Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008228.1 Hibiscus syriacus cultivar Beakdansim tig00110864_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3739947
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 20
Found at i:2746698 original size:26 final size:28
Alignment explanation
Indices: 2746669--2746722 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
2746659 TATATTAAGT
2746669 TAATGTAA-TAATTTTTT-TAATTATTA
1 TAATGTAATTAATTTTTTATAATTATTA
* *
2746695 TAATTTAATTTATTTTTTAATAATTATT
1 TAATGTAATTAATTTTTT-ATAATTATT
2746723 TATTCATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 7 0.30
27 8 0.35
29 8 0.35
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (28 bp):
TAATGTAATTAATTTTTTATAATTATTA
Found at i:2746738 original size:27 final size:29
Alignment explanation
Indices: 2746677--2746747 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 29
2746667 GTTAATGTAA
* *
2746677 TAATTTTT-TTAATTATTATAATTTAATT
1 TAATTTTTAATAATTATTATAATTCAATT
* *
2746705 TATTTTTTAATAATTATT-T-ATTCATTT
1 TAATTTTTAATAATTATTATAATTCAATT
* *
2746732 TAATTTTAAAAAATTA
1 TAATTTTTAATAATTA
2746748 GATACTAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
27 19 0.54
28 8 0.23
29 8 0.23
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (29 bp):
TAATTTTTAATAATTATTATAATTCAATT
Found at i:2747486 original size:153 final size:151
Alignment explanation
Indices: 2747140--2747663 Score: 562
Period size: 153 Copynumber: 3.4 Consensus size: 151
2747130 TTAGTTCATT
* * * * *
2747140 TTTTCATTATTCCTTCGATTCATCCTTTATTTTGAGT-C-TATTTTAACCATATTTGAATCACAT
1 TTTTCATTATTTCTTCAATTCATCCTTTATTTTAAGTCCGT-TTTTAA-CAAATTTGAACCACAT
* *
2747203 GCTCCTAAACCATTATAGAATACATATCTACTTTCAATTTCTCTTTTTTGATAATAAATTTTCTA
64 GCTCCT-AACCATTGTAGAATACATATGTACTTTCAA-TTCTC-TTTTTGATAAT-AA-TTT-T-
*
2747268 TTTTTCAATTTAGTCCATCAATTTTTTTATAA
122 TTTTTCAATTTAGTCC-TTAA-TTTTTTATAA
* * * *
2747300 -TTTCCTTATTTCTTCAATTCATCATTTACTTTAAGTCCGTTTTTAACAAATTTGAACCACAAGC
1 TTTTCATTATTTCTTCAATTCATCCTTTATTTTAAGTCCGTTTTTAACAAATTTGAACCACATGC
* * * *
2747364 TCCTAACCCATTGTATAATATATATGAACTCT-AGATTCATCTTTTTGATAATAATTTTTTTTTC
66 TCCTAA-CCATTGTAGAATACATATGTACTTTCA-ATTC-TCTTTTTGATAATAATTTTTTTTTC
*
2747428 AATTTAGTCACTTAATTTTTTGTAA
128 AATTTAGTC-CTTAATTTTTTATAA
* ** * *
2747453 TTTTC-TTATTTCTTCAATTTATCCTTTATTTTAAGTCTATTTTTACCAAATTTGAACCGCATGC
1 TTTTCATTATTTCTTCAATTCATCCTTTATTTTAAGTCCGTTTTTAACAAATTTGAACCACATGC
* * *
2747517 TCTTTAACCATCGTAGAATACATATGTACTTTCAATTCTTTTTTTGATAAT-A-TTTTTTTTCAA
66 TC-CTAACCATTGTAGAATACATATGTACTTTCAATTCTCTTTTTGATAATAATTTTTTTTTCAA
2747580 TTTAGTCCCTTAATTTTTTATAA
130 TTTAGT-CCTTAATTTTTTATAA
* * * * *
2747603 -TTTCTTTATTTCTTCAATTCATTC-TTATTTTAAGTCTGTTTTTACCAAATTTGAACAACAT
1 TTTTCATTATTTCTTCAATTCATCCTTTATTTTAAGTCCGTTTTTAACAAATTTGAACCACAT
2747664 ACTCGTATAT
Statistics
Matches: 315, Mismatches: 38, Indels: 33
0.82 0.10 0.09
Matches are distributed among these distances:
149 38 0.12
150 48 0.15
151 2 0.01
152 12 0.04
153 86 0.27
154 26 0.08
155 2 0.01
156 3 0.01
157 2 0.01
158 17 0.05
159 71 0.23
160 7 0.02
161 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.50
Consensus pattern (151 bp):
TTTTCATTATTTCTTCAATTCATCCTTTATTTTAAGTCCGTTTTTAACAAATTTGAACCACATGC
TCCTAACCATTGTAGAATACATATGTACTTTCAATTCTCTTTTTGATAATAATTTTTTTTTCAAT
TTAGTCCTTAATTTTTTATAA
Found at i:2753423 original size:28 final size:28
Alignment explanation
Indices: 2753348--2753442 Score: 102
Period size: 28 Copynumber: 3.3 Consensus size: 28
2753338 AATATATTTA
* *
2753348 CTAATGAAAATTTTCAAAAATTTTGTGGG
1 CTAATGGAAAGTTTCAAAAATTTTG-GGG
* *
2753377 ACTAGATGAAAAGTTTCAAAAACTTTGGGG
1 -CTA-ATGGAAAGTTTCAAAAATTTTGGGG
* *
2753407 CTAATGGGAAGTTTCAAAATTTTTGGGG
1 CTAATGGAAAGTTTCAAAAATTTTGGGG
2753435 C-AATGGAA
1 CTAATGGAA
2753443 TTTCTCATTT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.11
28 22 0.39
29 3 0.05
30 6 0.11
31 20 0.35
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.32
Consensus pattern (28 bp):
CTAATGGAAAGTTTCAAAAATTTTGGGG
Found at i:2754310 original size:24 final size:24
Alignment explanation
Indices: 2754283--2754328 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2754273 AAATGAGAGT
*
2754283 GAGGGTGAGGGTGAAGATGAAGGA
1 GAGGATGAGGGTGAAGATGAAGGA
* *
2754307 GAGGATGATGGTGATGATGAAG
1 GAGGATGAGGGTGAAGATGAAG
2754329 ACGGTGAGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.50, T:0.17
Consensus pattern (24 bp):
GAGGATGAGGGTGAAGATGAAGGA
Found at i:2761235 original size:231 final size:231
Alignment explanation
Indices: 2760832--2761297 Score: 932
Period size: 231 Copynumber: 2.0 Consensus size: 231
2760822 AATATCTTAC
2760832 TTGTTCATCTTTTCTGCAAGATGTTGACCTGGTTGTAGCCAATGCAAAGGTGTGGGTTTGTCAAA
1 TTGTTCATCTTTTCTGCAAGATGTTGACCTGGTTGTAGCCAATGCAAAGGTGTGGGTTTGTCAAA
2760897 TTCTAGATGCAGTCTATTCCGAGTTTCTTTTTTATATTAAACTTAGTTGAACAAGTACCTTGCTA
66 TTCTAGATGCAGTCTATTCCGAGTTTCTTTTTTATATTAAACTTAGTTGAACAAGTACCTTGCTA
2760962 CTCATGGAGGGTAAACATTTGCACATTTACTAATGCATGTAGGAAAGGATAGAGGGCATTCACTT
131 CTCATGGAGGGTAAACATTTGCACATTTACTAATGCATGTAGGAAAGGATAGAGGGCATTCACTT
2761027 TTTTGAGATGCTAGTAGATAACTAGGGCTCAAAATT
196 TTTTGAGATGCTAGTAGATAACTAGGGCTCAAAATT
2761063 TTGTTCATCTTTTCTGCAAGATGTTGACCTGGTTGTAGCCAATGCAAAGGTGTGGGTTTGTCAAA
1 TTGTTCATCTTTTCTGCAAGATGTTGACCTGGTTGTAGCCAATGCAAAGGTGTGGGTTTGTCAAA
2761128 TTCTAGATGCAGTCTATTCCGAGTTTCTTTTTTATATTAAACTTAGTTGAACAAGTACCTTGCTA
66 TTCTAGATGCAGTCTATTCCGAGTTTCTTTTTTATATTAAACTTAGTTGAACAAGTACCTTGCTA
2761193 CTCATGGAGGGTAAACATTTGCACATTTACTAATGCATGTAGGAAAGGATAGAGGGCATTCACTT
131 CTCATGGAGGGTAAACATTTGCACATTTACTAATGCATGTAGGAAAGGATAGAGGGCATTCACTT
2761258 TTTTGAGATGCTAGTAGATAACTAGGGCTCAAAATT
196 TTTTGAGATGCTAGTAGATAACTAGGGCTCAAAATT
2761294 TTGT
1 TTGT
2761298 AATTTTGGAG
Statistics
Matches: 235, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
231 235 1.00
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (231 bp):
TTGTTCATCTTTTCTGCAAGATGTTGACCTGGTTGTAGCCAATGCAAAGGTGTGGGTTTGTCAAA
TTCTAGATGCAGTCTATTCCGAGTTTCTTTTTTATATTAAACTTAGTTGAACAAGTACCTTGCTA
CTCATGGAGGGTAAACATTTGCACATTTACTAATGCATGTAGGAAAGGATAGAGGGCATTCACTT
TTTTGAGATGCTAGTAGATAACTAGGGCTCAAAATT
Found at i:2765290 original size:29 final size:29
Alignment explanation
Indices: 2765221--2765430 Score: 214
Period size: 28 Copynumber: 7.3 Consensus size: 29
2765211 AATCCACAAA
*
2765221 TTAACATT-AAAA-ATA-TTTATTTTTATT
1 TTAAC-TTAAAAATATATTTTATTTTTATC
* * ** *
2765248 TTAAATTATTAAATCCATTTTATTTTTGTC
1 TTAACTTA-AAAATATATTTTATTTTTATC
*
2765278 TTAACTTAAAAATATATTTTA-TTTTATA
1 TTAACTTAAAAATATATTTTATTTTTATC
*
2765306 TTAACTTAAAAATATATTTTA-TTTTATA
1 TTAACTTAAAAATATATTTTATTTTTATC
* * *
2765334 TTAACTTAAAAATATATTATAATCTTATC
1 TTAACTTAAAAATATATTTTATTTTTATC
* *
2765363 ATAACTTAAAAATATATTTAATTTTTATC
1 TTAACTTAAAAATATATTTTATTTTTATC
* *
2765392 TTAACTTTTAAAAATATATCTTATTTTTATT
1 TTAAC--TTAAAAATATATTTTATTTTTATC
2765423 TTAACTTA
1 TTAACTTA
2765431 TTCAATCATT
Statistics
Matches: 152, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.01
27 4 0.03
28 56 0.37
29 47 0.31
30 17 0.11
31 26 0.17
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (29 bp):
TTAACTTAAAAATATATTTTATTTTTATC
Found at i:2765290 original size:56 final size:56
Alignment explanation
Indices: 2765220--2765422 Score: 173
Period size: 57 Copynumber: 3.6 Consensus size: 56
2765210 AAATCCACAA
* * * *
2765220 ATTAACATTAAAAATAT-TTAT-TTTTATTTTAAATTATTAAATCCATTTTATTTTTGT
1 ATTAAC-TTAAAAATATATTATATTTTATATTAAATTA-AAAATACATTTTA-TTTTAT
* * * *
2765277 CTTAACTTAAAAATATATTTTATTTTATATTAACTTAAAAATATATTTTATTTTAT
1 ATTAACTTAAAAATATATTATATTTTATATTAAATTAAAAATACATTTTATTTTAT
* * * *
2765333 ATTAACTTAAAAATATATTATAATCTTATCA-TAACTTAAAAATATATTTAATTTTTAT
1 ATTAACTTAAAAATATATTAT-ATTTTAT-ATTAAATTAAAAATACATTTTA-TTTTAT
*
2765391 CTTAACTTTTAAAAATATATCT-TATTTT-TATT
1 ATTAAC--TTAAAAATATAT-TATATTTTATATT
2765423 TTAACTTATT
Statistics
Matches: 123, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
56 34 0.28
57 44 0.36
58 27 0.22
59 4 0.03
60 13 0.11
61 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.53
Consensus pattern (56 bp):
ATTAACTTAAAAATATATTATATTTTATATTAAATTAAAAATACATTTTATTTTAT
Found at i:2765566 original size:32 final size:31
Alignment explanation
Indices: 2765495--2765615 Score: 101
Period size: 30 Copynumber: 4.0 Consensus size: 31
2765485 AATTATTAAA
* **
2765495 TATAATTTATCCTTA-TTTTAACATAAAATG
1 TATAATTTATTCTTATTTTTAATTTAAAATG
*
2765525 TATATTTTATTCTTATTTTTAATTTATAAATG
1 TATAATTTATTCTTATTTTTAATTTA-AAATG
*
2765557 TATACTTTATT-TTATTTTTAAATTTACAAA--
1 TATAATTTATTCTTATTTTT-AATTTA-AAATG
* *
2765587 TATATTTTATT-TTA-TCTTAATTTTAAAAT
1 TATAATTTATTCTTATTTTTAA-TTTAAAAT
2765616 ATTATAAGAA
Statistics
Matches: 78, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
28 5 0.06
29 7 0.09
30 26 0.33
31 16 0.21
32 24 0.31
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.57
Consensus pattern (31 bp):
TATAATTTATTCTTATTTTTAATTTAAAATG
Found at i:2765598 original size:30 final size:29
Alignment explanation
Indices: 2765525--2765617 Score: 100
Period size: 32 Copynumber: 3.1 Consensus size: 29
2765515 ACATAAAATG
2765525 TATATTTTATTCTTATTTTT-AATTTATAAA
1 TATATTTTATT-TTATTTTTAAATTTA-AAA
*
2765555 TGTATACTTTATTTTATTTTTAAATTTACAAA
1 --TATATTTTATTTTATTTTTAAATTTA-AAA
* *
2765587 TATATTTTATTTTA-TCTTAATTTTAAAA
1 TATATTTTATTTTATTTTTAAATTTAAAA
2765615 TAT
1 TAT
2765618 TATAAGAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
28 6 0.11
29 9 0.16
30 13 0.24
31 8 0.15
32 19 0.35
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (29 bp):
TATATTTTATTTTATTTTTAAATTTAAAA
Found at i:2765701 original size:28 final size:30
Alignment explanation
Indices: 2765662--2765727 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
2765652 AAGAATGAAT
*
2765662 TTTTTAAGTT-AATAAAAATTAAA-ATATA
1 TTTTTAAGTTAAATAAAAATAAAATATATA
*
2765690 TTTTTAAGTTAAAATAAGAATAAAATATATA
1 TTTTTAAGTT-AAATAAAAATAAAATATATA
2765721 TTTTTAA
1 TTTTTAA
2765728 TATTAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 10 0.30
30 11 0.33
31 12 0.36
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.44
Consensus pattern (30 bp):
TTTTTAAGTTAAATAAAAATAAAATATATA
Found at i:2769103 original size:16 final size:17
Alignment explanation
Indices: 2769065--2769106 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
2769055 GAAATGGGAA
*
2769065 AAATGTAATTTTTTTCAT
1 AAATGTAATTATTTT-AT
2769083 AAATGTAATTATTTT-T
1 AAATGTAATTATTTTAT
2769099 AAATGTAA
1 AAATGTAA
2769107 AGTAAGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.39
18 14 0.61
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.50
Consensus pattern (17 bp):
AAATGTAATTATTTTAT
Found at i:2769781 original size:2 final size:2
Alignment explanation
Indices: 2769774--2769798 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2769764 TCCTTAATCC
2769774 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
2769799 ATCGTCAGAC
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:2773115 original size:32 final size:31
Alignment explanation
Indices: 2773073--2773134 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
2773063 TGTATTTTAG
2773073 TTTTAATATTTTA-ATTAAGTTTTAGGATATTA
1 TTTTAATATTTTATATT-AGTTTTAGG-TATTA
* *
2773105 TTTTTATATTTTATATTTGTTTTAGGTATT
1 TTTTAATATTTTATATTAGTTTTAGGTATT
2773135 TTAGTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 4 0.15
32 20 0.74
33 3 0.11
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (31 bp):
TTTTAATATTTTATATTAGTTTTAGGTATTA
Found at i:2775498 original size:499 final size:499
Alignment explanation
Indices: 2774057--2775546 Score: 2777
Period size: 497 Copynumber: 3.0 Consensus size: 499
2774047 TCACCAAGCT
*
2774057 AAGTCACTGCCGACAATCATGCCACCATTGAAGCTGATACTGCACGAATTATCAAGAAAAAAAAT
1 AAGTCACTGCCGACAATCATGCCACCATTGAAGTTGATACTGCACGAATTATCAAG-AAAAAAAT
2774122 CAATCAGCCATTGAAAATATCATTATTTTTACCTAAACACATCATCATCCTACCAAACACAAGGA
65 CAATCAGCCATTGAAAATATCATTATTTTTACCTAAACACATCATCATCCTACCAAACACAAGGA
2774187 AATCAAACAAAAGGACACGGGACTTTCGGTGAAATGAAAGAAAAATGAGAGGATGAAAAAAGTAG
130 AATCAAACAAAAGGACACGGGACTTTCGGTGAAATGAAAGAAAAATGAGAGGATGAAAAAAGTAG
*
2774252 CAAAAACCAGGAAAAGGAGTCCTGATCTTGATCTTTAAAAAGCAGTAATACCATTCGAGGAAGGG
195 CAAAAACCAGGAAAAGGGGTCCTGATCTTGATCTTTAAAAAGCAGTAATACCATTCGAGGAAGGG
*
2774317 GAACGGAAAAAAAGGCACTCACTACAGAGATCATCAACACAGGGGGTTCATCAACAACCATTCGA
260 GAACGAAAAAAAAGGCACTCACTACAGAGATCATCAACACAGGGGGTTCATCAACAACCATTCGA
* *
2774382 ACAGGAAATACGGTTCAAGAAGAGAGCAAACCAAAAAAATCAAGGGGAGGAAATCGATCGAAAAA
325 ATAGGAAATACGGTTCAAGAAGAGAGCAAACCGAAAAAATCAAGGGGAGGAAATCGATCGAAAAA
* * *
2774447 AGAGAAATCATTTGTAACTAGGGTATTCTGAAGCCCACAAAAACAGTGTGGAGGGATCATTCCCT
390 AGAGAAATCATTTGTAACCAGGGTATTCTGAAGCCCACAAACACAGTGTGTAGGGATCATTCCCT
2774512 ATATTTTTCGAAAGTAATAGCAAGTGATGAAGGTGATTTGTAGCC
455 ATATTTTTCGAAAGTAATAGCAAGTGATGAAGGTGATTTGTAGCC
*
2774557 AAGTCACTGCCGACAATCATGCCACCATTGAATTTGATACTGCACGAATTATCAAGAAAAAAATC
1 AAGTCACTGCCGACAATCATGCCACCATTGAAGTTGATACTGCACGAATTATCAAGAAAAAAATC
2774622 AATCAGCCATTGAAAATATCATTATTTTTACCTAAACACATCATCATCCTACCAAACACAAGGAA
66 AATCAGCCATTGAAAATATCATTATTTTTACCTAAACACATCATCATCCTACCAAACACAAGGAA
*
2774687 ATCAAACAAAAGGACACGAGACTTTCGGTGAAATGAAAGAAAAATGAGAGGATGAAAAAA--AGC
131 ATCAAACAAAAGGACACGGGACTTTCGGTGAAATGAAAGAAAAATGAGAGGATGAAAAAAGTAGC
*
2774750 AAAAACCAAGAAAAGGGGTCCTGATCTTGATCTTTAAAAAGCAGTAATACCATTCGAGGAAGGGG
196 AAAAACCAGGAAAAGGGGTCCTGATCTTGATCTTTAAAAAGCAGTAATACCATTCGAGGAAGGGG
* * *
2774815 AAGGAAAAAAAAGGCACTTACTACAGAGATCATCAACACAGGGGGTTCATCAACAACCATTAGAA
261 AACGAAAAAAAAGGCACTCACTACAGAGATCATCAACACAGGGGGTTCATCAACAACCATTCGAA
*
2774880 TAGGAAATACGGTTCAAGAAGAGAGCAAACCGAAAAAATCAAGGAGAGGAAATCGATCGAAAAAA
326 TAGGAAATACGGTTCAAGAAGAGAGCAAACCGAAAAAATCAAGGGGAGGAAATCGATCGAAAAAA
*
2774945 GAGAAATCATTTGTAACCAGGGTATTCTGAAGCCCACAAACACGGTGTGTAGGGATCATTCCCTA
391 GAGAAATCATTTGTAACCAGGGTATTCTGAAGCCCACAAACACAGTGTGTAGGGATCATTCCCTA
2775010 TATTTTTCGAAAGTAATAGCAAGTGATGAAGGTGATTTGTAGCC
456 TATTTTTCGAAAGTAATAGCAAGTGATGAAGGTGATTTGTAGCC
*
2775054 AAGTCACTGCCGACAATCATGCCACCATTGAAGTTGATACTGCATGAATTATCAAGAAAAAAATC
1 AAGTCACTGCCGACAATCATGCCACCATTGAAGTTGATACTGCACGAATTATCAAGAAAAAAATC
*
2775119 AATCAGCCATTGAAAATATCATTATTTTTACCTAAACACATCAGCATCCTACCAAACACAAGGAA
66 AATCAGCCATTGAAAATATCATTATTTTTACCTAAACACATCATCATCCTACCAAACACAAGGAA
2775184 ATCAAACAAAAGGACACGGGACTTTCGGTGAAATGAAAGAAAAATGAGAGGATGAAAAAAGTAGC
131 ATCAAACAAAAGGACACGGGACTTTCGGTGAAATGAAAGAAAAATGAGAGGATGAAAAAAGTAGC
2775249 AAAAACCAGGAAAAGGGGTCCTGATCTTGATCTTTAAAAAGCAGTAATACCATTCGAGGAAGGGG
196 AAAAACCAGGAAAAGGGGTCCTGATCTTGATCTTTAAAAAGCAGTAATACCATTCGAGGAAGGGG
*
2775314 AACGAAAAAAAAGGCACTCACTACAGAGATCATCAACACAGGGGGTTCATAAACAACCATTCGAA
261 AACGAAAAAAAAGGCACTCACTACAGAGATCATCAACACAGGGGGTTCATCAACAACCATTCGAA
*
2775379 TAGGAAATACGATTCAAGAAGAGAGCAAACCGAAAAAATCAAGGGGAGGAAATCGATCGAAAAAA
326 TAGGAAATACGGTTCAAGAAGAGAGCAAACCGAAAAAATCAAGGGGAGGAAATCGATCGAAAAAA
2775444 GAGAAATCATTTGTAACCAGGGTATTCTGAAGCCCACAAACACAGTGTGTAGGGATCATTCCCTA
391 GAGAAATCATTTGTAACCAGGGTATTCTGAAGCCCACAAACACAGTGTGTAGGGATCATTCCCTA
2775509 TATTTTTCGAAAGTAATAGCAAGTGATGAAGGTGATTT
456 TATTTTTCGAAAGTAATAGCAAGTGATGAAGGTGATTT
2775547 TCATACTCAT
Statistics
Matches: 960, Mismatches: 28, Indels: 5
0.97 0.03 0.01
Matches are distributed among these distances:
497 480 0.50
499 426 0.44
500 54 0.06
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (499 bp):
AAGTCACTGCCGACAATCATGCCACCATTGAAGTTGATACTGCACGAATTATCAAGAAAAAAATC
AATCAGCCATTGAAAATATCATTATTTTTACCTAAACACATCATCATCCTACCAAACACAAGGAA
ATCAAACAAAAGGACACGGGACTTTCGGTGAAATGAAAGAAAAATGAGAGGATGAAAAAAGTAGC
AAAAACCAGGAAAAGGGGTCCTGATCTTGATCTTTAAAAAGCAGTAATACCATTCGAGGAAGGGG
AACGAAAAAAAAGGCACTCACTACAGAGATCATCAACACAGGGGGTTCATCAACAACCATTCGAA
TAGGAAATACGGTTCAAGAAGAGAGCAAACCGAAAAAATCAAGGGGAGGAAATCGATCGAAAAAA
GAGAAATCATTTGTAACCAGGGTATTCTGAAGCCCACAAACACAGTGTGTAGGGATCATTCCCTA
TATTTTTCGAAAGTAATAGCAAGTGATGAAGGTGATTTGTAGCC
Found at i:2777279 original size:21 final size:21
Alignment explanation
Indices: 2777255--2777303 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
2777245 CTTTTGAATG
2777255 TTGTCGGATTCATGTGTTGTT
1 TTGTCGGATTCATGTGTTGTT
2777276 TTGTCGGATTCATGTGTTGTT
1 TTGTCGGATTCATGTGTTGTT
2777297 TTGTCGG
1 TTGTCGG
2777304 GGATCATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.08, C:0.10, G:0.31, T:0.51
Consensus pattern (21 bp):
TTGTCGGATTCATGTGTTGTT
Found at i:2785609 original size:36 final size:36
Alignment explanation
Indices: 2785557--2785658 Score: 159
Period size: 36 Copynumber: 2.8 Consensus size: 36
2785547 CGGGCCATCT
* *
2785557 TAAGCCTTCACCGAAGAGTAGTGAAGCAAACAATCC
1 TAAGACTTCACAGAAGAGTAGTGAAGCAAACAATCC
* *
2785593 TAAGACTTCACTGAAGAGTAGTGAAGCAATCAATCC
1 TAAGACTTCACAGAAGAGTAGTGAAGCAAACAATCC
*
2785629 TAAGACTTCACAGAAGAGTAGTGAAACAAA
1 TAAGACTTCACAGAAGAGTAGTGAAGCAAA
2785659 TCCATTAGTA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.19
Consensus pattern (36 bp):
TAAGACTTCACAGAAGAGTAGTGAAGCAAACAATCC
Found at i:2785748 original size:36 final size:36
Alignment explanation
Indices: 2785702--2785808 Score: 121
Period size: 36 Copynumber: 3.0 Consensus size: 36
2785692 GTCCTCCGGG
* *
2785702 CCAT-TTAAGCCTTCACC-AAGGACTAGTGAAGTAAA
1 CCATCTTAAGCCTTCACCGAA-GACGAGTGAAGCAAA
* *
2785737 CCATCTTAAGCCTTCACCGAAGAGGAGTGAAGCAAT
1 CCATCTTAAGCCTTCACCGAAGACGAGTGAAGCAAA
**
2785773 CCATCTTAAGCCTTCAGGGAAGA-GTAGTGAAGCAAA
1 CCATCTTAAGCCTTCACCGAAGACG-AGTGAAGCAAA
2785809 TTCATCAGTA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
35 5 0.08
36 55 0.89
37 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (36 bp):
CCATCTTAAGCCTTCACCGAAGACGAGTGAAGCAAA
Found at i:2785809 original size:150 final size:152
Alignment explanation
Indices: 2785466--2786078 Score: 874
Period size: 153 Copynumber: 4.0 Consensus size: 152
2785456 ATGAGATTGG
* *
2785466 GCAAGTCAATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAAATCCATTAGTAAGCCTTCCGAGCA
1 GCAAATCAATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTCCGAGCA
*
2785531 TGATGATTAAGTCCTCCGGGCCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAACAATCCTAA
66 TGATGATTAAGTCCTCCGGGCCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAACAATCTTAA
* **
2785596 GACTTCACTGAAGAGTAGTGAA
131 GCCTTCACCAAAGAGTAGTGAA
* * * * *
2785618 GC-AATCAATCCTAAGACTTCACAGAAGAGTAGTGAAACAAATCCATTAGTAAGCCTCCCGAGCA
1 GCAAATCAATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTCCGAGCA
* * *
2785682 TGATGATTAAGTCCTCCGGGCCAT-TTAAGCCTTCACC-AAGGACTAGTGAAGTAAACCATCTTA
66 TGATGATTAAGTCCTCCGGGCCATCTTAAGCCTTCACCGAA-GAGTAGTGAAGCAAACAATCTTA
* *
2785745 AGCCTTCACCGAAGAGGAGTGAA
130 AGCCTTCACCAAAGAGTAGTGAA
* ** * *
2785768 GC-AATCCATCTTAAGCCTTCAGGGAAGAGTAGTGAAGCAAATTCATCAGTAAGCCTTCCGAGTA
1 GCAAATCAATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTCCGAGCA
* * * *
2785832 TGATGATTAAGTCCTTCGGGCCATCTTAAGCTTTCACCAAAGAGTAGTGAAGCAAATCAATCTAA
66 TGATGATTAAGTCCTCCGGGCCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAA-CAATCTTA
2785897 AGCCTTCACCAAAGAGTAGTGAA
130 AGCCTTCACCAAAGAGTAGTGAA
* * * * * *
2785920 GCAAATTAATCATAAGCCTTCACGGAAGACTAGTGAAGCAAATTCATCAGTAAGCATTCCGAGCA
1 GCAAATCAATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTCCGAGCA
* *
2785985 TGATGATTAAGTCCTCCAGGCCATCTTAAACCTTCACCGAAGAGTAGTGAAGCAAACCAATCTTA
66 TGATGATTAAGTCCTCCGGGCCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAA-CAATCTTA
2786050 AGCCTTCACCAAAGAGTAGTGAA
130 AGCCTTCACCAAAGAGTAGTGAA
2786073 GCAAAT
1 GCAAAT
2786079 TCATCAGTAA
Statistics
Matches: 412, Mismatches: 44, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
149 2 0.00
150 129 0.31
151 106 0.26
152 33 0.08
153 142 0.34
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (152 bp):
GCAAATCAATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTCCGAGCA
TGATGATTAAGTCCTCCGGGCCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAACAATCTTAA
GCCTTCACCAAAGAGTAGTGAA
Found at i:2785963 original size:37 final size:37
Alignment explanation
Indices: 2785858--2786094 Score: 163
Period size: 37 Copynumber: 6.2 Consensus size: 37
2785848 CGGGCCATCT
* *
2785858 TAAGCTTTCACCAAAGAGTAGTGAAGCAAATCAATC-
1 TAAGCCTTCACCAAAGAGTAGTGAAGCAAATTAATCA
2785894 TAAAGCCTTCACCAAAGAGTAGTGAAGCAAATTAATCA
1 T-AAGCCTTCACCAAAGAGTAGTGAAGCAAATTAATCA
** * *
2785932 TAAGCCTTCACGGAAGACTAGTGAAGCAAATTCATCA
1 TAAGCCTTCACCAAAGAGTAGTGAAGCAAATTAATCA
* * * * *** * **** *
2785969 GTAAGCATTCCGAGCATGATGATTAAGT-CCTCCAGGCCATCT
1 -TAAGCCTT-C-ACCA--AAGAGT-AGTGAAGCAAATTAATCA
* * ** *
2786011 TAAACCTTCACCGAAGAGTAGTGAAGCAAACCAATCT
1 TAAGCCTTCACCAAAGAGTAGTGAAGCAAATTAATCA
*
2786048 TAAGCCTTCACCAAAGAGTAGTGAAGCAAATTCATCA
1 TAAGCCTTCACCAAAGAGTAGTGAAGCAAATTAATCA
2786085 GTAAGCCTTC
1 -TAAGCCTTC
2786095 CGAGCATGAT
Statistics
Matches: 152, Mismatches: 39, Indels: 18
0.73 0.19 0.09
Matches are distributed among these distances:
36 4 0.03
37 107 0.70
38 17 0.11
39 3 0.02
40 2 0.01
41 6 0.04
42 10 0.07
43 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (37 bp):
TAAGCCTTCACCAAAGAGTAGTGAAGCAAATTAATCA
Found at i:2786019 original size:116 final size:116
Alignment explanation
Indices: 2785894--2786196 Score: 462
Period size: 116 Copynumber: 2.6 Consensus size: 116
2785884 CAAATCAATC
* * ** *
2785894 TAAAGCCTTCACCAAAGAGTAGTGAAGCAAATTAATCATAAGCCTTCACGGAAGACTAGTGAAGC
1 TAAA-CCTTCACCAAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACAAAAGAGTAGTGAAGC
2785959 AAATTCATCAGTAAGCATTCCGAGCATGATGATTAAGTCCTCCAGGCCATCT
65 AAATTCATCAGTAAGCATTCCGAGCATGATGATTAAGTCCTCCAGGCCATCT
* * *
2786011 TAAACCTTCACCGAAGAGTAGTGAAGCAAACCAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCA
1 TAAACCTTCACCAAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACAAAAGAGTAGTGAAGCA
* *
2786076 AATTCATCAGTAAGCCTTCCGAGCATGATGATTAAGTCCTCCGGGCCATCT
66 AATTCATCAGTAAGCATTCCGAGCATGATGATTAAGTCCTCCAGGCCATCT
* * *
2786127 TAAGCCTTCACCAAAGAGTAGTGAAGAAAAATCAATTTTAAGCCTTCACCAAAAGAGTAGTGAAG
1 TAAACCTTCACCAAAGAGTAGTGAAG-CAAATCAATCTTAAGCCTTCA-CAAAAGAGTAGTGAAG
2786192 CAAAT
64 CAAAT
2786197 CAACCTCGAG
Statistics
Matches: 169, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
116 127 0.75
117 22 0.13
118 20 0.12
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (116 bp):
TAAACCTTCACCAAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACAAAAGAGTAGTGAAGCA
AATTCATCAGTAAGCATTCCGAGCATGATGATTAAGTCCTCCAGGCCATCT
Found at i:2786033 original size:79 final size:77
Alignment explanation
Indices: 2785474--2786056 Score: 363
Period size: 79 Copynumber: 7.7 Consensus size: 77
2785464 GGGCAAGTCA
* *
2785474 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAAATCCATTAGTAAGCCTTCCGAGCATGATGATT
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTCCGAG-ATGATGATT
2785539 AAGTCCTCCGGGCC
65 AAGTCCT-CGGGCC
* * * * * *
2785553 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAA-CAATC-CTAAGACTT-C-A-CTGAAGAGT-
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTCCGAGATGATGATTA
*** *** *
2785612 AGTGAAGCAATCA
66 AGT-CCTCGGGCC
* * * * * *
2785625 ATCCTAAGACTTCACAGAAGAGTAGTGAAACAAATCCATTAGTAAGCCTCCCGAGCATGATGATT
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTCCGAG-ATGATGATT
2785690 AAGTCCTCCGGGCC
65 AAGTCCT-CGGGCC
* * * *
2785704 AT-TTAAGCCTTCACC-AAGGACTAGTGAAGTAAA-CCATC-TTAAGCCTTCACCGA-A-GAGGA
1 ATCTTAAGCCTTCACCGAA-GAGTAGTGAAGCAAATCCATCAGTAAGCCTT--CCGAGATGATGA
* *
2785763 GTGAAG-CAAT----CC
63 -TTAAGTC-CTCGGGCC
** *
2785775 ATCTTAAGCCTTCAGGGAAGAGTAGTGAAGCAAATTCATCAGTAAGCCTTCCGAGTATGATGATT
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTCCGAG-ATGATGATT
2785840 AAGTCCTTCGGGCC
65 AAGTCC-TCGGGCC
* * * * *
2785854 ATCTTAAGCTTTCACCAAAGAGTAGTGAAGCAAATCAATC--TAAAGCCTTCACCA-AAGA-GTA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCAGT-AAGCCTTC-CGAGATGATG-A
* ******
2785915 GTGAAG--C-AAATTA
63 -TTAAGTCCTCGGGCC
* * * * *
2785928 ATCATAAGCCTTCACGGAAGACTAGTGAAGCAAATTCATCAGTAAGCATTCCGAGCATGATGATT
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTCCGAG-ATGATGATT
*
2785993 AAGTCCTCCAGGCC
65 AAGTCCT-CGGGCC
* *
2786007 ATCTTAAACCTTCACCGAAGAGTAGTGAAGCAAA-CCAATC-TTAAGCCTTC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCC-ATCAGTAAGCCTTC
2786057 ACCAAAGAGT
Statistics
Matches: 370, Mismatches: 93, Indels: 83
0.68 0.17 0.15
Matches are distributed among these distances:
71 4 0.01
72 63 0.17
73 15 0.04
74 54 0.15
75 24 0.06
76 22 0.06
77 20 0.05
78 56 0.15
79 112 0.30
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (77 bp):
ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTCCGAGATGATGATTA
AGTCCTCGGGCC
Found at i:2786172 original size:38 final size:38
Alignment explanation
Indices: 2786126--2786199 Score: 123
Period size: 38 Copynumber: 1.9 Consensus size: 38
2786116 CCGGGCCATC
2786126 TTAAGCCTTCACC-AAAGAGTAGTGAAGAAAAATCAATT
1 TTAAGCCTTCACCAAAAGAGTAGTGAAG-AAAATCAATT
*
2786164 TTAAGCCTTCACCAAAAGAGTAGTGAAGCAAATCAA
1 TTAAGCCTTCACCAAAAGAGTAGTGAAGAAAATCAA
2786200 CCTCGAGTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
38 20 0.59
39 14 0.41
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.22
Consensus pattern (38 bp):
TTAAGCCTTCACCAAAAGAGTAGTGAAGAAAATCAATT
Found at i:2786405 original size:3 final size:3
Alignment explanation
Indices: 2786388--2786435 Score: 62
Period size: 3 Copynumber: 15.7 Consensus size: 3
2786378 ATATTATAAA
*
2786388 TAT TAAT TA- TAT TAT TAT TAT TAT TAT TAT TAAT TAT AAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
2786434 TA
1 TA
2786436 ATTAATTACA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 32 0.80
4 6 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:2786429 original size:16 final size:16
Alignment explanation
Indices: 2786397--2786439 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
2786387 ATATTAATTA
*
2786397 TATTATT-ATTATTAT
1 TATTATTAATTATAAT
2786412 TATTATTAATTATAAT
1 TATTATTAATTATAAT
2786428 TATTATTAATTA
1 TATTATTAATTA
2786440 ATTACATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 7 0.27
16 19 0.73
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTATTAATTATAAT
Found at i:2788809 original size:21 final size:21
Alignment explanation
Indices: 2788785--2788824 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2788775 ATGTTCTAAA
2788785 ATTCATGTGTTGTTTTGTCAG
1 ATTCATGTGTTGTTTTGTCAG
2788806 ATTCATGTGTTGTTTTGTC
1 ATTCATGTGTTGTTTTGTC
2788825 GGGGATCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.10, G:0.23, T:0.55
Consensus pattern (21 bp):
ATTCATGTGTTGTTTTGTCAG
Found at i:2789663 original size:226 final size:224
Alignment explanation
Indices: 2789237--2789682 Score: 567
Period size: 226 Copynumber: 2.0 Consensus size: 224
2789227 ACAATTAATT
* *
2789237 TTTATTATTTTATTATTTTTCCTTTTTTTATTTATTTTATTTTAATATATCTTTTCAACTTTACC
1 TTTATTATTATATTATTTTTCCTTTTTTTATTTATTTTATTTTAATATATATTTTCAACTTTACC
* * ** * * * *
2789302 TGAAATTCTATCTTTTCCTAGTATCAAGAAACAGTTTTATTAAATCATAAAAACCATAGTCCATA
66 TGAAATTCCATATTTTCCTAAAATCAAGAAACAATTTTATTAAATCAGAAAAACCACAATCCATA
* * * * *
2789367 TGGATCGACCCTGCTTCTCTATACTTGCTTTTCCTTTCTATTTATTTAAAAAGCCATGAATTATT
131 TGGATCAACCCTGCTTATCTATACTTACTTTTCCTTTCTATTTATTTAAAAAGCCAAGAATTAGT
* *
2789432 TTGATAGTAAAATGACGGTTATCAAAATG
196 TTGATAGCAAAACGACGGTTATCAAAATG
2789461 TTTATTATTATATTATTTTTCCTTTTTTATTATTTATTTTATTTTAATATATATTTTCAA-TTTC
1 TTTATTATTATATTATTTTTCC-TTTTT-TTATTTATTTTATTTTAATATATATTTTCAACTTT-
* * * * *
2789525 ATCTGGAATTCCATATTCTT-CTAAAATCAAGAAAGAATTTTATTAAATTAGAAACACCAACAAT
63 ACCTGAAATTCCATATT-TTCCTAAAATCAAGAAACAATTTTATTAAATCAGAAAAACC-ACAAT
* * * * *
2789589 CCTTGTGGATCAACCCTGTTTATCTATAC-TACATTTTCCTTTTTATTTA-TTAAGAAGCCAAGA
126 CCATATGGATCAACCCTGCTTATCTATACTTAC-TTTTCCTTTCTATTTATTTAAAAAGCCAAGA
2789652 ATTAGTTTGATAGCAAAACGACGGTTATCAA
190 ATTAGTTTGATAGCAAAACGACGGTTATCAA
2789683 TTGACAACTA
Statistics
Matches: 189, Mismatches: 27, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
224 21 0.11
225 8 0.04
226 116 0.61
227 44 0.23
ACGTcount: A:0.32, C:0.15, G:0.08, T:0.46
Consensus pattern (224 bp):
TTTATTATTATATTATTTTTCCTTTTTTTATTTATTTTATTTTAATATATATTTTCAACTTTACC
TGAAATTCCATATTTTCCTAAAATCAAGAAACAATTTTATTAAATCAGAAAAACCACAATCCATA
TGGATCAACCCTGCTTATCTATACTTACTTTTCCTTTCTATTTATTTAAAAAGCCAAGAATTAGT
TTGATAGCAAAACGACGGTTATCAAAATG
Found at i:2791885 original size:64 final size:64
Alignment explanation
Indices: 2791783--2791908 Score: 166
Period size: 64 Copynumber: 2.0 Consensus size: 64
2791773 ATGCACTTCT
* * *
2791783 TTAAAATAAAAACATCGAATGTCATTAGTGTATCGATGCACAAGTAGTGCATCGATTCACCCCC
1 TTAAAATAAAAACATCGAATGTCATTAGTGAATCGATGCACAAGTAGTACATCGATGCACCCCC
* * *
2791847 TTAAAATACAAACATCGAATGAT-ATTTGTGAA-CTGATGCACAGGTAGTACATCGATGCACCC
1 TTAAAATAAAAACATCGAATG-TCATTAGTGAATC-GATGCACAAGTAGTACATCGATGCACCC
2791909 GTTAAAGAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
63 1 0.02
64 52 0.96
65 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (64 bp):
TTAAAATAAAAACATCGAATGTCATTAGTGAATCGATGCACAAGTAGTACATCGATGCACCCCC
Found at i:2792504 original size:18 final size:19
Alignment explanation
Indices: 2792478--2792535 Score: 82
Period size: 18 Copynumber: 3.1 Consensus size: 19
2792468 TCGAGGGATT
2792478 ATCAGTGGTCCTTCGGGAC
1 ATCAGTGGTCCTTCGGGAC
* *
2792497 AT-AGTGGTTCTTCGGAAC
1 ATCAGTGGTCCTTCGGGAC
2792515 AATCAGTGGTCCTTCGGGAC
1 -ATCAGTGGTCCTTCGGGAC
2792535 A
1 A
2792536 AATATTCAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 14 0.42
19 5 0.15
20 14 0.42
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (19 bp):
ATCAGTGGTCCTTCGGGAC
Found at i:2792524 original size:20 final size:20
Alignment explanation
Indices: 2792478--2792536 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
2792468 TCGAGGGATT
2792478 ATCAGTGGTCCTTCGGGAC-
1 ATCAGTGGTCCTTCGGGACA
* *
2792497 AT-AGTGGTTCTTCGGAACA
1 ATCAGTGGTCCTTCGGGACA
2792516 ATCAGTGGTCCTTCGGGACA
1 ATCAGTGGTCCTTCGGGACA
2792536 A
1 A
2792537 ATATTCAGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 14 0.41
19 4 0.12
20 16 0.47
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (20 bp):
ATCAGTGGTCCTTCGGGACA
Found at i:2792793 original size:2 final size:2
Alignment explanation
Indices: 2792786--2792826 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
2792776 AATGCATTGT
*
2792786 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2792827 TATGCCTCAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:2794415 original size:6 final size:6
Alignment explanation
Indices: 2794400--2794458 Score: 100
Period size: 6 Copynumber: 9.8 Consensus size: 6
2794390 GACTACACAG
* *
2794400 AGAGGA AGAGGT AGAGGT AGAGGT AGAGGT AGAGGT AGAGAT AGAGGT
1 AGAGGT AGAGGT AGAGGT AGAGGT AGAGGT AGAGGT AGAGGT AGAGGT
2794448 AGAGGT AGAGG
1 AGAGGT AGAGG
2794459 AATATGTCAG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.37, C:0.00, G:0.49, T:0.14
Consensus pattern (6 bp):
AGAGGT
Found at i:2798418 original size:64 final size:64
Alignment explanation
Indices: 2798350--2798509 Score: 185
Period size: 65 Copynumber: 2.5 Consensus size: 64
2798340 TTCAATGTGC
* * * ** * * *
2798350 ATCGATGCACATGAAGTGTATCGATGCACTTCTTTAAAATAAAAACATCGAATGTCATTAGTGT
1 ATCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATAAAAACATCAAATGACATTAGTGT
* * **
2798414 ATCGATGCACAAGTAGTGCATCGATGCACCCCCCTTAAAATACAAACATCAAATGAGATTTTTGT
1 ATCGATGCACAAGTAGTGCATCGATGCA-CCCCCTTAAAATAAAAACATCAAATGACATTAGTGT
* *
2798479 ACCGATGCACAGGTAGTGCATCGATGCACCC
1 ATCGATGCACAAGTAGTGCATCGATGCACCC
2798510 GTTAAGGAAT
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
64 28 0.35
65 53 0.65
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (64 bp):
ATCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATAAAAACATCAAATGACATTAGTGT
Found at i:2799105 original size:18 final size:18
Alignment explanation
Indices: 2799082--2799154 Score: 76
Period size: 18 Copynumber: 3.9 Consensus size: 18
2799072 AGGGATTATC
*
2799082 AGTGGTCTTTTGGGACAT
1 AGTGGTCTTTCGGGACAT
*
2799100 AGTGGTTCTTT-GGAACAAT
1 AGTGG-TCTTTCGGGAC-AT
* *
2799119 CAGTGGTCCTTCAGGACAT
1 -AGTGGTCTTTCGGGACAT
2799138 AGTGGTCTTTCGGGACA
1 AGTGGTCTTTCGGGACA
2799155 AATATTCAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
18 24 0.53
19 13 0.29
20 8 0.18
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (18 bp):
AGTGGTCTTTCGGGACAT
Found at i:2800330 original size:3 final size:3
Alignment explanation
Indices: 2800317--2800351 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
2800307 TATTAATTGA
*
2800317 AAT ATT AAT AAT AAT AAT AAT AAT AAAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT A
2800352 GCATTAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:2800360 original size:19 final size:17
Alignment explanation
Indices: 2800320--2800351 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2800310 TAATTGAAAT
2800320 ATTAAT-AATAATAATA
1 ATTAATAAATAATAATA
2800336 A-TAATAAATAATAATA
1 ATTAATAAATAATAATA
2800352 GCATTAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATTAATAAATAATAATA
Found at i:2800684 original size:49 final size:48
Alignment explanation
Indices: 2800600--2800707 Score: 130
Period size: 49 Copynumber: 2.2 Consensus size: 48
2800590 GCTGTCACTT
* * * *
2800600 AGGGAATATCAAATCTTGAAGGAGAGGGGTCTGTTTCGCTT-CTTTCTGA
1 AGGGAATATCAAATCTTAAAGAAGAGGAGACTGTTTCGCTTAC--TCTGA
*
2800649 AGGGAAAATCAAATCTTAAAGAAGA-GAGACATGTTTCGCTTACTCTGA
1 AGGGAATATCAAATCTTAAAGAAGAGGAGAC-TGTTTCGCTTACTCTGA
2800697 AGGGAATATCA
1 AGGGAATATCA
2800708 GATATGGGGG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
48 18 0.35
49 32 0.63
50 1 0.02
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (48 bp):
AGGGAATATCAAATCTTAAAGAAGAGGAGACTGTTTCGCTTACTCTGA
Found at i:2800813 original size:113 final size:113
Alignment explanation
Indices: 2800644--2801071 Score: 474
Period size: 113 Copynumber: 3.8 Consensus size: 113
2800634 TTCGCTTCTT
* *
2800644 TCTGAAGGGAAAATCAAATCTT--AAAGAAGAGAGACATGTT-TCGCTTACTCTGAAGGGAATAT
1 TCTGAAGGGAATATCAAATCTTGGAAA-AA-AGAGACATGTTCT-GCTTACTCTAAAGGGAATAT
* *
2800706 CAGATATGGGGGAGTTGATCCATTGAATCGGGGCAGACTTATTCCACTTAC
63 CAGATATGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCCGCTTAC
* * *
2800757 TCTGAAGGGAATATCAAATCTTGGAAAAAAGAGACATGTTCTGCTGACTCTAAAGGGAGTGTCAG
1 TCTGAAGGGAATATCAAATCTTGGAAAAAAGAGACATGTTCTGCTTACTCTAAAGGGAATATCAG
* * * *
2800822 ATCTGGGGGAGTTAATCCATTGAATCGAGGCAGATTTGTTCCGCTTAC
66 ATATGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCCGCTTAC
* * * *
2800870 TCTGAAGGGGATATCAAATCTTGGAAAATAGAGACTTGTTCTGCTTACTCTAAAGGGGATATCAG
1 TCTGAAGGGAATATCAAATCTTGGAAAAAAGAGACATGTTCTGCTTACTCTAAAGGGAATATCAG
* * *
2800935 ATCAT-GGTGAGTTGATCCATTGAATCGGGACAGACTTGTTTCGCTGT-C
66 AT-ATGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCCGCT-TAC
* * * * * * * * **
2800983 ACT-AAGGGAATATCAAATATTGGAAGAGAGGGATATGTTCCGCTT-CTTTGAAAGGGAATATTT
1 TCTGAAGGGAATATCAAATCTTGGAAAAAAGAGACATGTTCTGCTTACTCT-AAAGGGAATATCA
* * *
2801046 CATCTGTGGGAGTTGATCCATTGAAT
65 GATATGGGGGAGTTGATCCATTGAAT
2801072 TGGTATCGAA
Statistics
Matches: 266, Mismatches: 42, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
111 4 0.02
112 64 0.24
113 190 0.71
114 5 0.02
115 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (113 bp):
TCTGAAGGGAATATCAAATCTTGGAAAAAAGAGACATGTTCTGCTTACTCTAAAGGGAATATCAG
ATATGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCCGCTTAC
Found at i:2814665 original size:21 final size:21
Alignment explanation
Indices: 2814636--2814696 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
2814626 TTTATGGAAT
*
2814636 TATGGTGTTACTTCTTTGTTC
1 TATGTTGTTACTTCTTTGTTC
2814657 TATGTTGTTACTTCTTTGTTC
1 TATGTTGTTACTTCTTTGTTC
2814678 TATGTTGTTACTTCTTTGT
1 TATGTTGTTACTTCTTTGT
2814697 GCGATCCTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.10, C:0.13, G:0.16, T:0.61
Consensus pattern (21 bp):
TATGTTGTTACTTCTTTGTTC
Found at i:2818160 original size:31 final size:32
Alignment explanation
Indices: 2818044--2818229 Score: 152
Period size: 31 Copynumber: 5.9 Consensus size: 32
2818034 CCTCGGCAAC
* * * *
2818044 TGTCCATAGGTCCCG-AAGAACCTAGGTAAAC
1 TGTCCATATGTCCCGAAAGAACATAGGTATAT
* * ** *
2818075 TGTCTATATGTTCC-TTAGAACATAGGTATAA
1 TGTCCATATGTCCCGAAAGAACATAGGTATAT
* *
2818106 TGTCCATATGTTTCTG--AGAACATAGGTATAT
1 TGTCCATATG-TCCCGAAAGAACATAGGTATAT
* * * *
2818137 TGTCCATATATCTCAAAAG-ACATAGGTAATTT
1 TGTCCATATGTCCCGAAAGAACATAGGT-ATAT
2818169 TGTCCATATGTCCCGAAAG-ACATAGGTA-ATT
1 TGTCCATATGTCCCGAAAGAACATAGGTATA-T
2818200 CTGTCCATATGTCCCGAAAGAACATAGGTA
1 -TGTCCATATGTCCCGAAAGAACATAGGTA
2818230 AACCCTCGAC
Statistics
Matches: 126, Mismatches: 20, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
30 1 0.01
31 65 0.52
32 51 0.40
33 9 0.07
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (32 bp):
TGTCCATATGTCCCGAAAGAACATAGGTATAT
Found at i:2818176 original size:32 final size:32
Alignment explanation
Indices: 2818125--2818230 Score: 151
Period size: 32 Copynumber: 3.3 Consensus size: 32
2818115 GTTTCTGAGA
* * * *
2818125 ACATAGGT-ATATTGTCCATATATCTCAAAAG
1 ACATAGGTAATTTTGTCCATATGTCCCGAAAG
2818156 ACATAGGTAATTTTGTCCATATGTCCCGAAAG
1 ACATAGGTAATTTTGTCCATATGTCCCGAAAG
*
2818188 ACATAGGTAATTCTGTCCATATGTCCCGAAAG
1 ACATAGGTAATTTTGTCCATATGTCCCGAAAG
2818220 AACATAGGTAA
1 -ACATAGGTAA
2818231 ACCCTCGACT
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
31 8 0.12
32 50 0.74
33 10 0.15
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (32 bp):
ACATAGGTAATTTTGTCCATATGTCCCGAAAG
Found at i:2822777 original size:31 final size:30
Alignment explanation
Indices: 2822742--2822851 Score: 98
Period size: 31 Copynumber: 3.6 Consensus size: 30
2822732 GAATCTCGGC
*
2822742 AACTGTCCATAGGTCTCGAAGAACTTAGGTA
1 AACTGTCCATATGTCTCG-AGAACTTAGGTA
* *
2822773 AACTGTTCATATGT-TCCTTAGAA-TATAGGTA
1 AACTGTCCATATGTCT-C-GAGAACT-TAGGTA
* * *
2822804 TACTGTCCATATGTTTCTGAGAACATAGGTA
1 AACTGTCCATATGTCTC-GAGAACTTAGGTA
*
2822835 TACTGTCCATATGTCTC
1 AACTGTCCATATGTCTC
2822852 AAAAGACATA
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
30 2 0.03
31 63 0.95
32 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (30 bp):
AACTGTCCATATGTCTCGAGAACTTAGGTA
Found at i:2822878 original size:32 final size:32
Alignment explanation
Indices: 2822826--2823040 Score: 306
Period size: 32 Copynumber: 6.8 Consensus size: 32
2822816 GTTTCTGAGA
* * *
2822826 ACATAGGT-ATACTGTCCATATGTCTCAAAAG
1 ACATAGGTAATTCTGTCCATATGTCCCGAAAG
* *
2822857 ACATAGGTATTTCTGTCCATATATCCCGAAAG
1 ACATAGGTAATTCTGTCCATATGTCCCGAAAG
2822889 ACATAGGTAATTCTGTCCATATGTCCCGAAAG
1 ACATAGGTAATTCTGTCCATATGTCCCGAAAG
**
2822921 ACATAGGTAATTCTGTCTTTATGTCCCGAAAG
1 ACATAGGTAATTCTGTCCATATGTCCCGAAAG
* * * *
2822953 ACATAAGTAATTTTATCCATATGTCCCGAAAT
1 ACATAGGTAATTCTGTCCATATGTCCCGAAAG
2822985 ACATAGGTAATTCTGTCCATATGTCCCGAAAG
1 ACATAGGTAATTCTGTCCATATGTCCCGAAAG
* *
2823017 ACATAGATAATTCTGTCTATATGT
1 ACATAGGTAATTCTGTCCATATGT
2823041 TCAGTAGAGC
Statistics
Matches: 162, Mismatches: 21, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
31 8 0.05
32 154 0.95
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (32 bp):
ACATAGGTAATTCTGTCCATATGTCCCGAAAG
Found at i:2823880 original size:17 final size:17
Alignment explanation
Indices: 2823858--2823899 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
2823848 ATTTAGGCTC
*
2823858 AATTTCTACATAAGCAT
1 AATTTCCACATAAGCAT
2823875 AATTTCCACATAAGCAT
1 AATTTCCACATAAGCAT
2823892 AATTTCCA
1 AATTTCCA
2823900 AAACGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.33
Consensus pattern (17 bp):
AATTTCCACATAAGCAT
Found at i:2827630 original size:57 final size:57
Alignment explanation
Indices: 2827520--2827641 Score: 154
Period size: 57 Copynumber: 2.1 Consensus size: 57
2827510 GTTCCACAAA
* * * * *
2827520 AGAAAAATAATTTATTTAGAAGACCTTTCCCTAAATATTACATGCTTTATCAAATAT
1 AGAAAAATAATTTATTTAGAACACCTTTCCATAAATATTACATGCCTGATCAAAAAT
* * * *
2827577 AGAAAAATATTTTATTTAGAACATCTTTCCATAAATATTACGTGCCTGCTCAAAAAT
1 AGAAAAATAATTTATTTAGAACACCTTTCCATAAATATTACATGCCTGATCAAAAAT
2827634 AGAGAAAA
1 AGA-AAAA
2827642 AAGGAAGCAG
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
57 51 0.93
58 4 0.07
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (57 bp):
AGAAAAATAATTTATTTAGAACACCTTTCCATAAATATTACATGCCTGATCAAAAAT
Found at i:2833070 original size:39 final size:39
Alignment explanation
Indices: 2832953--2833151 Score: 257
Period size: 39 Copynumber: 5.3 Consensus size: 39
2832943 GCTGTCTGTA
* * *
2832953 CCATTCCCATGCCCGTATTCATACCCA---TGTTCATCC
1 CCATTCCCATGCTCGGACTCATACCCATGTTGTTCATCC
* ** *
2832989 CCACTCCCATGCTCGGGTTCACACCCA---TGTTCATCC
1 CCATTCCCATGCTCGGACTCATACCCATGTTGTTCATCC
2833025 CCATTCCCATGCTCGGACTCATACCCATGTTGTTCATCC
1 CCATTCCCATGCTCGGACTCATACCCATGTTGTTCATCC
*
2833064 CCATTCCCATGCTTGGACTCATACCCATGTTGTTCATCC
1 CCATTCCCATGCTCGGACTCATACCCATGTTGTTCATCC
* *
2833103 CCATTCCCATGCTTGGACTTATACCCATGTTGTTCATCC
1 CCATTCCCATGCTCGGACTCATACCCATGTTGTTCATCC
*
2833142 CCATCCCCAT
1 CCATTCCCAT
2833152 TCCCATGGCC
Statistics
Matches: 148, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
36 54 0.36
39 94 0.64
ACGTcount: A:0.18, C:0.40, G:0.12, T:0.31
Consensus pattern (39 bp):
CCATTCCCATGCTCGGACTCATACCCATGTTGTTCATCC
Found at i:2833073 original size:21 final size:21
Alignment explanation
Indices: 2833048--2833113 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
2833038 CGGACTCATA
2833048 CCCATGTTGTTCATCCCCATT
1 CCCATGTTGTTCATCCCCATT
* * *
2833069 CCCATGCTTG--GA--CTCATA
1 CCCATG-TTGTTCATCCCCATT
2833087 CCCATGTTGTTCATCCCCATT
1 CCCATGTTGTTCATCCCCATT
2833108 CCCATG
1 CCCATG
2833114 CTTGGACTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
17 3 0.09
18 10 0.29
19 1 0.03
20 1 0.03
21 16 0.47
22 3 0.09
ACGTcount: A:0.17, C:0.38, G:0.12, T:0.33
Consensus pattern (21 bp):
CCCATGTTGTTCATCCCCATT
Found at i:2833242 original size:6 final size:6
Alignment explanation
Indices: 2833234--2833264 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
2833224 GTTTCCTATA
*
2833234 CCCATA CCCATG CCCATG CCCATG CCCATG C
1 CCCATG CCCATG CCCATG CCCATG CCCATG C
2833265 TGGAACTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.52, G:0.13, T:0.16
Consensus pattern (6 bp):
CCCATG
Found at i:2834847 original size:231 final size:230
Alignment explanation
Indices: 2834095--2834825 Score: 948
Period size: 231 Copynumber: 3.2 Consensus size: 230
2834085 TTGGGTTAGT
* * * * *
2834095 ATTTGGCTGTGCAGGTTGGGCATATGGATT-AGCATTTGGCTGTGCAGGTTGGCCATATGGATTC
1 ATTTGGCTGAGCAGGTTGGCCATTTGGATTCA-CATTTGGCTGAGCAGGTTGGCCATTTGGATTC
* * * * * * * * * **
2834159 ACATTTGGCTGAG-ACTGTTGGCCATTTGGGTAAGCATTCGGCTGTGCAAGTTGGGCATATGGAT
65 ACATTTGCCGGTGCA-GGTAGTCCATTTGGGTAAGTATTTGGCTGTGCAGGTTGACCATATGGAT
* * * * * * *
2834223 TAGCATTTGGCTGAGCGGGTTGGCCATTTGGATTCACATTTTCCG-GTGCAGATAATCCATTTGG
129 TAGTATTTGGCTGTGCGGGTTGGCCATTTGGATTCACATTTGCTGAGTG-GGTTGA-CCATTTGG
* * * *
2834287 GTAAGTATTTGGCTGTGTAGGTTGGCCATATGGATT-ATC
192 GTAAGTATTTGGCTGAGTGGGTAGGCCATTTGGATTCA-C
* * *
2834326 ATTTGGCTGTGCAGGTTGACCATTTGGATTCACATTTGGCTGAGCGGGTTGGCCATTTGGATTCA
1 ATTTGGCTGAGCAGGTTGGCCATTTGGATTCACATTTGGCTGAGCAGGTTGGCCATTTGGATTCA
*
2834391 CATTTGCTGGTGCAGGTAGTCCATTTGGGTAAGTATTTGGCTGTGCAGGTTGACCATATGGATTA
66 CATTTGCCGGTGCAGGTAGTCCATTTGGGTAAGTATTTGGCTGTGCAGGTTGACCATATGGATTA
** * * * *
2834456 GTATTTGGCCATGCGGGTTGACCATTTGGATTCACATTTGGCTGAGCGGGTTGGCCATGTGGGTA
131 GTATTTGGCTGTGCGGGTTGGCCATTTGGATTCACATTT-GCTGAGTGGGTTGACCATTTGGGTA
2834521 AGTATTTGGCTGAGTGGGTAGGCCATTTGGATTCAC
195 AGTATTTGGCTGAGTGGGTAGGCCATTTGGATTCAC
* ** *
2834557 ATTTGGCCGAGTGGGTTGGCCATTTGGATTCACATTTGGCTGAGCGGGTTGGCCATTTGGATTCA
1 ATTTGGCTGAGCAGGTTGGCCATTTGGATTCACATTTGGCTGAGCAGGTTGGCCATTTGGATTCA
* *
2834622 CATTTTCCGGTGCAGGTAGTCCATTTGTGTAAGTATTTGGCTGTGCAGGTTGACCATATGGATTA
66 CATTTGCCGGTGCAGGTAGTCCATTTGGGTAAGTATTTGGCTGTGCAGGTTGACCATATGGATTA
* * *
2834687 GTATTTGGCTGTGAGGATTGGCCATTTGAATTCACATTTAGCTGAGTGGGTTGACCATTTGGGTA
131 GTATTTGGCTGTGCGGGTTGGCCATTTGGATTCACATTT-GCTGAGTGGGTTGACCATTTGGGTA
*
2834752 AGTATTTGGCTGAGCGGGTAGGCCATTTGGATTCAC
195 AGTATTTGGCTGAGTGGGTAGGCCATTTGGATTCAC
2834788 ATTTGGCTGAGCAGGTTGGCCATTTGGATTCACATTTG
1 ATTTGGCTGAGCAGGTTGGCCATTTGGATTCACATTTG
2834826 CCGGTGCAGG
Statistics
Matches: 438, Mismatches: 57, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
231 429 0.98
232 7 0.02
233 2 0.00
ACGTcount: A:0.18, C:0.15, G:0.32, T:0.35
Consensus pattern (230 bp):
ATTTGGCTGAGCAGGTTGGCCATTTGGATTCACATTTGGCTGAGCAGGTTGGCCATTTGGATTCA
CATTTGCCGGTGCAGGTAGTCCATTTGGGTAAGTATTTGGCTGTGCAGGTTGACCATATGGATTA
GTATTTGGCTGTGCGGGTTGGCCATTTGGATTCACATTTGCTGAGTGGGTTGACCATTTGGGTAA
GTATTTGGCTGAGTGGGTAGGCCATTTGGATTCAC
Found at i:2835014 original size:33 final size:33
Alignment explanation
Indices: 2834040--2835074 Score: 652
Period size: 33 Copynumber: 31.4 Consensus size: 33
2834030 CTTGCTTGGA
* ** *
2834040 CAGGTTGGCAATGCGGATTAGCATTTAGCTGTG
1 CAGGTTGGCCATTTGGATTAGCATTTGGCTGTG
* *
2834073 CTA-GTTGGCCATTTGGGTTAGTATTTGGCTGTG
1 C-AGGTTGGCCATTTGGATTAGCATTTGGCTGTG
* *
2834106 CAGGTTGGGCATATGGATTAGCATTTGGCTGTG
1 CAGGTTGGCCATTTGGATTAGCATTTGGCTGTG
* *
2834139 CAGGTTGGCCATATGGATTCA-CATTTGGCTGAG
1 CAGGTTGGCCATTTGGATT-AGCATTTGGCTGTG
* * * *
2834172 -ACTGTTGGCCATTTGGGTAAGCATTCGGCTGTG
1 CA-GGTTGGCCATTTGGATTAGCATTTGGCTGTG
* * * *
2834205 CAAGTTGGGCATATGGATTAGCATTTGGCTGAG
1 CAGGTTGGCCATTTGGATTAGCATTTGGCTGTG
* ** *
2834238 CGGGTTGGCCATTTGGATTCA-CATTTTCCGGTG
1 CAGGTTGGCCATTTGGATT-AGCATTTGGCTGTG
* *** * * *
2834271 CAGATAATCCATTTGGGTAAGTATTTGGCTGTG
1 CAGGTTGGCCATTTGGATTAGCATTTGGCTGTG
* * *
2834304 TAGGTTGGCCATATGGATTATCATTTGGCTGTG
1 CAGGTTGGCCATTTGGATTAGCATTTGGCTGTG
* *
2834337 CAGGTTGACCATTTGGATTCA-CATTTGGCTGAG
1 CAGGTTGGCCATTTGGATT-AGCATTTGGCTGTG
*
2834370 CGGGTTGGCCATTTGGATTCA-CATTT-GCTGGTG
1 CAGGTTGGCCATTTGGATT-AGCATTTGGCT-GTG
* * * * *
2834403 CAGGTAGTCCATTTGGGTAAGTATTTGGCTGTG
1 CAGGTTGGCCATTTGGATTAGCATTTGGCTGTG
* * * **
2834436 CAGGTTGACCATATGGATTAGTATTTGGCCATG
1 CAGGTTGGCCATTTGGATTAGCATTTGGCTGTG
* * *
2834469 CGGGTTGACCATTTGGATTCA-CATTTGGCTGAG
1 CAGGTTGGCCATTTGGATT-AGCATTTGGCTGTG
* * * * * *
2834502 CGGGTTGGCCATGTGGGTAAGTATTTGGCTGAG
1 CAGGTTGGCCATTTGGATTAGCATTTGGCTGTG
** * * *
2834535 TGGGTAGGCCATTTGGATTCA-CATTTGGCCGAG
1 CAGGTTGGCCATTTGGATT-AGCATTTGGCTGTG
** *
2834568 TGGGTTGGCCATTTGGATTCA-CATTTGGCTGAG
1 CAGGTTGGCCATTTGGATT-AGCATTTGGCTGTG
* ** *
2834601 CGGGTTGGCCATTTGGATTCA-CATTTTCCGGTG
1 CAGGTTGGCCATTTGGATT-AGCATTTGGCTGTG
* * * *
2834634 CAGGTAGTCCATTTGTG-TAAGTATTTGGCTGTG
1 CAGGTTGGCCATTTG-GATTAGCATTTGGCTGTG
* * *
2834667 CAGGTTGACCATATGGATTAGTATTTGGCTGTG
1 CAGGTTGGCCATTTGGATTAGCATTTGGCTGTG
* * *
2834700 -AGGATTGGCCATTTGAATTCA-CATTTAGCTGAG
1 CAGG-TTGGCCATTTGGATT-AGCATTTGGCTGTG
** * * * * *
2834733 TGGGTTGACCATTTGGGTAAGTATTTGGCTGAG
1 CAGGTTGGCCATTTGGATTAGCATTTGGCTGTG
* * *
2834766 CGGGTAGGCCATTTGGATTCA-CATTTGGCTGAG
1 CAGGTTGGCCATTTGGATT-AGCATTTGGCTGTG
* *
2834799 CAGGTTGGCCATTTGGATTCA-CATTTGCCGGTG
1 CAGGTTGGCCATTTGGATT-AGCATTTGGCTGTG
* * * * * *
2834832 CAGGTAGTCCATTTGGGTAAGTATTTGGCTGAG
1 CAGGTTGGCCATTTGGATTAGCATTTGGCTGTG
* *** * * *
2834865 CGGGCAAGCCATTTGGACTCGCATTTGGCTGAG
1 CAGGTTGGCCATTTGGATTAGCATTTGGCTGTG
* * *
2834898 CGGGTTGTCCATTTTGGCA--AGTATTTGGCTGTG
1 CAGGTTGGCCA-TTTGG-ATTAGCATTTGGCTGTG
* * * *
2834931 CAGGTAGGCCATTTGGGTAAGCATTTGGCTGAG
1 CAGGTTGGCCATTTGGATTAGCATTTGGCTGTG
** * * *
2834964 TGGGTTGGTCATATGGATTAGCATTTGGTTGTG
1 CAGGTTGGCCATTTGGATTAGCATTTGGCTGTG
* * * *
2834997 CAGGTTGGTCATTTGGATT-GCCATTTTGCCGAG
1 CAGGTTGGCCATTTGGATTAG-CATTTGGCTGTG
** **
2835030 CCA-GTTGATCATAGGGATTAGCATTTGGCTGTG
1 -CAGGTTGGCCATTTGGATTAGCATTTGGCTGTG
*
2835063 CGGGTTGGCCAT
1 CAGGTTGGCCAT
2835075 AAGGATCATC
Statistics
Matches: 780, Mismatches: 190, Indels: 64
0.75 0.18 0.06
Matches are distributed among these distances:
32 23 0.03
33 733 0.94
34 23 0.03
35 1 0.00
ACGTcount: A:0.18, C:0.15, G:0.32, T:0.34
Consensus pattern (33 bp):
CAGGTTGGCCATTTGGATTAGCATTTGGCTGTG
Found at i:2835209 original size:33 final size:33
Alignment explanation
Indices: 2835198--2835269 Score: 144
Period size: 33 Copynumber: 2.2 Consensus size: 33
2835188 GGCTGTGTGG
2835198 GTTGACTATACATATGAGCACGTGACTGTGTCA
1 GTTGACTATACATATGAGCACGTGACTGTGTCA
2835231 GTTGACTATACATATGAGCACGTGACTGTGTCA
1 GTTGACTATACATATGAGCACGTGACTGTGTCA
2835264 GTTGAC
1 GTTGAC
2835270 CATAGGTATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (33 bp):
GTTGACTATACATATGAGCACGTGACTGTGTCA
Found at i:2844989 original size:157 final size:156
Alignment explanation
Indices: 2844746--2845050 Score: 441
Period size: 157 Copynumber: 1.9 Consensus size: 156
2844736 CACATAGCAT
* * *
2844746 GTCAACTAAAACAATATCTAGCTAATTTACTAAATCCCCCTGCCAAAGGAAAACGATATTCTGCT
1 GTCAACTAAAACAATATCTAGATAATTTACTAAATCCCCCAGACAAAGGAAAACGATATTCTGCT
* * * * *
2844811 TCACACAACTGATCAATAGATACTTCAGTCATGCAAAAGTTGAC-TTTATCGTACTCAAATGGAC
66 TCACACAACTGATCAACAGATACTTCAATCAAGCAAAAATTGACTTTTAAC--ACTCAAATGGAC
*
2844875 AGTGAAATTGCTAAACAATAGTCTCACC
129 AATGAAATTGCTAAACAATAGTCTCACC
* * * *
2844903 GTCAACTAAAACAATATCTAGATAGTTTAGTAAATCCCCCAGACAAAGGAAAACTATGTTCTGCT
1 GTCAACTAAAACAATATCTAGATAATTTACTAAATCCCCCAGACAAAGGAAAACGATATTCTGCT
* *
2844968 TGACACTACTGATCAACAGATACTTCAATCAAGCAAAAATTGACTTTTAACACTCAAATGGACAA
66 TCACACAACTGATCAACAGATACTTCAATCAAGCAAAAATTGACTTTTAACACTCAAATGGACAA
*
2845033 TGAAATTGCTAAATAATA
131 TGAAATTGCTAAACAATA
2845051 TTCTTACCTT
Statistics
Matches: 131, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
156 30 0.23
157 96 0.73
158 5 0.04
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (156 bp):
GTCAACTAAAACAATATCTAGATAATTTACTAAATCCCCCAGACAAAGGAAAACGATATTCTGCT
TCACACAACTGATCAACAGATACTTCAATCAAGCAAAAATTGACTTTTAACACTCAAATGGACAA
TGAAATTGCTAAACAATAGTCTCACC
Found at i:2847727 original size:15 final size:15
Alignment explanation
Indices: 2847703--2847734 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2847693 TGGAAGATCG
*
2847703 AAATCCAGAACGGGA
1 AAATCAAGAACGGGA
2847718 AAATCAAGAACGGGA
1 AAATCAAGAACGGGA
2847733 AA
1 AA
2847735 GAAAGATTTT
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:0.53, C:0.16, G:0.25, T:0.06
Consensus pattern (15 bp):
AAATCAAGAACGGGA
Found at i:2852160 original size:24 final size:23
Alignment explanation
Indices: 2852131--2852177 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
2852121 CTATCTTAAC
*
2852131 AAAAACAAATCTATCAAATTTTCA
1 AAAAACAAATATA-CAAATTTTCA
*
2852155 AAAAACAAATATAGAAATTTTCA
1 AAAAACAAATATACAAATTTTCA
2852178 TAATTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (23 bp):
AAAAACAAATATACAAATTTTCA
Found at i:2852226 original size:2 final size:2
Alignment explanation
Indices: 2852219--2852245 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2852209 TTTAATACAC
2852219 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2852246 ATTTCCATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2852959 original size:14 final size:14
Alignment explanation
Indices: 2852942--2852970 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2852932 TACATTATTG
2852942 CAATTATAAGTTAA
1 CAATTATAAGTTAA
2852956 CAATTATAAGTTAA
1 CAATTATAAGTTAA
2852970 C
1 C
2852971 GCAAAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.34
Consensus pattern (14 bp):
CAATTATAAGTTAA
Found at i:2859839 original size:19 final size:19
Alignment explanation
Indices: 2859798--2859832 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
2859788 TTTAATTTTG
2859798 AATTTTAAATATTTTTATA
1 AATTTTAAATATTTTTATA
2859817 AATTTT-AAT-TTTTTAT
1 AATTTTAAATATTTTTAT
2859833 TAAAATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
AATTTTAAATATTTTTATA
Found at i:2864676 original size:3 final size:3
Alignment explanation
Indices: 2864668--2864701 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
2864658 TTATATTATG
2864668 TTA TTA TTA TTA TTA TT- TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2864702 TTTGCAGACA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:2864680 original size:14 final size:12
Alignment explanation
Indices: 2864668--2864701 Score: 61
Period size: 11 Copynumber: 2.9 Consensus size: 12
2864658 TTATATTATG
2864668 TTATTATTATTA
1 TTATTATTATTA
2864680 TTATT-TTATTA
1 TTATTATTATTA
2864691 TTATTATTATT
1 TTATTATTATT
2864702 TTTGCAGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTATTATTATTA
Found at i:2864701 original size:17 final size:17
Alignment explanation
Indices: 2864657--2864703 Score: 78
Period size: 17 Copynumber: 2.8 Consensus size: 17
2864647 CACTGTAGAC
*
2864657 ATTA-TATTATGTTATT
1 ATTATTATTATTTTATT
2864673 ATTATTATTATTTTATT
1 ATTATTATTATTTTATT
2864690 ATTATTATTATTTT
1 ATTATTATTATTTT
2864704 TGCAGACACC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 4 0.14
17 25 0.86
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
ATTATTATTATTTTATT
Found at i:2865814 original size:43 final size:45
Alignment explanation
Indices: 2865702--2865823 Score: 167
Period size: 43 Copynumber: 2.7 Consensus size: 45
2865692 CTAATATTTT
*
2865702 ACCATTTATTAACCATAAGCTCGTAAGCTTATTTTACCAAAATACTT
1 ACCATTTA-T-ACCATAAGCTCGTAAGCTTATTTTACCAAAATACTA
* * * *
2865749 ACCATTTATCCCCTAAGATCGTAAGCTTATTTTACC-ATATA-TA
1 ACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAAAATACTA
2865792 ACCATTTATACCATAAGCTCGTAAGCTTATTT
1 ACCATTTATACCATAAGCTCGTAAGCTTATTT
2865824 GCATACTTAC
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
43 30 0.45
44 4 0.06
45 24 0.36
46 1 0.01
47 8 0.12
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (45 bp):
ACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAAAATACTA
Found at i:2868621 original size:3 final size:3
Alignment explanation
Indices: 2868613--2868669 Score: 96
Period size: 3 Copynumber: 18.3 Consensus size: 3
2868603 AATTATAATA
2868613 TAT TAT TATT TAT TAT TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
2868660 TAT TAT TAT T
1 TAT TAT TAT T
2868670 TATTCATTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
3 46 0.88
4 6 0.12
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2868673 original size:22 final size:22
Alignment explanation
Indices: 2868604--2868666 Score: 108
Period size: 22 Copynumber: 2.8 Consensus size: 22
2868594 GAATTAGGAA
*
2868604 ATTATAATATATTATTATTTATT
1 ATTATTAT-TATTATTATTTATT
2868627 ATTATTATTATTATTATTTATT
1 ATTATTATTATTATTATTTATT
2868649 ATTATTATTATTATTATT
1 ATTATTATTATTATTATT
2868667 ATTTATTCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
22 32 0.82
23 7 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
ATTATTATTATTATTATTTATT
Found at i:2868807 original size:13 final size:13
Alignment explanation
Indices: 2868789--2868818 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2868779 TTGAATTGGT
2868789 TTTTAAATTTTAA
1 TTTTAAATTTTAA
*
2868802 TTTTAATTTTTAA
1 TTTTAAATTTTAA
2868815 TTTT
1 TTTT
2868819 CACAATTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:2870012 original size:21 final size:21
Alignment explanation
Indices: 2869986--2870025 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2869976 GACTATTGCA
2869986 TTGCGATTTCCCAAATTCGAG
1 TTGCGATTTCCCAAATTCGAG
* *
2870007 TTGCGATTTTCCTAATTCG
1 TTGCGATTTCCCAAATTCG
2870026 CAATGCGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (21 bp):
TTGCGATTTCCCAAATTCGAG
Found at i:2870048 original size:20 final size:20
Alignment explanation
Indices: 2870023--2870148 Score: 191
Period size: 20 Copynumber: 6.3 Consensus size: 20
2870013 TTTTCCTAAT
*
2870023 TCGCAATGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
*
2870043 TCGCAACGTGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
*
2870063 TCGCAACGCGATTACGTAAA
1 TCGCAACGCGAATACGTAAA
* *
2870083 TCGTAACGCGAATACGTAAC
1 TCGCAACGCGAATACGTAAA
2870103 TCGCAACGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
2870123 TCGCAACGCGAAT-CTGTAAA
1 TCGCAACGCGAATAC-GTAAA
2870143 TCGCAA
1 TCGCAA
2870149 TGAGATTCTG
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
19 1 0.01
20 95 0.99
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATACGTAAA
Found at i:2870777 original size:20 final size:19
Alignment explanation
Indices: 2870748--2870786 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
2870738 GTAGTGAAGT
2870748 TGCGAAATGAAAATCGCAA
1 TGCGAAATGAAAATCGCAA
2870767 TGCGAAAATGAAAATCGCAA
1 TGCG-AAATGAAAATCGCAA
2870787 CGCGTCATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.49, C:0.15, G:0.21, T:0.15
Consensus pattern (19 bp):
TGCGAAATGAAAATCGCAA
Found at i:2870835 original size:33 final size:34
Alignment explanation
Indices: 2870793--2870861 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 34
2870783 GCAACGCGTC
**
2870793 ATTCACTCGTTGCGATTTTCA-TTTCGCATTGCG
1 ATTCACTCGTTGCGATAGTCATTTTCGCATTGCG
* *
2870826 ATTCTCTCGTTGCGATAGTCATTTTCGCGTTGCG
1 ATTCACTCGTTGCGATAGTCATTTTCGCATTGCG
2870860 AT
1 AT
2870862 AGTCATTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 18 0.58
34 13 0.42
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.42
Consensus pattern (34 bp):
ATTCACTCGTTGCGATAGTCATTTTCGCATTGCG
Found at i:2870858 original size:20 final size:20
Alignment explanation
Indices: 2870833--2870885 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
2870823 GCGATTCTCT
2870833 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
2870853 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
2870873 CGTTGCGATAGTC
1 CGTTGCGATAGTC
2870886 TGTTTTGGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:2871002 original size:14 final size:14
Alignment explanation
Indices: 2870983--2871019 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2870973 CATCAATTAA
2870983 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
2870997 ACAAATCATCTTTT
1 ACAAATCAACATTT
2871011 ACAAATCAA
1 ACAAATCAA
2871020 TTAAACAGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:2872479 original size:42 final size:42
Alignment explanation
Indices: 2872372--2872481 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 42
2872362 TCTAGAATGT
* * *
2872372 TGGGAG-GGACCTCTTCAACGATGACAATGGCCTCTTGAACGG
1 TGGGAGAGG-CCTCTTGAACGATGACAAGGGCCTCTTGAACGA
* * * *
2872414 TGGGAGGGGACTCTTGAGA-GATGATAGGGGCCTCTTGAACGA
1 TGGGAGAGGCCTCTTGA-ACGATGACAAGGGCCTCTTGAACGA
2872456 TAGGG-GAGGCCTCTTGAACGATGACA
1 T-GGGAGAGGCCTCTTGAACGATGACA
2872482 GGTGAGTCGG
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
41 1 0.02
42 48 0.87
43 6 0.11
ACGTcount: A:0.25, C:0.19, G:0.35, T:0.21
Consensus pattern (42 bp):
TGGGAGAGGCCTCTTGAACGATGACAAGGGCCTCTTGAACGA
Found at i:2872986 original size:20 final size:20
Alignment explanation
Indices: 2872963--2873049 Score: 147
Period size: 20 Copynumber: 4.3 Consensus size: 20
2872953 GAAACTTAAA
*
2872963 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
2872983 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
2873003 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
2873023 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
2873043 ATCGCAA
1 ATCGCAA
2873050 CAAGAGAATC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.21
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:2873136 original size:33 final size:31
Alignment explanation
Indices: 2873094--2873199 Score: 128
Period size: 28 Copynumber: 3.5 Consensus size: 31
2873084 GCGATTATAG
* *
2873094 TTTCGCGTTGCGATTTTGTCATTGCAATTTTCA
1 TTTCGCGTTGCGATTTTCTCATTGCGA--TTCA
*
2873127 TTTCGCGTTGCGATTCTCTCATTGCGATTC-
1 TTTCGCGTTGCGATTTTCTCATTGCGATTCA
* *
2873157 --TCTCGTTGCGATTTTCTCGTTGCGATTCA
1 TTTCGCGTTGCGATTTTCTCATTGCGATTCA
2873186 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
2873200 AGTCATTTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
28 25 0.40
31 14 0.22
33 24 0.38
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.45
Consensus pattern (31 bp):
TTTCGCGTTGCGATTTTCTCATTGCGATTCA
Found at i:2873153 original size:14 final size:14
Alignment explanation
Indices: 2873132--2873184 Score: 88
Period size: 14 Copynumber: 3.8 Consensus size: 14
2873122 TTTCATTTCG
2873132 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2873146 CATTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2873160 CGTTGCGATTTTCT
1 CGTTGCGATTCTCT
2873174 CGTTGCGATTC
1 CGTTGCGATTC
2873185 ATTTCGCGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.09, C:0.26, G:0.21, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2873207 original size:19 final size:17
Alignment explanation
Indices: 2873123--2873199 Score: 55
Period size: 14 Copynumber: 5.1 Consensus size: 17
2873113 CATTGCAATT
2873123 TTCATTTCGCGTTGCGA
1 TTCATTTCGCGTTGCGA
* *
2873140 TTC---TCTCATTGCGA
1 TTCATTTCGCGTTGCGA
*
2873154 TTC---TCTCGTTGCGA
1 TTCATTTCGCGTTGCGA
*
2873168 -T--TTTCTCGTTGCGA
1 TTCATTTCGCGTTGCGA
2873182 TTCATTTCGCGTTGCGA
1 TTCATTTCGCGTTGCGA
2873199 T
1 T
2873200 AGTCATTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
13 1 0.02
14 33 0.65
15 1 0.02
17 16 0.31
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.44
Consensus pattern (17 bp):
TTCATTTCGCGTTGCGA
Found at i:2873433 original size:94 final size:94
Alignment explanation
Indices: 2873287--2873759 Score: 817
Period size: 94 Copynumber: 5.1 Consensus size: 94
2873277 ATGGATTGTA
* * *
2873287 TTAC-TTCAACCAAAAGACAAAACAAAGACAAACACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
2873351 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
2873380 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
2873445 TTAGCATAATTGGCGGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
2873474 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAAT-CACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
2873538 TTAGCAGAATTGGCAGCAACTGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
2873567 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
2873632 TTAGCAGAATTGGCAGCAACCAAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
2873661 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* *
2873725 TTTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
2873755 TTACT
1 TTACT
2873760 AAGCAATCTA
Statistics
Matches: 362, Mismatches: 14, Indels: 6
0.95 0.04 0.02
Matches are distributed among these distances:
93 113 0.31
94 249 0.69
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.21
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:2873607 original size:187 final size:187
Alignment explanation
Indices: 2873287--2873759 Score: 822
Period size: 187 Copynumber: 2.5 Consensus size: 187
2873277 ATGGATTGTA
* * *
2873287 TTACTTCAACCAAAAGACAAAACAAAGACAAACACTAACTTCAGAGTATTAAAGAATACACAGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
2873352 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
* * *
2873417 AACTTCACAGTGTTAAAGAATACACAGTTTAGCATAATTGGCGGCAACCGAACAAAT
131 AACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCAAACAAAT
2873474 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAAT-CACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
2873538 TTAGCAGAATTGGCAGCAACTGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATAC
65 TTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATAC
*
2873603 TAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCAAATAAAT
130 TAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCAAACAAAT
*
2873661 TTACTTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAGT
1 TTACTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
2873726 TTAGCAGTATTGGCAGCAACCGAATAAATTTACT
65 TTAGCAGAATTGGCAGCAACCGAACAAATTTACT
2873760 AAGCAATCTA
Statistics
Matches: 271, Mismatches: 12, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
186 19 0.07
187 166 0.61
188 86 0.32
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.21
Consensus pattern (187 bp):
TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
AACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCAAACAAAT
Found at i:2875481 original size:20 final size:20
Alignment explanation
Indices: 2875458--2875513 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
2875448 TGAAATGAAA
2875458 ATCGCAACGAGAGAATGACT
1 ATCGCAACGAGAGAATGACT
*
2875478 ATCGCAACGCG-GAAATGACT
1 ATCGCAACGAGAG-AATGACT
*
2875498 ATAGCAACGAGAGAAT
1 ATCGCAACGAGAGAAT
2875514 CGCAACGTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.41, C:0.20, G:0.25, T:0.14
Consensus pattern (20 bp):
ATCGCAACGAGAGAATGACT
Found at i:2875535 original size:19 final size:19
Alignment explanation
Indices: 2875448--2875558 Score: 88
Period size: 19 Copynumber: 6.0 Consensus size: 19
2875438 GTCTTTTGGT
2875448 TGAAATGAAAATCGCAACG
1 TGAAATGAAAATCGCAACG
* **
2875467 AGAGAATGACTATCGCAACG
1 TGA-AATGAAAATCGCAACG
* ** *
2875487 CGGAAATGACTATAGCAAC-
1 -TGAAATGAAAATCGCAACG
*
2875506 -G--A-GAGAATCGCAACG
1 TGAAATGAAAATCGCAACG
2875521 TGAAATGAAAATCGCAACG
1 TGAAATGAAAATCGCAACG
*
2875540 CGAAATGAAAATCGCAACG
1 TGAAATGAAAATCGCAACG
2875559 AGAGAATCGC
Statistics
Matches: 75, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
14 9 0.12
15 1 0.01
16 1 0.01
17 1 0.01
18 1 0.01
19 32 0.43
20 28 0.37
21 2 0.03
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (19 bp):
TGAAATGAAAATCGCAACG
Found at i:2875561 original size:52 final size:54
Alignment explanation
Indices: 2875457--2875570 Score: 160
Period size: 52 Copynumber: 2.1 Consensus size: 54
2875447 TTGAAATGAA
** **
2875457 AATCGCAACGAGAGAATGACTATCGCAACGCGGAAATGACTATAGCAACGAGAG
1 AATCGCAACGAGAGAATGAAAATCGCAACGCGGAAATGAAAATAGCAACGAGAG
* *
2875511 AATCGCAACGTGA-AATGAAAATCGCAACGC-GAAATGAAAATCGCAACGAGAG
1 AATCGCAACGAGAGAATGAAAATCGCAACGCGGAAATGAAAATAGCAACGAGAG
2875563 AATCGCAA
1 AATCGCAA
2875571 TGCGATTTTG
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 27 0.50
53 15 0.28
54 12 0.22
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.12
Consensus pattern (54 bp):
AATCGCAACGAGAGAATGAAAATCGCAACGCGGAAATGAAAATAGCAACGAGAG
Found at i:2875619 original size:33 final size:33
Alignment explanation
Indices: 2875571--2875651 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 33
2875561 AGAATCGCAA
** *
2875571 TGCGATTTTGGTTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTACGATTATCTCGT
*
2875604 TGCGATTTTCATTTCGCGTTACGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTACGATTATCTCGT
* *
2875637 TGCAATTTTTATTTC
1 TGCGATTTTCATTTC
2875652 TCTCGTTGCG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.48
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTACGATTATCTCGT
Found at i:2875671 original size:21 final size:21
Alignment explanation
Indices: 2875628--2875671 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
2875618 CGCGTTACGA
** *
2875628 TTCTCTCGTTGCAATTTTTAT
1 TTCTCTCGTTGCAATAGTCAT
*
2875649 TTCTCTCGTTGCGATAGTCAT
1 TTCTCTCGTTGCAATAGTCAT
2875670 TT
1 TT
2875672 TTGTGTTGCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.20, G:0.14, T:0.52
Consensus pattern (21 bp):
TTCTCTCGTTGCAATAGTCAT
Found at i:2875689 original size:20 final size:20
Alignment explanation
Indices: 2875656--2875706 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
2875646 TATTTCTCTC
** **
2875656 GTTGCGATAGTCATTTTTGT
1 GTTGCGATTTTCATTTTCAT
2875676 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
*
2875696 GTTGTGATTTT
1 GTTGCGATTTT
2875707 AAGTTTAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.14, C:0.10, G:0.22, T:0.55
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:2876293 original size:20 final size:19
Alignment explanation
Indices: 2876264--2876434 Score: 146
Period size: 20 Copynumber: 8.5 Consensus size: 19
2876254 CTTTAAAAAC
2876264 CGCATTGCGATTTACGAAT
1 CGCATTGCGATTTACGAAT
* *
2876283 ACGCGTTGCGATTTTACGTAT
1 -CGCATTGCGA-TTTACGAAT
* * *
2876304 TGTCGTTGCGATTTACGGAT
1 CG-CATTGCGATTTACGAAT
*
2876324 ACGCATTGCGATTTACGTATT
1 -CGCATTGCGATTTACG-AAT
**
2876345 TTCATTGCGATTTAC-AGAT
1 CGCATTGCGATTTACGA-AT
*
2876364 ACGCGTTGCGATTTACGTAAT
1 -CGCATTGCGATTTACG-AAT
2876385 CGCATTGCGATTTACGTAAT
1 CGCATTGCGATTTACG-AAT
* *
2876405 CGCGTTGCGATTTACGTATT
1 CGCATTGCGATTTACG-AAT
2876425 CGCATTGCGA
1 CGCATTGCGA
2876435 ATTAGGAAAA
Statistics
Matches: 125, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
18 1 0.01
19 1 0.01
20 102 0.82
21 20 0.16
22 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (19 bp):
CGCATTGCGATTTACGAAT
Found at i:2876353 original size:40 final size:40
Alignment explanation
Indices: 2876264--2876434 Score: 229
Period size: 40 Copynumber: 4.2 Consensus size: 40
2876254 CTTTAAAAAC
*
2876264 CGCATTGCGATTTACGAATACGCGTTGCGATTTTACGTATT
1 CGCATTGCGATTTACGGATACGCGTTGCGA-TTTACGTATT
* *
2876305 -GTCGTTGCGATTTACGGATACGCATTGCGATTTACGTATT
1 CG-CATTGCGATTTACGGATACGCGTTGCGATTTACGTATT
** * *
2876345 TTCATTGCGATTTACAGATACGCGTTGCGATTTACGTAAT
1 CGCATTGCGATTTACGGATACGCGTTGCGATTTACGTATT
*
2876385 CGCATTGCGATTTACGTA-ATCGCGTTGCGATTTACGTATT
1 CGCATTGCGATTTACGGATA-CGCGTTGCGATTTACGTATT
2876425 CGCATTGCGA
1 CGCATTGCGA
2876435 ATTAGGAAAA
Statistics
Matches: 114, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 88 0.77
41 25 0.22
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (40 bp):
CGCATTGCGATTTACGGATACGCGTTGCGATTTACGTATT
Found at i:2876433 original size:60 final size:60
Alignment explanation
Indices: 2876264--2876434 Score: 206
Period size: 60 Copynumber: 2.8 Consensus size: 60
2876254 CTTTAAAAAC
*
2876264 CGCATTGCGATTTACG-AATACGCGTTGCGATTTTACGTATT-GTCGTTGCGATTTACGGATA
1 CGCATTGCGATTTACGTAAT-CGCGTTGCGA-TTTACGTATTCG-CGTTGCGATTTACGAATA
* ** * *
2876325 CGCATTGCGATTTACGTATTTTCATTGCGATTTACAG-ATACGCGTTGCGATTTACGTAAT-
1 CGCATTGCGATTTACGTAATCGCGTTGCGATTTAC-GTATTCGCGTTGCGATTTACG-AATA
*
2876385 CGCATTGCGATTTACGTAATCGCGTTGCGATTTACGTATTCGCATTGCGA
1 CGCATTGCGATTTACGTAATCGCGTTGCGATTTACGTATTCGCGTTGCGA
2876435 ATTAGGAAAA
Statistics
Matches: 93, Mismatches: 12, Indels: 11
0.80 0.10 0.09
Matches are distributed among these distances:
59 1 0.01
60 63 0.68
61 27 0.29
62 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (60 bp):
CGCATTGCGATTTACGTAATCGCGTTGCGATTTACGTATTCGCGTTGCGATTTACGAATA
Found at i:2876457 original size:21 final size:21
Alignment explanation
Indices: 2876431--2876476 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
2876421 TATTCGCATT
*
2876431 GCGAATTAGGAAAATTGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
2876452 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
2876473 GCGA
1 GCGA
2876477 TGGTCAGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.20
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:2878455 original size:95 final size:94
Alignment explanation
Indices: 2878273--2878516 Score: 280
Period size: 95 Copynumber: 2.7 Consensus size: 94
2878263 TATAATATTA
* *
2878273 TATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCACCTTTATGGA
1 TATATATACAATAAAGATTGAGCTGTCCCTCTAGAGCAATTGGTTAAACGCCCCACCTTTATGGA
* * * *
2878338 TAATATTCGGCTAGCCTGATAAAGGTGAT
66 TAAGATTCAGCTAACCTAATAAAGGTGAT
*
2878367 TATACTATACAATAAAGATTGAGCTGTCCCTCTA-AGGCAATTGGTTAAACGGCCCGA-CTTTAT
1 TATA-TATACAATAAAGATTGAGCTGTCCCTCTAGA-GCAATTGGTTAAAC-GCCCCACCTTTAT
*
2878430 GGATAAGATTCAGTTAACCTAATAAAGGTG--
63 GGATAAGATTCAGCTAACCTAATAAAGGTGAT
**
2878460 --T-T-TAC-AT----ATTGAGCTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGA
1 TATATATACAATAAAGATTGAGCTGTCCCTCTAGAGCAATTGGTTAAACGCCCCACCTTTATGGA
2878516 T
66 T
2878517 TCAGCTAGCC
Statistics
Matches: 135, Mismatches: 10, Indels: 21
0.81 0.06 0.13
Matches are distributed among these distances:
82 4 0.03
83 41 0.30
84 1 0.01
87 2 0.01
88 3 0.02
89 1 0.01
91 1 0.01
94 5 0.04
95 72 0.53
96 5 0.04
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (94 bp):
TATATATACAATAAAGATTGAGCTGTCCCTCTAGAGCAATTGGTTAAACGCCCCACCTTTATGGA
TAAGATTCAGCTAACCTAATAAAGGTGAT
Found at i:2879790 original size:84 final size:83
Alignment explanation
Indices: 2879620--2880665 Score: 907
Period size: 84 Copynumber: 12.6 Consensus size: 83
2879610 TTAAAGACAA
* ** * * * * * *
2879620 CATTTGCAGCATAACTCAAGGATAGAAAGGTTATCTGCCAACAAAGACCTTCAAGTTCGATTACA
1 CATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
* * *
2879685 CTCAGCTTCGAGGGAACAT
66 CTCAGC-TCCAAGGCACAT
* * * * *
2879704 CATTTACAGTATAACTCT-AGGCTAAAAGGATTATCTGTCACCAAAAGACCTTCGAGTTCGACTA
1 CATTTGCAGCATAACT-TAAGGCGAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTA
* *
2879768 CGCTCAGCTCTAAGGCATAT
64 CGCTCAGCTCCAAGGCACAT
* * * *
2879788 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTTGAGTTTGACTAC
1 CATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTG-TCACCAAAGACCTTCGAGTTCGACTAC
*
2879853 GCTCAGCTCCAAGACACAT
65 GCTCAGCTCCAAGGCACAT
* * * ** *
2879872 CATTTGCAGCATAGCTTAAGTCGAAAAGGACTATCTG---CCAAAGACCCTT-GAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGTCACCAAAGA-CCTTCGAGTTCGACTAC
* ** *
2879933 ACTCAGCTTTGAGGGCACAT
65 GCTCAGC-TCCAAGGCACAT
* * * * * *
2879953 CATTTACAACATAACTCAAGGCTAGAAGAGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTAC
*
2880018 GCTCAGCTCCAAGGCATAT
65 GCTCAGCTCCAAGGCACAT
* * *
2880037 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTCGAGTTTGACTAC
1 CATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTG-TCACCAAAGACCTTCGAGTTCGACTAC
2880102 GCTCAGCTCCAAGGCACAT
65 GCTCAGCTCCAAGGCACAT
* * * * * * * *
2880121 CATTTGCAGCATAGCTTAAGTCGAGGAGGGCTATCTG---CTAAAGACCATCGAGTTCGATTACA
1 CATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
* * *
2880183 CTCATCTTCGAGGGCACAT
66 CTCAGC-TCCAAGGCACAT
* * * * * *
2880202 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTATGACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTAC
*
2880267 GC-CTAGCTCCAAGGCATAT
65 GCTC-AGCTCCAAGGCACAT
* * * * *
2880286 CATTTACAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAA
1 CATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTAC
2880351 GCTCAGCTCCAAGGCACAT
65 GCTCAGCTCCAAGGCACAT
* * * * * *
2880370 CATTTGCAACATAGCTTAAGTCGAGAA-GGTCTATCTG---GCAAAGACCCTCGAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGGCGAGAAGGGT-TATCTGTCACCAAAGACCTTCGAGTTCGACTAC
* * *
2880431 ACTCAGCTTCGAGGGCACAT
65 GCTCAGC-TCCAAGGCACAT
* * * * * * * * *
2880451 CATTTGCAGCATAGCTCAAGGCAAGAAGAGCTATCTGCCAACC-AAGACCTTCAAGTTCCATTAC
1 CATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTAC
* *
2880515 ACTCAGCTCCAAGGCATAT
65 GCTCAGCTCCAAGGCACAT
* ** * * * ** * *
2880534 CGTTTGCAATATAGCTCAAGGCAAGAAAAGCTAT-TTTCCAACCAAAGACCTTCGAGTTCGACTA
1 CATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGT-C-ACCAAAGACCTTCGAGTTCGACTA
* *
2880598 CGCTCAACTCTAAGGCACAT
64 CGCTCAGCTCCAAGGCACAT
* * *
2880618 CATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGA
1 CATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTG-TCACCAAAGA
2880666 TCTGACAAGT
Statistics
Matches: 781, Mismatches: 150, Indels: 62
0.79 0.15 0.06
Matches are distributed among these distances:
80 74 0.09
81 116 0.15
82 2 0.00
83 48 0.06
84 455 0.58
85 85 0.11
86 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (83 bp):
CATTTGCAGCATAACTTAAGGCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACAT
Found at i:2880002 original size:165 final size:166
Alignment explanation
Indices: 2879620--2880665 Score: 945
Period size: 165 Copynumber: 6.3 Consensus size: 166
2879610 TTAAAGACAA
* *** * * * *
2879620 CATTTGCAGCATAACTCAAGGATAGAAAGGTTATCTGCCAA-CAAAGACCTTCAAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTCGAGTTCGACTAC
* * * * * ** * * * **
2879684 ACTCAGCTTCGAGGGAACATCATTTACAGTATAACTCT-AGGCTAAAAGGATTATCTGTCACCAA
66 GCTCAGC-TCCAAGGCACATCATTTGCAACATAACT-TAAGTCGAGAAGGGCTATCTG--ACC-A
* *
2879748 AAGACCTTCGAGTTCGACTACGCTCAGC-TCTAAGGCATAT
126 AAGACCTTCGAGTTCGACTACGCTCAGCTTCCAAGGCACAT
* *
2879788 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTTGAGTTTGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTCGAGTTCGACTAC
* * * * *
2879853 GCTCAGCTCCAAGACACATCATTTGCAGCATAGCTTAAGTCGAAAAGGACTATCTG-CCAAAGAC
66 GCTCAGCTCCAAGGCACATCATTTGCAACATAACTTAAGTCGAGAAGGGCTATCTGACCAAAGA-
* * ** *
2879917 CCTT-GAGTTCGATTACACTCAGCTTTGAGGGCACAT
130 CCTTCGAGTTCGACTACGCTCAGCTTCCAAGGCACAT
* * * * * * *
2879953 CATTTACAACATAACTCAAGGCTAGAAGAGTTATCTG-TGACCAAAAGACCTTCGAGTTCGACTA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACC-AAAGACCTTCGAGTTCGACTA
* * *
2880017 CGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAA
65 CGCTCAGCTCCAAGGCACATCATTTGCAACATAACTTAAGTCGAGAAGGGCTATCTG---ACCAA
*
2880082 AGACCTTCGAGTTTGACTACGCTCAGC-TCCAAGGCACAT
127 AGACCTTCGAGTTCGACTACGCTCAGCTTCCAAGGCACAT
* * * * *
2880121 CATTTGCAGCATAGCTTAAGTCGAGGAGGGCTATCTGCT----AAAGACCATCGAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTCGAGTTCGACTAC
* * * * * * * * *
2880182 ACTCATCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTATGACCAAA
66 GCTCAGC-TCCAAGGCACATCATTTGCAACATAACTTAAGTCGAGAAGGGCTATC--TGACC-AA
*
2880247 AGACCTTCGAGTTCGACTACGC-CTAGC-TCCAAGGCATAT
127 AGACCTTCGAGTTCGACTACGCTC-AGCTTCCAAGGCACAT
* * * *
2880286 CATTTACAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTCGAGTTCGACTAC
* * *
2880351 GCTCAGCTCCAAGGCACATCATTTGCAACATAGCTTAAGTCGAGAAGGTCTATCTG-GCAAAGAC
66 GCTCAGCTCCAAGGCACATCATTTGCAACATAACTTAAGTCGAGAAGGGCTATCTGACCAAAGAC
* * * * *
2880415 CCTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
131 CTTCGAGTTCGACTACGCTCAGCTTCCAAGGCACAT
* * * * * * * * * *
2880451 CATTTGCAGCATAGCTCAAGGCAAGAAGAGCTATCTGCCAACC-AAGACCTTCAAGTTCCATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTCGAGTTCGACTAC
* * * * * * * * ** **
2880515 ACTCAGCTCCAAGGCATATCGTTTGCAATATAGCTCAAGGCAAGAAAAGCTATTTTCCAACCAAA
66 GCTCAGCTCCAAGGCACATCATTTGCAACATAACTTAAGTCGAGAAGGGCTA---TCTGACCAAA
* *
2880580 GACCTTCGAGTTCGACTACGCTCAAC-TCTAAGGCACAT
128 GACCTTCGAGTTCGACTACGCTCAGCTTCCAAGGCACAT
*
2880618 CATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGA
2880666 TCTGACAAGT
Statistics
Matches: 716, Mismatches: 135, Indels: 54
0.79 0.15 0.06
Matches are distributed among these distances:
164 138 0.19
165 270 0.38
166 2 0.00
167 52 0.07
168 181 0.25
169 73 0.10
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (166 bp):
CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCCAAGGCACATCATTTGCAACATAACTTAAGTCGAGAAGGGCTATCTGACCAAAGAC
CTTCGAGTTCGACTACGCTCAGCTTCCAAGGCACAT
Found at i:2880099 original size:249 final size:249
Alignment explanation
Indices: 2879661--2880655 Score: 1424
Period size: 249 Copynumber: 4.0 Consensus size: 249
2879651 TATCTGCCAA
* * * ** *
2879661 CAAAGACCTTCAAGTTCGATTACACTCAGCTTCGAGGGAACATCATTTACAGTATAACTCTAGGC
1 CAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGC
* * *
2879726 TAAAAG-GATTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCA
66 TAGAAGAG-TTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCA
* * *
2879790 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTTGAGTTTGACTACGC
130 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGC
* * *
2879855 TCAGCTCCAAGACACATCATTTGCAGCATAGCTTAAGTCGAAAAGGACTATCTGC
195 TCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC
* *
2879910 CAAAGACCCTTGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTACAACATAACTCAAGGC
1 CAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGC
2879975 TAGAAGAGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCAT
66 TAGAAGAGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCAT
* *
2880040 TTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTCGAGTTTGACTACGCT
131 TTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCT
*
2880105 CAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGGAGGGCTATCTGC
196 CAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC
* * *
2880159 TAAAGACCATCGAGTTCGATTACACTCATCTTCGAGGGCACATCATTTACAACATAACTCAAGGC
1 CAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGC
* *
2880224 TAGAAGGGTTATCTATGACCAAAAGACCTTCGAGTTCGACTACGC-CTAGCTCCAAGGCATATCA
66 TAGAAGAGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTC-AGCTCCAAGGCATATCA
* * *
2880288 TTTACAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAAGC
130 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGC
* * *
2880353 TCAGCTCCAAGGCACATCATTTGCAACATAGCTTAAGTCGAGAAGGTCTATCTGG
195 TCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC
* * *
2880408 CAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAGCTCAAGGC
1 CAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGC
* * * * * *
2880473 AAGAAGAGCTATC--TG-CCAACCAAGACCTTCAAGTTCCATTACACTCAGCTCCAAGGCATATC
66 TAGAAGAGTTATCTGTGACCAA--AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
* ** * * * * ** * * *
2880535 GTTTGCAATATAGCTCAAGGCAAGAAAAGCTATTTTCCAACCAAAGACCTTCGAGTTCGACTACG
129 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* * *
2880600 CTCAACTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGC
194 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC
2880656 TAACCAAAGA
Statistics
Matches: 677, Mismatches: 64, Indels: 11
0.90 0.09 0.01
Matches are distributed among these distances:
246 4 0.01
247 2 0.00
248 138 0.20
249 532 0.79
250 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (249 bp):
CAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGC
TAGAAGAGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCAT
TTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCT
CAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC
Found at i:2880941 original size:17 final size:16
Alignment explanation
Indices: 2880907--2880954 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
2880897 CTAAAAAAAC
*
2880907 ATTA-TATTATGTTATT
1 ATTATTATTAT-TTTTT
2880923 ATTATTATTAATTTTTT
1 ATTATTATT-ATTTTTT
2880940 ATTATTATTATTTTT
1 ATTATTATTATTTTT
2880955 GTAGGATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 10 0.34
17 17 0.59
18 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
ATTATTATTATTTTTT
Found at i:2885008 original size:29 final size:29
Alignment explanation
Indices: 2884972--2885047 Score: 125
Period size: 29 Copynumber: 2.6 Consensus size: 29
2884962 AACTAAATTT
*
2884972 ATGTAAGCAATGACATCATTACTTAAATG
1 ATGTAAGCAATGACATCATTAATTAAATG
*
2885001 ATGTAAGCAATGACATCTTTAATTAAATG
1 ATGTAAGCAATGACATCATTAATTAAATG
*
2885030 ATGTAAGTAATGACATCA
1 ATGTAAGCAATGACATCA
2885048 ATTTAGTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (29 bp):
ATGTAAGCAATGACATCATTAATTAAATG
Found at i:2889758 original size:29 final size:29
Alignment explanation
Indices: 2889715--2889797 Score: 112
Period size: 29 Copynumber: 2.8 Consensus size: 29
2889705 CTCACCTAAC
* *
2889715 TAAATTGATGTAAGCATTGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
* *
2889745 TAAATGATATAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
2889774 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
2889798 ATTTAGTTTG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 42 0.91
30 4 0.09
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:2892324 original size:29 final size:29
Alignment explanation
Indices: 2892282--2892338 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
2892272 TTTTCACCTA
*
2892282 ACTAAATTGATGTAAGCAATGACATCAAT
1 ACTAAATTGATGTAAACAATGACATCAAT
2892311 ACTAAATTGATGTAAACAATGACATCAA
1 ACTAAATTGATGTAAACAATGACATCAA
2892339 ATTAATTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.26
Consensus pattern (29 bp):
ACTAAATTGATGTAAACAATGACATCAAT
Found at i:2896972 original size:29 final size:29
Alignment explanation
Indices: 2896930--2896988 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
2896920 ATTTTCACTT
2896930 AACTAAATTGATGTAAACAATGACATCAA
1 AACTAAATTGATGTAAACAATGACATCAA
*
2896959 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAACAATGACATCAA
2896988 A
1 A
2896989 TTAATTTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.51, C:0.14, G:0.12, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAACAATGACATCAA
Found at i:2897901 original size:46 final size:45
Alignment explanation
Indices: 2897796--2897902 Score: 119
Period size: 45 Copynumber: 2.4 Consensus size: 45
2897786 GTGCACTAAG
*
2897796 AGTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCTG
1 AGTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCTA
* * * *
2897841 AGTGCATCGCTGCATCAAATGTATTTGATGTTTTCATAAA-A-CTCTA
1 AGTGCATCGATGCATAAAATGCATTCGATG-TTTCA-AAATAGC-CTA
*
2897887 AGTTCATCGATGCATA
1 AGTGCATCGATGCATA
2897903 GTATGTGCAT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
45 27 0.53
46 21 0.41
47 3 0.06
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (45 bp):
AGTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCTA
Found at i:2900207 original size:13 final size:13
Alignment explanation
Indices: 2900189--2900213 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2900179 AATCAAAAAC
2900189 ATCAAATTTAGAA
1 ATCAAATTTAGAA
2900202 ATCAAATTTAGA
1 ATCAAATTTAGA
2900214 TTTTTGATTT
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:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (13 bp):
ATCAAATTTAGAA
Found at i:2900644 original size:23 final size:22
Alignment explanation
Indices: 2900614--2900694 Score: 101
Period size: 23 Copynumber: 3.6 Consensus size: 22
2900604 ATCCGATAAA
2900614 TGCATCGATGCACATTCAAGGCG
1 TGCATCGATGCACATTCAAGG-G
* *
2900637 TGCATCGATGCACCTTC-ATGG
1 TGCATCGATGCACATTCAAGGG
*
2900658 TGTATCGATGCACATTCAAAGGG
1 TGCATCGATGCACATTC-AAGGG
2900681 ATGCATCGATGCAC
1 -TGCATCGATGCAC
2900695 TGTTAAGTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
21 16 0.33
22 2 0.04
23 19 0.39
24 12 0.24
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGG
Found at i:2900705 original size:44 final size:44
Alignment explanation
Indices: 2900617--2900713 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 44
2900607 CGATAAATGC
*
2900617 ATCGATGCACATTCAAGGCGTGCATCGATGCACCTTCATGGTGT
1 ATCGATGCACATTCAAGGCGTGCATCGATGCACCTTCATAGTGT
*
2900661 ATCGATGCACATTCAAAGG-GATGCATCGATGCA-CTGTTA-AGTGT
1 ATCGATGCACATTC-AAGGCG-TGCATCGATGCACCT-TCATAGTGT
2900705 ATCGATGCA
1 ATCGATGCA
2900714 TGAAGCACAA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
44 30 0.62
45 18 0.38
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGCGTGCATCGATGCACCTTCATAGTGT
Found at i:2909609 original size:20 final size:21
Alignment explanation
Indices: 2909584--2909622 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
2909574 TCATGCAATG
2909584 GGTATCGATACT-ATAGGTGA
1 GGTATCGATACTCATAGGTGA
2909604 GGTATCGATACTCATAGGT
1 GGTATCGATACTCATAGGT
2909623 TATTATCGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (21 bp):
GGTATCGATACTCATAGGTGA
Found at i:2909816 original size:13 final size:13
Alignment explanation
Indices: 2909798--2909825 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2909788 GTATCTATAC
2909798 TTAAACTAGAGTA
1 TTAAACTAGAGTA
2909811 TTAAACTAGAGTA
1 TTAAACTAGAGTA
2909824 TT
1 TT
2909826 GATACCCAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (13 bp):
TTAAACTAGAGTA
Found at i:2915871 original size:2 final size:2
Alignment explanation
Indices: 2915864--2915913 Score: 66
Period size: 2 Copynumber: 24.5 Consensus size: 2
2915854 AGTACACGTG
*
2915864 TA TA TA TA TCA TG TA TA TA TA TA TA TA TA TA TA TA TA TA CT- TA
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
2915907 TA TA TA T
1 TA TA TA T
2915914 TAATTTTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
1 1 0.02
2 39 0.91
3 3 0.07
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2923167 original size:17 final size:17
Alignment explanation
Indices: 2923130--2923168 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
2923120 TAACTCTATT
* *
2923130 TATTTTTAAACTCTATT
1 TATTTTTAAACTCAATG
2923147 TATTTTTAAACTCAATG
1 TATTTTTAAACTCAATG
2923164 TATTT
1 TATTT
2923169 ATTTTGAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.56
Consensus pattern (17 bp):
TATTTTTAAACTCAATG
Found at i:2923173 original size:21 final size:17
Alignment explanation
Indices: 2923121--2923159 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
2923111 ACTCAATCGT
2923121 AACTCTATTTATTTTTA
1 AACTCTATTTATTTTTA
2923138 AACTCTATTTATTTTTA
1 AACTCTATTTATTTTTA
2923155 AACTC
1 AACTC
2923160 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (17 bp):
AACTCTATTTATTTTTA
Found at i:2924004 original size:6 final size:6
Alignment explanation
Indices: 2923993--2924021 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
2923983 CTAAAACATA
2923993 ATAATT ATAATT ATAATT ATAATT ATAAT
1 ATAATT ATAATT ATAATT ATAATT ATAAT
2924022 GATTCATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATAATT
Found at i:2924635 original size:11 final size:11
Alignment explanation
Indices: 2924619--2924644 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2924609 ACAATAACAT
2924619 AAAATAAATAA
1 AAAATAAATAA
2924630 AAAATAAATAA
1 AAAATAAATAA
2924641 AAAA
1 AAAA
2924645 ATGTAAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATAAATAA
Found at i:2924758 original size:2 final size:2
Alignment explanation
Indices: 2924751--2924825 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
2924741 AGTTATATGA
2924751 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2924793 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2924826 ATAACTTATA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2924886 original size:33 final size:33
Alignment explanation
Indices: 2924849--2924916 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 33
2924839 AAGGTATAAA
* * ** *
2924849 AATAATAGTAATAATAAGTATTAAAATAAAAAT
1 AATAATAATAATAATAAATAAAAAAACAAAAAT
*
2924882 AATAATAATAGTAATAAATAAAAAAACAAAAAT
1 AATAATAATAATAATAAATAAAAAAACAAAAAT
2924915 AA
1 AA
2924917 AAGAAATTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.25
Consensus pattern (33 bp):
AATAATAATAATAATAAATAAAAAAACAAAAAT
Found at i:2924904 original size:30 final size:30
Alignment explanation
Indices: 2924844--2924904 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
2924834 TAAACAAGGT
* *
2924844 ATAAAAATAATAGTAATAATAAGTATTAAA
1 ATAAAAATAATAATAATAATAAGTAATAAA
*
2924874 ATAAAAATAATAATAATAGTAA-TAAATAAA
1 ATAAAAATAATAATAATAATAAGT-AATAAA
2924904 A
1 A
2924905 AAACAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (30 bp):
ATAAAAATAATAATAATAATAAGTAATAAA
Found at i:2924957 original size:2 final size:2
Alignment explanation
Indices: 2924950--2924978 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2924940 ATCAAAGTAA
2924950 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2924979 AATAAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2924995 original size:15 final size:16
Alignment explanation
Indices: 2924975--2925004 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2924965 TATATATATA
2924975 TATAAAT-AAATAAAG
1 TATAAATGAAATAAAG
2924990 TATAAATGAAATAAA
1 TATAAATGAAATAAA
2925005 TAATAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (16 bp):
TATAAATGAAATAAAG
Found at i:2926382 original size:99 final size:98
Alignment explanation
Indices: 2926226--2926417 Score: 285
Period size: 99 Copynumber: 1.9 Consensus size: 98
2926216 CTGGAACTGG
* * * * *
2926226 GAAATTGTTTGTTGACAGTCAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCT
1 GAAATTGTTTGTTGACAATCAGCCGCCCATTCGCTGTGAAGTTGAACTTGTACTGTCTCGAGTCT
*
2926291 AATATCCTTCGTTGTGAAGTTGAAATTGACTCT
66 AATATCCTTCGCTGTGAAGTTGAAATTGACTCT
* * *
2926324 GAAAGTTGTTTGTTGACAATCAGTCGTCCATTCGCTGTGAAGTTGAACTTGTATTGTCTCGAGTC
1 GAAA-TTGTTTGTTGACAATCAGCCGCCCATTCGCTGTGAAGTTGAACTTGTACTGTCTCGAGTC
*
2926389 TAATATCTTTCGCTGTGAAGTTGAAATTG
65 TAATATCCTTCGCTGTGAAGTTGAAATTG
2926418 GCACGATATC
Statistics
Matches: 83, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
98 4 0.05
99 79 0.95
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (98 bp):
GAAATTGTTTGTTGACAATCAGCCGCCCATTCGCTGTGAAGTTGAACTTGTACTGTCTCGAGTCT
AATATCCTTCGCTGTGAAGTTGAAATTGACTCT
Found at i:2938268 original size:15 final size:15
Alignment explanation
Indices: 2938221--2938276 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
2938211 TAAACAAGGT
2938221 ATAAAAAAAATAGTA
1 ATAAAAAAAATAGTA
** * *
2938236 ATAATAAGTATTA-AA
1 ATAA-AAAAAATAGTA
2938251 ATAAAAAAAATAGTA
1 ATAAAAAAAATAGTA
2938266 ATAAATAAAAA
1 ATAAA-AAAAA
2938277 AACAAAAATA
Statistics
Matches: 30, Mismatches: 8, Indels: 5
0.70 0.19 0.12
Matches are distributed among these distances:
14 5 0.17
15 15 0.50
16 10 0.33
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.23
Consensus pattern (15 bp):
ATAAAAAAAATAGTA
Found at i:2938283 original size:27 final size:28
Alignment explanation
Indices: 2938223--2938284 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 28
2938213 AACAAGGTAT
*
2938223 AAAAAAAATAGTAATAATAAGTATTAAAAT
1 AAAAAAAATAGTAATAATAAG-A-TAAAAC
2938253 AAAAAAAATAGTAATAAATAA-A-AAAAC
1 AAAAAAAATAGTAAT-AATAAGATAAAAC
2938280 AAAAA
1 AAAAA
2938285 TAAAAGAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 9 0.30
29 1 0.03
30 15 0.50
31 5 0.17
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (28 bp):
AAAAAAAATAGTAATAATAAGATAAAAC
Found at i:2938958 original size:2 final size:2
Alignment explanation
Indices: 2938951--2938993 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2938941 CGAAAATGAC
2938951 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2938993 A
1 A
2938994 CTTTAACCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2948270 original size:146 final size:145
Alignment explanation
Indices: 2948007--2948274 Score: 419
Period size: 146 Copynumber: 1.8 Consensus size: 145
2947997 AGATGTTAAA
*
2948007 AAATTGACTTCTGAGCATTCTTTATAAAATCATCCTAGAACTTCAATTTCTTTATCCTTGAAATA
1 AAATTGACTTCTGAGCATTCTTTATAAAATCATCCTAGAACTTCAATTTCTTTATCCTCGAAATA
*
2948072 TGTAAACAAACATCCATAGGTATTTGATTTCATTAAGATGATACACCACTTAGAATTTGATATAC
66 TGTAAACAAACATCCATAGGTATTTGATTTCAGTAAGATGATACACCACTTAGAATTTGATATAC
2948137 AAGTTGCCACTTAGG
131 AAGTTGCCACTTAGG
* * *
2948152 AAATTGACTTCTGAGCATTCTTTATAAAAATCATTCTAGATCTTCAGTTTCTTTATCCTCGAAAT
1 AAATTGACTTCTGAGCATTCTTTAT-AAAATCATCCTAGAACTTCAATTTCTTTATCCTCGAAAT
* * ** ** *
2948217 ATGTAAGCAAACATCCGTAGGTATTTGATTTTGGTAAGATGATATGCCCCTTAGAATT
65 ATGTAAACAAACATCCATAGGTATTTGATTTCAGTAAGATGATACACCACTTAGAATT
2948275 ATTTCTGATA
Statistics
Matches: 110, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
145 25 0.23
146 85 0.77
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (145 bp):
AAATTGACTTCTGAGCATTCTTTATAAAATCATCCTAGAACTTCAATTTCTTTATCCTCGAAATA
TGTAAACAAACATCCATAGGTATTTGATTTCAGTAAGATGATACACCACTTAGAATTTGATATAC
AAGTTGCCACTTAGG
Found at i:2951425 original size:30 final size:30
Alignment explanation
Indices: 2951369--2951461 Score: 107
Period size: 30 Copynumber: 3.0 Consensus size: 30
2951359 GTCTCGAAAG
*
2951369 ACCTATCCATATGTTCCGAATA-ACATAGGT
1 ACCTATCCATATGTCCCGAA-AGACATAGGT
*
2951399 ACCTATCCATATGTCCCGAAAGACATATGT
1 ACCTATCCATATGTCCCGAAAGACATAGGT
* * *
2951429 AATACTGTCCATATGTCCCGAAGGACATAGGT
1 -A-CCTATCCATATGTCCCGAAAGACATAGGT
2951461 A
1 A
2951462 ACCCTCGACT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
29 1 0.02
30 26 0.48
31 2 0.04
32 25 0.46
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (30 bp):
ACCTATCCATATGTCCCGAAAGACATAGGT
Found at i:2951986 original size:2 final size:2
Alignment explanation
Indices: 2951979--2952014 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2951969 ACTTAACTTC
2951979 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2952015 CTCATGCACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2952456 original size:21 final size:22
Alignment explanation
Indices: 2952432--2952484 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
2952422 AGTTCCCCCG
2952432 GGTATCGATACC-CTCCACATA-
1 GGTATCGATACCTCTCC-CATAT
*
2952453 GGTATCGATACCTCTTCCATAT
1 GGTATCGATACCTCTCCCATAT
2952475 GGTATCGATA
1 GGTATCGATA
2952485 ATCAATATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (22 bp):
GGTATCGATACCTCTCCCATAT
Done.