Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008958.1 Hibiscus syriacus cultivar Beakdansim tig00112289_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: 2490255
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 11
Found at i:468111 original size:17 final size:18
Alignment explanation
Indices: 468089--468131 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
468079 ATATATCCGG
468089 TATCATT-TTACCGGTTT
1 TATCATTGTTACCGGTTT
468106 TATCATTTTGTTACCGGTTT
1 TATCA--TTGTTACCGGTTT
468126 TATCAT
1 TATCAT
468132 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.22
18 1 0.04
19 2 0.09
20 15 0.65
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (18 bp):
TATCATTGTTACCGGTTT
Found at i:468121 original size:20 final size:20
Alignment explanation
Indices: 468094--468140 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
468084 TCCGGTATCA
468094 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
468113 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
468134 TTTTACC
1 TTTTACC
468141 TGTTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:468287 original size:20 final size:20
Alignment explanation
Indices: 468261--468306 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
468251 CACTTTTAAA
*
468261 TTTACCGGTTTTATCAT-TT
1 TTTACCGATTTTATCATATT
468280 TGTTACCGATTTTATCATATT
1 T-TTACCGATTTTATCATATT
468301 TTTACC
1 TTTACC
468307 TGGTATATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 20 0.83
21 3 0.12
ACGTcount: A:0.20, C:0.17, G:0.09, T:0.54
Consensus pattern (20 bp):
TTTACCGATTTTATCATATT
Found at i:468767 original size:225 final size:221
Alignment explanation
Indices: 468371--468805 Score: 741
Period size: 225 Copynumber: 1.9 Consensus size: 221
468361 TTAAAACTGC
468371 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
*
468436 TAATTTAATAATTTAATTTACACAAAATTTATTTGATTGTTTTGATATTTTATAAAATATTATTT
66 TAATTTAATAATTTAATTTACACAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTT
*
468501 AGAATTTAAATTTAACAATATTAACCAAATAATTTAATAAATATGTTTTCAACAGTGAAATAAGT
131 AGAATTTAAATTTAACAATATTAACAAAATAA-TTAATAAATA--TTTTC-ACAGTGAAATAAGT
468566 ATGGACACTTTTATAAAATGATATATACTT
192 ATGGACACTTTTATAAAATGATATATACTT
468596 TTTTGAAAGTTATGTAATTTATGTTTCAATTT-TTTAATAGTGTTTCATGTTTTCCACCTACAAT
1 TTTT-AAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAAT
468660 ATTAATTTAATAATTTAATTTACACAAAAATTA-TTGATTGTTTTGATATTTTATAAAATATTAT
65 A-TAATTTAATAATTTAATTTACACAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTAT
*
468724 TTAGATTTTAAATTTAACAATATTAACTAAAGATAA-TAATAAATATTTTCACAGTGAAATAAGT
129 TTAGAATTTAAATTTAACAATATTAAC-AAA-ATAATTAATAAATATTTTCACAGTGAAATAAGT
*
468788 ATGTACACTTTTATAAAA
192 ATGGACACTTTTATAAAA
468806 AGGATAGATA
Statistics
Matches: 202, Mismatches: 4, Indels: 11
0.93 0.02 0.05
Matches are distributed among these distances:
222 31 0.15
223 5 0.02
225 103 0.51
226 59 0.29
227 4 0.02
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (221 bp):
TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
TAATTTAATAATTTAATTTACACAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTT
AGAATTTAAATTTAACAATATTAACAAAATAATTAATAAATATTTTCACAGTGAAATAAGTATGG
ACACTTTTATAAAATGATATATACTT
Found at i:471642 original size:29 final size:30
Alignment explanation
Indices: 471609--471676 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
471599 TAATTACGTA
471609 AAAATCGAAAATCA-TTTTAATCGATAATC
1 AAAATCGAAAATCATTTTTAATCGATAATC
471638 AAAATCGAAAATCATTTTTAATCGATAATC
1 AAAATCGAAAATCATTTTTAATCGATAATC
471668 AAAATCGAA
1 AAAATCGAA
471677 TGGATAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 14 0.37
30 24 0.63
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.29
Consensus pattern (30 bp):
AAAATCGAAAATCATTTTTAATCGATAATC
Found at i:473865 original size:19 final size:19
Alignment explanation
Indices: 473841--473893 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
473831 AAAATGTTTA
*
473841 AAAGTATCGGTACTTATAT
1 AAAGTATCGATACTTATAT
473860 AAAGTATCGATACTTATAT
1 AAAGTATCGATACTTATAT
*
473879 AAAGTATCGAAACTT
1 AAAGTATCGATACTT
473894 TTTTAGGAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (19 bp):
AAAGTATCGATACTTATAT
Found at i:474659 original size:15 final size:13
Alignment explanation
Indices: 474631--474655 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
474621 AGCAGACCAG
474631 AATAGAACAGATC
1 AATAGAACAGATC
474644 AATAGAACAGAT
1 AATAGAACAGAT
474656 ATCAGTAGAC
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:0.56, C:0.12, G:0.16, T:0.16
Consensus pattern (13 bp):
AATAGAACAGATC
Found at i:482349 original size:3 final size:3
Alignment explanation
Indices: 482341--482399 Score: 81
Period size: 3 Copynumber: 21.0 Consensus size: 3
482331 TTTGTTTTAT
*
482341 TTA TTA TTA TTA TT- TT- TTA ATA TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
482386 -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
482400 AATAAATAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
2 8 0.16
3 43 0.84
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:482364 original size:16 final size:16
Alignment explanation
Indices: 482340--482370 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
482330 ATTTGTTTTA
*
482340 TTTATTATTATTATTT
1 TTTAATATTATTATTT
482356 TTTAATATTATTATT
1 TTTAATATTATTATT
482371 ATTATTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTAATATTATTATTT
Found at i:482375 original size:25 final size:25
Alignment explanation
Indices: 482341--482399 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
482331 TTTGTTTTAT
*
482341 TTATTATTATTATT-TTTTAATATTA
1 TTATTATTATTATTATATT-ATATTA
482366 TTATTATTATTATTATATTATATTA
1 TTATTATTATTATTATATTATATTA
482391 TTATTATTA
1 TTATTATTA
482400 AATAAATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 29 0.91
26 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (25 bp):
TTATTATTATTATTATATTATATTA
Found at i:483731 original size:22 final size:21
Alignment explanation
Indices: 483693--483736 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
483683 TTTAATTGTA
*
483693 AGTTTTATTATTTTTTATATTT
1 AGTTTTATTATTATTTAT-TTT
483715 AGTTTTAATT-TTATTTATTTT
1 AGTTTT-ATTATTATTTATTTT
483736 A
1 A
483737 CTCATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 13 0.65
23 3 0.15
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (21 bp):
AGTTTTATTATTATTTATTTT
Found at i:483781 original size:37 final size:38
Alignment explanation
Indices: 483699--483783 Score: 93
Period size: 37 Copynumber: 2.3 Consensus size: 38
483689 TGTAAGTTTT
* * *
483699 ATTATTTTTTATATTTAGTTTTAATTTTATTTATTTTA
1 ATTATTATTTATATTTAGTTTTAATTTTATATATTTAA
* * *
483737 CTCATTATTTAT-TTATA-TTTTAATTTTATATGTTTAA
1 ATTATTATTTATATT-TAGTTTTAATTTTATATATTTAA
483774 ATTATTATTT
1 ATTATTATTT
483784 TCATAATTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
37 27 0.71
38 11 0.29
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (38 bp):
ATTATTATTTATATTTAGTTTTAATTTTATATATTTAA
Found at i:491451 original size:114 final size:114
Alignment explanation
Indices: 491251--491470 Score: 368
Period size: 114 Copynumber: 1.9 Consensus size: 114
491241 CACGTTCTCG
* *
491251 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATTTGATCTGGTTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGGTTC
* *
491316 GGTATGAACCCCAAAACCAATCATTAGATTTAAAATATGAATTTGCTCA
66 GGTAAGAACCCCAAAACCAATCATTAGATTTAAAAGATGAATTTGCTCA
*
491365 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGGTTC
* * *
491430 GGTAAGAATCCCAAAACCAATCATTGGATTTGAAAGATGAA
66 GGTAAGAACCCCAAAACCAATCATTAGATTTAAAAGATGAA
491471 CATGATCATC
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 98 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (114 bp):
TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGGTTC
GGTAAGAACCCCAAAACCAATCATTAGATTTAAAAGATGAATTTGCTCA
Found at i:493768 original size:23 final size:22
Alignment explanation
Indices: 493713--493790 Score: 120
Period size: 22 Copynumber: 3.5 Consensus size: 22
493703 ATCTACATTC
* *
493713 TTCAAAGATGATAGATTTTCTC
1 TTCAAAGATGATAGATTCTCTT
493735 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
493757 TTGAAAAGATGATAGATTCTCTT
1 TT-CAAAGATGATAGATTCTCTT
493780 TTCAAAGATGA
1 TTCAAAGATGA
493791 AAGCTTTATT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 30 0.59
23 21 0.41
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:494686 original size:164 final size:165
Alignment explanation
Indices: 494308--494794 Score: 809
Period size: 164 Copynumber: 3.0 Consensus size: 165
494298 AGAATAAGCA
* *
494308 TTATCTTGAGATTGGGGCATGTTACCCAATCAACGTGTTATTTTAAAACATAATGAGAAAACCAT
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACGTGTTATTTTGAAACATAATGAGAAAACGAT
494373 TTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTTCT
66 TTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTTCT
*
494438 TAGTTTTTTTTACTTAGTAAACTATTTCCAGCAGCC
131 TAG-TTTTTTTACTTAGTAAACTATTTCCAACAGCC
494474 TTATCTTGAGATTGGGGCATGTTACCCAATCAACGTGTTATTTTGAAACATAATGAGAAAACGAT
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACGTGTTATTTTGAAACATAATGAGAAAACGAT
494539 TTCCATAGTTTCTCATTTTATCTTTTCT-AAATGAAATTGTTGAAAAGTAAGAAAACGATTTTCT
66 TTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTTCT
494603 TAGTTTTTTTACTTAGTAAACTATTTCCAACAGCC
131 TAGTTTTTTTACTTAGTAAACTATTTCCAACAGCC
* * *
494638 TTATCTTGAGATTGGGGCATATTACCCAATCAACATGTTATCTTGAAACATAATGAGAAAACGAT
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACGTGTTATTTTGAAACATAATGAGAAAACGAT
* ** * *
494703 TTCCATAGTTTTTCATTCAATATTTTCTAAAAATGAAA-TGTTGAAAAGTAAGAAAACGATTTCC
66 TTCCATAGTTTCTCATTTTATCTTTTCT-AAAATGAAATTGTTGAAAAGTAAGAAAACGATTTTC
* * *
494767 ATAG-TATCTTACTTAGTAAACTATTTCC
130 TTAGTTTTTTTACTTAGTAAACTATTTCC
494795 CACATCCATA
Statistics
Matches: 305, Mismatches: 14, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
164 139 0.46
165 67 0.22
166 99 0.32
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (165 bp):
TTATCTTGAGATTGGGGCATGTTACCCAATCAACGTGTTATTTTGAAACATAATGAGAAAACGAT
TTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTTCT
TAGTTTTTTTACTTAGTAAACTATTTCCAACAGCC
Found at i:494955 original size:37 final size:36
Alignment explanation
Indices: 494841--495154 Score: 182
Period size: 37 Copynumber: 8.5 Consensus size: 36
494831 TAGCAATTTA
* * * *
494841 TCTCACTTGAGATTGTTTTTCTTAAAACAAA-TTATT
1 TCTCACTTGAGATAGTTTCTCTCAAAACAAACTT-TG
* * * * * *
494877 TCTCGCTTGAGAAAGTTTCCCTCGAAACAACAATTTA
1 TCTCACTTGAGATAGTTTCTCTCAAAACAA-ACTTTG
* * *
494914 TCTCACTTGAGATTGTTTTTCTTAAAACAGAACTTTG
1 TCTCACTTGAGATAGTTTCTCTCAAAACA-AACTTTG
* * * *
494951 TCTCACTCGAGACAGTTTCACTCGAAACAGAACTTTG
1 TCTCACTTGAGATAGTTTCTCTCAAAACA-AACTTTG
* * * * *
494988 TCTCTCTCGAGACAGTTTCACTCGAAACATAACTTTG
1 TCTCACTTGAGATAGTTTCTCTCAAAACA-AACTTTG
* * * * *
495025 TCTCTCTCGAGACAGTTTCACTCGAAACATAACTTTG
1 TCTCACTTGAGATAGTTTCTCTCAAAACA-AACTTTG
* * * * *
495062 TCTCTCTCGAGACAGTTTCACTCGAAACATAACTTTG
1 TCTCACTTGAGATAGTTTCTCTCAAAACA-AACTTTG
* * * *
495099 TCTCGCTCT-AGACAGTTTCACTCGAAACAGAACTTTG
1 TCTCACT-TGAGATAGTTTCTCTCAAAACA-AACTTTG
* * *
495136 TCTCGCTCGAGACAGTTTC
1 TCTCACTTGAGATAGTTTC
495155 ACTCGAAATA
Statistics
Matches: 243, Mismatches: 30, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
36 23 0.09
37 217 0.89
38 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (36 bp):
TCTCACTTGAGATAGTTTCTCTCAAAACAAACTTTG
Found at i:494965 original size:22 final size:22
Alignment explanation
Indices: 494940--495002 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 22
494930 TTTTCTTAAA
494940 ACAGAACTTTGTCTCACTCGAG
1 ACAGAACTTTGTCTCACTCGAG
*
494962 ACAG-----T-T-TCACTCGAA
1 ACAGAACTTTGTCTCACTCGAG
*
494977 ACAGAACTTTGTCTCTCTCGAG
1 ACAGAACTTTGTCTCACTCGAG
494999 ACAG
1 ACAG
495003 TTTCACTCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 14
0.65 0.06 0.29
Matches are distributed among these distances:
15 12 0.39
16 1 0.03
17 1 0.03
20 1 0.03
21 1 0.03
22 15 0.48
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (22 bp):
ACAGAACTTTGTCTCACTCGAG
Found at i:495182 original size:37 final size:37
Alignment explanation
Indices: 494938--495167 Score: 388
Period size: 37 Copynumber: 6.2 Consensus size: 37
494928 GTTTTTCTTA
* *
494938 AAACAGAACTTTGTCTCACTCGAGACAGTTTCACTCG
1 AAACATAACTTTGTCTCTCTCGAGACAGTTTCACTCG
*
494975 AAACAGAACTTTGTCTCTCTCGAGACAGTTTCACTCG
1 AAACATAACTTTGTCTCTCTCGAGACAGTTTCACTCG
495012 AAACATAACTTTGTCTCTCTCGAGACAGTTTCACTCG
1 AAACATAACTTTGTCTCTCTCGAGACAGTTTCACTCG
495049 AAACATAACTTTGTCTCTCTCGAGACAGTTTCACTCG
1 AAACATAACTTTGTCTCTCTCGAGACAGTTTCACTCG
* *
495086 AAACATAACTTTGTCTCGCTCTAGACAGTTTCACTCG
1 AAACATAACTTTGTCTCTCTCGAGACAGTTTCACTCG
* *
495123 AAACAGAACTTTGTCTCGCTCGAGACAGTTTCACTCG
1 AAACATAACTTTGTCTCTCTCGAGACAGTTTCACTCG
*
495160 AAATATAA
1 AAACATAA
495168 ATTTCCATCT
Statistics
Matches: 185, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 185 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (37 bp):
AAACATAACTTTGTCTCTCTCGAGACAGTTTCACTCG
Found at i:495336 original size:3 final size:3
Alignment explanation
Indices: 495319--495383 Score: 68
Period size: 3 Copynumber: 23.0 Consensus size: 3
495309 TTTATTTCAT
* *
495319 TTA TT- TTA TTTA TTA TTA TTA TT- TTG TT- TTA ATA TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
495362 TTA -TA TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
495384 AATAAATAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
2 10 0.19
3 41 0.76
4 3 0.06
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:495354 original size:19 final size:20
Alignment explanation
Indices: 495319--495383 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 20
495309 TTTATTTCAT
*
495319 TTATT-TTA-TTTATTATTA
1 TTATTATTATTTTAATATTA
*
495337 TTATT-TTGTTTTAATATTA
1 TTATTATTATTTTAATATTA
*
495356 TTATTATTATATT-ATATTA
1 TTATTATTATTTTAATATTA
495375 TTATTATTA
1 TTATTATTA
495384 AATAAATAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
18 7 0.17
19 29 0.71
20 5 0.12
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (20 bp):
TTATTATTATTTTAATATTA
Found at i:495354 original size:22 final size:22
Alignment explanation
Indices: 495329--495383 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
495319 TTATTTTATT
* * *
495329 TATTATTATTATTTTGTTTTAA
1 TATTATTATTATTATATTATAA
*
495351 TATTATTATTATTATATTATAT
1 TATTATTATTATTATATTATAA
495373 TATTATTATTA
1 TATTATTATTA
495384 AATAAATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TATTATTATTATTATATTATAA
Found at i:500695 original size:24 final size:20
Alignment explanation
Indices: 500668--500725 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
500658 GCATGGGTAG
500668 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
*
500692 TGCATCGATGTACTGTAGAA
1 TGCATCGATGCACTGTAGAA
500712 TGCATCGATGCACT
1 TGCATCGATGCACT
500726 TCAAGGGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 17 0.53
22 1 0.03
23 2 0.06
24 12 0.38
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:501740 original size:5 final size:5
Alignment explanation
Indices: 501719--501763 Score: 74
Period size: 5 Copynumber: 9.2 Consensus size: 5
501709 ATATGTTTTG
*
501719 TGATA TGA-A TTATA TGATA TGATA TGATA TGATA TGATA TGATA T
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA T
501764 ATGTGTGTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
4 3 0.08
5 34 0.92
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.42
Consensus pattern (5 bp):
TGATA
Found at i:505500 original size:7 final size:7
Alignment explanation
Indices: 505488--505545 Score: 116
Period size: 7 Copynumber: 8.3 Consensus size: 7
505478 ATCATGCATT
505488 AGAAGAA
1 AGAAGAA
505495 AGAAGAA
1 AGAAGAA
505502 AGAAGAA
1 AGAAGAA
505509 AGAAGAA
1 AGAAGAA
505516 AGAAGAA
1 AGAAGAA
505523 AGAAGAA
1 AGAAGAA
505530 AGAAGAA
1 AGAAGAA
505537 AGAAGAA
1 AGAAGAA
505544 AG
1 AG
505546 CCTTCTACTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 51 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (7 bp):
AGAAGAA
Found at i:505859 original size:23 final size:23
Alignment explanation
Indices: 505812--505860 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
505802 AATAACATAT
**
505812 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
505835 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
505858 TAG
1 TAG
505861 ATATTTAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:506398 original size:198 final size:196
Alignment explanation
Indices: 505955--506641 Score: 783
Period size: 201 Copynumber: 3.4 Consensus size: 196
505945 TTTTTGAAGT
* * *
505955 AAACCGGTGTATTTATACCGGTAACATTGTAAATTTACCTATTAGATTATAATTATTGGTTTCGA
1 AAACCGGTATATTTATACCGGT-ACATTGTAAATTTACCTATTACATTATAATTATTCGTTTCGA
* * *
506020 TGTTTTTTGGATCGATAGAATTTTAAATGTATCAACACTTTATGCTTGCACCTCATTGGGCATTC
65 TG-TTTTTGGATCGATACAATTTTAAATGTATCGACACTTTATGCTTGCACCTCGTTGGGCATT-
* * * * * * *
506085 CTATTTCATTCTGGAAAAAAGTATCAACACAAACTATAA-AAGTATCAATACATT-AT-TTAGGC
128 C-A-TT-A---TGGACAAAAGTATCGACACAAA-TTTAACAAGTGTCGATAC-TTGATGCT-GAC
506147 CTATTTTCTCATA
184 CTATTTTCTCATA
* *
506160 AAACCGGTATATTTATACCGTGTACATTTTAAATTTACCTATCACATTATAATT-TTCGTTTCGA
1 AAACCGGTATATTTATACCG-GTACATTGTAAATTTACCTATTACATTATAATTATTCGTTTCGA
* * * *
506224 TGTTTTTGCGATTGATACAATTTTACATGTATCGACACTTTATTCTTGCATCTCGTTGGGCATTC
65 TGTTTTTG-GATCGATACAATTTTAAATGTATCGACACTTTATGCTTGCACCTCGTTGGGCATTC
*
506289 ATTATGGACAAAATGTATCGACACAAATTTAACAAGTGTCGATACTTGATGCTGACATATTTTCT
129 ATTATGGACAAAA-GTATCGACACAAATTTAACAAGTGTCGATACTTGATGCTGACCTATTTTCT
*
506354 CATG
193 CATA
*
506358 AAACCGGTATATTTATATCGGCTACATTGTAAATTTACCTATTACATTATAATTA-TCGGTTTCG
1 AAACCGGTATATTTATACCGG-TACATTGTAAATTTACCTATTACATTATAATTATTC-GTTTCG
* * *
506422 ATGTTTTTGGGATCGATAC-TTTTAATAAATGTATAGACACTTTATGCATGCACCTCGTTTGGGC
64 ATGTTTTT-GGATCGATACAATTT--TAAATGTATCGACACTTTATGCTTGCACCTCG-TTGGGC
* ** *
506486 ATTCATTCTGGACAATAAGTATCGACACAAATTCCACAAGTGTCGATACATGATGCTGACCTATT
125 ATTCATTATGGACAA-AAGTATCGACACAAATTTAACAAGTGTCGATACTTGATGCTGACCTATT
506551 TTCTCATA
189 TTCTCATA
** * * * * *
506559 AAACTAGTATATTTATACCGGTTATATTATTAATTTACCTATTACATTATAATTATTGGTTTTGA
1 AAACCGGTATATTTATACCGG-TACATTGTAAATTTACCTATTACATTATAATTATTCGTTTCGA
*
506624 TGTTTTTTGGGTCGATAC
65 TG-TTTTTGGATCGATAC
506642 TTGTAGAAAA
Statistics
Matches: 419, Mismatches: 47, Indels: 36
0.83 0.09 0.07
Matches are distributed among these distances:
197 15 0.04
198 91 0.22
199 23 0.05
200 29 0.07
201 137 0.33
202 9 0.02
203 7 0.02
204 59 0.14
205 47 0.11
206 2 0.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (196 bp):
AAACCGGTATATTTATACCGGTACATTGTAAATTTACCTATTACATTATAATTATTCGTTTCGAT
GTTTTTGGATCGATACAATTTTAAATGTATCGACACTTTATGCTTGCACCTCGTTGGGCATTCAT
TATGGACAAAAGTATCGACACAAATTTAACAAGTGTCGATACTTGATGCTGACCTATTTTCTCAT
A
Found at i:509668 original size:200 final size:199
Alignment explanation
Indices: 509311--509877 Score: 832
Period size: 200 Copynumber: 2.8 Consensus size: 199
509301 ACCTGGGTTT
* * *
509311 ATTTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCAGTATATTTATACCGAT
1 ATTTAAAAAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGT
* *
509376 TATATTGTAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTCGGTATCGACACTTTT
66 TATATTGTAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTT
* *
509441 AATAAATGTATCGACACTTTGTGCGTTCATCCTTTTT-GGCATACATTCTGGAAAAAAAGTATCG
131 AATAAATGTATCGACACTTTATGCGTTCACCCTTTTTAGG-ATACATTCTGGAAAAAAAGTATCG
509505 ACACAA
195 ACAC-A
* * *
509511 ATTTAACAAGTGTCGCTACATGTTATAGACCTATTCTCTCATAACACCGGTATATTTATACCGGT
1 ATTTAAAAAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGT
* *
509576 TACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTT
66 TATATTGTAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACAC-TTT
* * * * *
509641 TGA-AAATGTATCGACTCTTTATGCGTTCACCCTTTTTAGGATCCATTCTGGACAAAAATTATCG
130 TAATAAATGTATCGACACTTTATGCGTTCACCCTTTTTAGGATACATTCTGGAAAAAAAGTATCG
509705 ACACA
195 ACACA
* * * * * *
509710 ATATTAAGAAGTGTCGTTACATATTATAGACCTATTCTCTCATAAAATCGGTATATGTATACCAG
1 AT-TTAAAAAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCGGTATATTTATACCGG
**
509775 TTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTT
65 TTATATTGTAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTT
* *
509840 TAATAAATGTATCGAAACTTTATGCGTGCAACCCTTTT
130 TAATAAATGTATCGACACTTTATGCGTTC-ACCCTTTT
509878 GGATCGACAC
Statistics
Matches: 330, Mismatches: 32, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
199 8 0.02
200 307 0.93
201 15 0.05
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (199 bp):
ATTTAAAAAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGT
TATATTGTAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTT
AATAAATGTATCGACACTTTATGCGTTCACCCTTTTTAGGATACATTCTGGAAAAAAAGTATCGA
CACA
Found at i:509929 original size:51 final size:52
Alignment explanation
Indices: 509821--509930 Score: 127
Period size: 51 Copynumber: 2.1 Consensus size: 52
509811 GGTTTCGATG
*
509821 TTTTTGGGATCGACACTTTTAATAAATGTATCGAAACTTTATGCGTGCAACCC
1 TTTTT-GGATCGACACTTATAATAAATGTATCGAAACTTTATGCGTGCAACCC
* * * * *
509874 -TTTTGGATCGACACTCTATGA-AAATGTATCGACACTTTGTGTGTTC-ACCC
1 TTTTTGGATCGACACT-TATAATAAATGTATCGAAACTTTATGCGTGCAACCC
509924 TTTTTGG
1 TTTTTGG
509931 CATCCATTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
50 4 0.08
51 38 0.78
52 7 0.14
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (52 bp):
TTTTTGGATCGACACTTATAATAAATGTATCGAAACTTTATGCGTGCAACCC
Found at i:510079 original size:251 final size:252
Alignment explanation
Indices: 509622--510075 Score: 675
Period size: 251 Copynumber: 1.8 Consensus size: 252
509612 GTTTCGATGT
* * *
509622 TTTTGGGATCGACACTTTTTGAAAATGTATCGACTCTTTATGCGTTCACCCTTTTTAGGATCCAT
1 TTTTGGGATCGACACTCTATGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTAGGATCCAT
* * * *
509687 TCTGGACAAAAATTATCGACACAATATTAAGAAGTGTCGTTACATATTATAGACCTATTCTCTCA
66 TCTGGACAAAAATTATCGACACAATACTAAGAAGTGTCGATAAATATTATAAACCTATTCTCTCA
* * *
509752 TAAAATCGGTATATGTATACCAGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTC
131 TAAAACCGGTATATGTAAACCAGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTC
509817 GATGTTTTTGGGATCGACACTTTTAATAAATGTATCGAAACTTTATGCGTGCAACCC
196 GATGTTTTTGGGATCGACACTTTTAATAAATGTATCGAAACTTTATGCGTGCAACCC
* *
509874 TTTT-GGATCGACACTCTATGAAAATGTATCGACACTTTGTGTGTTCACCCTTTTT-GGCATCCA
1 TTTTGGGATCGACACTCTATGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTAGG-ATCCA
* * * *
509937 TTCTGGAC-AAAATGTATCGACACAATACTAATAAGTGTCGATAAATGTTGTAAACCTATT-TTT
65 TTCTGGACAAAAAT-TATCGACACAATACTAAGAAGTGTCGATAAATATTATAAACCTATTCTCT
* *
510000 CATAAAACCGGTGTATTTAAACCAGTTACATTGA-AAAATTACCTATTACATTATAATTATGGGT
129 CATAAAACCGGTATATGTAAACCAGTTACATT-ACAAAATTACCTATTACATTATAATTATGGGT
*
510064 TTCGATATTTTT
193 TTCGATGTTTTT
510076 TGGGTCATTA
Statistics
Matches: 180, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
250 77 0.43
251 99 0.55
252 4 0.02
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (252 bp):
TTTTGGGATCGACACTCTATGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTAGGATCCAT
TCTGGACAAAAATTATCGACACAATACTAAGAAGTGTCGATAAATATTATAAACCTATTCTCTCA
TAAAACCGGTATATGTAAACCAGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTC
GATGTTTTTGGGATCGACACTTTTAATAAATGTATCGAAACTTTATGCGTGCAACCC
Found at i:513240 original size:201 final size:202
Alignment explanation
Indices: 512895--513426 Score: 895
Period size: 201 Copynumber: 2.6 Consensus size: 202
512885 TAGAAAATTC
* * *
512895 AAAAGTGTCGATATATGTTGTAGACCTATTCTCTCATAAAACCGCTATATTTATATCGGTTACAT
1 AAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGATATATTTATACCGGTTACAT
*
512960 TGAAAATTTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGATAATTTTTATAA
66 TGAAAATTTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATAATTTTTATAA
*
513025 ATGTATTGACACTTTATGGTTGCACCCTTTTTGGCATTCATTATGGACCAAAAGAATCGACACAA
131 ATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTATGGACCAAAAGAATCGACACAA
513090 AATT-AA
196 AATTAAA
513096 AAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGATATATTTATACCGGTTACAT
1 AAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGATATATTTATACCGGTTACAT
*
513161 TGAAAATTTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAA
66 TGAAAATTTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATAATTTTTATAA
* **
513226 ATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTTTCGACACAA
131 ATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTATGGACCAAAAGAATCGACACAA
513291 AATTAAAAA
196 AATT--AAA
* * * * *
513300 AAAATTGTTGATACATGTTGTAGACATATTCTCTCATAAAACCGGTATATTTATACCAGTTACAT
1 AAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGATATATTTATACCGGTTACAT
* *
513365 TGAAAATTTACCTATTACATTATACTTATGGGTTTCGATATTTCTGGGATCGATAAATTTTA
66 TGAAAATTTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATAATTTTTA
513427 CCTATTACAC
Statistics
Matches: 311, Mismatches: 17, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
201 190 0.61
204 121 0.39
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (202 bp):
AAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGATATATTTATACCGGTTACAT
TGAAAATTTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATAATTTTTATAA
ATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTATGGACCAAAAGAATCGACACAA
AATTAAA
Found at i:515460 original size:33 final size:33
Alignment explanation
Indices: 515423--515488 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
515413 CATCTTAAGA
*
515423 TCACCCCTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
*
515456 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
515489 CCATCTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:515547 original size:21 final size:21
Alignment explanation
Indices: 515522--515586 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
515512 CCCCTTATGC
* *
515522 CTCTCAAGTGTAACTTCGACT
1 CTCTCAAGTTTCACTTCGACT
* *
515543 CTCTCAAGTTTCTCTTCAACT
1 CTCTCAAGTTTCACTTCGACT
*
515564 CTCTCAAGTTTCCCTTCGACT
1 CTCTCAAGTTTCACTTCGACT
515585 CT
1 CT
515587 TGATTGTCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.18, C:0.34, G:0.09, T:0.38
Consensus pattern (21 bp):
CTCTCAAGTTTCACTTCGACT
Found at i:518025 original size:20 final size:19
Alignment explanation
Indices: 517980--518025 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
517970 CCGGTAGCAC
517980 TTTACCGGTTTTATCATTT
1 TTTACCGGTTTTATCATTT
* *
517999 TGATACCGGTTTTGTCATATT
1 T-TTACCGGTTTTATCAT-TT
518020 TTTACC
1 TTTACC
518026 TGTTATATCG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 18 0.82
21 3 0.14
ACGTcount: A:0.17, C:0.17, G:0.13, T:0.52
Consensus pattern (19 bp):
TTTACCGGTTTTATCATTT
Found at i:518078 original size:182 final size:182
Alignment explanation
Indices: 517764--518239 Score: 645
Period size: 182 Copynumber: 2.6 Consensus size: 182
517754 CGTACTTATG
* * **
517764 AAAGTATCGACACTTTCAATATATCTGGTAGCTCTTTACCGGTTTTATCATTTTGATACTAGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAGCACTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * *
517829 TATCATATTTTTACTTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATTGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTGTGAATCGATACATTTTTATAAAATATCGACACTTTAT
517894 AGGAGCTAAAA-TTGCTTATCTTTTAAATTCACAAAGTGTCGATACTTATATT
131 AGGAGCTAAAACTT-CTTATCTTTTAAATTCACAAAGTGTCGATACTTATATT
* *
517946 AAAGTACCGACACTTTAAATATATCCGGTAGCACTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAGCACTTTACCGGTTTTATCATTTTGATACCGGTTT
*
518011 TGTCATATTTTTACCTGTTATATCGTTGTGAATCGATACATTTTTATAAAATATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTGTGAATCGATACATTTTTATAAAATATCGACACTTTAT
* * * * *
518076 AGGCGTTAAAACTTCTTTTCTTTTAAATTCATAAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTTCTTATCTTTTAAATTCACAAAGTGTCGATACTTATATT
* * * ** * *
518128 AAAGTATCAACACGTTCATTATATCCGGTAGGGCTTTACCGGTATTGTC-TTTTCG-TGACCGGT
1 AAAGTATCGACACTTTCAATATATCCGGTAGCACTTTACCGGTTTTATCATTTT-GAT-ACCGGT
* * *
518191 TTTATCGATATTTTTACCTGTTATATTGATAT-AGATCGATACATTTTTA
64 TTTATC-ATATTTTTACCTGTTATATCGTTGTGA-ATCGATACATTTTTA
518240 ATTTGGATCG
Statistics
Matches: 260, Mismatches: 29, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
181 5 0.02
182 216 0.83
183 39 0.15
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAGCACTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTGTGAATCGATACATTTTTATAAAATATCGACACTTTAT
AGGAGCTAAAACTTCTTATCTTTTAAATTCACAAAGTGTCGATACTTATATT
Found at i:521408 original size:653 final size:652
Alignment explanation
Indices: 519254--521860 Score: 4567
Period size: 651 Copynumber: 4.0 Consensus size: 652
519244 TTATAGTTGA
*
519254 AGCTTAAGGACTAATCTTTGAAAATACCCTAAAATGCAGGGACTAAAGTGCAATATTCCCAAGCT
1 AGCTTAAGGACTAATCTTTGAAAATACCCTAAAATACAGGGACTAAAGTGCAATATTCCCAAGCT
*
519319 ATTTTTCAACAAAATTAGGCAGCCCACCTTTGAATTTTAAGCAGCCACCGGCTGCTAGCATCTAT
66 ATTTTTCAACAAAATTAGGCAGCCCACCTCTGAATTTTAAGCAGCCACCGGCTGCTAGCATCTAT
519384 TTTTGACCAACAATCTCCCACTTGAAACTGATTTTAATATGTCTTCACACCTCGATCAATGCAAC
131 TTTTGACCAACAATCTCCCACTTGAAACTGATTTTAATATGTCTTCACACCTCGATCAATGCAAC
*
519449 ATCATTTATGGTATTGTTAATCTAGCATGCCAACTGAAGCTGAACACAACTTCAGTTTGTCTGTA
196 ATCATTTATGGTATTGTTAATCTAGCATGCCAACTGAAGCTGAACACAACTTCAGTTTGTCCGTA
* *
519514 GTCACCGTATTTGTTAACATATCTGTCGGATTTTGAGTTCCACTAATCTTTTCAAGTTTCAAAAT
261 GTCACCGTCTTTGTTAACATATCTGCCGGATTTTGAGTTCCACTAATCTTTTCAAGTTTCAAAAT
* *
519579 CCCATCTTCCAGAAGAGACCATATAAAATGATATCTTAATTGTATGTGCTTCATTCTGGAATGAA
326 CCCATCTTCCAGAAGAGACCAGATAAAATGATATCTTAATTGTATGTGCTTCGTTCTGGAATGAA
519644 AAGACAGATTCTTCACTAGATGTATAACACTTTGACTGTCACAATATAAGACATTATTTTCTTGT
391 AAGACAGATTCTTCACTAGATGTATAACACTTTGACTGTCACAATATAAGACATTATTTTCTTGT
519709 TTCTTGCCTAACTATTCCAAGAAACTTTGGAGCCAAACTATCTCCTTGTTGGCTTCCGTAACAGC
456 TTCTTGCCTAACTATTCCAAGAAACTTTGGAGCCAAACTATCTCCTTGTTGGCTTCCGTAACAGC
519774 GACATATTCTTCTTCAGTTGTGGAGAGAGTAACTATCTTCTGTAGTTGAGAAACCCAACTCACTG
521 GACATATTCTTCTTCAGTTGTGGAGAGAGTAACTATCTTCTGTAGTTGAGAAACCCAACTCACTG
*
519839 CGGTTCCT-CTAGAGTATAGACATACCCTGTAGTACTCCTTCTGATGTCAACATTTCCGGCTAAG
586 CGGTTCCTCCTAGAGTATAGACATACCCTGTAGTGCTCCTTCTGATGTCAACATTTCCGGCTAAG
519903 TC
651 TC
* * *
519905 AACTTAAGGACTAATCTTTGAAAATACCCTAAAATATAGGGACTAAAATGCAATATTCCCAAGCT
1 AGCTTAAGGACTAATCTTTGAAAATACCCTAAAATACAGGGACTAAAGTGCAATATTCCCAAGCT
* *
519970 AGTTTTCAACAAAATTAGGCAGCCCACCTTTGAATTTTAAGCAGCCACCGGCTGCTAGCATCTAT
66 ATTTTTCAACAAAATTAGGCAGCCCACCTCTGAATTTTAAGCAGCCACCGGCTGCTAGCATCTAT
520035 TTTTGACCAACAATCTCCCACTTGAAACTGATTTTAATATGTCTTCACACCTCGATCAATGCAAC
131 TTTTGACCAACAATCTCCCACTTGAAACTGATTTTAATATGTCTTCACACCTCGATCAATGCAAC
520100 ATCATTTATGGTATTGTTAATCTAGCATGCCAACTGAAGCTGAACACAACTTCAGTTTGTCCGTA
196 ATCATTTATGGTATTGTTAATCTAGCATGCCAACTGAAGCTGAACACAACTTCAGTTTGTCCGTA
*
520165 GTCACCGTCTTTGTTAACATATATGCCGGATTTTGAGTTCCACTAATCTTTTCAAGTTTCAAAAT
261 GTCACCGTCTTTGTTAACATATCTGCCGGATTTTGAGTTCCACTAATCTTTTCAAGTTTCAAAAT
*
520230 CCCATCTTCCAGAAGAGACCAGATAAAATGAGATCTTAATTGTATGTGCTTCGTTCTGGAATGAA
326 CCCATCTTCCAGAAGAGACCAGATAAAATGATATCTTAATTGTATGTGCTTCGTTCTGGAATGAA
* *
520295 AAGACGGATTCTTCGCTAGATGTATAACACTTTGACTGTCACAATATAAGACATTATTTTCTTGT
391 AAGACAGATTCTTCACTAGATGTATAACACTTTGACTGTCACAATATAAGACATTATTTTCTTGT
520360 TTCTTGCCTAACTATTCCAAGAAACTTTGGAGCCAAACTATCTCCTTGTTGGCTTCCGTAACA--
456 TTCTTGCCTAACTATTCCAAGAAACTTTGGAGCCAAACTATCTCCTTGTTGGCTTCCGTAACAGC
* * *
520423 G-TATATTCTTCTTCAGTTGTGGAGAGAGAAACTATCTTCTGTAGTTGAGAAACCAAACTCACTG
521 GACATATTCTTCTTCAGTTGTGGAGAGAGTAACTATCTTCTGTAGTTGAGAAACCCAACTCACTG
* * *
520487 CGGTTCCTCCTAGAATATAGACATACCCTGTAGTGCTCCTTCTGCTGTCAACATTTTCGGCTAAG
586 CGGTTCCTCCTAGAGTATAGACATACCCTGTAGTGCTCCTTCTGATGTCAACATTTCCGGCTAAG
520552 TC
651 TC
* * *
520554 AGCTTAAGGACTAATCTTTGAAAATACCCTAAAATGCAGGGACTAAAGTACAATATTCCCAATCT
1 AGCTTAAGGACTAATCTTTGAAAATACCCTAAAATACAGGGACTAAAGTGCAATATTCCCAAGCT
* * * *
520619 ATTTTTGAACAAAATTAGGTAGCCCACCTCTGAATTTTAAGCAGCCGCCGGCTGCTAGCATATAT
66 ATTTTTCAACAAAATTAGGCAGCCCACCTCTGAATTTTAAGCAGCCACCGGCTGCTAGCATCTAT
* * *
520684 TTCTGACCAACAATCTCCCACTTGAAGACTGATTTTAATCTGTTTTCACACCTCGATCAATGCAA
131 TTTTGACCAACAATCTCCCACTTGAA-ACTGATTTTAATATGTCTTCACACCTCGATCAATGCAA
* * *
520749 CATCATTTATTGTATTGTTAATCTAGCATGCCAACTGAAGCTGAACACAACTTTAGTTTGTTCGT
195 CATCATTTATGGTATTGTTAATCTAGCATGCCAACTGAAGCTGAACACAACTTCAGTTTGTCCGT
* * *
520814 AGTCACTGTCTTTGTTAATATGTCTGCCGGATTTTGAGTTCCACTAATCTTTTCAAGTTTCAAAA
260 AGTCACCGTCTTTGTTAACATATCTGCCGGATTTTGAGTTCCACTAATCTTTTCAAGTTTCAAAA
* *
520879 TCCCATCTTCCAGAAGAGACCAGATAAAATGATATTTTAATTGTATATGCTTCGTTCTGGAATGA
325 TCCCATCTTCCAGAAGAGACCAGATAAAATGATATCTTAATTGTATGTGCTTCGTTCTGGAATGA
* * * *
520944 AAAGACAGATTCTTCGCTAGATATATAACACTTTGACTGTCGCAATATAAGACATTGTTTTCTTG
390 AAAGACAGATTCTTCACTAGATGTATAACACTTTGACTGTCACAATATAAGACATTATTTTCTTG
521009 TTTCTTGCCTAACTATTCCAAGAAACTTTGGAGCCAAACTATCTCCTTGTTGGCTTCCGTAACAG
455 TTTCTTGCCTAACTATTCCAAGAAACTTTGGAGCCAAACTATCTCCTTGTTGGCTTCCGTAACAG
521074 CGACATATTCTTCTTCAGTTGTGGAGAGAGTAACTATCTTCTGTAGTTGAGAAACCCAACTCACT
520 CGACATATTCTTCTTCAGTTGTGGAGAGAGTAACTATCTTCTGTAGTTGAGAAACCCAACTCACT
* *
521139 GCGGTTTCTCCTAGAGTATAGACATACCCTGTAGTGCTCCTTCTGATGTCAACATTTCTGGCTAA
585 GCGGTTCCTCCTAGAGTATAGACATACCCTGTAGTGCTCCTTCTGATGTCAACATTTCCGGCTAA
521204 GTC
650 GTC
*
521207 AGCTTAAGGACTAATCTTTGAAAATACCCTAAAATATAGGGACTAAAGTGCAATATTCCCAAGCT
1 AGCTTAAGGACTAATCTTTGAAAATACCCTAAAATACAGGGACTAAAGTGCAATATTCCCAAGCT
*
521272 ATTTTTCAACAAAATTAGGCAGCCCACCTCTGAATTTTAAGCAGCCGCCGGCTGCTAGCATCTAT
66 ATTTTTCAACAAAATTAGGCAGCCCACCTCTGAATTTTAAGCAGCCACCGGCTGCTAGCATCTAT
*
521337 TTTTGACCAACAATCTCCCACTTGAAGACTGATTTTAATCTGTCTTCACACCTCGATCAATGCAA
131 TTTTGACCAACAATCTCCCACTTGAA-ACTGATTTTAATATGTCTTCACACCTCGATCAATGCAA
*
521402 CATCATTTATGGTATTGTTAATCTAGCATGCCAACTGAAACTGAACACAACTTCAGTTTGTCCGT
195 CATCATTTATGGTATTGTTAATCTAGCATGCCAACTGAAGCTGAACACAACTTCAGTTTGTCCGT
* * * *
521467 AGTCACCGTCTTTGTTAACATGTCTGCCAGATTTTGAGCTCCACTAATATTTTCAAGTTTCAAAA
260 AGTCACCGTCTTTGTTAACATATCTGCCGGATTTTGAGTTCCACTAATCTTTTCAAGTTTCAAAA
521532 TCCCATCTTCCAGAAGAGACCAGATAAAATGATATCTTAATTGTATGTGCTTCGTTCTGGAAT-A
325 TCCCATCTTCCAGAAGAGACCAGATAAAATGATATCTTAATTGTATGTGCTTCGTTCTGGAATGA
* * *
521596 AAAGACGGATTCTTCACTAGATGTATAACACTTTGACTGTCATAATATAAGACATTGTTTTCTTG
390 AAAGACAGATTCTTCACTAGATGTATAACACTTTGACTGTCACAATATAAGACATTATTTTCTTG
* * * *
521661 TTTCTTGCCTAACTCTTCCAAGAAACTTTAGAGCCAAACCATATCCTTGTTGGCTTCCGTAACAG
455 TTTCTTGCCTAACTATTCCAAGAAACTTTGGAGCCAAACTATCTCCTTGTTGGCTTCCGTAACAG
* * *
521726 CGATATATTCTTCTTCAGTTGTGGAGAGAGCAACTATCTCCTGTAGTTGAGAAACCCAACTCACT
520 CGACATATTCTTCTTCAGTTGTGGAGAGAGTAACTATCTTCTGTAGTTGAGAAACCCAACTCACT
*
521791 GCGGTTCCTCCTAGAGTATAGACATATCCTGTAGTGCTCCTTCTGATGTCAACATTTCCGGCTAA
585 GCGGTTCCTCCTAGAGTATAGACATACCCTGTAGTGCTCCTTCTGATGTCAACATTTCCGGCTAA
521856 GTC
650 GTC
521859 AG
1 AG
521861 TATCTACATA
Statistics
Matches: 1858, Mismatches: 93, Indels: 9
0.95 0.05 0.00
Matches are distributed among these distances:
648 68 0.04
649 198 0.11
650 346 0.19
651 504 0.27
652 252 0.14
653 490 0.26
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (652 bp):
AGCTTAAGGACTAATCTTTGAAAATACCCTAAAATACAGGGACTAAAGTGCAATATTCCCAAGCT
ATTTTTCAACAAAATTAGGCAGCCCACCTCTGAATTTTAAGCAGCCACCGGCTGCTAGCATCTAT
TTTTGACCAACAATCTCCCACTTGAAACTGATTTTAATATGTCTTCACACCTCGATCAATGCAAC
ATCATTTATGGTATTGTTAATCTAGCATGCCAACTGAAGCTGAACACAACTTCAGTTTGTCCGTA
GTCACCGTCTTTGTTAACATATCTGCCGGATTTTGAGTTCCACTAATCTTTTCAAGTTTCAAAAT
CCCATCTTCCAGAAGAGACCAGATAAAATGATATCTTAATTGTATGTGCTTCGTTCTGGAATGAA
AAGACAGATTCTTCACTAGATGTATAACACTTTGACTGTCACAATATAAGACATTATTTTCTTGT
TTCTTGCCTAACTATTCCAAGAAACTTTGGAGCCAAACTATCTCCTTGTTGGCTTCCGTAACAGC
GACATATTCTTCTTCAGTTGTGGAGAGAGTAACTATCTTCTGTAGTTGAGAAACCCAACTCACTG
CGGTTCCTCCTAGAGTATAGACATACCCTGTAGTGCTCCTTCTGATGTCAACATTTCCGGCTAAG
TC
Found at i:525398 original size:17 final size:17
Alignment explanation
Indices: 525360--525398 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
525350 TATCGCCGAC
525360 CAAATTTTACTATTCACG
1 CAAA-TTTACTATTCACG
*
525378 -AAATTTACTATTTACG
1 CAAATTTACTATTCACG
525394 CAAAT
1 CAAAT
525399 AGTAACCTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.38
Consensus pattern (17 bp):
CAAATTTACTATTCACG
Found at i:528192 original size:23 final size:22
Alignment explanation
Indices: 528168--528212 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
528158 CTTCGATATT
528168 AATAAATATTAATATAATAATTTA
1 AATAAA-ATTAA-ATAATAATTTA
*
528192 AATAAAATTAAATTATAATTT
1 AATAAAATTAAATAATAATTT
528213 TTTTTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAAAATTAAATAATAATTTA
Found at i:528325 original size:26 final size:28
Alignment explanation
Indices: 528289--528340 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
528279 TTCGATATTA
*
528289 AAAAATAAATATTAA-TATAATTTATGT
1 AAAAATAAATATAAATTATAATTTATGT
*
528316 AAAAA-AAATATAAATTATTATTTAT
1 AAAAATAAATATAAATTATAATTTAT
528341 TATATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (28 bp):
AAAAATAAATATAAATTATAATTTATGT
Found at i:529773 original size:3 final size:3
Alignment explanation
Indices: 529767--529832 Score: 80
Period size: 3 Copynumber: 22.0 Consensus size: 3
529757 TAATTATTTT
* *
529767 TAA TAA TAA TAA TAA T-A TATA TAA TAA TTA TAA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* *
529812 TAA TAA TAA TTA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
529833 AAAAATTAGT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
2 2 0.04
3 48 0.91
4 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:531285 original size:116 final size:116
Alignment explanation
Indices: 530153--531270 Score: 1801
Period size: 116 Copynumber: 9.7 Consensus size: 116
530143 GAGCAAAAAT
*
530153 TTGAACAAATTCTTCTCATTATGAA-TTCCTTCTTTCTTCTTCAGAT---GAGTTCTTCTCATTA
1 TTGAACAAATTCTTCTCATTATGAACTT-CTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTA
* * * * * * * * * * *
530214 TGAACT-TTCTCTGGAAAAGCTGATCTATCAAGTGATGGATTTGAGCAAAAGG
65 TGAACTCTAC-CTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
* * *
530266 TTGACCAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
* * * *
530331 GAACTCTACCTGGAAATTTTAATCCATCAAATGATGAATTCAAACAAAAGG
66 GAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
*
530382 TTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
* * * * * * * *
530444 GAACT-TTCTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAGCAAACA-G
66 GAACTCTAC-CTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAA-AGG
* *
530495 TTGAACAAATTCTTCTCATTATGAATTTCTTCTT-C-TCTTTAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
530558 GAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
66 GAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
530609 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
*
530674 GAACTCTACCTGACAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
66 GAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
530725 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
*
530790 GAACTCTACCTGTCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
66 GAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
*
530841 TTGAACAAATTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
530906 GAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
66 GAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
530957 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
*
531022 GAACTTTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
66 GAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
531073 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
531138 GAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
66 GAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
*
531189 TTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
531254 GAACTCTACCTGGCAAT
66 GAACTCTACCTGGCAAT
531271 ACTGATCAAT
Statistics
Matches: 948, Mismatches: 43, Indels: 25
0.93 0.04 0.02
Matches are distributed among these distances:
111 8 0.01
112 3 0.00
113 130 0.14
114 90 0.09
115 3 0.00
116 712 0.75
117 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (116 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
GAACTCTACCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGG
Found at i:532337 original size:94 final size:93
Alignment explanation
Indices: 531996--532347 Score: 478
Period size: 93 Copynumber: 3.8 Consensus size: 93
531986 TTTTAATTCC
* *
531996 AATGATTGGTTCTGTGG-TTCCTACCGAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
1 AATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
* * *
532060 GCTATGAGCACATTCATCTTCCAAATAC
66 GCTATGAGTACATTCATCTTTCAAATAT
532088 AATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
1 AATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
* *** * *
532153 GCAATTGAGTTTTTTTTAT-TTT-AAATCT
66 GCTA-TGAG-TACATTCATCTTTCAAATAT
* * *
532181 AATGATTGGTTTTCG-GGGTTCATATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGA
1 AATGATTGGTTCT-GTGGTTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGA
*
532245 TGCTATGAGTACATTCATCTTTCAAATTT
65 TGCTATGAGTACATTCATCTTTCAAATAT
* * *
532274 AATGATGGGGTTTTGTGGTTTCATACCAAACCATATCAGATAACTCAAAGAACACTTCCAGAAGA
1 AATGAT-TGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGA
532339 TGCTATGAG
65 TGCTATGAG
532348 CATACGACAC
Statistics
Matches: 228, Mismatches: 24, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
91 5 0.02
92 24 0.11
93 127 0.56
94 68 0.30
95 4 0.02
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (93 bp):
AATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
GCTATGAGTACATTCATCTTTCAAATAT
Found at i:533354 original size:1 final size:1
Alignment explanation
Indices: 533350--533418 Score: 66
Period size: 1 Copynumber: 69.0 Consensus size: 1
533340 CTTGACCCCC
* * * * * * * *
533350 TTTTTTTTTTCTTTTTTTTTTTTCTTTTCTCTTTTTTTCTCTTTTTTTTTTCTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
533415 TTTT
1 TTTT
533419 CTTCAAGCAT
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:533371 original size:18 final size:18
Alignment explanation
Indices: 533350--533421 Score: 90
Period size: 18 Copynumber: 3.7 Consensus size: 18
533340 CTTGACCCCC
533350 TTTTTTTTTTCTTTTTTT
1 TTTTTTTTTTCTTTTTTT
533368 TTTTTCTTTTCTCTTTTTTTCT
1 TTTTT-TTTT-TC-TTTTTT-T
*
533390 CTTTTTTTTTTCTTTTTTC
1 -TTTTTTTTTTCTTTTTTT
533409 TTTTTTTTTTCTT
1 TTTTTTTTTTCTT
533422 CAAGCATAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
18 18 0.38
19 4 0.08
20 8 0.17
21 8 0.17
22 5 0.10
23 5 0.10
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (18 bp):
TTTTTTTTTTCTTTTTTT
Found at i:533378 original size:41 final size:41
Alignment explanation
Indices: 533333--533420 Score: 99
Period size: 41 Copynumber: 2.1 Consensus size: 41
533323 CCTTTGCGGG
533333 TTTTCATC-TTGACCCCCTTTTTTTTTTCTTTTTT-TTTTTT
1 TTTTC-TCTTTGACCCCCTTTTTTTTTTCTTTTTTCTTTTTT
**** *
533373 CTTTTCTCTTTTTTTCTCTTTTTTTTTTCTTTTTTCTTTTTT
1 -TTTTCTCTTTGACCCCCTTTTTTTTTTCTTTTTTCTTTTTT
533415 TTTTCT
1 TTTTCT
533421 TCAAGCATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
40 2 0.05
41 32 0.80
42 6 0.15
ACGTcount: A:0.02, C:0.18, G:0.01, T:0.78
Consensus pattern (41 bp):
TTTTCTCTTTGACCCCCTTTTTTTTTTCTTTTTTCTTTTTT
Found at i:533384 original size:28 final size:28
Alignment explanation
Indices: 533353--533415 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
533343 GACCCCCTTT
*
533353 TTTTTTTCTTTTTTTTTTTTCTTTTCTC
1 TTTTTTTCTCTTTTTTTTTTCTTTTCTC
*
533381 TTTTTTTCTCTTTTTTTTTTCTTTTTTC
1 TTTTTTTCTCTTTTTTTTTTCTTTTCTC
533409 TTTTTTT
1 TTTTTTT
533416 TTTCTTCAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (28 bp):
TTTTTTTCTCTTTTTTTTTTCTTTTCTC
Found at i:540768 original size:15 final size:15
Alignment explanation
Indices: 540745--540776 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
540735 TGCAATGAAT
540745 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
540760 AATGCATGTATGCAA
1 AATGAATGTATGCAA
540775 AA
1 AA
540777 GGTATTGATC
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:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:544783 original size:117 final size:121
Alignment explanation
Indices: 544617--544895 Score: 264
Period size: 117 Copynumber: 2.3 Consensus size: 121
544607 TAATTATAAG
* * * * * * * *
544617 AAAAAAATAATTTATATATTTATAAATAAAATGTTTATTATTTAGAAATATCAGAAAATGACTTC
1 AAAAAAATAAATTATA-ATTTATATAT-ATATATTTAAT-TTTAGAAATACCAGAAAAGGACATC
* * * * *
544682 TAGGTGCCTTAAGACAT-CTCTTTTCTTCGATATT-AATAATATTAATATAA-TAATTTA
63 CAAGTGCATTAAGAC-TGCCCTTTTCTTCGATATTAAATAATATTAATATAATTAATGTA
* * *
544739 AATAAAATTAAATTATAATTT-TTTATA-ATATTTAATTTTA-AAATACCAGAATAGGACATCCA
1 AA-AAAAATAAATTATAATTTATATATATATATTTAATTTTAGAAATACCAGAAAAGGACATCCA
* * *
544801 ATTGTATTAAGACTGCCCTTTTCTTCGATATTGAAAAATAATATTAATATAATTTATGTA
65 AGTGCATTAAGACTGCCCTTTTCTTCGATATT---AAATAATATTAATATAATTAATGTA
*
544861 AAAAAAATAAATTATTATTTATATATATATATTTA
1 AAAAAAATAAATTATAATTTATATATATATATTTA
544896 TATGACTACA
Statistics
Matches: 127, Mismatches: 21, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
116 1 0.01
117 42 0.33
118 4 0.03
119 7 0.06
120 1 0.01
121 35 0.28
122 18 0.14
123 19 0.15
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (121 bp):
AAAAAAATAAATTATAATTTATATATATATATTTAATTTTAGAAATACCAGAAAAGGACATCCAA
GTGCATTAAGACTGCCCTTTTCTTCGATATTAAATAATATTAATATAATTAATGTA
Found at i:546270 original size:3 final size:3
Alignment explanation
Indices: 546262--546330 Score: 68
Period size: 3 Copynumber: 23.0 Consensus size: 3
546252 AATTATTTTT
* * *
546262 TAA TAA TAA TAA TAA T-A TATA TAA TAA TTA TAA TAA TTA TTA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* * *
546307 TAA TAA TAA TTA TTA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
546331 AAAAATTAGT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
2 2 0.04
3 51 0.91
4 3 0.05
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:546287 original size:18 final size:19
Alignment explanation
Indices: 546264--546330 Score: 84
Period size: 18 Copynumber: 3.5 Consensus size: 19
546254 TTATTTTTTA
546264 ATAATAATAATAATATA-T
1 ATAATAATAATAATATATT
*
546282 ATAATAATTATAATAATTATT
1 ATAATAATAATAAT-A-TATT
546303 ATAATAATAATAAT-TATT
1 ATAATAATAATAATATATT
*
546321 ATAGTAATAA
1 ATAATAATAA
546331 AAAAATTAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
18 26 0.60
19 1 0.02
20 2 0.05
21 14 0.33
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (19 bp):
ATAATAATAATAATATATT
Found at i:546288 original size:21 final size:20
Alignment explanation
Indices: 546262--546330 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 20
546252 AATTATTTTT
546262 TAATAATAATAATAATATATA
1 TAATAATAATAATAAT-TATA
*
546283 TAATAATTATAATAATTATTA
1 TAATAATAATAATAATTA-TA
*
546304 TAATAATAATAATTATTATA
1 TAATAATAATAATAATTATA
546324 GTAATAA
1 -TAATAA
546331 AAAAATTAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
20 4 0.09
21 39 0.91
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (20 bp):
TAATAATAATAATAATTATA
Found at i:548758 original size:19 final size:19
Alignment explanation
Indices: 548736--548790 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
548726 AAATATTTAT
548736 TTAATATTTACAATCAGTG
1 TTAATATTTACAATCAGTG
* *
548755 TT-A-A--CAC-ATC-GTT
1 TTAATATTTACAATCAGTG
548768 TTAATATTTACAATCAGTG
1 TTAATATTTACAATCAGTG
548787 TTAA
1 TTAA
548791 CACATCGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 12
0.62 0.10 0.29
Matches are distributed among these distances:
13 4 0.15
14 4 0.15
15 3 0.12
17 3 0.12
18 4 0.15
19 8 0.31
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (19 bp):
TTAATATTTACAATCAGTG
Found at i:548771 original size:32 final size:32
Alignment explanation
Indices: 548735--548801 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
548725 TAAATATTTA
548735 TTTAATATTTACAATCAGTGTTAACACATCGT
1 TTTAATATTTACAATCAGTGTTAACACATCGT
548767 TTTAATATTTACAATCAGTGTTAACACATCGT
1 TTTAATATTTACAATCAGTGTTAACACATCGT
548799 TTT
1 TTT
548802 GCTGTAGTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (32 bp):
TTTAATATTTACAATCAGTGTTAACACATCGT
Found at i:550206 original size:31 final size:31
Alignment explanation
Indices: 550171--550239 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
550161 TTCAAAAGTT
*
550171 ACAAATTAGTCACTAATATTATCTATTTGTA
1 ACAAAATAGTCACTAATATTATCTATTTGTA
* *
550202 ACAAAATGGTCACTGATATTATCTATTTGTA
1 ACAAAATAGTCACTAATATTATCTATTTGTA
550233 ACAAAAT
1 ACAAAAT
550240 CATCACTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.38
Consensus pattern (31 bp):
ACAAAATAGTCACTAATATTATCTATTTGTA
Found at i:550246 original size:31 final size:31
Alignment explanation
Indices: 550180--550246 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
550170 TACAAATTAG
**
550180 TCACTAATATTATCTATTTGTAACAAAATGG
1 TCACTAATATTATCTATTTGTAACAAAATCA
*
550211 TCACTGATATTATCTATTTGTAACAAAATCA
1 TCACTAATATTATCTATTTGTAACAAAATCA
550242 TCACT
1 TCACT
550247 CTCGTTGACG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.39
Consensus pattern (31 bp):
TCACTAATATTATCTATTTGTAACAAAATCA
Found at i:570278 original size:24 final size:24
Alignment explanation
Indices: 570247--570296 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
570237 TAATTTTTTA
*
570247 AATTATTAA-ATAATTTATAAAAAT
1 AATTATTAATATAACTT-TAAAAAT
*
570271 AATTATTAATTTAACTTTAAAAAT
1 AATTATTAATATAACTTTAAAAAT
570295 AA
1 AA
570297 AAATGGTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
AATTATTAATATAACTTTAAAAAT
Found at i:573274 original size:71 final size:69
Alignment explanation
Indices: 573186--573430 Score: 279
Period size: 71 Copynumber: 3.6 Consensus size: 69
573176 AACCTCTCTC
573186 TCTCTCTCTCTCATGTCTGACTCAGAAGATCCTCAAACAATCATTGAAGAAATTAAGAAATCAAG
1 TCTCTCTCTCTCATGTCTGACTCAGAAGATCCTCAAACAATCATTGAAGAAATTAAGAAATCAAG
573251 AATATA
66 --TATA
* * * * * *
573257 TCTCTCTCTCTCATGTCTAACTCAAAAGATCCTTAGACAATCACTGAAGAAATTAAG--A-C--T
1 TCTCTCTCTCTCATGTCTGACTCAGAAGATCCTCAAACAATCATTGAAGAAATTAAGAAATCAAG
* *
573317 TGTC
66 TATA
* * * * * *
573321 TCTCTCTCTCTCATGTTTGACACAGAAGATCCTCAGATAATCATTGAAAAAACTAAGAAATCAAG
1 TCTCTCTCTCTCATGTCTGACTCAGAAGATCCTCAAACAATCATTGAAGAAATTAAGAAATCAAG
573386 -A-A
66 TATA
* *
573388 TCTCTCTCGCTCATGTATGACTCAGAAGATCCTCAAACAATCA
1 TCTCTCTCTCTCATGTCTGACTCAGAAGATCCTCAAACAATCA
573431 CGGTAATCTT
Statistics
Matches: 144, Mismatches: 25, Indels: 14
0.79 0.14 0.08
Matches are distributed among these distances:
64 50 0.35
66 1 0.01
67 39 0.27
68 1 0.01
69 1 0.01
71 52 0.36
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.29
Consensus pattern (69 bp):
TCTCTCTCTCTCATGTCTGACTCAGAAGATCCTCAAACAATCATTGAAGAAATTAAGAAATCAAG
TATA
Found at i:573336 original size:64 final size:64
Alignment explanation
Indices: 573257--573378 Score: 163
Period size: 64 Copynumber: 1.9 Consensus size: 64
573247 CAAGAATATA
* * * *
573257 TCTCTCTCTCTCATGTCTAACTCAAAAGATCCTTAGACAATCACTGAAGAAATTAAGACTTGTC
1 TCTCTCTCTCTCATGTCTAACACAAAAGATCCTCAGACAATCACTGAAAAAACTAAGACTTGTC
* * * * *
573321 TCTCTCTCTCTCATGTTTGACACAGAAGATCCTCAGATAATCATTGAAAAAACTAAGA
1 TCTCTCTCTCTCATGTCTAACACAAAAGATCCTCAGACAATCACTGAAAAAACTAAGA
573379 AATCAAGAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 49 1.00
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.30
Consensus pattern (64 bp):
TCTCTCTCTCTCATGTCTAACACAAAAGATCCTCAGACAATCACTGAAAAAACTAAGACTTGTC
Found at i:573347 original size:135 final size:131
Alignment explanation
Indices: 573184--573431 Score: 352
Period size: 135 Copynumber: 1.9 Consensus size: 131
573174 ATAACCTCTC
* * *
573184 TCTCTCTCTCTCTCATGTCTGACTCAGAAGATCCTCAAACAATCATTGAAGAAATTAAGAAATCA
1 TCTCTCTCTCTCTCATGTCTGACACAGAAGATCCTCAAACAATCATTGAAAAAACTAAGAAATCA
* * * *
573249 AGAATATATCTCTCTCTCTCATGTCTAACTCAAAAGATCCTTAGACAATCACTGAAGAAATTAAG
66 AG---A-ATCTCTCTCGCTCATGTATAACTCAAAAGATCCTCAAACAATCACTGAAGAAATTAAG
573314 ACTTG
127 ACTTG
* * *
573319 TCTCTCTCTCTCTCATGTTTGACACAGAAGATCCTCAGATAATCATTGAAAAAACTAAGAAATCA
1 TCTCTCTCTCTCTCATGTCTGACACAGAAGATCCTCAAACAATCATTGAAAAAACTAAGAAATCA
* *
573384 AGAATCTCTCTCGCTCATGTATGACTCAGAAGATCCTCAAACAATCAC
66 AGAATCTCTCTCGCTCATGTATAACTCAAAAGATCCTCAAACAATCAC
573432 GGTAATCTTA
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
131 39 0.39
132 1 0.01
135 61 0.60
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.29
Consensus pattern (131 bp):
TCTCTCTCTCTCTCATGTCTGACACAGAAGATCCTCAAACAATCATTGAAAAAACTAAGAAATCA
AGAATCTCTCTCGCTCATGTATAACTCAAAAGATCCTCAAACAATCACTGAAGAAATTAAGACTT
G
Found at i:576924 original size:14 final size:14
Alignment explanation
Indices: 576905--576945 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
576895 AAACAATGAG
*
576905 TTTGATGCTTTCTC
1 TTTGATGCTCTCTC
*
576919 TTTGATTCTCTCTC
1 TTTGATGCTCTCTC
*
576933 TTTGATTCTCTCT
1 TTTGATGCTCTCT
576946 TGATTCTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.07, C:0.24, G:0.10, T:0.59
Consensus pattern (14 bp):
TTTGATGCTCTCTC
Found at i:576942 original size:12 final size:12
Alignment explanation
Indices: 576915--576952 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 12
576905 TTTGATGCTT
576915 TCTCTTTGATTCTC
1 TCTCTTTGA-T-TC
576929 TCTCTTTGATTC
1 TCTCTTTGATTC
576941 TCTC-TTGATTC
1 TCTCTTTGATTC
576952 T
1 T
576953 AGTTTCTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 8 0.33
12 6 0.25
13 1 0.04
14 9 0.38
ACGTcount: A:0.08, C:0.26, G:0.08, T:0.58
Consensus pattern (12 bp):
TCTCTTTGATTC
Found at i:577332 original size:64 final size:63
Alignment explanation
Indices: 577196--577333 Score: 170
Period size: 64 Copynumber: 2.2 Consensus size: 63
577186 GCACTAAGTG
* * ****
577196 TGCATCGATGCATAAAATGCATTCGATGTTTTGAATAAGCCTAAGTGCATCGATGCATGGTGTG
1 TGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAACCTAAGTGCATCGATGCAT-GAAAC
* *
577260 TGCATCGATGCATAAAATGCATTCGATGTTTTCATTAAAACCTGAGTGCATCGATGCAT-AAAC
1 TGCATCGATGCATAAAATGCATTCGATGTTTTCAAT-AAACCTAAGTGCATCGATGCATGAAAC
577323 TGCATTCGATG
1 TGCA-TCGATG
577334 TTCAATTTAT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
63 4 0.06
64 40 0.62
65 20 0.31
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (63 bp):
TGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAACCTAAGTGCATCGATGCATGAAAC
Found at i:577371 original size:20 final size:20
Alignment explanation
Indices: 577346--577383 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
577336 CAATTTATTC
577346 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
* *
577366 ATTGGTGGATCGGTGCAT
1 ATTGGTGCATCGATGCAT
577384 CCCTTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.37, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:579999 original size:23 final size:23
Alignment explanation
Indices: 579972--580053 Score: 82
Period size: 23 Copynumber: 3.6 Consensus size: 23
579962 GCATGGCCTT
579972 GTGCATCGATGCACATTCAAGGA
1 GTGCATCGATGCACATTCAAGGA
* * *
579995 GTGCATCGGTGCACCTTCATGGTA
1 GTGCATCGATGCACATTCAAGG-A
580019 -T--ATCGATGCACATTCAAAGG-
1 GTGCATCGATGCACATTC-AAGGA
580039 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
580054 TGTTAAGTGT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
21 12 0.26
22 4 0.09
23 20 0.43
24 11 0.23
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (23 bp):
GTGCATCGATGCACATTCAAGGA
Found at i:581955 original size:36 final size:37
Alignment explanation
Indices: 581890--581962 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 37
581880 TACAAATATT
* * *
581890 TGTAACACCCCCCCAACTCGTACCCGACCCGGGTACG
1 TGTAACACCCCCCCAACCCGAACCCGACCCGGATACG
* *
581927 TGTAACA-CCCCCCAACCCGAATCTGACCCGGATACG
1 TGTAACACCCCCCCAACCCGAACCCGACCCGGATACG
581963 AGTATGAGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
36 24 0.77
37 7 0.23
ACGTcount: A:0.25, C:0.44, G:0.18, T:0.14
Consensus pattern (37 bp):
TGTAACACCCCCCCAACCCGAACCCGACCCGGATACG
Found at i:583246 original size:21 final size:21
Alignment explanation
Indices: 583204--583246 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
583194 TTTTCGGGCT
* * *
583204 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
583225 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
583246 A
1 A
583247 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:583362 original size:66 final size:68
Alignment explanation
Indices: 583226--583377 Score: 245
Period size: 67 Copynumber: 2.2 Consensus size: 68
583216 ACCCATTCAA
*
583226 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTGGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
583291 -GG
66 GGG
* *
583293 GGGGAACCGATACCCCCTCAACGAATATGAA-TTCCAGAATGCTAGTGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
583357 GGGG
66 -GGG
*
583361 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
583378 ATGAGAAAAA
Statistics
Matches: 79, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
66 30 0.38
67 31 0.39
68 18 0.23
ACGTcount: A:0.29, C:0.28, G:0.27, T:0.16
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
GGG
Found at i:584022 original size:23 final size:23
Alignment explanation
Indices: 583989--584048 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
583979 ATCATTATAA
*
583989 GGCACTACGGTGCAATTCTACGG
1 GGCACTTCGGTGCAATTCTACGG
584012 GGCACTTCGGTGCAATTCTACGG
1 GGCACTTCGGTGCAATTCTACGG
584035 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
584049 TTTATACAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.18, C:0.27, G:0.32, T:0.23
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGG
Found at i:590134 original size:21 final size:21
Alignment explanation
Indices: 590092--590134 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
590082 TTTTCGGGCT
* * *
590092 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
590113 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
590134 A
1 A
590135 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:590201 original size:67 final size:67
Alignment explanation
Indices: 590114--590264 Score: 250
Period size: 67 Copynumber: 2.3 Consensus size: 67
590104 ACCCATTCAA
590114 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAA-TTCCAGAATACTAGAGGGGAATCGATACCCCCA
590179 -GG
65 GGG
* * *
590181 GGGGAACCGATACCCCCTCAACGAATATGAATTCTAGAATGCTAGTGGGGAATCGATACCCCCAG
1 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATACTAGAGGGGAATCGATACCCCCAG
590246 GG
66 GG
*
590248 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
590265 ATGAGAAAAA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
66 30 0.38
67 49 0.62
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.17
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATACTAGAGGGGAATCGATACCCCCAG
GG
Found at i:590944 original size:23 final size:23
Alignment explanation
Indices: 590877--590936 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
590867 ATCATTATAT
*
590877 GGCACTACGGTGCAATTCTACGG
1 GGCACTTCGGTGCAATTCTACGG
590900 GGCACTTCGGTGCAATTCTACGG
1 GGCACTTCGGTGCAATTCTACGG
590923 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
590937 TTTATACGAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.18, C:0.27, G:0.32, T:0.23
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGG
Found at i:591717 original size:23 final size:23
Alignment explanation
Indices: 591673--591745 Score: 78
Period size: 23 Copynumber: 3.3 Consensus size: 23
591663 CACCACAGCT
* *
591673 CATATA-AA-TGCACCGAAATGC
1 CATATAGAATTGCACCGTAGTGC
*
591694 CATATAGAATTGCACTGTAGTGC
1 CATATAGAATTGCACCGTAGTGC
***
591717 CGCGTAGAATTGCACCGTAGTGC
1 CATATAGAATTGCACCGTAGTGC
591740 CATATA
1 CATATA
591746 ATAATGTCCA
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
21 6 0.15
22 2 0.05
23 32 0.80
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (23 bp):
CATATAGAATTGCACCGTAGTGC
Found at i:591928 original size:103 final size:103
Alignment explanation
Indices: 591757--592077 Score: 606
Period size: 103 Copynumber: 3.1 Consensus size: 103
591747 TAATGTCCAT
591757 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
591822 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
591860 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
*
591925 GACTTTACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
591963 AAGGACCACATATCATTCCTTAATAATCATATACATATACTAGGGATCAACTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
*
592028 GACTTCACACATGTTCCAAAGAATACATATATGTCCCA
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
592066 AAGGACCACATA
1 AAGGACCACATA
592078 GACCCTCGAC
Statistics
Matches: 213, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 213 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:592877 original size:20 final size:19
Alignment explanation
Indices: 592840--592883 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
592830 AACTCCTATA
*
592840 ATCATTTCATATAATTTATT
1 ATCATATCATATAATTTA-T
**
592860 ATCATATCATATGGTTTAT
1 ATCATATCATATAATTTAT
592879 ATCAT
1 ATCAT
592884 CATAACATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (19 bp):
ATCATATCATATAATTTAT
Found at i:594789 original size:23 final size:23
Alignment explanation
Indices: 594763--594827 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
594753 CAGCTCGTAT
594763 AATTGCACCGAAGTGCCATGTAG
1 AATTGCACCGAAGTGCCATGTAG
* * **
594786 AATTACACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCATGTAG
*
594809 AATTGCACCGTAGTGCCAT
1 AATTGCACCGAAGTGCCAT
594828 ATAATAATGT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.22
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCATGTAG
Found at i:595013 original size:103 final size:103
Alignment explanation
Indices: 594842--595054 Score: 381
Period size: 103 Copynumber: 2.1 Consensus size: 103
594832 TAATGTCCAT
* * *
594842 AAGGACTACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
594907 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
594945 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
595010 GACTTCACACATGTTTCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
595048 AAGGACC
1 AAGGACC
595055 GCGTAGACCC
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:599459 original size:7 final size:7
Alignment explanation
Indices: 599449--599473 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
599439 TTTATTTTTC
599449 AAATTTG
1 AAATTTG
599456 AAATTTG
1 AAATTTG
599463 AAATTTG
1 AAATTTG
599470 AAAT
1 AAAT
599474 ATCATTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (7 bp):
AAATTTG
Found at i:601484 original size:64 final size:65
Alignment explanation
Indices: 601414--601594 Score: 249
Period size: 66 Copynumber: 2.8 Consensus size: 65
601404 TGGAACACTT
* * * * *
601414 AGTGCATCGTTGCACT-AAGTGTGCATCGATGCATAAAATGCATTCGATGTTTTGA-ATAAGCCT
1 AGTGCATCGATGCA-TGGAGTGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAAACCT
601477 A
65 A
*
601478 AGTGCATCGATGCATGGTGTGTGCATCGATGCATAAAATGCATTCGATGTTTTCATTAAAAACCT
1 AGTGCATCGATGCATGGAGTGTGCATCGATGCATAAAATGCATTCGATGTTTTCA-TAAAAACCT
*
601543 G
65 A
* *
601544 AGTGCATCGATGCATGGAGAGTGCATCGATGCATAAACTGCATTCGATGTT
1 AGTGCATCGATGCATGGAGTGTGCATCGATGCATAAAATGCATTCGATGTT
601595 CAATTTATTC
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
63 1 0.01
64 49 0.47
66 54 0.52
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (65 bp):
AGTGCATCGATGCATGGAGTGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAAACCTA
Found at i:601630 original size:20 final size:20
Alignment explanation
Indices: 601605--601642 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
601595 CAATTTATTC
601605 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
601625 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
601643 CCCTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:607052 original size:23 final size:21
Alignment explanation
Indices: 607026--607078 Score: 52
Period size: 23 Copynumber: 2.4 Consensus size: 21
607016 TTTGAAATTG
*
607026 TTTAAAATAATTATATAAAATAA
1 TTTAAAATAA-GATATAAAA-AA
**
607049 TTTAATTTTAAGATATAAAAAA
1 TTTAA-AATAAGATATAAAAAA
607071 TTTAAAAT
1 TTTAAAAT
607079 TATTTTTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
21 1 0.04
22 7 0.29
23 13 0.54
24 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
TTTAAAATAAGATATAAAAAA
Found at i:608022 original size:24 final size:23
Alignment explanation
Indices: 607969--608022 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
607959 TATAAATATG
*
607969 ATTTAAAAAAAATTAATATTGAA
1 ATTTAAAAAAAATTAAAATTGAA
* * *
607992 GTATTAAAACATATTAAAATTGATA
1 AT-TTAAAAAAAATTAAAATTGA-A
608017 ATTTAA
1 ATTTAA
608023 GTACAAAACG
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
23 1 0.04
24 21 0.88
25 2 0.08
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (23 bp):
ATTTAAAAAAAATTAAAATTGAA
Found at i:612417 original size:22 final size:22
Alignment explanation
Indices: 612391--612432 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
612381 TTGTCTCTAA
* *
612391 TAGGGGTGTTTATCGAGTGATC
1 TAGGGGTGCTTATCCAGTGATC
612413 TAGGGGTGCTTATCCAGTGA
1 TAGGGGTGCTTATCCAGTGA
612433 GTCGATAGCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.12, G:0.36, T:0.33
Consensus pattern (22 bp):
TAGGGGTGCTTATCCAGTGATC
Found at i:612559 original size:30 final size:30
Alignment explanation
Indices: 612524--612626 Score: 82
Period size: 30 Copynumber: 3.2 Consensus size: 30
612514 CGTTAAAATT
612524 TTGCTCGATTCGTTCTTGTTAAGAAATTTG
1 TTGCTCGATTCGTTCTTGTTAAGAAATTTG
* * *
612554 TTGCTCGACTCGTTGCTCGTTAAGCTCGTTAAAATT-
1 TTGCTCGATTCGTT-CTTGTTAA----G--AAATTTG
** *
612590 TTGCTTAATTCGTGCTTGTTAAGAAATTTG
1 TTGCTCGATTCGTTCTTGTTAAGAAATTTG
612620 TTGCTCG
1 TTGCTCG
612627 CCTCGTTGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 16
0.67 0.14 0.20
Matches are distributed among these distances:
29 5 0.09
30 18 0.33
31 8 0.15
35 8 0.15
36 10 0.19
37 5 0.09
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.44
Consensus pattern (30 bp):
TTGCTCGATTCGTTCTTGTTAAGAAATTTG
Found at i:612590 original size:66 final size:66
Alignment explanation
Indices: 612503--612646 Score: 243
Period size: 66 Copynumber: 2.2 Consensus size: 66
612493 CGATTTGTTA
* *
612503 CTCGTTAAGCTCGTTAAAATTTTGCTCGATTCGTTCTTGTTAAGAAATTTGTTGCTCGACTCGTT
1 CTCGTTAAGCTCGTTAAAATTTTGCTCAATTCGTGCTTGTTAAGAAATTTGTTGCTCGACTCGTT
612568 G
66 G
* *
612569 CTCGTTAAGCTCGTTAAAATTTTGCTTAATTCGTGCTTGTTAAGAAATTTGTTGCTCGCCTCGTT
1 CTCGTTAAGCTCGTTAAAATTTTGCTCAATTCGTGCTTGTTAAGAAATTTGTTGCTCGACTCGTT
612634 G
66 G
*
612635 ATCGTTAAGCTC
1 CTCGTTAAGCTC
612647 ACCGAATTTT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 73 1.00
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (66 bp):
CTCGTTAAGCTCGTTAAAATTTTGCTCAATTCGTGCTTGTTAAGAAATTTGTTGCTCGACTCGTT
G
Found at i:615788 original size:18 final size:19
Alignment explanation
Indices: 615746--615794 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
615736 ATGTTATTTT
615746 ATTTAATTGATTTTTTCTCAA
1 ATTTAATT--TTTTTTCTCAA
* *
615767 ATTTACTTTTTTTTCT-AG
1 ATTTAATTTTTTTTCTCAA
615785 ATTTAATTTT
1 ATTTAATTTT
615795 CCACATTCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 10 0.40
19 8 0.32
21 7 0.28
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.63
Consensus pattern (19 bp):
ATTTAATTTTTTTTCTCAA
Found at i:622048 original size:189 final size:189
Alignment explanation
Indices: 621728--622107 Score: 726
Period size: 189 Copynumber: 2.0 Consensus size: 189
621718 CGTCCTTTGA
621728 CCAGCCGCCCATTCTACCCAACTCTCTTATACTTTTTTAAACTTTTGGGACCCACACACAACCTT
1 CCAGCCGCCCATTCTACCCAACTCTCTTATACTTTTTTAAACTTTTGGGACCCACACACAACCTT
621793 ATCATCAACCAAATCTTTTTCTAATTCAAATTCATTCTATCTTTTTCCTTTTATATTCCACGTGC
66 ATCATCAACCAAATCTTTTTCTAATTCAAATTCATTCTATCTTTTTCCTTTTATATTCCACGTGC
*
621858 TAATTGCATATAACAAAAAGAAGAAAAAACCCTATTTTATCATTCTCTGTTTCTTTCAG
131 TAATTGCATATAACAAAAAGAAGAAAAAACCCTACTTTATCATTCTCTGTTTCTTTCAG
621917 CCAGCCGCCCATTCTACCCAACTCTCTTATACTTTTTTAAACTTTTGGGACCCACACACAACCTT
1 CCAGCCGCCCATTCTACCCAACTCTCTTATACTTTTTTAAACTTTTGGGACCCACACACAACCTT
*
621982 ATCATCGACCAAATCTTTTTCTAATTCAAATTCATTCTA-CATTTTTCCTTTTATATTCCACGTG
66 ATCATCAACCAAATCTTTTTCTAATTCAAATTCATTCTATC-TTTTTCCTTTTATATTCCACGTG
622046 CTAATTGCATATAACAAAAAGAAGAAAAAACCCTACTTTATCATTCTCTGTTTCTTTCAG
130 CTAATTGCATATAACAAAAAGAAGAAAAAACCCTACTTTATCATTCTCTGTTTCTTTCAG
622106 CC
1 CC
622108 GCACCTTACA
Statistics
Matches: 188, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
188 1 0.01
189 187 0.99
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (189 bp):
CCAGCCGCCCATTCTACCCAACTCTCTTATACTTTTTTAAACTTTTGGGACCCACACACAACCTT
ATCATCAACCAAATCTTTTTCTAATTCAAATTCATTCTATCTTTTTCCTTTTATATTCCACGTGC
TAATTGCATATAACAAAAAGAAGAAAAAACCCTACTTTATCATTCTCTGTTTCTTTCAG
Found at i:636701 original size:37 final size:36
Alignment explanation
Indices: 636622--636714 Score: 93
Period size: 37 Copynumber: 2.6 Consensus size: 36
636612 TTGAATACAA
*
636622 TATATATGATAT-ATATAAT-TGTGTTTTGTGATATG
1 TATATATGATATGATAT-ATGTGTGTTTAGTGATATG
*
636657 AATTATATGATATGATATATGTGTG-TTAGTGATTATTG
1 TA-TATATGATATGATATATGTGTGTTTAGTGA-TA-TG
* *
636695 TATATATTATAAGATATATG
1 TATATATGATATGATATATG
636715 ATATGAACAT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
35 1 0.02
36 18 0.38
37 26 0.54
38 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.48
Consensus pattern (36 bp):
TATATATGATATGATATATGTGTGTTTAGTGATATG
Found at i:639483 original size:13 final size:13
Alignment explanation
Indices: 639465--639494 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
639455 AAACATGAAG
639465 AATTTTAATCAAA
1 AATTTTAATCAAA
*
639478 AATTTTAATGAAA
1 AATTTTAATCAAA
639491 AATT
1 AATT
639495 ATGGAATTTT
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:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (13 bp):
AATTTTAATCAAA
Found at i:640725 original size:23 final size:23
Alignment explanation
Indices: 640695--640754 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
640685 AGGACATAGT
640695 GGTCCTTCGAGACATTTCTACGC
1 GGTCCTTCGAGACATTTCTACGC
640718 GGTCCTTCGAGACATTTCTACGC
1 GGTCCTTCGAGACATTTCTACGC
*
640741 GGTCATTCGAGACA
1 GGTCCTTCGAGACA
640755 AATATTCAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.20, C:0.28, G:0.23, T:0.28
Consensus pattern (23 bp):
GGTCCTTCGAGACATTTCTACGC
Found at i:641375 original size:21 final size:22
Alignment explanation
Indices: 641349--641391 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
641339 TATGGAAGTA
*
641349 CTGTAGCA-GGGTATCGGTTCC
1 CTGTAGCAGGGGAATCGGTTCC
641370 CTGTAGCAGGGGAATCGGTTCC
1 CTGTAGCAGGGGAATCGGTTCC
641392 TCTCTGACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.16, C:0.23, G:0.35, T:0.26
Consensus pattern (22 bp):
CTGTAGCAGGGGAATCGGTTCC
Found at i:650429 original size:25 final size:25
Alignment explanation
Indices: 650401--650448 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
650391 GTACCAGAGA
650401 AGAATAGCACAAGTGCCTACGAAAT
1 AGAATAGCACAAGTGCCTACGAAAT
**
650426 AGAATAGCGTAAGTGCCTACGAA
1 AGAATAGCACAAGTGCCTACGAA
650449 CTATAACTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.17
Consensus pattern (25 bp):
AGAATAGCACAAGTGCCTACGAAAT
Found at i:654874 original size:13 final size:13
Alignment explanation
Indices: 654856--654884 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
654846 AACCTGACCC
654856 GACCCGACCCGTT
1 GACCCGACCCGTT
654869 GACCCGACCCGTT
1 GACCCGACCCGTT
654882 GAC
1 GAC
654885 TGTTAACCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.45, G:0.24, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:657362 original size:23 final size:24
Alignment explanation
Indices: 657315--657405 Score: 112
Period size: 24 Copynumber: 3.8 Consensus size: 24
657305 TCAAATTTGA
* * *
657315 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATCTGATACTTGACCTGG
*
657339 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATCTGATACTTGACCTGG
* *
657362 ATTTTGATCTGATACATGACCTGG
1 ATTCTGATCTGATACTTGACCTGG
*
657386 ATTCTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
657406 TTGAATTATG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
23 20 0.36
24 36 0.64
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.38
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACCTGG
Found at i:659115 original size:10 final size:10
Alignment explanation
Indices: 659104--659137 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
659094 AAATTGGCGG
*
659104 TTTTTTCTGG
1 TTTTTTCTGA
*
659114 TTTTTTCTAA
1 TTTTTTCTGA
659124 TTTTTTCTGA
1 TTTTTTCTGA
659134 TTTT
1 TTTT
659138 CAGCCGGTCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.09, C:0.09, G:0.09, T:0.74
Consensus pattern (10 bp):
TTTTTTCTGA
Found at i:672803 original size:13 final size:13
Alignment explanation
Indices: 672784--672814 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
672774 TCTTCATTTC
672784 ACTTTTTACTTTA
1 ACTTTTTACTTTA
*
672797 TCTTTTTACTTTA
1 ACTTTTTACTTTA
672810 ACTTT
1 ACTTT
672815 CTTTCATCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.19, C:0.16, G:0.00, T:0.65
Consensus pattern (13 bp):
ACTTTTTACTTTA
Found at i:678498 original size:2 final size:2
Alignment explanation
Indices: 678491--678523 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
678481 CTTAAAATAC
678491 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
678524 AACACGTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:679111 original size:49 final size:49
Alignment explanation
Indices: 679052--679157 Score: 149
Period size: 49 Copynumber: 2.2 Consensus size: 49
679042 ATGCATTGAA
* * * *
679052 CCGAAGTGCACCCTTATGCATTTAACTTTCATTAGTGGCACCTTTTAAG
1 CCGAAATGCACCCTTATACATTTAACTTTCATTAATGACACCTTTTAAG
* *
679101 CCGAAATGCACCGTTATACATTTAACTTTCATTAATGACACCTTTTATG
1 CCGAAATGCACCCTTATACATTTAACTTTCATTAATGACACCTTTTAAG
*
679150 CTGAAATG
1 CCGAAATG
679158 AACCTATAAC
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (49 bp):
CCGAAATGCACCCTTATACATTTAACTTTCATTAATGACACCTTTTAAG
Found at i:679317 original size:9 final size:9
Alignment explanation
Indices: 679300--679409 Score: 52
Period size: 8 Copynumber: 12.9 Consensus size: 9
679290 CATTTCTTGA
679300 TATTATTAT
1 TATTATTAT
*
679309 TATTGTTA-
1 TATTATTAT
*
679317 TAGTATTAT
1 TATTATTAT
679326 TA-TATTAT
1 TATTATTAT
*
679334 TAATA-TAT
1 TATTATTAT
**
679342 TAGAATTAT
1 TATTATTAT
* *
679351 TATTAATAA
1 TATTATTAT
* * * *
679360 AAATAATAA
1 TATTATTAT
*
679369 T-TTATTAA
1 TATTATTAT
679377 TATTATTAT
1 TATTATTAT
* *
679386 TGTTA-TAG
1 TATTATTAT
679394 TATTATTA-
1 TATTATTAT
679402 TATTATTA
1 TATTATTA
679410 ATATATTAGA
Statistics
Matches: 78, Mismatches: 18, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
8 40 0.51
9 38 0.49
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (9 bp):
TATTATTAT
Found at i:679353 original size:20 final size:20
Alignment explanation
Indices: 679328--679432 Score: 64
Period size: 20 Copynumber: 5.5 Consensus size: 20
679318 AGTATTATTA
679328 TATTATTAATATATTAGAAT
1 TATTATTAATATATTAGAAT
** *
679348 TATTATTAATA-AAAATAAT
1 TATTATTAATATATTAGAAT
*
679367 AATTTATT-A-ATATT---AT
1 TA-TTATTAATATATTAGAAT
* **
679383 TATTGTT-ATAGTATTATTA-
1 TATTATTAATA-TATTAGAAT
679402 TATTATTAATATATTAGAAT
1 TATTATTAATATATTAGAAT
*
679422 TATTAATAATA
1 TATTATTAATA
679433 AAAATAATAA
Statistics
Matches: 64, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
15 5 0.08
16 4 0.06
17 4 0.06
18 1 0.02
19 20 0.31
20 30 0.47
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (20 bp):
TATTATTAATATATTAGAAT
Found at i:679392 original size:74 final size:74
Alignment explanation
Indices: 679303--679460 Score: 307
Period size: 74 Copynumber: 2.1 Consensus size: 74
679293 TTCTTGATAT
*
679303 TATTATTATTGTTATAGTATTATTATATTATTAATATATTAGAATTATTATTAATAAAAATAATA
1 TATTATTATTGTTATAGTATTATTATATTATTAATATATTAGAATTATTAATAATAAAAATAATA
679368 ATTTATTAA
66 ATTTATTAA
679377 TATTATTATTGTTATAGTATTATTATATTATTAATATATTAGAATTATTAATAATAAAAATAATA
1 TATTATTATTGTTATAGTATTATTATATTATTAATATATTAGAATTATTAATAATAAAAATAATA
679442 ATTTATTAA
66 ATTTATTAA
679451 TATTATTATT
1 TATTATTATT
679461 TTACAGATTA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 83 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (74 bp):
TATTATTATTGTTATAGTATTATTATATTATTAATATATTAGAATTATTAATAATAAAAATAATA
ATTTATTAA
Found at i:679426 original size:3 final size:3
Alignment explanation
Indices: 679300--679409 Score: 52
Period size: 3 Copynumber: 38.7 Consensus size: 3
679290 CATTTCTTGA
* * * *
679300 TAT TAT TAT TAT TGT TA- TAG TAT TAT TA- TAT TAT TAA TA- TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * * *
679345 AAT TAT TAT TAA TAA AAA TAA TAA T-T TAT TAA TAT TAT TAT TGT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
679391 TAG TAT TAT TA- TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
679410 ATATATTAGA
Statistics
Matches: 84, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
2 11 0.13
3 73 0.87
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (3 bp):
TAT
Found at i:683232 original size:24 final size:24
Alignment explanation
Indices: 683205--683277 Score: 137
Period size: 24 Copynumber: 3.0 Consensus size: 24
683195 TCAGCTCGAT
683205 TTTCACCTAAATTTCGTTTAAATC
1 TTTCACCTAAATTTCGTTTAAATC
*
683229 TTTCACCTAAATTTCATTTAAATC
1 TTTCACCTAAATTTCGTTTAAATC
683253 TTTCACCTAAATTTCGTTTAAATC
1 TTTCACCTAAATTTCGTTTAAATC
683277 T
1 T
683278 CTTACTTTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.30, C:0.21, G:0.03, T:0.47
Consensus pattern (24 bp):
TTTCACCTAAATTTCGTTTAAATC
Found at i:683239 original size:13 final size:13
Alignment explanation
Indices: 683223--683264 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
683213 AAATTTCGTT
683223 TAAATCTTTCACC
1 TAAATCTTTCACC
**
683236 TAAA--TTTCATT
1 TAAATCTTTCACC
683247 TAAATCTTTCACC
1 TAAATCTTTCACC
683260 TAAAT
1 TAAAT
683265 TTCGTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
11 9 0.39
13 14 0.61
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (13 bp):
TAAATCTTTCACC
Found at i:684911 original size:53 final size:52
Alignment explanation
Indices: 684848--685276 Score: 511
Period size: 53 Copynumber: 8.1 Consensus size: 52
684838 AAAATGTTTT
* * ** *
684848 AAAAGGTGAGTCTTTCATTTATGGGTGATGATGTAAGCAAGAAAGAAATTAGT
1 AAAA-GTGAGTCTTTCATTTATGGATGATGATGTATGCGGGAAAGAAATTAGG
* * * *
684901 AAAAGATGAGTATTTCATTTATGGATGATGATGTAGGCGAGCAAGAAATTAGG
1 AAAAG-TGAGTCTTTCATTTATGGATGATGATGTATGCGGGAAAGAAATTAGG
* *
684954 AAAAGGTGAGTCTTTCATTTATGGATGATGATGTATGCGAGCAAGAAATTAGG
1 AAAA-GTGAGTCTTTCATTTATGGATGATGATGTATGCGGGAAAGAAATTAGG
** *
685007 AAAATGTGAGTCTTTCATTTATGGATGATGATGTATGTTGGTAAGAAATTAGG
1 AAAA-GTGAGTCTTTCATTTATGGATGATGATGTATGCGGGAAAGAAATTAGG
* * *
685060 AAAATGCGAGTCTTTCATTCATGGATGATGATGTATGC-GGATAAGAAATTATG
1 AAAA-GTGAGTCTTTCATTTATGGATGATGATGTATGCGGGA-AAGAAATTAGG
* ** *
685113 AAAATGTGAGTCTTTCATTTATGAATGATGATGCGTGCGGGTAAGAAATTAGG
1 AAAA-GTGAGTCTTTCATTTATGGATGATGATGTATGCGGGAAAGAAATTAGG
* * *
685166 AAAATCTGAGTCTTTCATTTATGGATGATGATGTATTCGGGCAAGAAATTAGG
1 AAAA-GTGAGTCTTTCATTTATGGATGATGATGTATGCGGGAAAGAAATTAGG
* *
685219 AAAA-TACGAGTCTTTCATTTATGGATGATGATGTATGCGTGAATGAAATTAGG
1 AAAAGT--GAGTCTTTCATTTATGGATGATGATGTATGCGGGAAAGAAATTAGG
685272 TAAAA
1 -AAAA
685277 AAAATGAGTT
Statistics
Matches: 334, Mismatches: 35, Indels: 13
0.87 0.09 0.03
Matches are distributed among these distances:
51 1 0.00
52 3 0.01
53 323 0.97
54 7 0.02
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.32
Consensus pattern (52 bp):
AAAAGTGAGTCTTTCATTTATGGATGATGATGTATGCGGGAAAGAAATTAGG
Found at i:690034 original size:24 final size:24
Alignment explanation
Indices: 690007--690079 Score: 121
Period size: 24 Copynumber: 3.0 Consensus size: 24
689997 TCAGCTCGAT
690007 TTTCACCTAAATTTCGTTTAAATC
1 TTTCACCTAAATTTCGTTTAAATC
*
690031 TTTCACCTAAATTAT-ATTTAAATC
1 TTTCACCTAAATT-TCGTTTAAATC
690055 TTTCACCTAAATTTCGTTTAAATC
1 TTTCACCTAAATTTCGTTTAAATC
690079 T
1 T
690080 CTTACTTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.02
24 43 0.96
25 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.47
Consensus pattern (24 bp):
TTTCACCTAAATTTCGTTTAAATC
Found at i:691705 original size:53 final size:52
Alignment explanation
Indices: 691641--692069 Score: 545
Period size: 53 Copynumber: 8.1 Consensus size: 52
691631 AAAATGTTTT
* *
691641 AAAAGGTGAGTCTTTCATTTATGGGTGATGATGTAAGCGGGCAAGAAATTAGG
1 AAAA-GTGAGTCTTTCATTTATGGATGATGATGTATGCGGGCAAGAAATTAGG
*
691694 AAAAGATGAGTCTTTCATTTATGGATGATGATGTATGCGAGCAAGAAATTAGG
1 AAAAG-TGAGTCTTTCATTTATGGATGATGATGTATGCGGGCAAGAAATTAGG
*
691747 AAAAGGTGAGTCTTTCATTTATGGATGATGATGTATGCGAGCAAGAAATTAGG
1 AAAA-GTGAGTCTTTCATTTATGGATGATGATGTATGCGGGCAAGAAATTAGG
** *
691800 AAAATGTGAGTCTTTCATTTATGGATGATGATGTATGTTGGTAAGAAATTAGG
1 AAAA-GTGAGTCTTTCATTTATGGATGATGATGTATGCGGGCAAGAAATTAGG
* * * * *
691853 AAAATGCGAGTCTTTCATTCATGGATCATGATGTATGCGGACAAGAAATTATG
1 AAAA-GTGAGTCTTTCATTTATGGATGATGATGTATGCGGGCAAGAAATTAGG
* ** * * *
691906 AAAATGTGAGTCTTTCATTTATGAATGATGATGCGTGAGGGTAAGTAATTAGG
1 AAAA-GTGAGTCTTTCATTTATGGATGATGATGTATGCGGGCAAGAAATTAGG
* * * *
691959 AAAATATGAGTCTTTCATTTATAGATGATGTTGTATTCGGGCAAGAAATTAGG
1 AAAA-GTGAGTCTTTCATTTATGGATGATGATGTATGCGGGCAAGAAATTAGG
* *
692012 AAAATGCGAGTCTTTCATTTATGGATGATGATGTATGCGTG-AATGAAATTAGG
1 AAAA-GTGAGTCTTTCATTTATGGATGATGATGTATGCGGGCAA-GAAATTAGG
692065 TAAAA
1 -AAAA
692070 AATGAGTTTC
Statistics
Matches: 329, Mismatches: 43, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
52 3 0.01
53 321 0.98
54 5 0.02
ACGTcount: A:0.34, C:0.07, G:0.26, T:0.32
Consensus pattern (52 bp):
AAAAGTGAGTCTTTCATTTATGGATGATGATGTATGCGGGCAAGAAATTAGG
Found at i:695108 original size:179 final size:179
Alignment explanation
Indices: 694808--695165 Score: 716
Period size: 179 Copynumber: 2.0 Consensus size: 179
694798 AATGGGCAGA
694808 CAGCTTGAAATTAAGGAAGAGAAGGAAGGGGAACATGTCGAAACCAAGGATTTCTTCTTCGAGAA
1 CAGCTTGAAATTAAGGAAGAGAAGGAAGGGGAACATGTCGAAACCAAGGATTTCTTCTTCGAGAA
694873 AATCGGTGAACCCGTACCTGTCAGGTCAGATTTCCAGTTTGATCTCCAAAGCCCTCCTTCAAAGC
66 AATCGGTGAACCCGTACCTGTCAGGTCAGATTTCCAGTTTGATCTCCAAAGCCCTCCTTCAAAGC
694938 CTCTCGCCCTCAGCCAACGTTTACAGCTGCTGTTTCTAGCTCATTCTTC
131 CTCTCGCCCTCAGCCAACGTTTACAGCTGCTGTTTCTAGCTCATTCTTC
694987 CAGCTTGAAATTAAGGAAGAGAAGGAAGGGGAACATGTCGAAACCAAGGATTTCTTCTTCGAGAA
1 CAGCTTGAAATTAAGGAAGAGAAGGAAGGGGAACATGTCGAAACCAAGGATTTCTTCTTCGAGAA
695052 AATCGGTGAACCCGTACCTGTCAGGTCAGATTTCCAGTTTGATCTCCAAAGCCCTCCTTCAAAGC
66 AATCGGTGAACCCGTACCTGTCAGGTCAGATTTCCAGTTTGATCTCCAAAGCCCTCCTTCAAAGC
695117 CTCTCGCCCTCAGCCAACGTTTACAGCTGCTGTTTCTAGCTCATTCTTC
131 CTCTCGCCCTCAGCCAACGTTTACAGCTGCTGTTTCTAGCTCATTCTTC
695166 TGGTGTGTTC
Statistics
Matches: 179, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
179 179 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (179 bp):
CAGCTTGAAATTAAGGAAGAGAAGGAAGGGGAACATGTCGAAACCAAGGATTTCTTCTTCGAGAA
AATCGGTGAACCCGTACCTGTCAGGTCAGATTTCCAGTTTGATCTCCAAAGCCCTCCTTCAAAGC
CTCTCGCCCTCAGCCAACGTTTACAGCTGCTGTTTCTAGCTCATTCTTC
Found at i:708111 original size:32 final size:32
Alignment explanation
Indices: 708075--708140 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
708065 TGAATAGGGC
708075 TGGAGAACGGTTAGCTAGTATAATAAATGAAA
1 TGGAGAACGGTTAGCTAGTATAATAAATGAAA
708107 TGGAGAACGGTTAGCTAGTATAATAAATGAAA
1 TGGAGAACGGTTAGCTAGTATAATAAATGAAA
708139 TG
1 TG
708141 AAGTTATCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.42, C:0.06, G:0.26, T:0.26
Consensus pattern (32 bp):
TGGAGAACGGTTAGCTAGTATAATAAATGAAA
Found at i:714252 original size:30 final size:30
Alignment explanation
Indices: 714109--714251 Score: 243
Period size: 30 Copynumber: 4.8 Consensus size: 30
714099 TGGTGGCTTT
714109 GGTGGTCTGGCTTCAGGTGGTGGGGGATTC
1 GGTGGTCTGGCTTCAGGTGGTGGGGGATTC
*
714139 GGCGGTCTGGCTTCAGGTGGTGGGGGATTC
1 GGTGGTCTGGCTTCAGGTGGTGGGGGATTC
714169 GGTGGTCTGGCTTCAGGTGGTGGGGGATTC
1 GGTGGTCTGGCTTCAGGTGGTGGGGGATTC
* *
714199 GGTGGTCTGGCTTCAGGTGGTGGTGGATTT
1 GGTGGTCTGGCTTCAGGTGGTGGGGGATTC
714229 GGTGG-CTTGGCTTCAGGTGGTGG
1 GGTGGTC-TGGCTTCAGGTGGTGG
714252 TTCTGGCGGC
Statistics
Matches: 108, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
29 1 0.01
30 107 0.99
ACGTcount: A:0.06, C:0.13, G:0.50, T:0.31
Consensus pattern (30 bp):
GGTGGTCTGGCTTCAGGTGGTGGGGGATTC
Found at i:715166 original size:95 final size:96
Alignment explanation
Indices: 714960--715172 Score: 374
Period size: 95 Copynumber: 2.2 Consensus size: 96
714950 TTTCAGTTTA
* *
714960 GGTTAATATCGGATTGGTTGATCTTCAGGTCGGGTAAATATCAGATTAATTAGCTTTTGGGTTGG
1 GGTTAATATCGGATCGGTTGATCTTCAGGTCAGGTAAATATCAGATTAATTAGCTTTTGGGTTGG
*
715025 GTTAATATCAGATTGGTTGATTTTTGGATCG
66 GTTAATATAAGATTGGTTGATTTTTGGATCG
*
715056 GGTTAATATCGGATCGGTTGATCTTCAGGTCAGGTAAATTTCAGATTAATTAGC-TTTGGGTTGG
1 GGTTAATATCGGATCGGTTGATCTTCAGGTCAGGTAAATATCAGATTAATTAGCTTTTGGGTTGG
715120 GTTAATATAAGATTGGTTGATTTTTGGATCG
66 GTTAATATAAGATTGGTTGATTTTTGGATCG
*
715151 GGTTAATATCAGATCGGTTGAT
1 GGTTAATATCGGATCGGTTGAT
715173 TTTTGGTTTA
Statistics
Matches: 112, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
95 61 0.54
96 51 0.46
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (96 bp):
GGTTAATATCGGATCGGTTGATCTTCAGGTCAGGTAAATATCAGATTAATTAGCTTTTGGGTTGG
GTTAATATAAGATTGGTTGATTTTTGGATCG
Found at i:715173 original size:32 final size:32
Alignment explanation
Indices: 714960--715178 Score: 167
Period size: 32 Copynumber: 6.9 Consensus size: 32
714950 TTTCAGTTTA
* **
714960 GGTTAATATCGGATTGGTTGATCTTCAGG-TCG
1 GGTTAATATCAGATTGGTTGAT-TTTTGGATCG
* ** * * *
714992 GGTAAATATCAGATTAATT-AGCTTTTGGGTTG
1 GGTTAATATCAGATTGGTTGA-TTTTTGGATCG
715024 GGTTAATATCAGATTGGTTGATTTTTGGATCG
1 GGTTAATATCAGATTGGTTGATTTTTGGATCG
* * ** *
715056 GGTTAATATCGGATCGGTTGATCTTCAGG-TCA
1 GGTTAATATCAGATTGGTTGAT-TTTTGGATCG
* * ** ** * *
715088 GGTAAATTTCAGATTAATT-AGCTTTGGGTTG
1 GGTTAATATCAGATTGGTTGATTTTTGGATCG
*
715119 GGTTAATATAAGATTGGTTGATTTTTGGATCG
1 GGTTAATATCAGATTGGTTGATTTTTGGATCG
*
715151 GGTTAATATCAGATCGGTTGATTTTTGG
1 GGTTAATATCAGATTGGTTGATTTTTGG
715179 TTTAGTCAAT
Statistics
Matches: 139, Mismatches: 42, Indels: 12
0.72 0.22 0.06
Matches are distributed among these distances:
30 3 0.02
31 21 0.15
32 110 0.79
33 5 0.04
ACGTcount: A:0.23, C:0.08, G:0.28, T:0.41
Consensus pattern (32 bp):
GGTTAATATCAGATTGGTTGATTTTTGGATCG
Found at i:715275 original size:2 final size:2
Alignment explanation
Indices: 715268--715307 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
715258 GTATAATTAA
715268 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
715308 TCATGTAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:715669 original size:20 final size:21
Alignment explanation
Indices: 715625--715679 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
715615 TAAGTAATTT
715625 TTTTAATATTTTTATTATAAA
1 TTTTAATATTTTTATTATAAA
715646 -TTTAATATTTTTATTA-AAA
1 TTTTAATATTTTTATTATAAA
*
715665 TTTTAACTATGTTTA
1 TTTTAA-TATTTTTA
715680 AATTAATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 3 0.10
20 21 0.68
21 7 0.23
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTTAATATTTTTATTATAAA
Found at i:717751 original size:26 final size:25
Alignment explanation
Indices: 717713--717780 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 25
717703 ATTTATTTAA
** *
717713 AAATGACCGAAATACCTCGAGCTTTG
1 AAATGACTAAAATACCTCGA-ATTTG
*
717739 AAATGACTAAAATACCCTCGAATTTT
1 AAATGACTAAAATA-CCTCGAATTTG
717765 AGAATGACTAAAATAC
1 A-AATGACTAAAATAC
717781 TCTCATGACT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 17 0.47
27 19 0.53
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (25 bp):
AAATGACTAAAATACCTCGAATTTG
Found at i:719348 original size:53 final size:53
Alignment explanation
Indices: 719285--719386 Score: 177
Period size: 53 Copynumber: 1.9 Consensus size: 53
719275 TAAGGTAACG
* *
719285 AAATGGTAATTCACAAACTCATTATGAATACCATGGGTGCACACATAGTGCCA
1 AAATGGTAATTCACAAACTCATTATGAATACAATGGATGCACACATAGTGCCA
*
719338 AAATGGTAATTCACAAACTTATTATGAATACAATGGATGCACACATAGT
1 AAATGGTAATTCACAAACTCATTATGAATACAATGGATGCACACATAGT
719387 ATCGAAAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (53 bp):
AAATGGTAATTCACAAACTCATTATGAATACAATGGATGCACACATAGTGCCA
Found at i:720483 original size:18 final size:21
Alignment explanation
Indices: 720421--720477 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
720411 TTTTCTCTTG
*
720421 GTATCGATAC--CTCCACATCA
1 GTATCGATACTACTTCA-ATCA
*
720441 GTAGCGATACTACTTCAATCA
1 GTATCGATACTACTTCAATCA
720462 GTATCGATACTA-TTCA
1 GTATCGATACTACTTCA
720478 TCGTATTCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 13 0.41
21 15 0.47
22 4 0.12
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (21 bp):
GTATCGATACTACTTCAATCA
Found at i:723031 original size:18 final size:17
Alignment explanation
Indices: 723010--723051 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
723000 AAAAAATATT
723010 AATATAATA-ATACAAAAA
1 AATATAATAGAT--AAAAA
*
723028 AATAAAATAGATAAAAA
1 AATATAATAGATAAAAA
723045 AATATAA
1 AATATAA
723052 ATAAAATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 11 0.52
18 8 0.38
19 2 0.10
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (17 bp):
AATATAATAGATAAAAA
Found at i:723076 original size:24 final size:24
Alignment explanation
Indices: 723026--723092 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 24
723016 ATAATACAAA
*
723026 AAAATAAAATAGATAAAAAAATAT
1 AAAATAAAATAGATAAAAAAAGAT
* *
723050 -AAATAAAATTGATTAAAAAAAGGT
1 AAAATAAAATAGA-TAAAAAAAGAT
*
723074 AAAATAAAAAAGAATAAAA
1 AAAATAAAATAG-ATAAAA
723093 TTGTGTACTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
23 11 0.31
24 9 0.26
25 14 0.40
26 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.19
Consensus pattern (24 bp):
AAAATAAAATAGATAAAAAAAGAT
Found at i:724790 original size:84 final size:84
Alignment explanation
Indices: 724644--724826 Score: 242
Period size: 84 Copynumber: 2.2 Consensus size: 84
724634 AGTTGAATGA
* * * *
724644 AATCGAACTCGTCAGGTCTTTGGTTGGCAGATAGCCCTTCTCAACTTAAGTTATGCTTCAAATGA
1 AATCGAACTCG-AAGGTCTTTGGTTGGAAAATAGCCCTTCTCAACTTAAGCTATGCTTCAAATGA
*
724709 TTTGCCTTGGAGTTGAGCGT
65 TGTGCCTTGGAGTTGAGCGT
* *** *
724729 AGTCGAACTCGAAGGTCTTTGGTTGGAAAATAGCCCTTCTTGCCTTGAGCTATG-TTGCAAATGA
1 AATCGAACTCGAAGGTCTTTGGTTGGAAAATAGCCCTTCTCAACTTAAGCTATGCTT-CAAATGA
*
724793 TGTGCCTTGGAGTTGAGTGT
65 TGTGCCTTGGAGTTGAGCGT
724813 AATCGAACTCGAAG
1 AATCGAACTCGAAG
724827 TTTGGTGTTT
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
83 2 0.02
84 73 0.86
85 10 0.12
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (84 bp):
AATCGAACTCGAAGGTCTTTGGTTGGAAAATAGCCCTTCTCAACTTAAGCTATGCTTCAAATGAT
GTGCCTTGGAGTTGAGCGT
Found at i:724986 original size:36 final size:36
Alignment explanation
Indices: 724936--725022 Score: 138
Period size: 36 Copynumber: 2.4 Consensus size: 36
724926 CAAAGGTTGG
* *
724936 TGTTTCAAGTGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACCGTCTCAAGAGAGACAAAATT
* *
724972 TGTTTCAAGGGAAACCGTCTCAAGCGAGACAAAATT
1 TGTTTCAAGAGAAACCGTCTCAAGAGAGACAAAATT
725008 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
725023 AATCTCAAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGAGAAACCGTCTCAAGAGAGACAAAATT
Found at i:725616 original size:106 final size:106
Alignment explanation
Indices: 725448--726029 Score: 855
Period size: 106 Copynumber: 5.5 Consensus size: 106
725438 GTATTGCTCC
* * * ** *
725448 GAGTCCAATATCCTTCG-TCGTGAAGTTGAAATTGGTTCTGGAACTGAAAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * *
725512 GTCAGCCGCCCCTTCGCCGTGAAGTTGAGCTTGTACTATCTT
65 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTT
* * * * ** *
725554 GGGTCCAATATCCTTCGCTGGGAAGTTAAAATTGACTCTGAAATTGGGAAGTCATTTTTTGACAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAG
* * *
725619 TCAGTCGCTCCTTCGCTGTGAAGTTGAG-TATGTGATGTCTT
66 TCAGCCGCCCCTTCGCTGTGAAGTTGAGCT-TGTGCTGTCTT
* *
725660 AAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCT-TCAAAATTGGGAAGTTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAAATTGGGAAGTTGTTTGTTGACA
*
725724 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTT
65 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTT
*
725766 GAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAG
*
725831 TCAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGCTGTCTT
66 TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTT
*
725872 GAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAG
725937 TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTTGTGCTGTCTT
66 TCAGCCGCCCCTTCGCTGTGAAGTTGAGC-TTGTGCTGTCTT
* * *
725979 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTATGAAATTGGGAAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG
726030 CCCCTTCGTC
Statistics
Matches: 427, Mismatches: 43, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
105 2 0.00
106 363 0.85
107 62 0.15
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAG
TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTT
Done.