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 149 of 203
Found at i:47472643 original size:54 final size:54
Alignment explanation
Indices: 47472585--47472753 Score: 259
Period size: 54 Copynumber: 3.1 Consensus size: 54
47472575 TTAGTTGTTG
* *
47472585 GAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTAAGTTGCTA
1 GAATAAATTACTCATCTTAGTTAATTGAGTTCAACTTAGTTACTTAAGTTGCTA
* *
47472639 GAATAAATTACTCATCTTAGTTAATTGAGTTCACCTTAGTTACTTAAGTTGCTG
1 GAATAAATTACTCATCTTAGTTAATTGAGTTCAACTTAGTTACTTAAGTTGCTA
* *
47472693 GAATAAATTGCTCATCTTAGTTAATTAAGTTCAACTTAGTTCACTT-AGTTGCTA
1 GAATAAATTACTCATCTTAGTTAATTGAGTTCAACTTAGTT-ACTTAAGTTGCTA
*
47472747 GATTAAA
1 GAATAAA
47472754 CTTTTAATGT
Statistics
Matches: 106, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 102 0.96
55 4 0.04
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.41
Consensus pattern (54 bp):
GAATAAATTACTCATCTTAGTTAATTGAGTTCAACTTAGTTACTTAAGTTGCTA
Found at i:47478797 original size:50 final size:50
Alignment explanation
Indices: 47478645--47478921 Score: 274
Period size: 50 Copynumber: 5.5 Consensus size: 50
47478635 CGATCTCGTA
* * * * * *
47478645 TAAGACCAGGTCTGGGACATGGCATCGACATCGATATGTGA-G--CCAGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA-TG
* * *
47478693 TCAGACCATG-CATGGGACACGGCATTAGCATCACCGAGATGAGAGGTCCCATG
1 TAAGACCATGTC-TGGGACATGGCATT-G--GCACCGAGATGAGAGGTCCCATG
* ** *
47478746 TAAGACCATGTCTGGGACATGGCGTTGGCACTAAGATGAGAGGTCCTATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
*
47478796 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCACG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
* ** * * **
47478846 GAAGACCATGTCTGCAACATGGCATAGGCACCGATATGAGAACTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
* *
47478896 TAAGACCATATCTGGGATATGGCATT
1 TAAGACCATGTCTGGGACATGGCATT
47478922 AGTAGTACAG
Statistics
Matches: 187, Mismatches: 34, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
47 1 0.01
48 20 0.11
49 1 0.01
50 126 0.67
51 10 0.05
52 2 0.01
53 23 0.12
54 4 0.02
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
Found at i:47479507 original size:50 final size:50
Alignment explanation
Indices: 47479421--47479577 Score: 188
Period size: 50 Copynumber: 3.1 Consensus size: 50
47479411 CCGATTATTG
* ** *
47479421 TGGCGTTGGCACTAAGATGAGAGGTCCTATGTAAGACCATGTCTGGGACA
1 TGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACA
* * **
47479471 TGGCATTGGCACCGAGATGAGAGGTCCCACGGAAGACCATGTCTGCAACA
1 TGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACA
* * ** * *
47479521 TGGCATAGGCACCGATATGAGAACTCCCATGTAAGACCATATCTGGGATA
1 TGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACA
47479571 TGGCATT
1 TGGCATT
47479578 AGTAGTACAG
Statistics
Matches: 88, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 88 1.00
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
TGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACA
Found at i:47480018 original size:656 final size:656
Alignment explanation
Indices: 47478765--47480076 Score: 2624
Period size: 656 Copynumber: 2.0 Consensus size: 656
47478755 GTCTGGGACA
47478765 TGGCGTTGGCACTAAGATGAGAGGTCCTATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
1 TGGCGTTGGCACTAAGATGAGAGGTCCTATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
47478830 GATGAGAGGTCCCACGGAAGACCATGTCTGCAACATGGCATAGGCACCGATATGAGAACTCCCAT
66 GATGAGAGGTCCCACGGAAGACCATGTCTGCAACATGGCATAGGCACCGATATGAGAACTCCCAT
47478895 GTAAGACCATATCTGGGATATGGCATTAGTAGTACAGAAAACATCCCATGTAAGACTATGTCTGG
131 GTAAGACCATATCTGGGATATGGCATTAGTAGTACAGAAAACATCCCATGTAAGACTATGTCTGG
47478960 GACATAGCTTTGGCATGTTATTATCAGAAAGAAGACCTAAGTATCCTTAGTATTCCAAGTGATTC
196 GACATAGCTTTGGCATGTTATTATCAGAAAGAAGACCTAAGTATCCTTAGTATTCCAAGTGATTC
47479025 AACGAGCTAGTAAAGAAATTATGTTACATGAATGTTCAGGTAAAAGTACAATAAACAGATTCAGG
261 AACGAGCTAGTAAAGAAATTATGTTACATGAATGTTCAGGTAAAAGTACAATAAACAGATTCAGG
47479090 TAAGTATAAGGATTAAGAATATTTCAGTTATCAGTTGAGAAAATAATTTCAGCAAGGAAGGAGTA
326 TAAGTATAAGGATTAAGAATATTTCAGTTATCAGTTGAGAAAATAATTTCAGCAAGGAAGGAGTA
47479155 AGTTATAATCATGAGTTGTTTATGCAAGCAAGTATGTAAACAAGTAAGAGAGTAAATAAAGAAGA
391 AGTTATAATCATGAGTTGTTTATGCAAGCAAGTATGTAAACAAGTAAGAGAGTAAATAAAGAAGA
47479220 AGTTAAATTTGATGAGACAAAATATTCAGGTATGATACCTAAAAGAATGTACGTATTAACTGGAA
456 AGTTAAATTTGATGAGACAAAATATTCAGGTATGATACCTAAAAGAATGTACGTATTAACTGGAA
47479285 TTTTTTTTTACTAAGTGGAATAAAGTGAGGTTCGTGATAATAGAATTAGTCAGAGAAATGATAAT
521 TTTTTTTTTACTAAGTGGAATAAAGTGAGGTTCGTGATAATAGAATTAGTCAGAGAAATGATAAT
47479350 TAAGTGGTATATCATTAAAGGACCCTAGCACACTCTCTGATTAATAGCACGGTAGTGCTCTCCGA
586 TAAGTGGTATATCATTAAAGGACCCTAGCACACTCTCTGATTAATAGCACGGTAGTGCTCTCCGA
47479415 TTATTG
651 TTATTG
47479421 TGGCGTTGGCACTAAGATGAGAGGTCCTATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
1 TGGCGTTGGCACTAAGATGAGAGGTCCTATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
47479486 GATGAGAGGTCCCACGGAAGACCATGTCTGCAACATGGCATAGGCACCGATATGAGAACTCCCAT
66 GATGAGAGGTCCCACGGAAGACCATGTCTGCAACATGGCATAGGCACCGATATGAGAACTCCCAT
47479551 GTAAGACCATATCTGGGATATGGCATTAGTAGTACAGAAAACATCCCATGTAAGACTATGTCTGG
131 GTAAGACCATATCTGGGATATGGCATTAGTAGTACAGAAAACATCCCATGTAAGACTATGTCTGG
47479616 GACATAGCTTTGGCATGTTATTATCAGAAAGAAGACCTAAGTATCCTTAGTATTCCAAGTGATTC
196 GACATAGCTTTGGCATGTTATTATCAGAAAGAAGACCTAAGTATCCTTAGTATTCCAAGTGATTC
47479681 AACGAGCTAGTAAAGAAATTATGTTACATGAATGTTCAGGTAAAAGTACAATAAACAGATTCAGG
261 AACGAGCTAGTAAAGAAATTATGTTACATGAATGTTCAGGTAAAAGTACAATAAACAGATTCAGG
47479746 TAAGTATAAGGATTAAGAATATTTCAGTTATCAGTTGAGAAAATAATTTCAGCAAGGAAGGAGTA
326 TAAGTATAAGGATTAAGAATATTTCAGTTATCAGTTGAGAAAATAATTTCAGCAAGGAAGGAGTA
47479811 AGTTATAATCATGAGTTGTTTATGCAAGCAAGTATGTAAACAAGTAAGAGAGTAAATAAAGAAGA
391 AGTTATAATCATGAGTTGTTTATGCAAGCAAGTATGTAAACAAGTAAGAGAGTAAATAAAGAAGA
47479876 AGTTAAATTTGATGAGACAAAATATTCAGGTATGATACCTAAAAGAATGTACGTATTAACTGGAA
456 AGTTAAATTTGATGAGACAAAATATTCAGGTATGATACCTAAAAGAATGTACGTATTAACTGGAA
47479941 TTTTTTTTTACTAAGTGGAATAAAGTGAGGTTCGTGATAATAGAATTAGTCAGAGAAATGATAAT
521 TTTTTTTTTACTAAGTGGAATAAAGTGAGGTTCGTGATAATAGAATTAGTCAGAGAAATGATAAT
47480006 TAAGTGGTATATCATTAAAGGACCCTAGCACACTCTCTGATTAATAGCACGGTAGTGCTCTCCGA
586 TAAGTGGTATATCATTAAAGGACCCTAGCACACTCTCTGATTAATAGCACGGTAGTGCTCTCCGA
47480071 TTATTG
651 TTATTG
47480077 GAACATTTAT
Statistics
Matches: 656, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
656 656 1.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (656 bp):
TGGCGTTGGCACTAAGATGAGAGGTCCTATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
GATGAGAGGTCCCACGGAAGACCATGTCTGCAACATGGCATAGGCACCGATATGAGAACTCCCAT
GTAAGACCATATCTGGGATATGGCATTAGTAGTACAGAAAACATCCCATGTAAGACTATGTCTGG
GACATAGCTTTGGCATGTTATTATCAGAAAGAAGACCTAAGTATCCTTAGTATTCCAAGTGATTC
AACGAGCTAGTAAAGAAATTATGTTACATGAATGTTCAGGTAAAAGTACAATAAACAGATTCAGG
TAAGTATAAGGATTAAGAATATTTCAGTTATCAGTTGAGAAAATAATTTCAGCAAGGAAGGAGTA
AGTTATAATCATGAGTTGTTTATGCAAGCAAGTATGTAAACAAGTAAGAGAGTAAATAAAGAAGA
AGTTAAATTTGATGAGACAAAATATTCAGGTATGATACCTAAAAGAATGTACGTATTAACTGGAA
TTTTTTTTTACTAAGTGGAATAAAGTGAGGTTCGTGATAATAGAATTAGTCAGAGAAATGATAAT
TAAGTGGTATATCATTAAAGGACCCTAGCACACTCTCTGATTAATAGCACGGTAGTGCTCTCCGA
TTATTG
Found at i:47483821 original size:18 final size:17
Alignment explanation
Indices: 47483777--47483823 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
47483767 TTGGGCTGTG
47483777 TGGGCCACACGGGCGTA
1 TGGGCCACACGGGCGTA
*
47483794 TGGGCCACACGGGCGTG
1 TGGGCCACACGGGCGTA
*
47483811 TGAGTCCACACGG
1 TG-GGCCACACGG
47483824 CCATGCAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.17, C:0.30, G:0.40, T:0.13
Consensus pattern (17 bp):
TGGGCCACACGGGCGTA
Found at i:47486164 original size:51 final size:53
Alignment explanation
Indices: 47486059--47486173 Score: 137
Period size: 51 Copynumber: 2.2 Consensus size: 53
47486049 ATGAGTTATT
* * *
47486059 TAATGCATGACTTAATTTAATGATGCAAACTTTAAACTAACATGCCAGTTACA
1 TAATGCATGACATAATTTAAGGATGCAAACTTTAAACTAACATGACAGTTACA
* * * *
47486112 TAAATGCATGTCATAATTT-AGGATGCAAAC-TT-AATTAACATTAGAGTTACA
1 T-AATGCATGACATAATTTAAGGATGCAAACTTTAAACTAACATGACAGTTACA
47486163 TAATGCATGAC
1 TAATGCATGAC
47486174 TTCATTAAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
50 9 0.17
51 16 0.30
52 2 0.04
53 11 0.21
54 15 0.28
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (53 bp):
TAATGCATGACATAATTTAAGGATGCAAACTTTAAACTAACATGACAGTTACA
Found at i:47490251 original size:40 final size:40
Alignment explanation
Indices: 47490151--47490415 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
47490141 GCTCCTCGTT
* * * *
47490151 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
47490191 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
47490230 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
47490270 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
47490310 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
47490350 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
47490391 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
47490416 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:47490375 original size:80 final size:80
Alignment explanation
Indices: 47490118--47490415 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
47490108 AAATCACGTA
* ** * * *
47490118 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
47490180 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
47490196 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
47490259 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
47490276 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
47490340 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
47490356 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
47490416 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:47490424 original size:41 final size:41
Alignment explanation
Indices: 47490347--47490424 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
47490337 TTTGTATCTC
* * *
47490347 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
47490388 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
47490425 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:47498203 original size:40 final size:40
Alignment explanation
Indices: 47498107--47498367 Score: 294
Period size: 40 Copynumber: 6.5 Consensus size: 40
47498097 CTCGTTCAAG
* * * * *
47498107 TGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* *
47498146 TGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
47498186 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* *
47498226 TGCCTTCGGGACTAAACCCGGATTTAACAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* * *
47498266 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
* ** * * * *
47498306 GGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-AA
1 TGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACGAA
* *
47498346 AGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
47498368 CAGCATTCAA
Statistics
Matches: 194, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
39 35 0.18
40 151 0.78
41 8 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
Found at i:47498376 original size:41 final size:41
Alignment explanation
Indices: 47498299--47498376 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
47498289 TTAGTATCTC
* * *
47498299 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
47498340 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
47498377 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:47499975 original size:95 final size:95
Alignment explanation
Indices: 47499812--47500001 Score: 371
Period size: 95 Copynumber: 2.0 Consensus size: 95
47499802 ATTCATAATT
47499812 ACATATTCTAGACAATAAGTATCACATTCAAACATTTCGGTGACTCGGTTTAGCGGTCCCGAAAC
1 ACATATTCTAGACAATAAGTATCACATTCAAACATTTCGGTGACTCGGTTTAGCGGTCCCGAAAC
47499877 CACTTCCCGACTAGGGTCAACTTTGGGCTG
66 CACTTCCCGACTAGGGTCAACTTTGGGCTG
47499907 ACATATTCTAGACAATAAGTATCACATTCAAACATTTCGGTGACTCGGTTTAGCGGTCCCGAAAC
1 ACATATTCTAGACAATAAGTATCACATTCAAACATTTCGGTGACTCGGTTTAGCGGTCCCGAAAC
*
47499972 CACTTCCTGACTAGGGTCAACTTTGGGCTG
66 CACTTCCCGACTAGGGTCAACTTTGGGCTG
47500002 TCACAATAAC
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (95 bp):
ACATATTCTAGACAATAAGTATCACATTCAAACATTTCGGTGACTCGGTTTAGCGGTCCCGAAAC
CACTTCCCGACTAGGGTCAACTTTGGGCTG
Found at i:47502277 original size:198 final size:198
Alignment explanation
Indices: 47501926--47502322 Score: 704
Period size: 198 Copynumber: 2.0 Consensus size: 198
47501916 TGGAGCTTCA
47501926 GTCAAATGAGTTTTCAGTTGGTCGAAACTTTTCTGACATTTCTCCGTCCACTCGAACTTAACATC
1 GTCAAATGAGTTTTCAGTTGGTCGAAACTTTTCTGACATTTCTCCGTCCACTCGAACTTAACATC
*
47501991 CTTTTGAAGTAGCTTCGTCATTGGTGTGGCTATCATCGAGAAACCTTTGACAAATCGTCGGTAAT
66 CTTTTGAAGTAGCTTCGTCATTGGTGTGGCTATCATCGAGAAACCTTTCACAAATCGTCGGTAAT
* ** * * * *
47502056 AACCGGCGAGTCCCAGGAAGCTCCGAACTTCGGTAATATTTCTTGGAGGCTTCCAGTTAAGGATG
131 AACCGGCGAGCCCCAAAAAGCTCCGAACTTCAGTAACATTTCTCGGAGGCTTCCAGTCAAGGATG
47502121 GCT
196 GCT
47502124 GTCAAATGAGTTTTCAGTTGGTCGAAACTTTTCTGACATTTCTCCGTCCACTCGAACTTAACATC
1 GTCAAATGAGTTTTCAGTTGGTCGAAACTTTTCTGACATTTCTCCGTCCACTCGAACTTAACATC
47502189 CTTTTGAAGTAGCTTCGTCATTGGTGTGGCTATCATCGAGAAACCTTTCACAAATCGTCGGTAAT
66 CTTTTGAAGTAGCTTCGTCATTGGTGTGGCTATCATCGAGAAACCTTTCACAAATCGTCGGTAAT
* *
47502254 AACCGGCGAGCCCCAAAAAGCTCCGAACTTCAGTAACATTTCTCGGAGGTTTCCAGTCAAGTATG
131 AACCGGCGAGCCCCAAAAAGCTCCGAACTTCAGTAACATTTCTCGGAGGCTTCCAGTCAAGGATG
47502319 GCT
196 GCT
47502322 G
1 G
47502323 AAATTTTGTT
Statistics
Matches: 189, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
198 189 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (198 bp):
GTCAAATGAGTTTTCAGTTGGTCGAAACTTTTCTGACATTTCTCCGTCCACTCGAACTTAACATC
CTTTTGAAGTAGCTTCGTCATTGGTGTGGCTATCATCGAGAAACCTTTCACAAATCGTCGGTAAT
AACCGGCGAGCCCCAAAAAGCTCCGAACTTCAGTAACATTTCTCGGAGGCTTCCAGTCAAGGATG
GCT
Found at i:47506467 original size:40 final size:40
Alignment explanation
Indices: 47506369--47506631 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
47506359 TCCTCGTTCA
* * * ** *
47506369 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
47506408 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
47506448 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
47506488 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
47506528 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
47506568 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
47506608 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
47506632 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:47515044 original size:39 final size:40
Alignment explanation
Indices: 47514942--47515126 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
47514932 TCGAATGATG
* * * * *
47514942 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATT
* * *
47514982 TCCGGACTAAGAT-TCGAAGGCATTTGTGCGAGATACTATT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATT
* * * *
47515022 TCCGGGCTAAG-CCCGAAGGCATTGGTGTGAGTTACCAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATT
* * *
47515061 TCCTGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATT
* *
47515101 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
47515127 AATGAGTAGC
Statistics
Matches: 115, Mismatches: 26, Indels: 8
0.77 0.17 0.05
Matches are distributed among these distances:
39 30 0.26
40 77 0.67
41 8 0.07
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATT
Found at i:47515148 original size:79 final size:79
Alignment explanation
Indices: 47514996--47515159 Score: 197
Period size: 79 Copynumber: 2.1 Consensus size: 79
47514986 GACTAAGATT
** **
47514996 CGAAGGCATTTGTGCGAGATACTATTTCCGGGCTAAGCCCGAAGGCATTGGTGTGAGTTACCAAT
1 CGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGCCCGAAGGCATTGGAATGAGTTACCAAT
*
47515061 TCCTGGTTAAGTCC
66 TCCTGGTTAAATCC
* * * * *
47515075 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGCTA
1 CGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAG-CCCGAAGGCATTGGAATGAGTTACCAA
*
47515139 TATCC-GGTTAAATTC
65 T-TCCTGGTTAAATCC
47515154 CGAAGG
1 CGAAGG
47515160 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
79 52 0.72
80 20 0.28
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGCCCGAAGGCATTGGAATGAGTTACCAAT
TCCTGGTTAAATCC
Found at i:47520209 original size:10 final size:10
Alignment explanation
Indices: 47520194--47520222 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
47520184 TATAACAATA
47520194 AACATAAAAT
1 AACATAAAAT
47520204 AACATAAAAT
1 AACATAAAAT
47520214 AACATAAAA
1 AACATAAAA
47520223 AGATACAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.17
Consensus pattern (10 bp):
AACATAAAAT
Found at i:47520239 original size:12 final size:12
Alignment explanation
Indices: 47520222--47520249 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
47520212 ATAACATAAA
47520222 AAGATACAATTC
1 AAGATACAATTC
47520234 AAGATACAATTC
1 AAGATACAATTC
47520246 AAGA
1 AAGA
47520250 GACTACAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.21
Consensus pattern (12 bp):
AAGATACAATTC
Found at i:47523765 original size:41 final size:42
Alignment explanation
Indices: 47523699--47523777 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
47523689 AATACTCAAT
* * *
47523699 ATCTCGCACACTAAGTACCTATACATAGTCGAAGCTATTATA
1 ATCTCACACACTAAGTACCTATACATAGCCAAAGCTATTATA
*
47523741 ATCTCACACACTAAGTGCCT-TACATAGCCAAAGCTAT
1 ATCTCACACACTAAGTACCTATACATAGCCAAAGCTAT
47523778 CTCGGTCTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 15 0.45
42 18 0.55
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (42 bp):
ATCTCACACACTAAGTACCTATACATAGCCAAAGCTATTATA
Found at i:47523847 original size:40 final size:40
Alignment explanation
Indices: 47523787--47523887 Score: 150
Period size: 40 Copynumber: 2.5 Consensus size: 40
47523777 TCTCGGTCTT
*
47523787 GCACACTAAGTGCCATATATAGCCGAAGCCATTC-TGAGTC
1 GCACACTAAGTGCCATATATAGCCGAAG-CATTCTTGAATC
* * *
47523827 GCACACTAAGTACCAAATATAGCCGAAGCTTTCTTGAATC
1 GCACACTAAGTGCCATATATAGCCGAAGCATTCTTGAATC
47523867 GCACACTAAGTGCCATATATA
1 GCACACTAAGTGCCATATATA
47523888 TATATCTGAA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.07
40 50 0.93
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.24
Consensus pattern (40 bp):
GCACACTAAGTGCCATATATAGCCGAAGCATTCTTGAATC
Found at i:47524421 original size:20 final size:19
Alignment explanation
Indices: 47524373--47524421 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
47524363 TCACTTAACA
47524373 AAACTTGCATATCTATCAAC
1 AAACTT-CATATCTATCAAC
* *
47524393 AATCATTCATAGTCTATCAAG
1 AAAC-TTCATA-TCTATCAAC
47524414 AAACTTCA
1 AAACTTCA
47524422 AAATACACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (19 bp):
AAACTTCATATCTATCAAC
Found at i:47525777 original size:96 final size:97
Alignment explanation
Indices: 47525646--47525849 Score: 356
Period size: 96 Copynumber: 2.1 Consensus size: 97
47525636 GGATGGTCAT
*
47525646 ACAGGCGTGTGGTTGGTCGTGTGACCCAAGTCAGAGAGTTACACGAGCTGGAACAAGGCCATGTA
1 ACAGGCGTGTGGTTGGTCGTGTAACCCAAGTCAGAGAGTTACACGAGCTGGAACAAGGCCATGTA
*
47525711 ATCCTATTTTTAATGTCCACACGGCCTGTGAC
66 ATCCTATTTTGAATGTCCACACGGCCTGTGAC
* * *
47525743 ACGGGCGTGTGGTT-GTCGTGTAACCCAAGTCAGAGAGTTACACGAGCTGGAACAATGCCATGTG
1 ACAGGCGTGTGGTTGGTCGTGTAACCCAAGTCAGAGAGTTACACGAGCTGGAACAAGGCCATGTA
47525807 ATCCTATTTTGAATGTCCACACGGCCTGTGAC
66 ATCCTATTTTGAATGTCCACACGGCCTGTGAC
47525839 ACAGGCGTGTG
1 ACAGGCGTGTG
47525850 TCCTTTGTAT
Statistics
Matches: 101, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
96 88 0.87
97 13 0.13
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (97 bp):
ACAGGCGTGTGGTTGGTCGTGTAACCCAAGTCAGAGAGTTACACGAGCTGGAACAAGGCCATGTA
ATCCTATTTTGAATGTCCACACGGCCTGTGAC
Found at i:47531233 original size:28 final size:27
Alignment explanation
Indices: 47531196--47531258 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 27
47531186 GCATGCCATT
47531196 TTATATATGTTGCATACATGCATGATA
1 TTATATATGTTGCATACATGCATGATA
* *
47531223 TTATGATATGTTTCATACATGTATGATA
1 TTAT-ATATGTTGCATACATGCATGATA
47531251 TTAT-TATG
1 TTATATATG
47531259 ATTGAAGGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 4 0.12
27 4 0.12
28 25 0.76
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (27 bp):
TTATATATGTTGCATACATGCATGATA
Found at i:47532907 original size:27 final size:27
Alignment explanation
Indices: 47532868--47532957 Score: 126
Period size: 27 Copynumber: 3.3 Consensus size: 27
47532858 TAATTTGATG
* * * *
47532868 AAATGACTATTTTTCTCTCATGAGGTA
1 AAATGACTGTTTTGCCCTTATGAGGTA
*
47532895 AAATGACTGTTTTGCCCTTATAAGGTA
1 AAATGACTGTTTTGCCCTTATGAGGTA
*
47532922 AAATGACTGTTTTGCCCTTATGTGGTA
1 AAATGACTGTTTTGCCCTTATGAGGTA
47532949 AAATGACTG
1 AAATGACTG
47532958 AAATGCCCCT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (27 bp):
AAATGACTGTTTTGCCCTTATGAGGTA
Found at i:47532965 original size:54 final size:54
Alignment explanation
Indices: 47532868--47532999 Score: 129
Period size: 54 Copynumber: 2.4 Consensus size: 54
47532858 TAATTTGATG
* * * * * *** * *
47532868 AAATGACTATTTTTCTCTCATGAGGTAAAATGACTGTTTTGCCCTTATAAGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTAAAATGACTGAAATGCCCCTACAAGGTA
*
47532922 AAATGACTGTTTTGCCCTTATGTGGTAAAATGACTGAAATGCCCCTACATGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTAAAATGACTGAAATGCCCCTACAAGGTA
* * *
47532976 AATTGATTGTTTTTGCCCCTATGT
1 AAATGACTG-TTTTGCCCTTATGT
47533000 AAGGTATTTA
Statistics
Matches: 63, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
54 50 0.79
55 13 0.21
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (54 bp):
AAATGACTGTTTTGCCCTTATGTGGTAAAATGACTGAAATGCCCCTACAAGGTA
Found at i:47537594 original size:93 final size:93
Alignment explanation
Indices: 47537435--47537620 Score: 363
Period size: 93 Copynumber: 2.0 Consensus size: 93
47537425 CCGAGTCATA
47537435 CTAATAATTAGCCATCATATTTGATGTTTATTATATGTATATATGCATGTGTGAAAATGTCATGT
1 CTAATAATTAGCCATCATATTTGATGTTTATTATATGTATATATGCATGTGTGAAAATGTCATGT
47537500 TTGAATTTTGTTAATTGTAAGTGAATTT
66 TTGAATTTTGTTAATTGTAAGTGAATTT
*
47537528 CTAATAATTAGCCATCATATTTGATGTTTATTATATGTATATATGCATGTGTGAAAATTTCATGT
1 CTAATAATTAGCCATCATATTTGATGTTTATTATATGTATATATGCATGTGTGAAAATGTCATGT
47537593 TTGAATTTTGTTAATTGTAAGTGAATTT
66 TTGAATTTTGTTAATTGTAAGTGAATTT
47537621 TATTAAATAG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.31, C:0.06, G:0.16, T:0.47
Consensus pattern (93 bp):
CTAATAATTAGCCATCATATTTGATGTTTATTATATGTATATATGCATGTGTGAAAATGTCATGT
TTGAATTTTGTTAATTGTAAGTGAATTT
Found at i:47547946 original size:20 final size:20
Alignment explanation
Indices: 47547923--47547969 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
47547913 CTTAAAATAC
47547923 GTAATAAATATAAAAAATTA
1 GTAATAAATATAAAAAATTA
*
47547943 GTAATAAATATAAAAAATTC
1 GTAATAAATATAAAAAATTA
47547963 GTAATAA
1 GTAATAA
47547970 TAAAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (20 bp):
GTAATAAATATAAAAAATTA
Found at i:47547982 original size:23 final size:22
Alignment explanation
Indices: 47547924--47547982 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 22
47547914 TTAAAATACG
47547924 TAATAAATATAAAAAATTAGTAA
1 TAATAAA-ATAAAAAATTAGTAA
* *
47547947 T-A-AATATAAAAAATTCGTAA
1 TAATAAAATAAAAAATTAGTAA
47547967 TAATAAAATAATAAAA
1 TAATAAAATAA-AAAA
47547983 GATGATAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 15 0.50
21 3 0.10
22 7 0.23
23 5 0.17
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (22 bp):
TAATAAAATAAAAAATTAGTAA
Found at i:47549878 original size:98 final size:98
Alignment explanation
Indices: 47549709--47549901 Score: 341
Period size: 98 Copynumber: 2.0 Consensus size: 98
47549699 ACAATAAAAC
* *
47549709 TTTAAAGGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATCCC
1 TTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATCCC
47549774 TTTAGAATCCCAAACTCGGAATATTTCCTTTAT
66 TTTAGAATCCCAAACTCGGAATATTTCCTTTAT
* *
47549807 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATCCC
*
47549872 TTTAGAATCTCAAACTCGGAATATTTCCTT
66 TTTAGAATCCCAAACTCGGAATATTTCCTT
47549902 CAGGATTTTT
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.28
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATCCC
TTTAGAATCCCAAACTCGGAATATTTCCTTTAT
Found at i:47550988 original size:25 final size:25
Alignment explanation
Indices: 47550960--47551011 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
47550950 GAGGGGCTGG
47550960 AAGGGAAATTTTCTCTTCTTCTCTA
1 AAGGGAAATTTTCTCTTCTTCTCTA
47550985 AAGGGAAATTTTCTCTTCTTCTCTA
1 AAGGGAAATTTTCTCTTCTTCTCTA
47551010 AA
1 AA
47551012 ACGACGCCGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (25 bp):
AAGGGAAATTTTCTCTTCTTCTCTA
Found at i:47551431 original size:19 final size:19
Alignment explanation
Indices: 47551407--47551478 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
47551397 AATTATATCT
47551407 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
47551426 TCTAAGATTATACATCATA
1 TCTAAGATTGCATATCATA
47551445 TCTAAGATTGCATAT-ATA
1 TCTAAGATTGCATATCATA
*
47551463 TCTAGGATTGCATATC
1 TCTAAGATTGCATATC
47551479 CTCAAAAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 17 0.38
19 28 0.62
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:47554702 original size:29 final size:31
Alignment explanation
Indices: 47554631--47554703 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 31
47554621 TAATTTCAAA
* * *
47554631 TATACATTTGAACCACAATTAGAGTTTCATG
1 TATACAATTGCACCACAATTAAAGTTTCATG
* * *
47554662 TGTATAACTGCACCA-AATTAAAG-TTCATG
1 TATACAATTGCACCACAATTAAAGTTTCATG
47554691 TATACAATTGCAC
1 TATACAATTGCAC
47554704 ATTAAACCAA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
29 16 0.48
30 7 0.21
31 10 0.30
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (31 bp):
TATACAATTGCACCACAATTAAAGTTTCATG
Found at i:47563769 original size:32 final size:34
Alignment explanation
Indices: 47563705--47563770 Score: 100
Period size: 32 Copynumber: 2.0 Consensus size: 34
47563695 AACACCAATT
*
47563705 TTTTAAAAAAATAAAAAAAGTTTTTTTTAAAATA
1 TTTTAAAAAAATAAAAAAAGTTTTTTTAAAAATA
*
47563739 TTTTAAAAATA-AAAAAAAG-TTTTTTAAAAATA
1 TTTTAAAAAAATAAAAAAAGTTTTTTTAAAAATA
47563771 AAAAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 12 0.40
33 8 0.27
34 10 0.33
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (34 bp):
TTTTAAAAAAATAAAAAAAGTTTTTTTAAAAATA
Found at i:47571952 original size:29 final size:29
Alignment explanation
Indices: 47571894--47571959 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
47571884 GATTTCGCTG
* *
47571894 AAAAT-GGCTCATTCCGGTAAATAATCAA
1 AAAATCGGCCCATTCCGGTAAATAATAAA
* **
47571922 AAAATCGGCCCATTTCGGTAAATTTTAAA
1 AAAATCGGCCCATTCCGGTAAATAATAAA
*
47571951 AAAAACGGC
1 AAAATCGGC
47571960 TTTTTTTGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
28 5 0.16
29 26 0.84
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (29 bp):
AAAATCGGCCCATTCCGGTAAATAATAAA
Found at i:47572416 original size:34 final size:34
Alignment explanation
Indices: 47572378--47572494 Score: 112
Period size: 35 Copynumber: 3.4 Consensus size: 34
47572368 AATTAAATTA
47572378 AAATTTTAAGTCTTGATTTTGTTTTTATTAATGG
1 AAATTTTAAGTCTTGATTTTGTTTTTATTAATGG
* ** *
47572412 AAATTTTAACTAATGATTTT-TCGTTTTATTCATGG
1 AAATTTTAAGTCTTGATTTTGT--TTTTATTAATGG
* * *
47572447 AATTTTTAGGTCACTT-ATTTTGGTTTTATTAATGG
1 AAATTTTAAGT--CTTGATTTTGTTTTTATTAATGG
*
47572482 AAAATTTAAGTCT
1 AAATTTTAAGTCT
47572495 CCTTTGTGTT
Statistics
Matches: 64, Mismatches: 14, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
33 3 0.05
34 17 0.27
35 38 0.59
36 5 0.08
37 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (34 bp):
AAATTTTAAGTCTTGATTTTGTTTTTATTAATGG
Found at i:47572987 original size:14 final size:14
Alignment explanation
Indices: 47572968--47572999 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
47572958 TCAGTGAAAA
47572968 AAAAGGAAGAGTGG
1 AAAAGGAAGAGTGG
47572982 AAAAGGAAGAGTGG
1 AAAAGGAAGAGTGG
47572996 AAAA
1 AAAA
47573000 AGATTTGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.38, T:0.06
Consensus pattern (14 bp):
AAAAGGAAGAGTGG
Found at i:47574780 original size:17 final size:17
Alignment explanation
Indices: 47574749--47574791 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
47574739 ATGAATATTT
47574749 TATATTTT-GATTTAAA
1 TATATTTTAGATTTAAA
*
47574765 TATATTTTATATTTAAA
1 TATATTTTAGATTTAAA
*
47574782 AATTATTTTA
1 TA-TATTTTA
47574792 ATAGTATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 8 0.35
17 8 0.35
18 7 0.30
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
TATATTTTAGATTTAAA
Found at i:47574790 original size:18 final size:17
Alignment explanation
Indices: 47574758--47574791 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
47574748 TTATATTTTG
*
47574758 ATTTAAATATATTTTAT
1 ATTTAAAAATATTTTAT
47574775 ATTTAAAAATTATTTTA
1 ATTTAAAAA-TATTTTA
47574792 ATAGTATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTAAAAATATTTTAT
Found at i:47590100 original size:3 final size:3
Alignment explanation
Indices: 47590056--47590080 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
47590046 AAAATAAAAT
47590056 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
47590081 GATGATGGCA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:47602202 original size:15 final size:15
Alignment explanation
Indices: 47602182--47602210 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
47602172 GAGGTCGGTA
47602182 TGTGTTTATATAAGT
1 TGTGTTTATATAAGT
47602197 TGTGTTTATATAAG
1 TGTGTTTATATAAG
47602211 CCTTAAAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TGTGTTTATATAAGT
Found at i:47604583 original size:995 final size:994
Alignment explanation
Indices: 47602651--47604643 Score: 3137
Period size: 995 Copynumber: 2.0 Consensus size: 994
47602641 TCTGATTCTG
* *
47602651 TATAAGAAATATGATTGTATCTGTTCTTTTATGTGATTAGATTTGAATTTTTTTTCTTTTGAGTT
1 TATAAGAAATATAATTGTATCTGTTCTTTTATGTGATTAGATTTGAATTTTGTTTCTTTTGAGTT
*
47602716 ACACACTAAGTTATAAAAACTCACATTTTGTTTGTCTGATAATTTTAGGTAACCCTCAAAATTAG
66 ACACACTAAGTTATAAAAACTCACACTTTGTTTGTCTGATAATTTTAGGTAACCCTCAAAATTAG
* * * *
47602781 GCGGGTCGGTGTGACGGGAGCTCGCTTATGTCCACAATTCTGAAAAACTTTATTTAAATAAATTT
131 GCGGGTCGATGCGACGAGAGCTCGATTATGTCCACAATTCTGAAAAACTTTATTTAAATAAATTT
** * * * * * *
47602846 GACTTATTTAAAATTTTTGATTTTAGAGTTTTGTAATTTTTAGACTTTCTGGACATTTGGGTTTG
196 GACTTATTTAAAATTTCCGATTTGAGAGTTTTATAATTTTTAGACTCTCTAGACATTTGGATTTA
*
47602911 TTATTGGTTTGGATTTTATTTTGGATTTTTGCTTGACATTTGATAAAATGATTTTTTTTTTGAAA
261 TTATTGGTTTGGATTTTATTTTGGATTTTTGCTTGACATTTGATAAAACGA-TTTTTTTTT-AAA
* * *** **
47602976 AACGGCTATGTTTCTGCGATTAACTGTTTTTAAGAAAACAAACTCGGCTTTTCAAAATATAATGC
324 AACGGCTATGTTTATGCGATTAACTGTTTTTAAGAAAAAAAACTCAAATTTTCAAAATATAACAC
* * *
47603041 TTTAAGAACTTTCGCTGCAACTTATTTGATTTAATTTAGGAAATGAAATCAACCACCGGTTTTAA
389 TTTAAGAACTTCCGCTGCAACTTATTTAATTTAATTTAGGAAATGAAATCAACCACCGATTTTAA
*
47603106 CTATTAAGTATGACAAACGTTTTTCAATTAAAACGAACTTTTAAATAGCAAAGGTTCACAACATT
454 CTATTAAGTATGACAAACGTTTTTCAATTAAAACGAACTTTTAAATAGCAAAGGTGCACAACATT
* * * ** *
47603171 TTTCAAAAAGCAAAAGTTAGATTTATAATTATTTTACGTAATATTCTAGATTCGGCCATAACGTC
519 TTTCAAAAAGCAAAAGTTAGATTTATAATTATTTTACATAACATTCCAGATTCAACCATAACGAC
* * * *
47603236 TAGGTCGGGTTTGAGGTGTTACAACATTGCTTGAACCAAAAATTTTCATAATCTCTATAAACAAA
584 TAGGTCGGGTTTGAGGTGTTACAACATTGCTTAAACCAAAAATATTCATAATCTCCACAAACAAA
47603301 TTGCAAAGAGTATCGACATCTAAAATCATGTCGAATGCATTAAGGGGGATTTGATGAAGCATAAT
649 TTGCAAAGAGTATCGACATCTAAAATCATGTCGAATGCATTAA-GGGGATTTGATGAAGCATAAT
47603366 CCTTTAGGACAATACACTAAAAGATTGGTTAATGACTTTTGTTTCAAATCTTTCTACCCACGCCT
713 CCTTTAGGACAATACACTAAAAGATTGGTTAATGACTTTTGTTTCAAATCTTTCTACCCACGCCT
*
47603431 CATTATGGTGCATCCACATTTCACCCAAATCCTTTTGTAGAATTCAAACAGCCATAAATCCCTTT
778 CATTATGGTGCATCCACATTTCACCCAAATCCTTTTGTAGAATTCAAACAACCATAAATCCCTTT
* *
47603496 TTTGAGTATTCTAGTAGATTGGTTAACAATGCATGATATGATAGAGTTTTGTATCCTAATCTCAT
843 TTTGAGTATTCTAGTAGATTGGTTAACAATGCATGATATGATAGAGCTTTGTATCCTAATCCCAT
* *
47603561 AGATGTTATGGCATCAAGGCACAATTGAAACTTTGCAAGACCCCTTTTGCATTTCTTTGATATTT
908 AGATGCTATGACATCAAGGCACAATTGAAACTTTGCAAGACCCCTTTTGCATTTCTTTGATATTT
47603626 GATTAAACTTTTTAAAAGTCTA
973 GATTAAACTTTTTAAAAGTCTA
*
47603648 TATAAGAAATATAATTGTATCTGTTCTTTTATGTGGTTAGA-TTGAAATTTCTGTTTCTTTTGAG
1 TATAAGAAATATAATTGTATCTGTTCTTTTATGTGATTAGATTTG-AATTT-TGTTTCTTTTGAG
* * *
47603712 TTACACACTAAGTTATAAAAACTCACACTTTGTTTTTTTGATAATTTTAGGTAACCCTCAGAATT
64 TTACACACTAAGTTATAAAAACTCACACTTTGTTTGTCTGATAATTTTAGGTAACCCTCAAAATT
* *
47603777 AGGCGGGTCGATGCGACGAGAGCTCGATTATGTCCACAATT-TCGTAAAATTTTATTTAAATAAA
129 AGGCGGGTCGATGCGACGAGAGCTCGATTATGTCCACAATTCT-GAAAAACTTTATTTAAATAAA
* *
47603841 TTTGGCTTATTTAAAATTTCCGATTTGAGAGTTTTATAATTTTTGGACTCTCTAGACATTTGGAT
193 TTTGACTTATTTAAAATTTCCGATTTGAGAGTTTTATAATTTTTAGACTCTCTAGACATTTGGAT
*
47603906 TTATTATTGGTTTGGATTTTGA-TTTGGGTTTTTGCTTGACATTTGATAAAACGA-TTTTTTTT-
258 TTATTATTGGTTTGGATTTT-ATTTTGGATTTTTGCTTGACATTTGATAAAACGATTTTTTTTTA
* *
47603968 AAAACGGTTATGTTTATGCGATTAACTG-TTTTAA-AAAAAAAACTCAAATTTTTAAAATATAAC
322 AAAACGGCTATGTTTATGCGATTAACTGTTTTTAAGAAAAAAAACTCAAATTTTCAAAATATAAC
*
47604031 ACTTTAAGAACTTCCGCTGCAACTTATTTAATTTAATTTAGGAAATGAAATCAACTACCGATTTT
387 ACTTTAAGAACTTCCGCTGCAACTTATTTAATTTAATTTAGGAAATGAAATCAACCACCGATTTT
* *
47604096 AACTATTAAGTATGTCAAACGTTTTTCAATTAAAATGAACTTTTAAATTAAATAGCAAAGGTGCA
452 AACTATTAAGTATGACAAACGTTTTTCAATTAAAACGAAC--TT---TTAAATAGCAAAGGTGCA
* * * *
47604161 CGACATTTTTCAAAAATCGAAAGTTAGATTTATAATTATTTTACATAACATTCCAGATTCAATCA
512 CAACATTTTTCAAAAAGCAAAAGTTAGATTTATAATTATTTTACATAACATTCCAGATTCAACCA
* *
47604226 TAATGACTAGG-CTGGGTTTTAGGTGTTACAACATTGCTTAAACCAAAAATATTCATAATCTCCA
577 TAACGACTAGGTC-GGGTTTGAGGTGTTACAACATTGCTTAAACCAAAAATATTCATAATCTCCA
*
47604290 CAAACAAATTGCAAAGATTATCGACATCTAAAATCATGTCGAATGCATTAA-GGGATTTGATGAA
641 CAAACAAATTGCAAAGAGTATCGACATCTAAAATCATGTCGAATGCATTAAGGGGATTTGATGAA
*
47604354 GCATAATCCTTTAGGACAATACACTAAAAGATTGGTTAATGACTTTTGTTTCAAATCTTTCTCCC
706 GCATAATCCTTTAGGACAATACACTAAAAGATTGGTTAATGACTTTTGTTTCAAATCTTTCTACC
* *
47604419 CAC-CTCTCATTATGGTGCATCCACGTTTCACCCAAATCCTTTTGTAGAATTCAAACAACTATAA
771 CACGC-CTCATTATGGTGCATCCACATTTCACCCAAATCCTTTTGTAGAATTCAAACAACCATAA
*
47604483 ATCCCTTTTTTGAGTATTCTAGTAGATTGGTTAACAATGCAT-AGTATGATATAGCTTTGTAT-C
835 ATCCCTTTTTTGAGTATTCTAGTAGATTGGTTAACAATGCATGA-TATGATAGAGCTTTGTATCC
* *
47604546 TCAATCCCATAGATGCTATGACATCAAGGCACAATTGAAACTTTGCGAGACCCTTTTTGCATTTC
899 T-AATCCCATAGATGCTATGACATCAAGGCACAATTGAAACTTTGCAAGACCCCTTTTGCATTTC
47604611 TTTGATATTTGATTAAACTTTTTAAAAGTCTA
963 TTTGATATTTGATTAAACTTTTTAAAAGTCTA
47604643 T
1 T
47604644 TTGGGTGAGA
Statistics
Matches: 914, Mismatches: 69, Indels: 28
0.90 0.07 0.03
Matches are distributed among these distances:
992 121 0.13
993 6 0.01
994 32 0.04
995 285 0.31
996 12 0.01
997 223 0.24
998 234 0.26
999 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (994 bp):
TATAAGAAATATAATTGTATCTGTTCTTTTATGTGATTAGATTTGAATTTTGTTTCTTTTGAGTT
ACACACTAAGTTATAAAAACTCACACTTTGTTTGTCTGATAATTTTAGGTAACCCTCAAAATTAG
GCGGGTCGATGCGACGAGAGCTCGATTATGTCCACAATTCTGAAAAACTTTATTTAAATAAATTT
GACTTATTTAAAATTTCCGATTTGAGAGTTTTATAATTTTTAGACTCTCTAGACATTTGGATTTA
TTATTGGTTTGGATTTTATTTTGGATTTTTGCTTGACATTTGATAAAACGATTTTTTTTTAAAAA
CGGCTATGTTTATGCGATTAACTGTTTTTAAGAAAAAAAACTCAAATTTTCAAAATATAACACTT
TAAGAACTTCCGCTGCAACTTATTTAATTTAATTTAGGAAATGAAATCAACCACCGATTTTAACT
ATTAAGTATGACAAACGTTTTTCAATTAAAACGAACTTTTAAATAGCAAAGGTGCACAACATTTT
TCAAAAAGCAAAAGTTAGATTTATAATTATTTTACATAACATTCCAGATTCAACCATAACGACTA
GGTCGGGTTTGAGGTGTTACAACATTGCTTAAACCAAAAATATTCATAATCTCCACAAACAAATT
GCAAAGAGTATCGACATCTAAAATCATGTCGAATGCATTAAGGGGATTTGATGAAGCATAATCCT
TTAGGACAATACACTAAAAGATTGGTTAATGACTTTTGTTTCAAATCTTTCTACCCACGCCTCAT
TATGGTGCATCCACATTTCACCCAAATCCTTTTGTAGAATTCAAACAACCATAAATCCCTTTTTT
GAGTATTCTAGTAGATTGGTTAACAATGCATGATATGATAGAGCTTTGTATCCTAATCCCATAGA
TGCTATGACATCAAGGCACAATTGAAACTTTGCAAGACCCCTTTTGCATTTCTTTGATATTTGAT
TAAACTTTTTAAAAGTCTA
Found at i:47605472 original size:24 final size:23
Alignment explanation
Indices: 47605433--47605478 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
47605423 AGGAATACAT
*
47605433 GCAAAAGAAGAAATAACAGCAAG
1 GCAAAAGAAGAAATAAAAGCAAG
47605456 GCAAGAAGAA-AAGATAAAAGCAA
1 GCAA-AAGAAGAA-ATAAAAGCAA
47605479 AAAATGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.63, C:0.11, G:0.22, T:0.04
Consensus pattern (23 bp):
GCAAAAGAAGAAATAAAAGCAAG
Found at i:47606531 original size:21 final size:20
Alignment explanation
Indices: 47606487--47606541 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
47606477 CCCTTTTATT
47606487 TATTATATTATTACTACTAC
1 TATTATATTATTACTACTAC
* * *
47606507 TATTATTATTATTAGTAGTAG
1 TATTA-TATTATTACTACTAC
47606528 TATTATATTTATTA
1 TATTATA-TTATTA
47606542 TTATTACTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (20 bp):
TATTATATTATTACTACTAC
Found at i:47611782 original size:69 final size:69
Alignment explanation
Indices: 47611685--47611822 Score: 204
Period size: 69 Copynumber: 2.0 Consensus size: 69
47611675 TGATTCAAAC
*
47611685 TAATCCATATCCTTAGTGCAATTGGACAATGAATCAAGTAACTTGTGATCAAAGAAAGAATCTAG
1 TAATCCATATCCTTAGTGCAATAGGACAATGAATCAAGTAACTTGTGATCAAAGAAAGAATCTAG
47611750 AAAA
66 AAAA
* * * * * * *
47611754 TAATTCATATCTTTAGTGCTATAGGACAATGAATCAAGTGAGTTGTGATCAAATAAAGAATCTGG
1 TAATCCATATCCTTAGTGCAATAGGACAATGAATCAAGTAACTTGTGATCAAAGAAAGAATCTAG
47611819 AAAA
66 AAAA
47611823 GGTAGAGGAA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (69 bp):
TAATCCATATCCTTAGTGCAATAGGACAATGAATCAAGTAACTTGTGATCAAAGAAAGAATCTAG
AAAA
Found at i:47612697 original size:25 final size:25
Alignment explanation
Indices: 47612663--47612710 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
47612653 GTTGTCCATT
*
47612663 GCTTGGGCCTTGA-ATAAAATTTTAA
1 GCTTGAGCC-TGACATAAAATTTTAA
47612688 GCTTGAGCCTGACATAAAATTTT
1 GCTTGAGCCTGACATAAAATTTT
47612711 GTCCAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (25 bp):
GCTTGAGCCTGACATAAAATTTTAA
Found at i:47615748 original size:29 final size:30
Alignment explanation
Indices: 47615661--47615748 Score: 88
Period size: 31 Copynumber: 2.9 Consensus size: 30
47615651 GATTAAATCA
** * *
47615661 AAATTAAAGTTTCAAATATACATTTGAACC
1 AAATTAAAGTTTCATGTATACAATTGCACC
* * * *
47615691 ACAATTAGAGTTTCATGTGTATAACTGCACC
1 A-AATTAAAGTTTCATGTATACAATTGCACC
47615722 AAATTAAAG-TTCATGTATACAATTGCA
1 AAATTAAAGTTTCATGTATACAATTGCA
47615749 GATTAAACCA
Statistics
Matches: 45, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
29 15 0.33
30 8 0.18
31 22 0.49
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (30 bp):
AAATTAAAGTTTCATGTATACAATTGCACC
Found at i:47618263 original size:24 final size:22
Alignment explanation
Indices: 47618210--47618263 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 22
47618200 ATTATGTTTG
*
47618210 TTTTTTAAGATATTTTTATTTA
1 TTTTTTAAGATATTTTTATATA
*
47618232 TGTATTTTTAGATATTTATTAATATA
1 T-T-TTTTAAGATATTT-TT-ATATA
47618258 TTTTTT
1 TTTTTT
47618264 GTTATAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 1 0.04
23 1 0.04
24 16 0.62
25 3 0.12
26 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (22 bp):
TTTTTTAAGATATTTTTATATA
Found at i:47620420 original size:17 final size:18
Alignment explanation
Indices: 47620398--47620433 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
47620388 TAAAATCCCT
47620398 AAACCCT-ACTTAATTAA
1 AAACCCTAACTTAATTAA
*
47620415 AAACCCTAATTTAATTAA
1 AAACCCTAACTTAATTAA
47620433 A
1 A
47620434 TTAAAACCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (18 bp):
AAACCCTAACTTAATTAA
Found at i:47620460 original size:28 final size:27
Alignment explanation
Indices: 47620409--47621187 Score: 652
Period size: 28 Copynumber: 29.1 Consensus size: 27
47620399 AACCCTACTT
47620409 AATTAAAAACCCTAA--T--TTAATTA
1 AATTAAAAACCCTAACCTACTTAATTA
47620432 AATT-AAAACCCTAAACCCTACTTAATTA
1 AATTAAAAACCCT-AA-CCTACTTAATTA
***** *
47620460 AAACCCTAACCCTAACCTAATTTAATTA
1 AATTAAAAACCCTAACCT-ACTTAATTA
*
47620488 AATTAAAAACCCTAACCTAAATTAATTA
1 AATTAAAAACCCTAACCT-ACTTAATTA
47620516 AATTAAAAACCCTAACCTAC----TTA
1 AATTAAAAACCCTAACCTACTTAATTA
47620539 AATTAAAAACCCTAACCTCTACTTAATTA
1 AATTAAAAACCCTAA-C-CTACTTAATTA
47620568 AATTAAAAACCCTAAACCCTACTTAATTA
1 AATTAAAAACCCT-AA-CCTACTTAATTA
* * *
47620597 AA--AACCCTAACCCTAACTTAATTTAATTA
1 AATTAA---AAACCCTAACCT-ACTTAATTA
* *
47620626 AATTAAAAACCCTAACCTAACCTAATTT
1 AATTAAAAACCCTAACCT-ACTTAATTA
*
47620654 AATTAAAAACCCTAA-C--C-TAATTT
1 AATTAAAAACCCTAACCTACTTAATTA
47620677 AATTAAAAACCCTAACCTAC----TTA
1 AATTAAAAACCCTAACCTACTTAATTA
*
47620700 AATTAAAAACCCTAACCTTATTTAATTA
1 AATTAAAAACCCTAACC-TACTTAATTA
47620728 AATTAAAAACCCTAACCTAC----TTA
1 AATTAAAAACCCTAACCTACTTAATTA
47620751 AATTAAAAACCCTAACCCCTACTTAATTA
1 AATTAAAAACCCTAA--CCTACTTAATTA
47620780 AATTAAAAACCCTAAACCCTACTTAATTA
1 AATTAAAAACCCT-AA-CCTACTTAATTA
* * *
47620809 AA--AACCCTAACCCTAACTTAATTTAATTA
1 AATTAA---AAACCCTAACCT-ACTTAATTA
* *
47620838 AATTAAAAACCCTAACCTAACCTAATTT
1 AATTAAAAACCCTAACCT-ACTTAATTA
*
47620866 AATTAAAAACCCTAA-C--C-TAATTT
1 AATTAAAAACCCTAACCTACTTAATTA
*
47620889 AATTAAAAACCTTAACCTAC----TTA
1 AATTAAAAACCCTAACCTACTTAATTA
*
47620912 AATTAAAAACCCTAACCTAACCTAATTA
1 AATTAAAAACCCTAACCT-ACTTAATTA
47620940 AATTAAAAACCCTAACCTAC----TTA
1 AATTAAAAACCCTAACCTACTTAATTA
47620963 AATTAAAAACCCTAACCCCTACTTAATTA
1 AATTAAAAACCCTAA--CCTACTTAATTA
47620992 AATTAAAAACCCTAAACCCTACTTAATTA
1 AATTAAAAACCCT-AA-CCTACTTAATTA
* * *
47621021 AA--AACCCTAACCCTAACTTAATTTAATTA
1 AATTAA---AAACCCTAACCT-ACTTAATTA
* *
47621050 AATTAAAAACCCTAACCTAACCTAATTT
1 AATTAAAAACCCTAACCT-ACTTAATTA
*
47621078 AATTAAAAACCCTAACCTTATTTAATTA
1 AATTAAAAACCCTAACC-TACTTAATTA
* *
47621106 AATTAAAAACCCTAA---ACCTAATTT
1 AATTAAAAACCCTAACCTACTTAATTA
*
47621130 AATTAAAAACCCTAACCTAACCTAATTA
1 AATTAAAAACCCTAACCT-ACTTAATTA
*
47621158 AATTAAAAACCCTAACCCTATTTAATTA
1 AATTAAAAACCCTAA-CCTACTTAATTA
47621186 AA
1 AA
47621188 AACCCTAATT
Statistics
Matches: 636, Mismatches: 51, Indels: 133
0.78 0.06 0.16
Matches are distributed among these distances:
22 8 0.01
23 139 0.22
24 30 0.05
25 14 0.02
26 3 0.00
27 16 0.03
28 257 0.40
29 137 0.22
30 26 0.04
31 6 0.01
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.29
Consensus pattern (27 bp):
AATTAAAAACCCTAACCTACTTAATTA
Found at i:47620473 original size:22 final size:23
Alignment explanation
Indices: 47620386--47620473 Score: 101
Period size: 23 Copynumber: 3.8 Consensus size: 23
47620376 ACATTATTTG
47620386 ATTAAAATCCCTAAACCCTACTTA
1 ATTAAAA-CCCTAAACCCTACTTA
** *
47620410 ATTAAAAACCCT-AA-TTTAATTAA
1 ATT-AAAACCCTAAACCCTACTT-A
47620433 ATTAAAACCCTAAACCCTACTTA
1 ATTAAAACCCTAAACCCTACTTA
47620456 ATTAAAACCCT-AACCCTA
1 ATTAAAACCCTAAACCCTA
47620474 ACCTAATTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
22 19 0.35
23 20 0.37
24 11 0.20
25 4 0.07
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.28
Consensus pattern (23 bp):
ATTAAAACCCTAAACCCTACTTA
Found at i:47620501 original size:23 final size:24
Alignment explanation
Indices: 47620482--47620622 Score: 115
Period size: 23 Copynumber: 5.5 Consensus size: 24
47620472 TAACCTAATT
*
47620482 TAATTAAATTAAAAACCCTAACCTAAAT
1 TAATTAAATTAAAAACCCTAA-CT---C
47620510 TAATTAAATTAAAAACCCTAAC-C
1 TAATTAAATTAAAAACCCTAACTC
*
47620533 TACTTAAATTAAAAACCCTAACCTCTAC
1 TAATTAAATTAAAAACCCTAA---CT-C
*
47620561 TTAATTAAATTAAAAACCCTAAACCC
1 -TAATTAAATTAAAAACCCT-AACTC
* *
47620587 TACTT-AATTAAAAACCCTAACCC
1 TAATTAAATTAAAAACCCTAACTC
*
47620610 TAACTTAATTTAA
1 TAA-TTAAATTAA
47620623 TTAAATTAAA
Statistics
Matches: 97, Mismatches: 7, Indels: 21
0.78 0.06 0.17
Matches are distributed among these distances:
23 27 0.28
24 15 0.15
25 9 0.09
26 2 0.02
27 2 0.02
28 22 0.23
29 18 0.19
30 2 0.02
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (24 bp):
TAATTAAATTAAAAACCCTAACTC
Found at i:47620667 original size:23 final size:23
Alignment explanation
Indices: 47620641--47620834 Score: 192
Period size: 23 Copynumber: 7.8 Consensus size: 23
47620631 AAAACCCTAA
*
47620641 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
*
47620664 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
*
47620687 CCTAACCTACTTAAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
47620710 CCTAACCTTATTTAATTAAATTAAAAAC
1 CCTAACC-----TAATTAAATTAAAAAC
*
47620738 CCTAACCTACTTAAATTAAAAAC
1 CCTAACCTAATTAAATTAAAAAC
47620761 CCTAACCCCTACTTAATTAAATTAAAAAC
1 CCTAA---C--C-TAATTAAATTAAAAAC
*
47620790 CCTAAACCCTACTT-AATTAAAAAC
1 CCT-AA-CCTAATTAAATTAAAAAC
*
47620814 CCTAACCCTAACTTAATTTAA
1 CCTAA-CCTAA-TTAAATTAA
47620835 TTAAATTAAA
Statistics
Matches: 149, Mismatches: 8, Indels: 26
0.81 0.04 0.14
Matches are distributed among these distances:
23 78 0.52
24 15 0.10
25 9 0.06
26 2 0.01
28 25 0.17
29 18 0.12
30 2 0.01
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (23 bp):
CCTAACCTAATTAAATTAAAAAC
Found at i:47620734 original size:212 final size:212
Alignment explanation
Indices: 47620485--47621195 Score: 1253
Period size: 212 Copynumber: 3.3 Consensus size: 212
47620475 CCTAATTTAA
**
47620485 TTAAATTAAAAACCCTAACCTAAATTAATTAAATTAAAAACCCTAACCTACTTAAATTAAAAACC
1 TTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTACTTAAATTAAAAACC
*
47620550 CTAACCTCTACTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACT
66 CTAACCCCTACTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACT
47620615 TAATTTAATTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAAT
131 TAATTTAATTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAAT
47620680 TAAAAACCCTAACCTAC
196 TAAAAACCCTAACCTAC
* **
47620697 TTAAATTAAAAACCCTAACCTTATTTAATTAAATTAAAAACCCTAACCTACTTAAATTAAAAACC
1 TTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTACTTAAATTAAAAACC
47620762 CTAACCCCTACTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACT
66 CTAACCCCTACTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACT
47620827 TAATTTAATTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAAT
131 TAATTTAATTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAAT
*
47620892 TAAAAACCTTAACCTAC
196 TAAAAACCCTAACCTAC
47620909 TTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTACTTAAATTAAAAACC
1 TTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTACTTAAATTAAAAACC
47620974 CTAACCCCTACTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACT
66 CTAACCCCTACTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACT
47621039 TAATTTAATTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTTATTTAAT
131 TAATTTAATTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACC-----TAAT
* *
47621104 TAAATTAAAAACCCTAAACCTAA
191 TTAATTAAAAACCCT-AACCTAC
* *
47621127 TTTAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCCTA-TTTAATTAAAAAC
1 TTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAA-CCTACTTAAATTAAAAAC
47621191 CCTAA
65 CCTAA
47621196 TTAAATTGTA
Statistics
Matches: 480, Mismatches: 12, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
212 391 0.81
217 17 0.04
218 68 0.14
219 4 0.01
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (212 bp):
TTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTACTTAAATTAAAAACC
CTAACCCCTACTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACT
TAATTTAATTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAAT
TAAAAACCCTAACCTAC
Found at i:47620864 original size:33 final size:34
Alignment explanation
Indices: 47620804--47620872 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 34
47620794 AACCCTACTT
*
47620804 AATTAAAAACCCTAACCCTAACTTAATTTAATTA
1 AATTAAAAACCCTAACCCTAACCTAATTTAATTA
47620838 AATTAAAAACCCTAA-CCTAACCTAATTTAATTA
1 AATTAAAAACCCTAACCCTAACCTAATTTAATTA
47620871 AA
1 AA
47620873 AACCCTAACC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 19 0.56
34 15 0.44
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.30
Consensus pattern (34 bp):
AATTAAAAACCCTAACCCTAACCTAATTTAATTA
Found at i:47620879 original size:23 final size:23
Alignment explanation
Indices: 47620853--47621043 Score: 177
Period size: 23 Copynumber: 7.7 Consensus size: 23
47620843 AAAACCCTAA
47620853 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
47620876 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
* * *
47620899 CTTAACCTACTTAAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
47620922 CCTAACCTAACCTAATTAAATTAAAAAC
1 CCTAACCTAA--T--TT-AATTAAAAAC
* *
47620950 CCTAACCTACTTAAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
*
47620973 CCTAACCCCTACTTAATTAAATTAAAAAC
1 CCTAA---C--C-TAATTTAATTAAAAAC
*
47621002 CCTAAACCCT-ACTTAATTAAAAAC
1 CCT-AA-CCTAATTTAATTAAAAAC
*
47621026 CCTAACCCTAACTTAATT
1 CCTAA-CCTAATTTAATT
47621044 TAATTAAATT
Statistics
Matches: 144, Mismatches: 11, Indels: 25
0.80 0.06 0.14
Matches are distributed among these distances:
23 72 0.50
24 24 0.17
25 2 0.01
26 3 0.02
27 1 0.01
28 22 0.15
29 18 0.12
30 2 0.01
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (23 bp):
CCTAACCTAATTTAATTAAAAAC
Found at i:47624477 original size:84 final size:84
Alignment explanation
Indices: 47624336--47624622 Score: 574
Period size: 84 Copynumber: 3.4 Consensus size: 84
47624326 CAAACTTGCT
47624336 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACCGTTTGCTCAGAAACGTCAAAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACCGTTTGCTCAGAAACGTCAAAAAAA
47624401 ATTATTTCCTACATGACCA
66 ATTATTTCCTACATGACCA
47624420 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACCGTTTGCTCAGAAACGTCAAAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACCGTTTGCTCAGAAACGTCAAAAAAA
47624485 ATTATTTCCTACATGACCA
66 ATTATTTCCTACATGACCA
47624504 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACCGTTTGCTCAGAAACGTCAAAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACCGTTTGCTCAGAAACGTCAAAAAAA
47624569 ATTATTTCCTACATGACCA
66 ATTATTTCCTACATGACCA
47624588 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTT
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTT
47624623 CACAATTTCT
Statistics
Matches: 203, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 203 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (84 bp):
ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACCGTTTGCTCAGAAACGTCAAAAAAA
ATTATTTCCTACATGACCA
Found at i:47624786 original size:124 final size:124
Alignment explanation
Indices: 47624550--47624786 Score: 361
Period size: 124 Copynumber: 1.9 Consensus size: 124
47624540 ACACCGTTTG
*
47624550 CTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGTCCACGAGGG
1 CTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGTCCACGAGGC
* * * **
47624615 CGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCAGCGATTTTATACTATTTC
66 CACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAGCGATTTTATACTATTTC
47624674 CTCAGAAAACGTCAAAAAAAATTATTT-CTCACATGACC-ACTGTAGCGAAATCGCGTCCACGAG
1 CTCAG-AAACGTCAAAAAAAATTATTTCCT-ACATGACCAACTGTAGCGAAATCGCGTCCACGAG
* * *
47624737 GCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAAGTGATTT
64 GCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAGCGATTT
47624787 CCCACTATTT
Statistics
Matches: 102, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
124 73 0.72
125 29 0.28
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (124 bp):
CTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGTCCACGAGGC
CACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAAGCGATTTTATACTATTTC
Found at i:47624794 original size:124 final size:124
Alignment explanation
Indices: 47624532--47624811 Score: 359
Period size: 124 Copynumber: 2.3 Consensus size: 124
47624522 CCACGAGGGC
* ** *
47624532 GCGATTTGACACCGTTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
1 GCGATTTCACACTATTTCCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
* * * * **
47624597 AAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
66 AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
* *
47624656 GCGATTTTATACTATTTCCTCAGAAAACGTCAAAAAAAATTATTT-CTCACATGACC-ACTGTAG
1 GCGATTTCACACTATTTCCTCAG-AAACGTCAAAAAAAATTATTTCCT-ACATGACCAACTGTAG
* *
47624719 CGAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAA
64 CGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
* * *
47624780 GTGATTTCCCACTATTTAAC-CAGAAACGTCAA
1 GCGATTTCACACTATTT-CCTCAGAAACGTCAA
47624812 CTCAAAAAAA
Statistics
Matches: 135, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
123 9 0.07
124 96 0.71
125 30 0.22
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (124 bp):
GCGATTTCACACTATTTCCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
Found at i:47633566 original size:3 final size:3
Alignment explanation
Indices: 47633558--47633583 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47633548 AAATTTACTC
47633558 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
47633584 TGGTAGAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:47634999 original size:24 final size:24
Alignment explanation
Indices: 47634966--47635012 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
47634956 ATAAAATATT
*
47634966 TAATTTTATATTAAA-AATAAAAAG
1 TAATTATATATTAAATAA-AAAAAG
47634990 TAATTATATATTAAATAAAAAAA
1 TAATTATATATTAAATAAAAAAA
47635013 CAAAATTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
TAATTATATATTAAATAAAAAAAG
Found at i:47636180 original size:11 final size:11
Alignment explanation
Indices: 47636164--47636199 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
47636154 ACGTCGTAGA
47636164 AAATTCAAATC
1 AAATTCAAATC
47636175 AAATTCAAATC
1 AAATTCAAATC
47636186 AAATTCAAATC
1 AAATTCAAATC
47636197 AAA
1 AAA
47636200 AAATAAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.58, C:0.17, G:0.00, T:0.25
Consensus pattern (11 bp):
AAATTCAAATC
Found at i:47637985 original size:31 final size:31
Alignment explanation
Indices: 47637947--47638012 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
47637937 AATGTAATTT
* * *
47637947 TTGGCCCTTGAACTTGACAAGTATGTTCACA
1 TTGGCCCTTAAACTTGACAACTAGGTTCACA
*
47637978 TTGGCCCTTAAACTTGACAACTAGGTTCACT
1 TTGGCCCTTAAACTTGACAACTAGGTTCACA
47638009 TTGG
1 TTGG
47638013 TACTTGTACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (31 bp):
TTGGCCCTTAAACTTGACAACTAGGTTCACA
Found at i:47646518 original size:48 final size:48
Alignment explanation
Indices: 47646465--47647376 Score: 1779
Period size: 48 Copynumber: 19.0 Consensus size: 48
47646455 TAGCCTGCTT
* *
47646465 CAGCACCCCAATTTTGACCAAAATCTTTTGCATTTTGACCAGGTCCAA
1 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
* *
47646513 TAGCACCCCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
1 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
47646561 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
1 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
47646609 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
1 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
47646657 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
1 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
47646705 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
1 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
47646753 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
1 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
47646801 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
1 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
47646849 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
1 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
47646897 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
1 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
47646945 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
1 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
47646993 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
1 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
47647041 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
1 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
47647089 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
1 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
47647137 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
1 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
47647185 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
1 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
47647233 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
1 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
47647281 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
1 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
*
47647329 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAGGTCCAA
1 CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
47647377 AGTAATTTTG
Statistics
Matches: 859, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 859 1.00
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.29
Consensus pattern (48 bp):
CAGCACACCAATTTTGACCAAAATCTTTTGCATTTTGACCAAGTCCAA
Found at i:47657528 original size:24 final size:24
Alignment explanation
Indices: 47657499--47657578 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
47657489 TAAATATGGA
* *
47657499 AATAAATAACAAATATTTTATACT
1 AATAAATATCAAATATATTATACT
*
47657523 AATAAATGTCAAATATATTATACT
1 AATAAATATCAAATATATTATACT
* * *
47657547 AATAATTGTTAAATATATTATACT
1 AATAAATATCAAATATATTATACT
47657571 AATAAATA
1 AATAAATA
47657579 CTAAATCTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.39
Consensus pattern (24 bp):
AATAAATATCAAATATATTATACT
Found at i:47662418 original size:43 final size:43
Alignment explanation
Indices: 47662371--47662569 Score: 285
Period size: 43 Copynumber: 4.6 Consensus size: 43
47662361 TTTTAGAAAT
*
47662371 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTTTCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTTCCAC
*
47662414 AAACGCCGCTATAGAACAAGACCTTTAGCGGCGCTTTTAT-CAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTT-TCCAC
* * *
47662457 AAACACCACTAAATAACAAGACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTTCCAC
** *
47662500 AAACGCTACTAAAGAACAAGACATTTAGCGGCGC-TTTTCCAGC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTTCCA-C
*
47662543 AAACGCCGCTAAAGAACATGACCTTTA
1 AAACGCCGCTAAAGAACAAGACCTTTA
47662570 AAAAAATATT
Statistics
Matches: 140, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
42 8 0.06
43 131 0.94
44 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTTCCAC
Found at i:47663268 original size:4 final size:4
Alignment explanation
Indices: 47663259--47663289 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
47663249 GGTATATTAG
47663259 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
47663290 TATCTATATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:47665180 original size:10 final size:10
Alignment explanation
Indices: 47665165--47665189 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
47665155 TCCTAACCGT
47665165 TAACTGCTGC
1 TAACTGCTGC
47665175 TAACTGCTGC
1 TAACTGCTGC
47665185 TAACT
1 TAACT
47665190 ACCTCAGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (10 bp):
TAACTGCTGC
Found at i:47669747 original size:10 final size:10
Alignment explanation
Indices: 47669732--47669766 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
47669722 TCCTAACCGT
47669732 TAACTGCTGC
1 TAACTGCTGC
47669742 TAACTGCTGC
1 TAACTGCTGC
*
47669752 TAACTACTGC
1 TAACTGCTGC
47669762 TAACT
1 TAACT
47669767 ACATCAGCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (10 bp):
TAACTGCTGC
Found at i:47671767 original size:17 final size:17
Alignment explanation
Indices: 47671742--47671786 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
47671732 GGATTTAAAG
*
47671742 TTTATGGGTTAGGTG-GA
1 TTTAGGGGTTAGG-GAGA
47671759 TTTAGGGGTTAGGGAGA
1 TTTAGGGGTTAGGGAGA
47671776 TTTAGGGGTTA
1 TTTAGGGGTTA
47671787 AGATTAGGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 1 0.04
17 25 0.96
ACGTcount: A:0.20, C:0.00, G:0.42, T:0.38
Consensus pattern (17 bp):
TTTAGGGGTTAGGGAGA
Found at i:47672517 original size:9 final size:9
Alignment explanation
Indices: 47672500--47672536 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
47672490 TGAGTTTTCA
47672500 AATTCGAAT
1 AATTCGAAT
*
47672509 AACTCGAAT
1 AATTCGAAT
47672518 AATTCGAAT
1 AATTCGAAT
47672527 AATTCGAAT
1 AATTCGAAT
47672536 A
1 A
47672537 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:47672784 original size:30 final size:31
Alignment explanation
Indices: 47672750--47672809 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
47672740 AAACCTTTTA
*
47672750 TTTTCTCCC-AAAATTTTTACTCCC-TCCCAC
1 TTTTC-CCCTAAAACTTTTACTCCCTTCCCAC
*
47672780 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
47672810 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 18 0.69
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:47675655 original size:22 final size:21
Alignment explanation
Indices: 47675605--47675655 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
47675595 CATATCTATA
**
47675605 TTATAAAAAATATGTTTGTAT
1 TTATAAAAAATATGTACGTAT
* *
47675626 GTACAAAAATATATGTACGTAT
1 TTATAAAAA-ATATGTACGTAT
47675648 TTATAAAA
1 TTATAAAA
47675656 GTTTTTAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.39
Consensus pattern (21 bp):
TTATAAAAAATATGTACGTAT
Found at i:47675723 original size:25 final size:24
Alignment explanation
Indices: 47675695--47675742 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
47675685 ATATGCGTAG
47675695 AAAT-ATAGAAATAATAAGTGATAAT
1 AAATAATA-AAATAATAA-TGATAAT
*
47675720 AAATAATATAATAATAATGATAA
1 AAATAATAAAATAATAATGATAA
47675743 AAGTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 12 0.57
26 3 0.14
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.29
Consensus pattern (24 bp):
AAATAATAAAATAATAATGATAAT
Found at i:47675732 original size:12 final size:12
Alignment explanation
Indices: 47675704--47675742 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
47675694 GAAATATAGA
47675704 AATAATAAGTGAT
1 AATAATAA-TGAT
47675717 AATAAATAAT-AT
1 AAT-AATAATGAT
47675729 AATAATAATGAT
1 AATAATAATGAT
47675741 AA
1 AA
47675743 AAGTAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.25
12 9 0.38
13 4 0.17
14 5 0.21
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (12 bp):
AATAATAATGAT
Found at i:47678845 original size:38 final size:39
Alignment explanation
Indices: 47678794--47678873 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 39
47678784 TAAAAAATTT
* *
47678794 TTAGGGGTTATGCTTTAAGGG-TTAGGGGGATTTAGGGG
1 TTAGGAGTTATGCTTTAAGGGCTAAGGGGGATTTAGGGG
47678832 TTAGGAGTTATGCTTTAAGGGCTAAGGGGGATTTAGGGG
1 TTAGGAGTTATGCTTTAAGGGCTAAGGGGGATTTAGGGG
47678871 TTA
1 TTA
47678874 TGGGTTAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 20 0.51
39 19 0.49
ACGTcount: A:0.21, C:0.04, G:0.41, T:0.34
Consensus pattern (39 bp):
TTAGGAGTTATGCTTTAAGGGCTAAGGGGGATTTAGGGG
Found at i:47681450 original size:23 final size:23
Alignment explanation
Indices: 47681389--47681452 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 23
47681379 CATTACTTAC
47681389 ATTAC-TTAC-TAAAATTTATA-
1 ATTACATTACTTAAAATTTATAT
47681409 ATTTACATTACTT--AA---ATAT
1 A-TTACATTACTTAAAATTTATAT
47681428 ATTACATTACTTAAAATTTATAT
1 ATTACATTACTTAAAATTTATAT
47681451 AT
1 AT
47681453 ATATTTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 15
0.70 0.00 0.30
Matches are distributed among these distances:
18 14 0.40
19 1 0.03
20 3 0.09
21 6 0.17
22 4 0.11
23 7 0.20
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTACATTACTTAAAATTTATAT
Found at i:47681603 original size:121 final size:121
Alignment explanation
Indices: 47681468--47681786 Score: 586
Period size: 121 Copynumber: 2.6 Consensus size: 121
47681458 TAAAATTTTT
* **
47681468 ATATATGGTATGGATATATAACTTATATTTTAATTTTATT-GTCAATAAATTTTATAATTTTAAA
1 ATATATGGTATGGATATATAACCTACCTTTTAATTTTATTAGT-AATAAATTTTATAATTTTAAA
47681532 AATAATTGTAAATGTTATTTTTTAAATATTAAAATCTATTTTTTAATATATCACCCC
65 AATAATTGTAAATGTTATTTTTTAAATATTAAAATCTATTTTTTAATATATCACCCC
47681589 ATATATGGTATGGATATATAACCTACCTTTTAATTTTATTAGTAATAAATTTTATAATTTTAAAA
1 ATATATGGTATGGATATATAACCTACCTTTTAATTTTATTAGTAATAAATTTTATAATTTTAAAA
47681654 ATAATTGTAAATGTTATTTTTTAAATATTAAAATCTATTTTTTAATATATCACCCC
66 ATAATTGTAAATGTTATTTTTTAAATATTAAAATCTATTTTTTAATATATCACCCC
47681710 ATATATGGTATGGATATATAACCTACCTTTTAATTTTATTAGTAATAAATTTTATAATTTTAAAA
1 ATATATGGTATGGATATATAACCTACCTTTTAATTTTATTAGTAATAAATTTTATAATTTTAAAA
*
47681775 ATAATTATAAAT
66 ATAATTGTAAAT
47681787 AATATACATA
Statistics
Matches: 193, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
121 191 0.99
122 2 0.01
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.47
Consensus pattern (121 bp):
ATATATGGTATGGATATATAACCTACCTTTTAATTTTATTAGTAATAAATTTTATAATTTTAAAA
ATAATTGTAAATGTTATTTTTTAAATATTAAAATCTATTTTTTAATATATCACCCC
Found at i:47681832 original size:12 final size:12
Alignment explanation
Indices: 47681815--47681843 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
47681805 ATACTTACAT
47681815 AACTTATATATA
1 AACTTATATATA
47681827 AACTTATATATA
1 AACTTATATATA
47681839 AACTT
1 AACTT
47681844 GCATAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (12 bp):
AACTTATATATA
Found at i:47681857 original size:9 final size:9
Alignment explanation
Indices: 47681839--47682447 Score: 216
Period size: 9 Copynumber: 70.4 Consensus size: 9
47681829 CTTATATATA
*
47681839 AACTTGCAT
1 AACTTACAT
47681848 AACTTACAT
1 AACTTACAT
*
47681857 AA-TAACATAAT
1 AACTTAC---AT
47681868 AACTTACAT
1 AACTTACAT
*
47681877 AA--TACAC
1 AACTTACAT
47681884 AACTTACAT
1 AACTTACAT
*
47681893 AACTTAAAT
1 AACTTACAT
47681902 AACTTACAT
1 AACTTACAT
*
47681911 -A-GTACAT
1 AACTTACAT
**
47681918 AACTTTGAT
1 AACTTACAT
47681927 AAC-TA-AT
1 AACTTACAT
* *
47681934 -ATTATACAC
1 AACT-TACAT
*
47681943 AAATTACAT
1 AACTTACAT
*
47681952 AACATACACTT
1 AACTTACA--T
*
47681963 AA-ATACAT
1 AACTTACAT
47681971 AACTTACAT
1 AACTTACAT
47681980 AACTTACAT
1 AACTTACAT
*
47681989 -A-GTACAT
1 AACTTACAT
47681996 AACTTACAT
1 AACTTACAT
*
47682005 AA--TACAC
1 AACTTACAT
47682012 AACTTA-ATT
1 AACTTACA-T
*
47682021 AATATTATACAT
1 -A-ACT-TACAT
*
47682033 AACATACAT
1 AACTTACAT
*
47682042 AA-TACACAT
1 AACT-TACAT
47682051 AACTTACAT
1 AACTTACAT
*
47682060 -A-GTACAT
1 AACTTACAT
*
47682067 AACATACACTT
1 AACTTACA--T
*
47682078 AA-ATACAT
1 AACTTACAT
47682086 AACTTACAT
1 AACTTACAT
*
47682095 -A-GTACAT
1 AACTTACAT
*
47682102 AACTAACAT
1 AACTTACAT
*
47682111 AA--TACAC
1 AACTTACAT
47682118 AACTTACAT
1 AACTTACAT
*
47682127 AACTTAAAT
1 AACTTACAT
47682136 AACTTACAT
1 AACTTACAT
*
47682145 ---TGTACAG
1 AACT-TACAT
**
47682152 AACTTTGAT
1 AACTTACAT
47682161 AAC-TA-AT
1 AACTTACAT
* *
47682168 -ATTATACAC
1 AACT-TACAT
*
47682177 AAATTACAT
1 AACTTACAT
*
47682186 AACATACACTT
1 AACTTACA--T
*
47682197 AA-ATACAT
1 AACTTACAT
47682205 AACTTACAT
1 AACTTACAT
47682214 AACTTACAT
1 AACTTACAT
*
47682223 -A-GTACAT
1 AACTTACAT
47682230 AACTTACAT
1 AACTTACAT
*
47682239 AA--TACAC
1 AACTTACAT
47682246 AACTTA-ATT
1 AACTTACA-T
*
47682255 AATATTATACAT
1 -A-ACT-TACAT
*
47682267 AACATACAT
1 AACTTACAT
47682276 AA--TACAT
1 AACTTACAT
*
47682283 AA-TACACAT
1 AACT-TACAT
47682292 AACTTACAT
1 AACTTACAT
*
47682301 -A-GTACAT
1 AACTTACAT
*
47682308 AACTAACAT
1 AACTTACAT
*
47682317 AA--TACAC
1 AACTTACAT
*
47682324 AACTTAAAT
1 AACTTACAT
*
47682333 AACTTAAAT
1 AACTTACAT
*
47682342 AAGTTACAT
1 AACTTACAT
*
47682351 AGCTTACAT
1 AACTTACAT
47682360 AA--TACAT
1 AACTTACAT
47682367 AACTTACAT
1 AACTTACAT
*
47682376 AACTTATAT
1 AACTTACAT
47682385 AA--TACAT
1 AACTTACAT
47682392 AACTTACAT
1 AACTTACAT
* *
47682401 AATTTACCT
1 AACTTACAT
47682410 AA--TACAT
1 AACTTACAT
* *
47682417 AA-ATATAT
1 AACTTACAT
* *
47682425 ATCATATCAT
1 AACTTA-CAT
47682435 AACTTACAT
1 AACTTACAT
47682444 AACT
1 AACT
47682448 CATTTATAGT
Statistics
Matches: 448, Mismatches: 83, Indels: 138
0.67 0.12 0.21
Matches are distributed among these distances:
6 3 0.01
7 92 0.21
8 37 0.08
9 254 0.57
10 32 0.07
11 19 0.04
12 9 0.02
13 2 0.00
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:47681916 original size:25 final size:25
Alignment explanation
Indices: 47681888--47682006 Score: 114
Period size: 25 Copynumber: 4.6 Consensus size: 25
47681878 ATACACAACT
*
47681888 TACATAACTTAAATAACTTACATAG
1 TACATAACTTACATAACTTACATAG
** * *
47681913 TACATAACTTTGATAACTAATATTA-
1 TACATAACTTACATAACTTACA-TAG
* * * *
47681938 TACACAAATTACATAACATACACTTAAA
1 TACATAACTTACATAACTTACA--T-AG
47681966 TACATAACTTACATAACTTACATAG
1 TACATAACTTACATAACTTACATAG
47681991 TACATAACTTACATAA
1 TACATAACTTACATAA
47682007 TACACAACTT
Statistics
Matches: 75, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
25 50 0.67
26 5 0.07
27 1 0.01
28 19 0.25
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.32
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAG
Found at i:47682060 original size:22 final size:22
Alignment explanation
Indices: 47682034--47682087 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
47682024 ATTATACATA
47682034 ACATACATAATACACATA-ACTT
1 ACATACATAATA-ACATACACTT
*
47682056 ACATA-GTACATAACATACACTT
1 ACATACATA-ATAACATACACTT
*
47682078 AAATACATAA
1 ACATACATAA
47682088 CTTACATAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
21 7 0.27
22 17 0.65
23 2 0.08
ACGTcount: A:0.52, C:0.20, G:0.02, T:0.26
Consensus pattern (22 bp):
ACATACATAATAACATACACTT
Found at i:47682237 original size:53 final size:53
Alignment explanation
Indices: 47682171--47682284 Score: 124
Period size: 53 Copynumber: 2.2 Consensus size: 53
47682161 AACTAATATT
* * * *
47682171 ATACACAAATTACATAACATAC-ACTTAAATACATAACT-TACATAACTTACATA
1 ATACATAACTTACATAACACACAACTTAAATA-AT-ACTATACATAACATACATA
* * * *
47682224 GTACATAACTTACATAATACACAACTTAATTAATATTATACATAACATACATA
1 ATACATAACTTACATAACACACAACTTAAATAATACTATACATAACATACATA
47682277 ATACATAA
1 ATACATAA
47682285 TACACATAAC
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
52 2 0.04
53 40 0.80
54 8 0.16
ACGTcount: A:0.51, C:0.18, G:0.01, T:0.30
Consensus pattern (53 bp):
ATACATAACTTACATAACACACAACTTAAATAATACTATACATAACATACATA
Found at i:47682367 original size:16 final size:16
Alignment explanation
Indices: 47682331--47682445 Score: 72
Period size: 16 Copynumber: 6.8 Consensus size: 16
47682321 CACAACTTAA
*
47682331 ATAACTTAAATAAGTTAC
1 ATAACTTACATAA--TAC
*
47682349 ATAGCTTACATAATAC
1 ATAACTTACATAATAC
*
47682365 ATAACTTACATAACTTAT
1 ATAACTTACATAA--TAC
47682383 ATAA--TACATAACTTAC
1 ATAACTTACATAA--TAC
* *
47682399 ATAATTTACCTAATAC
1 ATAACTTACATAATAC
* * *
47682415 ATAAATATATATCATATC
1 ATAACT-TACATAATA-C
47682433 ATAACTTACATAA
1 ATAACTTACATAA
47682446 CTCATTTATA
Statistics
Matches: 78, Mismatches: 13, Indels: 13
0.75 0.12 0.12
Matches are distributed among these distances:
16 38 0.49
17 11 0.14
18 29 0.37
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.35
Consensus pattern (16 bp):
ATAACTTACATAATAC
Found at i:47682402 original size:25 final size:26
Alignment explanation
Indices: 47681966--47682447 Score: 187
Period size: 25 Copynumber: 18.7 Consensus size: 26
47681956 TACACTTAAA
*
47681966 TACATAACTTACATAACTTACAT-AG
1 TACATAACTTACATAACTTACATAAT
*
47681991 TACATAACTTACATAA--TACACAACT
1 TACATAACTTACATAACTTACATAA-T
* *
47682016 TA-ATTAATATTATACATAACATACATAAT
1 TACA-T-A-ACT-TACATAACTTACATAAT
* * *
47682045 ACACATAACTTACAT-A-GTACATAACA
1 -TACATAACTTACATAACTTACATAA-T
* *
47682071 TACACTTAA-ATACATAACTTACAT-AG
1 TACA--TAACTTACATAACTTACATAAT
* *
47682097 TACATAACTAACATAA--TACACAACT
1 TACATAACTTACATAACTTACATAA-T
*
47682122 TACATAACTTAAATAACTTACAT--T
1 TACATAACTTACATAACTTACATAAT
* ** *
47682146 GTACAGAACTTTGATAAC-TA-ATATT
1 -TACATAACTTACATAACTTACATAAT
* * * *
47682171 ATACACAAATTACATAACATACACTTAAA
1 -TACATAACTTACATAACTTACA--TAAT
*
47682200 TACATAACTTACATAACTTACAT-AG
1 TACATAACTTACATAACTTACATAAT
*
47682225 TACATAACTTACATAA--TACACAACT
1 TACATAACTTACATAACTTACATAA-T
* *
47682250 TA-ATTAATATTATACATAACATACATAA-
1 TACA-T-A-ACT-TACATAACTTACATAAT
* *
47682278 TACATAA-TACACATAACTTACAT-AG
1 TACATAACT-TACATAACTTACATAAT
* *
47682303 TACATAACTAACATAA--TACACAACT
1 TACATAACTTACATAACTTACATAA-T
* * * *
47682328 TAAATAACTTAAATAAGTTACATAGCT
1 TACATAACTTACATAACTTACATA-AT
47682355 TACATAA--TACATAACTTACATAACT
1 TACATAACTTACATAACTTACATAA-T
*
47682380 TATATAA--TACATAACTTACATAATT
1 TACATAACTTACATAACTTACATAA-T
* * * *
47682405 TACCTAA--TACATAAATATATATCA-
1 TACATAACTTACATAACT-TACATAAT
47682429 TATCATAACTTACATAACT
1 TA-CATAACTTACATAACT
47682448 CATTTATAGT
Statistics
Matches: 349, Mismatches: 60, Indels: 94
0.69 0.12 0.19
Matches are distributed among these distances:
23 18 0.05
24 15 0.04
25 191 0.55
26 22 0.06
27 40 0.11
28 43 0.12
29 5 0.01
30 14 0.04
31 1 0.00
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.31
Consensus pattern (26 bp):
TACATAACTTACATAACTTACATAAT
Found at i:47682607 original size:28 final size:29
Alignment explanation
Indices: 47682566--47682624 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 29
47682556 ATACATAACT
*
47682566 TTTCAACTATTTTATATGTGCTGTT-TTA
1 TTTCAACTACTTTATATGTGCTGTTATTA
47682594 TTTCAACTACTTTATATGTGCTGTTATTA
1 TTTCAACTACTTTATATGTGCTGTTATTA
47682623 TT
1 TT
47682625 GTAATTAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 24 0.83
29 5 0.17
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.56
Consensus pattern (29 bp):
TTTCAACTACTTTATATGTGCTGTTATTA
Found at i:47684240 original size:21 final size:21
Alignment explanation
Indices: 47684206--47684276 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
47684196 CTACAACTTA
*
47684206 AAGCAGAGGCGGCAGTAAGGG
1 AAGCAGAGGCGGCAGTGAGGG
* * *
47684227 AAGCAAAGGTGGCAGCGAGGG
1 AAGCAGAGGCGGCAGTGAGGG
*
47684248 CAGCAGAGGCGGCAGTGAGGG
1 AAGCAGAGGCGGCAGTGAGGG
47684269 AAGCAGAG
1 AAGCAGAG
47684277 CAGAAAGTAC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.32, C:0.15, G:0.48, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGTGAGGG
Found at i:47684672 original size:43 final size:43
Alignment explanation
Indices: 47684618--47684819 Score: 241
Period size: 43 Copynumber: 4.7 Consensus size: 43
47684608 CATCAAACAA
* * *
47684618 TAGCGGCGTTTGTGAGGCAAGCGTCGCTAAAGAATATGAACTT
1 TAGCGGCGTTTGTGAGGAAAGCGCCGCTAAAGAACATGAACTT
*
47684661 TAGCGGCGTTTGTG-GGAAAAGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGAGG-AAAGCGCCGCTAAAGAACATGAACTT
* *
47684704 TAGCGGCGTTTGTGA-TAGATGCGCCGCTAAAGAACATG-ACTTT
1 TAGCGGCGTTTGTGAGGA-AAGCGCCGCTAAAGAACATGAAC-TT
* * **
47684747 TAGCGGCGTTTGTGGGGAAAACGCCGCTAAAGAACATGTTCTT
1 TAGCGGCGTTTGTGAGGAAAGCGCCGCTAAAGAACATGAACTT
*
47684790 TAGCGGCGTTTGTG-GGAGAAGCACCGCTAA
1 TAGCGGCGTTTGTGAGGA-AAGCGCCGCTAA
47684820 CTTTAGCGGC
Statistics
Matches: 138, Mismatches: 14, Indels: 14
0.83 0.08 0.08
Matches are distributed among these distances:
42 7 0.05
43 129 0.93
44 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAGGAAAGCGCCGCTAAAGAACATGAACTT
Found at i:47684817 original size:86 final size:86
Alignment explanation
Indices: 47684618--47684819 Score: 275
Period size: 86 Copynumber: 2.3 Consensus size: 86
47684608 CATCAAACAA
* * *
47684618 TAGCGGCGTTTGTGAGG-CAAGCGTCGCTAAAGAATATGAACTTTAGCGGCGTTTGTGGGAAAAG
1 TAGCGGCGTTTGTG-GGAGAAGCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTGTGGGAAAAG
47684682 CGCCGCTAAAGAACATGACCTT
65 CGCCGCTAAAGAACATGACCTT
** *
47684704 TAGCGGCGTTTGTGATAGATGCGCCGCTAAAGAACATG-ACTTTTAGCGGCGTTTGTGGGGAAAA
1 TAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGAACATGAAC-TTTAGCGGCGTTTGT-GGGAAAA
**
47684768 -CGCCGCTAAAGAACATGTTCTT
64 GCGCCGCTAAAGAACATGACCTT
*
47684790 TAGCGGCGTTTGTGGGAGAAGCACCGCTAA
1 TAGCGGCGTTTGTGGGAGAAGCGCCGCTAA
47684820 CTTTAGCGGC
Statistics
Matches: 101, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
85 2 0.02
86 92 0.91
87 7 0.07
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (86 bp):
TAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGAACATGAACTTTAGCGGCGTTTGTGGGAAAAGC
GCCGCTAAAGAACATGACCTT
Found at i:47684859 original size:33 final size:33
Alignment explanation
Indices: 47684788--47684860 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
47684778 GAACATGTTC
* * *
47684788 TTTAGCGGCGTTTGTGGGAGAAGCACCGCTAAC
1 TTTAGCGGCGTTTGTCGGAGAAACACCGCTAAA
* *
47684821 TTTAGCGGCGTTTGTCGGTGAAACGCCG-TAAA
1 TTTAGCGGCGTTTGTCGGAGAAACACCGCTAAA
47684853 TGTTAGCG
1 T-TTAGCG
47684861 CTGTTGACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 4 0.12
33 30 0.88
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.27
Consensus pattern (33 bp):
TTTAGCGGCGTTTGTCGGAGAAACACCGCTAAA
Found at i:47685030 original size:73 final size:73
Alignment explanation
Indices: 47684932--47685086 Score: 238
Period size: 73 Copynumber: 2.1 Consensus size: 73
47684922 TGGTGTAGTG
* * *
47684932 GCCGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTC
1 GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGAGGCGCTTTC
47684997 TTAAAATT
66 TTAAAATT
* *
47685005 GCCGTTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGTGCTTAGGTTTTTTTGAGGCGCTTTC
1 GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGAGGCGCTTTC
** *
47685070 CCAAAAAT
66 TTAAAATT
47685078 GCCGCTAAA
1 GCCGCTAAA
47685087 GCCTTGAGCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (73 bp):
GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGAGGCGCTTTC
TTAAAATT
Found at i:47685337 original size:114 final size:114
Alignment explanation
Indices: 47684986--47685768 Score: 1203
Period size: 114 Copynumber: 6.9 Consensus size: 114
47684976 AGGTTTTTTT
** *** * * * ** *
47684986 GCGGCGCTTTCTTAAAATTGCCGTTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGTGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCACAAAATCCCCGAAAGCTAAAAAAACGGCGTTATTGGGCTTAG
** * * *
47685051 GTTTTTTTGAGGCGCTTTCCCAAAAATGCCGCTAAAGCCTTGAGCATTA
66 GTTTTTTTGCTGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * * * * * **
47685100 GCGACACTTTCTTAAAAACGCTACTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCACAAAATCCCCGAAAGCTAAAAAAACGGCGTTATTGGGCTTAG
*
47685165 G-TTTTTTGC-GACGCTTTCTCAAAAACGCCGTTAAAGCCCTGAGCATTA
66 GTTTTTTTGCTG-CGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
47685213 GCGGCGCTTTCTTAAAAACGCCACAAAATCCCCGAAAGCTAAAAAAACGGCGTTATTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCACAAAATCCCCGAAAGCTAAAAAAACGGCGTTATTGGGCTTAG
47685278 GTTTTTTTGCTGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
66 GTTTTTTTGCTGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
47685327 GCGGCGCTTTCTTAAAAACGCCACAAAATCCCCGAAAGCTAAAAAAACGGCGTTATTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCACAAAATCCCCGAAAGCTAAAAAAACGGCGTTATTGGGCTTAG
47685392 GTTTTTTTGCTGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
66 GTTTTTTTGCTGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
47685441 GCGGCGCTTTCTTAAAAACGCCACAAAATCCCCGAAAGCTAAAAAAACGGCGTTATTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCACAAAATCCCCGAAAGCTAAAAAAACGGCGTTATTGGGCTTAG
47685506 GTTTTTTTGCTGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
66 GTTTTTTTGCTGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
47685555 GCGGCGCTTTCTTAAAAACGCCACAAAATCCCCGAAAGCTAAAAAAACGGCGTTATTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCACAAAATCCCCGAAAGCTAAAAAAACGGCGTTATTGGGCTTAG
47685620 GTTTTTTTGCTGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
66 GTTTTTTTGCTGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * * ** *
47685669 GCGGCGCTTTCTTAAAAACGCCACTAAATCCACGAAAGCT-CAGAAACAACGTCATTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCACAAAATCCCCGAAAGCTAAAAAAACGGCGTTATTGGGCTTAG
** * *
47685733 GTTTTTTTGAGGCGCTTTCTCAAAAATGCTGCTAAA
66 GTTTTTTTGCTGCGCTTTCTCAAAAACGCCGCTAAA
47685769 TCCTCGAAAG
Statistics
Matches: 632, Mismatches: 34, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
112 1 0.00
113 148 0.23
114 482 0.76
115 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (114 bp):
GCGGCGCTTTCTTAAAAACGCCACAAAATCCCCGAAAGCTAAAAAAACGGCGTTATTGGGCTTAG
GTTTTTTTGCTGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:47688936 original size:28 final size:28
Alignment explanation
Indices: 47688896--47688956 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
47688886 AACAGGACAA
*
47688896 AAAGTAGTTTGTTTCAAAAGATCGGAAG
1 AAAGTAGTTTGTTTCAAAAGATCAGAAG
*
47688924 AAAGTNGTTTGTTTCAAAAGATCAGAAG
1 AAAGTAGTTTGTTTCAAAAGATCAGAAG
47688952 AAAGT
1 AAAGT
47688957 CTAGTTTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.28
Consensus pattern (28 bp):
AAAGTAGTTTGTTTCAAAAGATCAGAAG
Found at i:47704958 original size:30 final size:30
Alignment explanation
Indices: 47704924--47704985 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
47704914 ACTTATGTTA
*
47704924 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
47704954 TTGTTAATTTTGTTATTGTTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
47704984 TT
1 TT
47704986 TCTTGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.24, C:0.03, G:0.15, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:47709451 original size:44 final size:44
Alignment explanation
Indices: 47709402--47709535 Score: 119
Period size: 44 Copynumber: 3.1 Consensus size: 44
47709392 CTTCGATCTG
*
47709402 CTCCACTAATGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
* * * * ** * * ** *
47709446 CTCCACTGCTGCTCAGGGAGACAAG-GCTAG-GGTCTTCGATTTG
1 CTCCACTACTGCTTAGGGAGATAAGATCT-GTAATTTTCAACCTA
* *
47709489 CTCCACTACTACTTAGGGAGATAAGATCTATAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
47709533 CTC
1 CTC
47709536 TATTGTTGCT
Statistics
Matches: 62, Mismatches: 25, Indels: 6
0.67 0.27 0.06
Matches are distributed among these distances:
43 29 0.47
44 33 0.53
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
Found at i:47709495 original size:87 final size:87
Alignment explanation
Indices: 47709390--47709636 Score: 288
Period size: 87 Copynumber: 2.8 Consensus size: 87
47709380 AAAATTCGCT
* *
47709390 GTCTTCGATCTGCTCCACTAATGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGC
1 GTCTTCGATTTGCTCCACTAATACTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGC
47709455 TGCTCAGGGAGACAAGGCTAGG
66 TGCTCAGGGAGACAAGGCTAGG
* * * * *
47709477 GTCTTCGATTTGCTCCACTACTACTTAGGGAGATAAGATCTATAATTTTCAACCTACTCTATTGT
1 GTCTTCGATTTGCTCCACTAATACTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGC
* * *
47709542 TGCTCATGGAGATAAGGCTGGG
66 TGCTCAGGGAGACAAGGCTAGG
* * *
47709564 GTCTTCGATCTATTTAGCTGC-C-AATAC--AGGAAGACAAGATCTGCT-ATTTTCAACCTACTC
1 GTCTTCG----ATTT-GCTCCACTAATACTTAGGGAGATAAGATCTG-TAATTTTCAACCTACTC
47709624 CACTGCTGCTCAG
60 CACTGCTGCTCAG
47709637 AAAGACTGCT
Statistics
Matches: 135, Mismatches: 19, Indels: 11
0.82 0.12 0.07
Matches are distributed among these distances:
87 84 0.62
88 37 0.27
89 1 0.01
90 4 0.03
91 5 0.04
92 4 0.03
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (87 bp):
GTCTTCGATTTGCTCCACTAATACTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGC
TGCTCAGGGAGACAAGGCTAGG
Found at i:47709711 original size:44 final size:44
Alignment explanation
Indices: 47709663--47709969 Score: 135
Period size: 44 Copynumber: 7.1 Consensus size: 44
47709653 CTACTTACGG
*
47709663 AGATAAGATCTGTAATTTTTAACCTTCTCCACTGCTGCTCAGGA
1 AGATAAGATCTGTAATTTTCAACCTTCTCCACTGCTGCTCAGGA
* *** * * * * * * *
47709707 AGATAAG-GCTGGGGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATCTGTAATTTTCAACCTTCTCCACTGCTGCTCAGGA
*
47709750 AGATAAGATCTGTAATTTTCAACCTAT-TCCACTGCTACTCAGGGA
1 AGATAAGATCTGTAATTTTCAACCT-TCTCCACTGCTGCTCA-GGA
* * ** * * * * * * *
47709795 A-ACAAG-GCTAG-GGTCTTCGA-TTTGCTCCACTACTACTTAGGG
1 AGATAAGATCT-GTAATTTTCAACCTT-CTCCACTGCTGCTCAGGA
* * * * *
47709837 AGATAATATCTGTAATTTTTAACCTACTCCACTACTGCT-AGGG
1 AGATAAGATCTGTAATTTTCAACCTTCTCCACTGCTGCTCAGGA
* * *** * * * * * * *
47709880 AGACAAG-GCTGGGGTCTTCGATCTACTCCACTACTGCTTAGGG
1 AGATAAGATCTGTAATTTTCAACCTTCTCCACTGCTGCTCAGGA
* *
47709923 AGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGAA
1 AGATAAGATCTGTAATTTTCAACCTTCTCCACTGCTGCTCAGGA
47709967 AGA
1 AGA
47709970 CTGCTCCACT
Statistics
Matches: 184, Mismatches: 67, Indels: 24
0.67 0.24 0.09
Matches are distributed among these distances:
41 1 0.01
42 27 0.15
43 73 0.40
44 79 0.43
45 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
AGATAAGATCTGTAATTTTCAACCTTCTCCACTGCTGCTCAGGA
Found at i:47709744 original size:43 final size:43
Alignment explanation
Indices: 47709689--47709929 Score: 178
Period size: 43 Copynumber: 5.6 Consensus size: 43
47709679 TTTTAACCTT
* * * *
47709689 CTCCACTGCTGCTCAGGAAGATAAGGCTGGGGTCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGGCTGGGGTCTTCGATCTA
* *** * * *
47709732 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAG-GCTGGGGTCTTCGATCTA
* * * * * * * * *
47709776 TTCCACTGCTACTCAGGGAAACAAGGCTAGGGTCTTCGATTTG
1 CTCCACTACTGCTTAGGGAGATAAGGCTGGGGTCTTCGATCTA
* ** *** * ** *
47709819 CTCCACTACTACTTAGGGAGATAATATCTGTAATTTTTAACCTA
1 CTCCACTACTGCTTAGGGAGATAA-GGCTGGGGTCTTCGATCTA
*
47709863 CTCCACTACTGC-TAGGGAGACAAGGCTGGGGTCTTCGATCTA
1 CTCCACTACTGCTTAGGGAGATAAGGCTGGGGTCTTCGATCTA
47709905 CTCCACTACTGCTTAGGGAGATAAG
1 CTCCACTACTGCTTAGGGAGATAAG
47709930 ATCTGTAATT
Statistics
Matches: 139, Mismatches: 56, Indels: 6
0.69 0.28 0.03
Matches are distributed among these distances:
42 22 0.16
43 70 0.50
44 47 0.34
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (43 bp):
CTCCACTACTGCTTAGGGAGATAAGGCTGGGGTCTTCGATCTA
Found at i:47709791 original size:87 final size:87
Alignment explanation
Indices: 47709642--47709970 Score: 491
Period size: 87 Copynumber: 3.8 Consensus size: 87
47709632 CTCAGAAAGA
* * *
47709642 CTGCTCCACTACTACTTACGGAGATAAGATCTGTAATTTTTAACCTTCTCCACTGCTGCTCAGGA
1 CTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
*
47709707 AGATAAGGCTGGGGTCTTCGAT
66 AGACAAGGCTGGGGTCTTCGAT
* * *
47709729 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTATTCCACTGCTACTCAGGG
1 CTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCA-GG
*
47709794 AA-ACAAGGCTAGGGTCTTCGAT
65 AAGACAAGGCTGGGGTCTTCGAT
* * * * *
47709816 TTGCTCCACTACTACTTAGGGAGATAATATCTGTAATTTTTAACCTACTCCACTACTGCT-AGGG
1 CTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
47709880 AGACAAGGCTGGGGTCTTCGAT
66 AGACAAGGCTGGGGTCTTCGAT
* * *
47709902 CTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGAA
1 CTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
47709967 AGAC
66 AGAC
47709971 TGCTCCACTA
Statistics
Matches: 214, Mismatches: 25, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
85 3 0.01
86 74 0.35
87 133 0.62
88 4 0.02
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (87 bp):
CTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGA
AGACAAGGCTGGGGTCTTCGAT
Found at i:47710015 original size:68 final size:68
Alignment explanation
Indices: 47709905--47710038 Score: 214
Period size: 68 Copynumber: 2.0 Consensus size: 68
47709895 CTTCGATCTA
* * *
47709905 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGAAAGA
1 CTCCACTACTACTTACGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTACTCAGAAAGA
47709970 CTG
66 CTG
* * *
47709973 CTCCACTACTACTTACGGAGATAAGATCTGTAATTTTTAACCTTCTCCACTGCTACTCAGGAAGA
1 CTCCACTACTACTTACGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTACTCAGAAAGA
47710038 C
66 C
47710039 AAGGCTGGGG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 60 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (68 bp):
CTCCACTACTACTTACGGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTACTCAGAAAGA
CTG
Found at i:47710152 original size:19 final size:19
Alignment explanation
Indices: 47710128--47710166 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
47710118 CAAGGAGACA
*
47710128 AGGCTGGGGTCTTCGATCT
1 AGGCTGAGGTCTTCGATCT
47710147 AGGCTGAGGTCTTCGATCT
1 AGGCTGAGGTCTTCGATCT
47710166 A
1 A
47710167 CTTCGCTGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.21, G:0.33, T:0.31
Consensus pattern (19 bp):
AGGCTGAGGTCTTCGATCT
Found at i:47710300 original size:87 final size:87
Alignment explanation
Indices: 47710184--47711625 Score: 2296
Period size: 87 Copynumber: 16.6 Consensus size: 87
47710174 GCCCACACAA
* * * * *
47710184 GGAGATAAGATCTGTAATTTTTAATCTACTCCACTACTGCCCAGGAAGACAAGGCTGGGGTCTTC
1 GGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTC
47710249 GATCTGCTCCACTACTGCTTAG
66 GATCTGCTCCACTACTGCTTAG
* * * *
47710271 GGAGATAAGATCTATAATTTTCAACCTACTCCACTGCTACTCAGGGAGACAAGGTTGGGGTCTTT
1 GGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTC
47710336 GATCTGCTCCACTACTGCTTAG
66 GATCTGCTCCACTACTGCTTAG
* *
47710358 GGAGATAAGATCTGTAATTTTTAACCTACTCCACTACTGCT-AGGGAGACAAGGCTGGGGTCTTC
1 GGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTC
47710422 GATCTGCTCCACTACTGCTTAG
66 GATCTGCTCCACTACTGCTTAG
* * *
47710444 GGAGATAAGATCTATAATTTTTCAGCCTACTCCACTGCTGCTCAAGGAGACAAGGCTGGGGTCTT
1 GGAGATAAGATCTGTAA-TTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTT
*
47710509 CGATCTGCTCCACTACTGCTTAA
65 CGATCTGCTCCACTACTGCTTAG
* * *
47710532 GGAGATAAGATTTGTAATTTTCAACCTACTCCACTGCTGCTTAGGGAGATAAGGCTGGGGTCTTC
1 GGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTC
*
47710597 GATCTGCTCCACTACTGCTTAA
66 GATCTGCTCCACTACTGCTTAG
* * *
47710619 GGAGATAAGATTTGTAATTTTCAACCTACTCCACTGCTGCTTAGGGAGATAAGGCTGGGGTCTTC
1 GGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTC
*
47710684 GATCTGCTCCACTACTGCTTAA
66 GATCTGCTCCACTACTGCTTAG
* * *
47710706 GGAGATAAGATTTGTAATTTTCAACCTACTCCACTGCTGCTTAGGGAGATAAGGCTGGGGTCTTC
1 GGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTC
*
47710771 GATCTGCTCCACTACTGCTTAA
66 GATCTGCTCCACTACTGCTTAG
* * *
47710793 GGAGATAAGATTTGTAATTTTCAACCTACTCCACTGCTGCTTAGGGAGATAAGGCTGGGGTCTTC
1 GGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTC
47710858 GATCTGCTCCACTACTGCTTAG
66 GATCTGCTCCACTACTGCTTAG
* ** * *
47710880 GGAGATAAGATCTATAATTTTCAACCTACTCCACTGCTATTCAGGGAGACAAGGTTGGGGTCTTT
1 GGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTC
*
47710945 GATCTGCTCCACTACTACTTAG
66 GATCTGCTCCACTACTGCTTAG
*
47710967 GGAGATAAGATCTGTAATTTTCAACCTACTCCACTACTGCT-AGGGAGACAAGGCTGGGGTCTTC
1 GGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTC
*
47711031 GATCTACTCCACTACTGCTTAG
66 GATCTGCTCCACTACTGCTTAG
* * * *
47711053 GGAGATAAGATCTATAATTTTCAACCTACTCCACTGCTACTCAGGGAGACAAGGTTGGGGTCTTT
1 GGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTC
47711118 GATCTGCTCCACTACTGCTTAG
66 GATCTGCTCCACTACTGCTTAG
* * * *
47711140 GGAGATAAGATCTATAATTTTCAACCTACTCCACTGCTACTCAGGGAGACAAGGTTGGGGTCTTT
1 GGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTC
47711205 GATCTGCTCCACTACTGCTTAG
66 GATCTGCTCCACTACTGCTTAG
* * * *
47711227 GGAGATAAGATCTATAATTTTCAACCTACTCCACTGCTACTCAGGGAGACAAGGTTGGGGTCTTT
1 GGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTC
*
47711292 GATCTGCTCCACTACTACTTAG
66 GATCTGCTCCACTACTGCTTAG
* *
47711314 GGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTTAGGGAGATAAGGCTGGGGTCTTC
1 GGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTC
47711379 GATCTGCTCCACTACTGCTTAG
66 GATCTGCTCCACTACTGCTTAG
* *
47711401 GGAGATAAGATCTGTAATTTTTCAGCCTACTCCATTGCTGCTCAGGGAGACAAGGCTGGGGTCTT
1 GGAGATAAGATCTGTAA-TTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTT
47711466 CGATCTGCTCCACTACTGCTTAG
65 CGATCTGCTCCACTACTGCTTAG
* *
47711489 GGAGATAAGATCTGTAATTTTTCAGCCTACTCCATTGCTGCTCAGGGAGACAAGGCTGGGGTCTT
1 GGAGATAAGATCTGTAA-TTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTT
47711554 CGATCTGCTCCACTACTGCTTAG
65 CGATCTGCTCCACTACTGCTTAG
* *
47711577 GGAGATAAGATCTGTAATTTTCAACCTATTCCACTACTG-TCCAGGGAGA
1 GGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCT-CAGGGAGA
47711626 TAGGACTTAT
Statistics
Matches: 1283, Mismatches: 67, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
86 139 0.11
87 915 0.71
88 229 0.18
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (87 bp):
GGAGATAAGATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGGGTCTTC
GATCTGCTCCACTACTGCTTAG
Found at i:47711744 original size:88 final size:88
Alignment explanation
Indices: 47711575--47711764 Score: 276
Period size: 88 Copynumber: 2.2 Consensus size: 88
47711565 ACTACTGCTT
* *
47711575 AGGGAGATAAGA-TCTGTAAT-TTTCAACCTATTCCACTACTGTCCAGGGAGATAGGACTTATAA
1 AGGGAGATAAGACTCAG-AATCTTT-AACCTATTCCACTACTGTCCAGGGAGATAGGACTTACAA
* *
47711638 TTTTTAACCTATTCCACTGCTGTCC
64 TCTTCAACCTATTCCACTGCTGTCC
* * *
47711663 AGGGAGATAGGACTCAGAATCTTTAACCTATTCCACTGCTGTCTAGGGAGATAGGACTTACAATC
1 AGGGAGATAAGACTCAGAATCTTTAACCTATTCCACTACTGTCCAGGGAGATAGGACTTACAATC
*
47711728 TTCAACCTATTCCACTGTTGTCC
66 TTCAACCTATTCCACTGCTGTCC
47711751 AGGGAGATAAGACT
1 AGGGAGATAAGACT
47711765 AGTATTTTTG
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
88 85 0.93
89 6 0.07
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (88 bp):
AGGGAGATAAGACTCAGAATCTTTAACCTATTCCACTACTGTCCAGGGAGATAGGACTTACAATC
TTCAACCTATTCCACTGCTGTCC
Found at i:47714106 original size:16 final size:16
Alignment explanation
Indices: 47714065--47714115 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
47714055 TGACTTTGAT
47714065 TTTTCTTT-TTTATTTC
1 TTTTCTTTCTTT-TTTC
*
47714081 GTTTT-GTTCTTTTTTC
1 -TTTTCTTTCTTTTTTC
47714097 TTTTCTTTCTTTTTT-
1 TTTTCTTTCTTTTTTC
47714112 TTTT
1 TTTT
47714116 GTGAAATTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
15 8 0.27
16 15 0.50
17 7 0.23
ACGTcount: A:0.02, C:0.12, G:0.04, T:0.82
Consensus pattern (16 bp):
TTTTCTTTCTTTTTTC
Found at i:47715226 original size:24 final size:25
Alignment explanation
Indices: 47715189--47715253 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
47715179 AAGAAAGTCC
*
47715189 AAAAGAATGAAAGAATAATTATTCA
1 AAAAGAATGAAAGAATAATTACTCA
* *
47715214 AAAAGAATG-AAGAATATTTGCTCA
1 AAAAGAATGAAAGAATAATTACTCA
47715238 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
47715254 TGTATTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 16 0.47
25 14 0.41
27 4 0.12
ACGTcount: A:0.57, C:0.06, G:0.15, T:0.22
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:47718311 original size:17 final size:18
Alignment explanation
Indices: 47718289--47718322 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47718279 TAATGAAAGT
47718289 TATATAT-GTATAAAATA
1 TATATATAGTATAAAATA
*
47718306 TATATATAGTTTAAAAT
1 TATATATAGTATAAAAT
47718323 TAAATAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (18 bp):
TATATATAGTATAAAATA
Found at i:47718454 original size:13 final size:13
Alignment explanation
Indices: 47718438--47718473 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
47718428 CAAATATAAT
*
47718438 AATAACAATAAAA
1 AATAATAATAAAA
*
47718451 AATAGTAATAAAA
1 AATAATAATAAAA
47718464 AATAATAATA
1 AATAATAATA
47718474 GTAAATTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (13 bp):
AATAATAATAAAA
Found at i:47719379 original size:41 final size:41
Alignment explanation
Indices: 47719315--47719399 Score: 134
Period size: 41 Copynumber: 2.1 Consensus size: 41
47719305 GTGTAAACAA
* *
47719315 GGGCACGTATGTGCTATTCAGGGGTACCGAAGTACAAATAG
1 GGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAATAG
* *
47719356 GGGCACGTATGTGCAATTTAGGGGTATCAAAGTACAAATAG
1 GGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAATAG
47719397 GGG
1 GGG
47719400 ATAATTCAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.22
Consensus pattern (41 bp):
GGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAATAG
Found at i:47721555 original size:37 final size:39
Alignment explanation
Indices: 47721472--47721564 Score: 118
Period size: 37 Copynumber: 2.4 Consensus size: 39
47721462 TACTTTCATG
*
47721472 TTATTTAAAAAACAATTAAAAAATTAGTACAACTATTTTTA
1 TTATTTAAAAAA-AATAAAAAAATTAGTA-AACTATTTTTA
**
47721513 TTATTTAAAAAAAATAAAAAAATTA-T-ATTTATTTTTA
1 TTATTTAAAAAAAATAAAAAAATTAGTAAACTATTTTTA
*
47721550 TTATTTTAAAAAAAT
1 TTATTTAAAAAAAAT
47721565 TTCACACAGT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
37 23 0.48
39 1 0.02
40 12 0.25
41 12 0.25
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (39 bp):
TTATTTAAAAAAAATAAAAAAATTAGTAAACTATTTTTA
Found at i:47722657 original size:15 final size:15
Alignment explanation
Indices: 47722639--47722683 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
47722629 ATCTTTTATT
*
47722639 TTATTATTTTATTTA
1 TTATTATTTGATTTA
*
47722654 TTATTATTTGGTTTA
1 TTATTATTTGATTTA
*
47722669 TTATTATTAGATTTA
1 TTATTATTTGATTTA
47722684 GTTTATTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
TTATTATTTGATTTA
Found at i:47722687 original size:20 final size:19
Alignment explanation
Indices: 47722646--47722696 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
47722636 ATTTTATTAT
*
47722646 TTTATTTATTATT-ATTTGG
1 TTTA-TTATTATTAATTTAG
47722665 TTTATTATTATTAGATTTAG
1 TTTATTATTATTA-ATTTAG
47722685 TTTATTA-TATTA
1 TTTATTATTATTA
47722697 TTGTTACTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 8 0.28
19 9 0.31
20 12 0.41
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (19 bp):
TTTATTATTATTAATTTAG
Found at i:47723519 original size:6 final size:7
Alignment explanation
Indices: 47723488--47723518 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
47723478 TAGAGATTTA
47723488 TTTTAAT
1 TTTTAAT
47723495 TTTTAAT
1 TTTTAAT
47723502 TTTTAAT
1 TTTTAAT
47723509 TTTTAAT
1 TTTTAAT
47723516 TTT
1 TTT
47723519 ATAAATTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTAAT
Found at i:47729138 original size:60 final size:60
Alignment explanation
Indices: 47729029--47729141 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 60
47729019 TTTACTAGTA
* ** * *
47729029 GTCATCCAACTATTAGTGAATTTCTTTTTTGATTACACAACTATAAAAAGTTAGTAAAAG
1 GTCACCCAACTATTAGAAAATTTCTTTTTTAATCACACAACTATAAAAAGTTAGTAAAAG
* * *
47729089 GTCACCCAACTATTAGAAAATTTCTTTTTTAATCACCCAAGTATGAAAAGTTA
1 GTCACCCAACTATTAGAAAATTTCTTTTTTAATCACACAACTATAAAAAGTTA
47729142 CAAATGGTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (60 bp):
GTCACCCAACTATTAGAAAATTTCTTTTTTAATCACACAACTATAAAAAGTTAGTAAAAG
Found at i:47729814 original size:114 final size:111
Alignment explanation
Indices: 47729511--47729858 Score: 435
Period size: 113 Copynumber: 3.1 Consensus size: 111
47729501 AGCATTAACA
* *
47729511 GCGTTTTACAAAAAGCGCCGCAATAGAGTCACACAGAACGACGCCGTTTTCATATAGTTGGGAAC
1 GCGTTTTACAAAAA-CGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
* *
47729576 ATTAGTGGCGGTTATTTCCAAGCGCCGCTAAAACTCCGTTCTACAGCG
65 ATTAGTGGCGGTT-TTCCCAAGCGCCGCTAATACTCCGTTCTACAGCG
* * * * *
47729624 GCGTTTTATACAAAGCGCCGCAATGGAGTAATACAGAACGACGCCGTTTTCATATATCTGGGAAC
1 GCGTTTTACA-AAAACGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
* *
47729689 ATTAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCATTCTTCAGCG
65 ATTAGTGGCGGTTTT-CCCAAGCGCCGCTAATACTCCGTTCTACAGCG
* * * * * *
47729737 ACGTTTTACAAAATACGTCGCAAATACAGTAACACAGAACGACGCTGTTTTCGTATATTTTGGAA
1 GCGTTTTACAAAA-ACGCCGC-AATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAA
* * * *
47729802 CACTAGTGGCGGTATTTTCCCAAACACCGCTAATAATCCGTTCTACAGCG
64 CATTAGTGGCGG--TTTTCCCAAGCGCCGCTAATACTCCGTTCTACAGCG
47729852 GCGTTTT
1 GCGTTTT
47729859 GCGTTAAGCG
Statistics
Matches: 200, Mismatches: 29, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
112 5 0.03
113 108 0.54
114 50 0.25
115 33 0.17
116 4 0.02
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (111 bp):
GCGTTTTACAAAAACGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAACA
TTAGTGGCGGTTTTCCCAAGCGCCGCTAATACTCCGTTCTACAGCG
Found at i:47730017 original size:41 final size:40
Alignment explanation
Indices: 47729967--47730081 Score: 122
Period size: 41 Copynumber: 2.8 Consensus size: 40
47729957 GATGCTCCGC
* *
47729967 TCTAAAGCGGCGTTTATGGAGAATCGCCGCTAAATTTTCGG
1 TCTATAGCGGCGTTTATGGAGAA-CGCCGCTAAATCTTCGG
** * *
47730008 TCTATAGCGGCGTTCCTGGAGAAGCGCCGGTAAATCTTGGG
1 TCTATAGCGGCGTTTATGGAGAA-CGCCGCTAAATCTTCGG
* * *
47730049 TCGATAGCGGCGTTTGTGTAAGAACGCCGCTAA
1 TCTATAGCGGCGTTTATG-GAGAACGCCGCTAA
47730082 TTAGGAATAG
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 57 0.93
42 4 0.07
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
TCTATAGCGGCGTTTATGGAGAACGCCGCTAAATCTTCGG
Found at i:47732145 original size:16 final size:16
Alignment explanation
Indices: 47732121--47732151 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47732111 ATTTTCCCTA
47732121 TTCTAAAATCCCTAAG
1 TTCTAAAATCCCTAAG
*
47732137 TTCTGAAATCCCTAA
1 TTCTAAAATCCCTAA
47732152 CTCATAAACG
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:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (16 bp):
TTCTAAAATCCCTAAG
Found at i:47734506 original size:50 final size:50
Alignment explanation
Indices: 47734448--47734546 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
47734438 AATGTATTCA
*
47734448 AGGTTATATTTTAAAACATCTTTGATATATATTTTTTATATTAAAAAAAT
1 AGGTTATATTTTAAAACATCTTTGATATATATATTTTATATTAAAAAAAT
47734498 AGGTTATATTTTAAAACATCTTTGATATATATATTTTATATTAAAAAAA
1 AGGTTATATTTTAAAACATCTTTGATATATATATTTTATATTAAAAAAA
47734547 ATATACTTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.46
Consensus pattern (50 bp):
AGGTTATATTTTAAAACATCTTTGATATATATATTTTATATTAAAAAAAT
Found at i:47734785 original size:35 final size:37
Alignment explanation
Indices: 47734745--47734830 Score: 140
Period size: 35 Copynumber: 2.4 Consensus size: 37
47734735 ATACACAGTT
47734745 TTAATAACTTACAACTTACATAACATACATAA-TACA
1 TTAATAACTTACAACTTACATAACATACATAACTACA
47734781 -TAATAACTTACAACTTACATAACATACATAACTTACA
1 TTAATAACTTACAACTTACATAACATACATAAC-TACA
*
47734818 TTCATAACTTACA
1 TTAATAACTTACA
47734831 TAAACTTATA
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
35 31 0.67
37 4 0.09
38 11 0.24
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (37 bp):
TTAATAACTTACAACTTACATAACATACATAACTACA
Found at i:47734823 original size:13 final size:13
Alignment explanation
Indices: 47734767--47734832 Score: 61
Period size: 13 Copynumber: 5.4 Consensus size: 13
47734757 AACTTACATA
47734767 ACATACATAA--T
1 ACATACATAACTT
47734778 ACATA-ATAACTT
1 ACATACATAACTT
* *
47734790 ACA-AC-TTACATA
1 ACATACATAAC-TT
47734802 ACATACATAACTT
1 ACATACATAACTT
*
47734815 ACATTCATAACTT
1 ACATACATAACTT
47734828 ACATA
1 ACATA
47734833 AACTTATATG
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
10 4 0.09
11 9 0.21
12 8 0.19
13 19 0.44
14 3 0.07
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.30
Consensus pattern (13 bp):
ACATACATAACTT
Found at i:47734833 original size:9 final size:9
Alignment explanation
Indices: 47734748--47734818 Score: 62
Period size: 9 Copynumber: 8.2 Consensus size: 9
47734738 CACAGTTTTA
47734748 ATAACTTAC
1 ATAACTTAC
47734757 --AACTTAC
1 ATAACTTAC
*
47734764 ATAACATAC
1 ATAACTTAC
*
47734773 ATAATACATA-
1 AT-A-ACTTAC
47734783 ATAACTTAC
1 ATAACTTAC
47734792 --AACTTAC
1 ATAACTTAC
*
47734799 ATAACATAC
1 ATAACTTAC
47734808 ATAACTTAC
1 ATAACTTAC
47734817 AT
1 AT
47734819 TCATAACTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
7 14 0.27
8 4 0.08
9 25 0.49
10 3 0.06
11 5 0.10
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (9 bp):
ATAACTTAC
Found at i:47735003 original size:60 final size:59
Alignment explanation
Indices: 47734915--47735056 Score: 194
Period size: 60 Copynumber: 2.3 Consensus size: 59
47734905 ATACATTTAC
* ** * *
47734915 TTACATAATACATAATAACTTACAACTTACATAACATACATTAATTTTTTAAACTTATAGAAG
1 TTACATAATAC---ATAACTTACAACTTACATAACATACATTAATATGAT-AACCTACAGAAG
*
47734978 TTACATAATACATAACTTACAACTTACATAACATACATTAATATGATAACCTACATAAG
1 TTACATAATACATAACTTACAACTTACATAACATACATTAATATGATAACCTACAGAAG
47735037 TTACATAATACATAACTTAC
1 TTACATAATACATAACTTAC
47735057 CACTGAACAA
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
59 29 0.40
60 33 0.45
63 11 0.15
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (59 bp):
TTACATAATACATAACTTACAACTTACATAACATACATTAATATGATAACCTACAGAAG
Done.