Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 32 of 120
Found at i:8271813 original size:72 final size:72
Alignment explanation
Indices: 8271636--8271813 Score: 302
Period size: 72 Copynumber: 2.5 Consensus size: 72
8271626 TTTTATATTG
* * *
8271636 AAAATCAAATATAAACAACTATTGATAAAACTAAATTACACACAAATAAGTAGAACATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTACACACAAATAAGTAGAACATAAATTCA
8271701 ATATCCA
66 ATATCCA
*
8271708 AAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTACACACAAATAAGTAGAACATAAATTCA
8271773 ATATCCA
66 ATATCCA
* *
8271780 AAAACCAAACATAAACACCAATTGATAAAACTAG
1 AAAACCAAACATAAACAACTATTGATAAAACTAG
8271814 TTTAGCATTG
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 100 1.00
ACGTcount: A:0.57, C:0.17, G:0.05, T:0.21
Consensus pattern (72 bp):
AAAACCAAACATAAACAACTATTGATAAAACTAGATTACACACAAATAAGTAGAACATAAATTCA
ATATCCA
Found at i:8272281 original size:18 final size:17
Alignment explanation
Indices: 8272250--8272319 Score: 88
Period size: 18 Copynumber: 3.9 Consensus size: 17
8272240 CATTTCCATC
*
8272250 AATGTTAGCATCATTTGA
1 AATGTTAACATCATTT-A
8272268 AAT-TTGAACATCATTTA
1 AATGTT-AACATCATTTA
8272285 AAGTGTTAACATCATTTAA
1 AA-TGTTAACATCATTT-A
8272304 AATGTTAACATCATTT
1 AATGTTAACATCATTT
8272320 CTTGCATTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
17 5 0.11
18 37 0.79
19 5 0.11
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (17 bp):
AATGTTAACATCATTTA
Found at i:8276626 original size:47 final size:46
Alignment explanation
Indices: 8276557--8276712 Score: 141
Period size: 47 Copynumber: 3.5 Consensus size: 46
8276547 GAATTTGGTT
*
8276557 CACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTATC
1 CACTTCTCTATATCTCATCAGGAAGATGACCGCTTCATT-TTTTATC
* **
8276604 CACTTCTCTATATCTCATCAGG-A-A-GA-CG---GA--TTTGGTC
1 CACTTCTCTATATCTCATCAGGAAGATGACCGCTTCATTTTTTATC
* * * * *
8276641 TACTTTTCTGTGTCTCATCAGGAAGATGACCGCTTTATTATTTTGATC
1 CACTTCTCTATATCTCATCAGGAAGATGACCGCTTCATT-TTTT-ATC
8276689 CACTTCTCTATATCTCATCAGGAA
1 CACTTCTCTATATCTCATCAGGAA
8276713 AATGGATTTG
Statistics
Matches: 83, Mismatches: 15, Indels: 21
0.70 0.13 0.18
Matches are distributed among these distances:
37 23 0.28
38 1 0.01
39 1 0.01
40 3 0.04
41 2 0.02
43 2 0.02
44 3 0.04
45 1 0.01
46 1 0.01
47 24 0.29
48 22 0.27
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
CACTTCTCTATATCTCATCAGGAAGATGACCGCTTCATTTTTTATC
Found at i:8276667 original size:169 final size:170
Alignment explanation
Indices: 8276463--8276799 Score: 487
Period size: 169 Copynumber: 2.0 Consensus size: 170
8276453 TCGCTTCATT
* *
8276463 GATTTGGTCTACTTCCCTGTATTTCATCAGGAAGATGACCAATTCATTGTTTTAATCCACTTCTC
1 GATTTGGTCTACTTCCCTGTATCTCATCAGGAAGATGACCAATTCATTATTTTAATCCACTTCTC
* * *
8276528 TGTATCTCATCAGGAAAACGAATTTGGTTCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTC
66 TATATCTCATCAGGAAAACGAATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTC
* * *
8276593 ATTG-TTTTATCCACTTCTCTATATCTCATCAGGAAGACG
131 ATTGCTTTGACCCACTCCTCTATATCTCATCAGGAAGACG
** * ** * *
8276632 GATTTGGTCTACTTTTCTGTGTCTCATCAGGAAGATGACCGCTTTATTATTTTGATCCACTTCTC
1 GATTTGGTCTACTTCCCTGTATCTCATCAGGAAGATGACCAATTCATTATTTTAATCCACTTCTC
* * * *
8276697 TATATCTCATCAGGAAAATGGATTTGGTCCACTTTTCTGTATCTCATCAAGAAGATGACTGCTTC
66 TATATCTCATCAGGAAAACGAATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTC
*
8276762 ATTGCTTTGACCCACTCCTCTGTATCTCATCAGGAAGA
131 ATTGCTTTGACCCACTCCTCTATATCTCATCAGGAAGA
8276800 TGGGGGGTTG
Statistics
Matches: 147, Mismatches: 20, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
169 118 0.80
170 29 0.20
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (170 bp):
GATTTGGTCTACTTCCCTGTATCTCATCAGGAAGATGACCAATTCATTATTTTAATCCACTTCTC
TATATCTCATCAGGAAAACGAATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTC
ATTGCTTTGACCCACTCCTCTATATCTCATCAGGAAGACG
Found at i:8276723 original size:85 final size:85
Alignment explanation
Indices: 8276463--8276797 Score: 458
Period size: 85 Copynumber: 4.0 Consensus size: 85
8276453 TCGCTTCATT
* * ** *
8276463 GATTTGGTCTACTTCCCTGTATTTCATCAGGAAGATGACCAATTCATTGTTTTAATCCACTTCTC
1 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCCACTTCTC
*
8276528 TGTATCTCATCAGGAAAACG
66 TATATCTCATCAGGAAAACG
*
8276548 AATTTGGT-TCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTT-ATCCACTTCT
1 GATTTGGTCT-ACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCCACTTCT
*
8276611 CTATATCTCATCAGGAAGACG
65 CTATATCTCATCAGGAAAACG
* * * *
8276632 GATTTGGTCTACTTTTCTGTGTCTCATCAGGAAGATGACCGCTTTATTATTTTGATCCACTTCTC
1 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCCACTTCTC
*
8276697 TATATCTCATCAGGAAAATG
66 TATATCTCATCAGGAAAACG
* * * * * * *
8276717 GATTTGGTCCACTTTTCTGTATCTCATCAAGAAGATGACTGCTTCATTGCTTTGACCCACTCCTC
1 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCCACTTCTC
*
8276782 TGTATCTCATCAGGAA
66 TATATCTCATCAGGAA
8276798 GATGGGGGGT
Statistics
Matches: 223, Mismatches: 24, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
84 76 0.34
85 147 0.66
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (85 bp):
GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCCACTTCTC
TATATCTCATCAGGAAAACG
Found at i:8276901 original size:209 final size:209
Alignment explanation
Indices: 8276632--8277506 Score: 1109
Period size: 209 Copynumber: 4.2 Consensus size: 209
8276622 CAGGAAGACG
* * * * *
8276632 GATTTGGTCTACTTTTCTGTGTCTCATCAGGAAGATGACCGCTTTATT-ATTTTGATCCACTTCT
1 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTGA-TTTAATCCACTTCT
* * * *
8276696 CTATATCTCATCAGGAAAATG-GATTTGGTCCACTTTTCTGTATCTCATCAAGAAGATGACTGCT
65 CTGTATCTCATCA-GAAAAGGCGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCT
* * * *
8276760 TCATTGCTTTGACCCACTCCTCTGTATCTCATCAGGAAGATGGGGGGTTGAAGTTTCACTTACAT
129 TTATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACAT
8276825 TGAGCTTTGCTTCATT
194 TGAGCTTTGCTTCATT
* * *
8276841 GATTTGGTTTGCTTCTTTGTATCTCATCAGGAAGATGACCACTTCATTGATTTAATCCACTTCTC
1 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTGATTTAATCCACTTCTC
* * * *
8276906 TGTATCTCATCA-AAAAGGCAGATTTGGTCCACTTCTCTATAACTGATCAGGAAGATGACCGCTT
66 TGTATCTCATCAGAAAAGGC-GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTT
* * * *
8276970 TATTGCTTTGACCCACTTCTTTGTATCTCATCAGGATGATGAGGGTTTAAAGTTTCACTCACATT
130 TATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATT
*
8277035 GAGCTTTGCGTCATT
195 GAGCTTTGCTTCATT
* * * *
8277050 GATTTGATCTACTTCTTTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCATTTCTC
1 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTGATTTAATCCACTTCTC
* * * * * *
8277115 TGTATCTCAAT-AG-GAAGGTGGATTTGGTCCACTTCTTTGTATCTCATTAGGAAGATGACTGCT
66 TGTATCTC-ATCAGAAAAGG-CGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCT
* * *
8277178 TTATTGCTTTGACCCACTTCTTTGTATCTCATCAAGAAGATGGGGGTTTGAAGTTTTACTC-CTA
129 TTATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCAC-A
8277242 TTGAGCTTTGCTTCATT
193 TTGAGCTTTGCTTCATT
* *
8277259 GATTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACTGA-TTCATTGATTTAATCCACTTCT
1 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGAC-CACTTCATTGATTTAATCCACTTCT
* * *
8277323 TTGTATCTCATCAG-AAAGGCGAATTTGGTTCACTTCTCTGTATCTCATCAAGAAGATGACCACT
65 CTGTATCTCATCAGAAAAGGCG-ATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCT
* * * *** **
8277387 TTATTGCTTTGACCCACTTATCTGTTTCTCATCAGGAAGGTGGAAATTTGAAGTTTTGCTCACAT
129 TTATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACAT
* *
8277452 TGGGCTTTGCTTGATT
194 TGAGCTTTGCTTCATT
** * *
8277468 CTTTTGGTTTACTTCTCTGTATCTCATCAAGAAGATGAC
1 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGAC
8277507 TATTTGAAGT
Statistics
Matches: 580, Mismatches: 75, Indels: 22
0.86 0.11 0.03
Matches are distributed among these distances:
207 5 0.01
208 4 0.01
209 567 0.98
210 4 0.01
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (209 bp):
GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTGATTTAATCCACTTCTC
TGTATCTCATCAGAAAAGGCGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTT
ATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTG
AGCTTTGCTTCATT
Found at i:8277159 original size:85 final size:85
Alignment explanation
Indices: 8277050--8277208 Score: 228
Period size: 85 Copynumber: 1.9 Consensus size: 85
8277040 TTGCGTCATT
* * *
8277050 GATTTGATCTACTTCTTTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATCCATTTCTC
1 GATTTGATCCACTTCTTTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAACCCACTTCTC
8277115 TGTATCTCAATAGGAAGGTG
66 TGTATCTCAATAGGAAGGTG
* * * * * * *
8277135 GATTTGGTCCACTTCTTTGTATCTCATTAGGAAGATGACTGCTTTATTGCTTTGACCCACTTCTT
1 GATTTGATCCACTTCTTTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAACCCACTTCTC
8277200 TGTATCTCA
66 TGTATCTCA
8277209 TCAAGAAGAT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 64 1.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (85 bp):
GATTTGATCCACTTCTTTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAACCCACTTCTC
TGTATCTCAATAGGAAGGTG
Found at i:8277404 original size:85 final size:85
Alignment explanation
Indices: 8277260--8277426 Score: 205
Period size: 85 Copynumber: 2.0 Consensus size: 85
8277250 TGCTTCATTG
* * * *
8277260 ATTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACTGATTCATTGATTTAATCCACTTCTTT
1 ATTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACTCATTCATTGATTTAACCCACTTATCT
8277325 GTATCTCATCAGAAAGGCGA
66 GTATCTCATCAGAAAGGCGA
* * *
8277345 ATTTGGT-TCACTTCTCTGTATCTCATCA-AGAAGATGAC-CACTTTATTGCTTTGACCCACTTA
1 ATTTGGTCT-ACTTCTCTGTATCTCATCAGA-AAGATGACTCA-TTCATTGATTTAACCCACTTA
* *
8277407 TCTGTTTCTCATCAGGAAGG
63 TCTGTATCTCATCAGAAAGG
8277427 TGGAAATTTG
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
84 3 0.04
85 67 0.96
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (85 bp):
ATTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACTCATTCATTGATTTAACCCACTTATCT
GTATCTCATCAGAAAGGCGA
Found at i:8289229 original size:31 final size:31
Alignment explanation
Indices: 8289129--8289329 Score: 220
Period size: 30 Copynumber: 6.6 Consensus size: 31
8289119 TAAAAAATAA
* * *
8289129 TTTTGAAAATGTTTGGGGGTTAAAATATAA-G
1 TTTTGAAAA-GTTTAGGGGTCAAAATATAATT
*
8289160 TTTTGGAAAGTTTA-GGG-CAAAAATATAA-T
1 TTTTGAAAAGTTTAGGGGTC-AAAATATAATT
* * *
8289189 TTTGGGAAAGTTTAGGGGTCAAAGATGTAATT
1 TTTTGAAAAGTTTAGGGGTCAAA-ATATAATT
8289221 TTTTG-AAAGTTT-GGGGTCAAAATATAA-T
1 TTTTGAAAAGTTTAGGGGTCAAAATATAATT
*
8289249 TTTTGAAAAGTTTAGGGGTTAAAATATAA-T
1 TTTTGAAAAGTTTAGGGGTCAAAATATAATT
* * *
8289279 TTTAGAAAAGTTTAAGGATCAAAATATAATT
1 TTTTGAAAAGTTTAGGGGTCAAAATATAATT
8289310 TTTTGAAAAGTTTAGGGGTC
1 TTTTGAAAAGTTTAGGGGTC
8289330 CTTTTATGCA
Statistics
Matches: 146, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
28 6 0.04
29 37 0.25
30 59 0.40
31 39 0.27
32 5 0.03
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.37
Consensus pattern (31 bp):
TTTTGAAAAGTTTAGGGGTCAAAATATAATT
Found at i:8290231 original size:13 final size:12
Alignment explanation
Indices: 8290204--8290244 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
8290194 AACATTTAGA
*
8290204 AATAAATACAGT
1 AATAAATATAGT
8290216 AATAAATGATAGT
1 AATAAAT-ATAGT
*
8290229 AATAAATATATT
1 AATAAATATAGT
8290241 AATA
1 AATA
8290245 TCTACAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (12 bp):
AATAAATATAGT
Found at i:8292267 original size:59 final size:60
Alignment explanation
Indices: 8292172--8292288 Score: 173
Period size: 59 Copynumber: 2.0 Consensus size: 60
8292162 TTTCAATTCG
* * * *
8292172 CATTTGATACTCACGATGACACAGAGTCATCGGACCT-TTAATCCGTAATGGATTCATTT
1 CATTTAATACTCACGATGACACAGAGTCATCAGACCTCTTAATCCGTAAAGGAATCATTT
* *
8292231 CATTTAATACTCATGATGACACATAGTCATCAGACCTCTTAATCCGTAAAGGAATCAT
1 CATTTAATACTCACGATGACACAGAGTCATCAGACCTCTTAATCCGTAAAGGAATCAT
8292289 ATACTCACAA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
59 33 0.65
60 18 0.35
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (60 bp):
CATTTAATACTCACGATGACACAGAGTCATCAGACCTCTTAATCCGTAAAGGAATCATTT
Found at i:8292319 original size:52 final size:52
Alignment explanation
Indices: 8292237--8292475 Score: 300
Period size: 52 Copynumber: 4.6 Consensus size: 52
8292227 ATTTCATTTA
* * *
8292237 ATACTCATGATGACACATAGTCATCAGACCTCTTAATCCGTAAAGGAATCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGAATCAT
* * * * *
8292289 ATACTCACAATGACCCATAGTCATTGGACCTTATAATCCGTAAA-GAATTTAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGAA-TCAT
* * *
8292341 ATACTCACGATAACACATAGTCATCGGACCACATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGAATCAT
* * * *
8292393 ATACTCATGATGACACATAGTCATTGGACCTCATAATCCTTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGAATCAT
* * *
8292445 TTACTCACGATGACAAATAGTCATCAGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
8292476 TTTTCATTTA
Statistics
Matches: 159, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
51 3 0.02
52 154 0.97
53 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGAATCAT
Found at i:8292379 original size:104 final size:104
Alignment explanation
Indices: 8292232--8292474 Score: 344
Period size: 104 Copynumber: 2.3 Consensus size: 104
8292222 GATTCATTTC
* * *
8292232 ATTTA-ATACTCATGATGACACATAGTCATCAGACCTCTTAATCCGTAAAGGAATCATATACTCA
1 ATTTATATACTCACGATGACACATAGTCATCAGACCACATAATCCGTAAAGGAATCATATACTCA
* *
8292296 CAATGACCCATAGTCATTGGACCTTATAATCCGTAAAGA
66 CAATGACACATAGTCATTGGACCTCATAATCCGTAAAGA
* * *
8292335 ATTTATATACTCACGATAACACATAGTCATCGGACCACATAATCCGTAAAGGATTCATATACTCA
1 ATTTATATACTCACGATGACACATAGTCATCAGACCACATAATCCGTAAAGGAATCATATACTCA
** * *
8292400 TGATGACACATAGTCATTGGACCTCATAATCCTTAAAGG
66 CAATGACACATAGTCATTGGACCTCATAATCCGTAAAGA
* * *
8292439 ATTCATTTACTCACGATGACAAATAGTCATCAGACC
1 ATTTATATACTCACGATGACACATAGTCATCAGACC
8292475 TTTTTCATTT
Statistics
Matches: 122, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
103 5 0.04
104 117 0.96
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.28
Consensus pattern (104 bp):
ATTTATATACTCACGATGACACATAGTCATCAGACCACATAATCCGTAAAGGAATCATATACTCA
CAATGACACATAGTCATTGGACCTCATAATCCGTAAAGA
Found at i:8299598 original size:52 final size:52
Alignment explanation
Indices: 8299509--8299741 Score: 270
Period size: 52 Copynumber: 4.5 Consensus size: 52
8299499 ATTTCATTTA
* * *
8299509 ATACTCACGATGACACATAGTCATCGGACCTCTTAATCCGTAAAGGAATCAT
1 ATACTCACAATGACACATAGTCATCGGACATCATAATCCGTAAAGGAATCAT
* * ** * *
8299561 ATACTCACAATGACCCATAATCATTAGACTTTATAATCCGTAAA-GAATTCAT
1 ATACTCACAATGACACATAGTCATCGGACATCATAATCCGTAAAGGAA-TCAT
* * * *
8299613 ATACTCACGATGACACATAGTCATCGGACCTCATAATTCGTAAAGGATTCAT
1 ATACTCACAATGACACATAGTCATCGGACATCATAATCCGTAAAGGAATCAT
* * *
8299665 ATACTCACAATAACACATAGTCATCGGACATCATAATCCATAAAGGATTCAT
1 ATACTCACAATGACACATAGTCATCGGACATCATAATCCGTAAAGGAATCAT
* * * *
8299717 ATGCTCACGATGGCAAATAGTCATC
1 ATACTCACAATGACACATAGTCATC
8299742 AGACCTTTTT
Statistics
Matches: 152, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
51 3 0.02
52 147 0.97
53 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (52 bp):
ATACTCACAATGACACATAGTCATCGGACATCATAATCCGTAAAGGAATCAT
Found at i:8299701 original size:104 final size:104
Alignment explanation
Indices: 8299509--8299747 Score: 334
Period size: 104 Copynumber: 2.3 Consensus size: 104
8299499 ATTTCATTTA
* *
8299509 ATACTCACGATGACACATAGTCATCGGACCTCTTAATCCGTAAAGGAATCATATACTCACAATGA
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGAATCATATACTCACAATAA
* * * * *
8299574 CCCATAATCATTAGACTTTATAATCCGTAAAGAATTCAT
66 CACATAATCATCAGACATCATAATCCATAAAGAATTCAT
* *
8299613 ATACTCACGATGACACATAGTCATCGGACCTCATAATTCGTAAAGGATTCATATACTCACAATAA
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGAATCATATACTCACAATAA
* * *
8299678 CACATAGTCATCGGACATCATAATCCATAAAGGATTCAT
66 CACATAATCATCAGACATCATAATCCATAAAGAATTCAT
* * * *
8299717 ATGCTCACGATGGCAAATAGTCATCAGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
8299748 TTTTCATTTA
Statistics
Matches: 119, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
104 119 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.26
Consensus pattern (104 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGAATCATATACTCACAATAA
CACATAATCATCAGACATCATAATCCATAAAGAATTCAT
Found at i:8301246 original size:32 final size:32
Alignment explanation
Indices: 8301210--8301275 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
8301200 ATCTTTCCCT
*
8301210 TCACTTGACATGCTCCCGGTACTATCTCCATA
1 TCACTTGACATGCTCCCGATACTATCTCCATA
8301242 TCACTTGACATGCTCCCGATACTATCTCCATA
1 TCACTTGACATGCTCCCGATACTATCTCCATA
8301274 TC
1 TC
8301276 CCCATCTTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.23, C:0.35, G:0.11, T:0.32
Consensus pattern (32 bp):
TCACTTGACATGCTCCCGATACTATCTCCATA
Found at i:8301849 original size:19 final size:19
Alignment explanation
Indices: 8301825--8301865 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
8301815 CTACTAAGGA
*
8301825 AATAATATCTCTTCATTAG
1 AATAATATCTCTTAATTAG
8301844 AATAATATCTCTTAATTAG
1 AATAATATCTCTTAATTAG
8301863 AAT
1 AAT
8301866 CTTTAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.41
Consensus pattern (19 bp):
AATAATATCTCTTAATTAG
Found at i:8306685 original size:19 final size:19
Alignment explanation
Indices: 8306661--8306701 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
8306651 CTACTAAGGA
*
8306661 AATAATATCTCTTAATTAG
1 AATAATATCTCCTAATTAG
8306680 AATAATATCTCCTAATTAG
1 AATAATATCTCCTAATTAG
8306699 AAT
1 AAT
8306702 CTCTAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (19 bp):
AATAATATCTCCTAATTAG
Found at i:8307408 original size:29 final size:29
Alignment explanation
Indices: 8307365--8307524 Score: 116
Period size: 30 Copynumber: 5.4 Consensus size: 29
8307355 ACCTTTTCCT
*
8307365 AATTTGGTACTTGAACTTTTTTTTGACCC
1 AATTTGGTACCTGAACTTTTTTTTGACCC
** *
8307394 AATTTGGTACCTGAACTTGACACTTTT--CCT
1 AATTTGGTACCTGAACTT---TTTTTTGACCC
*
8307424 AATTTGGTACCT-AAATTTTTTTTGAACCC
1 AATTTGGTACCTGAACTTTTTTTTG-ACCC
* *
8307453 AATTTGGTACCTGAACTTGACATTTTT--CCT
1 AATTTGGTACCTGAACTT---TTTTTTGACCC
**
8307483 AATTTGGTACCT-AAGCTTTTTTTTAGATTC
1 AATTTGGTACCTGAA-CTTTTTTTT-GACCC
8307513 AATTTGGTACCT
1 AATTTGGTACCT
8307525 AAATTTATTA
Statistics
Matches: 102, Mismatches: 15, Indels: 27
0.71 0.10 0.19
Matches are distributed among these distances:
26 4 0.04
27 5 0.05
29 37 0.36
30 47 0.46
32 4 0.04
33 5 0.05
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (29 bp):
AATTTGGTACCTGAACTTTTTTTTGACCC
Found at i:8307430 original size:30 final size:30
Alignment explanation
Indices: 8307335--8307494 Score: 127
Period size: 29 Copynumber: 5.4 Consensus size: 30
8307325 TTAATATAGC
* * *
8307335 ATTTGGTACTTGAATTTGACACCTTTTCCTA
1 ATTTGGTACCTGAACTTGACA-TTTTTCCTA
* * *
8307366 ATTTGGTACTTGAACTT---TTTTTTGACCCA
1 ATTTGGTACCTGAACTTGACATTTTT--CCTA
*
8307395 ATTTGGTACCTGAACTTGACACTTTTCCTA
1 ATTTGGTACCTGAACTTGACATTTTTCCTA
* * *
8307425 ATTTGGTACCT-AAATT---TTTTTTGAACCCA
1 ATTTGGTACCTGAACTTGACATTTTT---CCTA
8307454 ATTTGGTACCTGAACTTGACATTTTTCCTA
1 ATTTGGTACCTGAACTTGACATTTTTCCTA
8307484 ATTTGGTACCT
1 ATTTGGTACCT
8307495 AAGCTTTTTT
Statistics
Matches: 102, Mismatches: 15, Indels: 25
0.72 0.11 0.18
Matches are distributed among these distances:
26 4 0.04
27 4 0.04
29 37 0.36
30 32 0.31
31 16 0.16
32 4 0.04
33 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.44
Consensus pattern (30 bp):
ATTTGGTACCTGAACTTGACATTTTTCCTA
Found at i:8307431 original size:59 final size:58
Alignment explanation
Indices: 8307335--8307524 Score: 272
Period size: 59 Copynumber: 3.2 Consensus size: 58
8307325 TTAATATAGC
* * *
8307335 ATTTGGTACTTGAATTTGACACCTTTTCCTAATTTGGTACTTGAACTTTTTTTTGACCCA
1 ATTTGGTACCTGAACTTGACA-CTTTTCCTAATTTGGTACCT-AACTTTTTTTTGACCCA
*
8307395 ATTTGGTACCTGAACTTGACACTTTTCCTAATTTGGTACCTAAATTTTTTTTGAACCCA
1 ATTTGGTACCTGAACTTGACACTTTTCCTAATTTGGTACCTAACTTTTTTTTG-ACCCA
* **
8307454 ATTTGGTACCTGAACTTGACATTTTTCCTAATTTGGTACCTAAGCTTTTTTTTAGATTCA
1 ATTTGGTACCTGAACTTGACACTTTTCCTAATTTGGTACCTAA-CTTTTTTTT-GACCCA
8307514 ATTTGGTACCT
1 ATTTGGTACCT
8307525 AAATTTATTA
Statistics
Matches: 119, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
58 11 0.09
59 66 0.55
60 41 0.34
61 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.45
Consensus pattern (58 bp):
ATTTGGTACCTGAACTTGACACTTTTCCTAATTTGGTACCTAACTTTTTTTTGACCCA
Found at i:8307714 original size:31 final size:31
Alignment explanation
Indices: 8307677--8307864 Score: 124
Period size: 31 Copynumber: 6.2 Consensus size: 31
8307667 AAAAGATTAG
8307677 GTACCAAATTAGGAAAAAGAGTCAAGTTTAA
1 GTACCAAATTAGGAAAAAGAGTCAAGTTTAA
* **
8307708 GTACCAAAAT-GGATCTCAA-A---AAGTTTAA
1 GTACCAAATTAGGA--AAAAGAGTCAAGTTTAA
* ** * *
8307736 GTACCAACTTAATAAAAAAGTGTCAAGTTTAG
1 GTACCAAATT-AGGAAAAAGAGTCAAGTTTAA
* * *
8307768 GTATCAAATTAGGAAAAAGTGTCAAGTTTGA
1 GTACCAAATTAGGAAAAAGAGTCAAGTTTAA
* *
8307799 GTACCAAATTA-GACAAAA-A--AAAGTTTAG
1 GTACCAAATTAGGA-AAAAGAGTCAAGTTTAA
* * * *
8307827 GTACCAAATTAGGAAAACGTGTCTAGTTCAA
1 GTACCAAATTAGGAAAAAGAGTCAAGTTTAA
8307858 GTACCAA
1 GTACCAA
8307865 TTATTATATT
Statistics
Matches: 116, Mismatches: 28, Indels: 26
0.68 0.16 0.15
Matches are distributed among these distances:
28 38 0.33
29 2 0.02
30 6 0.05
31 53 0.46
32 17 0.15
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.25
Consensus pattern (31 bp):
GTACCAAATTAGGAAAAAGAGTCAAGTTTAA
Found at i:8307935 original size:24 final size:24
Alignment explanation
Indices: 8307904--8307960 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
8307894 TATATTTTTC
* *
8307904 TAAAATATTT-GATATTTATTAGTA
1 TAAAATATTTAG-CATTTATTAGCA
*
8307928 TAATATATTTAGCATTTATTAGCA
1 TAAAATATTTAGCATTTATTAGCA
8307952 TAAAATATT
1 TAAAATATT
8307961 AAGTTATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 27 0.96
25 1 0.04
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (24 bp):
TAAAATATTTAGCATTTATTAGCA
Found at i:8323168 original size:33 final size:33
Alignment explanation
Indices: 8323126--8323224 Score: 137
Period size: 33 Copynumber: 3.0 Consensus size: 33
8323116 TCCCAACCAG
* *
8323126 CTTCTGCCACCGCCCA-TTCTTCCTCCAAACCCA
1 CTTCTGCCACC-CCCACTACTCCCTCCAAACCCA
*
8323159 CTTCTGCCACCTCCACTACTCCCTCCAAACCCA
1 CTTCTGCCACCCCCACTACTCCCTCCAAACCCA
* *
8323192 CTTATGCCACCCCCACTGCTCCCTCCAAACCCA
1 CTTCTGCCACCCCCACTACTCCCTCCAAACCCA
8323225 TTTCAGCCGC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
32 3 0.05
33 56 0.95
ACGTcount: A:0.20, C:0.54, G:0.05, T:0.21
Consensus pattern (33 bp):
CTTCTGCCACCCCCACTACTCCCTCCAAACCCA
Found at i:8323255 original size:36 final size:36
Alignment explanation
Indices: 8323215--8323343 Score: 204
Period size: 36 Copynumber: 3.6 Consensus size: 36
8323205 CACTGCTCCC
* *
8323215 TCCAAACCCATTTCAGCCGCCACCAGCTCCACTAGT
1 TCCAAACCCATTGCAGCCTCCACCAGCTCCACTAGT
*
8323251 TCCAAACCCATTGCAGCCTCCACCAGCTCCACTAAT
1 TCCAAACCCATTGCAGCCTCCACCAGCTCCACTAGT
* *
8323287 TCCAGACCCCTTGCAGCCTCCACCAGCTCCACTAGT
1 TCCAAACCCATTGCAGCCTCCACCAGCTCCACTAGT
*
8323323 TCCAGACCCATTGCAGCCTCC
1 TCCAAACCCATTGCAGCCTCC
8323344 TCTAGCACCT
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 86 1.00
ACGTcount: A:0.23, C:0.46, G:0.12, T:0.19
Consensus pattern (36 bp):
TCCAAACCCATTGCAGCCTCCACCAGCTCCACTAGT
Found at i:8327819 original size:42 final size:41
Alignment explanation
Indices: 8327653--8327949 Score: 209
Period size: 42 Copynumber: 7.3 Consensus size: 41
8327643 TTTGGAAATA
* * *
8327653 AAGCGCCGCAAAAGGTAA-AGCATTAGCGGCGTTTTGC-T-T
1 AAGCGCCGCTAAAGGTAAGATCATTAGCGGCGCTTT-CATAT
* * * *
8327692 AATGCGCCGCAAAATGTAA-AGCATTAGCGGCGCTTAACA-A-
1 AA-GCGCCGCTAAAGGTAAGATCATTAGCGGCGCTT-TCATAT
* * * * *
8327732 AAGCGCCACTAAAGGTCAGGTAATTAGCGGCGCTTT-ATCAC
1 AAGCGCCGCTAAAGGTAAGATCATTAGCGGCGCTTTCAT-AT
*
8327773 AAGCGCCGCTAAAGGTAAGATCATTTAGCGGCGCTTTCATTT
1 AAGCGCCGCTAAAGGTAAGATCA-TTAGCGGCGCTTTCATAT
* ** *
8327815 AAGCGCCGCTAAAGTTCGGGTCATTAGCGGCGCTTAT-ATAT
1 AAGCGCCGCTAAAGGTAAGATCATTAGCGGCGCTT-TCATAT
* * * *
8327856 AAAGCGTCGCTAAAGGTCAGGTCATTAGCGGCGCTTTTATAAT
1 -AAGCGCCGCTAAAGGTAAGATCATTAGCGGCGCTTTCAT-AT
* * ** **
8327899 AAGCGTCACTAAAGGTGTGA--ATTAGCGGCGCTTTCCCAT
1 AAGCGCCGCTAAAGGTAAGATCATTAGCGGCGCTTTCATAT
8327938 AAGCGCCGCTAA
1 AAGCGCCGCTAA
8327950 TGTATTTAAA
Statistics
Matches: 210, Mismatches: 34, Indels: 28
0.77 0.12 0.10
Matches are distributed among these distances:
38 1 0.00
39 26 0.12
40 61 0.29
41 35 0.17
42 83 0.40
43 4 0.02
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (41 bp):
AAGCGCCGCTAAAGGTAAGATCATTAGCGGCGCTTTCATAT
Found at i:8327841 original size:83 final size:83
Alignment explanation
Indices: 8327695--8327949 Score: 254
Period size: 83 Copynumber: 3.1 Consensus size: 83
8327685 TTTGCTTAAT
* * * * * *
8327695 GCGCCGCAAAATGTAA-AGCATTAGCGGCGC-TTAACAA-AAGCGCCACTAAAGGTCAGGTAATT
1 GCGCCGCTAAAGGTAAGATCATTAGCGGCGCTTTCATAATAAGCGCCACTAAAGGTCGGGTAATT
*
8327757 AGCGGCGCTTTATCACAA
66 AGCGGCGCTTTATCAAAA
* * * *
8327775 GCGCCGCTAAAGGTAAGATCATTTAGCGGCGCTTTCAT-TTAAGCGCCGCTAAAGTTCGGGTCAT
1 GCGCCGCTAAAGGTAAGATCA-TTAGCGGCGCTTTCATAATAAGCGCCACTAAAGGTCGGGTAAT
8327839 TAGCGGCGCTTATAT-ATAAA
65 TAGCGGCGCTT-TATCA-AAA
* * * * * *
8327859 GCGTCGCTAAAGGTCAGGTCATTAGCGGCGCTTTTATAATAAGCGTCACTAAAGGT-GTG-AATT
1 GCGCCGCTAAAGGTAAGATCATTAGCGGCGCTTTCATAATAAGCGCCACTAAAGGTCGGGTAATT
** *
8327922 AGCGGCGCTTTCCCATAA
66 AGCGGCGCTTTATCAAAA
8327940 GCGCCGCTAA
1 GCGCCGCTAA
8327950 TGTATTTAAA
Statistics
Matches: 142, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
80 14 0.10
81 15 0.11
82 24 0.17
83 52 0.37
84 37 0.26
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (83 bp):
GCGCCGCTAAAGGTAAGATCATTAGCGGCGCTTTCATAATAAGCGCCACTAAAGGTCGGGTAATT
AGCGGCGCTTTATCAAAA
Found at i:8327941 original size:123 final size:122
Alignment explanation
Indices: 8327713--8327949 Score: 307
Period size: 123 Copynumber: 1.9 Consensus size: 122
8327703 AAATGTAAAG
*
8327713 CATTAGCGGCGCTTAACAAAAGCGCCACTAAAGGTCAGGTAATTAGCGGCGCTTTATCACAAGCG
1 CATTAGCGGCGCTTAACAAAAGCGCCACTAAAGGTCAGGTAATTAGCGGCGCTTTATAACAAGCG
* * **
8327778 CCGCTAAAGGTAAGATCATTTAGCGGCGCTTTCATTTAAGCGCCGCTAAAGTTCGGGT
66 CCACTAAAGGT-AGATCAATTAGCGGCGCTTTCACATAAGCGCCGCTAAAGTTCGGGT
* * * * *
8327836 CATTAGCGGCGCTTATATATAAAGCGTCGCTAAAGGTCAGGTCATTAGCGGCGCTTTTATAATAA
1 CATTAGCGGCGCTTA-ACA-AAAGCGCCACTAAAGGTCAGGTAATTAGCGGCGC-TTTATAACAA
* * *
8327901 GCGTCACTAAAGGT-G-TGAATTAGCGGCGCTTTCCCATAAGCGCCGCTAA
63 GCGCCACTAAAGGTAGATCAATTAGCGGCGCTTTCACATAAGCGCCGCTAA
8327950 TGTATTTAAA
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
123 44 0.45
124 3 0.03
125 31 0.32
126 20 0.20
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (122 bp):
CATTAGCGGCGCTTAACAAAAGCGCCACTAAAGGTCAGGTAATTAGCGGCGCTTTATAACAAGCG
CCACTAAAGGTAGATCAATTAGCGGCGCTTTCACATAAGCGCCGCTAAAGTTCGGGT
Found at i:8330116 original size:49 final size:49
Alignment explanation
Indices: 8330073--8330796 Score: 665
Period size: 49 Copynumber: 14.3 Consensus size: 49
8330063 AAGTATCCTT
*
8330073 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
1 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* *
8330122 GTATATTAAATT-AAATATTTAATTATTTAATTATATTAAAGTAAATAA
1 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* * * * *
8330170 GTATATTAATTTAAAAGATATAATTATTTAATTGTATTAAACTAAATAA
1 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* * ** * *
8330219 TTATATTAAATTATTTAATCATG-TTTAATTATGTATTTA-ATTATAAACACTATCGA
1 TTATATTAAATTA---AA--A-GATTTAATTATTTAATTATATTA-AAGTA-AAT-AA
** *
8330275 TTA-ATTAAATATTTAAG-TTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
1 TTATATTAAAT-TAAAAGATT--TA-A-TT-A---TTTAATTATATTAAAGTAAATAA
* *
8330331 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAACTAA
1 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
8330380 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
1 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* *
8330429 GTATATTAAATT-AAATATTTAATTATTTAATTATATTAAAGTAAATAA
1 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* * * * *
8330477 GTATATTAATTTAAAAGATATAATTATTTAATTGTATTAAACTAAATAA
1 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* * * * **
8330526 TTATATTAAATTATTTAATCATG-TTTAATTATATATTTAATTATAAACACTACCGCTTAA
1 TTATATTAAATTA---AA--A-GATTTAATTATTTAATT-A-TATTAA-AGTA---AATAA
* *
8330586 TTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAACTAA
1 TT--ATA-TTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* * * ** *
8330638 TTATATCAAGTTGAAAGATTTAATTATTTAATTATATTAAAGTATCCT-T
1 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTA-AATAA
* *
8330687 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTTAATAA
1 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
* ** *
8330736 GTATATTAAATT-AATTATTTAATTATTTAATTATATTAAGGTAAATAA
1 TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
8330784 TTATATTAAATTA
1 TTATATTAAATTA
8330797 TTTAATTATA
Statistics
Matches: 559, Mismatches: 74, Indels: 84
0.78 0.10 0.12
Matches are distributed among these distances:
48 136 0.24
49 264 0.47
50 8 0.01
51 1 0.00
52 11 0.02
53 8 0.01
54 32 0.06
55 16 0.03
56 23 0.04
57 16 0.03
58 23 0.04
59 4 0.01
60 7 0.01
62 3 0.01
63 7 0.01
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (49 bp):
TTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAA
Found at i:8330184 original size:18 final size:18
Alignment explanation
Indices: 8330105--8330231 Score: 69
Period size: 18 Copynumber: 7.7 Consensus size: 18
8330095 ATTATTTAAT
*
8330105 TATATTAAAGTAAATAAG
1 TATATTAAATTAAATAAG
8330123 TATATTAAATT--A-AA-
1 TATATTAAATTAAATAAG
** *
8330137 TAT-TT-AATTATTTAAT
1 TATATTAAATTAAATAAG
*
8330153 TATATTAAAGTAAATAAG
1 TATATTAAATTAAATAAG
*
8330171 TATATT-AATTTAA-AAG
1 TATATTAAATTAAATAAG
** *
8330187 -ATA-T-AATTATTTAAT
1 TATATTAAATTAAATAAG
* * *
8330202 TGTATTAAACTAAATAAT
1 TATATTAAATTAAATAAG
8330220 TATATTAAATTA
1 TATATTAAATTA
8330232 TTTAATCATG
Statistics
Matches: 81, Mismatches: 18, Indels: 20
0.68 0.15 0.17
Matches are distributed among these distances:
12 4 0.05
13 2 0.02
14 8 0.10
15 9 0.11
16 9 0.11
17 8 0.10
18 41 0.51
ACGTcount: A:0.50, C:0.01, G:0.05, T:0.44
Consensus pattern (18 bp):
TATATTAAATTAAATAAG
Found at i:8330315 original size:161 final size:160
Alignment explanation
Indices: 8330138--8330678 Score: 743
Period size: 161 Copynumber: 3.5 Consensus size: 160
8330128 TAAATTAAAT
*
8330138 ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAGATATAATTATTTAATT
1 ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAGTTAAAAGATATAATTATTTAATT
* *
8330203 GTATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACA
66 ATATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATATATTTAATTATAAACA
8330268 CTATCGATTAATTAAATATTTAAGTTAAAAG
131 CTA-CGATTAATTAAATATTTAAGTTAAAAG
* *
8330299 ATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAGTTAAAAGATTTAATTATTTAATT
1 ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAGTTAAAAGATATAATTATTTAATT
* * * * *
8330364 ATATTAAAGTAACTAATTATATTAAATTA---AA--A-GATTTAATTATTTAATT-A-TATTAA-
66 ATATTAAACTAAATAATTATATTAAATTATTTAATCATG-TTTAATTATATATTTAATTATAAAC
* * * * *
8330420 AGTA--AATAAGT--ATA-TTAAATT-AAAT
130 ACTACGATTAATTAAATATTTAAGTTAAAAG
*
8330445 ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAGATATAATTATTTAATT
1 ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAGTTAAAAGATATAATTATTTAATT
*
8330510 GTATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATATATTTAATTATAAACA
66 ATATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATATATTTAATTATAAACA
*
8330575 CTACCGCTTAATTAAATATTTAAGTTAAAAG
131 CTA-CGATTAATTAAATATTTAAGTTAAAAG
* * * * *
8330606 ATTTAATTATTTAATTATATTAAAGTAACTAATTATATCAAGTTGAAAGATTTAATTATTTAATT
1 ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAGTTAAAAGATATAATTATTTAATT
8330671 ATATTAAA
66 ATATTAAA
8330679 GTATCCTTTT
Statistics
Matches: 327, Mismatches: 36, Indels: 34
0.82 0.09 0.09
Matches are distributed among these distances:
146 91 0.28
147 6 0.02
148 3 0.01
149 2 0.01
150 5 0.02
151 14 0.04
152 2 0.01
153 8 0.02
154 8 0.02
155 2 0.01
156 14 0.04
157 4 0.01
158 2 0.01
159 3 0.01
160 6 0.02
161 157 0.48
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (160 bp):
ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAGTTAAAAGATATAATTATTTAATT
ATATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATATATTTAATTATAAACA
CTACGATTAATTAAATATTTAAGTTAAAAG
Found at i:8330600 original size:258 final size:249
Alignment explanation
Indices: 8330073--8330823 Score: 847
Period size: 258 Copynumber: 2.9 Consensus size: 249
8330063 AAGTATCCTT
* * *
8330073 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAT
1 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAACTAATTATATTAAATTAAAG
* *
8330138 ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAGATATAATTATTTAATT
66 ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAAGATTTAATTATTTAATT
* * * *
8330203 GTATTAAACTAAATAATTATATTAAATTATTTAATCATG-TTTAATTATGT-ATTTAATTATAAA
131 ATATTAAAGTAAATAAGTATATT--A--ATTTAA--ATGATTTAATTATTTAATTT-A-T-TAAA
* * * * * * *
8330266 C-ACTATCGATTA-ATTAAA-TATTTAAGTTAAAAGATTTAATTATTTAATT-ATATTAAAGTAA
187 CTA-AAT-AATTATATTAAATTATTTAA--T-AATG-TTTAATTATATATTTAATATAAAACTAA
8330327 ATAA
246 ATAA
8330331 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAACTAATTATATTAAATTAAAA
1 TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAACTAATTATATTAAATT-AAA
*
8330396 GATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATT-AAATATTTAATTATTTAAT
65 GATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAAGATTTAATTATTTAAT
* *
8330460 TATATTAAAGTAAATAAGTATATTAATTTAAAAGATATAATTATTTAATTGTATTAAACTAAATA
130 TATATTAAAGTAAATAAGTATATTAATTTAAATGATTTAATTATTTAATT-TATTAAACTAAATA
* **
8330525 ATTATATTAAATTATTTAATCATGTTTAATTATATATTTAATTATAAACACTACCGCTTAA
194 ATTATATTAAATTATTTAATAATGTTTAATTATATATTTAA-TATAAA-ACTA---AATAA
* *
8330586 TTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAACTAATTATATCAAGTTG
1 TT--ATA-TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAACTAATTATATTAAATT-
** ** *
8330651 AAAGATTTAATTATTTAATTATATTAAAGTATCCT-TTTATATTAAGTTAAAAGATTTAATTATT
62 AAAGATTTAATTATTTAATTATATTAAAGTA-AATAAGTATATTAAATTAAAAGATTTAATTATT
* * * **
8330715 TAATTATATTAAAGTTAATAAGTATATTAAATT-AATTATTTAATTATTTAATTATATTAAGGTA
126 TAATTATATTAAAGTAAATAAGTATATTAATTTAAATGATTTAATTATTTAATT-TATTAAACTA
* *
8330779 AATAATTATATTAAATTATTTAATTATATTTAATTA-ACTATTTAA
190 AATAATTATATTAAATTATTTAATAATGTTTAATTATA-TATTTAA
8330824 CTTAAAATGT
Statistics
Matches: 433, Mismatches: 41, Indels: 38
0.85 0.08 0.07
Matches are distributed among these distances:
249 13 0.03
250 3 0.01
251 10 0.02
252 18 0.04
253 18 0.04
254 10 0.02
255 6 0.01
256 1 0.00
257 4 0.01
258 258 0.60
259 92 0.21
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (249 bp):
TTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAACTAATTATATTAAATTAAAG
ATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAAATTAAAAGATTTAATTATTTAATT
ATATTAAAGTAAATAAGTATATTAATTTAAATGATTTAATTATTTAATTTATTAAACTAAATAAT
TATATTAAATTATTTAATAATGTTTAATTATATATTTAATATAAAACTAAATAA
Found at i:8330627 original size:307 final size:307
Alignment explanation
Indices: 8330063--8330792 Score: 1309
Period size: 307 Copynumber: 2.4 Consensus size: 307
8330053 AAACTTAAAT
* *
8330063 AAGTATCCTTTTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATAT
1 AAGTATACTATTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATAT
8330128 TAAATTAAATATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAGATATAA
66 TAAATTAAATATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAGATATAA
*
8330193 TTATTTAATTGTATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTA
131 TTATTTAATTGTATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATATATTTA
*
8330258 ATTATAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAA
196 ATTATAAACACTACCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAA
*
8330323 GTAAATAATTATATTAAGTTAAAAGATTTAATTATTTAATTATATTA
261 GTAAATAATTATATCAAGTTAAAAGATTTAATTATTTAATTATATTA
*
8330370 AAGTA-ACTAATTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATA
1 AAGTATACT-ATTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATA
8330434 TTAAATTAAATATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAGATATA
65 TTAAATTAAATATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAGATATA
8330499 ATTATTTAATTGTATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATATATTT
130 ATTATTTAATTGTATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATATATTT
*
8330564 AATTATAAACACTACCGCTTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAA
195 AATTATAAACACTACCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAA
* *
8330629 AGTAACTAATTATATCAAGTTGAAAGATTTAATTATTTAATTATATTA
260 AGTAAATAATTATATCAAGTTAAAAGATTTAATTATTTAATTATATTA
* * *
8330677 AAGTATCCTTTTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTTAATAAGTATAT
1 AAGTATACTATTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATAT
* * *
8330742 TAAATTAATTATTTAATTATTTAATTATATTAAGGTAAATAATTATATTAA
66 TAAATTAAATATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAA
8330793 ATTATTTAAT
Statistics
Matches: 405, Mismatches: 16, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
306 2 0.00
307 401 0.99
308 2 0.00
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (307 bp):
AAGTATACTATTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAGTATAT
TAAATTAAATATTTAATTATTTAATTATATTAAAGTAAATAAGTATATTAATTTAAAAGATATAA
TTATTTAATTGTATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATATATTTA
ATTATAAACACTACCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAA
GTAAATAATTATATCAAGTTAAAAGATTTAATTATTTAATTATATTA
Found at i:8330717 original size:8 final size:8
Alignment explanation
Indices: 8330704--8330805 Score: 59
Period size: 8 Copynumber: 12.2 Consensus size: 8
8330694 AAGTTAAAAG
8330704 ATTTAATT
1 ATTTAATT
8330712 ATTTAATT
1 ATTTAATT
8330720 ATATTAAAGTT
1 AT-TT-AA-TT
* *
8330731 A-ATAAGT
1 ATTTAATT
8330738 ATATTAA--
1 AT-TTAATT
8330745 A-TTAATT
1 ATTTAATT
8330752 ATTTAATT
1 ATTTAATT
8330760 ATTTAATT
1 ATTTAATT
*
8330768 ATATTAAGGT
1 AT-TTAA-TT
**
8330778 AAATAATT
1 ATTTAATT
8330786 ATATTAAATT
1 AT-TT-AATT
8330796 ATTTAATT
1 ATTTAATT
8330804 AT
1 AT
8330806 ATTTAATTAA
Statistics
Matches: 73, Mismatches: 9, Indels: 24
0.69 0.08 0.23
Matches are distributed among these distances:
5 4 0.05
7 4 0.05
8 36 0.49
9 16 0.22
10 10 0.14
11 3 0.04
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (8 bp):
ATTTAATT
Found at i:8330879 original size:8 final size:8
Alignment explanation
Indices: 8330843--8330936 Score: 65
Period size: 8 Copynumber: 11.8 Consensus size: 8
8330833 TGGTCGTAAA
8330843 TAATTATAT
1 TAATTAT-T
8330852 ATAATTATT
1 -TAATTATT
8330861 TAAGCTTATT
1 TAA--TTATT
8330871 TAATTATT
1 TAATTATT
8330879 TAATTGA--
1 TAATT-ATT
**
8330886 -AAAAATT
1 TAATTATT
8330893 TAATTATT
1 TAATTATT
8330901 TAATTATAT
1 TAATTAT-T
8330910 TAA--A-T
1 TAATTATT
*
8330915 TAAATATT
1 TAATTATT
8330923 TAATTATT
1 TAATTATT
8330931 TAATTA
1 TAATTA
8330937 ATAAAAACAG
Statistics
Matches: 69, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
5 5 0.07
6 2 0.03
7 2 0.03
8 39 0.57
9 6 0.09
10 15 0.22
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (8 bp):
TAATTATT
Found at i:8330917 original size:22 final size:22
Alignment explanation
Indices: 8330870--8330938 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
8330860 TTAAGCTTAT
*
8330870 TTAATTATTTAATTGA-A-AAAA
1 TTAATTATTTAATT-ATATTAAA
8330891 TTTAATTATTTAATTATATTAAA
1 -TTAATTATTTAATTATATTAAA
*
8330914 TTAAATATTTAATTAT-TT-AA
1 TTAATTATTTAATTATATTAAA
8330934 TTAAT
1 TTAAT
8330939 AAAAACAGGC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 6 0.14
21 3 0.07
22 30 0.71
23 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (22 bp):
TTAATTATTTAATTATATTAAA
Found at i:8336565 original size:66 final size:66
Alignment explanation
Indices: 8336459--8336615 Score: 224
Period size: 66 Copynumber: 2.4 Consensus size: 66
8336449 CAAATTGCTC
* *
8336459 AACTTAAAGAGGAGGCCGCAACGAGAGAAGCAGAGGCTCAAAAAAAATATGATGAACTCCATATA
1 AACTTAAAGAGGAGGCCGCAACGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACATA
8336524 A
66 A
** * *
8336525 AACTTAAAGAGGAGGTTGCAATGAGAGAAGCAGAGTCTCAAAAAAAATATGAAGAACTCCACATA
1 AACTTAAAGAGGAGGCCGCAACGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACATA
*
8336590 C
66 A
* * *
8336591 AACTTAAAGTGGAGGCAGCAGCGAG
1 AACTTAAAGAGGAGGCCGCAACGAG
8336616 GCAAGCCGAA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 79 1.00
ACGTcount: A:0.45, C:0.16, G:0.24, T:0.15
Consensus pattern (66 bp):
AACTTAAAGAGGAGGCCGCAACGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACATA
A
Found at i:8336653 original size:24 final size:21
Alignment explanation
Indices: 8336607--8336646 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
8336597 AAGTGGAGGC
8336607 AGCAGCGAGGCAAGCCGAAGT
1 AGCAGCGAGGCAAGCCGAAGT
8336628 AGCAGCGAGGCAAG-CGAAG
1 AGCAGCGAGGCAAGCCGAAG
8336647 GAAGTAGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.35, C:0.23, G:0.40, T:0.03
Consensus pattern (21 bp):
AGCAGCGAGGCAAGCCGAAGT
Found at i:8337015 original size:43 final size:43
Alignment explanation
Indices: 8336954--8337221 Score: 446
Period size: 43 Copynumber: 6.2 Consensus size: 43
8336944 CTGTTATATT
* *
8336954 AGCGGCGCTTTTGGATAAAGCGCCGCTAAAGAACATGGCCTTC
1 AGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCTTC
*
8336997 AGCGGCGCTTGTGGATAAAGCGCCGCTAAAGAACATGGCCTTC
1 AGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCTTC
*
8337040 AGCGGTGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCTTC
1 AGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCTTC
* *
8337083 AGCGGTGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCTTT
1 AGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCTTC
* * *
8337126 AGCGGCGCTTCTGGAGAAAGCGCCGCTGAAGAACATGGCATTC
1 AGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCTTC
*
8337169 AGCGGCGCTTGTGGAAAAAGCGCCGCTAAAGAACATGGCCTTC
1 AGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCTTC
8337212 AGCGGCGCTT
1 AGCGGCGCTT
8337222 TTTCGCATAA
Statistics
Matches: 212, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 212 1.00
ACGTcount: A:0.25, C:0.25, G:0.31, T:0.19
Consensus pattern (43 bp):
AGCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGCCTTC
Found at i:8347244 original size:5 final size:5
Alignment explanation
Indices: 8347234--8347263 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
8347224 AAAATGGTGG
8347234 TGGTA TGGTA TGGTA TGGTA TGGTA TGGTA
1 TGGTA TGGTA TGGTA TGGTA TGGTA TGGTA
8347264 AGAGGTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (5 bp):
TGGTA
Found at i:8347882 original size:15 final size:16
Alignment explanation
Indices: 8347854--8347892 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
8347844 GATGAAGCCA
8347854 TTTCTTTT-CTCTCTT
1 TTTCTTTTCCTCTCTT
8347869 TTT-TTTTCCTCTCTT
1 TTTCTTTTCCTCTCTT
8347884 TTTCTTTTC
1 TTTCTTTTC
8347893 TTTTGTGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.18
15 13 0.59
16 5 0.23
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTCTTTTCCTCTCTT
Found at i:8348794 original size:19 final size:20
Alignment explanation
Indices: 8348770--8348814 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
8348760 GTTTTAATTT
8348770 AATTAAT-A-ATATGAAAAAA
1 AATTAATGATATATG-AAAAA
*
8348789 AATTAATGATATTTGAAAAA
1 AATTAATGATATATGAAAAA
8348809 AATTAA
1 AATTAA
8348815 ATTTACTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 7 0.30
20 12 0.52
21 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (20 bp):
AATTAATGATATATGAAAAA
Found at i:8354212 original size:51 final size:48
Alignment explanation
Indices: 8354088--8354214 Score: 159
Period size: 48 Copynumber: 2.6 Consensus size: 48
8354078 AATTTGGTGG
* * *
8354088 ATTATATACTATTAATTTAAAAACAAAAATTGGTGATTATTATTTTAA
1 ATTATCTACTATTAATTTAAAAACAAAAAATGGTGATTATAATTTTAA
8354136 ATTATCTACTATTAA-TTAAAAACAAAAAATGGTGGATTATAATTTTAA
1 ATTATCTACTATTAATTTAAAAACAAAAAATGGT-GATTATAATTTTAA
* *
8354184 GTTATTATCT-TTTTTAATTTAAAAACAAAAA
1 ---ATTATCTACTATTAATTTAAAAACAAAAA
8354215 TATTGTACAT
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
47 17 0.25
48 27 0.39
50 5 0.07
51 20 0.29
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (48 bp):
ATTATCTACTATTAATTTAAAAACAAAAAATGGTGATTATAATTTTAA
Found at i:8379667 original size:24 final size:23
Alignment explanation
Indices: 8379622--8379667 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
8379612 AATGCAGAAG
* *
8379622 CGTGTCACAAGGCAGAGGAAAAA
1 CGTGCCACAAGGCAGAGAAAAAA
*
8379645 CGTGCCACAAAGGCAGATAAAAA
1 CGTGCCAC-AAGGCAGAGAAAAA
8379668 CTAGAAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.46, C:0.20, G:0.26, T:0.09
Consensus pattern (23 bp):
CGTGCCACAAGGCAGAGAAAAAA
Found at i:8381669 original size:2 final size:2
Alignment explanation
Indices: 8381631--8381655 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8381621 TAACTTTAGG
8381631 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8381656 CCTATTTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8387119 original size:12 final size:12
Alignment explanation
Indices: 8387110--8387135 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8387100 TATGCAAGCT
8387110 CAGTTACAAGAA
1 CAGTTACAAGAA
8387122 CAGTTACAAGAA
1 CAGTTACAAGAA
8387134 CA
1 CA
8387136 AATGGCGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.19, G:0.15, T:0.15
Consensus pattern (12 bp):
CAGTTACAAGAA
Found at i:8389477 original size:4 final size:4
Alignment explanation
Indices: 8389468--8389494 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
8389458 AAAGAGGTAA
8389468 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
8389495 AAGAAAAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:8389566 original size:14 final size:13
Alignment explanation
Indices: 8389547--8389587 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
8389537 TTAAAACCCA
8389547 AAAAAAAGAAAAAG
1 AAAAAAAG-AAAAG
8389561 AAAAAAAGAAAAG
1 AAAAAAAGAAAAG
*
8389574 AAAAGAAGGAAAAG
1 AAAA-AAAGAAAAG
8389588 TCAAGATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 9 0.36
14 16 0.64
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAG
Found at i:8390447 original size:20 final size:20
Alignment explanation
Indices: 8390424--8390461 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
8390414 AGAGAGAAAA
*
8390424 GAAAAGAAAAAGGGAAAAGG
1 GAAAAGAAAAAAGGAAAAGG
8390444 GAAAAGAAAAAAGGAAAA
1 GAAAAGAAAAAAGGAAAA
8390462 AAAGAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (20 bp):
GAAAAGAAAAAAGGAAAAGG
Found at i:8396027 original size:39 final size:40
Alignment explanation
Indices: 8395978--8396083 Score: 117
Period size: 42 Copynumber: 2.6 Consensus size: 40
8395968 CTGGATTAGG
* **
8395978 GGTAAAAGATTGGATGACTTCAATTC-ACCTCATGGTCGA
1 GGTAAGAGATTGGATGACTTCAATTCTACCTCATGACCGA
* *
8396017 GGTAAGAGATTGGATGATGACTTCAA-TCTGCCTCATGACCGG
1 GGTAAGAGATT-G--GATGACTTCAATTCTACCTCATGACCGA
*
8396059 GGTAAGAGATTGGATGACTTTAATT
1 GGTAAGAGATTGGATGACTTCAATT
8396084 TGCCCTTCTT
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
41 3 0.05
42 31 0.55
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (40 bp):
GGTAAGAGATTGGATGACTTCAATTCTACCTCATGACCGA
Found at i:8396036 original size:42 final size:42
Alignment explanation
Indices: 8395990--8396075 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 42
8395980 TAAAAGATTG
**
8395990 GATGACTTCAAT-TCACCTCATGGTCGAGGTAAGAGATTGGAT
1 GATGACTTCAATCT-ACCTCATGACCGAGGTAAGAGATTGGAT
* *
8396032 GATGACTTCAATCTGCCTCATGACCGGGGTAAGAGATTGGAT
1 GATGACTTCAATCTACCTCATGACCGAGGTAAGAGATTGGAT
8396074 GA
1 GA
8396076 CTTTAATTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 38 0.97
43 1 0.03
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (42 bp):
GATGACTTCAATCTACCTCATGACCGAGGTAAGAGATTGGAT
Found at i:8396147 original size:46 final size:46
Alignment explanation
Indices: 8396017--8396587 Score: 332
Period size: 46 Copynumber: 13.3 Consensus size: 46
8396007 TCATGGTCGA
* * * **
8396017 GGTAAGAGATTGGATGATGACTTCAATCTG-CC-TCATGAC--CGG
1 GGTAAAAGATTGGATGATGGCTTCAATCTGCCCTTCTTGACTTAAG
* * *
8396059 GGTAAGAGATTGGATGA---CTTTAATTTGCCCTTCTTGACTTAAG
1 GGTAAAAGATTGGATGATGGCTTCAATCTGCCCTTCTTGACTTAAG
*
8396102 GGTAAAAGATTGGATGATGGCTTCAATCTGCCCTTCTTGAGTTAA-
1 GGTAAAAGATTGGATGATGGCTTCAATCTGCCCTTCTTGACTTAAG
* * *
8396147 GGT-AAAGATT--A-GATGGTTTCAATCTGCCC--CATGA-TCAA-
1 GGTAAAAGATTGGATGATGGCTTCAATCTGCCCTTCTTGACTTAAG
* * * * * *
8396185 CGTAAGAGATTGGATGATGGCTTTAATCTACCTTTCTTGACTTAAA
1 GGTAAAAGATTGGATGATGGCTTCAATCTGCCCTTCTTGACTTAAG
* * * **
8396231 GGT-AAAGATT-G--GATGGCTTCAATCTG-TC-ACATGA-TCGA-
1 GGTAAAAGATTGGATGATGGCTTCAATCTGCCCTTCTTGACTTAAG
* * * *
8396269 GGTAAAAGATTGGATGATGTCTTCAATTTACCCCTT-TTGACTTAGG
1 GGTAAAAGATTGGATGATGGCTTCAATCT-GCCCTTCTTGACTTAAG
* * *
8396315 GGTAAAAGATTAGATGATAGCTTCAATCTGCCCTTCTTGACTTAAA
1 GGTAAAAGATTGGATGATGGCTTCAATCTGCCCTTCTTGACTTAAG
* * **
8396361 GGT--AA-A---GAT--TGGCTTCAATTTG-CC-TCATGA--TCGG
1 GGTAAAAGATTGGATGATGGCTTCAATCTGCCCTTCTTGACTTAAG
* * * * * * *
8396395 GGTAAGAGATAGAATAATGTCTTTAATCTG-CCTCTCTTGACTTAGG
1 GGTAAAAGATTGGATGATGGCTTCAATCTGCCCT-TCTTGACTTAAG
* * * **
8396441 GGTAAAAGATTGGATTATGGCTTCAATTTGCCC--CATGA--TCGG
1 GGTAAAAGATTGGATGATGGCTTCAATCTGCCCTTCTTGACTTAAG
* *
8396483 GGTAAGAGATTGGATGA---CTTTAATCTGCCCTTCTTGACTTAAG
1 GGTAAAAGATTGGATGATGGCTTCAATCTGCCCTTCTTGACTTAAG
* * * * *
8396526 GGTAAAAGATTAGATGATGGTTTTAATCTGTCGTTCTTGACTTAAG
1 GGTAAAAGATTGGATGATGGCTTCAATCTGCCCTTCTTGACTTAAG
8396572 GGTAAAAGATTGGATG
1 GGTAAAAGATTGGATG
8396588 GTGATGTAAC
Statistics
Matches: 403, Mismatches: 81, Indels: 86
0.71 0.14 0.15
Matches are distributed among these distances:
34 4 0.01
36 6 0.01
37 3 0.01
38 19 0.05
39 38 0.09
40 12 0.03
41 28 0.07
42 87 0.22
43 35 0.09
44 27 0.07
45 18 0.04
46 124 0.31
47 2 0.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (46 bp):
GGTAAAAGATTGGATGATGGCTTCAATCTGCCCTTCTTGACTTAAG
Found at i:8396264 original size:84 final size:83
Alignment explanation
Indices: 8396103--8396346 Score: 292
Period size: 84 Copynumber: 2.9 Consensus size: 83
8396093 TGACTTAAGG
* * *
8396103 GTAAAAGATTGGATGATGGCTTCAATCTGCCCTTCTTGAGTTAAGGTAAAGATTAGATGGTTTCA
1 GTAAAAGATTGGATGATGGCTTCAATCTACCCTTCTTGACTTAAGGTAAAGATTAGATGGCTTCA
*
8396168 ATCTGCCCCATGATCAAC
66 ATCTGCCACATGATCAAC
* * * *
8396186 GTAAGAGATTGGATGATGGCTTTAATCTACCTTTCTTGACTTAAAGGTAAAGATTGGATGGCTTC
1 GTAAAAGATTGGATGATGGCTTCAATCTACCCTTCTTGACTT-AAGGTAAAGATTAGATGGCTTC
* * *
8396251 AATCTGTCACATGATCGAG
65 AATCTGCCACATGATCAAC
* * *
8396270 GTAAAAGATTGGATGATGTCTTCAATTTACCCCTT-TTGACTTAGGGGTAAAAGATTAGATGATA
1 GTAAAAGATTGGATGATGGCTTCAATCTA-CCCTTCTTGACTTA-AGGT-AAAGATTAGATG---
8396334 GCTTCAATCTGCC
60 GCTTCAATCTGCC
8396347 CTTCTTGACT
Statistics
Matches: 135, Mismatches: 19, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
83 38 0.28
84 70 0.52
85 15 0.11
88 12 0.09
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (83 bp):
GTAAAAGATTGGATGATGGCTTCAATCTACCCTTCTTGACTTAAGGTAAAGATTAGATGGCTTCA
ATCTGCCACATGATCAAC
Found at i:8396441 original size:126 final size:128
Alignment explanation
Indices: 8396186--8396473 Score: 355
Period size: 126 Copynumber: 2.2 Consensus size: 128
8396176 CATGATCAAC
* * * *
8396186 GTAAGAGATTGGATGATGGCTTTAATCTACCTTTCTTGACTTAAAGGTAAAGATTGGATGGCTTC
1 GTAAAAGATTGGATGATGGCTTCAATCTGCCCTTCTTGACTTAAAGGTAAAGATT-G-TGGCTTC
* * * * * *
8396251 AATCTGTCACATGATCGAGGTAAAAGATTGGATGATGTCTTCAATTTACCCCTTTTGACTTAGGG
64 AATCTGCCACATGATCGAGGTAAAAGATAGAATAATGTCTTCAATCTACCCCTCTTGACTTAGGG
* *
8396316 GTAAAAGATTAGATGATAGCTTCAATCTGCCCTTCTTGACTTAAAGGTAAAGA-T-TGGCTTCAA
1 GTAAAAGATTGGATGATGGCTTCAATCTGCCCTTCTTGACTTAAAGGTAAAGATTGTGGCTTCAA
* * * * * * *
8396379 TTTGCCTCATGATCGGGGTAAGAGATAGAATAATGTCTTTAATCTGCCTCTCTTGACTTAGGG
66 TCTGCCACATGATCGAGGTAAAAGATAGAATAATGTCTTCAATCTACCCCTCTTGACTTAGGG
* *
8396442 GTAAAAGATTGGATTATGGCTTCAATTTGCCC
1 GTAAAAGATTGGATGATGGCTTCAATCTGCCC
8396474 CATGATCGGG
Statistics
Matches: 135, Mismatches: 23, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
126 87 0.64
129 1 0.01
130 47 0.35
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (128 bp):
GTAAAAGATTGGATGATGGCTTCAATCTGCCCTTCTTGACTTAAAGGTAAAGATTGTGGCTTCAA
TCTGCCACATGATCGAGGTAAAAGATAGAATAATGTCTTCAATCTACCCCTCTTGACTTAGGG
Found at i:8396811 original size:96 final size:95
Alignment explanation
Indices: 8396644--8396981 Score: 482
Period size: 96 Copynumber: 3.5 Consensus size: 95
8396634 ATTTGTTACC
** * * *
8396644 TGTTTTGACCCACTTCTCTATATCTCATCAGGAAGATGGGTTTGAAGTTTCGCTTCACTCCACTG
1 TGTTTTGATTCACTTCTCTATATCTCATCAAGAAGATGGGTTTGAAGTTTCGCTCCACTCCACTA
8396709 TAACCTCAGGGACATTGAGCTCTGCTTCAT
66 TAACCTCAGGGACATTGAGCTCTGCTTCAT
* *
8396739 TATTTTGATTCACTTCTCTGTATCTCATCAAGAAGATGAGGTTTGAAGTTTCGCTCCACTCCACT
1 TGTTTTGATTCACTTCTCTATATCTCATCAAGAAGATG-GGTTTGAAGTTTCGCTCCACTCCACT
* *
8396804 ATAACCTCAGGGATATTGAGCTCTGCCTCAT
65 ATAACCTCAGGGACATTGAGCTCTGCTTCAT
* * *
8396835 TGTTTTGA-TCTACTTCTCTATATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCTACTCCAC
1 TGTTTTGATTC-ACTTCTCTATATCTCATCAAGAAGAT-GGGTTTGAAGTTTCGCTCCACTCCAC
* * *
8396899 TACAACCTTAGGGACGTTGAGCTCTGCTTCAT
64 TATAACCTCAGGGACATTGAGCTCTGCTTCAT
*
8396931 TGTTTTGATCCACTTCTCTATATCTCATC-AGAAAGATGGGTTTGAAGTTTC
1 TGTTTTGATTCACTTCTCTATATCTCATCAAG-AAGATGGGTTTGAAGTTTC
8396982 ACTCACATTG
Statistics
Matches: 217, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
95 50 0.23
96 165 0.76
97 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.36
Consensus pattern (95 bp):
TGTTTTGATTCACTTCTCTATATCTCATCAAGAAGATGGGTTTGAAGTTTCGCTCCACTCCACTA
TAACCTCAGGGACATTGAGCTCTGCTTCAT
Found at i:8397079 original size:48 final size:48
Alignment explanation
Indices: 8397003--8397186 Score: 226
Period size: 48 Copynumber: 3.8 Consensus size: 48
8396993 ACTTCGCTTA
* * *
8397003 ATTGTTTTGGTCCACTTCTCTATCTCTCATCAAGAAGATGACCACTTC
1 ATTGTTTTGGTCCTCTTCTCTGTATCTCATCAAGAAGATGACCACTTC
* * * * * *
8397051 ATTATTTTGGGCCTCTTTTCTGTATCTCATCAGGAAGATGATCTCTTC
1 ATTGTTTTGGTCCTCTTCTCTGTATCTCATCAAGAAGATGACCACTTC
* *
8397099 ATTGTTTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTC
1 ATTGTTTTGGTCCTCTTCTCTGTATCTCATCAAGAAGATGACCACTTC
* * *
8397147 ATTGTTTTGATCCAT-TTCTCTGTATCTCATTAGGAAGATG
1 ATTGTTTTGGTCC-TCTTCTCTGTATCTCATCAAGAAGATG
8397187 GAGTTTGAAG
Statistics
Matches: 115, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
48 115 1.00
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (48 bp):
ATTGTTTTGGTCCTCTTCTCTGTATCTCATCAAGAAGATGACCACTTC
Found at i:8397169 original size:96 final size:96
Alignment explanation
Indices: 8397003--8397186 Score: 280
Period size: 96 Copynumber: 1.9 Consensus size: 96
8396993 ACTTCGCTTA
* *
8397003 ATTGTTTTGGTCCACTTCTCTATCTCTCATCAAGAAGATGACCACTTCATTATTTTGGGCCTCTT
1 ATTGTTTTGGTCCACTTCTCTATATCTCATCAAGAAGATGACCACTTCATTATTTTGAGCCTCTT
*
8397068 TTCTGTATCTCATCAGGAAGATGATCTCTTC
66 CTCTGTATCTCATCAGGAAGATGATCTCTTC
* * * *
8397099 ATTGTTTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCCAT-T
1 ATTGTTTTGGTCCACTTCTCTATATCTCATCAAGAAGATGACCACTTCATTATTTTGAGCC-TCT
*
8397163 TCTCTGTATCTCATTAGGAAGATG
65 TCTCTGTATCTCATCAGGAAGATG
8397187 GAGTTTGAAG
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
96 78 0.99
97 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (96 bp):
ATTGTTTTGGTCCACTTCTCTATATCTCATCAAGAAGATGACCACTTCATTATTTTGAGCCTCTT
CTCTGTATCTCATCAGGAAGATGATCTCTTC
Found at i:8397287 original size:48 final size:48
Alignment explanation
Indices: 8397216--8397310 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
8397206 CATTGAGCTT
* * *
8397216 CGCTTCATTGTTTTGGTTCACTTCTCTGTATCTCATC-AGAAAGATGAC
1 CGCTTCATTGTTTTGATCCACTTCTCTGCATCTCATCAAG-AAGATGAC
8397264 CGCTTCATTGTTTTGATCCACTTCTCTGCATCTCATCAAGAAGATGA
1 CGCTTCATTGTTTTGATCCACTTCTCTGCATCTCATCAAGAAGATGA
8397311 GGTTTGAAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 41 0.95
49 2 0.05
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (48 bp):
CGCTTCATTGTTTTGATCCACTTCTCTGCATCTCATCAAGAAGATGAC
Found at i:8397316 original size:123 final size:123
Alignment explanation
Indices: 8397095--8397326 Score: 387
Period size: 123 Copynumber: 1.9 Consensus size: 123
8397085 AAGATGATCT
8397095 CTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCC
1 CTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCC
* * * *
8397160 ATTTCTCTGTATCTCATTAGGAAGATGGAGTTTGAAGTTTCACTCACATTGAGCTTCG
66 ACTTCTCTGCATCTCATCAAGAAGATGGAGTTTGAAGTTTCACTCACATTGAGCTTCG
*
8397218 CTTCATTGTTTTGGTTCACTTCTCTGTATCTCATC-AGAAAGATGACCGCTTCATTGTTTTGATC
1 CTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAAG-AAGATGACCGCTTCATTGTTTTGATC
8397282 CACTTCTCTGCATCTCATCAAGAAGAT-GAGGTTTGAAGTTTCACT
65 CACTTCTCTGCATCTCATCAAGAAGATGGA-GTTTGAAGTTTCACT
8397327 ATAATTTTGA
Statistics
Matches: 102, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
122 4 0.04
123 98 0.96
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.40
Consensus pattern (123 bp):
CTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTGTTTTGATCC
ACTTCTCTGCATCTCATCAAGAAGATGGAGTTTGAAGTTTCACTCACATTGAGCTTCG
Found at i:8398306 original size:6 final size:6
Alignment explanation
Indices: 8398295--8398362 Score: 54
Period size: 6 Copynumber: 11.8 Consensus size: 6
8398285 TTGACCTCTC
* * * *
8398295 CTTTTT CTTTTTT CTTATT CTTTTT CTTTCT -TTTTT C-TTTC CCTTTT
1 CTTTTT C-TTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
8398342 CCTTTT C-TTTT C-TTTT CTTTT
1 CTTTTT CTTTTT CTTTTT CTTTT
8398363 CTCTCTCTTC
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
5 18 0.35
6 28 0.54
7 6 0.12
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.76
Consensus pattern (6 bp):
CTTTTT
Found at i:8398317 original size:13 final size:12
Alignment explanation
Indices: 8398297--8398362 Score: 68
Period size: 12 Copynumber: 5.8 Consensus size: 12
8398287 GACCTCTCCT
8398297 TTTTCTTTTTTC
1 TTTTCTTTTTTC
8398309 TTATTC-TTTTTC
1 TT-TTCTTTTTTC
8398321 -TTTCTTTTTTC
1 TTTTCTTTTTTC
* * *
8398332 TTTCCCTTTTCC
1 TTTTCTTTTTTC
8398344 TTTTC--TTTTC
1 TTTTCTTTTTTC
8398354 TTTTCTTTT
1 TTTTCTTTT
8398363 CTCTCTCTTC
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
10 12 0.27
11 7 0.16
12 22 0.50
13 3 0.07
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:8398328 original size:23 final size:22
Alignment explanation
Indices: 8398298--8398371 Score: 78
Period size: 23 Copynumber: 3.3 Consensus size: 22
8398288 ACCTCTCCTT
8398298 TTTCTTTTTTCTTATTCTTTTTC
1 TTTCTTTTTTCTT-TTCTTTTTC
* *
8398321 TTTCTTTTTTCTTTCCCTTTTCC
1 TTTCTTTTTTCTTT-TCTTTTTC
*
8398344 TTT-TCTTTTCTTTTCTTTTCTC
1 TTTCTTTTTTCTTTTCTTTT-TC
*
8398366 TCTCTT
1 TTTCTT
8398372 CTCTTTTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
21 5 0.12
22 13 0.32
23 23 0.56
ACGTcount: A:0.01, C:0.24, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTCTTTTTTCTTTTCTTTTTC
Found at i:8398353 original size:5 final size:5
Alignment explanation
Indices: 8398304--8398382 Score: 61
Period size: 5 Copynumber: 14.8 Consensus size: 5
8398294 CCTTTTTCTT
* *
8398304 TTTTC TTATTC TTTTTC TTTCTT TTTTC TTTCCC TTTTCC TTTTC TTTTC
1 TTTTC TT-TTC -TTTTC TTT-TC TTTTC TTT-TC TTTT-C TTTTC TTTTC
* *
8398354 TTTTC TTTTC TCTCTC TTCTC TTTT- TTTT
1 TTTTC TTTTC T-TTTC TTTTC TTTTC TTTT
8398383 GGGTAAAATG
Statistics
Matches: 62, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
4 4 0.06
5 33 0.53
6 23 0.37
7 2 0.03
ACGTcount: A:0.01, C:0.24, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTC
Found at i:8400822 original size:4 final size:4
Alignment explanation
Indices: 8400805--8400838 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
8400795 CCCTTTTCTT
* *
8400805 TTTC TTTT TTTC TTTC TTTC TTTC TTTT TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
8400839 ACCTCTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (4 bp):
TTTC
Found at i:8400836 original size:12 final size:12
Alignment explanation
Indices: 8400798--8400838 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
8400788 ATCTTGGCCC
*
8400798 TTTTCTTT-TTC
1 TTTTCTTTCTTT
8400809 TTTT-TTTCTTT
1 TTTTCTTTCTTT
*
8400820 CTTTCTTTCTTT
1 TTTTCTTTCTTT
8400832 TTTTCTT
1 TTTTCTT
8400839 ACCTCTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
10 3 0.12
11 9 0.36
12 13 0.52
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTCTTTCTTT
Found at i:8401382 original size:16 final size:15
Alignment explanation
Indices: 8401361--8401391 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
8401351 CAAATTGGAC
8401361 AAGAATGATTGTATTA
1 AAGAATGATTG-ATTA
8401377 AAGAATGATTGATTA
1 AAGAATGATTGATTA
8401392 TGTAACTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (15 bp):
AAGAATGATTGATTA
Found at i:8401792 original size:21 final size:21
Alignment explanation
Indices: 8401768--8401816 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
8401758 CTCCTACTGG
*
8401768 TACAAGTAATAGGTCTACCGA
1 TACAAGTAATAGGTCTACCAA
* *
8401789 TACAAGTGATAGTTCTACCAA
1 TACAAGTAATAGGTCTACCAA
*
8401810 TAGAAGT
1 TACAAGT
8401817 GACTCTTCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (21 bp):
TACAAGTAATAGGTCTACCAA
Found at i:8401817 original size:21 final size:21
Alignment explanation
Indices: 8401781--8401854 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
8401771 AAGTAATAGG
* *
8401781 TCTACCGATACAAGTGATAGT
1 TCTACCAATACAAGTGATACT
*
8401802 TCTACCAATAGAAGTGACT-CT
1 TCTACCAATACAAGTGA-TACT
* **
8401823 TCTACCGATACAAGTCCTACT
1 TCTACCAATACAAGTGATACT
8401844 TCTACCAATAC
1 TCTACCAATAC
8401855 TAAAAACTCC
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 1 0.02
21 41 0.95
22 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (21 bp):
TCTACCAATACAAGTGATACT
Found at i:8408471 original size:21 final size:21
Alignment explanation
Indices: 8408447--8408519 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
8408437 GTGCAGACTC
*
8408447 CTACCGATACAAGTGATAGTT
1 CTACCGATACAAGTGATACTT
*
8408468 CTACTGATACAAGTGACT-CTT
1 CTACCGATACAAGTGA-TACTT
* **
8408489 CTACCGATATAAGTCTTACTT
1 CTACCGATACAAGTGATACTT
8408510 CTACCGATAC
1 CTACCGATAC
8408520 TAAAAACTCC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.02
21 41 0.95
22 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (21 bp):
CTACCGATACAAGTGATACTT
Found at i:8415356 original size:15 final size:15
Alignment explanation
Indices: 8415325--8415386 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
8415315 ATAACTTAAA
8415325 TTCAATACTTACA-TT
1 TTCAATACTTA-ATTT
*
8415340 TTCAAAACTTAATTT
1 TTCAATACTTAATTT
* *
8415355 TTCAATAGTTATTTT
1 TTCAATACTTAATTT
**
8415370 TTCAGCACTTAATTT
1 TTCAATACTTAATTT
8415385 TT
1 TT
8415387 TAGTTTATCA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
14 1 0.03
15 37 0.97
ACGTcount: A:0.31, C:0.15, G:0.03, T:0.52
Consensus pattern (15 bp):
TTCAATACTTAATTT
Found at i:8415361 original size:30 final size:30
Alignment explanation
Indices: 8415325--8415386 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
8415315 ATAACTTAAA
8415325 TTCAATACTTACATTTTCAAAACTTAATTT
1 TTCAATACTTACATTTTCAAAACTTAATTT
* ** **
8415355 TTCAATAGTTATTTTTTCAGCACTTAATTT
1 TTCAATACTTACATTTTCAAAACTTAATTT
8415385 TT
1 TT
8415387 TAGTTTATCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.15, G:0.03, T:0.52
Consensus pattern (30 bp):
TTCAATACTTACATTTTCAAAACTTAATTT
Found at i:8417129 original size:39 final size:39
Alignment explanation
Indices: 8417033--8417138 Score: 149
Period size: 41 Copynumber: 2.7 Consensus size: 39
8417023 ATCACTTGAT
* ** *
8417033 GTATTAAAGGAATACTCATGTCTCAATATGAGCATGAGA
1 GTATTAAAGGAAGACTCATGTCTCAGGATGAACATGAGA
*
8417072 GTATATTAAAGGAAGACTCATGTTTCAGGATGAACATGAGA
1 G--TATTAAAGGAAGACTCATGTCTCAGGATGAACATGAGA
8417113 GTATTAAAGGAAGACTCATGTCTCAG
1 GTATTAAAGGAAGACTCATGTCTCAG
8417139 AAAGAGCATG
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
39 25 0.42
41 34 0.58
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (39 bp):
GTATTAAAGGAAGACTCATGTCTCAGGATGAACATGAGA
Found at i:8417149 original size:39 final size:39
Alignment explanation
Indices: 8417033--8417151 Score: 159
Period size: 39 Copynumber: 3.0 Consensus size: 39
8417023 ATCACTTGAT
*
8417033 GTATTAAAGGAATACTCATGTCTCA-ATATGAGCATGAGA
1 GTATTAAAGGAAGACTCATGTCTCAGA-ATGAGCATGAGA
* * *
8417072 GTATATTAAAGGAAGACTCATGTTTCAGGATGAACATGAGA
1 G--TATTAAAGGAAGACTCATGTCTCAGAATGAGCATGAGA
*
8417113 GTATTAAAGGAAGACTCATGTCTCAGAAAGAGCATGAGA
1 GTATTAAAGGAAGACTCATGTCTCAGAATGAGCATGAGA
8417152 TTATGTTTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
39 35 0.51
41 34 0.49
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (39 bp):
GTATTAAAGGAAGACTCATGTCTCAGAATGAGCATGAGA
Found at i:8417172 original size:43 final size:41
Alignment explanation
Indices: 8417036--8417214 Score: 166
Period size: 43 Copynumber: 4.3 Consensus size: 41
8417026 ACTTGATGTA
* * *
8417036 TTAAAGGAATACTCATGTCTCA-ATATGAGCATGAGAGTATA
1 TTAAAGGAAGACTCATGTCTCAGA-AAGAGCATGAGAGTATT
* * * *
8417077 TTAAAGGAAGACTCATGTTTCAGGATGAACATGAGAGTA--
1 TTAAAGGAAGACTCATGTCTCAGAAAGAGCATGAGAGTATT
*
8417116 TTAAAGGAAGACTCATGTCTCAGAAAGAGCATGAGATTATGT
1 TTAAAGGAAGACTCATGTCTCAGAAAGAGCATGAGAGTAT-T
* * * ** *
8417158 TTAAAAAGAAGACTCGTGACTTGGAAAGAGCATGAGATTATGTT
1 TT-AAAGGAAGACTCATGTCTCAGAAAGAGCATGAGAGTA--TT
8417202 TTAAAGGAAGACT
1 TTAAAGGAAGACT
8417215 TACAACTCGG
Statistics
Matches: 116, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
39 34 0.29
41 34 0.29
42 2 0.02
43 42 0.36
44 3 0.03
45 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (41 bp):
TTAAAGGAAGACTCATGTCTCAGAAAGAGCATGAGAGTATT
Found at i:8417693 original size:21 final size:21
Alignment explanation
Indices: 8417659--8417698 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8417649 TTGAATTTTG
* *
8417659 CTTACTTGTTTCGGTAGAACT
1 CTTACATGTATCGGTAGAACT
8417680 CTTACATGTATCGGTAGAA
1 CTTACATGTATCGGTAGAA
8417699 GTACAGGGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (21 bp):
CTTACATGTATCGGTAGAACT
Found at i:8424092 original size:22 final size:24
Alignment explanation
Indices: 8424064--8424109 Score: 78
Period size: 22 Copynumber: 2.0 Consensus size: 24
8424054 TATTTAATTA
8424064 TTTTATTT-ATTTAAT-AATATAT
1 TTTTATTTCATTTAATCAATATAT
8424086 TTTTATTTCATTTAATCAATATAT
1 TTTTATTTCATTTAATCAATATAT
8424110 GATATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 8 0.36
23 7 0.32
24 7 0.32
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTTATTTCATTTAATCAATATAT
Found at i:8425203 original size:14 final size:14
Alignment explanation
Indices: 8425184--8425226 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
8425174 TTAATATATT
8425184 TTTTAATATTTATA
1 TTTTAATATTTATA
8425198 TTTTAATA-TTATA
1 TTTTAATATTTATA
*
8425211 TATTTAATTTTTATA
1 T-TTTAATATTTATA
8425226 T
1 T
8425227 AATATATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 6 0.23
14 14 0.54
15 6 0.23
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTTAATATTTATA
Found at i:8425226 original size:20 final size:21
Alignment explanation
Indices: 8425189--8425233 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
8425179 ATATTTTTTA
*
8425189 ATATTTATATTTTAATATTAT
1 ATATTTATATTTTAATATAAT
*
8425210 ATATTTA-ATTTTTATATAAT
1 ATATTTATATTTTAATATAAT
8425230 ATAT
1 ATAT
8425234 AAAAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATTTATATTTTAATATAAT
Found at i:8428288 original size:29 final size:29
Alignment explanation
Indices: 8428173--8428377 Score: 189
Period size: 30 Copynumber: 6.9 Consensus size: 29
8428163 TTAAAACCAA
**
8428173 GTCAAATTTGAATTTTTGGAAAGTTCAAGG
1 GTCAAATTTGAATTTTTGGAAAGTT-TGGG
* *
8428203 GTCAAATTGGTATTTTTGGAAAGTTTAGGG
1 GTCAAATTTGAATTTTTGGAAAGTTT-GGG
* *
8428233 GTCAAATTTGAATTTTTAGAAAATTTGGAG
1 GTCAAATTTGAATTTTTGGAAAGTTTGG-G
* * *
8428263 GTTAAA-TTCAAATTTTGGAAAGTTTGGG
1 GTCAAATTTGAATTTTTGGAAAGTTTGGG
*
8428291 GTCAAATTTGAATTTTTGGAAAATTTAGGG
1 GTCAAATTTGAATTTTTGGAAAGTTT-GGG
* *
8428321 G-CAAAATTTGTATTTTTGTAAAGTTTGAGG
1 GTC-AAATTTGAATTTTTGGAAAGTTTG-GG
* * * **
8428351 ATAAAATTAGAATTTTTAAAAAGTTTG
1 GTCAAATTTGAATTTTTGGAAAGTTTG
8428378 AGATCAAAAT
Statistics
Matches: 142, Mismatches: 26, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
28 6 0.04
29 37 0.26
30 99 0.70
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.40
Consensus pattern (29 bp):
GTCAAATTTGAATTTTTGGAAAGTTTGGG
Found at i:8428328 original size:58 final size:59
Alignment explanation
Indices: 8428173--8428325 Score: 186
Period size: 58 Copynumber: 2.6 Consensus size: 59
8428163 TTAAAACCAA
* * * ** *
8428173 GTCAAATTTGAATTTTTGGAAAGTTCAAGGGTCAAATTGGTATTTTTGGAAAGTTTAGGG
1 GTCAAATTTGAATTTTTGGAAAATT-TAGGGGCAAATTGCAAATTTTGGAAAGTTTAGGG
* *
8428233 GTCAAATTTGAATTTTTAGAAAATTT-GGAGGTTAAATT-CAAATTTTGGAAAGTTT-GGG
1 GTCAAATTTGAATTTTTGGAAAATTTAGG-GG-CAAATTGCAAATTTTGGAAAGTTTAGGG
8428291 GTCAAATTTGAATTTTTGGAAAATTTAGGGGCAAA
1 GTCAAATTTGAATTTTTGGAAAATTTAGGGGCAAA
8428326 ATTTGTATTT
Statistics
Matches: 80, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
57 3 0.04
58 32 0.40
59 17 0.21
60 28 0.35
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (59 bp):
GTCAAATTTGAATTTTTGGAAAATTTAGGGGCAAATTGCAAATTTTGGAAAGTTTAGGG
Found at i:8428358 original size:88 final size:89
Alignment explanation
Indices: 8428176--8428366 Score: 221
Period size: 88 Copynumber: 2.1 Consensus size: 89
8428166 AAACCAAGTC
* * *
8428176 AAATTTGAATTTTTGGAAAGTTCAAGGGTCAAATTGGTATTTTTGGAAAGTTTAGGGGTCAAATT
1 AAATTAGAA-TTTTGGAAAGTTCAAGGGTCAAATTGGAATTTTTGGAAAATTTAGGGGTCAAATT
*
8428241 TGAATTTTTAGAAAATTTGGAGGTT
65 TGAATTTTTAGAAAATTTGGAGGTA
** *
8428266 AAATTCA-AATTTTGGAAAGTT-TGGGGTCAAATTTGAATTTTTGGAAAATTTAGGGG-CAAAAT
1 AAATT-AGAATTTTGGAAAGTTCAAGGGTCAAATTGGAATTTTTGGAAAATTTAGGGGTC-AAAT
* *
8428328 TTGTATTTTT-GTAAAGTTT-GAGGATA
64 TTGAATTTTTAG-AAAATTTGGAGG-TA
8428354 AAATTAGAATTTT
1 AAATTAGAATTTT
8428367 TAAAAAGTTT
Statistics
Matches: 87, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
87 7 0.08
88 61 0.70
89 12 0.14
90 7 0.08
ACGTcount: A:0.34, C:0.03, G:0.23, T:0.40
Consensus pattern (89 bp):
AAATTAGAATTTTGGAAAGTTCAAGGGTCAAATTGGAATTTTTGGAAAATTTAGGGGTCAAATTT
GAATTTTTAGAAAATTTGGAGGTA
Found at i:8428394 original size:29 final size:29
Alignment explanation
Indices: 8428340--8428399 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
8428330 GTATTTTTGT
8428340 AAAGTTTGAGGATAAAATTAGAATTTTTAA
1 AAAGTTTGAGGATAAAATTAGAA-TTTTAA
*
8428370 AAAGTTTGA-GATCAAAA-TATAATTTTAA
1 AAAGTTTGAGGAT-AAAATTAGAATTTTAA
8428398 AA
1 AA
8428400 TAAAATAGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 8 0.29
29 7 0.25
30 13 0.46
ACGTcount: A:0.50, C:0.02, G:0.13, T:0.35
Consensus pattern (29 bp):
AAAGTTTGAGGATAAAATTAGAATTTTAA
Found at i:8431930 original size:22 final size:23
Alignment explanation
Indices: 8431902--8431945 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
8431892 ATGTCTGCCT
* *
8431902 ATATTATTTTTTATT-TTTTAAA
1 ATATTATATTATATTATTTTAAA
8431924 ATATTATATTATATTATTTTAA
1 ATATTATATTATATTATTTTAA
8431946 TATTTAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATTATATTATATTATTTTAAA
Found at i:8433520 original size:18 final size:17
Alignment explanation
Indices: 8433478--8433525 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
8433468 GTATGAAATA
8433478 AATAAAAATAAAATTTT
1 AATAAAAATAAAATTTT
* *
8433495 AACTAAATAT-AATTTTT
1 AA-TAAAAATAAAATTTT
*
8433512 AATAAAAATTAAAT
1 AATAAAAATAAAAT
8433526 ACAAATTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 6 0.24
17 13 0.52
18 6 0.24
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
AATAAAAATAAAATTTT
Found at i:8454867 original size:25 final size:24
Alignment explanation
Indices: 8454836--8454906 Score: 88
Period size: 25 Copynumber: 2.9 Consensus size: 24
8454826 AGAAAAATCA
*
8454836 TTTAAAAATAAAAAAAATATAATT
1 TTTAAAATTAAAAAAAATATAATT
* * *
8454860 TTTAAAAATTACAAAAATTAGAATT
1 TTT-AAAATTAAAAAAAATATAATT
*
8454885 TTTAAAATTATAAAAAATATAA
1 TTTAAAATTAAAAAAAATATAA
8454907 ATTCATTTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
24 19 0.49
25 20 0.51
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (24 bp):
TTTAAAATTAAAAAAAATATAATT
Found at i:8454909 original size:25 final size:24
Alignment explanation
Indices: 8454840--8454909 Score: 81
Period size: 24 Copynumber: 2.9 Consensus size: 24
8454830 AAATCATTTA
*
8454840 AAAATAAAAAAAATAT-AATTTTT
1 AAAATTAAAAAAATATAAATTTTT
*
8454863 AAAAATTACAAAAAT-TAGAATTTTT
1 -AAAATTAAAAAAATATA-AATTTTT
8454888 AAAATTATAAAAAATATAAATT
1 AAAATTA-AAAAAATATAAATT
8454910 CATTTTCATA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 1 0.03
24 19 0.49
25 17 0.44
26 2 0.05
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (24 bp):
AAAATTAAAAAAATATAAATTTTT
Found at i:8455785 original size:26 final size:26
Alignment explanation
Indices: 8455735--8455786 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
8455725 CCCACGAAAA
*
8455735 ATTATTTTATATATCATTTTCATTAT
1 ATTATTTTATATATCATTTTAATTAT
8455761 ATTA-TTTATGAT-TCATTATTAATTAT
1 ATTATTTTAT-ATATCATT-TTAATTAT
8455787 TTAATAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.60
Consensus pattern (26 bp):
ATTATTTTATATATCATTTTAATTAT
Found at i:8456559 original size:22 final size:22
Alignment explanation
Indices: 8456534--8456633 Score: 84
Period size: 22 Copynumber: 4.7 Consensus size: 22
8456524 TATATTATTA
*
8456534 TTTTGGTGCTGTTTTTTTGCTG
1 TTTTGGTGCTGTTTTTTTACTG
* * *
8456556 TTTTGGTTACT-ATTTTTTATTG
1 TTTTGG-TGCTGTTTTTTTACTG
* *
8456578 TTTTGGTGTTGTGTTTTTACTG
1 TTTTGGTGCTGTTTTTTTACTG
*
8456600 -TTT--TGAT-TTTTTTTACTG
1 TTTTGGTGCTGTTTTTTTACTG
8456618 TTTTGGTTGCTGTTTT
1 TTTTGG-TGCTGTTTT
8456634 GATGCTATTT
Statistics
Matches: 59, Mismatches: 12, Indels: 13
0.70 0.14 0.15
Matches are distributed among these distances:
18 10 0.17
19 6 0.10
21 5 0.08
22 31 0.53
23 7 0.12
ACGTcount: A:0.06, C:0.06, G:0.21, T:0.67
Consensus pattern (22 bp):
TTTTGGTGCTGTTTTTTTACTG
Found at i:8456675 original size:12 final size:12
Alignment explanation
Indices: 8456655--8456734 Score: 54
Period size: 12 Copynumber: 6.8 Consensus size: 12
8456645 TTTTTACTAA
* *
8456655 TTTAGTGTTGTT
1 TTTATTGTTATT
8456667 TTTATTGTTATT
1 TTTATTGTTATT
*
8456679 TTTGTTGTTATT
1 TTTATTGTTATT
* *
8456691 TTT-CTATTATT
1 TTTATTGTTATT
* * *
8456702 TTTACTATTGTT
1 TTTATTGTTATT
**
8456714 TTGGTTGTTATT
1 TTTATTGTTATT
*
8456726 TTGATTGTT
1 TTTATTGTT
8456735 TGAATGTTAT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
11 9 0.16
12 46 0.84
ACGTcount: A:0.12, C:0.03, G:0.15, T:0.70
Consensus pattern (12 bp):
TTTATTGTTATT
Found at i:8456684 original size:21 final size:21
Alignment explanation
Indices: 8456660--8456768 Score: 60
Period size: 22 Copynumber: 5.0 Consensus size: 21
8456650 ACTAATTTAG
8456660 TGTTGTTTTTATTGTTATTTT
1 TGTTGTTTTTATTGTTATTTT
* *
8456681 TGTTGTTATTTTTCTATTATTTTT
1 TGTTGTT-TTTAT-TGTTA-TTTT
* **
8456705 ACTATTGTTTTGGTTGTTA-TTT
1 --TGTTGTTTTTATTGTTATTTT
* *
8456727 TGATTG-TTTGAATGTTATTTT
1 TG-TTGTTTTTATTGTTATTTT
* *
8456748 TATGTGTTTTTATTATTATTT
1 TGT-TGTTTTTATTGTTATTT
8456769 CGCTGTTTTT
Statistics
Matches: 66, Mismatches: 13, Indels: 17
0.69 0.14 0.18
Matches are distributed among these distances:
20 11 0.17
21 16 0.24
22 18 0.27
23 4 0.06
24 8 0.12
25 3 0.05
26 6 0.09
ACGTcount: A:0.15, C:0.02, G:0.14, T:0.70
Consensus pattern (21 bp):
TGTTGTTTTTATTGTTATTTT
Found at i:8457321 original size:21 final size:21
Alignment explanation
Indices: 8457273--8457315 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
8457263 CTCCGATTCT
*
8457273 CTCCCACTC-CCCCACCATCC
1 CTCCCCCTCTCCCCACCATCC
*
8457293 CTCCCCCTCTCCCCACCGTCC
1 CTCCCCCTCTCCCCACCATCC
8457314 CT
1 CT
8457316 TTCCCTTTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.09, C:0.70, G:0.02, T:0.19
Consensus pattern (21 bp):
CTCCCCCTCTCCCCACCATCC
Found at i:8459378 original size:59 final size:61
Alignment explanation
Indices: 8459307--8459423 Score: 175
Period size: 62 Copynumber: 1.9 Consensus size: 61
8459297 ATCATTTTAA
* *
8459307 TATTAAATTAATATAATACTTA-T-CAAAATAAATATTAAATTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATACTTACTACAAAATAAACATTAAATTAAATTTAATATTAAATCT
* *
8459366 TATTAAATTAATAGAATATTTATCTACAAAATAAACATTAAATTGAATTTAATATTAA
1 TATTAAATTAATAGAATACTTA-CTACAAAATAAACATTAAATTAAATTTAATATTAA
8459424 GATAATAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 20 0.39
61 1 0.02
62 30 0.59
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (61 bp):
TATTAAATTAATAGAATACTTACTACAAAATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:8462763 original size:13 final size:13
Alignment explanation
Indices: 8462745--8462769 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8462735 AAATATGGGT
8462745 GGGTGTCTTCTTC
1 GGGTGTCTTCTTC
8462758 GGGTGTCTTCTT
1 GGGTGTCTTCTT
8462770 TTGAGTTGAG
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:0.20, G:0.32, T:0.48
Consensus pattern (13 bp):
GGGTGTCTTCTTC
Found at i:8471235 original size:25 final size:24
Alignment explanation
Indices: 8471178--8471236 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
8471168 AAAAATAGGT
* *
8471178 TATA-TATTATTTTTCTAATATTA
1 TATATTATAATTTTTCTAATATCA
8471201 TATATTATAATTTTTACTAAT-TCA
1 TATATTATAATTTTT-CTAATATCA
*
8471225 TATTTTAATAAT
1 TATATT-ATAAT
8471237 AATTATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 4 0.13
24 16 0.53
25 10 0.33
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (24 bp):
TATATTATAATTTTTCTAATATCA
Found at i:8471350 original size:58 final size:56
Alignment explanation
Indices: 8471204--8471354 Score: 191
Period size: 58 Copynumber: 2.6 Consensus size: 56
8471194 AATATTATAT
* *
8471204 ATTATA-ATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAAATATTATTAA
1 ATTATATATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAAAAATATAATTAA
* *
8471260 ATTATATATTATTTATTAAATTGTATTTAATAATAATTATGTT-AAAATATAATTAA
1 ATTATATATT-TTTATTAAATTATATTTAATAATAATTATATTAAAAATATAATTAA
8471316 ATTAATTAATATTTTTATTAAATTATATTTAATAATAAT
1 ATT-A-T-ATATTTTTATTAAATTATATTTAATAATAAT
8471355 CATTAAAATT
Statistics
Matches: 84, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
56 21 0.25
57 21 0.25
58 33 0.39
59 9 0.11
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (56 bp):
ATTATATATTTTTATTAAATTATATTTAATAATAATTATATTAAAAATATAATTAA
Found at i:8483431 original size:21 final size:19
Alignment explanation
Indices: 8483406--8483444 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
8483396 TGGTTAGTTG
8483406 TTAGTTTGTAAAGATAGTTAA
1 TTAGTTTGT-AAG-TAGTTAA
8483427 TTAGTTTGTAAGTAGTTA
1 TTAGTTTGTAAGTAGTTA
8483445 TAGTTTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 3 0.17
21 9 0.50
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (19 bp):
TTAGTTTGTAAGTAGTTAA
Found at i:8485862 original size:79 final size:79
Alignment explanation
Indices: 8485755--8485944 Score: 215
Period size: 79 Copynumber: 2.4 Consensus size: 79
8485745 TCTATTTTGG
* * * * * * *
8485755 GATTTATTCCTGTCATTCAAAAGAATTTATTC-GG-TTTTATGTTTCCAAACAGAAGTTAATT-G
1 GATTTATTCTTGCCATTCAACATAATTTATTCGGGTTTTTAT-TTT-CAAACAGAAATAAATTAA
*
8485817 AACAATTCTGTTTCAA
64 AACAAGTCTGTTTCAA
*
8485833 GATTTTATTCTTGCCATTTAACATAATTTATTCGGGTTTTTATTTTCAAACAGAAATAAATTAAA
1 GA-TTTATTCTTGCCATTCAACATAATTTATTCGGGTTTTTATTTTCAAACAGAAATAAATTAAA
* *
8485898 ATAAGTCTGTTTCAT
65 ACAAGTCTGTTTCAA
* *
8485913 GATTTATTCTTGTCGTTCAACATAATTTATTC
1 GATTTATTCTTGCCATTCAACATAATTTATTC
8485945 AATTTCTATT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
78 2 0.02
79 66 0.70
80 20 0.21
81 6 0.06
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (79 bp):
GATTTATTCTTGCCATTCAACATAATTTATTCGGGTTTTTATTTTCAAACAGAAATAAATTAAAA
CAAGTCTGTTTCAA
Found at i:8486102 original size:13 final size:13
Alignment explanation
Indices: 8486084--8486118 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
8486074 ATTTATTATT
8486084 AATTGTGACCTTA
1 AATTGTGACCTTA
* *
8486097 AATTGTGGCTTTA
1 AATTGTGACCTTA
8486110 AATTGTGAC
1 AATTGTGAC
8486119 ATCAAAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (13 bp):
AATTGTGACCTTA
Found at i:8488097 original size:39 final size:38
Alignment explanation
Indices: 8488041--8488140 Score: 128
Period size: 39 Copynumber: 2.6 Consensus size: 38
8488031 TGAATATAAT
* * **
8488041 AATTATAATTACCATAATTATAATAATGTTTGACCGAAA
1 AATTATAATTACAATAATTATAATAATATTCAACCG-AA
* * *
8488080 AATTACAATTACAATAATTATAATAATATTCAATCGTA
1 AATTATAATTACAATAATTATAATAATATTCAACCGAA
8488118 AATTATAATTACAATAATTATAA
1 AATTATAATTACAATAATTATAA
8488141 CAAGGATTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 23 0.43
39 30 0.57
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTCAACCGAA
Found at i:8494569 original size:15 final size:15
Alignment explanation
Indices: 8494551--8494581 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8494541 AAGACAATTA
*
8494551 TTAAATTGATTTAAT
1 TTAAATTGATATAAT
8494566 TTAAATTGATATAAT
1 TTAAATTGATATAAT
8494581 T
1 T
8494582 GATTTATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (15 bp):
TTAAATTGATATAAT
Found at i:8497710 original size:29 final size:29
Alignment explanation
Indices: 8497654--8497709 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
8497644 AGAAAAAGCA
* *
8497654 TAAACATATTGGGTCATTTATGTAAAAAG
1 TAAAAATATTGGATCATTTATGTAAAAAG
8497683 TAAAAATATTGGATCATTTAT-TAAAAA
1 TAAAAATATTGGATCATTTATGTAAAAA
8497710 ATGGAAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.36
Consensus pattern (29 bp):
TAAAAATATTGGATCATTTATGTAAAAAG
Found at i:8499986 original size:149 final size:149
Alignment explanation
Indices: 8499752--8500045 Score: 437
Period size: 149 Copynumber: 2.0 Consensus size: 149
8499742 CGAGAGAGAG
* * *
8499752 ACCACCTCTAGTCTCATCAGAACTTATATCGATCCCGTTAAAAACCACAGGATCTCTAAACTTAA
1 ACCACCTCTAGTCCCATCAGAACTTATATCGATCCCATTAAAAACCACAAGATCTCTAAACTTAA
** *
8499817 TCCATCTGTGTACTTAGTAATTTTGTTTCCACCGAAAAAATTACAGAGGGGTTAATTTTATTCGG
66 TCCATCCATATACTTAGTAATTTTGTTTCCACCGAAAAAATTACAGAGGGGTTAATTTTATTCGG
*
8499882 CGAATGCCGAAGTAAGCGA
131 CAAATGCCGAAGTAAGCGA
* * * *
8499901 ACCACCTCTAGTCCCATTAGAACTTATATCGATCCCATTAAAAACCACAAGATCTTTGAACTTTA
1 ACCACCTCTAGTCCCATCAGAACTTATATCGATCCCATTAAAAACCACAAGATCTCTAAACTTAA
* * *
8499966 TCCATCCATATACTCT-GTAATTTTGTTTCCATCGAAAAAATTACAGAGGGGTTGATTTTCTTCG
66 TCCATCCATATACT-TAGTAATTTTGTTTCCACCGAAAAAATTACAGAGGGGTTAATTTTATTCG
*
8500030 GCAAATGTCGAAGTAA
130 GCAAATGCCGAAGTAA
8500046 ACAAATCGTC
Statistics
Matches: 129, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
149 128 0.99
150 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (149 bp):
ACCACCTCTAGTCCCATCAGAACTTATATCGATCCCATTAAAAACCACAAGATCTCTAAACTTAA
TCCATCCATATACTTAGTAATTTTGTTTCCACCGAAAAAATTACAGAGGGGTTAATTTTATTCGG
CAAATGCCGAAGTAAGCGA
Found at i:8501426 original size:22 final size:22
Alignment explanation
Indices: 8501392--8501438 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
8501382 CACAAACCTG
* * * *
8501392 GAAATGTGTTACAAAGTAGAGA
1 GAAACGTGCTACAAAGCAAAGA
8501414 GAAACGTGCTACAAAGCAAAGA
1 GAAACGTGCTACAAAGCAAAGA
8501436 GAA
1 GAA
8501439 TTTTATTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.11, G:0.26, T:0.15
Consensus pattern (22 bp):
GAAACGTGCTACAAAGCAAAGA
Found at i:8506622 original size:42 final size:42
Alignment explanation
Indices: 8506576--8506655 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
8506566 CCTAATAAAG
* **
8506576 AAAATTAAAACCTAGTTTTAAA-AGAAACCTAAAGTATATATA
1 AAAATTAAAACCTAATCCTAAAGA-AAACCTAAAGTATATATA
*
8506618 AAAATTATAACCTAATCCTAAAGAAAACCTAAAGTATA
1 AAAATTAAAACCTAATCCTAAAGAAAACCTAAAGTATA
8506656 AATCCCTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.97
43 1 0.03
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.26
Consensus pattern (42 bp):
AAAATTAAAACCTAATCCTAAAGAAAACCTAAAGTATATATA
Found at i:8515629 original size:19 final size:19
Alignment explanation
Indices: 8515605--8515668 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
8515595 AAGCATAAAT
8515605 TTATTAAAACACATTCATA
1 TTATTAAAACACATTCATA
* *
8515624 TTATTAAATATGGAACA-T-ATT
1 TTATTAAA-A---CACATTCATA
8515645 TTATTAAAACACATTCATA
1 TTATTAAAACACATTCATA
8515664 TTATT
1 TTATT
8515669 CTACTAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
17 3 0.09
18 1 0.03
19 15 0.43
20 2 0.06
21 10 0.29
22 1 0.03
23 3 0.09
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.42
Consensus pattern (19 bp):
TTATTAAAACACATTCATA
Found at i:8515663 original size:21 final size:21
Alignment explanation
Indices: 8515604--8515665 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
8515594 TAAGCATAAA
8515604 TTTATTAAAACACATTCATA-
1 TTTATTAAAACACATTCATAT
*** *
8515624 -TTATTAAATATGGA-ACATAT
1 TTTATTAAA-ACACATTCATAT
8515644 TTTATTAAAACACATTCATAT
1 TTTATTAAAACACATTCATAT
8515665 T
1 T
8515666 ATTCTACTAA
Statistics
Matches: 30, Mismatches: 8, Indels: 7
0.67 0.18 0.16
Matches are distributed among these distances:
19 12 0.40
20 4 0.13
21 14 0.47
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.42
Consensus pattern (21 bp):
TTTATTAAAACACATTCATAT
Found at i:8522155 original size:13 final size:14
Alignment explanation
Indices: 8522119--8522147 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
8522109 GTAGAGAATC
8522119 TCATACCTT-ATTT
1 TCATACCTTGATTT
8522132 TCATACCTTGATTT
1 TCATACCTTGATTT
8522146 TC
1 TC
8522148 TACTTTGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.21, C:0.24, G:0.03, T:0.52
Consensus pattern (14 bp):
TCATACCTTGATTT
Found at i:8524120 original size:56 final size:57
Alignment explanation
Indices: 8524038--8524297 Score: 145
Period size: 58 Copynumber: 4.5 Consensus size: 57
8524028 TAACTACGCA
* * *
8524038 TGTGAGTTATTTTATAGTTAGGAAA-TTTC-CAAAATAACAAGCTGAGAGTGTGAGTC
1 TGTGAGCTATTTTATACTTAGGAAATTTTCTAAAAATAACAAGCTGAGA-TGTGAGTC
* * *
8524094 TGTGAGCTATTTTGTACTT-GGAAAATTTTCTTAAAAATAACAAGCTGGGATGTGAATC
1 TGTGAGCTATTTTATACTTAGG-AAATTTTC-TAAAAATAACAAGCTGAGATGTGAGTC
*** * * ** * * * *
8524152 CACGAGTTATTTTGTACTTATAAAATTTTCTTAAAAGATAATAAGCTCG-GATATAAATC
1 TGTGAGCTATTTTATACTTAGGAAATTTTC-TAAAA-ATAACAAGCT-GAGATGTGAGTC
** * * * * *
8524211 TGTGAGCTATTTCGTACTT-GCAAAATTTTCTTAATAATAATAAG-TCGAGATGTAAATC
1 TGTGAGCTATTTTATACTTAG-GAAATTTTC-TAAAAATAACAAGCT-GAGATGTGAGTC
* ** *
8524269 CGTGAGCTATTTGGTACTTAGAAAATTTT
1 TGTGAGCTATTTTATACTTAGGAAATTTT
8524298 ATTAATAATA
Statistics
Matches: 169, Mismatches: 25, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
55 2 0.01
56 19 0.11
57 7 0.04
58 78 0.46
59 62 0.37
60 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (57 bp):
TGTGAGCTATTTTATACTTAGGAAATTTTCTAAAAATAACAAGCTGAGATGTGAGTC
Found at i:8524167 original size:58 final size:58
Alignment explanation
Indices: 8524068--8524352 Score: 267
Period size: 58 Copynumber: 4.9 Consensus size: 58
8524058 GGAAATTTCC
* * * * *
8524068 AAAATAACAAGCTGAGAGTGTGAGTCTGTGAGCTATTTTGTACTTGGAAAATTTTCTTA
1 AAAATAATAAGCTGGGA-TGTGAATCCGTGAGCTATTTTGTACTTAGAAAATTTTCTTA
* ** * *
8524127 AAAATAACAAGCTGGGATGTGAATCCACGAGTTATTTTGTACTTATAAAATTTTCTTA
1 AAAATAATAAGCTGGGATGTGAATCCGTGAGCTATTTTGTACTTAGAAAATTTTCTTA
* * * * *
8524185 AAAGATAATAAGCTCGGATATAAATCTGTGAGCTATTTCGTACTT-GCAAAATTTTCTTA
1 AAA-ATAATAAGCTGGGATGTGAATCCGTGAGCTATTTTGTACTTAG-AAAATTTTCTTA
* * * * *
8524244 ATAATAATAAG-TCGAGATGTAAATCCGTGAGCTATTTGGTACTTAGAAAATTTTATT-
1 AAAATAATAAGCT-GGGATGTGAATCCGTGAGCTATTTTGTACTTAGAAAATTTTCTTA
* * * *
8524301 --AATAATAAGTTGGGATGCGAATCCACT-AGCTATTTTGTACTTAAAAAATTTT
1 AAAATAATAAGCTGGGATGTGAATCC-GTGAGCTATTTTGTACTTAGAAAATTTT
8524353 GAGGAATATC
Statistics
Matches: 189, Mismatches: 31, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
55 42 0.22
56 2 0.01
57 1 0.01
58 81 0.43
59 63 0.33
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.36
Consensus pattern (58 bp):
AAAATAATAAGCTGGGATGTGAATCCGTGAGCTATTTTGTACTTAGAAAATTTTCTTA
Found at i:8524218 original size:117 final size:117
Alignment explanation
Indices: 8524092--8524302 Score: 298
Period size: 117 Copynumber: 1.8 Consensus size: 117
8524082 AGAGTGTGAG
* * * *
8524092 TCTGTGAGCTATTTTGTACTTGGAAAATTTTCTTAAAAATAACAAG-CTGGGATGTGAATCCACG
1 TCTGTGAGCTATTTCGTACTTGCAAAATTTTCTTAAAAATAACAAGTC-GAGATGTAAATCCACG
* * * *
8524156 AGTTATTTTGTACTTATAAAATTTTCTTAAAAGATAATAAGCTCGGATATAAA
65 AGCTATTTGGTACTTAGAAAATTTTATTAAAAGATAATAAGCTCGGATATAAA
* * **
8524209 TCTGTGAGCTATTTCGTACTTGCAAAATTTTCTTAATAATAATAAGTCGAGATGTAAATCCGTGA
1 TCTGTGAGCTATTTCGTACTTGCAAAATTTTCTTAAAAATAACAAGTCGAGATGTAAATCCACGA
8524274 GCTATTTGGTACTTAGAAAATTTTATTAA
66 GCTATTTGGTACTTAGAAAATTTTATTAA
8524303 TAATAAGTTG
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
117 80 0.99
118 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (117 bp):
TCTGTGAGCTATTTCGTACTTGCAAAATTTTCTTAAAAATAACAAGTCGAGATGTAAATCCACGA
GCTATTTGGTACTTAGAAAATTTTATTAAAAGATAATAAGCTCGGATATAAA
Found at i:8524528 original size:69 final size:69
Alignment explanation
Indices: 8524403--8525434 Score: 845
Period size: 69 Copynumber: 15.0 Consensus size: 69
8524393 AGTTTGCTAG
* * * *
8524403 TTGGGAGCTTTTGCTCTCGCTAACTGTGTTAGAGGTTGCGGCTCTTCGCCTGCGAACCTTAATAT
1 TTGGGAGC-TTTGCTCTCGCTAACTGTGTTGGAGGTTACGACTCTTCGCTTGCGAACCTTAATAT
* *
8524468 AACAG
65 GACAA
* * * * * * *
8524473 TTGGGAGCTTTGGTCTCACTAACTCTGTCGGAGATTACGACTTTTTGCTTGCGAACCTTAATATG
1 TTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTACGACTCTTCGCTTGCGAACCTTAATATG
8524538 ACAA
66 ACAA
* * * * * *
8524542 CTGCGAGCTTTGCTCTCGCTAACTGTGTTGAAAGTTACGACTCTTCGCTTGAGAACCTTAATGTG
1 TTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTACGACTCTTCGCTTGCGAACCTTAATATG
* *
8524607 ATAG
66 ACAA
* * * * * * *
8524611 CT-GGATGCTTTTCTCTC-TTAAACAGTGTTAGAGGTTACAGA-TCTTCG-TCTACAAACCTTAA
1 TTGGGA-GCTTTGCTCTCGCT-AACTGTGTTGGAGGTTAC-GACTCTTCGCT-TGCGAACCTTAA
8524672 TATGACAA
62 TATGACAA
* * * * * ** *
8524680 CTGTGAGCTTTGCTCTCGCTAACTGTGTTGTAGGTTGCGGCTCTTCGCTTAAGAACCTTAATGTG
1 TTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTACGACTCTTCGCTTGCGAACCTTAATATG
8524745 ACAA
66 ACAA
* * * * *
8524749 TTGGGAGCTTTGCTCTCTCTAACTATGTTGAAGGTTACGGCTCTTCGAC-TGCAAACCTTAATAT
1 TTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTACGACTCTTCG-CTTGCGAACCTTAATAT
* *
8524813 AACAGC
65 GACA-A
* * * * * *
8524819 TT-GGAGTTTTTCTCTCGCTAACTGTGTTGGAGGTTGCGGA-TCTTCACCTGGGAACCTTAATAT
1 TTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTAC-GACTCTTCGCTTGCGAACCTTAATAT
* *
8524882 AATAA
65 GACAA
* * * * * * * * *
8524887 CTGGGAGCTTTGCTCTCACTAACTGCGTTGGAGATTATGGCTTTTCTCTTGCAAACCTTAATATG
1 TTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTACGACTCTTCGCTTGCGAACCTTAATATG
8524952 ATC-A
66 A-CAA
* *
8524956 TTGGGAGCTTTGCTCTCACTAACTGTGTTGAAGGTTAC-AGCTCTTCG-TCTGCGAACCTTAATA
1 TTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTACGA-CTCTTCGCT-TGCGAACCTTAATA
*
8525019 TGACAG
64 TGACAA
* * *
8525025 CTGGGAGCTTTACTCTCGCTAACTGTGTTGGAGGTTGCGACTCTTCGTCTAT--GAACCTTAATA
1 TTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTACGACTCTTCG-CT-TGCGAACCTTAATA
*
8525088 TAACAA
64 TGACAA
* * * * *
8525094 TTGTGAGCTTTGCTCTCGCTAACTGTGTTGTAGGTTACGGCTCTTCGCTTGAGAACCTTAATGTG
1 TTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTACGACTCTTCGCTTGCGAACCTTAATATG
* *
8525159 ATAG
66 ACAA
* * * * * * * * *
8525163 TTGGGAACTTTGCTCTCTCTAACTATATTAGG-GGTTGCGGCTCTTTGCCTACGAACCTTAATAT
1 TTGGGAGCTTTGCTCTCGCTAACTGTGTT-GGAGGTTACGACTCTTCGCTTGCGAACCTTAATAT
8525227 GACAA
65 GACAA
* * * * * * * *
8525232 CTGTGAGCTTTGCTTTCGTTAACTGTGTTGTAGGTTACGGCTCTTCG-TCTGAGAACCTTAATGT
1 TTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTACGACTCTTCGCT-TGCGAACCTTAATAT
*
8525296 GACAG
65 GACAA
* * * * * *
8525301 TTGGGAGCTTTGCTCTCTCTAACTATGTTGGAGGTTATGGCTTTTCGAC-TGCAAACCTTAATAT
1 TTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTACGACTCTTCG-CTTGCGAACCTTAATAT
* *
8525365 AACAG
65 GACAA
* * * * * * *
8525370 TTCGGAGTTTTTCTCTCGCT-TCTGTGTTGGAGGTTGCGACTCTTCACTTGTGAACCTTAATATG
1 TTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTACGACTCTTCGCTTGCGAACCTTAATATG
8525434 A
66 A
8525435 GAAAAATTCT
Statistics
Matches: 756, Mismatches: 177, Indels: 60
0.76 0.18 0.06
Matches are distributed among these distances:
67 2 0.00
68 46 0.06
69 686 0.91
70 20 0.03
71 2 0.00
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.35
Consensus pattern (69 bp):
TTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTACGACTCTTCGCTTGCGAACCTTAATATG
ACAA
Found at i:8524670 original size:138 final size:138
Alignment explanation
Indices: 8524407--8525430 Score: 953
Period size: 138 Copynumber: 7.4 Consensus size: 138
8524397 TGCTAGTTGG
* * * * * *
8524407 GAGCTTTTGCTCTCGCTAACTGTGTTAG-AGGTTGCGGCTCTTCGCCTGCGAACCTTAATATAAC
1 GAGC-TTTGCTCTCGCTAACTGTGTT-GTAGGTTACGACTCTTCGCTTGAGAACCTTAATGTGAC
* * * * * * * * * * *
8524471 AGTTGGGAGCTTTGGTCTCACTAACTCTGTCGGAGATTACGACTTTTTG-CTTGCGAACCTTAAT
64 AGCTGGGAGCTTTGCTCTCTCTAACTATGTTGGAGGTTACGGCTCTTCGTC-TACAAACCTTAAT
*
8524535 ATGACAACTGC
128 ATGACAACTGT
* * *
8524546 GAGCTTTGCTCTCGCTAACTGTGTTGAAAGTTACGACTCTTCGCTTGAGAACCTTAATGTGATAG
1 GAGCTTTGCTCTCGCTAACTGTGTTGTAGGTTACGACTCTTCGCTTGAGAACCTTAATGTGACAG
* * * *
8524611 CT-GGATGCTTTTCTCTCT-TAAAC-AGTGTTAGAGGTTACAGATCTTCGTCTACAAACCTTAAT
66 CTGGGA-GCTTTGCTCTCTCT-AACTA-TGTTGGAGGTTACGGCTCTTCGTCTACAAACCTTAAT
8524673 ATGACAACTGT
128 ATGACAACTGT
* * * *
8524684 GAGCTTTGCTCTCGCTAACTGTGTTGTAGGTTGCGGCTCTTCGCTTAAGAACCTTAATGTGACAA
1 GAGCTTTGCTCTCGCTAACTGTGTTGTAGGTTACGACTCTTCGCTTGAGAACCTTAATGTGACAG
* * * * *
8524749 TTGGGAGCTTTGCTCTCTCTAACTATGTTGAAGGTTACGGCTCTTCGACTGCAAACCTTAATATA
66 CTGGGAGCTTTGCTCTCTCTAACTATGTTGGAGGTTACGGCTCTTCGTCTACAAACCTTAATATG
*
8524814 ACAGCT-T
131 ACAACTGT
* * * * * * * * * *
8524821 GGAGTTTTTCTCTCGCTAACTGTGTTGGAGGTTGCGGA-TCTTCACCTGGGAACCTTAATATAAT
1 -GAGCTTTGCTCTCGCTAACTGTGTTGTAGGTTAC-GACTCTTCGCTTGAGAACCTTAATGTGAC
* * ** * * * *
8524885 AACTGGGAGCTTTGCTCTCACTAACTGCGTTGGAGATTATGGCTTTTC-TCTTGCAAACCTTAAT
64 AGCTGGGAGCTTTGCTCTCTCTAACTATGTTGGAGGTTACGGCTCTTCGTC-TACAAACCTTAAT
* *
8524949 ATGATC-ATTGG
128 ATGA-CAACTGT
* * * *
8524960 GAGCTTTGCTCTCACTAACTGTGTTGAAGGTTAC-AGCTCTTCG-TCTGCGAACCTTAATATGAC
1 GAGCTTTGCTCTCGCTAACTGTGTTGTAGGTTACGA-CTCTTCGCT-TGAGAACCTTAATGTGAC
* * * * * **
8525023 AGCTGGGAGCTTTACTCTCGCTAACTGTGTTGGAGGTTGCGACTCTTCGTCTATGAACCTTAATA
64 AGCTGGGAGCTTTGCTCTCTCTAACTATGTTGGAGGTTACGGCTCTTCGTCTACAAACCTTAATA
* *
8525088 TAACAATTGT
129 TGACAACTGT
* *
8525098 GAGCTTTGCTCTCGCTAACTGTGTTGTAGGTTACGGCTCTTCGCTTGAGAACCTTAATGTGATAG
1 GAGCTTTGCTCTCGCTAACTGTGTTGTAGGTTACGACTCTTCGCTTGAGAACCTTAATGTGACAG
* * * * * * *
8525163 TTGGGAACTTTGCTCTCTCTAACTATATTAGG-GGTTGCGGCTCTTTGCCTACGAACCTTAATAT
66 CTGGGAGCTTTGCTCTCTCTAACTATGTT-GGAGGTTACGGCTCTTCGTCTACAAACCTTAATAT
8525227 GACAACTGT
130 GACAACTGT
* * *
8525236 GAGCTTTGCTTTCGTTAACTGTGTTGTAGGTTACGGCTCTTCG-TCTGAGAACCTTAATGTGACA
1 GAGCTTTGCTCTCGCTAACTGTGTTGTAGGTTACGACTCTTCGCT-TGAGAACCTTAATGTGACA
* * * * *
8525300 GTTGGGAGCTTTGCTCTCTCTAACTATGTTGGAGGTTATGGCTTTTCGACTGCAAACCTTAATAT
65 GCTGGGAGCTTTGCTCTCTCTAACTATGTTGGAGGTTACGGCTCTTCGTCTACAAACCTTAATAT
* **
8525365 AACAGTTCG-
130 GACAACT-GT
* * * * * * *
8525374 GAGTTTTTCTCTCGCT-TCTGTGTTGGAGGTTGCGACTCTTCACTTGTGAACCTTAAT
1 GAGCTTTGCTCTCGCTAACTGTGTTGTAGGTTACGACTCTTCGCTTGAGAACCTTAAT
8525431 ATGAGAAAAA
Statistics
Matches: 728, Mismatches: 132, Indels: 52
0.80 0.14 0.06
Matches are distributed among these distances:
136 1 0.00
137 44 0.06
138 665 0.91
139 18 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.35
Consensus pattern (138 bp):
GAGCTTTGCTCTCGCTAACTGTGTTGTAGGTTACGACTCTTCGCTTGAGAACCTTAATGTGACAG
CTGGGAGCTTTGCTCTCTCTAACTATGTTGGAGGTTACGGCTCTTCGTCTACAAACCTTAATATG
ACAACTGT
Found at i:8530721 original size:17 final size:17
Alignment explanation
Indices: 8530701--8530735 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
8530691 TAATTTTTAT
*
8530701 TAAATTAAATAAAAATA
1 TAAATAAAATAAAAATA
8530718 TAAATAAAATAAAAATA
1 TAAATAAAATAAAAATA
8530735 T
1 T
8530736 TTTATTGATT
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAATAAAATAAAAATA
Found at i:8532987 original size:17 final size:16
Alignment explanation
Indices: 8532961--8532994 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
8532951 TAACTCTCAA
*
8532961 TTTAATTTTTTGTTTTT
1 TTTAACTTTTT-TTTTT
8532978 TTTAACTTTTTTTTTT
1 TTTAACTTTTTTTTTT
8532994 T
1 T
8532995 GGTGAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTAACTTTTTTTTTT
Found at i:8538752 original size:16 final size:17
Alignment explanation
Indices: 8538726--8538769 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
8538716 AAATATTGAA
8538726 ATTTGTTATT-ATATTTT
1 ATTT-TTATTAATATTTT
*
8538743 GTTTTTATTAATATTTT
1 ATTTTTATTAATATTTT
8538760 ATTTTT-TTAA
1 ATTTTTATTAA
8538770 ATTATGAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (17 bp):
ATTTTTATTAATATTTT
Found at i:8538867 original size:19 final size:20
Alignment explanation
Indices: 8538835--8538897 Score: 76
Period size: 20 Copynumber: 3.1 Consensus size: 20
8538825 TACATTCAAC
*
8538835 TTTGATT-TTTTAAATTAAAT
1 TTTGATTATTTAAAATT-AAT
8538855 TTT-ATTATTTAAAATTAAT
1 TTTGATTATTTAAAATTAAT
8538874 TTTGATTATTTGAAAATATAAT
1 TTTGATTATTT-AAAAT-TAAT
8538896 TT
1 TT
8538898 GATAAGAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
19 9 0.24
20 18 0.47
21 5 0.13
22 6 0.16
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTGATTATTTAAAATTAAT
Found at i:8539016 original size:15 final size:15
Alignment explanation
Indices: 8538996--8539035 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
8538986 CTATTTAATG
8538996 AAATAAAAACTTGAA
1 AAATAAAAACTTGAA
8539011 AAATAAAAACTTGAA
1 AAATAAAAACTTGAA
8539026 AAATAAAAAC
1 AAATAAAAAC
8539036 ACATATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.17
Consensus pattern (15 bp):
AAATAAAAACTTGAA
Found at i:8549935 original size:13 final size:14
Alignment explanation
Indices: 8549917--8549958 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
8549907 TTTCAACTTT
8549917 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
8549930 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
8549945 ATTTTAAATAATAT
1 ATTTT-AATAATAT
8549959 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:8549943 original size:16 final size:16
Alignment explanation
Indices: 8549921--8549957 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
8549911 AACTTTATTT
8549921 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
8549938 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
8549953 TAATA
1 TAATA
8549958 TTCTTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:8550010 original size:15 final size:15
Alignment explanation
Indices: 8549990--8550047 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
8549980 ATTCAATATT
8549990 AATATTTTAATAATA
1 AATATTTTAATAATA
* *
8550005 AATATTTATTACAATTATT
1 AATA-TT-TT--AATAATA
*
8550024 AATATATTAATAATA
1 AATATTTTAATAATA
8550039 AATATTTTA
1 AATATTTTA
8550048 TAGTATAAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 17 0.52
16 2 0.06
17 4 0.12
18 1 0.03
19 9 0.27
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATTTTAATAATA
Done.