Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005546.1 Hibiscus syriacus cultivar Beakdansim tig00012840_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: 1755203
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:750570 original size:154 final size:155
Alignment explanation
Indices: 750347--750654 Score: 577
Period size: 154 Copynumber: 2.0 Consensus size: 155
750337 TTTTATACCA
750347 GCAGACCTTGATTTTAGATTTCTATACAAATGAAAACCACAAAGTCCATGAAAAGCATCTGGGAA
1 GCAGACCTTGATTTTAGATTTCTATACAAATGAAAACCACAAAGTCCATGAAAAGCATCTGGGAA
750412 ACACCTTCTAACAGCGTTGTCAATTGAGTTTGCCCTATCGGATATGATTGTCAGATTGCTAATAG
66 ACACCTTCTAACAGCGTTGTCAATTGAGTTTGCCCTATCGGATATGATTGTCAGATTGCT-ATAG
750477 GACCTATGCAAT-CCTAAGATGCCCC
130 GACCTATGCAATCCCTAAGATGCCCC
750502 GCAGACCTTGATTTTAGATTTCTATACAAAT-AAACACC-CAAAGTCCATGAAAAGCATCTGGGA
1 GCAGACCTTGATTTTAGATTTCTATACAAATGAAA-ACCACAAAGTCCATGAAAAGCATCTGGGA
750565 AACACCTTCTAACAGCGTTGTCAATTGAGTTTGCCCTATCGGATATGATTGTCAGATTGCTATAG
65 AACACCTTCTAACAGCGTTGTCAATTGAGTTTGCCCTATCGGATATGATTGTCAGATTGCTATAG
750630 GACCTATGCAATCCCTAAGATGCCC
130 GACCTATGCAATCCCTAAGATGCCC
750655 ATAAACCATG
Statistics
Matches: 151, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
153 16 0.11
154 101 0.67
155 34 0.23
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (155 bp):
GCAGACCTTGATTTTAGATTTCTATACAAATGAAAACCACAAAGTCCATGAAAAGCATCTGGGAA
ACACCTTCTAACAGCGTTGTCAATTGAGTTTGCCCTATCGGATATGATTGTCAGATTGCTATAGG
ACCTATGCAATCCCTAAGATGCCCC
Found at i:755212 original size:24 final size:24
Alignment explanation
Indices: 755178--755231 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
755168 CTGAAACATC
* *
755178 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
755202 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
755226 ATCAAA
1 ATCAAA
755232 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:756311 original size:20 final size:20
Alignment explanation
Indices: 756286--756323 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
756276 ATTCATTTGA
*
756286 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGAGAAAATGG
756306 CTATCGCAACGAGAAAAT
1 CTATCGCAACGAGAAAAT
756324 CGCAATGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGAGAAAATGG
Found at i:756327 original size:14 final size:16
Alignment explanation
Indices: 756308--756350 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
756298 GAAAATGGCT
756308 ATCGCAA-CG-AGAAA
1 ATCGCAAGCGAAGAAA
756322 ATCGCAATGCGAAGAAA
1 ATCGCAA-GCGAAGAAA
*
756339 ATCGCATGCGAA
1 ATCGCAAGCGAA
756351 ATGAATCGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 7 0.28
16 7 0.28
17 11 0.44
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (16 bp):
ATCGCAAGCGAAGAAA
Found at i:756349 original size:16 final size:17
Alignment explanation
Indices: 756317--756350 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
756307 TATCGCAACG
756317 AGAAAATCGCAATGCGA
1 AGAAAATCGCAATGCGA
756334 AGAAAATCGC-ATGCGA
1 AGAAAATCGCAATGCGA
756350 A
1 A
756351 ATGAATCGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.47, C:0.18, G:0.24, T:0.12
Consensus pattern (17 bp):
AGAAAATCGCAATGCGA
Found at i:756507 original size:14 final size:14
Alignment explanation
Indices: 756488--756524 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
756478 CATCAATTAA
756488 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
756502 ACAAATCATCTTTT
1 ACAAATCAACATTT
756516 ACAAATCAA
1 ACAAATCAA
756525 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:758204 original size:20 final size:19
Alignment explanation
Indices: 758169--758235 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
758159 GAAACTTAAA
758169 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
758188 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
758208 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
758227 ATCGCAACG
1 ATCGCAACG
758236 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:758243 original size:14 final size:14
Alignment explanation
Indices: 758224--758281 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
758214 ATGCGAAATG
758224 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
758238 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
758254 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
758270 AAAATCGCAACG
1 AAAATCGCAACG
758282 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:758266 original size:32 final size:33
Alignment explanation
Indices: 758208--758286 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
758198 GGAAATGGCT
*
758208 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
758241 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
758273 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
758287 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:758334 original size:14 final size:14
Alignment explanation
Indices: 758315--758372 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
758305 TTTCATTTCA
758315 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
758329 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
758345 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
758361 CGTTGCGATTTT
1 CGTTGCGATTTT
758373 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:758379 original size:33 final size:33
Alignment explanation
Indices: 758298--758388 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
758288 ACAAATCGCA
* *
758298 TTGCGATTTTCATTTCACGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
758331 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
758363 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
758389 AGCCATTTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:758407 original size:20 final size:19
Alignment explanation
Indices: 758373--758427 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
758363 TTGCGATTTT
*
758373 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
758392 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
758412 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
758428 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:758935 original size:18 final size:18
Alignment explanation
Indices: 758909--758953 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
758899 GTCGATCAGA
*
758909 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
758927 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
758945 TGATGGCTC
1 TGATGGCTC
758954 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:760296 original size:20 final size:20
Alignment explanation
Indices: 760271--760313 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
760261 AATAGTTTCT
760271 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
*
760291 GAAAATGAAAATCGCAACGC
1 GAAAATGAAAATCGCAACAC
760311 GAA
1 GAA
760314 TTCGACTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.53, C:0.19, G:0.19, T:0.09
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:760925 original size:41 final size:41
Alignment explanation
Indices: 760862--760939 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
760852 CGAAAGTCAG
* * *
760862 TATCGCGTTACGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTACGAAAGTAAGTATCGCATTGCGATTTTTTAT
* * *
760903 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTACGAAAGTAAGTATCGCATTGCGATTTT
760940 CCCAATTCGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (41 bp):
TATCGCATTACGAAAGTAAGTATCGCATTGCGATTTTTTAT
Found at i:760928 original size:20 final size:20
Alignment explanation
Indices: 760822--760936 Score: 95
Period size: 20 Copynumber: 5.7 Consensus size: 20
760812 GATTATGTAT
* *
760822 TATCGCGTTGCGAAAGTCAA
1 TATCGCGTTGCGATAGTCAG
* *
760842 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * *
760862 TATCGCGTTACGAAAGTAAG
1 TATCGCGTTGCGATAGTCAG
* ** * *
760882 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-TAGTCAG
*
760903 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
760923 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
760937 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
20 63 0.83
21 13 0.17
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:760954 original size:21 final size:21
Alignment explanation
Indices: 760925--761017 Score: 91
Period size: 20 Copynumber: 4.5 Consensus size: 21
760915 ATAGTCAGTA
760925 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
760946 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
*
760966 TCGTATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
760987 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
761007 TCGCATTGCGA
1 TCGCATTGCGA
761018 ATTGGGAAAA
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 31 0.55
21 25 0.45
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:760955 original size:41 final size:41
Alignment explanation
Indices: 760925--761017 Score: 141
Period size: 41 Copynumber: 2.3 Consensus size: 41
760915 ATAGTCAGTA
* *
760925 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
* * *
760966 TCGTATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
761007 TCGCATTGCGA
1 TCGCATTGCGA
761018 ATTGGGAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:764069 original size:19 final size:19
Alignment explanation
Indices: 764044--764095 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
764034 TTTGGGCAAA
764044 AGAAAAATGAAA-AAAAAG
1 AGAAAAATGAAAGAAAAAG
* *
764062 AGGAAAAAGGAAAGAAAAAT
1 A-GAAAAATGAAAGAAAAAG
764082 A-AAAAATGAAAGAA
1 AGAAAAATGAAAGAA
764096 TCATCATGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 13 0.45
19 10 0.34
20 6 0.21
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (19 bp):
AGAAAAATGAAAGAAAAAG
Found at i:766147 original size:79 final size:78
Alignment explanation
Indices: 766017--766255 Score: 334
Period size: 78 Copynumber: 3.1 Consensus size: 78
766007 TCTGAGCTAG
* * * *
766017 ATTTCAACTTCACGATGAAGGTATCATGCTCAAGTCTTCTAAGATCGACTCAACTGCACGACGAA
1 ATTTCAACTTCACGATGAAGGTATCATGCTCAAGTCATCCAAGATCGACTCAACTTCACGATGAA
766082 GGAGTCATCCACA
66 GGAGTCATCCACA
* *
766095 ATTTCAACTTCACGATGAACGATATCATGCTCAAGTCATCCAAAATCGACTCAACTTCACGATGA
1 ATTTCAACTTCACGATGAA-GGTATCATGCTCAAGTCATCCAAGATCGACTCAACTTCACGATGA
* *
766160 AGGAGTAATCCACG
65 AGGAGTCATCCACA
* * * * *
766174 ATTTCAACTTCACGATGAAGGTATCGTGCTTAAGTTATCCGAGATCTACTCAACTTCACGATGAA
1 ATTTCAACTTCACGATGAAGGTATCATGCTCAAGTCATCCAAGATCGACTCAACTTCACGATGAA
* *
766239 GGATTCATACACA
66 GGAGTCATCCACA
766252 ATTT
1 ATTT
766256 AGCTTAACTC
Statistics
Matches: 141, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
78 71 0.50
79 70 0.50
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (78 bp):
ATTTCAACTTCACGATGAAGGTATCATGCTCAAGTCATCCAAGATCGACTCAACTTCACGATGAA
GGAGTCATCCACA
Found at i:770786 original size:26 final size:26
Alignment explanation
Indices: 770756--770812 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
770746 TCTTGTACAT
*
770756 TGACTGGCACTAAAAGTACATCCTAC
1 TGACTGACACTAAAAGTACATCCTAC
* *
770782 TGACTGACACTAAAAGTGCATCTTAC
1 TGACTGACACTAAAAGTACATCCTAC
770808 TGACT
1 TGACT
770813 CACATACCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (26 bp):
TGACTGACACTAAAAGTACATCCTAC
Found at i:774238 original size:59 final size:60
Alignment explanation
Indices: 774140--774266 Score: 134
Period size: 59 Copynumber: 2.1 Consensus size: 60
774130 ATAATCGAAT
* * * * *
774140 GATCATTTTATAACTTTTAATAGTCGAAGGAGTCAACAAAGTAATACCTTATAG-TTGGG
1 GATCATTTTATAACTTTTAATAGTCGAAGGACTCAACAAAGCAACACCTCATAGATAGGG
* * * *
774199 GATCATTTTATAA-TTTGTAATGGT-TAATGGACTTAACAAAGCAACATCTCATAGATAGGG
1 GATCATTTTATAACTTT-TAATAGTCGAA-GGACTCAACAAAGCAACACCTCATAGATAGGG
774259 GATCATTT
1 GATCATTT
774267 GTGTATTTTA
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
58 5 0.09
59 39 0.70
60 12 0.21
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (60 bp):
GATCATTTTATAACTTTTAATAGTCGAAGGACTCAACAAAGCAACACCTCATAGATAGGG
Found at i:781155 original size:20 final size:19
Alignment explanation
Indices: 781112--781158 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 19
781102 ATATCTAAAT
781112 AAAATATTTTTAAAAATTA
1 AAAATATTTTTAAAAATTA
781131 AAAATATTTTTAAATAA-TA
1 AAAATATTTTTAAA-AATTA
781150 ATAAATATT
1 A-AAATATT
781159 ATTATTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAATATTTTTAAAAATTA
Found at i:781170 original size:23 final size:23
Alignment explanation
Indices: 781034--781175 Score: 89
Period size: 23 Copynumber: 6.1 Consensus size: 23
781024 TATATAGTAT
* *
781034 TAAATAA-AATATTTAATAATAA
1 TAAATAATATTATTTTATAATAA
*
781056 TAAAACATATCATTATTTTATAATAA
1 T-AAATA-AT-ATTATTTTATAATAA
* *
781082 T-AATAATAATATTTATAGTAATATC
1 TAAATAATATTATTT-TA-TAATA-A
* *
781107 TAAATAA-AATATTTT-TAAAAA
1 TAAATAATATTATTTTATAATAA
*
781128 TTAAA-AATATT-TTTAAATAATAA
1 -TAAATAATATTATTT-TATAATAA
*
781151 TAAATATTATTATTTTATAATAA
1 TAAATAATATTATTTTATAATAA
781174 TA
1 TA
781176 CTAATTAATA
Statistics
Matches: 93, Mismatches: 13, Indels: 27
0.70 0.10 0.20
Matches are distributed among these distances:
21 5 0.05
22 21 0.23
23 27 0.29
24 13 0.14
25 8 0.09
26 19 0.20
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (23 bp):
TAAATAATATTATTTTATAATAA
Found at i:781172 original size:26 final size:24
Alignment explanation
Indices: 781042--781189 Score: 91
Period size: 26 Copynumber: 6.3 Consensus size: 24
781032 ATTAAATAAA
*
781042 ATATTTAATAATAATAA-AACATAT
1 ATATTTTATAATAATAATAA-ATAT
781066 CATTATTTTATAATAATAAT-AATA-
1 -A-TATTTTATAATAATAATAAATAT
* * *
781090 ATA-TTTATAGTAATATCTAAATAAA
1 ATATTTTATAATAATA-ATAAAT-AT
* *
781115 ATATTTT-TAA-AA-ATTAAAAAT
1 ATATTTTATAATAATAATAAATAT
781136 AT-TTTTA-AATAATAATAAATATT
1 ATATTTTATAATAATAATAAATA-T
* *
781159 ATTATTTTATAATAATACTAATTA-
1 A-TATTTTATAATAATAATAAATAT
781183 ATATTTT
1 ATATTTT
781190 TTTGAATTTG
Statistics
Matches: 98, Mismatches: 11, Indels: 30
0.71 0.08 0.22
Matches are distributed among these distances:
20 6 0.06
21 16 0.16
22 13 0.13
23 13 0.13
24 5 0.05
25 14 0.14
26 31 0.32
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (24 bp):
ATATTTTATAATAATAATAAATAT
Found at i:786448 original size:55 final size:55
Alignment explanation
Indices: 786386--786647 Score: 400
Period size: 55 Copynumber: 4.8 Consensus size: 55
786376 ACCTCTTTAT
* * * *
786386 TATGAATTTCTTAATTTTGCACAAATAGTACCCATACAGAAATTCATTCACTTAG
1 TATGAATTTCTTAATTTTGCACACATAGTGCCCATACGGAAATTCATACACTTAG
** *
786441 TATGAATTTCTTAATTTT-CACGTATAGTGCCCATATGGAAATTCATACACTTAG
1 TATGAATTTCTTAATTTTGCACACATAGTGCCCATACGGAAATTCATACACTTAG
* *
786495 TATGAATTTCTTAATTTTGCACACATAGTGCCCATACGGAAATCCATACAGTTAG
1 TATGAATTTCTTAATTTTGCACACATAGTGCCCATACGGAAATTCATACACTTAG
* * * *
786550 TATGAATTTCTTAATTTTGAACACATAGTGGCCATACAGAAATTCATAAACTTAG
1 TATGAATTTCTTAATTTTGCACACATAGTGCCCATACGGAAATTCATACACTTAG
786605 TATGAATTTCTTAATTTTGCACACATAGTGCCCATACGGAAAT
1 TATGAATTTCTTAATTTTGCACACATAGTGCCCATACGGAAAT
786648 CACAGTACAT
Statistics
Matches: 186, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
54 48 0.26
55 138 0.74
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (55 bp):
TATGAATTTCTTAATTTTGCACACATAGTGCCCATACGGAAATTCATACACTTAG
Found at i:791619 original size:22 final size:22
Alignment explanation
Indices: 791561--791620 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 22
791551 AGAACCCGAT
791561 GGGGGTATCGATTC-CC-TAAA
1 GGGGGTATCGATTCTCCTTAAA
* * *
791581 GGGGGAATCGGTTCTCCTTCAA
1 GGGGGTATCGATTCTCCTTAAA
791603 -GGGGTATCGATTCCTCCT
1 GGGGGTATCGATT-CTCCT
791621 GCACTAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 12 0.38
21 12 0.38
22 8 0.25
ACGTcount: A:0.18, C:0.23, G:0.30, T:0.28
Consensus pattern (22 bp):
GGGGGTATCGATTCTCCTTAAA
Found at i:793340 original size:19 final size:18
Alignment explanation
Indices: 793318--793364 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
793308 AGTGAATAAT
793318 AATATAAGTAATGAAAAGA
1 AATATAAG-AATGAAAAGA
*
793337 AATAATAAGAATGAAATGA
1 AAT-ATAAGAATGAAAAGA
793356 AATA-AAGAA
1 AATATAAGAA
793365 AGGGATAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 5 0.19
18 1 0.04
19 15 0.58
20 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.19
Consensus pattern (18 bp):
AATATAAGAATGAAAAGA
Found at i:793817 original size:19 final size:21
Alignment explanation
Indices: 793774--793825 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
793764 GAAACCCCTT
793774 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
793795 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
793814 TGAATATACATG
1 TGAAAATACATG
793826 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:794761 original size:30 final size:31
Alignment explanation
Indices: 794722--794781 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
794712 ACATGCTGCC
**
794722 ATGATATCTAAATGATATGCAAACATAATAA
1 ATGATATCTAAAACATATGCAAACATAATAA
* *
794753 ATGA-ATCTAAAACATATGTAAGCATAATA
1 ATGATATCTAAAACATATGCAAACATAATA
794782 TAAAGCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (31 bp):
ATGATATCTAAAACATATGCAAACATAATAA
Found at i:797500 original size:19 final size:18
Alignment explanation
Indices: 797478--797524 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
797468 AGTGAATAAT
797478 AATATAAGTAATGAAAAGA
1 AATATAAG-AATGAAAAGA
*
797497 AATAATAAGAATGAAATGA
1 AAT-ATAAGAATGAAAAGA
797516 AATA-AAGAA
1 AATATAAGAA
797525 AGGGATAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 5 0.19
18 1 0.04
19 15 0.58
20 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.19
Consensus pattern (18 bp):
AATATAAGAATGAAAAGA
Found at i:797977 original size:19 final size:21
Alignment explanation
Indices: 797934--797985 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
797924 GAAACCCCTT
797934 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
797955 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
797974 TGAATATACATG
1 TGAAAATACATG
797986 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:798932 original size:30 final size:31
Alignment explanation
Indices: 798893--798952 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
798883 ACATGCTGCC
**
798893 ATGATATCTAAATGATATGCAAACATAATAA
1 ATGATATCTAAAACATATGCAAACATAATAA
* *
798924 ATGA-ATCTAAAACATATGTAAGCATAATA
1 ATGATATCTAAAACATATGCAAACATAATA
798953 TAAAGCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (31 bp):
ATGATATCTAAAACATATGCAAACATAATAA
Found at i:805578 original size:19 final size:20
Alignment explanation
Indices: 805539--805585 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
805529 AGATTCTCAG
805539 ATTTTTAA-AAGATATTAAT
1 ATTTTTAATAAGATATTAAT
805558 ATTTTTAATAA-ATAATT-AT
1 ATTTTTAATAAGAT-ATTAAT
805577 A-TTTTAATA
1 ATTTTTAATA
805586 TTAAAAAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 8 0.31
19 13 0.50
20 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
ATTTTTAATAAGATATTAAT
Found at i:806732 original size:22 final size:22
Alignment explanation
Indices: 806707--806801 Score: 75
Period size: 22 Copynumber: 4.2 Consensus size: 22
806697 TAAATTAGTA
806707 TAAAATATGGATTGATTTATTT
1 TAAAATATGGATTGATTTATTT
** * ** *
806729 TAAAATAATTTATTTTAAATAATT
1 TAAAAT-ATGGA-TTGATTTATTT
* *
806753 TATTAGTATGGATTGATTTACTTT
1 TA-AAATATGGATTGATTTA-TTT
806777 T-AAATATGGATTGATTTATTT
1 TAAAATATGGATTGATTTATTT
806798 TAAA
1 TAAA
806802 TAATTTATTA
Statistics
Matches: 52, Mismatches: 16, Indels: 10
0.67 0.21 0.13
Matches are distributed among these distances:
21 4 0.08
22 23 0.44
23 8 0.15
24 15 0.29
25 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.11, T:0.51
Consensus pattern (22 bp):
TAAAATATGGATTGATTTATTT
Found at i:806750 original size:14 final size:15
Alignment explanation
Indices: 806564--806756 Score: 244
Period size: 15 Copynumber: 12.5 Consensus size: 15
806554 TAATAAGGTT
806564 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
806579 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
806594 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
806609 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
806624 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
806639 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
806654 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
806669 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
806684 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* * *
806699 AATTAGTATAAAATATGGA
1 ATTTA-TTTTAAA-AT--A
806718 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
806736 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
806750 ATTTATT
1 ATTTATT
806757 AGTATGGATT
Statistics
Matches: 161, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
14 12 0.07
15 129 0.80
16 5 0.03
17 2 0.01
18 1 0.01
19 1 0.01
20 2 0.01
21 5 0.03
22 4 0.02
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:806797 original size:54 final size:54
Alignment explanation
Indices: 806736--807412 Score: 653
Period size: 54 Copynumber: 12.1 Consensus size: 54
806726 TTTTAAAATA
806736 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTACTTTT-AAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTTTAAAATATGGATTG
806790 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTG
806854 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
806908 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTG
*
806972 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATGTGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* **
807026 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATAATTTATTAG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
** * ** * * * ***
807075 TATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
807132 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
807186 CTTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* **
807240 ATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTT-AAATAATTTATTAG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
** * ** * * * * ** *
807295 TATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTATTGTAGTTGAATGAATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATT-TT-AAAAT--ATGGATTG
807352 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
807406 ATTTATT
1 ATTTATT
807413 CTTGTAGTTG
Statistics
Matches: 518, Mismatches: 59, Indels: 92
0.77 0.09 0.14
Matches are distributed among these distances:
47 4 0.01
48 26 0.05
49 3 0.01
50 5 0.01
51 1 0.00
52 2 0.00
53 5 0.01
54 249 0.48
55 23 0.04
56 15 0.03
57 29 0.06
58 47 0.09
59 1 0.00
60 6 0.01
61 2 0.00
63 8 0.02
64 92 0.18
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:806798 original size:21 final size:22
Alignment explanation
Indices: 806759--806803 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
806749 AATTTATTAG
806759 TATGGATTGATTTACTTTTAAA
1 TATGGATTGATTTACTTTTAAA
806781 TATGGATTGATTTA-TTTTAAA
1 TATGGATTGATTTACTTTTAAA
806802 TA
1 TA
806804 ATTTATTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTACTTTTAAA
Found at i:806817 original size:32 final size:32
Alignment explanation
Indices: 806781--807615 Score: 482
Period size: 32 Copynumber: 26.7 Consensus size: 32
806771 TACTTTTAAA
806781 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
806813 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
806845 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
806877 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
806899 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
806931 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
806963 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
806995 TATGGATTGATTTATTTT-AA-AATGTGGATT-G
1 TATGGATTGATTTATTTTAAATAAT-T-TATTAG
** * * *
807026 -ATTTATT-ATTGTAGTTGTATGGATTGATTTATT--
1 TATGGATTGATT-TA-TT-T-T-AAATAATTTATTAG
* * * * * * *
807059 T-T-AAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATT--T-T-AAATAATTTA--TT--AG
*
807097 TATGGATTGATTTA--TT--AT--TGTAGTT-G
1 TATGGATTGATTTATTTTAAATAATTTA-TTAG
807123 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
807155 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
807177 TATGGATTGCTTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
807209 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
807231 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
807263 TATGTATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
* *
807295 TATGGATTGATTTATTTTAAAATATGGATTGATTTAT
1 TATGGATTGATTTATTTT-AAATA---ATTTA-TTAG
*
807332 TATTGTAGTTGAATGAATTGATTTATTTTAAATAATTTATTAG
1 TA-TG--GAT--------TGATTTATTTTAAATAATTTATTAG
*
807375 TATGGATTGATTTATTTTAAAATATGGATTGATT--
1 TATGGATTGATTTATTTT-AAATA---ATTTATTAG
** * * * * * *
807409 TAT-TCTTGTAGTTGTATTGATTGATTTATT--
1 TATGGATTG-ATTTATTTTAAATAATTTATTAG
* * * * * * *
807439 T-T-AAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATT--T-T-AAATAATTTA--TT--AG
* *
807477 TATGAATTGCTTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
807509 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
807531 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
807563 TATGGATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
807595 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
807616 ATATAGATTG
Statistics
Matches: 650, Mismatches: 53, Indels: 200
0.72 0.06 0.22
Matches are distributed among these distances:
22 55 0.08
23 16 0.02
25 4 0.01
26 26 0.04
28 18 0.03
29 11 0.02
30 23 0.04
31 27 0.04
32 349 0.54
33 20 0.03
34 18 0.03
35 3 0.00
36 20 0.03
37 6 0.01
38 5 0.01
39 2 0.00
40 20 0.03
42 2 0.00
43 5 0.01
44 4 0.01
47 5 0.01
48 11 0.02
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:806902 original size:22 final size:22
Alignment explanation
Indices: 806877--806919 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
806867 AATTTATTAG
806877 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
806899 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
806920 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:807072 original size:80 final size:80
Alignment explanation
Indices: 806962--807192 Score: 444
Period size: 80 Copynumber: 2.9 Consensus size: 80
806952 TAATTTATTA
*
806962 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATGTGGATTGA
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
807027 TTTATTATTGTAGTT
66 TTTATTATTGTAGTT
807042 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
807107 TTTATTATTGTAGTT
66 TTTATTATTGTAGTT
*
807122 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGC
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
807187 TTTATT
66 TTTATT
807193 TTAAATAATT
Statistics
Matches: 149, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 149 1.00
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.52
Consensus pattern (80 bp):
GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
TTTATTATTGTAGTT
Found at i:807089 original size:18 final size:18
Alignment explanation
Indices: 807066--807113 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
807056 ATTTTAAATA
*
807066 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
807084 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
807106 ATTTATTA
1 ATTTATTA
807114 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:807180 original size:22 final size:22
Alignment explanation
Indices: 807155--807197 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
807145 AATTTATTAG
807155 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
807177 TATGGATTGCTTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
807198 TAATTTATTA
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:0.33, C:0.02, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:807234 original size:22 final size:22
Alignment explanation
Indices: 807209--807251 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
807199 AATTTATTAG
807209 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
807231 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
807252 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:807286 original size:300 final size:300
Alignment explanation
Indices: 806736--807712 Score: 1543
Period size: 300 Copynumber: 3.2 Consensus size: 300
806726 TTTTAAAATA
806736 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTACTTTT-AAATATGGATTGATTTATTTTA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTTTAAAATATGGATTGATTTA--TT-
*
806800 AATAATTTA-TTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-
62 -AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA
** * * ** * * *
806863 AAATAATTTATTAG-TATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATT
123 AAAT-ATGAATT-GCT-T-TATTTTAAATAATTTATTAGTATGGATTGATTTA-TTT---TAA--
806925 TATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTT
178 -A--A-TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTT
* *
806990 ATTAGTATGGATTGATTTATTTTAAAATGTGGATTGATTTATTATTGTAGTTGTATGGATTG
239 ATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGAATTG
807052 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
*
807117 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGG
66 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGA
807182 ATTGCTTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
131 ATTGCTTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
*
807247 TTAAATAATTTATTAGTATGTATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTT
196 TTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTT
*
807312 TAAAATATGGATTGATTTATTATTGTAGTTGAATGAATTG
261 TAAAATATGGATTGATTTATTATTGTAGTTGTATGAATTG
*
807352 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTCTTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
*
807417 TAGTTGTATTGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGA
66 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGA
807482 ATTGCTTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
131 ATTGCTTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
*
807547 TTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTT
196 TTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTT
*
807612 TAAAATATAGATTGATTTATTATTGTAGTTGTATGAATTG
261 TAAAATATGGATTGATTTATTATTGTAGTTGTATGAATTG
807652 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
807713 TTAAATAATT
Statistics
Matches: 634, Mismatches: 21, Indels: 28
0.93 0.03 0.04
Matches are distributed among these distances:
300 471 0.74
301 1 0.00
303 1 0.00
306 3 0.00
308 1 0.00
309 14 0.02
310 75 0.12
311 6 0.01
312 2 0.00
314 2 0.00
315 4 0.01
316 54 0.09
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (300 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGA
ATTGCTTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
TTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTT
TAAAATATGGATTGATTTATTATTGTAGTTGTATGAATTG
Found at i:807401 original size:80 final size:79
Alignment explanation
Indices: 807181--807492 Score: 464
Period size: 80 Copynumber: 3.8 Consensus size: 79
807171 TTAAAATATG
*
807181 GATTGCTTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-
* *
807246 TTTAAATAATTTA-TTAGTAT
65 -TT--AT--TGTAGTT-GAAT
807266 GTATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA
1 G-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA
807331 TTATTGTAGTTGAAT
65 TTATTGTAGTTGAAT
807346 GAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA
1 G-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA
* *
807411 TTCTTGTAGTTGTATT
65 TTATTGTAGTTG-AAT
* *
807427 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGCTTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
807492 T
66 T
807493 TTAAATAATT
Statistics
Matches: 216, Mismatches: 8, Indels: 11
0.92 0.03 0.05
Matches are distributed among these distances:
80 144 0.67
81 5 0.02
82 2 0.01
84 2 0.01
85 1 0.00
86 62 0.29
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (79 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
TATTGTAGTTGAAT
Found at i:807480 original size:22 final size:22
Alignment explanation
Indices: 807455--807497 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
807445 AATTTATTAG
*
807455 TATGGATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
807477 TATGAATTGCTTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
807498 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:807515 original size:54 final size:54
Alignment explanation
Indices: 807263--807727 Score: 324
Period size: 54 Copynumber: 8.6 Consensus size: 54
807253 AATTTATTAG
*
807263 TATGTATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * * *
807317 TATGGATTGATTTA--TT--AT--TGTAGTT-GAATGAATTGATTTATTTT-AAA
1 TATGAATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAA
** ** * ** * * * ** *
807364 TAATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTCTTGTAG
1 T-ATGAATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATT-TTAAAA
807420 T-TGTATTGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATG-A---ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
807477 TATGAATTGCTTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
807531 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAA
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA
** ** * *
807587 TTTATTTGTATGGATTGATTTATTTTAAA-ATATAGATT-G-ATTTATT-ATTGTAGTTGTATGA
1 --TA--TG-A---ATTGATTTATTTTAAATA-ATTTATTAGTATGGATTGATT-TA-TTTTA-AA
807648 A
54 A
*
807649 T-TG-ATT--TAT-TTT-AAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
807697 TATGGATTGATTTATTTTAAATAATTTATTA
1 TATGAATTGATTTATTTTAAATAATTTATTA
807728 TTGTAGTTGT
Statistics
Matches: 320, Mismatches: 48, Indels: 86
0.70 0.11 0.19
Matches are distributed among these distances:
47 4 0.01
48 36 0.11
49 14 0.04
50 17 0.05
51 4 0.01
52 7 0.02
53 4 0.01
54 137 0.43
55 7 0.02
56 7 0.02
57 17 0.05
58 24 0.08
60 3 0.01
61 3 0.01
62 10 0.03
63 5 0.02
64 21 0.07
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:807534 original size:22 final size:22
Alignment explanation
Indices: 807509--807551 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
807499 AATTTATTAG
807509 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
807531 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
807552 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:807700 original size:22 final size:22
Alignment explanation
Indices: 807675--807717 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
807665 AATTTATTAG
807675 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
807697 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
807718 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:807727 original size:220 final size:213
Alignment explanation
Indices: 806813--807283 Score: 268
Period size: 198 Copynumber: 2.2 Consensus size: 213
806803 AATTTATTAG
*
806813 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-T-GG
* * * ***
806878 ATGGATTGATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
60 ATTGATTTA-TTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
806942 TTATTTT--AA-AT--A---ATTTATTA--GTA--TG---GATTGATTTATTTTAAATAATTTAT
124 TTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGATTGATTTATTTTAAATAATTTAT
806992 TAGTATGGATTGATTTATTTTAAAA
189 TAGTATGGATTGATTTATTTTAAAA
* *
807017 TGTGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G
* * * * *** *
807075 TATGGATTGATTTATTTTA-AAATATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTG
59 GATTGATTTA-TTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTG
* * * * *** *
807132 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTGCTTTATTTTA
122 ATTTATTTT-AA-AA--TA-T-GGATTGATTTA-TTATTGTAGTTGTAT-GATTGATTTATTTTA
807196 AATAATTTATTAGTATGGATTGATTTATTTTAAAA
179 AATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
807231 TATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
807284 TAATTTATTA
Statistics
Matches: 225, Mismatches: 11, Indels: 48
0.79 0.04 0.17
Matches are distributed among these distances:
192 22 0.10
193 2 0.01
194 2 0.01
196 4 0.02
198 72 0.32
199 3 0.01
200 3 0.01
202 2 0.01
203 1 0.00
204 13 0.06
206 4 0.02
207 3 0.01
209 2 0.01
214 62 0.28
216 2 0.01
218 3 0.01
219 4 0.02
220 21 0.09
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (213 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
AAAATATGGATTGATTTATTATTGTAGTTGTATGATTGATTTATTTTAAATAATTTATTAGTATG
GATTGATTTATTTTAAAA
Found at i:810991 original size:2 final size:2
Alignment explanation
Indices: 810984--811020 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
810974 TGAAAAAGGA
* *
810984 AT AT AT AT AT AT AT AT AT AT AG AT AT AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
811021 ACATCAAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (2 bp):
AT
Found at i:811693 original size:27 final size:27
Alignment explanation
Indices: 811663--811733 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 27
811653 AATATATATG
811663 ATGGTAATAATAATAAAGATATAAACA
1 ATGGTAATAATAATAAAGATATAAACA
* * *
811690 ATGGGAA-AATAA-AAAGATATATATA
1 ATGGTAATAATAATAAAGATATAAACA
*
811715 ATAGTAATAAATAAATAAA
1 ATGGTAAT-AAT-AATAAA
811734 AACTAAAAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
25 16 0.46
26 5 0.14
27 9 0.26
28 2 0.06
29 3 0.09
ACGTcount: A:0.62, C:0.01, G:0.11, T:0.25
Consensus pattern (27 bp):
ATGGTAATAATAATAAAGATATAAACA
Found at i:813461 original size:64 final size:63
Alignment explanation
Indices: 813382--813791 Score: 532
Period size: 64 Copynumber: 6.5 Consensus size: 63
813372 AGTCCAATAT
* * * * * *
813382 CCTTCGCTGTGAAGTTGAAATTG-G-CTCTGAAATTGGGGAAGTTTTTTGTTGACAGCCAGCGGC
1 CCTTCGTTGTGAAGTTGAACTTGTGTGTCTGAAACT-GGGAA--ATTTTGTTGACAACCAGCGGC
813445 C
63 C
*
813446 CCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTAAACTGGGAAATTTTGTTG--AACCAGCGG-C
1 CCTTCGTTGTGAAGTTGAACTTGTG-TGTCTGAAACTGGGAAATTTTGTTGACAACCAGCGGCC
* *
813507 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGATACTGGGAAATTTTGTCGACAA-CAGCGGCC
1 CCTTCGTTGTGAAGTTGAACTTGTG-TGTCTGAAACTGGGAAATTTTGTTGACAACCAGCGGCC
* * *
813570 CCTTCGTCGTGAAGTTGAAC-TGTGTTGTCTG--ACAGGGAAATTTTTGTTGACAACCAACGGCC
1 CCTTCGTTGTGAAGTTGAACTTGTG-TGTCTGAAACTGGGAAA-TTTTGTTGACAACCAGCGGCC
*
813632 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAAATTTTGTTGACAACCAGCGGTC
1 CCTTCGTTGTGAAGTTGAACTTGTG-TGTCTGAAACTGGGAAATTTTGTTGACAACCAGCGGCC
813696 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAAATTTTGTTGACAACCAGCGGCC
1 CCTTCGTTGTGAAGTTGAACTTGTG-TGTCTGAAACTGGGAAATTTTGTTGACAACCAGCGGCC
* *
813760 CCTTCGTTGTGAAGTTAAACTTGCGTTGTCTG
1 CCTTCGTTGTGAAGTTGAACTTGTG-TGTCTG
813792 GAGTCCAATA
Statistics
Matches: 313, Mismatches: 22, Indels: 22
0.88 0.06 0.06
Matches are distributed among these distances:
60 8 0.03
61 59 0.19
62 51 0.16
63 33 0.11
64 141 0.45
65 9 0.03
66 5 0.02
67 7 0.02
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (63 bp):
CCTTCGTTGTGAAGTTGAACTTGTGTGTCTGAAACTGGGAAATTTTGTTGACAACCAGCGGCC
Found at i:813663 original size:125 final size:126
Alignment explanation
Indices: 813425--813791 Score: 546
Period size: 125 Copynumber: 2.9 Consensus size: 126
813415 TGGGGAAGTT
* * * *
813425 TTTTGTTGACAGCCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTTAAACTGGGAAAT
1 TTTTGTCGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC-T-GACTGGGAAAT
*
813490 TTTGTTG--AACCAGCGG-CCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGATACTGGGAAA
64 TTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAAA
* *
813550 TTTTGTCGACAA-CAGCGGCCCCTTCGTCGTGAAGTTGAAC-TGTGTTGTCTGACAGGGAAATTT
1 TTTTGTCGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGACTGGGAAA-TT
*
813613 TTGTTGACAACCAACGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAAA
65 TTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAAA
* *
813675 TTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAAAT
1 TTTTGTCGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTG--ACTGGGAAAT
* *
813740 TTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTAAACTTGCGTTGTCTG
64 TTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTG
813792 GAGTCCAATA
Statistics
Matches: 219, Mismatches: 15, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
121 8 0.04
122 9 0.04
123 8 0.04
124 35 0.16
125 64 0.29
126 26 0.12
127 11 0.05
128 50 0.23
129 8 0.04
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (126 bp):
TTTTGTCGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGACTGGGAAATTT
TGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAAA
Found at i:813877 original size:102 final size:107
Alignment explanation
Indices: 813696--813928 Score: 271
Period size: 102 Copynumber: 2.2 Consensus size: 107
813686 ACCAGCGGTC
* * * *
813696 CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAAATTTTGTTGACAACCAGCGGCCC
1 CCTTCGTTGTGAAGTTGAAATTGTG-TCTCTGAAACTGAGAAATTTTGTTGACAA-CAGCCGCCC
*
813761 CTTCGTTGTGAAGTTAAACTTGCGTTGTCTGGAGT-CCA-ATAT
64 CTTCGTTGTGAAGTTAAACTTGCGTTGTCTCGAGTGCCACATAT
* * *
813803 CCTTCGTTGTGAAGTTGAAATTG-G-CTCTGAAATTGAGAAGTTGTTGTTGAC-A-AGCCGTCCC
1 CCTTCGTTGTGAAGTTGAAATTGTGTCTCTGAAACTGAGAAATT-TTGTTGACAACAGCCGCCCC
* *
813864 TTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCCACGATAT
65 TTCGTTGTGAAGTTAAACTTGCGTTGTCTCGAGTGCCAC-ATAT
* * *
813908 CCTCCGTCGTGGAGTTGAAAT
1 CCTTCGTTGTGAAGTTGAAAT
813929 CGCGGATGGC
Statistics
Matches: 109, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
102 38 0.35
103 3 0.03
104 15 0.14
105 30 0.28
106 1 0.01
107 22 0.20
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.34
Consensus pattern (107 bp):
CCTTCGTTGTGAAGTTGAAATTGTGTCTCTGAAACTGAGAAATTTTGTTGACAACAGCCGCCCCT
TCGTTGTGAAGTTAAACTTGCGTTGTCTCGAGTGCCACATAT
Found at i:814710 original size:37 final size:36
Alignment explanation
Indices: 814658--814780 Score: 128
Period size: 37 Copynumber: 3.4 Consensus size: 36
814648 TTCAAAGGTT
814658 TTGTTTCAAGGGAAAACTGTCTCAAGATAGACGAAAA
1 TTGTTTCAAGGGAAAACTGTCTCAAGA-AGACGAAAA
* *
814695 TTGTTTCAAGAGAAAA-TGTCTTAAGAGAGAC-AAAA
1 TTGTTTCAAGGGAAAACTGTCTCAAGA-AGACGAAAA
* * *
814730 CTTAGTTCCAAGGG-AAACTATCTCAAG-AGACGAAAT
1 -TT-GTTTCAAGGGAAAACTGTCTCAAGAAGACGAAAA
*
814766 TTATTTCAAGGGAAA
1 TTGTTTCAAGGGAAA
814781 TGTTTCAATG
Statistics
Matches: 71, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
34 8 0.11
35 12 0.17
36 21 0.30
37 30 0.42
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.25
Consensus pattern (36 bp):
TTGTTTCAAGGGAAAACTGTCTCAAGAAGACGAAAA
Found at i:814802 original size:27 final size:27
Alignment explanation
Indices: 814765--814816 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
814755 AGAGACGAAA
* *
814765 TTTATTTCAAGGGAAA-TGTTTCAATG
1 TTTATTTCAAGAGAAACTGTCTCAATG
814791 TTTATGTTCAAGAGAAACTGTCTCAA
1 TTTAT-TTCAAGAGAAACTGTCTCAA
814817 GAGAGACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 10 0.45
28 7 0.32
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (27 bp):
TTTATTTCAAGAGAAACTGTCTCAATG
Found at i:816400 original size:15 final size:15
Alignment explanation
Indices: 816368--816454 Score: 54
Period size: 17 Copynumber: 5.7 Consensus size: 15
816358 TTTTTGTCCC
**
816368 TTTTT-TTCTTTCGA
1 TTTTTGTTCTTTCTT
816382 TTTTTGTTCTTTCTT
1 TTTTTGTTCTTTCTT
* *
816397 TTTTCTTTTGTTTTCTT
1 TTTT-TGTT-CTTTCTT
* *
816414 TTTTTTTTGCTTCTTTT
1 TTTTTGTT-CTT-TCTT
816431 TTTTTGTT-TTT-TT
1 TTTTTGTTCTTTCTT
816444 CTTTTTGTTCT
1 -TTTTTGTTCT
816455 GATTGAATCT
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
13 2 0.03
14 14 0.23
15 14 0.23
16 10 0.17
17 20 0.33
ACGTcount: A:0.01, C:0.11, G:0.07, T:0.80
Consensus pattern (15 bp):
TTTTTGTTCTTTCTT
Found at i:816412 original size:36 final size:33
Alignment explanation
Indices: 816368--816447 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 33
816358 TTTTTGTCCC
*
816368 TTTTTTTCTTTCGATTTTTG-TTCTTTCTTTTTTCT
1 TTTTTTTCTTT-GATTTTTGCTTCTTT-TTTTTT-G
**
816403 TTTGTTTTCTTTTTTTTTTGCTTCTTTTTTTTTG
1 TTT-TTTTCTTTGATTTTTGCTTCTTTTTTTTTG
816437 TTTTTTTCTTT
1 TTTTTTTCTTT
816448 TTGTTCTGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 8 0.20
34 3 0.08
35 15 0.38
36 14 0.35
ACGTcount: A:0.01, C:0.11, G:0.06, T:0.81
Consensus pattern (33 bp):
TTTTTTTCTTTGATTTTTGCTTCTTTTTTTTTG
Found at i:816413 original size:17 final size:16
Alignment explanation
Indices: 816391--816449 Score: 70
Period size: 14 Copynumber: 3.8 Consensus size: 16
816381 ATTTTTGTTC
816391 TTTCTTTTTTCTTTTGT
1 TTTCTTTTTT-TTTTGT
816408 TTTCTTTTTTTTTTG-
1 TTTCTTTTTTTTTTGT
*
816423 CTTC-TTTTTTTTTGT
1 TTTCTTTTTTTTTTGT
816438 TTT-TTTCTTTTT
1 TTTCTTT-TTTTT
816450 GTTCTGATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
14 10 0.27
15 7 0.19
16 10 0.27
17 10 0.27
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (16 bp):
TTTCTTTTTTTTTTGT
Found at i:816414 original size:21 final size:20
Alignment explanation
Indices: 816367--816454 Score: 79
Period size: 21 Copynumber: 4.1 Consensus size: 20
816357 CTTTTTGTCC
*
816367 CTTTTTTTCTTTCGATTTTTGTT
1 CTTTTTTT-TTTC--TTTTTTTT
*
816390 CTTTCTTTTTTCTTTTGTTTT
1 CTTTTTTTTTTCTTTT-TTTT
816411 CTTTTTTTTTTGCTTCTTTTTT
1 CTTTTTTTTTT-CTT-TTTTTT
*
816433 -TTTGTTTTTTTCTTTTTGTT
1 CTTT-TTTTTTTCTTTTTTTT
816453 CT
1 CT
816455 GATTGAATCT
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
20 9 0.16
21 20 0.36
22 18 0.32
23 9 0.16
ACGTcount: A:0.01, C:0.12, G:0.07, T:0.80
Consensus pattern (20 bp):
CTTTTTTTTTTCTTTTTTTT
Found at i:820921 original size:27 final size:27
Alignment explanation
Indices: 820891--820971 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
820881 TATAAAAATA
*
820891 ATATATATGATGGTAATAATAATAAAG
1 ATATATATAATGGTAATAATAATAAAG
* * * *
820918 ATATAAACAATGGGAAAAATAA-AAAG
1 ATATATATAATGGTAATAATAATAAAG
*
820944 ATATATATAATAGTAATAAATAAATAAA
1 ATATATATAATGGTAAT-AAT-AATAAA
820972 AACTAAAAAC
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
26 16 0.39
27 20 0.49
28 2 0.05
29 3 0.07
ACGTcount: A:0.60, C:0.01, G:0.11, T:0.27
Consensus pattern (27 bp):
ATATATATAATGGTAATAATAATAAAG
Found at i:822299 original size:2 final size:2
Alignment explanation
Indices: 822247--822283 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
822237 ATAAAAAATA
822247 AT AT 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 AT AT A
822284 AAGTTATAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:822568 original size:17 final size:18
Alignment explanation
Indices: 822535--822570 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
822525 ATATATACGT
*
822535 ATAATAATAACATGAATA
1 ATAAAAATAACATGAATA
822553 ATAAAAATAA-ATGAATA
1 ATAAAAATAACATGAATA
822570 A
1 A
822571 AATATCCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.25
Consensus pattern (18 bp):
ATAAAAATAACATGAATA
Found at i:822987 original size:35 final size:35
Alignment explanation
Indices: 822948--823017 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
822938 ACTAAAAACC
822948 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
822983 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
823018 TTTTTTTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (35 bp):
CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
Found at i:823685 original size:106 final size:106
Alignment explanation
Indices: 823499--824267 Score: 1021
Period size: 106 Copynumber: 7.4 Consensus size: 106
823489 TGTATTTTTC
* * * * *
823499 CGAGTCCAATATCCTCCGCA-GTGAAGTTGAAATTGGCTCTGGAACTGGAAAATTGTTTGTTGAC
1 CGAGTCCAATATCCTTCG-ATGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTGTTGAC
* * * * * *
823563 AGCCAACCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCT
65 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * *
823605 TGAGTCTAATATCCTTCGATGTGAAGTTGAAATTGACCCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTGTTGACA
* *
823670 ACCAGCCGTCCCTTCGTTGTGAAGTTGAATTTGTGTCGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * *
823711 CAAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACA
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTGTTGACA
* * *
823776 ACCAGCCGTCCCTTTGTTGTGAAGTTGAAATTATG--GTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * *
823815 CGAGTCCAATATCGTTCGATATGAAGTTAAAATTGACCCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTGTTGACA
**
823880 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGCCGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* *
823921 CGAGTCCAATATCCTTC-A-CT--A-TTG-----G-CTCTGAAATTGGGAGATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTGTTGACA
823975 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * *
824016 TGAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTGTTGACA
* *
824081 ACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCC
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * *
824122 CGAGTCCAACATCCTTTGATGTGAAGTTGAAATT-AGCTCTGAAATTAGGAAATTGTTTGTTGAC
1 CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGA-CTCTGAAATTGGGAAATTGTTTGTTGAC
* *
824186 AACCAGTCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
65 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* *
824228 TGAGTCCAATATCCTT-TACTGTGAAGTTGAAATTGACTCT
1 CGAGTCCAATATCCTTCGA-TGTGAAGTTGAAATTGACTCT
824268 AGCTAAAATT
Statistics
Matches: 584, Mismatches: 62, Indels: 34
0.86 0.09 0.05
Matches are distributed among these distances:
95 81 0.14
96 1 0.00
97 1 0.00
99 1 0.00
100 3 0.01
101 2 0.00
102 1 0.00
104 95 0.16
105 5 0.01
106 393 0.67
107 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTGTTGACA
ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:824753 original size:20 final size:20
Alignment explanation
Indices: 824730--824771 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
824720 TGAGAATGCG
824730 ACAACATTCAGGAGAGTGCA
1 ACAACATTCAGGAGAGTGCA
824750 ACAACATTCAGGAGAGTGCA
1 ACAACATTCAGGAGAGTGCA
824770 AC
1 AC
824772 CTTTCTCTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.21, G:0.24, T:0.14
Consensus pattern (20 bp):
ACAACATTCAGGAGAGTGCA
Found at i:835626 original size:2 final size:2
Alignment explanation
Indices: 835586--835610 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
835576 TAAAAATAAC
835586 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 A
835611 AAGTTATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:836299 original size:35 final size:35
Alignment explanation
Indices: 836255--836328 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 35
836245 AGTACTAAAA
* *
836255 AACTCTATTTTAGACTAGTATTTGTGTCCTAATCC
1 AACTATATTTTAGACTAGTATTTGAGTCCTAATCC
836290 AACTATATTTTAGACTAGTATTTGAGTCCTAATCC
1 AACTATATTTTAGACTAGTATTTGAGTCCTAATCC
836325 AACT
1 AACT
836329 CTTCTTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41
Consensus pattern (35 bp):
AACTATATTTTAGACTAGTATTTGAGTCCTAATCC
Found at i:837110 original size:23 final size:23
Alignment explanation
Indices: 837030--837110 Score: 63
Period size: 23 Copynumber: 3.3 Consensus size: 23
837020 AGTTTTTTAG
*
837030 AATACTTATATTATATTTTCTAAAATT
1 AATA-TTAT-TTATA-TTT-TAAAAAT
* ** *
837057 ATTATTAAGTATATTTTAAATAT
1 AATATTATTTATATTTTAAAAAT
**
837080 TCTATTATTTATATTTTAAAAAT
1 AATATTATTTATATTTTAAAAAT
837103 AATATTAT
1 AATATTAT
837111 GATATTATAT
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
23 29 0.69
24 3 0.07
25 4 0.10
26 3 0.07
27 3 0.07
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (23 bp):
AATATTATTTATATTTTAAAAAT
Found at i:837324 original size:21 final size:19
Alignment explanation
Indices: 837270--837331 Score: 52
Period size: 21 Copynumber: 3.1 Consensus size: 19
837260 AATAGCATTG
*
837270 AAAATTATAATATTAAAAT
1 AAAAATATAATATTAAAAT
837289 AAAAATATTATATATTAATAAGT
1 AAAAATA-TA-ATATTAA-AA-T
* * *
837312 AATACTATAATATTATAAT
1 AAAAATATAATATTAAAAT
837331 A
1 A
837332 TTAAATAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 8 0.23
20 4 0.11
21 13 0.37
22 4 0.11
23 6 0.17
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
AAAAATATAATATTAAAAT
Found at i:837850 original size:12 final size:12
Alignment explanation
Indices: 837805--837863 Score: 57
Period size: 12 Copynumber: 5.0 Consensus size: 12
837795 GTTCATGACA
*
837805 AAGCTCGTTTA-
1 AAGCTCATTTAT
837816 AAGCTCATTTAT
1 AAGCTCATTTAT
* **
837828 GAGCTTGTTTAT
1 AAGCTCATTTAT
*
837840 AAGTTCATTTAT
1 AAGCTCATTTAT
*
837852 GAGCTCATTTAT
1 AAGCTCATTTAT
837864 CAACTCGTTC
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
11 10 0.27
12 27 0.73
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (12 bp):
AAGCTCATTTAT
Found at i:837863 original size:24 final size:24
Alignment explanation
Indices: 837806--837863 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
837796 TTCATGACAA
837806 AGCTCGTTTA-AAGCTCATTTATG
1 AGCTCGTTTATAAGCTCATTTATG
* *
837829 AGCTTGTTTATAAGTTCATTTATG
1 AGCTCGTTTATAAGCTCATTTATG
*
837853 AGCTCATTTAT
1 AGCTCGTTTAT
837864 CAACTCGTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 9 0.30
24 21 0.70
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.45
Consensus pattern (24 bp):
AGCTCGTTTATAAGCTCATTTATG
Found at i:838959 original size:30 final size:30
Alignment explanation
Indices: 838898--838983 Score: 122
Period size: 29 Copynumber: 2.9 Consensus size: 30
838888 AAAATGACAG
*
838898 AAACTTAAAGGATTAAAATAG-AAAAACAA
1 AAACTTAAAGGACTAAAATAGCAAAAACAA
*
838927 AAACTTAAAGGACTAAAATAGCAAAAATAA
1 AAACTTAAAGGACTAAAATAGCAAAAACAA
* *
838957 AAATTTAAAGGAC-CAAATAGCAAAAAC
1 AAACTTAAAGGACTAAAATAGCAAAAAC
838984 CATAAATATA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
29 32 0.63
30 19 0.37
ACGTcount: A:0.63, C:0.10, G:0.10, T:0.16
Consensus pattern (30 bp):
AAACTTAAAGGACTAAAATAGCAAAAACAA
Found at i:839895 original size:26 final size:26
Alignment explanation
Indices: 839866--839921 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
839856 TCATATTTTT
839866 TCTCTACACCGAAATGGTTCCCTTTC
1 TCTCTACACCGAAATGGTTCCCTTTC
839892 TCTCTACACCGAAATGGTTCCCTTTC
1 TCTCTACACCGAAATGGTTCCCTTTC
839918 TCTC
1 TCTC
839922 CTCCTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.18, C:0.36, G:0.11, T:0.36
Consensus pattern (26 bp):
TCTCTACACCGAAATGGTTCCCTTTC
Found at i:840528 original size:18 final size:18
Alignment explanation
Indices: 840505--840541 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
840495 AAGCATCATT
840505 TTTAAACCAAACCCCAAA
1 TTTAAACCAAACCCCAAA
*
840523 TTTAAACCAAAGCCCAAA
1 TTTAAACCAAACCCCAAA
840541 T
1 T
840542 AAAATAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.30, G:0.03, T:0.19
Consensus pattern (18 bp):
TTTAAACCAAACCCCAAA
Found at i:840578 original size:28 final size:28
Alignment explanation
Indices: 840525--840580 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
840515 ACCCCAAATT
* *
840525 TAAACCAAAGCCCAAATAAAATAAACCC
1 TAAACCAAACCCCAAATAAAACAAACCC
*
840553 TAAACCAAAACCCCAAA-ATAACAAACCC
1 TAAACC-AAACCCCAAATAAAACAAACCC
840581 CAAAACATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.57, C:0.32, G:0.02, T:0.09
Consensus pattern (28 bp):
TAAACCAAACCCCAAATAAAACAAACCC
Found at i:852497 original size:17 final size:18
Alignment explanation
Indices: 852475--852514 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
852465 TTGTGGCAAG
852475 AGTTCCATAAATGAAAC-
1 AGTTCCATAAATGAAACA
852492 AGTTCCATAAATGAAACA
1 AGTTCCATAAATGAAACA
852510 AGTTC
1 AGTTC
852515 TTCTAAGACT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.25
Consensus pattern (18 bp):
AGTTCCATAAATGAAACA
Found at i:853025 original size:20 final size:20
Alignment explanation
Indices: 852992--853092 Score: 143
Period size: 20 Copynumber: 5.0 Consensus size: 20
852982 TCTAGAAAAT
*
852992 TAAATCCTCTGGGTGATTTG
1 TAAATCCTCTGGGTAATTTG
*
853012 TAAAACCT-TCGGGTAATTTG
1 TAAATCCTCT-GGGTAATTTG
853032 TAAATCCTCTGGGTAATTTG
1 TAAATCCTCTGGGTAATTTG
853052 TAAATCCTCTGGGTAATTTG
1 TAAATCCTCTGGGTAATTTG
*
853072 TAAATCCT-TCGGGTCATTTG
1 TAAATCCTCT-GGGTAATTTG
853092 T
1 T
853093 TAGTTTTTCG
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
19 2 0.03
20 71 0.96
21 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.40
Consensus pattern (20 bp):
TAAATCCTCTGGGTAATTTG
Found at i:853213 original size:36 final size:35
Alignment explanation
Indices: 853164--853254 Score: 155
Period size: 36 Copynumber: 2.5 Consensus size: 35
853154 AGATCTCCAC
*
853164 GAAGAGTAATGAAGTCATTCAATTTCAACCTTCACG
1 GAAGAGTAGTGAAGT-ATTCAATTTCAACCTTCACG
853200 GAAGAGTAGTGAAGTTATTCAATTTCAACCTTCACG
1 GAAGAGTAGTGAAG-TATTCAATTTCAACCTTCACG
853236 GAAGAGTAGTGAAGTATTC
1 GAAGAGTAGTGAAGTATTC
853255 CAAACATGAA
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
35 5 0.09
36 47 0.89
37 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (35 bp):
GAAGAGTAGTGAAGTATTCAATTTCAACCTTCACG
Found at i:853315 original size:20 final size:20
Alignment explanation
Indices: 853282--853362 Score: 96
Period size: 20 Copynumber: 4.0 Consensus size: 20
853272 TTCATAAAAT
853282 TAAATCC-TCTGGGTGAA-TTG
1 TAAATCCTTC-GGGT-AATTTG
*
853302 TAAAACCTTCGGGTAATTTG
1 TAAATCCTTCGGGTAATTTG
853322 TAAATCC-TCTGGGTAATTTG
1 TAAATCCTTC-GGGTAATTTG
*
853342 TAAATCCTTCGGGTCATTTG
1 TAAATCCTTCGGGTAATTTG
853362 T
1 T
853363 TAGTTTTTCG
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
19 4 0.07
20 46 0.85
21 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (20 bp):
TAAATCCTTCGGGTAATTTG
Found at i:853343 original size:40 final size:40
Alignment explanation
Indices: 853282--853362 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
853272 TTCATAAAAT
853282 TAAATCCTCTGGGTGAATTGTAAAACCTTCGGGTAATTTG
1 TAAATCCTCTGGGTGAATTGTAAAACCTTCGGGTAATTTG
* *
853322 TAAATCCTCTGGGT-AATTTGTAAATCCTTCGGGTCATTTG
1 TAAATCCTCTGGGTGAA-TTGTAAAACCTTCGGGTAATTTG
853362 T
1 T
853363 TAGTTTTTCG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 2 0.05
40 36 0.95
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (40 bp):
TAAATCCTCTGGGTGAATTGTAAAACCTTCGGGTAATTTG
Found at i:853382 original size:270 final size:282
Alignment explanation
Indices: 853029--853570 Score: 804
Period size: 294 Copynumber: 1.9 Consensus size: 282
853019 TTCGGGTAAT
*
853029 TTGTAAATCCTCTGGGTAATTTGTAAATCCTCTGGGTAATTTGTAAATCCTTCGGGTCATTTGTT
1 TTGTAAAACCTCTGGGTAATTTGTAAATCCTCTGGGTAATTTGTAAATCCTTCGGGTCATTTGTT
* *
853094 AGTTTTTCGAGCATGATGTTTAAAACTTTCGGGTCATATGTTAGTC-T-T-AG-G-G-CC-A-TC
66 AGTTTTTCGAGCATGATGTTTAAAACCTTCGGGTCATATGTTAGTCTTATAAGAGAGTCCTAGCC
*
853151 GT---AAGATCTCCAC-GAAGAGTAATGAAGTCATTCAATTTCAACCTTCACGGAAGAGTAGTGA
131 ATAAGAAGATCTCCACGGAAGAGTAATGAAGTCATTCAATTTCAACCTTCACGGAAGAGTAGTGA
853212 AGTTATTCAATTTCAACCTTCACGGAAGAGTAGTGAAGTATTCCAAACATGAATCTGATCTTCAT
196 AGTTATTCAATTTCAACCTTCACGGAAGAGTAGTGAAGTATTCCAAACATGAATCTGATCTTCAT
853277 AAAATTAAATCCTCTGGGTGAA
261 AAAATTAAATCCTCTGGGTGAA
853299 TTGTAAAACCT-TCGGGTAATTTGTAAATCCTCTGGGTAATTTGTAAATCCTTCGGGTCATTTGT
1 TTGTAAAACCTCT-GGGTAATTTGTAAATCCTCTGGGTAATTTGTAAATCCTTCGGGTCATTTGT
853363 TAGTTTTTCGAGCATGATGTTTAAAACCTTCGGGTCATATGTTAGTCTTTTGATCAAGATGATAA
65 TAGTTTTTCGAGCATGATGTTTAAAACCTTCGGGTCATATGTTAGTC--TT-AT-AAGA-G---A
** *
853428 GTCCTTAGGGCCATTCGTAAGATCTCCACGGAAGAGTAATGAAGTCATTCAATTTCAACCTTCAT
122 GTCC-TA--GCCATAAG-AAGATCTCCACGGAAGAGTAATGAAGTCATTCAATTTCAACCTTCAC
*
853493 GGAAGAGTAGTGAGGTTATTCAATTTCAACCTTCACGGAAGAGTAGTGAAGTATTCCAAACATGA
183 GGAAGAGTAGTGAAGTTATTCAATTTCAACCTTCACGGAAGAGTAGTGAAGTATTCCAAACATGA
853558 ATCTGATCTTCAT
248 ATCTGATCTTCAT
853571 GGAAGAGTAG
Statistics
Matches: 241, Mismatches: 6, Indels: 26
0.88 0.02 0.10
Matches are distributed among these distances:
269 1 0.00
270 107 0.44
273 1 0.00
275 1 0.00
277 2 0.01
279 1 0.00
283 1 0.00
284 2 0.01
286 1 0.00
289 2 0.01
293 11 0.05
294 111 0.46
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (282 bp):
TTGTAAAACCTCTGGGTAATTTGTAAATCCTCTGGGTAATTTGTAAATCCTTCGGGTCATTTGTT
AGTTTTTCGAGCATGATGTTTAAAACCTTCGGGTCATATGTTAGTCTTATAAGAGAGTCCTAGCC
ATAAGAAGATCTCCACGGAAGAGTAATGAAGTCATTCAATTTCAACCTTCACGGAAGAGTAGTGA
AGTTATTCAATTTCAACCTTCACGGAAGAGTAGTGAAGTATTCCAAACATGAATCTGATCTTCAT
AAAATTAAATCCTCTGGGTGAA
Found at i:853497 original size:36 final size:35
Alignment explanation
Indices: 853454--853548 Score: 145
Period size: 36 Copynumber: 2.7 Consensus size: 35
853444 GTAAGATCTC
*
853454 CACGGAAGAGTAATGAAGTCATTCAATTTCAACCTT
1 CACGGAAGAGTAGTGAAGT-ATTCAATTTCAACCTT
* *
853490 CATGGAAGAGTAGTGAGGTTATTCAATTTCAACCTT
1 CACGGAAGAGTAGTGAAG-TATTCAATTTCAACCTT
853526 CACGGAAGAGTAGTGAAGTATTC
1 CACGGAAGAGTAGTGAAGTATTC
853549 CAAACATGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
35 5 0.09
36 47 0.89
37 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (35 bp):
CACGGAAGAGTAGTGAAGTATTCAATTTCAACCTT
Found at i:853651 original size:74 final size:75
Alignment explanation
Indices: 853558--853708 Score: 232
Period size: 75 Copynumber: 2.0 Consensus size: 75
853548 CCAAACATGA
* *
853558 ATCTGATCTTCATGGAAGAGTAGTGAAACA-ATTCTTCTCAAGTCAATTCAACCTTCACGGAAGA
1 ATCTGATCTTCACGGAAGAGTAGTGAAACAGATTCTTCTCAAGTCAATTCAAACTTCACGGAAGA
* *
853622 GTAGTGAAGT
66 ATAGTAAAGT
* * *
853632 ATCTGATCTTCACGGAAGAGTAGTGAAACAGATTTTTCTCAAGTTAATTCAAACTTCATGGAAGA
1 ATCTGATCTTCACGGAAGAGTAGTGAAACAGATTCTTCTCAAGTCAATTCAAACTTCACGGAAGA
853697 ATAGTAAAGT
66 ATAGTAAAGT
853707 AT
1 AT
853709 TCCAACCACG
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
74 29 0.42
75 40 0.58
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (75 bp):
ATCTGATCTTCACGGAAGAGTAGTGAAACAGATTCTTCTCAAGTCAATTCAAACTTCACGGAAGA
ATAGTAAAGT
Found at i:853786 original size:42 final size:42
Alignment explanation
Indices: 853692--853788 Score: 167
Period size: 42 Copynumber: 2.3 Consensus size: 42
853682 AAACTTCATG
* *
853692 GAAGAATAGTAAAGTATTCCAACCACGAATTTGATCTTCACA
1 GAAGAGTAGTGAAGTATTCCAACCACGAATTTGATCTTCACA
*
853734 GAAGAGTAGTGAAGTATTCTAACCACGAATTTGATCTTCACA
1 GAAGAGTAGTGAAGTATTCCAACCACGAATTTGATCTTCACA
853776 GAAGAGTAGTGAA
1 GAAGAGTAGTGAA
853789 ACAGATTCTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (42 bp):
GAAGAGTAGTGAAGTATTCCAACCACGAATTTGATCTTCACA
Found at i:854059 original size:3 final size:3
Alignment explanation
Indices: 854051--854079 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
854041 CCGTTATATA
854051 TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
854080 CAAGCCTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:854071 original size:17 final size:18
Alignment explanation
Indices: 854044--854079 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
854034 GTCGTTTCCG
854044 TTATATATATTATTATTA
1 TTATATATATTATTATTA
854062 TTAT-TATATTATTATTA
1 TTATATATATTATTATTA
854079 T
1 T
854080 CAAGCCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATATATATTATTATTA
Found at i:856747 original size:64 final size:63
Alignment explanation
Indices: 856672--856792 Score: 170
Period size: 64 Copynumber: 1.9 Consensus size: 63
856662 ATCGTTCAAG
* * *
856672 GTGTATCGATGCACATGAAGTGCATCGATGCACTCCTTTAAAATAAAAACATCAAATGTCATTA
1 GTGTATCGATGCACAAGAAGTGCATCGATGCACCCCATT-AAATAAAAACATCAAATGTCATTA
* * * *
856736 GTGTATCGATGCACAAGTAGTGTATCGATGCACCCCATTAAATACAAACATCGAATG
1 GTGTATCGATGCACAAGAAGTGCATCGATGCACCCCATTAAATAAAAACATCAAATG
856793 GGATTTATGC
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
63 16 0.32
64 34 0.68
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.26
Consensus pattern (63 bp):
GTGTATCGATGCACAAGAAGTGCATCGATGCACCCCATTAAATAAAAACATCAAATGTCATTA
Found at i:857525 original size:23 final size:23
Alignment explanation
Indices: 857457--857517 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
857447 CAATCTTATA
* *
857457 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCAGTGCAATTCTACG
*
857480 CGGCACTTCAGTGCAATTCTACG
1 TGGCACTTCAGTGCAATTCTACG
857503 TGGCACTTCAGTGCA
1 TGGCACTTCAGTGCA
857518 TTTATACGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.21, C:0.28, G:0.25, T:0.26
Consensus pattern (23 bp):
TGGCACTTCAGTGCAATTCTACG
Found at i:858316 original size:148 final size:145
Alignment explanation
Indices: 858039--858331 Score: 527
Period size: 148 Copynumber: 2.0 Consensus size: 145
858029 AATGTGACAT
858039 CTGGACTCGTATCCGGGCGGGTATGGTTGAGGGTGTTACAAAAGTAATGCCCTATCCCTGAGGCA
1 CTGGACTCGTATCCGGGCGGGTATGGTTGAGGGTGTTACAAAAGTAATGCCCTATCCCTGAGGCA
858104 CCAAAACTTGTACTTTTACCTTTCAAGACAAAAAAACCTTTCCATAACATTACCTTTTCAAAAAT
66 CCAAAACTTGTACTTTTACCTTTCAAGACAAAAAAACCTTTCCATAACATTACCTTTTCAAAAAT
858169 TATGAC-TTAAAGTC
131 TATGACTTTAAAGTC
858183 CTGGACTCGTATCCGGGTCGGGTATGGGTTGAGGGTGTTACAAAAGTAATGCCCTTATCCCCTGA
1 CTGGACTCGTATCCGGG-CGGGTAT-GGTTGAGGGTGTTACAAAAGTAATGCCC-TAT-CCCTGA
858248 GGCACCAAAACTTGTACTTTTACCTTTCAAGACAAAAATAACCTTTCCATAACATTACCTTTTC-
62 GGCACCAAAACTTGTACTTTTACCTTTCAAGACAAAAA-AACCTTTCCATAACATTACCTTTTCA
858312 AAAATTATGACTTTAAAGTC
126 AAAATTATGACTTTAAAGTC
858332 ACACATTTCC
Statistics
Matches: 143, Mismatches: 0, Indels: 7
0.95 0.00 0.05
Matches are distributed among these distances:
144 17 0.12
145 7 0.05
146 28 0.20
147 3 0.02
148 55 0.38
149 33 0.23
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (145 bp):
CTGGACTCGTATCCGGGCGGGTATGGTTGAGGGTGTTACAAAAGTAATGCCCTATCCCTGAGGCA
CCAAAACTTGTACTTTTACCTTTCAAGACAAAAAAACCTTTCCATAACATTACCTTTTCAAAAAT
TATGACTTTAAAGTC
Found at i:858943 original size:7 final size:7
Alignment explanation
Indices: 858923--859032 Score: 71
Period size: 7 Copynumber: 14.9 Consensus size: 7
858913 AATATATAGC
858923 AAAAAAG
1 AAAAAAG
**
858930 ATGAAAG
1 AAAAAAG
858937 AAAAAAG
1 AAAAAAG
858944 ATAGAAAAG
1 A-A-AAAAG
858953 AAAAAATG
1 AAAAAA-G
858961 AAAAAAG
1 AAAAAAG
858968 AGAAAAA-
1 A-AAAAAG
**
858975 ATGGAAA-
1 A-AAAAAG
858982 AAAAAAG
1 AAAAAAG
*
858989 AAAAAGG
1 AAAAAAG
*
858996 AAAAAGG
1 AAAAAAG
859003 AAAAAAGAG
1 -AAAAA-AG
859012 AAAAAAG
1 AAAAAAG
*
859019 AAGAAAG
1 AAAAAAG
859026 AATAAAA
1 AA-AAAA
859033 TAGATAGATC
Statistics
Matches: 82, Mismatches: 13, Indels: 15
0.75 0.12 0.14
Matches are distributed among these distances:
6 3 0.04
7 45 0.55
8 27 0.33
9 7 0.09
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (7 bp):
AAAAAAG
Found at i:858971 original size:17 final size:17
Alignment explanation
Indices: 858937--859024 Score: 67
Period size: 17 Copynumber: 5.1 Consensus size: 17
858927 AAGATGAAAG
*
858937 AAAAAAGATAGAAA-AGA
1 AAAAAAGA-AAAAAGAGA
*
858954 AAAAATGAAAAAAGAGA
1 AAAAAAGAAAAAAGAGA
*
858971 AAAAATGGAAAAAA-A-A
1 AAAAA-AGAAAAAAGAGA
*
858987 AGAAAAAGGAAAAAG-GA
1 A-AAAAAGAAAAAAGAGA
859004 AAAAAGAGAAAAAAGAAGA
1 AAAAA-AGAAAAAAG-AGA
859023 AA
1 AA
859025 GAATAAAATA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
16 16 0.28
17 30 0.53
18 7 0.12
19 4 0.07
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.03
Consensus pattern (17 bp):
AAAAAAGAAAAAAGAGA
Found at i:858975 original size:24 final size:24
Alignment explanation
Indices: 858923--859032 Score: 84
Period size: 23 Copynumber: 4.5 Consensus size: 24
858913 AATATATAGC
** *
858923 AAAAAAGATGAAAGA-AAAAAGAT
1 AAAAAAGAAAAAAGAGAAAAAGAG
*
858946 AGAAAAGAAAAAATGA-AAAAAGAG
1 AAAAAAGAAAAAA-GAGAAAAAGAG
*
858970 AAAAAATGGAAAAAAAAAGAAAAAG-G
1 AAAAAA--G-AAAAAAGAGAAAAAGAG
*
858996 AAAAAGGAAAAAAGAGAAAAA-AG
1 AAAAAAGAAAAAAGAGAAAAAGAG
*
859019 AAGAAAGAATAAAA
1 AAAAAAGAA-AAAA
859033 TAGATAGATC
Statistics
Matches: 70, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
23 31 0.44
24 19 0.27
26 8 0.11
27 12 0.17
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (24 bp):
AAAAAAGAAAAAAGAGAAAAAGAG
Found at i:861053 original size:58 final size:56
Alignment explanation
Indices: 860912--861069 Score: 217
Period size: 57 Copynumber: 2.8 Consensus size: 56
860902 GCAAAGGATT
* **
860912 TTTTTAAAGAAACTAAGCCTGATTTTCATGGGTTTCTTAATGATTATCTCCAACGAA
1 TTTTTAAAGAAACTAAGCCTGATTTTCA-GGGTTTCTTGATGACGATCTCCAACGAA
* * *
860969 TTTTTAAAGAAACTAAGCCTGATTTTCAGGTGTTTCTTGATGACGATTTTCAATGAA
1 TTTTTAAAGAAACTAAGCCTGATTTTCAGG-GTTTCTTGATGACGATCTCCAACGAA
*
861026 TTTTTATAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGA
1 TTTTTA-AAGAAACTAAGCCTGATTTTC-AGGGTTTCTTGATGA
861070 GTAAGTCCTT
Statistics
Matches: 91, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 54 0.59
58 32 0.35
59 3 0.03
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (56 bp):
TTTTTAAAGAAACTAAGCCTGATTTTCAGGGTTTCTTGATGACGATCTCCAACGAA
Found at i:861385 original size:42 final size:42
Alignment explanation
Indices: 861326--861419 Score: 127
Period size: 42 Copynumber: 2.3 Consensus size: 42
861316 AAGGTTTTCT
* *
861326 TGATGAGTAAGTCCTTCGGATCATCGGCAAGTCTTTCGAGCA
1 TGATGAGTAAGTCCTTCGGACCATCGACAAGTCTTTCGAGCA
* * *
861368 TGATGCGTAAGTCCTTCGGACCATCTATAAGTCTTTCGAGCA
1 TGATGAGTAAGTCCTTCGGACCATCGACAAGTCTTTCGAGCA
*
861410 AGATGA-TAAG
1 TGATGAGTAAG
861420 CCTCAGGGCC
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 4 0.09
42 41 0.91
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (42 bp):
TGATGAGTAAGTCCTTCGGACCATCGACAAGTCTTTCGAGCA
Found at i:861563 original size:261 final size:262
Alignment explanation
Indices: 861015--861762 Score: 1119
Period size: 261 Copynumber: 2.9 Consensus size: 262
861005 TTGATGACGA
*
861015 TTTTCA-ATGAATTTTTATAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCT
1 TTTTCATATGAATTTTTATAAGAAACTAAGCTTGATTTTCAAGGTTTTCTTGATGAGTAAGTCCT
** * * * *
861079 TCGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGTTCATCTATAAGTTTTTCA
66 TCGGGCCATCAGTAAGTCTTTCGAGCATGATGCGTAAGTCCTTCGGTCCATCTATAAGTCTTTCG
* * * *
861144 AGCAAGATGATAAGTCTTTC-GGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAATATTTTC
131 AGCAAGATGATAAGAC-CTCAGGGCCATCCATAAGACCTTCGAGCAGGATGTTTTCAACATTTTC
* * * *
861208 GGTACACGATTCATCACATATGGAGTTGAATCTTGATGTGGGGGTACGTTACCCAAACAACATGA
195 AGTACTCGATTCATCACATATGGAGTTGAATCTTGACGTGGGGGCACGTTACCCAAACAACATGA
*
861273 TAT
260 CAT
* *
861276 TTTTAATATGAATTTTTATAAGAAACTAGGCTTGATTTTCAAGGTTTTCTTGATGAGTAAGTCCT
1 TTTTCATATGAATTTTTATAAGAAACTAAGCTTGATTTTCAAGGTTTTCTTGATGAGTAAGTCCT
** * * *
861341 TCGGATCATCGGCAAGTCTTTCGAGCATGATGCGTAAGTCCTTCGGACCATCTATAAGTCTTTCG
66 TCGGGCCATCAGTAAGTCTTTCGAGCATGATGCGTAAGTCCTTCGGTCCATCTATAAGTCTTTCG
* * *
861406 AGCAAGATGATAAG-CCTCAGGGCCATCCGTAAGACCTTCGAGCAGGATATTTTCAACATTTCCA
131 AGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTTCGAGCAGGATGTTTTCAACATTTTCA
*
861470 GTACTCGATTCATCACATATGGAGTTGAATCTTGGCGTGGGGGCACGTTACCCAAACAACATGAC
196 GTACTCGATTCATCACATATGGAGTTGAATCTTGACGTGGGGGCACGTTACCCAAACAACATGAC
861535 AT
261 AT
* *
861537 TTTTCATATGAATTTTTATAAGAAACTAAACTTGATTTTCATGGTTTTCTTGATGAGTAAGTCCT
1 TTTTCATATGAATTTTTATAAGAAACTAAGCTTGATTTTCAAGGTTTTCTTGATGAGTAAGTCCT
* *
861602 TCGGGCCA-CTAGTAAGTCTTTCGAGCATTATGCGTAAGTCCTTCAGTCCATCTATAAGTCTTTC
66 TCGGGCCATC-AGTAAGTCTTTCGAGCATGATGCGTAAGTCCTTCGGTCCATCTATAAGTCTTTC
* *
861666 GAGCAAGATTATAAGACCTTAGGGCCATCCATAAGACCTTC-AGGCAGGATGTTTTCAACATTTT
130 GAGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTTCGA-GCAGGATGTTTTCAACATTTT
* *
861730 TAGTACTCGATTCATCACATATGGAGTTAAATC
194 CAGTACTCGATTCATCACATATGGAGTTGAATC
861763 AGCAACACCT
Statistics
Matches: 438, Mismatches: 44, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
260 3 0.01
261 238 0.54
262 197 0.45
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34
Consensus pattern (262 bp):
TTTTCATATGAATTTTTATAAGAAACTAAGCTTGATTTTCAAGGTTTTCTTGATGAGTAAGTCCT
TCGGGCCATCAGTAAGTCTTTCGAGCATGATGCGTAAGTCCTTCGGTCCATCTATAAGTCTTTCG
AGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTTCGAGCAGGATGTTTTCAACATTTTCA
GTACTCGATTCATCACATATGGAGTTGAATCTTGACGTGGGGGCACGTTACCCAAACAACATGAC
AT
Found at i:862575 original size:114 final size:113
Alignment explanation
Indices: 862376--862602 Score: 436
Period size: 114 Copynumber: 2.0 Consensus size: 113
862366 TTAAAAGCCC
862376 AAAATAACAACAGAACCTAGCATTAGATTAGGTTTTTTTTCTTTTTATTATTTTATGCTAGACTT
1 AAAATAACAACAGAACCTAGCATTAGATTAGGTTTTTTTTCTTTTTATTATTTTATGCTAGACTT
862441 ATGTAAAAAAGGGTTATAAAACATGAATGAAATGTAAGTTTGGGGGAT
66 ATGTAAAAAAGGGTTATAAAACATGAATGAAATGTAAGTTTGGGGGAT
*
862489 AAAATCACAAACAGAACCTAGCATTAGATTAGGTTTTTTTTCTTTTTATTATTTTATGCTAGACT
1 AAAATAAC-AACAGAACCTAGCATTAGATTAGGTTTTTTTTCTTTTTATTATTTTATGCTAGACT
862554 TATGTAAAAAAGGGTTATAAAACATGAATGAAATGTAAGTTTGGGGGAT
65 TATGTAAAAAAGGGTTATAAAACATGAATGAAATGTAAGTTTGGGGGAT
862603 CTTTTGGCTC
Statistics
Matches: 112, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
113 7 0.06
114 105 0.94
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (113 bp):
AAAATAACAACAGAACCTAGCATTAGATTAGGTTTTTTTTCTTTTTATTATTTTATGCTAGACTT
ATGTAAAAAAGGGTTATAAAACATGAATGAAATGTAAGTTTGGGGGAT
Found at i:866558 original size:19 final size:19
Alignment explanation
Indices: 866534--866575 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
866524 TTACTTAGTT
866534 TTTTTCTTCTCCTTTTTGG
1 TTTTTCTTCTCCTTTTTGG
866553 TTTTTCTTCTCCTTTTTGG
1 TTTTTCTTCTCCTTTTTGG
866572 TTTT
1 TTTT
866576 AAGCTGTGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.00, C:0.19, G:0.10, T:0.71
Consensus pattern (19 bp):
TTTTTCTTCTCCTTTTTGG
Found at i:867399 original size:12 final size:12
Alignment explanation
Indices: 867382--867440 Score: 68
Period size: 12 Copynumber: 5.0 Consensus size: 12
867372 ATGAACATAA
867382 ATAAACGAG-TT
1 ATAAACGAGCTT
867393 GATAAACGAGCTT
1 -ATAAACGAGCTT
* *
867406 ATAAACAAGCTC
1 ATAAACGAGCTT
*
867418 ATAAATGAGCTT
1 ATAAACGAGCTT
867430 -TAAACGAGCTT
1 ATAAACGAGCTT
867441 GTTCATGAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
11 10 0.25
12 28 0.70
13 2 0.05
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.25
Consensus pattern (12 bp):
ATAAACGAGCTT
Found at i:867944 original size:29 final size:28
Alignment explanation
Indices: 867884--868005 Score: 110
Period size: 26 Copynumber: 4.5 Consensus size: 28
867874 TATTCAGTTA
*
867884 TATTATAATAATATATAATATTAAATTCT
1 TATTATAATAATATATAATATT-AATTAT
*
867913 TATTTTAATAATATATAATA--AATTAT
1 TATTATAATAATATATAATATTAATTAT
* * * * *
867939 TATTATTATAATAAAAAATATTATTTAA
1 TATTATAATAATATATAATATTAATTAT
* *
867967 TATTATAAT-AT-TATAGTATTACTTAT
1 TATTATAATAATATATAATATTAATTAT
*
867993 TAATAT-ATAATAT
1 TATTATAATAATAT
868006 TTTTAATTTA
Statistics
Matches: 74, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
25 2 0.03
26 38 0.51
27 3 0.04
28 12 0.16
29 19 0.26
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (28 bp):
TATTATAATAATATATAATATTAATTAT
Found at i:867974 original size:22 final size:22
Alignment explanation
Indices: 867921--867976 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
867911 CTTATTTTAA
*
867921 TAATA-TATAATAAATTATTAT
1 TAATATTATAATAAAATATTAT
* *
867942 TATTATAATAA-AAAATATTATT
1 TAATATTATAATAAAATATTA-T
867964 TAATATTATAATA
1 TAATATTATAATA
867977 TTATAGTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 12 0.44
22 14 0.52
23 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TAATATTATAATAAAATATTAT
Found at i:867998 original size:21 final size:22
Alignment explanation
Indices: 867972--868025 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
867962 TTTAATATTA
*
867972 TAATATTATAGTATTACTT-A-T
1 TAATATTATAATATT-CTTAATT
*
867993 TAATA-TATAATATTTTTAATT
1 TAATATTATAATATTCTTAATT
868014 TAATATTATAAT
1 TAATATTATAAT
868026 TTTCAATGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 2 0.07
20 9 0.32
21 11 0.39
22 6 0.21
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
TAATATTATAATATTCTTAATT
Found at i:868237 original size:24 final size:24
Alignment explanation
Indices: 868210--868258 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
868200 CGTTCATTTA
868210 CGTTCGTGAACGTTCGGTTATGTT
1 CGTTCGTGAACGTTCGGTTATGTT
** * *
868234 CGTTCGTTTATGTTCGTTTATGTT
1 CGTTCGTGAACGTTCGGTTATGTT
868258 C
1 C
868259 AGTCATTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.10, C:0.16, G:0.24, T:0.49
Consensus pattern (24 bp):
CGTTCGTGAACGTTCGGTTATGTT
Found at i:868239 original size:14 final size:14
Alignment explanation
Indices: 868220--868251 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
868210 CGTTCGTGAA
868220 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
*
868234 CGTTCGTTTATGTT
1 CGTTCGGTTATGTT
868248 CGTT
1 CGTT
868252 TATGTTCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.16, G:0.25, T:0.53
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:868267 original size:24 final size:24
Alignment explanation
Indices: 868221--868271 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
868211 GTTCGTGAAC
*
868221 GTTCGGTTATGTTCGTTCGTTTAT
1 GTTCGGTTATGTTCGTTCATTTAT
*
868245 GTTCGTTTATGTTCAG-TCATTTAT
1 GTTCGGTTATGTTC-GTTCATTTAT
868269 GTT
1 GTT
868272 TAACCCAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.12, C:0.12, G:0.22, T:0.55
Consensus pattern (24 bp):
GTTCGGTTATGTTCGTTCATTTAT
Found at i:868904 original size:11 final size:11
Alignment explanation
Indices: 868888--868983 Score: 131
Period size: 11 Copynumber: 8.6 Consensus size: 11
868878 TGGGGCAATG
868888 TCGAGCTTGAA
1 TCGAGCTTGAA
*
868899 TCGAGCTCAGAA
1 TCGAGCT-TGAA
868911 TCGAGCTTGAA
1 TCGAGCTTGAA
868922 TCGAGCTTGAA
1 TCGAGCTTGAA
868933 TCGAGC-TGAA
1 TCGAGCTTGAA
868943 TCGAGCTTGAA
1 TCGAGCTTGAA
*
868954 TCGAGCTCAGAA
1 TCGAGCT-TGAA
* *
868966 TCAAGCTTCAA
1 TCGAGCTTGAA
868977 TCGAGCT
1 TCGAGCT
868984 CGAGTCTCGA
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
10 10 0.13
11 46 0.61
12 19 0.25
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:869164 original size:27 final size:27
Alignment explanation
Indices: 869134--869205 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
869124 TTGAAAGTTT
869134 TCGAGTTCGAGTCGAGCTCAGCAATAC
1 TCGAGTTCGAGTCGAGCTCAGCAATAC
*
869161 TCGAGTTCGAGTTGAGCTCAGCAATAC
1 TCGAGTTCGAGTCGAGCTCAGCAATAC
* *
869188 TCGAGCTCGACTCG-GCTC
1 TCGAGTTCGAGTCGAGCTC
869206 GTTTACACCC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 4 0.10
27 37 0.90
ACGTcount: A:0.22, C:0.28, G:0.26, T:0.24
Consensus pattern (27 bp):
TCGAGTTCGAGTCGAGCTCAGCAATAC
Found at i:869253 original size:16 final size:16
Alignment explanation
Indices: 869232--869286 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
869222 AGGTCTCCAA
869232 CATTTATGTTCGTGTT
1 CATTTATGTTCGTGTT
869248 CATTTATGTTCGTGTT
1 CATTTATGTTCGTGTT
**
869264 TGTTTATGTTCGTGTT
1 CATTTATGTTCGTGTT
*
869280 CGTTTAT
1 CATTTAT
869287 TTATTAAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.11, C:0.11, G:0.20, T:0.58
Consensus pattern (16 bp):
CATTTATGTTCGTGTT
Found at i:869682 original size:35 final size:35
Alignment explanation
Indices: 869612--869682 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 35
869602 AAGTTTTAAA
*
869612 AATATAATATAACATTCTTATTTTAATAAGTATAT
1 AATATAATATAACATTCTTATTTTAATAAGAATAT
*
869647 AATATAATTAATAATATT-TTATTTTAATAA-AATAT
1 AATATAA-T-ATAACATTCTTATTTTAATAAGAATAT
869682 A
1 A
869683 CTAGTCTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 12 0.38
36 13 0.41
37 7 0.22
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (35 bp):
AATATAATATAACATTCTTATTTTAATAAGAATAT
Found at i:869770 original size:19 final size:18
Alignment explanation
Indices: 869748--869828 Score: 74
Period size: 19 Copynumber: 4.3 Consensus size: 18
869738 TGATATATAT
869748 ATTATATAATATTTATTAA
1 ATTATATAATATTT-TTAA
*
869767 ATTACTATAATATTTTAAAA
1 ATTA-TATAATATTTT-TAA
* *
869787 ATAATAAAATATTTTTATA
1 ATTATATAATATTTTTA-A
* *
869806 A-TAAATAATATTTTTTA
1 ATTATATAATATTTTTAA
869823 ATTATA
1 ATTATA
869829 ATAAATAATT
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
17 2 0.04
18 15 0.31
19 17 0.35
20 15 0.31
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTATATAATATTTTTAA
Found at i:869788 original size:20 final size:20
Alignment explanation
Indices: 869729--869819 Score: 64
Period size: 19 Copynumber: 4.5 Consensus size: 20
869719 TATTTTAATA
869729 ATAATATTTTGATATATATATTAT
1 ATAATATTTT-ATA-A-A-ATTAT
*
869753 ATAATA-TTTATTAAATTACT
1 ATAATATTTTATAAAATTA-T
*
869773 ATAATATTTTA-AAAATAAT
1 ATAATATTTTATAAAATTAT
* * *
869792 AAAATATTTT-TATAA-TAA
1 ATAATATTTTATAAAATTAT
869810 ATAATATTTT
1 ATAATATTTT
869820 TTAATTATAA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
18 10 0.18
19 17 0.30
20 13 0.23
21 5 0.09
22 2 0.04
23 3 0.05
24 6 0.11
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (20 bp):
ATAATATTTTATAAAATTAT
Found at i:870476 original size:15 final size:15
Alignment explanation
Indices: 870433--870479 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
870423 CGCCCCGCAT
*
870433 CCGCCCCACATCCAC
1 CCGCCCCACATCCGC
*
870448 CCGCCCCGCATCCGC
1 CCGCCCCACATCCGC
870463 CCGCCCCACATCCGC
1 CCGCCCCACATCCGC
870478 CC
1 CC
870480 ACCCAGCTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.13, C:0.68, G:0.13, T:0.06
Consensus pattern (15 bp):
CCGCCCCACATCCGC
Found at i:871683 original size:19 final size:18
Alignment explanation
Indices: 871659--871708 Score: 77
Period size: 19 Copynumber: 2.8 Consensus size: 18
871649 TTTGGTTCAC
871659 GGAATGTAAGATTACCAG
1 GGAATGTAAGATTACCAG
871677 TGGAATGTAAGATTACCAG
1 -GGAATGTAAGATTACCAG
871696 GGAA--TAAGATTAC
1 GGAATGTAAGATTAC
871709 TAAGAATGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.29
18 4 0.13
19 18 0.58
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.24
Consensus pattern (18 bp):
GGAATGTAAGATTACCAG
Found at i:872886 original size:12 final size:12
Alignment explanation
Indices: 872869--872894 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
872859 GCGAAACAGT
872869 TTGGAAACTTCA
1 TTGGAAACTTCA
872881 TTGGAAACTTCA
1 TTGGAAACTTCA
872893 TT
1 TT
872895 AGCACGTGTG
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:0.15, G:0.15, T:0.38
Consensus pattern (12 bp):
TTGGAAACTTCA
Found at i:873120 original size:283 final size:283
Alignment explanation
Indices: 872613--873169 Score: 1087
Period size: 283 Copynumber: 2.0 Consensus size: 283
872603 TTACTTTGGC
872613 GCACGTGTGCCACCCCATAGGGGTATCTCAATCACCGATATGGGTGAGGGCCACTATCGTTGCCG
1 GCACGTGTGCCACCCCATAGGGGTATCTCAATCACCGATATGGGTGAGGGCCACTATCGTTGCCG
872678 ACTTTACCGTGAGGTTGATGTGAATAGGATAGTATCGGATGGTCCTTAGTACTTCAAATCTCATC
66 ACTTTACCGTGAGGTTGATGTGAATAGGATAGTATCGGATGGTCCTTAGTACTTCAAATCTCATC
872743 TTTTGATTATGCACCAACTCAAACTAGGGGAAGACCCAAGGACGGTGACGTTGGACGTTGTTAAC
131 TTTTGATTATGCACCAACTCAAACTAGGGGAAGACCCAAGGACGGTGACGTTGGACGTTGTTAAC
872808 TATTGGGTTCTAGTCAACAATTTTCTTGTTGGGTATATCTCGAAGCACGTTGCGAAACAGTTTGG
196 TATTGGGTTCTAGTCAACAATTTTCTTGTTGGGTATATCTCGAAGCACGTTGCGAAACAGTTTGG
872873 AAACTTCATTGGAAACTTCATTA
261 AAACTTCATTGGAAACTTCATTA
*
872896 GCACGTGTGCCACCCCATAGGGGTATCTCAATCACCGATATGGGTGAGGGCCACTATCTTTGCCG
1 GCACGTGTGCCACCCCATAGGGGTATCTCAATCACCGATATGGGTGAGGGCCACTATCGTTGCCG
*
872961 ACTTTACCGTGAGGTTGATGTGAATAGGATATTATCGGATGGTCCTTAGTACTTCAAATCTCATC
66 ACTTTACCGTGAGGTTGATGTGAATAGGATAGTATCGGATGGTCCTTAGTACTTCAAATCTCATC
*
873026 TTTTGATTATGCACCAACTCAAACTAGGGGAAGACCCAAGGACGGTGGCGTTGGACGTTGTTAAC
131 TTTTGATTATGCACCAACTCAAACTAGGGGAAGACCCAAGGACGGTGACGTTGGACGTTGTTAAC
873091 TATTGGGTTCTAGTCAACAATTTTCTTGTTGGGTATATCTCGAAGCACGTTGCGAAACAGTTTGG
196 TATTGGGTTCTAGTCAACAATTTTCTTGTTGGGTATATCTCGAAGCACGTTGCGAAACAGTTTGG
873156 AAACTTCATTGGAA
261 AAACTTCATTGGAA
873170 CTTTTGTTGA
Statistics
Matches: 271, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
283 271 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (283 bp):
GCACGTGTGCCACCCCATAGGGGTATCTCAATCACCGATATGGGTGAGGGCCACTATCGTTGCCG
ACTTTACCGTGAGGTTGATGTGAATAGGATAGTATCGGATGGTCCTTAGTACTTCAAATCTCATC
TTTTGATTATGCACCAACTCAAACTAGGGGAAGACCCAAGGACGGTGACGTTGGACGTTGTTAAC
TATTGGGTTCTAGTCAACAATTTTCTTGTTGGGTATATCTCGAAGCACGTTGCGAAACAGTTTGG
AAACTTCATTGGAAACTTCATTA
Found at i:874332 original size:17 final size:17
Alignment explanation
Indices: 874307--874344 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
874297 ATAGGTGGCT
*
874307 TGCATATAGTCTATGAA
1 TGCAAATAGTCTATGAA
*
874324 TGCAAATAGTTTATGAA
1 TGCAAATAGTCTATGAA
874341 TGCA
1 TGCA
874345 CAACTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (17 bp):
TGCAAATAGTCTATGAA
Found at i:877177 original size:29 final size:29
Alignment explanation
Indices: 877117--877192 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
877107 ATTATTAGTG
*
877117 GGAATGTAAGATTATTGGTTGGTTTAGTA
1 GGAATGTAAGATTATTGGTTGGTTTAGAA
*
877146 GGAATGTAAGATTACTGTGTTTGG-TTA-AA
1 GGAATGTAAGATTA-T-TGGTTGGTTTAGAA
**
877175 GGAATAAAAGATTATTGG
1 GGAATGTAAGATTATTGG
877193 AATGTATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 2 0.05
28 1 0.03
29 27 0.68
30 4 0.10
31 6 0.15
ACGTcount: A:0.33, C:0.01, G:0.29, T:0.37
Consensus pattern (29 bp):
GGAATGTAAGATTATTGGTTGGTTTAGAA
Found at i:878494 original size:20 final size:20
Alignment explanation
Indices: 878469--878509 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
878459 TATCTAATCT
878469 ATAATA-TAAAGAATAAATAA
1 ATAATATTAAA-AATAAATAA
*
878489 ATAATATTATAAATAAATAA
1 ATAATATTAAAAATAAATAA
878509 A
1 A
878510 AAAGGAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
ATAATATTAAAAATAAATAA
Done.