Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 32 of 185
Found at i:8778717 original size:26 final size:26
Alignment explanation
Indices: 8778687--8778742 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
8778677 AAATTTCTCG
*
8778687 AAATTTTACTAG-GGGTAAAATTGTCA
1 AAATTTTA-TAGAGAGTAAAATTGTCA
* *
8778713 AAATTTTATCGAGAGTAAAATTGTCT
1 AAATTTTATAGAGAGTAAAATTGTCA
8778739 AAAT
1 AAAT
8778743 CAAAATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.36
Consensus pattern (26 bp):
AAATTTTATAGAGAGTAAAATTGTCA
Found at i:8782450 original size:33 final size:33
Alignment explanation
Indices: 8782369--8782453 Score: 95
Period size: 32 Copynumber: 2.6 Consensus size: 33
8782359 AATTTCTCCA
*
8782369 TAAAAGTAAATAAAA-AGAACAAAAATAAAATC
1 TAAAACTAAATAAAAGAGAACAAAAATAAAATC
* * *
8782401 TAAACCTTAAGAAAAGAGAACAAAAA-AAAA-C
1 TAAAACTAAATAAAAGAGAACAAAAATAAAATC
8782432 TAAAGACTAAATATAAAGAGAA
1 TAAA-ACTAAATA-AAAGAGAA
8782454 AATTATACAA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
31 5 0.12
32 20 0.47
33 18 0.42
ACGTcount: A:0.68, C:0.08, G:0.09, T:0.14
Consensus pattern (33 bp):
TAAAACTAAATAAAAGAGAACAAAAATAAAATC
Found at i:8795363 original size:40 final size:40
Alignment explanation
Indices: 8795308--8795387 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
8795298 ACACCGTACA
**
8795308 AGGTTTTATACGAACGTAGATGTAGATCTCTGTTATATTG
1 AGGTTTTATACGAACGTAGATGTAGATCTCCATTATATTG
8795348 AGGTTTTATACGAACGTAGATGTAGATCTCCATTATATTG
1 AGGTTTTATACGAACGTAGATGTAGATCTCCATTATATTG
8795388 GTCCGATTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (40 bp):
AGGTTTTATACGAACGTAGATGTAGATCTCCATTATATTG
Found at i:8809160 original size:3 final size:3
Alignment explanation
Indices: 8809152--8809176 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8809142 CTCTTAGCTT
8809152 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
8809177 AGATTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:8816702 original size:331 final size:331
Alignment explanation
Indices: 8816099--8816714 Score: 973
Period size: 331 Copynumber: 1.9 Consensus size: 331
8816089 ATTGCCTGGA
8816099 CAAAAATAGTCTCAGCATCCTTAGGCATCACGTCAACCTATGTCACGCCACACAATATCTATGGT
1 CAAAAATAGTCTCAGCATCCTTAGGCATCACGTCAACCTATGTCACGCCACACAATATCTATGGT
8816164 GCGACACAACATGTATTTTCTTCATTGTGTCATTCATTTCGTGCTTTGACGTCCTAGGAAGCTTA
66 GCGACACAACATGTATTTTCTTCATTGTGTCATTCATTTCGTGCTTTGACGTCCTAGGAAGCTTA
*** * * *
8816229 CGTGTCACTCATTCCTTGCTTCCACATCAATTGGGTCTTTAATTTTTTATTCTACACACTCAATT
131 CACATCACTCATTCCTTGCTTCCACATCAATTGGCTCTTTAATTCTTTATCCTACACACTCAATT
* * * *
8816294 AAACATATTAATACTACCAAAGGCTCGTGTCGGTCTAATGGGTCACAACACTTATAAAATGTGTT
196 AAAAATATTAATACTACCAAAGGCTCATCTCGGCCTAATGGGTCACAACACTTATAAAATGTGTT
* *
8816359 AAAAATCACTTATTTTTCTAATATTTAATCATAAGGCCTAAATATCGAAAATGTAATATAAAATG
261 AAAAAGCACTTATTTTACTAATATTTAATCATAAGGCCTAAATATCGAAAATGTAATATAAAATG
8816424 CAATAT
326 CAATAT
** * * * * *
8816430 CAAAAATAGTCTTGGCATCCTTGGGCATCATGTCAACTTGTGTCATGCCACACAATATCTATGGT
1 CAAAAATAGTCTCAGCATCCTTAGGCATCACGTCAACCTATGTCACGCCACACAATATCTATGGT
* * * *
8816495 GTGACACAACATGTATTTTCTTCCTTGTGTCATTCATTTTGTGCTTTGACGTCCTAGGAAGCTTG
66 GCGACACAACATGTATTTTCTTCATTGTGTCATTCATTTCGTGCTTTGACGTCCTAGGAAGCTTA
* *
8816560 CACATCACTCGTTCCTTGCTTCCACATCAATTAGGCT-TTTAATTCTTTATCCTATACACTCAAT
131 CACATCACTCATTCCTTGCTTCCACATCAATT-GGCTCTTTAATTCTTTATCCTACACACTCAAT
* *
8816624 TAAAAATATTAGTACTACCTAAGGCTCATCTCGGCCTAATGGGTCACAACACTTATAAAATGTGT
195 TAAAAATATTAATACTACCAAAGGCTCATCTCGGCCTAATGGGTCACAACACTTATAAAATGTGT
8816689 TAAAAAGCACTTATTTTACTAATATT
260 TAAAAAGCACTTATTTTACTAATATT
8816715 ATACACTTTT
Statistics
Matches: 257, Mismatches: 27, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
331 254 0.99
332 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (331 bp):
CAAAAATAGTCTCAGCATCCTTAGGCATCACGTCAACCTATGTCACGCCACACAATATCTATGGT
GCGACACAACATGTATTTTCTTCATTGTGTCATTCATTTCGTGCTTTGACGTCCTAGGAAGCTTA
CACATCACTCATTCCTTGCTTCCACATCAATTGGCTCTTTAATTCTTTATCCTACACACTCAATT
AAAAATATTAATACTACCAAAGGCTCATCTCGGCCTAATGGGTCACAACACTTATAAAATGTGTT
AAAAAGCACTTATTTTACTAATATTTAATCATAAGGCCTAAATATCGAAAATGTAATATAAAATG
CAATAT
Found at i:8820297 original size:15 final size:14
Alignment explanation
Indices: 8820279--8820308 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
8820269 TTTGTATTCC
8820279 ATCTTTTTTTTCTGT
1 ATCTTTTTTTT-TGT
8820294 ATCTTTTTTTTTGT
1 ATCTTTTTTTTTGT
8820308 A
1 A
8820309 AACATTACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.10, C:0.10, G:0.07, T:0.73
Consensus pattern (14 bp):
ATCTTTTTTTTTGT
Found at i:8821132 original size:44 final size:44
Alignment explanation
Indices: 8821066--8821154 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
8821056 AACTTCAGGG
* *
8821066 TAGTGGCTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGAT
1 TAGTGGCTTCAATCTGCCCCACTACAACTTCAGGGAGATAAGAT
8821110 TAGTGGCTTCAATCTGCCCCACTACAACTTCAGGGAGATAAGAT
1 TAGTGGCTTCAATCTGCCCCACTACAACTTCAGGGAGATAAGAT
8821154 T
1 T
8821155 TGTCATAATG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (44 bp):
TAGTGGCTTCAATCTGCCCCACTACAACTTCAGGGAGATAAGAT
Found at i:8821192 original size:50 final size:51
Alignment explanation
Indices: 8821138--8821255 Score: 125
Period size: 51 Copynumber: 2.3 Consensus size: 51
8821128 CCACTACAAC
8821138 TTCAGGGAGATAAGATTTGTCATAATG-A-CTTCAATCCATCCCACCGCAAA
1 TTCAGGGAGATAAGATTTGTCAT-ATGTAGCTTCAATCCATCCCACCGCAAA
* * * * * * *
8821188 TTCAGGG-GTATAGGATTTGTGATCTGTAGCTTCAATCTATTCCACTGCAAT
1 TTCAGGGAG-ATAAGATTTGTCATATGTAGCTTCAATCCATCCCACCGCAAA
*
8821239 TTCAGGGAAATAAGATT
1 TTCAGGGAGATAAGATT
8821256 CACATATTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
49 3 0.05
50 20 0.36
51 32 0.58
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (51 bp):
TTCAGGGAGATAAGATTTGTCATATGTAGCTTCAATCCATCCCACCGCAAA
Found at i:8823372 original size:90 final size:90
Alignment explanation
Indices: 8823219--8823398 Score: 351
Period size: 90 Copynumber: 2.0 Consensus size: 90
8823209 GGTTAACCTT
8823219 TTGACGCTTTCCCCCGCATCGATCTTCCTACTTCTTATTGTGTTTTCAATCATCTCGCCAGACAT
1 TTGACGCTTTCCCCCGCATCGATCTTCCTACTTCTTATTGTGTTTTCAATCATCTCGCCAGACAT
8823284 TACTATAACTGAGAAGCTCTTCGTA
66 TACTATAACTGAGAAGCTCTTCGTA
*
8823309 TTGACGCTTTCCCCCGCATTGATCTTCCTACTTCTTATTGTGTTTTCAATCATCTCGCCAGACAT
1 TTGACGCTTTCCCCCGCATCGATCTTCCTACTTCTTATTGTGTTTTCAATCATCTCGCCAGACAT
8823374 TACTATAACTGAGAAGCTCTTCGTA
66 TACTATAACTGAGAAGCTCTTCGTA
8823399 GCGCTTCCCA
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.37
Consensus pattern (90 bp):
TTGACGCTTTCCCCCGCATCGATCTTCCTACTTCTTATTGTGTTTTCAATCATCTCGCCAGACAT
TACTATAACTGAGAAGCTCTTCGTA
Found at i:8826531 original size:15 final size:16
Alignment explanation
Indices: 8826506--8826538 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8826496 AATACTCTAA
*
8826506 AAAATTAAAATGAAAT
1 AAAATTAAAATAAAAT
8826522 AAAA-TAAAATAAAAT
1 AAAATTAAAATAAAAT
8826537 AA
1 AA
8826539 TAAAAGACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAATTAAAATAAAAT
Found at i:8836486 original size:41 final size:41
Alignment explanation
Indices: 8836392--8836547 Score: 149
Period size: 41 Copynumber: 3.8 Consensus size: 41
8836382 TATGAAATTC
* * **
8836392 GAGATAGCTTCGACTAT-TAATGACACTTAGTGTGTGATTT
1 GAGATAGCTTCGGCTATATAATGGCACTTAGTGTGTGAGAT
*
8836432 G-GAATAGCTTCGGCTATAT-ATGGCACTTAGTGTGCGAGACT
1 GAG-ATAGCTTCGGCTATATAATGGCACTTAGTGTGTGAGA-T
* *
8836473 GAGATAGCTTCGGCTATCTAA-GTCACTTAGTGTGTGAGAT
1 GAGATAGCTTCGGCTATATAATGGCACTTAGTGTGTGAGAT
* * * * *
8836513 TATAATAGCTTCAGCTATATGATGGCAATTAGTGT
1 GA-GATAGCTTCGGCTATATAATGGCACTTAGTGT
8836548 ATGAAACATT
Statistics
Matches: 94, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
39 1 0.01
40 32 0.34
41 49 0.52
42 12 0.13
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (41 bp):
GAGATAGCTTCGGCTATATAATGGCACTTAGTGTGTGAGAT
Found at i:8836500 original size:81 final size:83
Alignment explanation
Indices: 8836392--8836547 Score: 219
Period size: 81 Copynumber: 1.9 Consensus size: 83
8836382 TATGAAATTC
* * *
8836392 GAGATAGCTTCGACTATTAATGACACTTAGTGTGTGA-TTTGGAATAGCTTCGGCTATAT-ATGG
1 GAGATAGCTTCGACTATTAATGACACTTAGTGTGTGAGATTAGAATAGCTTCAGCTATATGATGG
*
8836455 CACTTAGTGTGCGAGACT
66 CAATTAGTGTGCGAGACT
* * *
8836473 GAGATAGCTTCGGCTATCTAA-GTCACTTAGTGTGTGAGATTATAATAGCTTCAGCTATATGATG
1 GAGATAGCTTCGACTAT-TAATGACACTTAGTGTGTGAGATTAGAATAGCTTCAGCTATATGATG
8836537 GCAATTAGTGT
65 GCAATTAGTGT
8836548 ATGAAACATT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
81 31 0.48
82 21 0.32
83 13 0.20
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (83 bp):
GAGATAGCTTCGACTATTAATGACACTTAGTGTGTGAGATTAGAATAGCTTCAGCTATATGATGG
CAATTAGTGTGCGAGACT
Found at i:8837233 original size:24 final size:22
Alignment explanation
Indices: 8837206--8837435 Score: 88
Period size: 22 Copynumber: 10.0 Consensus size: 22
8837196 ATGTGGCTAT
8837206 TTTTATATGTTATAATGCTGTCCA
1 TTTTA-ATG-TATAATGCTGTCCA
*
8837230 TTTTAA-GCATATTGATGCTGTCCA
1 TTTTAATG--TA-TAATGCTGTCCA
* * *
8837254 ATTTGATGTATAATGCTGTTCA
1 TTTTAATGTATAATGCTGTCCA
* * * *
8837276 ATTTGA-GCATATTAAAGCTATCCA
1 TTTTAATG--TA-TAATGCTGTCCA
*
8837300 ATTTAATGTATAATGCTGTCCA
1 TTTTAATGTATAATGCTGTCCA
* * *
8837322 TTTTGA-GTATATTGATGTTGCCCA
1 TTTTAATGTATA---ATGCTGTCCA
* * * *
8837346 ATTTGATGTATAACGTTGTCCA
1 TTTTAATGTATAATGCTGTCCA
* * * *
8837368 TTTGAGTATATTGATGCTGTCCA
1 TTTTAATGTA-TAATGCTGTCCA
* * *
8837391 ATTTGATGTATAATGTTGTCCA
1 TTTTAATGTATAATGCTGTCCA
* * *
8837413 ATTTGATGTATAAATGTTGTCCA
1 TTTTAATGTAT-AATGCTGTCCA
8837436 AAACAGCGTA
Statistics
Matches: 159, Mismatches: 34, Indels: 27
0.72 0.15 0.12
Matches are distributed among these distances:
21 6 0.04
22 65 0.41
23 34 0.21
24 47 0.30
25 7 0.04
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (22 bp):
TTTTAATGTATAATGCTGTCCA
Found at i:8837269 original size:46 final size:46
Alignment explanation
Indices: 8837216--8837418 Score: 264
Period size: 46 Copynumber: 4.4 Consensus size: 46
8837206 TTTTATATGT
*
8837216 TATAATGCTGTCCATTTTAAGCATATTGATGCTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
* * * * * *
8837262 TATAATGCTGTTCAATTTGAGCATATTAAAGCTATCCAATTTAATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
* * *
8837308 TATAATGCTGTCCATTTTGAGTATATTGATGTTGCCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
* * *
8837354 TATAACGTTGTCCA-TTTGAGTATATTGATGCTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
* *
8837399 TATAATGTTGTCCAATTTGA
1 TATAATGCTGTCCATTTTGA
8837419 TGTATAAATG
Statistics
Matches: 135, Mismatches: 21, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
45 42 0.31
46 93 0.69
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (46 bp):
TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
Found at i:8837272 original size:22 final size:22
Alignment explanation
Indices: 8837244--8837436 Score: 169
Period size: 22 Copynumber: 8.5 Consensus size: 22
8837234 AAGCATATTG
8837244 ATGCTGTCCAATTTGATGTATA
1 ATGCTGTCCAATTTGATGTATA
*
8837266 ATGCTGTTCAATTTGA-GCATATTA
1 ATGCTGTCCAATTTGATG--TA-TA
* * *
8837290 AAGCTATCCAATTTAATGTATA
1 ATGCTGTCCAATTTGATGTATA
*
8837312 ATGCTGTCCATTTTGA-GTATA
1 ATGCTGTCCAATTTGATGTATA
* *
8837333 TTGATGTTGCCCAATTTGATGTATA
1 ---ATGCTGTCCAATTTGATGTATA
* *
8837358 ACGTTGTCC-ATTTGA-GTATA
1 ATGCTGTCCAATTTGATGTATA
8837378 TTGATGCTGTCCAATTTGATGTATA
1 ---ATGCTGTCCAATTTGATGTATA
*
8837403 ATGTTGTCCAATTTGATGTATAA
1 ATGCTGTCCAATTTGATGTAT-A
*
8837426 ATGTTGTCCAA
1 ATGCTGTCCAA
8837437 AACAGCGTAG
Statistics
Matches: 140, Mismatches: 17, Indels: 27
0.76 0.09 0.15
Matches are distributed among these distances:
20 5 0.04
21 12 0.09
22 56 0.40
23 23 0.16
24 33 0.24
25 11 0.08
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (22 bp):
ATGCTGTCCAATTTGATGTATA
Found at i:8847446 original size:18 final size:18
Alignment explanation
Indices: 8847423--8847457 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8847413 TAAAAGGTCG
*
8847423 ATTAAAATTTGGTTAAGT
1 ATTAAAATTTGATTAAGT
8847441 ATTAAAATTTGATTAAG
1 ATTAAAATTTGATTAAG
8847458 AAATTTTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (18 bp):
ATTAAAATTTGATTAAGT
Found at i:8848526 original size:46 final size:45
Alignment explanation
Indices: 8848458--8848620 Score: 184
Period size: 45 Copynumber: 3.6 Consensus size: 45
8848448 ACAGGAAATG
*
8848458 CCATGGTTGAAAAATACCATGGCATTATACACAAAACGAGAAAGA
1 CCATAGTTGAAAAATACCATGGCATTATACACAAAACGAGAAAGA
* * *
8848503 CCATGGTTGAAAAAATACCATGGCATTATACCCAAAATGAGAAAGA
1 CCATAGTTG-AAAAATACCATGGCATTATACACAAAACGAGAAAGA
* * * * * * *
8848549 CCGTAGTTGAAAGATACTATGGCATTAAATACGAAAC-AAATAAGA
1 CCATAGTTGAAAAATACCATGGCATTATACACAAAACGAGA-AAGA
* *
8848594 CCATAGTTGAAAGATACTATGGCATTA
1 CCATAGTTGAAAAATACCATGGCATTA
8848621 CATCGATAAT
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
44 2 0.02
45 60 0.58
46 41 0.40
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (45 bp):
CCATAGTTGAAAAATACCATGGCATTATACACAAAACGAGAAAGA
Found at i:8848639 original size:45 final size:43
Alignment explanation
Indices: 8848458--8848659 Score: 154
Period size: 45 Copynumber: 4.5 Consensus size: 43
8848448 ACAGGAAATG
* * * * *
8848458 CCATGGTTGAAAAATACCATGGCATTATACA-CAAAACGAGAAAGA
1 CCATAGTTGAAAGATACTATGGCATTA-A-ATCGAAATGA-AAAGA
* * * ** *
8848503 CCATGGTTGAAAAAATACCATGGCATTATACCCAAAATGAGAAAGA
1 CCATAGTTG-AAAGATACTATGGCATTA-AATCGAAATGA-AAAGA
* **
8848549 CCGTAGTTGAAAGATACTATGGCATTAAATACGAAACAAATAAGA
1 CCATAGTTGAAAGATACTATGGCATTAAAT-CGAAATGAA-AAGA
*
8848594 CCATAGTTGAAAGATACTATGGCATTACATCGATAATGAACAAGA
1 CCATAGTTGAAAGATACTATGGCATTAAATCGA-AATGAA-AAGA
**
8848639 CCATAGTTTTAAGATACTATG
1 CCATAGTTGAAAGATACTATG
8848660 ACACCACTTC
Statistics
Matches: 134, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
44 5 0.04
45 89 0.66
46 40 0.30
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.23
Consensus pattern (43 bp):
CCATAGTTGAAAGATACTATGGCATTAAATCGAAATGAAAAGA
Found at i:8850875 original size:27 final size:27
Alignment explanation
Indices: 8850837--8851179 Score: 288
Period size: 27 Copynumber: 12.7 Consensus size: 27
8850827 ATTTTACCAA
*
8850837 CGGGGGTATTTCGGTCATTTTACCCTT
1 CGGGGGTATTTCGATCATTTTACCCTT
**
8850864 CGGGGGTATTTCGGCCATTTTACCCTAT
1 CGGGGGTATTTCGATCATTTTACCCT-T
* ** * *
8850892 -AGGGGTATTTTAATCATTTTATCATAT
1 CGGGGGTATTTCGATCATTTTACCCT-T
8850919 --GGGGTATTTCGATCATTTTACCCTT
1 CGGGGGTATTTCGATCATTTTACCCTT
*
8850944 CAGGGGTATTTC-AGTCATTTTACCAC-T
1 CGGGGGTATTTCGA-TCATTTTACC-CTT
** * *
8850971 CAAGGGTATTTCGATCATTTTCCCCAT
1 CGGGGGTATTTCGATCATTTTACCCTT
*
8850998 CGGGGGTATTTCGGTCATTTTA-CCTT
1 CGGGGGTATTTCGATCATTTTACCCTT
* * **
8851024 ATGGGGGTATTTCAATCATTTTATCCAAT
1 -CGGGGGTATTTCGATCATTTTA-CCCTT
* *
8851053 -GGTGGTATTTCGGTCATTTTACCCTT
1 CGGGGGTATTTCGATCATTTTACCCTT
* * *
8851079 TGGGGCTATTTCGATCATTTTATCCC-G
1 CGGGGGTATTTCGATCATTTTA-CCCTT
* *
8851106 CAGGGGTATTTCGATCATTTTACCCCT
1 CGGGGGTATTTCGATCATTTTACCCTT
** * * *
8851133 CAAGGGCATTTTGATCATTTTACCTTT
1 CGGGGGTATTTCGATCATTTTACCCTT
*
8851160 CTGGGGTATTTCGATCATTT
1 CGGGGGTATTTCGATCATTT
8851180 ACGCATGAAT
Statistics
Matches: 257, Mismatches: 46, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.00
26 31 0.12
27 217 0.84
28 6 0.02
29 2 0.01
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.41
Consensus pattern (27 bp):
CGGGGGTATTTCGATCATTTTACCCTT
Found at i:8851035 original size:81 final size:79
Alignment explanation
Indices: 8850825--8851179 Score: 317
Period size: 81 Copynumber: 4.4 Consensus size: 79
8850815 GCTATAACAG
* * * * *
8850825 TCATTTTA-CCAACGGGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCGGCCATTTTACC-
1 TCATTTTACCCATCGGGGGTATTTCGATCATTTTACCCTT-AGGGGTATTTCAGTCATTTTACCA
**
8850888 CTATAGGGGTATTTTAA
65 CTA-A-GGGTATTTCGA
* **
8850905 TCATTTTA-TCATATGGGGTATTTCGATCATTTTACCCTTCAGGGGTATTTCAGTCATTTTACCA
1 TCATTTTACCCATCGGGGGTATTTCGATCATTTTACCCTT-AGGGGTATTTCAGTCATTTTACCA
8850969 CTCAAGGGTATTTCGA
65 CT-AAGGGTATTTCGA
* * *
8850985 TCATTTTCCCCATCGGGGGTATTTCGGTCATTTTA-CCTTATGGGGGTATTTCAATCATTTTATC
1 TCATTTTACCCATCGGGGGTATTTCGATCATTTTACCCTTA--GGGGTATTTCAGTCATTTTA-C
* * *
8851049 CAAT-GGTGGTATTTCGG
63 CACTAAG-GGTATTTCGA
* * * **
8851066 TCATTTTACCCTTTGGGGCTATTTCGATCATTTTATCCCGCAGGGGTATTTC-GATCATTTTACC
1 TCATTTTACCCATCGGGGGTATTTCGATCATTTTA-CCCTTAGGGGTATTTCAG-TCATTTTACC
* * *
8851130 CCTCAAGGGCATTTTGA
64 ACT-AAGGGTATTTCGA
** *
8851147 TCATTTTACCTTTCTGGGGTATTTCGATCATTT
1 TCATTTTACCCATCGGGGGTATTTCGATCATTT
8851180 ACGCATGAAT
Statistics
Matches: 226, Mismatches: 37, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
79 1 0.00
80 79 0.35
81 137 0.61
82 6 0.03
83 3 0.01
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (79 bp):
TCATTTTACCCATCGGGGGTATTTCGATCATTTTACCCTTAGGGGTATTTCAGTCATTTTACCAC
TAAGGGTATTTCGA
Found at i:8854282 original size:3 final size:3
Alignment explanation
Indices: 8854274--8854388 Score: 212
Period size: 3 Copynumber: 38.3 Consensus size: 3
8854264 TACTTTTCTG
* *
8854274 TTC TTC TTC TTC TTC TTA TTC TTC TTC TTA TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
8854322 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
8854370 TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC T
8854389 ATCATTAACC
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 108 1.00
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:8864013 original size:15 final size:16
Alignment explanation
Indices: 8863989--8864030 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
8863979 TTAAACTATA
8863989 TAAAATTAAATAT-TAT
1 TAAAA-TAAATATGTAT
8864005 TAAAATAAA-ATGTAT
1 TAAAATAAATATGTAT
8864020 T-AAATAAATAT
1 TAAAATAAATAT
8864031 AATGATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 9 0.38
15 10 0.42
16 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
TAAAATAAATATGTAT
Found at i:8873837 original size:9 final size:9
Alignment explanation
Indices: 8873812--8873904 Score: 50
Period size: 9 Copynumber: 10.4 Consensus size: 9
8873802 ATGTTTTGAA
*
8873812 AAAAAATAT
1 AAAATATAT
8873821 AAAA-ATAT
1 AAAATATAT
8873829 AAAATATAT
1 AAAATATAT
* * *
8873838 ATACATTTAC
1 A-AAATATAT
*
8873848 AAAA-AAATT
1 AAAATATA-T
*
8873857 GAAAATTTAT
1 -AAAATATAT
8873867 -AAATATAT
1 AAAATATAT
8873875 -AAATATAT
1 AAAATATAT
* *
8873883 ATAATAAAT
1 AAAATATAT
*
8873892 AAAATAAAT
1 AAAATATAT
8873901 AAAA
1 AAAA
8873905 ATTTATAGAT
Statistics
Matches: 65, Mismatches: 13, Indels: 12
0.72 0.14 0.13
Matches are distributed among these distances:
8 24 0.37
9 29 0.45
10 11 0.17
11 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.30
Consensus pattern (9 bp):
AAAATATAT
Found at i:8873870 original size:8 final size:8
Alignment explanation
Indices: 8873859--8873937 Score: 50
Period size: 8 Copynumber: 9.4 Consensus size: 8
8873849 AAAAAATTGA
8873859 AAATTTAT
1 AAATTTAT
*
8873867 AAATATAT
1 AAATTTAT
*
8873875 AAATATAT
1 AAATTTAT
**
8873883 ATAATAAAT
1 A-AATTTAT
**
8873892 AAAATAAAT
1 -AAATTTAT
8873901 AAAAATTTAT
1 -AA-ATTTAT
*
8873911 AGATTTAT
1 AAATTTAT
*
8873919 AGATTTAT
1 AAATTTAT
8873927 AAATTTAT
1 AAATTTAT
8873935 AAA
1 AAA
8873938 AATATATAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
8 40 0.65
9 17 0.27
10 5 0.08
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (8 bp):
AAATTTAT
Found at i:8873906 original size:44 final size:44
Alignment explanation
Indices: 8873813--8873911 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 44
8873803 TGTTTTGAAA
* * **
8873813 AAAAATATAAAAATATAAAATATATATACATTTACAAAAAAATT
1 AAAAATTTATAAATATAAAATATATATACATAAACAAAAAAATT
* *
8873857 GAAAATTTATAAATATATAAATATATATA-ATAAATAAAATAAA-T
1 AAAAATTTATAAATATA-AAATATATATACATAAACAAAA-AAATT
8873901 AAAAATTTATA
1 AAAAATTTATA
8873912 GATTTATAGA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
44 32 0.70
45 14 0.30
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (44 bp):
AAAAATTTATAAATATAAAATATATATACATAAACAAAAAAATT
Found at i:8875408 original size:5 final size:5
Alignment explanation
Indices: 8875398--8875422 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
8875388 AAATTACATG
8875398 AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT
8875423 CTACATTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:8877592 original size:29 final size:29
Alignment explanation
Indices: 8877546--8877603 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
8877536 TCGTCCTTCC
8877546 TTTTCCATTTTTAATAAATGGCCCAATAT
1 TTTTCCATTTTTAATAAATGGCCCAATAT
* **
8877575 TTTTCCCTTTTTGCTAAATGGCCCAATAT
1 TTTTCCATTTTTAATAAATGGCCCAATAT
8877604 GTTTATGCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.45
Consensus pattern (29 bp):
TTTTCCATTTTTAATAAATGGCCCAATAT
Found at i:8879296 original size:5 final size:5
Alignment explanation
Indices: 8879281--8879331 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
8879271 AAATTTAACG
* * * *
8879281 TTCTT TCCTT TTCTT TTCTC TTCTT TTCTT GTCTT TTTTCT TTC-T TTCTT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCT-T TTCTT TTCTT
8879331 T
1 T
8879332 CTTCTTTTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
4 4 0.11
5 29 0.81
6 3 0.08
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.75
Consensus pattern (5 bp):
TTCTT
Found at i:8879306 original size:15 final size:15
Alignment explanation
Indices: 8879288--8879339 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
8879278 ACGTTCTTTC
8879288 CTTTTCTTTTCTCTT
1 CTTTTCTTTTCTCTT
* *
8879303 CTTTTCTTGTCTTTT
1 CTTTTCTTTTCTCTT
* *
8879318 TTCTTTCTTTCTTTCTT
1 CT-TTTCTTT-TCTCTT
8879335 CTTTT
1 CTTTT
8879340 TTGTTCTGAT
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
15 14 0.50
16 9 0.32
17 5 0.18
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.75
Consensus pattern (15 bp):
CTTTTCTTTTCTCTT
Found at i:8879306 original size:20 final size:21
Alignment explanation
Indices: 8879281--8879339 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
8879271 AAATTTAACG
8879281 TTCTTTCCTTTTCTTTTCTC-
1 TTCTTTCCTTTTCTTTTCTCT
* * *
8879301 TTCTTTTCTTGTCTTTTTTCT
1 TTCTTTCCTTTTCTTTTCTCT
*
8879322 TTCTTTCTTTCTTCTTTT
1 TTCTTTCCTT-TTCTTTT
8879340 TTGTTCTGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 17 0.55
21 8 0.26
22 6 0.19
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.75
Consensus pattern (21 bp):
TTCTTTCCTTTTCTTTTCTCT
Found at i:8879321 original size:12 final size:11
Alignment explanation
Indices: 8879281--8879341 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 11
8879271 AAATTTAACG
8879281 TTCTTTCCTTTT
1 TTCTTT-CTTTT
8879293 CTT-TTCTCTTCTT
1 -TTCTT-TCTT-TT
8879306 TTCTTGTCTTTT
1 TTCTT-TCTTTT
8879318 TTCTTTCTTTCT
1 TTCTTTCTTT-T
8879330 TTC-TTCTTTT
1 TTCTTTCTTTT
8879340 TT
1 TT
8879342 GTTCTGATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
10 3 0.07
11 11 0.26
12 18 0.42
13 11 0.26
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.75
Consensus pattern (11 bp):
TTCTTTCTTTT
Found at i:8885601 original size:20 final size:20
Alignment explanation
Indices: 8885573--8885621 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
8885563 TTTTATCTTG
* *
8885573 ATTTTATTTGATTTCAATCA
1 ATTTGATTTGATTTCAAACA
*
8885593 ATTTGATTTGATTTTAAACA
1 ATTTGATTTGATTTCAAACA
*
8885613 AATTGATTT
1 ATTTGATTT
8885622 AATTGCTCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (20 bp):
ATTTGATTTGATTTCAAACA
Found at i:8886090 original size:22 final size:23
Alignment explanation
Indices: 8886045--8886093 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
8886035 GATATTTTAA
*
8886045 ATATAAATTATTTATTTTATTTT
1 ATATAAATTACTTATTTTATTTT
8886068 ATATAAA-TACTTA-TTTATATTT
1 ATATAAATTACTTATTTTAT-TTT
8886090 ATAT
1 ATAT
8886094 TTGTTCGCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 12 0.50
23 7 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
ATATAAATTACTTATTTTATTTT
Found at i:8887189 original size:52 final size:52
Alignment explanation
Indices: 8887127--8887232 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
8887117 TTATGAATAG
8887127 TTGTGTCCTTTGAAATATAGACATCTCTTTAATTTTATATTACAATATTTCT
1 TTGTGTCCTTTGAAATATAGACATCTCTTTAATTTTATATTACAATATTTCT
8887179 TTGTGTCCTTTGAAATATAGACATCTCTTTAATTTTATATTACAATATTTCT
1 TTGTGTCCTTTGAAATATAGACATCTCTTTAATTTTATATTACAATATTTCT
8887231 TT
1 TT
8887233 CTTTTTTCAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (52 bp):
TTGTGTCCTTTGAAATATAGACATCTCTTTAATTTTATATTACAATATTTCT
Found at i:8887373 original size:21 final size:22
Alignment explanation
Indices: 8887349--8887392 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
8887339 TACTTTATAT
8887349 AATATATA-TAGTATATAATAA
1 AATATATATTAGTATATAATAA
* *
8887370 AATATATATTATTATATATTAA
1 AATATATATTAGTATATAATAA
8887392 A
1 A
8887393 TAACAACAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATATATATTAGTATATAATAA
Found at i:8889010 original size:7 final size:7
Alignment explanation
Indices: 8888998--8889023 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8888988 TAGAATTGAA
8888998 ATTTTAT
1 ATTTTAT
8889005 ATTTTAT
1 ATTTTAT
8889012 ATTTTAT
1 ATTTTAT
8889019 ATTTT
1 ATTTT
8889024 TCTAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
ATTTTAT
Found at i:8889146 original size:20 final size:21
Alignment explanation
Indices: 8889099--8889146 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
8889089 TAGTTAAAGT
*
8889099 TTTTTTTTTCTATTTTTTGAA
1 TTTTTTATTCTATTTTTTGAA
*
8889120 TGTTTTATTC-ATTTTTTGAA
1 TTTTTTATTCTATTTTTTGAA
8889140 TTTTTTA
1 TTTTTTA
8889147 ATTTAGTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.73
Consensus pattern (21 bp):
TTTTTTATTCTATTTTTTGAA
Found at i:8889270 original size:29 final size:28
Alignment explanation
Indices: 8889238--8889294 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
8889228 TTGCAATTTC
* *
8889238 TAGAATTTAAATACTTTTTTCATTTTTTA
1 TAGAATTTAAATA-TTATTTAATTTTTTA
* *
8889267 TAGATTTTATATATTATTTAATTTTTTA
1 TAGAATTTAAATATTATTTAATTTTTTA
8889295 AATTGTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (28 bp):
TAGAATTTAAATATTATTTAATTTTTTA
Found at i:8890184 original size:14 final size:15
Alignment explanation
Indices: 8890165--8890193 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8890155 TTGTTTTAGC
8890165 GCTAATTAAC-TAAA
1 GCTAATTAACATAAA
8890179 GCTAATTAACATAAA
1 GCTAATTAACATAAA
8890194 TTTAGGTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.28
Consensus pattern (15 bp):
GCTAATTAACATAAA
Found at i:8890483 original size:22 final size:22
Alignment explanation
Indices: 8890457--8890502 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
8890447 TAATTTCTTT
8890457 TTACTT-TAAATAAT-ATAATTAA
1 TTACTTAT-AATAATAATAA-TAA
8890479 TTACTTATAATAATAATAATAA
1 TTACTTATAATAATAATAATAA
8890501 TT
1 TT
8890503 TAATTCATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (22 bp):
TTACTTATAATAATAATAATAA
Found at i:8891074 original size:29 final size:29
Alignment explanation
Indices: 8891028--8891087 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
8891018 GTTAATGATT
*
8891028 TATAAAAATTAAATC-AAATTAAAATTTCA
1 TATAAAAATTAAATCAAAATCAAAA-TTCA
*
8891057 TATATAAAATTACA-CAAAATCAAAATTCA
1 TATA-AAAATTAAATCAAAATCAAAATTCA
8891086 TA
1 TA
8891088 ATTGTGATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (29 bp):
TATAAAAATTAAATCAAAATCAAAATTCA
Found at i:8891400 original size:43 final size:42
Alignment explanation
Indices: 8891335--8891597 Score: 339
Period size: 43 Copynumber: 6.1 Consensus size: 42
8891325 CGCTATTATC
* *
8891335 AACGCTGCTATAGATCATGACCTTTAGCGGCGCTTTTCCTACA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCC-ACA
*
8891378 AACGCCGCTATAGATCAAGACCTTTAGCGGCTCTTTCTCCACA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTT-TCCACA
8891421 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTT-CCACA
* **
8891464 AACGCCGCTATAGATCAAGACCTTTAGAGGCATTTTTTCCACA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGC-GCTTTTCCACA
* * **
8891507 AACGCCGCTATAGCTCGAGACCTTTAGCAACGCTTTTCCCACA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTT-CCACA
* * * *
8891550 AACGCCGCTATAGAACAA-ACCTTTAGCGACGCTTCTCGCAAA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTC-CACA
8891592 AACGCC
1 AACGCC
8891598 ACTAAAAACA
Statistics
Matches: 195, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
41 1 0.01
42 30 0.15
43 157 0.81
44 7 0.04
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.24
Consensus pattern (42 bp):
AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCACA
Found at i:8891480 original size:86 final size:86
Alignment explanation
Indices: 8891335--8891577 Score: 373
Period size: 86 Copynumber: 2.8 Consensus size: 86
8891325 CGCTATTATC
* * *
8891335 AACGCTGCTATAGATCATGACCTTTAGCGGCGCTTTTCCTACAAACGCCGCTATAGATCAAGACC
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACC
8891400 TTTAGCGGC-TCTTTCTCCACA
66 TTTAGCGGCAT-TTTCTCCACA
8891421 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACC
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACC
* *
8891486 TTTAGAGGCATTTTTTCCACA
66 TTTAGCGGCATTTTCTCCACA
* * ** *
8891507 AACGCCGCTATAGCTCGAGACCTTTAGCAACGCTTTTCCCACAAACGCCGCTATAGAACAA-ACC
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACC
8891571 TTTAGCG
66 TTTAGCG
8891578 ACGCTTCTCG
Statistics
Matches: 145, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
85 9 0.06
86 135 0.93
87 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.25
Consensus pattern (86 bp):
AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACC
TTTAGCGGCATTTTCTCCACA
Found at i:8894058 original size:48 final size:49
Alignment explanation
Indices: 8894002--8894101 Score: 157
Period size: 49 Copynumber: 2.1 Consensus size: 49
8893992 GAAAGTGACT
* *
8894002 TCAAAATTGATCCTATA-TTCATCATTTGTTATCTCCAATGCATTGAGG
1 TCAAAATTGATCCTATATTTCATCATTTGCTATCTCCAAGGCATTGAGG
* *
8894050 TCAAAATTGATCCTATATTTGATCTTTTGCTATCTCCAAGGCATTGAGG
1 TCAAAATTGATCCTATATTTCATCATTTGCTATCTCCAAGGCATTGAGG
8894099 TCA
1 TCA
8894102 TTTCAATCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 17 0.36
49 30 0.64
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (49 bp):
TCAAAATTGATCCTATATTTCATCATTTGCTATCTCCAAGGCATTGAGG
Found at i:8899170 original size:41 final size:40
Alignment explanation
Indices: 8899125--8899226 Score: 141
Period size: 41 Copynumber: 2.5 Consensus size: 40
8899115 TGATTCAGTA
8899125 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATATTT
1 CACCGGCA-TTAGCCTGCTAGACATATAGTCTGAAATATTT
* * *
8899166 CACCGGCATTAAGCCTGCTAGACATTTAGTCTGAAGTGTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGTCTGAAATATTT
*
8899207 CACCGGCAATAAGCCTGCTA
1 CACCGGC-ATTAGCCTGCTA
8899227 AGCGCTAAGC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
40 2 0.04
41 51 0.93
42 2 0.04
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATATAGTCTGAAATATTT
Found at i:8899241 original size:41 final size:41
Alignment explanation
Indices: 8899125--8899241 Score: 112
Period size: 41 Copynumber: 2.9 Consensus size: 41
8899115 TGATTCAGTA
* * * * *
8899125 CACCGGCACTTAGCCTGCTAGACA-TATAGTCTGAAATATTT
1 CACCGGCAATAAGCCTGCTAGACACTA-AGCCTGAAGTGTTT
* * * *
8899166 CACCGGCATTAAGCCTGCTAGACATTTAGTCTGAAGTGTTT
1 CACCGGCAATAAGCCTGCTAGACACTAAGCCTGAAGTGTTT
*
8899207 CACCGGCAATAAGCCTGCTA-AGCGCTAAGCCTGAA
1 CACCGGCAATAAGCCTGCTAGA-CACTAAGCCTGAA
8899242 AATCTCAATT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
40 1 0.02
41 62 0.97
42 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (41 bp):
CACCGGCAATAAGCCTGCTAGACACTAAGCCTGAAGTGTTT
Found at i:8902332 original size:16 final size:16
Alignment explanation
Indices: 8902307--8902360 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
8902297 TTGATTTGCT
*
8902307 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
8902323 ATTACACCTCTATTTC
1 ATTACACCTCTATTCC
*
8902339 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
8902355 AATACA
1 ATTACA
8902361 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.26, C:0.33, G:0.04, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:8903180 original size:19 final size:19
Alignment explanation
Indices: 8903156--8903204 Score: 89
Period size: 19 Copynumber: 2.5 Consensus size: 19
8903146 TAAAATTATA
8903156 ATTTTTAGTTTTTGTATTTC
1 ATTTTTA-TTTTTGTATTTC
8903176 ATTTTTATTTTTGTATTTC
1 ATTTTTATTTTTGTATTTC
8903195 ATTTTTATTT
1 ATTTTTATTT
8903205 GTTATAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 22 0.76
20 7 0.24
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.73
Consensus pattern (19 bp):
ATTTTTATTTTTGTATTTC
Found at i:8903609 original size:43 final size:43
Alignment explanation
Indices: 8903555--8903637 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
8903545 CTAATTAATC
* ** *
8903555 TAAAACCTAAACCTTTAACCCATATCCCCTAAACCCTAAATTA
1 TAAAACATAAACCCCTAACCCATAACCCCTAAACCCTAAATTA
* * *
8903598 TAAAACATAAACCCCTAACCCCTAACCCTTAAACCTTAAA
1 TAAAACATAAACCCCTAACCCATAACCCCTAAACCCTAAA
8903638 CCCCAACCTT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.23
Consensus pattern (43 bp):
TAAAACATAAACCCCTAACCCATAACCCCTAAACCCTAAATTA
Found at i:8903650 original size:21 final size:22
Alignment explanation
Indices: 8903614--8903681 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 22
8903604 ATAAACCCCT
*
8903614 AACCCCTAACCCTTAAACCTTA
1 AACCCCTAACCCTTAAACCATA
*
8903636 AACCCC-AACCTTTAAACCATA
1 AACCCCTAACCCTTAAACCATA
* * *
8903657 AA-CCATAAACCATAAACCATA
1 AACCCCTAACCCTTAAACCATA
8903678 AACC
1 AACC
8903682 ATAAACCATA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
20 2 0.05
21 29 0.76
22 7 0.18
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.18
Consensus pattern (22 bp):
AACCCCTAACCCTTAAACCATA
Found at i:8903658 original size:7 final size:7
Alignment explanation
Indices: 8903648--8903704 Score: 96
Period size: 7 Copynumber: 8.1 Consensus size: 7
8903638 CCCCAACCTT
8903648 TAAACCA
1 TAAACCA
8903655 TAAACCA
1 TAAACCA
8903662 TAAACCA
1 TAAACCA
8903669 TAAACCA
1 TAAACCA
8903676 TAAACCA
1 TAAACCA
8903683 TAAACCA
1 TAAACCA
* *
8903690 TAATCCC
1 TAAACCA
8903697 TAAACCA
1 TAAACCA
8903704 T
1 T
8903705 CGGAGTAACC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAACCA
Found at i:8904500 original size:14 final size:14
Alignment explanation
Indices: 8904468--8904516 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
8904458 AATGGTATCA
*
8904468 CCTAAACCTAAAAC
1 CCTAAACCAAAAAC
* * * *
8904482 TCTAAATCATATAC
1 CCTAAACCAAAAAC
8904496 CCTAAACCAAAAAC
1 CCTAAACCAAAAAC
8904510 CCTAAAC
1 CCTAAAC
8904517 TACAGTGATA
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (14 bp):
CCTAAACCAAAAAC
Found at i:8904743 original size:40 final size:41
Alignment explanation
Indices: 8904699--8904775 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 41
8904689 TTAAATCCCT
* * *
8904699 GAGCATTAGTGGCACTTT-TTAGAAAACGCCGCTAAAAAAA
1 GAGCATTAGCGGCACTTTCTCAAAAAACGCCGCTAAAAAAA
* *
8904739 GAGCATTAGCGGCGCTTTCTCAAAAAATGCCGCTAAA
1 GAGCATTAGCGGCACTTTCTCAAAAAACGCCGCTAAA
8904776 GCCTTGAGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 16 0.52
41 15 0.48
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (41 bp):
GAGCATTAGCGGCACTTTCTCAAAAAACGCCGCTAAAAAAA
Found at i:8904789 original size:42 final size:41
Alignment explanation
Indices: 8904739--8904859 Score: 152
Period size: 41 Copynumber: 2.9 Consensus size: 41
8904729 GCTAAAAAAA
* * **
8904739 GAGCATTAGCGGCGCTTTCTCAAAAAATGCCGCTAAAGCCTT
1 GAGCATTAGCGGCGCTTCCTC-AAAAACGCCGCTAAAGCCCC
* * *
8904781 GAGCATTAGCGGCGCCTCCTCAGAAACGCCACTAAAGCCCC
1 GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCC
* *
8904822 AAGCATTAGCGACGCTTCCTCAAAAACGCCGCTAAAGC
1 GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGC
8904860 TCGCCTCCTC
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
41 48 0.72
42 19 0.28
ACGTcount: A:0.30, C:0.32, G:0.21, T:0.17
Consensus pattern (41 bp):
GAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCC
Found at i:8904906 original size:68 final size:68
Alignment explanation
Indices: 8904793--8904925 Score: 178
Period size: 68 Copynumber: 2.0 Consensus size: 68
8904783 GCATTAGCGG
*
8904793 CGCCTCCTCAGAAACGCCACTAAAGCCCCAAGCATTAGCGACGCTTC-CTCAAAAACGCCGCTAA
1 CGCCTCCTCAAAAACGCCACTAAAGCCCCAAGCATTAGCGACGCTTCTC-CAAAAACGCCGCTAA
8904857 AGCT
65 AGCT
* * * * * * *
8904861 CGCCTCCTCAAAAATGTCGCTATAGCCCCGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAA
1 CGCCTCCTCAAAAACGCCACTAAAGCCCCAAGCATTAGCGACGCTTCTCCAAAAACGCCGCTAAA
8904926 TCCCTAGCAT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
68 55 0.98
69 1 0.02
ACGTcount: A:0.29, C:0.36, G:0.17, T:0.17
Consensus pattern (68 bp):
CGCCTCCTCAAAAACGCCACTAAAGCCCCAAGCATTAGCGACGCTTCTCCAAAAACGCCGCTAAA
GCT
Found at i:8904925 original size:109 final size:108
Alignment explanation
Indices: 8904761--8904965 Score: 250
Period size: 109 Copynumber: 1.9 Consensus size: 108
8904751 CGCTTTCTCA
** *
8904761 AAAAATGCCGCTAAAGCCTTGAGCATTAGCGGCGCCTCCTCAGAAACGCCACTAAAGCCCCAAGC
1 AAAAATGCCGCTAAAGCCCCGAGCATTAGCGGCGCCTCCTCAAAAACGCCACTAAA-CCCCAAGC
*
8904826 ATTAGCGACGCTTCCTCAAAAACGCCGCTAAAGCTCGCCTCCTC
65 ATTAGCGACGCTTCATCAAAAACGCCGCTAAAGCTCGCCTCCTC
* * ** * * *
8904870 AAAAATGTCGCTATAGCCCCGAGCATTAGCGGCG-CTTTTCCAAAAACGCCGCTAAATCCCTAGC
1 AAAAATGCCGCTAAAGCCCCGAGCATTAGCGGCGCCTCCT-CAAAAACGCCACTAAACCCCAAGC
* * * *
8904934 ATTAGCGGCGCTTTATTAAAACCGCCGCTAAA
65 ATTAGCGACGCTTCATCAAAAACGCCGCTAAA
8904966 TCCCTGAAAC
Statistics
Matches: 80, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
108 36 0.45
109 44 0.55
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.19
Consensus pattern (108 bp):
AAAAATGCCGCTAAAGCCCCGAGCATTAGCGGCGCCTCCTCAAAAACGCCACTAAACCCCAAGCA
TTAGCGACGCTTCATCAAAAACGCCGCTAAAGCTCGCCTCCTC
Found at i:8904941 original size:40 final size:40
Alignment explanation
Indices: 8904891--8904970 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
8904881 TATAGCCCCG
8904891 AGCATTAGCGGCGCTTT-TCCAAAAACGCCGCTAAATCCCT
1 AGCATTAGCGGCGCTTTAT-CAAAAACGCCGCTAAATCCCT
* *
8904931 AGCATTAGCGGCGCTTTATTAAAACCGCCGCTAAATCCCT
1 AGCATTAGCGGCGCTTTATCAAAAACGCCGCTAAATCCCT
8904971 GAAACCTCAG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 36 0.97
41 1 0.03
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (40 bp):
AGCATTAGCGGCGCTTTATCAAAAACGCCGCTAAATCCCT
Found at i:8911612 original size:16 final size:16
Alignment explanation
Indices: 8911591--8911625 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
8911581 AACTTAAACC
8911591 ACCCGATAGATTTCGA
1 ACCCGATAGATTTCGA
8911607 ACCCGATAGATTTCGA
1 ACCCGATAGATTTCGA
8911623 ACC
1 ACC
8911626 AATTCGCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (16 bp):
ACCCGATAGATTTCGA
Found at i:8911694 original size:3 final size:3
Alignment explanation
Indices: 8911686--8911729 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
8911676 GGTGAGGTGG
8911686 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8911730 ATAGTGGATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:8913555 original size:11 final size:11
Alignment explanation
Indices: 8913539--8913604 Score: 56
Period size: 11 Copynumber: 6.5 Consensus size: 11
8913529 TCCGCCTTGT
8913539 TTTTTAAATAA
1 TTTTTAAATAA
8913550 TTTTT-AAT--
1 TTTTTAAATAA
8913558 TTTTTAAATAA
1 TTTTTAAATAA
*
8913569 ATTTT--ATAA
1 TTTTTAAATAA
8913578 TTTTCT--ATAA
1 TTTT-TAAATAA
*
8913588 ATTTTAAATAA
1 TTTTTAAATAA
8913599 TTTTTA
1 TTTTTA
8913605 TTCTTTTTGC
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
8 5 0.11
9 11 0.24
10 11 0.24
11 18 0.40
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTTAAATAA
Found at i:8913562 original size:19 final size:21
Alignment explanation
Indices: 8913538--8913603 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 21
8913528 TTCCGCCTTG
8913538 TTTTTTAAAT-AATTTT-TAA
1 TTTTTTAAATAAATTTTATAA
8913557 TTTTTTAAATAAATTTTATAA
1 TTTTTTAAATAAATTTTATAA
*
8913578 TTTTCT--ATAAATTTTAAATAA
1 TTTTTTAAATAAATTTT--ATAA
8913599 TTTTT
1 TTTTT
8913604 ATTCTTTTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
19 19 0.46
20 6 0.15
21 16 0.39
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTTTAAATAAATTTTATAA
Found at i:8913571 original size:20 final size:20
Alignment explanation
Indices: 8913538--8913603 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 20
8913528 TTCCGCCTTG
8913538 TTTTTTAAATAATTTT-TAA
1 TTTTTTAAATAATTTTATAA
8913557 TTTTTTAAATAAATTTTATAA
1 TTTTTTAAAT-AATTTTATAA
* *
8913578 TTTTCTATA-AATTTTAAATAA
1 TTTTTTAAATAATTTT--ATAA
8913599 TTTTT
1 TTTTT
8913604 ATTCTTTTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 16 0.40
20 6 0.15
21 18 0.45
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTTAAATAATTTTATAA
Found at i:8913600 original size:10 final size:10
Alignment explanation
Indices: 8913540--8913602 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 10
8913530 CCGCCTTGTT
8913540 TTTTAAATAA
1 TTTTAAATAA
* *
8913550 TTTTTAAT-T
1 TTTTAAATAA
8913559 TTTTAAATAAA
1 TTTTAAAT-AA
8913570 TTTT--ATAA
1 TTTTAAATAA
**
8913578 TTTTCTATAAA
1 TTTTAAAT-AA
8913589 TTTTAAATAA
1 TTTTAAATAA
8913599 TTTT
1 TTTT
8913603 TATTCTTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
8 6 0.14
9 9 0.21
10 15 0.36
11 12 0.29
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTTAAATAA
Found at i:8913984 original size:29 final size:30
Alignment explanation
Indices: 8913915--8913985 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
8913905 CGAATATAAT
*
8913915 AAATATATTTTTTTAATTTTATTAATTTTA
1 AAATAAATTTTTTTAATTTTATTAATTTTA
* * *
8913945 AAAT-ACTTTTTTATTATTTT-TTATTTTTA
1 AAATAAATTTTTT-TAATTTTATTAATTTTA
8913974 AAATAAATTTTT
1 AAATAAATTTTT
8913986 GGTGTATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
29 18 0.53
30 16 0.47
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (30 bp):
AAATAAATTTTTTTAATTTTATTAATTTTA
Found at i:8916118 original size:21 final size:22
Alignment explanation
Indices: 8916088--8916130 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
8916078 GTGCTTTCTA
*
8916088 TAAAATGAGC-TAGAACATATT
1 TAAAAGGAGCATAGAACATATT
8916109 TAAAAGGAGCTATAGAACATAT
1 TAAAAGGAGC-ATAGAACATAT
8916131 GTAGATGGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
23 10 0.53
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.26
Consensus pattern (22 bp):
TAAAAGGAGCATAGAACATATT
Found at i:8921014 original size:32 final size:32
Alignment explanation
Indices: 8920972--8921047 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
8920962 AAAATAAATT
* *
8920972 ATGAAAAGTTACGAATGTGAAAAGACTTGAAT
1 ATGAAAAGTTACGAATGCGAAAAGACTTGAAG
** *
8921004 AT-AAAGAGTTAATAATGCGAAGAGACTTGAAG
1 ATGAAA-AGTTACGAATGCGAAAAGACTTGAAG
8921036 ATGAAAAGTTAC
1 ATGAAAAGTTAC
8921048 ACACATGCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
31 3 0.08
32 30 0.83
33 3 0.08
ACGTcount: A:0.47, C:0.07, G:0.22, T:0.24
Consensus pattern (32 bp):
ATGAAAAGTTACGAATGCGAAAAGACTTGAAG
Found at i:8921138 original size:37 final size:38
Alignment explanation
Indices: 8921056--8921143 Score: 108
Period size: 39 Copynumber: 2.3 Consensus size: 38
8921046 ACACACATGC
* * *
8921056 ATGAATAGTCACAACTCCTATAGTATTTAAGTTATGTAA
1 ATGAATAGTCACAACTCC-ATAGCATTTAAGTGATATAA
*
8921095 ATGAATAGTCACAACTCC-TAGCATTT-AGTGATATAG
1 ATGAATAGTCACAACTCCATAGCATTTAAGTGATATAA
8921131 ATAGAATAGTCAC
1 AT-GAATAGTCAC
8921144 TTACAACTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
36 9 0.20
37 17 0.39
39 18 0.41
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (38 bp):
ATGAATAGTCACAACTCCATAGCATTTAAGTGATATAA
Found at i:8925656 original size:36 final size:39
Alignment explanation
Indices: 8925570--8925656 Score: 117
Period size: 39 Copynumber: 2.3 Consensus size: 39
8925560 ACACACATGC
* * *
8925570 ATGAATAGTCACAACTCCTATAGTATTTAAGTTATGTAA
1 ATGAATAGTCACAACTCCTATAGCATTTAAGTGATATAA
*
8925609 ATGAATAGTCACAACTCCTA-A-CATTT-AGTGATATAG
1 ATGAATAGTCACAACTCCTATAGCATTTAAGTGATATAA
8925645 ATGAATAGTCAC
1 ATGAATAGTCAC
8925657 TTACAACTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 19 0.43
37 4 0.09
38 1 0.02
39 20 0.45
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (39 bp):
ATGAATAGTCACAACTCCTATAGCATTTAAGTGATATAA
Found at i:8927347 original size:26 final size:26
Alignment explanation
Indices: 8927317--8927366 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
8927307 TTCAAATTGT
8927317 TAAATATACGTTACATGAAATGAAAC
1 TAAATATACGTTACATGAAATGAAAC
8927343 TAAATATACGTTACATGAAATGAA
1 TAAATATACGTTACATGAAATGAA
8927367 CATAGCTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (26 bp):
TAAATATACGTTACATGAAATGAAAC
Found at i:8931688 original size:126 final size:126
Alignment explanation
Indices: 8931540--8931836 Score: 443
Period size: 126 Copynumber: 2.4 Consensus size: 126
8931530 AGTGTTAATT
* * * *
8931540 TAAAA-AAGCTCCTACGTGGACGCTCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGAAG
1 TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATATCGAGAAG
* * ** *
8931604 ACGTTTCTGAGTAAATAGTGTCAAAAACGCTTTAAGCGGGATGCTTTGTCAGCAAAAGTAC
66 ACGTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAATAC
* * * *
8931665 TGAAAGAAGCTCCCATGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAAATAATATCGAGTAG
1 TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATATCGAGAAG
*
8931730 ATGTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAATAC
66 ACGTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAATAC
* *
8931791 TAAAAGAAGCTCCCACGTGGATGCGCTTTTGCTACAGTAGCACCTG
1 TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTG
8931837 TTTGGCCTGA
Statistics
Matches: 152, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
125 4 0.03
126 148 0.97
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (126 bp):
TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATATCGAGAAG
ACGTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAATAC
Found at i:8935371 original size:18 final size:18
Alignment explanation
Indices: 8935345--8935387 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
8935335 GACTAGAAAA
* * *
8935345 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
8935363 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
8935381 AGGATAC
1 AGGATAC
8935388 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:8937856 original size:30 final size:30
Alignment explanation
Indices: 8937820--8937883 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
8937810 AAAAAAAAAT
*
8937820 TCTCAAATTTCTCCCTAAATTTCTTAAAGC
1 TCTCAAATTTCTCCCTAAATTTCTCAAAGC
*
8937850 TCTCAAATTTCTCCTTAAATTTCTCAAAGC
1 TCTCAAATTTCTCCCTAAATTTCTCAAAGC
8937880 TCTC
1 TCTC
8937884 TTTAATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.28, C:0.28, G:0.03, T:0.41
Consensus pattern (30 bp):
TCTCAAATTTCTCCCTAAATTTCTCAAAGC
Found at i:8941356 original size:126 final size:126
Alignment explanation
Indices: 8941130--8941401 Score: 377
Period size: 126 Copynumber: 2.2 Consensus size: 126
8941120 TAAGGCCAAA
* * *
8941130 CAGGAACTACTGTAGAAAAGGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGCTGACAATGC
1 CAGGAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTATCATCAATTTTGCTGACAATGC
* * ** *
8941195 ATCTTGCTTGAAGTGTTTTTGACACTATTTATTCAGAACCGTC-TTCTTAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTATTCAGAAAAGTCTTTC-CAAAATTATTTTTT
* * * *
8941256 TAGGAACTATTATAGAAAAAGAGCGTCCATGTGGGAGCTTTTATCAGT-AATTTTGCTGACAGTG
1 CAGGAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTATCA-TCAATTTTGCTGACAATG
*
8941320 CATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAAAGTCTTTCCAAAATTATTTTTT
65 CATCCTGCTTGAAGCGTTTTTGACACTATTTATTCAGAAAAGTCTTTCCAAAATTATTTTTT
* *
8941382 CAGAAACTAGTATAGAAAAA
1 CAGGAACTACTATAGAAAAA
8941402 AACCAAAATC
Statistics
Matches: 128, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
126 124 0.97
127 4 0.03
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (126 bp):
CAGGAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTATCATCAATTTTGCTGACAATGC
ATCCTGCTTGAAGCGTTTTTGACACTATTTATTCAGAAAAGTCTTTCCAAAATTATTTTTT
Found at i:8951004 original size:15 final size:14
Alignment explanation
Indices: 8950980--8951009 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
8950970 TTGTAATAAC
8950980 AAAAAAAAAAGAAA
1 AAAAAAAAAAGAAA
8950994 AAAAGAAAAAAGAAA
1 AAAA-AAAAAAGAAA
8951009 A
1 A
8951010 CAGGGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAGAAA
Found at i:8967417 original size:19 final size:19
Alignment explanation
Indices: 8967393--8967465 Score: 73
Period size: 19 Copynumber: 3.9 Consensus size: 19
8967383 AATTTAAAGT
8967393 TTAATTAATTTAGTTAATC
1 TTAATTAATTTAGTTAATC
8967412 TTAATTAA-TT-GTTAA-C
1 TTAATTAATTTAGTTAATC
*
8967428 TTAAATAATATATA-TTAATC
1 TTAATTAAT-T-TAGTTAATC
* *
8967448 ATAATTAATTTAATTAAT
1 TTAATTAATTTAGTTAAT
8967466 GGTTTTCATC
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
16 8 0.18
17 5 0.11
18 5 0.11
19 19 0.42
20 8 0.18
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (19 bp):
TTAATTAATTTAGTTAATC
Found at i:8970523 original size:26 final size:26
Alignment explanation
Indices: 8970506--8970562 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
8970496 TTTGATTACG
8970506 ATTTTTCGAATTCGAGTTGGAATATC
1 ATTTTTCGAATTCGAGTTGGAATATC
8970532 ATTTTTCGAATTCGAGTTGGAATATC
1 ATTTTTCGAATTCGAGTTGGAATATC
8970558 ATTTT
1 ATTTT
8970563 CGTAAGTGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.26, C:0.11, G:0.18, T:0.46
Consensus pattern (26 bp):
ATTTTTCGAATTCGAGTTGGAATATC
Found at i:8971574 original size:16 final size:17
Alignment explanation
Indices: 8971552--8971604 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
8971542 CGTGGTAGTT
*
8971552 AAAAAAAAGGTATAATG
1 AAAAAAAGGGTATAATG
*
8971569 AAAAAAAGGGTATGATG
1 AAAAAAAGGGTATAATG
*
8971586 AAAAAAAAGGGTAGAATG
1 -AAAAAAAGGGTATAATG
8971604 A
1 A
8971605 CAAATTTAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 16 0.52
18 15 0.48
ACGTcount: A:0.60, C:0.00, G:0.25, T:0.15
Consensus pattern (17 bp):
AAAAAAAGGGTATAATG
Found at i:8971575 original size:18 final size:18
Alignment explanation
Indices: 8971552--8971604 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
8971542 CGTGGTAGTT
8971552 AAAAAAAA-GGTATAATG
1 AAAAAAAAGGGTATAATG
*
8971569 -AAAAAAAGGGTATGATG
1 AAAAAAAAGGGTATAATG
*
8971586 AAAAAAAAGGGTAGAATG
1 AAAAAAAAGGGTATAATG
8971604 A
1 A
8971605 CAAATTTAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.23
17 8 0.26
18 16 0.52
ACGTcount: A:0.60, C:0.00, G:0.25, T:0.15
Consensus pattern (18 bp):
AAAAAAAAGGGTATAATG
Found at i:8982188 original size:3 final size:3
Alignment explanation
Indices: 8982106--8982168 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
8982096 GCTCACCTTC
8982106 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
8982154 TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG
8982169 CTGCTGCTGC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:8987284 original size:22 final size:22
Alignment explanation
Indices: 8987259--8987301 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
8987249 AACATACCTT
8987259 ATCATACCAGAGCATATCATAA
1 ATCATACCAGAGCATATCATAA
* *
8987281 ATCATACCATATCATATCATA
1 ATCATACCAGAGCATATCATA
8987302 TCATATCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.23, G:0.05, T:0.28
Consensus pattern (22 bp):
ATCATACCAGAGCATATCATAA
Found at i:8987291 original size:5 final size:5
Alignment explanation
Indices: 8987271--8987371 Score: 175
Period size: 5 Copynumber: 19.8 Consensus size: 5
8987261 CATACCAGAG
*
8987271 CATAT CATAAAT CATAC CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CAT--AT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
8987323 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATA
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATA
8987372 CAAAGTCCTA
Statistics
Matches: 92, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
5 87 0.95
7 5 0.05
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.38
Consensus pattern (5 bp):
CATAT
Found at i:8990939 original size:14 final size:14
Alignment explanation
Indices: 8990920--8990946 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8990910 ACATTTTCAA
8990920 AAATATTTATTTTT
1 AAATATTTATTTTT
8990934 AAATATTTATTTT
1 AAATATTTATTTT
8990947 GAATTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AAATATTTATTTTT
Found at i:8996034 original size:13 final size:13
Alignment explanation
Indices: 8996010--8996043 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
8996000 TAGTATAATT
8996010 TTTAATATATAAAA
1 TTTAA-ATATAAAA
8996024 TTTAAATATAAAA
1 TTTAAATATAAAA
8996037 TTTAAAT
1 TTTAAAT
8996044 TTCATCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTAAATATAAAA
Found at i:8997787 original size:29 final size:29
Alignment explanation
Indices: 8997729--8997788 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
8997719 TAATTGTTTA
* *
8997729 TTTTTATATATATTTTTATTTTTAGGAAT
1 TTTTTATATATATTTTTAATTTTAGAAAT
* *
8997758 TTTTTTTATATTTTTTTAGATTTTA-AAAT
1 TTTTTATATATATTTTTA-ATTTTAGAAAT
8997787 TT
1 TT
8997789 AAGTTTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (29 bp):
TTTTTATATATATTTTTAATTTTAGAAAT
Found at i:9000024 original size:18 final size:18
Alignment explanation
Indices: 8999935--9000027 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
8999925 ACCGTTTACG
*
8999935 GTACTATTCACGTATACG
1 GTACTATTCACGTATACA
*
8999953 GCACTATTCACGTATACA
1 GTACTATTCACGTATACA
* **
8999971 GTACTATTCACATATATG
1 GTACTATTCACGTATACA
8999989 GTACTATTCACGTATACA
1 GTACTATTCACGTATACA
*
9000007 GTACTGTTCACGTATACA
1 GTACTATTCACGTATACA
9000025 GTA
1 GTA
9000028 GTTGGGATTG
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (18 bp):
GTACTATTCACGTATACA
Found at i:9004829 original size:14 final size:15
Alignment explanation
Indices: 9004795--9004830 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
9004785 CATACGTTGG
9004795 TGTTGACACCATTTT
1 TGTTGACACCATTTT
9004810 TGTTGACACCATTTT
1 TGTTGACACCATTTT
9004825 T-TTGAC
1 TGTTGAC
9004831 GGAAAACGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (15 bp):
TGTTGACACCATTTT
Found at i:9005990 original size:3 final size:3
Alignment explanation
Indices: 9005982--9006050 Score: 54
Period size: 3 Copynumber: 24.0 Consensus size: 3
9005972 AAAATGAGGA
* * * * *
9005982 AAT AAT AAT AAT AAT AGT AGT AGT AAT AAT AAT AGT -GT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
9006028 AGT AAT AAT AAT ATT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
9006051 TAATTTAATG
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
2 6 0.11
3 49 0.89
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:9006028 original size:13 final size:15
Alignment explanation
Indices: 9005990--9006040 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
9005980 GAAATAATAA
*
9005990 TAATAATAGTAGTAG
1 TAATAATAATAGTAG
9006005 TAATAATAATAGT-G
1 TAATAATAATAGTAG
*
9006019 TAAT-ATAATAGTAA
1 TAATAATAATAGTAG
9006033 TAATAATA
1 TAATAATA
9006041 TTAAAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 8 0.25
14 9 0.28
15 15 0.47
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (15 bp):
TAATAATAATAGTAG
Found at i:9007437 original size:35 final size:35
Alignment explanation
Indices: 9007392--9007460 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
9007382 GGGTGTGTGA
*
9007392 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
1 TGGTACTGGTGGCAGACAGCATGGGAGAGTGGGAG
9007427 TGGTACTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTACTGGTGGCAGACAGCATGGGAGAGTGGGA
9007461 AGAGGCAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.22, C:0.12, G:0.49, T:0.17
Consensus pattern (35 bp):
TGGTACTGGTGGCAGACAGCATGGGAGAGTGGGAG
Found at i:9007946 original size:34 final size:34
Alignment explanation
Indices: 9007904--9007972 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
9007894 TAAAATTTGC
**
9007904 AAAAACTTATTATATTCGTAGTGCTTTAAACGTA
1 AAAAACTTATTATATTAATAGTGCTTTAAACGTA
* *
9007938 AAAAACTTATTATATTAATAGTGTTTTAGACGTA
1 AAAAACTTATTATATTAATAGTGCTTTAAACGTA
9007972 A
1 A
9007973 GGGTAATGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.39
Consensus pattern (34 bp):
AAAAACTTATTATATTAATAGTGCTTTAAACGTA
Found at i:9016571 original size:13 final size:13
Alignment explanation
Indices: 9016553--9016577 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9016543 TAAATTATCC
9016553 TTTATAGAAATTA
1 TTTATAGAAATTA
9016566 TTTATAGAAATT
1 TTTATAGAAATT
9016578 GCTATACTTT
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TTTATAGAAATTA
Found at i:9039933 original size:28 final size:27
Alignment explanation
Indices: 9039900--9039998 Score: 110
Period size: 28 Copynumber: 3.6 Consensus size: 27
9039890 TAATGAGATT
9039900 AGCACTAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTTTAATTGAA
* **
9039927 ATGCACTAAGTGTGCGAGTATAAGGGTAA
1 A-GCACTAAGTGTGCGAGTTTAATTG-AA
* *
9039956 AGTACTAAGTGTGCGAGTTTGATT-ATTA
1 AGCACTAAGTGTGCGAGTTTAATTGA--A
9039984 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
9039999 TACTTATTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 54 0.92
29 3 0.05
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTTAATTGAA
Found at i:9041012 original size:47 final size:47
Alignment explanation
Indices: 9040933--9041234 Score: 353
Period size: 47 Copynumber: 6.4 Consensus size: 47
9040923 TTATAATTTG
*
9040933 ATGTAGAATGCTGTCC-ATTTTGAGTATATTGATGCTGTCCATTTTA
1 ATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCCATTTTA
* * *
9040979 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGTTGTCTATTTTA
1 ATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCCATTTTA
* *
9041026 ATGTATAATGCTGTCCAATTTTAAGTATATTGATGCTGCCCATTTTA
1 ATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCCATTTTA
*
9041073 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTTA
1 ATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCC-ATTTTA
* * * * *
9041121 A-GTATATTGATGCTG-CCCATTTTAATGTATATTGATGCTGTCTAATTTG
1 ATGTATA---ATGCTGTCCAATTTTGA-GTATATTGATGCTGTCCATTTTA
* * *
9041170 ATGTATAATGCTGTCC-ATTTTGAGCATATT-ATTGCTGTCCAATTTG
1 ATGTATAATGCTGTCCAATTTTGAGTATATTGA-TGCTGTCCATTTTA
* *
9041216 CTGAATAATCGCTGTCCAA
1 ATGTATAAT-GCTGTCCAA
9041235 AACAGGGTTG
Statistics
Matches: 222, Mismatches: 23, Indels: 20
0.84 0.09 0.08
Matches are distributed among these distances:
45 1 0.00
46 41 0.18
47 131 0.59
48 10 0.05
49 13 0.06
50 26 0.12
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (47 bp):
ATGTATAATGCTGTCCAATTTTGAGTATATTGATGCTGTCCATTTTA
Found at i:9041115 original size:72 final size:69
Alignment explanation
Indices: 9040933--9041234 Score: 258
Period size: 72 Copynumber: 4.3 Consensus size: 69
9040923 TTATAATTTG
* * *
9040933 ATGTAGAATGCTGTCC-ATTTTGAGTATATTGATGCTGTCCATTTTAATGTATA--ATGCTGTCC
1 ATGTATAATGCTGTCCAATTTTGAGTGTA-TAATGCTGTCCATTTTAA-GTATATTATGCTG-CC
*
9040995 AATTTTGA
63 CATTTT-A
* * * * *
9041003 GTGTATTGATGTTGT-CTATTTT-AATGTATAATGCTGTCCAATTTTAAGTATATTGATGCTGCC
1 ATGTA-TAATGCTGTCCAATTTTGAGTGTATAATGCTGTCC-ATTTTAAGTATATT-ATGCTGCC
9041066 CATTTTA
63 CATTTTA
*
9041073 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTTAAGTATATTGATGCTGCC
1 ATGTATAATGCTGTCCAATTTTGAGTGTA-TAATGCTGTCC-ATTTTAAGTATATT-ATGCTGCC
9041138 CATTTTA
63 CATTTTA
* * * *
9041145 ATGTATATTGATGCTGTCTAA-TTTGA-TGTATAATGCTGTCCATTTTGAGCATATTATTGCTGT
1 ATGTATA---ATGCTGTCCAATTTTGAGTGTATAATGCTGTCCATTTTAAGTATATTA-TGCTGC
* *
9041208 CCAATTTG
62 CCATTTTA
* *
9041216 CTGAATAATCGCTGTCCAA
1 ATGTATAAT-GCTGTCCAA
9041235 AACAGGGTTG
Statistics
Matches: 194, Mismatches: 24, Indels: 29
0.79 0.10 0.12
Matches are distributed among these distances:
68 2 0.01
69 30 0.15
70 28 0.14
71 51 0.26
72 64 0.33
73 4 0.02
74 5 0.03
75 10 0.05
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (69 bp):
ATGTATAATGCTGTCCAATTTTGAGTGTATAATGCTGTCCATTTTAAGTATATTATGCTGCCCAT
TTTA
Found at i:9041173 original size:25 final size:25
Alignment explanation
Indices: 9040940--9041214 Score: 201
Period size: 25 Copynumber: 11.6 Consensus size: 25
9040930 TTGATGTAGA
* *
9040940 ATGCTGTCCATTTTGA-GTATATTG
1 ATGCTGTCCAATTTAATGTATATTG
*
9040964 ATGCTGTCCATTTTAATGTATA---
1 ATGCTGTCCAATTTAATGTATATTG
* *
9040986 ATGCTGTCCAATTTTGA-GTGTATTG
1 ATGCTGTCCAA-TTTAATGTATATTG
* * *
9041011 ATGTTGTCTATTTTAATGTATA---
1 ATGCTGTCCAATTTAATGTATATTG
9041033 ATGCTGTCCAATTTTAA-GTATATTG
1 ATGCTGTCCAA-TTTAATGTATATTG
* *
9041058 ATGCTGCCCATTTTAATGTATA---
1 ATGCTGTCCAATTTAATGTATATTG
* *
9041080 ATGCTGTCCAATTTTGA-GTGTATTG
1 ATGCTGTCCAA-TTTAATGTATATTG
9041105 ATGCTGTCCAATTTTAA-GTATATTG
1 ATGCTGTCCAA-TTTAATGTATATTG
* *
9041130 ATGCTGCCCATTTTAATGTATATTG
1 ATGCTGTCCAATTTAATGTATATTG
* *
9041155 ATGCTGTCTAATTTGATGTATA---
1 ATGCTGTCCAATTTAATGTATATTG
* * *
9041177 ATGCTGTCCATTTTGA-GCATATT-
1 ATGCTGTCCAATTTAATGTATATTG
9041200 ATTGCTGTCCAATTT
1 A-TGCTGTCCAATTT
9041215 GCTGAATAAT
Statistics
Matches: 202, Mismatches: 30, Indels: 38
0.75 0.11 0.14
Matches are distributed among these distances:
21 4 0.02
22 54 0.27
23 14 0.07
24 41 0.20
25 89 0.44
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.45
Consensus pattern (25 bp):
ATGCTGTCCAATTTAATGTATATTG
Found at i:9047640 original size:28 final size:28
Alignment explanation
Indices: 9047607--9047682 Score: 109
Period size: 28 Copynumber: 2.7 Consensus size: 28
9047597 TAATGAGATT
**
9047607 AGCACTAAGTGTGCGAGTTTAATTG-AA
1 AGCACTAAGTGTGCGAGTTTAAGGGTAA
*
9047634 ATGCACTAAGTGTGCGAGTATAAGGGTAA
1 A-GCACTAAGTGTGCGAGTTTAAGGGTAA
9047663 AGCACTAAGTGTGCGAGTTT
1 AGCACTAAGTGTGCGAGTTT
9047683 GATTATTAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 1 0.02
28 39 0.91
29 3 0.07
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.28
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTAAGGGTAA
Found at i:9048730 original size:47 final size:47
Alignment explanation
Indices: 9048650--9048796 Score: 253
Period size: 47 Copynumber: 3.1 Consensus size: 47
9048640 TTATAATTTG
*
9048650 ATGTATAATGCTGTCC-ATTTTGAGTATATTGATGCTGTCCATTTTA
1 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTA
*
9048696 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTTCATTTTA
1 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTA
9048743 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTTA
1 ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCC-ATTTTA
9048791 A-GTATA
1 ATGTATA
9048797 TTGATGCTGC
Statistics
Matches: 96, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
46 16 0.17
47 73 0.76
48 7 0.07
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.45
Consensus pattern (47 bp):
ATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTA
Found at i:9048787 original size:72 final size:72
Alignment explanation
Indices: 9048681--9048869 Score: 276
Period size: 72 Copynumber: 2.7 Consensus size: 72
9048671 GAGTATATTG
* * * * **
9048681 ATGCTGTCC-ATTTT-AATGTA-TAATGCTGTCCAATTTTGAGTGTATTGATGCTGTTCATTTTA
1 ATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTTAAGTATATTGATGCTGCCCATTTTA
9048743 ATGTATA
66 ATGTATA
9048750 ATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTTAAGTATATTGATGCTGCCCATTTTA
1 ATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTTAAGTATATTGATGCTGCCCATTTTA
9048815 ATGTATA
66 ATGTATA
* *
9048822 ATGCTGTCAAATTTTGAGTGTATTGATGCTGTCCATTTTTAATGTATA
1 ATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTTAA-GTATA
9048870 ATGTTGTCCA
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
69 9 0.08
70 5 0.05
71 5 0.05
72 84 0.78
73 5 0.05
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.45
Consensus pattern (72 bp):
ATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTTAAGTATATTGATGCTGCCCATTTTA
ATGTATA
Found at i:9048826 original size:47 final size:47
Alignment explanation
Indices: 9048681--9048974 Score: 239
Period size: 47 Copynumber: 6.2 Consensus size: 47
9048671 GAGTATATTG
* *
9048681 ATGCTGTCC-ATTTTAATGTATA---ATGCTGTCCAATTTTGAGTGTATTG
1 ATGCTGTCCAATTTTAA-GTATATTGATGCTGTCCAA-TTT-AATGTA-TA
* * *
9048728 ATGCTGTTC-ATTTTAATGTATA---ATGCTGTCCAATTTTGAGTGTATTG
1 ATGCTGTCCAATTTTAA-GTATATTGATGCTGTCCAA-TTT-AATGTA-TA
* *
9048775 ATGCTGTCCAATTTTAAGTATATTGATGCTGCCCATTTTAATGTATA
1 ATGCTGTCCAATTTTAAGTATATTGATGCTGTCCAATTTAATGTATA
* * * *
9048822 ATGCTGTCAAATTTTGAGTGTATTGATGCTGTCCATTTTTAATGTATA
1 ATGCTGTCCAATTTTAAGTATATTGATGCTGTCCA-ATTTAATGTATA
* * * *
9048870 ATGTTGTCCAATTTTAAGTATATTGATGCTATCTAATTTGATGTATA
1 ATGCTGTCCAATTTTAAGTATATTGATGCTGTCCAATTTAATGTATA
* * ** *
9048917 ATGCTGTCC-ATTTTGAGCATATT-ATTGCTGTCCAATTTGCTGAATA
1 ATGCTGTCCAATTTTAAGTATATTGA-TGCTGTCCAATTTAATGTATA
9048963 ATCGCTGTCCAA
1 AT-GCTGTCCAA
9048975 AACAGGGTTG
Statistics
Matches: 214, Mismatches: 25, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
45 1 0.00
46 31 0.14
47 116 0.54
48 54 0.25
49 3 0.01
50 9 0.04
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (47 bp):
ATGCTGTCCAATTTTAAGTATATTGATGCTGTCCAATTTAATGTATA
Found at i:9048878 original size:95 final size:94
Alignment explanation
Indices: 9048657--9048955 Score: 254
Period size: 95 Copynumber: 3.2 Consensus size: 94
9048647 TTGATGTATA
* * * **
9048657 ATGCTGTCCATTTTGAGTATATTGATGCTGTCC-ATTTTAATGTATA---ATGCTGTCCAATTTT
1 ATGCTGTCCATTTTGAATGTATTAATGCTGTCCAATTTTAA-GTATATTGATGCTACCCAA-TTT
* * * *
9048718 GAGTGTATTGATGCTGTTC-ATTTTAATG--TATA
64 -AATGTA-TAATGCTG-TCAATTTTGA-GCATATT
* * * *
9048750 ATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTTAAGTATATTGATGCTGCCCATTTTA
1 ATGCTGTCC-ATTTTGAATGTATTAATGCTGTCCAATTTTAAGTATATTGATGCTACCCAATTTA
**
9048815 ATGTATAATGCTGTCAAATTTTGAGTGTATT
65 ATGTATAATGCTGTC-AATTTTGAGCATATT
* * * * *
9048846 GATGCTGTCCATTTTTAATGTA-TAATGTTGTCCAATTTTAAGTATATTGATGCTATCTAATTTG
1 -ATGCTGTCCATTTTGAATGTATTAATGCTGTCCAATTTTAAGTATATTGATGCTACCCAATTTA
*
9048910 ATGTATAATGCTGTCCATTTTGAGCATATT
65 ATGTATAATGCTGTCAATTTTGAGCATATT
*
9048940 ATTGCTGTCCAATTTG
1 A-TGCTGTCCATTTTG
9048956 CTGAATAATC
Statistics
Matches: 174, Mismatches: 21, Indels: 21
0.81 0.10 0.10
Matches are distributed among these distances:
93 12 0.07
94 60 0.34
95 68 0.39
96 16 0.09
97 18 0.10
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.45
Consensus pattern (94 bp):
ATGCTGTCCATTTTGAATGTATTAATGCTGTCCAATTTTAAGTATATTGATGCTACCCAATTTAA
TGTATAATGCTGTCAATTTTGAGCATATT
Found at i:9048910 original size:72 final size:68
Alignment explanation
Indices: 9048650--9048930 Score: 250
Period size: 72 Copynumber: 4.0 Consensus size: 68
9048640 TTATAATTTG
* * *
9048650 ATGTATAATGCTGTCCATTTTGA-GTATATTGATGCTGTCCATTTT-AATGTATAATGCTGTCCA
1 ATGTATAATGCTGTCCATTTTAATGTATA---ATGCTGTCAATTTTGAGTGTATAATGCTGTCC-
*
9048713 ATTTTGA
62 ATTTTTA
* * * *
9048720 GTGTATTGATGCTGTTCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCA
1 ATGTA-TAATGCTGTCCATTTTAATGTATAATGCTGT-CAATTTTGAGTGTA-TAATGCTGTCCA
*
9048785 ATTTTA
63 TTTTTA
* *
9048791 A-GTATATTGATGCTGCCCATTTTAATGTATAATGCTGTCAAATTTTGAGTGTATTGATGCTGTC
1 ATGTATA---ATGCTGTCCATTTTAATGTATAATGCTGTC-AATTTTGAGTGTA-TAATGCTGTC
9048855 CATTTTTA
61 CATTTTTA
* *
9048863 ATGTATAATGTTGTCCAATTTTAA-GTATATTGATGCTATCTAA-TTTGA-TGTATAATGCTGTC
1 ATGTATAATGCTGTCC-ATTTTAATGTATA---ATGCTGTC-AATTTTGAGTGTATAATGCTGTC
9048925 CATTTT
61 CATTTT
9048931 GAGCATATTA
Statistics
Matches: 178, Mismatches: 19, Indels: 28
0.79 0.08 0.12
Matches are distributed among these distances:
69 8 0.04
70 40 0.22
71 37 0.21
72 79 0.44
73 14 0.08
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (68 bp):
ATGTATAATGCTGTCCATTTTAATGTATAATGCTGTCAATTTTGAGTGTATAATGCTGTCCATTT
TTA
Found at i:9055390 original size:13 final size:13
Alignment explanation
Indices: 9055372--9055396 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9055362 TTTTTACTTT
9055372 TTATTATTTTTTA
1 TTATTATTTTTTA
9055385 TTATTATTTTTT
1 TTATTATTTTTT
9055397 CTTTATTTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTATTTTTTA
Found at i:9058716 original size:32 final size:32
Alignment explanation
Indices: 9058680--9058742 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
9058670 GCGGATATCA
9058680 TTTTCCCATATCTTTTGTGCAGGATTTTTTAG
1 TTTTCCCATATCTTTTGTGCAGGATTTTTTAG
9058712 TTTTCCCATATCTTTTGTGCAGGATTTTTTA
1 TTTTCCCATATCTTTTGTGCAGGATTTTTTA
9058743 CTCTGGACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.16, C:0.16, G:0.14, T:0.54
Consensus pattern (32 bp):
TTTTCCCATATCTTTTGTGCAGGATTTTTTAG
Found at i:9059377 original size:17 final size:17
Alignment explanation
Indices: 9059355--9059387 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9059345 AACGTTTTCT
*
9059355 TAATATATATAATGCTA
1 TAATATATAAAATGCTA
9059372 TAATATATAAAATGCT
1 TAATATATAAAATGCT
9059388 CTGAGGCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
TAATATATAAAATGCTA
Found at i:9061949 original size:21 final size:22
Alignment explanation
Indices: 9061908--9061964 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
9061898 AAACCCAACT
*
9061908 AACCTAGCCCAATACCCTAAACC
1 AACCTAGCCCAATA-CCTAAAAC
9061931 AACCTAGCCCAAT-CCTAAAAC
1 AACCTAGCCCAATACCTAAAAC
*
9061952 TACCTGAGCCCAA
1 AACCT-AGCCCAA
9061965 ATTTTAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 11 0.35
22 7 0.23
23 13 0.42
ACGTcount: A:0.39, C:0.40, G:0.07, T:0.14
Consensus pattern (22 bp):
AACCTAGCCCAATACCTAAAAC
Found at i:9064345 original size:106 final size:106
Alignment explanation
Indices: 9064209--9064409 Score: 366
Period size: 106 Copynumber: 1.9 Consensus size: 106
9064199 AAAATTTTTC
9064209 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
9064274 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
66 TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
* *
9064315 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAATGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
9064380 TTCTCGTTCGACTAAACAGCCAAATATCCT
66 TTCTCGTTCGACCAAACAGCCAAATATCCT
9064410 CTTAAAGCTT
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 91 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (106 bp):
TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
Found at i:9081773 original size:42 final size:42
Alignment explanation
Indices: 9081681--9081914 Score: 348
Period size: 42 Copynumber: 5.6 Consensus size: 42
9081671 CAAACAAAAA
* *
9081681 CGCCGCTAAAGACCATGTTCTTTAGCGGC-TTTTTTTCTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTTCTAAG
* *
9081722 CACCGCTAAAGAACATGGTCTTTAGCGGCGTTTCTTTCTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTTCTAAG
*
9081764 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTCTTTCTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTTCTAAG
*
9081806 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTTCTAAG
* * *
9081848 TGCTGCTAAAGAACAT-TATCTTTAGCGGTGTTT-TTTCTAAG
1 CGCCGCTAAAGAACATGT-TCTTTAGCGGCGTTTCTTTCTAAG
*
9081889 CACCGCTAAAGAACATGTTCTTTAGC
1 CGCCGCTAAAGAACATGTTCTTTAGC
9081915 AGCGCTTTTA
Statistics
Matches: 177, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
41 56 0.32
42 121 0.68
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTCTTTCTAAG
Found at i:9082267 original size:21 final size:21
Alignment explanation
Indices: 9082241--9082311 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
9082231 TTTTGCTTTG
*
9082241 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
9082262 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* **
9082283 CGCTGCTTCCCTTACTGTC-GC
1 CTCTGCTTCCCTCGCTG-CAGC
9082304 CTCTGCTT
1 CTCTGCTT
9082312 TAAGTTGTAG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
21 43 0.98
22 1 0.02
ACGTcount: A:0.04, C:0.44, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:9087566 original size:9 final size:9
Alignment explanation
Indices: 9087520--9087768 Score: 120
Period size: 9 Copynumber: 28.6 Consensus size: 9
9087510 AAGTTGTGTA
9087520 TTATGTAAG
1 TTATGTAAG
* *
9087529 TTTTTTAAG
1 TTATGTAAG
*
9087538 TTATATAAG
1 TTATGTAAG
*
9087547 TTGTGT-A-
1 TTATGTAAG
9087554 TTATGTAAG
1 TTATGTAAG
9087563 TTATGTAAG
1 TTATGTAAG
* *
9087572 -TCTGACAAG
1 TTATG-TAAG
*
9087581 TTATGTTTAG
1 TTATG-TAAG
9087591 -TAT-TAA-
1 TTATGTAAG
9087597 TTAAT-TAAG
1 TT-ATGTAAG
9087606 TTATGTAAG
1 TTATGTAAG
*
9087615 TTGTGTAAG
1 TTATGTAAG
*
9087624 TTGTGT-A-
1 TTATGTAAG
9087631 TTATGTAAG
1 TTATGTAAG
9087640 TTATGTAAG
1 TTATGTAAG
* *
9087649 -TCTGACAAG
1 TTATG-TAAG
*
9087658 TTATGTTTAG
1 TTATG-TAAG
*
9087668 -AAT-TAA-
1 TTATGTAAG
9087674 TTAAT-TAAG
1 TT-ATGTAAG
9087683 TTATGTAAG
1 TTATGTAAG
*
9087692 TTATGTATAATA
1 TTATG--TAA-G
9087704 TTAATGTAAG
1 TT-ATGTAAG
9087714 TTATGT-A-
1 TTATGTAAG
9087721 TTATGTAAG
1 TTATGTAAG
* *
9087730 TTATTTTAG
1 TTATGTAAG
9087739 TTATGTAAG
1 TTATGTAAG
*
9087748 TTGTGT-A-
1 TTATGTAAG
*
9087755 TTATGTGAG
1 TTATGTAAG
9087764 TTATG
1 TTATG
9087769 CAATTTACGT
Statistics
Matches: 183, Mismatches: 33, Indels: 48
0.69 0.12 0.18
Matches are distributed among these distances:
7 26 0.14
8 28 0.15
9 106 0.58
10 12 0.07
11 6 0.03
12 2 0.01
13 3 0.02
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:9087572 original size:34 final size:34
Alignment explanation
Indices: 9087505--9087649 Score: 130
Period size: 34 Copynumber: 4.0 Consensus size: 34
9087495 AAATGAGTTA
* *
9087505 TATATAAGTTGTGTATTATGTAAGTTTTTTAAGT
1 TATATAAGTTGTGTATTATGTAAGTTATGTAAGT
9087539 TATATAAGTTGTGTATTATGTAAGTTATGTAAGT
1 TATATAAGTTGTGTATTATGTAAGTTATGTAAGT
* * *
9087573 CT-GACAAGTTATGTTTAGTATTAATTAATTAAGTTATGTAAGT
1 -TATATAAG-T-TG--T-GTATT-A-T--GTAAGTTATGTAAGT
* *
9087616 TGTGTAAGTTGTGTATTATGTAAGTTATGTAAGT
1 TATATAAGTTGTGTATTATGTAAGTTATGTAAGT
9087650 CTGACAAGTT
Statistics
Matches: 91, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
34 50 0.55
35 2 0.02
36 3 0.03
37 1 0.01
38 6 0.07
39 6 0.07
40 1 0.01
41 3 0.03
42 2 0.02
43 17 0.19
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.48
Consensus pattern (34 bp):
TATATAAGTTGTGTATTATGTAAGTTATGTAAGT
Found at i:9087652 original size:77 final size:77
Alignment explanation
Indices: 9087525--9087698 Score: 303
Period size: 77 Copynumber: 2.3 Consensus size: 77
9087515 GTGTATTATG
* * *
9087525 TAAGTTTTTTAAGTTATATAAGTTGTGTATTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTA
1 TAAGTTATGTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTA
*
9087590 GTATTAATTAAT
66 GAATTAATTAAT
*
9087602 TAAGTTATGTAAGTTGTGTAAGTTGTGTATTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTA
1 TAAGTTATGTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTA
9087667 GAATTAATTAAT
66 GAATTAATTAAT
9087679 TAAGTTATGTAAGTTATGTA
1 TAAGTTATGTAAGTTATGTA
9087699 TAATATTAAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 91 1.00
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (77 bp):
TAAGTTATGTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTA
GAATTAATTAAT
Found at i:9087693 original size:34 final size:38
Alignment explanation
Indices: 9087655--9087738 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 38
9087645 TAAGTCTGAC
9087655 AAGTTATGTTTAGA-ATTAAT-TAA-TTAAG-TTATGT
1 AAGTTATGTTTAGATATTAATGTAAGTTAAGATTATGT
* *
9087689 AAGTTATGTATA-ATATTAATGTAAGTTATGTATTATGT
1 AAGTTATGTTTAGATATTAATGTAAGTTAAG-ATTATGT
9087727 AAGTTAT-TTTAG
1 AAGTTATGTTTAG
9087739 TTATGTAAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
33 1 0.02
34 17 0.41
35 3 0.07
36 4 0.10
37 3 0.07
38 13 0.32
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (38 bp):
AAGTTATGTTTAGATATTAATGTAAGTTAAGATTATGT
Found at i:9087744 original size:18 final size:16
Alignment explanation
Indices: 9087509--9087768 Score: 92
Period size: 16 Copynumber: 16.6 Consensus size: 16
9087499 GAGTTATATA
*
9087509 TAAGTTGTGTATTATG
1 TAAGTTATGTATTATG
* * *
9087525 TAAGTTTTTTAAGTTATA
1 TAAGTTATGT-A-TTATG
*
9087543 TAAGTTGTGTATTATG
1 TAAGTTATGTATTATG
* *
9087559 TAAGTTATGTAAGTCTG
1 TAAGTTATGT-ATTATG
*
9087576 ACAAGTTATGT-TTA-G
1 -TAAGTTATGTATTATG
9087591 T-A-TTA---ATTAAT-
1 TAAGTTATGTATT-ATG
*
9087602 TAAGTTATGTAAGTTGTG
1 TAAGTTATGT-A-TTATG
*
9087620 TAAGTTGTGTATTATG
1 TAAGTTATGTATTATG
* *
9087636 TAAGTTATGTAAGTCTG
1 TAAGTTATGT-ATTATG
*
9087653 ACAAGTTATGT-TTA-G
1 -TAAGTTATGTATTATG
9087668 -AA-TTA---ATTAAT-
1 TAAGTTATGTATT-ATG
9087679 TAAGTTATGTAAGTTATG
1 TAAGTTATGT-A-TTATG
*
9087697 T-A--TA-ATATTAATG
1 TAAGTTATGTATT-ATG
9087710 TAAGTTATGTATTATG
1 TAAGTTATGTATTATG
*
9087726 TAAGTTATTTTAGTTATG
1 TAAGTTA-TGTA-TTATG
*
9087744 TAAGTTGTGTATTATG
1 TAAGTTATGTATTATG
*
9087760 TGAGTTATG
1 TAAGTTATG
9087769 CAATTTACGT
Statistics
Matches: 180, Mismatches: 29, Indels: 70
0.65 0.10 0.25
Matches are distributed among these distances:
10 4 0.02
11 3 0.02
12 11 0.06
13 14 0.08
14 2 0.01
15 4 0.02
16 60 0.33
17 27 0.15
18 55 0.31
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.47
Consensus pattern (16 bp):
TAAGTTATGTATTATG
Found at i:9088026 original size:33 final size:32
Alignment explanation
Indices: 9087989--9088083 Score: 84
Period size: 33 Copynumber: 3.2 Consensus size: 32
9087979 ATAAAATTTT
9087989 AAATATATGTTACATATCCATACCATATATTAA
1 AAATATATGTTACATATCCAT-CCATATATTAA
*
9088022 AAATATA-G------AT---TGCATATATTAA
1 AAATATATGTTACATATCCATCCATATATTAA
*
9088044 AAATATATGTTACATATCCATGCCGTATATTAA
1 AAATATATGTTACATATCCAT-CCATATATTAA
9088077 AAATATA
1 AAATATA
9088084 GATTGCATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 22
0.66 0.04 0.30
Matches are distributed among these distances:
22 17 0.35
23 2 0.04
26 2 0.04
29 2 0.04
32 2 0.04
33 23 0.48
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.36
Consensus pattern (32 bp):
AAATATATGTTACATATCCATCCATATATTAA
Found at i:9088027 original size:22 final size:22
Alignment explanation
Indices: 9088002--9088050 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
9087992 TATATGTTAC
*
9088002 ATATCCATACCATATATTAAAA
1 ATATACATACCATATATTAAAA
* **
9088024 ATATAGATTGCATATATTAAAA
1 ATATACATACCATATATTAAAA
9088046 ATATA
1 ATATA
9088051 TGTTACATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (22 bp):
ATATACATACCATATATTAAAA
Found at i:9088059 original size:22 final size:22
Alignment explanation
Indices: 9088012--9088060 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
9088002 ATATCCATAC
*
9088012 CATATATTAAAAATATAGATTG
1 CATATATTAAAAATATAGATTA
9088034 CATATATTAAAAATATATG-TTA
1 CATATATTAAAAATATA-GATTA
9088056 CATAT
1 CATAT
9088061 CCATGCCGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (22 bp):
CATATATTAAAAATATAGATTA
Found at i:9088073 original size:55 final size:55
Alignment explanation
Indices: 9087989--9088104 Score: 214
Period size: 55 Copynumber: 2.1 Consensus size: 55
9087979 ATAAAATTTT
9087989 AAATATATGTTACATATCCATACCATATATTAAAAATATAGATTGCATATATTAA
1 AAATATATGTTACATATCCATACCATATATTAAAAATATAGATTGCATATATTAA
* *
9088044 AAATATATGTTACATATCCATGCCGTATATTAAAAATATAGATTGCATATATTAA
1 AAATATATGTTACATATCCATACCATATATTAAAAATATAGATTGCATATATTAA
9088099 AAATAT
1 AAATAT
9088105 CTTATATTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 59 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.36
Consensus pattern (55 bp):
AAATATATGTTACATATCCATACCATATATTAAAAATATAGATTGCATATATTAA
Found at i:9088082 original size:22 final size:22
Alignment explanation
Indices: 9088069--9088167 Score: 59
Period size: 22 Copynumber: 4.6 Consensus size: 22
9088059 ATCCATGCCG
**
9088069 TATATTAAAAATATAGATTGCA
1 TATATTAAAAATATCCATTGCA
9088091 TATATTAAAAATAT-C-TT--A
1 TATATTAAAAATATCCATTGCA
* *
9088109 TAT-TAAAAAAATAT-AATTG-A
1 TATAT-TAAAAATATCCATTGCA
*
9088129 TATTTCTAAAAAATATCCATTTTGCA
1 TATAT-T-AAAAATATCCA--TTGCA
9088155 TATATTAAAAATA
1 TATATTAAAAATA
9088168 GAGGTTTTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
17 1 0.02
18 12 0.20
19 2 0.03
20 6 0.10
21 1 0.02
22 22 0.36
23 1 0.02
24 7 0.11
25 4 0.07
26 5 0.08
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (22 bp):
TATATTAAAAATATCCATTGCA
Found at i:9089383 original size:19 final size:19
Alignment explanation
Indices: 9089359--9089396 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
9089349 GTTCATTTCT
9089359 TTGTATGTTTCATTTTTAA
1 TTGTATGTTTCATTTTTAA
9089378 TTGTATGTTTCATTTTTAA
1 TTGTATGTTTCATTTTTAA
9089397 GTGTCTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.11, T:0.63
Consensus pattern (19 bp):
TTGTATGTTTCATTTTTAA
Found at i:9089774 original size:16 final size:16
Alignment explanation
Indices: 9089725--9089775 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
9089715 GATGGCAGAG
9089725 GAGTGCGACGGTAGA-
1 GAGTGCGACGGTAGAC
** **
9089740 GCCCTGCGACGGTCCAC
1 G-AGTGCGACGGTAGAC
9089757 GAGTGCGACGGTAGAC
1 GAGTGCGACGGTAGAC
9089773 GAG
1 GAG
9089776 CGCCGGCAGA
Statistics
Matches: 26, Mismatches: 8, Indels: 3
0.70 0.22 0.08
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.22, C:0.25, G:0.41, T:0.12
Consensus pattern (16 bp):
GAGTGCGACGGTAGAC
Done.