Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold621
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: 109876
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Found at i:1320 original size:602 final size:604
Alignment explanation
Indices: 1--1732 Score: 3273
Period size: 602 Copynumber: 2.9 Consensus size: 604
1 AGAAGCAACCTGATAAACCATCAGCTTTTCGCTGGTCCATATGG-T-AAAGCAGCAACAATTTCT
1 AGAAGCAACCTGATAAACCATCAGCTTTTCGCTGGTCCATATGGTTAAAAGCAGCAACAATTTCT
64 TCATCAGT-AAGTCCCTGTCCAAGCAAGAGTTCATATTGTCAGTAATGCACGTTTGGATATAATG
66 TCATCAGTAAAGTCCCTGTCCAAGCAAGAGTTCATATTGTCAGTAATGCACGTTTGGATATAATG
128 CATGTCAGGTTCATTACAAGAAACAATGGTTGACTTAAAAAGATCATTAAAATAGTCCCATGCAA
131 CATGTCAGGTTCATTACAAGAAACAATGGTTGACTTAAAAAGATCATTAAAATAGTCCCATGCAA
*
193 TTTTACAGATGTCCCTCTTGTCTTTTTGCCACGTCCCATTAGAATCTTTTAACTTTCTATATTGT
196 CTTTACAGATGTCCCTCTTGTCTTTTTGCCACGTCCCATTAGAATCTTTTAACTTTCTATATTGT
* * *
258 GTTCTTTCTTCTGCCAGTAGCGTGCAAGTGAAAATAAC-CGTGTTTCTATCACTCTCCGTGAGCC
261 GTTCTTTCTTCTGCCAGTAGCGTGCATGTGAAAATAACGGGTGTTTCTATCACCCTCCGTGAGCC
*
322 AATTAATGTGAGCCCTTTGTGCCCAATAGTCCTCATCCACAGCATACAAGTGCCCAAGCTTGAAG
326 ACTTAATGTGAGCCCTTTGTGCCCAATAGTCCTCATCCACAGCATACAAGTGCCCAAGCTTGAAG
387 CGAGCCATTTTAAGGAGGTTAGTTGTGTTATCCCTGTTTGGACCATCCACAAGCTGATTGATCTT
391 CGAGCCATTTTAAGGAGGTTAGTTGTGTTATCCCTGTTTGGACCATCCACAAGCTGATTGATCTT
* *
452 CCTTTTCAGACCCCATATTTGGTTCATCATTCTTTTATAACGCTTATACTACCATAACTCAAGCT
456 CCTCTTCAGACCCCATATTTGGTTCATCATTCTTTTATAACGCTTATACTACCACAACTCAAGCT
517 AATCACGCAACATCCTTGTTGCCATTGAGCACACCGTGACACAACTTAAGACATCTTTTCCAACT
521 AATCACGCAACATCCTTGTTGCCATTGAGCACACCGTGACACAACTTAAGACATCTTTTCCAACT
582 ACGGCCCAGTGCTTTTTGA
586 ACGGCCCAGTGCTTTTTGA
601 AGAAGCAACCTGATAAACCATCAGCTTTTCGCTGGTCCATATGGTTAAAAGCAGCAACAATTTCT
1 AGAAGCAACCTGATAAACCATCAGCTTTTCGCTGGTCCATATGGTTAAAAGCAGCAACAATTTCT
666 TCATCAGTAAAGTCCCTGTCCAAGCAAGAAGTTCATATTGTCAGTAATGCACGTTTGGATATAAT
66 TCATCAGTAAAGTCCCTGTCCAAGCAAG-AGTTCATATTGTCAGTAATGCACGTTTGGATATAAT
731 GCATGTCAGGTTCATTACAAGAAACAATGGTTGACTT-AAAAGATCATTAAAATAGTCCCATGCA
130 GCATGTCAGGTTCATTACAAGAAACAATGGTTGACTTAAAAAGATCATTAAAATAGTCCCATGCA
795 ACTTTACAGATGTCCCTCTTGTCTTTTTGCCACGT-CCATTAGAATCTTTTAACTTTCTATATTG
195 ACTTTACAGATGTCCCTCTTGTCTTTTTGCCACGTCCCATTAGAATCTTTTAACTTTCTATATTG
859 TGTTCTTTCTTCTGCCAGTAGCGTGCATGTGAAAATAACGGGTGTTTCTATCACCCTCCGTGAGC
260 TGTTCTTTCTTCTGCCAGTAGCGTGCATGTGAAAATAACGGGTGTTTCTATCACCCTCCGTGAGC
924 CACTTAATGTGAGCCCTTTGTGCCCAATAGTCCTCATCCACAGCATACAAGTG-CCAAGCTTGAA
325 CACTTAATGTGAGCCCTTTGTGCCCAATAGTCCTCATCCACAGCATACAAGTGCCCAAGCTTGAA
988 GCGAGCCATTTTAAGGAGGTTAGTTGTGTTATCCCTGTTTGGACCATCCACAAGCTGATTGATCT
390 GCGAGCCATTTTAAGGAGGTTAGTTGTGTTATCCCTGTTTGGACCATCCACAAGCTGATTGATCT
*
1053 TCCTCTTCAAACCCCATATTTGGTTCATCATTCTTTTATAACGCTTATACTACCACAACTCAAGC
455 TCCTCTTCAGACCCCATATTTGGTTCATCATTCTTTTATAACGCTTATACTACCACAACTCAAGC
*
1118 TAATCACGCAACATCCTTGTTGCCATTGAGCACATCGTGACACAACTTTAAGACATCTTTTCCAA
520 TAATCACGCAACATCCTTGTTGCCATTGAGCACACCGTGACACAAC-TTAAGACATCTTTTCCAA
1183 CTACGGCCCAGTGCTTTTTGA
584 CTACGGCCCAGTGCTTTTTGA
1204 AGAAGCAACCTGATAAACCATCAGCTTTTCGCTGGTCCATATGGTTAAAAGCAGCAACAATTTCT
1 AGAAGCAACCTGATAAACCATCAGCTTTTCGCTGGTCCATATGGTTAAAAGCAGCAACAATTTCT
*
1269 TCATCAATAAAGTCCCTGTCCAAGCAAGAGTTCATATTGTCAGTAATGCACGTTTGGATATAATG
66 TCATCAGTAAAGTCCCTGTCCAAGCAAGAGTTCATATTGTCAGTAATGCACGTTTGGATATAATG
1334 CATGTCAGGTTCATTACAAGAAACAATGGTTGACTTAAAAAGATCATTAAAATAGTCCCATGCAA
131 CATGTCAGGTTCATTACAAGAAACAATGGTTGACTTAAAAAGATCATTAAAATAGTCCCATGCAA
1399 CTTTA-AGATGTCCCTCTTGTCTTTTTGCCACGTCCCATTAGAATCTTTTAACTTTTCTATATTG
196 CTTTACAGATGTCCCTCTTGTCTTTTTGCCACGTCCCATTAGAATCTTTTAAC-TTTCTATATTG
1463 TGTTCTTTCTTCTGCCAGTAGCGTGCATGTGAAAATAACGGGTGTTTCTATCACCCTCCGTGAGC
260 TGTTCTTTCTTCTGCCAGTAGCGTGCATGTGAAAATAACGGGTGTTTCTATCACCCTCCGTGAGC
*
1528 CACTTAATGTGAGCCCTTTGTGCCCAATAGTCCTCATCCACAACATACAAGTGCCCAAGCTTGAA
325 CACTTAATGTGAGCCCTTTGTGCCCAATAGTCCTCATCCACAGCATACAAGTGCCCAAGCTTGAA
*
1593 GCGAGCCATTTTAAGGAGGTTAGTTGTGTTATCCCTATTTGGACCATCCACAAGCTGATTGATCT
390 GCGAGCCATTTTAAGGAGGTTAGTTGTGTTATCCCTGTTTGGACCATCCACAAGCTGATTGATCT
1658 TCCTCTTCAGACCCCATATTTGGTTCATCATTCTTTTATAACGCTTATACTACCACAACTCAAGC
455 TCCTCTTCAGACCCCATATTTGGTTCATCATTCTTTTATAACGCTTATACTACCACAACTCAAGC
1723 TAATCACGCA
520 TAATCACGCA
1733 CCTTATCCAT
Statistics
Matches: 1109, Mismatches: 13, Indels: 15
0.98 0.01 0.01
Matches are distributed among these distances:
600 44 0.04
601 1 0.00
602 377 0.34
603 337 0.30
604 201 0.18
605 149 0.13
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (604 bp):
AGAAGCAACCTGATAAACCATCAGCTTTTCGCTGGTCCATATGGTTAAAAGCAGCAACAATTTCT
TCATCAGTAAAGTCCCTGTCCAAGCAAGAGTTCATATTGTCAGTAATGCACGTTTGGATATAATG
CATGTCAGGTTCATTACAAGAAACAATGGTTGACTTAAAAAGATCATTAAAATAGTCCCATGCAA
CTTTACAGATGTCCCTCTTGTCTTTTTGCCACGTCCCATTAGAATCTTTTAACTTTCTATATTGT
GTTCTTTCTTCTGCCAGTAGCGTGCATGTGAAAATAACGGGTGTTTCTATCACCCTCCGTGAGCC
ACTTAATGTGAGCCCTTTGTGCCCAATAGTCCTCATCCACAGCATACAAGTGCCCAAGCTTGAAG
CGAGCCATTTTAAGGAGGTTAGTTGTGTTATCCCTGTTTGGACCATCCACAAGCTGATTGATCTT
CCTCTTCAGACCCCATATTTGGTTCATCATTCTTTTATAACGCTTATACTACCACAACTCAAGCT
AATCACGCAACATCCTTGTTGCCATTGAGCACACCGTGACACAACTTAAGACATCTTTTCCAACT
ACGGCCCAGTGCTTTTTGA
Found at i:12390 original size:19 final size:19
Alignment explanation
Indices: 12366--12402 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
12356 TCAATATTTG
*
12366 GCTAGCTTATTTCTAAGTA
1 GCTAGCATATTTCTAAGTA
12385 GCTAGCATATTTCTAAGT
1 GCTAGCATATTTCTAAGT
12403 GCATGGTATG
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:0.16, G:0.16, T:0.41
Consensus pattern (19 bp):
GCTAGCATATTTCTAAGTA
Found at i:13199 original size:25 final size:25
Alignment explanation
Indices: 13133--13186 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
13123 TCATTAGGGT
* * *
13133 TACCGATTTATAGCTCGTAAGAGCA
1 TACCAATTCATAGCTCATAAGAGCA
13158 TACCAATTCATAGCTCATAAGAGCA
1 TACCAATTCATAGCTCATAAGAGCA
13183 TACC
1 TACC
13187 GATCTTCAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (25 bp):
TACCAATTCATAGCTCATAAGAGCA
Found at i:31229 original size:9 final size:9
Alignment explanation
Indices: 31215--31244 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
31205 TCTGTGCCAT
31215 CAACATGGC
1 CAACATGGC
31224 CAACATGGC
1 CAACATGGC
31233 CAACATGGC
1 CAACATGGC
31242 CAA
1 CAA
31245 TGTGATCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.37, C:0.33, G:0.20, T:0.10
Consensus pattern (9 bp):
CAACATGGC
Found at i:32726 original size:13 final size:13
Alignment explanation
Indices: 32704--32737 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
32694 TTTTCAAGTC
* *
32704 ATGTTCTAAAGCT
1 ATGTTTTAAAGAT
32717 ATGTTTTAAAGAT
1 ATGTTTTAAAGAT
32730 ATGTTTTA
1 ATGTTTTA
32738 TGCGTGCTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (13 bp):
ATGTTTTAAAGAT
Found at i:35479 original size:22 final size:20
Alignment explanation
Indices: 35443--35532 Score: 65
Period size: 21 Copynumber: 4.2 Consensus size: 20
35433 AATAGTTGAA
* * *
35443 AAAAATCAAAATTTTGTTTT
1 AAAAATTAAACTTTTTTTTT
*
35463 AAAATATTAAACTTTTTCCTTT
1 AAAA-ATTAAACTTTTT-TTTT
* *
35485 AAAAAATAGA-TTTTTATTTCT
1 AAAAATTAAACTTTTT-TTT-T
35506 AAAAATCTAAACTTTCTTTTTT
1 AAAAAT-TAAACTTT-TTTTTT
35528 AAAAA
1 AAAAA
35533 AAATAAAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
20 11 0.20
21 19 0.35
22 16 0.30
23 6 0.11
24 2 0.04
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (20 bp):
AAAAATTAAACTTTTTTTTT
Found at i:39167 original size:21 final size:21
Alignment explanation
Indices: 39135--39175 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
39125 AGGCTCGAGG
39135 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
39156 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
39176 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:45651 original size:20 final size:19
Alignment explanation
Indices: 45623--45716 Score: 73
Period size: 20 Copynumber: 4.7 Consensus size: 19
45613 GGATGTGACA
*
45623 CAAACAGAGGCACAAATGTG
1 CAAATAGAGGCACAAA-GTG
* *
45643 CAAATAGAGGTACCGAAGTG
1 CAAATAGAGGCA-CAAAGTG
* *
45663 CAAATGGAGGCACTTAAGTG
1 CAAATAGAGGCAC-AAAGTG
*
45683 CAAATCA-AGGCACGAATGTG
1 CAAAT-AGAGGCAC-AAAGTG
*
45703 CAAATAGAGACACA
1 CAAATAGAGGCACA
45717 TATATGCGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
19 3 0.05
20 53 0.90
21 3 0.05
ACGTcount: A:0.43, C:0.18, G:0.26, T:0.14
Consensus pattern (19 bp):
CAAATAGAGGCACAAAGTG
Found at i:47582 original size:209 final size:210
Alignment explanation
Indices: 47192--47582 Score: 486
Period size: 209 Copynumber: 1.9 Consensus size: 210
47182 AGATGGTTAC
*
47192 AAACCCAACTTTGTAAAAATTCATAAAAAAATTATTAATTAAAAATTATAATAGGTTCACAATCT
1 AAACCCAACTTTCTAAAAATTCATAAAAAAATTATTAATTAAAAATTAT-ATA-G-TCACAATCT
* * * * * *
47257 CTTTAGACGACAGATAACAAGATATCTCCAAAATAAGAGTATATCTCACCAAATAATAATATTCT
63 CTTTAGACGACAAAAAACAAAATATCTCCAAAATAAAAATATATCTCACCAAATAACAATATTCT
* * *
47322 CTAACAAGTACTAAAACCATTAACAATTTACTCAAATTCCAAATGAAAAACATTTGGTAACCAAA
128 CTAACAACTACTAAAACCATTAACAATTTACTCAAATTACAAATCAAAAACATTTGGTAACCAAA
47387 TACTCAAAAACCTATTGA
193 TACTCAAAAACCTATTGA
* *
47405 AAACTCAACTTTCTAAAAATTCATAAAAAAAATTGTTAATTAAAAATTGAT-TA-T-ACAATC-C
1 AAACCCAACTTTCTAAAAATTCAT-AAAAAAATTATTAATTAAAAATT-ATATAGTCACAATCTC
* * * * * *
47466 GTTTATATGATAAAAAACAAAATATCTCCAAAATAAAAATATATCTCACTAGATAACAGTATTCT
64 -TTTAGACGACAAAAAACAAAATATCTCCAAAATAAAAATATATCTCACCAAATAACAATATTCT
* * **
47531 CTAATAACTACTAAAACC-TTCAACTATTTACTCAAATTATTAATCAAAAACA
128 CTAACAACTACTAAAACCATT-AACAATTTACTCAAATTACAAATCAAAAACA
47583 CACTTTTGTA
Statistics
Matches: 152, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
208 3 0.02
209 100 0.66
210 1 0.01
213 24 0.16
214 22 0.14
215 2 0.01
ACGTcount: A:0.49, C:0.17, G:0.05, T:0.30
Consensus pattern (210 bp):
AAACCCAACTTTCTAAAAATTCATAAAAAAATTATTAATTAAAAATTATATAGTCACAATCTCTT
TAGACGACAAAAAACAAAATATCTCCAAAATAAAAATATATCTCACCAAATAACAATATTCTCTA
ACAACTACTAAAACCATTAACAATTTACTCAAATTACAAATCAAAAACATTTGGTAACCAAATAC
TCAAAAACCTATTGA
Found at i:54284 original size:38 final size:38
Alignment explanation
Indices: 54233--54309 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 38
54223 GAATAGCAGC
54233 ACAAAGGTTGAGTAGTTTGCC-TTTCTCATGCATCCTAT
1 ACAAAGGTTGAGTAGTTT-CCGTTTCTCATGCATCCTAT
* *
54271 ACAAAGTTTGAGTAGTTTCCGTTTCTCATGCATGCTAT
1 ACAAAGGTTGAGTAGTTTCCGTTTCTCATGCATCCTAT
54309 A
1 A
54310 TTTGTCAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 2 0.06
38 34 0.94
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (38 bp):
ACAAAGGTTGAGTAGTTTCCGTTTCTCATGCATCCTAT
Found at i:60422 original size:84 final size:85
Alignment explanation
Indices: 60280--60606 Score: 460
Period size: 85 Copynumber: 3.9 Consensus size: 85
60270 TAACCGTTAC
* * * *
60280 ACGGTGGAATCAACACTTAGCAACCA-CATTATAATAAATGATACGGGGAATCAGCACATAGCAA
1 ACGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACGGGGAATCAGCACATAGCAA
* *
60344 CCTCTTTCACAATCAAGGAT
66 CCCCTTTCACAGTCAAGGAT
* * * * *
60364 ACGGTGAAATCAGCACTTAGCAACCACC-TTATAATCAATTATATGGGGAATCAACACATAGCAA
1 ACGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACGGGGAATCAGCACATAGCAA
60428 CCCCTTTCACAGTCAAGGAT
66 CCCCTTTCACAGTCAAGGAT
* * **
60448 ACGGTGGAATCAGCACATAGCAATCACCTTTATATTCAATGATAATGGGAATCAGCACATAGCAA
1 ACGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACGGGGAATCAGCACATAGCAA
*
60513 CCCCTTTCACAGTTAAGGAT
66 CCCCTTTCACAGTCAAGGAT
* * * *
60533 ACGGTGGAATCAGCACAGAGCAACCACCTTTATATTCAATGATACAGGGAATTAGCACATAGCAA
1 ACGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACGGGGAATCAGCACATAGCAA
60598 CCCCTTTCA
66 CCCCTTTCA
60607 TTCAAAGAAT
Statistics
Matches: 219, Mismatches: 22, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
84 99 0.45
85 120 0.55
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.23
Consensus pattern (85 bp):
ACGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACGGGGAATCAGCACATAGCAA
CCCCTTTCACAGTCAAGGAT
Found at i:60941 original size:30 final size:30
Alignment explanation
Indices: 60888--60947 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
60878 AAAATCACAC
60888 TTTGACGAAAATTACATTTTTACCCCTAAAG
1 TTTGACGAAAATTACATTTTTACCCC-AAAG
*
60919 TTTGAC-AAATTTACGA-TTTTACCCCAAAG
1 TTTGACGAAAATTAC-ATTTTTACCCCAAAG
60948 CTTGTAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 4 0.15
30 16 0.59
31 7 0.26
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (30 bp):
TTTGACGAAAATTACATTTTTACCCCAAAG
Found at i:63630 original size:20 final size:20
Alignment explanation
Indices: 63602--63685 Score: 55
Period size: 20 Copynumber: 4.2 Consensus size: 20
63592 GTGTACAAAT
*
63602 GTGCAAAC-AGGAGCACCGTA
1 GTGCAAACAAGGA-CACCGAA
*
63622 GTGCGAACAAGGACACCGAA
1 GTGCAAACAAGGACACCGAA
* * * * **
63642 GTGTATACAGGGGCAAAGAA
1 GTGCAAACAAGGACACCGAA
*
63662 GTGCAAAC-ATGAGCACCGAA
1 GTGCAAACAAGGA-CACCGAA
63682 GTGC
1 GTGC
63686 CAATCCTGTA
Statistics
Matches: 46, Mismatches: 16, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
19 1 0.02
20 41 0.89
21 4 0.09
ACGTcount: A:0.37, C:0.21, G:0.31, T:0.11
Consensus pattern (20 bp):
GTGCAAACAAGGACACCGAA
Found at i:71342 original size:22 final size:23
Alignment explanation
Indices: 71290--71344 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
71280 ATGCAATCGT
*
71290 AGATTTG-TTATGTAACCGTAGA
1 AGATTTGATTTTGTAACCGTAGA
* * *
71312 AGATATGATTTTGTAATCTTAG-
1 AGATTTGATTTTGTAACCGTAGA
71334 AGATTTGATTT
1 AGATTTGATTT
71345 GTAGATACCA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 16 0.59
23 11 0.41
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.44
Consensus pattern (23 bp):
AGATTTGATTTTGTAACCGTAGA
Found at i:88025 original size:18 final size:17
Alignment explanation
Indices: 88002--88035 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
87992 TATTTCAATT
88002 TTTTAATAAAATGTAATC
1 TTTTAA-AAAATGTAATC
*
88020 TTTTAAACAATGTAAT
1 TTTTAAAAAATGTAAT
88036 GTGATTGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (17 bp):
TTTTAAAAAATGTAATC
Found at i:89818 original size:132 final size:132
Alignment explanation
Indices: 89581--89836 Score: 440
Period size: 132 Copynumber: 1.9 Consensus size: 132
89571 CGGTCTTACC
* * * *
89581 AAATCTGCTTCCCTACTACCTTGGGAAGATAGGATTCACCGTCTTTGATCTGTTCCACTACTGTT
1 AAATCTGCTTCCCTACTACCTTGGAAAGATAAGATTCACCGTATTTGATCTATTCCACTACTGTT
*
89646 TAAGAAGACATGATCTACAATCTTCAACCTATTCCATTGCTGTCTAGGGAGATAGGACTGGTGGC
66 TAAGAAGACATGATCTACAATCTTCAACCTATTCCATTGCTGTCCAGGGAGATAGGACTGGTGGC
89711 TT
131 TT
*
89713 AAATCTGCTTCCCTATTACCTTGGAAAGATAAGATTCACCGTATTTGATCTATTCCACTACTGTT
1 AAATCTGCTTCCCTACTACCTTGGAAAGATAAGATTCACCGTATTTGATCTATTCCACTACTGTT
* *
89778 TAGGGAGACATGATCTACAATCTTCAACCTATTCCATTGCTGTCCAGGGAGATAGGACT
66 TAAGAAGACATGATCTACAATCTTCAACCTATTCCATTGCTGTCCAGGGAGATAGGACT
89837 TACAATCTTT
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 116 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (132 bp):
AAATCTGCTTCCCTACTACCTTGGAAAGATAAGATTCACCGTATTTGATCTATTCCACTACTGTT
TAAGAAGACATGATCTACAATCTTCAACCTATTCCATTGCTGTCCAGGGAGATAGGACTGGTGGC
TT
Found at i:89827 original size:44 final size:44
Alignment explanation
Indices: 89762--89945 Score: 262
Period size: 44 Copynumber: 4.2 Consensus size: 44
89752 CGTATTTGAT
** * *
89762 CTATTCCACTACTGTTTAGGGAGACATGA-TCTACAATCTTCAAC
1 CTATTCCACTACTGTCCAGGGAGATAGGACT-TACAATCTTCAAC
* * * **
89806 CTATTCCATTGCTGTCCAGGGAGATAGGACTTACAATCTTTAGT
1 CTATTCCACTACTGTCCAGGGAGATAGGACTTACAATCTTCAAC
89850 CTATTCCACTACTGTCCAGGGAGATAGGACTTACAATCTTCAAC
1 CTATTCCACTACTGTCCAGGGAGATAGGACTTACAATCTTCAAC
*
89894 CTATTCCACTACTGTCCCGGGAGATAGGACTTACAATCTTCAAC
1 CTATTCCACTACTGTCCAGGGAGATAGGACTTACAATCTTCAAC
89938 CTATTCCA
1 CTATTCCA
89946 ATGCGGTAGG
Statistics
Matches: 124, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
44 123 0.99
45 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (44 bp):
CTATTCCACTACTGTCCAGGGAGATAGGACTTACAATCTTCAAC
Found at i:91892 original size:13 final size:13
Alignment explanation
Indices: 91874--91898 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91864 ACAAAATGTC
91874 AGACATGGCATCT
1 AGACATGGCATCT
91887 AGACATGGCATC
1 AGACATGGCATC
91899 ACGTGTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (13 bp):
AGACATGGCATCT
Found at i:94292 original size:43 final size:43
Alignment explanation
Indices: 94223--94669 Score: 451
Period size: 43 Copynumber: 10.5 Consensus size: 43
94213 TTGAAAGGGA
** *
94223 TCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGGCCGAGGC
1 TCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGC
* * *
94266 TCCCGCACGACCAAGGGCTTAGTTTGCCGATGGTGCCCGAGCC
1 TCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGC
* * * *
94309 TCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGT
1 TCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGC
* ** * *
94352 TCTCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCTCGAGGC
1 TCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGC
** *
94394 TCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGC
1 TCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGC
* ** *
94437 TCCCGCAC-ATCATAGCACCGAGG-TGCCGATGGTGCCCGAGGC
1 TCCCGCACGACCA-AGGGCCTAGGTTGCCGATGGTGCCCGAGGC
*
94479 TACCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGC
1 TCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGC
* ** * *
94522 TCCCGCAC-ATCGAAGCACCGAGG-TGCCGATGGCGCCCGAGGC
1 TCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGC
* ** * * * *
94564 TCCTGCAATACCAAGGGCTTAGTTTGCCGATGGTGTCCGGGGC
1 TCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGC
* * **
94607 TCCTGCAC-ATCCTAGCACC-AGGTTGCCGATGGTGCCCGAGGC
1 TCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGC
94649 TCCCGCACGACCAAGGGCCTA
1 TCCCGCACGACCAAGGGCCTA
94670 TGCTACCGGA
Statistics
Matches: 326, Mismatches: 66, Indels: 24
0.78 0.16 0.06
Matches are distributed among these distances:
42 133 0.41
43 193 0.59
ACGTcount: A:0.18, C:0.34, G:0.32, T:0.17
Consensus pattern (43 bp):
TCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGC
Found at i:94415 original size:85 final size:83
Alignment explanation
Indices: 94223--94669 Score: 522
Period size: 85 Copynumber: 5.3 Consensus size: 83
94213 TTGAAAGGGA
** ** **
94223 TCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGGCCGAGGCTCCCGCACGA-CCAAGGGCTTA
1 TCCCGCACGACCAAGGGCCTAGGTTGCCGATGGT--CCGAGGCTCCCGCAC-ATCCAAGCACCGA
* *
94287 GTTTGCCGATGGTGCCCGAGCC
63 G-GTGCCGATGGTGCCCGAGGC
* * * *
94309 TCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGTTCTCGCACATCCAAGCACCAAG
1 TCCCGCACGACCAAGGGCCTAGGTTGCCGATGGT-C-CGAGGCTCCCGCACATCCAAGCACCGAG
*
94374 GTGCCGATGGTGCTCGAGGC
64 GTGCCGATGGTGCCCGAGGC
*
94394 TCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACAT-CATAGCACCGA
1 TCCCGCACGACCAAGGGCCTAGGTTGCCGA-TG-GTCCGAGGCTCCCGCACATCCA-AGCACCGA
94458 GGTGCCGATGGTGCCCGAGGC
63 GGTGCCGATGGTGCCCGAGGC
* *
94479 TACCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACATCGAAGCACCGAG
1 TCCCGCACGACCAAGGGCCTAGGTTGCCGATGGT--CCGAGGCTCCCGCACATCCAAGCACCGAG
*
94544 GTGCCGATGGCGCCCGAGGC
64 GTGCCGATGGTGCCCGAGGC
* ** * * * * *
94564 TCCTGCAATACCAAGGGCTTAGTTTGCCGATGGTGTCCGGGGCTCCTGCACATCCTAGCACC-AG
1 TCCCGCACGACCAAGGGCCTAGGTTGCCGAT-G-GTCCGAGGCTCCCGCACATCCAAGCACCGAG
94628 GTTGCCGATGGTGCCCGAGGC
64 G-TGCCGATGGTGCCCGAGGC
94649 TCCCGCACGACCAAGGGCCTA
1 TCCCGCACGACCAAGGGCCTA
94670 TGCTACCGGA
Statistics
Matches: 312, Mismatches: 38, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
83 2 0.01
84 6 0.02
85 245 0.79
86 55 0.18
87 4 0.01
ACGTcount: A:0.18, C:0.34, G:0.32, T:0.17
Consensus pattern (83 bp):
TCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTCCGAGGCTCCCGCACATCCAAGCACCGAGGT
GCCGATGGTGCCCGAGGC
Found at i:94507 original size:128 final size:127
Alignment explanation
Indices: 94225--94669 Score: 350
Period size: 128 Copynumber: 3.5 Consensus size: 127
94215 GAAAGGGATC
** * *
94225 CCGCACGACCAAGGGCCTATTTTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCTTAGTT
1 CCGCACGACCAAGGGCCTAGGTTGCCGATGGT-GCCGAGGCTCCCGCACGACCAAGGGCCTAGGT
** * ** * * *
94290 TGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGTT
65 TGCCGACAGTGCCCGAGCCTCCCGCACGACCAAGCACCGAGGTTGCCGATGGTACCCGAGGTA
** *
94353 CTCGCAC-ATCCAAGCACCAAGG-TGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAG
1 C-CGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGC-CGAGGCTCCCGCACGACCAAGGGCCTAG
* * * *
94416 GTTGCCGACAGTGTCCGAGGCTCCCGCAC-ATCATAGCACCGAGG-TGCCGATGGTGCCCGAGGC
63 GTTGCCGACAGTGCCCGAGCCTCCCGCACGACCA-AGCACCGAGGTTGCCGATGGTACCCGAGG-
94479 TA
126 TA
* ** *
94481 CCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCGAAGCACCGAGG
1 CCGCACGACCAAGGGCCTAGGTTGCCGATGGTG-CCGAGGCTCCCGCACGA-CCAAGGGCCTAGG
** * * * ** ** ** * ** *
94545 -TGCCGATGGCGCCCGAGGCTCCTGCAATACCAAGGGCTTAGTTTGCCGATGGTGTCCGGGGCT-
64 TTGCCGACAGTGCCCGAGCCTCCCGCACGACCAAGCACCGAGGTTGCCGATGGTACCCGAGG-TA
* **
94608 CCTGCAC-ATCCTAGCACC-AGGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
1 CC-GCACGA-CCAAGGGCCTAGGTTGCCGATGGTG-CCGAGGCTCCCGCACGACCAAGGGCCTA
94670 TGCTACCGGA
Statistics
Matches: 256, Mismatches: 47, Indels: 29
0.77 0.14 0.09
Matches are distributed among these distances:
127 104 0.41
128 138 0.54
129 14 0.05
ACGTcount: A:0.18, C:0.33, G:0.32, T:0.16
Consensus pattern (127 bp):
CCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCGAGGCTCCCGCACGACCAAGGGCCTAGGTT
GCCGACAGTGCCCGAGCCTCCCGCACGACCAAGCACCGAGGTTGCCGATGGTACCCGAGGTA
Found at i:94507 original size:170 final size:168
Alignment explanation
Indices: 94223--94669 Score: 581
Period size: 170 Copynumber: 2.6 Consensus size: 168
94213 TTGAAAGGGA
* * * ** *
94223 TCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGGCCGAGGCTCCCGCACGACCA-AGGGCTTA
1 TCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCTCCCGCAC-ATCATAGCAC-CA
* * * *
94287 GTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGT
64 G-GTGCCGATGGTGCCCGAGGCTC-CGCACGACCAAGGGCCTAGGTTGCCGATGGTACCCGAGGC
* * *
94352 TCTCGCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGC
127 TCCCGCACATCCAAGCACCAAGGTGCCGATGGCGCCCGAGGC
* **
94394 TCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAG
1 TCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCTCCCGCACATCATAGCACC-AG
*
94459 GTGCCGATGGTGCCCGAGGCTACCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTC
65 GTGCCGATGGTGCCCGAGGCT-CCGCACGACCAAGGGCCTAGGTTGCCGATGGTACCCGAGGCTC
* *
94524 CCGCACATCGAAGCACCGAGGTGCCGATGGCGCCCGAGGC
129 CCGCACATCCAAGCACCAAGGTGCCGATGGCGCCCGAGGC
* ** * * * *
94564 TCCTGCAATACCAAGGGCTTAGTTTGCCGATGGTGTCCGGGGCTCCTGCACATCCTAGCACCAGG
1 TCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCTCCCGCACATCATAGCACCAGG
94629 TTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
66 -TGCCGATGGTGCCCGAGGCT-CCGCACGACCAAGGGCCTA
94670 TGCTACCGGA
Statistics
Matches: 242, Mismatches: 30, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
169 3 0.01
170 187 0.77
171 52 0.21
ACGTcount: A:0.18, C:0.34, G:0.32, T:0.17
Consensus pattern (168 bp):
TCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCTCCCGCACATCATAGCACCAGG
TGCCGATGGTGCCCGAGGCTCCGCACGACCAAGGGCCTAGGTTGCCGATGGTACCCGAGGCTCCC
GCACATCCAAGCACCAAGGTGCCGATGGCGCCCGAGGC
Found at i:94750 original size:24 final size:24
Alignment explanation
Indices: 94674--94752 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
94664 GGCCTATGCT
* *
94674 ACCGGAACGGTTCACCGGAGCACC
1 ACCGGGACGGTTCGCCGGAGCACC
94698 GA-CGGGACGGTTCGCCGGAGCACC
1 -ACCGGGACGGTTCGCCGGAGCACC
* *
94722 GCCGGGACGGATCGCCGGAGCACC
1 ACCGGGACGGTTCGCCGGAGCACC
94746 ACCGGGA
1 ACCGGGA
94753 ACCTAACCGG
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
24 47 0.98
25 1 0.02
ACGTcount: A:0.20, C:0.35, G:0.38, T:0.06
Consensus pattern (24 bp):
ACCGGGACGGTTCGCCGGAGCACC
Found at i:95017 original size:42 final size:42
Alignment explanation
Indices: 94962--95211 Score: 269
Period size: 42 Copynumber: 5.9 Consensus size: 42
94952 ACTTTAGCTT
94962 TGGTGCT-GAAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
1 TGGTGCTCG-AGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
*
95004 TGGTGCTCGAGGCTCCCGCACAT-CATAGCACCGAGGTGCCGA
1 TGGTGCTCGAGGCTCCCGCACATCCA-AGCACCAAGGTGCCGA
* ** * * *
95046 TGGT-CTCCGAGGCTCCC-CACAACCAAGGGCCTAGTTTGCCGG
1 TGGTGCT-CGAGGCTCCCGCACATCCAAGCACCAAG-GTGCCGA
* *
95088 TGGTG-TCCGATGCTCCCGCACATCCATGCACCAAGGTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
* *
95130 TGGTGCTCGAGGCTCCCGCACATCCAAGCATCAAGGTTACCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG-TGCCGA
* *
95173 TGGTGGCT-GAGGCTCCCACACATCCGAGCCACCAAGGTG
1 TGGT-GCTCGAGGCTCCCGCACATCCAAG-CACCAAGGTG
95212 ATGGAGGCTC
Statistics
Matches: 174, Mismatches: 23, Indels: 21
0.80 0.11 0.10
Matches are distributed among these distances:
41 14 0.08
42 108 0.62
43 42 0.24
44 10 0.06
ACGTcount: A:0.20, C:0.34, G:0.28, T:0.17
Consensus pattern (42 bp):
TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
Found at i:103184 original size:43 final size:43
Alignment explanation
Indices: 103114--103206 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 43
103104 TCTTCTTTAG
*
103114 CCCGCACATCCCAGGCACCAAGGTGCCGATGGGTGCCCGAGGCT
1 CCCGCACATCCCAAGCACCAAGGTGCCGAT-GGTGCCCGAGGCT
* *
103158 CCCGCACAT-CCAAGCACCAAGTTGCCGATGGTGTCCGAGGCT
1 CCCGCACATCCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
103200 CCCGCAC
1 CCCGCAC
103207 CTCCTAGCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 19 0.41
43 18 0.39
44 9 0.20
ACGTcount: A:0.19, C:0.40, G:0.28, T:0.13
Consensus pattern (43 bp):
CCCGCACATCCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCT
Found at i:103226 original size:25 final size:25
Alignment explanation
Indices: 103192--103243 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
103182 CCGATGGTGT
* *
103192 CCGAGGCTCCCGCACCTCCTAGCCA
1 CCGAGGCTCCCGCACATCCGAGCCA
103217 CCGAGGCTCCCGCACATCCGAGCCA
1 CCGAGGCTCCCGCACATCCGAGCCA
103242 CC
1 CC
103244 AAGGTGCCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.17, C:0.52, G:0.21, T:0.10
Consensus pattern (25 bp):
CCGAGGCTCCCGCACATCCGAGCCA
Found at i:103265 original size:43 final size:42
Alignment explanation
Indices: 103217--104259 Score: 862
Period size: 43 Copynumber: 24.7 Consensus size: 42
103207 CTCCTAGCCA
* * *
103217 CCGAGGCTCCCGCAC-ATCCGAGCCACCAAGGTGCCGATGGTGC
1 CCGAGGCTCCCGCACGA-CCAAG-CGCCTAGGTGCCGATGGTGC
*
103260 CCGAGGCTCCCGCACGACC-A------AGG-GCCGATGGTGG
1 CCGAGGCTCCCGCACGACCAAGCGCCTAGGTGCCGATGGTGC
* * ** *
103294 CCGAGGCCCCCGCACGACCAAGGGCCTATTTTACCGATGGTGC
1 CCGAGGCTCCCGCACGACCAAGCGCCTA-GGTGCCGATGGTGC
* * * *
103337 CCGAGCCTCTCGCACGACCAAGGGTCTAGGTTGCCGATGGTGC
1 CCGAGGCTCCCGCACGACCAAGCGCCTAGG-TGCCGATGGTGC
* * * * *
103380 CCGAGGTTCCGGCAC-ATCCAAGCACCAAGGTGTCGATGGTGC
1 CCGAGGCTCCCGCACGA-CCAAGCGCCTAGGTGCCGATGGTGC
* * * *
103422 TCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGT
1 CCGAGGCTCCCGCACGACCAAGCGCCTAG-GTGCCGATGGTGC
* * * *
103465 CCGAGGCTCCCGCAC-ATCCCAGCACCTAGGAGCCGATGGTGG
1 CCGAGGCTCCCGCACGA-CCAAGCGCCTAGGTGCCGATGGTGC
* **
103507 CCGAGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGC
1 CCGAGGCTCCCGCACGACCAAGCGCCTA-GGTGCCGATGGTGC
* * *
103550 CCGAGGCTCCCGCACGACCAAGGGCTTAGTTTGCCGATGGTGC
1 CCGAGGCTCCCGCACGACCAAGCGCCTAG-GTGCCGATGGTGC
* * * *
103593 CCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGTCGATGGTGC
1 CCGAGGCTCCCGCACGACCAAGCGCCTAGG-TGCCGATGGTGC
* * * * * *
103636 GCGAGGTTCTCGGAC-ATCCAAGCACCAAGGTGCCGATGGTGC
1 CCGAGGCTCCCGCACGA-CCAAGCGCCTAGGTGCCGATGGTGC
* * ** *
103678 TCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGT
1 CCGAGGCTCCCGCACGACCAAGCGCCTAGG-TGCCGATGGTGC
* * * * *
103721 CCGAGGCTCCCGC-CCATCATAGCACCGAGGTGCCGATGGTGG
1 CCGAGGCTCCCGCACGACCA-AGCGCCTAGGTGCCGATGGTGC
* * *
103763 CCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGT
1 CCGAGGCTCCCGCACGACCAAGCGCCTAG-GTGCCGATGGTGC
* ** *
103806 CCGAGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGG
1 CCGAGGCTCCCGCACGACCAAGCGCCTA-GGTGCCGATGGTGC
* * *
103849 CCGAGGCTCCCGCACGACCAAGGGCTTAGTTTGCCGATGGTGC
1 CCGAGGCTCCCGCACGACCAAGCGCCTAG-GTGCCGATGGTGC
* * * *
103892 CCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTAC
1 CCGAGGCTCCCGCACGACCAAGCGCCTAGG-TGCCGATGGTGC
* * * * *
103935 GCGAGGTTCTCGCAC-ATCCAAGCACCAAGGTGCCGATGGTGC
1 CCGAGGCTCCCGCACGA-CCAAGCGCCTAGGTGCCGATGGTGC
* * ** *
103977 TCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGT
1 CCGAGGCTCCCGCACGACCAAGCGCCTAGG-TGCCGATGGTGC
* * *
104020 CCGAGGCTCCCGCAC-ATCATAGCACCGAGGTGCCGATGGTGC
1 CCGAGGCTCCCGCACGACCA-AGCGCCTAGGTGCCGATGGTGC
* *
104062 CCGAGGCTACCGCACGACCAAGGGCCTAGGTTGCCGATGGTGC
1 CCGAGGCTCCCGCACGACCAAGCGCCTAGG-TGCCGATGGTGC
* * * *
104105 CCGAGGCTCCCGCAC-ATCGAAGCACCGAGGTGCCGATGGCGC
1 CCGAGGCTCCCGCACGA-CCAAGCGCCTAGGTGCCGATGGTGC
* ** * * * *
104147 CCGAGGCTCCTGCAATACCAAGGGCTTAGTTTGCCGATGGTGT
1 CCGAGGCTCCCGCACGACCAAGCGCCTAG-GTGCCGATGGTGC
* * * *
104190 CCGGGGCTCCTGCAC-ATCCTAGCACC-AGGTTGCCGATGGTGC
1 CCGAGGCTCCCGCACGA-CCAAGCGCCTAGG-TGCCGATGGTGC
*
104232 CCGAGGCTCCCGCACGACCAAGGGCCTA
1 CCGAGGCTCCCGCACGACCAAGCGCCTA
104260 TGCTACCGGA
Statistics
Matches: 805, Mismatches: 154, Indels: 82
0.77 0.15 0.08
Matches are distributed among these distances:
34 28 0.03
35 4 0.00
41 1 0.00
42 265 0.33
43 506 0.63
44 1 0.00
ACGTcount: A:0.18, C:0.34, G:0.32, T:0.16
Consensus pattern (42 bp):
CCGAGGCTCCCGCACGACCAAGCGCCTAGGTGCCGATGGTGC
Found at i:103289 original size:34 final size:34
Alignment explanation
Indices: 103241--103319 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
103231 CATCCGAGCC
*
103241 ACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACG
1 ACCAAGG-GCCGATGGTGCCCGAGGCCCCCGCACG
*
103276 ACCAAGGGCCGATGGTGGCCGAGGCCCCCGCACG
1 ACCAAGGGCCGATGGTGCCCGAGGCCCCCGCACG
103310 ACCAAGGGCC
1 ACCAAGGGCC
103320 TATTTTACCG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
34 35 0.83
35 7 0.17
ACGTcount: A:0.19, C:0.38, G:0.35, T:0.08
Consensus pattern (34 bp):
ACCAAGGGCCGATGGTGCCCGAGGCCCCCGCACG
Found at i:103695 original size:256 final size:254
Alignment explanation
Indices: 103217--104119 Score: 1089
Period size: 256 Copynumber: 3.6 Consensus size: 254
103207 CTCCTAGCCA
* * *
103217 CCGAGGCTCCCGCACATCCGAGCCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA-
1 CCGAGGCTCCCGCACATCCAAG-CACCTAGGTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAG
* * * *
103281 GG-------GCCGATGGTGGCCGAGGCCCCCGCACGACCAAGGGCCTATTTTACCGATGGTGCCC
65 GGCCTATTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGCCC
* *
103339 GAGCCTCTCGCACGACCAAGGGTCTAGGTTGCCGATGGTGCCCGAGGTTC-CGGCACATCCAAGC
130 GAGCCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGTTCTCGG-ACATCCAAGC
*
103403 ACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGT
194 ACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAG-TTGCCGATGGTGT
* *
103465 CCGAGGCTCCCGCACATCCCAGCACCTAGGAGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGG
1 CCGAGGCTCCCGCACATCCAAGCACCTAGGTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGG
*
103530 GCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTTGCCGATGGTGCCC
66 GCCTA-TTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGCCC
* * *
103595 GAGCCTCTCGCACGACCAAGGGCCTAGGTTGTCGATGGTGCGCGAGGTTCTCGGACATCCAAGCA
130 GAGCCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGTTCTCGGACATCCAAGCA
**
103660 CCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGT
195 CCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTA-GTTGCCGATGGTGT
* *
103721 CCGAGGCTCCCGCCCAT-CATAGCACCGAGGTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAG
1 CCGAGGCTCCCGCACATCCA-AGCACCTAGGTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAG
* * *
103785 GGCCTAGTTTGCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGGC
65 GGCCTA-TTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGCC
* * * ** *
103850 CGAGGCTCCCGCACGACCAAGGGCTTAGTTTGCCGATGGTGCCCGAGCCTCTCGCACGA-CCAAG
129 CGAGCCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGTTCTCGGAC-ATCCAAG
** * * * * * ** * *
103914 GGCCTAGGTTGCCGATGGTACGCGAGGTTCTCGCAC-ATCCAAGCACCAAGGTGCCGATGGTG-
193 CACCAAGG-TGCCGATGGTGCTCGAGGCTCCCGCACGA-CCAAGGGCCTAGTTGCCGATGGTGT
** ** * *
103976 CTCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCAC-ATCA
1 C-CGAGGCTCCCGCAC-ATCCAAGCACCTAGG-TGCCGATGGTGGCCGAGGCTCCCGCACGACCA
** * ** * *
104039 TAGCACCGAGGTGCCGATGGTGCCCGAGGCTACCGCACGACCAAGGGCCTAGGTTGCCGATGGTG
63 -AGGGCCTATTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTG
*
104104 CCCGAGGCTCCCGCAC
127 CCCGAGCCTCCCGCAC
104120 ATCGAAGCAC
Statistics
Matches: 571, Mismatches: 64, Indels: 32
0.86 0.10 0.05
Matches are distributed among these distances:
247 38 0.07
248 23 0.04
255 2 0.00
256 440 0.77
257 68 0.12
ACGTcount: A:0.18, C:0.34, G:0.32, T:0.16
Consensus pattern (254 bp):
CCGAGGCTCCCGCACATCCAAGCACCTAGGTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGG
GCCTATTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGCCCG
AGCCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGTTCTCGGACATCCAAGCAC
CAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGTTGCCGATGGTGT
Found at i:103801 original size:299 final size:298
Alignment explanation
Indices: 103453--104188 Score: 1190
Period size: 299 Copynumber: 2.5 Consensus size: 298
103443 GGGCCTAGTT
* * ** ** *
103453 TGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCCAGCACCTAGGAGCCGATGGTGGCCGAGGCTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGTTGCCGATGGTGCCCGAGGCTCC
103517 CGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTT
65 CGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTT
* *
103582 GCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGTCGATGGTGCGCGAGGTTCTC
130 GCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGTTCTC
*
103647 GGACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGC
195 GCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGC
*
103712 CGACAGTGTCCGAGGCTCCCGCCCATCATAGCACCGAGG
260 CGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAGG
* *
103751 TGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG-TTGCCGATGGTGCCCGAGGCTCC
*
103816 CGCACGACCAAGGGCCTATTTTGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCTTAGTTT
65 CGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTT
103881 GCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGTTCTC
130 GCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGTTCTC
103946 GCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGC
195 GCACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGC
104011 CGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAGG
260 CGACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAGG
*
104050 TGCCGATGGTGCCCGAGGCTACCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA-GTTGCCGATGGTGCCCGAGGCTCC
* ** * ** * * **
104115 CGCAC-ATCGAAGCACCGA-GGTGCCGATGGCGCCCGAGGCTCCTGCAATACCAAGGGCTTAGTT
65 CGCACGA-CCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTT
104178 TGCCGATGGTG
129 TGCCGATGGTG
104189 TCCGGGGCTC
Statistics
Matches: 408, Mismatches: 26, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
298 85 0.21
299 322 0.79
300 1 0.00
ACGTcount: A:0.18, C:0.33, G:0.32, T:0.17
Consensus pattern (298 bp):
TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTGCCGATGGTGCCCGAGGCTCCC
GCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTTG
CCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGTTCTCG
CACATCCAAGCACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCC
GACAGTGTCCGAGGCTCCCGCACATCATAGCACCGAGG
Found at i:104252 original size:85 final size:86
Alignment explanation
Indices: 103283--104259 Score: 933
Period size: 85 Copynumber: 11.5 Consensus size: 86
103273 ACGACCAAGG
* * ** * * *
103283 GCCGATGGTGGCCGAGGCCCCCGCACGACCAAGGGCCTATTTTACCGATGGTGCCCGAGCCTCTC
1 GCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCC
***
103348 GCACGACCAAGGGTCTAGGTT
66 GCACGACCAAGCACCTAGGTT
* * ** * * *
103369 GCCGATGGTGCCCGAGGTTCCGGCAC-ATCCAAGCACCAAGG-TGTCGATGGTGCTCGAGGCTCC
1 GCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
** *
103432 CGCACGACCAAGGGCCTAGTTT
65 CGCACGACCAAGCACCTAGGTT
* * ** * *
103454 GCCGATGGTGTCCGAGGCTCCCGCAC-ATCCCAGCACCTAGG-AGCCGATGGTGGCCGAGGCTCC
1 GCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
** **
103517 CGCACGACCAAGGGCCTATTTT
65 CGCACGACCAAGCACCTAGGTT
* * * *
103539 GCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTTGCCGATGGTGCCCGAGCCTCTC
1 GCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCC
**
103604 GCACGACCAAGGGCCTAGGTT
66 GCACGACCAAGCACCTAGGTT
* * * * * ** * *
103625 GTCGATGGTGCGCGAGGTTCTCGGAC-ATCCAAGCACCAAGG-TGCCGATGGTGCTCGAGGCTCC
1 GCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
**
103688 CGCACGACCAAGGGCCTAGGTT
65 CGCACGACCAAGCACCTAGGTT
** * * * ** * *
103710 GCCGACAGTGTCCGAGGCTCCCGC-CCATCATAGCACCGAGG-TGCCGATGGTGGCCGAGGCTCC
1 GCCGATGGTGCCCGAGGCTCCCGCACGACCA-AGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCC
** *
103773 CGCACGACCAAGGGCCTAGTTT
65 CGCACGACCAAGCACCTAGGTT
* ** *
103795 GCCGATGGTGTCCGAGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGGCCGAGGCTCCC
1 GCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCC
** * *
103860 GCACGACCAAGGGCTTAGTTT
66 GCACGACCAAGCACCTAGGTT
* * * * * *
103881 GCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGTTCTC
1 GCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCC
*
103946 GCAC-ATCCAAGCACCAAGG-T
66 GCACGA-CCAAGCACCTAGGTT
* ** *
103966 GCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCC
1 GCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCC
* *
104031 GCAC-ATCATAGCACCGAGG-T
66 GCACGACCA-AGCACCTAGGTT
*
104051 GCCGATGGTGCCCGAGGCTACCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCC
1 GCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCC
* *
104116 GCAC-ATCGAAGCACCGAGG-T
66 GCACGA-CCAAGCACCTAGGTT
* * ** * * * * *
104136 GCCGATGGCGCCCGAGGCTCCTGCAATACCAAGGGCTTAGTTTGCCGATGGTGTCCGGGGCTCCT
1 GCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCC
*
104201 GCAC-ATCCTAGCACC-AGGTT
66 GCACGA-CCAAGCACCTAGGTT
104221 GCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
1 GCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA
104260 TGCTACCGGA
Statistics
Matches: 754, Mismatches: 125, Indels: 25
0.83 0.14 0.03
Matches are distributed among these distances:
84 8 0.01
85 533 0.71
86 213 0.28
ACGTcount: A:0.18, C:0.33, G:0.32, T:0.17
Consensus pattern (86 bp):
GCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCC
GCACGACCAAGCACCTAGGTT
Found at i:104340 original size:24 final size:24
Alignment explanation
Indices: 104264--104342 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
104254 GGCCTATGCT
* *
104264 ACCGGAACGGTTCACCGGAGCACC
1 ACCGGGACGGTTCGCCGGAGCACC
104288 GA-CGGGACGGTTCGCCGGAGCACC
1 -ACCGGGACGGTTCGCCGGAGCACC
* *
104312 GCCGGGACGGATCGCCGGAGCACC
1 ACCGGGACGGTTCGCCGGAGCACC
104336 ACCGGGA
1 ACCGGGA
104343 ACCTAACCGG
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
24 47 0.98
25 1 0.02
ACGTcount: A:0.20, C:0.35, G:0.38, T:0.06
Consensus pattern (24 bp):
ACCGGGACGGTTCGCCGGAGCACC
Found at i:104605 original size:42 final size:42
Alignment explanation
Indices: 104550--104799 Score: 269
Period size: 42 Copynumber: 5.9 Consensus size: 42
104540 ACTTTAGCTT
104550 TGGTGCT-GAAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
1 TGGTGCTCG-AGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
*
104592 TGGTGCTCGAGGCTCCCGCACAT-CATAGCACCGAGGTGCCGA
1 TGGTGCTCGAGGCTCCCGCACATCCA-AGCACCAAGGTGCCGA
* ** * * *
104634 TGGT-CTCCGAGGCTCCC-CACAACCAAGGGCCTAGTTTGCCGG
1 TGGTGCT-CGAGGCTCCCGCACATCCAAGCACCAAG-GTGCCGA
* *
104676 TGGTG-TCCGATGCTCCCGCACATCCATGCACCAAGGTGCCGA
1 TGGTGCT-CGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
* *
104718 TGGTGCTCGAGGCTCCCGCACATCCAAGCATCAAGGTTACCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGG-TGCCGA
* *
104761 TGGTGGCT-GAGGCTCCCACACATCCGAGCCACCAAGGTG
1 TGGT-GCTCGAGGCTCCCGCACATCCAAG-CACCAAGGTG
104800 ATGGAGGCTC
Statistics
Matches: 174, Mismatches: 23, Indels: 21
0.80 0.11 0.10
Matches are distributed among these distances:
41 14 0.08
42 108 0.62
43 42 0.24
44 10 0.06
ACGTcount: A:0.20, C:0.34, G:0.28, T:0.17
Consensus pattern (42 bp):
TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGA
Done.