation
Indices: 1336784--1337257 Score: 605
Period size: 111 Copynumber: 4.2 Consensus size: 112
1336774 CTTTTAAGAA
* * * ** *
1336784 AAACCATCTCAAGTGAGATAAAA-TTTATGTTTCGAGTGAAAACGGTCTCAAGCGAGATAAAT-T
1 AAACTATCTCAAGCGAGATAAAACTTT-TGCTTCGAGTG-AAACTATCTCAAGCGAGATGAATAT
*
1336847 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTGTTTCGAGTG
64 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTATTTCGAGTG
* * *
1336896 GAACTATCTCAAGCGAGATAAAACATTTGCTTCGAGTGAAACTATCTCAAGCAAGATGAATATTG
1 AAACTATCTCAAGCGAGATAAAACTTTTGCTTCGAGTGAAACTATCTCAAGCGAGATGAATATTG
*
1336961 TTTTAAGAAAAAACAATCTCAAGTGAGATAAAATTTCTATTTCGATTG
66 TTTTAAG-AAAAACAATCTCAAGTGAGATAAAATTTCTATTTCGAGTG
* ** * * * *
1337009 AAATTATCTCAAATGAGATAAGATTTTTACTTCGAGTGAAACTATCTCAAGCGAGATGAATCTTG
1 AAACTATCTCAAGCGAGATAAAACTTTTGCTTCGAGTGAAACTATCTCAAGCGAGATGAATATTG
* * *
1337074 TTTTAAGAAAAACAATCTTAAGTGAGATAAAATTTCGTA-TT-AAATG
66 TTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTC-TATTTCGAGTG
* * * * * *
1337120 AGACTGTCTCAAGCGATATAAAACTTTTTCTTCTACTGAAACTATCTCAAGCGAGATGAATATTG
1 AAACTATCTCAAGCGAGATAAAACTTTTGCTTCGAGTGAAACTATCTCAAGCGAGATGAATATTG
* * *
1337185 TTTTAAGAAAAACAATCTCAAGTGGGATAAAATTTATGTTTCGAGTG
66 TTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTATTTCGAGTG
*
1337232 AAACTATCTCAAGCGAGATGAAACTT
1 AAACTATCTCAAGCGAGATAAAACTT
1337258 GTTTTAAGAA
Statistics
Matches: 310, Mismatches: 46, Indels: 12
0.84 0.12 0.03
Matches are distributed among these distances:
110 1 0.00
111 110 0.35
112 95 0.31
113 104 0.34
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (112 bp):
AAACTATCTCAAGCGAGATAAAACTTTTGCTTCGAGTGAAACTATCTCAAGCGAGATGAATATTG
TTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTATTTCGAGTG
Found at i:1337247 original size:74 final size:73
Alignment explanation
Indices: 1336901--1337294 Score: 296
Period size: 74 Copynumber: 5.3 Consensus size: 73
1336891 GAGTGGAACT
* * * *
1336901 ATCTCAAGCGAGATAAAACATTTGCTTCGAGTGAAACTATCTCAAGCAAGATGAATATTGTTTTA
1 ATCTCAAGTGAGATAAAA-TTTTGTTTCGAGTGAAACTATCTCAAGCGAGATGAATATTGTTTTA
1336966 AGAAAAAACA
65 AG-AAAAACA
* * * ** * *
1336976 ATCTCAAGTGAGATAAAATTTCTATTTCGATTGAAATTATCTCAAATGAGAT-AAGATTTTTACT
1 ATCTCAAGTGAGATAAAATTT-TGTTTCGAGTGAAACTATCTCAAGCGAGATGAATATTGTT--T
* ** *
1337040 TCGAGTGAAACT
63 T-AAGAAAAACA
* * * ** ** * * * * *
1337052 ATCTCAAGCGAGAT-GAATCTTGTTTTAAGAAAAACAATCTTAAGTGAGAT-AAAATTTCGTATT
1 ATCTCAAGTGAGATAAAATTTTGTTTCGAGTGAAACTATCTCAAGCGAGATGAATA-TT-GTTTT
* * *
1337115 AA-ATGAGACT
64 AAGA-AAAACA
* * * * *
1337125 GTCTCAAGCGATATAAAACTTTT-TCTTCTACTGAAACTATCTCAAGCGAGATGAATATTGTTTT
1 ATCTCAAGTGAGATAAAA-TTTTGT-TTCGAGTGAAACTATCTCAAGCGAGATGAATATTGTTTT
1337189 AAGAAAAACA
64 AAGAAAAACA
*
1337199 ATCTCAAGTGGGATAAAATTTATGTTTCGAGTGAAACTATCTCAAGCGAGATGAA-ACTTGTTTT
1 ATCTCAAGTGAGATAAAATTT-TGTTTCGAGTGAAACTATCTCAAGCGAGATGAATA-TTGTTTT
*
1337263 AAGAAAACCA
64 AAGAAAAACA
1337273 ATCTCAAGTGAGATAAAATTTT
1 ATCTCAAGTGAGATAAAATTTT
1337295 TGTATTAAAT
Statistics
Matches: 245, Mismatches: 59, Indels: 32
0.73 0.18 0.10
Matches are distributed among these distances:
73 23 0.09
74 125 0.51
75 72 0.29
76 23 0.09
77 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (73 bp):
ATCTCAAGTGAGATAAAATTTTGTTTCGAGTGAAACTATCTCAAGCGAGATGAATATTGTTTTAA
GAAAAACA
Found at i:1337335 original size:74 final size:74
Alignment explanation
Indices: 1337156--1337324 Score: 216
Period size: 74 Copynumber: 2.3 Consensus size: 74
1337146 TTTCTTCTAC
* *
1337156 TGAAACTATCTCAAGCGAGATGAATA-TTGTTTTAAGAAAAACAATCTCAAGTGGGATAAAATTT
1 TGAAACTATCTCAAGCAAGATGAA-ACTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTT
* *
1337220 ATGTTTCGAG
65 ATGTTTCAAA
* * *
1337230 TGAAACTATCTCAAGCGAGATGAAACTTGTTTTAAGAAAACCAATCTCAAGTGAGATAAAATTTT
1 TGAAACTATCTCAAGCAAGATGAAACTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTA
1337295 TGTATT-AAA
66 TGT-TTCAAA
* * *
1337304 TGAGACTGTGTCAAGCAAGAT
1 TGAAACTATCTCAAGCAAGAT
1337325 AATTTTTGTT
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
73 1 0.01
74 81 0.96
75 2 0.02
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (74 bp):
TGAAACTATCTCAAGCAAGATGAAACTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTA
TGTTTCAAA
Found at i:1337961 original size:169 final size:170
Alignment explanation
Indices: 1337682--1338020 Score: 671
Period size: 169 Copynumber: 2.0 Consensus size: 170
1337672 AAAGATTTAA
1337682 TGGGAATGTTTTGTGTAGGATCAATTAACAAAGAAGGAGGAACTAAAGGGGTAAAAGACTCTTTT
1 TGGGAATGTTTTGTGTAGGATCAATTAACAAAGAAGGAGGAACTAAAGGGGTAAAAGACTCTTTT
1337747 AATAGGGGAAATAATTAAATATTAGATGAGGATATTTAAATCCACGTTG-AGGCAAATGAAGAGA
66 AATAGGGGAAATAATTAAATATTAGATGAGGATATTTAAATCCACGTTGAAGGCAAATGAAGAGA
1337811 ACAAAAGTTTCCAGATTTCTCTTCTTCTTCACTTCTTCTT
131 ACAAAAGTTTCCAGATTTCTCTTCTTCTTCACTTCTTCTT
1337851 TGGGAATGTTTTGTGTAGGATCAATTAACAAAGAAGGAGGAACTAAAGGGGTAAAAGACTCTTTT
1 TGGGAATGTTTTGTGTAGGATCAATTAACAAAGAAGGAGGAACTAAAGGGGTAAAAGACTCTTTT
1337916 AATAGGGGAAATAATTAAATATTAGATGAGGATATTTAAATCCACGTTGAAGGCAAATGAAGAGA
66 AATAGGGGAAATAATTAAATATTAGATGAGGATATTTAAATCCACGTTGAAGGCAAATGAAGAGA
1337981 ACAAAAGTTTCCAGATTTCTCTTCTTCTTCACTTCTTCTT
131 ACAAAAGTTTCCAGATTTCTCTTCTTCTTCACTTCTTCTT
1338021 CTCCATCGAG
Statistics
Matches: 169, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
169 114 0.67
170 55 0.33
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (170 bp):
TGGGAATGTTTTGTGTAGGATCAATTAACAAAGAAGGAGGAACTAAAGGGGTAAAAGACTCTTTT
AATAGGGGAAATAATTAAATATTAGATGAGGATATTTAAATCCACGTTGAAGGCAAATGAAGAGA
ACAAAAGTTTCCAGATTTCTCTTCTTCTTCACTTCTTCTT
Found at i:1338629 original size:64 final size:63
Alignment explanation
Indices: 1338544--1338704 Score: 198
Period size: 64 Copynumber: 2.5 Consensus size: 63
1338534 TTGTTTAAGG
* *
1338544 TGCATCGATGCACATGTAGTGCATCGATGCAT-TAATTAAAAAAGAAAACATCGAATAGGATTTA
1 TGCATCGATGCATATGTAGTGCATCGATGCATCCAATT-AAAAA-AAAACATCGAATAGGATTTA
* * * * *
1338608 TGCATCGATGCATAAGAAGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATATGTAGTGCATCGATGCAT-CCAATTAAAAAAAAACATCGAATAGGATTTA
* *
1338672 TGCATCAATGCATGGTGTAGTGCATCGATGCAT
1 TGCATCGATGCAT-ATGTAGTGCATCGATGCAT
1338705 ACCTCCATTA
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
64 60 0.72
65 20 0.24
66 3 0.04
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (63 bp):
TGCATCGATGCATATGTAGTGCATCGATGCATCCAATTAAAAAAAAACATCGAATAGGATTTA
Found at i:1339352 original size:103 final size:103
Alignment explanation
Indices: 1339168--1339385 Score: 364
Period size: 103 Copynumber: 2.1 Consensus size: 103
1339158 GTAGAGGGTC
* * * *
1339168 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAATATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATATATTCTTTGAAACATGTGTGAAGTCTGGTGAGACACATAC
* *
1339233 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
1339271 TATGTGGTCCTTCGGGACATATATATATTCTTTGAAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATATATTCTTTGAAACATGTGTGAAGTCTGGTGAGACACATAC
*
1339336 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
1339374 TATTTGGTCCTT
1 TATGTGGTCCTT
1339386 ATGGACATTA
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATATATTCTTTGAAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:1339436 original size:23 final size:23
Alignment explanation
Indices: 1339402--1339464 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
1339392 ATTATTATAT
1339402 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
*
1339425 GGCACT-CTGGTGCAATTCTACGT
1 GGCACTAC-GGTGCAATTCTACGC
* *
1339448 GGCACTTCGGTGTAATT
1 GGCACTACGGTGCAATT
1339465 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
22 1 0.03
23 34 0.94
24 1 0.03
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.29
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:1346304 original size:103 final size:103
Alignment explanation
Indices: 1346115--1346340 Score: 366
Period size: 103 Copynumber: 2.2 Consensus size: 103
1346105 GTAGAGGGTC
*
1346115 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAAACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAAACACATAC
*
1346180 TTGATCCTTGTCATATATATATGATTCTTAAGGAATGA
66 TTGATCCTAGTCATATATATATGATTCTTAAGGAATGA
* * *
1346218 TATGTTGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTTGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAAACACATAC
*
1346283 TTGATCCCTAGT-ATATGTATATGATTCTTAAGGAATGA
66 TTGAT-CCTAGTCATATATATATGATTCTTAAGGAATGA
1346321 TATGTGGTCCTT-ATGGACAT
1 TATGTGGTCCTTCA-GGACAT
1346341 TATTATATGG
Statistics
Matches: 114, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
102 1 0.01
103 108 0.95
104 5 0.04
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAAACACATAC
TTGATCCTAGTCATATATATATGATTCTTAAGGAATGA
Found at i:1346352 original size:23 final size:23
Alignment explanation
Indices: 1346325--1346373 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
1346315 GAATGATATG
1346325 TGGTCCTTATGGACATTATTATA
1 TGGTCCTTATGGACATTATTATA
1346348 TGGTCCTTATGGACATTATTATA
1 TGGTCCTTATGGACATTATTATA
1346371 TGG
1 TGG
1346374 CACTACGGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.43
Consensus pattern (23 bp):
TGGTCCTTATGGACATTATTATA
Found at i:1348063 original size:3 final size:3
Alignment explanation
Indices: 1348055--1348095 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1348045 AATCTACAAT
1348055 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1348096 TTAGTAACCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1352210 original size:15 final size:15
Alignment explanation
Indices: 1352190--1352224 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
1352180 TAGTTCAGCC
1352190 AAGTGAAAAACTAGG
1 AAGTGAAAAACTAGG
1352205 AAGTGAAAAACTAGG
1 AAGTGAAAAACTAGG
1352220 AAGTG
1 AAGTG
1352225 TAAAGGTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.51, C:0.06, G:0.29, T:0.14
Consensus pattern (15 bp):
AAGTGAAAAACTAGG
Found at i:1353173 original size:13 final size:13
Alignment explanation
Indices: 1353157--1353210 Score: 99
Period size: 13 Copynumber: 4.2 Consensus size: 13
1353147 ATGAAGGAAG
1353157 AGGAAGAAGATGA
1 AGGAAGAAGATGA
1353170 AGGAAGAAGATGA
1 AGGAAGAAGATGA
1353183 AGGAAGAAGATGA
1 AGGAAGAAGATGA
*
1353196 AGAAAGAAGATGA
1 AGGAAGAAGATGA
1353209 AG
1 AG
1353211 AAAATGAGGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.56, C:0.00, G:0.37, T:0.07
Consensus pattern (13 bp):
AGGAAGAAGATGA
Found at i:1353184 original size:19 final size:18
Alignment explanation
Indices: 1353146--1353210 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 18
1353136 ATGAGTTGAT
*
1353146 GATGAAGGAAGAGGAAGAA
1 GATGAAGGAAGAAG-AGAA
1353165 GATGAAGGAAGAAGATGAA
1 GATGAAGGAAGAAGA-GAA
*
1353184 GGAAGAAGATGAAGAA-AGAA
1 -GATGAAG--GAAGAAGAGAA
1353204 GATGAAG
1 GATGAAG
1353211 AAAATGAGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 1 0.03
19 22 0.56
20 9 0.23
21 1 0.03
22 6 0.15
ACGTcount: A:0.54, C:0.00, G:0.38, T:0.08
Consensus pattern (18 bp):
GATGAAGGAAGAAGAGAA
Found at i:1356289 original size:44 final size:44
Alignment explanation
Indices: 1356168--1356290 Score: 185
Period size: 46 Copynumber: 2.8 Consensus size: 44
1356158 GATAAACTGG
* *
1356168 AAAATAAGCTTACGAGCTTATGGA-ATAATGGCAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGATA-AATGGTAAATATATTGGT
*
1356212 AAAATAAGCTTACGAGCTTATGGGATTAAATGGTAAATATTTTGGT
1 AAAATAAGCTTACGAGCTTAT-GGA-TAAATGGTAAATATATTGGT
1356258 AAAATAAGCTTACGAGCTTATGGATAAATGGTA
1 AAAATAAGCTTACGAGCTTATGGATAAATGGTA
1356291 GAGATTTATC
Statistics
Matches: 73, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
44 30 0.41
45 6 0.08
46 36 0.49
47 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (44 bp):
AAAATAAGCTTACGAGCTTATGGATAAATGGTAAATATATTGGT
Found at i:1357382 original size:47 final size:48
Alignment explanation
Indices: 1357312--1357406 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 48
1357302 ATCTCATCTA
1357312 TGTTAAAAAGGTGTTATGATGAACATTTTAAATCTTCAATGATTTTTC
1 TGTTAAAAAGGTGTTATGATGAACATTTTAAATCTTCAATGATTTTTC
1357360 TGTTAAAAA-GTGTTATGATGAACATTTTAAATCTTCAATGATTTTTC
1 TGTTAAAAAGGTGTTATGATGAACATTTTAAATCTTCAATGATTTTTC
1357407 ATAATCTCTT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 38 0.81
48 9 0.19
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (48 bp):
TGTTAAAAAGGTGTTATGATGAACATTTTAAATCTTCAATGATTTTTC
Found at i:1357812 original size:17 final size:17
Alignment explanation
Indices: 1357785--1357823 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
1357775 AATTTACAAT
1357785 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
1357801 TAATTATAAATAATATC
1 TAATTATAAATAATATC
1357818 TAATTA
1 TAATTA
1357824 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:1361886 original size:29 final size:29
Alignment explanation
Indices: 1361851--1361932 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
1361841 AAACTAAATT
*
1361851 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
1361880 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
1361909 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
1361933 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:1362044 original size:29 final size:29
Alignment explanation
Indices: 1362009--1362090 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
1361999 AAACTAAATT
*
1362009 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
1362038 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
1362067 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
1362091 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:1366677 original size:29 final size:29
Alignment explanation
Indices: 1366642--1366723 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
1366632 AAACTAAATT
*
1366642 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
1366671 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
1366700 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
1366724 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:1370258 original size:31 final size:31
Alignment explanation
Indices: 1370217--1370290 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
1370207 TTTTTTAATT
1370217 TTTTGAATTAAGCCCCTCAAAATTGTTAAAAA
1 TTTT-AATTAAGCCCCTCAAAATTGTTAAAAA
* * * * *
1370249 TTCTT-ATTAAACCTCTCAAATTTTTTGAAAA
1 TT-TTAATTAAGCCCCTCAAAATTGTTAAAAA
1370280 TTTTAATTAAG
1 TTTTAATTAAG
1370291 TCCTTCACTT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
30 2 0.06
31 28 0.82
32 2 0.06
33 2 0.06
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.42
Consensus pattern (31 bp):
TTTTAATTAAGCCCCTCAAAATTGTTAAAAA
Found at i:1370954 original size:2 final size:2
Alignment explanation
Indices: 1370911--1370939 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1370901 TTTTAAGATT
1370911 TA 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 TA T
1370940 TACATGCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1372177 original size:2 final size:2
Alignment explanation
Indices: 1372172--1372204 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1372162 AATATAAAGG
1372172 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1372205 AGTTATCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1372367 original size:17 final size:17
Alignment explanation
Indices: 1372322--1372393 Score: 53
Period size: 17 Copynumber: 4.4 Consensus size: 17
1372312 AGGAAGACAA
* *
1372322 AATAATAAATAAAAAAAG
1 AATAAT-AATAAGAAAAT
* *
1372340 AATATTTATAAGAAAAT
1 AATAATAATAAGAAAAT
1372357 AATAATAAT---AAAAT
1 AATAATAATAAGAAAAT
* *
1372371 AATAGTAA-AAGAAAAA
1 AATAATAATAAGAAAAT
1372387 AATAATA
1 AATAATA
1372394 TATATATATA
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
14 12 0.29
16 10 0.24
17 15 0.36
18 5 0.12
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (17 bp):
AATAATAATAAGAAAAT
Found at i:1375593 original size:34 final size:34
Alignment explanation
Indices: 1375548--1375616 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
1375538 TTAGTATGTT
*
1375548 TATTTGTTTCATTTACAAGATTAAAATTTAACTA
1 TATTTGCTTCATTTACAAGATTAAAATTTAACTA
1375582 TATTTGCTTCATTTACAAGATTAAAATTTAACTA
1 TATTTGCTTCATTTACAAGATTAAAATTTAACTA
1375616 T
1 T
1375617 CTATCCTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (34 bp):
TATTTGCTTCATTTACAAGATTAAAATTTAACTA
Found at i:1376784 original size:31 final size:30
Alignment explanation
Indices: 1376749--1376822 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 30
1376739 AAAATTGTTA
1376749 AAAATTCTT-ATTAA-ACCTCTCAAATTTTTTG
1 AAAATT-TTAATTAAGACCT-TC-AATTTTTTG
*
1376780 AAAATTTTAATTAAGTCCTTCAATTTTTTG
1 AAAATTTTAATTAAGACCTTCAATTTTTTG
* *
1376810 AAAACTTTGATTA
1 AAAATTTTAATTA
1376823 CCCCCCAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
30 22 0.58
31 13 0.34
32 3 0.08
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.46
Consensus pattern (30 bp):
AAAATTTTAATTAAGACCTTCAATTTTTTG
Found at i:1378515 original size:14 final size:14
Alignment explanation
Indices: 1378496--1378547 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 14
1378486 TAAGAAAAAC
1378496 AAATAAAATGATAA
1 AAATAAAATGATAA
*
1378510 AAAT-AAATAAATAAA
1 AAATAAAAT-GAT-AA
1378525 AAATAAAATGA-AA
1 AAATAAAATGATAA
1378538 AAATATAAAT
1 AAATA-AAAT
1378548 AAGGAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
13 11 0.34
14 10 0.31
15 7 0.22
16 4 0.12
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (14 bp):
AAATAAAATGATAA
Found at i:1378528 original size:15 final size:14
Alignment explanation
Indices: 1378508--1378559 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
1378498 ATAAAATGAT
1378508 AAAAATAAATAAATA
1 AAAAATAAATAAA-A
*
1378523 AAAAATAAAATGAAA
1 AAAAAT-AAATAAAA
* *
1378538 AAATATAAATAAGGA
1 AAAAATAAATAA-AA
1378553 AAAAATA
1 AAAAATA
1378560 TAAAAACATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 5 0.17
15 19 0.63
16 6 0.20
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (14 bp):
AAAAATAAATAAAA
Found at i:1378534 original size:29 final size:30
Alignment explanation
Indices: 1378496--1378559 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
1378486 TAAGAAAAAC
* *
1378496 AAATAAAATGATAAAA-ATAAATAAATAAA
1 AAATAAAATGAAAAAATATAAATAAAGAAA
*
1378525 AAATAAAATGAAAAAATATAAATAAGGAAA
1 AAATAAAATGAAAAAATATAAATAAAGAAA
1378555 AAATA
1 AAATA
1378560 TAAAAACATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 15 0.48
30 16 0.52
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (30 bp):
AAATAAAATGAAAAAATATAAATAAAGAAA
Found at i:1378564 original size:26 final size:25
Alignment explanation
Indices: 1378500--1378565 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 25
1378490 AAAAACAAAT
1378500 AAAATGATAAAAATAAATAAATAAAA
1 AAAAT-ATAAAAATAAATAAATAAAA
* *
1378526 AATAAAATGAAAAA-ATATAAATAAGGAA
1 AA-AATAT-AAAAATAAATAAATAA--AA
1378554 AAAATATAAAAA
1 AAAATATAAAAA
1378566 CATAAAGAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
26 18 0.55
27 11 0.33
28 4 0.12
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (25 bp):
AAAATATAAAAATAAATAAATAAAA
Found at i:1378672 original size:2 final size:2
Alignment explanation
Indices: 1378667--1378702 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1378657 AAAAGACATT
1378667 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1378703 ATAAGTTATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1380069 original size:34 final size:34
Alignment explanation
Indices: 1380024--1380092 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
1380014 TTAGTATGTT
*
1380024 TATTTGTTTCATTTACAAGATTAAAATTTAACTA
1 TATTTGCTTCATTTACAAGATTAAAATTTAACTA
1380058 TATTTGCTTCATTTACAAGATTAAAATTTAACTA
1 TATTTGCTTCATTTACAAGATTAAAATTTAACTA
1380092 T
1 T
1380093 CTATCCTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (34 bp):
TATTTGCTTCATTTACAAGATTAAAATTTAACTA
Found at i:1389119 original size:23 final size:23
Alignment explanation
Indices: 1389093--1389139 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1389083 AATAATTACT
1389093 AAATTTATTAAATTGTTGAAAGC
1 AAATTTATTAAATTGTTGAAAGC
1389116 AAATTTATTAAATTGTTGAAAGC
1 AAATTTATTAAATTGTTGAAAGC
1389139 A
1 A
1389140 GTCATCACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.38
Consensus pattern (23 bp):
AAATTTATTAAATTGTTGAAAGC
Found at i:1389165 original size:3 final size:3
Alignment explanation
Indices: 1389157--1389182 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1389147 CGACATTATG
1389157 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
1389183 TTTGTTGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:1389401 original size:23 final size:23
Alignment explanation
Indices: 1389371--1389420 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
1389361 TAATAAAATT
*
1389371 TAATAAATTTAATGATTATTTTA
1 TAATAAATTTAATAATTATTTTA
1389394 TAATAAATTTAATAATTATTTTA
1 TAATAAATTTAATAATTATTTTA
1389417 TAAT
1 TAAT
1389421 TTTTAAAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TAATAAATTTAATAATTATTTTA
Found at i:1393359 original size:15 final size:15
Alignment explanation
Indices: 1393338--1393381 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
1393328 TATATTTCAT
1393338 ACTATGTGTTAT-TG
1 ACTATGTGTTATATG
1393352 ATCTATGTGATTATATG
1 A-CTATGTG-TTATATG
*
1393369 AATATGTGTTATA
1 ACTATGTGTTATA
1393382 AGCTATGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 1 0.04
15 12 0.46
16 10 0.38
17 3 0.12
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.48
Consensus pattern (15 bp):
ACTATGTGTTATATG
Found at i:1393545 original size:24 final size:24
Alignment explanation
Indices: 1393465--1393546 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 24
1393455 ATAGTTTAGG
* *
1393465 GTTCTACATGGTCCTTTGGGACAA
1 GTTCTACGTGGTCCTTCGGGACAA
* * ** *
1393489 ATTCTATGCAGTCCTTCGGGA-TA
1 GTTCTACGTGGTCCTTCGGGACAA
*
1393512 TTTCTACGTGGTCCTTCGGGACAA
1 GTTCTACGTGGTCCTTCGGGACAA
1393536 GTTCTACGTGG
1 GTTCTACGTGG
1393547 CACTTTGGAG
Statistics
Matches: 44, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
23 18 0.41
24 26 0.59
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (24 bp):
GTTCTACGTGGTCCTTCGGGACAA
Found at i:1395522 original size:16 final size:14
Alignment explanation
Indices: 1395499--1395531 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1395489 TTGAATGTAT
1395499 TCTCT-TTTATTTTC
1 TCTCTGTTT-TTTTC
1395513 TCTCTGTTTTTTTC
1 TCTCTGTTTTTTTC
1395527 TCTCT
1 TCTCT
1395532 TAAAGCTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 15 0.83
15 3 0.17
ACGTcount: A:0.03, C:0.24, G:0.03, T:0.70
Consensus pattern (14 bp):
TCTCTGTTTTTTTC
Found at i:1404857 original size:19 final size:19
Alignment explanation
Indices: 1404833--1404874 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
1404823 GGATGAATAG
1404833 AATGCAATGCGAAAAGTAA
1 AATGCAATGCGAAAAGTAA
*
1404852 AATGCAATGTGAAAAGTAA
1 AATGCAATGCGAAAAGTAA
1404871 AATG
1 AATG
1404875 TAGATGCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.52, C:0.07, G:0.21, T:0.19
Consensus pattern (19 bp):
AATGCAATGCGAAAAGTAA
Found at i:1404885 original size:19 final size:18
Alignment explanation
Indices: 1404833--1404895 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
1404823 GGATGAATAG
*
1404833 AATGCAATGCGAAAAGTAA
1 AATGTAATGC-AAAAGTAA
* *
1404852 AATGCAATGTGAAAAGTAA
1 AATGTAATG-CAAAAGTAA
1404871 AATGTAGATGCAAAATGTAA
1 AATGTA-ATGCAAAA-GTAA
*
1404891 GATGT
1 AATGT
1404896 TGATTCTGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 26 0.70
20 11 0.30
ACGTcount: A:0.49, C:0.06, G:0.22, T:0.22
Consensus pattern (18 bp):
AATGTAATGCAAAAGTAA
Found at i:1410117 original size:33 final size:34
Alignment explanation
Indices: 1410056--1410126 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
1410046 TTTTTCGAGC
1410056 TTTCTTTTTCTTTTTTTTTCCGAATAAAT-TCTCT
1 TTTCTTTTTCTTTTTTTTTCC-AATAAATATCTCT
* *
1410090 TTTCTTTTCTCTTTTTTTTTTC-TTAAATATCTCT
1 TTTCTTTT-TCTTTTTTTTTCCAATAAATATCTCT
1410124 TTT
1 TTT
1410127 TTCTCCCTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 5 0.15
34 16 0.48
35 12 0.36
ACGTcount: A:0.13, C:0.17, G:0.01, T:0.69
Consensus pattern (34 bp):
TTTCTTTTTCTTTTTTTTTCCAATAAATATCTCT
Found at i:1410523 original size:18 final size:16
Alignment explanation
Indices: 1410502--1410539 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
1410492 TAATGGCTTG
1410502 TAATAAAATAGAATGAAA
1 TAATAAAATAG-AT-AAA
1410520 TAATAAAATAGATAAA
1 TAATAAAATAGATAAA
1410536 TAAT
1 TAAT
1410540 CATAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.35
17 2 0.10
18 11 0.55
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (16 bp):
TAATAAAATAGATAAA
Found at i:1410536 original size:8 final size:7
Alignment explanation
Indices: 1410517--1410575 Score: 52
Period size: 8 Copynumber: 8.3 Consensus size: 7
1410507 AAATAGAATG
1410517 AAATAAT
1 AAATAAT
1410524 AAAATAGAT
1 -AAATA-AT
1410533 AAATAAT
1 AAATAAT
*
1410540 -CATAAT
1 AAATAAT
1410546 AAAATAGAT
1 -AAATA-AT
1410555 AAATAAT
1 AAATAAT
1410562 -AATAAT
1 AAATAAT
1410568 -AATAAT
1 AAATAAT
1410574 AA
1 AA
1410576 CAAAAGATCC
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
6 17 0.39
7 5 0.11
8 18 0.41
9 4 0.09
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (7 bp):
AAATAAT
Found at i:1410544 original size:22 final size:22
Alignment explanation
Indices: 1410518--1410574 Score: 96
Period size: 22 Copynumber: 2.5 Consensus size: 22
1410508 AATAGAATGA
1410518 AATAATAAAATAGATAAATAAT
1 AATAATAAAATAGATAAATAAT
*
1410540 CATAATAAAATAGATAAATAAT
1 AATAATAAAATAGATAAATAAT
1410562 AATAATAATAATA
1 AATAATAA-AATA
1410575 ACAAAAGATC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 28 0.88
23 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (22 bp):
AATAATAAAATAGATAAATAAT
Found at i:1410562 original size:3 final size:3
Alignment explanation
Indices: 1410518--1410575 Score: 57
Period size: 3 Copynumber: 18.7 Consensus size: 3
1410508 AATAGAATGA
*
1410518 AAT AAT AA- AAT AGAT AAAT AAT CAT AAT AA- AAT AGAT AAAT AAT AAT
1 AAT AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT A-AT -AAT AAT AAT
1410565 AAT AAT AAT AA
1 AAT AAT AAT AA
1410576 CAAAAGATCC
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
2 4 0.09
3 33 0.70
4 8 0.17
5 2 0.04
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:1415259 original size:148 final size:147
Alignment explanation
Indices: 1414991--1415271 Score: 447
Period size: 148 Copynumber: 1.9 Consensus size: 147
1414981 TGTAGCTTCC
* * * *
1414991 GTGGAAGAAGATGAGCTTGAAGCTCCTGGAAACCCTTGTTTAACTCTTCCATAAGGGTTCATCTT
1 GTGGAAGAAGACGAGCTTCAAGCTCCTGGAAACCCTTGTTTAACTCTTCCATAAGAGTCCATCTT
*
1415056 CTTGCTCGGAACCAAGAAAACAAACGAGAGCTTGATCTGGGATTCTGGGTCAGTTGATTTGCAGA
66 CTTGCTCGGAACCAAGAAAACAAACGAAAGCTTGATCTGGGATTCTGGGTCAGTTGA-TTGCAGA
1415121 TTAAATTAGATACAAGCT
130 TTAAATTAGATACAAGCT
* *
1415139 GTGGAAGAAGACGAGCTTCAAGCTCCTGGAAACTCTTGTTTAACTCTTCCATACGAGTCCATCTT
1 GTGGAAGAAGACGAGCTTCAAGCTCCTGGAAACCCTTGTTTAACTCTTCCATAAGAGTCCATCTT
** *
1415204 CTTGCTCGGAACCAAGAAAACGAAA-GAAATTTTGATCTGGGATTCTGGGTTAGTTGATTGCAGA
66 CTTGCTCGGAACCAAGAAAAC-AAACGAAAGCTTGATCTGGGATTCTGGGTCAGTTGATTGCAGA
1415268 TTAA
130 TTAA
1415272 GAACAAGAAG
Statistics
Matches: 122, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
147 11 0.09
148 108 0.89
149 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (147 bp):
GTGGAAGAAGACGAGCTTCAAGCTCCTGGAAACCCTTGTTTAACTCTTCCATAAGAGTCCATCTT
CTTGCTCGGAACCAAGAAAACAAACGAAAGCTTGATCTGGGATTCTGGGTCAGTTGATTGCAGAT
TAAATTAGATACAAGCT
Found at i:1418662 original size:25 final size:26
Alignment explanation
Indices: 1418622--1418672 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
1418612 TTAAAATATT
*
1418622 AAAATTATGATTTCTG-TTTTATTAAA
1 AAAATTATGATATCTGATTTT-TTAAA
1418648 AAAATTA-GATATCTGATTTTTTAAA
1 AAAATTATGATATCTGATTTTTTAAA
1418673 TTAGATATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (26 bp):
AAAATTATGATATCTGATTTTTTAAA
Found at i:1419780 original size:37 final size:37
Alignment explanation
Indices: 1419712--1419803 Score: 136
Period size: 37 Copynumber: 2.5 Consensus size: 37
1419702 TCAGCATCGC
1419712 CGTTTCTCTCATC-CCCAG--TCGCCGACCGCCGTTTT
1 CGTTTCTCTCATCGCCC-GCCTCGCCGACCGCCGTTTT
*
1419747 CGTTTCTCTCATCGCCCGCCTCGCCGCCCGCCGTTTT
1 CGTTTCTCTCATCGCCCGCCTCGCCGACCGCCGTTTT
*
1419784 CATTTCTCTCATCGCCCGCC
1 CGTTTCTCTCATCGCCCGCC
1419804 GTTTCTCTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
35 14 0.27
36 3 0.06
37 35 0.67
ACGTcount: A:0.07, C:0.47, G:0.16, T:0.30
Consensus pattern (37 bp):
CGTTTCTCTCATCGCCCGCCTCGCCGACCGCCGTTTT
Found at i:1422307 original size:34 final size:34
Alignment explanation
Indices: 1422264--1422364 Score: 202
Period size: 34 Copynumber: 3.0 Consensus size: 34
1422254 ATAGGAGAAG
1422264 ATTGGATCATTAGAATAATGAACCTTTTAAATGT
1 ATTGGATCATTAGAATAATGAACCTTTTAAATGT
1422298 ATTGGATCATTAGAATAATGAACCTTTTAAATGT
1 ATTGGATCATTAGAATAATGAACCTTTTAAATGT
1422332 ATTGGATCATTAGAATAATGAACCTTTTAAATG
1 ATTGGATCATTAGAATAATGAACCTTTTAAATG
1422365 CATCTTTTTT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 67 1.00
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.38
Consensus pattern (34 bp):
ATTGGATCATTAGAATAATGAACCTTTTAAATGT
Found at i:1426936 original size:21 final size:22
Alignment explanation
Indices: 1426892--1426948 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
1426882 ATGTGAAATT
*
1426892 TGTCCCGAATGACCTATGTATA
1 TGTCCCGAAGGACCTATGTATA
*
1426914 TGTCCCGAAGGACCTCT-TATA
1 TGTCCCGAAGGACCTATGTATA
**
1426935 TGTCCTAAAGGACC
1 TGTCCCGAAGGACC
1426949 ACTATCCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 16 0.52
22 15 0.48
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (22 bp):
TGTCCCGAAGGACCTATGTATA
Found at i:1427361 original size:200 final size:200
Alignment explanation
Indices: 1427018--1427422 Score: 783
Period size: 200 Copynumber: 2.0 Consensus size: 200
1427008 AACCCTCGAC
*
1427018 TCTTGGCATGCCAACTATACCTCTAGGTCTCCTTACACATAACATGGGCATTAGCATTATATCAT
1 TCTTGGCATGCCAACTATACCTCTAGCTCTCCTTACACATAACATGGGCATTAGCATTATATCAT
*
1427083 TTCATATATTCATATAATCATATAGTTCACTTTCACATGTTTCTTATCTCTTGTGATCATATAAT
66 TTCACATATTCATATAATCATATAGTTCACTTTCACATGTTTCTTATCTCTTGTGATCATATAAT
1427148 CACATAACTTTGTATCATATTTCACATAGCTTATGTCACTTTGCATGGTTTCACATAAGCATATA
131 CACATAACTTTGTATCATATTTCACATAGCTTATGTCACTTTGCATGGTTTCACATAAGCATATA
*
1427213 TTATA
196 TCATA
1427218 TCTTGGCATGCCAACTATACCTCTAGCTCTCCTTACACATAACATGGGCATTAGCATTATATCAT
1 TCTTGGCATGCCAACTATACCTCTAGCTCTCCTTACACATAACATGGGCATTAGCATTATATCAT
1427283 TTCACATATTCATATAATCATATAGTTCACTTTCACATGTTTCTTATCTCTTGTGATCATATAAT
66 TTCACATATTCATATAATCATATAGTTCACTTTCACATGTTTCTTATCTCTTGTGATCATATAAT
1427348 CACATAACTTTGTATCATATTTCACATAGCTTATGTCACTTTGCATGGTTTCACATAAGCATATA
131 CACATAACTTTGTATCATATTTCACATAGCTTATGTCACTTTGCATGGTTTCACATAAGCATATA
1427413 TCATA
196 TCATA
1427418 TCTTG
1 TCTTG
1427423 TTCACATATA
Statistics
Matches: 202, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
200 202 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (200 bp):
TCTTGGCATGCCAACTATACCTCTAGCTCTCCTTACACATAACATGGGCATTAGCATTATATCAT
TTCACATATTCATATAATCATATAGTTCACTTTCACATGTTTCTTATCTCTTGTGATCATATAAT
CACATAACTTTGTATCATATTTCACATAGCTTATGTCACTTTGCATGGTTTCACATAAGCATATA
TCATA
Found at i:1429729 original size:27 final size:27
Alignment explanation
Indices: 1429658--1429729 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
1429648 CCTCCCCCTT
*
1429658 ACTTTAACACTTCTCCCATTTAAAAAC
1 ACTTTAACACTTCTCCCCTTTAAAAAC
*
1429685 ACTTTAACACTTTTCCCCTTTAAAAAC
1 ACTTTAACACTTCTCCCCTTTAAAAAC
*
1429712 ACTTTAATACTTCTCCCC
1 ACTTTAACACTTCTCCCC
1429730 CTTTTTGTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (27 bp):
ACTTTAACACTTCTCCCCTTTAAAAAC
Found at i:1438518 original size:43 final size:43
Alignment explanation
Indices: 1438466--1438637 Score: 263
Period size: 43 Copynumber: 4.0 Consensus size: 43
1438456 AACAAAAAAT
* * *
1438466 GCCGCAATAGGTATTGATATTTGGCGGCGTTTTTCCCACAAAC
1 GCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCACAAAC
* * *
1438509 GCCGCAATAGGTGTTGATATTTAGCGGTGTTTTTCTCACAAAC
1 GCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCACAAAC
*
1438552 GCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTTCCACAAAC
1 GCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCACAAAC
* *
1438595 GCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCATAAAC
1 GCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCACAAAC
1438638 ATCGCAAAAG
Statistics
Matches: 118, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 118 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (43 bp):
GCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCACAAAC
Found at i:1438644 original size:43 final size:43
Alignment explanation
Indices: 1438466--1438686 Score: 257
Period size: 43 Copynumber: 5.2 Consensus size: 43
1438456 AACAAAAAAT
* * *
1438466 GCCGCAATAGGTATTGATATTTGGCGGCGTTTTTCCCACAAAC
1 GCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCACAAAC
* * * *
1438509 GCCGCAATAGGTGTTGATATTTAGCGGTGTTTTTCTCACAAAC
1 GCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCACAAAC
* *
1438552 GCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTTCCACAAAC
1 GCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCACAAAC
*
1438595 GCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCATAAAC
1 GCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCACAAAC
** * * * ***
1438638 ATCGCAAAAGATC-TG-GTATATAGCGGCGTTTTTAGAACAAAC
1 GCCGCAATAGGTCTTGAG-ATTTAGCGGCGTTTTTCCCACAAAC
1438680 GCCGCAA
1 GCCGCAA
1438687 AATGTCATAT
Statistics
Matches: 155, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
41 1 0.01
42 27 0.17
43 127 0.82
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (43 bp):
GCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCACAAAC
Found at i:1438686 original size:42 final size:42
Alignment explanation
Indices: 1438489--1438727 Score: 101
Period size: 43 Copynumber: 5.6 Consensus size: 42
1438479 TTGATATTTG
* * * ** * *
1438489 GCGGCGTTTTTCCCACAAACGCCGCAATAGGTGTTGATATTTA
1 GCGGCGTTTTTACAACAAACGCCGCAA-AAGTCATGGTATATA
* * * ** *
1438532 GCGGTGTTTTT-CTCACAAACGCCGCAATAGGTGTTGAG-ATTTA
1 GCGGCGTTTTTAC-AACAAACGCCGCAA-AAGTCATG-GTATATA
* * * * *
1438575 GCGGCGTTTTTTCCACAAACGCCGCAATAGGTCTTGAG-ATTTA
1 GCGGCGTTTTTACAACAAACGCCGCAA-AAGTCATG-GTATATA
* * * **
1438618 GCGGCGTTTTTCCCATAAACATCGCAAAAGATC-TGGTATATA
1 GCGGCGTTTTTACAACAAACGCCGCAAAAG-TCATGGTATATA
* * *
1438660 GCGGCGTTTTTAGAACAAACGCCGCAAAATGTCAT-ATCTATA
1 GCGGCGTTTTTACAACAAACGCCGCAAAA-GTCATGGTATATA
* * *
1438702 GCGGCATTTTAAGATACAAACGCCGC
1 GCGGCGTTTTTACA-ACAAACGCCGC
1438728 TAATTACCTC
Statistics
Matches: 168, Mismatches: 20, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
41 1 0.01
42 51 0.30
43 115 0.68
44 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (42 bp):
GCGGCGTTTTTACAACAAACGCCGCAAAAGTCATGGTATATA
Found at i:1438865 original size:21 final size:21
Alignment explanation
Indices: 1438839--1438897 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
1438829 ATTTTCCAAT
*
1438839 AAACTTGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
* *
1438860 AAACTTAAAATCCATAACAAG
1 AAACTTGAAATCCATAACAAC
**
1438881 AAAAATGAAATCCATAA
1 AAACTTGAAATCCATAA
1438898 TAATAAATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.56, C:0.20, G:0.05, T:0.19
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:1439697 original size:2 final size:2
Alignment explanation
Indices: 1439690--1439738 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
1439680 AGTATTTGCA
1439690 AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1439731 AT AT AT AT
1 AT AT AT AT
1439739 TTAAAAAAGT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1446056 original size:21 final size:19
Alignment explanation
Indices: 1446026--1446074 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
1446016 GTTCATAGGG
*
1446026 CTGTTTATACAGTAATGTTCA
1 CTGTTCATACAGT-AT-TTCA
* *
1446047 CTGTTCATACCGTATTTTA
1 CTGTTCATACAGTATTTCA
1446066 CTGTTCATA
1 CTGTTCATA
1446075 AAACATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 12 0.48
20 2 0.08
21 11 0.44
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.45
Consensus pattern (19 bp):
CTGTTCATACAGTATTTCA
Found at i:1455312 original size:21 final size:21
Alignment explanation
Indices: 1455283--1455339 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
1455273 GGGTTTCATA
* *
1455283 GGTCATTCGGGATAATACAGT
1 GGTCCTTCGGGACAATACAGT
1455304 GGTCCTTCGGGACAATACAGT
1 GGTCCTTCGGGACAATACAGT
1455325 GGTCCTTCGGGACAA
1 GGTCCTTCGGGACAA
1455340 ATTTCATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.25
Consensus pattern (21 bp):
GGTCCTTCGGGACAATACAGT
Found at i:1456182 original size:21 final size:19
Alignment explanation
Indices: 1456150--1456197 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
1456140 TCACTGTTCA
*
1456150 TTACTATTCATA-CGGTATT
1 TTACTGTTCATATC-GTATT
1456169 GTTCACTGTTCATATCGTATT
1 -TT-ACTGTTCATATCGTATT
1456190 TTACTGTT
1 TTACTGTT
1456198 AATAAAACGT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 6 0.24
20 4 0.16
21 14 0.56
22 1 0.04
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.50
Consensus pattern (19 bp):
TTACTGTTCATATCGTATT
Found at i:1459480 original size:22 final size:22
Alignment explanation
Indices: 1459455--1459505 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
1459445 GTGAAATTTA
1459455 TCCCGAATGACCTATGTATATG
1 TCCCGAATGACCTATGTATATG
1459477 TCCCGAATGACCTATGTATATG
1 TCCCGAATGACCTATGTATATG
1459499 TCCCGAA
1 TCCCGAA
1459506 GAACGTAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (22 bp):
TCCCGAATGACCTATGTATATG
Found at i:1466159 original size:14 final size:15
Alignment explanation
Indices: 1466136--1466164 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1466126 ACATTATTTA
1466136 TTTAATTTATATAAT
1 TTTAATTTATATAAT
1466151 TTTAA-TTATATAAT
1 TTTAATTTATATAAT
1466165 GATATTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTAATTTATATAAT
Found at i:1468186 original size:2 final size:2
Alignment explanation
Indices: 1468179--1468231 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
1468169 TCAATAAAAG
1468179 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1468221 AT AT AT TT AT A
1 AT AT AT AT AT A
1468232 ATTTTCAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1471986 original size:109 final size:107
Alignment explanation
Indices: 1471735--1471934 Score: 276
Period size: 107 Copynumber: 1.9 Consensus size: 107
1471725 AGGTCCCCCG
* * * * ***
1471735 ACTTTAGGCGTGTTTTTGCAAAATGGTCAACTGTAAGA-TCAATTTTATAATTTACCCATTTCTT
1 ACTTTAGGCGTGTTTTTACAAAATAGTCACCTGTAGGACTTTTTTTTATAATTTACCCATTTCTT
1471799 ATGCATGTTATATATTTTGGTTTAATTGCTATTTAGTCTCCCA
66 ATGCATGTTATATATTTTGGTTTAATT-CTATTTAGTCTCCCA
* * *
1471842 ACTTTAGGCGTGTTTTTGCAAAATGGTCACCTGTAGGACTTTTTTTTGTAATTTACCCATTTCTT
1 ACTTTAGGCGTGTTTTTACAAAATAGTCACCTGTAGGACTTTTTTTTATAATTTACCCATTTCTT
*
1471907 ATGCATGTTATATTCTTTTGGTTTAATT
66 ATGCATGTTATA-TATTTTGGTTTAATT
1471935 TATGATTAGT
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
107 36 0.43
108 34 0.40
109 14 0.17
ACGTcount: A:0.23, C:0.14, G:0.15, T:0.47
Consensus pattern (107 bp):
ACTTTAGGCGTGTTTTTACAAAATAGTCACCTGTAGGACTTTTTTTTATAATTTACCCATTTCTT
ATGCATGTTATATATTTTGGTTTAATTCTATTTAGTCTCCCA
Found at i:1473056 original size:131 final size:130
Alignment explanation
Indices: 1472808--1473177 Score: 361
Period size: 131 Copynumber: 2.8 Consensus size: 130
1472798 TCGATAGTGA
* * * *
1472808 GAATAGTAATATATTTTCA-TTTCAGTTGGAGTAATAAATGACTGC-TCTAAGGCATGAGATGTC
1 GAATAGTAATATCTTTTCATTTTGA-TTGGAGTAATAAATGACTGCTTC-AAGGTATGAGAGGTC
* * * * * ** * *
1472871 ATTTATTCTCGATTAGAAATAATACGATATTATCATTCTCCCTCGAATTAATATTG-ATTTTTAG
64 ATTTATTCTCGATTGGAAATATTA-GATATTATTATTTTCACTATAATCAATATTGCA-TTTTAA
*
1472935 GATG
127 GACG
* * *
1472939 GAATAGTTATATCTTTTCATTTTGATCGGAGCAATAAATGACTGCTTCAAGGTATGAGAGGTCAT
1 GAATAGTAATATCTTTTCATTTTGATTGGAGTAATAAATGACTGCTTCAAGGTATGAGAGGTCAT
* * * *
1473004 TTATTCTCAATTGGAAATCATTAAATATTATTGTTTTCACTATAATCGATATTGCATTTTAAGAC
66 TTATTCTCGATTGGAAAT-ATTAGATATTATTATTTTCACTATAATCAATATTGCATTTTAAGAC
1473069 G
130 G
* * * * * * * * * *
1473070 AAATACTAATATCTCTTCATTTCGATTAGAGTAATAAAT-AATCGTTTTAAGGTATGAAAGGTTA
1 GAATAGTAATATCTTTTCATTTTGATTGGAGTAATAAATGACT-GCTTCAAGGTATGAGAGGTCA
*
1473134 TTTATTCTCGATTGGAAATAATTAGATATTATTATTTTCTCTAT
65 TTTATTCTCGATTGGAAAT-ATTAGATATTATTATTTTCACTAT
1473178 TAAAATTATT
Statistics
Matches: 195, Mismatches: 39, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
130 2 0.01
131 183 0.94
132 10 0.05
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (130 bp):
GAATAGTAATATCTTTTCATTTTGATTGGAGTAATAAATGACTGCTTCAAGGTATGAGAGGTCAT
TTATTCTCGATTGGAAATATTAGATATTATTATTTTCACTATAATCAATATTGCATTTTAAGACG
Found at i:1474119 original size:51 final size:51
Alignment explanation
Indices: 1474044--1474145 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
1474034 TAAGAAGTGA
1474044 GAACTTTCCCCATGAGAACAATCGAGCCACCTCAGAGA-CCTTGCGAATGT
1 GAACTTTCCCCATGAGAACAATCGAGCCACCTCAGAGACCCTTGCGAATGT
1474094 GAACTTTTCCCCATGAGAACAATCGAGCCACCTCAGAGACCCTTGCGAATGT
1 GAAC-TTTCCCCATGAGAACAATCGAGCCACCTCAGAGACCCTTGCGAATGT
1474146 TCTGGAGTCG
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
50 4 0.08
51 34 0.68
52 12 0.24
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (51 bp):
GAACTTTCCCCATGAGAACAATCGAGCCACCTCAGAGACCCTTGCGAATGT
Found at i:1475428 original size:94 final size:94
Alignment explanation
Indices: 1475162--1476208 Score: 1614
Period size: 94 Copynumber: 11.1 Consensus size: 94
1475152 AAATTGGCTC
* * * ** * * * ***
1475162 TGAAATTGAGAAGTTGTTTGTTGACAGTCAGCCG-CCCTTTCGCCGTGAAGTTGAGCTTGTACTG
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCC-TTCGTCGTGAAGTTGAACTTGCGTTG
* *
1475226 TCTTGAGTCCAATATCCTTCGCTGTGAAGT
65 TCTGGAGTCCAATATCCTTCGTTGTGAAGT
*** ** * * *
1475256 TGAAATTGGCTCTGAAATTGGGAAGTTGACAGTCAGTC-GCCCCTTCTTCGTGAAGTTGAGCTTG
1 TGAAATTGG----GAAATTGTTTA-TTGACAACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTG
* * ** *
1475320 AGCTGTCTTTAGTCCAATATCCTTCGCTGTGAAGT
60 CGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
*
1475355 TGAACTTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
1475420 CTAGAGTCCAATATCCTTCGTTGTGAAGT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGT
* *
1475449 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCATTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1475514 CTGGAGTCCAATATCCTTCGTTGTGAAGT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGT
*
1475543 TG-AATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
1475607 CTAGAGTCCAATATCCTTCGTTGTGAAGT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGT
*
1475636 TGAAATTGGAAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1475701 CTGGAGTCCAATATCCTTCGTTGTGAAGT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGT
* *
1475730 TGAAATTGGGAAATTGTTTATTGATAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
1475795 CTGGAGTCCAATATCCTTCATTATGAAGT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGT
*
1475824 TGAAATTGGCAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1475889 CTGGAGTCCAATATCCTTCGTTGTGAAGT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGT
* *
1475918 TGAAATTAGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
1475983 TTGGAGTCCAATATCCTTCATTGTGAAGT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGT
*
1476012 TGAAATTGGCAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1476077 CTGGAGTCCAATATCCTTCGTTGTGAAGT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGT
*
1476106 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1476171 CTGGAGTCCAATATCCTTCGTTGTGAAGT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGT
1476200 TGAAATTGG
1 TGAAATTGG
1476209 CCCTGAAATT
Statistics
Matches: 888, Mismatches: 56, Indels: 18
0.92 0.06 0.02
Matches are distributed among these distances:
93 92 0.10
94 707 0.80
95 8 0.01
98 6 0.01
99 71 0.08
100 4 0.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (94 bp):
TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGT
Found at i:1476060 original size:51 final size:51
Alignment explanation
Indices: 1476005--1476160 Score: 157
Period size: 51 Copynumber: 3.2 Consensus size: 51
1475995 ATCCTTCATT
1476005 GTGAAGTTGAAATTGGCAAATTGTTTATTGACAACCAGCGGTCCCTTCGTC
1 GTGAAGTTGAAATTGGCAAATTGTTTATTGACAACCAGCGGTCCCTTCGTC
* * * * ** *** *
1476056 GTGAAGTTGAACTT-GC--GTTG--TCTGGA-GTCCA-ATAT-CCTTCGTT
1 GTGAAGTTGAAATTGGCAAATTGTTTATTGACAACCAGCGGTCCCTTCGTC
*
1476099 GTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTC
1 GTGAAGTTGAAATTGGCAAATTGTTTATTGACAACCAGCGGTCCCTTCGTC
1476150 GTGAAGTTGAA
1 GTGAAGTTGAA
1476161 CTTGTGTTGT
Statistics
Matches: 76, Mismatches: 21, Indels: 16
0.67 0.19 0.14
Matches are distributed among these distances:
43 20 0.26
44 2 0.03
45 3 0.04
46 7 0.09
48 7 0.09
49 3 0.04
50 3 0.04
51 31 0.41
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (51 bp):
GTGAAGTTGAAATTGGCAAATTGTTTATTGACAACCAGCGGTCCCTTCGTC
Found at i:1481528 original size:3 final size:3
Alignment explanation
Indices: 1481515--1481561 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
1481505 TAAAATTAAA
* *
1481515 AAT ATT AAT AAT AAT AAT AAT AAT AATT AAT AAT AAC AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT -AAT AAT
1481562 GTATATATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
3 32 0.84
4 6 0.16
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:1481704 original size:16 final size:16
Alignment explanation
Indices: 1481659--1481697 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
1481649 TTTCTTTATT
1481659 TCGATTGGAGTAAGAA
1 TCGATTGGAGTAAGAA
1481675 TCGATTGGAGTAAGAA
1 TCGATTGGAGTAAGAA
1481691 TCGATTG
1 TCGATTG
1481698 TTTTAAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (16 bp):
TCGATTGGAGTAAGAA
Found at i:1483768 original size:30 final size:31
Alignment explanation
Indices: 1483734--1483800 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
1483724 ACTCACATAT
*
1483734 TTAAAAATCAATTAAATATAA-AAAAAAGAA
1 TTAAAAATCAATAAAATATAATAAAAAAGAA
* * *
1483764 TTAAAAGTGAATAAAATTTAATAAAAAAGAA
1 TTAAAAATCAATAAAATATAATAAAAAAGAA
1483795 TGTAAA
1 T-TAAA
1483801 GCTAAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 17 0.55
31 10 0.32
32 4 0.13
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.25
Consensus pattern (31 bp):
TTAAAAATCAATAAAATATAATAAAAAAGAA
Found at i:1484859 original size:19 final size:20
Alignment explanation
Indices: 1484827--1484864 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
1484817 TTCTCTCATC
1484827 TCTTCTTCCTTCTT-TCTTA
1 TCTTCTTCCTTCTTCTCTTA
1484846 TCTTCTTCAC-TCTTCTCTT
1 TCTTCTTC-CTTCTTCTCTT
1484865 CTTCCAAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.05, C:0.34, G:0.00, T:0.61
Consensus pattern (20 bp):
TCTTCTTCCTTCTTCTCTTA
Found at i:1485881 original size:22 final size:21
Alignment explanation
Indices: 1485827--1485890 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
1485817 AGTCGAGGGT
1485827 TTCATAGGTCCTTCGGGACAA
1 TTCATAGGTCCTTCGGGACAA
*
1485848 CTCATAGGTCCTTCGGGACATA
1 TTCATAGGTCCTTCGGGACA-A
*
1485870 TTCACAGGTCCTTCGGGACAA
1 TTCATAGGTCCTTCGGGACAA
1485891 AATTTCATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
21 20 0.51
22 19 0.49
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (21 bp):
TTCATAGGTCCTTCGGGACAA
Found at i:1486409 original size:11 final size:11
Alignment explanation
Indices: 1486393--1486418 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1486383 CGGAAGTACT
1486393 GCAGTACTGTA
1 GCAGTACTGTA
1486404 GCAGTACTGTA
1 GCAGTACTGTA
1486415 GCAG
1 GCAG
1486419 GGGAATCGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (11 bp):
GCAGTACTGTA
Found at i:1486854 original size:25 final size:23
Alignment explanation
Indices: 1486813--1486861 Score: 55
Period size: 25 Copynumber: 2.0 Consensus size: 23
1486803 CTTGTATGGT
*
1486813 AATGAGTATGTTGTTTTGCTAATAG
1 AATGAGTATGTTATTTT--TAATAG
1486838 AATGA-TATGTTTATTTTTAATAG
1 AATGAGTATG-TTATTTTTAATAG
1486861 A
1 A
1486862 TGTTCGGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 7 0.32
24 4 0.18
25 11 0.50
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (23 bp):
AATGAGTATGTTATTTTTAATAG
Found at i:1492550 original size:22 final size:21
Alignment explanation
Indices: 1492498--1492561 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
1492488 AGTTGAAGGT
* *
1492498 TTCATAGGTCCTTCAGGACAA
1 TTCATAGGTCATTCGGGACAA
* *
1492519 CTCATAGGTCTTTCGGGACATA
1 TTCATAGGTCATTCGGGACA-A
*
1492541 TTCACAGGTCATTCGGGACAA
1 TTCATAGGTCATTCGGGACAA
1492562 AATTTCATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
21 18 0.50
22 18 0.50
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (21 bp):
TTCATAGGTCATTCGGGACAA
Found at i:1493067 original size:11 final size:11
Alignment explanation
Indices: 1493050--1493092 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
1493040 TTTTTACGGA
1493050 AGTACTGTAGC
1 AGTACTGTAGC
*
1493061 GGTACTGTAGC
1 AGTACTGTAGC
*
1493072 AGTATTGTAGC
1 AGTACTGTAGC
1493083 AGTACTGTAG
1 AGTACTGTAG
1493093 TAGGGGAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (11 bp):
AGTACTGTAGC
Found at i:1493122 original size:21 final size:22
Alignment explanation
Indices: 1493087--1493131 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
1493077 TGTAGCAGTA
* *
1493087 CTGTAGTAGGGGAATCGGTTCC
1 CTGTAGCAGGGGAATCGATTCC
1493109 CTGTAGCA-GGGAATCGATTCC
1 CTGTAGCAGGGGAATCGATTCC
1493130 CT
1 CT
1493132 ATTTGTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (22 bp):
CTGTAGCAGGGGAATCGATTCC
Found at i:1497891 original size:95 final size:95
Alignment explanation
Indices: 1497768--1497958 Score: 332
Period size: 96 Copynumber: 2.0 Consensus size: 95
1497758 AAAATAATAT
1497768 ATATTAAATTAGAGTCTCGTTCATCTCTA-TTTTGTTGTTCTTCTAAGAAGGTTGTTGGGAAGGG
1 ATATTAAATTA-AGTCTCGTTCATCTCTATTTTTGTTGTTCTTCTAAGAAGGTTGTTGGGAAGGG
1497832 AACAAAGTGACGGAGAAGCTGGCGAAATTAG
65 AACAAAGTGACGGAGAAGCTGGCGAAATTAG
*
1497863 ATATTAAATT-AGTCTCGTTCTCATCTCTATTTTTGTTGTTCTTCTAAGAATGTTGTTGGGAAGG
1 ATATTAAATTAAGTCTCG-T-TCATCTCTATTTTTGTTGTTCTTCTAAGAAGGTTGTTGGGAAGG
1497927 GAACAAAGTGACGGAGAAGCTGGCGAAATTAG
64 GAACAAAGTGACGGAGAAGCTGGCGAAATTAG
1497959 CGAATGGTAC
Statistics
Matches: 92, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
93 7 0.08
94 1 0.01
95 19 0.21
96 65 0.71
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (95 bp):
ATATTAAATTAAGTCTCGTTCATCTCTATTTTTGTTGTTCTTCTAAGAAGGTTGTTGGGAAGGGA
ACAAAGTGACGGAGAAGCTGGCGAAATTAG
Found at i:1498201 original size:19 final size:19
Alignment explanation
Indices: 1498154--1498208 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
1498144 GATATTCTAG
1498154 TTTT-ATTTTTAAATTATAA
1 TTTTAATTTTTAAA-TATAA
*
1498173 TTTTTA-TTTTAAAT-TAA
1 TTTTAATTTTTAAATATAA
1498190 TTCTTAATTTTTGAAATAT
1 TT-TTAATTTTT-AAATAT
1498209 TTCAATTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
17 5 0.17
18 4 0.13
19 15 0.50
20 5 0.17
21 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTAATTTTTAAATATAA
Found at i:1498228 original size:60 final size:60
Alignment explanation
Indices: 1498164--1498281 Score: 166
Period size: 60 Copynumber: 2.0 Consensus size: 60
1498154 TTTTATTTTT
* * * * *
1498164 AAATTATAATTTTTATTTTAAATTAATTCTT-AATTTTTGAAATATTTCAATTTCATCCCC
1 AAATTATAACTATCATTTTAAATTAATCCTTAAACTTTTG-AATATTTCAATTTCATCCCC
*
1498224 AAATTATAACTATCATTTTAAATTAATCCTTAAACTTTTGAATCTTTCAATTTCATCC
1 AAATTATAACTATCATTTTAAATTAATCCTTAAACTTTTGAATATTTCAATTTCATCC
1498282 TCAATTTCAT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
60 44 0.86
61 7 0.14
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (60 bp):
AAATTATAACTATCATTTTAAATTAATCCTTAAACTTTTGAATATTTCAATTTCATCCCC
Found at i:1498544 original size:61 final size:60
Alignment explanation
Indices: 1498479--1498596 Score: 141
Period size: 60 Copynumber: 1.9 Consensus size: 60
1498469 TTGGGGATGG
* * *
1498479 AATTGAAATGTTAAAAAAATTT-GAGGACTAATTTATAATA-ACAATCATAATTTAAGGAAGA
1 AATTGAAATATT-AAAAAATTTAGA-GACTAATTTAAAATATA-AATCATAATTGAAGGAAGA
* * *
1498540 AATTGAAATATTTAAAAGTTTAGAGACTAATTTAAAATATAGATCATAATTGAAGGA
1 AATTGAAATATTAAAAAATTTAGAGACTAATTTAAAATATAAATCATAATTGAAGGA
1498597 CAAATGAGGC
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
60 35 0.71
61 14 0.29
ACGTcount: A:0.50, C:0.04, G:0.14, T:0.32
Consensus pattern (60 bp):
AATTGAAATATTAAAAAATTTAGAGACTAATTTAAAATATAAATCATAATTGAAGGAAGA
Found at i:1500474 original size:20 final size:20
Alignment explanation
Indices: 1500438--1500476 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1500428 AAATATTTTT
*
1500438 ATGAATAGTAATTATACTGC
1 ATGAATAGTAATGATACTGC
1500458 ATGAATAGT-ATAGATACTG
1 ATGAATAGTAAT-GATACTG
1500477 TGCAAATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (20 bp):
ATGAATAGTAATGATACTGC
Found at i:1505739 original size:21 final size:23
Alignment explanation
Indices: 1505706--1505749 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
1505696 TAATTATTAC
1505706 AATATTTAAAAT-ATATT-TATT
1 AATATTTAAAATAATATTATATT
**
1505727 AATATTTCTAATAATATTATATT
1 AATATTTAAAATAATATTATATT
1505750 TTTAATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 5 0.26
23 4 0.21
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
AATATTTAAAATAATATTATATT
Found at i:1505750 original size:17 final size:18
Alignment explanation
Indices: 1505723--1505756 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1505713 AAAATATATT
1505723 TATTAATATTTCTAATAA
1 TATTAATATTTCTAATAA
*
1505741 TATT-ATATTTTTAATA
1 TATTAATATTTCTAATA
1505757 TTAGAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTAATATTTCTAATAA
Found at i:1505924 original size:27 final size:27
Alignment explanation
Indices: 1505844--1505929 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
1505834 AATAAAATTT
* *
1505844 ATATTATTTAT-TAATTTCATAGAAATA
1 ATATTATTTATAT-ATTTAATATAAATA
* *
1505871 ATATTA-TTAAAT-TATTAATAATGAATA
1 ATATTATTTATATAT-TTAAT-ATAAATA
1505898 ATATTATTTATATATTTAATATTAATATA
1 ATATTATTTATATATTTAATA-TAA-ATA
1505927 ATA
1 ATA
1505930 ATCTAGTAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
25 1 0.02
26 7 0.15
27 19 0.41
28 12 0.26
29 7 0.15
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (27 bp):
ATATTATTTATATATTTAATATAAATA
Found at i:1505970 original size:23 final size:22
Alignment explanation
Indices: 1505944--1505987 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1505934 AGTAATATTT
1505944 TAATAAAGATATTTAAAATATAG
1 TAATAAAGAT-TTTAAAATATAG
* * *
1505967 TAATTAATATTTTTAAATATA
1 TAATAAAGATTTTAAAATATA
1505988 ATATCACTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (22 bp):
TAATAAAGATTTTAAAATATAG
Found at i:1506111 original size:26 final size:26
Alignment explanation
Indices: 1506050--1506156 Score: 100
Period size: 25 Copynumber: 4.2 Consensus size: 26
1506040 AAAATATACC
*
1506050 AATATTAATATTTTATTAATAAAATTAT
1 AATATTAATA-TTTATTAAT-AAATAAT
*
1506078 AA-AATAATATTTATTAATAAATAAT
1 AATATTAATATTTATTAATAAATAAT
* *
1506103 TATTTTAATA-TT-TTAA-AAATAAT
1 AATATTAATATTTATTAATAAATAAT
1506126 AATATTAAGT-TTTATT-ATAAATAAT
1 AATATTAA-TATTTATTAATAAATAAT
*
1506151 ATTATT
1 AATATT
1506157 TATTGTATTT
Statistics
Matches: 66, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
23 13 0.20
24 8 0.12
25 23 0.35
26 14 0.21
27 6 0.09
28 2 0.03
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (26 bp):
AATATTAATATTTATTAATAAATAAT
Found at i:1507857 original size:16 final size:17
Alignment explanation
Indices: 1507822--1507861 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
1507812 GATTTTATTT
*
1507822 TATTTTTAAATAATATA
1 TATTTTTAAATAACATA
1507839 TATTTTTAAATAACA-A
1 TATTTTTAAATAACATA
1507855 TATTTTT
1 TATTTTT
1507862 CTTTATCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTTTTAAATAACATA
Found at i:1510948 original size:16 final size:16
Alignment explanation
Indices: 1510927--1510957 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1510917 TAAAAATCGA
1510927 CTCGAACTCAAAAAGG
1 CTCGAACTCAAAAAGG
1510943 CTCGAACTCAAAAAG
1 CTCGAACTCAAAAAG
1510958 TATTCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.26, G:0.16, T:0.13
Consensus pattern (16 bp):
CTCGAACTCAAAAAGG
Found at i:1512397 original size:14 final size:14
Alignment explanation
Indices: 1512378--1512467 Score: 108
Period size: 14 Copynumber: 6.4 Consensus size: 14
1512368 GATTAAGGGT
*
1512378 TTAGGGTTTAAGTC
1 TTAGGGTTTAAGGC
1512392 TTAGGGTTTAAGGC
1 TTAGGGTTTAAGGC
*
1512406 TTAAGGTTTAAGGC
1 TTAGGGTTTAAGGC
* *
1512420 TTAGGATTTAAGAC
1 TTAGGGTTTAAGGC
**
1512434 TTAGGGTTTAAAAC
1 TTAGGGTTTAAGGC
* *
1512448 TTAGGGCTTAGGGC
1 TTAGGGTTTAAGGC
1512462 TTAGGG
1 TTAGGG
1512468 CTTATAGTTT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 65 1.00
ACGTcount: A:0.26, C:0.08, G:0.31, T:0.36
Consensus pattern (14 bp):
TTAGGGTTTAAGGC
Found at i:1512459 original size:7 final size:7
Alignment explanation
Indices: 1512447--1512471 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1512437 GGGTTTAAAA
1512447 CTTAGGG
1 CTTAGGG
1512454 CTTAGGG
1 CTTAGGG
1512461 CTTAGGG
1 CTTAGGG
1512468 CTTA
1 CTTA
1512472 TAGTTTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.16, G:0.36, T:0.32
Consensus pattern (7 bp):
CTTAGGG
Found at i:1512608 original size:14 final size:14
Alignment explanation
Indices: 1512591--1512672 Score: 69
Period size: 14 Copynumber: 5.9 Consensus size: 14
1512581 GGTCTTTAGG
1512591 TTTAGGGTTTAAGA
1 TTTAGGGTTTAAGA
* * *
1512605 TTTATGATTTAAGG
1 TTTAGGGTTTAAGA
*
1512619 TTTAGGGTTTGAGA
1 TTTAGGGTTTAAGA
* *
1512633 TTTAGGGTCTAAGG
1 TTTAGGGTTTAAGA
**
1512647 TTTATAGTTT-AGA
1 TTTAGGGTTTAAGA
1512660 GTTTA-GGTTTAAG
1 -TTTAGGGTTTAAG
1512673 GTGTAATCTA
Statistics
Matches: 51, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
13 6 0.12
14 45 0.88
ACGTcount: A:0.26, C:0.01, G:0.28, T:0.45
Consensus pattern (14 bp):
TTTAGGGTTTAAGA
Found at i:1512619 original size:28 final size:28
Alignment explanation
Indices: 1512588--1512650 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
1512578 TTAGGTCTTT
* *
1512588 AGGTTTAGGGTTTAAGATTTATGATTTA
1 AGGTTTAGGGTTTAAGATTTAGGATCTA
* *
1512616 AGGTTTAGGGTTTGAGATTTAGGGTCTA
1 AGGTTTAGGGTTTAAGATTTAGGATCTA
1512644 AGGTTTA
1 AGGTTTA
1512651 TAGTTTAGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.25, C:0.02, G:0.30, T:0.43
Consensus pattern (28 bp):
AGGTTTAGGGTTTAAGATTTAGGATCTA
Found at i:1512656 original size:28 final size:27
Alignment explanation
Indices: 1512576--1512674 Score: 76
Period size: 28 Copynumber: 3.6 Consensus size: 27
1512566 TAGATTAAGG
* *
1512576 GTTTAGGTCTTTAGGTTTAGGGTTTA-A
1 GTTTAGGTC-TAAGGTTTAGAGTTTAGA
* * *
1512603 GATTTATGATTTAAGGTTTAGGGTTT-GA
1 G-TTTA-GGTCTAAGGTTTAGAGTTTAGA
*
1512631 GATTTAGGGTCTAAGGTTTATAGTTTAGA
1 G-TTTA-GGTCTAAGGTTTAGAGTTTAGA
*
1512660 GTTTAGGTTTAAGGT
1 GTTTAGGTCTAAGGT
1512675 GTAATCTAAC
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
27 10 0.17
28 44 0.75
29 5 0.08
ACGTcount: A:0.23, C:0.02, G:0.29, T:0.45
Consensus pattern (27 bp):
GTTTAGGTCTAAGGTTTAGAGTTTAGA
Found at i:1512674 original size:7 final size:7
Alignment explanation
Indices: 1512570--1512674 Score: 56
Period size: 7 Copynumber: 15.0 Consensus size: 7
1512560 TATAATTAGA
1512570 TTAAGGGT
1 TTAA-GGT
1512578 TT-AGGT
1 TTAAGGT
*
1512584 CTTTAGGT
1 -TTAAGGT
*
1512592 TTAGGGT
1 TTAAGGT
*
1512599 TTAAGAT
1 TTAAGGT
* *
1512606 TTATGAT
1 TTAAGGT
1512613 TTAAGGT
1 TTAAGGT
*
1512620 TTAGGGT
1 TTAAGGT
* *
1512627 TTGAGAT
1 TTAAGGT
*
1512634 TTAGGGT
1 TTAAGGT
*
1512641 CTAAGGT
1 TTAAGGT
1512648 TTATA-GT
1 TTA-AGGT
1512655 TT-AGAGT
1 TTAAG-GT
1512662 TT-AGGT
1 TTAAGGT
1512668 TTAAGGT
1 TTAAGGT
1512675 GTAATCTAAC
Statistics
Matches: 74, Mismatches: 17, Indels: 13
0.71 0.16 0.12
Matches are distributed among these distances:
5 1 0.01
6 7 0.09
7 59 0.80
8 7 0.09
ACGTcount: A:0.24, C:0.02, G:0.30, T:0.45
Consensus pattern (7 bp):
TTAAGGT
Found at i:1524764 original size:20 final size:20
Alignment explanation
Indices: 1524739--1524781 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1524729 TCTAAGAGCC
*
1524739 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
1524759 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
1524779 CAT
1 CAT
1524782 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Done.