Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 101 of 356
Found at i:31913150 original size:20 final size:20
Alignment explanation
Indices: 31913110--31913154 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
31913100 TCTATCAACT
31913110 AACATTAAAATACATTCAAA
1 AACATTAAAATACATTCAAA
31913130 AACA-TAAAATACATTCAAA
1 AACATTAAAATACATTCAAA
31913149 AACATT
1 AACATT
31913155 CATGGAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (20 bp):
AACATTAAAATACATTCAAA
Found at i:31914220 original size:19 final size:20
Alignment explanation
Indices: 31914188--31914226 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
31914178 GATGAAACGA
31914188 AAAACTTCAGAAATTTTTAC
1 AAAACTTCAGAAATTTTTAC
31914208 AAAACTT-AGAAATTTTTAC
1 AAAACTTCAGAAATTTTTAC
31914227 CATGTACAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTTCAGAAATTTTTAC
Found at i:31918501 original size:154 final size:154
Alignment explanation
Indices: 31918221--31918528 Score: 553
Period size: 154 Copynumber: 2.0 Consensus size: 154
31918211 AATGGGGAGA
* *
31918221 GACTACTACTCATGTCGCTATCTGAGGAAAAGAGGTGTTGATTAAGCCTCGAGAAGTATATCGAT
1 GACTACTACTCATGTCACTATCTGAGGAAAAGAGGTGTCGATTAAGCCTCGAGAAGTATATCGAT
*
31918286 ATTAGGATGCCTCGTACTATACCCACGATTATCTAGAGAATTTAGTTTTGTTCATATTCGAGGAA
66 ATTACGATGCCTCGTACTATACCCACGATTATCTAGAGAATTTAGTTTTGTTCATATTCGAGGAA
31918351 ATAGATATGGAAGGGATAATTAAT
131 ATAGATATGGAAGGGATAATTAAT
31918375 GACTACTACTCATGTCACTATCTGAGGAAAAGAGGTGTCGATTAAGCCTCGAGAAGTATATCGAT
1 GACTACTACTCATGTCACTATCTGAGGAAAAGAGGTGTCGATTAAGCCTCGAGAAGTATATCGAT
* * *
31918440 ATTACGATGCCTCGTACTATACCTACGATTATTTGGAGAATTTAGTTTTGTTCATATTCGAGGAA
66 ATTACGATGCCTCGTACTATACCCACGATTATCTAGAGAATTTAGTTTTGTTCATATTCGAGGAA
*
31918505 TTAGATATGGAAGGGATAATTAAT
131 ATAGATATGGAAGGGATAATTAAT
31918529 TATTTGACAG
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
154 147 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (154 bp):
GACTACTACTCATGTCACTATCTGAGGAAAAGAGGTGTCGATTAAGCCTCGAGAAGTATATCGAT
ATTACGATGCCTCGTACTATACCCACGATTATCTAGAGAATTTAGTTTTGTTCATATTCGAGGAA
ATAGATATGGAAGGGATAATTAAT
Found at i:31919207 original size:24 final size:23
Alignment explanation
Indices: 31919180--31919225 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
31919170 GAGGGATTGT
*
31919180 AGGAGGGAGTTGAGGAGAGATATG
1 AGGAGAGAGTTGAGGAG-GATATG
* *
31919204 AGGAGAGATTTTAGGAGGATAT
1 AGGAGAGAGTTGAGGAGGATAT
31919226 CAAGGGGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.35, C:0.00, G:0.43, T:0.22
Consensus pattern (23 bp):
AGGAGAGAGTTGAGGAGGATATG
Found at i:31919260 original size:133 final size:133
Alignment explanation
Indices: 31919022--31919284 Score: 481
Period size: 133 Copynumber: 2.0 Consensus size: 133
31919012 GGGAGTAGAC
* *
31919022 TTTGAATTTGTCGTGGAACGATTGTAGGAGGGAGTTGAGGAGAGATATGAGGAGAGATTTTAGGA
1 TTTGAATTGGTCATGGAACGATTGTAGGAGGGAGTTGAGGAGAGATATGAGGAGAGATTTTAGGA
*
31919087 GGATATCAAGGGGATTTGAAGTGGAGGAGGTGTTGGTGCCGAATTAGGATTGTAGGCACCTAGTG
66 GGATATCAAGGGGATTTGAAGTGGAGGAGGTGTTGGTGCCGAATTAGGATTGTAAGCACCTAGTG
31919152 GAG
131 GAG
**
31919155 TTTGAATTGGTCATGGAGGGATTGTAGGAGGGAGTTGAGGAGAGATATGAGGAGAGATTTTAGGA
1 TTTGAATTGGTCATGGAACGATTGTAGGAGGGAGTTGAGGAGAGATATGAGGAGAGATTTTAGGA
31919220 GGATATCAAGGGGATTTGAAGTGGAGGAGGTGTTGGTGCCGAATTAGGATTGTAAGCACCTAGTG
66 GGATATCAAGGGGATTTGAAGTGGAGGAGGTGTTGGTGCCGAATTAGGATTGTAAGCACCTAGTG
31919285 ATTTCGGTTT
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
133 125 1.00
ACGTcount: A:0.27, C:0.06, G:0.40, T:0.27
Consensus pattern (133 bp):
TTTGAATTGGTCATGGAACGATTGTAGGAGGGAGTTGAGGAGAGATATGAGGAGAGATTTTAGGA
GGATATCAAGGGGATTTGAAGTGGAGGAGGTGTTGGTGCCGAATTAGGATTGTAAGCACCTAGTG
GAG
Found at i:31920668 original size:53 final size:53
Alignment explanation
Indices: 31920605--31921039 Score: 518
Period size: 53 Copynumber: 8.2 Consensus size: 53
31920595 ACTAGACCCT
*
31920605 CTTATGTGATAAATGACTATTTTGCCCTTACATGGTAAAAAAACTATTTTGCC
1 CTTATGTGATAAATGACTATTTTGCCCTTACATGGTAAAAAGACTATTTTGCC
* *
31920658 CTTATGTGATAAATGACTATTTTGCCCATACGTGGTAAAAAGACTATTTTGCC
1 CTTATGTGATAAATGACTATTTTGCCCTTACATGGTAAAAAGACTATTTTGCC
* * *
31920711 CTTTTGTGATAAATGACTATTTTGCCTTTACATGGCAAAAAGACTATTTTGCC
1 CTTATGTGATAAATGACTATTTTGCCCTTACATGGTAAAAAGACTATTTTGCC
31920764 CTTATGTGATAAATGACTATTTTGCCCTTACATGGTAAAAAGACTATTTTGCC
1 CTTATGTGATAAATGACTATTTTGCCCTTACATGGTAAAAAGACTATTTTGCC
* *
31920817 CTTATGTGATAAATGACTATTTTTCCCTTACGTGGTAAAAAGACTATTTTGCC
1 CTTATGTGATAAATGACTATTTTGCCCTTACATGGTAAAAAGACTATTTTGCC
* * ** * *
31920870 CTTATATGATAAATGACTATTTTGCCCGTATGTCGTAAAATGAC-AGTTTTGCTC
1 CTTATGTGATAAATGACTATTTTGCCCTTACATGGTAAAAAGACTA-TTTTGC-C
* * * * * * *
31920924 C-TACGTGGTAAAATGATTATTTTTCCCTTATGA-GGTAAAATGATTATTTTGCC
1 CTTATGTGAT-AAATGACTATTTTGCCCTTA-CATGGTAAAAAGACTATTTTGCC
* * *** ** *
31920977 TTTATATCG-TAAAATGACTAAAATGCCCTTACATGGTAAATTGACTGTTTTGCC
1 CTTATGT-GAT-AAATGACTATTTTGCCCTTACATGGTAAAAAGACTATTTTGCC
*
31921031 CCTATGTGA
1 CTTATGTGA
31921040 GTTATTTATA
Statistics
Matches: 329, Mismatches: 44, Indels: 17
0.84 0.11 0.04
Matches are distributed among these distances:
52 1 0.00
53 251 0.76
54 75 0.23
55 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (53 bp):
CTTATGTGATAAATGACTATTTTGCCCTTACATGGTAAAAAGACTATTTTGCC
Found at i:31920960 original size:27 final size:27
Alignment explanation
Indices: 31920605--31921038 Score: 398
Period size: 27 Copynumber: 16.3 Consensus size: 27
31920595 ACTAGACCCT
*
31920605 CTTATGTGAT-AAATGACTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
** **
31920631 CTTACATGGTAAAAAAACTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
*
31920658 CTTATGTGAT-AAATGACTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
* * *
31920684 CATACGTGGTAAAAAGACTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
* *
31920711 CTTTTGTGAT-AAATGACTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
* ** * *
31920737 TTTACATGGCAAAAAGACTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
*
31920764 CTTATGTGAT-AAATGACTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
** *
31920790 CTTACATGGTAAAAAGACTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
* *
31920817 CTTATGTGAT-AAATGACTATTTTTCC
1 CTTATGTGGTAAAATGACTATTTTGCC
* *
31920843 CTTACGTGGTAAAAAGACTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
* *
31920870 CTTATATGAT-AAATGACTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
* *
31920896 CGTATGTCGTAAAATGAC-AGTTTTGCTC
1 CTTATGTGGTAAAATGACTA-TTTTGC-C
* * *
31920924 C-TACGTGGTAAAATGATTATTTTTCC
1 CTTATGTGGTAAAATGACTATTTTGCC
* *
31920950 CTTATGAGGTAAAATGATTATTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
* * * ***
31920977 TTTATATCGTAAAATGACTAAAATGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
** * *
31921004 CTTACATGGTAAATTGACTGTTTTGCC
1 CTTATGTGGTAAAATGACTATTTTGCC
*
31921031 CCTATGTG
1 CTTATGTG
31921039 AGTTATTTAT
Statistics
Matches: 319, Mismatches: 79, Indels: 19
0.76 0.19 0.05
Matches are distributed among these distances:
26 115 0.36
27 201 0.63
28 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (27 bp):
CTTATGTGGTAAAATGACTATTTTGCC
Found at i:31921014 original size:81 final size:80
Alignment explanation
Indices: 31920680--31921031 Score: 213
Period size: 80 Copynumber: 4.4 Consensus size: 80
31920670 ATGACTATTT
* * ** *
31920680 TGCCCATACGTGGTAAAAAGACTATTTTGCCCTT-TTGTGATAAATGACTATTTTGCCTTTACAT
1 TGCCCTTACGTGGTAAAAAGACTATTTTGCCCTTATAG-GATAAATGACTATTTTGCCCGTATAT
* * * ***
31920744 GGCAAAAAGACTA-TTT
65 CGTAAAATGAC-AGAAA
* * * * *
31920760 TGCCCTTATGTGAT-AAATGACTATTTTGCCCTTACATGG-TAAAAAGACTATTTTGCCC-T-TA
1 TGCCCTTACGTGGTAAAAAGACTATTTTGCCCTTATA-GGAT-AAATGACTATTTTGCCCGTATA
***
31920821 T-GTGATAAATGACTA-TTT
64 TCGT-A-AAATGAC-AGAAA
* * *
31920839 TTCCCTTACGTGGTAAAAAGACTATTTTGCCCTTATATGATAAATGACTATTTTGCCCGTATGTC
1 TGCCCTTACGTGGTAAAAAGACTATTTTGCCCTTATAGGATAAATGACTATTTTGCCCGTATATC
***
31920904 GTAAAATGACAGTTT
66 GTAAAATGACAGAAA
* * * * **
31920919 TGCTCC-TACGTGGTAAAATGATTATTTTTCCCTTATGAGG-TAAAATGATTATTTTGCCTTTAT
1 TGC-CCTTACGTGGTAAAAAGACTATTTTGCCCTTAT-AGGAT-AAATGACTATTTTGCCCGTAT
31920982 ATCGTAAAATGACTA-AAA
63 ATCGTAAAATGAC-AGAAA
* ** *
31921000 TGCCCTTACATGGTAAATTGACTGTTTTGCCC
1 TGCCCTTACGTGGTAAAAAGACTATTTTGCCC
31921032 CTATGTGAGT
Statistics
Matches: 220, Mismatches: 36, Indels: 31
0.77 0.13 0.11
Matches are distributed among these distances:
77 1 0.00
78 3 0.01
79 60 0.27
80 91 0.41
81 62 0.28
82 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (80 bp):
TGCCCTTACGTGGTAAAAAGACTATTTTGCCCTTATAGGATAAATGACTATTTTGCCCGTATATC
GTAAAATGACAGAAA
Found at i:31924508 original size:40 final size:40
Alignment explanation
Indices: 31924326--31924548 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
31924316 TCCTCGTTCA
* * * * *
31924326 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
31924365 AATGCCTTCGGGACATAACCCAGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
31924405 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
31924445 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
31924485 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
31924525 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
31924549 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 36 0.23
40 114 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:31924557 original size:41 final size:41
Alignment explanation
Indices: 31924480--31924557 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
31924470 TTAGTATCTC
* * *
31924480 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
31924521 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
31924558 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:31932448 original size:40 final size:40
Alignment explanation
Indices: 31932266--31932488 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
31932256 TCCTCGTTCA
* * * * *
31932266 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
31932305 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
31932345 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
31932385 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
31932425 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
31932465 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
31932489 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:31932497 original size:41 final size:41
Alignment explanation
Indices: 31932420--31932497 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
31932410 TTAGTATCTC
* * *
31932420 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
31932461 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
31932498 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:31949864 original size:18 final size:18
Alignment explanation
Indices: 31949830--31949864 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31949820 AACAACAACC
**
31949830 TTGAAGAAAATGGAAGAA
1 TTGAAGAAAATAAAAGAA
31949848 TTGAAGAAAATAAAAGA
1 TTGAAGAAAATAAAAGA
31949865 GAAGAGAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (18 bp):
TTGAAGAAAATAAAAGAA
Found at i:31950219 original size:15 final size:15
Alignment explanation
Indices: 31950198--31950235 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
31950188 TTTAAGGTTA
31950198 ATTTAGGGGTTGGAG
1 ATTTAGGGGTTGGAG
* *
31950213 GTTTAGGGGTTTGAG
1 ATTTAGGGGTTGGAG
31950228 ATTTAGGG
1 ATTTAGGG
31950236 TTTCAACGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.37
Consensus pattern (15 bp):
ATTTAGGGGTTGGAG
Found at i:31950238 original size:14 final size:14
Alignment explanation
Indices: 31950171--31950238 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
31950161 GACTGGGTAT
*
31950171 AGATTTAAGGTTTG
1 AGATTTAGGGTTTG
* *
31950185 GGATTTAAGG-TT-
1 AGATTTAGGGTTTG
*
31950197 A-ATTTAGGGGTTGG
1 AGATTTA-GGGTTTG
*
31950211 AGGTTTAGGGGTTTG
1 AGATTTA-GGGTTTG
31950226 AGATTTAGGGTTT
1 AGATTTAGGGTTT
31950239 CAACGGTCAT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
11 5 0.12
12 2 0.05
13 3 0.07
14 16 0.37
15 17 0.40
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (14 bp):
AGATTTAGGGTTTG
Found at i:31950764 original size:15 final size:15
Alignment explanation
Indices: 31950746--31950775 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31950736 TCCTGTTAGA
31950746 TGAAATTTAATATAT
1 TGAAATTTAATATAT
*
31950761 TGAAATTTAGTATAT
1 TGAAATTTAATATAT
31950776 AGTTTATATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (15 bp):
TGAAATTTAATATAT
Found at i:31951994 original size:8 final size:10
Alignment explanation
Indices: 31951972--31952008 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
31951962 TATTTTTACT
31951972 TATATATGGA
1 TATATATGGA
*
31951982 TATATATGAA
1 TATATATGGA
31951992 TATATATGGA
1 TATATATGGA
31952002 TATATAT
1 TATATAT
31952009 ATAGTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (10 bp):
TATATATGGA
Found at i:31955070 original size:39 final size:40
Alignment explanation
Indices: 31955027--31955194 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
31955017 CTCGTTCAAG
* * * *
31955027 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
31955066 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
31955106 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
31955146 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
31955186 TGCCTTCGG
1 TGCCTTCGG
31955195 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:31955178 original size:80 final size:80
Alignment explanation
Indices: 31955062--31955247 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
31955052 AGTAACTCAT
* * *
31955062 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
31955126 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
31955141 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
31955205 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
31955222 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
31955248 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:31955207 original size:40 final size:40
Alignment explanation
Indices: 31955064--31955247 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
31955054 TAACTCATAC
* *
31955064 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
31955104 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
31955144 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
31955184 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
31955225 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
31955248 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:31963028 original size:40 final size:39
Alignment explanation
Indices: 31962976--31963106 Score: 190
Period size: 40 Copynumber: 3.3 Consensus size: 39
31962966 TAACTCATAC
* *
31962976 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAAAACTCGCACA
* *
31963016 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTA-AAACTCGCACA
*
31963056 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAA-AACTCGCACA
31963096 AATGCCTTCGG
1 AATGCCTTCGG
31963107 ATCTTAGTCG
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.04
40 78 0.96
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGAATTAAAACTCGCACA
Found at i:31963135 original size:80 final size:79
Alignment explanation
Indices: 31962974--31963158 Score: 218
Period size: 80 Copynumber: 2.3 Consensus size: 79
31962964 AGTAACTCAT
* * *
31962974 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
31963039 AATTAGTATCTCGC
66 AATTAGTATCTAGC
**
31963053 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTC-GGATCTT-AGT
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGGA-CTTAACC
31963115 CGG-ATATAGTCA-CTTAGC
63 CGGAAT-TAGT-ATC-TAGC
*
31963133 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
31963159 CAGCATTCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
78 2 0.02
79 40 0.43
80 51 0.55
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (79 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTATCTAGC
Found at i:31966224 original size:29 final size:30
Alignment explanation
Indices: 31966192--31966269 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 30
31966182 CAGTAATTCT
31966192 AAATATTTAAAATAAATATAAAT-TATTAA
1 AAATATTTAAAATAAATATAAATATATTAA
* * * *
31966221 AAATATTAAAAAT-ATTAAAAATATGTTAA
1 AAATATTTAAAATAAATATAAATATATTAA
*
31966250 AAATTTTCTAAAATAAATAT
1 AAATATT-TAAAATAAATAT
31966270 TTCTAAAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
28 7 0.18
29 23 0.61
30 5 0.13
31 3 0.08
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (30 bp):
AAATATTTAAAATAAATATAAATATATTAA
Found at i:31966253 original size:11 final size:9
Alignment explanation
Indices: 31966192--31966244 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
31966182 CAGTAATTCT
*
31966192 AAATATTTA
1 AAATATTAA
*
31966201 AAATAAATATA
1 AAAT-ATTA-A
*
31966212 AATTATTAA
1 AAATATTAA
31966221 AAATATTAA
1 AAATATTAA
31966230 AAATATTAA
1 AAATATTAA
31966239 AAATAT
1 AAATAT
31966245 GTTAAAAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 28 0.76
10 5 0.14
11 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
AAATATTAA
Found at i:31966321 original size:9 final size:9
Alignment explanation
Indices: 31966295--31966324 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
31966285 ATATTTATAT
31966295 ATTAAATAA
1 ATTAAATAA
31966304 ATATAAATAA
1 AT-TAAATAA
31966314 ATTAAATAA
1 ATTAAATAA
31966323 AT
1 AT
31966325 CTTAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
ATTAAATAA
Found at i:31968296 original size:24 final size:24
Alignment explanation
Indices: 31968270--31968316 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
31968260 TATTATGATA
31968270 TTTTAGTAAAAATTTAAATAATAAT
1 TTTTAGT-AAAATTTAAATAATAAT
* *
31968295 TTTTTGTAAAATTTAATTAATA
1 TTTTAGTAAAATTTAAATAATA
31968317 TATAACTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (24 bp):
TTTTAGTAAAATTTAAATAATAAT
Found at i:31971016 original size:23 final size:24
Alignment explanation
Indices: 31970987--31971044 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
31970977 AATTTTATTT
31970987 TTATATTTAAAATTATTAAA-ATA
1 TTATATTTAAAATTATTAAACATA
*
31971010 TTATATTTTCAATATTATTAAACATA
1 TTATA-TTT-AAAATTATTAAACATA
*
31971036 -CATATTTAA
1 TTATATTTAA
31971045 TTATTTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 7 0.23
24 6 0.20
25 14 0.47
26 3 0.10
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (24 bp):
TTATATTTAAAATTATTAAACATA
Found at i:31971120 original size:20 final size:20
Alignment explanation
Indices: 31971064--31971125 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
31971054 TTTAGTCATA
**
31971064 TAATAAATTA-TTAATATAA
1 TAATAAATTATTTAATATTT
* * *
31971083 T-ATATATAATTTATTATTT
1 TAATAAATTATTTAATATTT
31971102 TAATAAATTATTTAATATTT
1 TAATAAATTATTTAATATTT
31971122 TAAT
1 TAAT
31971126 TTCATTTTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
18 6 0.18
19 8 0.24
20 19 0.58
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATAAATTATTTAATATTT
Found at i:31971664 original size:32 final size:34
Alignment explanation
Indices: 31971626--31971696 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 34
31971616 ACTTTTATAG
* *
31971626 AATATTTTTA-AGAAATTTACC-AAACAACAGAA
1 AATATTTTTACACAAATTCACCAAAACAACAGAA
* *
31971658 AATA-TTTTACACAGATTCACCAAAACACCAGAA
1 AATATTTTTACACAAATTCACCAAAACAACAGAA
31971691 AATATT
1 AATATT
31971697 AGCTTTTCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
31 5 0.16
32 12 0.38
33 14 0.44
34 1 0.03
ACGTcount: A:0.51, C:0.17, G:0.06, T:0.27
Consensus pattern (34 bp):
AATATTTTTACACAAATTCACCAAAACAACAGAA
Found at i:31971733 original size:14 final size:14
Alignment explanation
Indices: 31971714--31971752 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
31971704 CTAGAGAAGT
31971714 AAATCATTTTCCAG
1 AAATCATTTTCCAG
**
31971728 AAATCATTTTCTGG
1 AAATCATTTTCCAG
*
31971742 AAGTCATTTTC
1 AAATCATTTTC
31971753 AGTGAAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:31971861 original size:15 final size:15
Alignment explanation
Indices: 31971841--31971872 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
31971831 CATTTCACTA
*
31971841 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
31971856 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
31971871 TT
1 TT
31971873 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:31973801 original size:3 final size:3
Alignment explanation
Indices: 31973795--31973894 Score: 62
Period size: 3 Copynumber: 32.3 Consensus size: 3
31973785 TGAATTTCTA
* * * *
31973795 TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT GTACA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T
* * *
31973843 TAT TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT TA- TATT TAC TAT
1 TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA-T TAT TAT
31973888 TAT TAT T
1 TAT TAT T
31973895 TATAAATATT
Statistics
Matches: 75, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
2 5 0.07
3 59 0.79
4 11 0.15
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:31973824 original size:19 final size:19
Alignment explanation
Indices: 31973800--31973836 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
31973790 TTCTATATTA
*
31973800 TTATTATTATTATTGTTAC
1 TTATTATTATTACTGTTAC
31973819 TTATTATTATTACTGTTA
1 TTATTATTATTACTGTTA
31973837 TGTACATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTATTATTACTGTTAC
Found at i:31974210 original size:25 final size:25
Alignment explanation
Indices: 31974151--31974210 Score: 84
Period size: 26 Copynumber: 2.4 Consensus size: 25
31974141 TATATAAATA
* * *
31974151 TTTTAATACTATATTATGTATGTAT
1 TTTTAATGCCATATTATGTATATAT
31974176 TTTTCAATGCCATATTATGTATATAT
1 TTTT-AATGCCATATTATGTATATAT
31974202 TTTTAATGC
1 TTTTAATGC
31974211 TATGCGTACA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 9 0.29
26 22 0.71
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.53
Consensus pattern (25 bp):
TTTTAATGCCATATTATGTATATAT
Found at i:31974569 original size:24 final size:25
Alignment explanation
Indices: 31974541--31974605 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
31974531 TATTTATATA
31974541 TATTATTATGTATATATACT-TTAGC
1 TATTATTATGTATATATACTCTTA-C
* *
31974566 -ATTACTAAT-TATATATATTCTTAC
1 TATTA-TTATGTATATATACTCTTAC
31974590 TATT-TTATGTATATAT
1 TATTATTATGTATATAT
31974606 TTCAAATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
23 3 0.09
24 21 0.64
25 9 0.27
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.54
Consensus pattern (25 bp):
TATTATTATGTATATATACTCTTAC
Found at i:31979806 original size:20 final size:20
Alignment explanation
Indices: 31979781--31979822 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
31979771 TAATTAAACT
*
31979781 TACTAAATTAAAATGTAACC
1 TACTAAATGAAAATGTAACC
*
31979801 TACTAAATGAAAATTTAACC
1 TACTAAATGAAAATGTAACC
31979821 TA
1 TA
31979823 TGTATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.31
Consensus pattern (20 bp):
TACTAAATGAAAATGTAACC
Found at i:31980559 original size:2 final size:2
Alignment explanation
Indices: 31980552--31980604 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
31980542 GAATTGTATA
31980552 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
31980594 TG TG TG TG TG T
1 TG TG TG TG TG T
31980605 ATTTATGTGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:31982104 original size:6 final size:6
Alignment explanation
Indices: 31982072--31982121 Score: 73
Period size: 6 Copynumber: 8.2 Consensus size: 6
31982062 ACAGTACCTA
* *
31982072 AACAGT AATCAGT AACGGT AGCAGT AACAGT AACAGT AACAGT AACAGT
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT
31982121 A
1 A
31982122 TTCAACACAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
6 33 0.85
7 6 0.15
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.18
Consensus pattern (6 bp):
AACAGT
Found at i:31982152 original size:45 final size:45
Alignment explanation
Indices: 31982101--31982208 Score: 155
Period size: 45 Copynumber: 2.4 Consensus size: 45
31982091 AGCAGTAACA
* * *
31982101 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCT
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTC-AAATCG
* *
31982146 GTAACAGTAACGGTAAAAGTATTCGACACACAAAGTGTCAAATCG
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCAAATCG
31982191 GTAACAGTAACGGTAACA
1 GTAACAGTAACGGTAACA
31982209 ATAACAGTAG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 55 0.98
46 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.20
Consensus pattern (45 bp):
GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCAAATCG
Found at i:31982851 original size:14 final size:14
Alignment explanation
Indices: 31982832--31982885 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
31982822 TTTAGCTTTG
*
31982832 TTTCTTTTATTTTT
1 TTTCTTTTATTTTC
*
31982846 TTTCTTTTCTTTTC
1 TTTCTTTTATTTTC
*
31982860 TTTCTATTTCATTTAC
1 TTTCT-TTT-ATTTTC
*
31982876 TTTATTTTAT
1 TTTCTTTTAT
31982886 ATTTAAGTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
14 19 0.58
15 6 0.18
16 8 0.24
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTCTTTTATTTTC
Found at i:31983188 original size:25 final size:23
Alignment explanation
Indices: 31983144--31983204 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
31983134 ATTTTGATTT
*
31983144 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
31983168 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
31983192 ATATAAATTATAT
1 AT-TTAATTATAT
31983205 TTAAATATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:31983207 original size:35 final size:35
Alignment explanation
Indices: 31983152--31983231 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
31983142 TTATTTAATA
* *
31983152 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAAATATCATAAATT
*
31983186 CATATAATATAAATTAT-ATTTAAATATCATTAATT
1 -ATATAATATAAATTATAATTTAAATATCATAAATT
31983221 ATATAAT-TAAA
1 ATATAATATAAA
31983232 ACAAATAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 25 0.61
36 5 0.12
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (35 bp):
ATATAATATAAATTATAATTTAAATATCATAAATT
Found at i:31984722 original size:26 final size:26
Alignment explanation
Indices: 31984683--31984790 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 26
31984673 TGATACAAAT
*
31984683 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGAGTTAGGTAAATGTTCCA
* *
31984709 TGATAATGAATTAGGTAAATATTCCA
1 TGATAATGAGTTAGGTAAATGTTCCA
* *
31984735 CGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGAGTTAGGTAAATGTTCCA
31984761 TGATAAT-AGTTTAGGTAAATGTTCCA
1 TGATAATGAG-TTAGGTAAATGTTCCA
31984787 TGAT
1 TGAT
31984791 GGGAATTTCA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
25 1 0.01
26 71 0.99
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.35
Consensus pattern (26 bp):
TGATAATGAGTTAGGTAAATGTTCCA
Found at i:31984741 original size:52 final size:52
Alignment explanation
Indices: 31984684--31984786 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
31984674 GATACAAATT
31984684 GATAATGGGTTAGGTAAATGTTCCATGATAAT-GAATTAGGTAAATATTCCAC
1 GATAATGGGTTAGGTAAATGTTCCATGATAATAG-ATTAGGTAAATATTCCAC
* *
31984736 GATAATGGGTTAGGTAAATGTTCCATGATAATAGTTTAGGTAAATGTTCCA
1 GATAATGGGTTAGGTAAATGTTCCATGATAATAGATTAGGTAAATATTCCA
31984787 TGATGGGAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 47 0.98
53 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (52 bp):
GATAATGGGTTAGGTAAATGTTCCATGATAATAGATTAGGTAAATATTCCAC
Found at i:31992044 original size:20 final size:20
Alignment explanation
Indices: 31992006--31992044 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
31991996 TAAATTATGT
31992006 ATATTGATATGTTTGAATTAA
1 ATATTGATATG-TTGAATTAA
31992027 ATATTGTATATG-TGAATT
1 ATATTG-ATATGTTGAATT
31992045 GTGTAATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATTGATATGTTGAATTAA
Found at i:31992052 original size:28 final size:26
Alignment explanation
Indices: 31991987--31992052 Score: 62
Period size: 28 Copynumber: 2.4 Consensus size: 26
31991977 CAAGGTAAGT
*
31991987 TTGTGTAACTAAATTATGTATATTGA
1 TTGTGTAATTAAATTATGTATATTGA
*
31992013 TATGTTTGAATTAAA-TATTGTATATGTGAA
1 T-TGTGT-AATTAAATTA-TGTATAT-TG-A
31992043 TTGTGTAATT
1 TTGTGTAATT
31992053 GTTATTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
26 1 0.03
27 6 0.19
28 17 0.53
29 6 0.19
30 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (26 bp):
TTGTGTAATTAAATTATGTATATTGA
Found at i:31992232 original size:24 final size:25
Alignment explanation
Indices: 31992205--31992255 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
31992195 AGCATCCCGA
*
31992205 TATATGG-CCTTTTGAGCTTCCTGT
1 TATATGGTCCTTGTGAGCTTCCTGT
*
31992229 TATATGGTTCTTGTGAGCTTCCTGT
1 TATATGGTCCTTGTGAGCTTCCTGT
31992254 TA
1 TA
31992256 ATAGCTCTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.14, C:0.18, G:0.22, T:0.47
Consensus pattern (25 bp):
TATATGGTCCTTGTGAGCTTCCTGT
Found at i:31998768 original size:17 final size:18
Alignment explanation
Indices: 31998737--31998770 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
31998727 CGTGACCCTT
31998737 GCCCGTGTGGGCCCACAG
1 GCCCGTGTGGGCCCACAG
31998755 GCCCGTGT-GGCCCACA
1 GCCCGTGTGGGCCCACA
31998771 TAGCCCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.12, C:0.41, G:0.35, T:0.12
Consensus pattern (18 bp):
GCCCGTGTGGGCCCACAG
Found at i:31998776 original size:18 final size:18
Alignment explanation
Indices: 31998737--31998776 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
31998727 CGTGACCCTT
*
31998737 GCCCGTGTGGGCCCACAG
1 GCCCGTGTGGGCCCACAA
31998755 GCCCGTGT-GGCCCACATA
1 GCCCGTGTGGGCCCACA-A
31998773 GCCC
1 GCCC
31998777 AAATTAGCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.12, C:0.42, G:0.33, T:0.12
Consensus pattern (18 bp):
GCCCGTGTGGGCCCACAA
Found at i:32032939 original size:263 final size:263
Alignment explanation
Indices: 32032472--32032997 Score: 989
Period size: 263 Copynumber: 2.0 Consensus size: 263
32032462 TCGCATCATC
*
32032472 AGCCGATGCAAACGTTACATAACCAAAACCACGGGATCGACCCGTAGTTCGCTCCTGGACAATAG
1 AGCCGATGCAAACGTTACATAACCAAAACCACGGGATCGACCCGTAGTTCGCTCCTAGACAATAG
* *
32032537 AAAAACATAATCAATGAACAACATTAAATAAAAAAAGAATCGAATAAAGAAAAGAAATGAAAGAA
66 AAAAACATAATCAATGAACAACATAAAATAAAAAAAGAATCGAATAAAGAAAAGAAAGGAAAGAA
*
32032602 AGTTAGGTTATTTAGCAGTTGGTCAAGCTCGCAAACTAGCAATAACACTAGTAGACAAACTTGTA
131 AGATAGGTTATTTAGCAGTTGGTCAAGCTCGCAAACTAGCAATAACACTAGTAGACAAACTTGTA
32032667 TAGAAGAAAGCTTAAAAGAGTTCATGCCCCAGCTTGGGCTATTTAAACATAGAGTGAAGGTTCTA
196 TAGAAGAAAGCTTAAAAGAGTTCATGCCCCAGCTTGGGCTATTTAAACATAGAGTGAAGGTTCTA
32032732 AAA
261 AAA
*
32032735 AGCCGATGCAAACGTTACATAACCAAAACCACGGGATTGACCCGTAGTTCGCTCCTAGACAATAG
1 AGCCGATGCAAACGTTACATAACCAAAACCACGGGATCGACCCGTAGTTCGCTCCTAGACAATAG
*
32032800 AAAAACATAATCAATGAACAACATAAAATAAAAAAGGAATCGAATAAAGAAAAGAAAGGAAAGAA
66 AAAAACATAATCAATGAACAACATAAAATAAAAAAAGAATCGAATAAAGAAAAGAAAGGAAAGAA
32032865 AGATAGGTTATTTAGCAGTTGGTCAAGCTCGCAAACTAGCAATAACACTAGTAGACAAACTTGTA
131 AGATAGGTTATTTAGCAGTTGGTCAAGCTCGCAAACTAGCAATAACACTAGTAGACAAACTTGTA
*
32032930 TAGAAGAAAGCTTAAAAGAGTTCATGCCCCAGCTTGGGCTATTTAAACATAGAGTGAAGGTTGTA
196 TAGAAGAAAGCTTAAAAGAGTTCATGCCCCAGCTTGGGCTATTTAAACATAGAGTGAAGGTTCTA
32032995 AAA
261 AAA
32032998 GTCCTAGTAT
Statistics
Matches: 256, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
263 256 1.00
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.21
Consensus pattern (263 bp):
AGCCGATGCAAACGTTACATAACCAAAACCACGGGATCGACCCGTAGTTCGCTCCTAGACAATAG
AAAAACATAATCAATGAACAACATAAAATAAAAAAAGAATCGAATAAAGAAAAGAAAGGAAAGAA
AGATAGGTTATTTAGCAGTTGGTCAAGCTCGCAAACTAGCAATAACACTAGTAGACAAACTTGTA
TAGAAGAAAGCTTAAAAGAGTTCATGCCCCAGCTTGGGCTATTTAAACATAGAGTGAAGGTTCTA
AAA
Found at i:32037151 original size:52 final size:53
Alignment explanation
Indices: 32037073--32037210 Score: 174
Period size: 53 Copynumber: 2.6 Consensus size: 53
32037063 CCATGGCAAT
* * *
32037073 TATAAGACCATAGCTAGACTATGGCATCGGTGTGATGAGA-TA-TGTGCTTCCG
1 TATAAGACTATAGCTAGGCTATGGCATCGGTGAGATGAGATTATTG-GCTTCCG
**
32037125 TATAAGACTATAGCTAGGCTATGGCATCGGTGAGATTTGATTATTGGCTTCCG
1 TATAAGACTATAGCTAGGCTATGGCATCGGTGAGATGAGATTATTGGCTTCCG
* *
32037178 TATAAGACTATATCT-GAGATATGGCATCGGTGA
1 TATAAGACTATAGCTAG-GCTATGGCATCGGTGA
32037211 TATATGTGCT
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
52 36 0.47
53 38 0.50
54 2 0.03
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (53 bp):
TATAAGACTATAGCTAGGCTATGGCATCGGTGAGATGAGATTATTGGCTTCCG
Found at i:32038308 original size:22 final size:20
Alignment explanation
Indices: 32038264--32038302 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32038254 GACTACACGG
*
32038264 CCTACCCACATGGGTGTGTC
1 CCTACCCACACGGGTGTGTC
*
32038284 CCTATCCACACGGGTGTGT
1 CCTACCCACACGGGTGTGT
32038303 GACCCTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.33, G:0.26, T:0.26
Consensus pattern (20 bp):
CCTACCCACACGGGTGTGTC
Found at i:32044443 original size:20 final size:19
Alignment explanation
Indices: 32044405--32044461 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
32044395 ATCTTTTGCG
*
32044405 TTTTTTATCTGCTTCTTTCAT
1 TTTTTTATCTGCAT-TTTC-T
*
32044426 TTTTTTATGTGCATTTTCT
1 TTTTTTATCTGCATTTTCT
*
32044445 TTTATTTATTTGCATTT
1 TTT-TTTATCTGCATTT
32044462 AAAAACAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.12
20 16 0.50
21 12 0.38
ACGTcount: A:0.12, C:0.12, G:0.07, T:0.68
Consensus pattern (19 bp):
TTTTTTATCTGCATTTTCT
Found at i:32046488 original size:127 final size:128
Alignment explanation
Indices: 32046219--32046504 Score: 330
Period size: 127 Copynumber: 2.2 Consensus size: 128
32046209 GTTTGGGAAC
* * * * * *
32046219 TCGAGGAATCGTGCCCAACCGTGCTGGGTTTCGATTTTCTGTTTGCCCAAATAATTAAATATTCC
1 TCGAGGAATCGTGCCCTA-CGTGCTGGGTTGCAATTTACCGTTTGCCCAAATAATCAAATATTCC
* * *
32046284 TTTGAAATTTCATCCGTACTTTGAAAATTCCTTAAAACGAAGACAATGTTCGATGTTTAGAAAT
65 TTTGAAATTTCATCCATACTTTCAAAATTCCTTAAAACGAAGACAATGTTCAATGTTTAGAAAT
* * * *
32046348 TCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTACCGTTTGTTCGAAATAATCGAATATTC
1 TCGAGGAATCGTGCCCTA-CGTGCTGGGTTGCAATTTACCGTTTG-CCCAAATAATCAAATATTC
* * *
32046413 CTTT-AGAATTTCA-CTCATATTTTCTAAATT-C-TAAAAC-AAGGCAATGTTCAATGTTTAGAA
64 CTTTGA-AATTTCATC-CATACTTTCAAAATTCCTTAAAACGAAGACAATGTTCAATGTTTAGAA
32046473 AT
127 AT
*
32046475 TTGAGGAATCGTGCCCTACTGTGCTGGGTT
1 TCGAGGAATCGTGCCCTAC-GTGCTGGGTT
32046505 TCAGTTTTTC
Statistics
Matches: 134, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
126 1 0.01
127 49 0.37
128 6 0.04
129 41 0.31
130 37 0.28
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (128 bp):
TCGAGGAATCGTGCCCTACGTGCTGGGTTGCAATTTACCGTTTGCCCAAATAATCAAATATTCCT
TTGAAATTTCATCCATACTTTCAAAATTCCTTAAAACGAAGACAATGTTCAATGTTTAGAAAT
Found at i:32048642 original size:55 final size:53
Alignment explanation
Indices: 32048558--32048667 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 53
32048548 TTTGAATAAT
32048558 GTATTGTGAAGCTTCTTATCAACTCAAAGACAGAGTTTATCCTCATCGGCACTGC
1 GTATTGTGAAGCTTCTTATCAACTCAAAGAC--AGTTTATCCTCATCGGCACTGC
32048613 GTATTGTGAAGCTTCTTATCAACTCAAAGACAGTTTATCCTCATCGGCACTGC
1 GTATTGTGAAGCTTCTTATCAACTCAAAGACAGTTTATCCTCATCGGCACTGC
32048666 GT
1 GT
32048668 GTAGTACCGA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
53 24 0.44
55 31 0.56
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (53 bp):
GTATTGTGAAGCTTCTTATCAACTCAAAGACAGTTTATCCTCATCGGCACTGC
Found at i:32052085 original size:20 final size:21
Alignment explanation
Indices: 32052057--32052100 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
32052047 AATAATATTC
* *
32052057 TTAATATAA-TTATTTTTATA
1 TTAAAATAATTTATTTTTAAA
32052077 TTAAAATAATTTATTTTTAAA
1 TTAAAATAATTTATTTTTAAA
32052098 TTA
1 TTA
32052101 TATTTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTAAAATAATTTATTTTTAAA
Found at i:32052648 original size:19 final size:18
Alignment explanation
Indices: 32052626--32052677 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
32052616 AAAATTAAAA
*
32052626 ATATTTTTTCTTAATTTTT
1 ATATTTTTTCAT-ATTTTT
32052645 ATATTTTTTCATATTTTT
1 ATATTTTTTCATATTTTT
*
32052663 AAATTTTTT-ATATTT
1 ATATTTTTTCATATTT
32052678 AAAAATTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.19
18 14 0.45
19 11 0.35
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (18 bp):
ATATTTTTTCATATTTTT
Found at i:32052652 original size:9 final size:9
Alignment explanation
Indices: 32052626--32052677 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
32052616 AAAATTAAAA
32052626 ATATTTTTT
1 ATATTTTTT
* *
32052635 CTTAATTTTT
1 -ATATTTTTT
32052645 ATATTTTTT
1 ATATTTTTT
32052654 CATA-TTTTT
1 -ATATTTTTT
*
32052663 AAATTTTTT
1 ATATTTTTT
32052672 ATATTT
1 ATATTT
32052678 AAAAATTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
8 2 0.06
9 22 0.65
10 10 0.29
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (9 bp):
ATATTTTTT
Found at i:32052683 original size:17 final size:18
Alignment explanation
Indices: 32052647--32052684 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
32052637 TAATTTTTAT
**
32052647 ATTTTTTCATATTTTTAA
1 ATTTTTTCATATTTAAAA
32052665 ATTTTTT-ATATTTAAAA
1 ATTTTTTCATATTTAAAA
32052682 ATT
1 ATT
32052685 AATTAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTTTCATATTTAAAA
Found at i:32053560 original size:20 final size:20
Alignment explanation
Indices: 32053537--32053574 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32053527 TAATTTTAAA
*
32053537 ATTTTTATATATTTTTTAGG
1 ATTTTTATATAGTTTTTAGG
*
32053557 ATTTTTTTATAGTTTTTA
1 ATTTTTATATAGTTTTTA
32053575 TATTTGTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (20 bp):
ATTTTTATATAGTTTTTAGG
Found at i:32053609 original size:17 final size:18
Alignment explanation
Indices: 32053589--32053632 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
32053579 TGTTAAAAAA
32053589 TTATAAATTTTAGAA-TT
1 TTATAAATTTTAGAACTT
*
32053606 TTATAAATATTTTGAACTT
1 TTATAAAT-TTTAGAACTT
32053625 TTA-AAATT
1 TTATAAATT
32053633 ACCCGTGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 9 0.38
18 10 0.42
19 5 0.21
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (18 bp):
TTATAAATTTTAGAACTT
Found at i:32056088 original size:22 final size:23
Alignment explanation
Indices: 32056063--32056130 Score: 59
Period size: 25 Copynumber: 2.9 Consensus size: 23
32056053 ATTTAAAAAA
32056063 AATATTTATTATATAATA-AATT
1 AATATTTATTATATAATACAATT
*
32056085 AATACATATTATTA-ACAATACAATT
1 AAT--AT-TTATTATATAATACAATT
** *
32056110 TGTATTTATTATATAAAACAA
1 AATATTTATTATATAATACAA
32056131 AATTAAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
22 9 0.25
23 9 0.25
24 7 0.19
25 11 0.31
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (23 bp):
AATATTTATTATATAATACAATT
Found at i:32056182 original size:21 final size:19
Alignment explanation
Indices: 32056158--32056201 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
32056148 ATTTTATCTA
32056158 ATAAATAATTTAAATTATTAT
1 ATAAATAA-TTAAATTATT-T
*
32056179 ATAATTAATTAAATTATTT
1 ATAAATAATTAAATTATTT
32056198 ATAA
1 ATAA
32056202 TAAAATATCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 10 0.45
21 7 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATAAATAATTAAATTATTT
Found at i:32056183 original size:24 final size:23
Alignment explanation
Indices: 32056137--32056205 Score: 67
Period size: 24 Copynumber: 3.1 Consensus size: 23
32056127 ACAAAATTAA
* *
32056137 AAATAATTATCATT-TTATCTAAT
1 AAATAATTA-AATTATTATATAAT
32056160 AAATAATTTAAATTATTATATAAT
1 AAATAA-TTAAATTATTATATAAT
32056184 ---TAATTAAATTATT-TATAAT
1 AAATAATTAAATTATTATATAAT
32056203 AAA
1 AAA
32056206 ATATCGGAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
19 6 0.15
20 10 0.26
21 3 0.08
23 9 0.23
24 11 0.28
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (23 bp):
AAATAATTAAATTATTATATAAT
Found at i:32059012 original size:32 final size:32
Alignment explanation
Indices: 32058964--32059028 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
32058954 TTCGCTGTAT
*
32058964 TGGAATAGAGGCGTAATGGAATAAAGGCGTAA
1 TGGAATAGAAGCGTAATGGAATAAAGGCGTAA
* * *
32058996 TGGAATAGAAGTGTAATGGATTAAAGGTGTAA
1 TGGAATAGAAGCGTAATGGAATAAAGGCGTAA
32059028 T
1 T
32059029 AGCAAATCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.40, C:0.03, G:0.32, T:0.25
Consensus pattern (32 bp):
TGGAATAGAAGCGTAATGGAATAAAGGCGTAA
Found at i:32059025 original size:16 final size:16
Alignment explanation
Indices: 32058959--32059028 Score: 79
Period size: 16 Copynumber: 4.4 Consensus size: 16
32058949 TTTGGTTCGC
* *
32058959 TGTATTGGAATAGAGG
1 TGTAATGGAATAAAGG
*
32058975 CGTAATGGAATAAAGG
1 TGTAATGGAATAAAGG
*
32058991 CGTAATGGAATAGAA-G
1 TGTAATGGAATA-AAGG
*
32059007 TGTAATGGATTAAAGG
1 TGTAATGGAATAAAGG
32059023 TGTAAT
1 TGTAAT
32059029 AGCAAATCAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
15 2 0.04
16 43 0.91
17 2 0.04
ACGTcount: A:0.39, C:0.03, G:0.31, T:0.27
Consensus pattern (16 bp):
TGTAATGGAATAAAGG
Found at i:32059279 original size:16 final size:16
Alignment explanation
Indices: 32059242--32059283 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
32059232 TTAATCATAT
*
32059242 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
32059258 TT-AAATATATTATAA
1 TTAAAATATATTATAA
32059273 TTAAAATATAT
1 TTAAAATATAT
32059284 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:32059290 original size:14 final size:15
Alignment explanation
Indices: 32059251--32059292 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
32059241 TTTAAACATA
*
32059251 ATTATTATTAAATAT
1 ATTATAATTAAATAT
32059266 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
32059280 A-TATAATTTAATA
1 ATTATAATTAAATA
32059293 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:32059409 original size:14 final size:15
Alignment explanation
Indices: 32059360--32059411 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
32059350 TATAAATATA
32059360 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
32059375 TATTAAATATATTAT
1 AATTAAATATATTAT
32059390 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
32059403 AATTTAATA
1 AATTAAATA
32059412 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:32059456 original size:119 final size:119
Alignment explanation
Indices: 32059245--32059646 Score: 759
Period size: 119 Copynumber: 3.4 Consensus size: 119
32059235 ATCATATTTA
32059245 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
32059310 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAATATAAATT
66 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAATATAAATT
32059364 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
32059429 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAATATAAATT
66 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAATATAAATT
*
32059483 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
* *
32059548 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTAT-AAATATAAATT
*
32059603 AACATAATTATTATTAAATATATTATAATTAAAATATATTATTT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTT
32059647 TTCATATTAT
Statistics
Matches: 278, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
119 224 0.81
120 54 0.19
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (119 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAATATAAATT
Found at i:32059528 original size:14 final size:15
Alignment explanation
Indices: 32059479--32059530 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
32059469 TATAAATATA
32059479 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
32059494 TATTAAATATATTAT
1 AATTAAATATATTAT
32059509 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
32059522 AATTTAATA
1 AATTAAATA
32059531 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:32059639 original size:16 final size:16
Alignment explanation
Indices: 32059599--32059644 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
32059589 ATAAAATATA
*
32059599 AATTAACATA-ATTAT
1 AATTAAAATATATTAT
*
32059614 TATT-AAATATATTAT
1 AATTAAAATATATTAT
32059629 AATTAAAATATATTAT
1 AATTAAAATATATTAT
32059645 TTTTCATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 11 0.42
16 11 0.42
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
AATTAAAATATATTAT
Found at i:32059655 original size:12 final size:11
Alignment explanation
Indices: 32059637--32059676 Score: 62
Period size: 12 Copynumber: 3.5 Consensus size: 11
32059627 ATAATTAAAA
32059637 TATATTATTTT
1 TATATTATTTT
32059648 TCATATTATTTT
1 T-ATATTATTTT
32059660 TGATATTATTTT
1 T-ATATTATTTT
32059672 TATAT
1 TATAT
32059677 CATGTATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 5 0.19
12 22 0.81
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (11 bp):
TATATTATTTT
Found at i:32063305 original size:2 final size:2
Alignment explanation
Indices: 32063298--32063322 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32063288 GATAATAATA
32063298 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
32063323 AAGATAGAAT
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:32079034 original size:58 final size:58
Alignment explanation
Indices: 32078964--32079078 Score: 160
Period size: 58 Copynumber: 2.0 Consensus size: 58
32078954 AACTTTACTT
* * *
32078964 GTTAAATTTAAAAATT-TCATTAACAGTATATTAAATAATCAAAGAAAAATATTTATTC
1 GTTAAATCTAAAAATTCT-ACTAACAATATATTAAATAATCAAAGAAAAATATTTATTC
* * *
32079022 GTTAAATCTAAAAATTCTACTAACAATATATTAAATAATCTAATAAAAATCTTTATT
1 GTTAAATCTAAAAATTCTACTAACAATATATTAAATAATCAAAGAAAAATATTTATT
32079079 AGAAAAAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
58 49 0.98
59 1 0.02
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (58 bp):
GTTAAATCTAAAAATTCTACTAACAATATATTAAATAATCAAAGAAAAATATTTATTC
Found at i:32080568 original size:21 final size:21
Alignment explanation
Indices: 32080536--32080615 Score: 72
Period size: 21 Copynumber: 3.5 Consensus size: 21
32080526 GATAATAACG
32080536 AAAAAATAAAAATAAGATAAAT
1 AAAAAAT-AAAATAAGATAAAT
32080558 AAAAAATAAAATAAGCCAATTAAAT
1 AAAAAATAAAATAAG---A-TAAAT
**
32080583 AAAAAGCAATAATAA-ATAAAT
1 AAAAAATAA-AATAAGATAAAT
32080604 AAACAAATAAAA
1 AAA-AAATAAAA
32080616 ACTAAAAGAG
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
21 18 0.38
22 12 0.25
24 1 0.02
25 12 0.25
26 5 0.10
ACGTcount: A:0.74, C:0.05, G:0.04, T:0.17
Consensus pattern (21 bp):
AAAAAATAAAATAAGATAAAT
Found at i:32080719 original size:15 final size:15
Alignment explanation
Indices: 32080673--32080712 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
32080663 TAAAACAGTT
32080673 TAAAAA-AATAATGA
1 TAAAAATAATAATGA
32080687 TAAAAATAATAATGA
1 TAAAAATAATAATGA
32080702 TAAAAATAATA
1 TAAAAATAATA
32080713 GTAATAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (15 bp):
TAAAAATAATAATGA
Found at i:32080744 original size:23 final size:23
Alignment explanation
Indices: 32080686--32080741 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
32080676 AAAAATAATG
* *
32080686 ATAAAAATAATAATGATAAAAATA
1 ATAATAATAAT-ATTATAAAAATA
*
32080710 ATAGTAATAATATTATAAAAAT-
1 ATAATAATAATATTATAAAAATA
32080732 ATAATAATAA
1 ATAATAATAA
32080742 ATAAGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 9 0.32
23 10 0.36
24 9 0.32
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (23 bp):
ATAATAATAATATTATAAAAATA
Found at i:32080750 original size:22 final size:23
Alignment explanation
Indices: 32080686--32080750 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 23
32080676 AAAAATAATG
* *
32080686 ATAAAAATAATAATGATAAAAATA
1 ATAATAATAAT-ATAATAAAAATA
* *
32080710 ATAGTAATAATATTATAAAAAT-
1 ATAATAATAATATAATAAAAATA
32080732 ATAATAATAA-ATAAGTAAA
1 ATAATAATAATATAA-TAAA
32080751 TAAAACACAC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 3 0.09
22 13 0.37
23 10 0.29
24 9 0.26
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (23 bp):
ATAATAATAATATAATAAAAATA
Found at i:32082266 original size:20 final size:20
Alignment explanation
Indices: 32082243--32082281 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32082233 AATTACAAAA
*
32082243 AAAAACTCAAAATAATTTTC
1 AAAAACTCAAAACAATTTTC
* *
32082263 AAAAATTTAAAACAATTTT
1 AAAAACTCAAAACAATTTT
32082282 TTAATTTCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAACTCAAAACAATTTTC
Found at i:32083807 original size:17 final size:17
Alignment explanation
Indices: 32083782--32083832 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
32083772 TTGTTGAAGA
32083782 ATCTGTTTGGATTTTGC
1 ATCTGTTTGGATTTTGC
* *
32083799 ATCTATTT-G--TTT-A
1 ATCTGTTTGGATTTTGC
32083812 ATCTGTTTGGATTTTGC
1 ATCTGTTTGGATTTTGC
32083829 ATCT
1 ATCT
32083833 TTCAACTGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
13 7 0.27
14 4 0.15
16 4 0.15
17 11 0.42
ACGTcount: A:0.16, C:0.12, G:0.18, T:0.55
Consensus pattern (17 bp):
ATCTGTTTGGATTTTGC
Found at i:32085237 original size:13 final size:13
Alignment explanation
Indices: 32085219--32085245 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32085209 TAATCAAAAC
32085219 TCAATTAATATAG
1 TCAATTAATATAG
32085232 TCAATTAATATAG
1 TCAATTAATATAG
32085245 T
1 T
32085246 TTTTGTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (13 bp):
TCAATTAATATAG
Found at i:32088770 original size:40 final size:39
Alignment explanation
Indices: 32088580--32088762 Score: 201
Period size: 40 Copynumber: 4.6 Consensus size: 39
32088570 CGAATGATGT
* * * * *
32088580 CCGGGCTAAGTCCCGAAGGC-TTTATGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
32088620 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
32088660 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
32088698 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
32088739 CCGGGCTATGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTT
32088763 AAACGAGTAG
Statistics
Matches: 124, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 35 0.28
40 80 0.65
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:32088785 original size:79 final size:79
Alignment explanation
Indices: 32088632--32088786 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
32088622 GGACTAAGAT
* ***
32088632 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGAAACGAGTTACTAA
32088697 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
32088711 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTAAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGAAACGAGTTA-C
*
32088774 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
32088787 ATTTCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 41 0.62
80 23 0.35
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGAAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:32089723 original size:11 final size:11
Alignment explanation
Indices: 32089707--32089751 Score: 90
Period size: 11 Copynumber: 4.1 Consensus size: 11
32089697 CTGACTTTGG
32089707 AAATTTATTAT
1 AAATTTATTAT
32089718 AAATTTATTAT
1 AAATTTATTAT
32089729 AAATTTATTAT
1 AAATTTATTAT
32089740 AAATTTATTAT
1 AAATTTATTAT
32089751 A
1 A
32089752 TGTATAGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
AAATTTATTAT
Found at i:32097057 original size:40 final size:40
Alignment explanation
Indices: 32096963--32097107 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
32096953 TACTCGAATG
* * *
32096963 ATATTCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
32097004 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
32097044 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
32097084 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
32097108 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:32104942 original size:40 final size:40
Alignment explanation
Indices: 32104848--32104990 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
32104838 TACTCGAATG
*
32104848 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
32104889 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
32104929 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
32104968 ATATCCGGGTTAAG-ACCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
32104991 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
38 8 0.09
39 16 0.18
40 37 0.41
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:32110498 original size:8 final size:8
Alignment explanation
Indices: 32110485--32110510 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
32110475 TTATGTAGTA
32110485 AATTTGTG
1 AATTTGTG
32110493 AATTTGTG
1 AATTTGTG
32110501 AATTTGTG
1 AATTTGTG
32110509 AA
1 AA
32110511 ATATGTGGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (8 bp):
AATTTGTG
Found at i:32111007 original size:24 final size:25
Alignment explanation
Indices: 32110980--32111038 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
32110970 TCAATTGAGA
*
32110980 GAGCTTACTGATATTCA-ATCATAT
1 GAGCTTACTGATATTCAGATCATAG
* *
32111004 GAGCTTA-TCGATATTCAGCTCGTAG
1 GAGCTTACT-GATATTCAGATCATAG
32111029 GAGCTTACTG
1 GAGCTTACTG
32111039 TTTATAACTC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 1 0.03
24 15 0.52
25 12 0.41
26 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (25 bp):
GAGCTTACTGATATTCAGATCATAG
Found at i:32115558 original size:21 final size:20
Alignment explanation
Indices: 32115522--32115561 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
32115512 CTCATGAAAT
32115522 AGGGCACACACCCGTGTGGA
1 AGGGCACACACCCGTGTGGA
32115542 AGGGCA-ACACGCGCGTGTGG
1 AGGGCACACAC-C-CGTGTGG
32115562 TCATTATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 7 0.39
21 7 0.39
ACGTcount: A:0.23, C:0.28, G:0.40, T:0.10
Consensus pattern (20 bp):
AGGGCACACACCCGTGTGGA
Found at i:32121823 original size:46 final size:48
Alignment explanation
Indices: 32121763--32121876 Score: 133
Period size: 48 Copynumber: 2.4 Consensus size: 48
32121753 ACAGGACAGA
* * *
32121763 AATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGAGAAAGG
1 AATGACCCATGTAAGTCCATATCATATATATATGGCATTGGAGAAAGG
* * *
32121809 AATGACCCATGTAAGCCCATATTATATATATATGGCATTGGAGACAGG
1 AATGACCCATGTAAGTCCATATCATATATATATGGCATTGGAGAAAGG
* **
32121857 AATAATTCATGTAAGTCCAT
1 AATGACCCATGTAAGTCCAT
32121877 GTCGAAGACA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 21 0.38
47 1 0.02
48 34 0.61
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (48 bp):
AATGACCCATGTAAGTCCATATCATATATATATGGCATTGGAGAAAGG
Found at i:32121859 original size:48 final size:46
Alignment explanation
Indices: 32121757--32121859 Score: 125
Period size: 46 Copynumber: 2.2 Consensus size: 46
32121747 GACAGGACAG
* * * * *
32121757 GACAGAAATGAGCCATGTAAGTCCATATCAGTTATATGGCTTTGGA
1 GACAGGAATGACCCATGTAAGCCCATATCAATTATATGGCATTGGA
* *
32121803 GAAAGGAATGACCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGACCCATGTAAGCCCATATCA-AT-TATATGGCATTGGA
32121851 GACAGGAAT
1 GACAGGAAT
32121860 AATTCATGTA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
46 25 0.53
47 1 0.02
48 21 0.45
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (46 bp):
GACAGGAATGACCCATGTAAGCCCATATCAATTATATGGCATTGGA
Found at i:32135259 original size:13 final size:15
Alignment explanation
Indices: 32135229--32135259 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
32135219 TTCCAGATTT
32135229 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
32135244 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
32135259 T
1 T
32135260 GGAAAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.39, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTTCTACCTCTC
Found at i:32135345 original size:15 final size:14
Alignment explanation
Indices: 32135303--32135352 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
32135293 ATAACTTTGA
*
32135303 ATGCAAATGATGTG
1 ATGCAAATGATGAG
32135317 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
32135332 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
32135346 ATGCAAA
1 ATGCAAA
32135353 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:32139760 original size:39 final size:39
Alignment explanation
Indices: 32139702--32139857 Score: 231
Period size: 39 Copynumber: 3.9 Consensus size: 39
32139692 AGTTGATTCC
** *
32139702 ACTCCCCCATGTTACTTTGTTTTATTATTAATTAAAACT
1 ACTCCCCCATACTATTTTGTTTTATTATTAATTAAAACT
*
32139741 ACTCCCCCATACTATTTTGTTTTATTATTAATTAAAATT
1 ACTCCCCCATACTATTTTGTTTTATTATTAATTAAAACT
* *
32139780 ATTCCCCCATATTATTTTGTTTTCATTATTAATTAAAACT
1 ACTCCCCCATACTATTTTGTTTT-ATTATTAATTAAAACT
*
32139820 ATTCCCCCATACTATTTTGTTTTTATTATTAATTAAAA
1 ACTCCCCCATACTATTTTG-TTTTATTATTAATTAAAA
32139858 ACATACTTTA
Statistics
Matches: 107, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
39 56 0.52
40 47 0.44
41 4 0.04
ACGTcount: A:0.30, C:0.18, G:0.03, T:0.49
Consensus pattern (39 bp):
ACTCCCCCATACTATTTTGTTTTATTATTAATTAAAACT
Found at i:32139823 original size:40 final size:39
Alignment explanation
Indices: 32139717--32139857 Score: 237
Period size: 40 Copynumber: 3.6 Consensus size: 39
32139707 CCCATGTTAC
*
32139717 TTTGTTTTATTATTAATTAAAACTACTCCCCCATACTAT
1 TTTGTTTTATTATTAATTAAAACTATTCCCCCATACTAT
* *
32139756 TTTGTTTTATTATTAATTAAAATTATTCCCCCATATTAT
1 TTTGTTTTATTATTAATTAAAACTATTCCCCCATACTAT
32139795 TTTGTTTTCATTATTAATTAAAACTATTCCCCCATACTAT
1 TTTGTTTT-ATTATTAATTAAAACTATTCCCCCATACTAT
32139835 TTTGTTTTTATTATTAATTAAAA
1 TTTG-TTTTATTATTAATTAAAA
32139858 ACATACTTTA
Statistics
Matches: 95, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 44 0.46
40 47 0.49
41 4 0.04
ACGTcount: A:0.31, C:0.15, G:0.03, T:0.51
Consensus pattern (39 bp):
TTTGTTTTATTATTAATTAAAACTATTCCCCCATACTAT
Found at i:32139832 original size:79 final size:79
Alignment explanation
Indices: 32139704--32139857 Score: 265
Period size: 79 Copynumber: 1.9 Consensus size: 79
32139694 TTGATTCCAC
*
32139704 TCCCCCATGTTACTTTGTTTTATTATTAATTAAAACTACTCCCCCATACTATTTTG-TTTTATTA
1 TCCCCCATATTACTTTGTTTTATTATTAATTAAAACTACTCCCCCATACTATTTTGTTTTTATTA
32139768 TTAATTAAAATTAT
66 TTAATTAAAATTAT
* *
32139782 TCCCCCATATTATTTTGTTTTCATTATTAATTAAAACTATTCCCCCATACTATTTTGTTTTTATT
1 TCCCCCATATTACTTTGTTTT-ATTATTAATTAAAACTACTCCCCCATACTATTTTGTTTTTATT
32139847 ATTAATTAAAA
65 ATTAATTAAAA
32139858 ACATACTTTA
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
78 19 0.27
79 34 0.48
80 18 0.25
ACGTcount: A:0.30, C:0.18, G:0.03, T:0.49
Consensus pattern (79 bp):
TCCCCCATATTACTTTGTTTTATTATTAATTAAAACTACTCCCCCATACTATTTTGTTTTTATTA
TTAATTAAAATTAT
Found at i:32140033 original size:12 final size:12
Alignment explanation
Indices: 32140016--32140048 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
32140006 TTCCCCTCCT
32140016 CCGGTCATCGGA
1 CCGGTCATCGGA
32140028 CCGGTCATCGGA
1 CCGGTCATCGGA
*
32140040 CCGGCCATC
1 CCGGTCATC
32140049 AACCGTCACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.39, G:0.30, T:0.15
Consensus pattern (12 bp):
CCGGTCATCGGA
Found at i:32142435 original size:18 final size:18
Alignment explanation
Indices: 32142370--32142484 Score: 97
Period size: 18 Copynumber: 6.3 Consensus size: 18
32142360 AGCAATTAAT
*
32142370 CAATCAGTAATATTCATTAA
1 CAATCAGT--TATTCAGTAA
* *
32142390 CAATCAGTCAATCAG-AA
1 CAATCAGTTATTCAGTAA
* *
32142407 CAATTATTTATTCAGTAA
1 CAATCAGTTATTCAGTAA
* *
32142425 CAGTCAGTTATTCGGTAA
1 CAATCAGTTATTCAGTAA
* *
32142443 CAATCAATTATTCAATAA
1 CAATCAGTTATTCAGTAA
* * *
32142461 TAATCAGTTATTTAGTAT
1 CAATCAGTTATTCAGTAA
32142479 CAATCA
1 CAATCA
32142485 ATTGATCGAT
Statistics
Matches: 73, Mismatches: 21, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
17 13 0.18
18 52 0.71
20 8 0.11
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.35
Consensus pattern (18 bp):
CAATCAGTTATTCAGTAA
Found at i:32142454 original size:36 final size:36
Alignment explanation
Indices: 32142380--32142487 Score: 110
Period size: 36 Copynumber: 3.0 Consensus size: 36
32142370 CAATCAGTAA
* * * * *
32142380 TATTCATTAACAATCAGTCAATCAG-AACAATTATT
1 TATTCAATAACAATCAGTTATTCAGTAACAATCAAT
* * *
32142415 TATTCAGTAACAGTCAGTTATTCGGTAACAATCAAT
1 TATTCAATAACAATCAGTTATTCAGTAACAATCAAT
* * *
32142451 TATTCAATAATAATCAGTTATTTAGTATCAATCAAT
1 TATTCAATAACAATCAGTTATTCAGTAACAATCAAT
32142487 T
1 T
32142488 GATCGATTAT
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
35 20 0.34
36 39 0.66
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (36 bp):
TATTCAATAACAATCAGTTATTCAGTAACAATCAAT
Found at i:32142520 original size:18 final size:18
Alignment explanation
Indices: 32142493--32142564 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
32142483 CAATTGATCG
*
32142493 ATTATCCAGTAACAGTCA
1 ATTATTCAGTAACAGTCA
* *
32142511 ATTATTCAGTAAAAATCA
1 ATTATTCAGTAACAGTCA
* * *
32142529 GA-TATACAGTAACAATTAA
1 -ATTATTCAGTAAC-AGTCA
*
32142548 ATTATTCAGTAATAGTC
1 ATTATTCAGTAACAGTC
32142565 GATCTTTCCA
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
18 27 0.68
19 13 0.32
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (18 bp):
ATTATTCAGTAACAGTCA
Found at i:32142559 original size:19 final size:19
Alignment explanation
Indices: 32142510--32142559 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
32142500 AGTAACAGTC
32142510 AATTATTCAGTAAAAATCA
1 AATTATTCAGTAAAAATCA
* * * *
32142529 GA-TATACAGTAACAATTA
1 AATTATTCAGTAAAAATCA
32142547 AATTATTCAGTAA
1 AATTATTCAGTAA
32142560 TAGTCGATCT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.32
Consensus pattern (19 bp):
AATTATTCAGTAAAAATCA
Found at i:32147377 original size:24 final size:24
Alignment explanation
Indices: 32147350--32147403 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
32147340 ATGAGATATT
* *
32147350 GACCTTTACGTTGATATCCTTTTC
1 GACCTTTACATTGATATCATTTTC
* *
32147374 GACCTTTTCATTTATATCATTTTC
1 GACCTTTACATTGATATCATTTTC
*
32147398 AACCTT
1 GACCTT
32147404 CTTTGATGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.24, G:0.07, T:0.48
Consensus pattern (24 bp):
GACCTTTACATTGATATCATTTTC
Found at i:32147620 original size:40 final size:40
Alignment explanation
Indices: 32147572--32147741 Score: 154
Period size: 40 Copynumber: 4.3 Consensus size: 40
32147562 GCGTCCAGTG
*
32147572 CTAGTCGGATAAATTGACAATATCAAATGTGTGCCCAACA
1 CTAGTCGGATAAACTGACAATATCAAATGTGTGCCCAACA
** *
32147612 CTAGTCGGATAAACTGATGATATCAAATGTGTGCCCAGCA
1 CTAGTCGGATAAACTGACAATATCAAATGTGTGCCCAACA
* ** ** * * *
32147652 CTAGTTGGATAAACCAACAATGAT----T-TGAACCTAGCG
1 CTAGTCGGATAAACTGACAAT-ATCAAATGTGTGCCCAACA
*
32147688 CTAGTCGGATAAACCGACAATATCAAATGTGTGCCCAGA-A
1 CTAGTCGGATAAACTGACAATATCAAATGTGTGCCCA-ACA
*
32147728 CTAGTCAGATAAAC
1 CTAGTCGGATAAAC
32147742 CGAAAATGAT
Statistics
Matches: 102, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
35 2 0.02
36 26 0.25
37 1 0.01
39 1 0.01
40 70 0.69
41 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (40 bp):
CTAGTCGGATAAACTGACAATATCAAATGTGTGCCCAACA
Found at i:32147663 original size:116 final size:116
Alignment explanation
Indices: 32147524--32147741 Score: 300
Period size: 116 Copynumber: 1.9 Consensus size: 116
32147514 CCGACGATAG
* ** * **
32147524 GTGTGCCCTACACTAGTTAGATAAACCGACAAT-ATTTTGCGTCC-AGTGCTAGTCGGATAAATT
1 GTGTGCCCTACACTAGTTAGATAAACCAACAATGA-TTTG-AACCTAGCGCTAGTCGGATAAACC
*
32147587 GACAATATCAAATGTGTGCCCA-ACACTAGTCGGATAAACTGATGATATCAAAT
64 GACAATATCAAATGTGTGCCCAGA-ACTAGTCAGATAAACTGATGATATCAAAT
*
32147640 GTGTGCCC-AGCACTAGTTGGATAAACCAACAATGATTTGAACCTAGCGCTAGTCGGATAAACCG
1 GTGTGCCCTA-CACTAGTTAGATAAACCAACAATGATTTGAACCTAGCGCTAGTCGGATAAACCG
32147704 ACAATATCAAATGTGTGCCCAGAACTAGTCAGATAAAC
65 ACAATATCAAATGTGTGCCCAGAACTAGTCAGATAAAC
32147742 CGAAAATGAT
Statistics
Matches: 90, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
115 3 0.03
116 85 0.94
117 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (116 bp):
GTGTGCCCTACACTAGTTAGATAAACCAACAATGATTTGAACCTAGCGCTAGTCGGATAAACCGA
CAATATCAAATGTGTGCCCAGAACTAGTCAGATAAACTGATGATATCAAAT
Found at i:32147697 original size:76 final size:76
Alignment explanation
Indices: 32147605--32147783 Score: 225
Period size: 76 Copynumber: 2.4 Consensus size: 76
32147595 CAAATGTGTG
* * ** * **
32147605 CCCAACACTAGTCGGATAAACTGATGATATCAAATGTGTGCCCAGCACTAGTTGGATAAACC-AA
1 CCCAACGCTAGTCGGATAAACCGACAATATCAAATGTGTGCCCAGAACTAGTCAGATAAACCGAA
32147669 CAATGATTTGAA
66 -AATGATTTGAA
* *
32147681 CCTAGCGCTAGTCGGATAAACCGACAATATCAAATGTGTGCCCAGAACTAGTCAGATAAACCGAA
1 CCCAACGCTAGTCGGATAAACCGACAATATCAAATGTGTGCCCAGAACTAGTCAGATAAACCGAA
*
32147746 AATGATTTGCA
66 AATGATTTGAA
* * *
32147757 CCCAATGCTAGTTGGATAAACCAACAA
1 CCCAACGCTAGTCGGATAAACCGACAA
32147784 ATACATACGT
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
76 85 0.98
77 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (76 bp):
CCCAACGCTAGTCGGATAAACCGACAATATCAAATGTGTGCCCAGAACTAGTCAGATAAACCGAA
AATGATTTGAA
Found at i:32149451 original size:20 final size:20
Alignment explanation
Indices: 32149428--32149491 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
32149418 CTGCACATTT
32149428 GTGCTTTTGTTAGCACTATG
1 GTGCTTTTGTTAGCACTATG
** * *
32149448 GTGCTCCT-ATAGCAC-ATTT
1 GTGCTTTTGTTAGCACTA-TG
*
32149467 GTGCTTTTGTTGGCACTATG
1 GTGCTTTTGTTAGCACTATG
32149487 GTGCT
1 GTGCT
32149492 CCTATAGCAC
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
18 1 0.03
19 13 0.41
20 17 0.53
21 1 0.03
ACGTcount: A:0.14, C:0.19, G:0.25, T:0.42
Consensus pattern (20 bp):
GTGCTTTTGTTAGCACTATG
Found at i:32149462 original size:19 final size:19
Alignment explanation
Indices: 32149438--32149501 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
32149428 GTGCTTTTGT
32149438 TAGCACTATGGTGCTCCTA
1 TAGCACTATGGTGCTCCTA
* ** *
32149457 TAGCAC-ATTTGTGCTTTTGT
1 TAGCACTA-TGGTGCTCCT-A
*
32149477 TGGCACTATGGTGCTCCTA
1 TAGCACTATGGTGCTCCTA
32149496 TAGCAC
1 TAGCAC
32149502 ATTTGTACTC
Statistics
Matches: 32, Mismatches: 10, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
18 1 0.03
19 18 0.56
20 12 0.38
21 1 0.03
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (19 bp):
TAGCACTATGGTGCTCCTA
Found at i:32149463 original size:39 final size:39
Alignment explanation
Indices: 32149420--32149540 Score: 179
Period size: 39 Copynumber: 3.1 Consensus size: 39
32149410 CTTTTGTACT
32149420 GCACATTTGTGCTTTTGTTAGCACTATGGTGCTCCTATA
1 GCACATTTGTGCTTTTGTTAGCACTATGGTGCTCCTATA
*
32149459 GCACATTTGTGCTTTTGTTGGCACTATGGTGCTCCTATA
1 GCACATTTGTGCTTTTGTTAGCACTATGGTGCTCCTATA
* * * * *
32149498 GCACATTTGTACTCTTGTTAACACTACGATGCTCCTAATA
1 GCACATTTGTGCTTTTGTTAGCACTATGGTGCTCCT-ATA
32149538 GCA
1 GCA
32149541 TATTCATGAT
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 68 0.92
40 6 0.08
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (39 bp):
GCACATTTGTGCTTTTGTTAGCACTATGGTGCTCCTATA
Found at i:32151996 original size:29 final size:28
Alignment explanation
Indices: 32151934--32151996 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
32151924 AATAAACATA
32151934 TTTAAAATATTTTTAATAATTTATAATT
1 TTTAAAATATTTTTAATAATTTATAATT
* * *
32151962 TATAAAATTATTTTT-ATATTTTTTGAATT
1 TTTAAAA-TATTTTTAATAATTTAT-AATT
32151991 TTTAAA
1 TTTAAA
32151997 TTTTATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 13 0.45
29 16 0.55
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (28 bp):
TTTAAAATATTTTTAATAATTTATAATT
Found at i:32154171 original size:30 final size:29
Alignment explanation
Indices: 32154137--32154205 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
32154127 AGTAATTTTT
* * * *
32154137 TAAAATTAAATCAAATCAAAATTTTATGTA
1 TAAAATTAAATAAAATC-AAAGTTGATATA
**
32154167 TAAAATTACGTAAAATCAAAGTTGATATA
1 TAAAATTAAATAAAATCAAAGTTGATATA
32154196 TAAAATTAAA
1 TAAAATTAAA
32154206 AAATTTACTT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (29 bp):
TAAAATTAAATAAAATCAAAGTTGATATA
Found at i:32165846 original size:29 final size:29
Alignment explanation
Indices: 32165792--32165847 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
32165782 CTTGATAGTA
** *
32165792 TAACATCGGCACAAAGTGTATGATAACTG
1 TAACATCGGCACAAAGTACATAATAACTG
*
32165821 TAACATCGGCACAAAGTACCTAATAAC
1 TAACATCGGCACAAAGTACATAATAAC
32165848 CATAATCACC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.21
Consensus pattern (29 bp):
TAACATCGGCACAAAGTACATAATAACTG
Found at i:32173717 original size:28 final size:28
Alignment explanation
Indices: 32173673--32173749 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
32173663 GCATCTTCGC
*
32173673 TATCTCGCACACTAAGTGCC-TTACTTAA
1 TATCTCGCACACTAAGTGCCATT-CTCAA
* * *
32173701 TATCTCGTACACCAAGTTCCATTCTCAA
1 TATCTCGCACACTAAGTGCCATTCTCAA
*
32173729 TATTTCGCACACTAAGTGCCA
1 TATCTCGCACACTAAGTGCCA
32173750 CATATATAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 38 0.95
29 2 0.05
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (28 bp):
TATCTCGCACACTAAGTGCCATTCTCAA
Found at i:32176112 original size:14 final size:15
Alignment explanation
Indices: 32176086--32176114 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
32176076 TATATTTTAT
32176086 CTATAAGTTAATTAA
1 CTATAAGTTAATTAA
32176101 CTATAA-TTAATTAA
1 CTATAAGTTAATTAA
32176115 TTTAAACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.41
Consensus pattern (15 bp):
CTATAAGTTAATTAA
Found at i:32182898 original size:13 final size:13
Alignment explanation
Indices: 32182882--32182919 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
32182872 AAGCCATGCA
* *
32182882 CGCAAGACATGGG
1 CGCATGACACGGG
32182895 CGCATGACACGGG
1 CGCATGACACGGG
32182908 CGCATGACACGG
1 CGCATGACACGG
32182920 TCGTGTGACG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.26, C:0.29, G:0.37, T:0.08
Consensus pattern (13 bp):
CGCATGACACGGG
Found at i:32192066 original size:104 final size:104
Alignment explanation
Indices: 32191886--32192095 Score: 420
Period size: 104 Copynumber: 2.0 Consensus size: 104
32191876 TAGGGCTGAT
32191886 AGGTTATTATCGACATTTCGTAGAAGGGTTCTCTTTGATCGCAGCTTCGATGACTAAGTTGTTGC
1 AGGTTATTATCGACATTTCGTAGAAGGGTTCTCTTTGATCGCAGCTTCGATGACTAAGTTGTTGC
32191951 GTAAGGAAGTTCCTTTTGTTTGGACTGATACACAACAGA
66 GTAAGGAAGTTCCTTTTGTTTGGACTGATACACAACAGA
32191990 AGGTTATTATCGACATTTCGTAGAAGGGTTCTCTTTGATCGCAGCTTCGATGACTAAGTTGTTGC
1 AGGTTATTATCGACATTTCGTAGAAGGGTTCTCTTTGATCGCAGCTTCGATGACTAAGTTGTTGC
32192055 GTAAGGAAGTTCCTTTTGTTTGGACTGATACACAACAGA
66 GTAAGGAAGTTCCTTTTGTTTGGACTGATACACAACAGA
32192094 AG
1 AG
32192096 AGTTTTTGTA
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 106 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (104 bp):
AGGTTATTATCGACATTTCGTAGAAGGGTTCTCTTTGATCGCAGCTTCGATGACTAAGTTGTTGC
GTAAGGAAGTTCCTTTTGTTTGGACTGATACACAACAGA
Found at i:32193271 original size:6 final size:6
Alignment explanation
Indices: 32193260--32193297 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
32193250 ACACCGTAGG
* *
32193260 GTAACA GTAACA ATAACA GTAATA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GT
32193298 CATAGTCAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.21
Consensus pattern (6 bp):
GTAACA
Found at i:32193286 original size:18 final size:18
Alignment explanation
Indices: 32193260--32193303 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
32193250 ACACCGTAGG
*
32193260 GTAACAGTAACAATAACA
1 GTAATAGTAACAATAACA
*
32193278 GTAATAGTAACAGTAACA
1 GTAATAGTAACAATAACA
*
32193296 GTCATAGT
1 GTAATAGT
32193304 CAGGTACGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.23
Consensus pattern (18 bp):
GTAATAGTAACAATAACA
Found at i:32194221 original size:14 final size:15
Alignment explanation
Indices: 32194185--32194221 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
32194175 TTTATTTTAT
*
32194185 TTATTATAACTATTA
1 TTATTATATCTATTA
32194200 -TATTATATC-ATTA
1 TTATTATATCTATTA
32194213 TTATTATAT
1 TTATTATAT
32194222 TTTAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTATATCTATTA
Found at i:32194238 original size:21 final size:21
Alignment explanation
Indices: 32194187--32194249 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
32194177 TATTTTATTT
* *
32194187 ATTATAACTATTATA--TTAT
1 ATTATAATTATTATATTTTAA
* *
32194206 ATCATTATTATTATATTTTAA
1 ATTATAATTATTATATTTTAA
32194227 ATTATAATTATTAT-TTCTTAA
1 ATTATAATTATTATATT-TTAA
32194248 AT
1 AT
32194250 ATTAAGTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 12 0.34
20 2 0.06
21 21 0.60
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTATAATTATTATATTTTAA
Done.