Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 210 of 211
Found at i:62146171 original size:17 final size:16
Alignment explanation
Indices: 62146105--62146194 Score: 67
Period size: 17 Copynumber: 5.2 Consensus size: 16
62146095 AGAAAGAAAA
62146105 AGAAAGAAAAGGAAAGG
1 AGAAA-AAAAGGAAAGG
* *
62146122 AGAGGAAAGAAAGAAAAAGA
1 AGA--AAA-AAAG-GAAAGG
62146142 AGGAAAGAAAAGGAAAGG
1 A-GAAA-AAAAGGAAAGG
62146160 AGAAAAAGAAGGAAA-G
1 AGAAAAA-AAGGAAAGG
*
62146176 A-AAGAAAAGGAAAGG
1 AGAAAAAAAGGAAAGG
62146191 AGAA
1 AGAA
62146195 GAGAAAAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 19
0.71 0.06 0.23
Matches are distributed among these distances:
14 7 0.12
15 6 0.10
16 6 0.10
17 14 0.24
18 6 0.10
19 12 0.20
20 6 0.10
21 2 0.03
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (16 bp):
AGAAAAAAAGGAAAGG
Found at i:62146183 original size:69 final size:71
Alignment explanation
Indices: 62146093--62146250 Score: 198
Period size: 69 Copynumber: 2.2 Consensus size: 71
62146083 AGAAAGAAAG
* *
62146093 AAAGAAAGAAAAAGAAAGAAAAGGAAAGGAGAGGA-AAGAAAGAAAAAGAAGGA-AAGAAAAGGA
1 AAAGAAAG--AAAGAAAGAAAAGGAAAGGAGAAGAGAA-AAA-AAAAAGAAGAAGAAGAAAAGGA
62146156 AAGG-A-GAA
62 AAGGAAGGAA
* * **
62146164 AAAGAAGGAAAGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAAGAAGAAGAAGAAGAGGGGAGG
1 AAAGAAAGAAAGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAAGAAGAAGAAGAAAAGGAAAGG
62146229 AAGGAA
66 AAGGAA
62146235 AAAGAAAGAAAGAAAG
1 AAAGAAAGAAAGAAAG
62146251 GTAATTTTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
68 10 0.13
69 38 0.50
70 3 0.04
71 25 0.33
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (71 bp):
AAAGAAAGAAAGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAAGAAGAAGAAGAAAAGGAAAGG
AAGGAA
Found at i:62146216 original size:22 final size:24
Alignment explanation
Indices: 62146160--62146218 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
62146150 AAAGGAAAGG
*
62146160 AGAAAAAGAAG-GAAAGAAAGAAA
1 AGAAGAAGAAGAGAAAGAAAGAAA
*
62146183 AGGAAAGGAGAAGAGAAA-AAA-AAA
1 A-G-AAGAAGAAGAGAAAGAAAGAAA
62146207 AGAAGAAGAAGA
1 AGAAGAAGAAGA
62146219 AGAGGGGAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
22 9 0.30
23 2 0.07
24 5 0.17
25 10 0.33
26 4 0.13
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (24 bp):
AGAAGAAGAAGAGAAAGAAAGAAA
Found at i:62147131 original size:285 final size:285
Alignment explanation
Indices: 62146615--62147475 Score: 1465
Period size: 285 Copynumber: 3.0 Consensus size: 285
62146605 TGAAATAAAG
* **
62146615 TAAAATTATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCAAAGAAAAAAATACGA
1 TAAATTTATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAG-AAAAAATACGA
* * * *
62146680 AGAAATGGCCGAAGTAAGAGCGTTTTACAAAATTTTATAAAAATTCAAAAATAATTAATACAAAT
65 AGAAATGGCCGAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAAT
* * * *
62146745 ATTTCAAACAAAATATACTGAAAAAATATAAAATAATAAAATACAAAAATAATATTTTTTATTCA
130 ATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTTATTGA
* * *
62146810 AAGTAATAAAATTCGAGAAAATAATACGAGCAAAGGGCAGGAATAAAAGTTTTTTTTACACTAAA
195 AAGTAATAAAATTCGGGAAAATAATACGAGCAAAGGGCAGGAATAAAGGTTTTTTTGACACTAAA
62146875 TTAATTTAAAAAACACACTAAATTAA
260 TTAATTTAAAAAACACACTAAATTAA
* *
62146901 TAAATTTATAAAATTAGAAAATATGATATTTTTTAAAGTAATAAAATACGGAGAAAAAATACGAA
1 TAAATTTATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAATACGAA
* *
62146966 GAAATGGCCGAAGTAAGAGTGTTTTGCTAAATTTTTTAAAAATTCAGAAATAATTAATAAAAATA
66 GAAATGGCCGAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATA
62147031 TTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTTATTGAA
131 TTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTTATTGAA
* * * *
62147096 AGTAACAAAATTCGGGAAAATAATATGAGCAAAGGGCATGAATAATGGTTTTTTTGACACTAAAT
196 AGTAATAAAATTCGGGAAAATAATACGAGCAAAGGGCAGGAATAAAGGTTTTTTTGACACTAAAT
*
62147161 TAATCTAAAAAACACACTAAATTAA
261 TAATTTAAAAAACACACTAAATTAA
*
62147186 TAAATTTATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAATATGAA
1 TAAATTTATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAATACGAA
62147251 GAAATGGCCGAAGTAAGAGTGTTTTACTAAA-TTTTTAAAAATTCAGAAATAATTAATACAAATA
66 GAAATGGCCGAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATA
62147315 TTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTTATTGAA
131 TTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTTATTGAA
*
62147380 AGTAATAAAATTCGGGAAAATAATACGAGCAAAGGGCAGGAATAAGGGTTTTTTTGACACTAAAT
196 AGTAATAAAATTCGGGAAAATAATACGAGCAAAGGGCAGGAATAAAGGTTTTTTTGACACTAAAT
*
62147445 TAATTT-AAAAACACATTAAATTAA
261 TAATTTAAAAAACACACTAAATTAA
62147469 TAAATTT
1 TAAATTT
62147476 CAAACATAAT
Statistics
Matches: 541, Mismatches: 34, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
283 24 0.04
284 163 0.30
285 306 0.57
286 48 0.09
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.30
Consensus pattern (285 bp):
TAAATTTATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAATACGAA
GAAATGGCCGAAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATA
TTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATTTTTTATTGAA
AGTAATAAAATTCGGGAAAATAATACGAGCAAAGGGCAGGAATAAAGGTTTTTTTGACACTAAAT
TAATTTAAAAAACACACTAAATTAA
Found at i:62148881 original size:315 final size:315
Alignment explanation
Indices: 62148309--62149258 Score: 1774
Period size: 315 Copynumber: 3.0 Consensus size: 315
62148299 TTAGCTGATT
*
62148309 TGTCCAGTGTTAGCTCGTATAGCTGGGGCTCCGCCGTTCTAGCAGTGTTGTATCAGGAGCTTTGT
1 TGTCCAGTGTTAGCTCGTATAGCTGGGGCTCCGCCGTTCTAGCAGTGTTGTATCGGGAGCTTTGT
*
62148374 CGGGTGACAAACCCAGATGTTGTAGACATGAGCGAATGCCTCACATTGCTGCAATCCTGGGCGCT
66 CGGGTGACAAACCCAGATGTTGTAGACATGGGCGAATGCCTCACATTGCTGCAATCCTGGGCGCT
* *
62148439 CTATCGGATGTCATTTTTAGCATCGGTTAGTCACCAACCGTATGTTTATCCACTGGTGAACAGGT
131 CTATCGGATGACATTTTTGGCATCGGTTAGTCACCAACCGTATGTTTATCCACTGGTGAACAGGT
62148504 GATAAAATATAAATTGTCATTATTTGTAGTCATAATATATTGACTAATGTTACCAACCCTAAACC
196 GATAAAATATAAATTGTCATTATTTGTAGTCATAATATATTGACTAATGTTACCAACCCTAAACC
62148569 CTATATTTGTTTTTTGTAGGTGGAGTGTTCGTCCGGGTATCGGGAGGTCACACAC
261 CTATATTTGTTTTTTGTAGGTGGAGTGTTCGTCCGGGTATCGGGAGGTCACACAC
*
62148624 TGTCCAGTGTTAGCTCGTATAGCTGGGGCTCCGTCGTTCTAGCAGTGTTGTATCGGGAGCTTTGT
1 TGTCCAGTGTTAGCTCGTATAGCTGGGGCTCCGCCGTTCTAGCAGTGTTGTATCGGGAGCTTTGT
62148689 CGGGTGACAAACCCAGATGTTGTAGACATGGGCGAATGCCTCACATTGCTGCAATCCTGGGCGCT
66 CGGGTGACAAACCCAGATGTTGTAGACATGGGCGAATGCCTCACATTGCTGCAATCCTGGGCGCT
62148754 CTATCGGATGACATTTTTGGCATCGGTTAGTCACCAACCGTATGTTTATCCACTGGTGAACAGGT
131 CTATCGGATGACATTTTTGGCATCGGTTAGTCACCAACCGTATGTTTATCCACTGGTGAACAGGT
*
62148819 GATAAAATATAAATTGTCATTATTTGTAGTCATAATATATTGACTAATGTTACCAACCCTAAAAC
196 GATAAAATATAAATTGTCATTATTTGTAGTCATAATATATTGACTAATGTTACCAACCCTAAACC
* *
62148884 CTATATTTGTTTTTTGTAGGTGGAGTGTTCGTTCAGGTATCGGGAGGTCACACAC
261 CTATATTTGTTTTTTGTAGGTGGAGTGTTCGTCCGGGTATCGGGAGGTCACACAC
*
62148939 TGTCCAGTGTTAGCTCGTATAGCTGGGGCTCCGCCGTTCTAGCAGTGTTGTATTGGGAGCTTTGT
1 TGTCCAGTGTTAGCTCGTATAGCTGGGGCTCCGCCGTTCTAGCAGTGTTGTATCGGGAGCTTTGT
*
62149004 CGGGTGACAAACCCAGATGTTGTAGACATGGGCGAATGCCTCACATTGCTGCAATCCTGGGCACT
66 CGGGTGACAAACCCAGATGTTGTAGACATGGGCGAATGCCTCACATTGCTGCAATCCTGGGCGCT
* * **
62149069 CTATCGGATGCCATTTTTGACATTAGTTAGTCACCAACCGTATGTTTATCCACTGGTGAACAGGT
131 CTATCGGATGACATTTTTGGCATCGGTTAGTCACCAACCGTATGTTTATCCACTGGTGAACAGGT
62149134 GATAAAATATAAATTGTCATTATTTGTAGTCATAATATATTGACTAATGTTACCAACCCTAAACC
196 GATAAAATATAAATTGTCATTATTTGTAGTCATAATATATTGACTAATGTTACCAACCCTAAACC
62149199 CTATATTTGTTTTTTGTAGGTGGAGTGTTCGTCCGGGTATCGGGAGGTCACACAC
261 CTATATTTGTTTTTTGTAGGTGGAGTGTTCGTCCGGGTATCGGGAGGTCACACAC
62149254 TGTCC
1 TGTCC
62149259 TGATATACAG
Statistics
Matches: 617, Mismatches: 18, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
315 617 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (315 bp):
TGTCCAGTGTTAGCTCGTATAGCTGGGGCTCCGCCGTTCTAGCAGTGTTGTATCGGGAGCTTTGT
CGGGTGACAAACCCAGATGTTGTAGACATGGGCGAATGCCTCACATTGCTGCAATCCTGGGCGCT
CTATCGGATGACATTTTTGGCATCGGTTAGTCACCAACCGTATGTTTATCCACTGGTGAACAGGT
GATAAAATATAAATTGTCATTATTTGTAGTCATAATATATTGACTAATGTTACCAACCCTAAACC
CTATATTTGTTTTTTGTAGGTGGAGTGTTCGTCCGGGTATCGGGAGGTCACACAC
Found at i:62153524 original size:37 final size:38
Alignment explanation
Indices: 62153469--62153551 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 38
62153459 TACTCAAAAT
*
62153469 AATAGTAACTAACAATAATAAT-TAGGGTTTTACTAAA
1 AATAATAACTAACAATAATAATATAGGGTTTTACTAAA
* ** *
62153506 AATAATAACTAACCATAATAATACTAGTTTTTTACTAAC
1 AATAATAACTAACAATAATAATA-TAGGGTTTTACTAAA
62153545 AATAATA
1 AATAATA
62153552 CTACGTAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 20 0.51
39 19 0.49
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (38 bp):
AATAATAACTAACAATAATAATATAGGGTTTTACTAAA
Found at i:62158529 original size:22 final size:22
Alignment explanation
Indices: 62158493--62158538 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
62158483 TTTTAAAACA
*
62158493 ACAATTAATCCAATCCAAATAG
1 ACAATTAATCAAATCCAAATAG
* *
62158515 ACAATTGATCAAATCTAAATAG
1 ACAATTAATCAAATCCAAATAG
62158537 AC
1 AC
62158539 TCGATTCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.24
Consensus pattern (22 bp):
ACAATTAATCAAATCCAAATAG
Found at i:62166299 original size:210 final size:206
Alignment explanation
Indices: 62165933--62166345 Score: 546
Period size: 210 Copynumber: 2.0 Consensus size: 206
62165923 ATGAAAACCA
* *
62165933 GATCCACAATAATAAACAGAATTCAGATAATCGAATCTGAACTGGTAATCTGCAAAAGTAGAGCG
1 GATCCACAATAATAAACAGAATTCAGATAATCGAATCTGAACTGGAAATCTGCAAAAGTAGAGAG
*
62165998 AATTTGAACAATAAATATCTACACTCGTTCCAAATGCATTATGGATAATAATTAAAATATCGAAT
66 AATTTGAACAATAAATATCTACACTCGTTCCAAATGCATTACGGATAATAATTAAAATATCGAAT
** ** **
62166063 CTATATAATATACGAATCTGCATTATCCATTGCCGTGCATAAACTCAACAAACATTTCTTGAAGA
131 CTATATAATATACGAATCCACATTATCCATTGCAATGCATAAACTCAACAAACATTTCCAGAAGA
62166128 AACTAAAATTG
196 AACTAAAATTG
62166139 GATCCACAATAATAAACAGAATTCAGATAATCAATATATGAATCTGAAC-GGAAATCTGCAAAAG
1 GATCCACAATAATAAACAGAATTCAGATAATC-------GAATCTGAACTGGAAATCTGCAAAAG
* * * * * * *
62166203 TGGAGAGGATTTGAGCTAT-AA-AT-TAGCATTCTTTCCAAATGCGTTACGGATAATAATTAAAA
59 TAGAGAGAATTTGAACAATAAATATCTA-CACTCGTTCCAAATGCATTACGGATAATAATTAAAA
* * *
62166265 TATCGAATCTATATATTATACGAATCCACATTATCCATTGCAATGCTTAAACTCAACCAACATTT
123 TATCGAATCTATATAATATACGAATCCACATTATCCATTGCAATGCATAAACTCAACAAACATTT
*
62166330 CCAGAATAAACTAAAA
188 CCAGAAGAAACTAAAA
62166346 GAAACAGGTT
Statistics
Matches: 179, Mismatches: 20, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
206 32 0.18
209 2 0.01
210 105 0.59
211 2 0.01
212 28 0.16
213 10 0.06
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (206 bp):
GATCCACAATAATAAACAGAATTCAGATAATCGAATCTGAACTGGAAATCTGCAAAAGTAGAGAG
AATTTGAACAATAAATATCTACACTCGTTCCAAATGCATTACGGATAATAATTAAAATATCGAAT
CTATATAATATACGAATCCACATTATCCATTGCAATGCATAAACTCAACAAACATTTCCAGAAGA
AACTAAAATTG
Found at i:62167545 original size:56 final size:57
Alignment explanation
Indices: 62167416--62167591 Score: 203
Period size: 56 Copynumber: 3.1 Consensus size: 57
62167406 GTTCATACCT
** * * *
62167416 CAATATGAGAACAATTGTTAAGTTTAGGGATTAACTTGAAAAAAAAAGTTCATGCCC
1 CAATATGAGAACAATTGCCAAGTTCAGGGACTAACTTGAAAAAAAAAGTTCAAGCCC
* * *
62167473 AAATATGAGAACAATTGCCAAGTTCAGGGGCTAACTTG-AAACAAAAGTTCAAGCCC
1 CAATATGAGAACAATTGCCAAGTTCAGGGACTAACTTGAAAAAAAAAGTTCAAGCCC
* ** *
62167529 CAATGTGAGAACAATTGCCAAG-TCTAAAGACTAACTTAGACAAAGAAAAGTTCAAGCCC
1 CAATATGAGAACAATTGCCAAGTTC-AGGGACTAACTT-GA-AAAAAAAAGTTCAAGCCC
62167588 CAAT
1 CAAT
62167592 GTGAAAAAAA
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
55 2 0.02
56 45 0.45
57 33 0.33
59 21 0.21
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.22
Consensus pattern (57 bp):
CAATATGAGAACAATTGCCAAGTTCAGGGACTAACTTGAAAAAAAAAGTTCAAGCCC
Found at i:62168441 original size:17 final size:17
Alignment explanation
Indices: 62168388--62168435 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
62168378 GAACTGAGTT
*
62168388 TTTTTTATTATTTTAAA
1 TTTTTAATTATTTTAAA
*
62168405 TTTTTAATT-TGTTTGAA
1 TTTTTAATTAT-TTTAAA
62168422 TTTTTAATTATTTT
1 TTTTTAATTATTTT
62168436 TTATTTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 1 0.04
17 25 0.93
18 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (17 bp):
TTTTTAATTATTTTAAA
Found at i:62175834 original size:4 final size:4
Alignment explanation
Indices: 62175825--62175850 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
62175815 TTATCACTTC
62175825 TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TT
62175851 TATTTATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:62178466 original size:3 final size:3
Alignment explanation
Indices: 62178458--62178482 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
62178448 TCAAGACGAC
62178458 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
62178483 TGATGATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:62178487 original size:3 final size:3
Alignment explanation
Indices: 62178481--62178510 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
62178471 AGAAGAAGAA
62178481 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
62178511 ATCATTGGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:62179363 original size:31 final size:30
Alignment explanation
Indices: 62179306--62179373 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
62179296 AGGTCCGTTA
**
62179306 ATATTATTTTTTAGATTTTTAATTTTTTATT
1 ATATTATTTAATAGATTTTTAATTTTTT-TT
*
62179337 ATATTATTTAATA-ATTTTATACTTTTTTTT
1 ATATTATTTAATAGATTTT-TAATTTTTTTT
62179367 AT-TTATT
1 ATATTATT
62179374 GAAATTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 5 0.15
30 9 0.27
31 19 0.58
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (30 bp):
ATATTATTTAATAGATTTTTAATTTTTTTT
Found at i:62187774 original size:5 final size:6
Alignment explanation
Indices: 62187759--62187797 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
62187749 CAAATTTGCT
* *
62187759 TTTTTA TTTTTA TTTTTA TTTTTG TTTTT- TTTTTC TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
62187798 AATCTAACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.08, C:0.03, G:0.03, T:0.87
Consensus pattern (6 bp):
TTTTTA
Found at i:62193153 original size:29 final size:29
Alignment explanation
Indices: 62193115--62193190 Score: 134
Period size: 29 Copynumber: 2.6 Consensus size: 29
62193105 AACGATAACG
62193115 TAAGTGACTAAAATGTAACATTTTAAACA
1 TAAGTGACTAAAATGTAACATTTTAAACA
*
62193144 TAAGTAACTAAAATGTAACATTTTAAACA
1 TAAGTGACTAAAATGTAACATTTTAAACA
*
62193173 TAAATGACTAAAATGTAA
1 TAAGTGACTAAAATGTAA
62193191 TATGAGGCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.30
Consensus pattern (29 bp):
TAAGTGACTAAAATGTAACATTTTAAACA
Found at i:62195281 original size:29 final size:30
Alignment explanation
Indices: 62195222--62195288 Score: 100
Period size: 29 Copynumber: 2.2 Consensus size: 30
62195212 TTACAAAATG
*
62195222 GTCATTGAATTATTCAAAAGTTTTCATTTAA
1 GTCATTGAACTATTC-AAAGTTTTCATTTAA
*
62195253 GTCATTGAACTATTC-AAGTTTTTATTTAA
1 GTCATTGAACTATTCAAAGTTTTCATTTAA
62195282 GTCATTG
1 GTCATTG
62195289 GATTGTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 20 0.59
31 14 0.41
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.46
Consensus pattern (30 bp):
GTCATTGAACTATTCAAAGTTTTCATTTAA
Found at i:62195595 original size:17 final size:17
Alignment explanation
Indices: 62195573--62195607 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
62195563 TTTTCCCCTG
* *
62195573 ATTTTGTTGTTTTAGAT
1 ATTTTGTTATTTCAGAT
62195590 ATTTTGTTATTTCAGAT
1 ATTTTGTTATTTCAGAT
62195607 A
1 A
62195608 ATGTTTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.14, T:0.60
Consensus pattern (17 bp):
ATTTTGTTATTTCAGAT
Found at i:62198800 original size:21 final size:22
Alignment explanation
Indices: 62198772--62198814 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
62198762 TAATTTTGAT
62198772 TAAAAAAATTTAAGTATCAAAC
1 TAAAAAAATTTAAGTATCAAAC
*
62198794 TAAAAAAATTTAGGTATCAAA
1 TAAAAAAATTTAAGTATCAAA
62198815 AAATATCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.28
Consensus pattern (22 bp):
TAAAAAAATTTAAGTATCAAAC
Found at i:62207849 original size:27 final size:26
Alignment explanation
Indices: 62207801--62207853 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
62207791 GCTCTTTCTC
**
62207801 AAAAAATGACATATTTTTCTAAATTAA
1 AAAAAATGACATATTTAGCT-AATTAA
62207828 AAAAAATGATC-TATTTAGCTAATTAA
1 AAAAAATGA-CATATTTAGCTAATTAA
62207854 TTTTTTTCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 6 0.26
27 16 0.70
28 1 0.04
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.36
Consensus pattern (26 bp):
AAAAAATGACATATTTAGCTAATTAA
Found at i:62208588 original size:31 final size:32
Alignment explanation
Indices: 62208531--62208590 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
62208521 TTGATGGAAG
*
62208531 AATCCAATAAATCGAAAATATTCTTCAATCGA
1 AATCCAATAAATCGAAAATATCCTTCAATCGA
*
62208563 AATCCAA-AAATCG-AGATATCCCTTCAAT
1 AATCCAATAAATCGAAAATAT-CCTTCAAT
62208591 ATTATTGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 5 0.20
31 13 0.52
32 7 0.28
ACGTcount: A:0.45, C:0.22, G:0.07, T:0.27
Consensus pattern (32 bp):
AATCCAATAAATCGAAAATATCCTTCAATCGA
Found at i:62212300 original size:151 final size:148
Alignment explanation
Indices: 62211918--62212352 Score: 484
Period size: 148 Copynumber: 2.9 Consensus size: 148
62211908 TTTAATTCAA
* * * * *
62211918 CAAATAGCTAACAATTCACCTAAATATTCAAGAAACAGTACGATTCAGCTTTGAACTAGGATCTA
1 CAAATAGCTAACAGTTCACATAAAGATTCAA-AAACAGTACGATTCAGCTTCGAACTAGAATCTA
* * * * *
62211983 AAAACAAGCTAAGGT-TGTTCTCCCTACGTAAATCTTGGAAAACTTAGCTCGTAAACTTCAGATC
65 AAAACAAGCTAA-ATCTGTTCTTCCTACGTAAATCATAGAAAACATAGCTCGTAAACTTCAGATC
* *
62212047 TGTATTTTTTTGTAATTCAT
129 TGTATTTTTTTGCAACTCAT
* * * *
62212067 CAAATAGCT-ACAGCTCACATAAGGATACAAAAAACAGTACGATTCAGCTTCGAACTATAATCTA
1 CAAATAGCTAACAGTTCACATAAAGATTC-AAAAACAGTACGATTCAGCTTCGAACTAGAATCTA
* * * *
62212131 AAAACAAGCTAAAGCTGTTCTTCCTACGCT-AGTCATAGCAAACATAGCTCGTAAACTTCAGTTT
65 AAAACAAGCTAAATCTGTTCTTCCTACG-TAAATCATAGAAAACATAGCTCGTAAACTTCAG-AT
* * *
62212195 TTTTTTTTTTTTGCAACTCAT
128 CTGTATTTTTTTGCAACTCAT
* *
62212216 CAAATAGCTAACAGTTCACATAAAGATTCAAAAAGCGGTACCATTCAAGCTTCGAACTAGAATCT
1 CAAATAGCTAACAGTTCACATAAAGATTCAAAAA-CAGTACGATTC-AGCTTCGAACTAGAATCT
* * * ** * *
62212281 AAAAACAAGTTAAATCTGTTCTTCCTACGTAAATCTTAGCAGTCTTAGCTCGTAAGCTTC--ATC
64 AAAAACAAGCTAAATCTGTTCTTCCTACGTAAATCATAGAAAACATAGCTCGTAAACTTCAGATC
62212344 TGTATTTTT
129 TGTATTTTT
62212353 AAGCAAAACA
Statistics
Matches: 237, Mismatches: 41, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
148 101 0.43
149 43 0.18
150 26 0.11
151 67 0.28
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.31
Consensus pattern (148 bp):
CAAATAGCTAACAGTTCACATAAAGATTCAAAAACAGTACGATTCAGCTTCGAACTAGAATCTAA
AAACAAGCTAAATCTGTTCTTCCTACGTAAATCATAGAAAACATAGCTCGTAAACTTCAGATCTG
TATTTTTTTGCAACTCAT
Found at i:62225194 original size:16 final size:15
Alignment explanation
Indices: 62225154--62225195 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
62225144 GCTTGAGTGT
62225154 CAAATCTG-AATGAC
1 CAAATCTGAAATGAC
* *
62225168 AAAACCTGAAATGACC
1 CAAATCTGAAATGA-C
62225184 CAAATCTGAAAT
1 CAAATCTGAAAT
62225196 TATCCGACCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 6 0.27
15 5 0.23
16 11 0.50
ACGTcount: A:0.48, C:0.21, G:0.12, T:0.19
Consensus pattern (15 bp):
CAAATCTGAAATGAC
Found at i:62230353 original size:139 final size:139
Alignment explanation
Indices: 62230188--62230507 Score: 425
Period size: 139 Copynumber: 2.3 Consensus size: 139
62230178 TTCAGTGTGG
* * * ** *
62230188 CGGCCACAACGTGGAATGCTTACCACTAAACTACAGCCACAATTTGTTAAAATTTGA-AAAGTAA
1 CGGCCACAACGTGGAATTCTTACCACTAAACTACAGCCACAACTTGTTAAAAGTCAAGAAACTAA
*
62230252 AAGGACTAATAGTAA-AAATTAACCAAATT-AA-AAAAAA-GTTTAATGTGGCTGCTGGGATTCG
66 AA--ACTAAAAGTAACAAA--AA-CAAATTAAAGAAAAAAGGTTTAATGTGGCTGCTGGGATTCG
62230313 AGCCCAGGTCTCCA
126 AGCCCAGGTCTCCA
* *
62230327 CGGCCACAACGTGGAATTCTTACCACTAAACTACAGCCACAACTTGTTAAAGGTCAAGAAACTAT
1 CGGCCACAACGTGGAATTCTTACCACTAAACTACAGCCACAACTTGTTAAAAGTCAAGAAACTAA
* * * * * *
62230392 TATCTAAAATTAACCAAAACATATTAAAGAAAAAAGGTTTAGTGTGGCTGCTGGGATTCGAGCCC
66 AAACTAAAAGTAACAAAAACAAATTAAAGAAAAAAGGTTTAATGTGGCTGCTGGGATTCGAGCCC
62230457 AGGTCTCCA
131 AGGTCTCCA
62230466 CGGCCACAACGTGGAATTCTTACCACTAAACTACAGCCACAA
1 CGGCCACAACGTGGAATTCTTACCACTAAACTACAGCCACAA
62230508 GTTGACATAG
Statistics
Matches: 161, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
136 5 0.03
137 4 0.02
138 14 0.09
139 132 0.82
140 6 0.04
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (139 bp):
CGGCCACAACGTGGAATTCTTACCACTAAACTACAGCCACAACTTGTTAAAAGTCAAGAAACTAA
AAACTAAAAGTAACAAAAACAAATTAAAGAAAAAAGGTTTAATGTGGCTGCTGGGATTCGAGCCC
AGGTCTCCA
Found at i:62235219 original size:4 final size:4
Alignment explanation
Indices: 62235212--62235254 Score: 77
Period size: 4 Copynumber: 10.8 Consensus size: 4
62235202 ACACACACAC
*
62235212 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AAAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
62235255 CTCTTTACCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:62240562 original size:19 final size:19
Alignment explanation
Indices: 62240534--62240577 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
62240524 TTTAGGAATA
*
62240534 TTTTTATCAAAAAAATGTT
1 TTTTTATCAAAAAAAGGTT
*
62240553 TTTTTGTCAAAAAAAGGTT
1 TTTTTATCAAAAAAAGGTT
62240572 TTTTTA
1 TTTTTA
62240578 AAAACAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (19 bp):
TTTTTATCAAAAAAAGGTT
Found at i:62244427 original size:115 final size:114
Alignment explanation
Indices: 62244226--62244455 Score: 363
Period size: 115 Copynumber: 2.0 Consensus size: 114
62244216 TCATTTTCTG
*
62244226 GCCTTTTGTTTTGGTATGAAATCTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTATCTTGTT
1 GCCTTTTGTTTTGGTATGAAATCTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTATCTTGAT
* * *
62244291 TCTCGAAAGAATATCGGGTCATTTGAGATTGTTTAGTGTGTGTTTATGT
66 TCTCGAAAGAATATCAGGTCATTCGAGATTGTTTAGGGTGTGTTTATGT
*
62244340 GCCTTTTGTTTTGGTATTGAAATGTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTATGC-TG
1 GCCTTTTGTTTTGGTA-TGAAATCTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTAT-CTTG
* * *
62244404 ATTCTCGAAAGAATTTCAGGTCATTCGTGTTTGTTTAGGGTGTGTTTATGT
64 ATTCTCGAAAGAATATCAGGTCATTCGAGATTGTTTAGGGTGTGTTTATGT
62244455 G
1 G
62244456 TTACAAAGTT
Statistics
Matches: 106, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
114 16 0.15
115 89 0.84
116 1 0.01
ACGTcount: A:0.20, C:0.09, G:0.25, T:0.46
Consensus pattern (114 bp):
GCCTTTTGTTTTGGTATGAAATCTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTATCTTGAT
TCTCGAAAGAATATCAGGTCATTCGAGATTGTTTAGGGTGTGTTTATGT
Found at i:62244583 original size:270 final size:270
Alignment explanation
Indices: 62244094--62244610 Score: 797
Period size: 270 Copynumber: 1.9 Consensus size: 270
62244084 GGCATTGTTT
* **
62244094 TAGCATTTGAATTAGGGTTGAAGGTGATACTTTTATGCTGTTTCTCGAAAGAATTTTGGGTCATT
1 TAGCATTTGAATTAGGGTTGAAGGTGATACTTTTATGCTGATTCTCGAAAGAATTTCAGGTCATT
* * * *
62244159 TGAGATTGTTTAATGTGTGTTTGTGTGTTGCAAAGTTCAAGTAATACTTAATTATAGTCATTTTC
66 CGAGATTGTTTAAGGTGTGTTTATGTGTTACAAAGTTCAAGTAATACTTAATTATAGTCATTTTC
*
62244224 TGGCCTTTTGTTTTGGTATGAAATCTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTATCTTG
131 TGGCCTTCTGTTTTGGTATGAAATCTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTATCTTG
* * * *
62244289 TTTCTCGAAAGAATATCGGGTCATTTGAGATTGTTTAGTGTGTGTTTATGTGCCTTTTGTTTTGG
196 ATTCTCGAAAGAATATCAGGTCATTCGAGATTGTTTAGGGTGTGTTTATGTGCCTTTTGTTTTGG
62244354 TATTGAAATG
261 TATTGAAATG
* *
62244364 TAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTATGCTGATTCTCGAAAGAATTTCAGGTCATT
1 TAGCATTTGAATTAGGGTTGAAGGTGATACTTTTATGCTGATTCTCGAAAGAATTTCAGGTCATT
* * *
62244429 CGTGTTTGTTTAGGGTGTGTTTATGTGTTACAAAGTTCAAGT-ATACTTAATTAT-GTTCATTTT
66 CGAGATTGTTTAAGGTGTGTTTATGTGTTACAAAGTTCAAGTAATACTTAATTATAG-TCATTTT
*
62244492 CTGGCCTTCTGTTTTGGTACTGAAATGTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTATGC
130 CTGGCCTTCTGTTTTGGTA-TGAAATCTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTAT-C
* * *
62244557 -TGATTCTCGAAAGAATTTCAGGTCATTCGTGTTTGTTTAGGGTGTGTTTATGTG
193 TTGATTCTCGAAAGAATATCAGGTCATTCGAGATTGTTTAGGGTGTGTTTATGTG
62244611 TTACAAAGGT
Statistics
Matches: 223, Mismatches: 21, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
268 1 0.00
269 37 0.17
270 184 0.83
271 1 0.00
ACGTcount: A:0.22, C:0.09, G:0.23, T:0.45
Consensus pattern (270 bp):
TAGCATTTGAATTAGGGTTGAAGGTGATACTTTTATGCTGATTCTCGAAAGAATTTCAGGTCATT
CGAGATTGTTTAAGGTGTGTTTATGTGTTACAAAGTTCAAGTAATACTTAATTATAGTCATTTTC
TGGCCTTCTGTTTTGGTATGAAATCTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTATCTTG
ATTCTCGAAAGAATATCAGGTCATTCGAGATTGTTTAGGGTGTGTTTATGTGCCTTTTGTTTTGG
TATTGAAATG
Found at i:62244626 original size:155 final size:155
Alignment explanation
Indices: 62244340--62244836 Score: 786
Period size: 155 Copynumber: 3.2 Consensus size: 155
62244330 GTGTTTATGT
* *
62244340 GCCTTTTGTTTTGGTATTGAAATGTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTATGCTGA
1 GCCTTCTGTTTTGGTACTGAAATGTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTATGCTGA
62244405 TTCTCGAAAGAATTTCAGGTCATTCGTGTTTGTTTAGGGTGTGTTTATGTGTTACAAAGTTCAAG
66 TTCTCGAAAGAATTTCAGGTCATTCGTGTTTGTTTAGGGTGTGTTTATGTGTTACAAAGTTCAAG
62244470 TATACTTAATTATGTTCATTTTCTG
131 TATACTTAATTATGTTCATTTTCTG
62244495 GCCTTCTGTTTTGGTACTGAAATGTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTATGCTGA
1 GCCTTCTGTTTTGGTACTGAAATGTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTATGCTGA
* *
62244560 TTCTCGAAAGAATTTCAGGTCATTCGTGTTTGTTTAGGGTGTGTTTATGTGTTACAAAGGTGAAG
66 TTCTCGAAAGAATTTCAGGTCATTCGTGTTTGTTTAGGGTGTGTTTATGTGTTACAAAGTTCAAG
62244625 TATACTTAATTATGTTCATTTTCTG
131 TATACTTAATTATGTTCATTTTCTG
* *
62244650 GCCTTCTGTTTTGGTACTGAAATGTAGCATTTGAATTAGGGTTTAAGTTGTTACTTTTACT-CTC
1 GCCTTCTGTTTTGGTACTGAAATGTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTA-TGCTG
* * * * * **
62244714 TTTCTCGAAAGAATTTCAGGGTCATTTGAGATTGTTTAGTGTGTGTTTATGCATTACAAAGTTCA
65 ATTCTCGAAAGAATTTCA-GGTCATTCGTGTTTGTTTAGGGTGTGTTTATGTGTTACAAAGTTCA
*
62244779 AGTATACTTAATTATAG-TCA-TATCTG
129 AGTATACTTAATTAT-GTTCATTTTCTG
* *
62244805 GCCTTTTTATTTTGGTACTGAAATGT-GCATTT
1 GCC-TTCTGTTTTGGTACTGAAATGTAGCATTT
62244837 TGCTCTCTGA
Statistics
Matches: 320, Mismatches: 18, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
155 242 0.76
156 77 0.24
157 1 0.00
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.45
Consensus pattern (155 bp):
GCCTTCTGTTTTGGTACTGAAATGTAGCATTTGAATTAGGGTTTAAGGTGTTACTTTTATGCTGA
TTCTCGAAAGAATTTCAGGTCATTCGTGTTTGTTTAGGGTGTGTTTATGTGTTACAAAGTTCAAG
TATACTTAATTATGTTCATTTTCTG
Found at i:62261004 original size:17 final size:17
Alignment explanation
Indices: 62260984--62261016 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
62260974 ATAATAGCAA
62260984 TATCTAAATATAAATTG
1 TATCTAAATATAAATTG
*
62261001 TATCTAAATATTAATT
1 TATCTAAATATAAATT
62261017 AGGTAAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (17 bp):
TATCTAAATATAAATTG
Found at i:62261060 original size:61 final size:60
Alignment explanation
Indices: 62260925--62261061 Score: 152
Period size: 61 Copynumber: 2.2 Consensus size: 60
62260915 ATTTAGTAAA
* *
62260925 CTAATACAAATTTAGCATCTAAATATTAATTTGATAAAAATAATATTTAATAATAGCAATAT
1 CTAATACAAA-TT-GCATCTAAATATTAATTAGATAAAAATAATATTAAATAATAGCAATAT
* * * *
62260987 CTAAATATAAATTGTATCTAAATATTAATTAGGTAAAAACTAA-AGTTAAATAATTA-TAATAT
1 CT-AATACAAATTGCATCTAAATATTAATTAGATAAAAA-TAATA-TTAAATAA-TAGCAATAT
62261049 CTAATACAAATTG
1 CTAATACAAATTG
62261062 AACATTTAAC
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
61 34 0.53
62 21 0.33
63 9 0.14
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.36
Consensus pattern (60 bp):
CTAATACAAATTGCATCTAAATATTAATTAGATAAAAATAATATTAAATAATAGCAATAT
Found at i:62264213 original size:24 final size:24
Alignment explanation
Indices: 62264177--62264225 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
62264167 TGATCCCTAT
62264177 ATTTTTTTCCTTTTAAGTAATTTA
1 ATTTTTTTCCTTTTAAGTAATTTA
* * *
62264201 ATTTTTTTTCTTTTATGTTATTTA
1 ATTTTTTTCCTTTTAAGTAATTTA
62264225 A
1 A
62264226 ACTTTCCTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.67
Consensus pattern (24 bp):
ATTTTTTTCCTTTTAAGTAATTTA
Found at i:62264499 original size:15 final size:15
Alignment explanation
Indices: 62264487--62264515 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
62264477 GAAGAGAATG
62264487 AAAAAAA-AAAGAAA
1 AAAAAAAGAAAGAAA
62264501 AAAAAAAGAAAGAAA
1 AAAAAAAGAAAGAAA
62264516 GTTAAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAGAAA
Found at i:62264503 original size:10 final size:11
Alignment explanation
Indices: 62264486--62264511 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
62264476 AGAAGAGAAT
62264486 GAAAAAAAAAA
1 GAAAAAAAAAA
62264497 GAAAAAAAAAA
1 GAAAAAAAAAA
62264508 GAAA
1 GAAA
62264512 GAAAGTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:62274504 original size:18 final size:18
Alignment explanation
Indices: 62274481--62274524 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
62274471 TTTAGACAAA
62274481 AAAATAAAGTCCGTTTAG
1 AAAATAAAGTCCGTTTAG
62274499 AAAATAAAGTCCGTTTAG
1 AAAATAAAGTCCGTTTAG
62274517 AAAATAAA
1 AAAATAAA
62274525 CCAGGCCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.25
Consensus pattern (18 bp):
AAAATAAAGTCCGTTTAG
Found at i:62278080 original size:29 final size:29
Alignment explanation
Indices: 62278048--62278133 Score: 73
Period size: 30 Copynumber: 2.9 Consensus size: 29
62278038 CTTTTTTTAA
62278048 TCACTCAACTATGAATTTTTTAAATTTGG
1 TCACTCAACTATGAATTTTTTAAATTTGG
* * * ***
62278077 TCACTTAATTATGGATTTGTTTCTTTTTGG
1 TCACTCAACTATGAATTT-TTTAAATTTGG
* **
62278107 TCACCCAACTATGTGTTATTTTAAATT
1 TCACTCAACTATGAATT-TTTTAAATT
62278134 GGTTACCCTA
Statistics
Matches: 41, Mismatches: 14, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
29 15 0.37
30 25 0.61
31 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.49
Consensus pattern (29 bp):
TCACTCAACTATGAATTTTTTAAATTTGG
Found at i:62284808 original size:116 final size:118
Alignment explanation
Indices: 62284618--62284828 Score: 320
Period size: 116 Copynumber: 1.8 Consensus size: 118
62284608 TTTGAAAAAC
* * *
62284618 GAAAACGCGGGAGAGTTTTGAATTTTTTTGTTTTGTTTGATGGGTTTAAATCTTATTCTAATCCC
1 GAAAACGCGGGAGAGCTTTGAATTTTTTTGTTTTGTTTGATAGGTTCAAATCTTATTCTAATCCC
* *
62284683 TTTGGTTTTTTAATATTTAAAATTTAGTCCCTCTATTTTTAATATGGAGGAAA
66 TGTGATTTTTTAATATTTAAAATTTAGTCCCTCTATTTTTAATATGGAGGAAA
* *
62284736 GAAAACGCGGGAGAGCTTTGAA-TTTTTT-TTTTGTTTTATAGG-TCAAACTCTTCTTCTAATCC
1 GAAAACGCGGGAGAGCTTTGAATTTTTTTGTTTTGTTTGATAGGTTCAAA-TCTTATTCTAATCC
*
62284798 CTGTGATTTTTTAGTATTTAAAATTTAGTCC
65 CTGTGATTTTTTAATATTTAAAATTTAGTCC
62284829 TTTTTTTTAA
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
115 4 0.05
116 53 0.63
117 6 0.07
118 21 0.25
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (118 bp):
GAAAACGCGGGAGAGCTTTGAATTTTTTTGTTTTGTTTGATAGGTTCAAATCTTATTCTAATCCC
TGTGATTTTTTAATATTTAAAATTTAGTCCCTCTATTTTTAATATGGAGGAAA
Found at i:62286302 original size:105 final size:105
Alignment explanation
Indices: 62286188--62286479 Score: 390
Period size: 105 Copynumber: 2.8 Consensus size: 105
62286178 CCCAGTATGA
** * * * * * **
62286188 AAAAAAGTAAAAATTTTTTTTTTGGTGTTGGCCTGTCAATGGCCGGCACCTAGTATAGTAAATTT
1 AAAAAAGTAAAAA-AATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGCACAGTAAA-AA
**
62286253 TTTTTTA-TTTTTTT-GTGTCAGTATCAGGTATCAGTATACG
64 AATTTTACTTTTTTTAGTGTCAGTATCAGGTATCAGTATACG
**
62286293 AAAAAAGTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGCACAGTAAAAAAA
1 AAAAAAGTAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGCACAGTAAAAAAA
62286358 TTTTACTTTTTTTAGTGTCAGTATCAGGTATCAGTATACG
66 TTTTACTTTTTTTAGTGTCAGTATCAGGTATCAGTATACG
*
62286398 AAAAAAGTAAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCAGGCACCCAGCACAGTAAAAA
1 AAAAAAGT--AAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGCACAGT-AAAA
*
62286463 AAAATTTACTTTTTTTA
63 AAATTTTACTTTTTTTA
62286480 CTGATACTTG
Statistics
Matches: 165, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
103 5 0.03
104 46 0.28
105 47 0.28
107 47 0.28
108 20 0.12
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.34
Consensus pattern (105 bp):
AAAAAAGTAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGCACAGTAAAAAAA
TTTTACTTTTTTTAGTGTCAGTATCAGGTATCAGTATACG
Found at i:62286326 original size:104 final size:106
Alignment explanation
Indices: 62286205--62286479 Score: 403
Period size: 104 Copynumber: 2.6 Consensus size: 106
62286195 TAAAAATTTT
* * * * * ****
62286205 TTTTTTGGTGTTGGCCTGTCAATGGCCGGCACCTAGTATAGTAAATTTTTTTTTA-TTTTTTT-G
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGCACAGTAAA-AAAATTTTACTTTTTTTAG
62286268 TGTCAGTATCAGGTATCAGTATACGAAAAAAGTAAAAAAAAA
65 TGTCAGTATCAGGTATCAGTATACGAAAAAAGTAAAAAAAAA
62286310 -TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGCACAGTAAAAAAATTTTACTTTTTTTAGT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGCACAGTAAAAAAATTTTACTTTTTTTAGT
62286374 GTCAGTATCAGGTATCAGTATACGAAAAAAGTAAAAAAAAA
66 GTCAGTATCAGGTATCAGTATACGAAAAAAGTAAAAAAAAA
* *
62286415 TTTTTTGGGTGCTGGCCTGTCAATGGCAGGCACCCAGCACAGTAAAAAAAAATTTACTTTTTTTA
1 -TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGCACAGT-AAAAAAATTTTACTTTTTTTA
62286480 CTGATACTTG
Statistics
Matches: 154, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
103 5 0.03
104 46 0.30
105 43 0.28
107 40 0.26
108 20 0.13
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (106 bp):
TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGCACAGTAAAAAAATTTTACTTTTTTTAGT
GTCAGTATCAGGTATCAGTATACGAAAAAAGTAAAAAAAAA
Found at i:62286896 original size:20 final size:20
Alignment explanation
Indices: 62286871--62286936 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
62286861 CCTTTTCTAT
62286871 TTAAAATATAATTTTAAAAA
1 TTAAAATATAATTTTAAAAA
**
62286891 TTAAAATATCAA-AATAATAAA
1 TTAAAATAT-AATTTTAA-AAA
*
62286912 TAAAAAT-TAATTTTAAAAA
1 TTAAAATATAATTTTAAAAA
62286931 TCTAAA
1 T-TAAA
62286937 TCATATAGCT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
19 6 0.17
20 19 0.53
21 11 0.31
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
TTAAAATATAATTTTAAAAA
Found at i:62288136 original size:112 final size:114
Alignment explanation
Indices: 62287957--62288184 Score: 352
Period size: 112 Copynumber: 2.0 Consensus size: 114
62287947 TCAATCGATA
* * * *
62287957 ACCTTATCCCACTTACCATAATCAAAATCATAGATCAAAACAGCAGATATAACACATCTTAATCA
1 ACCTTATCCCACTCACCACAATCAAAACCATAGATC-AAACAGCAGATATAACACATCTTAACCA
*
62288022 TATGCAAAGATGAAAAATGT-CTTCAGGGGCCAGCTGATGCTTAGATTTT
65 TATGCAAAGATGAAAAATATGCTTCAGGGGCCAGCTGATGCTTAGATTTT
* *
62288071 ACCTTTTCCCACTCACCACAATCAAAACCATAGATC-AACAGCTGATATAACACATCTTAACCAT
1 ACCTTATCCCACTCACCACAATCAAAACCATAGATCAAACAGCAGATATAACACATCTTAACCAT
* *
62288135 ATGCAAAGATGAAAAATATGCTTGAGGGGTCAGCTGATGCTTAGATTTT
66 ATGCAAAGATGAAAAATATGCTTCAGGGGCCAGCTGATGCTTAGATTTT
62288184 A
1 A
62288185 GCTTCGGGTA
Statistics
Matches: 104, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
112 44 0.42
113 28 0.27
114 32 0.31
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.27
Consensus pattern (114 bp):
ACCTTATCCCACTCACCACAATCAAAACCATAGATCAAACAGCAGATATAACACATCTTAACCAT
ATGCAAAGATGAAAAATATGCTTCAGGGGCCAGCTGATGCTTAGATTTT
Found at i:62293582 original size:13 final size:13
Alignment explanation
Indices: 62293560--62293589 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
62293550 AGCAAGGTTA
*
62293560 TTGTTTAGTTACT
1 TTGTTGAGTTACT
62293573 TTGTTGAGTTACT
1 TTGTTGAGTTACT
62293586 TTGT
1 TTGT
62293590 AATGTTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.07, G:0.20, T:0.60
Consensus pattern (13 bp):
TTGTTGAGTTACT
Found at i:62297979 original size:20 final size:19
Alignment explanation
Indices: 62297943--62297985 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
62297933 AATGATTAAA
* *
62297943 AAAAATTAAAGTCATTTTC
1 AAAAATTAAAATAATTTTC
*
62297962 AAAAATTCAAAATAATTTTT
1 AAAAATT-AAAATAATTTTC
62297982 AAAA
1 AAAA
62297986 TTTTATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAATTAAAATAATTTTC
Found at i:62298626 original size:340 final size:339
Alignment explanation
Indices: 62297744--62298685 Score: 1803
Period size: 339 Copynumber: 2.8 Consensus size: 339
62297734 ACCAGGGGAG
*
62297744 AGTAACTAGAGATAGGGTGAGTAAAATTCTATTCGATTTAAAAAATTCGAAAAAAATTCAAATTT
1 AGTAACTAGAGATAGGGTGAGTAAAATTCTATTCGATTTAAAAAAATCGAAAAAAATTCAAATTT
62297809 CGAATAACTTGATTCGAGTATTGAGTTCGAATTGAGTTGAATTTTACAATTTGAATAACAGATTG
66 CGAATAACTTGATTCGAGTATTGAGTTCGAATTGAGTTGAATTTTACAATTTGAATAACAGATTG
62297874 GTATAAATATCATTTTGATTTTGTCAACTTTGAAAGAAAACAAATTGGTCTATCTCAGTAATGAT
131 GTATAAATATCATTTTGATTTTGTCAACTTTGAAAGAAAACAAATTGGTCTATCTCAGTAATGAT
*
62297939 TAAAAAAAATTAAAGTCATTTTCAAAAATTCAAAATAATTTTTAAAATTTTATAAAAAAATTCAA
196 TAAAAAAAATTAAAGTCATTTTCAAAAATTCAAAATAATTTTTAAATTTTTAT-AAAAAATTCAA
*
62298004 TATTTATAAAAACCTCAGCAAAAAAATCGAAAAAAATTCAAATTTCGAATAACTTGATTCTATTC
260 TATTAATAAAAACCTCAGCAAAAAAATCGAAAAAAATTCAAATTTCGAATAACTTGATTCTATTC
*
62298069 AAATTTCAAATTTCG
325 AAATTTCAAATTTCA
62298084 AGTAACTAGAGATAGGGTGAGTAAAATTCTATTCGATTTAAAAAAATCGAAAAAAATTCAAATTT
1 AGTAACTAGAGATAGGGTGAGTAAAATTCTATTCGATTTAAAAAAATCGAAAAAAATTCAAATTT
*
62298149 CGAATAACTTGATTCGAGTATTGAGTTCGAATTGAGTTAAATTTTACAATTTGAATAACAGATTG
66 CGAATAACTTGATTCGAGTATTGAGTTCGAATTGAGTTGAATTTTACAATTTGAATAACAGATTG
62298214 GTATAAATATCATTTTGATTTTGTCAACTTTGAAAGAAAACAAATTGGTCTATCTCAGTAATGAT
131 GTATAAATATCATTTTGATTTTGTCAACTTTGAAAGAAAACAAATTGGTCTATCTCAGTAATGAT
62298279 TAAAAAAAATTAAAGTCATTTTCAAAAATTCAAAATAATTTTTAAATTTTTATAAAAAATTCAAT
196 TAAAAAAAATTAAAGTCATTTTCAAAAATTCAAAATAATTTTTAAATTTTTATAAAAAATTCAAT
62298344 ATTAATAAAAACCTCAGCAAAAAAATCGAAAAAAATTCAAATTTCGAATAACTTGATTCTATTCA
261 ATTAATAAAAACCTCAGCAAAAAAATCGAAAAAAATTCAAATTTCGAATAACTTGATTCTATTCA
62298409 AATTTCAAATTTCA
326 AATTTCAAATTTCA
*
62298423 AGTAACTAGAGATAGGGAGAGTAAAATTCTATTCGATTTAAAAAAATCGAAAAAAATTCAAATTT
1 AGTAACTAGAGATAGGGTGAGTAAAATTCTATTCGATTTAAAAAAATCGAAAAAAATTCAAATTT
* *
62298488 CGAATAACTTGATTTGAGTATTGAGTTCGAATTGAGTTGAATTTTACAATTTGAATAACAAATTG
66 CGAATAACTTGATTCGAGTATTGAGTTCGAATTGAGTTGAATTTTACAATTTGAATAACAGATTG
62298553 GTATAAATATCATTTTGATTTTGTCAACTTTGAAAGAAAACAAATTGGTCTATCTCAGTAATGAT
131 GTATAAATATCATTTTGATTTTGTCAACTTTGAAAGAAAACAAATTGGTCTATCTCAGTAATGAT
62298618 TAAAAAAAATTAAAGTCATTTTCAAAAATTCAAAATAATTTTTAAATTTTTATAAAAAATTCAAT
196 TAAAAAAAATTAAAGTCATTTTCAAAAATTCAAAATAATTTTTAAATTTTTATAAAAAATTCAAT
62298683 ATT
261 ATT
62298686 TATATTTTAA
Statistics
Matches: 593, Mismatches: 9, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
339 348 0.59
340 245 0.41
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.35
Consensus pattern (339 bp):
AGTAACTAGAGATAGGGTGAGTAAAATTCTATTCGATTTAAAAAAATCGAAAAAAATTCAAATTT
CGAATAACTTGATTCGAGTATTGAGTTCGAATTGAGTTGAATTTTACAATTTGAATAACAGATTG
GTATAAATATCATTTTGATTTTGTCAACTTTGAAAGAAAACAAATTGGTCTATCTCAGTAATGAT
TAAAAAAAATTAAAGTCATTTTCAAAAATTCAAAATAATTTTTAAATTTTTATAAAAAATTCAAT
ATTAATAAAAACCTCAGCAAAAAAATCGAAAAAAATTCAAATTTCGAATAACTTGATTCTATTCA
AATTTCAAATTTCA
Found at i:62300634 original size:37 final size:37
Alignment explanation
Indices: 62300580--62300654 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
62300570 AGTAAGCATA
62300580 TCAGTTGTGTAAAGCAGATTGCTTCCTTGCTACACGT
1 TCAGTTGTGTAAAGCAGATTGCTTCCTTGCTACACGT
* *
62300617 TCAGTTGTGTAACGCAGATTGCTTCCTTGCTGCACGT
1 TCAGTTGTGTAAAGCAGATTGCTTCCTTGCTACACGT
62300654 T
1 T
62300655 TTTGAGCAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (37 bp):
TCAGTTGTGTAAAGCAGATTGCTTCCTTGCTACACGT
Found at i:62301493 original size:24 final size:24
Alignment explanation
Indices: 62301465--62301512 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
62301455 TCATTTATTC
*
62301465 ATCAAGTCATGAATCAAGCTTTCA
1 ATCAAGTCATAAATCAAGCTTTCA
62301489 ATCAAGTCATAAATCAAGCTTTCA
1 ATCAAGTCATAAATCAAGCTTTCA
62301513 TCTTTGAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (24 bp):
ATCAAGTCATAAATCAAGCTTTCA
Found at i:62302671 original size:41 final size:41
Alignment explanation
Indices: 62302626--62302707 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
62302616 ATCCATCACA
62302626 TAGCCCCTACTTTTTGTTGTGGTTGGCTCTGCCGATTTGGG
1 TAGCCCCTACTTTTTGTTGTGGTTGGCTCTGCCGATTTGGG
62302667 TAGCCCCTACTTTTTGTTGTGGTTGGCTCTGCCGATTTGGG
1 TAGCCCCTACTTTTTGTTGTGGTTGGCTCTGCCGATTTGGG
62302708 GTCCAATAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.07, C:0.22, G:0.29, T:0.41
Consensus pattern (41 bp):
TAGCCCCTACTTTTTGTTGTGGTTGGCTCTGCCGATTTGGG
Found at i:62307420 original size:41 final size:41
Alignment explanation
Indices: 62307363--62307448 Score: 172
Period size: 41 Copynumber: 2.1 Consensus size: 41
62307353 TAAGTATTGA
62307363 ATTTCCAAAGTCATCTGATAGATAAGTTAATGGTAAACCAG
1 ATTTCCAAAGTCATCTGATAGATAAGTTAATGGTAAACCAG
62307404 ATTTCCAAAGTCATCTGATAGATAAGTTAATGGTAAACCAG
1 ATTTCCAAAGTCATCTGATAGATAAGTTAATGGTAAACCAG
62307445 ATTT
1 ATTT
62307449 GCTGCTTTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.31
Consensus pattern (41 bp):
ATTTCCAAAGTCATCTGATAGATAAGTTAATGGTAAACCAG
Found at i:62315944 original size:21 final size:21
Alignment explanation
Indices: 62315912--62315952 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
62315902 AGGCTCGAGG
62315912 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
62315933 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
62315953 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:62324878 original size:24 final size:21
Alignment explanation
Indices: 62324818--62324885 Score: 118
Period size: 21 Copynumber: 3.2 Consensus size: 21
62324808 CAGAAGGAGT
*
62324818 GAGTAGTACTTCGCAGCAGGTG
1 GAGT-GTACTCCGCAGCAGGTG
62324840 GAGTGTACTCCGCAGCAGGTG
1 GAGTGTACTCCGCAGCAGGTG
62324861 GAGTGTACTCCGCAGCAGGTG
1 GAGTGTACTCCGCAGCAGGTG
62324882 GAGT
1 GAGT
62324886 TTGAGTAGAG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
21 41 0.91
22 4 0.09
ACGTcount: A:0.21, C:0.21, G:0.38, T:0.21
Consensus pattern (21 bp):
GAGTGTACTCCGCAGCAGGTG
Found at i:62329000 original size:30 final size:30
Alignment explanation
Indices: 62328964--62329023 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
62328954 TTTTAAACAC
*
62328964 ATATCAGTCGGAGAATCCTTCAATTCTCCG
1 ATATCAGTCGGAGAATCCATCAATTCTCCG
**
62328994 ATATCAGTCGGATTATCCATCAATTCTCCG
1 ATATCAGTCGGAGAATCCATCAATTCTCCG
62329024 CAACTGCATC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (30 bp):
ATATCAGTCGGAGAATCCATCAATTCTCCG
Found at i:62329854 original size:16 final size:16
Alignment explanation
Indices: 62329833--62329864 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
62329823 AGAAAGTAAC
62329833 ATTTTTGGCATCAGAT
1 ATTTTTGGCATCAGAT
62329849 ATTTTTGGCATCAGAT
1 ATTTTTGGCATCAGAT
62329865 GGGGAGTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (16 bp):
ATTTTTGGCATCAGAT
Found at i:62331462 original size:14 final size:14
Alignment explanation
Indices: 62331443--62331472 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
62331433 TAAGAAATGG
62331443 AATATAAAATCTGT
1 AATATAAAATCTGT
62331457 AATATAAAATCTGT
1 AATATAAAATCTGT
62331471 AA
1 AA
62331473 ACAAAATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (14 bp):
AATATAAAATCTGT
Found at i:62346276 original size:13 final size:15
Alignment explanation
Indices: 62346246--62346275 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
62346236 CTGAAAGAAC
62346246 GACCAAAAAAAGAGA
1 GACCAAAAAAAGAGA
62346261 GACCAAAAAAAGAGA
1 GACCAAAAAAAGAGA
62346276 CAACCCTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.13, G:0.20, T:0.00
Consensus pattern (15 bp):
GACCAAAAAAAGAGA
Found at i:62350663 original size:69 final size:69
Alignment explanation
Indices: 62350552--62350691 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
62350542 ATATCTTTAT
62350552 TTTCAGTTTTAGGGATGCTGGACTCACCACTGGCCGTGGCTGGAGAAGAATCCATCAAACTAGCG
1 TTTCAGTTTTAGGGATGCTGGACTCACCACTGGCCGTGGCTGGAGAAGAATCCATCAAACTAGCG
62350617 GCGA
66 GCGA
*
62350621 TTTCAGTTTTAGGGATGCTGGACTCACCGCTGGCCGTGGCTGGAGAAGAATCCATCAAACTAGCG
1 TTTCAGTTTTAGGGATGCTGGACTCACCACTGGCCGTGGCTGGAGAAGAATCCATCAAACTAGCG
62350686 GCGA
66 GCGA
62350690 TT
1 TT
62350692 GCAGCCCTCA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (69 bp):
TTTCAGTTTTAGGGATGCTGGACTCACCACTGGCCGTGGCTGGAGAAGAATCCATCAAACTAGCG
GCGA
Found at i:62359225 original size:21 final size:22
Alignment explanation
Indices: 62359201--62359244 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
62359191 TTAATCTCTT
*
62359201 ATTTTTATA-TTATGAAATTTA
1 ATTTTTATACTTATCAAATTTA
*
62359222 ATTTTTATACTTTTCAAATTTA
1 ATTTTTATACTTATCAAATTTA
62359244 A
1 A
62359245 AAATATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTTTTATACTTATCAAATTTA
Found at i:62360248 original size:99 final size:100
Alignment explanation
Indices: 62360008--62360305 Score: 363
Period size: 99 Copynumber: 3.0 Consensus size: 100
62359998 TAGAATTCTG
* * * *
62360008 CTTTTAATTTGATGAATTTATTTTACTCTGAGTGAGCTAGCGGTTGTATTTATGATGATATATTG
1 CTTTTAATTTGATGAATTTA-TTTACTCGGAGTGAGCTAGCTGTTGTATTTGTGATGATATAGTG
* *
62360073 TTAATTGATTAGAGATTAGTATTTGTTATGATTTTG
65 TTAATTGATTAGAGATTAGTATATGTTATGATTTTA
* * *
62360109 CGTTTAATTTAATGAATTTATTTACTCGGAGTGAGCTAGCTGTTGTATTTGTGATGTTATAGTGT
1 CTTTTAATTTGATGAATTTATTTACTCGGAGTGAGCTAGCTGTTGTATTTGTGATGATATAGTGT
* *
62360174 TAATTTG-TTA-ATATTTGT-TATGATT-T-AGTTTTAA
66 TAA-TTGATTAGAGATTAGTATATG-TTATGA-TTTT-A
* *
62360208 CTTTTACTTTGATGAATTTATTTACTCGGAATGAGCTAGCTGTTGTATTTGTGATGATATAGTGT
1 CTTTTAATTTGATGAATTTATTTACTCGGAGTGAGCTAGCTGTTGTATTTGTGATGATATAGTGT
* * * *
62360273 TAACTGATTACATATTAGTATTTGTTATGATTT
66 TAATTGATTAGAGATTAGTATATGTTATGATTT
62360306 AGTATTGATT
Statistics
Matches: 169, Mismatches: 19, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
97 1 0.01
98 10 0.06
99 74 0.44
100 55 0.33
101 28 0.17
102 1 0.01
ACGTcount: A:0.26, C:0.06, G:0.19, T:0.49
Consensus pattern (100 bp):
CTTTTAATTTGATGAATTTATTTACTCGGAGTGAGCTAGCTGTTGTATTTGTGATGATATAGTGT
TAATTGATTAGAGATTAGTATATGTTATGATTTTA
Found at i:62363184 original size:3 final size:3
Alignment explanation
Indices: 62363176--62363200 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
62363166 AGCAGCTGTA
62363176 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
62363201 GAGCTCCAAC
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:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:62367868 original size:18 final size:18
Alignment explanation
Indices: 62367835--62367869 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62367825 AATTTGTTTA
*
62367835 ATTTTACGTTTAATTTGG
1 ATTTTACGGTTAATTTGG
*
62367853 ATTTTACGGTTGATTTG
1 ATTTTACGGTTAATTTG
62367870 ATGAAAGTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.06, G:0.20, T:0.54
Consensus pattern (18 bp):
ATTTTACGGTTAATTTGG
Found at i:62368545 original size:23 final size:24
Alignment explanation
Indices: 62368501--62368556 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
62368491 TAAGATGATT
62368501 ATATATAGAATTATAATAAATTAAA
1 ATATATA-AATTATAATAAATTAAA
* *
62368526 ATATATAAATT-TATTGAATTAAA
1 ATATATAAATTATAATAAATTAAA
*
62368549 ATAAATAA
1 ATATATAA
62368557 TTAAATTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 17 0.61
24 4 0.14
25 7 0.25
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
ATATATAAATTATAATAAATTAAA
Found at i:62369550 original size:21 final size:20
Alignment explanation
Indices: 62369525--62369573 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
62369515 TTGAGTTAAT
* *
62369525 TTTTTTAGATAATTACGTTTA
1 TTTTTTAGAAAATTAAG-TTA
*
62369546 TTTTTAAAGAAAATTAAGTTA
1 TTTTT-TAGAAAATTAAGTTA
62369567 TTTTTTA
1 TTTTTTA
62369574 AATTTCATGT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 13 0.57
22 9 0.39
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (20 bp):
TTTTTTAGAAAATTAAGTTA
Found at i:62372033 original size:22 final size:22
Alignment explanation
Indices: 62372007--62372060 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
62371997 TTTTTCTTTA
**
62372007 TTTATGAATTTCATCCTTTAGT
1 TTTATGAATTTCAAACTTTAGT
* *
62372029 TTTATGAATATCAAATTTTAGT
1 TTTATGAATTTCAAACTTTAGT
62372051 TTT-TGAATTT
1 TTTATGAATTT
62372061 TGTGATAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.56
Consensus pattern (22 bp):
TTTATGAATTTCAAACTTTAGT
Found at i:62373561 original size:21 final size:21
Alignment explanation
Indices: 62373537--62373584 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
62373527 CCATGAAGCT
62373537 CTTGGTTCATCAAATGAAAAC
1 CTTGGTTCATCAAATGAAAAC
**
62373558 CTTGAATCATCAAATGAAAAC
1 CTTGGTTCATCAAATGAAAAC
62373579 CTTGGT
1 CTTGGT
62373585 GGAGCTATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.29
Consensus pattern (21 bp):
CTTGGTTCATCAAATGAAAAC
Found at i:62382133 original size:6 final size:6
Alignment explanation
Indices: 62382122--62382165 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
62382112 GAATTATTGA
* *
62382122 ATTATC ATTATC ATTAGC ATTAGC ATTAGC ATTAGC ATT-GC ATT
1 ATTAGC ATTAGC ATTAGC ATTAGC ATTAGC ATTAGC ATTAGC ATT
62382166 GTTCTTGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
5 5 0.14
6 32 0.86
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (6 bp):
ATTAGC
Found at i:62382690 original size:28 final size:27
Alignment explanation
Indices: 62382656--62382711 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 27
62382646 GAGTCAACTT
62382656 TTAATTTTA-ATTAAACAAATTCAAATTA
1 TTAATTTTATA-TAAACAAATT-AAATTA
*
62382684 TTAATTTTATATAATCAAATTAAATTA
1 TTAATTTTATATAAACAAATTAAATTA
62382711 T
1 T
62382712 ATTTTCATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 7 0.27
28 18 0.69
29 1 0.04
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.46
Consensus pattern (27 bp):
TTAATTTTATATAAACAAATTAAATTA
Found at i:62384934 original size:44 final size:44
Alignment explanation
Indices: 62384866--62385030 Score: 188
Period size: 44 Copynumber: 3.6 Consensus size: 44
62384856 TTTGAGTACT
* *
62384866 TCTGATCAGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAGTGACAAGTGACAAGTGATAGCTTCAGCTACACTTA
* * *
62384910 TCTGATCAGTGACAAGTGACAAGTGGTAACTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGACAAGTGATAGCTTCAGCTACACTTA
*
62384954 TCTGATCAGTGACAAGTGGCAAGTGATAAG-TGGTAGCTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGACAAGTGAT-AGCT--T--C--AGCTACACTTA
* *
62385004 TCTGATCAGGGACAAGTGATAAGTGAT
1 TCTGATCAGTGACAAGTGACAAGTGAT
62385031 CATATGTAAG
Statistics
Matches: 102, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
44 65 0.64
45 1 0.01
46 1 0.01
50 35 0.34
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (44 bp):
TCTGATCAGTGACAAGTGACAAGTGATAGCTTCAGCTACACTTA
Found at i:62385005 original size:50 final size:51
Alignment explanation
Indices: 62384917--62385030 Score: 176
Period size: 50 Copynumber: 2.3 Consensus size: 51
62384907 TTATCTGATC
* *
62384917 AGTGACAAGTGACAAGTGGTAACTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAGGGACA
* *
62384968 AGTGGCAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGGGACA
1 AGTGACAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAGGGACA
*
62385018 AGTGATAAGTGAT
1 AGTGACAAGTGAT
62385031 CATATGTAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 37 0.65
51 20 0.35
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAGGGACA
Found at i:62387600 original size:16 final size:16
Alignment explanation
Indices: 62387569--62387600 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
62387559 ATCGATATAC
*
62387569 GAAAAAGGAGAAAAAA
1 GAAAAAGGAAAAAAAA
62387585 GAAAAAGGAAAAAAAA
1 GAAAAAGGAAAAAAAA
62387601 ATTTTTGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
GAAAAAGGAAAAAAAA
Found at i:62388116 original size:108 final size:107
Alignment explanation
Indices: 62387795--62388117 Score: 346
Period size: 106 Copynumber: 3.0 Consensus size: 107
62387785 TATACAAAAA
* *
62387795 AATTTAAAAAAAATTT-TCTTTTTTTTCGT-TCAGAATCAGATATCAGTATACGAAAAAATTTAA
1 AATTTAAAAAAAATTTCT-TTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAGTAAA
*** *
62387858 AAATTTTTTTTTGGTGCTGGCCTGTCAATGGCCAGCACCCAACAAT
65 AAAAAATTTTTT--TGCTGGCCTGTCAATGGCCAGCA-CCAACAAC
** * * * *
62387904 AATAAAAAAAAAGAAATTTTACTTTTTTTTTCGTGTTAAAAACAGGTATCAGTATACGAAAAAAG
1 AAT--TTAAAAA-AAA-TTT-CTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAG
*** * * **
62387969 TAAAAAAAAA-TTGGGTGCTAGCCTGTCAATGGCCGGCACCAAGTAC
61 TAAAAAAAAATTTTTTTGCTGGCCTGTCAATGGCCAGCACCAACAAC
* *
62388015 AATTTAAAAAAAATTTCTTTTTTTTTCGTGTCAGAATCAGATATTAATATACGAAAAAAGTAAAA
1 AATTTAAAAAAAATTTCTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAGT-AAA
62388080 AAAAAATTTTTTTGCTGGCCTGTCAATGGCCAGCACCA
65 AAAAAATTTTTTTGCTGGCCTGTCAATGGCCAGCACCA
62388118 CCTTCTTGTA
Statistics
Matches: 173, Mismatches: 32, Indels: 19
0.77 0.14 0.08
Matches are distributed among these distances:
106 39 0.23
107 12 0.07
108 29 0.17
109 8 0.05
111 13 0.08
112 24 0.14
113 3 0.02
114 13 0.08
115 32 0.18
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (107 bp):
AATTTAAAAAAAATTTCTTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAGTAAAA
AAAAATTTTTTTGCTGGCCTGTCAATGGCCAGCACCAACAAC
Found at i:62391063 original size:13 final size:13
Alignment explanation
Indices: 62391045--62391071 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
62391035 CAGAGCTTTA
62391045 ATCACCAGTCTTG
1 ATCACCAGTCTTG
62391058 ATCACCAGTCTTG
1 ATCACCAGTCTTG
62391071 A
1 A
62391072 CATTCAAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (13 bp):
ATCACCAGTCTTG
Found at i:62400445 original size:40 final size:40
Alignment explanation
Indices: 62400388--62400466 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
62400378 GTTTTAAAAA
* * * *
62400388 TTTTGAATTTGACCATTATGGATTCGGATTATTTTGGGTT
1 TTTTGAATTTGACCATTACGAATTCGAATAATTTTGGGTT
* *
62400428 TTTTGAGTTTGATCATTACGAATTCGAATAATTTTGGGT
1 TTTTGAATTTGACCATTACGAATTCGAATAATTTTGGGT
62400467 CATTTGATCG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.23, C:0.08, G:0.22, T:0.48
Consensus pattern (40 bp):
TTTTGAATTTGACCATTACGAATTCGAATAATTTTGGGTT
Found at i:62403271 original size:13 final size:13
Alignment explanation
Indices: 62403253--62403280 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
62403243 TTGGTTAGGA
62403253 ATTAACTAAAAAC
1 ATTAACTAAAAAC
62403266 ATTAACTAAAAAC
1 ATTAACTAAAAAC
62403279 AT
1 AT
62403281 GTTACTCAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.14, G:0.00, T:0.25
Consensus pattern (13 bp):
ATTAACTAAAAAC
Found at i:62417046 original size:111 final size:110
Alignment explanation
Indices: 62416850--62417074 Score: 396
Period size: 111 Copynumber: 2.0 Consensus size: 110
62416840 ACTACACAAA
*
62416850 AAAATCAAATTACTCAGTACATAAATGTTGAGGGTTATTTTTTAGAATCAAGACTAATTTGACAT
1 AAAATCAAATTACTCAGTACATAAATGTTGAGGGTTATTTTTTAAAATCAAGACTAATTTGACAT
62416915 AATTTATAAATGCTGAGGGTTAAAGGTACTATTATGCCAAGTTTT
66 AATTTATAAATGCTGAGGGTTAAAGGTACTATTATGCCAAGTTTT
62416960 AAAATCAAATTACTCAGTACATAAATGTTGAGGGTTATTTTTTTAAAATCAAGACTAATTTGACA
1 AAAATCAAATTACTCAGTACATAAATGTTGAGGGTTA-TTTTTTAAAATCAAGACTAATTTGACA
* * * *
62417025 TAATTTATAAATGTTGGGGGTTAAAGTTACTATTATGTCAAGTTTT
65 TAATTTATAAATGCTGAGGGTTAAAGGTACTATTATGCCAAGTTTT
62417071 AAAA
1 AAAA
62417075 GTTGTCGCCA
Statistics
Matches: 109, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
110 37 0.34
111 72 0.66
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (110 bp):
AAAATCAAATTACTCAGTACATAAATGTTGAGGGTTATTTTTTAAAATCAAGACTAATTTGACAT
AATTTATAAATGCTGAGGGTTAAAGGTACTATTATGCCAAGTTTT
Found at i:62417671 original size:13 final size:13
Alignment explanation
Indices: 62417653--62417677 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62417643 ATATTGATTT
62417653 TTCAGTGTTTTAA
1 TTCAGTGTTTTAA
62417666 TTCAGTGTTTTA
1 TTCAGTGTTTTA
62417678 GTTGGATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.08, G:0.16, T:0.56
Consensus pattern (13 bp):
TTCAGTGTTTTAA
Found at i:62432199 original size:21 final size:19
Alignment explanation
Indices: 62432175--62432223 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
62432165 AAAAAATTTG
*
62432175 AATTTTTTATAACTTCTTTAT
1 AATTTTTTATAA-TT-TATAT
*
62432196 AATTTTTAATAATTTATAT
1 AATTTTTTATAATTTATAT
62432215 AATATTTTT
1 AAT-TTTTT
62432224 TTAAATTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 7 0.29
20 6 0.25
21 11 0.46
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (19 bp):
AATTTTTTATAATTTATAT
Found at i:62432519 original size:23 final size:24
Alignment explanation
Indices: 62432486--62432533 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
62432476 AAAGAAAAAT
* *
62432486 AAAAAAGAAGGGACCT-AATAGCA
1 AAAAAAAAAGGGACCTCAAAAGCA
*
62432509 AAAAAAAAAGGTACCTCAAAAGCA
1 AAAAAAAAAGGGACCTCAAAAGCA
62432533 A
1 A
62432534 CGCTGATAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.60, C:0.15, G:0.17, T:0.08
Consensus pattern (24 bp):
AAAAAAAAAGGGACCTCAAAAGCA
Found at i:62433554 original size:17 final size:19
Alignment explanation
Indices: 62433525--62433559 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
62433515 TTATTGACGC
62433525 AAATTCAAAAT-AATTTTA
1 AAATTCAAAATAAATTTTA
62433543 AAATTC-AAATAAATTTT
1 AAATTCAAAATAAATTTT
62433560 GACCCTACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATTCAAAATAAATTTTA
Found at i:62442128 original size:62 final size:62
Alignment explanation
Indices: 62441934--62442138 Score: 268
Period size: 62 Copynumber: 3.2 Consensus size: 62
62441924 GAATACATTC
* *
62441934 TTTGCCTTCAATTCAATAAATTCAACCAAAGAAAGAGGGAACTTTAGGTCATATTTACCCAACA
1 TTTGCCTTCAATTCCATAAATTCAAGCAAA-AAAGAGGGAACTTTAGGTCA-ATTTACCCAACA
* * *
62441998 TTTGCCTTCAATTTACCCAACAAATTCAAGCAAAAAAGA-GGAACCTTAGGTCAATTTACCTAAC
1 TTTGCCTTCAA-TT--CC-ATAAATTCAAGCAAAAAAGAGGGAACTTTAGGTCAATTTACCCAAC
62442062 A
62 A
* * *
62442063 TTTGCCTTCAATTCCATAAATTCAAGCAGAAAAGAGGGAGCTTTAGGTCAATTTACCCAATA
1 TTTGCCTTCAATTCCATAAATTCAAGCAAAAAAGAGGGAACTTTAGGTCAATTTACCCAACA
*
62442125 TTTGCTTTCAATTC
1 TTTGCCTTCAATTC
62442139 AAAACCCGAC
Statistics
Matches: 124, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
61 18 0.15
62 37 0.30
64 13 0.10
65 24 0.19
66 13 0.10
67 6 0.05
68 13 0.10
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.30
Consensus pattern (62 bp):
TTTGCCTTCAATTCCATAAATTCAAGCAAAAAAGAGGGAACTTTAGGTCAATTTACCCAACA
Found at i:62461380 original size:193 final size:193
Alignment explanation
Indices: 62461045--62461401 Score: 497
Period size: 193 Copynumber: 1.8 Consensus size: 193
62461035 CCTAGCTCGA
* * *
62461045 TAAGATATTGTTCACTTTGGGCGTACATGCCCTCACAGTTTTGTTATTGGGAGCATTCATACACC
1 TAAGATATTGTTCACTTTGAGCGCACATGCCCTCACAGTTTTGTTATTGAGAGCATTCATACACC
* * * *
62461110 CTCAAAAGGTCTCTTACCACTTAAGTGTTGTTACCCTTTTATATAGCACATGCTTTTCCCGTGCT
66 CTCAAAAGGCCTCTTACCACTTAAGTGTTGCTACCCCTTTATATAGCACATGCTTCTCCCGTGCT
* *
62461175 TTGCTAATGTGAGATTTGCCTAAGGTTTTACATTATAAATGTCATAACCAACACCCAGCATGG
131 TTGCCAATGTGAGATTTGCCTAAGGTGTTACATTATAAATGTCATAACCAACACCCAGCATGG
* ** *
62461238 TAAGATATT-TTCCGCTTTGAGCGCACATGGCCCTCATGGTTTTGTTATTGAGAG-TTTCTATAC
1 TAAGATATTGTT-CACTTTGAGCGCACAT-GCCCTCACAGTTTTGTTATTGAGAGCATTC-ATAC
*
62461301 ACCC-CAAAAGGCCTCTTACCACTTAAGTGTTGCTACCCCTTTATATAGCACATG-TCTCTCTCG
63 ACCCTCAAAAGGCCTCTTACCACTTAAGTGTTGCTACCCCTTTATATAGCACATGCT-TCTCCCG
* * *
62461364 TGCTTTGCCGATGTGAGATTTGCTTAGGGTGTTACATT
127 TGCTTTGCCAATGTGAGATTTGCCTAAGGTGTTACATT
62461402 CACCTCCCTT
Statistics
Matches: 143, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
192 3 0.02
193 110 0.77
194 30 0.21
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (193 bp):
TAAGATATTGTTCACTTTGAGCGCACATGCCCTCACAGTTTTGTTATTGAGAGCATTCATACACC
CTCAAAAGGCCTCTTACCACTTAAGTGTTGCTACCCCTTTATATAGCACATGCTTCTCCCGTGCT
TTGCCAATGTGAGATTTGCCTAAGGTGTTACATTATAAATGTCATAACCAACACCCAGCATGG
Found at i:62461711 original size:275 final size:271
Alignment explanation
Indices: 62461209--62462027 Score: 1025
Period size: 275 Copynumber: 3.0 Consensus size: 271
62461199 GTTTTACATT
*
62461209 ATAAATGTCATAACCAACACCCAG-CATGGTAAGATATT-TTCCGCTTT-GAGCGCACATGGCCC
1 ATAAATGTCATAACCAACACCCAGCCA--GTAAGATATTGTTCC-TTTTGGA-CGCACATGGCCC
* * * * * * *
62461271 TCATGGTTTTGTTATTGAGAGTTTCTATACACCCCAAAAGGCCTCTTACCACTTAAGTGTTGCTA
62 TCATGGCTTTGTTCTTGGGAG-CTCCATACACTCCAAAAGGCCTTTTACCACTTAAGTGTTGCTA
* * *
62461336 CCCCTTTATATAGCACATGTCTCTCTCGTGCTTTGCCGATGTGAGATTTGCTTAGGGTGTTACAT
126 CCCCTTTATATAGCCCAAGTCTCTCTCGTGCTTTGCCGATGTGAGATTTGCCTAGGGTGTTACAT
* ** * * *
62461401 TCACCTCCCTTAGGGACTCAACATCCTCGCTGAGGTTTGCCCCACCATCGCTCAAAAGGCATAAT
191 TCACC-CCCTTAGGGACTTAATGTCCTCGCTGAGGTTTGCCCCACCATCGCTCAAGAGGCACAAC
62461466 GAGTGGCTCTGATACCA
255 GAGTGGCTCTGATACCA
* *
62461483 ATAAATGTCATAACCAACACCCAGTCCAGTAAGATATTGTTCATTTTGGACGCACATGGCCCTTA
1 ATAAATGTCATAACCAACACCCAG-CCAGTAAGATATTGTTCCTTTTGGACGCACATGGCCCTCA
* * *
62461548 CGGCTTTGTTCTTGGGAGCGCCCATACATCTCCAAAAGGCTTTTTACCACTTAAGTGTTGCTACC
65 TGGCTTTGTTCTTGGGAGC-TCCATACA-CTCCAAAAGGCCTTTTACCACTTAAGTGTTGCTACC
* * *
62461613 CCTTTATATAGCCCAGGTCTCTCTTGTGCTTTGCTGATGTGAGATTTGCCTAGGGTGTTACATTC
128 CCTTTATATAGCCCAAGTCTCTCTCGTGCTTTGCCGATGTGAGATTTGCCTAGGGTGTTACATTC
* ** * * *
62461678 AATCCCCTTAAAGACTTAATGTCCTCCCTGAGGTTTGCCCCACCATCACTCAAGAGGCACAGCGA
193 -ACCCCCTTAGGGACTTAATGTCCTCGCTGAGGTTTGCCCCACCATCGCTCAAGAGGCACAACGA
*
62461743 GTGGCTCTGATATCA
257 GTGGCTCTGATACCA
* * * * *
62461758 ATAAATGTAATAACCAACACCCAGCCTGGTAAGATATTGTCTGCTTTAGG-CGCACATGACCCTC
1 ATAAATGTCATAACCAACACCCAGCC-AGTAAGATATTGT-TCCTTTTGGACGCACATGGCCCTC
* * * *
62461822 ATGGCTTTATTCTTGGGAGCTCCATACACCTCTAAAAGGCCTTTTATCACTTAAGTGTTGTTACC
64 ATGGCTTTGTTCTTGGGAGCTCCATACA-CTCCAAAAGGCCTTTTACCACTTAAGTGTTGCTACC
* * * *
62461887 CCTTTATATAGCCCAAGTCTCTCCCGTGCTTTACCGATGTGGGATTTGCCTAGGGTATTACATTC
128 CCTTTATATAGCCCAAGTCTCTCTCGTGCTTTGCCGATGTGAGATTTGCCTAGGGTGTTACATTC
* * * * * *
62461952 ACCCCCTTAGGGACTTAGTGTCCTTGTTAAGGTTTGCCCTACCATCGCTCAAGAGGCACGACGAG
193 ACCCCCTTAGGGACTTAATGTCCTCGCTGAGGTTTGCCCCACCATCGCTCAAGAGGCACAACGAG
*
62462017 TGACTCTGATA
258 TGGCTCTGATA
62462028 TTATAAATGT
Statistics
Matches: 470, Mismatches: 66, Indels: 19
0.85 0.12 0.03
Matches are distributed among these distances:
273 63 0.13
274 170 0.36
275 227 0.48
276 10 0.02
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (271 bp):
ATAAATGTCATAACCAACACCCAGCCAGTAAGATATTGTTCCTTTTGGACGCACATGGCCCTCAT
GGCTTTGTTCTTGGGAGCTCCATACACTCCAAAAGGCCTTTTACCACTTAAGTGTTGCTACCCCT
TTATATAGCCCAAGTCTCTCTCGTGCTTTGCCGATGTGAGATTTGCCTAGGGTGTTACATTCACC
CCCTTAGGGACTTAATGTCCTCGCTGAGGTTTGCCCCACCATCGCTCAAGAGGCACAACGAGTGG
CTCTGATACCA
Found at i:62473842 original size:7 final size:7
Alignment explanation
Indices: 62473830--62473854 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
62473820 CGTTAACGCT
62473830 ATTATCA
1 ATTATCA
62473837 ATTATCA
1 ATTATCA
62473844 ATTATCA
1 ATTATCA
62473851 ATTA
1 ATTA
62473855 ACACTGGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (7 bp):
ATTATCA
Found at i:62490811 original size:3 final size:3
Alignment explanation
Indices: 62490743--62490802 Score: 77
Period size: 3 Copynumber: 20.0 Consensus size: 3
62490733 TGTTAACTTC
*
62490743 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATCT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
* *
62490788 ACT ATT ATT AGT ATT
1 ATT ATT ATT ATT ATT
62490803 GGTATTATTG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 1 0.02
3 48 0.98
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:62490883 original size:22 final size:23
Alignment explanation
Indices: 62490836--62490884 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
62490826 ATCTCTATTC
*
62490836 ATATATACTTATGTATTTTCAAAT
1 ATATATACTTATGTATTATC-AAT
62490860 ATATATATCTTAT-TATTATC-AT
1 ATATATA-CTTATGTATTATCAAT
62490882 ATA
1 ATA
62490885 AGTGCTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 5 0.22
24 13 0.57
25 5 0.22
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATATACTTATGTATTATCAAT
Found at i:62502325 original size:1 final size:1
Alignment explanation
Indices: 62502319--62502349 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
62502309 TTTGCTTCCT
62502319 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
62502350 CTTTGGAGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:62503797 original size:86 final size:86
Alignment explanation
Indices: 62503601--62503812 Score: 234
Period size: 86 Copynumber: 2.5 Consensus size: 86
62503591 GAAGACAAAG
* * *
62503601 GATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAA-ACAAAGCCTTGCATCCATCGATCGC
1 GATCTTACCTCCCTGCATTAACAGCGAAGCAGATC-AAAGACAAAGCCTTGCATCCATCGATCGC
62503665 AGTGGAGCTAGTTAAAGAAGTA
65 AGTGGAGCTAGTTAAAGAAGTA
* * * * *
62503687 GATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACAAAGCCTTGCCTCCATCGGTTGCA
1 GATCTTACCTCCCTGCATTAACAGCGAAGCAGATCAAAGACAAAGCCTTGCATCCATCGATCGCA
* * *
62503752 TTGGAGC-AGATTGAAGCCAG-A
66 GTGGAGCTAG-TTAAAG-AAGTA
* * *
62503773 GATCTTATCTCCCTGAGATT-ACAGCGGAGCAGATCAAAGA
1 GATCTTACCTCCCTG-CATTAACAGCGAAGCAGATCAAAGA
62503813 TAGTAATCCT
Statistics
Matches: 110, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
85 5 0.05
86 100 0.91
87 5 0.05
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (86 bp):
GATCTTACCTCCCTGCATTAACAGCGAAGCAGATCAAAGACAAAGCCTTGCATCCATCGATCGCA
GTGGAGCTAGTTAAAGAAGTA
Found at i:62503905 original size:41 final size:41
Alignment explanation
Indices: 62503858--62504145 Score: 150
Period size: 41 Copynumber: 6.7 Consensus size: 41
62503848 GATTAAAGGA
* * *
62503858 TCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGG
1 TCTTATCTCCCTGAAGTTACAGTGGAGAAGATCAAATCAGG
* *
62503899 TCTTATCTCCCTG-AGATTACAGTGGA-ACAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGA-AGATC--A-AA-T-CAGG
* * * * **
62503945 TCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAA
1 TCTTATCTCCCTGAAGTTACAGTGGAGAAGATC-AA-ATCA-GG
* ** * *
62503988 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGG
1 TCTTATCTCCCTGAAGTTACAGTGGAGAAGA-TCAAAT-CAGG
* * * **
62504031 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
1 -TCTTATCTCCCTGAAGTTACAGTGGAGAAGATCAAATCAGG
* * * * *
62504073 TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGAAGATC--A-AA-T-CAGG
*
62504119 TCCTATCTCCCTGAAGTTACAGTGGAG
1 TCTTATCTCCCTGAAGTTACAGTGGAG
62504146 TGGGTTAAAA
Statistics
Matches: 189, Mismatches: 38, Indels: 35
0.72 0.15 0.13
Matches are distributed among these distances:
40 3 0.02
41 55 0.29
42 6 0.03
43 33 0.17
44 32 0.17
45 4 0.02
46 55 0.29
47 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (41 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGAAGATCAAATCAGG
Found at i:62504047 original size:44 final size:44
Alignment explanation
Indices: 62503991--62504184 Score: 171
Period size: 44 Copynumber: 4.4 Consensus size: 44
62503981 GATATAATCC
* **
62503991 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCTCTGAAGTTACAGTGGAGTAGATTAAAATAAAGGATCT
* *** *
62504035 TATCTCTCTGAAGTTACAGTAGAGTAGA-TCGCAT-CAGG-TCT
1 TATCTCTCTGAAGTTACAGTGGAGTAGATTAAAATAAAGGATCT
* ** ** *
62504076 TATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCA-GATCC
1 TATCTCTCTGAAGTTACAGTGGAGTAGA-TTAA-AA-TAAAGGATCT
* * *
62504122 TATCTCCCTGAAGTTACAGTGGAGTGGGTTAAAATAAAGGATCT
1 TATCTCTCTGAAGTTACAGTGGAGTAGATTAAAATAAAGGATCT
*
62504166 TATCTCTCTGAGGTTACAG
1 TATCTCTCTGAAGTTACAG
62504185 CAGAGTAGGT
Statistics
Matches: 117, Mismatches: 26, Indels: 14
0.75 0.17 0.09
Matches are distributed among these distances:
41 29 0.25
42 3 0.03
43 5 0.04
44 48 0.41
45 4 0.03
46 28 0.24
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (44 bp):
TATCTCTCTGAAGTTACAGTGGAGTAGATTAAAATAAAGGATCT
Found at i:62504058 original size:174 final size:170
Alignment explanation
Indices: 62503772--62504145 Score: 554
Period size: 174 Copynumber: 2.2 Consensus size: 170
62503762 TTGAAGCCAG
* *
62503772 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
1 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGATT
62503837 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCT
66 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCT
62503902 TATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGC
131 TATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGC
* *
62503942 AGATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATA-TAATCCTATCTCCCTGA-AGT
1 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGA-T
* * *
62504005 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
65 TACAATGGAGCGGA-T----TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATC
* * **
62504070 AGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGC
125 AGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGC
* * *
62504116 AGATCCTATCTCCCTGAAGTTACAGTGGAG
1 AGATCTTATCTCCCTGAGGTTACAGCGGAG
62504146 TGGGTTAAAA
Statistics
Matches: 183, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
168 1 0.01
169 30 0.16
170 41 0.22
174 111 0.61
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (170 bp):
AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCCTGAGATT
ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCT
TATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGC
Found at i:62504126 original size:87 final size:87
Alignment explanation
Indices: 62503856--62504146 Score: 293
Period size: 87 Copynumber: 3.3 Consensus size: 87
62503846 CGGATTAAAG
* * * *
62503856 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAG
1 GATCTTATCTCCCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
*
62503921 TGGAACAGACCGAAGAATTGCA
66 TGGAGCAGACCGAAGAATTGCA
* * ** * * ** * *
62503943 GATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAATCCTATCTCCCTGAAGTTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGTAGATCG--CATCA-GGTCTTATCTCCCTGAGGTTA
* ** **
62504007 CAGTGGAGCGGA-TTAA-AA-TAAA
63 CAGTGGAGCAGACCGAAGAATTGCA
* *
62504029 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCTCTGAGGTTACA
1 -GATCTTATCTCCCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACA
*
62504094 GTGGAGTAGACCGAAGAATTGCA
65 GTGGAGCAGACCGAAGAATTGCA
* *
62504117 GATCCTATCTCCCTGAAGTTACAGTGGAGT
1 GATCTTATCTCCCTGAAGTTACAGTAGAGT
62504147 GGGTTAAAAT
Statistics
Matches: 156, Mismatches: 40, Indels: 16
0.74 0.19 0.08
Matches are distributed among these distances:
85 28 0.18
86 5 0.03
87 90 0.58
88 5 0.03
89 28 0.18
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (87 bp):
GATCTTATCTCCCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
TGGAGCAGACCGAAGAATTGCA
Found at i:62504135 original size:131 final size:128
Alignment explanation
Indices: 62503945--62504217 Score: 395
Period size: 131 Copynumber: 2.1 Consensus size: 128
62503935 GAATTGCAGA
* *
62503945 TCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAG
1 TCTTATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGATATAATCCTATCTCCCTGAAGTTACAG
* *
62504010 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAG
* * *
62504073 TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGA-ATTGCAGATCCTATCTCCCTGAAGTT
1 TCTTATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGATA-T--A-ATCCTATCTCCCTGAAGTT
* * * *
62504137 ACAGTGGAGTGGGTTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGGTCGCATCA
62 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
62504202 AG
127 AG
*
62504204 TCTTATTTCCCTGA
1 TCTTATCTCCCTGA
62504218 AGATGCAGTG
Statistics
Matches: 128, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
127 1 0.01
128 34 0.27
130 1 0.01
131 92 0.72
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (128 bp):
TCTTATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGATATAATCCTATCTCCCTGAAGTTACAG
TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAG
Found at i:62504146 original size:46 final size:45
Alignment explanation
Indices: 62503856--62504145 Score: 194
Period size: 46 Copynumber: 6.6 Consensus size: 45
62503846 CGGATTAAAG
* * * * *
62503856 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATC--A-CA-TCA
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATTCA
* *
62503897 GGTCTTATCTCCCTG-AGATTACAGTGGAACAGACCGAAGAATTGCA
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGACCGAAGAATT-CA
* * * *
62503943 GATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAG-ATAT-A
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAAT-TCA
* * ** **
62503987 -ATCCTATCTCCCTGAAGTTACAGTGGAGCGGA-TTAA-AATAAA
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATTCA
* * * * *
62504029 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---GCA-TCA
1 -GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATTCA
* * * *
62504071 GGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCA
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATT-CA
*
62504117 GATCCTATCTCCCTGAAGTTACAGTGGAG
1 GATCTTATCTCCCTGAAGTTACAGTGGAG
62504146 TGGGTTAAAA
Statistics
Matches: 191, Mismatches: 39, Indels: 33
0.73 0.15 0.13
Matches are distributed among these distances:
40 2 0.01
41 57 0.30
42 6 0.03
43 29 0.15
44 31 0.16
45 4 0.02
46 61 0.32
47 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (45 bp):
GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATTCA
Found at i:62505683 original size:3 final size:3
Alignment explanation
Indices: 62505615--62505674 Score: 77
Period size: 3 Copynumber: 20.0 Consensus size: 3
62505605 TGTTAACTTC
*
62505615 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATCT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
* *
62505660 ACT ATT ATT AGT ATT
1 ATT ATT ATT ATT ATT
62505675 GGTATTATTG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 1 0.02
3 48 0.98
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:62505755 original size:22 final size:23
Alignment explanation
Indices: 62505708--62505756 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
62505698 ATCTCTATTC
*
62505708 ATATATACTTATGTATTTTCAAAT
1 ATATATACTTATGTATTATC-AAT
62505732 ATATATATCTTAT-TATTATC-AT
1 ATATATA-CTTATGTATTATCAAT
62505754 ATA
1 ATA
62505757 AGTGCTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 5 0.22
24 13 0.57
25 5 0.22
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATATACTTATGTATTATCAAT
Found at i:62505896 original size:20 final size:20
Alignment explanation
Indices: 62505873--62505912 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
62505863 ATTTTTTAAA
62505873 GTATATATATATTTATGTAT
1 GTATATATATATTTATGTAT
* * *
62505893 GTATTTATATGTTTTTGTAT
1 GTATATATATATTTATGTAT
62505913 ATCTTAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (20 bp):
GTATATATATATTTATGTAT
Found at i:62514766 original size:15 final size:15
Alignment explanation
Indices: 62514746--62514776 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
62514736 ATGTGACATA
62514746 TTATGTGTAATTGTT
1 TTATGTGTAATTGTT
62514761 TTATGTGTAATTGTT
1 TTATGTGTAATTGTT
62514776 T
1 T
62514777 GGTAATTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (15 bp):
TTATGTGTAATTGTT
Found at i:62533149 original size:202 final size:198
Alignment explanation
Indices: 62532772--62533163 Score: 559
Period size: 202 Copynumber: 2.0 Consensus size: 198
62532762 AAGGTAAGCT
* * * *
62532772 TTAAAGAAAATTTAGGTCCCTTGGGCAATTGGAAATAAAAGAATATGTTTATATCCTCAAGTGCC
1 TTAAAGAAAATTTAGGTCCCTTGGGCAATTAGAAAAAAAAGAAAATGTTTATATCCTCAAGAGCC
* * ** *
62532837 TAGCATGACCAGACATGATATTGGCAACAGGGAAAAGAGGAGATTGAAAAGAAATTAATCACCTC
66 TAGCAAGACCAGACATAATATTGGCAACAGGGAAAAGAGGAGATCCAAAAGAAATTAACCACCTC
* ** *
62532902 GGCAAAGTTGCCCAGCCTTCAAATTCTATTCTATACCTTACAGAGTGACAACCACTTTATAGTAA
131 GGCAAAGTTGCCCAGCCTTCAAATTCCAGCCTACACCTTACAGAGTGACAACCACTTTATAGTAA
62532967 CTC
196 CTC
*
62532970 TTAAAGAAAATTTAGGTCCCTTGGGCAATTAGAATAAAACAAGAAAATGTTTATATCCTTAAGGA
1 TTAAAGAAAATTTAGGTCCCTTGGGCAATTAGAA-AAAA-AAGAAAATGTTTATATCCTCAA-GA
* * * *
62533035 GCCTAGCAAGACCAGACATAATATTGGCAACAGGGAAAAGAGGTGAATCCATAAGATATTGACCA
63 GCCTAGCAAGACCAGACATAATATTGGCAACAGGGAAAAGAGGAG-ATCCAAAAGAAATTAACCA
* * *
62533100 CCTCGGCAAAGTTGCCCATCCTTCAAATTCCAGCCTACATCTTACAGAGTGATAACCACTTTAT
127 CCTCGGCAAAGTTGCCCAGCCTTCAAATTCCAGCCTACACCTTACAGAGTGACAACCACTTTAT
62533164 GATAATTTGA
Statistics
Matches: 169, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
198 33 0.20
199 3 0.02
200 20 0.12
201 43 0.25
202 70 0.41
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (198 bp):
TTAAAGAAAATTTAGGTCCCTTGGGCAATTAGAAAAAAAAGAAAATGTTTATATCCTCAAGAGCC
TAGCAAGACCAGACATAATATTGGCAACAGGGAAAAGAGGAGATCCAAAAGAAATTAACCACCTC
GGCAAAGTTGCCCAGCCTTCAAATTCCAGCCTACACCTTACAGAGTGACAACCACTTTATAGTAA
CTC
Found at i:62545905 original size:4 final size:4
Alignment explanation
Indices: 62545896--62545934 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
62545886 TATATCAGTA
62545896 TATC TATC TATC TATC TATC TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TAT
62545935 ATCAGCATTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.51
Consensus pattern (4 bp):
TATC
Found at i:62546555 original size:102 final size:102
Alignment explanation
Indices: 62546448--62546888 Score: 623
Period size: 102 Copynumber: 4.2 Consensus size: 102
62546438 TGCGTTCCAG
62546448 GCATGCTACGGTTCGTGTTTTGATCGATGGAACTCGATGCCATTTCACCTGCAGCATCTCTTACA
1 GCATGCTACGGTTCGTGTTTTGATCGATGGAACTCGATGCCATTTCACCTGCAGCATCTCTTACA
* *
62546513 TCCTCAGGTGTTGGAATGTTCAGCTCTTGCCTTTCTT
66 TCATCAGGTGTTGGAATATTCAGCTCTTGCCTTTCTT
* *
62546550 GCATGCTACGGTTCGTGTTTTGATCGATGGAATTCGATGCCATTTCACCTGCAGTATCTCTTACA
1 GCATGCTACGGTTCGTGTTTTGATCGATGGAACTCGATGCCATTTCACCTGCAGCATCTCTTACA
*
62546615 TCATCTGGTGTTGGAATATTCAGCTCTTGCCTTTCTT
66 TCATCAGGTGTTGGAATATTCAGCTCTTGCCTTTCTT
*
62546652 GCATGCTACGGCTCGTGTTTTGATCGATGGAACTCGATGCCATTTCACCTGCAGCATCTCTTACA
1 GCATGCTACGGTTCGTGTTTTGATCGATGGAACTCGATGCCATTTCACCTGCAGCATCTCTTACA
*
62546717 TCATCAGGTGCTGGAATATTCAGCTCTTGCCTTTCTT
66 TCATCAGGTGTTGGAATATTCAGCTCTTGCCTTTCTT
* * *
62546754 GCATGCTACGGTTCATGTTTTGATGGACTTGATCGTCGGAGCTCGATGGCATTTCACCTGCAGCA
1 GCATGCTACGGTTCGTGTTTTGAT---C--GA---T-GGAACTCGATGCCATTTCACCTGCAGCA
* * ** * *
62546819 TCTCTTGCATCA-AAGGATGTTGTCATATTCAGCTCTTGCCTTCCCT
57 TCTCTTACATCATCAGG-TGTTGGAATATTCAGCTCTTGCCTTTCTT
* *
62546865 GCATGCTACTGTTCATGTTTTGAT
1 GCATGCTACGGTTCGTGTTTTGAT
62546889 AAACTTGATT
Statistics
Matches: 307, Mismatches: 22, Indels: 11
0.90 0.06 0.03
Matches are distributed among these distances:
102 216 0.70
105 1 0.00
107 2 0.01
110 4 0.01
111 84 0.27
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (102 bp):
GCATGCTACGGTTCGTGTTTTGATCGATGGAACTCGATGCCATTTCACCTGCAGCATCTCTTACA
TCATCAGGTGTTGGAATATTCAGCTCTTGCCTTTCTT
Found at i:62546847 original size:111 final size:108
Alignment explanation
Indices: 62546671--62547008 Score: 372
Period size: 111 Copynumber: 3.0 Consensus size: 108
62546661 GGCTCGTGTT
* * * * *
62546671 TTGATCGATGGAACTCGATGCCATTTCACCTGCAGCATCTCTTACATCATCAGGTGCTGGAATAT
1 TTGATCG-TGGAACTCGATGGCATTTCACCTGCAGCATCTCTTGCATCA-AAGGTG-TTGTATAT
* * **
62546736 TCAGCTCTTGCCTTTCTTGCATGCTACGGTTCATGTTTTGATGGAC
63 TCAGCTCTTGCCTTCCCTGCATGCTACGGTTCATGTTTTGATAAAC
*
62546782 TTGATCGTCGGAGCTCGATGGCATTTCACCTGCAGCATCTCTTGCATCAAAGGATGTTGTCATAT
1 TTGATCGT-GGAACTCGATGGCATTTCACCTGCAGCATCTCTTGCATCAAAGG-TGTTGT-ATAT
*
62546847 TCAGCTCTTGCCTTCCCTGCATGCTACTGTTCATGTTTTGATAAAC
63 TCAGCTCTTGCCTTCCCTGCATGCTACGGTTCATGTTTTGATAAAC
* * * * * *
62546893 TTGATTAGTGGAACTCAATGGCCA-TTCACCTACAGCATGTCTTGCATAAAAGGGTCTCTGTATA
1 TTGA-TCGTGGAACTCGATGG-CATTTCACCTGCAGCATCTCTTGCATCAAA-GGTGT-TGTATA
* * * * * *
62546957 TTCGGTTCTTGCCATCCCTGCATGCTTCGGCTCATGTTTTCATAAAC
62 TTCAGCTCTTGCCTTCCCTGCATGCTACGGTTCATGTTTTGATAAAC
62547004 TTGAT
1 TTGAT
62547009 TAATGGAACT
Statistics
Matches: 195, Mismatches: 25, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
110 7 0.04
111 178 0.91
112 10 0.05
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (108 bp):
TTGATCGTGGAACTCGATGGCATTTCACCTGCAGCATCTCTTGCATCAAAGGTGTTGTATATTCA
GCTCTTGCCTTCCCTGCATGCTACGGTTCATGTTTTGATAAAC
Found at i:62547009 original size:111 final size:110
Alignment explanation
Indices: 62546732--62547080 Score: 360
Period size: 111 Copynumber: 3.1 Consensus size: 110
62546722 AGGTGCTGGA
* * * * ** * *
62546732 ATATTCAGCTCTTGCCTTTCTTGCATGCTACGGTTCATGTTTTGATGGACTTGA-TCGTCGGAGC
1 ATATTCGGCTCTTGCCATCCCTGCATGCTACGGTTCATGTTTTGATAAACTTGATTAGT-GGAAC
* * * * * *
62546796 TCGATGG-CATTTCACCTGCAGCATCTCTTGCATCAAAGGATGTTGT
65 TCAATGGCCA-TTCACCTACAGCATATCTTGCATAAAAGGGTATTGT
* * *
62546842 CATATTCAGCTCTTGCCTTCCCTGCATGCTACTGTTCATGTTTTGATAAACTTGATTAGTGGAAC
1 -ATATTCGGCTCTTGCCATCCCTGCATGCTACGGTTCATGTTTTGATAAACTTGATTAGTGGAAC
* *
62546907 TCAATGGCCATTCACCTACAGCATGTCTTGCATAAAAGGGTCTCTGT
65 TCAATGGCCATTCACCTACAGCATATCTTGCATAAAAGGGTAT-TGT
* * * * *
62546954 ATATTCGGTTCTTGCCATCCCTGCATGCTTCGGCTCATGTTTTCATAAACTTGATTAATGGAACT
1 ATATTCGGCTCTTGCCATCCCTGCATGCTACGGTTCATGTTTTGATAAACTTGATTAGTGGAACT
** * * * * *
62547019 CAATGGCTGTACACCTACAGCACAACTTCCATAAAAGGGTATTCGA
66 CAATGGCCATTCACCTACAGCATATCTTGCATAAAAGGGTATT-GT
62547065 ATATTCGGCTCTTGCC
1 ATATTCGGCTCTTGCC
62547081 TATATACTTG
Statistics
Matches: 203, Mismatches: 31, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
110 1 0.00
111 194 0.96
112 8 0.04
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.34
Consensus pattern (110 bp):
ATATTCGGCTCTTGCCATCCCTGCATGCTACGGTTCATGTTTTGATAAACTTGATTAGTGGAACT
CAATGGCCATTCACCTACAGCATATCTTGCATAAAAGGGTATTGT
Found at i:62549443 original size:11 final size:11
Alignment explanation
Indices: 62549387--62549572 Score: 114
Period size: 11 Copynumber: 17.9 Consensus size: 11
62549377 ATTTTTTTAA
62549387 TTTTAAAATAT
1 TTTTAAAATAT
* *
62549398 TTTTTACATACT
1 TTTTAAAATA-T
*
62549410 TTTT-TAAT-T
1 TTTTAAAATAT
62549419 TTTT-AAA-A-
1 TTTTAAAATAT
62549427 TTTTAAAATAT
1 TTTTAAAATAT
62549438 TTTTAAAATACT
1 TTTTAAAATA-T
* *
62549450 TTTT---TTAA
1 TTTTAAAATAT
62549458 TTTTAAAATAT
1 TTTTAAAATAT
*
62549469 TTTAAAAATACT
1 TTTTAAAATA-T
**
62549481 TTTTTTAAT-T
1 TTTTAAAATAT
* *
62549491 TTTT---TTAA
1 TTTTAAAATAT
62549499 TTTTAAAATAT
1 TTTTAAAATAT
*
62549510 TTTAAAAATAT
1 TTTTAAAATAT
62549521 TTTTAAAATAT
1 TTTTAAAATAT
62549532 TTTTAAAATACT
1 TTTTAAAATA-T
**
62549544 TTTTTTAAT-T
1 TTTTAAAATAT
62549554 TTTT-AAA-AT
1 TTTTAAAATAT
62549563 TTTTAAAATA
1 TTTTAAAATA
62549573 AAAATGGGTC
Statistics
Matches: 135, Mismatches: 22, Indels: 36
0.70 0.11 0.19
Matches are distributed among these distances:
7 1 0.01
8 12 0.09
9 19 0.14
10 14 0.10
11 64 0.47
12 25 0.19
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:62549460 original size:31 final size:31
Alignment explanation
Indices: 62549425--62549572 Score: 158
Period size: 31 Copynumber: 4.7 Consensus size: 31
62549415 AATTTTTTAA
62549425 AATTTTAAAATATTTTTAAAATACTTTTTTT
1 AATTTTAAAATATTTTTAAAATACTTTTTTT
*
62549456 AATTTTAAAATATTTTAAAAATACTTTTTTT
1 AATTTTAAAATATTTTTAAAATACTTTTTTT
*** * **
62549487 AATTTT-TTTTAATTTTAAAATA-TTTTAAAAAT
1 AATTTTAAAATATTTTTAAAATACTTTT---TTT
*
62549519 ATTTTTAAAATATTTTTAAAATACTTTTTTT
1 AATTTTAAAATATTTTTAAAATACTTTTTTT
*
62549550 AATTTTTTAAA-ATTTTTAAAATA
1 AA-TTTTAAAATATTTTTAAAATA
62549573 AAAATGGGTC
Statistics
Matches: 94, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
29 4 0.04
30 11 0.12
31 50 0.53
32 13 0.14
33 12 0.13
34 4 0.04
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (31 bp):
AATTTTAAAATATTTTTAAAATACTTTTTTT
Found at i:62549471 original size:41 final size:41
Alignment explanation
Indices: 62549386--62549535 Score: 191
Period size: 41 Copynumber: 3.7 Consensus size: 41
62549376 TATTTTTTTA
* * * *
62549386 ATTTT-AAAATATTTTTTACATACTTTTTTAATTTTTTAAA-
1 ATTTTAAAAATATTTTTAAAATATTTTTTTAA-TTTTAAAAT
62549426 ATTTT-AAAATATTTTTAAAATACTTTTTTTAATTTTAAAAT
1 ATTTTAAAAATATTTTTAAAATA-TTTTTTTAATTTTAAAAT
**
62549467 ATTTTAAAAATACTTTTTTTAAT-TTTTTTTAATTTTAAAAT
1 ATTTTAAAAATA-TTTTTAAAATATTTTTTTAATTTTAAAAT
62549508 ATTTTAAAAATATTTTTAAAATATTTTT
1 ATTTTAAAAATATTTTTAAAATATTTTT
62549536 AAAATACTTT
Statistics
Matches: 97, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
40 35 0.36
41 48 0.49
42 6 0.06
43 8 0.08
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.59
Consensus pattern (41 bp):
ATTTTAAAAATATTTTTAAAATATTTTTTTAATTTTAAAAT
Found at i:62550915 original size:22 final size:22
Alignment explanation
Indices: 62550889--62550930 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
62550879 AATAAACTAT
*
62550889 TTTGCTACCATTTCGCTATTGC
1 TTTGCTACAATTTCGCTATTGC
* *
62550911 TTTGCTGCAATTTCGTTATT
1 TTTGCTACAATTTCGCTATT
62550931 ATATTGTTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (22 bp):
TTTGCTACAATTTCGCTATTGC
Found at i:62551330 original size:2 final size:2
Alignment explanation
Indices: 62551323--62551352 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
62551313 TCTACTTAGA
62551323 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62551353 GTAATATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62552204 original size:16 final size:17
Alignment explanation
Indices: 62552183--62552217 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
62552173 TTAATAATGT
*
62552183 AATTAAAA-TATTTTAA
1 AATTAAAATTAATTTAA
62552199 AATTAAAATTAATTTAA
1 AATTAAAATTAATTTAA
62552216 AA
1 AA
62552218 GAGGATGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AATTAAAATTAATTTAA
Found at i:62552802 original size:37 final size:37
Alignment explanation
Indices: 62552760--62552838 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
62552750 TTAAATTAAT
62552760 TTAATATTT-T-ATTATATTAATTAAAATATTGTTTTTA
1 TTAATATTTGTGATT-TATTAATTAAAATATT-TTTTTA
* *
62552797 TTAATATTTGTGATTTATTAGTTAAAATCTTTTTTTA
1 TTAATATTTGTGATTTATTAATTAAAATATTTTTTTA
62552834 -TAATA
1 TTAATA
62552839 CGAATAATCA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
36 5 0.13
37 15 0.39
38 15 0.39
39 3 0.08
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.58
Consensus pattern (37 bp):
TTAATATTTGTGATTTATTAATTAAAATATTTTTTTA
Found at i:62553462 original size:123 final size:123
Alignment explanation
Indices: 62553241--62553488 Score: 408
Period size: 123 Copynumber: 2.0 Consensus size: 123
62553231 TGTTTTATTT
* * *
62553241 AGAAAAACTTTGTGAATTAATTTTATGGAGGGATTTTGTGATGTTTACAAATAATCGTAGACATT
1 AGAAAAACTTTGTCAATTAATCTTATGGAGGGATTTTGTGATCTTTACAAATAATCGTAGACATT
*
62553306 CAGGGTTTTTATAAAGTTGGGTGATAAAATTCTATCATATATAAGTATTGACCTTAAA
66 CAGGGTTTTTATAAAGTTGGGTGATAAAATTCTATCATAAATAAGTATTGACCTTAAA
* * *
62553364 AGAAAAAGC-TTGTCAATTGATCTTATGGAGGGATTTTGTTATCTTTTCAAATAATCGTAGACAT
1 AGAAAAA-CTTTGTCAATTAATCTTATGGAGGGATTTTGTGATCTTTACAAATAATCGTAGACAT
*
62553428 TCAGGGTTTTTATAAAGTTGGGTGATAAAGTTCTATCATAAATAAGTATTGACCTTAAA
65 TCAGGGTTTTTATAAAGTTGGGTGATAAAATTCTATCATAAATAAGTATTGACCTTAAA
62553487 AG
1 AG
62553489 GGTTTTGTCT
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
123 115 0.99
124 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (123 bp):
AGAAAAACTTTGTCAATTAATCTTATGGAGGGATTTTGTGATCTTTACAAATAATCGTAGACATT
CAGGGTTTTTATAAAGTTGGGTGATAAAATTCTATCATAAATAAGTATTGACCTTAAA
Found at i:62555307 original size:10 final size:11
Alignment explanation
Indices: 62555285--62555322 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
62555275 TATTATATAG
*
62555285 ACATAACAAAT
1 ACATAACATAT
62555296 ACA-AACATAT
1 ACATAACATAT
62555306 ACATATACATAT
1 ACATA-ACATAT
62555318 ACATA
1 ACATA
62555323 TAATTATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 9 0.38
11 4 0.17
12 11 0.46
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (11 bp):
ACATAACATAT
Found at i:62555309 original size:6 final size:6
Alignment explanation
Indices: 62555300--62555324 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
62555290 ACAAATACAA
62555300 ACATAT ACATAT ACATAT ACATAT A
1 ACATAT ACATAT ACATAT ACATAT A
62555325 ATTATTTGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
ACATAT
Found at i:62564402 original size:26 final size:26
Alignment explanation
Indices: 62564362--62564415 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
62564352 TTTAAAATAC
* * *
62564362 TTTTAAAATATTTTTTTATTTTTTAT
1 TTTTAAAATAATTTTTTAATGTTTAT
62564388 TTTTAAAATAATTTTTTAATGTTTAT
1 TTTTAAAATAATTTTTTAATGTTTAT
62564414 TT
1 TT
62564416 AAAAATAGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (26 bp):
TTTTAAAATAATTTTTTAATGTTTAT
Found at i:62564420 original size:25 final size:26
Alignment explanation
Indices: 62564362--62564422 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
62564352 TTTAAAATAC
* * *
62564362 TTTT-AAAATATTTTTTTATTTTTTA
1 TTTTAAAAATAATTTTTTAATGTTTA
*
62564387 TTTTTAAAATAATTTTTTAATGTTTA
1 TTTTAAAAATAATTTTTTAATGTTTA
62564413 -TTTAAAAATA
1 TTTTAAAAATA
62564423 GGCTGGGCCG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 13 0.42
26 18 0.58
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTTAAAAATAATTTTTTAATGTTTA
Found at i:62564855 original size:143 final size:143
Alignment explanation
Indices: 62564595--62564876 Score: 465
Period size: 143 Copynumber: 2.0 Consensus size: 143
62564585 AAAACACAAA
*
62564595 ACCAAGTAATTCCTTAATGTTGGTATATTAAATGTAAACATAAATGTCAGTGATGGACTAAAGCA
1 ACCAAGTAATTCCTTAATGTTGGTATATTAAATGGAAACATAAATGTCAGTGATGGACTAAAGCA
* * * * *
62564660 ATTAGATTCAATTTCAGCCTCAATTAGTTTCAAAGCCGCAATGGGCAACTCTCAATTTACTGCAT
66 ATTAGATGCAAGTTCAGCCACAATTAGTTTCAAAGCCGCAATGGGCAACTCTCAATATACGGCAT
62564725 AAGCGTTGACCAG
131 AAGCGTTGACCAG
* *
62564738 ACCAAGTTATTCCTTAATGTTGGTATATTAAATGGAAACATAAATGTTAGTGATGGACTAAAGCA
1 ACCAAGTAATTCCTTAATGTTGGTATATTAAATGGAAACATAAATGTCAGTGATGGACTAAAGCA
* *
62564803 ATTAGATGCAAGTTCAGCCACAATTAGTTTCAACGCCGCAATGGGCAGCTCTCAATATACGGCAT
66 ATTAGATGCAAGTTCAGCCACAATTAGTTTCAAAGCCGCAATGGGCAACTCTCAATATACGGCAT
*
62564868 ATGCGTTGA
131 AAGCGTTGA
62564877 TCATTAGGGT
Statistics
Matches: 128, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
143 128 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (143 bp):
ACCAAGTAATTCCTTAATGTTGGTATATTAAATGGAAACATAAATGTCAGTGATGGACTAAAGCA
ATTAGATGCAAGTTCAGCCACAATTAGTTTCAAAGCCGCAATGGGCAACTCTCAATATACGGCAT
AAGCGTTGACCAG
Found at i:62565246 original size:9 final size:9
Alignment explanation
Indices: 62565220--62565277 Score: 56
Period size: 8 Copynumber: 7.0 Consensus size: 9
62565210 TCCATTTTTA
62565220 TTTA-AATT
1 TTTATAATT
62565228 TTTATGAATT
1 TTTAT-AATT
62565238 TTTATAA-T
1 TTTATAATT
*
62565246 TTT-GAATT
1 TTTATAATT
62565254 TTT-T-ATT
1 TTTATAATT
62565261 TTTATAATT
1 TTTATAATT
62565270 TTTA-AATT
1 TTTATAATT
62565278 ATTTGATGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
7 8 0.19
8 17 0.40
9 9 0.21
10 9 0.21
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (9 bp):
TTTATAATT
Found at i:62577516 original size:13 final size:13
Alignment explanation
Indices: 62577498--62577523 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
62577488 CATTGTCAAG
62577498 GTGATTAACAATC
1 GTGATTAACAATC
62577511 GTGATTAACAATC
1 GTGATTAACAATC
62577524 TTCGAGGCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
GTGATTAACAATC
Found at i:62583293 original size:2 final size:2
Alignment explanation
Indices: 62583286--62583319 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
62583276 TAATTAAGCA
62583286 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62583320 TGTTTATTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62592836 original size:14 final size:16
Alignment explanation
Indices: 62592812--62592843 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
62592802 TTTTTCCCTC
62592812 TTTCTATTTGTA-ATT
1 TTTCTATTTGTATATT
62592827 TTTC-ATTTGTATATT
1 TTTCTATTTGTATATT
62592842 TT
1 TT
62592844 ACCGTGAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (16 bp):
TTTCTATTTGTATATT
Found at i:62593508 original size:30 final size:30
Alignment explanation
Indices: 62593474--62593549 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
62593464 TAAAATTAAT
* *
62593474 AATAATAAAATTATATTTTAATTCTTCAAA
1 AATAATAAAATTATAATTTAAGTCTTCAAA
*
62593504 AATAATAATAATT-TAATTTAAGTCTTTAAA
1 AATAATAA-AATTATAATTTAAGTCTTCAAA
*
62593534 AA-ATATAAAAATATAA
1 AATA-ATAAAATTATAA
62593550 ATTATTAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 4 0.10
30 31 0.79
31 4 0.10
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (30 bp):
AATAATAAAATTATAATTTAAGTCTTCAAA
Found at i:62593564 original size:16 final size:17
Alignment explanation
Indices: 62593539--62593571 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
62593529 TTAAAAAATA
62593539 TAAAAATAT-AAATTAT
1 TAAAAATATAAAATTAT
*
62593555 TAAAATTATAAAATTAT
1 TAAAAATATAAAATTAT
62593572 ATTTAAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAAAATATAAAATTAT
Found at i:62597504 original size:21 final size:20
Alignment explanation
Indices: 62597476--62597515 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
62597466 TTAATCATTT
62597476 AATTTTAAA-TATTATAAAAC
1 AATTTTAAATTATT-TAAAAC
62597496 AATTATTAAATTATTTAAAA
1 AATT-TTAAATTATTTAAAA
62597516 TTTTCAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTTTAAATTATTTAAAAC
Done.