Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 144 of 190
Found at i:23420042 original size:18 final size:18
Alignment explanation
Indices: 23420014--23420053 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
23420004 ATTTGAAGTG
23420014 AAAAATAAAATAAT-ATT
1 AAAAATAAAATAATGATT
*
23420031 AAAAATATAAATTATGATT
1 AAAAATA-AAATAATGATT
23420050 AAAA
1 AAAA
23420054 TTTTGTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 6 0.30
19 7 0.35
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (18 bp):
AAAAATAAAATAATGATT
Found at i:23425139 original size:42 final size:42
Alignment explanation
Indices: 23425080--23425171 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
23425070 GTGTGATAGA
*
23425080 CGATAAAGCATCGCTTTCTTCATGCAACACTCAATCAAAATT
1 CGATAAAGCATCCCTTTCTTCATGCAACACTCAATCAAAATT
23425122 CGATAAAGCATCCCTTTCTTCATGCAACACTCAATCAAAATT
1 CGATAAAGCATCCCTTTCTTCATGCAACACTCAATCAAAATT
*
23425164 CCATAAAG
1 CGATAAAG
23425172 ACTAAAATCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.37, C:0.27, G:0.09, T:0.27
Consensus pattern (42 bp):
CGATAAAGCATCCCTTTCTTCATGCAACACTCAATCAAAATT
Found at i:23429129 original size:23 final size:24
Alignment explanation
Indices: 23429086--23429130 Score: 67
Period size: 22 Copynumber: 1.9 Consensus size: 24
23429076 GAATAAAATA
23429086 AAAAATAAAGAAATAGTGGTAAGT
1 AAAAATAAAGAAATAGTGGTAAGT
23429110 AAAAAT-AA-AAATAGTAGGTAA
1 AAAAATAAAGAAATAGT-GGTAA
23429131 AAAGTTAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 7 0.35
24 6 0.30
ACGTcount: A:0.62, C:0.00, G:0.18, T:0.20
Consensus pattern (24 bp):
AAAAATAAAGAAATAGTGGTAAGT
Found at i:23429366 original size:13 final size:13
Alignment explanation
Indices: 23429348--23429388 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
23429338 TACCTAAAGT
*
23429348 ATAATAATAATAA
1 ATAATAATAAAAA
23429361 ATAATAATAAAAA
1 ATAATAATAAAAA
* *
23429374 ATAAGAAAAAAAA
1 ATAATAATAAAAA
23429387 AT
1 AT
23429389 TGAAATCCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (13 bp):
ATAATAATAAAAA
Found at i:23429508 original size:16 final size:16
Alignment explanation
Indices: 23429471--23429509 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
23429461 GGGTAATTGT
*
23429471 TAAATTATAAAAGTAA
1 TAAATAATAAAAGTAA
23429487 -ATAATAATAAAAGTAA
1 TA-AATAATAAAAGTAA
23429503 TAAATAA
1 TAAATAA
23429510 CAATAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
15 1 0.05
16 18 0.90
17 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (16 bp):
TAAATAATAAAAGTAA
Found at i:23429798 original size:14 final size:14
Alignment explanation
Indices: 23429781--23429852 Score: 60
Period size: 14 Copynumber: 5.3 Consensus size: 14
23429771 AGTGAAACCT
23429781 TAAAAATGAAATCC
1 TAAAAATGAAATCC
23429795 T-AAAAT-AAAGTCC
1 TAAAAATGAAA-TCC
* * *
23429808 TAAAAGTAAAATGC
1 TAAAAATGAAATCC
*
23429822 TAAAAGTGAAA-CC
1 TAAAAATGAAATCC
**
23429835 TAAAAACCAAATCC
1 TAAAAATGAAATCC
23429849 TAAA
1 TAAA
23429853 TAAAACCCTA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.06
13 18 0.38
14 23 0.49
15 3 0.06
ACGTcount: A:0.57, C:0.15, G:0.08, T:0.19
Consensus pattern (14 bp):
TAAAAATGAAATCC
Found at i:23429836 original size:27 final size:27
Alignment explanation
Indices: 23429769--23429852 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
23429759 TAAAACCTTG
*
23429769 AAAGTGAAACCTTAAAAATGAAATCCTA
1 AAAGTGAAACC-TAAAAATAAAATCCTA
* *
23429797 AAA-T-AAAGTCCTAAAAGTAAAATGCTA
1 AAAGTGAAA--CCTAAAAATAAAATCCTA
**
23429824 AAAGTGAAACCTAAAAACCAAATCCTA
1 AAAGTGAAACCTAAAAATAAAATCCTA
23429851 AA
1 AA
23429853 TAAAACCCTA
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
26 3 0.07
27 33 0.73
28 6 0.13
29 3 0.07
ACGTcount: A:0.56, C:0.15, G:0.10, T:0.19
Consensus pattern (27 bp):
AAAGTGAAACCTAAAAATAAAATCCTA
Found at i:23429976 original size:38 final size:38
Alignment explanation
Indices: 23429925--23429997 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 38
23429915 TTTAGATAAC
*
23429925 TAAACCCTAAATGAAACCCTAAACCATAGGCAAAACCT
1 TAAACCCTAAATGAAACCCTAAACCATAAGCAAAACCT
* * **
23429963 TAAACCTTGAATGAAATTCTAAACCATAAGCAAAA
1 TAAACCCTAAATGAAACCCTAAACCATAAGCAAAA
23429998 TCCTGAAGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.49, C:0.23, G:0.08, T:0.19
Consensus pattern (38 bp):
TAAACCCTAAATGAAACCCTAAACCATAAGCAAAACCT
Found at i:23430194 original size:6 final size:6
Alignment explanation
Indices: 23430185--23430221 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
23430175 TAATAAAATT
23430185 AAATAA AAATAAA AAATAAA AAATAA AAATAA AAATA
1 AAATAA AAAT-AA AAAT-AA AAATAA AAATAA AAATA
23430222 GAATTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 17 0.57
7 13 0.43
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:23430200 original size:26 final size:26
Alignment explanation
Indices: 23430166--23430221 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
23430156 ATAATTTTAT
* *
23430166 AATATAAAATAATAAAAT-TAAATAAA
1 AATAAAAAATAA-AAAATAAAAATAAA
23430192 AATAAAAAATAAAAAATAAAAATAAA
1 AATAAAAAATAAAAAATAAAAATAAA
23430218 AATA
1 AATA
23430222 GAATTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 5 0.19
26 22 0.81
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (26 bp):
AATAAAAAATAAAAAATAAAAATAAA
Found at i:23430201 original size:7 final size:7
Alignment explanation
Indices: 23430185--23430219 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
23430175 TAATAAAATT
23430185 AAAT-AA
1 AAATAAA
23430191 AAATAAA
1 AAATAAA
23430198 AAATAAA
1 AAATAAA
23430205 AAAT-AA
1 AAATAAA
23430211 AAATAAA
1 AAATAAA
23430218 AA
1 AA
23430220 TAGAATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 10 0.37
7 17 0.63
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAATAAA
Found at i:23430213 original size:13 final size:14
Alignment explanation
Indices: 23430185--23430221 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
23430175 TAATAAAATT
23430185 AAATAAAAATA-AA
1 AAATAAAAATATAA
23430198 AAATAAAAA-ATAA
1 AAATAAAAATATAA
23430211 AAATAAAAATA
1 AAATAAAAATA
23430222 GAATTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 1 0.05
13 20 0.91
14 1 0.05
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (14 bp):
AAATAAAAATATAA
Found at i:23433840 original size:323 final size:326
Alignment explanation
Indices: 23433220--23434288 Score: 852
Period size: 323 Copynumber: 3.3 Consensus size: 326
23433210 TCATAACTTA
* * ***
23433220 TTCATACATATCAAATTGTGGAAATCAAATTCAATCATTTGGAAAAGTTTAATATAATGTATTGA
1 TTCACACATATC-AATTGTGGAAATCAAGTTCAATCATTCAAAAAAGTTTAATATAATGTATTGA
* * * * * * * ***
23433285 AGCTATCTAAACTATTAAAACATAAATATAACTGCAAATTTATATTTTTACCCTTTAATGGTGTA
65 AGCTATCTAAACTATTAAAACATAAAAATAAATGCAAAATGACATATTTACCCTTTAACGACATA
* * * * *
23433350 ACAAAGTCCTAAAATGACATAAACTATAACATTTTCACACATATTAGCCACGGAAATCAAGTTCA
130 ACAAAGTCCTAAAAAGACATAAACTATAACATTTTCACACATATCAACCACGAAAACCAAGTTCA
* * * *
23433415 ATCAATCATTTAGATAAATTTAATGTCATGTATTAAAGTTATCCAAACTGTCAAAATAGAATAAT
195 AT--ATCATCTAGACAAATTTAATATCATGTATTAAAGCTATCCAAACTGTCAAAATAGAATAAT
* * * * ** *
23433480 AAACATAAATTTGTATTTTGGCCTTTTAACGGCATAAAAAAGTGCTAAATAGATATAAATGGTAT
258 AAACATAAATTTGTATTTTGGCCTTTTAACAGCATAAAAAAATCCTAAATAGACATAAATGACAA
*
23433545 CTTT
323 CCTT
* *
23433549 TTCACACATATCATTTGTGGAAATCAAGTTCAATCATTCAAAAAAGTTTAATATAATGTATTTAA
1 TTCACACATATCAATTGTGGAAATCAAGTTCAATCATTCAAAAAAGTTTAATATAATGTATTGAA
* *
23433614 GCTATCTAAA-TATTAAAGCATAAAAATAAATGCAAAATGACATATTTATCCTTTAACGACATAA
66 GCTATCTAAACTATTAAAACATAAAAATAAATGCAAAATGACATATTTACCCTTTAACGACATAA
** ** ** * *
23433678 CAAAGTCCTAAAAAGATGTAAA-TAGTAATTTTTTTGCACATATCAATCA-TAACAACCAAGTTC
131 CAAAGTCCTAAAAAGACATAAACTA-TAACATTTTCACACATATCAACCACGAA-AACCAAGTTC
* * * * *
23433741 AAT-T-ATCTGGACAAGTTTAATATTATGTATTGAAA-CTATCTAAACTGTTAAAATAGAATAAT
194 AATATCATCTAGACAAATTTAATATCATGTATT-AAAGCTATCCAAACTGTCAAAATAGAATAAT
*
23433803 AAACATAAATTTGTATTTTGGTCTTTTAACAGCATAAAAAAATCCTAAATAGACATAAATGACAA
258 AAACATAAATTTGTATTTTGGCCTTTTAACAGCATAAAAAAATCCTAAATAGACATAAATGACAA
23433868 CCTT
323 CCTT
* * * * * *
23433872 TTCACACATATCAACTGTGCAAAGT-AAGTTCAATCATTCAAACAAGTTTAATATCATTTATTAA
1 TTCACACATATCAATTGTGGAAA-TCAAGTTCAATCATTCAAAAAAGTTTAATATAATGTATTGA
* * * ** * * * * * * * *
23433936 AACTA-CTCAACTGTTGGAACAGAATAATAAAAGCAAATTTATAT-TTTGGCCTTTTAACGGCAC
65 AGCTATCTAAACTATTAAAACATAAAAATAAATGCAAAATGACATATTT-ACCCTTTAAC-G-AC
* * * * * * **
23433999 A-AAAAAAGTGCTAAACAGACATAAA-TAATAACTTTTTCTCGC--ATCAA--TTGTAGAAACCA
127 ATAACAAAGTCCTAAAAAGACATAAACT-ATAACATTTTCACACATATCAACCACG-A-AAACCA
* * * * * * * *
23434058 AGTTTAATA--ATTTGGAGAAGTTTAATATCATGTATTTAAGCTATCCAAATTGTTAAAACATA-
189 AGTTCAATATCATCTAGACAAATTTAATATCATGTATTAAAGCTATCCAAACTG-TCAAA-ATAG
* * * * * * * *
23434120 AAT-AT-AAC-TGCATATTTATATTTTTGCCCTTTAACAACATAACAAAATCCTAAAAAGATATA
252 AATAATAAACAT--AAATTTGTATTTTGGCCTTTTAACAGCATAAAAAAATCCTAAATAGACATA
* *
23434182 AACGATAA-CTT
315 AATGACAACCTT
* * * * ** ** *
23434193 TTCACACATATAAATCGTGAAAACCAAGTTCAATCATTCGGATGAGTTTAATATAATGTATTAAA
1 TTCACACATATCAATTGTGGAAATCAAGTTCAATCATTCAAAAAAGTTTAATATAATGTATTGAA
* * * *
23434258 ACTATCCAAATTGTTAAAACA-AAAAATAAAT
66 GCTATCTAAACTATTAAAACATAAAAATAAAT
23434289 ATTTACATTT
Statistics
Matches: 600, Mismatches: 120, Indels: 48
0.78 0.16 0.06
Matches are distributed among these distances:
320 1 0.00
321 73 0.12
322 120 0.20
323 202 0.34
324 39 0.06
325 4 0.01
326 3 0.00
327 90 0.15
328 57 0.09
329 11 0.02
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (326 bp):
TTCACACATATCAATTGTGGAAATCAAGTTCAATCATTCAAAAAAGTTTAATATAATGTATTGAA
GCTATCTAAACTATTAAAACATAAAAATAAATGCAAAATGACATATTTACCCTTTAACGACATAA
CAAAGTCCTAAAAAGACATAAACTATAACATTTTCACACATATCAACCACGAAAACCAAGTTCAA
TATCATCTAGACAAATTTAATATCATGTATTAAAGCTATCCAAACTGTCAAAATAGAATAATAAA
CATAAATTTGTATTTTGGCCTTTTAACAGCATAAAAAAATCCTAAATAGACATAAATGACAACCT
T
Found at i:23433919 original size:162 final size:162
Alignment explanation
Indices: 23433203--23434276 Score: 636
Period size: 161 Copynumber: 6.6 Consensus size: 162
23433193 TTCTAAACAT
* * * * * * * *
23433203 ATATAAATCATAACTTATTCATACATATCAAATTGTGGAAATCAAATTCAATCATTTGGAAAAGT
1 ATATAAATGATAACTTTTTCACACATATC-AATTGTGAAAACCAAGTTCAATCATTCGGACAAGT
* * * * *
23433268 TTAATATAATGTATTGAAGCTATCTAAACTATTAAAACATA-AAT-AT-AAC-TGCAAATTTATA
65 TTAATATAATGTATTAAAACTATCCAAACTGTT-AAA-ATAGAATAATAAACAT--AAATTTGTA
** * ** ** * * *
23433329 TTTTTACCCTTTAATGGTGTAACAAAGTCCTAAAATG
126 TTTTGGCCTTTTAACAGCATAAAAAAATCCTAAAAAG
* * * ***** * * ** *
23433366 ACATAAACT-ATAACATTTTCACACATATTAGCCACGGAAATCAAGTTCAATCAATCATTTAGAT
1 ATATAAA-TGATAACTTTTTCACACATATCAATTGTGAAAACCAAG-T---TCAATCATTCGGAC
* * * ** *
23433430 AAATTTAATGTCATGTATTAAAGTTATCCAAACTGTCAAAATAGAATAATAAACATAAATTTGTA
61 AAGTTTAATATAATGTATTAAAACTATCCAAACTGTTAAAATAGAATAATAAACATAAATTTGTA
* * * *
23433495 TTTTGGCCTTTTAACGGCATAAAAAAGTGCTAAATAG
126 TTTTGGCCTTTTAACAGCATAAAAAAATCCTAAAAAG
* * * * * ** *
23433532 ATATAAATGGTATCTTTTTCACACATATCATTTGTGGAAATCAAGTTCAATCATTCAAAAAAGTT
1 ATATAAATGATAACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCATTCGGACAAGTT
* * * * *
23433597 TAATATAATGTATTTAAGCTATCTAAA-TATTAAAGCATA-AA-AATAAATGCA-AAA--TGACA
66 TAATATAATGTATTAAAACTATCCAAACTGTTAAA--ATAGAATAATAAA--CATAAATTTG-TA
** * *
23433656 TATTTATCC-TTTAAC-GACATAACAAAGTCCTAAAAAG
126 T-TTTGGCCTTTTAACAG-CATAAAAAAATCCTAAAAAG
* * ** ** *
23433693 ATGTAAAT-AGTAATTTTTTTGCACATATCAATCAT-AACAACCAAGTTCAATTA-TCTGGACAA
1 ATATAAATGA-TAACTTTTTCACACATATCAATTGTGAA-AACCAAGTTCAATCATTC-GGACAA
* * *
23433755 GTTTAATATTATGTATTGAAACTATCTAAACTGTTAAAATAGAATAATAAACATAAATTTGTATT
63 GTTTAATATAATGTATTAAAACTATCCAAACTGTTAAAATAGAATAATAAACATAAATTTGTATT
* *
23433820 TTGGTCTTTTAACAGCATAAAAAAATCCTAAATAG
128 TTGGCCTTTTAACAGCATAAAAAAATCCTAAAAAG
* * * * * ** **
23433855 ACATAAATGACAACCTTTTCACACATATCAACTGTGCAAAGTAAGTTCAATCATTCAAACAAGTT
1 ATATAAATGATAACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCATTCGGACAAGTT
* * ** * * *
23433920 TAATATCATTTATTAAAACTA-CTC-AACTGTTGGAACAGAATAATAAA-AGCAAATTTATATTT
66 TAATATAATGTATTAAAACTATC-CAAACTGTTAAAATAGAATAATAAACA-TAAATTTGTATTT
* * * *
23433982 TGGCCTTTTAACGGCACAAAAAAAGTGCTAAACAG
129 TGGCCTTTTAACAGCATAAAAAAA-TCCTAAAAAG
* * * * * * * *
23434017 ACATAAATAATAACTTTTTCTCGC--ATCAATTGT-AGAAACCAAGTTTAATAATTTGGAGAAGT
1 ATATAAATGATAACTTTTTCACACATATCAATTGTGA-AAACCAAGTTCAATCATTCGGACAAGT
* * * * * *
23434079 TTAATATCATGTATTTAAGCTATCCAAATTGTTAAAACATA-AAT-AT-AAC-TGCATATTTATA
65 TTAATATAATGTATTAAAACTATCCAAACTGTT-AAA-ATAGAATAATAAACAT--AAATTTGTA
* * * *
23434140 TTTTTGCCCTTTAACAACATAACAAAATCCTAAAAAG
126 TTTTGGCCTTTTAACAGCATAAAAAAATCCTAAAAAG
* * * **
23434177 ATATAAACGATAAC-TTTTCACACATATAAATCGTGAAAACCAAGTTCAATCATTCGGATGAGTT
1 ATATAAATGATAACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCATTCGGACAAGTT
*
23434241 TAATATAATGTATTAAAACTATCCAAATTGTTAAAA
66 TAATATAATGTATTAAAACTATCCAAACTGTTAAAA
23434277 CAAAAAATAA
Statistics
Matches: 704, Mismatches: 162, Indels: 94
0.73 0.17 0.10
Matches are distributed among these distances:
159 8 0.01
160 83 0.12
161 263 0.37
162 186 0.26
163 37 0.05
164 4 0.01
165 8 0.01
166 111 0.16
167 3 0.00
168 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (162 bp):
ATATAAATGATAACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCATTCGGACAAGTT
TAATATAATGTATTAAAACTATCCAAACTGTTAAAATAGAATAATAAACATAAATTTGTATTTTG
GCCTTTTAACAGCATAAAAAAATCCTAAAAAG
Found at i:23434192 original size:160 final size:156
Alignment explanation
Indices: 23433972--23434320 Score: 364
Period size: 161 Copynumber: 2.2 Consensus size: 156
23433962 ATAAAAGCAA
* * ** * * *
23433972 ATTTATATTTTGGCCTTTTAACGGCACAAAAAAAGTGCTAAACAGACATAAATAATAACTTTTTC
1 ATTTATATTTTTGCCCTTTAACAACACAAAAAAAGTCCTAAAAAGACATAAACAATAAC-TTTTC
* * * * * * * * *
23434037 TCGC-ATCAATTGT-AGAAACCAAGTTTAATAATTTGGA-GAAGTTTAATATCATGTATTTAAGC
65 ACACAATAAATCGTGA-AAACCAAGTTCAATAATTCGGATG-AGTTTAATATAATGTATTAAAAC
*
23434099 TATCCAAATTGTTAAAACATAAATATAACTGCAT
128 TATCCAAATTGTTAAAACA-AAAAATAA----AT
* * * *
23434133 ATTTATATTTTTGCCCTTTAACAACATAACAAAA-TCCTAAAAAGATATAAACGATAACTTTTCA
1 ATTTATATTTTTGCCCTTTAACAACACAAAAAAAGTCCTAAAAAGACATAAACAATAACTTTTCA
*
23434197 CACATATAAATCGTGAAAACCAAGTTCAATCATTCGGATGAGTTTAATATAATGTATTAAAACTA
66 CACA-ATAAATCGTGAAAACCAAGTTCAATAATTCGGATGAGTTTAATATAATGTATTAAAACTA
23434262 TCCAAATTGTTAAAACAAAAAATAAAT
130 TCCAAATTGTTAAAACAAAAAATAAAT
* **
23434289 ATTTACATTTTTGCCCTTTAATGACACAAAAA
1 ATTTATATTTTTGCCCTTTAACAACACAAAAA
23434321 GTGCTACATG
Statistics
Matches: 157, Mismatches: 27, Indels: 13
0.80 0.14 0.07
Matches are distributed among these distances:
156 29 0.18
159 7 0.04
160 26 0.17
161 93 0.59
162 2 0.01
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (156 bp):
ATTTATATTTTTGCCCTTTAACAACACAAAAAAAGTCCTAAAAAGACATAAACAATAACTTTTCA
CACAATAAATCGTGAAAACCAAGTTCAATAATTCGGATGAGTTTAATATAATGTATTAAAACTAT
CCAAATTGTTAAAACAAAAAATAAAT
Found at i:23442272 original size:11 final size:12
Alignment explanation
Indices: 23442244--23442297 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
23442234 TTTGGTTTAG
23442244 GGTTTAGGGTAA
1 GGTTTAGGGTAA
*
23442256 GGTTTAGGGT-T
1 GGTTTAGGGTAA
23442267 GGTTTA-GGTAA
1 GGTTTAGGGTAA
*
23442278 GGTTTAAGGTAA
1 GGTTTAGGGTAA
23442290 --TTTAGGGT
1 GGTTTAGGGT
23442298 TTTGACTAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 10 0.27
11 12 0.32
12 15 0.41
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (12 bp):
GGTTTAGGGTAA
Found at i:23442392 original size:18 final size:19
Alignment explanation
Indices: 23442290--23442415 Score: 107
Period size: 19 Copynumber: 6.6 Consensus size: 19
23442280 TTTAAGGTAA
23442290 TTTAGGGTTTTGAC-TAGGG
1 TTTAGGG-TTTGACTTAGGG
* *
23442309 TTAAGGGGTTGAC-TAGGG
1 TTTAGGGTTTGACTTAGGG
**
23442327 ATTTTAGGGTTTGACTTTAAAG
1 --TTTAGGGTTTGAC-TTAGGG
* *
23442349 TTTA-GATTTGACTTTGGGG
1 TTTAGGGTTTGAC-TTAGGG
23442368 TTTAGGGTTTGACTTAGGG
1 TTTAGGGTTTGACTTAGGG
* *
23442387 -TTAGGGTTTGAATTTGGG
1 TTTAGGGTTTGACTTAGGG
23442405 TTTAGGGTTTG
1 TTTAGGGTTTG
23442416 GTTTTTTGGT
Statistics
Matches: 87, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
18 26 0.30
19 36 0.41
20 22 0.25
22 3 0.03
ACGTcount: A:0.18, C:0.04, G:0.35, T:0.43
Consensus pattern (19 bp):
TTTAGGGTTTGACTTAGGG
Found at i:23446231 original size:22 final size:22
Alignment explanation
Indices: 23446206--23446247 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
23446196 TGATTCTAAT
* *
23446206 AATATTATTTTAGTAATATTTC
1 AATAATATTTCAGTAATATTTC
23446228 AATAATATTTCAGTAATATT
1 AATAATATTTCAGTAATATT
23446248 CTAAATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (22 bp):
AATAATATTTCAGTAATATTTC
Found at i:23446259 original size:22 final size:22
Alignment explanation
Indices: 23446206--23446253 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
23446196 TGATTCTAAT
* * *
23446206 AATATTATTTTAGTAATATTTC
1 AATAATATTTCAGTAATATTTA
23446228 AATAATATTTCAGTAATATTCTA
1 AATAATATTTCAGTAATATT-TA
23446251 AAT
1 AAT
23446254 TAATTTGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (22 bp):
AATAATATTTCAGTAATATTTA
Found at i:23453809 original size:5 final size:5
Alignment explanation
Indices: 23453791--23453823 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
23453781 CTCTCTCTAT
23453791 ATAT- ATAT- ATATC ATATC ATATC ATATC ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC
23453824 TTCATAGTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 8 0.29
5 20 0.71
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATC
Found at i:23454495 original size:17 final size:17
Alignment explanation
Indices: 23454462--23454494 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
23454452 AACATTTTAA
23454462 AAATAATATATTTATAT
1 AAATAATATATTTATAT
23454479 AAAT-ATATA-TTATAT
1 AAATAATATATTTATAT
23454494 A
1 A
23454495 TTAATTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 5 0.31
17 4 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATAATATATTTATAT
Found at i:23454883 original size:6 final size:6
Alignment explanation
Indices: 23454858--23454897 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
23454848 TCAATAATAA
* *
23454858 TTAATT TT-ATT CTCATT TTAATT TTAATT TTAATT TTAAT
1 TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT TTAAT
23454898 AGTTATTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (6 bp):
TTAATT
Found at i:23456597 original size:36 final size:36
Alignment explanation
Indices: 23456557--23456630 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
23456547 AAATGATATC
23456557 ATGCATGAGTTAAGGTAGCATGATATTTCTAAAAAG
1 ATGCATGAGTTAAGGTAGCATGATATTTCTAAAAAG
23456593 ATGCATGAGTTAAGGTAGCATGATATTTCTAAAAAG
1 ATGCATGAGTTAAGGTAGCATGATATTTCTAAAAAG
23456629 AT
1 AT
23456631 ATGGAGTGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (36 bp):
ATGCATGAGTTAAGGTAGCATGATATTTCTAAAAAG
Found at i:23463731 original size:22 final size:20
Alignment explanation
Indices: 23463698--23463739 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
23463688 AATGGGATCA
23463698 AGTTGGATTAGGGATTAGGGTT
1 AGTTGGATTA-GG-TTAGGGTT
23463720 AGTTGG-TCTAGGTTAGGGTT
1 AGTTGGAT-TAGGTTAGGGTT
23463740 TTAGTTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 8 0.42
21 3 0.16
22 8 0.42
ACGTcount: A:0.19, C:0.02, G:0.40, T:0.38
Consensus pattern (20 bp):
AGTTGGATTAGGTTAGGGTT
Found at i:23463760 original size:7 final size:6
Alignment explanation
Indices: 23463739--23463809 Score: 52
Period size: 7 Copynumber: 10.7 Consensus size: 6
23463729 AGGTTAGGGT
* * *
23463739 TTTAGT TTTAGGG TTTACGG TTTAAGG ATTAGG TTTAGGG TTTAGG ATTTGTGG
1 TTTAGG TTTA-GG TTTA-GG TTT-AGG TTTAGG TTTA-GG TTTAGG -TTT-AGG
23463793 TTTAGG TTTAGGG TTTA
1 TTTAGG TTTA-GG TTTA
23463810 TCATTTAGTT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
6 18 0.34
7 32 0.60
8 3 0.06
ACGTcount: A:0.18, C:0.01, G:0.32, T:0.48
Consensus pattern (6 bp):
TTTAGG
Found at i:23463760 original size:27 final size:26
Alignment explanation
Indices: 23463702--23463809 Score: 92
Period size: 27 Copynumber: 4.0 Consensus size: 26
23463692 GGATCAAGTT
* * *
23463702 GGATTAGGGATTAGGGTTAGTTGGTCTA
1 GGATTAGGGTTTAGGTTTAG--GGTTTA
*
23463730 GG-TTAGGGTTTTAGTTTTAGGGTTTA
1 GGATTAGGG-TTTAGGTTTAGGGTTTA
* * *
23463756 CGGTTTAAGGATTAGGTTTAGGGTTTA
1 -GGATTAGGGTTTAGGTTTAGGGTTTA
*
23463783 GGATTTGTGGTTTAGGTTTAGGGTTTA
1 GGATTAG-GGTTTAGGTTTAGGGTTTA
23463810 TCATTTAGTT
Statistics
Matches: 65, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
26 9 0.14
27 41 0.63
28 15 0.23
ACGTcount: A:0.19, C:0.02, G:0.36, T:0.44
Consensus pattern (26 bp):
GGATTAGGGTTTAGGTTTAGGGTTTA
Found at i:23463762 original size:14 final size:13
Alignment explanation
Indices: 23463705--23463809 Score: 88
Period size: 13 Copynumber: 7.8 Consensus size: 13
23463695 TCAAGTTGGA
* *
23463705 TTAGGGATTAGGG
1 TTAGGGTTTAGGT
*
23463718 TTAGTTGGTCTAGG-
1 TTAG--GGTTTAGGT
*
23463732 TTAGGGTTTTAGTT
1 TTAGGG-TTTAGGT
23463746 TTAGGGTTTACGGT
1 TTAGGGTTTA-GGT
* *
23463760 TTAAGGATTAGGT
1 TTAGGGTTTAGGT
23463773 TTAGGGTTTAGGAT
1 TTAGGGTTTAGG-T
23463787 TT-GTGGTTTAGGT
1 TTAG-GGTTTAGGT
23463800 TTAGGGTTTA
1 TTAGGGTTTA
23463810 TCATTTAGTT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
12 2 0.03
13 35 0.47
14 32 0.43
15 6 0.08
ACGTcount: A:0.18, C:0.02, G:0.35, T:0.45
Consensus pattern (13 bp):
TTAGGGTTTAGGT
Found at i:23463889 original size:50 final size:49
Alignment explanation
Indices: 23463827--23464064 Score: 234
Period size: 49 Copynumber: 4.8 Consensus size: 49
23463817 GTTTGGTTTA
*
23463827 GGAAAAGCTCCTTTAAAGAAAGGCTAGGAAACTTTATAATTTGCAATTTT
1 GGAAAAGCTCCTTTAAAGAAAGGCTAGGAAACTTTAAAATTT-CAATTTT
* * * *
23463877 GGAAAAGTTCCTTTAAAGAGAGGCTAAGAAA-TTGTAAAAATCTC-ATTTT
1 GGAAAAGCTCCTTTAAAGAAAGGCTAGGAAACTT-T-AAAATTTCAATTTT
* * *
23463926 GAAAAAGCTCCTATAAA-AATAGGTTAGGAAACTTTAAAATTTTCAATTTT
1 GGAAAAGCTCCTTTAAAGAA-AGGCTAGGAAACTTTAAAA-TTTCAATTTT
** * *
23463976 -GAAAAAATCATTTAAAGAAAGGCTAAGAAACTTTAAAAGTTTCAATTTT
1 GGAAAAGCTCCTTTAAAGAAAGGCTAGGAAACTTTAAAA-TTTCAATTTT
* * *
23464025 GGAAAAAGCTCTTTTAAAAAAAGG-TAAGGAAATTTTAAAA
1 GG-AAAAGCTCCTTTAAAGAAAGGCT-AGGAAACTTTAAAA
23464065 ATCTCATTTT
Statistics
Matches: 152, Mismatches: 26, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
48 5 0.03
49 72 0.47
50 41 0.27
51 34 0.22
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.31
Consensus pattern (49 bp):
GGAAAAGCTCCTTTAAAGAAAGGCTAGGAAACTTTAAAATTTCAATTTT
Found at i:23464024 original size:99 final size:98
Alignment explanation
Indices: 23463829--23464082 Score: 289
Period size: 99 Copynumber: 2.6 Consensus size: 98
23463819 TTGGTTTAGG
* * * ** *
23463829 AAAAGCTCCTTTAAAGAAAGGCTAGGAAACTTTATAATTTGCAATTTTGGAAAAGTTCCTTTAAA
1 AAAAGCTCCTTTAAA-AAAGGTTAGGAAACTTTAAAATTTTCAATTTT-GAAAAAATCATTTAAA
*
23463894 GAGAGGCTAAGAAATTGTAAAAATCTCATTTT-GA
64 GAAAGGCTAAGAAATTGTAAAAATCTCATTTTGGA
*
23463928 AAAAGCTCCTATAAAAATAGGTTAGGAAACTTTAAAATTTTCAATTTTGAAAAAATCATTTAAAG
1 AAAAGCTCCTTTAAAAA-AGGTTAGGAAACTTTAAAATTTTCAATTTTGAAAAAATCATTTAAAG
* *
23463993 AAAGGCTAAGAAACTT-TAAAAGTTTCAATTTTGGA
65 AAAGGCTAAGAAA-TTGTAAAAATCTC-ATTTTGGA
* * * * * *
23464028 AAAAGCTCTTTTAAAAAAAGGTAAGGAAATTTTAAAAATCTC-ATTTTAAAAAAAT
1 AAAAGCTCCTTT-AAAAAAGGTTAGGAAACTTTAAAATTTTCAATTTTGAAAAAAT
23464083 TTGGTTGTAT
Statistics
Matches: 133, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
98 36 0.27
99 60 0.45
100 32 0.24
101 5 0.04
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.31
Consensus pattern (98 bp):
AAAAGCTCCTTTAAAAAAGGTTAGGAAACTTTAAAATTTTCAATTTTGAAAAAATCATTTAAAGA
AAGGCTAAGAAATTGTAAAAATCTCATTTTGGA
Found at i:23468554 original size:21 final size:20
Alignment explanation
Indices: 23468529--23468571 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
23468519 GATGGACATT
23468529 TTGGCAAGAATAAAAGAGATA
1 TTGGCAAGAATAAAAGA-ATA
*
23468550 TTGGCAAGAATGAAAGAATA
1 TTGGCAAGAATAAAAGAATA
23468570 TT
1 TT
23468572 AAAAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.49, C:0.05, G:0.23, T:0.23
Consensus pattern (20 bp):
TTGGCAAGAATAAAAGAATA
Found at i:23471805 original size:29 final size:28
Alignment explanation
Indices: 23471744--23471807 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 28
23471734 ATTTTTTTTG
23471744 TTTTTT-TTA-AACTTATTTAAAAGGAT
1 TTTTTTATTATAACTTATTTAAAAGGAT
23471770 TTTTTTATTATAACTTATTTGAAAA-GAT
1 TTTTTTATTATAACTTATTT-AAAAGGAT
23471798 TTTATTTATT
1 TTT-TTTATT
23471808 TATTTATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
26 6 0.18
27 3 0.09
28 15 0.44
29 10 0.29
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (28 bp):
TTTTTTATTATAACTTATTTAAAAGGAT
Found at i:23471969 original size:13 final size:13
Alignment explanation
Indices: 23471953--23472000 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
23471943 AAAATAACTG
23471953 AAAAATAAATTAA
1 AAAAATAAATTAA
23471966 AAAAATAAA-TAGA
1 AAAAATAAATTA-A
*
23471979 TAAAAA-AAATAAA
1 -AAAAATAAATTAA
23471992 AAAAATAAA
1 AAAAATAAA
23472001 AAAAAATGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
12 7 0.23
13 17 0.57
14 6 0.20
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (13 bp):
AAAAATAAATTAA
Found at i:23471983 original size:26 final size:24
Alignment explanation
Indices: 23471941--23472000 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
23471931 AAAATAACAC
* * *
23471941 AAAAAATAACTGAAAAATAAATTA
1 AAAAAATAAATGAAAAAAAAATAA
23471965 AAAAAATAAATAGATAAAAAAAATAA
1 AAAAAATAAAT-GA-AAAAAAAATAA
23471991 AAAAAATAAA
1 AAAAAATAAA
23472001 AAAAAATGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 10 0.32
25 2 0.06
26 19 0.61
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (24 bp):
AAAAAATAAATGAAAAAAAAATAA
Found at i:23472012 original size:9 final size:9
Alignment explanation
Indices: 23471953--23472005 Score: 63
Period size: 9 Copynumber: 5.9 Consensus size: 9
23471943 AAAATAACTG
23471953 AAAAATAAAT
1 AAAAA-AAAT
*
23471963 TAAAAAAAT
1 AAAAAAAAT
* *
23471972 -AAATAGAT
1 AAAAAAAAT
23471980 AAAAAAAAT
1 AAAAAAAAT
23471989 AAAAAAAAT
1 AAAAAAAAT
23471998 AAAAAAAA
1 AAAAAAAA
23472006 ATGAAAATGG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
8 6 0.16
9 27 0.73
10 4 0.11
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:23472947 original size:12 final size:13
Alignment explanation
Indices: 23472919--23472960 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
23472909 GGTGATATAA
23472919 TATAATATAATAC
1 TATAATATAATAC
*
23472932 TATATTATAA-AC
1 TATAATATAATAC
* *
23472944 TATACTATAATAA
1 TATAATATAATAC
23472957 TATA
1 TATA
23472961 GTATTCCATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (13 bp):
TATAATATAATAC
Found at i:23473195 original size:25 final size:25
Alignment explanation
Indices: 23473158--23473210 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
23473148 CAAGTTAGGA
* * *
23473158 AAATGATCCAGACTGAGCCGAGATC
1 AAATGATCCAGACTAAACCAAGATC
*
23473183 AAATGATCTAGACTAAACCAAGATC
1 AAATGATCCAGACTAAACCAAGATC
23473208 AAA
1 AAA
23473211 GAGTTAGGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.17
Consensus pattern (25 bp):
AAATGATCCAGACTAAACCAAGATC
Found at i:23473244 original size:37 final size:36
Alignment explanation
Indices: 23473183--23473284 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 36
23473173 AGCCGAGATC
* * * *
23473183 AAATGATCTAGACTAAACCAAGATCAAAGAGTTAGGA
1 AAATGATCTAGACTAAGCCGAGATCAAAGA-TCAAGA
* * * * *
23473220 AAATGATTTGGACTGAGCTGAGATCGAAATATCAAGA
1 AAATGATCTAGACTAAGCCGAGATC-AAAGATCAAGA
23473257 AAATGATCTAGACTAAGCCGAGATCAAA
1 AAATGATCTAGACTAAGCCGAGATCAAA
23473285 AAGTCATAAA
Statistics
Matches: 51, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
36 3 0.06
37 44 0.86
38 4 0.08
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.21
Consensus pattern (36 bp):
AAATGATCTAGACTAAGCCGAGATCAAAGATCAAGA
Found at i:23473300 original size:37 final size:35
Alignment explanation
Indices: 23473183--23473321 Score: 91
Period size: 37 Copynumber: 3.8 Consensus size: 35
23473173 AGCCGAGATC
* * *
23473183 AAATGATCTAGACTAAACCAAGATCAAAGAGTTAGGA
1 AAATGATCTAGACTAAGCCAAGATCAAAAAGTCA--A
* * * ** *
23473220 AAATGATTTGGACTGAGCTGAGATCGAAATA-TCAAGA
1 AAATGATCTAGACTAAGCCAAGATC-AAAAAGTC-A-A
*
23473257 AAATGATCTAGACTAAGCCGAGATCAAAAAGTCATA
1 AAATGATCTAGACTAAGCCAAGATCAAAAAGTCA-A
* * *
23473293 AAGATGATCTAAACTGAGTCAAGATCAAA
1 AA-ATGATCTAGACTAAGCCAAGATCAAA
23473322 TGACCATGAT
Statistics
Matches: 80, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
36 8 0.10
37 67 0.84
38 5 0.06
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (35 bp):
AAATGATCTAGACTAAGCCAAGATCAAAAAGTCAA
Found at i:23473318 original size:74 final size:73
Alignment explanation
Indices: 23473183--23473322 Score: 158
Period size: 74 Copynumber: 1.9 Consensus size: 73
23473173 AGCCGAGATC
* * * ** *
23473183 AAATGATCTAGACTAAACCAAGATCAAAGAGTTAGGAAAATGATTTGGACTGAGCTGAGATCGAA
1 AAATGATCTAGACTAAACCAAGATCAAAAAGTCAGGAAAATGATCTAAACTGAGCTAAGATC-AA
23473248 ATATCAAGA
65 ATATCAAGA
* * *
23473257 AAATGATCTAGACTAAGCCGAGATCAAAAAGTCA-TAAAGATGATCTAAACTGAG-TCAAGATCA
1 AAATGATCTAGACTAAACCAAGATCAAAAAGTCAGGAAA-ATGATCTAAACTGAGCT-AAGATCA
23473320 AAT
64 AAT
23473323 GACCATGATG
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
73 8 0.15
74 47 0.85
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (73 bp):
AAATGATCTAGACTAAACCAAGATCAAAAAGTCAGGAAAATGATCTAAACTGAGCTAAGATCAAA
TATCAAGA
Found at i:23474551 original size:21 final size:20
Alignment explanation
Indices: 23474526--23474584 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
23474516 TCAAGTATTC
* *
23474526 CTTTTTTCTCTTTTTTCTTT
1 CTTTTTTTTCTTTTTTTTTT
23474546 -TTTTTTTTCTTTTTTTTTT
1 CTTTTTTTTCTTTTTTTTTT
*
23474565 GCTTTTTTTTGTTTTTTTTT
1 -CTTTTTTTTCTTTTTTTTT
23474585 AATTTCTGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.50
21 17 0.50
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.86
Consensus pattern (20 bp):
CTTTTTTTTCTTTTTTTTTT
Found at i:23474553 original size:12 final size:12
Alignment explanation
Indices: 23474536--23474584 Score: 73
Period size: 12 Copynumber: 4.1 Consensus size: 12
23474526 CTTTTTTCTC
23474536 TTTTTTCTTTTT
1 TTTTTTCTTTTT
23474548 TTTTTTCTTTTT
1 TTTTTTCTTTTT
*
23474560 TTTTTGCTTTTT
1 TTTTTTCTTTTT
23474572 TTTGTTT-TTTTT
1 TTT-TTTCTTTTT
23474584 T
1 T
23474585 AATTTCTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
12 32 0.94
13 2 0.06
ACGTcount: A:0.00, C:0.06, G:0.04, T:0.90
Consensus pattern (12 bp):
TTTTTTCTTTTT
Found at i:23474561 original size:9 final size:9
Alignment explanation
Indices: 23474527--23474583 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
23474517 CAAGTATTCC
*
23474527 TTTTTTCTC
1 TTTTTTCTT
23474536 TTTTTTC-T
1 TTTTTTCTT
23474544 TTTTTT-TT
1 TTTTTTCTT
*
23474552 TTCTTT-TT
1 TTTTTTCTT
*
23474560 TTTTTGCTT
1 TTTTTTCTT
*
23474569 TTTTTTGTT
1 TTTTTTCTT
23474578 TTTTTT
1 TTTTTT
23474584 TAATTTCTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 18 0.45
9 22 0.55
ACGTcount: A:0.00, C:0.09, G:0.04, T:0.88
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:23474604 original size:1 final size:1
Alignment explanation
Indices: 23474536--23474584 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
23474526 CTTTTTTCTC
* * ** *
23474536 TTTTTTCTTTTTTTTTTTCTTTTTTTTTTGCTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
23474585 AATTTCTGTA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.06, G:0.04, T:0.90
Consensus pattern (1 bp):
T
Found at i:23474897 original size:16 final size:16
Alignment explanation
Indices: 23474876--23474906 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23474866 GCCCCAACAA
*
23474876 TTTCTCTTCATTTTTT
1 TTTCTCATCATTTTTT
23474892 TTTCTCATCATTTTT
1 TTTCTCATCATTTTT
23474907 CACAAAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTCTCATCATTTTTT
Found at i:23479337 original size:60 final size:59
Alignment explanation
Indices: 23479220--23479348 Score: 152
Period size: 60 Copynumber: 2.2 Consensus size: 59
23479210 TTTTTTGTAT
* * * *
23479220 TTTTAAGAAAAATTGGTACTTCCAACTTTTCCCCAAAATATTTTTTTTCTAAAATTTTAA
1 TTTT-AGAAAAATTGATACTTCCAACTTTTCCCAAAAATATTTTTCTTCGAAAATTTTAA
* ** *
23479280 TTTTGAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTCTT-GATTATTTTTA
1 TTTT-AGAAAAATTGATACTTCCAACTTTTCC-CAAAAATATTTTTCTTCGAAAATTTTAA
23479340 TTTTAGAAA
1 TTTTAGAAA
23479349 TTTTATTTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
59 5 0.08
60 40 0.68
61 14 0.24
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.47
Consensus pattern (59 bp):
TTTTAGAAAAATTGATACTTCCAACTTTTCCCAAAAATATTTTTCTTCGAAAATTTTAA
Found at i:23479370 original size:75 final size:75
Alignment explanation
Indices: 23479258--23479467 Score: 315
Period size: 74 Copynumber: 2.8 Consensus size: 75
23479248 TTCCCCAAAA
* *
23479258 TATTTTT-TTTCTA-AAATTTTAATTTT-GAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT
1 TATTTTTATTT-TAGAAATTTT-ATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAT
*
23479320 ATTTTTCTTGAT
64 ACTTTTCTTGAT
23479332 TATTTTTATTTTAGAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAATAC
1 TATTTTTATTTTAGAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATAC
23479396 TTTTCTTGAT
66 TTTTCTTGAT
*
23479406 AATTTTTATTTTAGAAATTTTATTTTCAAGGAAAATTGAT-CTTTCAACTTTTTCCT-AAAAAT
1 TATTTTTATTTTAGAAATTTTATTTTCAAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAAAT
23479468 GTATTTTTTT
Statistics
Matches: 127, Mismatches: 4, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
73 8 0.06
74 81 0.64
75 38 0.30
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (75 bp):
TATTTTTATTTTAGAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATAC
TTTTCTTGAT
Found at i:23479495 original size:63 final size:58
Alignment explanation
Indices: 23479420--23479596 Score: 207
Period size: 63 Copynumber: 2.9 Consensus size: 58
23479410 TTTATTTTAG
23479420 AAATTTTATTTTCAAGGAAAATTGATCTTTCAACTTTTTCCTAAAAATGTATTTTTTTT
1 AAATTTTATTTTCAAGGAAAATTGATCTTTCAACTTTTTCCTAAAAAT-TATTTTTTTT
*
23479479 AAAACTTTTTATTTTTCAA-GAGAAATTGATCTTTCAACTTTTTCCCAAAAA-TATTTTTTTT
1 -AAA--TTTTA-TTTTCAAGGA-AAATTGATCTTTCAACTTTTTCCTAAAAATTATTTTTTTT
* * * *
23479540 TAATTTTATTTTGAAGAAAAATTGATATTTTCAAC-TTTTCCTCAAAAATATATTTTT
1 AAATTTTATTTTCAAGGAAAATTGAT-CTTTCAACTTTTTCCT-AAAAAT-TATTTTT
23479597 GGGAATTTTA
Statistics
Matches: 102, Mismatches: 6, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
57 20 0.20
58 18 0.18
60 12 0.12
61 10 0.10
62 7 0.07
63 35 0.34
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.50
Consensus pattern (58 bp):
AAATTTTATTTTCAAGGAAAATTGATCTTTCAACTTTTTCCTAAAAATTATTTTTTTT
Found at i:23479716 original size:15 final size:15
Alignment explanation
Indices: 23479686--23479727 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
23479676 TATAGTTTAG
*
23479686 AAATAATAATAATAAT
1 AAATAA-AAAAATAAT
23479702 AAATAAAAAAATAAT
1 AAATAAAAAAATAAT
23479717 AAATAAAAAAA
1 AAATAAAAAAA
23479728 CCTTAACACA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 19 0.76
16 6 0.24
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAAAAAAATAAT
Found at i:23479716 original size:18 final size:18
Alignment explanation
Indices: 23479693--23479727 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
23479683 TAGAAATAAT
23479693 AATAAT-AATAAATAAAAA
1 AATAATAAATAAA-AAAAA
23479711 AATAATAAATAAAAAAA
1 AATAATAAATAAAAAAA
23479728 CCTTAACACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (18 bp):
AATAATAAATAAAAAAAA
Found at i:23480647 original size:13 final size:13
Alignment explanation
Indices: 23480629--23480653 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23480619 CAACTTGACT
23480629 TTTTTTTTTTTGC
1 TTTTTTTTTTTGC
23480642 TTTTTTTTTTTG
1 TTTTTTTTTTTG
23480654 TTAAAATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTTTGC
Found at i:23480731 original size:44 final size:44
Alignment explanation
Indices: 23480668--23481143 Score: 504
Period size: 44 Copynumber: 11.0 Consensus size: 44
23480658 AATTTTGATC
* ** * * *
23480668 AAAGCTCTTCTAAGGAGAGGCTCAACGACTTTGGAAAAATAAAC
1 AAAGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAAT
* * * *
23480712 AAAGCTCTTATAAATAGAGGCT---CAACTTTGAAAAGATAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAAT
* * ** *
23480753 TAAGTTCCTCTAAACAGAGGCTCAATGACTTTGAAAAAATAAAC
1 AAAGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAAT
** * *
23480797 AAAGCTTTTCTAAACAGAGGTTCAACAACTTTGGAAAAATAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAAT
* *
23480841 AAAGCTCCTCTAAACAAAGGCTCAACAACTTTAAAAAAATAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAAT
* ** *
23480885 AAAGCTCCTCTAAATAGAGGCTCAATGACTTTGAAAAAAATAAAC
1 AAAGCTCCTCTAAACAGAGGCTCAACAACTTTG-AAAAAATAAAT
* *
23480930 AAAGCTCTTCTAAACAGAGGCTCAACAACTTTAAAAAAATAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAAT
**
23480974 AAAGCTCCTCTAAACAGAGGCTCAATGACTTTGAAAAAATAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAAT
* * * *
23481018 AAAGCTCCTCTAAATAGAAGCTTAACAACTTT--ATAAATAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAAT
* * *
23481060 --TGCTTCTCTAAACAGAGGTTCAACAAC-TT-AAAAAA-AATAT
1 AAAGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAA-AT
** * *
23481100 ATTGCTCCTCTAAACAGAGGCACCACAACTTTGAAAAAATAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAAT
23481144 TGCTCCTTGA
Statistics
Matches: 357, Mismatches: 64, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
39 4 0.01
40 27 0.08
41 32 0.09
42 32 0.09
43 2 0.01
44 220 0.62
45 40 0.11
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (44 bp):
AAAGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAAT
Found at i:23480959 original size:133 final size:132
Alignment explanation
Indices: 23480667--23481143 Score: 564
Period size: 133 Copynumber: 3.7 Consensus size: 132
23480657 AAATTTTGAT
** * * * * *
23480667 CAAAGCTCTTCTAAGGAGAGGCTCAACGACTTTGGAAAAATAAACAAAGCTCTTATAAATAGAGG
1 CAAAGCTCTTCTAAACAGAGGCTCAACAACTTTGGAAAAATAAATAAAGCTCCTCTAAACAGAGG
* * * *
23480732 CT---CAACTTTGAAAAGATAAATTAAGTTCCTCTAAACAGAGGCTCAATGACTTTGAAAAAATA
66 CTCAACAACTTTGAAAAAATAAATAAAGCTCCTCTAAATAGAGGCTCAATGACTTTGAAAAAATA
23480794 AA
131 AA
* * *
23480796 CAAAGCTTTTCTAAACAGAGGTTCAACAACTTTGGAAAAATAAATAAAGCTCCTCTAAACAAAGG
1 CAAAGCTCTTCTAAACAGAGGCTCAACAACTTTGGAAAAATAAATAAAGCTCCTCTAAACAGAGG
*
23480861 CTCAACAACTTTAAAAAAATAAATAAAGCTCCTCTAAATAGAGGCTCAATGACTTTGAAAAAAAT
66 CTCAACAACTTTGAAAAAATAAATAAAGCTCCTCTAAATAGAGGCTCAATGACTTTG-AAAAAAT
23480926 AAA
130 AAA
**
23480929 CAAAGCTCTTCTAAACAGAGGCTCAACAACTTTAAAAAAATAAATAAAGCTCCTCTAAACAGAGG
1 CAAAGCTCTTCTAAACAGAGGCTCAACAACTTTGGAAAAATAAATAAAGCTCCTCTAAACAGAGG
** * * ** *
23480994 CTCAATGACTTTGAAAAAATAAATAAAGCTCCTCTAAATAGAAGCTTAACAACTTT--ATAAAT-
66 CTCAACAACTTTGAAAAAATAAATAAAGCTCCTCTAAATAGAGGCTCAATGACTTTGAAAAAATA
23481056 AA
131 AA
** * *
23481058 -ATTGCT-TCTCTAAACAGAGGTTCAACAAC-TT--AAAAA-AAATATATTGCTCCTCTAAACAG
1 CAAAGCTCT-TCTAAACAGAGGCTCAACAACTTTGGAAAAATAAATA-A-AGCTCCTCTAAACAG
* *
23481117 AGGCACCACAACTTTGAAAAAATAAAT
63 AGGCTCAACAACTTTGAAAAAATAAAT
23481144 TGCTCCTTGA
Statistics
Matches: 305, Mismatches: 36, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
124 5 0.02
125 6 0.02
126 37 0.12
127 3 0.01
128 24 0.08
129 59 0.19
130 5 0.02
132 47 0.15
133 119 0.39
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (132 bp):
CAAAGCTCTTCTAAACAGAGGCTCAACAACTTTGGAAAAATAAATAAAGCTCCTCTAAACAGAGG
CTCAACAACTTTGAAAAAATAAATAAAGCTCCTCTAAATAGAGGCTCAATGACTTTGAAAAAATA
AA
Found at i:23482166 original size:9 final size:9
Alignment explanation
Indices: 23482152--23482205 Score: 58
Period size: 8 Copynumber: 6.0 Consensus size: 9
23482142 TTGAGTCTTT
23482152 TTTTTTTCA
1 TTTTTTTCA
23482161 -TTTTTTCA
1 TTTTTTTCA
*
23482169 TTTTTTTTA
1 TTTTTTTCA
23482178 TTTTTTTTTC-
1 --TTTTTTTCA
*
23482188 TTTTTTTCT
1 TTTTTTTCA
23482197 TTTTTTTCA
1 TTTTTTTCA
23482206 AGCATAGTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
8 16 0.42
9 15 0.39
11 7 0.18
ACGTcount: A:0.07, C:0.09, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:23482182 original size:28 final size:27
Alignment explanation
Indices: 23482150--23482203 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 27
23482140 CCTTGAGTCT
23482150 TTTTTTTTTCATTTTTTCATTTTTTTTA
1 TTTTTTTTTCATTTTTTC-TTTTTTTTA
*
23482178 TTTTTTTTTCTTTTTTTCTTTTTTTT
1 TTTTTTTTTCATTTTTTCTTTTTTTT
23482204 CAAGCATAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.06, C:0.07, G:0.00, T:0.87
Consensus pattern (27 bp):
TTTTTTTTTCATTTTTTCTTTTTTTTA
Found at i:23489315 original size:86 final size:86
Alignment explanation
Indices: 23489170--23489341 Score: 326
Period size: 86 Copynumber: 2.0 Consensus size: 86
23489160 TATGATGGAG
23489170 GGCCCTATTGGCTTGTGTTCTATTCTATCCATTTTCTTTTGTTTAACTTGTTAAGAGTATCCAGA
1 GGCCCTATTGGCTTGTGTTCTATTCTATCCATTTTCTTTTGTTTAACTTGTTAAGAGTATCCAGA
23489235 ATCCTACTTAACTCATTCTTA
66 ATCCTACTTAACTCATTCTTA
* *
23489256 GGCCCTATTGGCTTGTGTTCTCTTCTATCCCTTTTCTTTTGTTTAACTTGTTAAGAGTATCCAGA
1 GGCCCTATTGGCTTGTGTTCTATTCTATCCATTTTCTTTTGTTTAACTTGTTAAGAGTATCCAGA
23489321 ATCCTACTTAACTCATTCTTA
66 ATCCTACTTAACTCATTCTTA
23489342 ATCTTTTCTT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.45
Consensus pattern (86 bp):
GGCCCTATTGGCTTGTGTTCTATTCTATCCATTTTCTTTTGTTTAACTTGTTAAGAGTATCCAGA
ATCCTACTTAACTCATTCTTA
Found at i:23492718 original size:10 final size:9
Alignment explanation
Indices: 23492700--23492736 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
23492690 AAAAAATTCT
23492700 AAGAAAAAA
1 AAGAAAAAA
23492709 AAGAAAAAA
1 AAGAAAAAA
*
23492718 AATAAAAAA
1 AAGAAAAAA
*
23492727 AATAAAAAA
1 AAGAAAAAA
23492736 A
1 A
23492737 GGAATAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.89, C:0.00, G:0.05, T:0.05
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:23492992 original size:75 final size:75
Alignment explanation
Indices: 23492897--23493130 Score: 282
Period size: 74 Copynumber: 3.1 Consensus size: 75
23492887 TCCCCAAAAT
*
23492897 ATTTTT-TTTTCTGAAATTTTAATTTCAAAGAAAATTGATACTTTCAACTTTTTCTCAAAAATAT
1 ATTTTTATTTTAT-AAATTTTAATTTCAAAGAAAATTGATACTTTCAACTTTTTCTCAAAAATAT
* *
23492961 TTTTCTTGATG
65 TTTTCTTAATA
* * *
23492972 ATTTTTATTTTATAAATTTT-ATTTTAAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAATAC
1 ATTTTTATTTTATAAATTTTAATTTCAAA-GAAAATTGATACTTTCAACTTTTTCTCAAAAATAT
23493035 TTTTCTTAATA
65 TTTTCTTAATA
* * ** *
23493046 ATTTTTATTTTAGAAATTTTATTTTCAACCAAAATTGATACTTTCAACTTTTTC-CTAAATATAT
1 ATTTTTATTTTATAAATTTTAATTTCAAAGAAAATTGATACTTTCAACTTTTTCTC-AAAAATAT
23493110 TTTT-TTAA-A
65 TTTTCTTAATA
*
23493119 CCTTTTTATTTT
1 -ATTTTTATTTT
23493131 CAAGAAAAAT
Statistics
Matches: 138, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
73 2 0.01
74 78 0.57
75 53 0.38
76 5 0.04
ACGTcount: A:0.32, C:0.11, G:0.04, T:0.52
Consensus pattern (75 bp):
ATTTTTATTTTATAAATTTTAATTTCAAAGAAAATTGATACTTTCAACTTTTTCTCAAAAATATT
TTTCTTAATA
Found at i:23493097 original size:59 final size:58
Alignment explanation
Indices: 23493033--23493248 Score: 247
Period size: 59 Copynumber: 3.6 Consensus size: 58
23493023 TCCTCAAAAT
* * * **
23493033 ACTTTTCTTAATAATTTTTATTTTAGAAATTTTATTTTCAACCAAAATTGATACTTTCA
1 ACTTTTCCTAAAAATATTT-TTTTAGAAATTTTATTTTCAAGAAAAATTGATACTTTCA
* * *
23493092 ACTTTTTCCTAAATATATTTTTTTA-AACCTTTTTATTTTCAAGAAAAATTAATACTTTCA
1 AC-TTTTCCTAAAAATATTTTTTTAGAA--ATTTTATTTTCAAGAAAAATTGATACTTTCA
* * *
23493152 ACTTTCCCCTAAAAATATTTTTTAAAAAATTTTATTTTCAAGAAAAATTGATACTTTCA
1 ACTTT-TCCTAAAAATATTTTTTTAGAAATTTTATTTTCAAGAAAAATTGATACTTTCA
*
23493211 ACTTTTACTCAAAAATATTTTTTT-GAGAATTTTATTTT
1 ACTTTTCCT-AAAAATATTTTTTTAGA-AATTTTATTTT
23493249 AGGAAAATCA
Statistics
Matches: 133, Mismatches: 17, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
58 5 0.04
59 68 0.51
60 58 0.44
61 2 0.02
ACGTcount: A:0.36, C:0.12, G:0.03, T:0.49
Consensus pattern (58 bp):
ACTTTTCCTAAAAATATTTTTTTAGAAATTTTATTTTCAAGAAAAATTGATACTTTCA
Found at i:23493099 original size:60 final size:59
Alignment explanation
Indices: 23493035--23493248 Score: 245
Period size: 60 Copynumber: 3.6 Consensus size: 59
23493025 CTCAAAATAC
* * * **
23493035 TTTTCTTAATAATTTTTATTTTAGAAATTTTATTTTCAACCAAAATTGATACTTTCAACT
1 TTTTCCTAAAAATATTT-TTTTAGAAATTTTATTTTCAAGAAAAATTGATACTTTCAACT
* * *
23493095 TTTTCCTAAATATATTTTTTTA-AACCTTTTTATTTTCAAGAAAAATTAATACTTTCAACT
1 TTTTCCTAAAAATATTTTTTTAGAA--ATTTTATTTTCAAGAAAAATTGATACTTTCAACT
** * *
23493155 TTCCCCTAAAAATATTTTTTAAAAAATTTTATTTTCAAGAAAAATTGATACTTTCAAC-
1 TTTTCCTAAAAATATTTTTTTAGAAATTTTATTTTCAAGAAAAATTGATACTTTCAACT
*
23493213 TTTTACTCAAAAATATTTTTTT-GAGAATTTTATTTT
1 TTTTCCT-AAAAATATTTTTTTAGA-AATTTTATTTT
23493249 AGGAAAATCA
Statistics
Matches: 130, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
58 7 0.05
59 60 0.46
60 61 0.47
61 2 0.02
ACGTcount: A:0.36, C:0.12, G:0.03, T:0.50
Consensus pattern (59 bp):
TTTTCCTAAAAATATTTTTTTAGAAATTTTATTTTCAAGAAAAATTGATACTTTCAACT
Found at i:23493336 original size:13 final size:14
Alignment explanation
Indices: 23493318--23493357 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
23493308 TCTAATTTAG
23493318 AAATAATAAT-AAT
1 AAATAATAATAAAT
23493331 AAATAA-AATAAAT
1 AAATAATAATAAAT
23493344 AAATAATAAATAAA
1 AAATAAT-AATAAA
23493358 ACTCAGCTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.12
13 15 0.62
15 6 0.25
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
AAATAATAATAAAT
Found at i:23494587 original size:28 final size:28
Alignment explanation
Indices: 23494556--23494661 Score: 203
Period size: 28 Copynumber: 3.8 Consensus size: 28
23494546 TTTTGAAAAA
23494556 AACTTATTTGAAAAGATTTTTTTATTAC
1 AACTTATTTGAAAAGATTTTTTTATTAC
23494584 AACTTATTTGAAAAGATTTTTTTATTAC
1 AACTTATTTGAAAAGATTTTTTTATTAC
*
23494612 AACTTATTTGAAAATATTTTTTTATTAC
1 AACTTATTTGAAAAGATTTTTTTATTAC
23494640 AACTTATTTGAAAAGATTTTTT
1 AACTTATTTGAAAAGATTTTTT
23494662 CTTATTTATT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 76 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.51
Consensus pattern (28 bp):
AACTTATTTGAAAAGATTTTTTTATTAC
Found at i:23495286 original size:19 final size:19
Alignment explanation
Indices: 23495255--23495293 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
23495245 AAATTCATCC
*
23495255 AAAACCCAGATTTTC-CAA
1 AAAACCCAAATTTTCTCAA
23495273 AAAATCCCAAATTTTCTCAA
1 AAAA-CCCAAATTTTCTCAA
23495293 A
1 A
23495294 TTGCCCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 10 0.56
20 4 0.22
ACGTcount: A:0.46, C:0.26, G:0.03, T:0.26
Consensus pattern (19 bp):
AAAACCCAAATTTTCTCAA
Found at i:23495792 original size:21 final size:22
Alignment explanation
Indices: 23495755--23495795 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
23495745 AAAATAAAAA
23495755 ATAATAATAATGATGATATAAT
1 ATAATAATAATGATGATATAAT
23495777 ATAAT-ATAAT-ACTGATATA
1 ATAATAATAATGA-TGATATA
23495796 GCATACCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 12 0.67
22 5 0.28
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (22 bp):
ATAATAATAATGATGATATAAT
Found at i:23499655 original size:20 final size:18
Alignment explanation
Indices: 23499623--23499669 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 18
23499613 TTTCAAGCAA
23499623 TTTTTTTTCTTTTTTTCC
1 TTTTTTTTCTTTTTTTCC
23499641 TTTTTTTCTCATTTTTTTCC
1 TTTTTTT-TC-TTTTTTTCC
23499661 TTTGTTTTT
1 TTT-TTTTT
23499670 TAACATAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.27
19 2 0.08
20 13 0.50
21 4 0.15
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTTTTTCTTTTTTTCC
Found at i:23502686 original size:7 final size:7
Alignment explanation
Indices: 23502676--23502832 Score: 66
Period size: 7 Copynumber: 23.9 Consensus size: 7
23502666 TTTAAGGGTT
23502676 GGTTTAG
1 GGTTTAG
23502683 GGTTT-G
1 GGTTTAG
*
23502689 GGGTTA-
1 GGTTTAG
*
23502695 -GTTTAT
1 GGTTTAG
*
23502701 GGTCTA-
1 GGTTTAG
23502707 GG-TTAG
1 GGTTTAG
*
23502713 GGTTTTG
1 GGTTTAG
* *
23502720 GTTTTAA
1 GGTTTAG
*
23502727 GGTTTAA
1 GGTTTAG
23502734 GG-TTAG
1 GGTTTAG
*
23502740 GGTTTGG
1 GGTTTAG
*
23502747 GGATTAG
1 GGTTTAG
*
23502754 GGATTA-
1 GGTTTAG
23502760 GGTTT-G
1 GGTTTAG
*
23502766 GAGTTTGG
1 G-GTTTAG
23502774 GGTTTAG
1 GGTTTAG
*
23502781 GATTTAG
1 GGTTTAG
*
23502788 GGTTTAA
1 GGTTTAG
* *
23502795 GATTTGG
1 GGTTTAG
*
23502802 GGCTT--
1 GGTTTAG
23502807 GGTTTA-
1 GGTTTAG
*
23502813 GGTTTAA
1 GGTTTAG
*
23502820 GGTTTAT
1 GGTTTAG
23502827 GGTTTA
1 GGTTTA
23502833 AGATTTTGAT
Statistics
Matches: 114, Mismatches: 25, Indels: 22
0.71 0.16 0.14
Matches are distributed among these distances:
5 10 0.09
6 25 0.22
7 77 0.68
8 2 0.02
ACGTcount: A:0.17, C:0.01, G:0.38, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:23502784 original size:26 final size:26
Alignment explanation
Indices: 23502705--23502781 Score: 73
Period size: 27 Copynumber: 2.9 Consensus size: 26
23502695 GTTTATGGTC
* ** * *
23502705 TAGGTTAGGGTTTTGGTTTTAAGGTT
1 TAGGTTAGGGTTTGGGGATTAGGGAT
23502731 TAAGGTTAGGGTTTGGGGATTAGGGAT
1 T-AGGTTAGGGTTTGGGGATTAGGGAT
* *
23502758 TAGGTTTGGAGTTTGGGGTTTAGG
1 TAGGTTAGG-GTTTGGGGATTAGG
23502782 ATTTAGGGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 8 0.19
27 34 0.81
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.42
Consensus pattern (26 bp):
TAGGTTAGGGTTTGGGGATTAGGGAT
Found at i:23502787 original size:27 final size:27
Alignment explanation
Indices: 23502733--23502817 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 27
23502723 TTAAGGTTTA
*
23502733 AGGTTAGG-GTTTGGGGATTAGGGA-TT
1 AGGTTTGGAGTTTGGGGATTA-GGATTT
*
23502759 AGGTTTGGAGTTTGGGGTTTAGGATTT
1 AGGTTTGGAGTTTGGGGATTAGGATTT
* *
23502786 AGGGTTT-AAGATTTGGGGCTT-GG-TTT
1 A-GGTTTGGAG-TTTGGGGATTAGGATTT
23502812 AGGTTT
1 AGGTTT
23502818 AAGGTTTATG
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
25 5 0.10
26 14 0.27
27 18 0.35
28 14 0.27
ACGTcount: A:0.16, C:0.01, G:0.41, T:0.41
Consensus pattern (27 bp):
AGGTTTGGAGTTTGGGGATTAGGATTT
Found at i:23516070 original size:159 final size:156
Alignment explanation
Indices: 23515857--23516290 Score: 464
Period size: 157 Copynumber: 2.7 Consensus size: 156
23515847 TTGAGATACA
* * ** * *
23515857 ATGACTTTGTGAAAGGTGAAAATTATTGCATATTTTGCTTTGTGATTT-TTGTTATGTAGTGCGC
1 ATGACTTTGTGAAAGGTAAAAATTGTTGTGTATTTTGCTTT-T-ATTTCTTGTTATGTATTGTGC
* * * *
23515921 TTGTTGGTGAATTACTTTTATAGTAATTCGAAGCATAAAATTTATTGGAAATTCTTTATTGAATT
64 TTGTTGATGAATTACTTTTATAGTAATTCAAAGC-TAAAATTTATAGGAAATTCTCTATTGAATT
**
23515986 AGATAGTATGTTGTGTGTGTATT-ACAATG-T
128 AGATAG--TGTAATGTGTGTATTGA-AATGCT
*
23516016 AGTGACTTTGTGAAAGGTAAAAATTGTTGTGTA-TTTGCTTTCTATTTCTTGTTATGTATTATGC
1 A-TGACTTTGTGAAAGGTAAAAATTGTTGTGTATTTTGCTTT-TATTTCTTGTTATGTATTGTGC
* * * *
23516080 TTGTTGATGAATTACTTTTATAGTAATTCAAAACTACCAATTTGTAGGAAGTTCTCTATTGAATT
64 TTGTTGATGAATTACTTTTATAGTAATTCAAAGCTA-AAATTTATAGGAAATTCTCTATTGAATT
* *
23516145 AGGTAGTGTAATGTGTGTATTGAGATGCT
128 AGATAGTGTAATGTGTGTATTGAAATGCT
* * * * * * * *
23516174 ATGACTTAGTGAAAGGTAAAAACTGTTATGTATTTTTCTTTGAGATTCTTGTTGTGTATTGTACT
1 ATGACTTTGTGAAAGGTAAAAATTGTTGTGTATTTTGCTTTTA-TTTCTTGTTATGTATTGTGCT
* * *
23516239 T-TTGATGAACTACTTTTATAGTAATTCAAAGCCTAAAGTTTATAAGAAATTC
65 TGTTGATGAATTACTTTTATAGTAATTCAAAG-CTAAAATTTATAGGAAATTC
23516291 AATATTAAAC
Statistics
Matches: 231, Mismatches: 36, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
157 85 0.37
158 37 0.16
159 82 0.35
160 27 0.12
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (156 bp):
ATGACTTTGTGAAAGGTAAAAATTGTTGTGTATTTTGCTTTTATTTCTTGTTATGTATTGTGCTT
GTTGATGAATTACTTTTATAGTAATTCAAAGCTAAAATTTATAGGAAATTCTCTATTGAATTAGA
TAGTGTAATGTGTGTATTGAAATGCT
Found at i:23516343 original size:157 final size:157
Alignment explanation
Indices: 23515856--23516344 Score: 459
Period size: 157 Copynumber: 3.1 Consensus size: 157
23515846 TTTGAGATAC
* * * *** * * * *
23515856 AATGACTTTGTGAAAGGTGAAAATTATTGCATATTTTGCTTTGTGATTTTTGTTATGTAGTGCGC
1 AATGACTTTGTGAAAGGTAAAAACTGTTATGTATTTTGCTTTGAGATTCTTGTTATGTATTGTGC
* * * * *
23515921 TTGTTGGTGAATTACTTTTATAGTAATTCGAAGCATAAAATTTATTGGAAATTCTTTATTGAATT
66 TTGTTGATGAATTACTTTTATAGTAATTCAAAGCCT-AAATTTATAGGAAATTCTATATTGAATT
* *
23515986 AGATAGTATGTTGTGTGTGTATTACA-ATGT
130 AGAT--TGTGTTATGTGTGTATTA-AGATGT
* * * * * *
23516016 AGTGACTTTGTGAAAGGTAAAAATTGTTGTGTA-TTTGCTTTCTA-TTTCTTGTTATGTATTATG
1 AATGACTTTGTGAAAGGTAAAAACTGTTATGTATTTTGCTTT-GAGATTCTTGTTATGTATTGTG
* * * *
23516079 CTTGTTGATGAATTACTTTTATAGTAATTCAAA-ACTACCAATTTGTAGGAAGTTCTCTATTGAA
65 CTTGTTGATGAATTACTTTTATAGTAATTCAAAGCCTA--AATTTATAGGAAATTCTATATTGAA
* * * *
23516143 TTAGGTAGTGTAATGTGTGTATTGAGATGCT
128 TTAGATTGTGTTATGTGTGTATTAAGATG-T
* * * *
23516174 -ATGACTTAGTGAAAGGTAAAAACTGTTATGTATTTTTCTTTGAGATTCTTGTTGTGTATTGTAC
1 AATGACTTTGTGAAAGGTAAAAACTGTTATGTATTTTGCTTTGAGATTCTTGTTATGTATTGTGC
* * * * *
23516238 TT-TTGATGAACTACTTTTATAGTAATTCAAAGCCTAAAGTTTATAAGAAATTCAATATTAAACT
66 TTGTTGATGAATTACTTTTATAGTAATTCAAAGCCTAAA-TTTATAGGAAATTCTATATTGAATT
* * *
23516302 AGATTGTGTTTTATGCGTATTAAGATGT
130 AGATTGTGTTATGTGTGTATTAAGATGT
*
23516330 AATGGCTTTGTGAAA
1 AATGACTTTGTGAAA
23516345 TACAAAAACT
Statistics
Matches: 265, Mismatches: 54, Indels: 23
0.77 0.16 0.07
Matches are distributed among these distances:
156 4 0.02
157 124 0.47
158 30 0.11
159 79 0.30
160 28 0.11
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (157 bp):
AATGACTTTGTGAAAGGTAAAAACTGTTATGTATTTTGCTTTGAGATTCTTGTTATGTATTGTGC
TTGTTGATGAATTACTTTTATAGTAATTCAAAGCCTAAATTTATAGGAAATTCTATATTGAATTA
GATTGTGTTATGTGTGTATTAAGATGT
Found at i:23517298 original size:11 final size:11
Alignment explanation
Indices: 23517284--23517338 Score: 67
Period size: 11 Copynumber: 5.0 Consensus size: 11
23517274 TTATCAATTA
23517284 ATTACTAATGG
1 ATTACTAATGG
*
23517295 ATTACTAATGA
1 ATTACTAATGG
*
23517306 ATTAGC-AATGA
1 ATTA-CTAATGG
*
23517317 ATTACTAATTG
1 ATTACTAATGG
23517328 ATTACTAATGG
1 ATTACTAATGG
23517339 TTTATTAGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
10 1 0.03
11 36 0.95
12 1 0.03
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (11 bp):
ATTACTAATGG
Found at i:23517308 original size:22 final size:23
Alignment explanation
Indices: 23517279--23517338 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 23
23517269 ACAAATTATC
23517279 AATT-AATTACTAATGGATTACT
1 AATTGAATTACTAATGGATTACT
*
23517301 AA-TGAATTAGC-AATGAATTACT
1 AATTGAATTA-CTAATGGATTACT
23517323 AATTG-ATTACTAATGG
1 AATTGAATTACTAATGG
23517339 TTTATTAGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 2 0.06
22 27 0.84
23 3 0.09
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (23 bp):
AATTGAATTACTAATGGATTACT
Found at i:23517320 original size:33 final size:33
Alignment explanation
Indices: 23517272--23517337 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
23517262 TTTATTGACA
* *
23517272 AATTATCAATTAATTACTAATGGATTACTAATG
1 AATTAGCAATGAATTACTAATGGATTACTAATG
*
23517305 AATTAGCAATGAATTACTAATTGATTACTAATG
1 AATTAGCAATGAATTACTAATGGATTACTAATG
23517338 GTTTATTAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (33 bp):
AATTAGCAATGAATTACTAATGGATTACTAATG
Found at i:23518866 original size:60 final size:60
Alignment explanation
Indices: 23518773--23518894 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
23518763 TATGTCCTCC
23518773 TAAAAACTCATTAACGATTAGGCTCAAGACTTGAGGATGAAGTTGATACCATAGTGCATA
1 TAAAAACTCATTAACGATTAGGCTCAAGACTTGAGGATGAAGTTGATACCATAGTGCATA
23518833 TAAAAACTCATTAACGATTAGGCTCAAGACTTGAGGATGAAGTTGATACCATAGTGCATA
1 TAAAAACTCATTAACGATTAGGCTCAAGACTTGAGGATGAAGTTGATACCATAGTGCATA
23518893 TA
1 TA
23518895 GAGATTTGAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (60 bp):
TAAAAACTCATTAACGATTAGGCTCAAGACTTGAGGATGAAGTTGATACCATAGTGCATA
Found at i:23519559 original size:33 final size:32
Alignment explanation
Indices: 23519487--23519561 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 32
23519477 TTTATTTGCT
* *
23519487 TTATATTTCACATAAAGCTATAATTTATTTATG
1 TTATATTT-ACATAAAGCTATAATTTATTAATA
*
23519520 TCATATTT-CATAAAGCTATAATTTATATAATTA
1 TTATATTTACATAAAGCTATAATTTAT-TAA-TA
23519553 TTATATTTA
1 TTATATTTA
23519562 TTTAATAGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
31 18 0.51
32 2 0.06
33 15 0.43
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (32 bp):
TTATATTTACATAAAGCTATAATTTATTAATA
Found at i:23522379 original size:109 final size:109
Alignment explanation
Indices: 23522188--23522515 Score: 629
Period size: 109 Copynumber: 3.0 Consensus size: 109
23522178 TCGTCAAAAC
* *
23522188 GGCTGGGAGAAAGCAAAAACAAACAGCTAAGAAGTAGCAAACAGAAGAAGACAGAAGCATGAAAC
1 GGCTGGGAGAAAGCAAAAACAAACAGCGAAGAAGTAGCTAACAGAAGAAGACAGAAGCATGAAAC
23522253 AGTGAAAAAGCCAGAAAGCAGACAGGAGGCAGTGAGAAAGGAAG
66 AGTGAAAAAGCCAGAAAGCAGACAGGAGGCAGTGAGAAAGGAAG
23522297 GGCTGGGAGAAAGCAAAAACAAACAGCGAAGAAGTAGCTAACAGAAGAAGACAGAAGCATGAAAC
1 GGCTGGGAGAAAGCAAAAACAAACAGCGAAGAAGTAGCTAACAGAAGAAGACAGAAGCATGAAAC
*
23522362 AGTGAAAAAGCCAGAAAGCAGACAGGAGACAGTGAGAAAGGAAG
66 AGTGAAAAAGCCAGAAAGCAGACAGGAGGCAGTGAGAAAGGAAG
23522406 GGCTGGGAGAAAGCAAAAACAAACAGCGAAGAAGTAGCTAACAGAAGAAGACAGAAGCATGAAAC
1 GGCTGGGAGAAAGCAAAAACAAACAGCGAAGAAGTAGCTAACAGAAGAAGACAGAAGCATGAAAC
23522471 AGTGAAAAAGCCAGAAAGCAGACAGGAGGCAGTGAGAAAGGAAG
66 AGTGAAAAAGCCAGAAAGCAGACAGGAGGCAGTGAGAAAGGAAG
23522515 G
1 G
23522516 AACTGAACAG
Statistics
Matches: 215, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
109 215 1.00
ACGTcount: A:0.50, C:0.14, G:0.31, T:0.05
Consensus pattern (109 bp):
GGCTGGGAGAAAGCAAAAACAAACAGCGAAGAAGTAGCTAACAGAAGAAGACAGAAGCATGAAAC
AGTGAAAAAGCCAGAAAGCAGACAGGAGGCAGTGAGAAAGGAAG
Found at i:23522835 original size:14 final size:14
Alignment explanation
Indices: 23522816--23522842 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23522806 AGCAGAATAG
23522816 AGAAAAAAAAAAAA
1 AGAAAAAAAAAAAA
23522830 AGAAAAAAAAAAA
1 AGAAAAAAAAAAA
23522843 GAGGAAGGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAAAAAA
Found at i:23522837 original size:12 final size:12
Alignment explanation
Indices: 23522820--23522844 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23522810 GAATAGAGAA
23522820 AAAAAAAAAAAG
1 AAAAAAAAAAAG
23522832 AAAAAAAAAAAG
1 AAAAAAAAAAAG
23522844 A
1 A
23522845 GGAAGGCGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:23535003 original size:17 final size:16
Alignment explanation
Indices: 23534975--23535024 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
23534965 CTTTGGTCTT
23534975 TTTCTTT-CTTTTTT-
1 TTTCTTTCCTTTTTTA
*
23534989 TTATTTTTCCTTTTTTA
1 TT-TCTTTCCTTTTTTA
23535006 TTTCTTTCCTTTTTTA
1 TTTCTTTCCTTTTTTA
23535022 TTT
1 TTT
23535025 TAATTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 2 0.06
15 4 0.13
16 23 0.74
17 2 0.06
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTCTTTCCTTTTTTA
Found at i:23536471 original size:4 final size:4
Alignment explanation
Indices: 23536464--23536521 Score: 89
Period size: 4 Copynumber: 14.5 Consensus size: 4
23536454 TTCGCATGCA
**
23536464 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TACA TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
23536512 TATG AATG TA
1 TATG TATG TA
23536522 CACAAACTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:23537063 original size:30 final size:32
Alignment explanation
Indices: 23537027--23537097 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
23537017 AAAAAAAATC
*
23537027 AAATAAAAATTA-T-AAAAATCATTAAATA-AA
1 AAATAAAAATTATTAAAAAAT-ATTAAAAATAA
*
23537057 AAATAAAAATTATTAAAAAATTTTAAAAATAA
1 AAATAAAAATTATTAAAAAATATTAAAAATAA
23537089 AAATAAAAA
1 AAATAAAAA
23537098 AAAAACTTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
30 12 0.33
31 7 0.19
32 17 0.47
ACGTcount: A:0.72, C:0.01, G:0.00, T:0.27
Consensus pattern (32 bp):
AAATAAAAATTATTAAAAAATATTAAAAATAA
Found at i:23537066 original size:21 final size:22
Alignment explanation
Indices: 23537027--23537073 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 22
23537017 AAAAAAAATC
23537027 AAATAAAAATTATAAAAATCATT
1 AAATAAAAA-TATAAAAATCATT
*
23537050 AAATAAAAA-ATAAAAATTATT
1 AAATAAAAATATAAAAATCATT
23537071 AAA
1 AAA
23537074 AAATTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.61
23 9 0.39
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (22 bp):
AAATAAAAATATAAAAATCATT
Found at i:23537098 original size:33 final size:31
Alignment explanation
Indices: 23537018--23537098 Score: 78
Period size: 32 Copynumber: 2.5 Consensus size: 31
23537008 TTAAACCAAA
23537018 AAAAAAATCAAAT-AAAAATTATAAAAATCATT
1 AAAAAAA--AAATAAAAAATTATAAAAATCATT
* *
23537050 AAATAAAAAAT-AAAAATTATTAAAAAAT-TTT
1 AAAAAAAAAATAAAAAATTA-T-AAAAATCATT
23537081 AAAAATAAAAATAAAAAA
1 AAAAA-AAAAATAAAAAA
23537099 AAAACTTGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
30 12 0.29
31 7 0.17
32 18 0.43
33 5 0.12
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (31 bp):
AAAAAAAAAATAAAAAATTATAAAAATCATT
Found at i:23540672 original size:17 final size:17
Alignment explanation
Indices: 23540644--23540739 Score: 79
Period size: 17 Copynumber: 5.5 Consensus size: 17
23540634 ATTATATGGT
23540644 ATCAACATTACTATTTTG
1 ATCAA-ATTACTATTTTG
23540662 ATCAAATTACTATTTTG
1 ATCAAATTACTATTTTG
* *
23540679 ATCAAATT-CCATTGTGG
1 ATCAAATTACTATT-TTG
* *
23540696 CATCAACATTACTTTTTTT
1 -ATCAA-ATTACTATTTTG
* *
23540715 ATCAAAATACT-TTTTC
1 ATCAAATTACTATTTTG
*
23540731 TTCAAATTA
1 ATCAAATTA
23540740 TGTCTATTAT
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
16 15 0.23
17 27 0.42
18 15 0.23
19 4 0.06
20 3 0.05
ACGTcount: A:0.33, C:0.17, G:0.05, T:0.45
Consensus pattern (17 bp):
ATCAAATTACTATTTTG
Found at i:23542215 original size:23 final size:21
Alignment explanation
Indices: 23542189--23542239 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
23542179 ACTCATTGAC
23542189 TAAAAAATAATAAA-ACTAAAAA
1 TAAAAAA-AA-AAAGACTAAAAA
23542211 TTAAACAAAAAAAAGACTAAAAA
1 -TAAA-AAAAAAAAGACTAAAAA
23542234 TAAAAA
1 TAAAAA
23542240 TAACATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 2 0.08
22 7 0.27
23 14 0.54
24 3 0.12
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (21 bp):
TAAAAAAAAAAAGACTAAAAA
Found at i:23542722 original size:44 final size:43
Alignment explanation
Indices: 23542500--23542896 Score: 207
Period size: 43 Copynumber: 9.3 Consensus size: 43
23542490 AAATGCTTCA
* ** * * * *
23542500 AAACTTTTGGAAAATAAAACACTTTCCCTTAACAGAGGTTTTA
1 AAACTTTTAGAAAATAAAATGCTTCCCCTCAACAGAGGCTTTG
* * **
23542543 AAACTTTCAAAAAATAAAATGCTTCATCTC-ACTAGAGGCTTTG
1 AAACTTTTAGAAAATAAAATGCTTCCCCTCAAC-AGAGGCTTTG
* * * * *
23542586 AAACTTTTAAAAAATAGAATAC-TCCCCTTCAACAAAGGCCTTG
1 AAACTTTTAGAAAATAAAATGCTTCCCC-TCAACAGAGGCTTTG
* * * *
23542629 AAACTTTCAGAAAAAAAAAATGC-TCCCTTTC-ACTA-AAGCTTTCG
1 AAACTTTTAG-AAAATAAAATGCTTCCC-CTCAAC-AGAGGCTTT-G
*
23542673 CAACTTTTAGAAAATAAAATGCTTCCACCTCAACAGAGTG-TTTG
1 AAACTTTTAGAAAATAAAATGCTTCC-CCTCAACAGAG-GCTTTG
* * * *
23542717 AAACTTTT-GTAAATAAAATGC-TCACCCT-ATCAAAAGCTTT-
1 AAACTTTTAGAAAATAAAATGCTTC-CCCTCAACAGAGGCTTTG
* * * *
23542757 AGAACTTTTGGAAAATAAAATGCTTCTCCT-TACTAGATGCTTTG
1 A-AACTTTTAGAAAATAAAATGCTTCCCCTCAAC-AGAGGCTTTG
* * * * *
23542801 AAACTTTTAGAAAGT-ACAT-ATTCCCC-CTACTGTAGGCTTTG
1 AAACTTTTAGAAAATAAAATGCTTCCCCTCAACAG-AGGCTTTG
* * * * *
23542842 AAACTTTTGGAAAGTAAAATGC-TCCTCC-CACCAAAAGCTTTG
1 AAACTTTTAGAAAATAAAATGCTTCC-CCTCAACAGAGGCTTTG
23542884 AAACTTTT-GAAAA
1 AAACTTTTAGAAAA
23542897 AGTAAAAAAG
Statistics
Matches: 272, Mismatches: 58, Indels: 50
0.72 0.15 0.13
Matches are distributed among these distances:
40 3 0.01
41 47 0.17
42 50 0.18
43 122 0.45
44 42 0.15
45 7 0.03
46 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (43 bp):
AAACTTTTAGAAAATAAAATGCTTCCCCTCAACAGAGGCTTTG
Found at i:23542890 original size:42 final size:41
Alignment explanation
Indices: 23542713--23542903 Score: 138
Period size: 41 Copynumber: 4.6 Consensus size: 41
23542703 CAACAGAGTG
* * *
23542713 TTTGAAACTTTTGTAAA-TAAAATGCTCACCCTATCAAAAGC
1 TTTGAAACTTTTGGAAAGTAAAATGCTC-CCCCACCAAAAGC
* ** * * *
23542754 TTT-AGAACTTTTGGAAAATAAAATGCTTCTCCTTACTAGATGC
1 TTTGA-AACTTTTGGAAAGTAAAATGC-TC-CCCCACCAAAAGC
* * *** *
23542797 TTTGAAACTTTTAGAAAGTACATAT--TCCCCCTACTGTAGGC
1 TTTGAAACTTTTGGAAAGTA-AAATGCTCCCCC-ACCAAAAGC
23542838 TTTGAAACTTTTGGAAAGTAAAATGCTCCTCCCACCAAAAGC
1 TTTGAAACTTTTGGAAAGTAAAATGCTCC-CCCACCAAAAGC
*
23542880 TTTGAAACTTTTGAAAAAGTAAAA
1 TTTGAAACTTTTG-GAAAGTAAAA
23542904 AAGATACTTG
Statistics
Matches: 118, Mismatches: 22, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
40 6 0.05
41 41 0.35
42 29 0.25
43 38 0.32
44 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.32
Consensus pattern (41 bp):
TTTGAAACTTTTGGAAAGTAAAATGCTCCCCCACCAAAAGC
Found at i:23544022 original size:19 final size:18
Alignment explanation
Indices: 23543997--23544055 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
23543987 TCAATTTAAG
23543997 TTTTCTTTTTTTTTCATT
1 TTTTCTTTTTTTTTCATT
23544015 TTTCTCTTTTTCTTTT--TT
1 TTT-TCTTTTT-TTTTCATT
*
23544033 TTTTCATTTTTTTTCCATT
1 TTTTC-TTTTTTTTTCATT
23544052 TTTT
1 TTTT
23544056 TGCACATATC
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
17 5 0.14
18 13 0.37
19 13 0.37
20 4 0.11
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTCTTTTTTTTTCATT
Found at i:23544035 original size:11 final size:11
Alignment explanation
Indices: 23543997--23544056 Score: 50
Period size: 11 Copynumber: 5.1 Consensus size: 11
23543987 TCAATTTAAG
23543997 TTTTC-TTTTT
1 TTTTCTTTTTT
23544007 TTTTCATTTTTCTCT
1 TTTTC--TTTT-T-T
23544022 TTTTCTTTTTT
1 TTTTCTTTTTT
*
23544033 TTTTCATTTTT
1 TTTTCTTTTTT
*
23544044 TTTCCATTTTTT
1 TTTTC-TTTTTT
23544056 T
1 T
23544057 GCACATATCT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
10 5 0.12
11 15 0.37
12 7 0.17
13 7 0.17
14 1 0.02
15 6 0.15
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:23544056 original size:26 final size:25
Alignment explanation
Indices: 23543997--23544056 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
23543987 TCAATTTAAG
**
23543997 TTTTCTTTTTTTTTCATTTTTCTCTT
1 TTTT-TTTTTTTTTCATTTTTCTCCA
*
23544023 TTTCTTTTTTTTTTCATTTTTTTTCCA
1 TTT-TTTTTTTTTTCA-TTTTTCTCCA
23544050 TTTTTTT
1 TTTTTTT
23544057 GCACATATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 18 0.62
27 11 0.38
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (25 bp):
TTTTTTTTTTTTTCATTTTTCTCCA
Found at i:23548377 original size:21 final size:22
Alignment explanation
Indices: 23548338--23548380 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
23548328 CAAATAAATC
23548338 ATATCATAATAAAATCATGCAA
1 ATATCATAATAAAATCATGCAA
*
23548360 ATATCATAAT-ATATCATGCAA
1 ATATCATAATAAAATCATGCAA
23548381 TAAAAAAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (22 bp):
ATATCATAATAAAATCATGCAA
Found at i:23548459 original size:19 final size:20
Alignment explanation
Indices: 23548422--23548461 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
23548412 TTAATAATAA
*
23548422 ATAATAAATCATGCAAAAAT
1 ATAATAAATCATACAAAAAT
23548442 ATAA-AAATCATACCAAAAAT
1 ATAATAAATCATA-CAAAAAT
23548462 CATGTCAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.23
Consensus pattern (20 bp):
ATAATAAATCATACAAAAAT
Found at i:23548502 original size:26 final size:26
Alignment explanation
Indices: 23548456--23548523 Score: 91
Period size: 26 Copynumber: 2.5 Consensus size: 26
23548446 AAATCATACC
* *
23548456 AAAAATCATGTCAAGATATCATGCAAT
1 AAAAATCATG-CAAAACATCATGCAAT
23548483 AAAAATCATGCAAAACATCATGCAAT
1 AAAAATCATGCAAAACATCATGCAAT
23548509 AAATATATCATGCAA
1 AAA-A-ATCATGCAA
23548524 TCATACAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 17 0.46
27 11 0.30
28 9 0.24
ACGTcount: A:0.51, C:0.16, G:0.09, T:0.24
Consensus pattern (26 bp):
AAAAATCATGCAAAACATCATGCAAT
Found at i:23548504 original size:12 final size:11
Alignment explanation
Indices: 23548427--23548512 Score: 61
Period size: 12 Copynumber: 7.4 Consensus size: 11
23548417 AATAAATAAT
23548427 AAATCATGCAA
1 AAATCATGCAA
23548438 AAAT-AT--AA
1 AAATCATGCAA
*
23548446 AAATCATACCAA
1 AAATCAT-GCAA
23548458 AAATCATGTCAA
1 AAATCATG-CAA
*
23548470 GATATCATGCAATAA
1 -AAATCATGC---AA
23548485 AAATCATGCAA
1 AAATCATGCAA
23548496 AACATCATGCAA
1 AA-ATCATGCAA
23548508 TAAAT
1 -AAAT
23548513 ATATCATGCA
Statistics
Matches: 61, Mismatches: 3, Indels: 21
0.72 0.04 0.25
Matches are distributed among these distances:
8 6 0.10
9 2 0.03
10 2 0.03
11 8 0.13
12 24 0.39
13 9 0.15
14 8 0.13
15 2 0.03
ACGTcount: A:0.55, C:0.16, G:0.07, T:0.22
Consensus pattern (11 bp):
AAATCATGCAA
Found at i:23548589 original size:20 final size:20
Alignment explanation
Indices: 23548560--23548598 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23548550 TGCGAAAAAT
*
23548560 ATCATACAAATATATAATAC
1 ATCATACAAATAAATAATAC
*
23548580 ATCATGCAAATAAATAATA
1 ATCATACAAATAAATAATA
23548599 AATAATATCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.13, G:0.03, T:0.28
Consensus pattern (20 bp):
ATCATACAAATAAATAATAC
Found at i:23548802 original size:20 final size:19
Alignment explanation
Indices: 23548779--23548854 Score: 73
Period size: 20 Copynumber: 3.7 Consensus size: 19
23548769 TTTTTAATTG
*
23548779 AATCACAATAAAAATAATAA
1 AATCAAAATAAAAA-AATAA
*
23548799 AATCAAAATAGAAAAATAAA
1 AATCAAAATAAAAAAAT-AA
23548819 AAT-AAAATAAAATAAAATCAA
1 AATCAAAAT-AAA-AAAAT-AA
23548840 AATCAAAAGTAAAAA
1 AATCAAAA-TAAAAA
23548855 GAAAATGGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
19 8 0.17
20 19 0.40
21 12 0.26
22 7 0.15
23 1 0.02
ACGTcount: A:0.74, C:0.07, G:0.03, T:0.17
Consensus pattern (19 bp):
AATCAAAATAAAAAAATAA
Found at i:23548825 original size:5 final size:5
Alignment explanation
Indices: 23548785--23548853 Score: 54
Period size: 6 Copynumber: 13.4 Consensus size: 5
23548775 ATTGAATCAC
* *
23548785 AATAA AA-AT AATAA AATCAA AAT-A GA-AA AATAAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AAT-AA AATAA AATAA AAT-AA AATAA AATAA AATAA
23548834 AATCAA AATCAA AAGTAA AA
1 AAT-AA AAT-AA AA-TAA AA
23548854 AGAAAATGGA
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
4 7 0.13
5 21 0.40
6 24 0.45
7 1 0.02
ACGTcount: A:0.75, C:0.04, G:0.03, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:23548853 original size:34 final size:35
Alignment explanation
Indices: 23548785--23548860 Score: 102
Period size: 34 Copynumber: 2.2 Consensus size: 35
23548775 ATTGAATCAC
* *
23548785 AATAAAA-ATAATAAAATCAAAATAGAAAAATAAA
1 AATAAAATAAAATAAAATCAAAATACAAAAATAAA
*
23548819 AATAAAATAAAATAAAATCAAAAT-CAAAAGTAAA
1 AATAAAATAAAATAAAATCAAAATACAAAAATAAA
*
23548853 AAGAAAAT
1 AATAAAAT
23548861 GGAAAATGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
34 22 0.59
35 15 0.41
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.17
Consensus pattern (35 bp):
AATAAAATAAAATAAAATCAAAATACAAAAATAAA
Found at i:23550202 original size:20 final size:20
Alignment explanation
Indices: 23550166--23550223 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
23550156 AGTGGATTAA
*
23550166 GGTTTTGCTTTAAGGTTTTTG
1 GGTTTTG-TTTAAGGTTTTGG
*
23550187 GGTTTTGTTTATGG-TTTGG
1 GGTTTTGTTTAAGGTTTTGG
* *
23550206 GGTTTTATTTAGGGTTTT
1 GGTTTTGTTTAAGGTTTT
23550224 AATTTTAGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 16 0.50
20 9 0.28
21 7 0.22
ACGTcount: A:0.09, C:0.02, G:0.31, T:0.59
Consensus pattern (20 bp):
GGTTTTGTTTAAGGTTTTGG
Found at i:23550232 original size:14 final size:12
Alignment explanation
Indices: 23550205--23550252 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 12
23550195 TTATGGTTTG
23550205 GGGTTTTATTTA
1 GGGTTTTATTTA
23550217 GGGTTTTAATTTTA
1 GGGTTTT-A-TTTA
23550231 GGGTTTT-TTTA
1 GGGTTTTATTTA
*
23550242 GGGTTTCATTT
1 GGGTTTTATTT
23550253 TAGAGTTTCG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 10 0.31
12 10 0.31
13 1 0.03
14 11 0.34
ACGTcount: A:0.15, C:0.02, G:0.25, T:0.58
Consensus pattern (12 bp):
GGGTTTTATTTA
Found at i:23550247 original size:25 final size:25
Alignment explanation
Indices: 23550205--23550260 Score: 78
Period size: 24 Copynumber: 2.2 Consensus size: 25
23550195 TTATGGTTTG
23550205 GGGTTTTATTTAGGGTTTTAATTTTA
1 GGGTTTTATTTAGGG-TTTAATTTTA
*
23550231 GGGTTTT-TTTAGGGTTTCATTTTA
1 GGGTTTTATTTAGGGTTTAATTTTA
*
23550255 GAGTTT
1 GGGTTT
23550261 CGAGGTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 14 0.50
25 7 0.25
26 7 0.25
ACGTcount: A:0.16, C:0.02, G:0.25, T:0.57
Consensus pattern (25 bp):
GGGTTTTATTTAGGGTTTAATTTTA
Found at i:23550255 original size:13 final size:13
Alignment explanation
Indices: 23550213--23550261 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
23550203 TGGGGTTTTA
*
23550213 TTTAGGGTTTTAAT
1 TTTAGGG-TTTCAT
23550227 TTTAGGGTTT--T
1 TTTAGGGTTTCAT
23550238 TTTAGGGTTTCAT
1 TTTAGGGTTTCAT
*
23550251 TTTAGAGTTTC
1 TTTAGGGTTTC
23550262 GAGGTTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
11 11 0.34
13 14 0.44
14 7 0.22
ACGTcount: A:0.16, C:0.04, G:0.22, T:0.57
Consensus pattern (13 bp):
TTTAGGGTTTCAT
Found at i:23552614 original size:18 final size:18
Alignment explanation
Indices: 23552565--23552607 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
23552555 ATTTTACATC
*
23552565 TTTTATTTGGTTTTATAT
1 TTTTATTTAGTTTTATAT
23552583 TTTTATTTAGTTTTATAT
1 TTTTATTTAGTTTTATAT
23552601 TTTTATT
1 TTTTATT
23552608 ATATTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (18 bp):
TTTTATTTAGTTTTATAT
Found at i:23553007 original size:20 final size:19
Alignment explanation
Indices: 23552982--23553028 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
23552972 TGTTTTGTGG
* * *
23552982 TTTTTTTTAGTTTTTAGTT
1 TTTTTTTTTGTTTTCACTT
23553001 TTTTTTTCTTGTTTTCACTT
1 TTTTTTT-TTGTTTTCACTT
23553021 TTTTTTTT
1 TTTTTTTT
23553029 GCTGTTTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.81
Consensus pattern (19 bp):
TTTTTTTTTGTTTTCACTT
Found at i:23554481 original size:7 final size:7
Alignment explanation
Indices: 23554467--23554495 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
23554457 TTTCTTTTTC
23554467 TTTG-TT
1 TTTGTTT
23554473 TTTGTTT
1 TTTGTTT
23554480 TTTGTTT
1 TTTGTTT
23554487 TTTGTTT
1 TTTGTTT
23554494 TT
1 TT
23554496 ATTTTTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (7 bp):
TTTGTTT
Found at i:23554507 original size:20 final size:20
Alignment explanation
Indices: 23554467--23554509 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
23554457 TTTCTTTTTC
* **
23554467 TTTGTTTTTGTTTTTTGTTT
1 TTTGTTTTTATTTTTAATTT
23554487 TTTGTTTTTATTTTTAATTT
1 TTTGTTTTTATTTTTAATTT
23554507 TTT
1 TTT
23554510 TTCCTTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.07, C:0.00, G:0.09, T:0.84
Consensus pattern (20 bp):
TTTGTTTTTATTTTTAATTT
Found at i:23561137 original size:3 final size:3
Alignment explanation
Indices: 23561129--23561174 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
23561119 TTAATCATGA
23561129 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
23561175 CTACTACTAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:23561179 original size:3 final size:3
Alignment explanation
Indices: 23561173--23561309 Score: 193
Period size: 3 Copynumber: 45.7 Consensus size: 3
23561163 TTATTATTAT
* *
23561173 TAC TAC TAC TAC TAC TAC TAC TAC TAT TAC TAC TAC TAC TAT TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
* * *
23561221 TGC TAC TAC TAT TAC TAC TAC TAC TAC TAC TAC TAC TAC TAT TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
* * * *
23561269 TAC TAC AAC AAC AAC AAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
23561310 TATGTATGCA
Statistics
Matches: 122, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 122 1.00
ACGTcount: A:0.36, C:0.30, G:0.01, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:23563643 original size:20 final size:20
Alignment explanation
Indices: 23563618--23563681 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 20
23563608 AAAAAATCCA
23563618 AACAAATAAATAATATAAAT
1 AACAAATAAATAATATAAAT
** *
23563638 AACAAA-ATAACCATATAATAC
1 AACAAATA-AATAATATAA-AT
23563659 AACAAAATAACATAATATAAAT
1 AAC-AAATAA-ATAATATAAAT
23563681 A
1 A
23563682 GTGTCCTAGC
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
19 1 0.03
20 14 0.42
21 4 0.12
22 6 0.18
23 8 0.24
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (20 bp):
AACAAATAAATAATATAAAT
Found at i:23563645 original size:21 final size:21
Alignment explanation
Indices: 23563621--23563681 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
23563611 AAATCCAAAC
23563621 AAATAAATAATATAAATAACA
1 AAATAAATAATATAAATAACA
** *
23563642 AAAT-AACCATATAATACAACA
1 AAATAAATAATATAA-ATAACA
23563663 AAATAACATAATATAAATA
1 AAATAA-ATAATATAAATA
23563682 GTGTCCTAGC
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 8 0.26
21 13 0.42
22 3 0.10
23 7 0.23
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAATAAATAATATAAATAACA
Found at i:23565973 original size:20 final size:21
Alignment explanation
Indices: 23565944--23566003 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 21
23565934 CGAGAATCCT
23565944 AGGTTTGATTTGAAGTTTCT-
1 AGGTTTGATTTGAAGTTTCTA
* * *
23565964 GGGTTAGATTTG-GGTTTCTA
1 AGGTTTGATTTGAAGTTTCTA
23565984 AGGTTTGATTT-AAGTTTCTA
1 AGGTTTGATTTGAAGTTTCTA
23566004 GAGATTTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
19 6 0.19
20 26 0.81
ACGTcount: A:0.20, C:0.05, G:0.27, T:0.48
Consensus pattern (21 bp):
AGGTTTGATTTGAAGTTTCTA
Found at i:23566064 original size:21 final size:21
Alignment explanation
Indices: 23566034--23566075 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
23566024 GGCAACTTTG
*
23566034 GGAAATTTTGGGATTTTTCTA
1 GGAAAATTTGGGATTTTTCTA
23566055 GGAAAATTTGGGATTTTTCTA
1 GGAAAATTTGGGATTTTTCTA
23566076 AAAAAATCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (21 bp):
GGAAAATTTGGGATTTTTCTA
Found at i:23566081 original size:21 final size:21
Alignment explanation
Indices: 23566040--23566087 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
23566030 TTTGGGAAAT
**
23566040 TTTGGGATTTTTCTAGGAAAA
1 TTTGGGATTTTTCTAAAAAAA
23566061 TTTGGGATTTTTCTAAAAAAA
1 TTTGGGATTTTTCTAAAAAAA
*
23566082 TCTGGG
1 TTTGGG
23566088 TTTGGATGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.42
Consensus pattern (21 bp):
TTTGGGATTTTTCTAAAAAAA
Found at i:23566482 original size:19 final size:19
Alignment explanation
Indices: 23566435--23566475 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
23566425 GATCGTAAGG
* *
23566435 TTTTCTTTTTTTATTTTAT
1 TTTTATTTTTTGATTTTAT
23566454 TTTTATTTTTTGATTTTAT
1 TTTTATTTTTTGATTTTAT
23566473 TTT
1 TTT
23566476 AGTTTTTAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTATTTTTTGATTTTAT
Found at i:23570679 original size:28 final size:26
Alignment explanation
Indices: 23570648--23570726 Score: 65
Period size: 28 Copynumber: 2.8 Consensus size: 26
23570638 AAAGATGTAC
23570648 AAAAAAAATAAACAAACAAAAAAAGTGG
1 AAAAAAAA-AAACAAACAAAAAAAG-GG
23570676 AAAAGGAAAAAAA-AGCAA-AAAAAAAGGG
1 AAAA--AAAAAAACA--AACAAAAAAAGGG
23570704 AAACAAGAAAAAA-AAACAAAAAA
1 AAA-AA-AAAAAACAAACAAAAAA
23570727 GAAAAAGAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
26 2 0.05
27 7 0.16
28 17 0.39
29 12 0.27
30 6 0.14
ACGTcount: A:0.78, C:0.06, G:0.13, T:0.03
Consensus pattern (26 bp):
AAAAAAAAAAACAAACAAAAAAAGGG
Found at i:23570700 original size:21 final size:19
Alignment explanation
Indices: 23570676--23570732 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 19
23570666 AAAAAAGTGG
23570676 AAAAGGAAAAAAAAGCAAAAA
1 AAAAGG-AAAAAAAG-AAAAA
* *
23570697 AAAAGGGAAACAAGAAAAA
1 AAAAGGAAAAAAAGAAAAA
*
23570716 AAAA--CAAAAAAGAAAAA
1 AAAAGGAAAAAAAGAAAAA
23570733 GAGACAAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 11 0.34
19 9 0.28
20 6 0.19
21 6 0.19
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (19 bp):
AAAAGGAAAAAAAGAAAAA
Found at i:23570713 original size:29 final size:29
Alignment explanation
Indices: 23570650--23570726 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
23570640 AGATGTACAA
*
23570650 AAAAAATAAACAAACAAAAAAAGTGGAAAAGG
1 AAAAAA-AAAC-AA-AAAAAAAGTGGAAAAAG
*
23570682 AAAAAAAAGCAAAAAAAAAG-GGAAACAAG
1 AAAAAAAAACAAAAAAAAAGTGGAAA-AAG
23570711 AAAAAAAAACAAAAAA
1 AAAAAAAAACAAAAAA
23570727 GAAAAAGAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 5 0.12
29 25 0.61
30 2 0.05
31 3 0.07
32 6 0.15
ACGTcount: A:0.78, C:0.06, G:0.13, T:0.03
Consensus pattern (29 bp):
AAAAAAAAACAAAAAAAAAGTGGAAAAAG
Found at i:23573413 original size:20 final size:20
Alignment explanation
Indices: 23573390--23573449 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
23573380 GGGAATCCTA
23573390 GGTTTGATTTGAAGTTTCTG
1 GGTTTGATTTGAAGTTTCTG
* *
23573410 GGTTAGATTTG-GGTTTCTAG
1 GGTTTGATTTGAAGTTTCT-G
23573430 GGTTTGATTT-AAGTTTCTG
1 GGTTTGATTTGAAGTTTCTG
23573449 G
1 G
23573450 AGAATTTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
19 8 0.24
20 26 0.76
ACGTcount: A:0.15, C:0.05, G:0.32, T:0.48
Consensus pattern (20 bp):
GGTTTGATTTGAAGTTTCTG
Found at i:23574909 original size:24 final size:23
Alignment explanation
Indices: 23574869--23574913 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
23574859 TTATTAAAAA
23574869 TTTATTATTATTATTTACTTATCT
1 TTTATTATTATTATTTA-TTATCT
23574893 TTTATTATT-TTATTTTATTAT
1 TTTATTATTATTA-TTTATTAT
23574914 TTAATAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTATTATTATTATTTATTATCT
Found at i:23576851 original size:21 final size:20
Alignment explanation
Indices: 23576813--23576856 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
23576803 TTCAAGCTCA
** *
23576813 TTTTTTTCATTTTTCATTTCT
1 TTTTTTTCATCATACATTT-T
23576834 TTTTTTTCATCATACATTTT
1 TTTTTTTCATCATACATTTT
23576854 TTT
1 TTT
23576857 GCCCAAAGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTTTTCATCATACATTTT
Found at i:23577911 original size:20 final size:20
Alignment explanation
Indices: 23577878--23577918 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
23577868 TTGCTCATGC
*
23577878 AAACCTCAAACCCTAGACCA
1 AAACCCCAAACCCTAGACCA
*
23577898 AAACCCCAATCCCTAGACCA
1 AAACCCCAAACCCTAGACCA
23577918 A
1 A
23577919 CCTTAAACCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.41, G:0.05, T:0.10
Consensus pattern (20 bp):
AAACCCCAAACCCTAGACCA
Done.