Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 41 of 427
Found at i:10123408 original size:23 final size:21
Alignment explanation
Indices: 10123378--10123420 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10123368 TTATCGGTAT
10123378 TATTATTATCAATATATTTTTAA
1 TATTATTA-CAAT-TATTTTTAA
*
10123401 TATTATTAGAATTATTTTTA
1 TATTATTACAATTATTTTTA
10123421 TAGTTTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 3 0.16
23 8 0.42
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
TATTATTACAATTATTTTTAA
Found at i:10123548 original size:22 final size:22
Alignment explanation
Indices: 10123505--10123567 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 22
10123495 TCCTAATAAA
*
10123505 TATATGTATACATAT-TTAAATAC
1 TATAT-TATACACATATT-AATAC
10123528 TATATTATACACATATTAATAC
1 TATATTATACACATATTAATAC
* * * *
10123550 CATGTTATATACCTATTA
1 TATATTATACACATATTA
10123568 TTATATCTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 27 0.79
23 7 0.21
ACGTcount: A:0.41, C:0.13, G:0.03, T:0.43
Consensus pattern (22 bp):
TATATTATACACATATTAATAC
Found at i:10123636 original size:2 final size:2
Alignment explanation
Indices: 10123623--10123664 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
10123613 TATGTTTTAT
* * *
10123623 TA TA TA TG TA TA TA TC TT TA -A TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10123664 T
1 T
10123665 TTATGAAGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10123647 original size:21 final size:20
Alignment explanation
Indices: 10123610--10123658 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
10123600 ACTAAGATTA
* *
10123610 GTATATGTTTTATTATATAT
1 GTATATATTTTAATATATAT
10123630 GTATATATCTTTAATATATAT
1 GTATATAT-TTTAATATATAT
*
10123651 ATATATAT
1 GTATATAT
10123659 ATATATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (20 bp):
GTATATATTTTAATATATAT
Found at i:10123822 original size:12 final size:12
Alignment explanation
Indices: 10123787--10123830 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
10123777 TTACCATTAC
10123787 TATTATTACTAT
1 TATTATTACTAT
*
10123799 TGTTATGT-CTAT
1 TATTAT-TACTAT
10123811 TATTATTACTAT
1 TATTATTACTAT
10123823 TATTATTA
1 TATTATTA
10123831 TTATATTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 1 0.04
12 26 0.93
13 1 0.04
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.59
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:10124242 original size:3 final size:3
Alignment explanation
Indices: 10124234--10124389 Score: 151
Period size: 3 Copynumber: 52.3 Consensus size: 3
10124224 AATTTCATTT
* * *
10124234 TTA TTA TTA TTA CTA -TA TTA TCA TTG TTA TTA TTA TT- TTCCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT--A TTA
* * * * *
10124279 TTA TTA ATA TTA ATA TTAA TT- TTC TTA TTA TTA CTA TTA TTA GTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
10124324 TCA -TA GGTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10124368 TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
10124390 CTTTTATATT
Statistics
Matches: 127, Mismatches: 17, Indels: 18
0.78 0.10 0.11
Matches are distributed among these distances:
2 9 0.07
3 111 0.87
4 5 0.04
5 2 0.02
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:10129373 original size:17 final size:17
Alignment explanation
Indices: 10129347--10129380 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10129337 AGATTTCAAT
*
10129347 TATAACTATTGAAAAAA
1 TATAAATATTGAAAAAA
*
10129364 TATAAATATTTAAAAAA
1 TATAAATATTGAAAAAA
10129381 AATCCATGAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (17 bp):
TATAAATATTGAAAAAA
Found at i:10129670 original size:13 final size:14
Alignment explanation
Indices: 10129647--10129680 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
10129637 AGGTTTTGGG
10129647 TAAAAATATAAGTT
1 TAAAAATATAAGTT
10129661 TAAAAA-ATAAGTT
1 TAAAAATATAAGTT
*
10129674 TAGAAAT
1 TAAAAAT
10129681 CCGGTTGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (14 bp):
TAAAAATATAAGTT
Found at i:10131463 original size:250 final size:250
Alignment explanation
Indices: 10131022--10133521 Score: 4883
Period size: 250 Copynumber: 10.0 Consensus size: 250
10131012 GGAAGGATTA
* *
10131022 GCACCCTCGTAAGGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
1 GCACCCTCGGAACGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
10131087 AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGGA
66 AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGGA
*
10131152 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAAGACACGACATTTCC
131 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
10131217 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
196 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
10131272 GCACCCTCGGAACGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
1 GCACCCTCGGAACGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
10131337 AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGGA
66 AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGGA
*
10131402 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCATATCCAACACGTAGGACACGACATTTCC
131 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
10131467 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
196 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
10131522 GCACCCTCGGAACGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
1 GCACCCTCGGAACGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
10131587 AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGGA
66 AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGGA
*
10131652 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGGCACGACATTTCC
131 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
10131717 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
196 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
10131772 GCACCCTCGGAACGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
1 GCACCCTCGGAACGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
*
10131837 AAAGATTTAAAACGAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGGA
66 AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGGA
*
10131902 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAAGACACGACATTTCC
131 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
10131967 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
196 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
*
10132022 GCACCCTCGGAACGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATTGAAAATTGA
1 GCACCCTCGGAACGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
10132087 AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGGA
66 AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGGA
10132152 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
131 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
10132217 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
196 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
*
10132272 GCACCCTCGGAACGCCCATAATTGGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
1 GCACCCTCGGAACGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
10132337 AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGGA
66 AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGGA
10132402 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
131 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
10132467 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
196 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
*
10132522 GCACCCTCGGAGCGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
1 GCACCCTCGGAACGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
10132587 AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGGA
66 AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGGA
*
10132652 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAAGACACGACATTTCC
131 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
10132717 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
196 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
10132772 GCACCCTCGGAACGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
1 GCACCCTCGGAACGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
10132837 AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGGA
66 AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGGA
10132902 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
131 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
10132967 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
196 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
10133022 GCACCCTCGGAACGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
1 GCACCCTCGGAACGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
10133087 AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGGA
66 AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGGA
*
10133152 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGGCACGACATTTCC
131 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
10133217 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
196 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
10133272 GCACCCTCGGAACGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
1 GCACCCTCGGAACGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
10133337 AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGGA
66 AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGGA
10133402 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
131 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
*
10133467 AACCTTCGATGCCCAAAATCATCTCATGATTTCAAAAACTCATGCATTGAAATTT
196 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
10133522 TAAAAAGGAT
Statistics
Matches: 2228, Mismatches: 22, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
250 2228 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (250 bp):
GCACCCTCGGAACGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
AAAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGGA
TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
Found at i:10134096 original size:19 final size:18
Alignment explanation
Indices: 10134074--10134109 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10134064 TAGAATAGCT
10134074 TAAAATAATAATTCAAAAA
1 TAAAATAA-AATTCAAAAA
*
10134093 TAAAATAAAATTTAAAA
1 TAAAATAAAATTCAAAA
10134110 CTGCATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAAATAAAATTCAAAAA
Found at i:10134601 original size:3 final size:3
Alignment explanation
Indices: 10134595--10134630 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
10134585 TAAAGTAGAA
10134595 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10134631 GAAAATGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10140065 original size:245 final size:245
Alignment explanation
Indices: 10139662--10140117 Score: 761
Period size: 245 Copynumber: 1.9 Consensus size: 245
10139652 ATTCTACTGC
*
10139662 AAGAAATTCAAGAGATTCACAAATCATTACTGCATCAACACTGCAAATGCTCTTCAATTCAGGTA
1 AAGAAATTCAAGAGATCCACAAATCATTACTGCATCAACACTGCAAATGCTCTTCAATTCAGGTA
* * *
10139727 AAGAACACAATGTCATTTTCTTTAATCGTGGAAGACAAAATTCCATGGTAACCCTTCCTCTTTCC
66 AAGAACACAATATCATTCTCTTTAATCGTGGAAGACAAAATTCCATGGTAACCCATCCTCTTTCC
* * * * *
10139792 TCTGATGCTATTATTTCCTCCAGTTGGTTACATTTCGAAACCTCAAGC-CGTTCTAAATTTGGCG
131 TCTGATGCTATTATTTCCTCCAGTTGGTTACAATGCCAAACATAAAGCTC-TTCTAAATTTGGCG
*
10139856 GCACACAGTTTGGAGAGGACGTCCTTTTAATTTCGGACAAGAGTCTACCTT
195 GCACACAGTTTAGAGAGGACGTCCTTTTAATTTCGGACAAGAGTCTACCTT
*
10139907 AAGATATTCAAGAGATCCACAAATCATTACTGCATCAACACTGCAAATGCTCTTCAATTCAGGTA
1 AAGAAATTCAAGAGATCCACAAATCATTACTGCATCAACACTGCAAATGCTCTTCAATTCAGGTA
* **
10139972 AAGAACGCAATATCATTCTCTTTAATCGTGGAAGACAATCTTCCATGGTAACCCATCCTCTTTCC
66 AAGAACACAATATCATTCTCTTTAATCGTGGAAGACAAAATTCCATGGTAACCCATCCTCTTTCC
*
10140037 TCTGATGCTATTATTTCCTCCAGTTGGTTACAATGCCAAATATAAAGCTCTTCTAAATTTGGCGG
131 TCTGATGCTATTATTTCCTCCAGTTGGTTACAATGCCAAACATAAAGCTCTTCTAAATTTGGCGG
10140102 CACACAGTTTAGAGAG
196 CACACAGTTTAGAGAG
10140118 AACAACCTTT
Statistics
Matches: 195, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
245 194 0.99
246 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (245 bp):
AAGAAATTCAAGAGATCCACAAATCATTACTGCATCAACACTGCAAATGCTCTTCAATTCAGGTA
AAGAACACAATATCATTCTCTTTAATCGTGGAAGACAAAATTCCATGGTAACCCATCCTCTTTCC
TCTGATGCTATTATTTCCTCCAGTTGGTTACAATGCCAAACATAAAGCTCTTCTAAATTTGGCGG
CACACAGTTTAGAGAGGACGTCCTTTTAATTTCGGACAAGAGTCTACCTT
Found at i:10143638 original size:14 final size:14
Alignment explanation
Indices: 10143619--10143650 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
10143609 GGAGGATTTC
10143619 AGAAAAAAAAAAAG
1 AGAAAAAAAAAAAG
*
10143633 AGAAAAAAAATAAG
1 AGAAAAAAAAAAAG
10143647 AGAA
1 AGAA
10143651 GGAGGATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (14 bp):
AGAAAAAAAAAAAG
Found at i:10146877 original size:49 final size:50
Alignment explanation
Indices: 10146779--10146877 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
10146769 TTTTTTGCCG
10146779 ACAATCAATAGATCGGTATGTCATAAAAAATAAAATAAAATAATAATGAT
1 ACAATCAATAGATCGGTATGTCATAAAAAATAAAATAAAATAATAATGAT
10146829 ACAATCAATAGATCGGTATGTCATAAAAAATAAAATAAAA-AATAATGAT
1 ACAATCAATAGATCGGTATGTCATAAAAAATAAAATAAAATAATAATGAT
10146878 CGTAAATTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 9 0.18
50 40 0.82
ACGTcount: A:0.57, C:0.08, G:0.10, T:0.25
Consensus pattern (50 bp):
ACAATCAATAGATCGGTATGTCATAAAAAATAAAATAAAATAATAATGAT
Found at i:10148458 original size:10 final size:10
Alignment explanation
Indices: 10148431--10148490 Score: 68
Period size: 10 Copynumber: 6.0 Consensus size: 10
10148421 TTAAATTCTA
10148431 AAAGATAAAT
1 AAAGATAAAT
*
10148441 ATAA-ATAAGT
1 A-AAGATAAAT
*
10148451 AAAGATAATT
1 AAAGATAAAT
*
10148461 AAAGATAATT
1 AAAGATAAAT
10148471 AAAGATAAAT
1 AAAGATAAAT
*
10148481 AAAAATAAAT
1 AAAGATAAAT
10148491 CCTAAAATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
9 2 0.05
10 40 0.91
11 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:10148488 original size:20 final size:20
Alignment explanation
Indices: 10148431--10148488 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
10148421 TTAAATTCTA
*
10148431 AAAGATAAATATAAATAAGT
1 AAAGATAAATAAAAATAAGT
* * *
10148451 AAAGATAATTAAAGATAATT
1 AAAGATAAATAAAAATAAGT
10148471 AAAGATAAATAAAAATAA
1 AAAGATAAATAAAAATAA
10148489 ATCCTAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAGT
Found at i:10149294 original size:5 final size:5
Alignment explanation
Indices: 10149284--10149309 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
10149274 TAACAACATG
10149284 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
10149310 AGAAAGGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:10150505 original size:51 final size:51
Alignment explanation
Indices: 10150437--10150644 Score: 328
Period size: 51 Copynumber: 4.1 Consensus size: 51
10150427 ATCACATTTA
*
10150437 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACTACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* * *
10150488 TCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTATCACTTATCATTTA
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
10150538 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* * * * *
10150589 TCACTTATCATTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCATTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
10150640 TCACT
1 TCACT
10150645 GATCAGAAGT
Statistics
Matches: 144, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
50 46 0.32
51 98 0.68
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (51 bp):
TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
Found at i:10150536 original size:101 final size:102
Alignment explanation
Indices: 10150431--10150644 Score: 367
Period size: 101 Copynumber: 2.1 Consensus size: 102
10150421 ACACTGATCA
* *
10150431 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACTACTTATCACTTGTCACTTGT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTAT
*
10150496 CACTGATCAGATAAGTGTAGCT-AAGCTATCACTTAT
66 CACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
10150532 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTAT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTAT
* *
10150597 CATTGATCAGATAAGTGTAGCTGAGGCTACCACTTAT
66 CACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
*
10150634 CATTTGTCACT
1 CATTTATCACT
10150645 GATCAGAAGT
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
101 84 0.79
102 22 0.21
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (102 bp):
CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTAT
CACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
Found at i:10162139 original size:30 final size:30
Alignment explanation
Indices: 10162105--10162167 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
10162095 AAGCCACTCA
*
10162105 GACTCCTAACAAATTGATTATGTCTTCTTT
1 GACTCCTAACAAATTGATTATGTCCTCTTT
10162135 GACTCCTAACAAATTGATTATGTCCTCTTT
1 GACTCCTAACAAATTGATTATGTCCTCTTT
10162165 GAC
1 GAC
10162168 ACCAGGATCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (30 bp):
GACTCCTAACAAATTGATTATGTCCTCTTT
Found at i:10166028 original size:47 final size:46
Alignment explanation
Indices: 10165895--10166062 Score: 180
Period size: 47 Copynumber: 3.6 Consensus size: 46
10165885 ATAGTAAAAC
* * *
10165895 TATGGTCTTGCAC--AGTCACATATCACATACCGAGGCCATAGCCCAG-
1 TATGGTCTTACACGGAG-CACATATCAC--ACCGATGCCATATCCCAGA
* * *
10165941 TCATGGTCTTACACGGATCACATATCACACTGATGTCATATCCCAGA
1 T-ATGGTCTTACACGGAGCACATATCACACCGATGCCATATCCCAGA
* * *
10165988 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCGGA
1 TATGGTCTTACAC-GGAGCACATATCACACCGATGCCATATCCCAGA
*
10166035 TATGGTCTTATACGGAGCACATATCACA
1 TATGGTCTTACACGGAGCACATATCACA
10166063 TCTCTCCGAA
Statistics
Matches: 104, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
46 40 0.38
47 53 0.51
48 10 0.10
49 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (46 bp):
TATGGTCTTACACGGAGCACATATCACACCGATGCCATATCCCAGA
Found at i:10168251 original size:26 final size:24
Alignment explanation
Indices: 10168227--10168283 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 24
10168217 TATATACATG
*
10168227 ATATCTAT-TAAAAGAATGTACAC
1 ATATATATATAAAAGAATGTACAC
*
10168250 ATA-ATATATATAAGAATGTACAC
1 ATATATATATAAAAGAATGTACAC
10168273 ATAATATATAT
1 AT-ATATATAT
10168284 GCATGGATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 3 0.10
23 19 0.66
24 1 0.03
25 6 0.21
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (24 bp):
ATATATATATAAAAGAATGTACAC
Found at i:10168281 original size:21 final size:23
Alignment explanation
Indices: 10168238--10168283 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
10168228 TATCTATTAA
10168238 AAGAATGTACACATAATATATAT
1 AAGAATGTACACATAATATATAT
10168261 AAGAATGTACACATAATATATAT
1 AAGAATGTACACATAATATATAT
10168284 GCATGGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (23 bp):
AAGAATGTACACATAATATATAT
Found at i:10168523 original size:15 final size:15
Alignment explanation
Indices: 10168505--10168548 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10168495 AATACTAAAT
*
10168505 ATAACAATAGTGATA
1 ATAACAATAGTAATA
*
10168520 ATAATAATAGTAATA
1 ATAACAATAGTAATA
*
10168535 ATAATAATCAGTAA
1 ATAACAAT-AGTAA
10168549 ATTAAGTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 21 0.81
16 5 0.19
ACGTcount: A:0.57, C:0.05, G:0.09, T:0.30
Consensus pattern (15 bp):
ATAACAATAGTAATA
Found at i:10169247 original size:14 final size:16
Alignment explanation
Indices: 10169216--10169252 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
10169206 TAATAATATG
10169216 AATAATAGATACGGTAA
1 AATAATAGATAC-GTAA
10169233 AATAATA-ATAC-TAA
1 AATAATAGATACGTAA
10169247 AATAAT
1 AATAAT
10169253 TAATTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
16 4 0.20
17 7 0.35
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.27
Consensus pattern (16 bp):
AATAATAGATACGTAA
Found at i:10174995 original size:15 final size:15
Alignment explanation
Indices: 10174975--10175006 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
10174965 ACTTTTTATG
10174975 TTTCATTTTCTGTTC
1 TTTCATTTTCTGTTC
10174990 TTTCATTTTCTGTTC
1 TTTCATTTTCTGTTC
10175005 TT
1 TT
10175007 GTTTTTCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.19, G:0.06, T:0.69
Consensus pattern (15 bp):
TTTCATTTTCTGTTC
Found at i:10181087 original size:24 final size:21
Alignment explanation
Indices: 10181041--10181081 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
10181031 TTCCTATGCT
10181041 CTGCCTCCCTCGCTGCTGCCG
1 CTGCCTCCCTCGCTGCTGCCG
*
10181062 CTGCCTCCCTCTCTGCTGCC
1 CTGCCTCCCTCGCTGCTGCC
10181082 TCCGCTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.00, C:0.54, G:0.20, T:0.27
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCTGCCG
Found at i:10181516 original size:13 final size:14
Alignment explanation
Indices: 10181491--10181519 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10181481 TGATGAATTG
10181491 AATTAAACAATTAT
1 AATTAAACAATTAT
10181505 AATTAAAC-ATTAT
1 AATTAAACAATTAT
10181518 AA
1 AA
10181520 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:10181721 original size:16 final size:17
Alignment explanation
Indices: 10181684--10181722 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
10181674 AAAATATTAT
*
10181684 TTAATATTAGAAAGTTA
1 TTAATATTAGAAAGTAA
*
10181701 TTAATATTTGAAAG-AA
1 TTAATATTAGAAAGTAA
10181717 TTAATA
1 TTAATA
10181723 AAATTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (17 bp):
TTAATATTAGAAAGTAA
Found at i:10186700 original size:9 final size:9
Alignment explanation
Indices: 10186686--10186872 Score: 89
Period size: 9 Copynumber: 20.6 Consensus size: 9
10186676 TATTTAAGTA
10186686 TTATGTAAG
1 TTATGTAAG
10186695 TTATGTAAG
1 TTATGTAAG
*
10186704 TTATGATATG
1 TTATG-TAAG
* *
10186714 ATATAT-A-
1 TTATGTAAG
*
10186721 TTATGTAAA
1 TTATGTAAG
* *
10186730 TTATAT-AT
1 TTATGTAAG
*
10186738 TTATCTAAG
1 TTATGTAAG
*
10186747 TTATATAAG
1 TTATGTAAG
10186756 TTATGTAAG
1 TTATGTAAG
*
10186765 TTATGTAAA
1 TTATGTAAG
* *
10186774 TATGATATAAAA
1 T-T-ATGT-AAG
10186786 TATAT-TAAG
1 T-TATGTAAG
10186795 TATTATGTAAG
1 --TTATGTAAG
10186806 TTATGTAAG
1 TTATGTAAG
* *
10186815 TTATAT-AT
1 TTATGTAAG
*
10186823 TTATCTAAG
1 TTATGTAAG
*
10186832 TTCATATAAG
1 TT-ATGTAAG
*
10186842 -TATGTACG
1 TTATGTAAG
*
10186850 TTTTGTAAG
1 TTATGTAAG
* *
10186859 TTATATAAA
1 TTATGTAAG
10186868 TTATG
1 TTATG
10186873 ATATCAAATT
Statistics
Matches: 137, Mismatches: 28, Indels: 26
0.72 0.15 0.14
Matches are distributed among these distances:
7 4 0.03
8 18 0.13
9 82 0.60
10 17 0.12
11 10 0.07
12 6 0.04
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:10186747 original size:43 final size:43
Alignment explanation
Indices: 10186662--10186750 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 43
10186652 AAACTTTATG
* *
10186662 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAAGT
1 TATGATATGATATATATTTAAGTATTATATAAGTTATCTAAGT
* *
10186705 TATGATATGATATATA-TTATGTAAATTATAT-ATTTATCTAAGT
1 TATGATATGATATATATTTAAGT--ATTATATAAGTTATCTAAGT
10186748 TAT
1 TAT
10186751 ATAAGTTATG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
42 5 0.12
43 29 0.73
44 6 0.15
ACGTcount: A:0.38, C:0.01, G:0.12, T:0.48
Consensus pattern (43 bp):
TATGATATGATATATATTTAAGTATTATATAAGTTATCTAAGT
Found at i:10186769 original size:44 final size:44
Alignment explanation
Indices: 10186721--10186865 Score: 144
Period size: 44 Copynumber: 3.4 Consensus size: 44
10186711 ATGATATATA
10186721 TTATGTAAATTATATATTTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAATTATATATTTATCTAAGTTATATAAGTTATGTAAG
*
10186765 TTATGTAAA-TATGATA--TA---AA-ATATATTAAGTATTATGTAAG
1 TTATGTAAATTAT-ATATTTATCTAAGTTATA-TAAG--TTATGTAAG
* *
10186806 TTATGTAAGTTATATATTTATCTAAGTTCATATAAG-TATGTACG
1 TTATGTAAATTATATATTTATCTAAGTT-ATATAAGTTATGTAAG
* *
10186850 TTTTGTAAGTTATATA
1 TTATGTAAATTATATA
10186866 AATTATGATA
Statistics
Matches: 84, Mismatches: 5, Indels: 24
0.74 0.04 0.21
Matches are distributed among these distances:
38 4 0.05
39 6 0.07
41 20 0.24
42 5 0.06
43 5 0.06
44 34 0.40
46 2 0.02
47 5 0.06
48 3 0.04
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.46
Consensus pattern (44 bp):
TTATGTAAATTATATATTTATCTAAGTTATATAAGTTATGTAAG
Found at i:10186831 original size:17 final size:18
Alignment explanation
Indices: 10186806--10186839 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10186796 ATTATGTAAG
*
10186806 TTATGTAAGTT-ATATAT
1 TTATCTAAGTTCATATAT
10186823 TTATCTAAGTTCATATA
1 TTATCTAAGTTCATATA
10186840 AGTATGTACG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (18 bp):
TTATCTAAGTTCATATAT
Found at i:10186993 original size:15 final size:15
Alignment explanation
Indices: 10186973--10187028 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
10186963 AAGTAGCGGG
10186973 ATTAAATAATATTTA
1 ATTAAATAATATTTA
10186988 ATTAAATAATATTT-
1 ATTAAATAATATTTA
10187002 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
10187017 ATTAAGTAATAT
1 ATTAAATAATAT
10187029 ACATGTCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.46
16 5 0.14
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:10187757 original size:274 final size:275
Alignment explanation
Indices: 10187237--10188446 Score: 2234
Period size: 271 Copynumber: 4.5 Consensus size: 275
10187227 ATAAAACGGA
* *
10187237 GAATTTTTTAAGATTCATCATACGCGGCGTTGTTACACCTAGGGAGGATCCAATATATCTTGCAG
1 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
*
10187302 CTCGATATAAGGCAACCCATCAGGTTTCCAGCC--TATACTTTGAATCTTTAAAATATTTAAATA
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATA
10187365 TT-AAA--AAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATC
131 TTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATC
10187427 GTAGTTTAATTTTTATAAGTACATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAAC-T
196 GTAGTTTAATTTTTATAAGTACATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTT
10187491 TTTTCAAGTC-TTTT
261 TTTTCAAGTCTTTTT
10187505 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
1 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
10187570 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATA
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATA
10187635 TTAAAATCAAACATTATTAATATAAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAAT
131 TTAAAATCAAACATTATTAATAT-AAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAAT
10187700 CGTAGTTTAATTTTTATAAGTACATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACT
195 CGTAGTTTAATTTTTATAAGTACATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACT
10187765 TTTTTCAAGTCTTTTT
260 TTTTTCAAGTCTTTTT
10187781 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATA----GCAG
1 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
10187842 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATA
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATA
10187907 TTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATC
131 TTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATC
10187972 GTAGTTTAATTTTTATAAGTACATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTT
196 GTAGTTTAATTTTTATAAGTACATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTT
*
10188037 TTTTCATGTCTTTTT
261 TTTTCAAGTCTTTTT
10188052 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTA-GGAGGATCCATTATATCTTGCAG
1 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
10188116 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATA
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATA
*
10188181 TTAAAATCAAACATTATTAACATAAAAAAATAGTAATTTGAATATAATAATAT-AAAAAAGAATC
131 TTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATC
*
10188245 GTAGTTTAA-TTTTATAAGTAAATTGGAAAT-AATATTCAATAGTAAATGAGCTCGATAGAACTT
196 GTAGTTTAATTTTTATAAGTACATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTT
10188308 TTTTCAAGTCTTTTT
261 TTTTCAAGTCTTTTT
* *
10188323 GAATTTTTTAAGATTCATCATACGTGGCATTGTTACACCTAGGGAGGATCCATTATATCTTACAG
1 GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
10188388 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATT
66 CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATT
10188447 AATAAAAAAA
Statistics
Matches: 920, Mismatches: 9, Indels: 22
0.97 0.01 0.02
Matches are distributed among these distances:
268 95 0.10
270 47 0.05
271 252 0.27
272 193 0.21
273 35 0.04
274 226 0.25
275 11 0.01
276 61 0.07
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (275 bp):
GAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAG
CTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAATA
TTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAAAGAATC
GTAGTTTAATTTTTATAAGTACATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAGAACTT
TTTTCAAGTCTTTTT
Found at i:10188731 original size:15 final size:15
Alignment explanation
Indices: 10188711--10188739 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10188701 AGAATTTTGA
10188711 AATAAAACGTACCTT
1 AATAAAACGTACCTT
10188726 AATAAAACGTACCT
1 AATAAAACGTACCT
10188740 GGTCTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAACGTACCTT
Found at i:10189248 original size:181 final size:183
Alignment explanation
Indices: 10188940--10189306 Score: 675
Period size: 181 Copynumber: 2.0 Consensus size: 183
10188930 CCTAGAACAG
10188940 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
10189005 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGCTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGCTGCAGGAGG
*
10189070 AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
*
10189123 ATGTAAGATTATAAGAGTAGCACC-AA-ATATTTCAGTTTAAGCAAATATGAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
*
10189186 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGCTGCAGGAGG
* *
10189251 AGCAGGAAGCAGTAACTGAAACATATACAACATTAATTCACTAATATAGACAC
131 AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
10189304 ATG
1 ATG
10189307 GAACTATATC
Statistics
Matches: 179, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
181 153 0.85
182 2 0.01
183 24 0.13
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (183 bp):
ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGCTGCAGGAGG
AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
Found at i:10192191 original size:136 final size:133
Alignment explanation
Indices: 10191986--10192267 Score: 494
Period size: 136 Copynumber: 2.1 Consensus size: 133
10191976 CATTGGGCCT
** *
10191986 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGAACAATAAACTGGGCCTTAG
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGAACAATAAACTGGGCCTTAG
10192051 CCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACA
66 CCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACAT-AAT-AACA
10192116 TATGC
129 TATGC
10192121 AAGCCCATTTGGGTAACAGT-GTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGA--ACAATAAACTGGGCCTT
10192185 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATAATAACA
64 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATAATAACA
10192250 TATGC
129 TATGC
10192255 AAGCCCATTTGGG
1 AAGCCCATTTGGG
10192268 GAGACTACTC
Statistics
Matches: 142, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
134 46 0.32
135 21 0.15
136 75 0.53
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (133 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGAACAATAAACTGGGCCTTAG
CCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATAATAACATA
TGC
Found at i:10194132 original size:25 final size:25
Alignment explanation
Indices: 10194038--10194171 Score: 223
Period size: 26 Copynumber: 5.2 Consensus size: 25
10194028 ACATGAATTC
*
10194038 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCTA
*
10194064 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCTA
10194090 TTATCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCTA
10194116 TTATCATGAACATTTACCTAACCTA
1 TTATCATGAACATTTACCTAACCTA
10194141 TTATCATGAACATTTACCTAACCTA
1 TTATCATGAACATTTACCTAACCTA
10194166 TTATCA
1 TTATCA
10194172 ATTTGTATCA
Statistics
Matches: 106, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
25 49 0.46
26 56 0.53
27 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCTA
Found at i:10194175 original size:20 final size:22
Alignment explanation
Indices: 10194047--10194172 Score: 108
Period size: 25 Copynumber: 5.1 Consensus size: 22
10194037 CTTATCATGA
*
10194047 AACATTTACCTAACCCATTATC
1 AACATTTACCTAACCTATTATC
*
10194069 ATGAAACATTTACCTAACCCATTATC
1 ----AACATTTACCTAACCTATTATC
10194095 ATGGAACATTTACCTAACCTATTATC
1 ----AACATTTACCTAACCTATTATC
10194121 ATGAACATTTACCTAACCTATTATC
1 ---AACATTTACCTAACCTATTATC
10194146 ATGAACATTTACCTAACCTATTATC
1 ---AACATTTACCTAACCTATTATC
10194171 AA
1 AA
10194173 TTTGTATCAA
Statistics
Matches: 96, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
22 2 0.02
25 48 0.50
26 46 0.48
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.33
Consensus pattern (22 bp):
AACATTTACCTAACCTATTATC
Found at i:10198041 original size:64 final size:64
Alignment explanation
Indices: 10197968--10198178 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
10197958 CTGGGCCAGA
*
10197968 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
10198032 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
10198094 ACTGGGCCA-AA
54 A-TGGCCCATAG
*
10198105 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
10198169 GCCCATTTCA
1 GCCCATTTCA
10198179 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 8 0.08
64 26 0.25
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 17 0.17
74 8 0.08
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:10198180 original size:137 final size:136
Alignment explanation
Indices: 10197934--10198219 Score: 527
Period size: 137 Copynumber: 2.1 Consensus size: 136
10197924 CTATTGGCCT
** *
10197934 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
10197999 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
10198064 CATATGC
130 CATATGC
10198071 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
10198136 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
10198201 ATATGC
131 ATATGC
10198207 AAGCCCATTTGGG
1 AAGCCCATTTGGG
10198220 GAGACTACTC
Statistics
Matches: 145, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
136 22 0.15
137 123 0.85
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:10200035 original size:26 final size:26
Alignment explanation
Indices: 10199999--10200133 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
10199989 CATGATATTC
*
10199999 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
10200025 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
10200051 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
10200077 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
10200103 TTATCATGAAACATTTACCTAA-CTA
1 TTATCATGAAACATTTACCTAACCTA
10200128 TTATCA
1 TTATCA
10200134 ATTTGTATCA
Statistics
Matches: 106, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
25 9 0.08
26 97 0.92
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:10201303 original size:26 final size:26
Alignment explanation
Indices: 10201274--10201326 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
10201264 AATATTTTGA
10201274 TCAAACATGTCAACAAATAAGACAAG
1 TCAAACATGTCAACAAATAAGACAAG
10201300 TCAAACATGTCAACAAATAAGACAAG
1 TCAAACATGTCAACAAATAAGACAAG
10201326 T
1 T
10201327 TATGCATCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.53, C:0.19, G:0.11, T:0.17
Consensus pattern (26 bp):
TCAAACATGTCAACAAATAAGACAAG
Found at i:10205098 original size:23 final size:23
Alignment explanation
Indices: 10205067--10205299 Score: 188
Period size: 23 Copynumber: 10.1 Consensus size: 23
10205057 AAATAAGTAC
10205067 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAACAT
* *
10205090 TTAAGCACTTCAATTTACAACAT
1 TTAAACACTTCAATTTGCAACAT
*
10205113 TTAAACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTGCAACAT
* * *
10205136 TCAAAAACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAACA-T
*
10205160 TT-AACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAACA-T
* **
10205183 TT-AACATTTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAACAT
* * * *
10205205 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTGCAAC-AT
* * * *
10205227 TAAAACA-TCTCAATTTCCAGCAAC
1 TTAAACACT-TCAATTTGCAAC-AT
* ** *
10205251 TAAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTGCAACAT
10205274 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAACAT
10205297 TTA
1 TTA
10205300 CTACTAATAT
Statistics
Matches: 174, Mismatches: 29, Indels: 14
0.80 0.13 0.06
Matches are distributed among these distances:
22 17 0.10
23 137 0.79
24 19 0.11
25 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (23 bp):
TTAAACACTTCAATTTGCAACAT
Found at i:10205146 original size:46 final size:45
Alignment explanation
Indices: 10205067--10205299 Score: 211
Period size: 46 Copynumber: 5.1 Consensus size: 45
10205057 AAATAAGTAC
* *
10205067 TTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAACAT
* * *
10205113 TTAAACACTTCAATTTGCAGCATTCAAAAACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCATT-AAACACTTCAATTTACAACA-T
* * *
10205160 TT-AACACTTCAATTTGCAGCACTTTAACATTTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAACAT
* * * * * * *
10205205 TTATACACCTCAA-TTACAGCGATAAAACA-TCTCAATTTCCAGCAAC
1 TTAAACACTTCAATTTGCAGC-ATTAAACACT-TCAATTTACAAC-AT
* * *
10205251 TAAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAACAT
10205297 TTA
1 TTA
10205300 CTACTAATAT
Statistics
Matches: 147, Mismatches: 30, Indels: 20
0.75 0.15 0.10
Matches are distributed among these distances:
44 1 0.01
45 25 0.17
46 94 0.64
47 26 0.18
48 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (45 bp):
TTAAACACTTCAATTTGCAGCATTAAACACTTCAATTTACAACAT
Found at i:10205174 original size:92 final size:91
Alignment explanation
Indices: 10205065--10205299 Score: 271
Period size: 92 Copynumber: 2.5 Consensus size: 91
10205055 CAAAATAAGT
* * *
10205065 ACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAACATTTAAACACTTCAATTTG
1 ACTTAAACACTTCAATTTGCAGCATTTAA-CACTTCAATTTACAACATTTAAACACCTCAA-TTA
*
10205130 CAGC-ATTCAAAA-A-CTTCAATTTGCAGC-
64 CAGCGA-T-AAAACATC-TCAATTTCCAGCA
* * * *
10205157 ACTTTAACACTTCAATTTGCAGCACTTTAACATTTCAATTAACAACATTTATACACCTCAATTAC
1 ACTTAAACACTTCAATTTGCAGCA-TTTAACACTTCAATTTACAACATTTAAACACCTCAATTAC
10205222 AGCGATAAAACATCTCAATTTCCAGCA
65 AGCGATAAAACATCTCAATTTCCAGCA
* * * *
10205249 ACTAAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTA
1 ACTTAAACACTTCAATTTGCAGCA-TTTAACACTTCAATTTACAACATTTA
10205300 CTACTAATAT
Statistics
Matches: 123, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
90 4 0.03
91 19 0.15
92 95 0.77
93 5 0.04
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.32
Consensus pattern (91 bp):
ACTTAAACACTTCAATTTGCAGCATTTAACACTTCAATTTACAACATTTAAACACCTCAATTACA
GCGATAAAACATCTCAATTTCCAGCA
Found at i:10206259 original size:23 final size:23
Alignment explanation
Indices: 10206225--10206440 Score: 203
Period size: 23 Copynumber: 9.4 Consensus size: 23
10206215 TCTTGTATAA
*
10206225 CATTTAAGCACTTCAATTTACAG
1 CATTTAAACACTTCAATTTACAG
*
10206248 CATTTAAACACTTCAATTTGCAG
1 CATTTAAACACTTCAATTTACAG
* *
10206271 CACTTT-AACA-TCTCAATTAACAA
1 CA-TTTAAACACT-TCAATTTACAG
*
10206294 CATTTATACAAC-TCAA-TTACAG
1 CATTTAAAC-ACTTCAATTTACAG
*
10206316 CGA-TAAAACA-TCTCAATTT-CTAG
1 C-ATTTAAACACT-TCAATTTAC-AG
** *
10206339 CAACTAAACACTTCAATTTGCAG
1 CATTTAAACACTTCAATTTACAG
* * *
10206362 TACTTAAACACTTCAATTTACAA
1 CATTTAAACACTTCAATTTACAG
10206385 CATTTAAACACTTCAATTTACAG
1 CATTTAAACACTTCAATTTACAG
**
10206408 CATTTAAACACTTCAATTTGTAG
1 CATTTAAACACTTCAATTTACAG
10206431 CATTTAAACA
1 CATTTAAACA
10206441 ACAATAGCCA
Statistics
Matches: 158, Mismatches: 22, Indels: 26
0.77 0.11 0.13
Matches are distributed among these distances:
21 1 0.01
22 19 0.12
23 132 0.84
24 6 0.04
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (23 bp):
CATTTAAACACTTCAATTTACAG
Found at i:10209740 original size:29 final size:29
Alignment explanation
Indices: 10209705--10209763 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
10209695 ATATAAATTA
10209705 CAAAACATTAATTAATCTAAGCCTTAAAC
1 CAAAACATTAATTAATCTAAGCCTTAAAC
10209734 CAAAACATTAATTAATCTAAGCCTTAAAC
1 CAAAACATTAATTAATCTAAGCCTTAAAC
10209763 C
1 C
10209764 CCTAATCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.27
Consensus pattern (29 bp):
CAAAACATTAATTAATCTAAGCCTTAAAC
Found at i:10209843 original size:21 final size:21
Alignment explanation
Indices: 10209819--10209861 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
10209809 ACCCTAAAAA
10209819 CCTAACACTT-AACCCCTAACC
1 CCTAACACTTAAACCCC-AACC
**
10209840 CCTAAGTCTTAAACCCCAACC
1 CCTAACACTTAAACCCCAACC
10209861 C
1 C
10209862 TTAAACCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.33, C:0.47, G:0.02, T:0.19
Consensus pattern (21 bp):
CCTAACACTTAAACCCCAACC
Found at i:10209887 original size:14 final size:14
Alignment explanation
Indices: 10209867--10209904 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
10209857 AACCCTTAAA
10209867 CCATAAACCATAATC
1 CCATAAACCATAA-C
10209882 CC-TAAACCCATAAC
1 CCATAAA-CCATAAC
10209896 CCATAAACC
1 CCATAAACC
10209905 TTAAAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (14 bp):
CCATAAACCATAAC
Found at i:10209909 original size:22 final size:21
Alignment explanation
Indices: 10209860--10209909 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
10209850 AAACCCCAAC
*
10209860 CCTTAAACCATAAACCATAAT
1 CCTTAAACCATAAACCATAAA
* *
10209881 CCCTAAACCCATAACCCATAAA
1 CCTTAAA-CCATAAACCATAAA
10209903 CCTTAAA
1 CCTTAAA
10209910 ATAGTAACTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (21 bp):
CCTTAAACCATAAACCATAAA
Found at i:10210473 original size:184 final size:183
Alignment explanation
Indices: 10210123--10210473 Score: 481
Period size: 184 Copynumber: 1.9 Consensus size: 183
10210113 TTTGTGGCGT
* *
10210123 TTTTGAAAAAACGCCGCTAATAGTCGATCTTTAGCGGCTTTTTTAAAAAGCGCCGCTAAAGCCAC
1 TTTTGAAAAAACGCCGCTAATACTCGATCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAAAGCCAC
* *
10210188 TAAAAGCTCAAAACAAAACGACGGTGTTTTGCAAAATTCTATTGCGGCATTTTTTAAAAACGCCG
66 TAAAAGCTCAAAACAAAACGACGGCGTTGTGCAAAATTCTATTGCGGCATTTTTTAAAAACGCCG
* * * **
10210253 CTAAAGATCAAGCACTAGGGGTGTTTTTTCAAAAGCGTACATCTTTAGCAGCG
131 CTAAAGATCAAGCAATAGCGGCGTTTTTAAAAAAGCGTACATCTTTAGCAGCG
10210306 TTTTGAAAAAAGCGCCGCTAATACTCGATCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAAAGCCA
1 TTTTGAAAAAA-CGCCGCTAATACTCGATCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAAAGCCA
* * * * * * * *
10210371 CTAAAGGCTCAATACAAAACGACGGCGTTGTGTAAATTTTTTTTGCTGCGTTTTTTGAAAAACGC
65 CTAAAAGCTCAAAACAAAACGACGGCGTTGTGCAAAATTCTATTGCGGCATTTTTT-AAAAACGC
* **
10210436 CGCTAAAGGTGTA-CATATAGCGGCG-TTTTAAAAAAGCG
129 CGCTAAAGATCAAGCA-ATAGCGGCGTTTTTAAAAAAGCG
10210474 CCGCTAATAC
Statistics
Matches: 145, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
183 11 0.08
184 110 0.76
185 24 0.17
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (183 bp):
TTTTGAAAAAACGCCGCTAATACTCGATCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAAAGCCAC
TAAAAGCTCAAAACAAAACGACGGCGTTGTGCAAAATTCTATTGCGGCATTTTTTAAAAACGCCG
CTAAAGATCAAGCAATAGCGGCGTTTTTAAAAAAGCGTACATCTTTAGCAGCG
Found at i:10213305 original size:434 final size:433
Alignment explanation
Indices: 10212653--10213523 Score: 1724
Period size: 434 Copynumber: 2.0 Consensus size: 433
10212643 TGTGTGCAAG
10212653 TAGGGGCAAAGCCAAAAAAAAAATTTTAGGGACTGAAATTAAATTGTAATTTTTACCATGGTAAA
1 TAGGGGCAAAGCCAAAAAAAAAATTTTAGGGACTGAAATTAAATTGTAATTTTTACCATGGTAAA
10212718 AATATAATTTTTAAAGGATTAAATTAAATTTTTATCATTTTTAGGGGCTAAAGTGTAATTTTATT
66 AATATAATTTTTAAAGGATTAAATTAAATTTTTATCATTTTTAGGGGCTAAAGTGTAATTTTATT
10212783 TTTACTAATTTAAAATTTTAAAAGATTTAAATGAAAAAATTTCCATTTTAGGGGCAGTCGGCAGC
131 TTTACTAATTTAAAATTTTAAAAGATTTAAATGAAAAAATTTCCATTTTAGGGGCAGTCGGCAGC
10212848 CAAACCCCCTAGATTCACCCATGTGTGCAAGCAATGTTTTGCTAGTTTCCATGTAGTTAATGGAA
196 CAAACCCCCTAGATTCACCCATGTGTGCAAGCAATGTTTTGCTAGTTTCCATGTAGTTAATGGAA
10212913 ATAGTTGAGTATTTGGTGATACATTTTGTAAGATCCAAAATTTGCACGGGCCCAAAATGAACAGT
261 ATAGTTGAGTATTTGGTGATACATTTTGTAAGATCCAAAATTTGCACGGGCCCAAAATGAACAGT
10212978 CCAGCAAACACAAAAAAAAAAACCAATTACAAAACAAGCCCAAACTAAGCCCAAACCTAACCTAA
326 CCAGCAAACACAAAAAAAAAAACCAATTACAAAACAAGCCCAAACTAAGCCCAAACCTAACCTAA
10213043 CCCTAGCCCACTATCCTAAACTCCTCCAAGAAACCCTAGCCCC
391 CCCTAGCCCACTATCCTAAACTCCTCCAAGAAACCCTAGCCCC
10213086 TAGGGGCAAAGCCAAAAAAAAAATTTTAGGGACTGAAATTAAATTGTAATTTTTACCATGGTAAA
1 TAGGGGCAAAGCCAAAAAAAAAATTTTAGGGACTGAAATTAAATTGTAATTTTTACCATGGTAAA
10213151 AATATAATTTTTAAAGGATTAAATTAAATTTTTATCATTTTTAGGGGGCTAAAGTGTAATTTTAT
66 AATATAATTTTTAAAGGATTAAATTAAATTTTTATCATTTTTA-GGGGCTAAAGTGTAATTTTAT
10213216 TTTTACTAATTTAAAATTTTAAAAGATTTAAATGAAAAAATTTCCATTTTAGGGGCAGTCGGCAG
130 TTTTACTAATTTAAAATTTTAAAAGATTTAAATGAAAAAATTTCCATTTTAGGGGCAGTCGGCAG
*
10213281 CCAAACCCCCTAGATTCACCCATGTGTGCAAGCAATGTTTTGCTAGTTTCCATGTAGTTAGTGGA
195 CCAAACCCCCTAGATTCACCCATGTGTGCAAGCAATGTTTTGCTAGTTTCCATGTAGTTAATGGA
10213346 AATAGTTGAGTATTTGGTGATACATTTTGTAAGATCCAAAATTTGCACGGGCCCAAAATGAACAG
260 AATAGTTGAGTATTTGGTGATACATTTTGTAAGATCCAAAATTTGCACGGGCCCAAAATGAACAG
10213411 TCCAGCAAACACAAAAAAAAAAACCAATTACAAAACAAGCCCAAACTAAGCCCAAACCTAACCTA
325 TCCAGCAAACACAAAAAAAAAAACCAATTACAAAACAAGCCCAAACTAAGCCCAAACCTAACCTA
10213476 ACCCTAGCCCACTATCCTAAACTCCTCCAAGAAACCCTAGCCCC
390 ACCCTAGCCCACTATCCTAAACTCCTCCAAGAAACCCTAGCCCC
10213520 TAGG
1 TAGG
10213524 TGTGCCACCC
Statistics
Matches: 436, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
433 108 0.25
434 328 0.75
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (433 bp):
TAGGGGCAAAGCCAAAAAAAAAATTTTAGGGACTGAAATTAAATTGTAATTTTTACCATGGTAAA
AATATAATTTTTAAAGGATTAAATTAAATTTTTATCATTTTTAGGGGCTAAAGTGTAATTTTATT
TTTACTAATTTAAAATTTTAAAAGATTTAAATGAAAAAATTTCCATTTTAGGGGCAGTCGGCAGC
CAAACCCCCTAGATTCACCCATGTGTGCAAGCAATGTTTTGCTAGTTTCCATGTAGTTAATGGAA
ATAGTTGAGTATTTGGTGATACATTTTGTAAGATCCAAAATTTGCACGGGCCCAAAATGAACAGT
CCAGCAAACACAAAAAAAAAAACCAATTACAAAACAAGCCCAAACTAAGCCCAAACCTAACCTAA
CCCTAGCCCACTATCCTAAACTCCTCCAAGAAACCCTAGCCCC
Found at i:10215337 original size:27 final size:26
Alignment explanation
Indices: 10215300--10215414 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
10215290 AGCATGGCTG
* *
10215300 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
10215326 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
10215354 CCAGAACAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
10215381 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
10215408 CCAGAAC
1 CCAGAAC
10215415 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 59 0.74
28 16 0.20
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:10215363 original size:54 final size:54
Alignment explanation
Indices: 10215300--10215414 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
10215290 AGCATGGCTG
*
10215300 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * * *
10215354 CCAGAACAGATATTTGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
10215408 CCAGAAC
1 CCAGAAC
10215415 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.69
55 17 0.31
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:10215586 original size:28 final size:26
Alignment explanation
Indices: 10215515--10215590 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 26
10215505 CAAAATTAAC
* *
10215515 CCTAGGGGTATAACGGTAATTTTGCA
1 CCTAGGGGTATAACAGTAATTTTCCA
10215541 CCTAGGGGTATAACAGTAATTTTCCA
1 CCTAGGGGTATAACAGTAATTTTCCA
* *
10215567 CACATAGGGGTATTATAGTAATTT
1 C-C-TAGGGGTATAACAGTAATTT
10215591 AGCTACTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 25 0.57
27 1 0.02
28 18 0.41
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (26 bp):
CCTAGGGGTATAACAGTAATTTTCCA
Found at i:10217063 original size:25 final size:26
Alignment explanation
Indices: 10217028--10217132 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
10217018 ATGAAATTCC
10217028 ATCAT-GAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
10217052 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
10217078 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
10217104 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
10217129 ATCA
1 ATCA
10217133 ATTTGTGTCA
Statistics
Matches: 77, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
24 5 0.06
25 23 0.30
26 49 0.64
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:10221007 original size:19 final size:22
Alignment explanation
Indices: 10220968--10221007 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
10220958 AGAAACCCAA
10220968 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
10220990 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
10221008 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:10221105 original size:27 final size:26
Alignment explanation
Indices: 10221068--10221182 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
10221058 AGCATGGCTG
* *
10221068 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
10221094 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
10221122 CCAGAACAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * *
10221149 CCAGATCAAATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
10221176 CCAGAAC
1 CCAGAAC
10221183 GCTTCCGCCA
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 16 0.20
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:10221127 original size:54 final size:54
Alignment explanation
Indices: 10221068--10221182 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
10221058 AGCATGGCTG
* *
10221068 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAAATAATCGTGGCAGAGCCA
* * * * *
10221122 CCAGAACAGATATTTGTGGCAGAGCCACCAGATCAAATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAAATAATCGTGGCAGAGCCA
10221176 CCAGAAC
1 CCAGAAC
10221183 GCTTCCGCCA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 36 0.68
55 17 0.32
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAAATAATCGTGGCAGAGCCA
Found at i:10222275 original size:136 final size:137
Alignment explanation
Indices: 10222031--10222316 Score: 538
Period size: 136 Copynumber: 2.1 Consensus size: 137
10222021 CATTGGGCCT
**
10222031 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
10222096 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
10222160 CATATGC
131 CATATGC
10222167 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
10222232 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
10222297 CATATGC
131 CATATGC
10222304 AAGCCCATTTGGG
1 AAGCCCATTTGGG
10222317 GAGACTACTC
Statistics
Matches: 146, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 124 0.85
137 22 0.15
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:10222601 original size:25 final size:26
Alignment explanation
Indices: 10222564--10222615 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
10222554 TCAAACATGC
10222564 ATTTAGGTCAATTTA-ACCCTAGGGGT
1 ATTTAGGTCAATTTACA-CCTAGGGGT
* *
10222590 ATTTCGGT-AATTTTCACCTAGGGGT
1 ATTTAGGTCAATTTACACCTAGGGGT
10222615 A
1 A
10222616 AACAGTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (26 bp):
ATTTAGGTCAATTTACACCTAGGGGT
Found at i:10224169 original size:25 final size:26
Alignment explanation
Indices: 10224095--10224228 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
10224085 CATGAAATTC
*
10224095 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
10224121 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
10224147 TTATCATGGAACA-TTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
10224172 TTATCATGGAACA-TTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
* *
10224197 TTATTATGAAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
10224223 TTATCA
1 TTATCA
10224229 ATTTGTATCA
Statistics
Matches: 103, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 48 0.47
26 55 0.53
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:10224173 original size:51 final size:51
Alignment explanation
Indices: 10224095--10224228 Score: 234
Period size: 51 Copynumber: 2.6 Consensus size: 51
10224085 CATGAAATTC
10224095 TTATCATGAAACATTTACCTAACCTATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTATTATCATGGAACA-TTACCTAACCTA
*
10224147 TTATCATGGAACA-TTACCTAACCTATTATCATGGAACATTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTATTATCATGGAACATTACCTAACCTA
*
10224197 TTATTATGAAACATTTACCTAACCTATTATCA
1 TTATCATGAAACATTTACCTAACCTATTATCA
10224229 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
50 23 0.29
51 43 0.55
52 12 0.15
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (51 bp):
TTATCATGAAACATTTACCTAACCTATTATCATGGAACATTACCTAACCTA
Found at i:10226080 original size:26 final size:26
Alignment explanation
Indices: 10226044--10226151 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
10226034 TGAAATTCCC
* * *
10226044 ATCATAGAACATTTATCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
10226070 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
10226096 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
10226122 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
10226148 ATCA
1 ATCA
10226152 ATTTGTGTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:10226665 original size:3 final size:3
Alignment explanation
Indices: 10226657--10226753 Score: 62
Period size: 3 Copynumber: 33.0 Consensus size: 3
10226647 ACTCCTTTTC
* *
10226657 TAT TAT TATT TAT TA- TAT T-T TA- TAT TAT CAT TAT TA- GAT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
10226699 TAT T-T TCT TAT TAAT GTAA TAT TAT TTT CTAC T-T TAT TAT TAT TAT
1 TAT TAT TAT TAT T-AT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
10226745 TAT TAT TAT
1 TAT TAT TAT
10226754 CATTTCTATT
Statistics
Matches: 73, Mismatches: 11, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
2 10 0.14
3 55 0.75
4 7 0.10
5 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:10226682 original size:22 final size:22
Alignment explanation
Indices: 10226652--10226710 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
10226642 GTTTTACTCC
* *
10226652 TTTTCTATTATTATTTATTATA
1 TTTTATATTATTATTTATTAGA
*
10226674 TTTTATATTATCA-TTATTAGA
1 TTTTATATTATTATTTATTAGA
* *
10226695 TTATTATTTTCTTATT
1 TT-TTATATTATTATT
10226711 AATGTAATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 9 0.31
22 19 0.66
23 1 0.03
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTTATATTATTATTTATTAGA
Found at i:10229184 original size:19 final size:19
Alignment explanation
Indices: 10229162--10229201 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10229152 ATATGTCTTA
10229162 TAATAAATAAAAAATTATT
1 TAATAAATAAAAAATTATT
* * *
10229181 TAATTAATAAATAATTTTT
1 TAATAAATAAAAAATTATT
10229200 TA
1 TA
10229202 CATTGAATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAATAAATAAAAAATTATT
Found at i:10229447 original size:26 final size:26
Alignment explanation
Indices: 10229411--10229468 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
10229401 TAATGTTGAC
10229411 CCCAAGTCAAGTGGAGATTTTGCTTT
1 CCCAAGTCAAGTGGAGATTTTGCTTT
10229437 CCCAAGTCAAGTGGAGATTTTGCTTT
1 CCCAAGTCAAGTGGAGATTTTGCTTT
10229463 CACCAA
1 C-CCAA
10229469 ACAGCAACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 27 0.87
27 4 0.13
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (26 bp):
CCCAAGTCAAGTGGAGATTTTGCTTT
Found at i:10229627 original size:2 final size:2
Alignment explanation
Indices: 10229620--10229655 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10229610 TGTCATTGTT
10229620 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10229656 ATGCTAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10230635 original size:35 final size:35
Alignment explanation
Indices: 10230577--10230671 Score: 95
Period size: 35 Copynumber: 2.7 Consensus size: 35
10230567 ATAAATTTAG
* **
10230577 TATAAATACAATTTAATTTATATTTT-ATTATTTGAT
1 TATAAATATAATTTAA-AAATATTTTGA-TATTTGAT
*
10230613 T-TAAATATAATTTGAAAAATATTTTGATATTTTAT
1 TATAAATATAATTT-AAAAATATTTTGATATTTGAT
* *
10230648 TATGACTATAATTTAAAAATATTT
1 TATAAATATAATTTAAAAATATTT
10230672 AAATTTTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
35 36 0.72
36 14 0.28
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (35 bp):
TATAAATATAATTTAAAAATATTTTGATATTTGAT
Found at i:10236477 original size:7 final size:7
Alignment explanation
Indices: 10236467--10236661 Score: 68
Period size: 7 Copynumber: 27.6 Consensus size: 7
10236457 ATTTTTAATT
10236467 TATTATA
1 TATTATA
*
10236474 TATTATT
1 TATTATA
*
10236481 TATTAAA
1 TATTATA
10236488 TTATTATA
1 -TATTATA
*
10236496 TTTTCA-A
1 TATT-ATA
* *
10236503 AATTTGTA
1 TA-TTATA
*
10236511 AATTAT-
1 TATTATA
10236517 TATTATA
1 TATTATA
10236524 TATTATA
1 TATTATA
10236531 T-TT-TA
1 TATTATA
10236536 -ACTTATA
1 TA-TTATA
10236543 TATCTTATA
1 TA--TTATA
*
10236552 TATTTATT
1 TA-TTATA
10236560 TATT-TA
1 TATTATA
10236566 TATTATA
1 TATTATA
*
10236573 CATTAT-
1 TATTATA
*
10236579 T-TTAAA
1 TATTATA
* *
10236585 AACTTACA
1 TA-TTATA
*
10236593 T-TTTTA
1 TATTATA
10236599 TATTATA
1 TATTATA
10236606 TATTATA
1 TATTATA
*
10236613 TATTATT
1 TATTATA
10236620 TCATT-TA
1 T-ATTATA
*
10236627 TTATTATT
1 -TATTATA
*
10236635 TTTATATA
1 TAT-TATA
10236643 CTATTATA
1 -TATTATA
*
10236651 TATTATC
1 TATTATA
10236658 TATT
1 TATT
10236662 TTAAAATTCA
Statistics
Matches: 139, Mismatches: 29, Indels: 40
0.67 0.14 0.19
Matches are distributed among these distances:
5 5 0.04
6 18 0.13
7 71 0.51
8 35 0.25
9 10 0.07
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.58
Consensus pattern (7 bp):
TATTATA
Found at i:10236491 original size:22 final size:21
Alignment explanation
Indices: 10236455--10236496 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
10236445 ACTTTTAAAC
*
10236455 TTATTTTTAATTTATTATATA
1 TTATTTTTAAATTATTATATA
10236476 TTATTTATTAAATTATTATAT
1 TTATTT-TTAAATTATTATAT
10236497 TTTCAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTATTTTTAAATTATTATATA
Found at i:10236654 original size:26 final size:28
Alignment explanation
Indices: 10236625--10236693 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
10236615 TTATTTCATT
*
10236625 TATTATTATTTTTATA-T-ACTATTATA
1 TATTATTATTTTTATATTCACTATTAAA
* *
10236651 TATTATCTATTTTAAAATTCACTATTAAA
1 TATTAT-TATTTTTATATTCACTATTAAA
10236680 TATTA-TATTTTTAT
1 TATTATTATTTTTAT
10236694 GTATCATTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
26 6 0.17
27 15 0.43
28 1 0.03
29 13 0.37
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (28 bp):
TATTATTATTTTTATATTCACTATTAAA
Found at i:10240031 original size:5 final size:6
Alignment explanation
Indices: 10240014--10240040 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
10240004 TTCAAATTCC
10240014 ATAAAA ATAAAA ATAAAA ATAAAA ATA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATA
10240041 GCTTAAGGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:10241686 original size:2 final size:2
Alignment explanation
Indices: 10241679--10241711 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10241669 GGAGTAGGAT
10241679 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10241712 GCGCATGAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10250025 original size:24 final size:24
Alignment explanation
Indices: 10249975--10250025 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
10249965 TATTTTTAAA
* * *
10249975 TTGTTTCTGTTTATTTTTTTTTGT
1 TTGTTTATGTTTATTTTTTATTAT
*
10249999 TTGTTTATTTTTATTTTTTATTAT
1 TTGTTTATGTTTATTTTTTATTAT
10250023 TTG
1 TTG
10250026 CTCTTTAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.78
Consensus pattern (24 bp):
TTGTTTATGTTTATTTTTTATTAT
Found at i:10257630 original size:43 final size:45
Alignment explanation
Indices: 10257564--10257694 Score: 139
Period size: 44 Copynumber: 3.0 Consensus size: 45
10257554 AAGTCTGAAC
* *
10257564 TTATTC-CCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCA
1 TTATTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATCA
*
10257607 -T-TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATAAT-A
1 TTATTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGAT-ATCA
* * * *
10257650 TTATTCACCAGC-TTAAAGCTTGCTAGGCTCAAAGCCCGAATATCA
1 TTATTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCG-ATATCA
10257695 CCATTATAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
41 3 0.04
42 9 0.12
43 23 0.32
44 27 0.37
45 11 0.15
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (45 bp):
TTATTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATCA
Found at i:10257844 original size:28 final size:28
Alignment explanation
Indices: 10257813--10257875 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
10257803 TTGATATTTT
*
10257813 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGCGTCATTCTCAATATCTC
*
10257841 GCACACTAAGCGTCATTCTCAATATTTC
1 GCACACTAAGCGTCATTCTCAATATCTC
*
10257869 GTACACT
1 GCACACT
10257876 GAGTACCATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.32
Consensus pattern (28 bp):
GCACACTAAGCGTCATTCTCAATATCTC
Found at i:10261507 original size:10 final size:10
Alignment explanation
Indices: 10261492--10261563 Score: 90
Period size: 10 Copynumber: 7.0 Consensus size: 10
10261482 TTAAACTCTA
10261492 AAAGATAAAT
1 AAAGATAAAT
10261502 AAAGATAAAT
1 AAAGATAAAT
*
10261512 AAAACATAAAT
1 -AAAGATAAAT
*
10261523 AAAACATAAAT
1 -AAAGATAAAT
*
10261534 AAGGATAAAT
1 AAAGATAAAT
*
10261544 AAGGATAAAT
1 AAAGATAAAT
10261554 AAAGATAAAT
1 AAAGATAAAT
10261564 GCTAAAATTA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
10 37 0.65
11 20 0.35
ACGTcount: A:0.68, C:0.03, G:0.10, T:0.19
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:10263372 original size:26 final size:26
Alignment explanation
Indices: 10263316--10263369 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
10263306 AGAAGTAAAA
* *
10263316 ATTTATTTTAACTTTTTCTTCACATT
1 ATTTATTTTAAATTTTTCATCACATT
10263342 ATTTATTTTAAATTTATTCATCATCATT
1 ATTTATTTTAAATTT-TTCATCA-CATT
10263370 TTAAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 14 0.58
27 6 0.25
28 4 0.17
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (26 bp):
ATTTATTTTAAATTTTTCATCACATT
Found at i:10264669 original size:27 final size:27
Alignment explanation
Indices: 10264611--10264678 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
10264601 AAATATTCTC
*
10264611 TAAATTAATAATAAATATTAATTTGTCAA
1 TAAATTAAT-A-AAATATTAATTTATCAA
** *
10264640 TAAATTAATAAAATATTCCTTTATCGA
1 TAAATTAATAAAATATTAATTTATCAA
*
10264667 TAAACTAATAAA
1 TAAATTAATAAA
10264679 CTTGATAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 24 0.71
28 1 0.03
29 9 0.26
ACGTcount: A:0.51, C:0.07, G:0.03, T:0.38
Consensus pattern (27 bp):
TAAATTAATAAAATATTAATTTATCAA
Found at i:10267450 original size:26 final size:26
Alignment explanation
Indices: 10267414--10267523 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
10267404 CATGATATTC
10267414 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
10267440 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
10267466 TTAGCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
10267492 TTGTCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
10267518 TTATCA
1 TTATCA
10267524 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:10273671 original size:28 final size:28
Alignment explanation
Indices: 10273640--10273702 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
10273630 TTGATATTTT
10273640 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGTCATTCTCAATATCTC
* *
10273668 GCACACTAAGTGTCATTCTTAATATTTC
1 GCACACTAAGTGTCATTCTCAATATCTC
*
10273696 GTACACT
1 GCACACT
10273703 GAGTACCATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (28 bp):
GCACACTAAGTGTCATTCTCAATATCTC
Found at i:10276299 original size:35 final size:35
Alignment explanation
Indices: 10276250--10276317 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
10276240 TTTTTTCTTT
10276250 TTATTCTGTCACGGCTGGAGTCGTGGGCACGACAC
1 TTATTCTGTCACGGCTGGAGTCGTGGGCACGACAC
*
10276285 TTATTCTGTTACGGCTGGAGTCGTGGGCACGAC
1 TTATTCTGTCACGGCTGGAGTCGTGGGCACGAC
10276318 GCTGGGCGCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.28
Consensus pattern (35 bp):
TTATTCTGTCACGGCTGGAGTCGTGGGCACGACAC
Found at i:10278089 original size:8 final size:8
Alignment explanation
Indices: 10278073--10278124 Score: 59
Period size: 8 Copynumber: 6.2 Consensus size: 8
10278063 TTATTAGTAC
10278073 TTATTTTT
1 TTATTTTT
*
10278081 TTCTTTTT
1 TTATTTTT
*
10278089 TCTTTTTTT
1 T-TATTTTT
*
10278098 TTCTTTTT
1 TTATTTTT
10278106 TTGATTTTT
1 TT-ATTTTT
10278115 TTATTTTT
1 TTATTTTT
10278123 TT
1 TT
10278125 TAAATTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
8 24 0.63
9 14 0.37
ACGTcount: A:0.06, C:0.06, G:0.02, T:0.87
Consensus pattern (8 bp):
TTATTTTT
Found at i:10278113 original size:17 final size:16
Alignment explanation
Indices: 10278073--10278124 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 16
10278063 TTATTAGTAC
10278073 TTATTTTTTTCTTTTT
1 TTATTTTTTTCTTTTT
*
10278089 TCTTTTTTTTTCTTTTT
1 T-TATTTTTTTCTTTTT
*
10278106 TTGATTTTTTTATTTTT
1 TT-ATTTTTTTCTTTTT
10278123 TT
1 TT
10278125 TAAATTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 2 0.06
17 29 0.94
ACGTcount: A:0.06, C:0.06, G:0.02, T:0.87
Consensus pattern (16 bp):
TTATTTTTTTCTTTTT
Found at i:10278126 original size:9 final size:9
Alignment explanation
Indices: 10278076--10278126 Score: 52
Period size: 9 Copynumber: 5.9 Consensus size: 9
10278066 TTAGTACTTA
*
10278076 TTTTTTTCT
1 TTTTTTTAT
*
10278085 TTTTTCT-T
1 TTTTTTTAT
*
10278093 TTTTTTTCT
1 TTTTTTTAT
*
10278102 TTTTTTGA-
1 TTTTTTTAT
10278110 TTTTTTTAT
1 TTTTTTTAT
10278119 TTTTTTTA
1 TTTTTTTA
10278127 AATTTTATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
8 14 0.40
9 21 0.60
ACGTcount: A:0.06, C:0.06, G:0.02, T:0.86
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:10278131 original size:19 final size:20
Alignment explanation
Indices: 10278091--10278138 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
10278081 TTCTTTTTTC
**
10278091 TTTTTTT-TTCTTTTTTTGA
1 TTTTTTTATTCTTTTTTAAA
10278110 TTTTTTTATT-TTTTTTAAA
1 TTTTTTTATTCTTTTTTAAA
*
10278129 TTTTATTATT
1 TTTTTTTATT
10278139 ATTTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 23 0.92
20 2 0.08
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTTTTTATTCTTTTTTAAA
Found at i:10279235 original size:10 final size:10
Alignment explanation
Indices: 10279222--10279318 Score: 74
Period size: 10 Copynumber: 9.4 Consensus size: 10
10279212 AATATTTAAC
10279222 TAAAATAAAA
1 TAAAATAAAA
10279232 TAAAATAAAA
1 TAAAATAAAA
*
10279242 TAATAA-ATAA
1 TAA-AATAAAA
10279252 T-AAATAATAA
1 TAAAATAA-AA
*
10279262 -ATAATAAAA
1 TAAAATAAAA
* *
10279271 GAAAATAAAG
1 TAAAATAAAA
*
10279281 GAAAATAATAA
1 TAAAATAA-AA
10279292 TAAAAATAAAA
1 T-AAAATAAAA
10279303 TAAAAATAAAAA
1 T-AAAAT-AAAA
10279315 TAAA
1 TAAA
10279319 GATTGGGTTG
Statistics
Matches: 72, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
8 2 0.03
9 4 0.06
10 39 0.54
11 15 0.21
12 12 0.17
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (10 bp):
TAAAATAAAA
Found at i:10279251 original size:7 final size:7
Alignment explanation
Indices: 10279239--10279317 Score: 66
Period size: 7 Copynumber: 11.9 Consensus size: 7
10279229 AAATAAAATA
10279239 AAATAAT
1 AAATAAT
10279246 AAATAAT
1 AAATAAT
10279253 AAATAAT
1 AAATAAT
10279260 AAATAAT
1 AAATAAT
10279267 AAA-AGA-
1 AAATA-AT
10279273 AAATAA-
1 AAATAAT
10279279 AGGAA-AAT
1 A--AATAAT
10279287 -AATAAT
1 AAATAAT
10279293 AAA-AAT
1 AAATAAT
10279299 AAAATAA-
1 -AAATAAT
10279306 AAATAA-
1 AAATAAT
10279312 AAATAA
1 AAATAA
10279318 AGATTGGGTT
Statistics
Matches: 63, Mismatches: 0, Indels: 19
0.77 0.00 0.23
Matches are distributed among these distances:
5 2 0.03
6 24 0.38
7 33 0.52
8 4 0.06
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (7 bp):
AAATAAT
Found at i:10279251 original size:17 final size:17
Alignment explanation
Indices: 10279229--10279318 Score: 77
Period size: 17 Copynumber: 5.4 Consensus size: 17
10279219 AACTAAAATA
10279229 AAATAAAATAAAATAAT
1 AAATAAAATAAAATAAT
10279246 AAAT--AAT-AAATAAT
1 AAATAAAATAAAATAAT
10279260 AAATAATAA-AAGAA-AAT
1 AAATAA-AATAA-AATAAT
*
10279277 AAAGGAAAATAATAATAA-
1 AAA-TAAAATAA-AATAAT
10279295 AAATAAAATAAAAATAA-
1 AAATAAAAT-AAAATAAT
10279312 AAATAAA
1 AAATAAA
10279319 GATTGGGTTG
Statistics
Matches: 61, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
14 11 0.18
15 3 0.05
17 32 0.52
18 13 0.21
19 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (17 bp):
AAATAAAATAAAATAAT
Found at i:10279276 original size:44 final size:42
Alignment explanation
Indices: 10279222--10279313 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 42
10279212 AATATTTAAC
* *
10279222 TAAAATAAAATAAAATAAAATAATAAATAATAAAT-AATAAATAA
1 TAAAAGAAAATAAAAGAAAATAAT-AATAA-AAATAAATAAA-AA
*
10279266 TAAAAGAAAATAAAGGAAAATAATAATAAAAATAAAATAAAAA
1 TAAAAGAAAATAAAAGAAAATAATAATAAAAAT-AAATAAAAA
10279309 TAAAA
1 TAAAA
10279314 ATAAAGATTG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
42 4 0.09
43 12 0.28
44 27 0.63
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (42 bp):
TAAAAGAAAATAAAAGAAAATAATAATAAAAATAAATAAAAA
Found at i:10290191 original size:21 final size:21
Alignment explanation
Indices: 10290165--10290206 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
10290155 GATTAGAAGA
10290165 ACAACTCATTTGCCGTTGCTT
1 ACAACTCATTTGCCGTTGCTT
10290186 ACAACTCATTTGCCGTTGCTT
1 ACAACTCATTTGCCGTTGCTT
10290207 GCCGCTAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.29, G:0.14, T:0.38
Consensus pattern (21 bp):
ACAACTCATTTGCCGTTGCTT
Found at i:10290690 original size:10 final size:10
Alignment explanation
Indices: 10290675--10290799 Score: 67
Period size: 10 Copynumber: 11.8 Consensus size: 10
10290665 CATGTTCCAC
*
10290675 AAAAAAAACG
1 AAAAAAAAAG
10290685 AAAAAAAAAG
1 AAAAAAAAAG
*
10290695 -ACAAAAAAG
1 AAAAAAAAAG
10290704 CAAAAAAAACA-
1 -AAAAAAAA-AG
10290715 AAAAAAAGAAG
1 AAAAAAA-AAG
**
10290726 AAGAAATAATTCG
1 AA-AAA-AA-AAG
*
10290739 -GAAAAAAAG
1 AAAAAAAAAG
10290748 AAAAAAAAAG
1 AAAAAAAAAG
10290758 AAAAAAGAAAAG
1 -AAAAA-AAAAG
*
10290770 AGAGAAAAAAG
1 A-AAAAAAAAG
* *
10290781 TTAAAAAAAAT
1 -AAAAAAAAAG
10290792 AAAAAAAA
1 AAAAAAAA
10290800 GTTTGATGAT
Statistics
Matches: 88, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
9 9 0.10
10 34 0.39
11 30 0.34
12 12 0.14
13 3 0.03
ACGTcount: A:0.79, C:0.04, G:0.12, T:0.05
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:10290708 original size:19 final size:19
Alignment explanation
Indices: 10290673--10290722 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
10290663 ATCATGTTCC
*
10290673 ACAAAAAAAACGAAAAAAAA
1 ACAAAAAAAA-GCAAAAAAA
* *
10290693 AGACAAAAAAGCAAAAAAA
1 ACAAAAAAAAGCAAAAAAA
10290712 ACAAAAAAAAG
1 ACAAAAAAAAG
10290723 AAGAAGAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.82, C:0.10, G:0.08, T:0.00
Consensus pattern (19 bp):
ACAAAAAAAAGCAAAAAAA
Found at i:10290754 original size:9 final size:9
Alignment explanation
Indices: 10290740--10290800 Score: 52
Period size: 9 Copynumber: 6.9 Consensus size: 9
10290730 AATAATTCGG
10290740 AAAAAAAGA
1 AAAAAAAGA
10290749 AAAAAAA-A
1 AAAAAAAGA
*
10290757 GAAAAAAGA
1 AAAAAAAGA
* *
10290766 AAAGAGAGA
1 AAAAAAAGA
***
10290775 AAAAAGTTA
1 AAAAAAAGA
*
10290784 AAAAAAATA
1 AAAAAAAGA
10290793 AAAAAAAG
1 AAAAAAAG
10290801 TTTGATGATT
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
8 7 0.17
9 34 0.83
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:10290788 original size:44 final size:43
Alignment explanation
Indices: 10290697--10290799 Score: 111
Period size: 44 Copynumber: 2.3 Consensus size: 43
10290687 AAAAAAAGAC
* * *
10290697 AAAAAAGCAAAAAAAACAAAAAAAAGAAGAAGAAATAATTCGGA
1 AAAAAAGAAAAAAAAACAAAAAAAAGAAGAAGAAAAAATTC-AA
*
10290741 AAAAAAGAAAAAAAAAGAAAAAAGAA-AAGAGAGAAAAAAGTT-AA
1 AAAAAAGAAAAAAAAACAAAAAA-AAGAAGA-AGAAAAAA-TTCAA
*
10290785 AAAAAATAAAAAAAA
1 AAAAAAGAAAAAAAA
10290800 GTTTGATGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
44 40 0.78
45 9 0.18
46 2 0.04
ACGTcount: A:0.79, C:0.03, G:0.13, T:0.06
Consensus pattern (43 bp):
AAAAAAGAAAAAAAAACAAAAAAAAGAAGAAGAAAAAATTCAA
Found at i:10291575 original size:35 final size:35
Alignment explanation
Indices: 10291519--10291589 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
10291509 TTTTTTCTTT
10291519 TTATACTGTCACGGCTGGAGTCATGGGCACGACGC
1 TTATACTGTCACGGCTGGAGTCATGGGCACGACGC
* * *
10291554 TTATTCTGTTACGGCTGGAGTCGTGGGCACGACGC
1 TTATACTGTCACGGCTGGAGTCATGGGCACGACGC
10291589 T
1 T
10291590 GGGCGCGACG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.17, C:0.24, G:0.32, T:0.27
Consensus pattern (35 bp):
TTATACTGTCACGGCTGGAGTCATGGGCACGACGC
Found at i:10294043 original size:10 final size:10
Alignment explanation
Indices: 10294028--10294078 Score: 75
Period size: 10 Copynumber: 5.0 Consensus size: 10
10294018 TTAAACTCTA
10294028 AAAGATAAAT
1 AAAGATAAAT
10294038 AAAGATAAAT
1 AAAGATAAAT
*
10294048 AAAACATAAAT
1 -AAAGATAAAT
*
10294059 AAGGATAAAT
1 AAAGATAAAT
10294069 AAAGATAAAT
1 AAAGATAAAT
10294079 GCTAAAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
10 27 0.75
11 9 0.25
ACGTcount: A:0.69, C:0.02, G:0.10, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:10294050 original size:21 final size:21
Alignment explanation
Indices: 10294026--10294078 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
10294016 AATTAAACTC
10294026 TAAAAGATAAATAAAGATAAA
1 TAAAAGATAAATAAAGATAAA
* *
10294047 TAAAACATAAATAAGGATAAA
1 TAAAAGATAAATAAAGATAAA
10294068 T-AAAGATAAAT
1 TAAAAGATAAAT
10294079 GCTAAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 9 0.31
21 20 0.69
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.21
Consensus pattern (21 bp):
TAAAAGATAAATAAAGATAAA
Found at i:10301694 original size:212 final size:213
Alignment explanation
Indices: 10301388--10302376 Score: 1181
Period size: 212 Copynumber: 4.7 Consensus size: 213
10301378 ATCTATCTAG
* *
10301388 TTTTCCAGAAATCTTAAAGACCATGGAGAGGTTGATATATCTTGATTTAAGCGGAACGGCTTTGA
1 TTTTCCAGAAATCTTAGAGACCATGGAGAGGTTGACATATCTTGATTTAAGCGGAACGGCTTTGA
* ** * * *
10301453 AGGAATTACCATCCTCAATTGATAATCTTATTGGTCTTGTGAACTTGAGTTTGGACAACTGTAAA
66 AGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGAAAACTTGAGATTGAACAACTGTGAA
* * * *
10301518 AATCTTGTTTGCCTTCCTAACAGCTTTTATAAATTGAAATCTCTTAAGATATTCACAATTCAAGG
131 AACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAACATATTCACACTTCAAGG
10301583 TTGCTCGAGATTGGAGAT
196 TTGCTCGAGATTGGAGAT
* **
10301601 ATTTCCAGAAATCTTAGAGACCATGGAGA-GTTGACATATCTTGATTTAAGTAGAACTGG-TTTG
1 TTTTCCAGAAATCTTAGAGACCATGGAGAGGTTGACATATCTTGATTTAAGCGGAAC-GGCTTTG
* *
10301664 AAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTT-ACACAA-TTGAGACTGAGCAACTGT
65 AAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGA-A-AACTTGAGATTGAACAACTGT
* * ** * *
10301727 GAAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCCCTTCAGTTTTTCA-ATCTTG
128 GAAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAACATATTCACA-CTTC
* **
10301791 AAGGTTGTTTAAGATTGGAGAT
192 AAGGTTGCTCGAGATTGGAGAT
* * * * **** * *
10301813 TTTTCCAAAAACCTTGGACACCATGGAGAGGTTGGTGCATCTTGATTTAAGCGGAATGTCTTTGA
1 TTTTCCAGAAATCTTAGAGACCATGGAGAGGTTGACATATCTTGATTTAAGCGGAACGGCTTTGA
* * * * * *
10301878 AGGAATTACCATTCTCAAATGATAATCTTATTGGTCTT-ATAAATTTAAGATTGAACAAGTGTGA
66 AGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGA-AAACTTGAGATTGAACAACTGTGA
* * * * * * * * *
10301942 AAACCTTGTTTGTCTTCCTGACAACTTTTATAAATTGAAATATCTTATCTTTTTCTCTCTTCAAA
130 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAACATATTCACACTTCAAG
*
10302007 ATTGCTCGAGATTGGAGAT
195 GTTGCTCGAGATTGGAGAT
* * * * ** *
10302026 TTTTCCAGAAGTCATGGATACCATGGA-ATGGTTGA-GGAGCTTGATTTAAGCGGAACGGCTTTG
1 TTTTCCAGAAATCTTAGAGACCATGGAGA-GGTTGACATATCTTGATTTAAGCGGAACGGCTTTG
** *
10302089 AAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGAGGATTTGAGATTGAACAACTGTGA
65 AAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGAAAACTTGAGATTGAACAACTGTGA
* * *
10302154 AAACCTTGTTTGCCTTCCTGACAGCCTTTATAAATTGAAATCTCTTAACAGATTCACACTTGAAG
130 AAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAACATATTCACACTTCAAG
10302219 GTTGCTCGAGATTGGAGAT
195 GTTGCTCGAGATTGGAGAT
* * * *
10302238 TTTTCCAGAAATCTTAGAAACCATGGA-ATGGTTGAGC-TTTCTTAATTTAAGCAGAACGGCTTT
1 TTTTCCAGAAATCTTAGAGACCATGGAGA-GGTTGA-CATATCTTGATTTAAGCGGAACGGCTTT
* *
10302301 GAAGGAATTACCATTCTCAATTGACAATCTTATTGGTCTTCAAAACTTGAGATTGAACAACTGTG
64 GAAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGAAAACTTGAGATTGAACAACTGTG
*
10302366 AGAA-CTTGTTT
129 AAAACCTTGTTT
10302377 ACTGCCATTG
Statistics
Matches: 659, Mismatches: 105, Indels: 25
0.84 0.13 0.03
Matches are distributed among these distances:
211 1 0.00
212 369 0.56
213 289 0.44
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (213 bp):
TTTTCCAGAAATCTTAGAGACCATGGAGAGGTTGACATATCTTGATTTAAGCGGAACGGCTTTGA
AGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGAAAACTTGAGATTGAACAACTGTGAA
AACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCTCTTAACATATTCACACTTCAAGG
TTGCTCGAGATTGGAGAT
Found at i:10302116 original size:425 final size:423
Alignment explanation
Indices: 10301388--10302376 Score: 1233
Period size: 425 Copynumber: 2.3 Consensus size: 423
10301378 ATCTATCTAG
* * * **
10301388 TTTTCCAGAAATCTTA-AAGACCATGGAGAGGTTGATATATCTTGATTTAAGCGGAACGGCTTTG
1 TTTTCCAAAAACCTTAGAA-ACCATGGAGAGGTTGGTGCATCTTGATTTAAGCGGAACGGCTTTG
* * * * * *
10301452 AAGGAATTACCATCCTCAATTGATAATCTTATTGGTCTTGTGAACTTGAGTTTGGACAACTGTAA
65 AAGGAATTACCATTCTCAATTGATAATCTTATTGGTCTTATAAACTTGAGATTGAACAACTGTGA
* * * *
10301517 AAATCTTGTTTGCCTTCCTAACAGCTTTTATAAATTGAAATCTCTTAAGATATTCACAATTCAAG
130 AAA-CTTGTTTGCCTTCCTAACAACTTTTATAAATTGAAATATCTTAACATATTCACAATTCAAA
* * * *
10301582 GTTGCTCGAGATTGGAGATATTTCCAGAAATCTTAGAGACCATGGAGAGTTGACATATCTTGATT
194 ATTGCTCGAGATTGGAGATATTTCCAGAAATCATAGAGACCATGGAGAGTTGACAGAGCTTGATT
*
10301647 TAAGTAGAACTGGTTTGAAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTT-ACACAATT
259 TAAGCAGAACTGGTTTGAAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGA-ACAATT
* *
10301711 GAGACTGAGCAACTGTGAAAACCTTGTTTGCCTTCCTGACAGCTTTTATAAATTGAAATCCCTT-
323 GAGACTGAACAACTGTGAAAACCTTGTTTGCCTTCCTGACAGCCTTTATAAATTGAAATCCCTTA
* * *
10301775 CAGTTTTTCA-ATCTTGAAGGTTGTTTAAGATTGGAGAT
388 CAG--ATTCACA-CTTGAAGGTTGCTCAAGATTGGAGAT
* * * *
10301813 TTTTCCAAAAACCTTGGACACCATGGAGAGGTTGGTGCATCTTGATTTAAGCGGAATGTCTTTGA
1 TTTTCCAAAAACCTTAGAAACCATGGAGAGGTTGGTGCATCTTGATTTAAGCGGAACGGCTTTGA
* * * *
10301878 AGGAATTACCATTCTCAAATGATAATCTTATTGGTCTTATAAATTTAAGATTGAACAAGTGTGAA
66 AGGAATTACCATTCTCAATTGATAATCTTATTGGTCTTATAAACTTGAGATTGAACAACTGTGAA
* * * * * * **
10301943 AACCTTGTTTGTCTTCCTGACAACTTTTATAAATTGAAATATCTTATCTTTTTCTCTCTTCAAAA
131 AA-CTTGTTTGCCTTCCTAACAACTTTTATAAATTGAAATATCTTAACATATTCACAATTCAAAA
* * * * *
10302008 TTGCTCGAGATTGGAGATTTTTCCAGAAGTCATGGATACCATGGA-ATGGTTGA-GGAGCTTGAT
195 TTGCTCGAGATTGGAGATATTTCCAGAAATCATAGAGACCATGGAGA--GTTGACAGAGCTTGAT
* ** *
10302071 TTAAGCGGAAC-GGCTTTGAAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGAGGATT
258 TTAAGCAGAACTGG-TTTGAAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGAACAAT
* *
10302135 TGAGATTGAACAACTGTGAAAACCTTGTTTGCCTTCCTGACAGCCTTTATAAATTGAAATCTCTT
322 TGAGACTGAACAACTGTGAAAACCTTGTTTGCCTTCCTGACAGCCTTTATAAATTGAAATCCCTT
*
10302200 AACAGATTCACACTTGAAGGTTGCTCGAGATTGGAGAT
387 -ACAGATTCACACTTGAAGGTTGCTCAAGATTGGAGAT
* * * * * *
10302238 TTTTCCAGAAATCTTAGAAACCATGGA-ATGGTT-GAGCTTTCTTAATTTAAGCAGAACGGCTTT
1 TTTTCCAAAAACCTTAGAAACCATGGAGA-GGTTGGTGC-ATCTTGATTTAAGCGGAACGGCTTT
*
10302301 GAAGGAATTACCATTCTCAATTGACAATCTTATTGGTCTTCA-AAACTTGAGATTGAACAACTGT
64 GAAGGAATTACCATTCTCAATTGATAATCTTATTGGTCTT-ATAAACTTGAGATTGAACAACTGT
*
10302365 GAGAACTTGTTT
128 GAAAACTTGTTT
10302377 ACTGCCATTG
Statistics
Matches: 483, Mismatches: 70, Indels: 23
0.84 0.12 0.04
Matches are distributed among these distances:
424 14 0.03
425 457 0.95
426 9 0.02
427 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (423 bp):
TTTTCCAAAAACCTTAGAAACCATGGAGAGGTTGGTGCATCTTGATTTAAGCGGAACGGCTTTGA
AGGAATTACCATTCTCAATTGATAATCTTATTGGTCTTATAAACTTGAGATTGAACAACTGTGAA
AACTTGTTTGCCTTCCTAACAACTTTTATAAATTGAAATATCTTAACATATTCACAATTCAAAAT
TGCTCGAGATTGGAGATATTTCCAGAAATCATAGAGACCATGGAGAGTTGACAGAGCTTGATTTA
AGCAGAACTGGTTTGAAGGAATTACCATCCTCAATTGACAATCTTATTGGTCTTGAACAATTGAG
ACTGAACAACTGTGAAAACCTTGTTTGCCTTCCTGACAGCCTTTATAAATTGAAATCCCTTACAG
ATTCACACTTGAAGGTTGCTCAAGATTGGAGAT
Found at i:10303566 original size:13 final size:13
Alignment explanation
Indices: 10303547--10303577 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
10303537 ATGCTTCAAC
10303547 CTCATTTAGTTAT
1 CTCATTTAGTTAT
*
10303560 TTCATTTAGTTAT
1 CTCATTTAGTTAT
10303573 CTCAT
1 CTCAT
10303578 ATGACCGTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.16, G:0.06, T:0.55
Consensus pattern (13 bp):
CTCATTTAGTTAT
Found at i:10306681 original size:3 final size:3
Alignment explanation
Indices: 10306670--10306947 Score: 66
Period size: 3 Copynumber: 94.0 Consensus size: 3
10306660 AAAAAAATGA
* * * * ** *
10306670 AAT AA- AAT AAT AAT AGT AAT GAT ACT ACT ACC AAT AAT AAT AAT AGTT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * * * * * * *
10306718 AA- AA- AAT AAT AAT ACT AGT AAT AGT AAT TAC AAC AAT GAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
10306764 AAT AA- AAT AA- GAT AAT AAT AAT AAAT ACA- AGT -AT ATT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT A-AT AAT AAT AAT AAT AAT
* * **
10306806 AAGT AA- AAA AAT AA- AAT AAA AAT AAT AAT AGC AAT AAT AAGT -AT
1 AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
* * * * **
10306850 ATT AAT AAT AGT AAT AAT AAC AAC AAT ACG AAT AAT -AT ATAT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT
* *
10306896 ATAT AAAT AAT AAT AGTT AGA- AAT AA- AA- AAT AAT AGA- AGT AAT
1 A-AT -AAT AAT AAT A-AT A-AT AAT AAT AAT AAT AAT A-AT AAT AAT
10306939 AAT AAT AAT
1 AAT AAT AAT
10306948 GGTATTAGAA
Statistics
Matches: 202, Mismatches: 50, Indels: 46
0.68 0.17 0.15
Matches are distributed among these distances:
2 24 0.12
3 152 0.75
4 25 0.12
5 1 0.00
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:10306779 original size:19 final size:20
Alignment explanation
Indices: 10306736--10306793 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
10306726 ATAATACTAG
*
10306736 TAATAGTAATTACAACAATGA
1 TAATAGTAA-TAAAACAATGA
*
10306757 TAATAGTAATAAAATAA-GA
1 TAATAGTAATAAAACAATGA
*
10306776 TAATAATAATAAATACAA
1 TAATAGTAATAAA-ACAA
10306794 GTATATTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 14 0.44
20 9 0.28
21 9 0.28
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (20 bp):
TAATAGTAATAAAACAATGA
Found at i:10306818 original size:14 final size:14
Alignment explanation
Indices: 10306800--10306833 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
10306790 ACAAGTATAT
10306800 TAATAAAAGTAAAAA
1 TAATAAAA-TAAAAA
10306815 -AATAAAATAAAAA
1 TAATAAAATAAAAA
10306828 TAATAA
1 TAATAA
10306834 TAGCAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
TAATAAAATAAAAA
Found at i:10306831 original size:52 final size:51
Alignment explanation
Indices: 10306764--10306863 Score: 130
Period size: 52 Copynumber: 1.9 Consensus size: 51
10306754 TGATAATAGT
* *
10306764 AATAAAATAAGATAATAATAATAAAT-ACAAGTATATTAATAAAAGTAAAAA
1 AATAAAATAAAATAATAAT-AGAAATAACAAGTATATTAATAAAAGTAAAAA
* * *
10306815 AATAAAATAAAAATAATAATAGCAATAATAAGTATATTAATAATAGTAA
1 AATAAAAT-AAAATAATAATAGAAATAACAAGTATATTAATAAAAGTAA
10306864 TAATAACAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
51 12 0.29
52 30 0.71
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (51 bp):
AATAAAATAAAATAATAATAGAAATAACAAGTATATTAATAAAAGTAAAAA
Found at i:10310047 original size:20 final size:20
Alignment explanation
Indices: 10310012--10310049 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10310002 AGCGAACAAA
10310012 ATATAAAAATATAAATATTT
1 ATATAAAAATATAAATATTT
10310032 ATATATAAAATA-AAATAT
1 ATATA-AAAATATAAATAT
10310050 AAATTGAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATATAAAAATATAAATATTT
Found at i:10310535 original size:20 final size:20
Alignment explanation
Indices: 10310492--10310540 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
10310482 AGGGGCAATT
* * *
10310492 AAATCAATTTGGTTAAAATC
1 AAATCAAATTGATTAAAATA
*
10310512 AAATCAAATTGATTAGAATA
1 AAATCAAATTGATTAAAATA
*
10310532 AAATAAAAT
1 AAATCAAAT
10310541 CAGGATATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31
Consensus pattern (20 bp):
AAATCAAATTGATTAAAATA
Found at i:10313971 original size:86 final size:86
Alignment explanation
Indices: 10313734--10314073 Score: 386
Period size: 86 Copynumber: 4.0 Consensus size: 86
10313724 TAAACAGCGG
* * *
10313734 GAATAAATCCCGAAACATATTTAATTTAA-TTTAATTCTCATTTGGAAATGAAATAAAATAA---
1 GAATAAATCCCGAAACAGATTTTATTTAACTTTAATTCTCATTTGGAAATAAAATAAAA-AATGG
* * *
10313795 AATAAAATCTTATTAAATGACGA
65 AATAAAATC-TGTTGAACGACGA
** * * * *
10313818 GAATAAATCTTGAAACAGATTTTATTTAATTTTAATTTCTCGTTTTGATAACAAAATAAAAAATG
1 GAATAAATCCCGAAACAGATTTTATTTAACTTTAA-TTCTCATTTGGA-AATAAAATAAAAAATG
* *
10313883 GAATAAAATCTGTTGAACGTCAA
64 GAATAAAATCTGTTGAACGACGA
* * * * *
10313906 GAATAAATCCCAAAATAGATTTTATTTAA-TTCAATACTCGTTTTGGAAATAAAATAAAAAATGG
1 GAATAAATCCCGAAACAGATTTTATTTAACTTTAATTCTC-ATTTGGAAATAAAATAAAAAATGG
*
10313970 AATAAAATCCT-TTGAACGACGG
65 AATAAAAT-CTGTTGAACGACGA
* *
10313992 GAATAAATCCCGAAAGAGATTTTTTTTAACTTTAATTCTCATTTGGAAATAAAATAAAAAATGGA
1 GAATAAATCCCGAAACAGATTTTATTTAACTTTAATTCTCATTTGGAAATAAAATAAAAAATGGA
10314057 ATAAAATCTGTTGAACG
66 ATAAAATCTGTTGAACG
10314074 GCGGAAATAA
Statistics
Matches: 215, Mismatches: 31, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
84 25 0.12
85 7 0.03
86 112 0.52
87 29 0.13
88 33 0.15
89 9 0.04
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.33
Consensus pattern (86 bp):
GAATAAATCCCGAAACAGATTTTATTTAACTTTAATTCTCATTTGGAAATAAAATAAAAAATGGA
ATAAAATCTGTTGAACGACGA
Found at i:10314050 original size:172 final size:172
Alignment explanation
Indices: 10313734--10314073 Score: 436
Period size: 172 Copynumber: 2.0 Consensus size: 172
10313724 TAAACAGCGG
* * * * *
10313734 GAATAAATCCCGAAACATATTTAATTTAATTTAATTCTCATTTGGAAATGAAATAAAATAAAATA
1 GAATAAATCCCAAAACAGATTTAATTTAATTCAATACTCATTTGGAAATAAAATAAAATAAAATA
* * ** * * *
10313799 AAATCTTATTAAATGACGAGAATAAATCTTGAAACAGATTTTATTTAATTTTAATTTCTCGTTTT
66 AAATCCTATTAAACGACGAGAATAAATCCCGAAACAGATTTTATTTAACTTTAATTTCTCATTTG
10313864 GATAACAAAATAAAAAATGGAATAAAATCTGTTGAACGTCAA
131 GATAACAAAATAAAAAATGGAATAAAATCTGTTGAACGTCAA
* * *
10313906 GAATAAATCCCAAAATAGATTTTATTTAATTCAATACTCGTTTTGGAAATAAAATAAAA-AATGG
1 GAATAAATCCCAAAACAGATTTAATTTAATTCAATACTC-ATTTGGAAATAAAATAAAATAA---
* * * *
10313970 AATAAAATCCT-TTGAACGACGGGAATAAATCCCGAAAGAGATTTTTTTTAACTTTAA-TTCTCA
62 AATAAAATCCTATTAAACGACGAGAATAAATCCCGAAACAGATTTTATTTAACTTTAATTTCTCA
*
10314033 TTTGGA-AATAAAATAAAAAATGGAATAAAATCTGTTGAACG
127 TTTGGATAACAAAATAAAAAATGGAATAAAATCTGTTGAACG
10314074 GCGGAAATAA
Statistics
Matches: 144, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
172 69 0.48
173 27 0.19
174 38 0.26
175 10 0.07
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.33
Consensus pattern (172 bp):
GAATAAATCCCAAAACAGATTTAATTTAATTCAATACTCATTTGGAAATAAAATAAAATAAAATA
AAATCCTATTAAACGACGAGAATAAATCCCGAAACAGATTTTATTTAACTTTAATTTCTCATTTG
GATAACAAAATAAAAAATGGAATAAAATCTGTTGAACGTCAA
Found at i:10314291 original size:22 final size:23
Alignment explanation
Indices: 10314256--10314299 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
10314246 TTAGTGAACA
10314256 AAATATATAAATAT-AAATAAAT
1 AAATATATAAATATAAAATAAAT
* *
10314278 AAATATTTATATATAAAATAAA
1 AAATATATAAATATAAAATAAA
10314300 ATATAAATCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATATAAATATAAAATAAAT
Found at i:10314293 original size:14 final size:14
Alignment explanation
Indices: 10314256--10314307 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
10314246 TTAGTGAACA
10314256 AAATATATAAATAT
1 AAATATATAAATAT
*
10314270 AAATAAATAAATAT
1 AAATATATAAATAT
**
10314284 TTATATATAAA-AT
1 AAATATATAAATAT
10314297 AAA-ATATAAAT
1 AAATATATAAAT
10314308 CGAATAATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 21 0.68
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATATATAAATAT
Found at i:10315079 original size:23 final size:23
Alignment explanation
Indices: 10315053--10315104 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
10315043 TGATTTTTAA
* *
10315053 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAATGATAAT
10315076 ATTTAGAATTATTTAATGATAAT
1 ATTTAGAATTATTTAATGATAAT
10315099 ATTTAG
1 ATTTAG
10315105 TGATAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (23 bp):
ATTTAGAATTATTTAATGATAAT
Found at i:10315080 original size:13 final size:13
Alignment explanation
Indices: 10315062--10315117 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
10315052 AATTTTGAAT
10315062 TATTTAGTGATAA
1 TATTTAGTGATAA
*
10315075 TATTTA--GA-AT
1 TATTTAGTGATAA
*
10315085 TATTTAATGATAA
1 TATTTAGTGATAA
10315098 TATTTAGTGATAA
1 TATTTAGTGATAA
10315111 TATTTAG
1 TATTTAG
10315118 GAAAAATCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 7 0.19
11 2 0.05
12 2 0.05
13 26 0.70
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:10316417 original size:26 final size:26
Alignment explanation
Indices: 10316380--10316516 Score: 211
Period size: 26 Copynumber: 5.3 Consensus size: 26
10316370 TGATACAAAT
*
10316380 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
10316406 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
10316432 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
10316458 TGATAATGGATTAGGTAAATATTCAA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
10316484 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10316510 TGATAAT
1 TGATAAT
10316517 CATGATAATG
Statistics
Matches: 99, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 99 1.00
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:10316437 original size:52 final size:51
Alignment explanation
Indices: 10316380--10316576 Score: 225
Period size: 52 Copynumber: 3.6 Consensus size: 51
10316370 TGATACAAAT
10316380 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAAT-TTTCA
* *
10316432 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCAA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATTTTC-A
*
10316484 TGATAAT-GAGTTAGGTAAATGTTCCATGATAATCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATAG-GTTAGGTAAATGTTCCATGAT-A--ATG-----GG-TTAGGTAAAT-TTTCA
* *
10316545 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAA
10316577 GAATATCATG
Statistics
Matches: 126, Mismatches: 6, Indels: 20
0.83 0.04 0.13
Matches are distributed among these distances:
51 4 0.03
52 74 0.59
53 1 0.01
55 3 0.02
58 1 0.01
60 2 0.02
61 38 0.30
62 3 0.02
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (51 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATTTTCA
Found at i:10316531 original size:61 final size:61
Alignment explanation
Indices: 10316456--10316576 Score: 215
Period size: 61 Copynumber: 2.0 Consensus size: 61
10316446 GTAAATGTTC
10316456 CATGATAATGGATTAGGTAAATATTCAATGATAATGAGTTAGGTAAATGTTCCATGATAAT
1 CATGATAATGGATTAGGTAAATATTCAATGATAATGAGTTAGGTAAATGTTCCATGATAAT
* * *
10316517 CATGATAATGGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTTCATGATAA
1 CATGATAATGGATTAGGTAAATATTCAATGATAATGAGTTAGGTAAATGTTCCATGATAA
10316577 GAATATCATG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.35
Consensus pattern (61 bp):
CATGATAATGGATTAGGTAAATATTCAATGATAATGAGTTAGGTAAATGTTCCATGATAAT
Done.