Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 29 of 203
Found at i:9746651 original size:6 final size:6
Alignment explanation
Indices: 9746640--9746666 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
9746630 AGAAATTGAT
9746640 GCTCAA GCTCAA GCTCAA GCTCAA GCT
1 GCTCAA GCTCAA GCTCAA GCTCAA GCT
9746667 TATCACTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.19
Consensus pattern (6 bp):
GCTCAA
Found at i:9751655 original size:30 final size:31
Alignment explanation
Indices: 9751621--9751680 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
9751611 AAAAATCCGA
*
9751621 AAGCTCTAACTA-AATTTTTAAAACTTTTGG
1 AAGCTCTAACTAGAAATTTTAAAACTTTTGG
* * *
9751651 AAGCTTTAATTAGAAATTTTAAAAGTTTTG
1 AAGCTCTAACTAGAAATTTTAAAACTTTTG
9751681 AAGGACCTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (31 bp):
AAGCTCTAACTAGAAATTTTAAAACTTTTGG
Found at i:9754007 original size:23 final size:24
Alignment explanation
Indices: 9753966--9754014 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 24
9753956 GGTCCACGTG
9753966 TATTAATAATTATATATTTTTATAA
1 TATTAATAA-TATATATTTTTATAA
*
9753991 TATTAATAA-ATATATTTTTTTAA
1 TATTAATAATATATATTTTTATAA
9754014 T
1 T
9754015 TTTTTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.61
25 9 0.39
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TATTAATAATATATATTTTTATAA
Found at i:9759498 original size:19 final size:20
Alignment explanation
Indices: 9759455--9759500 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 20
9759445 AAAATTTCAT
*
9759455 TTATAAAATTATATATTAAA
1 TTATAAAATTATATATAAAA
9759475 -T-TAAAATT-TATATAAAA
1 TTATAAAATTATATATAAAA
9759492 TTATAAAAT
1 TTATAAAAT
9759501 AATGAGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 8 0.35
18 8 0.35
19 7 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TTATAAAATTATATATAAAA
Found at i:9764474 original size:203 final size:211
Alignment explanation
Indices: 9764103--9764672 Score: 764
Period size: 203 Copynumber: 2.7 Consensus size: 211
9764093 TATCAAATGT
* * * * * *
9764103 GACAGTAAGACTTCAGAACCATACATTCTGTGGGTTTTAAGGAATAAA-TAATTTAAGCCAGCAT
1 GACAATAAGACTTCAAAACCATACATACTGTGGTTTTTAATGAATAAACT-ATTTAAGCCAACAT
* * * * *
9764167 CTTAATTCCATTTAGAGAACACAGGAAATGCCAATAACCAACAAGATCATCACCTTGCAAGGACA
65 CTTAATTCCATTTAGAGAACACATGAAATGCCAATAATCAACAAGATCATCACATTGC-A-TACG
9764232 ATCAATAAGCACACTTAACAATATGCAGCCATTCCATGGACCATACTAATCAAACG-CCTTTAAC
128 ATCAATAAGCACACTTAACAATATGCAGCCATTCCATGGACCATACTAATCAAA-GTCCTTTAAC
9764296 ACCATA-AC-AAGACC-A-A
192 ACCATAGACTAAGACCAATA
* ** **
9764312 -ACAATAAGACTTCAAAACTATATGTACTGTGGTTTTTAATGAATAAACTACGTAAGCCAACATC
1 GACAATAAGACTTCAAAACCATACATACTGTGGTTTTTAATGAATAAACTATTTAAGCCAACATC
* * *
9764376 -TAAATCCATTTAGAGAACACATAAAATGCCAATAATCAACAGGATCATCACATTGCATA-GA-C
66 TTAATTCCATTTAGAGAACACATGAAATGCCAATAATCAACAAGATCATCACATTGCATACGATC
9764438 AATAAGCACACTTAACAATATGCAGCCATTCCATGGACCATACTAATCAAAGTCCTTTAACACCA
131 AATAAGCACACTTAACAATATGCAGCCATTCCATGGACCATACTAATCAAAGTCCTTTAACACCA
* *
9764503 TAGCCTATGACCAAATA
196 TAGACTAAGACC-AATA
* * *
9764520 TGACAATAAGACTTCAGAACCATACATTCTGTGGTTTTTAATGAATAAACAATTTAAGCCAACAT
1 -GACAATAAGACTTCAAAACCATACATACTGTGGTTTTTAATGAATAAACTATTTAAGCCAACAT
*
9764585 CTTAATTCCATTTAGAGAACACATGAAATGCCAATAATCAACAAGATCATCACATTGCAATGACA
65 CTTAATTCCATTTAGAGAACACATGAAATGCCAATAATCAACAAGATCATCACATTGC-AT-ACG
*
9764650 ATCAATAAGCGCACTTAACAATA
128 ATCAATAAGCACACTTAACAATA
9764673 AAGAAAATAC
Statistics
Matches: 313, Mismatches: 34, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
202 1 0.00
203 66 0.21
204 2 0.01
205 6 0.02
206 1 0.00
207 51 0.16
208 52 0.17
209 1 0.00
210 56 0.18
211 53 0.17
212 2 0.01
213 1 0.00
214 1 0.00
215 20 0.06
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.25
Consensus pattern (211 bp):
GACAATAAGACTTCAAAACCATACATACTGTGGTTTTTAATGAATAAACTATTTAAGCCAACATC
TTAATTCCATTTAGAGAACACATGAAATGCCAATAATCAACAAGATCATCACATTGCATACGATC
AATAAGCACACTTAACAATATGCAGCCATTCCATGGACCATACTAATCAAAGTCCTTTAACACCA
TAGACTAAGACCAATA
Found at i:9765424 original size:5 final size:5
Alignment explanation
Indices: 9765414--9765438 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
9765404 TTGGGAATTT
9765414 TGCAA TGCAA TGCAA TGCAA TGCAA
1 TGCAA TGCAA TGCAA TGCAA TGCAA
9765439 AAAAAAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (5 bp):
TGCAA
Found at i:9766314 original size:31 final size:31
Alignment explanation
Indices: 9766279--9766343 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
9766269 AATAGCTCAA
* *
9766279 TGACTTAGATAAAAACTTTTGTATAGTTTAG
1 TGACTTAAATAAAAACTTTTGAATAGTTTAG
* *
9766310 TGACTTAAATGAAAACTTTTGAATGGTTTAG
1 TGACTTAAATAAAAACTTTTGAATAGTTTAG
9766341 TGA
1 TGA
9766344 TCAAATTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.40
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTGAATAGTTTAG
Found at i:9782216 original size:51 final size:51
Alignment explanation
Indices: 9782151--9782259 Score: 141
Period size: 51 Copynumber: 2.1 Consensus size: 51
9782141 TGTGCAAATG
* * *
9782151 TTGACAGAATATGTAAATGTTGTAGGTT-AATTTCGTTAAATC-GTGATTAAA
1 TTGACAGAACATGTAAATGTTATAGGTTAAATTT-GTTAAATCAATG-TTAAA
* *
9782202 TTGACAGAACATGTAAGTGTTATGGGTTAAATTTGTTAAATCAATGTTAAA
1 TTGACAGAACATGTAAATGTTATAGGTTAAATTTGTTAAATCAATGTTAAA
9782253 TTGACAG
1 TTGACAG
9782260 GAAGTATAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
51 44 0.86
52 7 0.14
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (51 bp):
TTGACAGAACATGTAAATGTTATAGGTTAAATTTGTTAAATCAATGTTAAA
Found at i:9783421 original size:15 final size:16
Alignment explanation
Indices: 9783396--9783434 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
9783386 ATATATTATA
9783396 TTCTTTCAAATTA-CTT
1 TTCTTT-AAATTATCTT
*
9783412 TTCTTTAAATTATTTT
1 TTCTTTAAATTATCTT
9783428 TTCTTTA
1 TTCTTTA
9783435 TTTTAATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.64
Consensus pattern (16 bp):
TTCTTTAAATTATCTT
Found at i:9786299 original size:210 final size:215
Alignment explanation
Indices: 9785523--9786570 Score: 1472
Period size: 210 Copynumber: 4.9 Consensus size: 215
9785513 CTGTGAGCCT
* **
9785523 TGAGATAAAACCCGAAGCAGAATTGAGACACATCAGTATATATCCAT-TTGTATATCTCAATATA
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATCAATATATAT--ATATTCCATATCTC-ATATA
* ** *
9785587 TATATATAACATACGCCTGTCTAGTTAGAATATTTGGACAAGTTGTCGGCCACCTTATCTGTAAA
63 TATATAT-ACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGTAAA
* * *
9785652 ATGTGATCATTTTGGCGAATATTCCATATTTAAGAACTTTCCTGGAAAA-TTTCTGAAACTATGA
127 ATGTGATCATTTTAGCAAATATTCCAT-CTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATGA
*
9785716 CCCATCAAGGCTCTTGGCAGAATCG
191 CCCATCAAGGCTCTTAGCAGAATCG
* **
9785741 TGAGATAAAACCTGAAGCAGAATTGAGACACATCAATATATATATCCATTTGTATATCTCA-ATA
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATCAATATATATAT--A-TTCCATATCTCATATA
* * *
9785805 TATATATACAGACGCATGTGTAGTTAGAATATTTGGACAAGTTGTCCTCTACCTTATCTGTAAAA
63 TATATATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGTAAAA
* * *
9785870 TGTGATTATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAATTTTTCT-TAACTATGACC
128 TGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATGACC
*
9785934 CATCAAGGCTCTTAGCAGAATGG
193 CATCAAGGCTCTTAGCAGAATCG
* * * **
9785957 TGAGATAAAACCCGAAGCAGAATTGCGACACTTCAATATGTATCCA-ATTGTATATCTCA-ATAT
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATCAATATATAT--ATATTCCATATCTCATATAT
* *
9786020 ATATATACATAGGCATGTCTAGTTAGACTATTTGGACAAGTTGTCATCTACCTTATCTGTAAAAT
64 ATATATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGTAAAAT
* *
9786085 GTGATTATTTTAGCAAATATTCCATCTTAAGAACTTTGCTGGAAAATTTTCTGAAACTATGACCC
129 GTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATGACCC
* *
9786150 ATCAAGACTCTTAGCAGAGTCG
194 ATCAAGGCTCTTAGCAGAATCG
* * *
9786172 TGAGATAGAACCCGAAGCAGAGTTGAGACACATCAATATATATATA-TCCAT-T-T-GT-TATAT
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATCAATATATATATATTCCATATCTCATATATAT
*
9786232 ATATACATACGCATGTCTAGTTAGAATATTTGGTCAAGTTGTCATCTACCTTATCTGTAAAATGT
66 ATATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGTAAAATGT
*
9786297 GATCATTTTAGCAAATATTCCATCTTAAGAACTTTGCTGGAAAATTTTCTGAAACTATGACCCAT
131 GATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATGACCCAT
*
9786362 CAAGGCTCTTAGCAGAGTCG
196 CAAGGCTCTTAGCAGAATCG
* * **
9786382 TGAGATAAAACCCAAAGCAGAATTGAGCCACATCAATATATATATCCATTTGTATATCTCAATAT
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATCAATATATATAT--A-TTCCATATCTC-ATAT
* *
9786447 ATATATATACATACGCGTGTCTAGTTAGAAT-TTTGGACAAGTTGTCATCAACCTTATCTGTAAA
62 ATATATATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGTAAA
* *
9786511 ATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGTAAATTTTTCTGAAACT
127 ATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACT
9786571 TTTTTTTCCC
Statistics
Matches: 754, Mismatches: 57, Indels: 38
0.89 0.07 0.04
Matches are distributed among these distances:
210 191 0.25
211 1 0.00
212 2 0.00
213 4 0.01
214 130 0.17
215 70 0.09
216 92 0.12
217 80 0.11
218 141 0.19
219 32 0.04
220 11 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.33
Consensus pattern (215 bp):
TGAGATAAAACCCGAAGCAGAATTGAGACACATCAATATATATATATTCCATATCTCATATATAT
ATATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTACCTTATCTGTAAAATGT
GATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATGACCCAT
CAAGGCTCTTAGCAGAATCG
Found at i:9786453 original size:431 final size:426
Alignment explanation
Indices: 9785523--9786570 Score: 1586
Period size: 431 Copynumber: 2.4 Consensus size: 426
9785513 CTGTGAGCCT
*
9785523 TGAGATAAAACCCGAAGCAGAATTGAGACACATCAGTATATATCCATTTGTATATCTCAATATAT
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATCAATATATATCCATTTGTATATCTCAATATAT
* ** *
9785588 ATATATAACATACGCCTGTCTAGTTAGAATATTTGGACAAGTTGTCGGCCACCTTATCTGTAAAA
66 ATATAT-ACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCAACCTTATCTGTAAAA
* * *
9785653 TGTGATCATTTTGGCGAATATTCCATATTTAAGAACTTTCCTGGAAAA-TTTCTGAAACTATGAC
130 TGTGATCATTTTAGCAAATATTCCAT-CTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATGAC
* * *
9785717 CCATCAAGGCTCTTGGCAGAATCGTGAGATAAAACCTGAAGCAGAATTGAGACACATCAATATAT
194 CCATCAAGACTCTTAGCAGAATCGTGAGATAAAACCCGAAGCAGAATTGAGACACATCAATATAT
*
9785782 ATATCCATTTGTATATCTCAATATATATATACAGACGCATGTGTAGTTAGAATATTTGGACAAGT
259 ATATCCATTTG----T-T--ATATATATATACAGACGCATGTCTAGTTAGAATATTTGGACAAGT
* *
9785847 TGTCCTCTACCTTATCTGTAAAATGTGATTATTTTAGCAAATATTCCATCTTAAGAACTTTCCTG
317 TGTCATCTACCTTATCTGTAAAATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTG
* * *
9785912 GAAATTTTTCTTAACTATGACCCATCAAGGCTCTTAGCAGAATGG
382 GAAAATTTTCTAAACTATGACCCATCAAGGCTCTTAGCAGAATCG
* * * *
9785957 TGAGATAAAACCCGAAGCAGAATTGCGACACTTCAATATGTATCCAATTGTATATCTC-A-ATAT
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATCAATATATATCCATTTGTATATCTCAATATAT
* * *
9786020 ATATATACATAGGCATGTCTAGTTAGACTATTTGGACAAGTTGTCATCTACCTTATCTGTAAAAT
66 ATATATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCAACCTTATCTGTAAAAT
* *
9786085 GTGATTATTTTAGCAAATATTCCATCTTAAGAACTTTGCTGGAAAATTTTCTGAAACTATGACCC
131 GTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATGACCC
* * *
9786150 ATCAAGACTCTTAGCAGAGTCGTGAGATAGAACCCGAAGCAGAGTTGAGACACATCAATATATAT
196 ATCAAGACTCTTAGCAGAATCGTGAGATAAAACCCGAAGCAGAATTGAGACACATC-A-ATATAT
* *
9786215 ATATCCATTTG-T-TATATATATACATACGCATGTCTAGTTAGAATATTTGGTCAAGTTGTCATC
259 ATATCCATTTGTTATATATATATACAGACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATC
*
9786278 TACCTTATCTGTAAAATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTGCTGGAAAATT
324 TACCTTATCTGTAAAATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATT
*
9786343 TTCTGAAACTATGACCCATCAAGGCTCTTAGCAGAGTCG
389 TTCT-AAACTATGACCCATCAAGGCTCTTAGCAGAATCG
* *
9786382 TGAGATAAAACCCAAAGCAGAATTGAGCCACATCAATATATATATCCATTTGTATATCTCAATAT
1 TGAGATAAAACCCGAAGCAGAATTGAGACACATC-A-ATATATATCCATTTGTATATCTCAATAT
*
9786447 ATATATATACATACGCGTGTCTAGTTAGAAT-TTTGGACAAGTTGTCATCAACCTTATCTGTAAA
64 ATATATATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCAACCTTATCTGTAAA
* *
9786511 ATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGTAAATTTTTCTGAAACT
129 ATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACT
9786571 TTTTTTTCCC
Statistics
Matches: 560, Mismatches: 46, Indels: 22
0.89 0.07 0.04
Matches are distributed among these distances:
424 113 0.20
425 61 0.11
426 1 0.00
427 22 0.04
428 89 0.16
429 30 0.05
430 19 0.03
431 143 0.26
432 11 0.02
433 18 0.03
434 53 0.09
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.33
Consensus pattern (426 bp):
TGAGATAAAACCCGAAGCAGAATTGAGACACATCAATATATATCCATTTGTATATCTCAATATAT
ATATATACATACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCAACCTTATCTGTAAAAT
GTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTTCTGAAACTATGACCC
ATCAAGACTCTTAGCAGAATCGTGAGATAAAACCCGAAGCAGAATTGAGACACATCAATATATAT
ATCCATTTGTTATATATATATACAGACGCATGTCTAGTTAGAATATTTGGACAAGTTGTCATCTA
CCTTATCTGTAAAATGTGATCATTTTAGCAAATATTCCATCTTAAGAACTTTCCTGGAAAATTTT
CTAAACTATGACCCATCAAGGCTCTTAGCAGAATCG
Found at i:9787147 original size:37 final size:37
Alignment explanation
Indices: 9787106--9787181 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
9787096 ACGGATTAAA
9787106 TTACTTCAAA-TTTTTTAGAGGATTCAATATGCTCAAT
1 TTACTT-AAATTTTTTTAGAGGATTCAATATGCTCAAT
*
9787143 TTACTTAAATTTTTTTAGAGGATTCAATATGTTCAAT
1 TTACTTAAATTTTTTTAGAGGATTCAATATGCTCAAT
9787180 TT
1 TT
9787182 TAAAATTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
36 3 0.08
37 34 0.92
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (37 bp):
TTACTTAAATTTTTTTAGAGGATTCAATATGCTCAAT
Found at i:9790052 original size:28 final size:29
Alignment explanation
Indices: 9789987--9790056 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 29
9789977 AGTTTCAAGT
9789987 TCCTTAAAAGTTGAAGAAAAAAAAATTTGG
1 TCCTTAAAAGTTG-AGAAAAAAAAATTTGG
* *
9790017 TCCCTAAAAGTTG-GTAAAAAAAATTTGG
1 TCCTTAAAAGTTGAGAAAAAAAAATTTGG
9790045 -CCTTTAAAAGTT
1 TCC-TTAAAAGTT
9790057 AAAAATAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 2 0.06
28 22 0.61
30 12 0.33
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (29 bp):
TCCTTAAAAGTTGAGAAAAAAAAATTTGG
Found at i:9791777 original size:94 final size:89
Alignment explanation
Indices: 9791618--9791810 Score: 269
Period size: 94 Copynumber: 2.1 Consensus size: 89
9791608 TAAATAATAA
* * **
9791618 AATTGCACATCCTATTTGATATTTTTGAGCAAAAGAAAAGAAAAGAATAATGACCTTGGATACAT
1 AATTGCACATCCTATATGATATTTTTGAGCAAAAGAAAAGAAAAGAATAATAACCTTAAATACAT
*
9791683 GGTATTAGAGCGACTTATGATTGC
66 GGTATTAGAGCGACCTATGATTGC
* *
9791707 AATTGCACATCCTATATGATATTTTTTTAGCAAAAAAAAGAAGAGAAAAGAATAATAACCTTAAA
1 AATTGCACATCCTATATGATA-TTTTTGAGC----AAAAGAAAAGAAAAGAATAATAACCTTAAA
9791772 TACATGGTATTAGAGCGACCTATGATTGC
61 TACATGGTATTAGAGCGACCTATGATTGC
*
9791801 AATTCCACAT
1 AATTGCACAT
9791811 TGACTTCCCA
Statistics
Matches: 91, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
89 20 0.22
90 8 0.09
94 63 0.69
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (89 bp):
AATTGCACATCCTATATGATATTTTTGAGCAAAAGAAAAGAAAAGAATAATAACCTTAAATACAT
GGTATTAGAGCGACCTATGATTGC
Found at i:9798752 original size:18 final size:17
Alignment explanation
Indices: 9798725--9798761 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
9798715 ATTTTTTATT
9798725 TTAAAAAATATTTAAAA
1 TTAAAAAATATTTAAAA
*
9798742 TTAATAAAATATTTATAA
1 TTAA-AAAATATTTAAAA
9798760 TT
1 TT
9798762 TTCAATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAAAAAATATTTAAAA
Found at i:9798869 original size:13 final size:14
Alignment explanation
Indices: 9798853--9798894 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
9798843 TTTTAATTTT
9798853 ATTTTAAAAATA-A
1 ATTTTAAAAATATA
*
9798866 ATTTGAAAAATAATA
1 ATTTTAAAAAT-ATA
9798881 ATTTTAAATAATAT
1 ATTTTAAA-AATAT
9798895 TCTTCATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 10 0.42
16 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
ATTTTAAAAATATA
Found at i:9807376 original size:21 final size:20
Alignment explanation
Indices: 9807350--9807389 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
9807340 AACACTTTTT
9807350 TGTTGAAAATTTTATATTATA
1 TGTTGAAAATTTTA-ATTATA
9807371 TGTTGAAAATTTTAATTAT
1 TGTTGAAAATTTTAATTAT
9807390 CAATAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.53
Consensus pattern (20 bp):
TGTTGAAAATTTTAATTATA
Found at i:9810067 original size:20 final size:21
Alignment explanation
Indices: 9810044--9810093 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
9810034 AATGTTTGAT
9810044 GTTTAGGGTTTGAG-TTTAAG
1 GTTTAGGGTTTGAGATTTAAG
* *
9810064 GTTTTGGGTTTGAGATTTATG
1 GTTTAGGGTTTGAGATTTAAG
9810085 GTTTAGGGT
1 GTTTAGGGT
9810094 AAAAAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (21 bp):
GTTTAGGGTTTGAGATTTAAG
Found at i:9812353 original size:30 final size:30
Alignment explanation
Indices: 9812318--9812450 Score: 169
Period size: 30 Copynumber: 4.4 Consensus size: 30
9812308 CCCCCAGTTT
* *
9812318 CAACTCCTCCACCCAG-TTCTCCTCCTCCTG
1 CAACTCCACCA-CCAGCTTCTCCACCTCCTG
* *
9812348 CAACTCCACCACCTGCTTCTCCTCCTCCTG
1 CAACTCCACCACCAGCTTCTCCACCTCCTG
*
9812378 CAACTCCACCTCCAGCTTCTCCACCTCCTG
1 CAACTCCACCACCAGCTTCTCCACCTCCTG
* * *
9812408 CCACTCCTCCACCAGCTTCTCCACCTCCCG
1 CAACTCCACCACCAGCTTCTCCACCTCCTG
*
9812438 CCACTCCACCACC
1 CAACTCCACCACC
9812451 TGCAACCCCA
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
29 3 0.03
30 89 0.97
ACGTcount: A:0.15, C:0.56, G:0.06, T:0.23
Consensus pattern (30 bp):
CAACTCCACCACCAGCTTCTCCACCTCCTG
Found at i:9812354 original size:15 final size:15
Alignment explanation
Indices: 9812336--9812483 Score: 107
Period size: 15 Copynumber: 9.9 Consensus size: 15
9812326 CCACCCAGTT
*
9812336 CTCCTCCTCCTGCAA
1 CTCCACCTCCTGCAA
* **
9812351 CTCCACCACCTGCTT
1 CTCCACCTCCTGCAA
*
9812366 CTCCTCCTCCTGCAA
1 CTCCACCTCCTGCAA
* **
9812381 CTCCACCTCCAGCTT
1 CTCCACCTCCTGCAA
*
9812396 CTCCACCTCCTGCCA
1 CTCCACCTCCTGCAA
* * * **
9812411 CTCCTCCACCAGCTT
1 CTCCACCTCCTGCAA
* *
9812426 CTCCACCTCCCGCCA
1 CTCCACCTCCTGCAA
*
9812441 CTCCACCACCTGCAA
1 CTCCACCTCCTGCAA
* * *
9812456 CCCCACCGCCAGCAA
1 CTCCACCTCCTGCAA
*
9812471 CTCCTCCTCCTGC
1 CTCCACCTCCTGC
9812484 TACCCCACCA
Statistics
Matches: 98, Mismatches: 35, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 98 1.00
ACGTcount: A:0.15, C:0.57, G:0.07, T:0.21
Consensus pattern (15 bp):
CTCCACCTCCTGCAA
Found at i:9812372 original size:45 final size:45
Alignment explanation
Indices: 9812320--9812453 Score: 121
Period size: 45 Copynumber: 3.0 Consensus size: 45
9812310 CCCAGTTTCA
* * *
9812320 ACTCCTCCACCCAGTTCTCCTCCTCCTGCAACTCCACCACCTGCT
1 ACTCCTCCACCCAGTTCTCCACCTCCAGCAACTCCACCACCTGCC
* * * ** *
9812365 TCTCCTCCTCCTGCA--ACTCCACCTCCAGCTTCTCCACCTCCTGCC
1 ACTCCTCCACC--CAGTTCTCCACCTCCAGCAACTCCACCACCTGCC
* *
9812410 ACTCCTCCA-CCAGCTTCTCCACCTCCCGCCACTCCACCACCTGC
1 ACTCCTCCACCCAG-TTCTCCACCTCCAGCAACTCCACCACCTGC
9812454 AACCCCACCG
Statistics
Matches: 68, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
42 2 0.03
44 1 0.01
45 63 0.93
47 2 0.03
ACGTcount: A:0.14, C:0.56, G:0.07, T:0.23
Consensus pattern (45 bp):
ACTCCTCCACCCAGTTCTCCACCTCCAGCAACTCCACCACCTGCC
Found at i:9812462 original size:30 final size:30
Alignment explanation
Indices: 9812398--9812498 Score: 103
Period size: 30 Copynumber: 3.4 Consensus size: 30
9812388 TCCAGCTTCT
* * * *
9812398 CCACCTCCTGCCACTCCTCCACCAGCTTCT
1 CCACCTCCAGCCACTCCTCCACCTGCTACC
* * *
9812428 CCACCTCCCGCCACTCCACCACCTGCAACC
1 CCACCTCCAGCCACTCCTCCACCTGCTACC
* * *
9812458 CCACCGCCAGCAACTCCTCCTCCTGCTACC
1 CCACCTCCAGCCACTCCTCCACCTGCTACC
*
9812488 CCACCACCAGC
1 CCACCTCCAGC
9812499 TCCATTGGCT
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.18, C:0.59, G:0.08, T:0.15
Consensus pattern (30 bp):
CCACCTCCAGCCACTCCTCCACCTGCTACC
Found at i:9812468 original size:45 final size:45
Alignment explanation
Indices: 9812336--9812495 Score: 122
Period size: 45 Copynumber: 3.6 Consensus size: 45
9812326 CCACCCAGTT
* * * ** * * * *
9812336 CTCCTCCTCCTGCAACTCCACCACCTGCTTCTCCTCCTCCTGCAA
1 CTCCACCTCCAGCTACTCCACCACCTGCAACCCCACCACCAGCAA
* * * * * **
9812381 CTCCACCTCCAGCTTCTCCACCTCCTGCCACTCCTCCACCAGCTT
1 CTCCACCTCCAGCTACTCCACCACCTGCAACCCCACCACCAGCAA
* * *
9812426 CTCCACCTCCCGCCACTCCACCACCTGCAACCCCACCGCCAGCAA
1 CTCCACCTCCAGCTACTCCACCACCTGCAACCCCACCACCAGCAA
* * *
9812471 CTCCTCCTCCTGCTACCCCACCACC
1 CTCCACCTCCAGCTACTCCACCACC
9812496 AGCTCCATTG
Statistics
Matches: 90, Mismatches: 25, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
45 90 1.00
ACGTcount: A:0.16, C:0.57, G:0.07, T:0.20
Consensus pattern (45 bp):
CTCCACCTCCAGCTACTCCACCACCTGCAACCCCACCACCAGCAA
Found at i:9820765 original size:20 final size:21
Alignment explanation
Indices: 9820740--9820778 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9820730 TTTCAACTAC
*
9820740 AATTTAA-TTCCAAAACCAAA
1 AATTTAATTTACAAAACCAAA
9820760 AATTTAATTTACAAAACCA
1 AATTTAATTTACAAAACCA
9820779 TGAAAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (21 bp):
AATTTAATTTACAAAACCAAA
Found at i:9824462 original size:13 final size:13
Alignment explanation
Indices: 9824444--9824469 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9824434 TTGTCCTAGT
9824444 GATTAAATTAAAA
1 GATTAAATTAAAA
9824457 GATTAAATTAAAA
1 GATTAAATTAAAA
9824470 ATAAGTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (13 bp):
GATTAAATTAAAA
Found at i:9827433 original size:16 final size:16
Alignment explanation
Indices: 9827414--9827446 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9827404 AATTATGAAA
*
9827414 ATGTAAAAATCTATGT
1 ATGTAAAAATATATGT
9827430 ATGTAAAAATATATGT
1 ATGTAAAAATATATGT
9827446 A
1 A
9827447 AAAATGTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.03, G:0.12, T:0.36
Consensus pattern (16 bp):
ATGTAAAAATATATGT
Found at i:9827624 original size:15 final size:17
Alignment explanation
Indices: 9827603--9827640 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
9827593 TATACAAGGA
9827603 TATATAAA-TAAATAAG
1 TATATAAAGTAAATAAG
*
9827619 -ATATAAAGTATATAAG
1 TATATAAAGTAAATAAG
9827635 TATATA
1 TATATA
9827641 TTTATGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 7 0.37
17 5 0.26
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (17 bp):
TATATAAAGTAAATAAG
Found at i:9827978 original size:19 final size:19
Alignment explanation
Indices: 9827948--9827987 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
9827938 GTGTAAATGG
*
9827948 ATAAACAATAAAGGCAAATA
1 ATAAACAATAAAAGC-AATA
9827968 ATAAA-AATAAAAGCAATA
1 ATAAACAATAAAAGCAATA
9827986 AT
1 AT
9827988 GACAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 8 0.42
20 5 0.26
ACGTcount: A:0.68, C:0.07, G:0.07, T:0.17
Consensus pattern (19 bp):
ATAAACAATAAAAGCAATA
Found at i:9827994 original size:18 final size:19
Alignment explanation
Indices: 9827951--9827995 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
9827941 TAAATGGATA
*
9827951 AACAATAAAGGCAAATAAT
1 AACAATAAAAGCAAATAAT
*
9827970 AAAAATAAAAGC-AATAAT
1 AACAATAAAAGCAAATAAT
*
9827988 GACAATAA
1 AACAATAA
9827996 TAATAATGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.67, C:0.09, G:0.09, T:0.16
Consensus pattern (19 bp):
AACAATAAAAGCAAATAAT
Found at i:9829789 original size:21 final size:20
Alignment explanation
Indices: 9829765--9829809 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
9829755 TTTACCCTCC
9829765 CTGTTTTACCCTCTGCCTCTT
1 CTGTTTTACCCT-TGCCTCTT
*
9829786 CTG--TTCCCCTTGCCTCTT
1 CTGTTTTACCCTTGCCTCTT
9829804 CTGTTT
1 CTGTTT
9829810 CGCCCGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
18 11 0.52
19 6 0.29
20 1 0.05
21 3 0.14
ACGTcount: A:0.02, C:0.38, G:0.11, T:0.49
Consensus pattern (20 bp):
CTGTTTTACCCTTGCCTCTT
Found at i:9829801 original size:18 final size:19
Alignment explanation
Indices: 9829773--9829808 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
9829763 CCCTGTTTTA
9829773 CCCTCTGCCTCTTCTGTTC
1 CCCTCTGCCTCTTCTGTTC
9829792 CCCT-TGCCTCTTCTGTT
1 CCCTCTGCCTCTTCTGTT
9829809 TCGCCCGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.00, C:0.44, G:0.11, T:0.44
Consensus pattern (19 bp):
CCCTCTGCCTCTTCTGTTC
Found at i:9829882 original size:33 final size:33
Alignment explanation
Indices: 9829845--9829912 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
9829835 TTTCTTTTCT
* *
9829845 TTTCTGCTGATTTGCTCCCTTTGTTTCTCACAG
1 TTTCTGCCGATTTGCTCCCTCTGTTTCTCACAG
*
9829878 TTTCTGCCGATTTGCTCCCTCTGTTTCTCATAG
1 TTTCTGCCGATTTGCTCCCTCTGTTTCTCACAG
9829911 TT
1 TT
9829913 CTCCACACGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.09, C:0.28, G:0.15, T:0.49
Consensus pattern (33 bp):
TTTCTGCCGATTTGCTCCCTCTGTTTCTCACAG
Found at i:9832619 original size:18 final size:18
Alignment explanation
Indices: 9832593--9832715 Score: 60
Period size: 18 Copynumber: 6.8 Consensus size: 18
9832583 ATCAAGAATT
*
9832593 TTATGAAATTATATATTA
1 TTATTAAATTATATATTA
9832611 TTATTAAATTATAT-TTA
1 TTATTAAATTATATATTA
* *
9832628 ATAAT-AATTAT-T-TTAAA
1 TTATTAAATTATATATT--A
**
9832645 TTATATAAATTCATATAAGA
1 TTAT-TAAATT-ATATATTA
** *
9832665 AAATT-TATTATCATGAATT-
1 TTATTAAATTAT-AT--ATTA
*
9832684 TTATGAAATTATATATTA
1 TTATTAAATTATATATTA
9832702 TTATTAAATTATAT
1 TTATTAAATTATAT
9832716 TTAATAATAA
Statistics
Matches: 76, Mismatches: 17, Indels: 24
0.65 0.15 0.21
Matches are distributed among these distances:
15 3 0.04
16 6 0.08
17 14 0.18
18 32 0.42
19 9 0.12
20 11 0.14
21 1 0.01
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.50
Consensus pattern (18 bp):
TTATTAAATTATATATTA
Found at i:9832625 original size:91 final size:91
Alignment explanation
Indices: 9832517--9832765 Score: 480
Period size: 91 Copynumber: 2.7 Consensus size: 91
9832507 TAAGAACATT
9832517 TTATTATTAAATTATATTTAATAATAATTATTTTAAATTATATAAATTCATATAAGAAAATTTAT
1 TTATTATTAAATTATATTTAATAATAATTATTTTAAATTATATAAATTCATATAAGAAAATTTAT
9832582 TATCAAGAATTTTATGAAATTATATA
66 TATCAAGAATTTTATGAAATTATATA
9832608 TTATTATTAAATTATATTTAATAATAATTATTTTAAATTATATAAATTCATATAAGAAAATTTAT
1 TTATTATTAAATTATATTTAATAATAATTATTTTAAATTATATAAATTCATATAAGAAAATTTAT
*
9832673 TATCATGAATTTTATGAAATTATATA
66 TATCAAGAATTTTATGAAATTATATA
*
9832699 TTATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAAGAAAATTTAT
1 TTATTATTAAATTATATTTAATAATAATTATTTTAAATTATATAAATTCATATAAGAAAATTTAT
9832764 TA
66 TA
9832766 GTTATAATAA
Statistics
Matches: 156, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 156 1.00
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (91 bp):
TTATTATTAAATTATATTTAATAATAATTATTTTAAATTATATAAATTCATATAAGAAAATTTAT
TATCAAGAATTTTATGAAATTATATA
Found at i:9832627 original size:47 final size:47
Alignment explanation
Indices: 9832576--9832718 Score: 156
Period size: 47 Copynumber: 3.1 Consensus size: 47
9832566 ATATAAGAAA
9832576 ATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTAT
1 ATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTAT
* * * *
9832623 ATTTA--AT-AATAATTATT-TTAAATTATATA-AATTCATATAAGA--AA
1 ATTTATTATCAAGAATT-TTATGAAATTATATATTATT-AT-TAA-ATTAT
*
9832667 ATTTATTATCATGAATTTTATGAAATTATATATTATTATTAAATTAT
1 ATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTAT
9832714 ATTTA
1 ATTTA
9832719 ATAATAATTA
Statistics
Matches: 76, Mismatches: 9, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
43 3 0.04
44 25 0.33
45 8 0.11
46 8 0.11
47 29 0.38
48 3 0.04
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (47 bp):
ATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTAT
Found at i:9832846 original size:59 final size:61
Alignment explanation
Indices: 9832781--9832950 Score: 152
Period size: 59 Copynumber: 2.8 Consensus size: 61
9832771 AATAAATTTA
*
9832781 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCA-AATT-A-
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATA-TAATTATTTCATAATTAAG
* * * * * * * ** * *
9832840 TATTTTA-TAGTATCATATATTATAATTTTAGTA-AATTCATATAAGAATTTTGATTATTAAG
1 AATTTTATTA-AATCATATATTTTAATTATAATATATTTAATATAATTA-TTTCATAATTAAG
*
9832901 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAAT-ATAATTAT
9832951 GTTTAAATAT
Statistics
Matches: 81, Mismatches: 22, Indels: 13
0.70 0.19 0.11
Matches are distributed among these distances:
57 4 0.05
58 12 0.15
59 27 0.33
60 1 0.01
61 24 0.30
62 8 0.10
63 5 0.06
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (61 bp):
AATTTTATTAAATCATATATTTTAATTATAATATATTTAATATAATTATTTCATAATTAAG
Found at i:9832902 original size:16 final size:15
Alignment explanation
Indices: 9832881--9832910 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9832871 TAAATTCATA
9832881 TAAGAATTTTGATTAT
1 TAAGAATTTT-ATTAT
9832897 TAAGAATTTTATTA
1 TAAGAATTTTATTA
9832911 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (15 bp):
TAAGAATTTTATTAT
Found at i:9832936 original size:16 final size:16
Alignment explanation
Indices: 9832915--9832956 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
9832905 TTATTAAATT
*
9832915 ATATATTTTAATTATA
1 ATATATTTTAATAATA
9832931 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
9832946 AT-TATGTTTAA
1 ATATAT-TTTAA
9832957 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:9832941 original size:15 final size:15
Alignment explanation
Indices: 9832906--9832947 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
9832896 TTAAGAATTT
*
9832906 TATTAAATTAT-ATA
1 TATTTAATTATAATA
9832920 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
9832934 TATTTAATAATAAT
1 TATTTAATTATAAT
9832948 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:9833176 original size:40 final size:39
Alignment explanation
Indices: 9833081--9833181 Score: 134
Period size: 39 Copynumber: 2.6 Consensus size: 39
9833071 TTTTTCCATT
*
9833081 ATGCTATTACACCTCTATTCCATTCAAGCAAACACAAAA
1 ATGCTATTACGCCTCTATTCCATTCAAGCAAACACAAAA
*
9833120 ATGCTATTACGCCTCTATTCCATTCAA-CTAAACA-ATTAAT
1 ATGCTATTACGCCTCTATTCCATTCAAGC-AAACACA--AAA
*
9833160 TTGCTATTACGCCTCTATTCCA
1 ATGCTATTACGCCTCTATTCCA
9833182 ATACAACGAA
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
38 2 0.04
39 31 0.55
40 23 0.41
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.33
Consensus pattern (39 bp):
ATGCTATTACGCCTCTATTCCATTCAAGCAAACACAAAA
Found at i:9833689 original size:24 final size:23
Alignment explanation
Indices: 9833652--9833701 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
9833642 AATTTAAGAT
*
9833652 AAAATTTGAAATATGAAAAATAA
1 AAAATTTAAAATATGAAAAATAA
*
9833675 AAAATATTAAAATATTAAAAATAA
1 AAAAT-TTAAAATATGAAAAATAA
9833699 AAA
1 AAA
9833702 TACAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (23 bp):
AAAATTTAAAATATGAAAAATAA
Found at i:9833716 original size:23 final size:24
Alignment explanation
Indices: 9833660--9833710 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
9833650 ATAAAATTTG
* **
9833660 AAATATGAAAAATAAAAAATATTA
1 AAATATTAAAAATAAAAAATACAA
9833684 AAATATTAAAAAT-AAAAATACAA
1 AAATATTAAAAATAAAAAATACAA
9833707 AAAT
1 AAAT
9833711 TATAAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (24 bp):
AAATATTAAAAATAAAAAATACAA
Found at i:9834061 original size:11 final size:11
Alignment explanation
Indices: 9834047--9834089 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
9834037 AAATAACAAC
*
9834047 AAAACAATGAG
1 AAAACAATAAG
* *
9834058 AAAATAACAAG
1 AAAACAATAAG
*
9834069 AAAATAATAAG
1 AAAACAATAAG
9834080 AAAACAATAA
1 AAAACAATAA
9834090 TTTTCCTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.72, C:0.07, G:0.09, T:0.12
Consensus pattern (11 bp):
AAAACAATAAG
Found at i:9834062 original size:22 final size:22
Alignment explanation
Indices: 9834037--9834083 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
9834027 CATAATAATT
*
9834037 AAATAACAACAAAACAATGAGA
1 AAATAACAACAAAACAATAAGA
* *
9834059 AAATAACAAGAAAATAATAAGA
1 AAATAACAACAAAACAATAAGA
9834081 AAA
1 AAA
9834084 CAATAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.72, C:0.09, G:0.09, T:0.11
Consensus pattern (22 bp):
AAATAACAACAAAACAATAAGA
Found at i:9845038 original size:30 final size:31
Alignment explanation
Indices: 9844985--9845070 Score: 97
Period size: 30 Copynumber: 2.8 Consensus size: 31
9844975 AGAAAAAGCA
* *
9844985 GTTTAATT-AAAGTTTTAAAAAATTTTGAGG
1 GTTTAATTGAAACTTTTAAAAAATTTAGAGG
* *
9845015 GTTTGA-TGAGAA-TTTTTAAAAATTTAGAGG
1 GTTTAATTGA-AACTTTTAAAAAATTTAGAGG
*
9845045 GTTTAATTGAAACTTTTCAAAAATTT
1 GTTTAATTGAAACTTTTAAAAAATTT
9845071 GAAAGGTATA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
29 1 0.02
30 29 0.62
31 17 0.36
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.43
Consensus pattern (31 bp):
GTTTAATTGAAACTTTTAAAAAATTTAGAGG
Found at i:9850892 original size:16 final size:15
Alignment explanation
Indices: 9850851--9850896 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
9850841 AATAAAATTT
9850851 TATTTTTA-TTTA-A
1 TATTTTTATTTTATA
9850864 TATTTATTAATTTTATA
1 TATTT-TT-ATTTTATA
9850881 TACTTTTTATTTTATA
1 TA-TTTTTATTTTATA
9850897 AAATTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
13 5 0.18
14 2 0.07
15 1 0.04
16 12 0.43
17 5 0.18
18 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTTTATTTTATA
Found at i:9859470 original size:3 final size:3
Alignment explanation
Indices: 9859462--9859486 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9859452 TCAGAAATTC
9859462 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
9859487 AATCAACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9860371 original size:37 final size:36
Alignment explanation
Indices: 9860311--9860380 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 36
9860301 AATATAATAA
*
9860311 TTTTATATTTTTTACAAATTTTATA-TTTATTTACAT
1 TTTTATATTTTTTACAAACTTTATAGTTT-TTTACAT
9860347 TTTTATAATTTTCTTAC-AACTTTATAGTTTTTTA
1 TTTTAT-ATTTT-TTACAAACTTTATAGTTTTTTA
9860381 TAATTTTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
36 6 0.20
37 17 0.57
38 7 0.23
ACGTcount: A:0.29, C:0.07, G:0.01, T:0.63
Consensus pattern (36 bp):
TTTTATATTTTTTACAAACTTTATAGTTTTTTACAT
Found at i:9860382 original size:10 final size:9
Alignment explanation
Indices: 9860367--9860445 Score: 58
Period size: 10 Copynumber: 8.6 Consensus size: 9
9860357 TTCTTACAAC
9860367 TTTATAGTTT
1 TTTATA-TTT
9860377 TTTATAATTT
1 TTTAT-ATTT
9860387 TCTTATA-TT
1 T-TTATATTT
* *
9860396 TCTATATAT
1 TTTATATTT
9860405 TTTATAATTT
1 TTTAT-ATTT
9860415 TTCTA-ATTT
1 TT-TATATTT
9860424 TTTA-A-TT
1 TTTATATTT
9860431 TTTATAATTT
1 TTTAT-ATTT
9860441 TTTAT
1 TTTAT
9860446 TAAAATTTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
7 6 0.11
8 7 0.12
9 15 0.26
10 22 0.39
11 7 0.12
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (9 bp):
TTTATATTT
Found at i:9860398 original size:38 final size:39
Alignment explanation
Indices: 9860313--9860398 Score: 88
Period size: 37 Copynumber: 2.3 Consensus size: 39
9860303 TATAATAATT
* * *
9860313 TTATATTTTTTACAAATTTTATATTTATTTACATTTTTA
1 TTATATTTCTTACAAACTTTATATTTATTTACAATTTTA
* * *
9860352 TAAT-TTTCTTAC-AACTTTATAGTTT-TTTATAATTTTC
1 TTATATTTCTTACAAACTTTATA-TTTATTTACAATTTTA
9860389 TTATATTTCT
1 TTATATTTCT
9860399 ATATATTTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
37 20 0.53
38 15 0.39
39 3 0.08
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.63
Consensus pattern (39 bp):
TTATATTTCTTACAAACTTTATATTTATTTACAATTTTA
Found at i:9860401 original size:29 final size:28
Alignment explanation
Indices: 9860346--9860415 Score: 88
Period size: 29 Copynumber: 2.5 Consensus size: 28
9860336 TTTATTTACA
9860346 TTTTTATAATTTTCTTACAACTTTATAGT
1 TTTTTATAATTTTCTTACAACTTTATA-T
* *
9860375 TTTTTATAATTTTCTTA-TATTTCTATAT
1 TTTTTATAATTTTCTTACAACTT-TATAT
*
9860403 ATTTTATAATTTT
1 TTTTTATAATTTT
9860416 TCTAATTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 16 0.43
29 21 0.57
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.64
Consensus pattern (28 bp):
TTTTTATAATTTTCTTACAACTTTATAT
Found at i:9860416 original size:9 final size:9
Alignment explanation
Indices: 9860307--9860497 Score: 96
Period size: 9 Copynumber: 21.0 Consensus size: 9
9860297 TTTTAATATA
9860307 ATAA-TTTT
1 ATAATTTTT
*
9860315 ATATTTTTT
1 ATAATTTTT
* *
9860324 ACAAATTTT
1 ATAATTTTT
9860333 AT-ATTTATT
1 ATAATTT-TT
9860342 -TACATTTTT
1 ATA-ATTTTT
9860351 ATAATTTTCT
1 ATAATTTT-T
**
9860361 -TACAACTTT
1 ATA-ATTTTT
*
9860370 ATAGTTTTTT
1 ATA-ATTTTT
9860380 ATAATTTTCT
1 ATAATTTT-T
*
9860390 -TATATTTCT
1 ATA-ATTTTT
9860399 AT-ATATTTT
1 ATAAT-TTTT
9860408 ATAATTTTT
1 ATAATTTTT
*
9860417 CTAATTTTT
1 ATAATTTTT
9860426 -TAATTTTT
1 ATAATTTTT
9860434 ATAATTTTTT
1 ATAA-TTTTT
*
9860444 ATTAAAATTTTA
1 A-T--AATTTTT
9860456 ATAA-TTTT
1 ATAATTTTT
*
9860464 ATAACTTTT
1 ATAATTTTT
*
9860473 ATTATTTTT
1 ATAATTTTT
9860482 AT--TTTTT
1 ATAATTTTT
*
9860489 ATCATTTTT
1 ATAATTTTT
9860498 GCCACATGTC
Statistics
Matches: 142, Mismatches: 20, Indels: 41
0.70 0.10 0.20
Matches are distributed among these distances:
7 7 0.05
8 24 0.17
9 70 0.49
10 32 0.23
11 2 0.01
12 5 0.04
13 2 0.01
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (9 bp):
ATAATTTTT
Found at i:9871368 original size:26 final size:25
Alignment explanation
Indices: 9871317--9871368 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
9871307 AAATTGATCA
**
9871317 ATTGTTAATTAATTATTTAATTATT
1 ATTGTTAATTAATTATTTAAGCATT
* *
9871342 ATTGTTTATTTAATTTTTTAAGCATT
1 ATTG-TTAATTAATTATTTAAGCATT
9871368 A
1 A
9871369 ATCTCATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.60
Consensus pattern (25 bp):
ATTGTTAATTAATTATTTAAGCATT
Found at i:9872090 original size:13 final size:13
Alignment explanation
Indices: 9872072--9872096 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9872062 TAAATATGAA
9872072 AAATTGTGGGTAT
1 AAATTGTGGGTAT
9872085 AAATTGTGGGTA
1 AAATTGTGGGTA
9872097 GAAAAATCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (13 bp):
AAATTGTGGGTAT
Found at i:9873952 original size:21 final size:21
Alignment explanation
Indices: 9873928--9873967 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9873918 ATAGAGGTGT
*
9873928 TACATTAAAAT-TTATATTTAA
1 TACAATAAAATATT-TATTTAA
9873949 TACAATAAAATATTTATTT
1 TACAATAAAATATTTATTT
9873968 GTATTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (21 bp):
TACAATAAAATATTTATTTAA
Found at i:9874472 original size:16 final size:16
Alignment explanation
Indices: 9874451--9874484 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
9874441 GAGTAAACGT
9874451 GGAAGAAAG-GAAGAAG
1 GGAAGAAAGTG-AGAAG
9874467 GGAAGAAAGTGAGAAG
1 GGAAGAAAGTGAGAAG
9874483 GG
1 GG
9874485 GCAAAGGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 16 0.94
17 1 0.06
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (16 bp):
GGAAGAAAGTGAGAAG
Found at i:9883018 original size:3 final size:3
Alignment explanation
Indices: 9883010--9883036 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9883000 AGAAATCCTT
9883010 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
9883037 ATCTATTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:9884316 original size:220 final size:220
Alignment explanation
Indices: 9883874--9884315 Score: 812
Period size: 221 Copynumber: 2.0 Consensus size: 220
9883864 GACTTACAAG
9883874 AATCCTCCATGCTTTTTGGTTTCTCTATAAGCTTTAGAAGCCAATTTTACCCTTCAATTGTATCA
1 AATCCTCCATGCTTTTTGGTTTCTCTATAAGCTTTAGAAGCCAATTTTACCCTTCAATTGTATCA
*
9883939 TTTTCGTGGGAGGTTTTGAACTTCTATAAAATAGCTCTCGGGCAATTATTTGGAACCTTTTGGTG
66 TTTTCGTGGGAGGTTTTGAACTTCTATAAAATAGCTCTCGGGCAATTATTTGGAACCTCTTGGTG
*
9884004 GTTGTTACACCCACGATGTGGGTGAAAGAAAATATTTTATATACTTTTTAAAAAGAAATTAATGA
131 GTTGTTACACCCACGATGTGGATGAAAGAAAATATTTTATATACTTTTTAAAAAGAAATTAATGA
9884069 TGATCAATGGTGGAGTGGTAAAAAA
196 TGATCAATGGTGGAGTGGTAAAAAA
*
9884094 AATCCTCCATGCTTTTTGGTTTCTCTATAAGCTTTAGAAGCCAATTTTACCCTTCCATTGTATCA
1 AATCCTCCATGCTTTTTGGTTTCTCTATAAGCTTTAGAAGCCAATTTTACCCTTCAATTGTATCA
*
9884159 TTTTGCGTGGGAGGTTTTGAACTTCTATAGAATAGCTCTCGGGCAATTATTTGGAACCTCTTGGT
66 TTTT-CGTGGGAGGTTTTGAACTTCTATAAAATAGCTCTCGGGCAATTATTTGGAACCTCTTGGT
* * *
9884224 GGTTGTTACACCTACTATGTGGATGAAAGAAAATATTTTATATACTTTTTAAAATGAAATTAATG
130 GGTTGTTACACCCACGATGTGGATGAAAGAAAATATTTTATATACTTTTTAAAAAGAAATTAATG
9884289 ATGATCAATGGTGGAGTGGTAAAAAA
195 ATGATCAATGGTGGAGTGGTAAAAAA
9884315 A
1 A
9884316 TTGTGCTTAA
Statistics
Matches: 214, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
220 68 0.32
221 146 0.68
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (220 bp):
AATCCTCCATGCTTTTTGGTTTCTCTATAAGCTTTAGAAGCCAATTTTACCCTTCAATTGTATCA
TTTTCGTGGGAGGTTTTGAACTTCTATAAAATAGCTCTCGGGCAATTATTTGGAACCTCTTGGTG
GTTGTTACACCCACGATGTGGATGAAAGAAAATATTTTATATACTTTTTAAAAAGAAATTAATGA
TGATCAATGGTGGAGTGGTAAAAAA
Found at i:9884445 original size:6 final size:6
Alignment explanation
Indices: 9884434--9884471 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
9884424 CAAAAGTTTC
9884434 ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG AT
1 ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG AT
9884472 GCAAATTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (6 bp):
ATATAG
Found at i:9885514 original size:21 final size:19
Alignment explanation
Indices: 9885471--9885518 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
9885461 TATTTAAAGG
* *
9885471 ATTTAAAATAAATATAAAT
1 ATTTAAAATAAAAATAAAA
9885490 ATTTAAAACTAAACAATAAAA
1 ATTTAAAA-TAAA-AATAAAA
9885511 ATTTAAAA
1 ATTTAAAA
9885519 GTTGAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 8 0.32
20 4 0.16
21 13 0.52
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (19 bp):
ATTTAAAATAAAAATAAAA
Found at i:9893263 original size:13 final size:13
Alignment explanation
Indices: 9893245--9893275 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
9893235 TTTTCTCAAT
*
9893245 TTTCTTTTTCTTC
1 TTTCTTCTTCTTC
9893258 TTTCTTCTTCTTC
1 TTTCTTCTTCTTC
9893271 TTTCT
1 TTTCT
9893276 ATCACCGCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTCTTCTTCTTC
Found at i:9900003 original size:24 final size:25
Alignment explanation
Indices: 9899972--9900020 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
9899962 TTTTTTTTTT
*
9899972 AAAAAAA-TTTATAATTTTT-TAAA
1 AAAAAAATTTTAGAATTTTTATAAA
9899995 AAAATAAATTTTAGAATTTTTATAAA
1 AAAA-AAATTTTAGAATTTTTATAAA
9900021 TATTTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 4 0.18
24 3 0.14
25 11 0.50
26 4 0.18
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
AAAAAAATTTTAGAATTTTTATAAA
Found at i:9900021 original size:18 final size:17
Alignment explanation
Indices: 9899998--9900040 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
9899988 TTTTAAAAAA
9899998 ATAAATTTTAGAATTTTT
1 ATAAATTTTA-AATTTTT
9900016 ATAAATATTTAAATTTTT
1 ATAAAT-TTTAAATTTTT
*
9900034 AAAAATT
1 ATAAATT
9900041 ATTTTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 18 0.78
19 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
ATAAATTTTAAATTTTT
Found at i:9900048 original size:20 final size:20
Alignment explanation
Indices: 9900002--9900073 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
9899992 AAAAAAATAA
*
9900002 ATTTTAGAATTTTTATAAA-T
1 ATTTTA-AATTTTTAAAAATT
9900022 A-TTTAAATTTTTAAAAATT
1 ATTTTAAATTTTTAAAAATT
*
9900041 ATTTTAAATTTTTTAAAATT
1 ATTTTAAATTTTTAAAAATT
* *
9900061 GTTTTAACTTTTT
1 ATTTTAAATTTTT
9900074 TTTGTAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
18 11 0.24
19 6 0.13
20 29 0.63
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (20 bp):
ATTTTAAATTTTTAAAAATT
Found at i:9900075 original size:10 final size:10
Alignment explanation
Indices: 9900023--9900075 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
9900013 TTTATAAATA
9900023 TTTAAATTTT
1 TTTAAATTTT
** *
9900033 TAAAAATTAT
1 TTTAAATTTT
9900043 TTTAAATTTT
1 TTTAAATTTT
* *
9900053 TTAAAATTGT
1 TTTAAATTTT
*
9900063 TTTAACTTTT
1 TTTAAATTTT
9900073 TTT
1 TTT
9900076 TGTAATTTTT
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (10 bp):
TTTAAATTTT
Found at i:9904352 original size:21 final size:21
Alignment explanation
Indices: 9904309--9904353 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
9904299 AATATAAAAG
*
9904309 AAAAATTCAAATTTAAATCTT
1 AAAAATTCAAATTTAAAGCTT
*
9904330 AAAAA-TCAAAGTTTAAAGGTT
1 AAAAATTCAAA-TTTAAAGCTT
9904351 AAA
1 AAA
9904354 TTTTAGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (21 bp):
AAAAATTCAAATTTAAAGCTT
Found at i:9913088 original size:43 final size:43
Alignment explanation
Indices: 9913027--9913113 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
9913017 GCCTGGTTGA
9913027 CATTGTTGCAATTGTAGCAATCAGAGGAGCGTATAAGTTCAAG
1 CATTGTTGCAATTGTAGCAATCAGAGGAGCGTATAAGTTCAAG
9913070 CATTGTTGCAATTGTAGCAATCAGAGGAGCGTATAAGTTCAAG
1 CATTGTTGCAATTGTAGCAATCAGAGGAGCGTATAAGTTCAAG
9913113 C
1 C
9913114 GTATTTAAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (43 bp):
CATTGTTGCAATTGTAGCAATCAGAGGAGCGTATAAGTTCAAG
Found at i:9914799 original size:20 final size:19
Alignment explanation
Indices: 9914752--9914798 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
9914742 GTTTCTTTTA
9914752 TAAATTTTGTTAATAATTT
1 TAAATTTTGTTAATAATTT
* *
9914771 TATGATTTTTTTAATAATTT
1 TA-AATTTTGTTAATAATTT
9914791 TAAATTTT
1 TAAATTTT
9914799 TAAAAGGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (19 bp):
TAAATTTTGTTAATAATTT
Found at i:9931203 original size:23 final size:23
Alignment explanation
Indices: 9931141--9931203 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 23
9931131 CATTATAAAA
* * *
9931141 TAGAAATAAATATATAAAAAATT
1 TAGAAAAAAATATATAAATAATC
9931164 TAG--AAAAATATATAAATAATC
1 TAGAAAAAAATATATAAATAATC
*
9931185 TAGAAAAAAACATATAAAT
1 TAGAAAAAAATATATAAAT
9931204 TATAAAAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
21 18 0.53
23 16 0.47
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (23 bp):
TAGAAAAAAATATATAAATAATC
Found at i:9931412 original size:18 final size:21
Alignment explanation
Indices: 9931386--9931424 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
9931376 AAATTTAAAT
9931386 ACATGTTTT-AATTTT-TATA
1 ACATGTTTTCAATTTTATATA
9931405 ACAT-TTTTCAATTTTATATA
1 ACATGTTTTCAATTTTATATA
9931425 TGATTTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 10 0.56
20 4 0.22
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (21 bp):
ACATGTTTTCAATTTTATATA
Found at i:9931700 original size:15 final size:15
Alignment explanation
Indices: 9931680--9931710 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9931670 AATTTTTAGA
9931680 ATTTTAGAATTATAT
1 ATTTTAGAATTATAT
*
9931695 ATTTTAGAATTTTAT
1 ATTTTAGAATTATAT
9931710 A
1 A
9931711 AAAAATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
ATTTTAGAATTATAT
Found at i:9931831 original size:15 final size:16
Alignment explanation
Indices: 9931813--9931842 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9931803 TTATCTTATT
9931813 TTTTTATAA-TTTTTA
1 TTTTTATAACTTTTTA
9931828 TTTTTATAACTTTTT
1 TTTTTATAACTTTTT
9931843 TTATAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTATAACTTTTTA
Found at i:9931863 original size:20 final size:22
Alignment explanation
Indices: 9931829--9931883 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
9931819 TAATTTTTAT
*
9931829 TTTTATA-ACTTTTTTTATA-A
1 TTTTATATATTTTTTTTATAGA
* *
9931849 -TTTATATGTTTTTTTTCTAGA
1 TTTTATATATTTTTTTTATAGA
9931870 TTTTATATATTTTT
1 TTTTATATATTTTT
9931884 CTGAAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 6 0.21
20 9 0.32
21 1 0.04
22 12 0.43
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.69
Consensus pattern (22 bp):
TTTTATATATTTTTTTTATAGA
Found at i:9938694 original size:22 final size:22
Alignment explanation
Indices: 9938661--9938716 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
9938651 ATAAATTATT
9938661 TTTACTATTTTAAAT-ATAAAATA
1 TTTA-TATTTTAAATGAT-AAATA
*
9938684 TTTATATTTTACATGATAAATA
1 TTTATATTTTAAATGATAAATA
*
9938706 ATTATAATTTT
1 TTTAT-ATTTT
9938717 TTAATTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 18 0.62
23 11 0.38
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTATATTTTAAATGATAAATA
Found at i:9942261 original size:21 final size:21
Alignment explanation
Indices: 9942231--9942276 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
9942221 ATATTAAATT
9942231 TTTTTAAATATAATATAATAAA
1 TTTTTAAATATAATA-AATAAA
* *
9942253 TTTTT-AATATTATAAATATA
1 TTTTTAAATATAATAAATAAA
9942273 TTTT
1 TTTT
9942277 ATGCTTCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 8 0.36
22 5 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTTTAAATATAATAAATAAA
Found at i:9942447 original size:12 final size:12
Alignment explanation
Indices: 9942430--9942455 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9942420 TTATTTTTTT
9942430 ATTTTAGAAATA
1 ATTTTAGAAATA
9942442 ATTTTAGAAATA
1 ATTTTAGAAATA
9942454 AT
1 AT
9942456 AGATATGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (12 bp):
ATTTTAGAAATA
Found at i:9943707 original size:21 final size:20
Alignment explanation
Indices: 9943681--9943725 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
9943671 TTTTATAAGC
9943681 TTATATGAATTTTAATATTTT
1 TTATATGAATTTT-ATATTTT
***
9943702 TTATATTTCTTTTATATTTT
1 TTATATGAATTTTATATTTT
9943722 TTAT
1 TTAT
9943726 GATTTTTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (20 bp):
TTATATGAATTTTATATTTT
Found at i:9943720 original size:20 final size:22
Alignment explanation
Indices: 9943690--9943730 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
9943680 CTTATATGAA
9943690 TTTTAATATTTTTTAT-ATTTC
1 TTTTAATATTTTTTATGATTTC
9943711 TTTT-ATATTTTTTATGATTT
1 TTTTAATATTTTTTATGATTT
9943731 TTAAGATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTTAATATTTTTTATGATTTC
Found at i:9943723 original size:9 final size:9
Alignment explanation
Indices: 9943690--9943732 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
9943680 CTTATATGAA
*
9943690 TTTTAATAT
1 TTTTTATAT
9943699 TTTTTATATT
1 TTTTTATA-T
9943709 TCTTTTATAT
1 T-TTTTATAT
9943719 TTTTTATGAT
1 TTTTTAT-AT
9943729 TTTT
1 TTTT
9943733 AAGATTTCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 13 0.43
10 10 0.33
11 7 0.23
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTTTATAT
Found at i:9943893 original size:20 final size:19
Alignment explanation
Indices: 9943849--9943916 Score: 70
Period size: 18 Copynumber: 3.6 Consensus size: 19
9943839 TATGTCAATC
* *
9943849 TTAATTCTTTT-AATATTT
1 TTAATTTTTTTAAATTTTT
*
9943867 ATAATTTTTTTACAATTTTT
1 TTAATTTTTTTA-AATTTTT
9943887 TTAA--TTTTTAAATTTTT
1 TTAATTTTTTTAAATTTTT
9943904 TTAATTATTTTTA
1 TTAATT-TTTTTA
9943917 TTGGAAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
17 11 0.27
18 15 0.37
20 15 0.37
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
TTAATTTTTTTAAATTTTT
Found at i:9943894 original size:17 final size:17
Alignment explanation
Indices: 9943873--9943909 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 17
9943863 ATTTATAATT
9943873 TTTTTACAATTTTTTTAA
1 TTTTTA-AATTTTTTTAA
9943891 TTTTTAAATTTTTTTAA
1 TTTTTAAATTTTTTTAA
9943908 TT
1 TT
9943910 ATTTTTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTAAATTTTTTTAA
Found at i:9943915 original size:29 final size:29
Alignment explanation
Indices: 9943851--9943906 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
9943841 TGTCAATCTT
*
9943851 AATTCTTTTAATATTTATAATTTTTTTAC
1 AATTTTTTTAATATTTATAATTTTTTTAC
*
9943880 AATTTTTTTAATTTTTA-AATTTTTTTA
1 AATTTTTTTAATATTTATAATTTTTTTA
9943907 ATTATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (29 bp):
AATTTTTTTAATATTTATAATTTTTTTAC
Found at i:9954064 original size:15 final size:16
Alignment explanation
Indices: 9954039--9954068 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9954029 AGAAAAATTG
9954039 AAAATCGAATCAAATC
1 AAAATCGAATCAAATC
9954055 AAAA-CGAATCAAAT
1 AAAATCGAATCAAAT
9954069 TATTATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.60, C:0.17, G:0.07, T:0.17
Consensus pattern (16 bp):
AAAATCGAATCAAATC
Found at i:9965860 original size:13 final size:13
Alignment explanation
Indices: 9965842--9965866 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9965832 CAACATTAAT
9965842 TTTTATTTATTTC
1 TTTTATTTATTTC
9965855 TTTTATTTATTT
1 TTTTATTTATTT
9965867 ATTTATGGAA
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:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTATTTATTTC
Found at i:9967925 original size:80 final size:80
Alignment explanation
Indices: 9967793--9968296 Score: 843
Period size: 80 Copynumber: 6.3 Consensus size: 80
9967783 TAATCTTTTT
* * *
9967793 ACTCTATCAAGTAAAATCTAAATATCATACACACCTCCCTCCACCGCCAACACTTAACACCAATT
1 ACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAATT
*
9967858 CTAAAACTCCTTAAT
66 CTAAAACTCCTTAAC
9967873 ACTCTATCAAGTAAAACCTAAATATCATACAC-CTCTCTCTCCGCCGCCAACACTTAACACCAAT
1 ACTCTATCAAGTAAAACCTAAATATCATACACAC-CTCTCTCCGCCGCCAACACTTAACACCAAT
* *
9967937 CCTAAAACTCTTTAAC
65 TCTAAAACTCCTTAAC
* *
9967953 ACTCTATCTAGTAAAACCTAAATATCATACACACCTCCCTCCGCCGCCAACACTTAACACCAATT
1 ACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAATT
9968018 CTAAAACTCCTTAAC
66 CTAAAACTCCTTAAC
*
9968033 ACTCTATCAAGTAAAACCTAAATATCATACACATCTCTCTCCGCCGCCAACACTTAACACCAATT
1 ACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAATT
*
9968098 CTAAAACTCCTTAAT
66 CTAAAACTCCTTAAC
*
9968113 ACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAATC
1 ACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAATT
*
9968178 CTAAAACTCTTTAAC
66 CTAAAACTCCTTAAC
*
9968193 ACTCTATCTAGTAAAACCTAAATATCATACACACCT-TCCTCCGCCGCCAACACTT-ACACCAAT
1 ACTCTATCAAGTAAAACCTAAATATCATACACACCTCT-CTCCGCCGCCAACACTTAACACCAAT
*
9968256 ACTAAAACTCCTTAAC
65 TCTAAAACTCCTTAAC
9968272 ACTCTATCAAGTAAAACCTAAATAT
1 ACTCTATCAAGTAAAACCTAAATAT
9968297 TCCTTGATAC
Statistics
Matches: 399, Mismatches: 22, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
79 48 0.12
80 350 0.88
81 1 0.00
ACGTcount: A:0.38, C:0.34, G:0.04, T:0.25
Consensus pattern (80 bp):
ACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAACACCAATT
CTAAAACTCCTTAAC
Found at i:9968216 original size:240 final size:239
Alignment explanation
Indices: 9967793--9968296 Score: 929
Period size: 240 Copynumber: 2.1 Consensus size: 239
9967783 TAATCTTTTT
*
9967793 ACTCTATCAAGTAAAATCTAAATATCATACACACCTCCCTCCACCGCCAACACTTAACACCAATT
1 ACTCTATCAAGTAAAACCTAAATATCATACACACCTCCCTCCACCGCCAACACTTAACACCAATT
9967858 CTAAAACTCCTTAATACTCTATCAAGTAAAACCTAAATATCATACACCTCTCTCTCCGCCGCCAA
66 CTAAAACTCCTTAATACTCTATCAAGTAAAACCTAAATATCATACACCTCTCTCTCCGCCGCCAA
9967923 CACTTAACACCAATCCTAAAACTCTTTAACACTCTATCTAGTAAAACCTAAATATCATACACACC
131 CACTTAACACCAATCCTAAAACTCTTTAACACTCTATCTAGTAAAACCTAAATATCATACACACC
*
9967988 TCCCTCCGCCGCCAACACTTAACACCAATTCTAAAACTCCTTAAC
196 TCCCTCCGCCGCCAACACTT-ACACCAATACTAAAACTCCTTAAC
* * *
9968033 ACTCTATCAAGTAAAACCTAAATATCATACACATCTCTCTCCGCCGCCAACACTTAACACCAATT
1 ACTCTATCAAGTAAAACCTAAATATCATACACACCTCCCTCCACCGCCAACACTTAACACCAATT
9968098 CTAAAACTCCTTAATACTCTATCAAGTAAAACCTAAATATCATACACAC-CTCTCTCCGCCGCCA
66 CTAAAACTCCTTAATACTCTATCAAGTAAAACCTAAATATCATACAC-CTCTCTCTCCGCCGCCA
9968162 ACACTTAACACCAATCCTAAAACTCTTTAACACTCTATCTAGTAAAACCTAAATATCATACACAC
130 ACACTTAACACCAATCCTAAAACTCTTTAACACTCTATCTAGTAAAACCTAAATATCATACACAC
*
9968227 CTTCCTCCGCCGCCAACACTTACACCAATACTAAAACTCCTTAAC
195 CTCCCTCCGCCGCCAACACTTACACCAATACTAAAACTCCTTAAC
9968272 ACTCTATCAAGTAAAACCTAAATAT
1 ACTCTATCAAGTAAAACCTAAATAT
9968297 TCCTTGATAC
Statistics
Matches: 257, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
239 48 0.19
240 208 0.81
241 1 0.00
ACGTcount: A:0.38, C:0.34, G:0.04, T:0.25
Consensus pattern (239 bp):
ACTCTATCAAGTAAAACCTAAATATCATACACACCTCCCTCCACCGCCAACACTTAACACCAATT
CTAAAACTCCTTAATACTCTATCAAGTAAAACCTAAATATCATACACCTCTCTCTCCGCCGCCAA
CACTTAACACCAATCCTAAAACTCTTTAACACTCTATCTAGTAAAACCTAAATATCATACACACC
TCCCTCCGCCGCCAACACTTACACCAATACTAAAACTCCTTAAC
Found at i:9968301 original size:33 final size:33
Alignment explanation
Indices: 9968264--9968326 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
9968254 ATACTAAAAC
9968264 TCCTTAACACTCTATCAAGTAAAACCTAAATAT
1 TCCTTAACACTCTATCAAGTAAAACCTAAATAT
* * *
9968297 TCCTTGATACTCTATTAAGTAAAACCTAAA
1 TCCTTAACACTCTATCAAGTAAAACCTAAA
9968327 GATCATTCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (33 bp):
TCCTTAACACTCTATCAAGTAAAACCTAAATAT
Found at i:9968324 original size:112 final size:113
Alignment explanation
Indices: 9968193--9968409 Score: 303
Period size: 112 Copynumber: 1.9 Consensus size: 113
9968183 ACTCTTTAAC
* * * * *
9968193 ACTCTATCTAGTAAAACCTAAATATCATACACACCTTCCTCCGCCGCCAACACTT-ACACCAATA
1 ACTCTATCTAGTAAAACCTAAAGATCATACACACCTCCCTCAGCCGCCAACACTTAAAAACAATA
9968257 CTAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATATTCCTTGAT
66 CTAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATATTCCTTGAT
* *
9968305 ACTCTAT-TAAGTAAAACCTAAAGATCATTCACACCTCCCTCAGCCGTCAACACTTAAAAACAAT
1 ACTCTATCT-AGTAAAACCTAAAGATCATACACACCTCCCTCAGCCGCCAACACTTAAAAACAAT
* * * * *
9968369 CCTAAAACTCCTTAATACTTTATCGAGTGAAACCTAAATAT
65 ACTAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATAT
9968410 CATGCGAACC
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
111 1 0.01
112 48 0.53
113 42 0.46
ACGTcount: A:0.39, C:0.29, G:0.06, T:0.27
Consensus pattern (113 bp):
ACTCTATCTAGTAAAACCTAAAGATCATACACACCTCCCTCAGCCGCCAACACTTAAAAACAATA
CTAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATATTCCTTGAT
Found at i:9968406 original size:80 final size:80
Alignment explanation
Indices: 9968318--9968465 Score: 199
Period size: 80 Copynumber: 1.9 Consensus size: 80
9968308 CTATTAAGTA
* *
9968318 AAACCTAAAGATCATTC-ACACCTCCCTCAGCCGTCAACACTTAAAAACAATCCTAAAACTCCTT
1 AAACCTAAAGATCATGCGA-ACCTCCCTCAGCCGCCAACACTTAAAAACAATCCTAAAACTCCTT
9968382 AATACTTTATCGAGTG
65 AATACTTTATCGAGTG
* ** * * * *
9968398 AAACCTAAATATCATGCGAACCTTTCTCCGCCGCCAACACTTAACACCAATCCTCAAACTCCTTA
1 AAACCTAAAGATCATGCGAACCTCCCTCAGCCGCCAACACTTAAAAACAATCCTAAAACTCCTTA
9968463 ATA
66 ATA
9968466 ACATTAAGAC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
80 57 0.98
81 1 0.02
ACGTcount: A:0.36, C:0.32, G:0.07, T:0.24
Consensus pattern (80 bp):
AAACCTAAAGATCATGCGAACCTCCCTCAGCCGCCAACACTTAAAAACAATCCTAAAACTCCTTA
ATACTTTATCGAGTG
Found at i:9968438 original size:192 final size:193
Alignment explanation
Indices: 9968105--9968463 Score: 533
Period size: 192 Copynumber: 1.9 Consensus size: 193
9968095 ATTCTAAAAC
* * *
9968105 TCCTTAATACTCTATCAAGTAAAACCTAAATATCATACACACCTCTCTCCGCCGCCAACACTTAA
1 TCCTTAATACTCTATCAAGTAAAACCTAAAGATCATACACACCTCCCTCAGCCGCCAACACTTAA
* * * *
9968170 CACCAATCCTAAAACTCTTTAACACTCTATCTAGTAAAACCTAAATATCATACACACCTTCCTCC
66 AAACAATCCTAAAACTCCTTAACACTCTATCGAGTAAAACCTAAATATCATACACACCTTCCTCC
9968235 GCCGCCAACACTT-ACACCAATACTAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATAT
131 GCCGCCAACACTTAACACCAATACTAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATAT
* * * *
9968297 TCCTTGATACTCTATTAAGTAAAACCTAAAGATCATTCACACCTCCCTCAGCCGTCAACACTTAA
1 TCCTTAATACTCTATCAAGTAAAACCTAAAGATCATACACACCTCCCTCAGCCGCCAACACTTAA
* * * * *
9968362 AAACAATCCTAAAACTCCTTAATACTTTATCGAGTGAAACCTAAATATCATGCGA-ACCTTTCTC
66 AAACAATCCTAAAACTCCTTAACACTCTATCGAGTAAAACCTAAATATCATAC-ACACCTTCCTC
* *
9968426 CGCCGCCAACACTTAACACCAATCCTCAAACTCCTTAA
130 CGCCGCCAACACTTAACACCAATACTAAAACTCCTTAA
9968464 TAACATTAAG
Statistics
Matches: 147, Mismatches: 18, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
192 125 0.85
193 22 0.15
ACGTcount: A:0.37, C:0.32, G:0.05, T:0.26
Consensus pattern (193 bp):
TCCTTAATACTCTATCAAGTAAAACCTAAAGATCATACACACCTCCCTCAGCCGCCAACACTTAA
AAACAATCCTAAAACTCCTTAACACTCTATCGAGTAAAACCTAAATATCATACACACCTTCCTCC
GCCGCCAACACTTAACACCAATACTAAAACTCCTTAACACTCTATCAAGTAAAACCTAAATAT
Found at i:9973543 original size:18 final size:19
Alignment explanation
Indices: 9973507--9973544 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
9973497 CCTCACGTAA
9973507 TTAAACTCTCCTAAGACTT
1 TTAAACTCTCCTAAGACTT
*
9973526 TTAAACTCT-CTTAGACTT
1 TTAAACTCTCCTAAGACTT
9973544 T
1 T
9973545 ACCGAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.42
Consensus pattern (19 bp):
TTAAACTCTCCTAAGACTT
Found at i:9985259 original size:142 final size:142
Alignment explanation
Indices: 9985003--9985287 Score: 543
Period size: 142 Copynumber: 2.0 Consensus size: 142
9984993 CAGCAATGAA
*
9985003 TGTCCACTGAAATAGCTTGAAGCTAAAGTTTGGTTCCTTAAAAGGGTAAACTGTTGAAATTGCAG
1 TGTCCACTGAAATAGCTTGAAGCTAAAGTTTGGATCCTTAAAAGGGTAAACTGTTGAAATTGCAG
*
9985068 TCAATGCACTTGCCCTGCTTTAGTACAACAGGGTTCTATAGAGAGAAAAATGCTCTTAACCGCAC
66 TCAATGCACCTGCCCTGCTTTAGTACAACAGGGTTCTATAGAGAGAAAAATGCTCTTAACCGCAC
9985133 TCAAATTCACGT
131 TCAAATTCACGT
*
9985145 TGTCCGCTGAAATAGCTTGAAGCTAAAGTTTGGATCCTTAAAAGGGTAAACTGTTGAAATTGCAG
1 TGTCCACTGAAATAGCTTGAAGCTAAAGTTTGGATCCTTAAAAGGGTAAACTGTTGAAATTGCAG
9985210 TCAATGCACCTGCCCTGCTTTAGTACAACAGGGTTCTATAGAGAGAAAAATGCTCTTAACCGCAC
66 TCAATGCACCTGCCCTGCTTTAGTACAACAGGGTTCTATAGAGAGAAAAATGCTCTTAACCGCAC
9985275 TCAAATTCACGT
131 TCAAATTCACGT
9985287 T
1 T
9985288 CTCAAGCTCG
Statistics
Matches: 140, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
142 140 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (142 bp):
TGTCCACTGAAATAGCTTGAAGCTAAAGTTTGGATCCTTAAAAGGGTAAACTGTTGAAATTGCAG
TCAATGCACCTGCCCTGCTTTAGTACAACAGGGTTCTATAGAGAGAAAAATGCTCTTAACCGCAC
TCAAATTCACGT
Found at i:10009185 original size:19 final size:18
Alignment explanation
Indices: 10009161--10009200 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
10009151 AATATAATTT
*
10009161 AAAATGAAAATTTTAAATA
1 AAAATGAAAATTGTAAA-A
*
10009180 AAAATGAATATTGTAAAA
1 AAAATGAAAATTGTAAAA
10009198 AAA
1 AAA
10009201 TGTCGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (18 bp):
AAAATGAAAATTGTAAAA
Found at i:10017168 original size:21 final size:21
Alignment explanation
Indices: 10017128--10017168 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10017118 AGGGTAATAG
*
10017128 GGTGGAGGAGGGTAAGCGCCC
1 GGTGGAGGAGGGTAACCGCCC
*
10017149 GGTGGAGGAGGGTATCCGCC
1 GGTGGAGGAGGGTAACCGCC
10017169 ATATGGGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.20, G:0.51, T:0.12
Consensus pattern (21 bp):
GGTGGAGGAGGGTAACCGCCC
Found at i:10022690 original size:18 final size:18
Alignment explanation
Indices: 10022667--10022702 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10022657 AGGAGGAACC
10022667 GGCTCTTCCTACAAATTA
1 GGCTCTTCCTACAAATTA
10022685 GGCTCTTCCTACAAATTA
1 GGCTCTTCCTACAAATTA
10022703 TCCTCTGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (18 bp):
GGCTCTTCCTACAAATTA
Found at i:10022708 original size:18 final size:18
Alignment explanation
Indices: 10022669--10022708 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
10022659 GAGGAACCGG
*
10022669 CTCTTCCTACAAATTAGG
1 CTCTTCCTACAAATTAGC
*
10022687 CTCTTCCTACAAATTATC
1 CTCTTCCTACAAATTAGC
10022705 CTCT
1 CTCT
10022709 GCCAGCAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.33, G:0.05, T:0.38
Consensus pattern (18 bp):
CTCTTCCTACAAATTAGC
Found at i:10029531 original size:31 final size:31
Alignment explanation
Indices: 10029496--10029554 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
10029486 TATTTAGAGT
*
10029496 TTAAATTTGTTAATTATTCTCATATTAAGGC
1 TTAAATTTGATAATTATTCTCATATTAAGGC
*
10029527 TTAAATTTGATAATTATTTTCATATTAA
1 TTAAATTTGATAATTATTCTCATATTAA
10029555 TGTTTGAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.51
Consensus pattern (31 bp):
TTAAATTTGATAATTATTCTCATATTAAGGC
Found at i:10037156 original size:27 final size:27
Alignment explanation
Indices: 10037126--10037193 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
10037116 ACCATTAAAC
* *
10037126 CGTGGCTAAAATGTTACAACACGAAAA
1 CGTGACTAAAACGTTACAACACGAAAA
*
10037153 CGTGACTAAAACGTTATAACACGAAAA
1 CGTGACTAAAACGTTACAACACGAAAA
*
10037180 CATGACTAAAACGT
1 CGTGACTAAAACGT
10037194 AAGATTTCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.46, C:0.19, G:0.16, T:0.19
Consensus pattern (27 bp):
CGTGACTAAAACGTTACAACACGAAAA
Found at i:10040565 original size:11 final size:11
Alignment explanation
Indices: 10040549--10040605 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
10040539 ATATATACTA
10040549 AATAAAATAAT
1 AATAAAATAAT
10040560 AATAAAATAAT
1 AATAAAATAAT
*
10040571 ATTTAAAATCAA-
1 A-ATAAAAT-AAT
* *
10040583 ATTAAAATATT
1 AATAAAATAAT
*
10040594 AATAAACTAAT
1 AATAAAATAAT
10040605 A
1 A
10040606 TTTATTTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
10 1 0.03
11 28 0.74
12 7 0.18
13 2 0.05
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:10041075 original size:23 final size:23
Alignment explanation
Indices: 10041049--10041095 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
10041039 TTTCTTACTG
*
10041049 TAGTAATTTTCGGGGTATTACAA
1 TAGTAATTTTCGGGATATTACAA
*
10041072 TAGTAATTTTTGGGATATTACAA
1 TAGTAATTTTCGGGATATTACAA
10041095 T
1 T
10041096 TAGGGTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.43
Consensus pattern (23 bp):
TAGTAATTTTCGGGATATTACAA
Found at i:10042071 original size:14 final size:14
Alignment explanation
Indices: 10042052--10042078 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10042042 AAGAAAGACG
10042052 TATGAAAATTTTAT
1 TATGAAAATTTTAT
10042066 TATGAAAATTTTA
1 TATGAAAATTTTA
10042079 CCAATTTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
TATGAAAATTTTAT
Found at i:10043524 original size:25 final size:25
Alignment explanation
Indices: 10043493--10043558 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
10043483 GGCTCTCATG
*
10043493 AGCTTCCCGTTATATGACCCAGATA
1 AGCTTCCCGTTATATGACCCACATA
* * * * * *
10043518 AGTTTCCTGTAACATGACTCACATG
1 AGCTTCCCGTTATATGACCCACATA
10043543 AGCTTCCCGTTATATG
1 AGCTTCCCGTTATATG
10043559 GCTTGAGAGG
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (25 bp):
AGCTTCCCGTTATATGACCCACATA
Found at i:10053615 original size:32 final size:33
Alignment explanation
Indices: 10053573--10053657 Score: 90
Period size: 32 Copynumber: 2.6 Consensus size: 33
10053563 TTAGGCCTCC
10053573 TATATTTATTTTT-AT-TTTAATATATATTTATAT
1 TATATTTATTTTTAATATTTAATA-AT-TTTATAT
10053606 TATA-TTATTTTTAATATTTAATAATTTTATACT
1 TATATTTATTTTTAATATTTAATAATTTTATA-T
*
10053639 T-T-TTTATTTATTAAAATTT
1 TATATTTATTT-TTAATATTT
10053658 TTTTATATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
32 21 0.46
33 18 0.39
34 7 0.15
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (33 bp):
TATATTTATTTTTAATATTTAATAATTTTATAT
Found at i:10053618 original size:16 final size:16
Alignment explanation
Indices: 10053573--10053636 Score: 51
Period size: 16 Copynumber: 3.9 Consensus size: 16
10053563 TTAGGCCTCC
*
10053573 TATATTTATTTTTATTT
1 TATA-TTATTTTTATAT
*
10053590 TA-ATATATATTTATAT
1 TATAT-TATTTTTATAT
10053606 TATATTATTTTTAATAT
1 TATATTATTTTT-ATAT
* *
10053623 T-TAATAATTTTATA
1 TATATTATTTTTATA
10053637 CTTTTTTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
15 4 0.10
16 26 0.67
17 9 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTATTTTTATAT
Found at i:10053622 original size:23 final size:22
Alignment explanation
Indices: 10053595--10053698 Score: 72
Period size: 23 Copynumber: 4.7 Consensus size: 22
10053585 TATTTTAATA
10053595 TATATTTATATTATATTATTTT
1 TATATTTATATTATATTATTTT
*
10053617 TAATATTTAATAATTTTA-TACTTTT
1 T-ATATTT-AT-ATTATATTA-TTTT
* *
10053642 T-TATTTAT-TAAAATT-TTTT
1 TATATTTATATTATATTATTTT
* *
10053661 TATATTTATCTTAACATTATTTT
1 TATATTTATATT-ATATTATTTT
* *
10053684 AATGTTTATATTATA
1 TATATTTATATTATA
10053699 ATAATATTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
19 5 0.08
20 9 0.14
21 2 0.03
22 9 0.14
23 24 0.38
24 4 0.06
25 10 0.16
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (22 bp):
TATATTTATATTATATTATTTT
Found at i:10053635 original size:27 final size:26
Alignment explanation
Indices: 10053587--10053644 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
10053577 TTTATTTTTA
* * *
10053587 TTTTAATATATATTTATATTATATTAT
1 TTTTAATATATAATAATATTATACT-T
* *
10053614 TTTTAATATTTAATAATTTTATACTT
1 TTTTAATATATAATAATATTATACTT
10053640 TTTTA
1 TTTTA
10053645 TTTATTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTTAATATATAATAATATTATACTT
Found at i:10059877 original size:28 final size:26
Alignment explanation
Indices: 10059834--10059907 Score: 94
Period size: 28 Copynumber: 2.7 Consensus size: 26
10059824 AATTTCTTTT
*
10059834 ACCTTGAACCCCAAACTCCGAACTTAGA
1 ACCTTGAA-CCTAAACTCCGAACTT-GA
10059862 ACCTTGAATCCTAAACTCCGAACTTGA
1 ACCTTGAA-CCTAAACTCCGAACTTGA
*
10059889 ATCTTGAACCTTAAACTCC
1 ACCTTGAACC-TAAACTCC
10059908 AAAATCGAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 2 0.05
27 17 0.40
28 23 0.55
ACGTcount: A:0.34, C:0.32, G:0.09, T:0.24
Consensus pattern (26 bp):
ACCTTGAACCTAAACTCCGAACTTGA
Found at i:10059917 original size:27 final size:26
Alignment explanation
Indices: 10059864--10059924 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
10059854 AACTTAGAAC
* * *
10059864 CTTGAATCCTAAACTCCGAACTTGAAT
1 CTTGAA-CCTAAACTCCAAAATCGAAT
10059891 CTTGAACCTTAAACTCCAAAATCGAAT
1 CTTGAACC-TAAACTCCAAAATCGAAT
*
10059918 CTCGAAC
1 CTTGAAC
10059925 TCGAATACTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.36, C:0.28, G:0.10, T:0.26
Consensus pattern (26 bp):
CTTGAACCTAAACTCCAAAATCGAAT
Found at i:10074017 original size:64 final size:64
Alignment explanation
Indices: 10073944--10074071 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
10073934 TTGCAAATTC
* *
10073944 AAATATATTTTAATTTATATGTCATAATTTTAGAATTTCTTTTTTAGGTTAGAATTAACTTGGG
1 AAATATATTTTAATTTATATATCATAATTTTAGAATTTCTTTTGTAGGTTAGAATTAACTTGGG
10074008 AAATATATTTTAATTTATATATCATAATTTTAGAATTTCTTTTGTAGGTTAGAATTAACTTGGG
1 AAATATATTTTAATTTATATATCATAATTTTAGAATTTCTTTTGTAGGTTAGAATTAACTTGGG
10074072 GTTTCACCTA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.49
Consensus pattern (64 bp):
AAATATATTTTAATTTATATATCATAATTTTAGAATTTCTTTTGTAGGTTAGAATTAACTTGGG
Found at i:10074432 original size:21 final size:21
Alignment explanation
Indices: 10074402--10074451 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 21
10074392 TTTATCCTTT
*
10074402 TTTTTCTTAATTAAAATATTA
1 TTTTTATTAATTAAAATATTA
10074423 TTTTTATT-A--AAAATATTA
1 TTTTTATTAATTAAAATATTA
*
10074441 ATTTTA-TAATT
1 TTTTTATTAATT
10074452 GATACTGCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
17 1 0.04
18 15 0.62
20 1 0.04
21 7 0.29
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTTTATTAATTAAAATATTA
Found at i:10082917 original size:1 final size:1
Alignment explanation
Indices: 10082911--10082935 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
10082901 TTAATTGGAA
10082911 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
10082936 AAGATGATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:10092720 original size:21 final size:21
Alignment explanation
Indices: 10092696--10092751 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
10092686 AATAGCGGTG
*
10092696 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
* *
10092717 GCGGTGAAATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
10092738 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
10092752 AACAATGGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:10092957 original size:30 final size:29
Alignment explanation
Indices: 10092920--10093075 Score: 231
Period size: 30 Copynumber: 5.2 Consensus size: 29
10092910 ATTCATTTAA
10092920 TAAAATACACTACATATATTTTTTTATTT
1 TAAAATACACTACATATATTTTTTTATTT
*
10092949 CTAGAATACACTACATATATTTTTTTATTT
1 -TAAAATACACTACATATATTTTTTTATTT
10092979 TGAAAATACACTACATATATTTTTTTATTTT
1 T-AAAATACACTACATATATTTTTTTA-TTT
*
10093010 TAAAATACACTACATGTATTTTTTTATTAT
1 TAAAATACACTACATATATTTTTTTATT-T
* *
10093040 TAAAATCCATTACATATATTTTTTTATTTT
1 TAAAATACACTACATATATTTTTTTA-TTT
10093070 TAAAAT
1 TAAAAT
10093076 TTTAAATACA
Statistics
Matches: 116, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
29 3 0.03
30 107 0.92
31 6 0.05
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (29 bp):
TAAAATACACTACATATATTTTTTTATTT
Found at i:10093208 original size:28 final size:28
Alignment explanation
Indices: 10093168--10093270 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 28
10093158 CAATACCCAT
*
10093168 TCCCATTTCCCATTCCACCGTGCCCTCC
1 TCCCATTTCCCATTCCACCGTCCCCTCC
* *
10093196 TCCCATTTCCCATTCCCATC-TCCCCTCT
1 TCCCATTTCCCATT-CCACCGTCCCCTCC
* * *
10093224 TCCATCGATTCCCCTCTTCCACCGTTCCCTCC
1 TCC--C-ATTTCCC-ATTCCACCGTCCCCTCC
10093256 TCCCA-TTCCCATTCC
1 TCCCATTTCCCATTCC
10093271 CATTCCCATT
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
27 4 0.07
28 27 0.46
29 5 0.08
30 2 0.03
31 10 0.17
32 11 0.19
ACGTcount: A:0.11, C:0.53, G:0.04, T:0.32
Consensus pattern (28 bp):
TCCCATTTCCCATTCCACCGTCCCCTCC
Found at i:10093264 original size:21 final size:21
Alignment explanation
Indices: 10093175--10093264 Score: 50
Period size: 21 Copynumber: 4.4 Consensus size: 21
10093165 CATTCCCATT
*
10093175 TCCCATTCCACCGTGCCCTCC
1 TCCCATTCCACCGTTCCCTCC
* *
10093196 TCCCATTTC-CCATTCCCAT-C
1 TCCCATTCCACCGTTCCC-TCC
* *
10093216 TCCCCTCTTCCATCGATT-CC-CC
1 T-CCC-ATTCCACCG-TTCCCTCC
10093238 T--C-TTCCACCGTTCCCTCC
1 TCCCATTCCACCGTTCCCTCC
10093256 TCCCATTCC
1 TCCCATTCC
10093265 CATTCCCATT
Statistics
Matches: 50, Mismatches: 8, Indels: 22
0.62 0.10 0.28
Matches are distributed among these distances:
16 2 0.04
17 9 0.18
18 3 0.06
19 1 0.02
20 9 0.18
21 16 0.32
22 5 0.10
23 3 0.06
24 2 0.04
ACGTcount: A:0.10, C:0.54, G:0.04, T:0.31
Consensus pattern (21 bp):
TCCCATTCCACCGTTCCCTCC
Found at i:10093267 original size:6 final size:6
Alignment explanation
Indices: 10093256--10093293 Score: 67
Period size: 6 Copynumber: 6.2 Consensus size: 6
10093246 CGTTCCCTCC
10093256 TCCCAT TCCCAT TCCCAT TCCCAT TCCCATT TCCCAT T
1 TCCCAT TCCCAT TCCCAT TCCCAT TCCCA-T TCCCAT T
10093294 ATCAACAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.16, C:0.47, G:0.00, T:0.37
Consensus pattern (6 bp):
TCCCAT
Found at i:10105659 original size:49 final size:49
Alignment explanation
Indices: 10105602--10105700 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 49
10105592 AATCGCGTAC
10105602 TAATCAATTTGAAACCTGTATAAGTTTTACCATTGAA-CTCGTGGTGTGA
1 TAATCAATTTGAAACCTGTATAAGTTTTACCATTGAATCT-GTGGTGTGA
**
10105651 TAATCAATTTGAAATTTGTATAAGTTTTACCATTGAATCTGTGGTGTGA
1 TAATCAATTTGAAACCTGTATAAGTTTTACCATTGAATCTGTGGTGTGA
10105700 T
1 T
10105701 GATACGCTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 45 0.96
50 2 0.04
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.40
Consensus pattern (49 bp):
TAATCAATTTGAAACCTGTATAAGTTTTACCATTGAATCTGTGGTGTGA
Found at i:10111945 original size:20 final size:21
Alignment explanation
Indices: 10111905--10111945 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10111895 TTTATTTATT
*
10111905 TGATTTTTTTTGAAATATTTA
1 TGATTTTTTTTAAAATATTTA
10111926 TGATTTTTTTTAAAAT-TTTA
1 TGATTTTTTTTAAAATATTTA
10111946 CTAAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (21 bp):
TGATTTTTTTTAAAATATTTA
Found at i:10117558 original size:42 final size:40
Alignment explanation
Indices: 10117493--10117601 Score: 110
Period size: 42 Copynumber: 2.6 Consensus size: 40
10117483 AGCTGCATAA
* * *
10117493 TTGGCAAGAAAGCTCGTCAAACTGAGCAAGTTTTCTACACAG
1 TTGGCAAGAAAGCTCATCCAACTGAG-AA-CTTTCTACACAG
* *
10117535 TTGGCAAGAAAACTCATCCAACTGGGAGAACTTTCTACATAG
1 TTGGCAAGAAAGCTCATCCAACT--GAGAACTTTCTACACAG
* * *
10117577 TTGACAGGAAAGCTCTTCCAACTGA
1 TTGGCAAGAAAGCTCATCCAACTGA
10117602 ACGAGCTTTC
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
40 2 0.04
42 49 0.88
43 2 0.04
44 3 0.05
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (40 bp):
TTGGCAAGAAAGCTCATCCAACTGAGAACTTTCTACACAG
Found at i:10117611 original size:42 final size:42
Alignment explanation
Indices: 10117497--10117615 Score: 107
Period size: 42 Copynumber: 2.9 Consensus size: 42
10117487 GCATAATTGG
* * * * * *
10117497 CAAGAAAGCTCGTCAAACTGAGCAAGTTTTCTACACAGTTGG
1 CAAGAAAGCTCATCCAACTGAACGAGCTTTCTACACAGTTGA
* * * *
10117539 CAAGAAAACTCATCCAACTGGGA-GAACTTTCTACATAGTTGA
1 CAAGAAAGCTCATCCAACT-GAACGAGCTTTCTACACAGTTGA
* *
10117581 CAGGAAAGCTCTTCCAACTGAACGAGCTTTC-ACAC
1 CAAGAAAGCTCATCCAACTGAACGAGCTTTCTACAC
10117616 CCTCTAAAAA
Statistics
Matches: 59, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
41 5 0.08
42 53 0.90
43 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (42 bp):
CAAGAAAGCTCATCCAACTGAACGAGCTTTCTACACAGTTGA
Done.