Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 17 of 172
Found at i:4396661 original size:134 final size:134
Alignment explanation
Indices: 4396465--4396833 Score: 639
Period size: 134 Copynumber: 2.7 Consensus size: 134
4396455 AATAGATTGA
*
4396465 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
1 AGATCAAAGATGGCAGATTTTACCTCC-CG-GACTACAGTGGAGTACATTGAAGCCGATAATTCT
4396530 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
64 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
4396595 CGAAGC
129 CGAAGC
* *
4396601 AGATCAAAGATGGCAGATTTTACCTCCCGGACCACAGTGGAGTACATTGAAGCTGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCGGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
4396666 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
4396731 AAGC
131 AAGC
* * * *
4396735 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAATGGAGTACATTAAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCGGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
* *
4396800 CTCTCTGCATTTGGCAGTGGAATAGATTGAAGAT
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGAT
4396834 CAAAGATGGC
Statistics
Matches: 222, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
134 194 0.87
135 1 0.00
136 27 0.12
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (134 bp):
AGATCAAAGATGGCAGATTTTACCTCCCGGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
AAGC
Found at i:4396911 original size:228 final size:229
Alignment explanation
Indices: 4396601--4397030 Score: 727
Period size: 228 Copynumber: 1.9 Consensus size: 229
4396591 GCAGCGAAGC
* *
4396601 AGATCAAAGATGGCAGATTTTACCTCCCGGACCACAGTGGAGTACATTGAAGCTGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCGGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
4396666 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCA
*
4396731 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAATGGAGTACATTAAAGCCGATAACT
131 AAGCAGATCAAAGATGGCAGATTTTACCTCCATGACTACAATGGAGTACATTAAAGCCGATAACT
4396796 CTATCTCTCTGCATTTGGCAGTGGAATAGATTGA
196 CTATCTCTCTGCATTTGGCAGTGGAATAGATTGA
* *
4396830 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACA-TGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCGGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
4396894 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGTAGATCTTGCCTTCCTGTATTTGGCAGCA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCA
* * * * * **
4396959 AAGCAGATCGAAGATGGCAGATTTTACCTCCATGATTACAGTGGAGTACATTGAAGCTGATAGTT
131 AAGCAGATCAAAGATGGCAGATTTTACCTCCATGACTACAATGGAGTACATTAAAGCCGATAACT
4397024 CTATCTC
196 CTATCTC
4397031 CCGGGGTAAG
Statistics
Matches: 187, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
228 153 0.82
229 34 0.18
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (229 bp):
AGATCAAAGATGGCAGATTTTACCTCCCGGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCA
AAGCAGATCAAAGATGGCAGATTTTACCTCCATGACTACAATGGAGTACATTAAAGCCGATAACT
CTATCTCTCTGCATTTGGCAGTGGAATAGATTGA
Found at i:4396929 original size:362 final size:361
Alignment explanation
Indices: 4396106--4397032 Score: 1617
Period size: 362 Copynumber: 2.6 Consensus size: 361
4396096 GCAGCGAAGC
* * *
4396106 AGATCGAAGATGGCAGATTTTACGTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
4396171 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTT-CTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
* * *
4396235 AAGCAGATCGAAGATGGCA-ATTTTACCTCCCTGACCACATTGGAGTACATTGAAGCCGATAACT
131 AAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCTGATAATT
4396299 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTCCTGTATTTGGCA
196 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTCCTGTATTTGGCA
* *
4396364 GCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTAAGTGGAGTACATTGAAGCCGATAA
261 GCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTAAATGGAGTACATTAAAGCCGATAA
*
4396429 CTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
326 CTCTATCTCCCTGCATTTGGCAGTGGAATAGATTGA
* *
4396465 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAATTCT
1 AGATCAAAGATGGCAGATTTTACCTCC--CTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
4396530 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
64 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAG
* *
4396595 CGAAGCAGATCAAAGATGGCAGATTTTACCTCCCGGACCACAGTGGAGTACATTGAAGCTGATAA
129 CGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCTGATAA
4396660 TTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTG
194 TTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCC-TCCTGTATTTG
4396725 GCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAATGGAGTACATTAAAGCCG
258 GCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTA-AATGGAGTACATTAAAGCCG
*
4396790 ATAACTCTATCTCTCTGCATTTGGCAGTGGAATAGATTGA
322 ATAACTCTATCTCCCTGCATTTGGCAGTGGAATAGATTGA
4396830 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACA-TGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
* *
4396894 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGTAGATCTTGCCTTCCTGTATTTGGCAGCA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
* ** *
4396959 AAGCAGATCGAAGATGGCAGATTTTACCTCCATGATTACAGTGGAGTACATTGAAGCTGATAGTT
131 AAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCTGATAATT
4397024 CTATCTCCC
196 CTATCTCCC
4397033 GGGGTAAGAA
Statistics
Matches: 538, Mismatches: 24, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
359 25 0.05
361 84 0.16
362 191 0.36
363 100 0.19
364 55 0.10
365 83 0.15
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (361 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
AAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCTGATAATT
CTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTCCTGTATTTGGCA
GCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTAAATGGAGTACATTAAAGCCGATAA
CTCTATCTCCCTGCATTTGGCAGTGGAATAGATTGA
Found at i:4397275 original size:132 final size:132
Alignment explanation
Indices: 4397040--4397705 Score: 1032
Period size: 132 Copynumber: 5.1 Consensus size: 132
4397030 CCCGGGGTAA
* * * *
4397040 GAAGTAGATCAAAGATAGCTGATCCTATCTTCCTATATTG-TAGGAAGT-GATCGACGACGCAGA
1 GAAGTAGATCAAAGATAGCAGGTCCTATCTTCCTATAATGATAGGAAGTGGATCGACGATGCAGA
4397103 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
4397168 GT
131 GT
* * * * * * *
4397170 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCTTATATTTATAGGAAGTGGATCCAAGATACAGA
1 GAAGTAGATCAAAGATAGCAGGTCCTATCTTCCTATAATGATAGGAAGTGGATCGACGATGCAGA
* *
4397235 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
4397300 GT
131 GT
* * * * * *
4397302 GAAGTAGATCGAAGATAGCAGTTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
1 GAAGTAGATCAAAGATAGCAGGTCCTATCTTCCTATAATGATAGGAAGTGGATCGACGATGCAGA
4397367 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
4397432 GT
131 GT
* * *
4397434 GAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGA
1 GAAGTAGATCAAAGATAGCAGGTCCTATCTTCCTATAATGATAGGAAGTGGATCGACGATGCAGA
4397499 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
4397564 GT
131 GT
* *
4397566 GAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGATGCAGA
1 GAAGTAGATCAAAGATAGCAGGTCCTATCTTCCTATAATGATAGGAAGTGGATCGACGATGCAGA
* ** * * *
4397631 TCTTGTCTTCCTATATTGGTGGTAAAATAGATCGAAGAAAGTAGATCTTGTC-TCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
*
4397695 AT
131 GT
4397697 GAAGTAGAT
1 GAAGTAGAT
4397706 TGAAGATTAC
Statistics
Matches: 501, Mismatches: 33, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
130 35 0.07
131 30 0.06
132 436 0.87
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (132 bp):
GAAGTAGATCAAAGATAGCAGGTCCTATCTTCCTATAATGATAGGAAGTGGATCGACGATGCAGA
TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
GT
Found at i:4398493 original size:16 final size:17
Alignment explanation
Indices: 4398464--4398502 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
4398454 TCTATTTAAC
* *
4398464 ATAAAAATATACAACAA
1 ATAAAAATAAACAAAAA
4398481 ATAAAAA-AAACAAAAA
1 ATAAAAATAAACAAAAA
4398497 ATAAAA
1 ATAAAA
4398503 TTTTTACCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (17 bp):
ATAAAAATAAACAAAAA
Found at i:4398617 original size:22 final size:22
Alignment explanation
Indices: 4398592--4398638 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
4398582 TGGCCGGATT
4398592 TTCCTTC-CCCCTCCCTTCTCTC
1 TTCCTTCTCCCCTCCC-TCTCTC
* *
4398614 TTCCTTCTCTCTTCCCTCTCTC
1 TTCCTTCTCCCCTCCCTCTCTC
4398636 TTC
1 TTC
4398639 TTTGTTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (22 bp):
TTCCTTCTCCCCTCCCTCTCTC
Found at i:4398619 original size:11 final size:11
Alignment explanation
Indices: 4398605--4398638 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
4398595 CTTCCCCCTC
4398605 CCTTCTCTCTT
1 CCTTCTCTCTT
4398616 CCTTCTCTCTT
1 CCTTCTCTCTT
*
4398627 CCCTCTCTCTT
1 CCTTCTCTCTT
4398638 C
1 C
4398639 TTTGTTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (11 bp):
CCTTCTCTCTT
Found at i:4399122 original size:6 final size:6
Alignment explanation
Indices: 4399122--4399155 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
4399112 TTATTAGTAT
4399122 TATTAG TATTAG TATTAG TATTATG TATTAG TAT
1 TATTAG TATTAG TATTAG TATTA-G TATTAG TAT
4399156 ATATTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (6 bp):
TATTAG
Found at i:4399282 original size:3 final size:3
Alignment explanation
Indices: 4399269--4399304 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
4399259 TATTCCAATG
* *
4399269 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4399305 GTTTATGCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4399528 original size:18 final size:18
Alignment explanation
Indices: 4399505--4399630 Score: 58
Period size: 20 Copynumber: 6.2 Consensus size: 18
4399495 TATGTCGTAT
4399505 TATTATATTTTAATATTA
1 TATTATATTTTAATATTA
*
4399523 TATTATATAATT-ATATATA
1 TATTATAT-TTTAATAT-TA
* *
4399542 CATATATCTTTATATATATTA
1 TAT-TATATTT-TA-ATATTA
4399563 TCATTGTATATATTTTAATATTA
1 T-A---T-TATATTTTAATATTA
4399586 TTAGTTATA-TTTACACTATTA
1 -TA-TTATATTTTA-A-TATTA
*
4399607 TATATATTTTTCTAATATTA
1 TAT-TATATTT-TAATATTA
4399627 TATT
1 TATT
4399631 GTATATACTG
Statistics
Matches: 85, Mismatches: 7, Indels: 31
0.69 0.06 0.25
Matches are distributed among these distances:
18 12 0.14
19 13 0.15
20 23 0.27
21 12 0.14
22 7 0.08
23 7 0.08
24 3 0.04
25 8 0.09
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (18 bp):
TATTATATTTTAATATTA
Found at i:4399586 original size:63 final size:63
Alignment explanation
Indices: 4399508--4399637 Score: 160
Period size: 63 Copynumber: 2.1 Consensus size: 63
4399498 GTCGTATTAT
*
4399508 TATATTTTAATATTA-TA-TTATATAATTATA-TA-TACATATATCTTTATATATATTATCATTG
1 TATATTTTAATATTATTAGTTATAT--TTACACTATTACATATATCTTTATA-ATATTAT-ATTG
4399569 TA
62 TA
* * *
4399571 TATATTTTAATATTATTAGTTATATTTACACTATTATATATATTTTTCTAATATTATATTGTA
1 TATATTTTAATATTATTAGTTATATTTACACTATTACATATATCTTTATAATATTATATTGTA
4399634 TATA
1 TATA
4399638 CTGTCGTTTA
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
63 29 0.49
64 11 0.19
65 19 0.32
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (63 bp):
TATATTTTAATATTATTAGTTATATTTACACTATTACATATATCTTTATAATATTATATTGTA
Found at i:4400069 original size:38 final size:37
Alignment explanation
Indices: 4399985--4400079 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
4399975 TATACGTACT
*
4399985 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTGCATATTT-ATAATTC
* *
4400023 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TGCATATTTATA-ATTC
*
4400059 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
4400080 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTGCATATTTATAATTC
Found at i:4405981 original size:35 final size:35
Alignment explanation
Indices: 4405935--4406004 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
4405925 ACTTATGGTA
4405935 GAAAGAAATGGTCAAATAGTATATGAGATGTATGT
1 GAAAGAAATGGTCAAATAGTATATGAGATGTATGT
*
4405970 GAAAGAAATGGTCAAATAGTATGTGAGATGTATGT
1 GAAAGAAATGGTCAAATAGTATATGAGATGTATGT
4406005 TTAAGGTTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.41, C:0.03, G:0.27, T:0.29
Consensus pattern (35 bp):
GAAAGAAATGGTCAAATAGTATATGAGATGTATGT
Found at i:4409773 original size:5 final size:5
Alignment explanation
Indices: 4409763--4409790 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
4409753 CACTAACTCC
4409763 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
4409791 GCATCAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:4414683 original size:23 final size:23
Alignment explanation
Indices: 4414653--4414782 Score: 147
Period size: 23 Copynumber: 5.7 Consensus size: 23
4414643 TCACCCACTG
*
4414653 AACACAACCAAACATAGCCTCTA
1 AACACAACCAAATATAGCCTCTA
* *
4414676 AACACAACCAAATATACCCTCCA
1 AACACAACCAAATATAGCCTCTA
*
4414699 AACACAACCAAATATAGCCCCT-
1 AACACAACCAAATATAGCCTCTA
* *
4414721 AATACAACCAAATATA-CCTTTCA
1 AACACAACCAAATATAGCCTCT-A
* **
4414744 AACACAACCAAATATAGCTTCCC
1 AACACAACCAAATATAGCCTCTA
*
4414767 AACATAACCAAATATA
1 AACACAACCAAATATA
4414783 CAACCAAATA
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
21 3 0.03
22 15 0.17
23 69 0.78
24 2 0.02
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.17
Consensus pattern (23 bp):
AACACAACCAAATATAGCCTCTA
Found at i:4414746 original size:45 final size:45
Alignment explanation
Indices: 4414653--4414783 Score: 174
Period size: 45 Copynumber: 2.9 Consensus size: 45
4414643 TCACCCACTG
* *
4414653 AACACAACCAAACATAGCCTCTAAACACAACCAAATATACCCTCCA
1 AACACAACCAAATATAGCCCCT-AACACAACCAAATATACCCTCCA
* * *
4414699 AACACAACCAAATATAGCCCCTAATACAACCAAATATACCTTTCA
1 AACACAACCAAATATAGCCCCTAACACAACCAAATATACCCTCCA
*
4414744 AACACAACCAAATATAGCTTCCC-AACATAACCAAATATAC
1 AACACAACCAAATATAGC--CCCTAACACAACCAAATATAC
4414784 AACCAAATAT
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
45 38 0.50
46 35 0.46
47 3 0.04
ACGTcount: A:0.48, C:0.33, G:0.02, T:0.17
Consensus pattern (45 bp):
AACACAACCAAATATAGCCCCTAACACAACCAAATATACCCTCCA
Found at i:4414749 original size:68 final size:68
Alignment explanation
Indices: 4414656--4414782 Score: 184
Period size: 68 Copynumber: 1.9 Consensus size: 68
4414646 CCCACTGAAC
4414656 ACAACCAAACATAGCCTCTAAACACAACCAAATATACCCTCCAAACACAACCAAATATAGCCCCT
1 ACAACCAAACATAGCCTCTAAACACAACCAAATATACCCTCCAAACACAACCAAATATAGCCCCT
4414721 AAT
66 AAT
* * * * * *
4414724 ACAACCAAATATA-CCTTTCAAACACAACCAAATATAGCTTCCCAACATAACCAAATATA
1 ACAACCAAACATAGCCTCT-AAACACAACCAAATATACCCTCCAAACACAACCAAATATA
4414783 CAACCAAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
67 4 0.08
68 48 0.92
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.17
Consensus pattern (68 bp):
ACAACCAAACATAGCCTCTAAACACAACCAAATATACCCTCCAAACACAACCAAATATAGCCCCT
AAT
Found at i:4414953 original size:41 final size:41
Alignment explanation
Indices: 4414869--4414962 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
4414859 AACTCATGTT
* *
4414869 CATATAACATATTCAATTCTCATATCATATTCAACCATAAA
1 CATATAACATTTTCAATTCTCATATCATATACAACCATAAA
* * *
4414910 CATATAACATTTTC-ATTGTCATCTCAATATACATCACAT-AA
1 CATATAACATTTTCAATTCTCATATC-ATATACAAC-CATAAA
*
4414951 CATATCACATTT
1 CATATAACATTT
4414963 AAGCACCATT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 9 0.20
41 33 0.73
42 3 0.07
ACGTcount: A:0.40, C:0.22, G:0.01, T:0.36
Consensus pattern (41 bp):
CATATAACATTTTCAATTCTCATATCATATACAACCATAAA
Found at i:4415253 original size:20 final size:19
Alignment explanation
Indices: 4415198--4415254 Score: 51
Period size: 20 Copynumber: 2.7 Consensus size: 19
4415188 TGCATTAACA
4415198 TTAAATACATTACAAACACAT
1 TTAAATA-ATTA-AAACACAT
* *
4415219 TATAAATAACCTAAAACATAT
1 T-TAAATAA-TTAAAACACAT
4415240 TTAAATAATATAAAA
1 TTAAATAAT-TAAAA
4415255 AGTAAAACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
20 12 0.40
21 10 0.33
22 8 0.27
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (19 bp):
TTAAATAATTAAAACACAT
Found at i:4416076 original size:29 final size:29
Alignment explanation
Indices: 4416039--4416110 Score: 74
Period size: 30 Copynumber: 2.5 Consensus size: 29
4416029 TTGGTTCTTA
*
4416039 ATTTTAAATTAAATC-CATTTTCAAAATT
1 ATTTTAAATCAAATCTCATTTTCAAAATT
* *
4416067 ATTTTCAAATCCAATCTCATTTTTAAAATT
1 ATTTT-AAATCAAATCTCATTTTCAAAATT
* * *
4416097 CTTTTTAACCAAAT
1 ATTTTAAATCAAAT
4416111 TAGTTCTTGG
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
28 5 0.14
29 14 0.40
30 16 0.46
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.46
Consensus pattern (29 bp):
ATTTTAAATCAAATCTCATTTTCAAAATT
Found at i:4419605 original size:23 final size:23
Alignment explanation
Indices: 4419573--4419747 Score: 171
Period size: 23 Copynumber: 7.7 Consensus size: 23
4419563 ATCACCCAAT
* *
4419573 AAACAGAACCAAACATAGCCTCC
1 AAACACAACCAAATATAGCCTCC
* *
4419596 AAACACAACC-AATTTA-CACTCA
1 AAACACAACCAAATATAGC-CTCC
*
4419618 AAACACAACCAAACATA-CCTTCC
1 AAACACAACCAAATATAGCC-TCC
* *
4419641 -AACACAACCAAATATACCCTTC
1 AAACACAACCAAATATAGCCTCC
*
4419663 AAACACAACCAAATATAGTCTCC
1 AAACACAACCAAATATAGCCTCC
* * * **
4419686 CAACACAACCAAAAATATCAACC
1 AAACACAACCAAATATAGCCTCC
4419709 AAACACAACCAAATATAGCCTCC
1 AAACACAACCAAATATAGCCTCC
*
4419732 CAACACAA-CAAATATA
1 AAACACAACCAAATATA
4419748 CAACCAAATA
Statistics
Matches: 123, Mismatches: 24, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
21 1 0.01
22 43 0.35
23 79 0.64
ACGTcount: A:0.50, C:0.34, G:0.02, T:0.14
Consensus pattern (23 bp):
AAACACAACCAAATATAGCCTCC
Found at i:4419692 original size:46 final size:45
Alignment explanation
Indices: 4419573--4419748 Score: 198
Period size: 46 Copynumber: 3.9 Consensus size: 45
4419563 ATCACCCAAT
* * * *
4419573 AAACAGAACCAAACATAGCCTCCAAACACAACC-AATTTACACTC
1 AAACACAACCAAACATAGCCTCCCAACACAACCAAATATACCCTC
*
4419617 AAAACACAACCAAACATA-CCTTCCAACACAACCAAATATACCCTTC
1 -AAACACAACCAAACATAGCCTCCCAACACAACCAAATATACCC-TC
* * * *
4419663 AAACACAACCAAATATAGTCTCCCAACACAACCAAAAATATCAAC-C
1 AAACACAACCAAACATAGCCTCCCAACACAACCAAATATA-C-CCTC
*
4419709 AAACACAACCAAATATAGCCTCCCAACACAA-CAAATATAC
1 AAACACAACCAAACATAGCCTCCCAACACAACCAAATATAC
4419749 AACCAAATAT
Statistics
Matches: 114, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
44 14 0.12
45 46 0.40
46 52 0.46
47 1 0.01
48 1 0.01
ACGTcount: A:0.50, C:0.34, G:0.02, T:0.14
Consensus pattern (45 bp):
AAACACAACCAAACATAGCCTCCCAACACAACCAAATATACCCTC
Found at i:4424726 original size:12 final size:12
Alignment explanation
Indices: 4424709--4424733 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4424699 CACATTGCTA
4424709 TTTTCTTTTCTC
1 TTTTCTTTTCTC
4424721 TTTTCTTTTCTC
1 TTTTCTTTTCTC
4424733 T
1 T
4424734 CTGCTTGCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTTTTCTC
Found at i:4431187 original size:26 final size:26
Alignment explanation
Indices: 4431138--4431361 Score: 279
Period size: 27 Copynumber: 8.4 Consensus size: 26
4431128 TCTCGAAGGG
* *
4431138 TGAAATACCCTCAAAGGCTAAAATGAC
1 TGAAATACCC-CGAAGGGTAAAATGAC
*
4431165 TGAAATACCCCGAAGGGTAAAATAAC
1 TGAAATACCCCGAAGGGTAAAATGAC
*
4431191 TGAAATACCCTTGAAGGGTAAAATGA-
1 TGAAATACCC-CGAAGGGTAAAATGAC
4431217 TCGAAATACCCCCGAAGGGTAAAATGAC
1 T-GAAATA-CCCCGAAGGGTAAAATGAC
*
4431245 TAAAATACCCTCGAAGGGTAAAATGAC
1 TGAAATACCC-CGAAGGGTAAAATGAC
* *
4431272 TGAAATACCCCAAAATGGTAAAATGAC
1 TGAAATACCCC-GAAGGGTAAAATGAC
* *
4431299 TGAAATACCCCAAAAGGTAAAATGAC
1 TGAAATACCCCGAAGGGTAAAATGAC
*
4431325 TGAAATACCCCGAAGGGTAAAATAAC
1 TGAAATACCCCGAAGGGTAAAATGAC
**
4431351 TGTTATACCCC
1 TGAAATACCCC
4431362 TAGGAGTTGA
Statistics
Matches: 175, Mismatches: 16, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
26 74 0.42
27 97 0.55
28 4 0.02
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (26 bp):
TGAAATACCCCGAAGGGTAAAATGAC
Found at i:4434143 original size:29 final size:29
Alignment explanation
Indices: 4434101--4434193 Score: 159
Period size: 29 Copynumber: 3.2 Consensus size: 29
4434091 TGTGCTAAAC
**
4434101 GATGGTTGAAACCATCCCTTTTCATATTT
1 GATGGTTGTCACCATCCCTTTTCATATTT
4434130 GATGGTTGTCACCATCCCTTTTCATATTT
1 GATGGTTGTCACCATCCCTTTTCATATTT
*
4434159 GATGGTTGTCACCATCCCTTTTCATATTC
1 GATGGTTGTCACCATCCCTTTTCATATTT
4434188 GATGGT
1 GATGGT
4434194 CAAAACCATC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (29 bp):
GATGGTTGTCACCATCCCTTTTCATATTT
Found at i:4434201 original size:29 final size:29
Alignment explanation
Indices: 4434100--4434213 Score: 147
Period size: 29 Copynumber: 3.9 Consensus size: 29
4434090 GTGTGCTAAA
4434100 CGATGGTTGAAACCATCCCTTTTCATATT
1 CGATGGTTGAAACCATCCCTTTTCATATT
* **
4434129 TGATGGTTGTCACCATCCCTTTTCATATT
1 CGATGGTTGAAACCATCCCTTTTCATATT
* **
4434158 TGATGGTTGTCACCATCCCTTTTCATATT
1 CGATGGTTGAAACCATCCCTTTTCATATT
** *
4434187 CGATGGTCAAAACCATCCATTTTCATA
1 CGATGGTTGAAACCATCCCTTTTCATA
4434214 GTTGACACCA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 76 1.00
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (29 bp):
CGATGGTTGAAACCATCCCTTTTCATATT
Found at i:4436890 original size:30 final size:30
Alignment explanation
Indices: 4436856--4436919 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
4436846 CCGTGTGTCT
* *
4436856 AGGCTATGTGCAGCACACAACCATGTCACC
1 AGGCTATGTACACCACACAACCATGTCACC
*
4436886 AGGCTATGTACACCACACAACCATGTCGCC
1 AGGCTATGTACACCACACAACCATGTCACC
4436916 AGGC
1 AGGC
4436920 CGTGTGAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.34, G:0.20, T:0.16
Consensus pattern (30 bp):
AGGCTATGTACACCACACAACCATGTCACC
Found at i:4438022 original size:18 final size:18
Alignment explanation
Indices: 4437995--4438036 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
4437985 CTAATTGAAC
*
4437995 ATTT-TATAAGATATTAG
1 ATTTATATAAGACATTAG
4438012 ATTTATATAAGACATTAG
1 ATTTATATAAGACATTAG
4438030 ATTTATA
1 ATTTATA
4438037 CTAGGACACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (18 bp):
ATTTATATAAGACATTAG
Found at i:4439430 original size:141 final size:141
Alignment explanation
Indices: 4439159--4439430 Score: 451
Period size: 141 Copynumber: 1.9 Consensus size: 141
4439149 AGAATTGTTG
* *
4439159 TTGAGTTTCTTTTAGAAGAGTTTTAACAATCTTTTATATTATGGGGTCATCTTCAAACATTTTCT
1 TTGAGTTTCTTTTAGAAGAGTTTTAACAATCTTTTAGATTATGGGGTCATCTTCAAAAATTTTCT
* * *
4439224 TGCAAAGGTTTCTATCTTGGAGGGGAAATTAGCCACTTGAAGGGGGTTGTGGATTTTTCGTGTTT
66 TGCAAAGGTTTCTATCTTGGAGGGGAAATTAACCACTTGAAGGGGGTTGTGGATTCTTCGCGTTT
4439289 CGTTCCAGTTC
131 CGTTCCAGTTC
4439300 TTGAGTTTCTTTTAGAAGAGTTTTAACAATCTTTTAGATTATGGGGTCATCTTCAAAAATTTTCT
1 TTGAGTTTCTTTTAGAAGAGTTTTAACAATCTTTTAGATTATGGGGTCATCTTCAAAAATTTTCT
4439365 TGCCAAA-GTTTCTATCTTGGAGGGGAAATTAAAACCACTTG-AGGGGGTTGT-GATTCTTCGCG
66 TG-CAAAGGTTTCTATCTTGGAGGGGAAATT--AACCACTTGAAGGGGGTTGTGGATTCTTCGCG
4439427 TTTC
128 TTTC
4439431 CAAGGCTTCT
Statistics
Matches: 123, Mismatches: 5, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
141 101 0.82
142 14 0.11
143 8 0.07
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.41
Consensus pattern (141 bp):
TTGAGTTTCTTTTAGAAGAGTTTTAACAATCTTTTAGATTATGGGGTCATCTTCAAAAATTTTCT
TGCAAAGGTTTCTATCTTGGAGGGGAAATTAACCACTTGAAGGGGGTTGTGGATTCTTCGCGTTT
CGTTCCAGTTC
Found at i:4441193 original size:17 final size:17
Alignment explanation
Indices: 4441171--4441211 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
4441161 TAGTACACAA
4441171 GGCAATTAAGATTGAGC
1 GGCAATTAAGATTGAGC
*
4441188 GGCAATTGAGATTGAGC
1 GGCAATTAAGATTGAGC
*
4441205 AGCAATT
1 GGCAATT
4441212 TCAACAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.24
Consensus pattern (17 bp):
GGCAATTAAGATTGAGC
Found at i:4443274 original size:17 final size:19
Alignment explanation
Indices: 4443252--4443294 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
4443242 ATGGAAACAT
4443252 AATCTT-CA-AGGATATGC
1 AATCTTACACAGGATATGC
* *
4443269 AATCTTAGACATGATATGC
1 AATCTTACACAGGATATGC
4443288 AATCTTA
1 AATCTTA
4443295 GAAGATATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 1 0.05
19 15 0.68
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (19 bp):
AATCTTACACAGGATATGC
Found at i:4444314 original size:22 final size:23
Alignment explanation
Indices: 4444267--4444319 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
4444257 GATGCTAGTA
*
4444267 TTTATATAATTGCTATTATGTGT
1 TTTATATAATTGCTATTATGTAT
*
4444290 TTTATA-AATTGTTTATT-TGTAT
1 TTTATATAATTG-CTATTATGTAT
4444312 TTTCATAT
1 TTT-ATAT
4444320 TGCCGTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.60
Consensus pattern (23 bp):
TTTATATAATTGCTATTATGTAT
Found at i:4457404 original size:43 final size:43
Alignment explanation
Indices: 4457350--4457621 Score: 242
Period size: 43 Copynumber: 6.3 Consensus size: 43
4457340 TTTTTCACAT
* **
4457350 AAACGCTGCTAAAAAACATGACCTTTAGCAACGCTTTTATCAC
1 AAACGCCGCTAAAAAACATGACCTTTAGCGGCGCTTTTATCAC
* * * * * ** *
4457393 AAACACCGCTAAAGATCATGACCTTTAGCGGC-ATTTAAAAAG
1 AAACGCCGCTAAAAAACATGACCTTTAGCGGCGCTTTTATCAC
* ** ** *
4457435 AAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCTCTTTTAT-AGC
1 AAACGCCGCTAAAAAACATGACCTTTAGCGGCGCTTTTATCA-C
** * * *
4457478 AAACGCCATTAAAGAAGATTACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAAAACATGACCTTTAGCGGCGCTTTTATCAC
* * * *
4457521 AATCGCCGCTAAAGAACATGACCTTTAGCGGTGCTTTTTATTAC
1 AAACGCCGCTAAAAAACATGACCTTTAGCGGCGC-TTTTATCAC
* * * *
4457565 AAACGCCGCTAAATAACATGACATTTAGCGACGCTTTTTTCAC
1 AAACGCCGCTAAAAAACATGACCTTTAGCGGCGCTTTTATCAC
4457608 AAACGCCGCTAAAA
1 AAACGCCGCTAAAA
4457622 GTATCGTTCT
Statistics
Matches: 178, Mismatches: 47, Indels: 8
0.76 0.20 0.03
Matches are distributed among these distances:
42 32 0.18
43 108 0.61
44 38 0.21
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAAAACATGACCTTTAGCGGCGCTTTTATCAC
Found at i:4457634 original size:87 final size:86
Alignment explanation
Indices: 4457438--4457637 Score: 217
Period size: 87 Copynumber: 2.3 Consensus size: 86
4457428 TAAAAAGAAG
* * * *
4457438 CGCCGCTAAAAGTCATGTTCTTTAGC-GGCTCTTTTATAGCAAACGCCATTAAAGAAGATTACCT
1 CGCCGCTAAAAGT-ATGTTCTTTAGCGGGCTCTTTTATAGCAAACGCCACTAAAGAACATGACAT
* *
4457502 TTAGCGGCGCTTTTATCACAAT
65 TTAGCGACGCTTTTATCACAAA
** ** * *
4457524 CGCCGCTAAAGAACATGACCTTTAGCGGTGCT-TTTTATTA-CAAACGCCGCTAAATAACATGAC
1 CGCCGCTAAA-AGTATGTTCTTTAGCGG-GCTCTTTTA-TAGCAAACGCCACTAAAGAACATGAC
*
4457587 ATTTAGCGACGCTTTTTTCACAAA
63 ATTTAGCGACGCTTTTATCACAAA
4457611 CGCCGCTAAAAGTATCGTTCTTTAGCG
1 CGCCGCTAAAAGTAT-GTTCTTTAGCG
4457638 ACGTTTTACA
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
86 23 0.25
87 64 0.70
88 5 0.05
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (86 bp):
CGCCGCTAAAAGTATGTTCTTTAGCGGGCTCTTTTATAGCAAACGCCACTAAAGAACATGACATT
TAGCGACGCTTTTATCACAAA
Found at i:4457635 original size:43 final size:42
Alignment explanation
Indices: 4457500--4457644 Score: 109
Period size: 43 Copynumber: 3.4 Consensus size: 42
4457490 AGAAGATTAC
* * * *
4457500 CTTTAGCGGCGCTTTTATCACAATCGCCGCTAAAGA-A-CATGA
1 CTTTAGCGACGCTTTTTTCACAAACGCCGCTAAA-ATATCGT-A
** * * *
4457542 CCTTTAGCGGTGCTTTTTATTACAAACGCCGCT-AAATAACATGA
1 -CTTTAGCGACGCTTTTT-TCACAAACGCCGCTAAAATATCGT-A
*
4457586 CATTTAGCGACGCTTTTTTCACAAACGCCGCTAAAAGTATCGTT
1 C-TTTAGCGACGCTTTTTTCACAAACGCCGCTAAAA-TATCGTA
4457630 CTTTAGCGACG-TTTT
1 CTTTAGCGACGCTTTT
4457645 ACAAAAACCG
Statistics
Matches: 86, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
42 5 0.06
43 42 0.49
44 35 0.41
45 4 0.05
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (42 bp):
CTTTAGCGACGCTTTTTTCACAAACGCCGCTAAAATATCGTA
Found at i:4461665 original size:28 final size:29
Alignment explanation
Indices: 4461633--4461711 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 29
4461623 GTATAACATG
* *
4461633 GATAAATTAAAAGGTTAAAATAAATTTGA
1 GATAAATTAAAATGTTAAAATAAAGTTGA
* *
4461662 -ATAAATTAACAATATTGAAAT-AAGTTGA
1 GATAAATTAA-AATGTTAAAATAAAGTTGA
4461690 GATAAATTAAAATGTTAAAATA
1 GATAAATTAAAATGTTAAAATA
4461712 GTGGAAAGAG
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
28 24 0.59
29 17 0.41
ACGTcount: A:0.56, C:0.01, G:0.11, T:0.32
Consensus pattern (29 bp):
GATAAATTAAAATGTTAAAATAAAGTTGA
Found at i:4464637 original size:19 final size:19
Alignment explanation
Indices: 4464613--4464668 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
4464603 ATAATCTTTA
4464613 ATGATATGCAATCTTAGAC
1 ATGATATGCAATCTTAGAC
*
4464632 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAC
* *
4464651 AGGATATGTAATCTTAGA
1 ATGATATGCAATCTTAGA
4464669 AGATATGATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAC
Found at i:4466162 original size:22 final size:22
Alignment explanation
Indices: 4466129--4466184 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
4466119 ATATAATTAT
4466129 TTATATATATATATCTTTATATC
1 TTAT-TATATATATCTTTATATC
* *
4466152 TTATTATATATATGTTTATATT
1 TTATTATATATATCTTTATATC
*
4466174 TTCTTATATAT
1 TTATTATATAT
4466185 CTATACTTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (22 bp):
TTATTATATATATCTTTATATC
Found at i:4466189 original size:18 final size:18
Alignment explanation
Indices: 4466168--4466221 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
4466158 TATATATGTT
4466168 TATATTTTCTTATATATC
1 TATATTTTCTTATATATC
* *
4466186 TATA-CTTCTTTATATATG
1 TATATTTTC-TTATATATC
*
4466204 TATTATTTTTTTATATAT
1 TA-TATTTTCTTATATAT
4466222 GTTTTATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 3 0.10
18 14 0.48
19 10 0.34
20 2 0.07
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (18 bp):
TATATTTTCTTATATATC
Found at i:4467290 original size:109 final size:108
Alignment explanation
Indices: 4467094--4467300 Score: 333
Period size: 109 Copynumber: 1.9 Consensus size: 108
4467084 AAAAATAATA
*
4467094 AAGGCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTTGATTTTTC
1 AAGGCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTC
* * *
4467159 TCATTCAACCAAATAGCTAAATATCCTTTTAAAAATTTCAAAAT
66 TCATTCAACCAAATAACCAAATAT-CTTTCAAAAATTTCAAAAT
* *
4467203 AAGGTAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTC
1 AAGGCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTC
* *
4467268 TCGTTTAACCAAATAACCAAATATCTTTCAAAA
66 TCATTCAACCAAATAACCAAATATCTTTCAAAA
4467301 TAAGTAAATT
Statistics
Matches: 90, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
108 8 0.09
109 82 0.91
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (108 bp):
AAGGCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTC
TCATTCAACCAAATAACCAAATATCTTTCAAAAATTTCAAAAT
Found at i:4471745 original size:18 final size:18
Alignment explanation
Indices: 4471722--4471793 Score: 92
Period size: 18 Copynumber: 3.9 Consensus size: 18
4471712 AAATACCAAA
4471722 AAAAAGAGAAAAAGAAAG
1 AAAAAGAGAAAAAGAAAG
*
4471740 AAAAAGAAAAAAAGAAAG
1 AAAAAGAGAAAAAGAAAG
* *
4471758 AAGAAGAGAAAAGAAAAAG
1 AAAAAGAGAAAA-AGAAAG
4471777 AAAAA-AGAAAAAAGAAA
1 AAAAAGAG-AAAAAGAAA
4471794 AGGAGAGGCC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
18 33 0.72
19 13 0.28
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (18 bp):
AAAAAGAGAAAAAGAAAG
Found at i:4471750 original size:7 final size:7
Alignment explanation
Indices: 4471721--4471794 Score: 66
Period size: 7 Copynumber: 10.6 Consensus size: 7
4471711 AAAATACCAA
4471721 AAAAAAG
1 AAAAAAG
4471728 AGAAAAAG
1 A-AAAAAG
4471736 AAAGAAA-
1 AAA-AAAG
4471743 AAGAAAA-
1 AA-AAAAG
4471750 AAAGAAAG
1 AAA-AAAG
*
4471758 -AAGAAG
1 AAAAAAG
*
4471764 AGAAAAG
1 AAAAAAG
4471771 -AAAAAG
1 AAAAAAG
4471777 AAAAAAG
1 AAAAAAG
4471784 AAAAAAG
1 AAAAAAG
4471791 AAAA
1 AAAA
4471795 GGAGAGGCCA
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
6 9 0.16
7 36 0.64
8 11 0.20
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:4471758 original size:30 final size:30
Alignment explanation
Indices: 4471719--4471795 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
4471709 AAAAAATACC
4471719 AAAAA-AAAG-AGAAAA-AGAAAGAAAAAGAA
1 AAAAAGAAAGAAGAAAAGA-AAAGAAAAAG-A
*
4471748 AAAAAGAAAGAAGAAGAGAAAAGAAAAAGA
1 AAAAAGAAAGAAGAAAAGAAAAGAAAAAGA
*
4471778 AAAAAGAAAAAAGAAAAG
1 AAAAAGAAAGAAGAAAAG
4471796 GAGAGGCCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
29 5 0.12
30 21 0.50
31 15 0.36
32 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (30 bp):
AAAAAGAAAGAAGAAAAGAAAAGAAAAAGA
Found at i:4473155 original size:89 final size:89
Alignment explanation
Indices: 4473004--4473964 Score: 1294
Period size: 89 Copynumber: 10.8 Consensus size: 89
4472994 AAAAGATCAA
*
4473004 TAAAGATAGCAGATCATGCCTTCCTGTACTAACGGCGAAGCAGATCGAAGAAACCAGTCTTGCCT
1 TAAAGATAGCAGATCATGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGAAACCAGTCTTGCCT
4473069 TCCTGTACTGACAGCGGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* *
4473093 TAAAGATAGCAGATCATGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGAAACCAGCCTTGCCT
1 TAAAGATAGCAGATCATGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGAAACCAGTCTTGCCT
*
4473158 TCCTGTACTGAGAGCGGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * * * * * * * * *
4473182 TGAAGATAGAAGATCTTGCCTTCTTGTGCTGACGGTGAAACAGATCGAATAAACTAGTTTTGTCT
1 TAAAGATAGCAGATCATGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGAAACCAGTCTTGCCT
*
4473247 TCCTGTACTGACAACGGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * *
4473271 TAAAGATAGCAGATCTTGCCTTCCTGTACTGGCGGAGAAGCGGATCGAAGAAACCAGTCTTGCCT
1 TAAAGATAGCAGATCATGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGAAACCAGTCTTGCCT
**
4473336 TCCTGTACTGACAATGGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * *
4473360 TAAAGATAGCAGATCTTTCCTTCCTGTACTGACGGCAAAGCAGATCGAAGAAACCAGTCTTGCCT
1 TAAAGATAGCAGATCATGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGAAACCAGTCTTGCCT
**
4473425 TCCTGTACTGACAGCAAAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * *
4473449 TAAAGATAGCAGATCATGCCTTCCTATACTAACAGTGAAGCAGATCGAA-AAACCAGTCTTGCCT
1 TAAAGATAGCAGATCATGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGAAACCAGTCTTGCCT
**
4473513 TCCTGTACTGACAGCAAAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * *
4473537 TAAATATAGCAGATCATGCCTTCCTATACTAACGGCGAAGCAAATCGAAGAAACCAGTCTTGCCT
1 TAAAGATAGCAGATCATGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGAAACCAGTCTTGCCT
* *
4473602 TCTTGTACTGACAGCGGAGTAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* *
4473626 TAAAGATAGCAGATCATGCCTTCCTGTACTGACGACGAAGCAGATCAAAGAAACCAGTCTTGCCT
1 TAAAGATAGCAGATCATGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGAAACCAGTCTTGCCT
*
4473691 TCCTGTACTGACAGTGGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * * * *
4473715 TGAAGATAGCAGATCTTGTCTTTCTGTACTGATGGCGAAGTAGATCGAAGAAACCAGTCTTGCCT
1 TAAAGATAGCAGATCATGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGAAACCAGTCTTGCCT
*
4473780 TCCTGTACTGACAGCAGAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAC
* * * * *** * * **
4473804 TGAAGACAGCAAATCATGCCTTCCTGTATTGGTAGTGAAGCAGATCGAAGACACCAACCTTGCCT
1 TAAAGATAGCAGATCATGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGAAACCAGTCTTGCCT
** * *
4473869 TCCTGTACTGACAGCATAGTAGAA
66 TCCTGTACTGACAGCGGAGCAGAC
* * * * *
4473893 TGAAGATAGCAGTTCATGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAGATAGCAGATCATGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGAAACCAGTCTTGCCT
4473958 TCCTGTA
66 TCCTGTA
4473965 TTGGTAGCAA
Statistics
Matches: 774, Mismatches: 97, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
88 84 0.11
89 690 0.89
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (89 bp):
TAAAGATAGCAGATCATGCCTTCCTGTACTGACGGCGAAGCAGATCGAAGAAACCAGTCTTGCCT
TCCTGTACTGACAGCGGAGCAGAC
Found at i:4474018 original size:444 final size:445
Alignment explanation
Indices: 4473002--4474022 Score: 1364
Period size: 444 Copynumber: 2.3 Consensus size: 445
4472992 AGAAAAGATC
*
4473002 AATAAAGATAGCAGATCATGCCTTCCTGTACTAACGGCGAAGCAGATCGAAGAAACCAGTCTTGC
1 AATAAAGATAGCAGATCATGCCTTCCTGTACTAACAGCGAAGCAGATCGAAGAAACCAGTCTTGC
** *
4473067 CTTCCTGTACTGACAGCGGAGCAGACTAAAGATAGCAGATCATGCCTTCCTGTACTGACGGTGAA
66 CTTCCTGTACTGACAGCAAAGCAGACTAAAGATAGCAGATCATGCCTTCCTGTACTGACGGCGAA
* * *
4473132 GCAGATCGAAGAAACCAGCCTTGCCTTCCTGTACTGAGAGCGGAGCAGACTGAAGATAGAAGATC
131 GCAAATCGAAGAAACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGACTAAAGATAGAAGATC
* * * ** * * * * *
4473197 TTGCCTTCTTGTGCTGACGGTGAAACAGATCGAATAAACTAGTTTTGTCTTCCTGTACTGACAAC
196 ATGCCTTCCTGTACTGACGACGAAACAGATCAAAGAAACCAGTCTTGCCTTCCTGTACTGACAAC
* *
4473262 GGAGCAGACTAAAGATAGCAGATCTTGCCTTCCTGTACTGGCGGAGAAGCGGATCGAAGAAACCA
261 GGAGCAGACTAAAGATAGCAGATCTTGCCTTCCTGTACTGACGGAGAAGCAGATCGAAGAAACCA
** * * * *
4473327 GTCTTGCCTTCCTGTACTGACAATGGAGCAGACTAAAGATAGCAGATCTTTCCTTCCTGTACTGA
326 GTCTTGCCTTCCTGTACTGACAACAGAGCAGACTAAAGACAGCAAATCATGCCTTCCTGTACTGA
* **
4473392 CGGCAAAGCAGATCGAAGAAACCAGTCTTGCCTTCCTGTACTGACAGCAAAGCAG
391 CAGCAAAGCAGATCGAAGAAACCAACCTTGCCTTCCTGTACTGACAGCAAAGCAG
* * *
4473447 ACTAAAGATAGCAGATCATGCCTTCCTATACTAACAGTGAAGCAGATCGAA-AAACCAGTCTTGC
1 AATAAAGATAGCAGATCATGCCTTCCTGTACTAACAGCGAAGCAGATCGAAGAAACCAGTCTTGC
* * *
4473511 CTTCCTGTACTGACAGCAAAGCAGACTAAATATAGCAGATCATGCCTTCCTATACTAACGGCGAA
66 CTTCCTGTACTGACAGCAAAGCAGACTAAAGATAGCAGATCATGCCTTCCTGTACTGACGGCGAA
* * * *
4473576 GCAAATCGAAGAAACCAGTCTTGCCTTCTTGTACTGACAGCGGAGTAGACTAAAGATAGCAGATC
131 GCAAATCGAAGAAACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGACTAAAGATAGAAGATC
* **
4473641 ATGCCTTCCTGTACTGACGACGAAGCAGATCAAAGAAACCAGTCTTGCCTTCCTGTACTGACAGT
196 ATGCCTTCCTGTACTGACGACGAAACAGATCAAAGAAACCAGTCTTGCCTTCCTGTACTGACAAC
* * * * * *
4473706 GGAGCAGACTGAAGATAGCAGATCTTGTCTTTCTGTACTGATGGCGAAGTAGATCGAAGAAACCA
261 GGAGCAGACTAAAGATAGCAGATCTTGCCTTCCTGTACTGACGGAGAAGCAGATCGAAGAAACCA
* * * *
4473771 GTCTTGCCTTCCTGTACTGACAGCAGAGCAGACTGAAGACAGCAAATCATGCCTTCCTGTATTGG
326 GTCTTGCCTTCCTGTACTGACAACAGAGCAGACTAAAGACAGCAAATCATGCCTTCCTGTACTGA
* ** * * *
4473836 TAGTGAAGCAGATCGAAGACACCAACCTTGCCTTCCTGTACTGACAGCATAGTAG
391 CAGCAAAGCAGATCGAAGAAACCAACCTTGCCTTCCTGTACTGACAGCAAAGCAG
* * * * *
4473891 AATGAAGATAGCAGTTCATGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGC
1 AATAAAGATAGCAGATCATGCCTTCCTGTACTAACAGCGAAGCAGATCGAAGAAACCAGTCTTGC
* ** * * * * * * *
4473956 CTTCCTGTATTGGTAGCAAAGTAGA-TCGAAGACACCA-ACCTTGTCTTCCTGTACTGACGGCGA
66 CTTCCTGTACTGACAGCAAAGCAGACT-AAAGATAGCAGATCATGCCTTCCTGTACTGACGGCGA
4474019 AGCA
130 AGCA
4474023 GATTTAAGCC
Statistics
Matches: 496, Mismatches: 78, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
444 411 0.83
445 85 0.17
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (445 bp):
AATAAAGATAGCAGATCATGCCTTCCTGTACTAACAGCGAAGCAGATCGAAGAAACCAGTCTTGC
CTTCCTGTACTGACAGCAAAGCAGACTAAAGATAGCAGATCATGCCTTCCTGTACTGACGGCGAA
GCAAATCGAAGAAACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGACTAAAGATAGAAGATC
ATGCCTTCCTGTACTGACGACGAAACAGATCAAAGAAACCAGTCTTGCCTTCCTGTACTGACAAC
GGAGCAGACTAAAGATAGCAGATCTTGCCTTCCTGTACTGACGGAGAAGCAGATCGAAGAAACCA
GTCTTGCCTTCCTGTACTGACAACAGAGCAGACTAAAGACAGCAAATCATGCCTTCCTGTACTGA
CAGCAAAGCAGATCGAAGAAACCAACCTTGCCTTCCTGTACTGACAGCAAAGCAG
Found at i:4474192 original size:132 final size:131
Alignment explanation
Indices: 4474021--4474324 Score: 389
Period size: 132 Copynumber: 2.3 Consensus size: 131
4474011 GACGGCGAAG
* * *
4474021 CAGATTTAAGCCACTAGCCCTATCTCCCTAAGCAGTAGTGGAATAGGTCGAAGATTACAGATTCT
1 CAGATTTAAGCCATTAGCCCTATCTCCCTAAGCAATAGTGGAATAGGTCGAAGATTACAGATTCC
* * * * * *
4474086 GTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAA-GACAG-TGGA
66 ATCTCCCTAAGCAATAGTGGAGCAGATCAAAAACGGTGAATC-TATCTTCCCAAGGA-AGAAGG-
4474149 GAAA
128 GAAA
* * * * **
4474153 CAGATTTAAGCCATTAGTCTTATTTCCCTAAGCAATAGTGGAGTAGGTCGAAGATTGTAGATTCC
1 CAGATTTAAGCCATTAGCCCTATCTCCCTAAGCAATAGTGGAATAGGTCGAAGATTACAGATTCC
4474218 ATCTCCCTAAGCAATAGTGGAGCAGATCAAAAACGGTGAATCTATCTTCCCAAGGAAGAAGGGAA
66 ATCTCCCTAAGCAATAGTGGAGCAGATCAAAAACGGTGAATCTATCTTCCCAAGGAAGAAGGGAA
*
4474283 G
131 A
** *
4474284 CAGATTTAAGCCATTAAACCTATC-CCCTAAGCAGTAGTGGA
1 CAGATTTAAGCCATTAGCCCTATCTCCCTAAGCAATAGTGGA
4474325 GCAGATCAAC
Statistics
Matches: 149, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
130 16 0.11
131 36 0.24
132 97 0.65
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (131 bp):
CAGATTTAAGCCATTAGCCCTATCTCCCTAAGCAATAGTGGAATAGGTCGAAGATTACAGATTCC
ATCTCCCTAAGCAATAGTGGAGCAGATCAAAAACGGTGAATCTATCTTCCCAAGGAAGAAGGGAA
A
Found at i:4478552 original size:16 final size:17
Alignment explanation
Indices: 4478531--4478564 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4478521 TAGTATCTAA
4478531 TATTTTTT-ATAATATT
1 TATTTTTTGATAATATT
*
4478547 TATTTTTTGATAGTATT
1 TATTTTTTGATAATATT
4478564 T
1 T
4478565 TAAATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (17 bp):
TATTTTTTGATAATATT
Found at i:4480142 original size:18 final size:18
Alignment explanation
Indices: 4480119--4480203 Score: 64
Period size: 19 Copynumber: 4.4 Consensus size: 18
4480109 CTTATTATTA
4480119 TATATATGTTTATATTTT
1 TATATATGTTTATATTTT
* *
4480137 CT-TATATATCTATACTTCTT
1 -TATATATGTTTATA-TT-TT
4480157 TATATATGTATTATTATTTTT
1 TATATATGT-TTA-TA-TTTT
* *
4480178 TATATATGTTTTTATATAT
1 TATATATGTTTATAT-TTT
4480197 TATATAT
1 TATATAT
4480204 ACATGTATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
18 11 0.21
19 15 0.28
20 10 0.19
21 13 0.25
22 4 0.08
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (18 bp):
TATATATGTTTATATTTT
Found at i:4480204 original size:21 final size:21
Alignment explanation
Indices: 4480110--4480221 Score: 63
Period size: 20 Copynumber: 5.3 Consensus size: 21
4480100 TCTTTATATC
4480110 TTATTATTATATATATGT-TTA
1 TTATT-TTATATATATGTATTA
* *
4480131 -TATTTTCTTATATATCTA-TA
1 TTATTTT-ATATATATGTATTA
* *
4480151 CT-TCTT-TATATATGTATTA
1 TTATTTTATATATATGTATTA
* *
4480170 TTATTTTTTATATATGTTTTTA
1 TTATTTTATATATATG-TATTA
* *
4480192 TATATTATATATACATGTATATA
1 T-TATTTTATATATATGTAT-TA
4480215 TATATTT
1 T-TATTT
4480222 ATACACATAT
Statistics
Matches: 70, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
18 9 0.13
19 5 0.07
20 20 0.29
21 9 0.13
22 7 0.10
23 20 0.29
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (21 bp):
TTATTTTATATATATGTATTA
Found at i:4480224 original size:12 final size:12
Alignment explanation
Indices: 4480077--4480224 Score: 51
Period size: 12 Copynumber: 12.4 Consensus size: 12
4480067 TCGACAATTA
4480077 TTATATA-ATTAT
1 TTATATATA-TAT
*
4480089 TTATATATATCT
1 TTATATATATAT
*
4480101 CTT-TATATCTTATT
1 -TTATATAT-ATA-T
*
4480115 ATTATATATATGT
1 -TTATATATATAT
* *
4480128 TTATAT-TTTCT
1 TTATATATATAT
* *
4480139 TATATATCTATAC
1 T-TATATATATAT
* *
4480152 TTCTTTATATAT
1 TTATATATATAT
*
4480164 GTAT-TAT-TAT
1 TTATATATATAT
*
4480174 TT-TTTATATAT
1 TTATATATATAT
*
4480185 GTT-TTTATATA-
1 -TTATATATATAT
*
4480196 TTATATATACAT
1 TTATATATATAT
*
4480208 GTATATATATAT
1 TTATATATATAT
4480220 TTATA
1 TTATA
4480225 CACATATTCT
Statistics
Matches: 101, Mismatches: 23, Indels: 24
0.68 0.16 0.16
Matches are distributed among these distances:
9 1 0.01
10 9 0.09
11 16 0.16
12 58 0.57
13 8 0.08
14 4 0.04
15 5 0.05
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.59
Consensus pattern (12 bp):
TTATATATATAT
Found at i:4489898 original size:24 final size:23
Alignment explanation
Indices: 4489867--4489913 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
4489857 TATTCATACA
4489867 TATTCTTA-CTTAATTTCAAATGT
1 TATTCTTATCTTAATTT-AAATGT
*
4489890 TATTACTTATCTTACTTTAAATGT
1 TATT-CTTATCTTAATTTAAATGT
4489914 CCCATGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 10 0.48
25 7 0.33
ACGTcount: A:0.30, C:0.13, G:0.04, T:0.53
Consensus pattern (23 bp):
TATTCTTATCTTAATTTAAATGT
Found at i:4490637 original size:14 final size:15
Alignment explanation
Indices: 4490604--4490642 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
4490594 TTCTTTGTCT
4490604 TTTTATTTTACTTAC
1 TTTTATTTTACTTAC
* *
4490619 TTTTACTTTA-TTTC
1 TTTTATTTTACTTAC
4490633 TTTTATTTTA
1 TTTTATTTTA
4490643 ACTAATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTATTTTACTTAC
Found at i:4490815 original size:5 final size:5
Alignment explanation
Indices: 4490795--4490831 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
4490785 TTAGTTTATT
4490795 TAATA T-ATA TTAATA TAATA TAATA TAATA T-ATA TAA
1 TAATA TAATA -TAATA TAATA TAATA TAATA TAATA TAA
4490832 AACATAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 7 0.24
5 19 0.66
6 3 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TAATA
Found at i:4500648 original size:27 final size:28
Alignment explanation
Indices: 4500613--4500666 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
4500603 ACAACTTTCA
*
4500613 AAATAAAATATAGT-T-CAAAATAAAAAT
1 AAATAAAATA-AGTCTAAAAAATAAAAAT
*
4500640 AAATTAAATAAGTCTAAAAAATAAAAA
1 AAATAAAATAAGTCTAAAAAATAAAAA
4500667 CAAAACAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 3 0.13
27 10 0.43
28 10 0.43
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.24
Consensus pattern (28 bp):
AAATAAAATAAGTCTAAAAAATAAAAAT
Found at i:4501866 original size:14 final size:14
Alignment explanation
Indices: 4501847--4501876 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4501837 TGATTGTTTT
4501847 TAATCTAATTTAAC
1 TAATCTAATTTAAC
*
4501861 TAATCTAGTTTAAC
1 TAATCTAATTTAAC
4501875 TA
1 TA
4501877 CTAACGCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.03, T:0.43
Consensus pattern (14 bp):
TAATCTAATTTAAC
Found at i:4510488 original size:21 final size:22
Alignment explanation
Indices: 4510458--4510501 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
4510448 TTAGAGCGTC
*
4510458 AGTCCTATGAATAATGGAGTCA
1 AGTCCTATGAACAATGGAGTCA
4510480 AGTCC-ATGAACAATGGAGTCA
1 AGTCCTATGAACAATGGAGTCA
4510501 A
1 A
4510502 ATCATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (22 bp):
AGTCCTATGAACAATGGAGTCA
Found at i:4512534 original size:16 final size:16
Alignment explanation
Indices: 4512491--4512534 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
4512481 ATTTATTAAA
4512491 AATTATGATAAAAGAAT
1 AATTAT-ATAAAAGAAT
*
4512508 ATATATATATAATAGAAT
1 A-AT-TATATAAAAGAAT
4512526 AATTATATA
1 AATTATATA
4512535 TGACTTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 6 0.25
17 3 0.12
18 12 0.50
19 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (16 bp):
AATTATATAAAAGAAT
Found at i:4515579 original size:23 final size:22
Alignment explanation
Indices: 4515527--4515579 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
4515517 GAATTGATTG
4515527 AATTGTATTTTATAATTATTAAT
1 AATT-TATTTTATAATTATTAAT
* * *
4515550 ATTTTTATTTTATGATTTTTTAAT
1 A-ATTTATTTTAT-AATTATTAAT
4515574 AATTTA
1 AATTTA
4515580 CTTGATTTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
AATTTATTTTATAATTATTAAT
Found at i:4517433 original size:30 final size:30
Alignment explanation
Indices: 4517395--4517504 Score: 175
Period size: 30 Copynumber: 3.7 Consensus size: 30
4517385 AATATCTCGG
*
4517395 TACCCATATCTTTGACTTTCTAATATTTAA
1 TACCCATATCTTTGACTTTCTAATATTTGA
* *
4517425 TACTCATATCTTTGACTTTCCAATATTTGA
1 TACCCATATCTTTGACTTTCTAATATTTGA
*
4517455 TACCCATATCTTTGACTTTCTATTATTTGA
1 TACCCATATCTTTGACTTTCTAATATTTGA
*
4517485 TACCCATATCTTTGATTTTC
1 TACCCATATCTTTGACTTTC
4517505 CATAAATATG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 73 1.00
ACGTcount: A:0.25, C:0.21, G:0.05, T:0.48
Consensus pattern (30 bp):
TACCCATATCTTTGACTTTCTAATATTTGA
Found at i:4517468 original size:15 final size:15
Alignment explanation
Indices: 4517450--4517500 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
4517440 CTTTCCAATA
4517450 TTTGATACCCATATC
1 TTTGATACCCATATC
** * *
4517465 TTTGACTTTCTAT-TA
1 TTTGA-TACCCATATC
4517480 TTTGATACCCATATC
1 TTTGATACCCATATC
4517495 TTTGAT
1 TTTGAT
4517501 TTTCCATAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
14 4 0.15
15 18 0.69
16 4 0.15
ACGTcount: A:0.24, C:0.20, G:0.08, T:0.49
Consensus pattern (15 bp):
TTTGATACCCATATC
Found at i:4521076 original size:21 final size:22
Alignment explanation
Indices: 4521047--4521093 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
4521037 CAGAAGGAGT
*
4521047 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
4521069 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
4521090 GAGT
1 GAGT
4521094 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:4523771 original size:19 final size:19
Alignment explanation
Indices: 4523747--4523784 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
4523737 GGAGGCCAGC
4523747 TGGAGGAG-ACGCACGCGCG
1 TGGAGGAGCA-GCACGCGCG
*
4523766 TGGAGGCGCAGCACGCGCG
1 TGGAGGAGCAGCACGCGCG
4523785 GAAGAGGCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.18, C:0.29, G:0.47, T:0.05
Consensus pattern (19 bp):
TGGAGGAGCAGCACGCGCG
Found at i:4525891 original size:16 final size:17
Alignment explanation
Indices: 4525831--4525891 Score: 56
Period size: 17 Copynumber: 3.7 Consensus size: 17
4525821 CTAAGTCAAG
*
4525831 TTAT-ATTTTATAATTT
1 TTATAATTTTTTAATTT
**
4525847 TT-TAAATTTTTTAATAA
1 TTAT-AATTTTTTAATTT
*
4525864 TTATAATATTTT-ATTT
1 TTATAATTTTTTAATTT
4525880 TTATAATTTTTT
1 TTATAATTTTTT
4525892 TTGTAAGTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
15 1 0.03
16 15 0.43
17 18 0.51
18 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATAATTTTTTAATTT
Found at i:4527300 original size:18 final size:20
Alignment explanation
Indices: 4527259--4527301 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
4527249 TTAGAAAATG
*
4527259 ATTTTTGGAAAATGACTTAT
1 ATTTTTGGAAAATGACTAAT
4527279 -TTTTTGGAAAA-G-CTAAT
1 ATTTTTGGAAAATGACTAAT
4527296 ATTTTT
1 ATTTTT
4527302 TGGTGTTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.19
18 6 0.29
19 11 0.52
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (20 bp):
ATTTTTGGAAAATGACTAAT
Found at i:4528056 original size:14 final size:14
Alignment explanation
Indices: 4528037--4528066 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4528027 TATTTGCTAT
4528037 TAATCATATATATA
1 TAATCATATATATA
4528051 TAATCATATATATA
1 TAATCATATATATA
4528065 TA
1 TA
4528067 TATAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATCATATATATA
Found at i:4534054 original size:42 final size:42
Alignment explanation
Indices: 4533995--4534078 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
4533985 AAATGATAGA
4533995 AGGGAAGACCATGACTTCCAAAGCAATAAACTTTGTTTAAAT
1 AGGGAAGACCATGACTTCCAAAGCAATAAACTTTGTTTAAAT
*
4534037 AGGGAAGACCTTGACTTCCAAAGCAATAAACTTTGTTTAAAT
1 AGGGAAGACCATGACTTCCAAAGCAATAAACTTTGTTTAAAT
4534079 TGGATTAAGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (42 bp):
AGGGAAGACCATGACTTCCAAAGCAATAAACTTTGTTTAAAT
Found at i:4534695 original size:72 final size:72
Alignment explanation
Indices: 4534523--4534684 Score: 245
Period size: 72 Copynumber: 2.2 Consensus size: 72
4534513 GAAGAGTTTG
** * *
4534523 AAACAGTTGGACCTATCCAATAACCAAATTCTTGGTCCTATTCCTTCTACCTTGGGCAACTTAAC
1 AAACAGTTGGACCTATCCAATAACCAAATTAGTGGTCCTATCCCTTCTACCTTGGGCAAATTAAC
4534588 CAATTTA
66 CAATTTA
* *
4534595 AAA-ATGTTGAACCTATCCAAAAACCAAATTAGTGGTCCTATCCCTTCTACCTTGGGCAAATTAA
1 AAACA-GTTGGACCTATCCAATAACCAAATTAGTGGTCCTATCCCTTCTACCTTGGGCAAATTAA
4534659 CCAATTTA
65 CCAATTTA
*
4534667 AAACAGTTGGACTTATCC
1 AAACAGTTGGACCTATCC
4534685 TTTAATCAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
71 1 0.01
72 78 0.98
73 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (72 bp):
AAACAGTTGGACCTATCCAATAACCAAATTAGTGGTCCTATCCCTTCTACCTTGGGCAAATTAAC
CAATTTA
Found at i:4535221 original size:22 final size:22
Alignment explanation
Indices: 4535193--4535240 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
4535183 AGTCATAACT
4535193 TCAACGAGGGAGAAATACCACA
1 TCAACGAGGGAGAAATACCACA
4535215 TCAACGAGGGAGAAATACCACA
1 TCAACGAGGGAGAAATACCACA
4535237 TCAA
1 TCAA
4535241 TTTGGTATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.10
Consensus pattern (22 bp):
TCAACGAGGGAGAAATACCACA
Found at i:4543049 original size:16 final size:16
Alignment explanation
Indices: 4543019--4543069 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
4543009 ATAGGTTCAA
4543019 TTATTAAATTATTTATT
1 TTATT-AATTATTTATT
*
4543036 TTATTAATTGTTTATT
1 TTATTAATTATTTATT
* *
4543052 TTTTTAATAATTATATT
1 TTATTAATTATT-TATT
4543069 T
1 T
4543070 ATTTCTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 19 0.66
17 10 0.34
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TTATTAATTATTTATT
Found at i:4551185 original size:44 final size:44
Alignment explanation
Indices: 4551125--4551363 Score: 289
Period size: 44 Copynumber: 5.4 Consensus size: 44
4551115 ACCGGTATAG
*
4551125 GAAGACAAGATCTGCTTTCTTTGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * * ***
4551169 GAAGACAATATCTGCTTTCTTCGATCTACTTCACCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCA-CGCCAATACAT
* * *
4551214 GAAGACAAGATCAGCTATCCTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * * * * ***
4551258 GAGGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACAT
*
4551303 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATGCAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
4551347 GAAGACAAGATCTGCTT
1 GAAGACAAGATCTGCTT
4551364 CTTTTTAAGC
Statistics
Matches: 157, Mismatches: 36, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
44 86 0.55
45 71 0.45
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (44 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
Found at i:4551238 original size:45 final size:45
Alignment explanation
Indices: 4551092--4551363 Score: 280
Period size: 44 Copynumber: 6.1 Consensus size: 45
4551082 AAATCATGAA
* * * *
4551092 TGCTTTCTTTGATCTATTTCGCCACCGGTATAGGAAGACAAGATC
1 TGCTTTCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATC
* * * * * *
4551137 TGCTTTCTTTGATCTACTTCA-CGCCAATACATGAAGACAATATC
1 TGCTTTCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATC
*
4551181 TGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATC
1 TGCTTTCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATC
* * * * * * * *
4551226 AGCTATCCTCGATCTACTTCA-CGCCAATACATGAGGACAAGATC
1 TGCTTTCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATC
* * *
4551270 TACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATC
1 TGCTTTCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATC
* * ** *
4551315 TGCTTTCTTCGATCTACTTCA-CGCCAATGCATGAAGACAAGATC
1 TGCTTTCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATC
4551359 TGCTT
1 TGCTT
4551364 CTTTTTAAGC
Statistics
Matches: 182, Mismatches: 43, Indels: 5
0.79 0.19 0.02
Matches are distributed among these distances:
44 92 0.51
45 90 0.49
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (45 bp):
TGCTTTCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATC
Found at i:4551243 original size:89 final size:89
Alignment explanation
Indices: 4551092--4551363 Score: 427
Period size: 89 Copynumber: 3.1 Consensus size: 89
4551082 AAATCATGAA
* * * * *
4551092 TGCTTTCTTTGATCTATTTCGCCACCGGTATAGGAAGACAAGATCTGCTTTCTTTGATCTACTTC
1 TGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTC
*
4551157 ACGCCAATACATGAAGACAATATC
66 ACGCCAATACATGAAGACAAGATC
* * * *
4551181 TGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCAGCTATCCTCGATCTACTTC
1 TGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTC
*
4551246 ACGCCAATACATGAGGACAAGATC
66 ACGCCAATACATGAAGACAAGATC
*
4551270 TACTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTC
1 TGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTC
*
4551335 ACGCCAATGCATGAAGACAAGATC
66 ACGCCAATACATGAAGACAAGATC
4551359 TGCTT
1 TGCTT
4551364 CTTTTTAAGC
Statistics
Matches: 164, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 164 1.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (89 bp):
TGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTC
ACGCCAATACATGAAGACAAGATC
Found at i:4552637 original size:14 final size:15
Alignment explanation
Indices: 4552603--4552642 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
4552593 CACCTTAGCC
*
4552603 TTTCCA-TTTT-ACT
1 TTTCCATTTTTCAGT
4552616 TTTCCATTTTTCAGT
1 TTTCCATTTTTCAGT
4552631 TTT-CATTTTTCA
1 TTTCCATTTTTCA
4552643 TCTCATCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 6 0.25
14 13 0.54
15 5 0.21
ACGTcount: A:0.15, C:0.20, G:0.03, T:0.62
Consensus pattern (15 bp):
TTTCCATTTTTCAGT
Found at i:4553594 original size:18 final size:19
Alignment explanation
Indices: 4553553--4553595 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
4553543 TGGTTTGGCA
*
4553553 GAAAAAAATCCAAAAGAAT
1 GAAAAGAATCCAAAAGAAT
4553572 G-AAAGAAT-CAAAAGAAT
1 GAAAAGAATCCAAAAGAAT
4553589 GAAAAGA
1 GAAAAGA
4553596 TATTTGCTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 10 0.45
18 11 0.50
19 1 0.05
ACGTcount: A:0.67, C:0.07, G:0.16, T:0.09
Consensus pattern (19 bp):
GAAAAGAATCCAAAAGAAT
Found at i:4555524 original size:19 final size:19
Alignment explanation
Indices: 4555484--4555528 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
4555474 ACCACTTTTT
* *
4555484 ATGCATATGATGTAATGTA
1 ATGCAAATGATGAAATGTA
4555503 ATGCAAATGCATGAAATG-A
1 ATGCAAATG-ATGAAATGTA
4555522 ATGCAAA
1 ATGCAAA
4555529 AAGAGACGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (19 bp):
ATGCAAATGATGAAATGTA
Found at i:4555572 original size:13 final size:13
Alignment explanation
Indices: 4555554--4555580 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4555544 TGGTTCAATT
4555554 CTTCACTAGAAAA
1 CTTCACTAGAAAA
4555567 CTTCACTAGAAAA
1 CTTCACTAGAAAA
4555580 C
1 C
4555581 AAATATCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.26, G:0.07, T:0.22
Consensus pattern (13 bp):
CTTCACTAGAAAA
Found at i:4558384 original size:29 final size:29
Alignment explanation
Indices: 4558351--4558406 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
4558341 ATATAGATCA
*
4558351 GATCAAATTAG-ACATTCTATTATTAAACG
1 GATCAAATTAGTAC-TTATATTATTAAACG
*
4558380 GATCAATTTAGTACTTATATTATTAAA
1 GATCAAATTAGTACTTATATTATTAAA
4558407 AATAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (29 bp):
GATCAAATTAGTACTTATATTATTAAACG
Found at i:4561030 original size:20 final size:20
Alignment explanation
Indices: 4561007--4561062 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
4560997 TCTCTCTCAA
4561007 CAAAAATTTTTAAAAAAATT
1 CAAAAATTTTTAAAAAAATT
* *
4561027 CAAAATAATTTT-CAAAAATT
1 CAAAA-ATTTTTAAAAAAATT
4561047 CAAAATAATTTTTAAA
1 C-AAA-AATTTTTAAA
4561063 TTTCAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
20 13 0.46
21 13 0.46
22 2 0.07
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (20 bp):
CAAAAATTTTTAAAAAAATT
Found at i:4561043 original size:19 final size:19
Alignment explanation
Indices: 4561020--4561090 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
4561010 AAATTTTTAA
4561020 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
4561039 CAAAAATTCAAAATAATTTT
1 -AAAAATTCAAAATAATTTT
* *
4561059 TAAATTTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
*
4561078 AAAAATCCAAAAT
1 AAAAATTCAAAAT
4561091 TTATATTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
18 4 0.09
19 22 0.49
20 19 0.42
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:4561145 original size:20 final size:19
Alignment explanation
Indices: 4561104--4561147 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
4561094 TATTTTTTAA
*
4561104 AAAAATTATAAGAAATTCT
1 AAAAATTATAAGAAAGTCT
4561123 AAAAATATATAAAGAAAGT-T
1 AAAAAT-TAT-AAGAAAGTCT
4561143 AAAAA
1 AAAAA
4561148 ATTAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 9 0.41
21 7 0.32
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (19 bp):
AAAAATTATAAGAAAGTCT
Found at i:4561149 original size:21 final size:19
Alignment explanation
Indices: 4561103--4561151 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
4561093 ATATTTTTTA
4561103 AAAAAATTATAAGAAATTC
1 AAAAAATTATAAGAAATTC
*
4561122 TAAAAATATATAAAGAAAGTT-
1 AAAAAAT-TAT-AAGAAA-TTC
4561143 AAAAAATTA
1 AAAAAATTA
4561152 AAAATTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 6 0.24
20 5 0.20
21 12 0.48
22 2 0.08
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (19 bp):
AAAAAATTATAAGAAATTC
Found at i:4567033 original size:34 final size:35
Alignment explanation
Indices: 4566989--4567055 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
4566979 CAGTAAAATA
* *
4566989 TTTTCCGTAAAATGATTT-CTTGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
4567023 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
4567056 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:4568353 original size:36 final size:35
Alignment explanation
Indices: 4568292--4568377 Score: 90
Period size: 36 Copynumber: 2.5 Consensus size: 35
4568282 TTTTAATTTT
*
4568292 ATTA-TTTTA-AAATATTATTAGATAAAA-TTTCAA
1 ATTATTTTTATAAATATTATTAAATAAAAGTTTC-A
*
4568325 ATTATTTTTATAAATATTTTTAAAATAAAAGTTTCA
1 ATTATTTTTATAAATATTATT-AAATAAAAGTTTCA
*
4568361 ATAACTTTTT-TAAATAT
1 ATTA-TTTTTATAAATAT
4568378 AATTTTTAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
33 4 0.09
34 5 0.11
35 9 0.20
36 18 0.40
37 9 0.20
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.49
Consensus pattern (35 bp):
ATTATTTTTATAAATATTATTAAATAAAAGTTTCA
Found at i:4572526 original size:16 final size:18
Alignment explanation
Indices: 4572494--4572526 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
4572484 TGTTTTTTTT
4572494 TTTACTGTTTAATAAGTA
1 TTTACTGTTTAATAAGTA
4572512 TTTACT-TTT-ATAAGT
1 TTTACTGTTTAATAAGT
4572527 TTTTGTTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (18 bp):
TTTACTGTTTAATAAGTA
Found at i:4573147 original size:35 final size:36
Alignment explanation
Indices: 4573097--4573164 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 36
4573087 ATTAAACTGC
*
4573097 ATTTTTTTTTGTAATTTTACAATTTCAAAGACTGGA
1 ATTTTTGTTTGTAATTTTACAATTTCAAAGACTGGA
*
4573133 ATTTTTGTTT-TAATTTTGCAATTTCAAAGACT
1 ATTTTTGTTTGTAATTTTACAATTTCAAAGACT
4573165 TTTTAACAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 21 0.70
36 9 0.30
ACGTcount: A:0.29, C:0.09, G:0.10, T:0.51
Consensus pattern (36 bp):
ATTTTTGTTTGTAATTTTACAATTTCAAAGACTGGA
Found at i:4579814 original size:29 final size:31
Alignment explanation
Indices: 4579782--4579840 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
4579772 AAACCTTTTA
4579782 TTTTCCCCCAAAA-TTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
4579811 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
4579841 TCCCACCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 12 0.46
30 9 0.35
31 5 0.19
ACGTcount: A:0.20, C:0.41, G:0.00, T:0.39
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:4581895 original size:22 final size:23
Alignment explanation
Indices: 4581870--4581930 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
4581860 ACATACTTAT
*
4581870 ATATATTCTTTATATTCTCA-AA
1 ATATATTCTTTATATTCACATAA
* * *
4581892 ATATTTTTTTTATAATTCACATAC
1 ATATATTCTTTAT-ATTCACATAA
4581916 ATATATTC-TTATATT
1 ATATATTCTTTATATT
4581931 ATTACAATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
22 14 0.45
23 10 0.32
24 7 0.23
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.54
Consensus pattern (23 bp):
ATATATTCTTTATATTCACATAA
Found at i:4582006 original size:24 final size:22
Alignment explanation
Indices: 4581961--4582006 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
4581951 ATACACACAC
* *
4581961 ATACTTACATTTTTATTTTATA
1 ATACTTACATTTTTAATATATA
4581983 ATACTTACAGATTTTTAATATATA
1 ATACTTAC--ATTTTTAATATATA
4582007 TATATTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
24 12 0.60
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.52
Consensus pattern (22 bp):
ATACTTACATTTTTAATATATA
Found at i:4582024 original size:26 final size:26
Alignment explanation
Indices: 4581995--4582049 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
4581985 ACTTACAGAT
4581995 TTTTAATA-TATATATATTTATATACA
1 TTTTAATACTATATA-ATTTATATACA
* * *
4582021 TTTTTATACTCTATAATTTATATGCA
1 TTTTAATACTATATAATTTATATACA
4582047 TTT
1 TTT
4582050 CTTATTTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (26 bp):
TTTTAATACTATATAATTTATATACA
Found at i:4582497 original size:107 final size:106
Alignment explanation
Indices: 4582310--4582627 Score: 453
Period size: 107 Copynumber: 3.0 Consensus size: 106
4582300 AGGTTTTTTC
* * * *
4582310 TAAATAAGACAATATTTCGTGTTTGGAAAATCGA-GAAAGGGTGCCCTAACGTGCTGGGTTTCGA
1 TAAATAAGGCAATATATCGCGTTTGGAAAATCGAGGAAA-CGTGCCCTAACGTGCTGGGTTTCGA
4582374 TTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
65 TTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
* * *
4582416 TAAAATAAGGCAATATATCACGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGTTGGGTTTCAA
1 T-AAATAAGGCAATATATCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGA
*
4582481 TTTCTCGCTT-GACCAAATAGCCAAATATCATTTTTAAAACTTT
65 TTTCTCG-TTCGACCAAATAGCCAAATATCCTTTTT-AAACTTT
* * *
4582524 TAAATAAGGCAATA-CTCGCGTTTGGAAAATCGAGGAGACGTGCCCTAACGTGCTGGGTTTTGAT
1 TAAATAAGGCAATATATCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGAT
* * *
4582588 TTCTCGTTCGACTAAATAGCCAAATATCCTCTTAAAACTT
66 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTT
4582628 CAAAGTATGG
Statistics
Matches: 189, Mismatches: 18, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
105 8 0.04
106 72 0.38
107 95 0.50
108 14 0.07
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (106 bp):
TAAATAAGGCAATATATCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGAT
TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
Found at i:4586117 original size:3 final size:3
Alignment explanation
Indices: 4586111--4586219 Score: 50
Period size: 3 Copynumber: 36.7 Consensus size: 3
4586101 GTAGTAGTAG
4586111 TAA TAA TAA TAA TAA TAA -AA GTAA TAA -AA GTAA TAA -AA GTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA -TAA TAA TAA -TAA TAA
* * * * * * *
4586156 -AA GTAA TAA -AGG TAA TAA TAC T-A TAG TAA TGA TGA CAT TAA TAA
1 TAA -TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
4586200 TAA TAA TAC TAT TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
4586220 TAAACAATAT
Statistics
Matches: 80, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
2 10 0.12
3 61 0.76
4 9 0.11
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:4586137 original size:18 final size:18
Alignment explanation
Indices: 4586114--4586173 Score: 95
Period size: 18 Copynumber: 3.3 Consensus size: 18
4586104 GTAGTAGTAA
4586114 TAATAATAA-TAATAAAAG
1 TAATAA-AAGTAATAAAAG
4586132 TAATAAAAGTAATAAAAG
1 TAATAAAAGTAATAAAAG
*
4586150 TAATAAAAGTAATAAAGG
1 TAATAAAAGTAATAAAAG
4586168 TAATAA
1 TAATAA
4586174 TACTATAGTA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
17 2 0.05
18 38 0.95
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (18 bp):
TAATAAAAGTAATAAAAG
Found at i:4586144 original size:27 final size:28
Alignment explanation
Indices: 4586114--4586175 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 28
4586104 GTAGTAGTAA
4586114 TAATAATAA-TAATAAAAGTAATAAAAG
1 TAATAATAAGTAATAAAAGTAATAAAAG
*
4586141 TAATAA-AAGTAATAAAAGTAATAAAGG
1 TAATAATAAGTAATAAAAGTAATAAAAG
4586168 TAATAATA
1 TAATAATA
4586176 CTATAGTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 2 0.06
27 29 0.91
28 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.26
Consensus pattern (28 bp):
TAATAATAAGTAATAAAAGTAATAAAAG
Found at i:4587795 original size:40 final size:41
Alignment explanation
Indices: 4587749--4587927 Score: 150
Period size: 40 Copynumber: 4.3 Consensus size: 41
4587739 CTGCAACGTC
*
4587749 AGGGAGATAAGACTTGATGCT-ATCTGCTCCACTACTGTTT
1 AGGGAGATAAGACTTGATGCTCATCTGCTCCACTACTGCTT
* * ** * *
4587789 AGGGAGACAAGATCTGTGGTTTTAATCTGCTCCACTGCAT-CTTT
1 AGGGAGATAAGA-CT-TGATGCTCATCTGCTCCACTAC-TGC-TT
* * * *
4587833 AAGGAGATAGGA-TTAGTTTCTTCCATCTGCTCCACTACTGCTT
1 AGGGAGATAAGACTT-GATGC-T-CATCTGCTCCACTACTGCTT
* *
4587876 AGGGAGATAAGACTTGAAGC-GATCTGCTCCACTACTGCTT
1 AGGGAGATAAGACTTGATGCTCATCTGCTCCACTACTGCTT
4587916 AGGGAGATAAGA
1 AGGGAGATAAGA
4587928 TCTGTGGTCT
Statistics
Matches: 110, Mismatches: 19, Indels: 20
0.74 0.13 0.13
Matches are distributed among these distances:
40 42 0.38
41 3 0.03
42 8 0.07
43 29 0.26
44 28 0.25
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.30
Consensus pattern (41 bp):
AGGGAGATAAGACTTGATGCTCATCTGCTCCACTACTGCTT
Found at i:4588057 original size:86 final size:86
Alignment explanation
Indices: 4587942--4588970 Score: 1632
Period size: 86 Copynumber: 12.0 Consensus size: 86
4587932 TGGTCTTCAG
* *
4587942 TCTGCTCCGCTGTTAACGTAGGAAGGCAAGATCTGTTTCTTTAACCAGCTCCACTGCAACCGATG
1 TCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
*
4588007 GAGGCAAGGCTTTGTTTTCAA
66 GAGGCAAGGCTTTGTTTTCGA
** ** *
4588028 TCTATTTCGCTGTTAACACAGGAATGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
1 TCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
*
4588093 GAGGGAAGGCTTTGTTTTCGA
66 GAGGCAAGGCTTTGTTTTCGA
* * *
4588114 TCTACTTCGTTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
1 TCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
4588179 GAGGCAAGGCTTTGTTTTCGA
66 GAGGCAAGGCTTTGTTTTCGA
* *
4588200 TCTGCTTCGTTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACAGATG
1 TCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
4588265 GAGGCAAGGCTTTGTTTTCGA
66 GAGGCAAGGCTTTGTTTTCGA
*
4588286 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
1 TCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
* *
4588351 GAGCCAAGGTTTTGTTTTCGA
66 GAGGCAAGGCTTTGTTTTCGA
4588372 TCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
1 TCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
* **
4588437 GAGGCAAGGCTTTATTTTTTTA
66 GAGGCAAGGCTTT-GTTTTCGA
*
4588459 TCTGCTTCGTTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
1 TCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
*
4588524 GAGGCAAGGCTTTGTTTTTGA
66 GAGGCAAGGCTTTGTTTTCGA
* *
4588545 TCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTGCAATCGATG
1 TCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
**
4588610 GAGGCAAGGCTTTGTTTTTTA
66 GAGGCAAGGCTTTGTTTTCGA
* *
4588631 TCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTGCAACCAATG
1 TCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
**
4588696 GAGGCAAGGCTTTGTTTTTAA
66 GAGGCAAGGCTTTGTTTTCGA
* *
4588717 TCTACTTTGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
1 TCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
4588782 GAGGCAAGGC-TTGTATCTTCGA
66 GAGGCAAGGCTTTGT-T-TTCGA
* * * * * *
4588804 CCTGCTTCGCTGCTAACGCAGTAAGGCAATATCTTCTTCTTTAACCAGCTCCACTGCAACCGATG
1 TCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
*
4588869 GAGGCAAGGCTTT-TTTT-TA
66 GAGGCAAGGCTTTGTTTTCGA
* * *
4588888 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTGCAATCGATG
1 TCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
4588953 GAGGCAAGGCTTTGTTTT
66 GAGGCAAGGCTTTGTTTT
4588971 TTATCTTCAC
Statistics
Matches: 879, Mismatches: 59, Indels: 11
0.93 0.06 0.01
Matches are distributed among these distances:
84 73 0.08
85 10 0.01
86 641 0.73
87 153 0.17
88 2 0.00
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (86 bp):
TCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
GAGGCAAGGCTTTGTTTTCGA
Found at i:4588227 original size:43 final size:42
Alignment explanation
Indices: 4588180--4588401 Score: 114
Period size: 43 Copynumber: 5.2 Consensus size: 42
4588170 CAACCGATGG
*
4588180 AGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAACGTAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACG-AGGA
* * ** * * * * *
4588223 AGGCAA-GATCTGCTTCTTTAACCAGCTCCACTG-CAACAGATGG-
1 AGGCAAGGCTTTG-TT-TTCGATCTGCTTCGCTGTTAAC-GA-GGA
4588266 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACG-AGGA
* * ** * * * * *
4588309 AGGCAA-GATCTGCTTCTTTAACCAGCTCCACTG-CAACCGATGG-
1 AGGCAAGGCTTTG-TT-TTCGATCTGCTTCGCTGTTAA-CGA-GGA
* *
4588352 AGCCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAACGTAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACG-AGGA
4588395 AGGCAAG
1 AGGCAAG
4588402 ATCTGCTTCT
Statistics
Matches: 124, Mismatches: 39, Indels: 32
0.64 0.20 0.16
Matches are distributed among these distances:
42 37 0.30
43 51 0.41
44 36 0.29
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (42 bp):
AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGAGGA
Found at i:4588598 original size:345 final size:344
Alignment explanation
Indices: 4587942--4588970 Score: 1704
Period size: 345 Copynumber: 3.0 Consensus size: 344
4587932 TGGTCTTCAG
* *
4587942 TCTGCTCCGCTGTTAACGTAGGAAGGCAAGATCTGTTTCTTTAACCAGCTCCACTGCAACCGATG
1 TCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
* ** *
4588007 GAGGCAAGGCTTTGTTTTCAATCTATTTCGCTGTTAACACAGGAATGCAAGATCTGCTTCTTTAA
66 GAGGCAAGGCTTTGTTTTCAATCTACTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAA
* * *
4588072 CCAGCTCCACTGCAACCGATGGAGGGAAGGCTTTGTTTTCGATCTACTTCGTTGTTAACGCAGGA
131 CCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTATTTTCGATCTGCTTCGTTGTTAACGCAGGA
*
4588137 AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATC
196 AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTTGATC
* *
4588202 TGCTTCGTTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAA-CAGATGG
261 TGCTTCGCTGTTAACGTAGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTGCAATC-GATGG
4588266 AGGCAAGGCTTTGTTTTCGA
325 AGGCAAGGCTTTGTTTTCGA
*
4588286 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
1 TCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
* * * *
4588351 GAGCCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAA
66 GAGGCAAGGCTTTGTTTTCAATCTACTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAA
** *
4588416 CCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTATTTTTTTATCTGCTTCGTTGTTAACGTAGG
131 CCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTA-TTTTCGATCTGCTTCGTTGTTAACGCAGG
4588481 AAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTTGAT
195 AAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTTGAT
4588546 CTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTGCAATCGATGG
260 CTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTGCAATCGATGG
**
4588611 AGGCAAGGCTTTGTTTTTTA
325 AGGCAAGGCTTTGTTTTCGA
* *
4588631 TCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTGCAACCAATG
1 TCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
* *
4588696 GAGGCAAGGCTTTGTTTTTAATCTACTTTGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAA
66 GAGGCAAGGCTTTGTTTTCAATCTACTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAA
* * * * *
4588761 CCAGCTCCACTGCAACCGATGGAGGCAAGGCTTGTATCTTCGACCTGCTTCGCTGCTAACGCAGT
131 CCAGCTCCACTGCAACCGATGGAGGCAAGGCTT-TATTTTCGATCTGCTTCGTTGTTAACGCAGG
* *
4588826 AAGGCAATATCTTCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTT-TTTTT-AT
195 AAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTTGAT
*
4588889 CTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTGCAATCGATGG
260 CTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTGCAATCGATGG
4588954 AGGCAAGGCTTTGTTTT
325 AGGCAAGGCTTTGTTTT
4588971 TTATCTTCAC
Statistics
Matches: 640, Mismatches: 42, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
343 83 0.13
344 157 0.25
345 397 0.62
346 3 0.00
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (344 bp):
TCTGCTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATG
GAGGCAAGGCTTTGTTTTCAATCTACTTCGCTGTTAACGTAGGAAGGCAAGATCTGCTTCTTTAA
CCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTATTTTCGATCTGCTTCGTTGTTAACGCAGGA
AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTTGATC
TGCTTCGCTGTTAACGTAGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTGCAATCGATGGA
GGCAAGGCTTTGTTTTCGA
Found at i:4590228 original size:7 final size:7
Alignment explanation
Indices: 4590216--4590249 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
4590206 TCCATTTTAC
4590216 TTTTCAT
1 TTTTCAT
4590223 TTTTCAT
1 TTTTCAT
4590230 TTTTCA-
1 TTTTCAT
4590236 TTTTCAT
1 TTTTCAT
4590243 TTTTCAT
1 TTTTCAT
4590250 CTCTCTCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTCAT
Found at i:4590232 original size:13 final size:13
Alignment explanation
Indices: 4590216--4590249 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
4590206 TCCATTTTAC
4590216 TTTTCATTTTTCAT
1 TTTTCA-TTTTCAT
4590230 TTTTCATTTTCAT
1 TTTTCATTTTCAT
4590243 TTTTCAT
1 TTTTCAT
4590250 CTCTCTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTCATTTTCAT
Found at i:4595847 original size:3 final size:3
Alignment explanation
Indices: 4595841--4595949 Score: 50
Period size: 3 Copynumber: 36.7 Consensus size: 3
4595831 GTAGTAGTAG
4595841 TAA TAA TAA TAA TAA TAA -AA GTAA TAA -AA GTAA TAA -AA GTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA -TAA TAA TAA -TAA TAA
* * * * * * *
4595886 -AA GTAA TAA -AGG TAA TAA TAC T-A TAG TAA TGA TGA CAT TAA TAA
1 TAA -TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
4595930 TAA TAA TAC TAT TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
4595950 TAAACAATAT
Statistics
Matches: 80, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
2 10 0.12
3 61 0.76
4 9 0.11
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:4595867 original size:18 final size:18
Alignment explanation
Indices: 4595844--4595903 Score: 95
Period size: 18 Copynumber: 3.3 Consensus size: 18
4595834 GTAGTAGTAA
4595844 TAATAATAA-TAATAAAAG
1 TAATAA-AAGTAATAAAAG
4595862 TAATAAAAGTAATAAAAG
1 TAATAAAAGTAATAAAAG
*
4595880 TAATAAAAGTAATAAAGG
1 TAATAAAAGTAATAAAAG
4595898 TAATAA
1 TAATAA
4595904 TACTATAGTA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
17 2 0.05
18 38 0.95
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (18 bp):
TAATAAAAGTAATAAAAG
Found at i:4595874 original size:27 final size:28
Alignment explanation
Indices: 4595844--4595905 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 28
4595834 GTAGTAGTAA
4595844 TAATAATAA-TAATAAAAGTAATAAAAG
1 TAATAATAAGTAATAAAAGTAATAAAAG
*
4595871 TAATAA-AAGTAATAAAAGTAATAAAGG
1 TAATAATAAGTAATAAAAGTAATAAAAG
4595898 TAATAATA
1 TAATAATA
4595906 CTATAGTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 2 0.06
27 29 0.91
28 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.26
Consensus pattern (28 bp):
TAATAATAAGTAATAAAAGTAATAAAAG
Found at i:4597488 original size:15 final size:14
Alignment explanation
Indices: 4597458--4597496 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
4597448 AATTTAATCA
4597458 TATT-TTAACATAAT
1 TATTATTAA-ATAAT
4597472 TATTATTAAATATAT
1 TATTATTAAATA-AT
4597487 TATTATTAAA
1 TATTATTAAA
4597497 AAATATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (14 bp):
TATTATTAAATAAT
Found at i:4597633 original size:16 final size:18
Alignment explanation
Indices: 4597598--4597633 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4597588 AATTATTAGT
*
4597598 AAATATATTTTAATTAAA
1 AAATATAATTTAATTAAA
4597616 AAATATAATTTAA-TAAA
1 AAATATAATTTAATTAAA
4597633 A
1 A
4597634 TTCTTAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATATAATTTAATTAAA
Found at i:4597710 original size:120 final size:119
Alignment explanation
Indices: 4597461--4597755 Score: 495
Period size: 120 Copynumber: 2.5 Consensus size: 119
4597451 TTAATCATAT
4597461 TTTAACATAATTATTATTAAATATATTATT-ATTAAAAAATATAATTTAATAAAATTCTTAATAA
1 TTTAACATAATTATTATTAAATATATT-TTAATTAAAAAATATAATTTAATAAAATTCTTAATAA
*
4597525 TCAATATTCTTAATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
65 TCAATATTCTTAATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
* *
4597580 TTTAACATAATTATTAGTAAATATATTTTAATTAAAAAATATAATTTAATAAAATTCTTAATCAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAAAATATAATTTAATAAAATTCTTAATAAT
4597645 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTA-ATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
* * *
4597700 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAAAATATAATTTAATAAAATT
4597756 TAAAATAATT
Statistics
Matches: 166, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
118 2 0.01
119 71 0.43
120 91 0.55
121 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (119 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAAAATATAATTTAATAAAATTCTTAATAAT
CAATATTCTTAATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
Found at i:4597754 original size:59 final size:58
Alignment explanation
Indices: 4597556--4597744 Score: 157
Period size: 59 Copynumber: 3.2 Consensus size: 58
4597546 CTCAAATCAT
*
4597556 AATATATGATACTATAAAATATAATTTAACATAATTATTAGTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTTAA-ATAATTATTATTAAATATATTTTAATTAA
* * * * * * * * * * ** * *
4597615 AAAATATAAT-TTAATAAAATTCTTAATCATCAAT-ATTCTTATATGAATTTACTAAAATCAT
1 AATATATGATACT-ATAAAA-T-ATAAT-TTAAATAATTATTAT-TAAATATATTTTAATTAA
*
4597676 AATATATGATACTATAAAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTATTATTAAATATATTTTAATTAA
4597735 AATATATGAT
1 AATATATGAT
4597745 TTAATAAAAT
Statistics
Matches: 92, Mismatches: 30, Indels: 16
0.67 0.22 0.12
Matches are distributed among these distances:
58 2 0.02
59 42 0.46
60 14 0.15
61 31 0.34
62 3 0.03
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTATTATTAAATATATTTTAATTAA
Found at i:4597848 original size:73 final size:73
Alignment explanation
Indices: 4597771--4597907 Score: 229
Period size: 73 Copynumber: 1.9 Consensus size: 73
4597761 TAATTATAAC
* * *
4597771 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTCATAAA
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAA
4597836 ATTCTTGA
66 ATTCTTGA
* *
4597844 TAATAATTTTTCTTATATGAATTTATATCATTTAAAATAATTAATATTAAATATAATTTAATAA
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAA
4597908 TGATATATAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 59 1.00
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (73 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAA
ATTCTTGA
Found at i:4597883 original size:34 final size:34
Alignment explanation
Indices: 4597772--4597885 Score: 104
Period size: 34 Copynumber: 3.2 Consensus size: 34
4597762 AATTATAACT
* *
4597772 AATAAATTTTCTTATATGAATTTGTATAATTTAA
1 AATAATTTTTCTTATATGAATTTATATAATTTAA
* * * *
4597806 AATAATTATTATTAAATAT-AATTTCATAAAATTCTTGAT
1 AATAATTTTTCTT--ATATGAATTT-ATATAA-T-TT-AA
*
4597845 AATAATTTTTCTTATATGAATTTATATCATTTAA
1 AATAATTTTTCTTATATGAATTTATATAATTTAA
4597879 AATAATT
1 AATAATT
4597886 AATATTAAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
34 18 0.29
35 7 0.11
36 9 0.15
37 9 0.15
38 7 0.11
39 12 0.19
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (34 bp):
AATAATTTTTCTTATATGAATTTATATAATTTAA
Found at i:4597915 original size:44 final size:44
Alignment explanation
Indices: 4597867--4598011 Score: 161
Period size: 44 Copynumber: 3.2 Consensus size: 44
4597857 TATATGAATT
*
4597867 TATATCATTTAAAATAATTAATATTAAATATAATTTAATAATGA
1 TATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGA
* * * * *
4597911 TATATAATTTCATAAAATTATTGATAATAAAT-T-TTCTTATATGAAT-T
1 TATATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATGA
4597958 TATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGA
1 TATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGA
4598002 TATATAATTT
1 TATATAATTT
4598012 CATAAAATTA
Statistics
Matches: 81, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
43 3 0.04
44 35 0.43
45 7 0.09
46 7 0.09
47 26 0.32
48 3 0.04
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (44 bp):
TATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGA
Found at i:4597922 original size:91 final size:91
Alignment explanation
Indices: 4597821--4598050 Score: 406
Period size: 91 Copynumber: 2.5 Consensus size: 91
4597811 TTATTATTAA
* * *
4597821 ATATAATTTCATAAAATTCTTGATAATAATTTTTCTTATATGAATTTATATCATTTAAAATAATT
1 ATATAATTTCATAAAATTATTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATT
4597886 AATATTAAATATAATTTAATAATGAT
66 AATATTAAATATAATTTAATAATGAT
4597912 ATATAATTTCATAAAATTATTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATT
1 ATATAATTTCATAAAATTATTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATT
4597977 AATATTAAATATAATTTAATAATGAT
66 AATATTAAATATAATTTAATAATGAT
* * *
4598003 ATATAATTTCATAAAATTATTAATAATAAATGTTCTTATATAAATTTA
1 ATATAATTTCATAAAATTATTGATAATAAATTTTCTTATATGAATTTA
4598051 CTAAAATCAT
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 133 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
ATATAATTTCATAAAATTATTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATT
AATATTAAATATAATTTAATAATGAT
Found at i:4597962 original size:47 final size:46
Alignment explanation
Indices: 4597821--4598050 Score: 183
Period size: 47 Copynumber: 5.0 Consensus size: 46
4597811 TTATTATTAA
* * *
4597821 ATATAATTTCATAAAATTCTTGATAATAATTTTTCTTATATGAATTT
1 ATATAATTTCATAAAATTATTAATAATAAATTTTCTTATAT-AATTT
* * * * *
4597868 ATATCA-TT--TAAAATAATTAATATTAAATATAAT-TTA-ATAATGAT
1 ATATAATTTCATAAAATTATTAATAATAAAT-T-TTCTTATATAAT-TT
*
4597912 ATATAATTTCATAAAATTATTGATAATAAATTTTCTTATATGAATTT
1 ATATAATTTCATAAAATTATTAATAATAAATTTTCTTATAT-AATTT
* * * *
4597959 ATATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-ATAATGAT
1 ATATAATTTCATAAAATTATTAATAATAAAT-T-TTCTTATATAAT-TT
*
4598003 ATATAATTTCATAAAATTATTAATAATAAATGTTCTTATATAAATTT
1 ATATAATTTCATAAAATTATTAATAATAAATTTTCTTATAT-AATTT
4598050 A
1 A
4598051 CTAAAATCAT
Statistics
Matches: 141, Mismatches: 24, Indels: 36
0.70 0.12 0.18
Matches are distributed among these distances:
43 6 0.04
44 49 0.35
45 14 0.10
46 13 0.09
47 53 0.38
48 6 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (46 bp):
ATATAATTTCATAAAATTATTAATAATAAATTTTCTTATATAATTT
Found at i:4600933 original size:51 final size:50
Alignment explanation
Indices: 4600873--4601035 Score: 138
Period size: 51 Copynumber: 3.2 Consensus size: 50
4600863 GAAGTCAATG
4600873 CACTAACAAGTCAGTGATTCGAATCTGCTTACATGCAGAAAAAACAAAAGA
1 CACTAACAAG-CAGTGATTCGAATCTGCTTACATGCAGAAAAAACAAAAGA
** * * * *
4600924 CACTAACAAGGCAGCCAAT-GAAACT-CATTACA-G-AGAGAAAAAGAGAGTTAGA
1 CACTAACAA-GCAGTGATTCGAATCTGC-TTACATGCAGA-AAAAACA-A--AAGA
* * *
4600976 AACATTA-AAGCAGTGATTCGAATCTGCTTACATGCAAAAAAAACAAAAGA
1 CAC-TAACAAGCAGTGATTCGAATCTGCTTACATGCAGAAAAAACAAAAGA
4601026 CACTAACAAG
1 CACTAACAAG
4601036 GCAGCCAATG
Statistics
Matches: 83, Mismatches: 17, Indels: 25
0.66 0.14 0.20
Matches are distributed among these distances:
48 3 0.04
49 10 0.12
50 19 0.23
51 20 0.24
52 19 0.23
53 10 0.12
54 2 0.02
ACGTcount: A:0.48, C:0.18, G:0.17, T:0.17
Consensus pattern (50 bp):
CACTAACAAGCAGTGATTCGAATCTGCTTACATGCAGAAAAAACAAAAGA
Found at i:4600963 original size:50 final size:50
Alignment explanation
Indices: 4600909--4601067 Score: 139
Period size: 50 Copynumber: 3.1 Consensus size: 50
4600899 GCTTACATGC
4600909 AGAAAAAACAAAAGACACTAACAAGGCAGCCAATGAAACTCATTACAGAG
1 AGAAAAAACAAAAGACACTAACAAGGCAGCCAATGAAACTCATTACAGAG
* ** * * ** * *
4600959 AGAAAAAGAGAGTTAGAAACATTA-AA-GCAGTGATTCGAATCTGC-TTACATGCA-
1 AGAAAAA-ACA-AAAGACAC-TAACAAGGCAGCCAAT-GAAACT-CATTACA-G-AG
4601012 A-AAAAAACAAAAGACACTAACAAGGCAGCCAATGAAACTCATTACAGAG
1 AGAAAAAACAAAAGACACTAACAAGGCAGCCAATGAAACTCATTACAGAG
4601061 AGAAAAA
1 AGAAAAA
4601068 TAGAGTTAGA
Statistics
Matches: 79, Mismatches: 18, Indels: 24
0.65 0.15 0.20
Matches are distributed among these distances:
48 1 0.01
49 5 0.06
50 29 0.37
51 16 0.20
52 22 0.28
53 5 0.06
54 1 0.01
ACGTcount: A:0.52, C:0.17, G:0.17, T:0.14
Consensus pattern (50 bp):
AGAAAAAACAAAAGACACTAACAAGGCAGCCAATGAAACTCATTACAGAG
Found at i:4601060 original size:102 final size:102
Alignment explanation
Indices: 4600884--4601091 Score: 398
Period size: 102 Copynumber: 2.0 Consensus size: 102
4600874 ACTAACAAGT
*
4600884 CAGTGATTCGAATCTGCTTACATGCAGAAAAAACAAAAGACACTAACAAGGCAGCCAATGAAACT
1 CAGTGATTCGAATCTGCTTACATGCAAAAAAAACAAAAGACACTAACAAGGCAGCCAATGAAACT
4600949 CATTACAGAGAGAAAAAGAGAGTTAGAAACATTAAAG
66 CATTACAGAGAGAAAAAGAGAGTTAGAAACATTAAAG
4600986 CAGTGATTCGAATCTGCTTACATGCAAAAAAAACAAAAGACACTAACAAGGCAGCCAATGAAACT
1 CAGTGATTCGAATCTGCTTACATGCAAAAAAAACAAAAGACACTAACAAGGCAGCCAATGAAACT
*
4601051 CATTACAGAGAGAAAAATAGAGTTAGAAACATTAAAG
66 CATTACAGAGAGAAAAAGAGAGTTAGAAACATTAAAG
4601088 CAGT
1 CAGT
4601092 TTGAGAGCAA
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 104 1.00
ACGTcount: A:0.48, C:0.17, G:0.18, T:0.17
Consensus pattern (102 bp):
CAGTGATTCGAATCTGCTTACATGCAAAAAAAACAAAAGACACTAACAAGGCAGCCAATGAAACT
CATTACAGAGAGAAAAAGAGAGTTAGAAACATTAAAG
Found at i:4601067 original size:52 final size:52
Alignment explanation
Indices: 4600911--4601067 Score: 130
Period size: 52 Copynumber: 3.1 Consensus size: 52
4600901 TTACATGCAG
4600911 AAAAAACAAAAGACACTAACAAGGCAGCCAATGAAACTCATTACAGAGAGAA
1 AAAAAACAAAAGACACTAACAAGGCAGCCAATGAAACTCATTACAGAGAGAA
** * * ** * * * *
4600963 AAAGAGAGTTAGAA-ACA-TTA-AA-GCAGTGATTCGAATCTGC-TTACA-TG-CAA
1 AAA-A-A-ACAAAAGACACTAACAAGGCAGCCAAT-GAAACT-CATTACAGAGAGAA
4601013 AAAAAACAAAAGACACTAACAAGGCAGCCAATGAAACTCATTACAGAGAGAA
1 AAAAAACAAAAGACACTAACAAGGCAGCCAATGAAACTCATTACAGAGAGAA
4601065 AAA
1 AAA
4601068 TAGAGTTAGA
Statistics
Matches: 73, Mismatches: 20, Indels: 24
0.62 0.17 0.21
Matches are distributed among these distances:
47 3 0.04
48 4 0.05
49 4 0.05
50 17 0.23
51 14 0.19
52 20 0.27
53 4 0.05
54 4 0.05
55 3 0.04
ACGTcount: A:0.52, C:0.17, G:0.17, T:0.14
Consensus pattern (52 bp):
AAAAAACAAAAGACACTAACAAGGCAGCCAATGAAACTCATTACAGAGAGAA
Found at i:4605485 original size:38 final size:36
Alignment explanation
Indices: 4605405--4605492 Score: 90
Period size: 36 Copynumber: 2.4 Consensus size: 36
4605395 CGTATACATA
* * *
4605405 TTTATATATATACGTACATAAATTTTTTAATTTATT
1 TTTATATATATACATACATAAATTATTTAATATATT
* * *
4605441 TGTATATATATACATACTTATATATTATTT-ATATACT
1 TTTATATATATACATAC--ATAAATTATTTAATATATT
4605478 TTT-TATATATACATA
1 TTTATATATATACATA
4605493 TATGTGTACA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
36 27 0.63
37 7 0.16
38 9 0.21
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (36 bp):
TTTATATATATACATACATAAATTATTTAATATATT
Found at i:4608108 original size:20 final size:20
Alignment explanation
Indices: 4608083--4608121 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
4608073 AGATTCAGCA
4608083 GTATTATAT-TTATTGTTATT
1 GTATTAT-TGTTATTGTTATT
4608103 GTATTATTGTTATTGTTAT
1 GTATTATTGTTATTGTTAT
4608122 ATTGTTACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.64
Consensus pattern (20 bp):
GTATTATTGTTATTGTTATT
Found at i:4608111 original size:14 final size:13
Alignment explanation
Indices: 4608091--4608128 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
4608081 CAGTATTATA
4608091 TTTATTGTTATTG
1 TTTATTGTTATTG
4608104 TATTATTGTTATTG
1 T-TTATTGTTATTG
4608118 TTATATTGTTA
1 TT-TATTGTTA
4608129 CTTGCGTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 21 0.91
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (13 bp):
TTTATTGTTATTG
Found at i:4611776 original size:12 final size:12
Alignment explanation
Indices: 4611754--4611788 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
4611744 TTCACTTGAA
4611754 AAAAAATGAAAAG
1 AAAAAA-GAAAAG
4611767 AAAAAAGAAAAG
1 AAAAAAGAAAAG
4611779 AAAAGAAGAA
1 AAAA-AAGAA
4611789 CGAAAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:4611781 original size:17 final size:17
Alignment explanation
Indices: 4611752--4611800 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
4611742 ACTTCACTTG
*
4611752 AAAAA-AAATGAAAAGA
1 AAAAAGAAAAGAAAAGA
4611768 AAAAAGAAAAGAAAAGA
1 AAAAAGAAAAGAAAAGA
* *
4611785 AGAACGAAAAGAAAAG
1 AAAAAGAAAAGAAAAG
4611801 GAGAGGCCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 5 0.17
17 24 0.83
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (17 bp):
AAAAAGAAAAGAAAAGA
Done.