Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 31 of 170
Found at i:8447359 original size:199 final size:195
Alignment explanation
Indices: 8446962--8447377 Score: 548
Period size: 199 Copynumber: 2.1 Consensus size: 195
8446952 GAGCAAATCA
* ** * *
8446962 ACAACGGCGAATCTTACTTCCAAGTGATGCAGCAGAACAAATTGAAGTCACGGCGAATCTTGCGT
1 ACAACGGCGAATATTACTTCCAAGCAATGCAGCAGAAAAAATTGAAGTCACAGCGAATCTTGCGT
* * * ** * *
8447027 CCCTGACATTGCAATTCAGAAGATTGAAGCCACAACGGTGAATCTTACTTCCAAGCGATGCAGCG
66 CCCCGACACTGCAATTCAAAAGATTGAAGCCACAACGACGAATCTTACTTCCAAGCAATGCAGCA
* * *
8447092 GAACAGATTGAAGTCACAACGGCGAATCTTGCGTCCCTGACATTGCAATTCAAAAGATTGAAGCC
131 AAACAGATTGAAGTCACAACGGCGAATCTCGCGTCCCCGACATTGCAATTCAAAAGATTGAAGCC
* *
8447157 ACAACGGCGAGTATTACTTCCAAGCAATGCAGC-GAAAAAGATTGAAGTCACAACAGTGAATCTT
1 ACAACGGCGAATATTACTTCCAAGCAATGCAGCAGAAAAA-ATTGAAGT--C-ACAGCGAATCTT
* *
8447221 GCGTCCCCGACACTGCAATTCAAAAGATTGAAGCCACCACGACGAATCTTACTTCCCAGACAATG
62 GCGTCCCCGACACTGCAATTCAAAAGATTGAAGCCACAACGACGAATCTTACTTCCAAG-CAATG
* * *
8447286 CAGCAAAACAGATTGAAG-CTACGACGGTGAATCTCGCTTCCCCGACATTGCAATTCAAAAGATT
126 CAGCAAAACAGATTGAAGTC-ACAACGGCGAATCTCGCGTCCCCGACATTGCAATTCAAAAGATT
8447350 GAAGCC
190 GAAGCC
*
8447356 ACAACGGCGAATCTTACCTTCC
1 ACAACGGCGAATATTA-CTTCC
8447378 CAGGCGGTGC
Statistics
Matches: 190, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
194 5 0.03
195 37 0.19
197 1 0.01
198 63 0.33
199 79 0.42
200 5 0.03
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (195 bp):
ACAACGGCGAATATTACTTCCAAGCAATGCAGCAGAAAAAATTGAAGTCACAGCGAATCTTGCGT
CCCCGACACTGCAATTCAAAAGATTGAAGCCACAACGACGAATCTTACTTCCAAGCAATGCAGCA
AAACAGATTGAAGTCACAACGGCGAATCTCGCGTCCCCGACATTGCAATTCAAAAGATTGAAGCC
Found at i:8447725 original size:126 final size:125
Alignment explanation
Indices: 8447448--8447777 Score: 453
Period size: 126 Copynumber: 2.6 Consensus size: 125
8447438 AGTTAAACAG
* * *
8447448 ATTGAAGCCAATAATTCTATCTCCCTGGTTGGTAGTGGAACAGATTGAAGATTTCAGATCTTATC
1 ATTGAAGCCAGTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGA-TTCAGATCTTATC
* * * * *
8447513 TCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTAAAGT
65 TCCCT----A--AGTGGAGCAGATTGAAGATGACAGATTTTACCTCCCTGTGATTACAATAAAGT
8447578 AC
124 AC
*
8447580 ATTGAAGTCAGTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATGTCAGATCTTATC
1 ATTGAAGCCAGTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGAT-TCAGATCTTATC
* * **
8447645 TCCCTAAGTGGAGCATATTGAAGATGACAGATTTTACCTTCCTGTGATTACAATGGAGTAC
65 TCCCTAAGTGGAGCAGATTGAAGATGACAGATTTTACCTCCCTGTGATTACAATAAAGTAC
*
8447706 ATTGAAGCCAGTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTACAGATCCTATC
1 ATTGAAGCCAGTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATT-CAGATCTTATC
8447771 TCCCTAA
65 TCCCTAA
8447778 ACAGTAGTGG
Statistics
Matches: 181, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
125 1 0.01
126 114 0.63
128 1 0.01
131 1 0.01
132 64 0.35
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (125 bp):
ATTGAAGCCAGTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTCAGATCTTATCT
CCCTAAGTGGAGCAGATTGAAGATGACAGATTTTACCTCCCTGTGATTACAATAAAGTAC
Found at i:8449412 original size:3 final size:3
Alignment explanation
Indices: 8449404--8449452 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
8449394 ATATTTTAGC
*
8449404 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8449452 A
1 A
8449453 CCTACTTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:8449818 original size:18 final size:17
Alignment explanation
Indices: 8449795--8449833 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
8449785 TGCTTTAATT
*
8449795 TTTTATTTGTTTATTTAC
1 TTTTATTTGTTGATTT-C
8449813 TTTTATTTGTTGATTTC
1 TTTTATTTGTTGATTTC
8449830 TTTT
1 TTTT
8449834 CATTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.13, C:0.05, G:0.08, T:0.74
Consensus pattern (17 bp):
TTTTATTTGTTGATTTC
Found at i:8450254 original size:111 final size:109
Alignment explanation
Indices: 8449942--8450362 Score: 650
Period size: 110 Copynumber: 3.9 Consensus size: 109
8449932 ATCAAAAACG
* *
8449942 AAAAATTTTTCAAATAAGGCAATGTTTTACGTTTGAAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAA-TTTTAAAATAAGGCAATGTTTTACGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
8450007 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
8450052 AAAAATTTTAAAATAAGGCAATGTTTTACGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTACGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCT
8450117 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
* *
8450162 AAAAATTTATAAAATAAGGCAATGTTTTGCGTTTGGGAAATTTGAGAAAACATGCCCTAAGGTGC
1 AAAAATTT-TAAAATAAGGCAATGTTTTACGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGC
* *
8450227 TGGGTGTCAATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
64 TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
* * * * ** *
8450273 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAG-GAATGTACCCTAAGGTGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTACGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* *
8450337 GGTTTCGA--TTTCTCGTTTAACCAAAT
66 GGTGTCGATTTTTCTCGTTCAACCAAAT
8450363 AGCCAAATAT
Statistics
Matches: 295, Mismatches: 14, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
106 17 0.06
108 22 0.07
109 38 0.13
110 112 0.38
111 106 0.36
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (109 bp):
AAAAATTTTAAAATAAGGCAATGTTTTACGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
Found at i:8450747 original size:19 final size:20
Alignment explanation
Indices: 8450725--8450771 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
8450715 TATTTGAATT
*
8450725 TTTTATT-TGATTTTATTCA
1 TTTTATTATGATTGTATTCA
*
8450744 TTTT-TTATTATTGTATTCA
1 TTTTATTATGATTGTATTCA
*
8450763 TTATATTAT
1 TTTTATTAT
8450772 TTTCATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 2 0.09
19 17 0.74
20 4 0.17
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.68
Consensus pattern (20 bp):
TTTTATTATGATTGTATTCA
Found at i:8454234 original size:17 final size:17
Alignment explanation
Indices: 8454212--8454249 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
8454202 GTTGGAATTC
8454212 TTTAAAGATATCAAGGG
1 TTTAAAGATATCAAGGG
8454229 TTTAAAGATATCAAGGG
1 TTTAAAGATATCAAGGG
8454246 TTTA
1 TTTA
8454250 GAGGGGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.34
Consensus pattern (17 bp):
TTTAAAGATATCAAGGG
Found at i:8458808 original size:13 final size:14
Alignment explanation
Indices: 8458790--8458848 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 14
8458780 TATTAATTGA
*
8458790 ATTTTTTTATT-TT
1 ATTTTTTCATTATT
8458803 ATTTTTTCATTATT
1 ATTTTTTCATTATT
*
8458817 ATTGTATTCATTA-T
1 ATT-TTTTCATTATT
* *
8458831 ATTATTGTCATTTTT
1 ATT-TTTTCATTATT
8458846 ATT
1 ATT
8458849 ATTTATGTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
13 10 0.27
14 15 0.41
15 12 0.32
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.69
Consensus pattern (14 bp):
ATTTTTTCATTATT
Found at i:8460315 original size:18 final size:17
Alignment explanation
Indices: 8460292--8460326 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
8460282 GAATAGATTT
8460292 TTAATTAAATAAATTTAA
1 TTAATTAAA-AAATTTAA
8460310 TTAATTAAAAAATTTAA
1 TTAATTAAAAAATTTAA
8460327 ACCCTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATTAAAAAATTTAA
Found at i:8461190 original size:30 final size:30
Alignment explanation
Indices: 8461154--8461211 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
8461144 AGGTGAGATG
*
8461154 GGAAGGGAATAAAAGTTTTAGGGGAAAAGT
1 GGAAGGGAATAAAAATTTTAGGGGAAAAGT
* *
8461184 GGAAGGGAGTAAAAATTTTGGGGGAAAA
1 GGAAGGGAATAAAAATTTTAGGGGAAAA
8461212 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.38, T:0.19
Consensus pattern (30 bp):
GGAAGGGAATAAAAATTTTAGGGGAAAAGT
Found at i:8461417 original size:126 final size:126
Alignment explanation
Indices: 8461278--8461529 Score: 470
Period size: 126 Copynumber: 2.0 Consensus size: 126
8461268 TAAAATTTTG
8461278 GTGGGAAATGGATTTTGGGTAGATTGGGGGGTTGGAAGGGGAGGGGAGTAAAAGTTTT-GGGGGA
1 GTGGGAAATGGATTTTGGGTAGATTGGGGGGTTGGAAGGGGAGGGGAGTAAAAGTTTTGGGGGGA
*
8461342 GAAGTGGGAAGGAGTAAAAGTTTTGAGGGAAAAGTAAAAAGGTTTGGGAGTTTGGGGTAAAA
66 -AAGTGGGAAGGAGTAAAAGTTTTGAGGAAAAAGTAAAAAGGTTTGGGAGTTTGGGGTAAAA
*
8461404 GTGGGAAATGGATTTTGGGTAGATTGGGGGGTTGGGAGGGGAGGGGAGTAAAAGTTTTGGGGGGA
1 GTGGGAAATGGATTTTGGGTAGATTGGGGGGTTGGAAGGGGAGGGGAGTAAAAGTTTTGGGGGGA
8461469 AAGTGGGAAGGAGTAAAAGTTTTGAGGAAAAAGTAAAAAGGTTTGGGAGTTTGGGGTAAAA
66 AAGTGGGAAGGAGTAAAAGTTTTGAGGAAAAAGTAAAAAGGTTTGGGAGTTTGGGGTAAAA
8461530 ATGTAAAATA
Statistics
Matches: 123, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
126 117 0.95
127 6 0.05
ACGTcount: A:0.31, C:0.00, G:0.45, T:0.24
Consensus pattern (126 bp):
GTGGGAAATGGATTTTGGGTAGATTGGGGGGTTGGAAGGGGAGGGGAGTAAAAGTTTTGGGGGGA
AAGTGGGAAGGAGTAAAAGTTTTGAGGAAAAAGTAAAAAGGTTTGGGAGTTTGGGGTAAAA
Found at i:8463181 original size:28 final size:28
Alignment explanation
Indices: 8463118--8463271 Score: 231
Period size: 28 Copynumber: 5.5 Consensus size: 28
8463108 ATATTAAGTC
* *
8463118 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
8463145 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
8463173 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
8463201 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* * *
8463229 CGCACACTTAGTGCTGTACA-ATTTAAACC
1 CGCACACTTAGTGC--TACATAATCAAACT
8463258 CGCACACTTAGTGC
1 CGCACACTTAGTGC
8463272 CAATCTCATG
Statistics
Matches: 119, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 21 0.18
28 74 0.62
29 20 0.17
30 4 0.03
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:8471345 original size:28 final size:28
Alignment explanation
Indices: 8471282--8471432 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
8471272 ATATTAAGTC
*
8471282 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
8471309 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
8471337 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
8471365 CGCACACTTAGTGATACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
8471393 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
8471422 CGCACACTTAG
1 CGCACACTTAG
8471433 CGCCAATCTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.19
28 75 0.66
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:8474083 original size:18 final size:17
Alignment explanation
Indices: 8474052--8474086 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
8474042 GATTTAGGGT
8474052 TTAAATTTTTTAATTAA
1 TTAAATTTTTTAATTAA
8474069 TTAAATTTATTTAATTAA
1 TTAAATTT-TTTAATTAA
8474087 AAATCAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATTTTTTAATTAA
Found at i:8474388 original size:19 final size:21
Alignment explanation
Indices: 8474352--8474391 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
8474342 ATGATTTTAA
8474352 ATTATAAAAAATAATATTAATT
1 ATTATAAAAAAT-ATATTAATT
8474374 ATTAT-AAAAAT-TATTAAT
1 ATTATAAAAAATATATTAAT
8474392 AAAACTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
21 6 0.33
22 5 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTATAAAAAATATATTAATT
Found at i:8476317 original size:22 final size:21
Alignment explanation
Indices: 8476279--8476320 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
8476269 TACTTATTTA
*
8476279 ATTCCATTACAATTTTATTCT
1 ATTCCATTACAACTTTATTCT
*
8476300 ATTCCGATTATAACTTTATTC
1 ATTCC-ATTACAACTTTATTC
8476321 CATTTCAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.29, C:0.19, G:0.02, T:0.50
Consensus pattern (21 bp):
ATTCCATTACAACTTTATTCT
Found at i:8484175 original size:5 final size:5
Alignment explanation
Indices: 8484167--8484209 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
8484157 CTCTCCCTCG
* *
8484167 TTTTC TTTTC TTTT- TTTTC TTTCC TTTTC TTTT- TCTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
8484210 AATCTTCATC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 7 0.22
5 25 0.78
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:8484186 original size:14 final size:15
Alignment explanation
Indices: 8484167--8484209 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
8484157 CTCTCCCTCG
8484167 TTTTCTTTTCTTTT-
1 TTTTCTTTTCTTTTC
*
8484181 TTTTCTTTCCTTTTC
1 TTTTCTTTTCTTTTC
*
8484196 TTTT-TCTTCTTTTC
1 TTTTCTTTTCTTTTC
8484210 AATCTTCATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 21 0.84
15 4 0.16
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTCTTTTCTTTTC
Found at i:8484195 original size:19 final size:19
Alignment explanation
Indices: 8484171--8484207 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8484161 CCCTCGTTTT
*
8484171 CTTTTCTTTTTTTTCTTTC
1 CTTTTCTTTTTCTTCTTTC
8484190 CTTTTCTTTTTCTTCTTT
1 CTTTTCTTTTTCTTCTTT
8484208 TCAATCTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (19 bp):
CTTTTCTTTTTCTTCTTTC
Found at i:8495140 original size:17 final size:18
Alignment explanation
Indices: 8495118--8495159 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
8495108 GTTTAGAAAT
8495118 TATTTTTATCA-T-ACTAA
1 TATTTTTAT-AGTAACTAA
8495135 TATTTTTTATAGTAACTAA
1 TA-TTTTTATAGTAACTAA
8495154 TATTTT
1 TATTTT
8495160 AAAAAATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.14
18 12 0.55
19 7 0.32
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.57
Consensus pattern (18 bp):
TATTTTTATAGTAACTAA
Found at i:8498349 original size:5 final size:5
Alignment explanation
Indices: 8498339--8498367 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
8498329 TCTTGTAAAT
8498339 ATTTG ATTTG ATTTG ATTTG ATTTG ATTT
1 ATTTG ATTTG ATTTG ATTTG ATTTG ATTT
8498368 AATGTAACGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.17, T:0.62
Consensus pattern (5 bp):
ATTTG
Found at i:8504927 original size:54 final size:53
Alignment explanation
Indices: 8504839--8504943 Score: 138
Period size: 54 Copynumber: 2.0 Consensus size: 53
8504829 ACAGGGGCAT
* * *
8504839 GTGTCCAGACCATGTAACTCTCTGACTTCAGTCACACGAGCATGTGTCAGGCC
1 GTGTCCAGACCATATAACTCTCTGACTTCAGTCACACGACCATGTGCCAGGCC
* ** *
8504892 GTGTACCAGACCGTATAACTCTCTGACTTGGGTCACTCGACCATGTGCCAGG
1 GTGT-CCAGACCATATAACTCTCTGACTTCAGTCACACGACCATGTGCCAGG
8504944 AAATGTGAGG
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 4 0.09
54 40 0.91
ACGTcount: A:0.22, C:0.30, G:0.24, T:0.25
Consensus pattern (53 bp):
GTGTCCAGACCATATAACTCTCTGACTTCAGTCACACGACCATGTGCCAGGCC
Found at i:8505545 original size:22 final size:22
Alignment explanation
Indices: 8505520--8505564 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
8505510 GGGATTAAGA
8505520 CTCTGAATCTGAATTTGATATG
1 CTCTGAATCTGAATTTGATATG
* *
8505542 CTCTGTATTTGAATTTGATATG
1 CTCTGAATCTGAATTTGATATG
8505564 C
1 C
8505565 ACTACATCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.44
Consensus pattern (22 bp):
CTCTGAATCTGAATTTGATATG
Found at i:8507710 original size:42 final size:41
Alignment explanation
Indices: 8507609--8507728 Score: 107
Period size: 42 Copynumber: 2.9 Consensus size: 41
8507599 TGATTTAGGA
* * * * * *
8507609 CCACACGACCAAGGACATGGACGTGTGCCCGAGCCGTGTGGG
1 CCACACGAGCAAGGACATGG-CGTGTTCCCAAGCTGCGTGAG
* * * *
8507651 CCATATGGGCAAAGACATGAGCGTGTTCCCAAGCTGCGTGAG
1 CCACACGAGCAAGGACATG-GCGTGTTCCCAAGCTGCGTGAG
8507693 CCACACGAGCAAGGACATGGGCGTGTGT-CCAAGCTG
1 CCACACGAGCAAGGACAT-GGCGTGT-TCCCAAGCTG
8507729 TGTAACTCAC
Statistics
Matches: 61, Mismatches: 14, Indels: 6
0.75 0.17 0.07
Matches are distributed among these distances:
42 58 0.95
43 3 0.05
ACGTcount: A:0.24, C:0.28, G:0.33, T:0.15
Consensus pattern (41 bp):
CCACACGAGCAAGGACATGGCGTGTTCCCAAGCTGCGTGAG
Found at i:8507829 original size:146 final size:146
Alignment explanation
Indices: 8507505--8507822 Score: 381
Period size: 146 Copynumber: 2.2 Consensus size: 146
8507495 GCTATCGATG
* * * * * * *
8507505 CCACACGA-CAAAAGACATGGACGTGTGCCCAGGCCGTGTGAGCCACACGGGCAAGGACATGGGC
1 CCACACGAGC-AAAGAAATGAACGTGTTCCCAAGCTGCGTGAGCCACACGAGCAAGGACATGGGC
* *
8507569 CTGTGTCCAGGCTGTATAACTCACTATTTATGATTTAGGACCACACGACCAAGGACATGGACGTG
65 CTGTGTCCAAGCTGTATAACTCACTATTTATGATTTAAGACCACACGACCAAGGACATGGACGTG
**
8507634 TGCCCGAGCCGTGTGGG
130 TGCCCGAGCCGTGTGAA
* * * * * *
8507651 CCATATGGGCAAAGACATGAGCGTGTTCCCAAGCTGCGTGAGCCACACGAGCAAGGACATGGGCG
1 CCACACGAGCAAAGAAATGAACGTGTTCCCAAGCTGCGTGAGCCACACGAGCAAGGACATGGGCC
* * *
8507716 TGTGTCCAAGCTGTGTAACTCACTATTTATGATTTAAGACCACACGACTAAGGACATAGG-TGTG
66 TGTGTCCAAGCTGTATAACTCACTATTTATGATTTAAGACCACACGACCAAGGACAT-GGACGTG
*
8507780 TGCCC-AGGTCGTGTGAA
130 TGCCCGA-GCCGTGTGAA
* *
8507797 CCACACGAGTAAGGAAATGAACGTGT
1 CCACACGAGCAAAGAAATGAACGTGT
8507823 GTCCAAGTCG
Statistics
Matches: 143, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
145 1 0.01
146 139 0.97
147 3 0.02
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.19
Consensus pattern (146 bp):
CCACACGAGCAAAGAAATGAACGTGTTCCCAAGCTGCGTGAGCCACACGAGCAAGGACATGGGCC
TGTGTCCAAGCTGTATAACTCACTATTTATGATTTAAGACCACACGACCAAGGACATGGACGTGT
GCCCGAGCCGTGTGAA
Found at i:8511624 original size:27 final size:27
Alignment explanation
Indices: 8511587--8512017 Score: 419
Period size: 27 Copynumber: 16.2 Consensus size: 27
8511577 AGAGGTCAAT
*
8511587 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
8511614 AAATGACCGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
8511641 AAATGATCGAAATACCCCTAGAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
*
8511668 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
8511695 AAATAACCAAAATACCCCCCACAGAGTA
1 AAATGACCGAAATA-CCCCCATAGGGTA
** * *
8511723 AAATGATTGAAATACCCTCATTGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
8511750 AAATGACCAAAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
8511777 AAATAATCGAAATACTCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* **
8511804 AAATGACTGAAATATTCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * * * * *
8511831 AAATAATCAAAATACCTCCATAAGTTT
1 AAATGACCGAAATACCCCCATAGGGTA
8511858 AAATGACCGAAATA-----A-A--GTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
8511877 AAATGACTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
8511904 AAATAACTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
8511931 AAATAACCGAAATACTCCCATATGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
8511958 GAATAACCGAAATACCCCAATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
8511985 AAATGATCGAAACACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
8512012 AAATGA
1 AAATGA
8512018 TTGTTATACC
Statistics
Matches: 326, Mismatches: 69, Indels: 18
0.79 0.17 0.04
Matches are distributed among these distances:
19 14 0.04
21 1 0.00
22 1 0.00
24 1 0.00
25 1 0.00
27 287 0.88
28 21 0.06
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.20
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:8511799 original size:109 final size:108
Alignment explanation
Indices: 8511596--8512015 Score: 344
Period size: 109 Copynumber: 4.0 Consensus size: 108
8511586 TAAATGATCG
* * * *
8511596 AAATACCCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGATCGAAATACCCCTA
1 AAATACCCCCACAGAGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACCAAAATACCCCTA
*
8511661 GAGGATAAAATGATCGAAATACCCCCATAGGGTAAAATAACCA
66 GAGGATAAAATAATCGAAATACCCCCATAGGGTAAAATAACCA
** *
8511704 AAATACCCCCCACAGAGTAAAATGATTGAAATACCCTCATTGGGTAAAATGACCAAAATACCCCC
1 AAATA-CCCCCACAGAGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACCAAAATA-CCCC
* * * **
8511769 ATA-AGG-TAAAATAATCGAAATACTCTCATAGGGTAAAATGACTG
64 -TAGAGGATAAAATAATCGAAATACCCCCATAGGGTAAAATAACCA
** * * * * * * * * *
8511813 AAATATTCCCATAGGGTAAAATAATCAAAATA-CCTCCATAAGTTTAAATGACCGAAATA-----
1 AAATACCCCCACAGAGTAAAATGACCGAAATACCCT-CATAGGGTAAAATGACCAAAATACCCCT
* **
8511872 A-A-G-TAAAATGA-CTGAAATACCCCCATAGGGTAAAATAACTG
65 AGAGGATAAAATAATC-GAAATACCCCCATAGGGTAAAATAACCA
* * * * * * * *
8511913 AAATACCCCCATAGGGTAAAATAACCGAAATACTCC-CATATGGTAGAATAACCGAAATACCCCA
1 AAATACCCCCACAGAGTAAAATGACCGAAATAC-CCTCATAGGGTAAAATGACCAAAATACCCCT
* * * *
8511977 ATAGGGTAAAATGATCGAAACACCCCCATAGGGTAAAAT
65 AGAGGATAAAATAATCGAAATACCCCCATAGGGTAAAAT
8512016 GATTGTTATA
Statistics
Matches: 257, Mismatches: 39, Indels: 32
0.78 0.12 0.10
Matches are distributed among these distances:
99 1 0.00
100 79 0.31
101 2 0.01
102 2 0.01
105 1 0.00
106 1 0.00
107 4 0.02
108 73 0.28
109 85 0.33
110 7 0.03
111 2 0.01
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.20
Consensus pattern (108 bp):
AAATACCCCCACAGAGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACCAAAATACCCCTA
GAGGATAAAATAATCGAAATACCCCCATAGGGTAAAATAACCA
Found at i:8511925 original size:73 final size:73
Alignment explanation
Indices: 8511801--8511944 Score: 200
Period size: 73 Copynumber: 2.0 Consensus size: 73
8511791 CTCTCATAGG
** * * * *
8511801 GTAAAATGACTGAAATATTCCCATAGGGTAAAATAATCAAAATACCTCCATAAGTTTAAATGACC
1 GTAAAATGACTGAAATACCCCCATAGGGTAAAATAATCAAAATACCCCCATAAGGTAAAATAACC
8511866 GAAATAAA
66 GAAATAAA
* *
8511874 GTAAAATGACTGAAATACCCCCATAGGGTAAAATAA-CTGAAATACCCCCATAGGGTAAAATAAC
1 GTAAAATGACTGAAATACCCCCATAGGGTAAAATAATC-AAAATACCCCCATAAGGTAAAATAAC
8511938 CGAAATA
65 CGAAATA
8511945 CTCCCATATG
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
72 1 0.02
73 61 0.98
ACGTcount: A:0.47, C:0.17, G:0.14, T:0.22
Consensus pattern (73 bp):
GTAAAATGACTGAAATACCCCCATAGGGTAAAATAATCAAAATACCCCCATAAGGTAAAATAACC
GAAATAAA
Found at i:8511967 original size:100 final size:100
Alignment explanation
Indices: 8511785--8511971 Score: 252
Period size: 100 Copynumber: 1.9 Consensus size: 100
8511775 TAAAATAATC
* * * ** *
8511785 GAAATACTCTCATAGGGTAAAATGACTGAAATATTCCCATAGGGTAAAATAATCAAAATACCTCC
1 GAAATACCCCCATAGGGTAAAATAACTGAAATACCCCCATAGGGTAAAATAACCAAAATACCTCC
* *
8511850 ATAAGTTTAAATGACCGAAATAAAGTAAAATGACT
66 ATAAGTGTAAATAACCGAAATAAAGTAAAATGACT
*
8511885 GAAATACCCCCATAGGGTAAAATAACTGAAATACCCCCATAGGGTAAAATAACCGAAATA-CTCC
1 GAAATACCCCCATAGGGTAAAATAACTGAAATACCCCCATAGGGTAAAATAACCAAAATACCT-C
*
8511949 CATATG-GTAGAATAACCGAAATA
65 CATAAGTGTA-AATAACCGAAATA
8511972 CCCCAATAGG
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
99 4 0.05
100 71 0.95
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.22
Consensus pattern (100 bp):
GAAATACCCCCATAGGGTAAAATAACTGAAATACCCCCATAGGGTAAAATAACCAAAATACCTCC
ATAAGTGTAAATAACCGAAATAAAGTAAAATGACT
Found at i:8511989 original size:127 final size:127
Alignment explanation
Indices: 8511747--8511996 Score: 324
Period size: 127 Copynumber: 2.0 Consensus size: 127
8511737 CCCTCATTGG
* * * *
8511747 GTAAAATGACCAAAATACCCCCATAAGGTAAAATAATCGAAATACTCTCATAGGGTAAAATGACT
1 GTAAAATGACCAAAATACCCCCATAAGGTAAAATAATCGAAATACCCCCATAGGGTAAAATAACC
* * * *
8511812 GAAATATTCCCATAGGGTAAAATAATCAAAATACCTCCATAAGTTTAAATGACCGAAATAAA
66 GAAATACTCCCATAGGGTAAAATAACCAAAATACCTCCATAAGGTAAAATGACCGAAATAAA
** *
8511874 GTAAAATGACTGAAATACCCCCATAGGGTAAAATAA-CTGAAATACCCCCATAGGGTAAAATAAC
1 GTAAAATGACCAAAATACCCCCATAAGGTAAAATAATC-GAAATACCCCCATAGGGTAAAATAAC
* * * * *
8511938 CGAAATACTCCCATATGGTAGAATAACCGAAATACC-CCAATAGGGTAAAATGATCGAAA
65 CGAAATACTCCCATAGGGTAAAATAACCAAAATACCTCC-ATAAGGTAAAATGACCGAAA
8511997 CACCCCCATA
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
126 3 0.03
127 102 0.97
ACGTcount: A:0.46, C:0.19, G:0.14, T:0.21
Consensus pattern (127 bp):
GTAAAATGACCAAAATACCCCCATAAGGTAAAATAATCGAAATACCCCCATAGGGTAAAATAACC
GAAATACTCCCATAGGGTAAAATAACCAAAATACCTCCATAAGGTAAAATGACCGAAATAAA
Found at i:8515599 original size:44 final size:44
Alignment explanation
Indices: 8515404--8515650 Score: 204
Period size: 43 Copynumber: 5.7 Consensus size: 44
8515394 CATACAATGC
* * ** * *
8515404 CATATCCCAGATATGATCTTACATGTTATCAC--ATATCAATCT
1 CATATCCCAGATATGGTCTTACACGAAATCACATATATCGATGT
* * *
8515446 CAATAGCCCAGCTATGGTCTTGCACG-AAT--CATATATCGATGCT
1 C-ATATCCCAGATATGGTCTTACACGAAATCACATATATCGATG-T
* * * * *
8515489 AATGTCCCAGACATGGTCTTACACGAAATCACGTA-A-CGATGC
1 CATATCCCAGATATGGTCTTACACGAAATCACATATATCGATGT
* * *
8515531 CAATGTCCCAGACATGGTCTTACACGTAATCACATATATCGATGT
1 C-ATATCCCAGATATGGTCTTACACGAAATCACATATATCGATGT
*
8515576 CATATCCCAGATATGGTCTTACAC-AAAGTCTCATATATCGATGT
1 CATATCCCAGATATGGTCTTACACGAAA-TCACATATATCGATGT
* * * *
8515620 CATAGCCTAGCTATGGTCTTATACGAAATCA
1 CATATCCCAGATATGGTCTTACACGAAATCA
8515651 TGTAATGCCA
Statistics
Matches: 164, Mismatches: 29, Indels: 22
0.76 0.13 0.10
Matches are distributed among these distances:
40 1 0.01
42 29 0.18
43 62 0.38
44 60 0.37
45 12 0.07
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (44 bp):
CATATCCCAGATATGGTCTTACACGAAATCACATATATCGATGT
Found at i:8515650 original size:88 final size:86
Alignment explanation
Indices: 8515448--8515646 Score: 212
Period size: 87 Copynumber: 2.3 Consensus size: 86
8515438 ATCAATCTCA
* *
8515448 ATAGCCCAGCTATGGTCTTGCACGAAT--CATATATCGATGCTAATGTCCCAGACATGGTCTTAC
1 ATAGCCCAGCTATGGTCTTACACGAATCACATATATCGATGCTAATATCCCAGACATGGTCTTAC
*
8515511 ACGAAATCACGTAACGATGCC
66 ACGAAATCACATAACGATGCC
* *
8515532 A-ATGTCCCAGAC-ATGGTCTTACACGTAATCACATATATCGATG-TCATATCCCAGATATGGTC
1 ATA-G-CCCAG-CTATGGTCTTACACG-AATCACATATATCGATGCTAATATCCCAGACATGGTC
* *
8515594 TTACAC-AAAGTCTCATATATCGATGTC
62 TTACACGAAA-TCACATA-A-CGATGCC
* *
8515621 ATAGCCTAGCTATGGTCTTATACGAA
1 ATAGCCCAGCTATGGTCTTACACGAA
8515647 ATCATGTAAT
Statistics
Matches: 95, Mismatches: 9, Indels: 19
0.77 0.07 0.15
Matches are distributed among these distances:
83 1 0.01
84 2 0.02
85 17 0.18
86 7 0.07
87 30 0.32
88 29 0.31
89 8 0.08
90 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (86 bp):
ATAGCCCAGCTATGGTCTTACACGAATCACATATATCGATGCTAATATCCCAGACATGGTCTTAC
ACGAAATCACATAACGATGCC
Found at i:8520465 original size:22 final size:22
Alignment explanation
Indices: 8520440--8520494 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
8520430 GGGGTTTGGA
*
8520440 CTCTGAATCTGAATTTGATATG
1 CTCTGAATCTGAATCTGATATG
* *
8520462 CTCTGGATCTAAATCTGATATG
1 CTCTGAATCTGAATCTGATATG
*
8520484 CTCTGCATCTG
1 CTCTGAATCTG
8520495 TACCTATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (22 bp):
CTCTGAATCTGAATCTGATATG
Found at i:8527285 original size:45 final size:45
Alignment explanation
Indices: 8527230--8527383 Score: 134
Period size: 45 Copynumber: 3.4 Consensus size: 45
8527220 TTCCAAAAAC
*
8527230 GAGTAAGACCATAGTTAAAGGACATTATGGCATCACAATTCTAAT
1 GAGTAAGACCATAGTTAAAGGACGTTATGGCATCACAATTCTAAT
* * **
8527275 GAGTAAGACCATAGCT-GAGAGACGTTATGGCATCATGATTCT-AT
1 GAGTAAGACCATAGTTAAAG-GACGTTATGGCATCACAATTCTAAT
** * * * * * *
8527319 GGAGTAAGATTATAG-CAGAAAGACGCTATGACATCACAAATCAAAT
1 -GAGTAAGACCATAGTTA-AAGGACGTTATGGCATCACAATTCTAAT
*
8527365 GAATAAGACCATAGTTAAA
1 GAGTAAGACCATAGTTAAA
8527384 AACACTATGG
Statistics
Matches: 83, Mismatches: 20, Indels: 12
0.72 0.17 0.10
Matches are distributed among these distances:
44 4 0.05
45 75 0.90
46 4 0.05
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (45 bp):
GAGTAAGACCATAGTTAAAGGACGTTATGGCATCACAATTCTAAT
Found at i:8527455 original size:46 final size:46
Alignment explanation
Indices: 8527361--8527532 Score: 197
Period size: 46 Copynumber: 3.8 Consensus size: 46
8527351 ATCACAAATC
* * * *
8527361 AAATGAATAAGACCATAGTT-AAAAACACTATGGCAATACGATGAA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACAAGATGGA
* * *
8527406 AAATGAATAAGATCATAGTTGAAAGACACTATGACAACATGATGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACAAGATGGA
* * *
8527452 AAATGAATAAGACCATGGTTGAAAGACACTATGGCATCAAG-TCGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACAAGATGGA
* * *
8527497 GAATAAATAAGACCATGGTTGAAAGACA-TCATGGCA
1 AAATGAATAAGACCATAGTTGAAAGACACT-ATGGCA
8527533 CCCTTCATTT
Statistics
Matches: 111, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
44 1 0.01
45 54 0.49
46 56 0.50
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (46 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACAAGATGGA
Found at i:8532528 original size:11 final size:11
Alignment explanation
Indices: 8532503--8532541 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
8532493 AATAAAGAAT
*
8532503 AGAGAG-AATG
1 AGAGAGCAAAG
8532513 AGAGAGCAAAG
1 AGAGAGCAAAG
8532524 AGAGAGCAAAG
1 AGAGAGCAAAG
8532535 AGAGAGC
1 AGAGAGC
8532542 GTATCTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 6 0.22
11 21 0.78
ACGTcount: A:0.51, C:0.08, G:0.38, T:0.03
Consensus pattern (11 bp):
AGAGAGCAAAG
Found at i:8534403 original size:34 final size:34
Alignment explanation
Indices: 8534360--8534462 Score: 136
Period size: 34 Copynumber: 3.0 Consensus size: 34
8534350 CGTAACTTCT
8534360 GTCAATTTATCTGACTAGTGCTAGGCACACATTC
1 GTCAATTTATCTGACTAGTGCTAGGCACACATTC
* *
8534394 GTCAATTTATCTGACTAGCGCTAGGCGCA-ACTTCC
1 GTCAATTTATCTGACTAGTGCTAGGCACACA-TT-C
* * *
8534429 ATCAGTTTATCTGACTAGTGCTGGGCACACATTC
1 GTCAATTTATCTGACTAGTGCTAGGCACACATTC
8534463 TTCGGTTTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
33 1 0.02
34 30 0.51
35 27 0.46
36 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.31
Consensus pattern (34 bp):
GTCAATTTATCTGACTAGTGCTAGGCACACATTC
Found at i:8534445 original size:35 final size:35
Alignment explanation
Indices: 8534289--8534446 Score: 140
Period size: 35 Copynumber: 4.5 Consensus size: 35
8534279 CATTTAATAT
* ** * *
8534289 CGTCGGTTTATCCAACTAGCGCTGGGCGCAACTTT
1 CGTCAGTTTATCTGACTAGCGCTAGGCGCAACTTC
* ** * * *
8534324 CTTCAGTTTATCCAATTACCGCTAGGCGTAACTTC
1 CGTCAGTTTATCTGACTAGCGCTAGGCGCAACTTC
* * * *
8534359 TGTCAATTTATCTGACTAGTGCTAGGCAC-ACATT-
1 CGTCAGTTTATCTGACTAGCGCTAGGCGCAAC-TTC
*
8534393 CGTCAATTTATCTGACTAGCGCTAGGCGCAACTTC
1 CGTCAGTTTATCTGACTAGCGCTAGGCGCAACTTC
*
8534428 CATCAGTTTATCTGACTAG
1 CGTCAGTTTATCTGACTAG
8534447 TGCTGGGCAC
Statistics
Matches: 98, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
34 30 0.31
35 68 0.69
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (35 bp):
CGTCAGTTTATCTGACTAGCGCTAGGCGCAACTTC
Found at i:8534472 original size:69 final size:69
Alignment explanation
Indices: 8534343--8534479 Score: 193
Period size: 69 Copynumber: 2.0 Consensus size: 69
8534333 ATCCAATTAC
* ** *
8534343 CGCTAGGCGTAACTTCTGTCAATTTATCTGACTAGTGCTAGGCACACATTCGTCAATTTATCTGA
1 CGCTAGGCGCAACTTCCATCAATTTATCTGACTAGTGCTAGGCACACATTCGTCAATTTATCCGA
8534408 CTAG
66 CTAG
* * * **
8534412 CGCTAGGCGCAACTTCCATCAGTTTATCTGACTAGTGCTGGGCACACATTCTTCGGTTTATCCGA
1 CGCTAGGCGCAACTTCCATCAATTTATCTGACTAGTGCTAGGCACACATTCGTCAATTTATCCGA
8534477 CTA
66 CTA
8534480 ACATTAGACG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (69 bp):
CGCTAGGCGCAACTTCCATCAATTTATCTGACTAGTGCTAGGCACACATTCGTCAATTTATCCGA
CTAG
Found at i:8534479 original size:34 final size:34
Alignment explanation
Indices: 8534365--8534479 Score: 126
Period size: 34 Copynumber: 3.4 Consensus size: 34
8534355 CTTCTGTCAA
* * *
8534365 TTTATCTGACTAGTGCTAGGCACACATTCGTCAA
1 TTTATCTGACTAGTGCTGGGCACACATTCATCAG
*
8534399 TTTATCTGACTAGCGCTAGGCGCA-AC-TTCCATCAG
1 TTTATCTGACTAGTGCT-GG-GCACACATT-CATCAG
* *
8534434 TTTATCTGACTAGTGCTGGGCACACATTCTTCGG
1 TTTATCTGACTAGTGCTGGGCACACATTCATCAG
*
8534468 TTTATCCGACTA
1 TTTATCTGACTA
8534480 ACATTAGACG
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
33 3 0.04
34 37 0.54
35 25 0.37
36 3 0.04
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (34 bp):
TTTATCTGACTAGTGCTGGGCACACATTCATCAG
Found at i:8542417 original size:5 final size:5
Alignment explanation
Indices: 8542391--8542452 Score: 97
Period size: 5 Copynumber: 12.0 Consensus size: 5
8542381 AATAACTATA
*
8542391 ATTAT AATTAT AATTAT TTTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT -ATTAT -ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
8542443 ATTAT ATTAT
1 ATTAT ATTAT
8542453 TGATTGATAA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
5 43 0.80
6 11 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:8549610 original size:35 final size:35
Alignment explanation
Indices: 8549563--8549654 Score: 112
Period size: 35 Copynumber: 2.6 Consensus size: 35
8549553 ATGAATGTGT
* ** *
8549563 GCCTAGCACTAGTCAGATAAACTGACGGAAGTTGT
1 GCCTAGCGCTAGTTGGATAAACTGACGGAAGTTGC
* * * *
8549598 GCCTGGTGCTAGTTGGATAAATTGATGGAAGTTGC
1 GCCTAGCGCTAGTTGGATAAACTGACGGAAGTTGC
8549633 GCCTAGCGCTAGTTGGATAAAC
1 GCCTAGCGCTAGTTGGATAAAC
8549655 CAACGAATGT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.26
Consensus pattern (35 bp):
GCCTAGCGCTAGTTGGATAAACTGACGGAAGTTGC
Found at i:8552786 original size:25 final size:25
Alignment explanation
Indices: 8552704--8552797 Score: 109
Period size: 25 Copynumber: 3.8 Consensus size: 25
8552694 CATGTACATA
*
8552704 TATGCTCAT-ACGAGCTGTAAATCGG
1 TATGCTC-TCACGAGCTATAAATCGG
* * * * *
8552729 TATGCTCACTCGAGCTGTAGATTGG
1 TATGCTCTCACGAGCTATAAATCGG
8552754 TATGCTCTCACGAGCTATAAATCGG
1 TATGCTCTCACGAGCTATAAATCGG
*
8552779 TATGCTCTCACGAGTTATA
1 TATGCTCTCACGAGCTATA
8552798 GAGTATACAC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (25 bp):
TATGCTCTCACGAGCTATAAATCGG
Found at i:8552956 original size:17 final size:17
Alignment explanation
Indices: 8552930--8552964 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
8552920 GCAATCATGT
*
8552930 AAATTTATAATAATTCA
1 AAATTCATAATAATTCA
8552947 AAATTCATAATAATTCA
1 AAATTCATAATAATTCA
8552964 A
1 A
8552965 TATAAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATTCATAATAATTCA
Found at i:8553564 original size:9 final size:9
Alignment explanation
Indices: 8553532--8553568 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
8553522 TGAGTTTTTG
8553532 AATTCGAAT
1 AATTCGAAT
*
8553541 AACTCGAAT
1 AATTCGAAT
8553550 AATTCGAAT
1 AATTCGAAT
*
8553559 AGTTCGAAT
1 AATTCGAAT
8553568 A
1 A
8553569 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:8559565 original size:28 final size:28
Alignment explanation
Indices: 8559534--8559594 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
8559524 AATTTTAAAA
*
8559534 TATTTATT-TTTAAATAAAATTATACATT
1 TATTTATTCTTGAAA-AAAATTATACATT
*
8559562 TATTTATTCTTGAGAAAAATTATACATT
1 TATTTATTCTTGAAAAAAATTATACATT
8559590 TATTT
1 TATTT
8559595 TAAATAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 26 0.87
29 4 0.13
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.52
Consensus pattern (28 bp):
TATTTATTCTTGAAAAAAATTATACATT
Found at i:8573081 original size:25 final size:25
Alignment explanation
Indices: 8573040--8573131 Score: 96
Period size: 25 Copynumber: 3.7 Consensus size: 25
8573030 CCATTTTCAC
*
8573040 AGCTCGT-ATGAGCATACTGATTTAT
1 AGCTCGTGA-GAGTATACTGATTTAT
* *
8573065 AGCTTGTGAGAGTATACTAATTTAT
1 AGCTCGTGAGAGTATACTGATTTAT
* * * *
8573090 AGCTCATGAGAGCATACCGATTTAC
1 AGCTCGTGAGAGTATACTGATTTAT
*
8573115 AGCTCGTGTGAGTATAC
1 AGCTCGTGAGAGTATAC
8573132 ATGTACAAGA
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
25 53 0.98
26 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (25 bp):
AGCTCGTGAGAGTATACTGATTTAT
Found at i:8589580 original size:25 final size:25
Alignment explanation
Indices: 8589544--8589632 Score: 124
Period size: 25 Copynumber: 3.6 Consensus size: 25
8589534 TTTTCATAGT
* *
8589544 TCGTGTGAGCATACCGATTTACAGC
1 TCGTGAGAGCATACCGATTTACAAC
* *
8589569 TCGTGAGTGCATACCGATTTATAAC
1 TCGTGAGAGCATACCGATTTACAAC
*
8589594 TAGTGAGAGCATACCGATTTACAAC
1 TCGTGAGAGCATACCGATTTACAAC
*
8589619 TCGTGTGAGCATAC
1 TCGTGAGAGCATAC
8589633 ATGTACATGA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (25 bp):
TCGTGAGAGCATACCGATTTACAAC
Found at i:8594662 original size:26 final size:26
Alignment explanation
Indices: 8594626--8594677 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
8594616 GTTTAAACAA
8594626 AAGCGGATCCTCCCAAAGATAATACC
1 AAGCGGATCCTCCCAAAGATAATACC
8594652 AAGCGGATCCTCCCAAAGATAATACC
1 AAGCGGATCCTCCCAAAGATAATACC
8594678 GATTATCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.31, G:0.15, T:0.15
Consensus pattern (26 bp):
AAGCGGATCCTCCCAAAGATAATACC
Found at i:8603230 original size:18 final size:19
Alignment explanation
Indices: 8603209--8603263 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
8603199 TTGGAGAAAA
*
8603209 GAGAGAATGATGAATGA-T
1 GAGAGGATGATGAATGATT
*
8603227 GAGAATGGATGAGGAATGATT
1 GAG-A-GGATGATGAATGATT
8603248 GAG-GGATGATGAATGA
1 GAGAGGATGATGAATGA
8603264 ATGAATGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 15 0.48
19 1 0.03
20 11 0.35
21 4 0.13
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.22
Consensus pattern (19 bp):
GAGAGGATGATGAATGATT
Found at i:8607672 original size:27 final size:27
Alignment explanation
Indices: 8607642--8607696 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
8607632 AAAAAACAAA
8607642 ACAAAG-GAAATAAAAATAAAGAAACCT
1 ACAAAGAGAAAT-AAAATAAAGAAACCT
* * *
8607669 ACAAAGAGAGATTAAATAATGAAACCT
1 ACAAAGAGAAATAAAATAAAGAAACCT
8607696 A
1 A
8607697 ACCTCAGTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.62, C:0.11, G:0.13, T:0.15
Consensus pattern (27 bp):
ACAAAGAGAAATAAAATAAAGAAACCT
Found at i:8607778 original size:13 final size:15
Alignment explanation
Indices: 8607745--8607783 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
8607735 AGAAAGCCAA
*
8607745 AAAGGAAGAAAAGTG
1 AAAGGAACAAAAGTG
8607760 AAAGGAACAAAA-T-
1 AAAGGAACAAAAGTG
8607773 AAAGGAACAAA
1 AAAGGAACAAA
8607784 CAGCTAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 1 0.04
15 11 0.48
ACGTcount: A:0.67, C:0.05, G:0.23, T:0.05
Consensus pattern (15 bp):
AAAGGAACAAAAGTG
Found at i:8614848 original size:25 final size:26
Alignment explanation
Indices: 8614815--8614880 Score: 91
Period size: 25 Copynumber: 2.6 Consensus size: 26
8614805 CAGGATCTGT
8614815 GAAATCAATTAAAACGGTGCGTGGTG
1 GAAATCAATTAAAACGGTGCGTGGTG
*
8614841 GAAA-CAATTGAAACGGTGCGTGGT-
1 GAAATCAATTAAAACGGTGCGTGGTG
* *
8614865 AAAATCAATTGAAACG
1 GAAATCAATTAAAACG
8614881 AAATGGTCAG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
24 3 0.08
25 30 0.81
26 4 0.11
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.21
Consensus pattern (26 bp):
GAAATCAATTAAAACGGTGCGTGGTG
Found at i:8615355 original size:52 final size:53
Alignment explanation
Indices: 8615244--8615357 Score: 140
Period size: 52 Copynumber: 2.2 Consensus size: 53
8615234 GCTAAGACAC
* * * *
8615244 AATTAAGAAGTCTAACTTAATAACATGCATTGATACTGTTTGAACTAGAGCAT
1 AATTAATAGGTCTAACTTAATAACATGCATTGATACTGTCTGAACTAGAACAT
* * * *
8615297 AATTAATAGGTCTGACTTAA-AACCTGCATTGATGCTGTCTGAATTAGAACAT
1 AATTAATAGGTCTAACTTAATAACATGCATTGATACTGTCTGAACTAGAACAT
*
8615349 ACTTAATAG
1 AATTAATAG
8615358 ACATAAATCA
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
52 35 0.67
53 17 0.33
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (53 bp):
AATTAATAGGTCTAACTTAATAACATGCATTGATACTGTCTGAACTAGAACAT
Found at i:8615990 original size:43 final size:43
Alignment explanation
Indices: 8615859--8615991 Score: 117
Period size: 43 Copynumber: 3.1 Consensus size: 43
8615849 CCAGGGTACC
* * *
8615859 GATGCTACTCGAGGCACTCGCACATCCAACGTCCTAGGTTGCC
1 GATGCTGCTCGAGGCACTCGCACATCCAACGTCCTAGGCTGCT
* * * * * * * * *
8615902 AATGGTG-TCCGAGGCTCCCCCACATCTAAAG-CACTAGGGTTCT
1 GATGCTGCT-CGAGGCACTCGCACATCCAACGTC-CTAGGCTGCT
*
8615945 GATGCTGCTCAAGGCACTCGCACATCCAACGTCCTAGGCTGCT
1 GATGCTGCTCGAGGCACTCGCACATCCAACGTCCTAGGCTGCT
8615988 GATG
1 GATG
8615992 GTGCCTGAGT
Statistics
Matches: 65, Mismatches: 21, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
42 2 0.03
43 61 0.94
44 2 0.03
ACGTcount: A:0.22, C:0.32, G:0.24, T:0.22
Consensus pattern (43 bp):
GATGCTGCTCGAGGCACTCGCACATCCAACGTCCTAGGCTGCT
Found at i:8616133 original size:43 final size:44
Alignment explanation
Indices: 8616015--8616230 Score: 162
Period size: 43 Copynumber: 5.1 Consensus size: 44
8616005 CAGCATGACT
* * * *
8616015 AAGGGCCTAGGTTACCGATGGTGTCCGAGGCTCCCGTA-TATCC
1 AAGGGCCTAGGTTATCGATGGTGTCCAAGGCTCCCGCACGATCC
** * * *
8616058 AAGCACCAAGG-TATCGATAGTGCCCGAA-GCTCCCGCACGA-CC
1 AAGGGCCTAGGTTATCGATGGTGTCC-AAGGCTCCCGCACGATCC
* *
8616100 AAGGGCCTAGGTTATCGATGGTGTTCAAGGCTCCTGCAC-ATCC
1 AAGGGCCTAGGTTATCGATGGTGTCCAAGGCTCCCGCACGATCC
** * * * ** *
8616143 AAGCACC-AAGTTGTCGATGCTACCCAAGGCTCCCACACGA-CC
1 AAGGGCCTAGGTTATCGATGGTGTCCAAGGCTCCCGCACGATCC
* *
8616185 AAGGGCCTATGTT-GCTGATGGTGTCCAAGGCTCCCGCAC-ATCC
1 AAGGGCCTAGGTTATC-GATGGTGTCCAAGGCTCCCGCACGATCC
8616228 AAG
1 AAG
8616231 CACCAAGGTG
Statistics
Matches: 130, Mismatches: 34, Indels: 18
0.71 0.19 0.10
Matches are distributed among these distances:
42 64 0.49
43 66 0.51
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.19
Consensus pattern (44 bp):
AAGGGCCTAGGTTATCGATGGTGTCCAAGGCTCCCGCACGATCC
Found at i:8616143 original size:85 final size:85
Alignment explanation
Indices: 8616015--8616239 Score: 301
Period size: 85 Copynumber: 2.6 Consensus size: 85
8616005 CAGCATGACT
* * *
8616015 AAGGGCCTAGGTTACCGATGGTGTCCGAGGCTCCCGTATATCCAAGCACCAAGGTATCGATAG-T
1 AAGGGCCTAGGTTACCGATGGTGTCCAAGGCTCCCGCACATCCAAGCACCAAGGTATCGAT-GCT
* *
8616079 GCCCGAA-GCTCCCGCACGACC
65 ACCC-AAGGCTCCCACACGACC
* * * * *
8616100 AAGGGCCTAGGTTATCGATGGTGTTCAAGGCTCCTGCACATCCAAGCACCAAGTTGTCGATGCTA
1 AAGGGCCTAGGTTACCGATGGTGTCCAAGGCTCCCGCACATCCAAGCACCAAGGTATCGATGCTA
8616165 CCCAAGGCTCCCACACGACC
66 CCCAAGGCTCCCACACGACC
* * *
8616185 AAGGGCCTATGTTGCTGATGGTGTCCAAGGCTCCCGCACATCCAAGCACCAAGGT
1 AAGGGCCTAGGTTACCGATGGTGTCCAAGGCTCCCGCACATCCAAGCACCAAGGT
8616240 GCTGATGGTG
Statistics
Matches: 121, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
84 3 0.02
85 118 0.98
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.19
Consensus pattern (85 bp):
AAGGGCCTAGGTTACCGATGGTGTCCAAGGCTCCCGCACATCCAAGCACCAAGGTATCGATGCTA
CCCAAGGCTCCCACACGACC
Found at i:8616171 original size:42 final size:42
Alignment explanation
Indices: 8616125--8616246 Score: 122
Period size: 43 Copynumber: 2.9 Consensus size: 42
8616115 CGATGGTGTT
*
8616125 CAAGGCTCCTGCACATCCAAGCACCAAGTTG-TCGATGCTACC
1 CAAGGCTCCCGCACATCCAAGCACCAAGTTGCT-GATGCTACC
* ** * * **
8616167 CAAGGCTCCCACACGA-CCAAGGGCCTATGTTGCTGATGGTGTC
1 CAAGGCTCCCGCAC-ATCCAAGCACC-AAGTTGCTGATGCTACC
*
8616210 CAAGGCTCCCGCACATCCAAGCACCAAGGTGCTGATG
1 CAAGGCTCCCGCACATCCAAGCACCAAGTTGCTGATG
8616247 GTGCTCGAGG
Statistics
Matches: 63, Mismatches: 13, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
42 30 0.48
43 32 0.51
44 1 0.02
ACGTcount: A:0.25, C:0.34, G:0.24, T:0.18
Consensus pattern (42 bp):
CAAGGCTCCCGCACATCCAAGCACCAAGTTGCTGATGCTACC
Found at i:8616258 original size:42 final size:43
Alignment explanation
Indices: 8616042--8616258 Score: 135
Period size: 42 Copynumber: 5.1 Consensus size: 43
8616032 ATGGTGTCCG
* * * *
8616042 AGGCTCCCGTATATCCAAGCACCAAGGT-ATCGATAGTGCCCGA
1 AGGCTCCCGCACATCCAAGCACCAAGGTGATCGATGGTGCTC-A
** * * *
8616085 A-GCTCCCGCACGA-CCAAGGGCCTAGGTTATCGATGGTGTTCA
1 AGGCTCCCGCAC-ATCCAAGCACCAAGGTGATCGATGGTGCTCA
* * * * *
8616127 AGGCTCCTGCACATCCAAGCACCAAGTTG-TCGATGCTACCCA
1 AGGCTCCCGCACATCCAAGCACCAAGGTGATCGATGGTGCTCA
* ** * * *
8616169 AGGCTCCCACACGA-CCAAGGGCCTATGTTGCT-GATGGTG-TCCA
1 AGGCTCCCGCAC-ATCCAAGCACC-AAGGTGATCGATGGTGCT-CA
* *
8616212 AGGCTCCCGCACATCCAAGCACCAAGGTGCT-GATGGTGCTCG
1 AGGCTCCCGCACATCCAAGCACCAAGGTGATCGATGGTGCTCA
8616254 AGGCT
1 AGGCT
8616259 TTTGTAACAC
Statistics
Matches: 132, Mismatches: 32, Indels: 21
0.71 0.17 0.11
Matches are distributed among these distances:
42 68 0.52
43 63 0.48
44 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.19
Consensus pattern (43 bp):
AGGCTCCCGCACATCCAAGCACCAAGGTGATCGATGGTGCTCA
Found at i:8616258 original size:85 final size:84
Alignment explanation
Indices: 8616015--8616336 Score: 292
Period size: 85 Copynumber: 3.8 Consensus size: 84
8616005 CAGCATGACT
* * * * * *
8616015 AAGGGCCTAGGTTACCGATGGTGTCCGAGGCTCCCGTATATCCAAGCACCAAGGTATCGATAGTG
1 AAGGGCCTAGGTT-CTGATGGTGTCCAAGGCTCCCGCACATCCAAGCACCAAGGTGTCGATGGTG
* *
8616080 CCCGAAGCTCCCGCACGACC
65 CCCGAGGCTCCCACACGACC
* * * * * *
8616100 AAGGGCCTAGGTTATCGATGGTGTTCAAGGCTCCTGCACATCCAAGCACCAAGTTGTCGATGCTA
1 AAGGGCCTAGGTTCT-GATGGTGTCCAAGGCTCCCGCACATCCAAGCACCAAGGTGTCGATGGTG
*
8616165 CCCAAGGCTCCCACACGACC
65 CCCGAGGCTCCCACACGACC
*
8616185 AAGGGCCTATGTTGCTGATGGTGTCCAAGGCTCCCGCACATCCAAGCACCAAGGTG-CTGATGGT
1 AAGGGCCTAGGTT-CTGATGGTGTCCAAGGCTCCCGCACATCCAAGCACCAAGGTGTC-GATGGT
* ***
8616249 GCTCGAGGCTTTTGTA-AC-ACC
64 GCCCGAGGC--TCCCACACGACC
*** * * * * * *
8616270 AATTTCCTAGGTTTTCGATGGTGTCCAAGGCTTCCACACATCAAAGCACCAA-GTTTCAATGGTG
1 AAGGGCCTAGGTTCT-GATGGTGTCCAAGGCTCCCGCACATCCAAGCACCAAGGTGTCGATGGTG
8616334 CCC
65 CCC
8616337 AATTCTCTAG
Statistics
Matches: 192, Mismatches: 38, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
84 12 0.06
85 175 0.91
86 3 0.02
87 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.22
Consensus pattern (84 bp):
AAGGGCCTAGGTTCTGATGGTGTCCAAGGCTCCCGCACATCCAAGCACCAAGGTGTCGATGGTGC
CCGAGGCTCCCACACGACC
Found at i:8616409 original size:170 final size:170
Alignment explanation
Indices: 8616105--8616412 Score: 367
Period size: 169 Copynumber: 1.8 Consensus size: 170
8616095 CGACCAAGGG
* * * *
8616105 CCTAGGTTATCGATGGTGTTCAAGGCTCCTGCACATCCAAGCACCAAGTTGTCGATGCTACCCAA
1 CCTAGGTTATCGATGGTGTCCAAGGCTCCTACACATCAAAGCACCAAGTTGTCAATGCTACCCAA
* * * * * *
8616170 GGCTCCCACACGACCAAGGGCCTATGTTGCTGATGGTGTCCAAGGCTCCCGCACATCCAAGCACC
66 GGCTCCCAAACGACCAAGGGCCTATGGTGCTGATGGAGTCAAAGGCTACCGCACAACCAAGCACC
8616235 AAGGTGCTGATGGTGCTCGAGGCTTTTGTAACACCAATTT
131 AAGGTGCTGATGGTGCTCGAGGCTTTTGTAACACCAATTT
* * *
8616275 CCTAGGTTTTCGATGGTGTCCAAGGCTTCC-ACACATCAAAGCACCAAGTT-TCAATGGTGCCCA
1 CCTAGGTTATCGATGGTGTCCAAGGC-TCCTACACATCAAAGCACCAAGTTGTCAATGCTACCCA
** * *
8616338 ATTCT-CTAGAACGACCAAGGGCCTATGGTG-TCGGTGGAGT-AAGAGGCTACCGCACAACCAAG
65 AGGCTCCCA-AACGACCAAGGGCCTATGGTGCT-GATGGAGTCAA-AGGCTACCGCACAACCAA-
8616400 GGC-CCAAGGTGCT
126 -GCACCAAGGTGCT
8616413 AGAGGCTCTT
Statistics
Matches: 115, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
168 4 0.03
169 54 0.47
170 52 0.45
171 5 0.04
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.22
Consensus pattern (170 bp):
CCTAGGTTATCGATGGTGTCCAAGGCTCCTACACATCAAAGCACCAAGTTGTCAATGCTACCCAA
GGCTCCCAAACGACCAAGGGCCTATGGTGCTGATGGAGTCAAAGGCTACCGCACAACCAAGCACC
AAGGTGCTGATGGTGCTCGAGGCTTTTGTAACACCAATTT
Found at i:8628086 original size:42 final size:42
Alignment explanation
Indices: 8628028--8628178 Score: 126
Period size: 42 Copynumber: 3.6 Consensus size: 42
8628018 TGCTCCAGGT
* * *
8628028 TACCGATAGTGTCCGAGGCTCCCGTACATCTAAGCACCAAGG
1 TACCGATGGTGCCCGAGGCTCCCGTACATCCAAGCACCAAGG
** *
8628070 TACCGATGGTGCCCGAGGCT-CC-TACATGACCAAGGGCCTAGG
1 TACCGATGGTGCCCGAGGCTCCCGTACAT--CCAAGCACCAAGG
* * * *
8628112 TTACCGATGGTGTCTGAGGCACCCGCACATCCAAGCACCAAGG
1 -TACCGATGGTGCCCGAGGCTCCCGTACATCCAAGCACCAAGG
* * * * *
8628155 CATCGATGCTACTCGAGGCTCCCG
1 TACCGATGGTGCCCGAGGCTCCCG
8628179 CACGACCAAG
Statistics
Matches: 83, Mismatches: 21, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
40 5 0.06
41 2 0.02
42 43 0.52
43 27 0.33
44 2 0.02
45 4 0.05
ACGTcount: A:0.23, C:0.32, G:0.26, T:0.18
Consensus pattern (42 bp):
TACCGATGGTGCCCGAGGCTCCCGTACATCCAAGCACCAAGG
Found at i:8628131 original size:43 final size:43
Alignment explanation
Indices: 8628070--8628217 Score: 115
Period size: 43 Copynumber: 3.5 Consensus size: 43
8628060 AGCACCAAGG
* * *
8628070 TACCGATGGTGCCCGAGGCTCCTACATGACCAAGGGCCTAGGT
1 TACCGATGGTGTCTGAGGCTCCCACATGACCAAGGGCCTAGGT
* ** *
8628113 TACCGATGGTGTCTGAGGCACCCGCACAT--CCAAGCACCAAGG-
1 TACCGATGGTGTCTGAGGC-TCC-CACATGACCAAGGGCCTAGGT
* * * * * *
8628155 CATCGATGCT-ACTCGAGGCTCCCGCACGACCAAGGGCCTAGGT
1 TACCGATGGTGTCT-GAGGCTCCCACATGACCAAGGGCCTAGGT
*
8628198 TATCGATGGTGTCTGAGGCT
1 TACCGATGGTGTCTGAGGCT
8628218 TCTGCACATC
Statistics
Matches: 78, Mismatches: 20, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
40 3 0.04
41 4 0.05
42 22 0.28
43 41 0.53
44 4 0.05
45 4 0.05
ACGTcount: A:0.22, C:0.30, G:0.29, T:0.19
Consensus pattern (43 bp):
TACCGATGGTGTCTGAGGCTCCCACATGACCAAGGGCCTAGGT
Found at i:8628259 original size:85 final size:85
Alignment explanation
Indices: 8628024--8628266 Score: 279
Period size: 85 Copynumber: 2.9 Consensus size: 85
8628014 GCACTGCTCC
* * * * * *
8628024 AGGTTACCGATAGTGTCCGAGGCTCCCGTACATCTAAGCACCAAGGTACCGATGGTGCCCGAGGC
1 AGGTTACCGATGGTGTCTGAGGCACCCGCACATCCAAGCACCAAGGTACCGATGGTGCTCGAGGC
* *
8628089 TCCTACATGACCAAGGGCCT
66 TCCCACACGACCAAGGGCCT
* * * *
8628109 AGGTTACCGATGGTGTCTGAGGCACCCGCACATCCAAGCACCAAGGCATCGATGCTACTCGAGGC
1 AGGTTACCGATGGTGTCTGAGGCACCCGCACATCCAAGCACCAAGGTACCGATGGTGCTCGAGGC
*
8628174 TCCCGCACGACCAAGGGCCT
66 TCCCACACGACCAAGGGCCT
* ** * * ** * *
8628194 AGGTTATCGATGGTGTCTGAGGCTTCTGCACATCCTAGCATTAAGGTGCCGATGGTGCTCAAGGC
1 AGGTTACCGATGGTGTCTGAGGCACCCGCACATCCAAGCACCAAGGTACCGATGGTGCTCGAGGC
*
8628259 TCTCACAC
66 TCCCACAC
8628267 CACTAACGTC
Statistics
Matches: 130, Mismatches: 28, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
85 130 1.00
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.20
Consensus pattern (85 bp):
AGGTTACCGATGGTGTCTGAGGCACCCGCACATCCAAGCACCAAGGTACCGATGGTGCTCGAGGC
TCCCACACGACCAAGGGCCT
Found at i:8630690 original size:41 final size:41
Alignment explanation
Indices: 8630645--8630730 Score: 154
Period size: 41 Copynumber: 2.1 Consensus size: 41
8630635 TGAATTACCT
* *
8630645 AAAAGTTTACAAGCAAACTAAAAGCATCCAAATAAGCATTC
1 AAAAGTTTACAAGAAAACTAAAAGCATCCAAATAAACATTC
8630686 AAAAGTTTACAAGAAAACTAAAAGCATCCAAATAAACATTC
1 AAAAGTTTACAAGAAAACTAAAAGCATCCAAATAAACATTC
8630727 AAAA
1 AAAA
8630731 AGAGCATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.56, C:0.17, G:0.08, T:0.19
Consensus pattern (41 bp):
AAAAGTTTACAAGAAAACTAAAAGCATCCAAATAAACATTC
Found at i:8638510 original size:27 final size:27
Alignment explanation
Indices: 8638458--8638510 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
8638448 AAAGCAAAAG
8638458 AAAGGAGAAAAAAGAAACAAAAAGAAC
1 AAAGGAGAAAAAAGAAACAAAAAGAAC
* *
8638485 AAAGG-GAAAAAGGTAACAAAAGAGAA
1 AAAGGAGAAAAAAGAAACAAAA-AGAA
8638511 AGAAACATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.70, C:0.06, G:0.23, T:0.02
Consensus pattern (27 bp):
AAAGGAGAAAAAAGAAACAAAAAGAAC
Found at i:8645746 original size:90 final size:90
Alignment explanation
Indices: 8645588--8645854 Score: 217
Period size: 90 Copynumber: 2.9 Consensus size: 90
8645578 TTGGCTTGAA
* * *
8645588 GGAAACAAATAAGACCATAGTTGAAAGATACTATGGCACTATATCGAAACTAAATAAGACTATAG
1 GGAAACAAATAAGACCATAGCTGAAAGATACTATGACACTATATCGAAACTAAATAAGACCATAG
*
8645653 TTGAGAGACACTATGGCATCATACC
66 TTGAAAGACACTATGGCATCATACC
* * * *
8645678 GGAAACGAATAAGACCATAGCTGAAAGATGCTATGACA-TCATGAAT-TAAAC-GAATAAGACCA
1 GGAAACAAATAAGACCATAGCTGAAAGATACTATGACACT-AT--ATCGAAACTAAATAAGACCA
* * *
8645740 TGGTTGAAAGACACTATGGAAAT-ATGA-T
63 TAGTTGAAAGACACTATGG-CATCAT-ACC
* * * * * * *
8645768 GTAAA-AATGTATAAGACCATGGTTGAAAGACACTATGACATTA-AGACGAGAA-TGAATAAGAC
1 GGAAACAA---ATAAGACCATAGCTGAAAGATACTATGACACTATA-TCGA-AACTAAATAAGAC
*
8645830 CATGGTTGAAAGACACTATGGCATC
61 CATAGTTGAAAGACACTATGGCATC
8645855 CTTCAATCAT
Statistics
Matches: 143, Mismatches: 20, Indels: 26
0.76 0.11 0.14
Matches are distributed among these distances:
89 3 0.02
90 68 0.48
91 10 0.07
92 61 0.43
93 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.22
Consensus pattern (90 bp):
GGAAACAAATAAGACCATAGCTGAAAGATACTATGACACTATATCGAAACTAAATAAGACCATAG
TTGAAAGACACTATGGCATCATACC
Found at i:8645789 original size:47 final size:46
Alignment explanation
Indices: 8645595--8645850 Score: 168
Period size: 45 Copynumber: 5.6 Consensus size: 46
8645585 GAAGGAAACA
* * * * * *
8645595 AATAAGACCATAGTTGAAAGATACTATGG-CACTATA-TCGAAACTA
1 AATAAGACCATGGTTGAAAGACACTATGGACAATA-AGACGAAAATG
* * * * * * *
8645640 AATAAGACTATAGTTGAGAGACACTATGG-C-ATCATACCGGAAACG
1 AATAAGACCATGGTTGAAAGACACTATGGACAATAAGA-CGAAAATG
* * ** * *** *
8645685 AATAAGACCATAGCTGAAAGATGCTAT-GAC-ATCATGAATTAAACG
1 AATAAGACCATGGTTGAAAGACACTATGGACAAT-AAGACGAAAATG
* *
8645730 AATAAGACCATGGTTGAAAGACACTATGGA-AATATGATGTAAAAATG
1 AATAAGACCATGGTTGAAAGACACTATGGACAATAAGACG--AAAATG
* * *
8645777 TATAAGACCATGGTTGAAAGACACTAT-GACATTAAGACGAGAATG
1 AATAAGACCATGGTTGAAAGACACTATGGACAATAAGACGAAAATG
8645822 AATAAGACCATGGTTGAAAGACACTATGG
1 AATAAGACCATGGTTGAAAGACACTATGG
8645851 CATCCTTCAA
Statistics
Matches: 166, Mismatches: 35, Indels: 19
0.75 0.16 0.09
Matches are distributed among these distances:
43 1 0.01
44 2 0.01
45 119 0.72
46 8 0.05
47 36 0.22
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.22
Consensus pattern (46 bp):
AATAAGACCATGGTTGAAAGACACTATGGACAATAAGACGAAAATG
Found at i:8645842 original size:45 final size:45
Alignment explanation
Indices: 8645729--8645849 Score: 163
Period size: 47 Copynumber: 2.6 Consensus size: 45
8645719 TGAATTAAAC
* *
8645729 GAATAAGACCATGGTTGAAAGACACTATGGAAATATGATGTAAAAAT
1 GAATAAGACCATGGTTGAAAGACACTAT-GAAATAAGACG-AAAAAT
* * *
8645776 GTATAAGACCATGGTTGAAAGACACTATGACATTAAGACG-AGAAT
1 GAATAAGACCATGGTTGAAAGACACTATGA-AATAAGACGAAAAAT
8645821 GAATAAGACCATGGTTGAAAGACACTATG
1 GAATAAGACCATGGTTGAAAGACACTATG
8645850 GCATCCTTCA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
45 32 0.48
46 2 0.03
47 33 0.49
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (45 bp):
GAATAAGACCATGGTTGAAAGACACTATGAAATAAGACGAAAAAT
Found at i:8649486 original size:19 final size:20
Alignment explanation
Indices: 8649458--8649495 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8649448 TTTATATATA
8649458 TTTTAAAA-TTTTTTAAAAC
1 TTTTAAAATTTTTTTAAAAC
*
8649477 TTTTATAATTTTTTTAAAA
1 TTTTAAAATTTTTTTAAAA
8649496 AATATACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTAAAATTTTTTTAAAAC
Found at i:8652988 original size:29 final size:31
Alignment explanation
Indices: 8652956--8653022 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 31
8652946 ACAAAAAAGT
*
8652956 AAATTATAATAACTATCTCTT-AAATTTT-A
1 AAATTATAATAACTAGCTCTTAAAATTTTAA
* * * *
8652985 AAATAATTATTATTAGCTCTTAAAATTTTAA
1 AAATTATAATAACTAGCTCTTAAAATTTTAA
8653016 AAATTAT
1 AAATTAT
8653023 TATTATCTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 16 0.53
30 7 0.23
31 7 0.23
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.45
Consensus pattern (31 bp):
AAATTATAATAACTAGCTCTTAAAATTTTAA
Found at i:8653025 original size:31 final size:29
Alignment explanation
Indices: 8652972--8653037 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 29
8652962 TAATAACTAT
8652972 CTCTTAAATTTTAAAATAATTATTATTAG
1 CTCTTAAATTTTAAAATAATTATTATTAG
8653001 CTCTTAAAATTTT-AAA-AATTATTATTA-
1 CTCTT-AAATTTTAAAATAATTATTATTAG
8653028 -TCTTAAATTT
1 CTCTTAAATTT
8653038 ACCATAAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
25 6 0.17
26 4 0.11
28 11 0.31
29 8 0.22
30 7 0.19
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.50
Consensus pattern (29 bp):
CTCTTAAATTTTAAAATAATTATTATTAG
Found at i:8656273 original size:89 final size:89
Alignment explanation
Indices: 8656100--8656264 Score: 242
Period size: 89 Copynumber: 1.9 Consensus size: 89
8656090 TTCAGATATT
* * * * * *
8656100 GATATATTAGTTATTCTAGAGCTTTCAACTAGTCTTGTATAACCAAATATTGCAATAATATTGGT
1 GATATATTAGTCATTCTAGAGCTTTCAACTAGTCTTGTACAACCAAATATCGCAATAACACTAGT
*
8656165 TTGTTTCAATACCACAACAGGTAC
66 TTGCTTCAATACCACAACAGGTAC
*
8656189 GATATATTAGCTCA-TCTAGAGCTTTCAACTAGTTTTGTACAACCAAATATCGCAATAACACTAG
1 GATATATTAG-TCATTCTAGAGCTTTCAACTAGTCTTGTACAACCAAATATCGCAATAACACTAG
8656253 TTTGCTTCAATA
65 TTTGCTTCAATA
8656265 TTTCAACAGA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
89 65 0.97
90 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.36
Consensus pattern (89 bp):
GATATATTAGTCATTCTAGAGCTTTCAACTAGTCTTGTACAACCAAATATCGCAATAACACTAGT
TTGCTTCAATACCACAACAGGTAC
Found at i:8659455 original size:44 final size:45
Alignment explanation
Indices: 8659379--8659474 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 45
8659369 GACTTGTATC
**
8659379 TTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTACTTTT
1 TTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTACTTTT
* * *
8659424 TTCGATCTACTTCA-CACCAATACATGAAGACAAGATTTGCTTTT
1 TTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTACTTTT
*
8659468 TCCGATC
1 TTCGATC
8659475 GATTCCACTG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
44 31 0.69
45 14 0.31
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (45 bp):
TTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTACTTTT
Found at i:8659768 original size:45 final size:45
Alignment explanation
Indices: 8659719--8659881 Score: 157
Period size: 45 Copynumber: 3.6 Consensus size: 45
8659709 TACATGAAAA
* * * *
8659719 CAAGATCTGTTTTCTTTGATCTGCTTCACCACCAGTATGGGAAGG
1 CAAGATCTGGTATCTCTGATCTACTTCACCACCAGTATGGGAAGG
* * *** *
8659764 CAAGATCTGGTATCTCTGATATACTTCA-CGCCAGTACCTGAAGA
1 CAAGATCTGGTATCTCTGATCTACTTCACCACCAGTATGGGAAGG
* * * * * * * *
8659808 CAAGATATGCTTTCTTTAATCTGCTTCGCCACCATTATGGGAAGG
1 CAAGATCTGGTATCTCTGATCTACTTCACCACCAGTATGGGAAGG
8659853 CAAGATCTGGTATCTCTGATCTACTTCAC
1 CAAGATCTGGTATCTCTGATCTACTTCAC
8659882 GCCAATACAT
Statistics
Matches: 86, Mismatches: 31, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
44 31 0.36
45 55 0.64
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (45 bp):
CAAGATCTGGTATCTCTGATCTACTTCACCACCAGTATGGGAAGG
Found at i:8659795 original size:89 final size:89
Alignment explanation
Indices: 8659702--8659913 Score: 334
Period size: 89 Copynumber: 2.4 Consensus size: 89
8659692 GATCTGTTTT
* * *
8659702 ACGCCAGTACATGAAAACAAGATCTGTTTTCTTTGATCTGCTTCACCACCAGTATGGGAAGGCAA
1 ACGCCAGTACATGAAGACAAGATATGTTTTCTTTAATCTGCTTCACCACCAGTATGGGAAGGCAA
8659767 GATCTGGTATCTCTGATATACTTC
66 GATCTGGTATCTCTGATATACTTC
* * * *
8659791 ACGCCAGTACCTGAAGACAAGATATGCTTTCTTTAATCTGCTTCGCCACCATTATGGGAAGGCAA
1 ACGCCAGTACATGAAGACAAGATATGTTTTCTTTAATCTGCTTCACCACCAGTATGGGAAGGCAA
*
8659856 GATCTGGTATCTCTGATCTACTTC
66 GATCTGGTATCTCTGATATACTTC
* *
8659880 ACGCCAATACATGAAGACAAGATATGTTATCTTT
1 ACGCCAGTACATGAAGACAAGATATGTTTTCTTT
8659914 CAACCTACTT
Statistics
Matches: 111, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 111 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (89 bp):
ACGCCAGTACATGAAGACAAGATATGTTTTCTTTAATCTGCTTCACCACCAGTATGGGAAGGCAA
GATCTGGTATCTCTGATATACTTC
Found at i:8659813 original size:44 final size:44
Alignment explanation
Indices: 8659647--8659911 Score: 163
Period size: 44 Copynumber: 6.0 Consensus size: 44
8659637 ATGTTGTATT
* * * ** *
8659647 TGATCTTCTTCACG-CTGATACATGAAGACAAGACCTACTATCTT
1 TGATCTACTTCACGCCAG-TACATGAAGACAAGATCTGGTATCTC
** * * * * *
8659691 TGATCTGTTTTACGCCAGTACATGAAAACAAGATCTGTTTTCTT
1 TGATCTACTTCACGCCAGTACATGAAGACAAGATCTGGTATCTC
* * *** *
8659735 TGATCTGCTTCACCACCAGTATGGGAAGGCAAGATCTGGTATCTC
1 TGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGGTATCTC
* * * * * *
8659780 TGATATACTTCACGCCAGTACCTGAAGACAAGATATGCTTTCTT
1 TGATCTACTTCACGCCAGTACATGAAGACAAGATCTGGTATCTC
* * * * * *** *
8659824 TAATCTGCTTCGCCACCATTATGGGAAGGCAAGATCTGGTATCTC
1 TGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGGTATCTC
* * *
8659869 TGATCTACTTCACGCCAATACATGAAGACAAGATATGTTATCT
1 TGATCTACTTCACGCCAGTACATGAAGACAAGATCTGGTATCT
8659912 TTCAACCTAC
Statistics
Matches: 162, Mismatches: 56, Indels: 6
0.72 0.25 0.03
Matches are distributed among these distances:
44 96 0.59
45 66 0.41
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
TGATCTACTTCACGCCAGTACATGAAGACAAGATCTGGTATCTC
Found at i:8671842 original size:3 final size:3
Alignment explanation
Indices: 8671834--8671877 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
8671824 ATATGTATAG
*
8671834 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
8671878 TTTAAAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8677561 original size:21 final size:24
Alignment explanation
Indices: 8677528--8677571 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
8677518 AAAAAATTGC
8677528 TAAAACAACTTCT-AAA-AAAAAT
1 TAAAACAACTTCTCAAAGAAAAAT
*
8677550 TAAAAGAA-TTCTCAAAGAAAAA
1 TAAAACAACTTCTCAAAGAAAAA
8677572 AATTCAACGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 10 0.53
23 5 0.26
ACGTcount: A:0.64, C:0.11, G:0.05, T:0.20
Consensus pattern (24 bp):
TAAAACAACTTCTCAAAGAAAAAT
Found at i:8678197 original size:95 final size:95
Alignment explanation
Indices: 8678048--8678238 Score: 373
Period size: 95 Copynumber: 2.0 Consensus size: 95
8678038 CTTGAGATGA
8678048 ACTTTAGTGGGATGTGATGTTGATTATAGTTATATTAAGTTAATTAAAGATTAAGTCTAATTAAT
1 ACTTTAGTGGGATGTGATGTTGATTATAGTTATATTAAGTTAATTAAAGATTAAGTCTAATTAAT
8678113 CATAATTTCGTTAATTAAATAAATTTAATT
66 CATAATTTCGTTAATTAAATAAATTTAATT
*
8678143 ACTTTAGTGGGATGTGATGTTGTTTATAGTTATATTAAGTTAATTAAAGATTAAGTCTAATTAAT
1 ACTTTAGTGGGATGTGATGTTGATTATAGTTATATTAAGTTAATTAAAGATTAAGTCTAATTAAT
8678208 CATAATTTCGTTAATTAAATAAATTTAATT
66 CATAATTTCGTTAATTAAATAAATTTAATT
8678238 A
1 A
8678239 AGATTAATTT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.38, C:0.04, G:0.14, T:0.45
Consensus pattern (95 bp):
ACTTTAGTGGGATGTGATGTTGATTATAGTTATATTAAGTTAATTAAAGATTAAGTCTAATTAAT
CATAATTTCGTTAATTAAATAAATTTAATT
Found at i:8678237 original size:14 final size:15
Alignment explanation
Indices: 8678218--8678250 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8678208 CATAATTTCG
8678218 TTAATTAA-ATAAAT
1 TTAATTAAGATAAAT
*
8678232 TTAATTAAGATTAAT
1 TTAATTAAGATAAAT
8678247 TTAA
1 TTAA
8678251 GTATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (15 bp):
TTAATTAAGATAAAT
Found at i:8682047 original size:36 final size:35
Alignment explanation
Indices: 8682007--8682082 Score: 107
Period size: 35 Copynumber: 2.1 Consensus size: 35
8681997 AATCCCTCCA
*
8682007 AAACACACCAAATGCTCACAAGAGCTAGTCTAACCG
1 AAACACACC-AATGCTCACAAGAGCTAGTCCAACCG
** *
8682043 AAACATGCCAATGCTCATAAGAGCTAGTCCAACCG
1 AAACACACCAATGCTCACAAGAGCTAGTCCAACCG
8682078 AAACA
1 AAACA
8682083 TGCCAAACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 29 0.81
36 7 0.19
ACGTcount: A:0.42, C:0.29, G:0.14, T:0.14
Consensus pattern (35 bp):
AAACACACCAATGCTCACAAGAGCTAGTCCAACCG
Found at i:8682056 original size:35 final size:35
Alignment explanation
Indices: 8682017--8682088 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
8682007 AAACACACCA
*
8682017 AATGCTCACAAGAGCTAGTCTAACCGAAACATGCC
1 AATGCTCACAAGAGCTAGTCCAACCGAAACATGCC
*
8682052 AATGCTCATAAGAGCTAGTCCAACCGAAACATGCC
1 AATGCTCACAAGAGCTAGTCCAACCGAAACATGCC
8682087 AA
1 AA
8682089 ACAAAGAGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.39, C:0.28, G:0.17, T:0.17
Consensus pattern (35 bp):
AATGCTCACAAGAGCTAGTCCAACCGAAACATGCC
Found at i:8690318 original size:15 final size:14
Alignment explanation
Indices: 8690272--8690324 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
8690262 ACTTTTGATT
8690272 AAACTTAATTAATC
1 AAACTTAATTAATC
* *
8690286 AAAATTAATTAATT
1 AAACTTAATTAATC
*
8690300 AAACTTTAATTAACC
1 AAAC-TTAATTAATC
8690315 AAACCTTAAT
1 AAA-CTTAAT
8690325 CTTAATTAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
14 15 0.47
15 16 0.50
16 1 0.03
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (14 bp):
AAACTTAATTAATC
Found at i:8692218 original size:5 final size:6
Alignment explanation
Indices: 8692201--8692257 Score: 60
Period size: 6 Copynumber: 9.3 Consensus size: 6
8692191 TCTCTCTCTC
* * * * *
8692201 TATTTT TATTTT TATTTT TATGTA CATATT TATTCT TATTTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TA-TTTT TATTTT
8692250 TATTTT TA
1 TATTTT TA
8692258 CCTTTTTTTC
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
6 36 0.88
7 5 0.12
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.74
Consensus pattern (6 bp):
TATTTT
Found at i:8693115 original size:30 final size:28
Alignment explanation
Indices: 8693062--8693121 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 28
8693052 TTAATTTCAA
* *
8693062 ATTTTGTTGTATATATGTACATACATAC
1 ATTTTGTTATATATATATACATACATAC
*
8693090 ATTTTGTTATATAAATATATACATACGTAC
1 ATTTTGTTATAT--ATATATACATACATAC
8693120 AT
1 AT
8693122 ATTTTTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 11 0.41
30 16 0.59
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (28 bp):
ATTTTGTTATATATATATACATACATAC
Found at i:8693145 original size:35 final size:36
Alignment explanation
Indices: 8693104--8693181 Score: 97
Period size: 35 Copynumber: 2.2 Consensus size: 36
8693094 TGTTATATAA
*
8693104 ATATATACATACGTACATATT-TTTAATTTA-TTTAT
1 ATATATACATACGTACATATTATTT-ATATACTTTAT
* **
8693139 ATATATACATACTTATGTATTATTTATATACTTTAT
1 ATATATACATACGTACATATTATTTATATACTTTAT
8693175 ATATATA
1 ATATATA
8693182 TGTGTGTTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 22 0.59
36 15 0.41
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (36 bp):
ATATATACATACGTACATATTATTTATATACTTTAT
Found at i:8693466 original size:15 final size:15
Alignment explanation
Indices: 8693446--8693479 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8693436 TTTATTTTTG
* *
8693446 TTATTTTTGCTCGTA
1 TTATTTTTACTCGCA
8693461 TTATTTTTACTCGCA
1 TTATTTTTACTCGCA
8693476 TTAT
1 TTAT
8693480 CATAATTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (15 bp):
TTATTTTTACTCGCA
Found at i:8697251 original size:12 final size:12
Alignment explanation
Indices: 8697225--8697257 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
8697215 TACTTCACTT
*
8697225 GAAAA-AAAAAC
1 GAAAAGAAAAAA
8697236 GAAAAGAAAAAA
1 GAAAAGAAAAAA
8697248 GAAAAGAAAA
1 GAAAAGAAAA
8697258 GAATAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (12 bp):
GAAAAGAAAAAA
Found at i:8697256 original size:17 final size:16
Alignment explanation
Indices: 8697225--8697274 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 16
8697215 TACTTCACTT
*
8697225 GAAAAAAAAACGAAAA
1 GAAAAAAAAAAGAAAA
8697241 GAAAAAAGAAAAGAAAA
1 GAAAAAA-AAAAGAAAA
*
8697258 GAATAACAAAAAGAAAA
1 GAA-AAAAAAAAGAAAA
8697275 AGGAGAGGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 7 0.23
17 20 0.67
18 3 0.10
ACGTcount: A:0.80, C:0.04, G:0.14, T:0.02
Consensus pattern (16 bp):
GAAAAAAAAAAGAAAA
Found at i:8698216 original size:50 final size:50
Alignment explanation
Indices: 8698162--8698701 Score: 279
Period size: 50 Copynumber: 10.8 Consensus size: 50
8698152 TTAAAACTAT
**
8698162 AACGGCGAATCTTGCTTCCCTGATATTGCAATTAAAAAGATTGAAGCCGC
1 AACGGCGAATCTTGCTTCCCTGATATTGCAATTAAAAAGATTGAAGCTAC
* * * * * * ** **
8698212 AACGGCGAATCTTACTTTCTTGGTGA-TACAGTGGATCAGATTGAAGCTAC
1 AACGGCGAATCTTGCTTCCCTGAT-ATTGCAATTAAAAAGATTGAAGCTAC
** * * * *
8698262 AATAGCGAATCTTG-TTCCCCGACATTGCAATTAAAGAGATTGAAGCCAC
1 AACGGCGAATCTTGCTTCCCTGATATTGCAATTAAAAAGATTGAAGCTAC
** ** * * * * * **
8698311 AACGATGAATCTCACTTCCCTTG-CAGTACAGTTCAGCAGATT-ATAGCTAC
1 AACGGCGAATCTTGCTTCCC-TGATATTGCAATTAAAAAGATTGA-AGCTAC
* * **
8698361 GACGGTGAATCTTGCTTCCCTGATATTGCAATTAAAAAGATTGAAGCCGC
1 AACGGCGAATCTTGCTTCCCTGATATTGCAATTAAAAAGATTGAAGCTAC
* * * * ** * ** ** *
8698411 AACGGCTAATCTTACTTTCTTGGCGA-TGCAGTGGATCAGATTGAAGCAAC
1 AACGGCGAATCTTGCTTCCCT-GATATTGCAATTAAAAAGATTGAAGCTAC
* * ** * *
8698461 AACAGCGAATCTT-ATT-CCTCGGCATTGCAATTAAAGAGATTGAAGCCAC
1 AACGGCGAATCTTGCTTCCCT-GATATTGCAATTAAAAAGATTGAAGCTAC
** * * * * * ** * *
8698510 AACGGCGAATCTCACTTCTCT-AGGAGTAC-AGTAGAGCAGATTAAAGATAC
1 AACGGCGAATCTTGCTTCCCTGA-TATTGCAATTA-AAAAGATTGAAGCTAC
* * * *
8698560 GACGGTGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTAAAGCTAC
1 AACGGCGAATCTTGCTTCCCTGATATTGCAATTAAAAAGATTGAAGCTAC
* * * * *
8698610 GACGGCAAATCTTGCTTCCTTGATATTGCAATTTAAAAGATTAAAGCTAC
1 AACGGCGAATCTTGCTTCCCTGATATTGCAATTAAAAAGATTGAAGCTAC
* * * *
8698660 GACGGCGAATCTTGCTTCCCTGACATTACAATTTAAAAGATT
1 AACGGCGAATCTTGCTTCCCTGATATTGCAATTAAAAAGATT
8698702 CAAGATGGCA
Statistics
Matches: 359, Mismatches: 116, Indels: 30
0.71 0.23 0.06
Matches are distributed among these distances:
48 5 0.01
49 66 0.18
50 278 0.77
51 10 0.03
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (50 bp):
AACGGCGAATCTTGCTTCCCTGATATTGCAATTAAAAAGATTGAAGCTAC
Found at i:8698314 original size:99 final size:99
Alignment explanation
Indices: 8698131--8698701 Score: 493
Period size: 100 Copynumber: 5.7 Consensus size: 99
8698121 GTTAACTTCC
* * * * * *
8698131 CTTGTAGTACAGTGTAGCAGATTAAAACTATAACGGCGAATCTTGCTTCCCTGATATTGCAATTA
1 CTTGGAGTACAGTGGAGCAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGATATTGCAATTA
*
8698196 AAAAGATTGAAGCCGCAACGGCGAATCTTACTTT
66 AAAAGATTGAAGCCACAACGGCGAATCTTACTTT
* * * * *
8698230 CTTGGTGATACAGTGGATCAGATTGAAGCTACAATAGCGAATCTTG-TTCCCCGACATTGCAATT
1 CTTGGAG-TACAGTGGAGCAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGATATTGCAATT
* ** * *
8698294 AAAGAGATTGAAGCCACAACGATGAATCTCACTTCC
65 AAAAAGATTGAAGCCACAACGGCGAATCTTACTT-T
* ** * * *
8698330 CTTGCAGTACAGTTCAGCAGATT-ATAGCTACGACGGTGAATCTTGCTTCCCTGATATTGCAATT
1 CTTGGAGTACAGTGGAGCAGATTGA-AGCTACAACAGCGAATCTTGCTTCCCTGATATTGCAATT
* *
8698394 AAAAAGATTGAAGCCGCAACGGCTAATCTTACTTT
65 AAAAAGATTGAAGCCACAACGGCGAATCTTACTTT
* * * * * **
8698429 CTTGGCGATGCAGTGGATCAGATTGAAGCAACAACAGCGAATCTT-ATT-CCTCGGCATTGCAAT
1 CTTGGAG-TACAGTGGAGCAGATTGAAGCTACAACAGCGAATCTTGCTTCCCT-GATATTGCAAT
* *
8698492 TAAAGAGATTGAAGCCACAACGGCGAATCTCACTTCT
64 TAAAAAGATTGAAGCCACAACGGCGAATCTTACTT-T
* * * * * * * *
8698529 CTAGGAGTACAGTAGAGCAGATTAAAGATACGACGGTGAATCTTGCTTCCCTGATATTGCAATTT
1 CTTGGAGTACAGTGGAGCAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGATATTGCAATTA
* * * * * *
8698594 AAAAGATTAAAGCTACGACGGCAAATCTTGCTTC
66 AAAAGATTGAAGCCACAACGGCGAATCTTACTTT
* * * * ** ** * * * * *
8698628 CTTGATATTGCAATTTAAAAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTACAATT
1 CTTG-GAGTACAGTGGAGCAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGATATTGCAATT
*
8698693 TAAAAGATT
65 AAAAAGATT
8698702 CAAGATGGCA
Statistics
Matches: 373, Mismatches: 88, Indels: 21
0.77 0.18 0.04
Matches are distributed among these distances:
98 4 0.01
99 157 0.42
100 208 0.56
101 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (99 bp):
CTTGGAGTACAGTGGAGCAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGATATTGCAATTA
AAAAGATTGAAGCCACAACGGCGAATCTTACTTT
Found at i:8698470 original size:199 final size:198
Alignment explanation
Indices: 8698125--8698606 Score: 730
Period size: 199 Copynumber: 2.4 Consensus size: 198
8698115 AATGAAGTTA
* * ** *
8698125 ACTTCCCTTGTAGTACAGTGTAGCAGATTAAAACTATAACGGCGAATCTTGCTTCCCTGATATTG
1 ACTTCCCTTGCAGTACAGT-TAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGATATTG
*
8698190 CAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCTTGGTGATACAGTGGATCAGATTG
65 CAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCTTGGCGATACAGTGGATCAGATTG
* * * *
8698255 AAGCTACAATAGCGAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGATGAA
130 AAGCAACAACAGCGAATCTTATTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGACGAA
8698320 TCTC
195 TCTC
*
8698324 ACTTCCCTTGCAGTACAGTTCAGCAGATTATAGCTACGACGGTGAATCTTGCTTCCCTGATATTG
1 ACTTCCCTTGCAGTACAGTT-AGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGATATTG
* *
8698389 CAATTAAAAAGATTGAAGCCGCAACGGCTAATCTTACTTTCTTGGCGATGCAGTGGATCAGATTG
65 CAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCTTGGCGATACAGTGGATCAGATTG
* * *
8698454 AAGCAACAACAGCGAATCTTATTCCTCGGCATTGCAATTAAAGAGATTGAAGCCACAACGGCGAA
130 AAGCAACAACAGCGAATCTTATTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGACGAA
8698519 TCTC
195 TCTC
* * * * *
8698523 ACTTCTCTAGGAGTACAGTAGAGCAGATTAAAGATACGACGGTGAATCTTGCTTCCCTGATATTG
1 ACTTCCCTTGCAGTACAGT-TAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGATATTG
* *
8698588 CAATTTAAAAGATTAAAGC
65 CAATTAAAAAGATTGAAGC
8698607 TACGACGGCA
Statistics
Matches: 257, Mismatches: 24, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
198 1 0.00
199 256 1.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (198 bp):
ACTTCCCTTGCAGTACAGTTAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGATATTGC
AATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCTTGGCGATACAGTGGATCAGATTGA
AGCAACAACAGCGAATCTTATTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAACGACGAAT
CTC
Found at i:8698940 original size:132 final size:132
Alignment explanation
Indices: 8698703--8699756 Score: 1655
Period size: 132 Copynumber: 8.0 Consensus size: 132
8698693 TAAAAGATTC
* * *
8698703 AAGATGGCAGATTTTACCTCCTTGTAG-TTACAGTGAAGTACATTGAAGCCAGTAGTTCTATCTC
1 AAGATGGCGGATTTTACCTCCCTG-AGATTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTC
* *
8698767 CCTGGGCAACAGTTGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
65 CCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
8698832 TCG
130 TCG
* *
8698835 AAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCTGTAGTTCTATCTCC
1 AAGATGGCGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCC
* *
8698900 ATGGGCAGCAGTGGAATAGATTGAATATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
66 CTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
8698965 CG
131 CG
* * *
8698967 AAGATGACAGATTTTACCTCCCTGAGATTACGGTGGAGTACATTGAAGCCAGTAGTTCTATCTCC
1 AAGATGGCGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCC
* ** *
8699032 CTGGGTAGCAAAGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGT
66 CTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
8699097 CG
131 CG
**
8699099 AAGATGGCGGATTTTACCTCCCTGAGATTATGGTGGAGTACATTGAAGCCAGTAGTTCTATCTCC
1 AAGATGGCGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCC
8699164 CTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
66 CTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
8699229 CG
131 CG
* * *
8699231 AATATGGCGGATTTTACTTCCCTGAGATTACGGTGGAGTACATTGAAGCCAGTAGTTCTATCTCC
1 AAGATGGCGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCC
* *
8699296 CTGGGCAGCAGAGGAATAGATTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
66 CTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
8699361 CG
131 CG
* **
8699363 AAGATGGCGGATTTTACCTCCTTGAGATTATGGTGGAGTACATTGAAGCCAGTAGTTCTATCTCC
1 AAGATGGCGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCC
* * * *
8699428 CTAGGTAGCAGAGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGAT
66 CTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
8699493 CG
131 CG
* * **
8699495 AAGATGGCGGATTTTACCTTCTTGAGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCC
1 AAGATGGCGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCC
* * *
8699560 CTGGGTAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGT
66 CTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
8699625 CG
131 CG
* *
8699627 AAGATGGCGGATTTTACCTCCCTGAAATTACAGTGGAGTACATTGAAGCC-GATAGTTTTATCTC
1 AAGATGGCGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAG-TAGTTCTATCTC
* ** * * *
8699691 CCTGGGCAGCAATGGAATAGATTG-AGAACCACTGATCTTATCTCCCTAAGCAGTAGTTGAGTAG
65 CCTGGGCAGCAGTGGAATAGATTGAAG-ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
8699755 AT
129 AT
8699757 TGCCTCAAGT
Statistics
Matches: 859, Mismatches: 60, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
131 5 0.01
132 854 0.99
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (132 bp):
AAGATGGCGGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCC
CTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
CG
Found at i:8699939 original size:40 final size:40
Alignment explanation
Indices: 8699726--8699964 Score: 171
Period size: 40 Copynumber: 5.8 Consensus size: 40
8699716 GAACCACTGA
* * * ** *
8699726 TCTTATCTCCCTAAGCAGTAGTTGAGTAGATTGCCTCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCCAG
* *
8699766 TTTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACCACAGG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAATC-CA-G
* *
8699808 TCTTATCTCCTTAAGCAGTAGTGGAGCAGA-CAGAAGAAAT-CAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----G-AATCCAG
* ** * * * *
8699851 TCCTATC-CCTCTGAAGTTGCAGTGGAGCGGATTAGAACCACAG
1 TCTTATCTCC-CT-AAGCAGTAGTGGAGCAGA-TCGAATC-CAG
*
8699894 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCCAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCCAG
8699935 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
8699965 CAGAAGAAAT
Statistics
Matches: 155, Mismatches: 29, Indels: 30
0.72 0.14 0.14
Matches are distributed among these distances:
40 59 0.38
41 6 0.04
42 37 0.24
43 23 0.15
44 24 0.15
45 4 0.03
46 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCCAG
Found at i:8699968 original size:127 final size:130
Alignment explanation
Indices: 8699768--8700025 Score: 407
Period size: 127 Copynumber: 2.0 Consensus size: 130
8699758 GCCTCAAGTT
*
8699768 TTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGGTCTTATCTCCTTAAGCAGTAGTGGA
1 TTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGGTCTTATCTCCCTAAGCAGTAGTGGA
* * * *
8699833 GCAGACAGAAGAAATCAATCCTATCCCTCTGAAGTTGCAGTGGAGCGGATT-AGAACCACAGATC
66 GCAGACAGAAGAAATAAATCCTATCCCTCTGAAGTTACAGTGGAGCGGATTAAAAACCACAAATC
* *
8699897 TTATCTCCCTAAGCAGTAGTGGAGCAGATC-GCATC-CA-GTCTTATCTCCCTAAGCAGTAGTGG
1 TTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACCACAGGTCTTATCTCCCTAAGCAGTAGTGG
*
8699959 AGCAGACAGAAGAAATAAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAAACCACAAAT
65 AGCAGACAGAAGAAATAAATCCTATCCCTCTGAAGTTACAGTGGAGCGGATTAAAAACCACAAAT
8700024 C
130 C
8700025 T
1 T
8700026 CATCCCCATA
Statistics
Matches: 119, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
127 73 0.61
128 14 0.12
129 31 0.26
130 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.23
Consensus pattern (130 bp):
TTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACAGGTCTTATCTCCCTAAGCAGTAGTGGA
GCAGACAGAAGAAATAAATCCTATCCCTCTGAAGTTACAGTGGAGCGGATTAAAAACCACAAATC
Found at i:8700835 original size:7 final size:6
Alignment explanation
Indices: 8700772--8700836 Score: 67
Period size: 6 Copynumber: 10.5 Consensus size: 6
8700762 CTTCTCTCTC
* ** * *
8700772 TTTATT TTTATT TTTATT TTTATG TACATA TTTATT CTTATTT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-TT TTTATT
8700821 TTTATT TTTACTT TTT
1 TTTATT TTTA-TT TTT
8700837 TTTCTCCGTG
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
6 38 0.79
7 10 0.21
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:8701689 original size:30 final size:28
Alignment explanation
Indices: 8701636--8701695 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 28
8701626 TTAATTTCAA
* *
8701636 ATTTTGTTGTATATATGTACATACATAC
1 ATTTTGTTATATATATATACATACATAC
*
8701664 ATTTTGTTATATAAATATATACATACGTAC
1 ATTTTGTTATAT--ATATATACATACATAC
8701694 AT
1 AT
8701696 ATTTTTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 11 0.41
30 16 0.59
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (28 bp):
ATTTTGTTATATATATATACATACATAC
Found at i:8701719 original size:35 final size:36
Alignment explanation
Indices: 8701678--8701755 Score: 97
Period size: 35 Copynumber: 2.2 Consensus size: 36
8701668 TGTTATATAA
*
8701678 ATATATACATACGTACATATT-TTTAATTTA-TTTAT
1 ATATATACATACGTACATATTATTT-ATATACTTTAT
* **
8701713 ATATATACATACTTATGTATTATTTATATACTTTAT
1 ATATATACATACGTACATATTATTTATATACTTTAT
8701749 ATATATA
1 ATATATA
8701756 TGTGTGTTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 22 0.59
36 15 0.41
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (36 bp):
ATATATACATACGTACATATTATTTATATACTTTAT
Found at i:8707225 original size:66 final size:66
Alignment explanation
Indices: 8707154--8707289 Score: 263
Period size: 66 Copynumber: 2.1 Consensus size: 66
8707144 TTAAAAACAA
8707154 GTATGAACATAGAATAGAATTTTATATTTACGAATGTCCGGTGCGTTTGACTATTTCTTTTCGTT
1 GTATGAACATAGAATAGAATTTTATATTTACGAATGTCCGGTGCGTTTGACTATTTCTTTTCGTT
8707219 G
66 G
*
8707220 GTATGAACATAGAATAGAGTTTTATATTTACGAATGTCCGGTGCGTTTGACTATTTCTTTTCGTT
1 GTATGAACATAGAATAGAATTTTATATTTACGAATGTCCGGTGCGTTTGACTATTTCTTTTCGTT
8707285 G
66 G
8707286 GTAT
1 GTAT
8707290 AACGGTGCCT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.43
Consensus pattern (66 bp):
GTATGAACATAGAATAGAATTTTATATTTACGAATGTCCGGTGCGTTTGACTATTTCTTTTCGTT
G
Found at i:8707770 original size:12 final size:12
Alignment explanation
Indices: 8707753--8707786 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
8707743 CGTTAGTAAA
8707753 ATAAAACCAAAT
1 ATAAAACCAAAT
*
8707765 ATAAAAACAAAT
1 ATAAAACCAAAT
*
8707777 AAAAAACCAA
1 ATAAAACCAA
8707787 TAGCAGTCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.74, C:0.15, G:0.00, T:0.12
Consensus pattern (12 bp):
ATAAAACCAAAT
Found at i:8716790 original size:18 final size:17
Alignment explanation
Indices: 8716767--8716800 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8716757 TTTTAGTGAC
8716767 TAAATAAATAAAAAAATA
1 TAAATAAA-AAAAAAATA
*
8716785 TAAATAGAAAAAAAAT
1 TAAATAAAAAAAAAAT
8716801 TTGGAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
TAAATAAAAAAAAAATA
Found at i:8725971 original size:51 final size:51
Alignment explanation
Indices: 8725888--8725994 Score: 144
Period size: 51 Copynumber: 2.1 Consensus size: 51
8725878 ATAGGACCGA
*
8725888 TGTCGTGACATCGGAGGCAATATTGTCATACTCAAGGTAGCTTCAAGGGTG
1 TGTCGTGACATCAGAGGCAATATTGTCATACTCAAGGTAGCTTCAAGGGTG
* * * * *
8725939 TGTCGTGACATTAGAGGCAATA-TGCTCGTACTCAATGTAGCTTTAGGGGTG
1 TGTCGTGACATCAGAGGCAATATTG-TCATACTCAAGGTAGCTTCAAGGGTG
8725990 TGTCG
1 TGTCG
8725995 CAACATCTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
50 2 0.04
51 47 0.96
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (51 bp):
TGTCGTGACATCAGAGGCAATATTGTCATACTCAAGGTAGCTTCAAGGGTG
Found at i:8728199 original size:20 final size:20
Alignment explanation
Indices: 8728160--8728201 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8728150 TAAAAGTCCT
*
8728160 AAAAATTTTAAAAATGTAAA
1 AAAAATTTAAAAAATGTAAA
8728180 AAAAATTATAAAAAAT-TAAA
1 AAAAATT-TAAAAAATGTAAA
8728200 AA
1 AA
8728202 TGTAAATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAAATTTAAAAAATGTAAA
Found at i:8730444 original size:10 final size:9
Alignment explanation
Indices: 8730428--8730457 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
8730418 TGCTAATAAT
*
8730428 AATAAAAGA
1 AATAAAAAA
8730437 AATAAAAAA
1 AATAAAAAA
8730446 AATAAAAAA
1 AATAAAAAA
8730455 AAT
1 AAT
8730458 CATAAGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (9 bp):
AATAAAAAA
Found at i:8731968 original size:18 final size:18
Alignment explanation
Indices: 8731945--8731979 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8731935 CAAGAATAGT
8731945 AAGCATCAAAATAGTTTC
1 AAGCATCAAAATAGTTTC
*
8731963 AAGCATGAAAATAGTTT
1 AAGCATCAAAATAGTTT
8731980 AGCACATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (18 bp):
AAGCATCAAAATAGTTTC
Found at i:8741487 original size:30 final size:30
Alignment explanation
Indices: 8741451--8741522 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
8741441 ACACGGCCTG
*
8741451 GCCACACAGCCGTGTGGCGCACATGACCTA
1 GCCACACAGCCATGTGGCGCACATGACCTA
* * *
8741481 GCCACACGGCCATGTGGCTCACATGGCCTA
1 GCCACACAGCCATGTGGCGCACATGACCTA
*
8741511 G-CACATAGCCAT
1 GCCACACAGCCAT
8741523 ATTTTTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 9 0.25
30 27 0.75
ACGTcount: A:0.24, C:0.36, G:0.25, T:0.15
Consensus pattern (30 bp):
GCCACACAGCCATGTGGCGCACATGACCTA
Found at i:8741615 original size:6 final size:6
Alignment explanation
Indices: 8741606--8741635 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
8741596 GTTTTATATT
8741606 TTTTTG TTTTTG TTTTTG TTTTTGG TTTTT
1 TTTTTG TTTTTG TTTTTG TTTTT-G TTTTT
8741636 TTATTATGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (6 bp):
TTTTTG
Found at i:8744640 original size:12 final size:12
Alignment explanation
Indices: 8744620--8744653 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
8744610 TTCTACATTG
8744620 GTTGTTGTTGCT
1 GTTGTTGTTGCT
*
8744632 GTTGCTGTTGCT
1 GTTGTTGTTGCT
8744644 GTTGTTGTTG
1 GTTGTTGTTG
8744654 TTGGTTCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.09, G:0.35, T:0.56
Consensus pattern (12 bp):
GTTGTTGTTGCT
Found at i:8744656 original size:6 final size:6
Alignment explanation
Indices: 8744620--8744653 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
8744610 TTCTACATTG
* *
8744620 GTTGTT GTTGCT GTTGCT GTTGCT GTTGTT GTTG
1 GTTGCT GTTGCT GTTGCT GTTGCT GTTGCT GTTG
8744654 TTGGTTCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.09, G:0.35, T:0.56
Consensus pattern (6 bp):
GTTGCT
Found at i:8748196 original size:12 final size:12
Alignment explanation
Indices: 8748179--8748205 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8748169 TTACATGCCC
8748179 TGTGCTAGGCCG
1 TGTGCTAGGCCG
8748191 TGTGCTAGGCCG
1 TGTGCTAGGCCG
8748203 TGT
1 TGT
8748206 AACTGATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.22, G:0.41, T:0.30
Consensus pattern (12 bp):
TGTGCTAGGCCG
Found at i:8753779 original size:24 final size:24
Alignment explanation
Indices: 8753731--8753777 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
8753721 ATTGGTCATA
* *
8753731 GAGAGATTTGAGGAGGGATATTTG
1 GAGAGATTTGAGGAAGAATATTTG
8753755 GAGAGATTTGAGGATAGAATATT
1 GAGAGATTTGAGGA-AGAATATT
8753778 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.30
Consensus pattern (24 bp):
GAGAGATTTGAGGAAGAATATTTG
Found at i:8754472 original size:27 final size:27
Alignment explanation
Indices: 8754429--8755273 Score: 892
Period size: 27 Copynumber: 31.4 Consensus size: 27
8754419 CCCCAAAAGA
* *
8754429 GGTAAAATGACCAAAATACCTCCAT-G
1 GGTAAAATGACCGAAATACCCCCATAG
8754455 GAGTAAAATGACCGAAATACCCCCATAG
1 G-GTAAAATGACCGAAATACCCCCATAG
* *
8754483 GGTAAAATGACCAAAATACCTCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* ** *
8754510 GGTAAAATGACTGAAATACCTGCATAT
1 GGTAAAATGACCGAAATACCCCCATAG
* **
8754537 GATAAAATGACCGAAATACCTGCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
** **
8754564 AATAAAATGACCGAAATACCATCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
8754591 GGTAAAATGACCG-AATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
8754617 GGTAAAATGACCGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
** *
8754644 GGTAAAATGACTAAAATACCCCAATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
8754671 GGTAAAATGACC-AAATTACCTCAATAA
1 GGTAAAATGACCGAAA-TACCCCCATAG
*
8754698 GGTAGAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
8754725 GGTAAAATGACCGAAATA-CTCGATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
8754751 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
8754778 GGTAGAATGACCGAAATACCCCAATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* **
8754805 GGTAACATGACCGAAATAGTCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* **
8754832 GGTAAAATGACTGAAATACCCTTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
8754859 GGTAAAATGACTGAAATACCCCTATAA
1 GGTAAAATGACCGAAATACCCCCATAG
* *
8754886 GGTAAAATAACCGAAATACCCCCATTG
1 GGTAAAATGACCGAAATACCCCCATAG
* * * *
8754913 GGTAGAATGATCGAAA-AACCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
8754939 GGTAGAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
** *
8754966 GGTAAAATGACAAAAATACCCCCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
* *
8754993 GGTAAAATGACCAAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
8755020 GGTAAAATGACCGAAATACGCCCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
* * ** * *
8755047 GATAGAATGGTCAAAATACCCCCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
* * * * * *
8755074 GGTAGAATAATCAAAATACTCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
8755101 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
** * *
8755128 GGTAAAATGACTAAAATACCCCTATAA
1 GGTAAAATGACCGAAATACCCCCATAG
* *
8755155 GGTATAATAACCGAAATACCCCCAT-G
1 GGTAAAATGACCGAAATACCCCCATAG
** *
8755181 GGATAAAATGATTGAAATACCCCTATAG
1 GG-TAAAATGACCGAAATACCCCCATAG
* *
8755209 GGTAGAATGACCGGAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
** * ** *
8755236 GGTAAAATGATAGAAATATCCTTATAA
1 GGTAAAATGACCGAAATACCCCCATAG
8755263 GGTAAAATGAC
1 GGTAAAATGAC
8755274 TATTATACCC
Statistics
Matches: 686, Mismatches: 124, Indels: 17
0.83 0.15 0.02
Matches are distributed among these distances:
26 76 0.11
27 602 0.88
28 8 0.01
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAG
Found at i:8758443 original size:70 final size:70
Alignment explanation
Indices: 8758330--8758471 Score: 221
Period size: 70 Copynumber: 2.0 Consensus size: 70
8758320 GCTAATACAA
* * * **
8758330 TGTTTACAATAACAAGTGAGCTTAAATAAGCTAATAGTAATAATAAAATAATTACAACTTGGCTT
1 TGTTTACAAGAACAAGTGAGCATAAATAAGCTAAAAACAATAATAAAATAATTACAACTTGGCTT
8758395 AATCT
66 AATCT
* *
8758400 TGTTTACAAGAACAAGTTAGCATAAATAAGCTAAAAACAATAATAAAATAATTACAATTTGGCTT
1 TGTTTACAAGAACAAGTGAGCATAAATAAGCTAAAAACAATAATAAAATAATTACAACTTGGCTT
8758465 AATCT
66 AATCT
8758470 TG
1 TG
8758472 CAACTTGATT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (70 bp):
TGTTTACAAGAACAAGTGAGCATAAATAAGCTAAAAACAATAATAAAATAATTACAACTTGGCTT
AATCT
Found at i:8758682 original size:17 final size:17
Alignment explanation
Indices: 8758660--8758758 Score: 103
Period size: 17 Copynumber: 5.8 Consensus size: 17
8758650 CGTCACAAGT
* *
8758660 TTGGTGAGCTTGCAGTC
1 TTGGTGAGCTCGTAGTC
8758677 TTGGTGAGCTCGTAGTC
1 TTGGTGAGCTCGTAGTC
8758694 TTGGTGAGCTCGTAGTC
1 TTGGTGAGCTCGTAGTC
* **
8758711 TTGATGAGCTTATAGAT-
1 TTGGTGAGCTCGTAG-TC
*
8758728 TTGGCGAGCTCGTAGT-
1 TTGGTGAGCTCGTAGTC
*
8758744 TTTGTAGAGCTCGTA
1 TTGGT-GAGCTCGTA
8758759 CATTTAGTGA
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
16 4 0.06
17 64 0.93
18 1 0.01
ACGTcount: A:0.16, C:0.15, G:0.32, T:0.36
Consensus pattern (17 bp):
TTGGTGAGCTCGTAGTC
Found at i:8764427 original size:26 final size:26
Alignment explanation
Indices: 8764385--8764443 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 26
8764375 ACTTATGAAC
8764385 TTTTTAATATTTGTTTAATTTTAAAA
1 TTTTTAATATTTGTTTAATTTTAAAA
*
8764411 TTTTTGAATATTT-TTTAATTTTCAAA
1 TTTTT-AATATTTGTTTAATTTTAAAA
8764437 TTATTTA
1 TT-TTTA
8764444 TTGACGTTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (26 bp):
TTTTTAATATTTGTTTAATTTTAAAA
Found at i:8764703 original size:23 final size:22
Alignment explanation
Indices: 8764677--8764733 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 22
8764667 CCATTATACC
8764677 AAAACAATAATAATGAGAAAAGA
1 AAAACAATAATAATGA-AAAAGA
*
8764700 AAAACAATAATAA-CAAAAAGA
1 AAAACAATAATAATGAAAAAGA
8764721 AAAA-AA-AATAATG
1 AAAACAATAATAATG
8764734 GGAGGATCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 5 0.16
20 2 0.06
21 10 0.32
22 1 0.03
23 13 0.42
ACGTcount: A:0.74, C:0.05, G:0.09, T:0.12
Consensus pattern (22 bp):
AAAACAATAATAATGAAAAAGA
Found at i:8764886 original size:6 final size:6
Alignment explanation
Indices: 8764877--8764911 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
8764867 TTCATTTGTC
8764877 TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT TCTCT
1 TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT TCTCT
8764912 AATGCTGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (6 bp):
TCTCTT
Found at i:8769593 original size:21 final size:21
Alignment explanation
Indices: 8769504--8769619 Score: 148
Period size: 21 Copynumber: 5.5 Consensus size: 21
8769494 TGAACATGCC
8769504 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
*
8769525 AACAGGAA-CTTGTAAGAGCTG
1 AACA-GAAGCTCGTAAGAGCTG
* *
8769546 AACAGGAA-CTTGTAAGAGTTG
1 AACA-GAAGCTCGTAAGAGCTG
8769567 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
*
8769588 AACAGAAGCTC-AATAGAGCTG
1 AACAGAAGCTCGTA-AGAGCTG
8769609 AACAGAAGCTC
1 AACAGAAGCTC
8769620 AAAAGAGTTG
Statistics
Matches: 87, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
20 4 0.05
21 80 0.92
22 3 0.03
ACGTcount: A:0.40, C:0.17, G:0.27, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:8769620 original size:21 final size:21
Alignment explanation
Indices: 8769560--8769626 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
8769550 GGAACTTGTA
* *
8769560 AGAGTTGAACAGAAGCTC-GT
1 AGAGCTGAACAGAAGCTCAAT
8769580 AAGAGCTGAACAGAAGCTCAAT
1 -AGAGCTGAACAGAAGCTCAAT
*
8769602 AGAGCTGAACAGAAGCTCAAA
1 AGAGCTGAACAGAAGCTCAAT
8769623 AGAG
1 AGAG
8769627 TTGATCCACC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
21 41 0.98
22 1 0.02
ACGTcount: A:0.43, C:0.16, G:0.27, T:0.13
Consensus pattern (21 bp):
AGAGCTGAACAGAAGCTCAAT
Done.