Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008493.1 Hibiscus syriacus cultivar Beakdansim tig00111336_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: 691020
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 4
Found at i:624717 original size:23 final size:22
Alignment explanation
Indices: 624682--624725 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
624672 TGGCTTATAG
*
624682 ATATTTGCATTAATGTATGAAC
1 ATATTTGCATTAATGGATGAAC
*
624704 ATATTATGTATTAATGGATGAA
1 ATATT-TGCATTAATGGATGAA
624726 AATAAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.41
Consensus pattern (22 bp):
ATATTTGCATTAATGGATGAAC
Found at i:625596 original size:44 final size:44
Alignment explanation
Indices: 625508--625685 Score: 172
Period size: 44 Copynumber: 4.2 Consensus size: 44
625498 GAGAATGATG
* *
625508 AAATTAAGGGCCT-AATTATAAA-GTAAAAAGTGGGATTG-AAA
1 AAATTAAGGGCCTCAATTATAAAGGTAAAAAATGAGATTGAAAA
*
625549 AAATTAAGGGCCTCAATTATAAAGGTAAAAAATAAGATTGAAAA
1 AAATTAAGGGCCTCAATTATAAAGGTAAAAAATGAGATTGAAAA
* * * *
625593 AAATT-AGTGGTCTCAATTATGAAGATAAAAAGTGAGATT-AAAA
1 AAATTAAG-GGCCTCAATTATAAAGGTAAAAAATGAGATTGAAAA
* ** * * *
625636 AAA-T-AGGTGCCTCTATTATAAATTTTAAAAATGGGATTAAAAA
1 AAATTAAGG-GCCTCAATTATAAAGGTAAAAAATGAGATTGAAAA
625679 AAATTAA
1 AAATTAA
625686 AACCTCTATT
Statistics
Matches: 113, Mismatches: 16, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
41 14 0.12
42 34 0.30
43 29 0.26
44 35 0.31
45 1 0.01
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.27
Consensus pattern (44 bp):
AAATTAAGGGCCTCAATTATAAAGGTAAAAAATGAGATTGAAAA
Found at i:625636 original size:86 final size:86
Alignment explanation
Indices: 625521--625684 Score: 206
Period size: 86 Copynumber: 1.9 Consensus size: 86
625511 TTAAGGGCCT
* *
625521 AATTATAAAGTAAAAAGTGGGATTGAAAAAATTAAGG-GCCTCAATTATAAAGGTAAAAAATAAG
1 AATTATAAAGTAAAAAGTGAGATTGAAAAAAAT-AGGTGCCTCAATTATAAAGGTAAAAAATAAG
*
625585 ATTGAAAAAAATTAGTGGTCTC
65 ATTAAAAAAAATTAGTGGTCTC
* * ** * **
625607 AATTATGAAGATAAAAAGTGAGATT-AAAAAAATAGGTGCCTCTATTATAAATTTTAAAAATGGG
1 AATTATAAAG-TAAAAAGTGAGATTGAAAAAAATAGGTGCCTCAATTATAAAGGTAAAAAATAAG
625671 ATTAAAAAAAATTA
65 ATTAAAAAAAATTA
625685 AAACCTCTAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
85 3 0.05
86 50 0.76
87 13 0.20
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.27
Consensus pattern (86 bp):
AATTATAAAGTAAAAAGTGAGATTGAAAAAAATAGGTGCCTCAATTATAAAGGTAAAAAATAAGA
TTAAAAAAAATTAGTGGTCTC
Found at i:628775 original size:210 final size:210
Alignment explanation
Indices: 628370--628777 Score: 500
Period size: 210 Copynumber: 1.9 Consensus size: 210
628360 TTGCTACTGT
* * * *
628370 ACCACACATGTTAATCAATGCCTACAAGAATGTCTTAGCTGTTGTAGTTGCCACAAAGTATTCTT
1 ACCACACATGTTAATCAATGCCTACAAGAATGTCTTACCTGTTGCAATTGCCACAAAGTATTCGT
* * ** * *
628435 TCCCTCAGGCTGATAAGGTGAAAGAGTATTTCTCAGAATGGAATCAACTCTTAACCTGTTAATTA
66 TCCCTCAGGCTGACAAGATGAAAGAGTATTTAGCAGAATGGAATCAACTCTTAACATGTTAATCA
* * * *
628500 TTTCAAAATTTCCTATCATTTAAGATTCAACTAATTGTTGTACGCTTCCAATATCAAAGCAAATT
131 TTTCAAAAGTTCCTATCATTTAAGATTCAACTAATTGTTGCACACTTCCAAGATCAAAGCAAATT
628565 TGCCGTTGTTGCTGC
196 TGCCGTTGTTGCTGC
* * * ** *
628580 ACCAGACATGTTCATCAATGCCTACAAGAATGTCTTTCCTGTTGCAATTGCCACGGAGTGTTCGT
1 ACCACACATGTTAATCAATGCCTACAAGAATGTCTTACCTGTTGCAATTGCCACAAAGTATTCGT
* * *
628645 TCCC-CGAGGTTGACACGATGAAAGAGTATTTAGCGGTAA-GGAAT-AGACTCTTAACATGTTAA
66 TCCCTC-AGGCTGACAAGATGAAAGAGTATTTAGCAG-AATGGAATCA-ACTCTTAACATGTTAA
* * * * *
628707 TCATTTCAAAAGTTCCTATCTTTTTTAGATTCAATTAATTGTTGCACACTTCCAGGATCCAA-CA
128 TCATTTCAAAAGTTCCTATC-ATTTAAGATTCAACTAATTGTTGCACACTTCCAAGATCAAAGCA
628771 AATTTGC
192 AATTTGC
628778 AGTTTGTCGA
Statistics
Matches: 166, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
209 2 0.01
210 129 0.78
211 35 0.21
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (210 bp):
ACCACACATGTTAATCAATGCCTACAAGAATGTCTTACCTGTTGCAATTGCCACAAAGTATTCGT
TCCCTCAGGCTGACAAGATGAAAGAGTATTTAGCAGAATGGAATCAACTCTTAACATGTTAATCA
TTTCAAAAGTTCCTATCATTTAAGATTCAACTAATTGTTGCACACTTCCAAGATCAAAGCAAATT
TGCCGTTGTTGCTGC
Found at i:631969 original size:209 final size:210
Alignment explanation
Indices: 631465--632225 Score: 888
Period size: 209 Copynumber: 3.7 Consensus size: 210
631455 GTTACTGTTG
* * * *
631465 CACCTCACATGTTCATTAGTGTCTACAAGAATGTCTTGGCTGTTGCAGTTGCCAC-GAAGTATTC
1 CACCACACATGTTCATCAATGCCTACAAGAATGTCTTGGCTGTTGCAGTTGCCACTG-AGTATTC
* * * * * *
631529 GTTCCCTAAGGCTGATAAGGAGAAAGAATATTTGGCAGTATGGAATTGACTCTTAACCTGTTAGT
65 ATTCCCTAAGGTTGATAAGGTGAAAGAGTATTTGGCAGTATGGAATCGACTCTTAACCTGTTAAT
* *
631594 TATTTC-AAATTTCCTATC-TTTTGACATTC-ACTAATTGTTGCACACTT-TCAGGATCCAAGAA
130 TATTTCAAAATTTCCTATCTTTTTAAGATTCAACTAATTGTTGCACACTTCT-AGGATCCAAGAA
* * *
631655 ATTTGTAGTTGCTACTG
194 ATTTGCAGTTGCTGCTA
* * * * * *
631672 CGCCACACATGTTCATC-ATGCCTACAAGAATATCTTAGCTGTTGCAGGTGCCACAGAGTATTCT
1 CACCACACATGTTCATCAATGCCTACAAGAATGTCTTGGCTGTTGCAGTTGCCACTGAGTATTCA
* * * *
631736 TTCCC-AAGGTTGATAAGGTGAAAGAGTATTTGG-AGGTATAGAATTGAGTCTTAACCTATTAAT
66 TTCCCTAAGGTTGATAAGGTGAAAGAGTATTTGGCA-GTATGGAATCGACTCTTAACCTGTTAAT
* * *
631799 TATTTCAAAATTTCCTATCTTTTTAAGATTCAATTAATTATTGCACGCTTCTAGGATCCAAGCAA
130 TATTTCAAAATTTCCTATCTTTTTAAGATTCAACTAATTGTTGCACACTTCTAGGATCCAAG-AA
*
631864 ATTTGCAGTTGCTGCTC
194 ATTTGCAGTTGCTGCTA
* * *
631881 CACCACACATGTTCATCAATGCCTACAAGAAT-T-TTGGTTGTTACTGTTGCCACTGAGTATTCA
1 CACCACACATGTTCATCAATGCCTACAAGAATGTCTTGGCTGTTGCAGTTGCCACTGAGTATTCA
* *
631944 TTCCCTAAGGCTT-ATAAGCTGAAAGAGTATTTGGTAGTATGGAATCGACT-TTAAACCTGTTAA
66 TTCCCTAAGG-TTGATAAGGTGAAAGAGTATTTGGCAGTATGGAATCGACTCTT-AACCTGTTAA
* * *
632007 TTATTTCAAAATTTCCTATGTTTTTAAGATTCAACTAATTGTTGAACACTTCCAGGATCCAAGAA
129 TTATTTCAAAATTTCCTATCTTTTTAAGATTCAACTAATTGTTGCACACTTCTAGGATCCAAG-A
* * *
632072 AATTTTCAGTTGTTGTTA
193 AATTTGCAGTTGCTGCTA
* * * *
632090 CACCACATATGTTC-TCAATGCCTATAAGAATGTCTTGGCTATTGCAGTTTCCA-TGGAGTATTC
1 CACCACACATGTTCATCAATGCCTACAAGAATGTCTTGGCTGTTGCAGTTGCCACT-GAGTATTC
* * * * *
632153 ATTCTCTAAGGTTGATAAGGTGAAAAAGTATTTAGG--GTATGGAATCAACTCTTAACTTGTTAC
65 ATTCCCTAAGGTTGATAAGGTGAAAGAGTATTT-GGCAGTATGGAATCGACTCTTAACCTGTTAA
632216 TTATTTCAAA
129 TTATTTCAAA
632226 GGTTGATAAG
Statistics
Matches: 475, Mismatches: 61, Indels: 34
0.83 0.11 0.06
Matches are distributed among these distances:
204 1 0.00
205 55 0.12
206 56 0.12
207 24 0.05
208 71 0.15
209 198 0.42
210 68 0.14
211 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (210 bp):
CACCACACATGTTCATCAATGCCTACAAGAATGTCTTGGCTGTTGCAGTTGCCACTGAGTATTCA
TTCCCTAAGGTTGATAAGGTGAAAGAGTATTTGGCAGTATGGAATCGACTCTTAACCTGTTAATT
ATTTCAAAATTTCCTATCTTTTTAAGATTCAACTAATTGTTGCACACTTCTAGGATCCAAGAAAT
TTGCAGTTGCTGCTA
Found at i:632270 original size:64 final size:64
Alignment explanation
Indices: 632160--632289 Score: 163
Period size: 64 Copynumber: 2.0 Consensus size: 64
632150 TTCATTCTCT
* * * *
632160 AAGGTTGATAAGGTGAAAAAGTATTTAGGGTATGGAATCAACTCTTAACTTGTTACTTATTTCA
1 AAGGTTGATAAGGTGAAAAAGTATTTAGGGTATAGAATCAACTCTTAACCTATTAATTATTTCA
* * ** *
632224 AAGGTTGATAAGGTG-AAAGGTATTTGGAGGTATAGAATTGAGTCTTAACCTATTAATTATTTCA
1 AAGGTTGATAAGGTGAAAAAGTATTTAG-GGTATAGAATCAACTCTTAACCTATTAATTATTTCA
632288 AA
1 AA
632290 ATTTCCTATC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
63 10 0.18
64 46 0.82
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (64 bp):
AAGGTTGATAAGGTGAAAAAGTATTTAGGGTATAGAATCAACTCTTAACCTATTAATTATTTCA
Found at i:633455 original size:413 final size:414
Alignment explanation
Indices: 632624--634201 Score: 1575
Period size: 407 Copynumber: 3.8 Consensus size: 414
632614 CAGTTTCCAT
*
632624 GCTTCCAGGATCCAAACAAATTTGCACTTGTTGCTGCACCACACATGTTC-TCAATGCCTACAAA
1 GCTTCCAGGATCCAAACAAATTTGCAATTGTTGCTGCACCACACATGTTCATCAATGCCTA-AAA
* * * *
632688 -AATATCTTGGTAGTTGCAGTTG--TCGTGAGTATTCTTTCCCTTAGCTTATAAGATGAAAG-A-
65 GAATATCTTGGTAGTTGTAGTTGCCACG-GAGTATTC-TTCCCTAAGCTGATAAGATGAAAGAAT
* * * * *
632748 GTTTGGC-GTATGGAATCGACTCTT-ACATGTTAATTTTTCAAAATTTCCTATCTTTTTTATGTT
128 ATTTGGCGGTATGGAATCAACTCTTAACCTGTT-ATTATTCAAAATTTCCTATCTTTTTTACGTT
* * * * *
632811 CAATTAATT-TTGCATGCTTCCAGGATCC-AGCCAATGAGCAGTTGATACTGAACCACACATGTT
192 CAATTAATTGTTGAATGCTTCCAGGATCCAAG-AAATTAGCAGTTGATGCTGAACAACACATGTT
* * *
632874 CATCATTGTCTACAAGAATGTCTTGGTTGTTGCAGTTACCA-AAGAGTATTCTTTCCCTCAGGCT
256 CATCAATGCCTACAAGAA-GTCTTGGCTGTTGCAGTTACCACAA-AGTATTCTTTCCCTCAGGCT
* *
632938 AATAAGGTGAAAGAGTATTTGGAGGTATAGAATCGAGTCTTAATCTGTTAATTA--TCAAAATTT
319 AATAAGGTGAAAGAGTATTTGGAGGTATAGAATCGAATCTTAACCTGTTAATTATTTCAAAA-TT
** * *
633001 TCTATCTTTCCAATATTGAACTAATTGTAT-CA
383 TCTATCTTTTTAAGATTCAACTAATTGT-TGCA
* * * * *
633033 -CATTTCCAGGATCCAAGCAAATTTGCAATTATTGTTGTACCACACATGTTCATCAATGTCTAAA
1 GC--TTCCAGGATCCAAACAAATTTGCAATTGTTGCTGCACCACACATGTTCATCAATGCCTAAA
* * * * *
633097 AGAATTTCTTGGTTGTTGTAGTTGCCACGGAGCATCCGTTCCCTAAGGCTGATAAGATGAAGGAA
64 AGAATATCTTGGTAGTTGTAGTTGCCACGGAGTATTC-TTCCCTAA-GCTGATAAGATGAAAGAA
* *
633162 TATTTAGCGGTATTGAATCAACTCTTAACCTGTTATTATTC-AAATTTCCTATCTTTTTTACGTT
127 TATTTGGCGGTATGGAATCAACTCTTAACCTGTTATTATTCAAAATTTCCTATCTTTTTTACGTT
*
633226 CAATTAATTGTTGAATGCTTCCAGGATCCAAAGCAAATTAGTAGTTG-TGCTGAACAACACATGT
192 CAATTAATTGTTGAATGCTTCCAGGATCC-AAG-AAATTAGCAGTTGATGCTGAACAACACATGT
*
633290 TCATCAATGCCTACAAG-A-TCTTGGCTGTTGTAGTTACCACAAAGTATTCTTTCCCTCAGGCTA
255 TCATCAATGCCTACAAGAAGTCTTGGCTGTTGCAGTTACCACAAAGTATTCTTTCCCTCAGGCTA
* *
633353 AT-AGGTGAAAGAGTATTTGGAGGTATAGAATCGAAAC-AAACCTGTTAATTATTTCAAAATTTC
320 ATAAGGTGAAAGAGTATTTGGAGGTATAGAATCGAATCTTAACCTGTTAATTATTTCAAAATTT-
* *
633416 CTATCTTTTTAAGATTCAACCAGTTGTTGCA
384 CTATCTTTTTAAGATTCAACTAATTGTTGCA
* * * *
633447 GCTTCCAGGATCTAAGA-AAATTTGCAGTTGTTGCTGCACTACACATGTTCATCAATGCCTATAA
1 GCTTCCAGGATCCAA-ACAAATTTGCAATTGTTGCTGCACCACACATGTTCATCAATGCCTAAAA
* * * * * *
633511 GAATGTCTTGGTTGTTG--CTTGCCACGGAGTATTCATTCCCTAAGCTGATAAGGTAAAAGAGTA
65 GAATATCTTGGTAGTTGTAGTTGCCACGGAGTATTC-TTCCCTAAGCTGATAAGATGAAAGAATA
** * * * * *
633574 TTTGGCATTATGG-A--AACTCTCTAACCTATTAAT-TTCAAATTTTCCTATC-TATTTAAGATT
129 TTTGGCGGTATGGAATCAACTCT-TAACCTGTTATTATTCAAAATTTCCTATCTTTTTTACG-TT
* * * * * * * *
633634 CAA-TAATTGTTGCACGCTTCCAGGATCCAAGAAATTTGTAGTTGTTGTTGCATCAAAACATGTT
192 CAATTAATTGTTGAATGCTTCCAGGATCCAAGAAATTAGCAGTTGATGCTG-AACAACACATGTT
* * * ** * * *
633698 CATTAATGCCTACAAGAAGTCTTGGCTGTTGCAGTT-GC-CATAGTATTCGGTCTCTAAGGTTAA
256 CATCAATGCCTACAAGAAGTCTTGGCTGTTGCAGTTACCACAAAGTATTCTTTCCCTCAGGCTAA
* * * * * * * *
633761 TAATGTGAAAG-GTGTTT-TAGCAGTATGGAATCGACTCTTAACTTGATACTTATTTCAAAAGTT
321 TAAGGTGAAAGAGTATTTGGAG--GTATAGAATCGAATCTTAACCTGTTAATTATTTCAAAA-TT
* *
633824 TCTATCTTTTT-AGATTCAATTAATTGATGCA
383 TCTATCTTTTTAAGATTCAACTAATTGTTGCA
* * * * *
633855 CGCTT-CAGGATCCAAAC-AATTTGCATTTGCTGCTGCACCGCACATGTTTATCAATGCCTACAA
1 -GCTTCCAGGATCCAAACAAATTTGCAATTGTTGCTGCACCACACATGTTCATCAATGCCTAAAA
** * * *
633918 GAATATCTTGGTAGTTGTAGTTGCCGTGGAGT-TTCTTTCCTCAGGCTGATAAGATGAAA-ACTA
65 GAATATCTTGGTAGTTGTAGTTGCCACGGAGTATTCTTCCCT-AAGCTGATAAGATGAAAGAATA
* * * *
633981 TTT-TCGGTATGGAATAAACTCTTAACCTATTTATTATTTCAAAATTTTCTATCTTTTTTACGTT
129 TTTGGCGGTATGGAATCAACTCTTAACCT-GTTATTA-TTCAAAATTTCCTATCTTTTTTACGTT
* * * * * *
634045 CAATTAATAGTT-ACATGCTTCTAGGATCCAAGATAATTAACAGTTGCTGTTGAACCACACATGT
192 CAATTAATTGTTGA-ATGCTTCCAGGATCCAAGA-AATTAGCAGTTGATGCTGAACAACACATGT
* * * * *
634109 TCATCAATGCCTACAAGAATGTCTTGGTTGTTGTAGCTGCCACAGAGTATTCTTTCCCTCAGGCT
255 TCATCAATGCCTACAAGAA-GTCTTGGCTGTTGCAGTTACCACAAAGTATTCTTTCCCTCAGGCT
* *
634174 AATAAGGTGTAAGAGTA-TTGGAAGTATA
319 AATAAGGTGAAAGAGTATTTGGAGGTATA
634202 TGTTGAGTCA
Statistics
Matches: 963, Mismatches: 153, Indels: 101
0.79 0.13 0.08
Matches are distributed among these distances:
405 12 0.01
406 15 0.02
407 157 0.16
408 97 0.10
409 69 0.07
410 74 0.08
411 69 0.07
412 82 0.09
413 150 0.16
414 77 0.08
415 69 0.07
416 43 0.04
417 36 0.04
418 13 0.01
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (414 bp):
GCTTCCAGGATCCAAACAAATTTGCAATTGTTGCTGCACCACACATGTTCATCAATGCCTAAAAG
AATATCTTGGTAGTTGTAGTTGCCACGGAGTATTCTTCCCTAAGCTGATAAGATGAAAGAATATT
TGGCGGTATGGAATCAACTCTTAACCTGTTATTATTCAAAATTTCCTATCTTTTTTACGTTCAAT
TAATTGTTGAATGCTTCCAGGATCCAAGAAATTAGCAGTTGATGCTGAACAACACATGTTCATCA
ATGCCTACAAGAAGTCTTGGCTGTTGCAGTTACCACAAAGTATTCTTTCCCTCAGGCTAATAAGG
TGAAAGAGTATTTGGAGGTATAGAATCGAATCTTAACCTGTTAATTATTTCAAAATTTCTATCTT
TTTAAGATTCAACTAATTGTTGCA
Found at i:637180 original size:4 final size:4
Alignment explanation
Indices: 637173--638012 Score: 1224
Period size: 4 Copynumber: 215.8 Consensus size: 4
637163 AATAACAAAA
* * * * *
637173 GTAT GTAT GTGT GTAT GCAT GTAT -TCAT GTAT GTGT GTAT GCAT ATAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GT-AT GTAT GTAT GTAT GTAT GTAT
* * * * * * *
637221 GTGT GTAT GCAT GTAT GTGT GTAT GCAT GCAT GTGT GTAT GTAT GCAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * *
637269 GTAT GTAT GTAT GTAT ATAT GTAT ATAT GTAT ATAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * *
637317 ATAT GTGT GTAT GCAT GCAT G--T GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
637363 GTAT GTAT GTAT ATAT GTAT GTAT GTA- -TAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
637409 GTAT GTAT GTAT -TAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* *
637456 GTAT GTAT GCAT GTAT G-AT GCAT GTAT GTAT G--T GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
637501 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
637548 GTAT GTAT GTAT GTA- -TAT GTAT GTAT GTAT GTAT GTA- GTAT GTA-
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
637592 -TAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G-AT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
637638 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* *
637685 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GCAT GTCT G--T GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * *
637731 GTA- GTAT GTAT GTAT GCAT GCAT G--T GTAT GTAT GTAT GTAT GCAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
637776 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
637824 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
637872 GTAT G--T GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
637918 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT ATAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * *
637966 GTAT GTAT GTAT GTAT ATGT GTAT GTAT GTGT GTAT GTAT GTAT GTA
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA
638013 GATAATATTT
Statistics
Matches: 759, Mismatches: 52, Indels: 50
0.88 0.06 0.06
Matches are distributed among these distances:
2 16 0.02
3 22 0.03
4 720 0.95
5 1 0.00
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:641325 original size:56 final size:56
Alignment explanation
Indices: 641077--641558 Score: 745
Period size: 56 Copynumber: 8.7 Consensus size: 56
641067 CTACCAATAT
* * * * * *
641077 GGAAATTCATACACTTAATATAAATTTCCT-AGTTTTGCACATATAGTGGCCATAC
1 GGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCCATAC
* * * * *
641132 AGAAATTCACCCACTTAGTATGAATTTCTTAA-ATTTAAACATAAAGTGCCCATAC
1 GGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCCATAC
* *
641187 CGAAATTCATCCACTTAGTATGAATTTCTCAAGTTTTACACATATAGTGCCCATAC
1 GGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCCATAC
*
641243 -AAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCCATAC
1 GGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCCATAC
*
641298 GGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCAATAC
1 GGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCCATAC
* * * *
641354 GAAAATTCATCCACTTAGTATGAATTTCTTAATTTTTACACATTTAGTTCCCATAC
1 GGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCCATAC
* *
641410 GAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCCATAG
1 GGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCCATAC
*
641466 GGAAATTCATCCACTTAGTATGAATTTCTTACGTTTTACACATATAGTGCCCATAC
1 GGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCCATAC
641522 GGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTT
1 GGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTT
641559 TCCACACTTA
Statistics
Matches: 390, Mismatches: 34, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
55 124 0.32
56 266 0.68
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (56 bp):
GGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCCATAC
Found at i:641941 original size:22 final size:20
Alignment explanation
Indices: 641897--641968 Score: 83
Period size: 22 Copynumber: 3.5 Consensus size: 20
641887 TGGCTCCTCA
* *
641897 GTATCGATACCCATACCAGG
1 GTATCGATACCCATACTACG
641917 GTATCGATACTACCATACTACG
1 GTATCGATAC--CCATACTACG
* *
641939 GTACCGATACCC-TACTATG
1 GTATCGATACCCATACTACG
641958 GTATCGATACC
1 GTATCGATACC
641969 ATTTTTACAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 16 0.36
20 12 0.27
22 17 0.38
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (20 bp):
GTATCGATACCCATACTACG
Found at i:641954 original size:19 final size:19
Alignment explanation
Indices: 641927--641970 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
641917 GTATCGATAC
641927 TACCATACTACGGTACCGA
1 TACCATACTACGGTACCGA
* * *
641946 TACCCTACTATGGTATCGA
1 TACCATACTACGGTACCGA
641965 TACCAT
1 TACCAT
641971 TTTTACATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.27
Consensus pattern (19 bp):
TACCATACTACGGTACCGA
Found at i:642039 original size:20 final size:20
Alignment explanation
Indices: 641991--642040 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
641981 TGTTCTAAAT
* *
641991 GGTATCGACACCTTCCCTTT
1 GGTATCGATACCTTCCCTTC
642011 GGTATCGATA-CTCTCCCTTC
1 GGTATCGATACCT-TCCCTTC
642031 GGTATCGATA
1 GGTATCGATA
642041 TTGATTGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.18, C:0.30, G:0.18, T:0.34
Consensus pattern (20 bp):
GGTATCGATACCTTCCCTTC
Found at i:646234 original size:20 final size:21
Alignment explanation
Indices: 646197--646249 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
646187 CTCTTTTGAA
*
646197 TGGTATCGATTC-CTTCCCTT
1 TGGTATCGATACTCTTCCCTT
646217 TGGTATCGATACTC-TCCCTT
1 TGGTATCGATACTCTTCCCTT
* *
646237 CGTTATCGATACT
1 TGGTATCGATACT
646250 ACTCAGCTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.15, C:0.28, G:0.15, T:0.42
Consensus pattern (21 bp):
TGGTATCGATACTCTTCCCTT
Found at i:648171 original size:162 final size:162
Alignment explanation
Indices: 647883--648194 Score: 448
Period size: 162 Copynumber: 1.9 Consensus size: 162
647873 CATTTCTACA
* *
647883 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCGTATCAAAATTA
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCAAAACTA
647948 AGTGTGCAACCCATGGAATTCATAATAAGTTTATGAACGACCATATCAACACTAAGTGTGCAACC
66 AGTGTGCAACCCATGGAATTCATAATAAGTTTATGAACGACCATATCAACACTAAGTGTGCAACC
648013 CACAGAA-TTCATAATAAGTTTATGAACGATCG
131 CACAGAACTT-ATAATAAGTTTATGAACGATCG
* * ***
648045 TATCGGCACTAAGTGTGCAACCCACGAAATTTATAATAAGTTTATGAACGACTGTATCGGCACTA
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCAAAACTA
* * * * * * *
648110 AGTGTGCAACTCATGGAATTCATAATGAGTTTATGAATGACCGTATCGGA-ACTACGTGTGCACC
66 AGTGTGCAACCCATGGAATTCATAATAAGTTTATGAACGACCATATC-AACACTAAGTGTGCAAC
* *
648174 CCACGGAACTTATAATGAGTT
130 CCACAGAACTTATAATAAGTT
648195 GAAATAATTA
Statistics
Matches: 132, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
162 129 0.98
163 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (162 bp):
TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCAAAACTA
AGTGTGCAACCCATGGAATTCATAATAAGTTTATGAACGACCATATCAACACTAAGTGTGCAACC
CACAGAACTTATAATAAGTTTATGAACGATCG
Found at i:648189 original size:54 final size:54
Alignment explanation
Indices: 647883--648194 Score: 385
Period size: 54 Copynumber: 5.8 Consensus size: 54
647873 CATTTCTACA
* * *
647883 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCG
1 TATCGGAACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
** * * *
647937 TATCAAAATTAAGTGTGCAACCCATGGAATTCATAATAAGTTTATGAACGACCA
1 TATCGGAACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
* * *
647991 TATC-AACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGATCG
1 TATCGGA-ACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
* * * *
648045 TATCGGCACTAAGTGTGCAACCCACGAAATTTATAATAAGTTTATGAACGACTG
1 TATCGGAACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
* * * * *
648099 TATCGGCACTAAGTGTGCAACTCATGGAATTCATAATGAGTTTATGAATGACCG
1 TATCGGAACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
* * *
648153 TATCGGAACTACGTGTGCACCCCACGGAACTT-ATAATGAGTT
1 TATCGGAACTAAGTGTGCAACCCACGGAA-TTCATAATAAGTT
648195 GAAATAATTA
Statistics
Matches: 223, Mismatches: 32, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
53 2 0.01
54 219 0.98
55 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (54 bp):
TATCGGAACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
Found at i:650118 original size:211 final size:211
Alignment explanation
Indices: 649754--651074 Score: 1119
Period size: 211 Copynumber: 6.3 Consensus size: 211
649744 CAACATACAT
* * *
649754 AATCGAGTCTTAACCTGTTACTTATTTCAAAATTTTCTATCTTTTTAAGATTCAACTAATTGTTG
1 AATCGAATATTAACCTGTTAATTATTTCAAAATTTTCTATCTTTTTAAGATTCAACTAATTGTTG
* ** * * *
649819 CACATTTGCAA-GATCCAATAAAATTAGTAGTTGCTGCTGA-ACCACACATGTTCATCATTGCCT
66 CACGTTT-CAAGGATCCAAGCAAATTTGCAGTTGCTGCT-ACACCACACATGTTCATCAATGCCT
* * * *
649882 ATAAGAATGTCTTGGTTGTTGCAGTTGCCACAGAGTATTATTTCTCTCAAACTAATAAGGTGAAA
129 ATAAGAATGTCTTGGTTGTTGCAGTTGCCACAGAGTATTCTTTCCCTCAAGCTGATAAGGTGAAA
* **
649947 GAGTATTTGGTGGTATAA
194 GAGTATTTGGCGGTATGG
* * * * * * *
649965 AATCGAGTATTCACTTGTAAATTATTTCAAAATTTTATATCTTTTTATGATTCAACTAATTTTTG
1 AATCGAATATTAACCTGTTAATTATTTCAAAATTTTCTATCTTTTTAAGATTCAACTAATTGTTG
* * * *
650030 TACGTTTCAAGGATCCAAGCAAATTTGTAGTTACTGCTACACCACACATGTTCACCAATGCCTAC
66 CACGTTTCAAGGATCCAAGCAAATTTGCAGTTGCTGCTACACCACACATGTTCATCAATGCCTA-
* * * * ** * * * *
650095 T-AGAATGTATAGGCTGTTGCAGTTGCCACATAACATTCTTTCCATCAGGTTGATAAGATGAAAG
130 TAAGAATGTCTTGGTTGTTGCAGTTGCCACAGAGTATTCTTTCCCTCAAGCTGATAAGGTGAAAG
* *
650159 TGTATTTGACGGTATGG
195 AGTATTTGGCGGTATGG
* * * *** *
650176 AATCGACTCTTAACCTGTTAATTATTTCAAAATTTTCTATCTTTTTGACG-TTCGGTTAGTTGTT
1 AATCGAATATTAACCTGTTAATTATTTCAAAATTTTCTATCTTTTT-AAGATTCAACTAATTGTT
** * * * * * * * *
650240 AAATGCTTCCAA-GATACAAGCAAATTAGCAGTTGTTGTTAAACCATACATGTTCATCAATGCCT
65 GCACG-TTTCAAGGATCCAAGCAAATTTGCAGTTGCTGCTACACCACACATGTTCATCAATGCCT
* * * * *
650304 ATAAGAATGTCTTGGTTGTTGCAGTTGCCATAGAGTATTCTTTCCCTCAGGCTAATAAGATAAAA
129 ATAAGAATGTCTTGGTTGTTGCAGTTGCCACAGAGTATTCTTTCCCTCAAGCTGATAAGGTGAAA
* * *
650369 TAGTATTTGGAGGTATAG
194 GAGTATTTGGCGGTATGG
* * * * * * *
650387 AATTGAATCA-TAACCAGTTAGTTATTTTAAAATTTCCTATCTTTTTAAGATTCAAATAATTATT
1 AATCGAAT-ATTAACCTGTTAATTATTTCAAAATTTTCTATCTTTTTAAGATTCAACTAATTGTT
* * * * * * * * * * *
650451 TCTCGCTTT-TAGGATCCAATCAAGTTTACAGTTGTTACTGCACTACACATGTTTATCAATGCCT
65 GCACG-TTTCAAGGATCCAAGCAAATTTGCAGTTGCTGCTACACCACACATGTTCATCAATGCCT
* ** * * *
650515 ATAAGAATATCTTGGTTGTTGTTGTTTCAATAGAGTATT-TATTCCCT-AAGGCTGATAAGGTGA
129 ATAAGAATGTCTTGGTTGTTGCAGTTGCCACAGAGTATTCT-TTCCCTCAA-GCTGATAAGGTGA
*
650578 AAGAGTATTTGGCAGTATGG
192 AAGAGTATTTGGCGGTATGG
* * *
650598 AATCGAATCTAAACCTGTTAATTATTTCAAAA-TTTCATATCTTTTTAAGATTCAACTAATTATT
1 AATCGAATATTAACCTGTTAATTATTTCAAAATTTTC-TATCTTTTTAAGATTCAACTAATTGTT
* * * * * * *
650662 GCACGCTTCCAGGATCTAAGCAAATTTGCAGTTGTTGTTGCACCACAAATGTTCATCAATGCCTA
65 GCACGTTTCAAGGATCCAAGCAAATTTGCAGTTGCTGCTACACCACACATGTTCATCAATGCCTA
* * * * * * *
650727 CAAGAATGTCTTGTTTGTTGTAGTTGTCACAAAGTATTCTCTT-TCT-AAGATTGATAAGGTGAA
130 TAAGAATGTCTTGGTTGTTGCAGTTGCCACAGAGTATTCT-TTCCCTCAAG-CTGATAAGGTGAA
* *
650790 AGATTATTTAGCGGTATGG
193 AGAGTATTTGGCGGTATGG
* * * * * ** * *
650809 AATTGACTTTTAACCTGATACTTATTTCAAAATTTTCTAGATTTTTAAGATTCAATTAATTGATG
1 AATCGAATATTAACCTGTTAATTATTTCAAAATTTTCTATCTTTTTAAGATTCAACTAATTGTTG
* * * * * *
650874 CACGCTTCTAGGATCCAAACAAATTTGCAGCTGCTGCTGCACCACACATGTTCATTAATGCCTAT
66 CACGTTTCAAGGATCCAAGCAAATTTGCAGTTGCTGCTACACCACACATGTTCATCAATGCCTAT
* ** ** *
650939 AAGAATATCTTGGCATT-TT-CAGTTGTAGTACA-A-TATTCTTTCCCTCTGGCTGATAAGATGA
131 AAGAATGTCTTGG--TTGTTGCAGTTG--CCACAGAGTATTCTTTCCCTCAAGCTGATAAGGTGA
* * * * *
651000 AAAAGTATTTTGTGGCATAG
192 AAGAGTATTTGGCGGTATGG
* * * * *
651020 AATCGACTCTTAACATGTTAATCATTTCAAAATTTCCTATCTTTTTGAAG-TTCAA
1 AATCGAATATTAACCTGTTAATTATTTCAAAATTTTCTATCTTTTT-AAGATTCAA
651075 TAAATAGTTA
Statistics
Matches: 885, Mismatches: 201, Indels: 48
0.78 0.18 0.04
Matches are distributed among these distances:
210 18 0.02
211 840 0.95
212 22 0.02
213 5 0.01
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (211 bp):
AATCGAATATTAACCTGTTAATTATTTCAAAATTTTCTATCTTTTTAAGATTCAACTAATTGTTG
CACGTTTCAAGGATCCAAGCAAATTTGCAGTTGCTGCTACACCACACATGTTCATCAATGCCTAT
AAGAATGTCTTGGTTGTTGCAGTTGCCACAGAGTATTCTTTCCCTCAAGCTGATAAGGTGAAAGA
GTATTTGGCGGTATGG
Found at i:650573 original size:422 final size:417
Alignment explanation
Indices: 649754--651074 Score: 1293
Period size: 422 Copynumber: 3.1 Consensus size: 417
649744 CAACATACAT
* *
649754 AATCGAGTCTTAACCTGTTACTTATTTCAAAATTTTCTATCTTTTTAAGATTCAACTAATTGTTG
1 AATCGACTCTTAACCTGTTAATTATTTCAAAATTTTCTATCTTTTTAAGATTCAACTAATTGTT-
* ** * * * *
649819 CACAT--TTGCAAGATCCAATAAAATTAGTAGTTGCTGCTGAACCACACATGTTCATCATTGCCT
65 -ACATGCTTCCAAGAT-CAAGCAAATTAGCAGTTGTTGTTGAACCACACATGTTCATCAATGCCT
* *
649882 ATAAGAATGTCTTGGTTGTTGCAGTTGCCACAGAGTATTATTTCTCTCAAACTAATAAGGTGAAA
128 ATAAGAATGTCTTGGTTGTTGCAGTTGCCACAGAGTATTCTTTCTCTCAGACTAATAAGGTGAAA
* * * * * * * *
649947 GAGTATTTGGTGGTATAAAATCGAGTATTCACTTGTAAATTATTTCAAAATTTTATATCTTTTTA
193 GAGTATTTGGAGGTATAGAATTGAATA-TAACCTGTTAATTATTTCAAAATTTTCTATCTTTTTA
* * * * * * * *
650012 TGATTCAACTAATT-TTTGTACG-TTTCAAGGATCCAAGCAAATTTGTAGTTACTGCTACACCAC
257 AGATTCAAATAATTATTTCT-CGCTTT-TAGGATCCAAACAAATTTGCAGTTGCTGCTGCACCAC
* * * * * ** * * *
650075 ACATGTTCACCAATGCCTACT-AGAATGTATAGGCTGTTGCAGTTGCCACATAACATTCTTTCCA
320 ACATGTTCATCAATGCCTA-TAAGAATATCTTGGTTGTTGTTGTT-TCA-ATAATATTCTTTCCC
* *
650139 TCAGGTTGATAAGATGAAAGTGTATTTGACGGTATGG
382 TCAGGCTGATAAGATGAAAGAGTATTTG-CGGTATGG
* *** *
650176 AATCGACTCTTAACCTGTTAATTATTTCAAAATTTTCTATCTTTTTGACG-TTCGGTTAGTTGTT
1 AATCGACTCTTAACCTGTTAATTATTTCAAAATTTTCTATCTTTTT-AAGATTCAACTAATTGTT
* * *
650240 AAATGCTTCCAAGATACAAGCAAATTAGCAGTTGTTGTTAAACCATACATGTTCATCAATGCCTA
65 ACATGCTTCCAAGAT-CAAGCAAATTAGCAGTTGTTGTTGAACCACACATGTTCATCAATGCCTA
* * * * * *
650305 TAAGAATGTCTTGGTTGTTGCAGTTGCCATAGAGTATTCTTTCCCTCAGGCTAATAAGATAAAAT
129 TAAGAATGTCTTGGTTGTTGCAGTTGCCACAGAGTATTCTTTCTCTCAGACTAATAAGGTGAAAG
* * * *
650370 AGTATTTGGAGGTATAGAATTGAATCATAACCAGTTAGTTATTTTAAAATTTCCTATCTTTTTAA
194 AGTATTTGGAGGTATAGAATTGAAT-ATAACCTGTTAATTATTTCAAAATTTTCTATCTTTTTAA
* * * * * *
650435 GATTCAAATAATTATTTCTCGCTTTTAGGATCCAATCAAGTTTACAGTTGTTACTGCACTACACA
258 GATTCAAATAATTATTTCTCGCTTTTAGGATCCAAACAAATTTGCAGTTGCTGCTGCACCACACA
* *
650500 TGTTTATCAATGCCTATAAGAATATCTTGGTTGTTGTTGTTTCAATAGAGTATT-TATTCCCTAA
323 TGTTCATCAATGCCTATAAGAATATCTTGGTTGTTGTTGTTTCAATA-A-TATTCT-TTCCCTCA
* *
650564 GGCTGATAAGGTGAAAGAGTATTTGGCAGTATGG
385 GGCTGATAAGATGAAAGAGTATTT-GCGGTATGG
* * *
650598 AATCGAATCTAAACCTGTTAATTATTTCAAAA-TTTCATATCTTTTTAAGATTCAACTAATTATT
1 AATCGACTCTTAACCTGTTAATTATTTCAAAATTTTC-TATCTTTTTAAGATTCAACTAATTGTT
* * * * * *
650662 GCACGCTTCCAGGATCTAAGCAAATTTGCAGTTGTTGTTGCACCACAAATGTTCATCAATGCCTA
65 ACATGCTTCCAAGATC-AAGCAAATTAGCAGTTGTTGTTGAACCACACATGTTCATCAATGCCTA
* * * * * * * *
650727 CAAGAATGTCTTGTTTGTTGTAGTTGTCACAAAGTATTCTCTT-TCTAAGATTGATAAGGTGAAA
129 TAAGAATGTCTTGGTTGTTGCAGTTGCCACAGAGTATTCT-TTCTCTCAGACTAATAAGGTGAAA
* * * * * * * * **
650791 GATTATTTAGCGGTATGGAATTGACTTTTAACCTGATACTTATTTCAAAATTTTCTAGATTTTTA
193 GAGTATTTGGAGGTATAGAATTGA-ATATAACCTGTTAATTATTTCAAAATTTTCTATCTTTTTA
* * * * *
650856 AGATTCAATTAATTGA-TGCACGCTTCTAGGATCCAAACAAATTTGCAGCTGCTGCTGCACCACA
257 AGATTCAAATAATT-ATTTCTCGCTTTTAGGATCCAAACAAATTTGCAGTTGCTGCTGCACCACA
* * *
650920 CATGTTCATTAATGCCTATAAGAATATCTTGGCATT-TTCAGTTGTAGT--ACAATATTCTTTCC
321 CATGTTCATCAATGCCTATAAGAATATCTTGG--TTGTT--GTTGT-TTCAATAATATTCTTTCC
* * * * *
650982 CTCTGGCTGATAAGATGAAAAAGTATTTTGTGGCATAG
381 CTCAGGCTGATAAGATGAAAGAGTA-TTTGCGGTATGG
* * *
651020 AATCGACTCTTAACATGTTAATCATTTCAAAATTTCCTATCTTTTTGAAG-TTCAA
1 AATCGACTCTTAACCTGTTAATTATTTCAAAATTTTCTATCTTTTT-AAGATTCAA
651075 TAAATAGTTA
Statistics
Matches: 734, Mismatches: 139, Indels: 52
0.79 0.15 0.06
Matches are distributed among these distances:
420 6 0.01
421 12 0.02
422 678 0.92
423 28 0.04
424 4 0.01
425 5 0.01
426 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (417 bp):
AATCGACTCTTAACCTGTTAATTATTTCAAAATTTTCTATCTTTTTAAGATTCAACTAATTGTTA
CATGCTTCCAAGATCAAGCAAATTAGCAGTTGTTGTTGAACCACACATGTTCATCAATGCCTATA
AGAATGTCTTGGTTGTTGCAGTTGCCACAGAGTATTCTTTCTCTCAGACTAATAAGGTGAAAGAG
TATTTGGAGGTATAGAATTGAATATAACCTGTTAATTATTTCAAAATTTTCTATCTTTTTAAGAT
TCAAATAATTATTTCTCGCTTTTAGGATCCAAACAAATTTGCAGTTGCTGCTGCACCACACATGT
TCATCAATGCCTATAAGAATATCTTGGTTGTTGTTGTTTCAATAATATTCTTTCCCTCAGGCTGA
TAAGATGAAAGAGTATTTGCGGTATGG
Found at i:650997 original size:633 final size:633
Alignment explanation
Indices: 649754--651074 Score: 1439
Period size: 633 Copynumber: 2.1 Consensus size: 633
649744 CAACATACAT
* * * * * * *
649754 AATCGAGTCTTAACCTGTTACTTATTTCAAAATTTTCTATCTTTTTAAGATTCAACTAATTGTTG
1 AATCGAATCATAACCAGTTAATTATTTCAAAATTTCCTATCTTTTTAAGATTCAAATAATTATTG
* * *
649819 CACATTTGCAAGATCCAATAAAATTAGTAGTTGCTGCTGAACCACACATGTTCATCATTGCCTAT
66 CACATTTGCAAGATCCAATAAAATTAGCAGTTGCTACTGAACCACACATGTTCATCAATGCCTAT
* * *
649884 AAGAATGTCTTGGTTGTTGCAGTTGCCACAGAGTATTATTTCTCTCAAACTAATAAGGTGAAAGA
131 AAGAATATCTTGGTTGTTGCAGTTGCAACAGAGTATTATTTCCCTCAAACTAATAAGGTGAAAGA
** * ** * * *
649949 GTATTTGGTGGTATAAAATCGAGTATTCACTTGTAAATTATTTCAAAATTTTATATCTTTTTATG
196 GTATTTGGCAGTATAAAATCGAATATAAACCTGTAAATTATTTCAAAATTTCATATCTTTTTAAG
* * * * *
650014 ATTCAACTAATTTTTGTACGTTTCAAGGATCCAAGCAAATTTGTAGTTACTGCTACACCACACAT
261 ATTCAACTAATTATTGCACGCTTCAAGGATCCAAGCAAATTTGCAGTTACTGCTACACCACAAAT
* * *
650079 GTTCACCAATGCCTACTAGAATGTATAGGCTGTTGCAGTTGCCACATAACATTCTTTCCATCAGG
326 GTTCACCAATGCCTACAAGAATGTATAGGCTGTTGCAGTTGCCACATAACATTCTTTCCATAAGA
*
650144 TTGATAAGATGAAAGTGTATTTGACGGTATGGAATCGACTCTTAACCTGTTAATTATTTCAAAAT
391 TTGATAAGATGAAAGTGTATTTGACGGTATGGAATCGACTCTTAACCTGATAATTATTTCAAAAT
** * ** * * * * *
650209 TTTCTATCTTTTTGACGTTCGGTTAGTTGTTAAATGCTTCCAAGATACAAGCAAATTAGCAGTTG
456 TTTCTAGATTTTTGAAGTTCAATTAATTGATAAACGCTTCCAAGATACAAACAAATTAGCAGCTG
* * * * * *
650274 TTGTTAAACCATACATGTTCATCAATGCCTATAAGAATGTCTTGGTTGTTGCAGTTGCCATAGAG
521 CTGCTAAACCACACATGTTCATCAATGCCTATAAGAATATCTTGGTTGTTGCAGTTGCCATACAA
*
650339 TATTCTTTCCCTCAGGCTAATAAGAT-AAAATAGTATTTGGAGGTATAG
586 TATTCTTTCCCTCAGGCTAATAAGATGAAAA-AGTATTTGGAGGCATAG
* * * *
650387 AATTGAATCATAACCAGTTAGTTATTTTAAAATTTCCTATCTTTTTAAGATTCAAATAATTATTT
1 AATCGAATCATAACCAGTTAATTATTTCAAAATTTCCTATCTTTTTAAGATTCAAATAATTATTG
* * * * ** * * * *
650452 CTCGCTTT-TAGGATCCAATCAAGTTTA-CAGTTGTTACTGCACTACACATGTTTATCAATGCCT
66 CAC-ATTTGCAAGATCCAAT-AAAATTAGCAGTTGCTACTGAACCACACATGTTCATCAATGCCT
** * * * *
650515 ATAAGAATATCTTGGTTGTTGTTGTTTCAATAGAGTATT-TATTCCCT-AAGGCTGATAAGGTGA
129 ATAAGAATATCTTGGTTGTTGCAGTTGCAACAGAGTATTAT-TTCCCTCAA-ACTAATAAGGTGA
** * *
650578 AAGAGTATTTGGCAGTATGGAATCGAATCTAAACCTGTTAATTATTTCAAAATTTCATATCTTTT
192 AAGAGTATTTGGCAGTATAAAATCGAATATAAACCTGTAAATTATTTCAAAATTTCATATCTTTT
* * ** * *
650643 TAAGATTCAACTAATTATTGCACGCTTCCAGGATCTAAGCAAATTTGCAGTTGTTGTTGCACCAC
257 TAAGATTCAACTAATTATTGCACGCTTCAAGGATCCAAGCAAATTTGCAGTTACTGCTACACCAC
* * * ** * * * *
650708 AAATGTTCATCAATGCCTACAAGAATGTCTTGTTTGTTGTAGTTGTCACA-AAGTATTCTCTTTC
322 AAATGTTCACCAATGCCTACAAGAATGTATAGGCTGTTGCAGTTGCCACATAA-CATTCT-TTCC
* * * *
650772 -TAAGATTGATAAGGTGAAAGAT-TATTT-AGCGGTATGGAATTGACTTTTAACCTGATACTTAT
385 ATAAGATTGATAAGATGAAAG-TGTATTTGA-CGGTATGGAATCGACTCTTAACCTGATAATTAT
** * * *
650834 TTCAAAATTTTCTAGATTTTT-AAGATTCAATTAATTGATGCACGCTTCTAGGATCCAAACAAAT
448 TTCAAAATTTTCTAGATTTTTGAAG-TTCAATTAATTGATAAACGCTTCCAAGATACAAACAAAT
* ** *
650898 TTGCAGCTGCTGCTGCACCACACATGTTCATTAATGCCTATAAGAATATCTTGGCATT-TT-CAG
512 TAGCAGCTGCTGCTAAACCACACATGTTCATCAATGCCTATAAGAATATCTTGG--TTGTTGCAG
* * * * *
650961 TTG-TAGTACAATATTCTTTCCCTCTGGCTGATAAGATGAAAAAGTATTTTGTGGCATAG
575 TTGCCA-TACAATATTCTTTCCCTCAGGCTAATAAGATGAAAAAGTATTTGGAGGCATAG
* * *
651020 AATCGACTCTTAA-CATGTTAATCATTTCAAAATTTCCTATCTTTTTGAAG-TTCAA
1 AATCGAATCATAACCA-GTTAATTATTTCAAAATTTCCTATCTTTTT-AAGATTCAA
651075 TAAATAGTTA
Statistics
Matches: 564, Mismatches: 109, Indels: 30
0.80 0.16 0.04
Matches are distributed among these distances:
632 11 0.02
633 530 0.94
634 21 0.04
635 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (633 bp):
AATCGAATCATAACCAGTTAATTATTTCAAAATTTCCTATCTTTTTAAGATTCAAATAATTATTG
CACATTTGCAAGATCCAATAAAATTAGCAGTTGCTACTGAACCACACATGTTCATCAATGCCTAT
AAGAATATCTTGGTTGTTGCAGTTGCAACAGAGTATTATTTCCCTCAAACTAATAAGGTGAAAGA
GTATTTGGCAGTATAAAATCGAATATAAACCTGTAAATTATTTCAAAATTTCATATCTTTTTAAG
ATTCAACTAATTATTGCACGCTTCAAGGATCCAAGCAAATTTGCAGTTACTGCTACACCACAAAT
GTTCACCAATGCCTACAAGAATGTATAGGCTGTTGCAGTTGCCACATAACATTCTTTCCATAAGA
TTGATAAGATGAAAGTGTATTTGACGGTATGGAATCGACTCTTAACCTGATAATTATTTCAAAAT
TTTCTAGATTTTTGAAGTTCAATTAATTGATAAACGCTTCCAAGATACAAACAAATTAGCAGCTG
CTGCTAAACCACACATGTTCATCAATGCCTATAAGAATATCTTGGTTGTTGCAGTTGCCATACAA
TATTCTTTCCCTCAGGCTAATAAGATGAAAAAGTATTTGGAGGCATAG
Found at i:653310 original size:24 final size:24
Alignment explanation
Indices: 653283--653337 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
653273 ACAGAGGCGT
653283 AACCAACGAACCAAAGAGTATATA
1 AACCAACGAACCAAAGAGTATATA
653307 AACCAACGAACCAAAGAGTATATA
1 AACCAACGAACCAAAGAGTATATA
653331 AACCAAC
1 AACCAAC
653338 TACAATTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.55, C:0.24, G:0.11, T:0.11
Consensus pattern (24 bp):
AACCAACGAACCAAAGAGTATATA
Found at i:656312 original size:15 final size:15
Alignment explanation
Indices: 656279--656314 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
656269 CTCAACTCGA
*
656279 TCATGAAGAAGGTAG
1 TCATGAAGAAGGCAG
*
656294 TCATGAAGAAGGCAT
1 TCATGAAGAAGGCAG
656309 TCATGA
1 TCATGA
656315 TGGAAATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.28, T:0.22
Consensus pattern (15 bp):
TCATGAAGAAGGCAG
Found at i:656743 original size:34 final size:36
Alignment explanation
Indices: 656696--656797 Score: 154
Period size: 37 Copynumber: 2.9 Consensus size: 36
656686 TTTCGTCCTA
* *
656696 CTAGGATTGAAACTCCTAAAAATATGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
*
656731 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
656766 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
656798 GTTATACTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
34 28 0.47
35 3 0.05
37 29 0.48
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:656781 original size:37 final size:35
Alignment explanation
Indices: 656696--656795 Score: 148
Period size: 34 Copynumber: 2.8 Consensus size: 35
656686 TTTCGTCCTA
* * *
656696 CTAGGATTGAAACTCCTAAAAATATGATAGAATTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAAAATTT
656731 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAAAA-TTT
656766 GCTAGGATTCAAACTCCTAAAAATAGGATA
1 -CTAGGATTCAAACTCCTAAAAATAGGATA
656796 GAGTTATACT
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
34 28 0.47
35 3 0.05
37 28 0.47
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (35 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAAAATTT
Found at i:656821 original size:37 final size:37
Alignment explanation
Indices: 656694--656831 Score: 147
Period size: 37 Copynumber: 3.8 Consensus size: 37
656684 TTTTTCGTCC
* * *
656694 TACTAGGATTGAAACTCCTAAAAATATGATAGAATT-
1 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTA
*
656730 T--TAGGATTCAAACTCCTAAAAATAGGATAAAATTT
1 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTA
* * *
656765 TGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTA
1 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTA
** * * *
656802 TACTATTATTTAAATTCCTAAAGATAGGAT
1 TACTAGGATTCAAACTCCTAAAAATAGGAT
656832 CCACAAGCAC
Statistics
Matches: 87, Mismatches: 12, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
34 30 0.34
35 1 0.01
36 1 0.01
37 55 0.63
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.32
Consensus pattern (37 bp):
TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTA
Found at i:657397 original size:16 final size:18
Alignment explanation
Indices: 657376--657410 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
657366 TTTACTCATT
657376 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
657392 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
657410 T
1 T
657411 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:657535 original size:16 final size:16
Alignment explanation
Indices: 657507--657547 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
657497 TTATTGTTTT
*
657507 TTTATTTTATATATTCTA
1 TTTATTTTATAT-TT-AA
657525 TTTATTTTATATTTAA
1 TTTATTTTATATTTAA
657541 TTTATTT
1 TTTATTT
657548 CTTTCTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 2 0.09
18 12 0.55
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTATTTTATATTTAA
Found at i:660655 original size:9 final size:8
Alignment explanation
Indices: 660611--660714 Score: 61
Period size: 8 Copynumber: 12.9 Consensus size: 8
660601 AATCAAGAAC
660611 AAAAAAGA
1 AAAAAAGA
*
660619 AAAGAAGCA
1 AAAAAAG-A
660628 AAAAAAGCA
1 AAAAAAG-A
660637 AAAAAA-A
1 AAAAAAGA
660644 AAACAAAGA
1 AAA-AAAGA
*
660653 AAAAGAG-
1 AAAAAAGA
*
660660 AAACAAGA
1 AAAAAAGA
* *
660668 ACAAAAGG
1 AAAAAAGA
660676 AAAAAAGA
1 AAAAAAGA
* *
660684 GCAAAAA-T
1 -AAAAAAGA
*
660692 CAAAAAGA
1 AAAAAAGA
*
660700 AAAATAGA
1 AAAAAAGA
*
660708 CAAAAAG
1 AAAAAAG
660715 CACATGCAAA
Statistics
Matches: 73, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
7 15 0.21
8 34 0.47
9 24 0.33
ACGTcount: A:0.76, C:0.08, G:0.14, T:0.02
Consensus pattern (8 bp):
AAAAAAGA
Found at i:660695 original size:23 final size:23
Alignment explanation
Indices: 660669--660713 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
660659 GAAACAAGAA
*
660669 CAAAAGGAAAAA-AGAGCAAAAAT
1 CAAAAAGAAAAATAGA-CAAAAAT
660692 CAAAAAGAAAAATAGACAAAAA
1 CAAAAAGAAAAATAGACAAAAA
660714 GCACATGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.73, C:0.09, G:0.13, T:0.04
Consensus pattern (23 bp):
CAAAAAGAAAAATAGACAAAAAT
Found at i:661365 original size:22 final size:22
Alignment explanation
Indices: 661340--661388 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
661330 CCATCAATCT
* *
661340 TTTGAGCATCCAATGTCAAACC
1 TTTGAGCATCAAATGCCAAACC
661362 TTTGAGCATCAAATGCCAAACC
1 TTTGAGCATCAAATGCCAAACC
661384 TTTGA
1 TTTGA
661389 CCAAACACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (22 bp):
TTTGAGCATCAAATGCCAAACC
Found at i:661826 original size:18 final size:18
Alignment explanation
Indices: 661803--661838 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
661793 TCAACATCAA
* *
661803 ATATTGGGGCATTTTTGG
1 ATATTGAGGCATCTTTGG
661821 ATATTGAGGCATCTTTGG
1 ATATTGAGGCATCTTTGG
661839 GGATTCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (18 bp):
ATATTGAGGCATCTTTGG
Found at i:662434 original size:37 final size:36
Alignment explanation
Indices: 662368--662490 Score: 142
Period size: 36 Copynumber: 3.4 Consensus size: 36
662358 TTGAATATGT
* * *
662368 TTTCT-TTGAAACAAATTCCGTCTCCCTTGAGACAG
1 TTTCTCTTGAAACAATTTTCGTCTCTCTTGAGACAG
* *
662403 TTTCTTTTGGAACTAAGTTTT-GTCTCTCTTGAGACAG
1 TTTCTCTTGAAAC-AA-TTTTCGTCTCTCTTGAGACAG
* *
662440 TTTCTCTTGAAACAATTTTCATCTATCTTGAGACAG
1 TTTCTCTTGAAACAATTTTCGTCTCTCTTGAGACAG
*
662476 TTTCCCTTGAAACAA
1 TTTCTCTTGAAACAA
662491 AACCTTTGAA
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
35 9 0.12
36 36 0.48
37 28 0.37
38 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTCTCTTGAAACAATTTTCGTCTCTCTTGAGACAG
Found at i:663449 original size:105 final size:105
Alignment explanation
Indices: 663266--664202 Score: 1470
Period size: 105 Copynumber: 9.0 Consensus size: 105
663256 GCACTCGAGG
* * ** *
663266 CAACACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAACAAACAACTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
663331 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
663372 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* *
663437 GCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
663477 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAAGAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* *
663542 GCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
663582 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTTTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
663647 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * *
663687 CAACGCAAGTTTAACTTAACGACGAAGGGACCGCTTCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
663752 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
663792 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
663857 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * *
663897 CAATGCAAGTTCAACTTCACGAGGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
663962 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
664002 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
** *
664062 TTCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * * * * * ** *
664102 CAACACAAGTTCAACTTCACAACGAATGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
* *
664167 AGCCAATTTCAACTTCACGACGGAGGATATTGGACT
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACT
664203 TGGAACAATG
Statistics
Matches: 777, Mismatches: 48, Indels: 12
0.93 0.06 0.01
Matches are distributed among these distances:
100 82 0.11
101 3 0.00
102 3 0.00
103 4 0.01
104 3 0.00
105 607 0.78
106 75 0.10
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (105 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
Found at i:664795 original size:34 final size:36
Alignment explanation
Indices: 664748--664849 Score: 154
Period size: 37 Copynumber: 2.9 Consensus size: 36
664738 TTTTGTCCTA
* *
664748 CTAGGATTGAAACTCCTAAAAATATGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
*
664783 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
664818 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
664850 GTTATACTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
34 28 0.47
35 3 0.05
37 29 0.48
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:664833 original size:37 final size:35
Alignment explanation
Indices: 664748--664847 Score: 148
Period size: 34 Copynumber: 2.8 Consensus size: 35
664738 TTTTGTCCTA
* * *
664748 CTAGGATTGAAACTCCTAAAAATATGATAGAATTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAAAATTT
664783 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAAAA-TTT
664818 GCTAGGATTCAAACTCCTAAAAATAGGATA
1 -CTAGGATTCAAACTCCTAAAAATAGGATA
664848 GAGTTATACT
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
34 28 0.47
35 3 0.05
37 28 0.47
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (35 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAAAATTT
Found at i:664873 original size:37 final size:37
Alignment explanation
Indices: 664746--664883 Score: 147
Period size: 37 Copynumber: 3.8 Consensus size: 37
664736 TTTTTTGTCC
* * *
664746 TACTAGGATTGAAACTCCTAAAAATATGATAGAATT-
1 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTA
*
664782 T--TAGGATTCAAACTCCTAAAAATAGGATAAAATTT
1 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTA
* * *
664817 TGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTA
1 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTA
** * * *
664854 TACTATTATTTAAATTCCTAAAGATAGGAT
1 TACTAGGATTCAAACTCCTAAAAATAGGAT
664884 CCACAAGCAC
Statistics
Matches: 87, Mismatches: 12, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
34 30 0.34
35 1 0.01
36 1 0.01
37 55 0.63
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.32
Consensus pattern (37 bp):
TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTA
Found at i:665356 original size:2 final size:2
Alignment explanation
Indices: 665297--665337 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
665287 TTAGTGTTAT
665297 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
665338 CCTATTTTGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:665467 original size:16 final size:18
Alignment explanation
Indices: 665446--665480 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
665436 TTTACTCATT
665446 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
665462 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
665480 T
1 T
665481 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:665605 original size:16 final size:16
Alignment explanation
Indices: 665577--665617 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
665567 TTATTGTTTT
*
665577 TTTATTTTATATATTCTA
1 TTTATTTTATAT-TT-AA
665595 TTTATTTTATATTTAA
1 TTTATTTTATATTTAA
665611 TTTATTT
1 TTTATTT
665618 CTTTCTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 2 0.09
18 12 0.55
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTATTTTATATTTAA
Found at i:673218 original size:26 final size:26
Alignment explanation
Indices: 673170--673232 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
673160 AGAAATAAAT
* *
673170 AAATTAATTAAATTAAAATTAAGAAA
1 AAATAAATTAAATTAAAAATAAGAAA
*
673196 AAATAAATTAAA-TAAAAGATAAGATA
1 AAATAAATTAAATTAAAA-ATAAGAAA
673222 AAA-AAATTAAA
1 AAATAAATTAAA
673233 GATAAAATAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 13 0.39
26 20 0.61
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (26 bp):
AAATAAATTAAATTAAAAATAAGAAA
Found at i:673374 original size:42 final size:43
Alignment explanation
Indices: 673309--673455 Score: 144
Period size: 42 Copynumber: 3.5 Consensus size: 43
673299 TAAATAAAAC
*
673309 AAATAAATAAAATAATAATAAAAAAGTA-AAAATA-ATATATAT
1 AAATTAATAAAATAATAATAAAAAA-TAGAAAATATATATATAT
* *
673351 ATATATAATAAAA-AATAATAAAAAATAGTAAATATATATATAT
1 AAAT-TAATAAAATAATAATAAAAAATAGAAAATATATATATAT
* * *
673394 AAATTAATAAAACTGATAATAAAAAAT--AATATATATATGTAT
1 AAATTAATAAAA-TAATAATAAAAAATAGAAAATATATATATAT
* *
673436 -AATCTAAAAAAATAAAAATA
1 AAAT-TAATAAAATAATAATA
673456 TATACTAAAG
Statistics
Matches: 88, Mismatches: 11, Indels: 13
0.79 0.10 0.12
Matches are distributed among these distances:
41 11 0.12
42 47 0.53
43 18 0.20
44 12 0.14
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (43 bp):
AAATTAATAAAATAATAATAAAAAATAGAAAATATATATATAT
Found at i:673375 original size:43 final size:43
Alignment explanation
Indices: 673309--673421 Score: 142
Period size: 43 Copynumber: 2.6 Consensus size: 43
673299 TAAATAAAAC
*
673309 AAATAAATAAAATAATAAT-AAAAA-AGTAAAAATAATATATAT
1 AAATTAATAAAATAATAATAAAAAATAGTAAAAAT-ATATATAT
* *
673351 ATATATAATAAAA-AATAATAAAAAATAGTAAATATATATATAT
1 AAAT-TAATAAAATAATAATAAAAAATAGTAAAAATATATATAT
*
673394 AAATTAATAAAACTGATAATAAAAAATA
1 AAATTAATAAAA-TAATAATAAAAAATA
673422 ATATATATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
42 17 0.28
43 23 0.38
44 21 0.34
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (43 bp):
AAATTAATAAAATAATAATAAAAAATAGTAAAAATATATATAT
Found at i:673403 original size:35 final size:35
Alignment explanation
Indices: 673289--673396 Score: 98
Period size: 35 Copynumber: 3.1 Consensus size: 35
673279 GAAAAAGAAG
* * * *
673289 AAAAAATATATAAATAA-AACAAATAAATAAAATAAT
1 AAAAAATA-ATAAAAAATAATAAATATAT-ATATAAT
*
673325 AATAAAA-AAGT-AAAAATAATATATATATATATAAT
1 AA-AAAATAA-TAAAAAATAATAAATATATATATAAT
*
673360 AAAAAATAATAAAAAATAGTAAATATATATAT-AT
1 AAAAAATAATAAAAAATAATAAATATATATATAAT
673394 AAA
1 AAA
673397 TTAATAAAAC
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
34 10 0.17
35 34 0.57
36 12 0.20
37 4 0.07
ACGTcount: A:0.70, C:0.01, G:0.02, T:0.27
Consensus pattern (35 bp):
AAAAAATAATAAAAAATAATAAATATATATATAAT
Found at i:673414 original size:44 final size:43
Alignment explanation
Indices: 673309--673436 Score: 145
Period size: 44 Copynumber: 3.0 Consensus size: 43
673299 TAAATAAAAC
* *
673309 AAATAAATAAAATAATAAT-AAAAA-AGTAAAAATAATATATAT
1 AAATTAATAAAATAATAATAAAAAATAGTAAATAT-ATATATAT
*
673351 ATATATAATAAAA-AATAATAAAAAATAGTAAATATATATATAT
1 AAAT-TAATAAAATAATAATAAAAAATAGTAAATATATATATAT
* * * *
673394 AAATTAATAAAACTGATAATAAAAAATAATATATATATGTATA
1 AAATTAATAAAA-TAATAATAAAAAATAGTAAATATATATATA
673437 ATCTAAAAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
42 17 0.23
43 23 0.32
44 33 0.45
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (43 bp):
AAATTAATAAAATAATAATAAAAAATAGTAAATATATATATAT
Found at i:673423 original size:22 final size:21
Alignment explanation
Indices: 673292--673431 Score: 83
Period size: 22 Copynumber: 6.4 Consensus size: 21
673282 AAAGAAGAAA
673292 AAATATATAAATAAAACAAATAAAT
1 AAATATAT-AAT-AAA-AAAT-AAT
673317 AAA-ATAATAATAAAAAAGTAA-
1 AAATAT-ATAATAAAAAA-TAAT
* *
673338 AAATA-ATATATATATATATAAT
1 AAATATATA-ATA-AAAAATAAT
* *
673360 AAA-AAATAATAAAAAATAGT
1 AAATATATAATAAAAAATAAT
* *
673380 AAATATATATATATAAATTAAT
1 AAATATATA-ATAAAAAATAAT
673402 AAA-ACTGATAATAAAAAATAAT
1 AAATA-T-ATAATAAAAAATAAT
*
673424 ATATATAT
1 AAATATAT
673432 GTATAATCTA
Statistics
Matches: 91, Mismatches: 12, Indels: 28
0.69 0.09 0.21
Matches are distributed among these distances:
20 12 0.13
21 20 0.22
22 41 0.45
23 8 0.09
24 5 0.05
25 5 0.05
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.29
Consensus pattern (21 bp):
AAATATATAATAAAAAATAAT
Found at i:674531 original size:84 final size:85
Alignment explanation
Indices: 674419--674576 Score: 219
Period size: 84 Copynumber: 1.9 Consensus size: 85
674409 ATAATTTTAT
* ** * *
674419 TGACAGATAGCCCTTCTTTCCTTGAGTTATGCTGTAAATGATGTGCCTTAG-AGCTGAGCATAGT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTAGAAGCTGAGCATAAT
674483 CGAACTCGAAGGTCTTTTGG
66 CGAACTCGAAGGTCTTTTGG
* * * **
674503 TGACATATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTAGAAGCTGAGCATAAT
674568 CGAACTCGA
66 CGAACTCGA
674577 GGGTTTGGTG
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
84 44 0.70
85 19 0.30
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (85 bp):
TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTAGAAGCTGAGCATAAT
CGAACTCGAAGGTCTTTTGG
Found at i:674638 original size:39 final size:36
Alignment explanation
Indices: 674580--674674 Score: 120
Period size: 39 Copynumber: 2.6 Consensus size: 36
674570 AACTCGAGGG
* *
674580 TTTG-GTGTTTTAAGAGAAACATTTTCAAAGGGTTTT
1 TTTGTGTGTTTCAAGAGAAACAATTTC-AAGGGTTTT
*
674616 TGTGTGTGTGTTTCAAGAGAAACAATTTCGAGGGTTTT
1 T-T-TGTGTGTTTCAAGAGAAACAATTTCAAGGGTTTT
*
674654 TTTTTGTGTTTCAAGAGAAAC
1 TTTGTGTGTTTCAAGAGAAAC
674675 TGTCTCAACA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
36 19 0.37
37 2 0.04
38 11 0.21
39 20 0.38
ACGTcount: A:0.26, C:0.07, G:0.24, T:0.42
Consensus pattern (36 bp):
TTTGTGTGTTTCAAGAGAAACAATTTCAAGGGTTTT
Found at i:674700 original size:36 final size:36
Alignment explanation
Indices: 674660--674893 Score: 200
Period size: 36 Copynumber: 6.6 Consensus size: 36
674650 TTTTTTTTTG
* *
674660 TGTTTCAAGAGAAACTGTCTCAACAGGGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
674696 TGTTTCAAAAGAAACTGCCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * *
674733 AG-TTCTAAAAGAAAATGTCTCAAGGGAGACGAAATT
1 TGTTTC-AAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
674769 TGTTTCAAG-GAAA-AGATATTC-A-A-AG----ATTT
1 TGTTTCAAGAGAAACTG-T-CTCAAGAGAGACAAAATT
* *
674798 TGTTTCAAGGGAAACTGTCTCAAGAGATACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
674834 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAA-AATT
*
674871 TGTTTCAAGGGAAACTGTCTCAA
1 TGTTTCAAGAGAAACTGTCTCAA
674894 AACTCGTTTT
Statistics
Matches: 162, Mismatches: 21, Indels: 29
0.76 0.10 0.14
Matches are distributed among these distances:
29 14 0.09
30 6 0.04
31 2 0.01
32 1 0.01
33 2 0.01
34 1 0.01
35 6 0.04
36 74 0.46
37 56 0.35
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:674894 original size:102 final size:102
Alignment explanation
Indices: 674694--674880 Score: 245
Period size: 102 Copynumber: 1.8 Consensus size: 102
674684 AGGGACAAAA
*
674694 TTTGTTTCAAAAGAAACTGCCTCAAGAGAGACAAAACTTAGTTCTAAAAGAAAATGTCTCAAGGG
1 TTTGTTTCAAAAGAAACTGCCTCAAGAGAGACAAAACTTAGTTCTAAAAGAAAATGTCTCAAGAG
674759 AGACGAAATTTGTTTCAAGGAAAAGATATTCAAAGAT
66 AGACGAAATTTGTTTCAAGGAAAAGATATTCAAAGAT
** * * * ** *
674796 TTTGTTTCAAGGGAAACTGTCTCAAGAGATACAAAA-TTTGTT-TCAAGGGAAACTGTCTCAAGA
1 TTTGTTTCAAAAGAAACTGCCTCAAGAGAGACAAAACTTAGTTCT-AAAAGAAAATGTCTCAAGA
674859 GAGAC-AAGATTTTGTTTCAAGG
65 GAGACGAA-A-TTTGTTTCAAGG
674881 GAAACTGTCT
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
100 3 0.04
101 26 0.36
102 44 0.60
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (102 bp):
TTTGTTTCAAAAGAAACTGCCTCAAGAGAGACAAAACTTAGTTCTAAAAGAAAATGTCTCAAGAG
AGACGAAATTTGTTTCAAGGAAAAGATATTCAAAGAT
Found at i:675046 original size:36 final size:38
Alignment explanation
Indices: 674964--675046 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
674954 GTTTATGTTT
* * **
674964 AAAGAGAAACTATCTCAAGGGAGACAAAAATTTTGTTTC
1 AAAG-GAAACCATCTCAAGAGAGACAAAAATTTAATTTC
*
675003 AAGGGAAACCATCTCAAGAGAGAC-AAAA-TTAATTTC
1 AAAGGAAACCATCTCAAGAGAGACAAAAATTTAATTTC
675039 AAAGGAAA
1 AAAGGAAA
675047 TGTTTTCAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
36 13 0.34
37 4 0.11
38 18 0.47
39 3 0.08
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.20
Consensus pattern (38 bp):
AAAGGAAACCATCTCAAGAGAGACAAAAATTTAATTTC
Found at i:675132 original size:101 final size:103
Alignment explanation
Indices: 674931--675171 Score: 333
Period size: 101 Copynumber: 2.3 Consensus size: 103
674921 ATATTTTGTG
* * * * *
674931 TTTCAAGGGAAACGTTTCCCAAGGTTTATGTTTAAAGAGAAACTATCTCAAGGGAGACAAAAATT
1 TTTCAAGGGAAATGTTT-TCAATGTTTATGTTTCAAGAGAAAATATCTCAAGGGAGACAAAAATT
* *
674996 TTGTTTCAAGGGAAACCATCTCAAGAGAGACAAAATTAA
65 TTGTTTCAAGGGAAACCACCCCAAGAGAGACAAAATTAA
* *
675035 TTTCAAAGGAAATGTTTTCAATGTTTAT-TTTCAAGAGAAAATGTCTCAAGGGAGAC-AAAATTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAAATATCTCAAGGGAGACAAAAATTT
* * * *
675098 TGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTA
66 TGTTTCAAGGGAAACCACCCCAAGAGAGACAAAATTAA
*
675136 TTTCAAGGGAAATATTTTCAATGTTTATGTTTCAAG
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
675172 GGAGACAAAA
Statistics
Matches: 121, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
101 65 0.54
102 32 0.26
103 9 0.07
104 15 0.12
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (103 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAAATATCTCAAGGGAGACAAAAATTT
TGTTTCAAGGGAAACCACCCCAAGAGAGACAAAATTAA
Found at i:675178 original size:87 final size:87
Alignment explanation
Indices: 675075--675258 Score: 314
Period size: 87 Copynumber: 2.1 Consensus size: 87
675065 TCAAGAGAAA
* * *
675075 ATGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTATTTC
1 ATGTTTCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTC
675140 AAGGGAAATATTTTCAATGTTT
66 AAGGGAAATATTTTCAATGTTT
* * *
675162 ATGTTTCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCATTTC
1 ATGTTTCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTC
675227 AAGGGAAATATTTTCAATGTTT
66 AAGGGAAATATTTTCAATGTTT
675249 ATGTTTCAAG
1 ATGTTTCAAG
675259 AGTAACTGTC
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 91 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (87 bp):
ATGTTTCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTC
AAGGGAAATATTTTCAATGTTT
Found at i:675358 original size:189 final size:189
Alignment explanation
Indices: 674978--675363 Score: 472
Period size: 189 Copynumber: 2.0 Consensus size: 189
674968 AGAAACTATC
*
674978 TCAAGGGAGACAAAAATTTTGTTTCAAGGGAAACCATCTCAAGAGAGACAAAATTAATTTCAAAG
1 TCAAGGGAGACAAAAATTTCGTTTCAAGGGAAACCATCTCAAGAGAGACAAAATTAATTTCAAAG
* * * **
675043 GAAATGTTTTCAATGTTTATTTTCAAGAGAAAATGTCTCAAGGGAGACAAAATTTTGTTTCAAGG
66 GAAATATTTTCAATGTTTATTTTCAAGAGAAAATGTCTCAAGGGAGACAAAATTTAGTTCCAAAA
* * * * ** *
675108 GAAACTACCCCAAGCGAGATAAAATTTATTTCAAGGGAAATATTTTCAATGTTTATGTT
131 CAAAATACCCCAAGCGAGACAAAATTTATTTCAAGGAAAATAGATTCAATATTTATGTT
* ** * * *
675167 TCAAGGGAGAC-AAAATTTCGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCATTTCAAGG
1 TCAAGGGAGACAAAAATTTCGTTTCAAGGGAAACCATCTCAAGAGAGACAAAATTAATTTCAAAG
* * *
675231 GAAATATTTTCAATGTTTATGTTTCAAGAGTAACTGTCTCAAGGGTGACAAAATTTAGTTCCAAA
66 GAAATATTTTCAATGTTTAT-TTTCAAGAGAAAATGTCTCAAGGGAGACAAAATTTAGTTCCAAA
** * * * *
675296 ACAAAATGTCTCAAGGGAGACGAAA-TTAGTTTCAATGAAAATAGATTCAAATATTT-TGTT
130 ACAAAATACCCCAAGCGAGACAAAATTTA-TTTCAAGGAAAATAGATTC-AATATTTATGTT
675356 TCAAGGGA
1 TCAAGGGA
675364 AACTTGGAAA
Statistics
Matches: 166, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
188 68 0.41
189 92 0.55
190 6 0.04
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (189 bp):
TCAAGGGAGACAAAAATTTCGTTTCAAGGGAAACCATCTCAAGAGAGACAAAATTAATTTCAAAG
GAAATATTTTCAATGTTTATTTTCAAGAGAAAATGTCTCAAGGGAGACAAAATTTAGTTCCAAAA
CAAAATACCCCAAGCGAGACAAAATTTATTTCAAGGAAAATAGATTCAATATTTATGTT
Found at i:675700 original size:106 final size:106
Alignment explanation
Indices: 675534--675730 Score: 277
Period size: 106 Copynumber: 1.9 Consensus size: 106
675524 ATCATCCGCC
* * *
675534 GTGAAATTAAAATTGGCTCTGGAACTAAGAAATTGTTTGTTGACAGCCAGCCGCCCCTTCGCTGT
1 GTGAAATTAAAATTGGCTCTGAAACTAAGAAATTGTTTGTTGACAACCAGCAGCCCCTTCGCTGT
* *
675599 GAAATTGAACTTGTGCTGTCTCGAGTCCAATGTCCTTCACT
66 GAAATTCAACTTGTGCTATCTCGAGTCCAATGTCCTTCACT
* * * * * *
675640 GTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAACCAGCAGTCCCTTCGTTGT
1 GTGAAATTAAAATTGGCTCTGAAACTAAGAAATTGTTTGTTGACAACCAGCAGCCCCTTCGCTGT
* *
675705 GAAGTTCAACTTGTGTTATCTCGAGT
66 GAAATTCAACTTGTGCTATCTCGAGT
675731 GGCACGATAT
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
106 78 1.00
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (106 bp):
GTGAAATTAAAATTGGCTCTGAAACTAAGAAATTGTTTGTTGACAACCAGCAGCCCCTTCGCTGT
GAAATTCAACTTGTGCTATCTCGAGTCCAATGTCCTTCACT
Found at i:676404 original size:32 final size:32
Alignment explanation
Indices: 676363--676451 Score: 126
Period size: 32 Copynumber: 2.8 Consensus size: 32
676353 TTCGTATCAG
*
676363 GATGTTGAATCCCCAAAGATGCCCCAATATTC
1 GATGTTGAATCTCCAAAGATGCCCCAATATTC
* *
676395 GATGTTGAATCTCTAAAAATGCCCCAATATTC
1 GATGTTGAATCTCCAAAGATGCCCCAATATTC
*
676427 AATGTTGAATCTCC-AAGAATGCCCC
1 GATGTTGAATCTCCAAAG-ATGCCCC
676452 CAATGTTCCT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
31 2 0.04
32 48 0.96
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.27
Consensus pattern (32 bp):
GATGTTGAATCTCCAAAGATGCCCCAATATTC
Found at i:677456 original size:69 final size:69
Alignment explanation
Indices: 677342--677479 Score: 240
Period size: 69 Copynumber: 2.0 Consensus size: 69
677332 TCTCTCTCTC
* * *
677342 TTGATGCTCTATGATCTTCGAGTGGAGTGATTCAGTGATTTAGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAGTGAAATGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
677407 TCAT
66 TCAT
*
677411 TTGATGCTCTATGATCTTCGAGTGAAATGGTTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAGTGAAATGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
677476 TCAT
66 TCAT
677480 AGTTTGAATC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.38
Consensus pattern (69 bp):
TTGATGCTCTATGATCTTCGAGTGAAATGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
TCAT
Found at i:677566 original size:26 final size:26
Alignment explanation
Indices: 677537--677601 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
677527 GCATATTGTC
*
677537 TTCTTTTTTCTTCAATTTTCTTTTTT
1 TTCTTTTTTCTTCAATTTGCTTTTTT
* **
677563 TTCTCTTTTTTTTCTCTTTGCTTTTTT
1 TTCT-TTTTTCTTCAATTTGCTTTTTT
*
677590 TCTATTTTTTCT
1 T-TCTTTTTTCT
677602 CTTTTTGTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
26 4 0.13
27 25 0.81
28 2 0.06
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.77
Consensus pattern (26 bp):
TTCTTTTTTCTTCAATTTGCTTTTTT
Found at i:677569 original size:11 final size:11
Alignment explanation
Indices: 677555--677607 Score: 70
Period size: 11 Copynumber: 4.6 Consensus size: 11
677545 TCTTCAATTT
677555 TCTTTTTTTTC
1 TCTTTTTTTTC
677566 TCTTTTTTTTC
1 TCTTTTTTTTC
*
677577 TCTTTGCTTTTTT
1 TCTTT--TTTTTC
*
677590 TCTATTTTTTC
1 TCTTTTTTTTC
677601 TCTTTTT
1 TCTTTTT
677608 GTTTTGATTG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
11 27 0.75
13 9 0.25
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (11 bp):
TCTTTTTTTTC
Found at i:677597 original size:24 final size:25
Alignment explanation
Indices: 677559--677605 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
677549 CAATTTTCTT
*
677559 TTTTTTCTCTTTTTTTTCTCTTTGC
1 TTTTTTCTCTATTTTTTCTCTTTGC
677584 TTTTTT-TCTATTTTTTCTCTTT
1 TTTTTTCTCTATTTTTTCTCTTT
677606 TTGTTTTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (25 bp):
TTTTTTCTCTATTTTTTCTCTTTGC
Found at i:677608 original size:26 final size:25
Alignment explanation
Indices: 677558--677612 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 25
677548 TCAATTTTCT
* *
677558 TTTTTTTCTCTTTTTTTTCTCTTTG
1 TTTTTTTCTATTTTTTCTCTCTTTG
*
677583 CTTTTTTTCTATTTTTTCTCTTTTTG
1 -TTTTTTTCTATTTTTTCTCTCTTTG
677609 TTTT
1 TTTT
677613 GATTGAAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.02, C:0.15, G:0.04, T:0.80
Consensus pattern (25 bp):
TTTTTTTCTATTTTTTCTCTCTTTG
Found at i:680731 original size:26 final size:25
Alignment explanation
Indices: 680687--680744 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
680677 TAAATTAATT
*
680687 AATTAAATTAAAATGAAGAAAAAACA
1 AATTAAATAAAAATGAAG-AAAAACA
* *
680713 AATTAAATAAAAGAT-AAGATAAAGA
1 AATTAAATAAAA-ATGAAGAAAAACA
680738 AATTAAA
1 AATTAAA
680745 GATAAAATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 12 0.43
26 14 0.50
27 2 0.07
ACGTcount: A:0.69, C:0.02, G:0.09, T:0.21
Consensus pattern (25 bp):
AATTAAATAAAAATGAAGAAAAACA
Found at i:680816 original size:13 final size:12
Alignment explanation
Indices: 680746--680873 Score: 67
Period size: 11 Copynumber: 10.9 Consensus size: 12
680736 GAAATTAAAG
*
680746 ATAAAATAGTAA
1 ATAAAATAATAA
* *
680758 GTAAAATAA-AT
1 ATAAAATAATAA
680769 ATAAAA-AATAA
1 ATAAAATAATAA
*
680780 AGAAAA-AGA-AGA
1 ATAAAATA-ATA-A
680792 A-AAAATATATAA
1 ATAAAATA-ATAA
680804 ATAAAACTAATAA
1 ATAAAA-TAATAA
680817 ATAAAATAAT-A
1 ATAAAATAATAA
680828 ATAAAA-AAGTAA
1 ATAAAATAA-TAA
* *
680840 A-AATATATATAT
1 ATAAAATA-ATAA
* *
680852 ATATAATAAAAA
1 ATAAAATAATAA
680864 ATAAAA-AATA
1 ATAAAATAATA
680874 TTAAATATAT
Statistics
Matches: 89, Mismatches: 15, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
10 4 0.04
11 32 0.36
12 31 0.35
13 20 0.22
14 2 0.02
ACGTcount: A:0.72, C:0.01, G:0.05, T:0.23
Consensus pattern (12 bp):
ATAAAATAATAA
Found at i:680842 original size:46 final size:47
Alignment explanation
Indices: 680759--680878 Score: 122
Period size: 46 Copynumber: 2.6 Consensus size: 47
680749 AAATAGTAAG
* *
680759 TAAAAT-AAATATAAAAAATAAAGAAAAAGAAGAAAAAATATATA-A-A
1 TAAAATAAAAAATAAAAAAT-AA-TAAAAGAAGAAAAAATATATATATA
* *
680805 TAAAACTAATAAATAAAATAATAATAAAA-AAGTAAAAATATATATATA
1 TAAAA-TAAAAAATAAAA-AATAATAAAAGAAGAAAAAATATATATATA
* *
680853 TATAATAAAAAATAAAAAATATTAAA
1 TAAAATAAAAAATAAAAAATAATAAA
680879 TATATATATA
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
46 27 0.44
47 17 0.27
48 15 0.24
49 3 0.05
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.23
Consensus pattern (47 bp):
TAAAATAAAAAATAAAAAATAATAAAAGAAGAAAAAATATATATATA
Found at i:680852 original size:50 final size:50
Alignment explanation
Indices: 680762--680873 Score: 128
Period size: 48 Copynumber: 2.3 Consensus size: 50
680752 TAGTAAGTAA
680762 AATAAATATAAAAAATAAAGAAAAAGAAGAAAAAATATATAAATAAAACT
1 AATAAATATAAAAAATAAAGAAAAAGAAGAAAAAATATATAAATAAAACT
* * * * *
680812 AATAAATA-AAATAATAATA-AAAAAGTA-AAAATATATATATATATAA-T
1 AATAAATATAAAAAATAA-AGAAAAAGAAGAAAAAATATATAAATAAAACT
680859 AA-AAA-ATAAAAAATA
1 AATAAATATAAAAAATA
680874 TTAAATATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
45 1 0.02
46 10 0.19
47 3 0.06
48 16 0.30
49 15 0.28
50 9 0.17
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.22
Consensus pattern (50 bp):
AATAAATATAAAAAATAAAGAAAAAGAAGAAAAAATATATAAATAAAACT
Found at i:680880 original size:36 final size:35
Alignment explanation
Indices: 680827--680896 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
680817 ATAAAATAAT
680827 AATAAAAAAGTAAAAATATATATATATATAATAAAA
1 AATAAAAAAGTAAAAATATATATATATAT-ATAAAA
*
680863 AATAAAAAA-TATTAAATATATATATATATATAAA
1 AATAAAAAAGTA-AAAATATATATATATATATAAA
680897 TTAAAAAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 7 0.22
36 25 0.78
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.31
Consensus pattern (35 bp):
AATAAAAAAGTAAAAATATATATATATATATAAAA
Found at i:682091 original size:210 final size:209
Alignment explanation
Indices: 681499--684043 Score: 2020
Period size: 211 Copynumber: 12.3 Consensus size: 209
681489 CAAGCCATCA
* * * * *
681499 CACCACACATGTGCATCAATGCCTACAAGAATGTCTTGGTTGTTGCTGTTGCCACAAATTATTAT
1 CACCACACATGTTCATCAATGCCTACAAGAATGTCTT-GTTGTTGCAGTTGCCA-AGAGTATTCT
* * *
681564 TTCCCTCAGTCT-ATTAAGATGAAAGAGTATTTGGCGGTATGGAATCGACTCTTAACCTATTAAT
64 TTCCCTCAGGCTGA-TAAGGTGAAAGAGTATTTGGCGGTATGGAATCGACTCTTAACCTGTTAAT
* * * * *
681628 TATTTCAAAATTTCCCATATTTTTTA-AGTTCAATTAATTGTTTCACGCTACTAGGATCCAAGAA
128 TATTTCAAAATTTCCTATATTTTTTAGA-TTCAATTAATTGTTGCACGCTTCCAGGATCCAAGCA
* *
681692 AATTAGCAGTTGTTATTG
192 AATTTGCAGTTGTTGTTG
* * * * * *
681710 AACCGCTCATGTTCATCAATGCCTATAAGAATGTCTTGATTGTTGCAGTTGCCACAAAGTATCCT
1 CACCACACATGTTCATCAATGCCTACAAGAATGTCTTG-TTGTTGCAGTTGCCA-AGAGTATTCT
* * * * * * * * * * ** *
681775 TTCCCTCATGTTAATAAGGTCAAAAAGTATTTGGAGGTATAGAATCGAGTATTGATATATTAATT
64 TTCCCTCAGGCTGATAAGGTGAAAGAGTATTTGGCGGTATGGAATCGACTCTTAACCTGTTAATT
* * * * ** *
681840 ATTTTAAAATTTTCTATCTTTTTAAGATTCAACCAATTGTTGCACGTTTCCAGGATCCAAGCAAA
129 ATTTCAAAATTTCCTATATTTTTTAGATTCAATTAATTGTTGCACGCTTCCAGGATCCAAGCAAA
* * **
681905 TTTCCAATTGTTACTG
194 TTTGCAGTTGTTGTTG
* ** * **
681921 CACCACAAATGTTCATCAATGCCTACAAGAATGTCTTGTTGTTGTTGTTTCCATAGAGTATTCGC
1 CACCACACATGTTCATCAATGCCTACAAGAATGTCTTGTTGTTGCAGTTGCCA-AGAGTATTCTT
* * * * * * *
681986 TCTCTAAGGCTGGTAAGGTGAAAGAGTATTTGGAGGTATGGAATCGACTCTTGATCGGTTAATTA
65 TCCCTCAGGCTGATAAGGTGAAAGAGTATTTGGCGGTATGGAATCGACTCTTAACCTGTTAATTA
* * * ** * *** *
682051 TTTCAAATTTTCCTATATTTTTTAGAATCAATTAATTGTTGCATGCTTATAAGATTTGATCAAAT
130 TTTCAAAATTTCCTATATTTTTTAGATTCAATTAATTGTTGCACGCTTCCAGGATCCAAGCAAAT
* * **
682116 TTGTAGTTGCTGCGG
195 TTGCAGTTGTTGTTG
* * * * *
682131 CACCATACATGTTCATCAA-G-C--CAAGAATGTCTTTTTTATTGCAGTTGCCACGGAATATTCT
1 CACCACACATGTTCATCAATGCCTACAAGAATGTC-TTGTTGTTGCAGTTGCCA-AGAGTATTCT
*** * * *
682192 TTCAAACAGGCTAATAAGGTGAAAGAGTATTTGGCGTTATGGAATCGACTCTTAACTTGTTAATT
64 TTCCCTCAGGCTGATAAGGTGAAAGAGTATTTGGCGGTATGGAATCGACTCTTAACCTGTTAATT
* ***** * * * * * *
682257 ACTTCAAAAACAATTATCTTTTTTTAGATTCAATTAATGGTTGCACACTTCCAAGATCTAACCAA
129 ATTTCAAAATTTCCTAT-ATTTTTTAGATTCAATTAATTGTTGCACGCTTCCAGGATCCAAGCAA
*
682322 ATTTTCAGTTGTTGTTG
193 ATTTGCAGTTGTTGTTG
* * ** * *
682339 CACCTCACATGTTCATCAATGCCTACAAGAATGTCTTGGCTGTTGCAGTTTTCACGAAGTATTCC
1 CACCACACATGTTCATCAATGCCTACAAGAATGTCTT-GTTGTTGCAGTTGCCAAG-AGTATTCT
* * * * * *
682404 TTCCCTCAAGTTGATTAGGT-AAACGAGTATTTAGC-GTAAT-GAATCTACTCTTAACCTATTAA
64 TTCCCTCAGGCTGATAAGGTGAAA-GAGTATTTGGCGGT-ATGGAATCGACTCTTAACCTGTTAA
* * *
682466 ATATTTCAAAATTT-CTCATATTTTTTAGATTTAATTAATTGTTGCACGCTTACAGGATCCAAGC
127 TTATTTCAAAATTTCCT-ATATTTTTTAGATTCAATTAATTGTTGCACGCTTCCAGGATCCAAGC
* * **
682530 AAATTTGCGGTTGCTGCCG
191 AAATTTGCAGTTGTTGTTG
* * * * *
682549 CACCACACTTGTTCATTAATGCCTACAAGAATGTCTTAGCTGTTGTAGTTACCACAGAGTATTCT
1 CACCACACATGTTCATCAATGCCTACAAGAATGTCTT-GTTGTTGCAGTTGCCA-AGAGTATTCT
* * * * * * * *
682614 TTCCCTCAGGATTATAACGTGAAATAGTATTTGGCGGTATGGAATTGACTCTTAACCTATTACTC
64 TTCCCTCAGGCTGATAAGGTGAAAGAGTATTTGGCGGTATGGAATCGACTCTTAACCTGTTAATT
* * * * *
682679 ATTTCAAAATTTCCTCTCTTTTTTATATTCAATTAAGTT-TTGTACGCTTCCAGGATCCAAGAAA
129 ATTTCAAAATTTCCTATATTTTTTAGATTCAATTAA-TTGTTGCACGCTTCCAGGATCCAAGCAA
* * * *
682743 ATTTGCAATTGATGCTA
193 ATTTGCAGTTGTTGTTG
* * * * *
682760 CATCACACATCTTCATCAATGCCCACAAGAATG--TT-TTG--GCGGTT--C-TGAGTATTCTTT
1 CACCACACATGTTCATCAATGCCTACAAGAATGTCTTGTTGTTGCAGTTGCCAAGAGTATTCTTT
** * * *
682817 CCCTCAGGCTGATAAGGTGGCAGAGTATTTCGCGGTATGTAATTGACTCTTAACCTGTTAATTAT
66 CCCTCAGGCTGATAAGGTGAAAGAGTATTTGGCGGTATGGAATCGACTCTTAACCTGTTAATTAT
* * * * * *
682882 TTCAAAACTTCCTATATTTTTTAAGATTCAATGAATTGTTTCACACTTCCATGATTCC-AGAAAA
131 TTCAAAATTTCCTATATTTTTT-AGATTCAATTAATTGTTGCACGCTTCCAGGA-TCCAAGCAAA
* * *
682946 TTTGTAGTTGTTGCTA
194 TTTGCAGTTGTTGTTG
* * *
682962 CACCACACATGTTCATCAATACTTACAAGAATGTCATG--G--GCA-----C--GTAGTATTCTT
1 CACCACACATGTTCATCAATGCCTACAAGAATGTCTTGTTGTTGCAGTTGCCAAG-AGTATTCTT
* * *
683016 TCCCTCAGGTTGATAAGGAGAAAGAGTATTTGGCGGTATGGAATATG-CTCTTAACCTGTTAATT
65 TCCCTCAGGCTGATAAGGTGAAAGAGTATTTGGCGGTATGGAAT-CGACTCTTAACCTGTTAATT
* * * * * **
683080 ATTT-ACAAATTTCCTATATTTTTTAGTTTTAATTAATTGTTGGACGCCTCCATGATCCAAAAAA
129 ATTTCA-AAATTTCCTATATTTTTTAGATTCAATTAATTGTTGCACGCTTCCAGGATCCAAGCAA
* * *
683144 GAATTGCAATTGTTGTTT
193 -ATTTGCAGTTGTTGTTG
* * * *
683162 CACCACACATGTTCATCAATGCCTACTATAATGTCTTGACTGTTGTAGTTGCCATAGAGTATTCT
1 CACCACACATGTTCATCAATGCCTACAAGAATGTCTTG-TTGTTGCAGTTGCCA-AGAGTATTCT
* * ** * * * * *
683227 TTCCCTCAAGCTGATATGGT-ACAAGTTTATTTAGAGGTATGGAATGGAGTCTTAACATGTTAAT
64 TTCCCTCAGGCTGATAAGGTGA-AAGAGTATTTGGCGGTATGGAATCGACTCTTAACCTGTTAAT
* * * * ** * *
683291 TATTTCAAAATTTCCAATATTTTTTATATTCAATTTATTATTGCTTGCTTCTAGGATCCAAGAAA
128 TATTTCAAAATTTCCTATATTTTTTAGATTCAATTAATTGTTGCACGCTTCCAGGATCCAAGCAA
**
683356 ATTTGCAGTTAATGTTG
193 ATTTGCAGTTGTTGTTG
* *
683373 CACCACACATGTTCATCAATGCCTACAAGAATGTCTTGGCTGTTAG-AGTTGCCACGAAGTATTC
1 CACCACACATGTTCATCAATGCCTACAAGAATGTCTT-GTTGTT-GCAGTTGCCAAG-AGTATTC
*
683437 TTTCCCTCCA-GCTGATAAGGT------G-A--------TA--GAATCGACTCTTAACATGTTAA
63 TTTCCCT-CAGGCTGATAAGGTGAAAGAGTATTTGGCGGTATGGAATCGACTCTTAACCTGTTAA
* * * * * * * * * *
683484 TTATTTAAAAATTTCTTATCTTTTTGAGTTTCAATTGATTGTTGTACGCTTGCAGAATCCAAGCC
127 TTATTTCAAAATTTCCTATATTTTTTAGATTCAATTAATTGTTGCACGCTTCCAGGATCCAAGCA
*
683549 AATTTGCAGATGTTGTTG
192 AATTTGCAGTTGTTGTTG
* *
683567 C-CTCACACATGTTCATCAATGCCTACAAGAATGTATTGGTTGTTGTAGTTGCCAAGCAGTATTT
1 CAC-CACACATGTTCATCAATGCCTACAAGAATGTCTT-GTTGTTGCAGTTGCCAAG-AGTA--T
* * * * * * * *
683631 TTTTTCTCTCAGGCTGATGAGGTGAAAGAGTGTTTGCCGGTATGGAATCGAGTTTTAACCTGATA
61 TCTTTCCCTCAGGCTGATAAGGTGAAAGAGTATTTGGCGGTATGGAATCGACTCTTAACCTGTTA
* * * * *
683696 ATTATTTCAAAATTTCCTAT-CTTTTTAGAGTCAATTAATTGATGCATGCTTCCAGGATCTAAGC
126 ATTATTTCAAAATTTCCTATATTTTTTAGATTCAATTAATTGTTGCACGCTTCCAGGATCCAAGC
*
683760 AAATTTGCAGTTGCTGTTG
191 AAATTTGCAGTTGTTGTTG
* * * * * * *
683779 TAGCACTCATGTTCATCAATGCCTACAAAAATGTATTGTCTGTTGCAGTTGCCACGAACTATTCT
1 CACCACACATGTTCATCAATGCCTACAAGAATGTCTTGT-TGTTGCAGTTGCCAAG-AGTATTCT
* ** * * * * *
683844 ATCTTTCTGGCTAATAAGGTGAAAGAGTATTTGGTGGTATGGAATCGACTCTTTACTTGGTT-AT
64 TTCCCTCAGGCTGATAAGGTGAAAGAGTATTTGGCGGTATGGAATCGACTCTTAACCT-GTTAAT
* * * * * *
683908 TATTTTAAAATAT-C-ATATCTTTTTATGTTTCAATTAATTGTTGGACGCTTTCAAGATCCAAGC
128 TATTTCAAAATTTCCTATAT-TTTTTA-GATTCAATTAATTGTTGCACGCTTCCAGGATCCAAGC
*
683971 AAATTTGCAGTTGTTGTTA
191 AAATTTGCAGTTGTTGTTG
** * * * * *
683990 CACCACATGTGTTCATTAATGACTACAAGAATGTTTTGGATGTTGCAATTGCCA
1 CACCACACATGTTCATCAATGCCTACAAGAATGTCTT-GTTGTTGCAGTTGCCA
684044 CCTTAGTTTT
Statistics
Matches: 1851, Mismatches: 403, Indels: 160
0.77 0.17 0.07
Matches are distributed among these distances:
193 2 0.00
194 136 0.07
195 2 0.00
196 20 0.01
198 3 0.00
199 30 0.02
200 131 0.07
201 88 0.05
202 70 0.04
203 8 0.00
204 2 0.00
205 6 0.00
206 10 0.01
207 84 0.05
208 69 0.04
209 5 0.00
210 348 0.19
211 532 0.29
212 268 0.14
213 37 0.02
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (209 bp):
CACCACACATGTTCATCAATGCCTACAAGAATGTCTTGTTGTTGCAGTTGCCAAGAGTATTCTTT
CCCTCAGGCTGATAAGGTGAAAGAGTATTTGGCGGTATGGAATCGACTCTTAACCTGTTAATTAT
TTCAAAATTTCCTATATTTTTTAGATTCAATTAATTGTTGCACGCTTCCAGGATCCAAGCAAATT
TGCAGTTGTTGTTG
Found at i:682747 original size:629 final size:616
Alignment explanation
Indices: 681578--684010 Score: 1701
Period size: 629 Copynumber: 3.9 Consensus size: 616
681568 CTCAGTCTAT
* * *
681578 TAAGATGAAAGAGTATTTGGCGGTATGGAATCGACTCTTAACCTATTAATTATTTC-AAAA-TTT
1 TAAGGTGAAAGAGTATTTGGCGGTATGGAATCGACTCTTAACCTGTTAATTATTTCAAAAACATT
* * * * **
681641 CCCATATTTTTTAAG-TTCAATTAATTGTTTCACGCTACTAGGATCCAAGAAAATTAGCAGTTGT
66 ---ATATTTTTTAAGATTCAATTAATTGTTTCACACTTCCAAGATCC-A-AAAATTTTCAGTTGT
* * * * * *
681705 TATTGAACCGCTCATGTTCATCAATGCCTATAAGAATGTCTTGATTGTTGCAGTTGCCACAAAGT
126 TGTTGCACCACACATGTTCATCAATGCCTACAAGAATGTCTTGA-TGTTGCAGTT--CACGAAGT
* * * * * * * **
681770 A-TCCTTTCCCTCATGTTAATAAGGTCAAAAAGTATTTGGAG-GTATAGAATCGAGTATTGATAT
188 ATTCC-TTCCCTCAAGTTGATAAGGT-AAAGAGTATTT--AGCGTATAGAATCTACTCTTAACCT
* ** *
681833 ATTAATTATTTTAAAATTT-TC-TATCTTTTTAAGATTCAACCAATTGTTGCACGTTTCCAGGAT
249 ATTAATTA-TTTAAAATTTCTCATAT-TTTTT-AGATTTAATTAATTGTTGCACGCTTCCAGGAT
* * * *
681896 CCAAGCAAATTTCCAATTGTTACTGCACCACAAATGTTCATCAATGCCTACAAGAATGTCTTGTT
311 CCAAGCAAATTTGCAATTGTTGCTGCACCACACATGTTCATCAATGCCTACAAGAATGTCTTGCT
* * ** * * * *
681961 GTTGTTGTTTCCATAGAGTATTCGCTCTCTAAGGCTGGTAAGGTGAAAGAGTATTTGGAGGTATG
376 GTTGTAGTTACCATAGAGTATTCTTTCCCTCAGGCTGATAAGGTGAAATAGTATTTGGAGGTATG
* * * * * * *
682026 GAATCGACTCTTGATCGGTTAATTATTTCAAATTTTCCTATATTTTTTAGAATCAATTAATTGTT
441 GAATCGACTCTTAACCTGTTAATTATTTCAAAATTTCCTATATTTTTTATATTCAATTAATTATT
* * * *** ** * * * *
682091 GCATGCTTATAAGATTTGATCAAATTTGTAGTTGCTGCGGCACCATACATGTTCATCAA-GCCAA
506 GTATGCTTCTAGGATCCAAGAAAATTTGCAGTTGATGCTGCACCACACATGTTCATCAATGCCAA
* *
682155 GAATGTCTTTTTTATTGCAGTTGCCACGGAATATTCTTTCAAACAGGCTAA
571 GAATGTCTTGTTT-TGGCAGTT----CGGAATATTCTTTCAAACAGGCTAA
* * *
682206 TAAGGTGAAAGAGTATTTGGCGTTATGGAATCGACTCTTAACTTGTTAATTACTTCAAAAACAAT
1 TAAGGTGAAAGAGTATTTGGCGGTATGGAATCGACTCTTAACCTGTTAATTATTTCAAAAAC-AT
* * * * *
682271 TATCTTTTTTTAGATTCAATTAATGGTTGCACACTTCCAAGATCTAACCAAATTTTCAGTTGTTG
65 TATATTTTTTAAGATTCAATTAATTGTTTCACACTTCCAAGATCCAA--AAATTTTCAGTTGTTG
* *
682336 TTGCACCTCACATGTTCATCAATGCCTACAAGAATGTCTTGGCTGTTGCAGTTTTCACGAAGTAT
128 TTGCACCACACATGTTCATCAATGCCTACAAGAATGTCTT-GATGTTGCAG--TTCACGAAGTAT
*
682401 TCCTTCCCTCAAGTTGATTAGGTAAACGAGTATTTAGCGTA-ATGAATCTACTCTTAACCTATTA
190 TCCTTCCCTCAAGTTGATAAGGTAAA-GAGTATTTAGCGTATA-GAATCTACTCTTAACCTATTA
* *
682465 AATATTTCAAAATTTCTCATATTTTTTAGATTTAATTAATTGTTGCACGCTTACAGGATCCAAGC
253 ATTATTT-AAAATTTCTCATATTTTTTAGATTTAATTAATTGTTGCACGCTTCCAGGATCCAAGC
** * * * *
682530 AAATTTGCGGTTGCTGCCGCACCACACTTGTTCATTAATGCCTACAAGAATGTCTTAGCTGTTGT
317 AAATTTGCAATTGTTGCTGCACCACACATGTTCATCAATGCCTACAAGAATGTCTT-GCTGTTGT
* * * * * *
682595 AGTTACCACAGAGTATTCTTTCCCTCAGGATTATAACGTGAAATAGTATTTGGCGGTATGGAATT
381 AGTTACCATAGAGTATTCTTTCCCTCAGGCTGATAAGGTGAAATAGTATTTGGAGGTATGGAATC
* * * * * *
682660 GACTCTTAACCTATTACTCATTTCAAAATTTCCTCTCTTTTTTATATTCAATTAAGTT-TTGTAC
446 GACTCTTAACCTGTTAATTATTTCAAAATTTCCTATATTTTTTATATTCAATTAA-TTATTGTAT
* * * * * * *
682724 GCTTCCAGGATCCAAGAAAATTTGCAATTGATGCTACATCACACATCTTCATCAATGCCCACAA-
510 GCTTCTAGGATCCAAGAAAATTTGCAGTTGATGCTGCACCACACATGTTCATCAATGCCAAGAAT
** * * * *** *
682788 G-AATGTTTTGGCGGTTCTGAGTATTCTTTCCCTCAGGCTGA
575 GTCTTGTTTTGGCAGTTCGGAATATTCTTTCAAACAGGCTAA
** * * * *
682829 TAAGGTGGCAGAGTATTTCGCGGTATGTAATTGACTCTTAACCTGTTAATTATTTC-AAAACTTC
1 TAAGGTGAAAGAGTATTTGGCGGTATGGAATCGACTCTTAACCTGTTAATTATTTCAAAAACAT-
* *
682893 CTATATTTTTTAAGATTCAATGAATTGTTTCACACTTCCATGATTCCAGAAAATTTGT-AGTTGT
65 -TATATTTTTTAAGATTCAATTAATTGTTTCACACTTCCAAGA-TCCA-AAAATTT-TCAGTTGT
* * * * *
682957 TGCTACACCACACATGTTCATCAATACTTACAAGAATGTC---ATG--G--G--CACGTAGTATT
126 TGTTGCACCACACATGTTCATCAATGCCTACAAGAATGTCTTGATGTTGCAGTTCACGAAGTATT
* * * * * * * *
683013 CTTTCCCTCAGGTTGATAAGGAGAAAGAGTATTTGGCGGTATGGAATATGCTCTTAACCTGTTAA
191 CCTTCCCTCAAGTTGATAAGG-TAAAGAGTATTTAGC-GTATAGAATCTACTCTTAACCTATTAA
* * * * **
683078 TTATTTACAAATTTC-CTATATTTTTTAGTTTTAATTAATTGTTGGACGCCTCCATGATCCAAAA
254 TTATTTA-AAATTTCTC-ATATTTTTTAGATTTAATTAATTGTTGCACGCTTCCAGGATCCAAGC
* * * * *
683142 AAGAATTGCAATTGTTGTTTCACCACACATGTTCATCAATGCCTACTATAATGTCTTGACTGTTG
317 AA-ATTTGCAATTGTTGCTGCACCACACATGTTCATCAATGCCTACAAGAATGTCTTG-CTGTTG
* * * * *
683207 TAGTTGCCATAGAGTATTCTTTCCCTCAAGCTGATATGGT-ACAAGT-TTATTTAGAGGTATGGA
380 TAGTTACCATAGAGTATTCTTTCCCTCAGGCTGATAAGGTGA-AA-TAGTATTTGGAGGTATGGA
* * * * *
683270 ATGGAGTCTTAACATGTTAATTATTTCAAAATTTCCAATATTTTTTATATTCAATTTATTATTGC
443 ATCGACTCTTAACCTGTTAATTATTTCAAAATTTCCTATATTTTTTATATTCAATTAATTATTG-
* *
683335 T-TGCTTCTAGGATCCAAGAAAATTTGCAGTTAATGTTGCACCACACATGTTCATCAATGCCTAC
507 TATGCTTCTAGGATCCAAGAAAATTTGCAGTTGATGCTGCACCACACATGTTCATCAATG-C--C
* * *
683399 AAGAATGTCTTGGCTGTTAG-AGTTGCCACGAAGTATTCTTTC---C---CT--
569 AAGAATGTCTT-G-TTTTGGCAGTT--C-GGAA-TATTCTTTCAAACAGGCTAA
** * * * *
683444 CCAGCTGATAAG-G----T----G-ATAGAATCGACTCTTAACATGTTAATTATTT-AAAAA-TT
1 TAAGGTGA-AAGAGTATTTGGCGGTATGGAATCGACTCTTAACCTGTTAATTATTTCAAAAACAT
* * * * * * * * *
683497 TCTTATCTTTTTGAGTTTCAATTGATTGTTGT-ACGCTTGC-AGAATCCAAGCCAATTTGCAGAT
65 T-ATAT-TTTTTAAGATTCAATTAATTGTT-TCACACTTCCAAG-ATCCAA--AAATTTTCAGTT
* * * * *
683560 GTTGTTGC-CTCACACATGTTCATCAATGCCTACAAGAATGTATTGGTTGTTGTAGTTGCCAAGC
124 GTTGTTGCAC-CACACATGTTCATCAATGCCTACAAGAATGTCTT-GATGTTGCAGTT--CACGA
** * * * * * * * * *
683624 AGTATTTTTTTTCTCTCAGGCTGATGAGGTGAAAGAGTGTTT-GCCGGTATGGAATCGAGTTTTA
185 AGTA--TTCCTTCCCTCAAGTTGATAAGGT-AAAGAGTATTTAG-C-GTATAGAATCTACTCTTA
* * * *
683688 ACCTGA-TAATTATTTCAAAATTTC-C-TATCTTTTTAGAGTCAATTAATTGATGCATGCTTCCA
245 ACCT-ATTAATTATTT-AAAATTTCTCATAT-TTTTTAGATTTAATTAATTGTTGCACGCTTCCA
* * * * * * * * *
683750 GGATCTAAGCAAATTTGCAGTTGCTGTTGTAGCACTCATGTTCATCAATGCCTACAAAAATGTAT
307 GGATCCAAGCAAATTTGCAATTGTTGCTGCACCACACATGTTCATCAATGCCTACAAGAATGTCT
* * * * * ** * * * *
683815 TGTCTGTTGCAGTTGCCA-CGAACTATTCTATCTTTCTGGCTAATAAGGTGAAAGAGTATTTGGT
372 TG-CTGTTGTAGTTACCATAG-AGTATTCTTTCCCTCAGGCTGATAAGGTGAAATAGTATTTGGA
* * * * *
683879 GGTATGGAATCGACTCTTTACTTGGTT-ATTATTTTAAAATAT-C-ATATCTTTTTATGTTTCAA
435 GGTATGGAATCGACTCTTAACCT-GTTAATTATTTCAAAATTTCCTATAT-TTTTTAT-ATTCAA
* * * * * * * * **
683941 TTAATTGTTGGACGCTT-TCAAGATCCAAGCAAATTTGCAGTTGTTGTTACACCACATGTGTTCA
497 TTAATTATTGTATGCTTCT-AGGATCCAAGAAAATTTGCAGTTGATGCTGCACCACACATGTTCA
*
684005 TTAATG
561 TCAATG
684011 ACTACAAGAA
Statistics
Matches: 1433, Mismatches: 289, Indels: 177
0.75 0.15 0.09
Matches are distributed among these distances:
603 2 0.00
604 9 0.01
605 71 0.05
606 32 0.02
607 1 0.00
609 2 0.00
611 42 0.03
612 83 0.06
613 200 0.14
614 3 0.00
615 10 0.01
616 16 0.01
617 193 0.13
618 40 0.03
619 71 0.05
620 6 0.00
621 2 0.00
622 7 0.00
623 159 0.11
624 4 0.00
625 1 0.00
627 13 0.01
628 177 0.12
629 270 0.19
630 15 0.01
631 4 0.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (616 bp):
TAAGGTGAAAGAGTATTTGGCGGTATGGAATCGACTCTTAACCTGTTAATTATTTCAAAAACATT
ATATTTTTTAAGATTCAATTAATTGTTTCACACTTCCAAGATCCAAAAATTTTCAGTTGTTGTTG
CACCACACATGTTCATCAATGCCTACAAGAATGTCTTGATGTTGCAGTTCACGAAGTATTCCTTC
CCTCAAGTTGATAAGGTAAAGAGTATTTAGCGTATAGAATCTACTCTTAACCTATTAATTATTTA
AAATTTCTCATATTTTTTAGATTTAATTAATTGTTGCACGCTTCCAGGATCCAAGCAAATTTGCA
ATTGTTGCTGCACCACACATGTTCATCAATGCCTACAAGAATGTCTTGCTGTTGTAGTTACCATA
GAGTATTCTTTCCCTCAGGCTGATAAGGTGAAATAGTATTTGGAGGTATGGAATCGACTCTTAAC
CTGTTAATTATTTCAAAATTTCCTATATTTTTTATATTCAATTAATTATTGTATGCTTCTAGGAT
CCAAGAAAATTTGCAGTTGATGCTGCACCACACATGTTCATCAATGCCAAGAATGTCTTGTTTTG
GCAGTTCGGAATATTCTTTCAAACAGGCTAA
Found at i:683619 original size:194 final size:194
Alignment explanation
Indices: 683276--683629 Score: 466
Period size: 194 Copynumber: 1.8 Consensus size: 194
683266 TGGAATGGAG
* * * *
683276 TCTTAACATGTTAATTATTTCAAAATTTCCAATATTTTTTATATTCAATTTATTATTGCTTGCTT
1 TCTTAACATGTTAATTATTTAAAAATTTCCAATATTTTTGATATTCAATTGATTATTGCTCGCTT
* *
683341 CTAGGATCCAAGAAAATTTGCAGTTAATGTTGCACCACACATGTTCATCAATGCCTACAAGAATG
66 CTAGAATCCAAGAAAATTTGCAGATAATGTTGCACCACACATGTTCATCAATGCCTACAAGAATG
* *
683406 TCTTGGCTGTTAGAGTTGCCACGAAGTATTCTTTCCCTCCAGCTGATAAGGTGATAGAATCGAC
131 TATTGGCTGTTAGAGTTGCCAAGAAGTATTCTTTCCCTCCAGCTGATAAGGTGATAGAATCGAC
** * *
683470 TCTTAACATGTTAATTATTTAAAAATTTCTTATCTTTTTGAGT-TTCAATTGATTGTTG-TACGC
1 TCTTAACATGTTAATTATTTAAAAATTTCCAATATTTTTGA-TATTCAATTGATTATTGCT-CGC
** **
683533 TTGC-AGAATCCAAGCCAATTTGCAGATGTTGTTGC-CTCACACATGTTCATCAATGCCTACAAG
64 TT-CTAGAATCCAAGAAAATTTGCAGATAATGTTGCAC-CACACATGTTCATCAATGCCTACAAG
* *
683596 AATGTATTGGTTGTT-GTAGTTGCCAAGCAGTATT
127 AATGTATTGGCTGTTAG-AGTTGCCAAGAAGTATT
683630 TTTTTTCTCT
Statistics
Matches: 137, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
193 3 0.02
194 132 0.96
195 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (194 bp):
TCTTAACATGTTAATTATTTAAAAATTTCCAATATTTTTGATATTCAATTGATTATTGCTCGCTT
CTAGAATCCAAGAAAATTTGCAGATAATGTTGCACCACACATGTTCATCAATGCCTACAAGAATG
TATTGGCTGTTAGAGTTGCCAAGAAGTATTCTTTCCCTCCAGCTGATAAGGTGATAGAATCGAC
Found at i:683831 original size:212 final size:210
Alignment explanation
Indices: 683462--684043 Score: 587
Period size: 212 Copynumber: 2.8 Consensus size: 210
683452 TAAGGTGATA
* * * *
683462 GAATCGACTCTTAACATGTTAATTATTTAAAAATTTCTTATCTTTTT-GAGTTTCAATTGATTGT
1 GAATCGACTTTTAACATGATAATTATTTAAAAATTTCATATCTTTTTAGAG--TCAATTAATTGT
* * * * * **
683526 TGTACGCTTGCAGAATCCAAGCCAATTTGCAGATGTTGTTGCCTCACACATGTTCATCAATGCCT
64 TGCACGCTTCCAGGATCCAAGCAAATTTGCAGTTGTTGTTGCAGCACACATGTTCATCAATGCCT
* * * * * * * *
683591 ACAAGAATGTATTGGTTGTTGTAGTTGCCAAGCAGTATT-TTTTTTCTCTCAGGCTGATGAGGTG
129 ACAAAAATGTATTGGTTGTTGCAGTTGCCAAGAACTATTCTATCTT-TCT--GGCTAATAAGGTG
*
683655 AAAGAGTGTTTGCCGGTATG
191 AAAGAGTATTTGCCGGTATG
* * * * *
683675 GAATCGAGTTTTAACCTGATAATTATTTCAAAATTTCCTATCTTTTTAGAGTCAATTAATTGATG
1 GAATCGACTTTTAACATGATAATTATTTAAAAATTTCATATCTTTTTAGAGTCAATTAATTGTTG
* * * * *
683740 CATGCTTCCAGGATCTAAGCAAATTTGCAGTTGCTGTTGTAGCACTCATGTTCATCAATGCCTAC
66 CACGCTTCCAGGATCCAAGCAAATTTGCAGTTGTTGTTGCAGCACACATGTTCATCAATGCCTAC
*
683805 AAAAATGTATT-GTCTGTTGCAGTTGCCACGAACTATTCTATCTTTCTGGCTAATAAGGTGAAAG
131 AAAAATGTATTGGT-TGTTGCAGTTGCCAAGAACTATTCTATCTTTCTGGCTAATAAGGTGAAAG
**
683869 AGTATTTGGTGGTATG
195 AGTATTTGCCGGTATG
* * * * * **
683885 GAATCGACTCTTT-ACTTGGTTATTATTTTAAAATATCATATCTTTTTATGTTTCAATTAATTGT
1 GAATCGACT-TTTAACATGATAATTATTTAAAAATTTCATATCTTTTTA-GAGTCAATTAATTGT
* * * * * ** * *
683949 TGGACGCTTTCAAGATCCAAGCAAATTTGCAGTTGTTGTTACACCACATGTGTTCATTAATGACT
64 TGCACGCTTCCAGGATCCAAGCAAATTTGCAGTTGTTGTTGCAGCACACATGTTCATCAATGCCT
* * * *
684014 ACAAGAATGTTTTGGATGTTGCAATTGCCA
129 ACAAAAATGTATTGGTTGTTGCAGTTGCCA
684044 CCTTAGTTTT
Statistics
Matches: 303, Mismatches: 60, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
210 65 0.21
211 92 0.30
212 98 0.32
213 45 0.15
214 3 0.01
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (210 bp):
GAATCGACTTTTAACATGATAATTATTTAAAAATTTCATATCTTTTTAGAGTCAATTAATTGTTG
CACGCTTCCAGGATCCAAGCAAATTTGCAGTTGTTGTTGCAGCACACATGTTCATCAATGCCTAC
AAAAATGTATTGGTTGTTGCAGTTGCCAAGAACTATTCTATCTTTCTGGCTAATAAGGTGAAAGA
GTATTTGCCGGTATG
Found at i:683831 original size:406 final size:405
Alignment explanation
Indices: 683063--683843 Score: 945
Period size: 406 Copynumber: 1.9 Consensus size: 405
683053 ATGGAATATG
* * * *
683063 CTCTTAACCTGTTAATTATTTACAAATTTCCTATATTTTTTAGTTTTAATTAATTGTTGGACGCC
1 CTCTTAACATGTTAATTATTTAAAAATTTCCTATATTTTTGAGTTTCAATTAATTGTTGGACGCC
* * *
683128 TCCATGATCCAAAAAAGAATTGCAATTGTTGTTTCACCACACATGTTCATCAATGCCTACTATAA
66 TCCATGATCCAAAAAAGAATTGCAATTGTTGTTGCACCACACATGTTCATCAATGCCTACAAGAA
* **
683193 TGTCTTGACTGTTGTAGTTGCCATAGAGTATTCTTTCCCTCAAGCTGATATGGTACAAGTTTATT
131 TGTATTGACTGTTGTAGTTGCCATAGAGTATTCTTTCCCTCAAGCTGATATGGTACAAGAGTATT
* * * *
683258 TAGAGGTATGGAATGGAGTCTTAACATGTTAATTATTTCAAAATTTCCAATATTTTTTATATTCA
196 TAGAGGTATGGAATCGAGTCTTAACATGATAATTATTTCAAAATTTCC-ATATTTTTTAGAGTCA
* * *
683323 ATTTATTATTGCTTGCTTCTAGGATCCAAGAAAATTTGCAGTTAATGTTGCACCACACATGTTCA
260 ATTAATTATTGCATGCTTCCAGGATCCAAGAAAATTTGCAGTTAATGTTGCACCACACATGTTCA
* * *
683388 TCAATGCCTACAAGAATGTCTTGGCTGTTAGAGTTGCCACGAAGTATTCTTTCCCTCCAGCTGAT
325 TCAATGCCTACAAAAATGTATTGGCTGTTAGAGTTGCCACGAACTATTCTTTCCCTCCAGCTGAT
683453 AAGGTGATAGAATCGA
390 AAGGTGATAGAATCGA
* * * * *
683469 CTCTTAACATGTTAATTATTTAAAAATTTCTTATCTTTTTGAGTTTCAATTGATTGTTGTACGCT
1 CTCTTAACATGTTAATTATTTAAAAATTTCCTATATTTTTGAGTTTCAATTAATTGTTGGACGCC
* *** *
683534 TGCA-GAATCCAAGCCA-ATTTGCAGA-TGTTGTTGC-CTCACACATGTTCATCAATGCCTACAA
66 TCCATG-ATCCAAAAAAGAATTGCA-ATTGTTGTTGCAC-CACACATGTTCATCAATGCCTACAA
** * * *
683595 GAATGTATTGGTTGTTGTAGTTGCCA-AGCAGTATTTTTTTTCTCTCAGGCTGATGA-GGTGA-A
128 GAATGTATTGACTGTTGTAGTTGCCATAG-AGTA--TTCTTTCCCTCAAGCTGAT-ATGGT-ACA
* * * *
683657 AGAGTGTTT-GCCGGTATGGAATCGAGTTTTAACCTGATAATTATTTCAAAATTTCC-TATCTTT
188 AGAGTATTTAG-AGGTATGGAATCGAGTCTTAACATGATAATTATTTCAAAATTTCCATAT-TTT
* * ** * *
683720 TTAGAGTCAATTAATTGA-TGCATGCTTCCAGGATCTAAGCAAATTTGCAGTTGCTGTTGTAGCA
251 TTAGAGTCAATTAATT-ATTGCATGCTTCCAGGATCCAAGAAAATTTGCAGTTAATGTTGCACCA
* *
683784 CTCATGTTCATCAATGCCTACAAAAATGTATTGTCTGTT-GCAGTTGCCACGAACTATTCT
315 CACATGTTCATCAATGCCTACAAAAATGTATTGGCTGTTAG-AGTTGCCACGAACTATTCT
683844 ATCTTTCTGG
Statistics
Matches: 316, Mismatches: 47, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
404 3 0.01
405 69 0.22
406 175 0.55
407 67 0.21
408 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (405 bp):
CTCTTAACATGTTAATTATTTAAAAATTTCCTATATTTTTGAGTTTCAATTAATTGTTGGACGCC
TCCATGATCCAAAAAAGAATTGCAATTGTTGTTGCACCACACATGTTCATCAATGCCTACAAGAA
TGTATTGACTGTTGTAGTTGCCATAGAGTATTCTTTCCCTCAAGCTGATATGGTACAAGAGTATT
TAGAGGTATGGAATCGAGTCTTAACATGATAATTATTTCAAAATTTCCATATTTTTTAGAGTCAA
TTAATTATTGCATGCTTCCAGGATCCAAGAAAATTTGCAGTTAATGTTGCACCACACATGTTCAT
CAATGCCTACAAAAATGTATTGGCTGTTAGAGTTGCCACGAACTATTCTTTCCCTCCAGCTGATA
AGGTGATAGAATCGA
Found at i:684754 original size:18 final size:17
Alignment explanation
Indices: 684731--684773 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
684721 AATTGATATA
*
684731 ATATTTTCTATTCTTTT
1 ATATTTTCTATACTTTT
*
684748 GATATTTATTTATACTTTT
1 -ATATTT-TCTATACTTTT
684767 ATATTTT
1 ATATTTT
684774 TGTTTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 12 0.55
19 9 0.41
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.67
Consensus pattern (17 bp):
ATATTTTCTATACTTTT
Found at i:688171 original size:203 final size:203
Alignment explanation
Indices: 687831--688611 Score: 693
Period size: 206 Copynumber: 3.8 Consensus size: 203
687821 TTTTAGTTTA
* * * * * * * * *
687831 AATTAATTATTGCACGCTTTCAGGATCCAAGCATATTTACAATTGATGAT-ACACCACACATGTT
1 AATTAATTGTTACACACTTTTAGGATCCAAGCAAATTTGCAGTTGTTGTTGA-ACCACACATGTT
* * * * * *
687895 TATCAATGCCTACAAGAATGTCTTGGCTATTGTAGTTGCCAC-AGAGTATTTTTTTCCTCAAGCT
65 CATCAATGCCTACAAGAATGTCTTGGCTGTTGCAGTTGCCACGA-AGTATTCTTTT-CGCATGCT
* *
687959 GAGAAGGTGAAAGGGTACTTAGCGATATGGAATCGACTCTTAACT-TTATTTCAAAATTTCTCAT
128 GAGAAGGTGAAAGAGTATTTAGCGATATGGAATCGACTCTTAACTATTATTTCAAAATTTCTCAT
688023 CTTTTTATATTC
193 CTTTTT-TATTC
**
688035 AATTAATTGTTACACTTTTTTAGGATCCAAG-AAATTTGCAGTT-TCTGTTGAACCACACATGTT
1 AATTAATTGTTACACACTTTTAGGATCCAAGCAAATTTGCAGTTGT-TGTTGAACCACACATGTT
* * * * * * *
688098 CATCAATGCATAAAAGAATGTCTTGGTTGTTACAATTGCAACGAAGTATTCTTTTCAGCATGCTA
65 CATCAATGCCTACAAGAATGTCTTGGCTGTTGCAGTTGCCACGAAGTATTCTTTTC-GCATGCTG
* * * * * *
688163 ATAAGGTGAAAGAGTTTTTGGC-AGTATGGAATCAACTCTTAACTTGTTAATTATTTTAAATTTT
129 AGAAGGTGAAAGAGTATTTAGCGA-TATGGAATCGACTCTTAAC----T-ATTATTTCAAAATTT
688227 C-CTATCTTTTTTAGTTTC
188 CTC-ATCTTTTTTA--TTC
* * * * * * * *
688245 AATTAATTGTTTCACGCTTCTAAGACCCAAGCAAATTTGCAGTTGTTGCTGGACCACACGTGTTC
1 AATTAATTGTTACACACTTTTAGGATCCAAGCAAATTTGCAGTTGTTGTTGAACCACACATGTTC
* * ** * *
688310 ATCAATACCGACAAGAATGTCTTGTATGTTGCAGTTGCCACGAAGTACTC-TTTCGCTCAGGCTG
66 ATCAATGCCTACAAGAATGTCTTGGCTGTTGCAGTTGCCACGAAGTATTCTTTTCG--CATGCTG
* * * *
688374 AGAAGGTG--AGAGTATTTAGCGGTATGGAATTGACTTTTAACCTGCTCATTATTTCAAAATTCC
129 AGAAGGTGAAAGAGTATTTAGCGATATGGAATCGACTCTTAA----CT-ATTATTTCAAAATTTC
*
688437 TCAT-ATTTTTATTC
189 TCATCTTTTTTATTC
* * * * *
688451 AATTAATTGTTGCACACTTTCAGGATCCAAGCAAATTTTCAGTTGTTGTTGCACCACCCATGTTC
1 AATTAATTGTTACACACTTTTAGGATCCAAGCAAATTTGCAGTTGTTGTTGAACCACACATGTTC
* * * ** *
688516 ATCAATGCCTACAATAATGTCTTGACTGTTGTAGTTTTCACGGAGTATTCTTTCTCGCATGCTGA
66 ATCAATGCCTACAAGAATGTCTTGGCTGTTGCAGTTGCCACGAAGTATTCTTT-TCGCATGCTGA
* * *
688581 TAAGGTGAAAGAGTATTTGGCGGTATGGAAT
130 GAAGGTGAAAGAGTATTTAGCGATATGGAAT
688612 TGATTATAGA
Statistics
Matches: 461, Mismatches: 88, Indels: 52
0.77 0.15 0.09
Matches are distributed among these distances:
202 2 0.00
203 107 0.23
204 28 0.06
206 110 0.24
207 3 0.01
208 33 0.07
209 63 0.14
210 33 0.07
211 80 0.17
212 1 0.00
213 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (203 bp):
AATTAATTGTTACACACTTTTAGGATCCAAGCAAATTTGCAGTTGTTGTTGAACCACACATGTTC
ATCAATGCCTACAAGAATGTCTTGGCTGTTGCAGTTGCCACGAAGTATTCTTTTCGCATGCTGAG
AAGGTGAAAGAGTATTTAGCGATATGGAATCGACTCTTAACTATTATTTCAAAATTTCTCATCTT
TTTTATTC
Done.