Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008959.1 Hibiscus syriacus cultivar Beakdansim tig00112293_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4521124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 21
Found at i:2103495 original size:35 final size:35
Alignment explanation
Indices: 2103420--2103639 Score: 166
Period size: 35 Copynumber: 6.1 Consensus size: 35
2103410 TAGTTAATGT
*
2103420 TTTTGAAAACTTATATACAATATATAAGTTTT-AAAACA
1 TTTTGAAAAC-TATAT--AATATAT-ATTTTTAAAAACA
** * *
2103458 TTTTGAAAGTTATATAATATATATTTTTGAAATCA
1 TTTTGAAAACTATATAATATATATTTTTAAAAACA
*
2103493 TTTTG-AAA--ATATAATGTATAGTTTTTAAAAAAACA
1 TTTTGAAAACTATATAATATATA-TTTTT--AAAAACA
* *
2103528 TTTTTGAAAAATTTATATAATATATAGTTTTAAAAAACA
1 -TTTTG-AAAA-CTATATAATATATA-TTTTTAAAAACA
*
2103567 TTTTGAAAAACT-TAT-AT-TATATTTTTAAAATCA
1 TTTTG-AAAACTATATAATATATATTTTTAAAAACA
** *
2103600 TTTTTGAAAACTATATAATATATAGCTTTGAAAACA
1 -TTTTGAAAACTATATAATATATATTTTTAAAAACA
2103636 TTTT
1 TTTT
2103640 AAGTATAATA
Statistics
Matches: 151, Mismatches: 17, Indels: 31
0.76 0.09 0.16
Matches are distributed among these distances:
32 11 0.07
33 21 0.14
34 19 0.13
35 30 0.20
36 20 0.13
37 6 0.04
38 21 0.14
39 7 0.05
41 16 0.11
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (35 bp):
TTTTGAAAACTATATAATATATATTTTTAAAAACA
Found at i:2103593 original size:34 final size:34
Alignment explanation
Indices: 2103439--2103639 Score: 121
Period size: 36 Copynumber: 5.7 Consensus size: 34
2103429 CTTATATACA
* **
2103439 ATATATA-AGTTTT-AAAACA-TTTTGAAAGTTAT
1 ATATATATATTTTTAAAAACATTTTTGAAAACT-T
* *
2103471 ATAATATATATTTTTGAAATCA-TTTTGAAAA--T
1 AT-ATATATATTTTTAAAAACATTTTTGAAAACTT
* *
2103503 ATAATGTATAGTTTTTAAAAAAACATTTTTGAAAAATTT
1 AT-ATATATA-TTTTT--AAAAACATTTTTG-AAAACTT
2103542 ATATAATATATAGTTTTAAAAAACA-TTTTGAAAAACTT
1 ATAT-ATATAT--TTTT-AAAAACATTTTTG-AAAACTT
*
2103580 ATAT-TATATTTTTAAAATCATTTTTGAAAACTAT
1 ATATATATATTTTTAAAAACATTTTTGAAAACT-T
** *
2103614 ATAATATATAGCTTTGAAAACATTTT
1 AT-ATATATATTTTTAAAAACATTTT
2103640 AAGTATAATA
Statistics
Matches: 139, Mismatches: 13, Indels: 30
0.76 0.07 0.16
Matches are distributed among these distances:
32 12 0.09
33 22 0.16
34 17 0.12
35 20 0.14
36 26 0.19
37 4 0.03
38 19 0.14
39 15 0.11
40 4 0.03
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.44
Consensus pattern (34 bp):
ATATATATATTTTTAAAAACATTTTTGAAAACTT
Found at i:2103649 original size:30 final size:30
Alignment explanation
Indices: 2103613--2103669 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
2103603 TTGAAAACTA
*
2103613 TATAATATATAGCTTTGAAAACATTTTAAG
1 TATAATATATAGCTTTAAAAACATTTTAAG
* *
2103643 TATAATATATAGTTTTAAAAATATTTT
1 TATAATATATAGCTTTAAAAACATTTT
2103670 TTATATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.46
Consensus pattern (30 bp):
TATAATATATAGCTTTAAAAACATTTTAAG
Found at i:2103682 original size:30 final size:29
Alignment explanation
Indices: 2103611--2103683 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
2103601 TTTTGAAAAC
*
2103611 TATATAATATATAGCTTTGAAAACATTTT
1 TATATAATATATAGCTTTAAAAACATTTT
* * *
2103640 AAGTATAATATATAGTTTTAAAAATATTTTT
1 TA-TATAATATATAGCTTTAAAAACA-TTTT
*
2103671 TATATATTATATA
1 TATATAATATATA
2103684 CGCTATTATT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 1 0.03
30 30 0.83
31 5 0.14
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (29 bp):
TATATAATATATAGCTTTAAAAACATTTT
Found at i:2103695 original size:3 final size:3
Alignment explanation
Indices: 2103687--2103714 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2103677 TTATATACGC
2103687 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2103715 TCTTTTCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2106702 original size:19 final size:19
Alignment explanation
Indices: 2106668--2106712 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
2106658 ATTTAGACAT
2106668 TTTGCA-TTTCTTATTTTC
1 TTTGCATTTTCTTATTTTC
*
2106686 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTCTTATTTTC
2106705 TTTGCATT
1 TTTGCATT
2106713 CACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.67
Consensus pattern (19 bp):
TTTGCATTTTCTTATTTTC
Found at i:2110548 original size:164 final size:164
Alignment explanation
Indices: 2110114--2111878 Score: 2991
Period size: 164 Copynumber: 10.8 Consensus size: 164
2110104 ACCTGCCACC
2110114 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
*
2110179 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTGCAG
66 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
* * * * * ** *
2110244 CTTAGCTCAAGGCCAGAAGGGCTACCTGCCA-CC
131 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
2110277 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
2110342 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
2110407 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
131 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
2110441 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
2110506 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
2110571 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
131 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
*
2110605 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
2110670 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
2110735 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
131 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
* * *
2110769 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTTCAGAATAGCTTAAGTCAAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
* *
2110834 AAAGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTGCAG
66 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
* * * * * ** *
2110899 CTTAGCTCAAGGCCAGAAGGGCTACCTGCCA-CC
131 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
2110932 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
2110997 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
2111062 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
131 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
*
2111096 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
2111161 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
2111226 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
131 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
* * *
2111260 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTTCAGAATAGCTTAAGTCAAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
* *
2111325 AAAGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTGCAG
66 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
* * * * * ** *
2111390 CTTAGCTCAAGGCCAGAAGGGCTACCTGCCA-CC
131 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
2111423 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
*
2111488 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTGCAG
66 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
* * * * * ** *
2111553 CTTAGCTCAAGGCCAGAAGGGCTACCTGCCA-CC
131 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
2111586 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
*
2111651 AAGGGCTATCTGCCAATGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
*
2111716 CATAACTCAAGGCTGGAAGGGTTATCTGTTAGCA
131 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
* *
2111750 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATATGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
* * * * *
2111815 AAGGGCTATCTGCCAAAGACTCC-CGAGTTCGATTACACTCAACTTCGAGGTCATATCATTTACA
66 AAGGGCTATCTGCCAAAGAC-CCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACA
2111879 TAGCTCATGG
Statistics
Matches: 1527, Mismatches: 71, Indels: 7
0.95 0.04 0.00
Matches are distributed among these distances:
163 614 0.40
164 911 0.60
165 2 0.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (164 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
Found at i:2111036 original size:491 final size:491
Alignment explanation
Indices: 2110114--2111900 Score: 3073
Period size: 491 Copynumber: 3.6 Consensus size: 491
2110104 ACCTGCCACC
2110114 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
*
2110179 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTGCAG
66 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
* * * * * ** *
2110244 CTTAGCTCAAGGCCAGAAGGGCTACCTGCCA-CCAAGACCTTCGAGTTCGACTACGCTCAGCTCC
131 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
* *
2110308 AAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCG
196 AAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAAGGCTATCTGCCAAAGACCCTCAAGTTCG
* * * * * **
2110373 ATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTA
261 ATTACACTCAGCTTCAAGGGCATAACATTTGCAGCATAGCTCAAGGCCAGAAGGGCTACCTGCCA
*
2110438 GCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTC
326 -CCAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTC
2110503 GAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTA
390 GAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTA
2110568 CAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
455 CAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
*
2110605 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
2110670 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
*
2110735 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAGCTCC
131 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
*
2110800 AAGGCACATCATTTTCAGAATAGCTTAAGTCAAGAAAGGCTATCTGCCAAAGACCCTCAAGTTCG
196 AAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAAGGCTATCTGCCAAAGACCCTCAAGTTCG
*
2110865 ATTACACTCAGCTTCAAGGGCATAACATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTACCTGCCA
261 ATTACACTCAGCTTCAAGGGCATAACATTTGCAGCATAGCTCAAGGCCAGAAGGGCTACCTGCCA
2110930 CCAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCG
326 CCAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCG
2110995 AGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTAC
391 AGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTAC
2111060 AGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
456 AGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
*
2111096 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
2111161 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
*
2111226 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAGCTCC
131 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
*
2111291 AAGGCACATCATTTTCAGAATAGCTTAAGTCAAGAAAGGCTATCTGCCAAAGACCCTCAAGTTCG
196 AAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAAGGCTATCTGCCAAAGACCCTCAAGTTCG
*
2111356 ATTACACTCAGCTTCAAGGGCATAACATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTACCTGCCA
261 ATTACACTCAGCTTCAAGGGCATAACATTTGCAGCATAGCTCAAGGCCAGAAGGGCTACCTGCCA
2111421 CCAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCG
326 CCAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCG
*
2111486 AGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTGC
391 AGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTAC
* * * * * ** *
2111551 AGCTTAGCTCAAGGCCAGAAGGGCTACCTGCCA-CC
456 AGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
2111586 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
*
2111651 AAGGGCTATCTGCCAATGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
*
2111716 CATAACTCAAGGCTGGAAGGGTTATCTGTTAGCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
131 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
* * * * *
2111781 AAGGCACATCATATGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACTCC-CGAGTTC
196 AAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAAGGCTATCTGCCAAAGAC-CCTCAAGTTC
* * * * * *
2111845 GATTACACTCAACTTCGAGGTCATATCATTT--A-CATAGCTCATGGCAAGAAGGGCTA
260 GATTACACTCAGCTTCAAGGGCATAACATTTGCAGCATAGCTCAAGGCCAGAAGGGCTA
2111901 TTTGTCAATA
Statistics
Matches: 1245, Mismatches: 49, Indels: 8
0.96 0.04 0.01
Matches are distributed among these distances:
487 21 0.02
488 1 0.00
490 274 0.22
491 799 0.64
492 150 0.12
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (491 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
AAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAAGGCTATCTGCCAAAGACCCTCAAGTTCG
ATTACACTCAGCTTCAAGGGCATAACATTTGCAGCATAGCTCAAGGCCAGAAGGGCTACCTGCCA
CCAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCG
AGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTAC
AGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
Found at i:2111104 original size:327 final size:327
Alignment explanation
Indices: 2110114--2111900 Score: 3071
Period size: 327 Copynumber: 5.5 Consensus size: 327
2110104 ACCTGCCACC
2110114 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
2110179 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTGCAG
66 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTGCAG
*
2110244 CTTAGCTCAAGGCCAGAAGGGCTACCTGCCACCAAGACCTTCGAGTTCGACTACGCTCAGCTCCA
131 CATAGCTCAAGGCCAGAAGGGCTACCTGCCACCAAGACCTTCGAGTTCGACTACGCTCAGCTCCA
2110309 AGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGA
196 AGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGA
2110374 TTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAG
261 TTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAG
2110439 CA
326 CA
2110441 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
*
2110506 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTGCAG
* * * * ** * *
2110571 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAGCTCC
131 CATAGCTCAAGGCCAGAAGGGCTACCTGCCA-CCAAGACCTTCGAGTTCGACTACGCTCAGCTCC
2110636 AAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCG
195 AAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCG
2110701 ATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTA
260 ATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTA
2110766 GCA
325 GCA
* * *
2110769 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTTCAGAATAGCTTAAGTCAAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
*
2110834 AAAGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTGCAG
66 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTGCAG
*
2110899 CTTAGCTCAAGGCCAGAAGGGCTACCTGCCACCAAGACCTTCGAGTTCGACTACGCTCAGCTCCA
131 CATAGCTCAAGGCCAGAAGGGCTACCTGCCACCAAGACCTTCGAGTTCGACTACGCTCAGCTCCA
2110964 AGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGA
196 AGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGA
2111029 TTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAG
261 TTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAG
2111094 CA
326 CA
*
2111096 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
*
2111161 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTGCAG
* * * * ** * *
2111226 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAGCTCC
131 CATAGCTCAAGGCCAGAAGGGCTACCTGCCA-CCAAGACCTTCGAGTTCGACTACGCTCAGCTCC
* * *
2111291 AAGGCACATCATTTTCAGAATAGCTTAAGTCAAGAAAGGCTATCTGCCAAAGACCCTCAAGTTCG
195 AAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCG
* * * * * * **
2111356 ATTACACTCAGCTTCAAGGGCATAACATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTACCTGCCA
260 ATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTA
*
2111421 -CC
325 GCA
2111423 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
2111488 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTGCAG
66 AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTGCAG
*
2111553 CTTAGCTCAAGGCCAGAAGGGCTACCTGCCACCAAGACCTTCGAGTTCGACTACGCTCAGCTCCA
131 CATAGCTCAAGGCCAGAAGGGCTACCTGCCACCAAGACCTTCGAGTTCGACTACGCTCAGCTCCA
*
2111618 AGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAATGACCCTCAAGTTCGA
196 AGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGA
*
2111683 TTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTGGAAGGGTTATCTGTTAG
261 TTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAG
2111748 CA
326 CA
* *
2111750 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATATGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
* * * * *
2111815 AAGGGCTATCTGCCAAAGACTCC-CGAGTTCGATTACACTCAACTTCGAGGTCATATCATTT--A
66 AAGGGCTATCTGCCAAAGAC-CCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTGCA
* *
2111877 -CATAGCTCATGGCAAGAAGGGCTA
130 GCATAGCTCAAGGCCAGAAGGGCTA
2111901 TTTGTCAATA
Statistics
Matches: 1372, Mismatches: 84, Indels: 11
0.94 0.06 0.01
Matches are distributed among these distances:
324 21 0.02
325 1 0.00
326 148 0.11
327 737 0.54
328 465 0.34
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (327 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
AAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTGCAG
CATAGCTCAAGGCCAGAAGGGCTACCTGCCACCAAGACCTTCGAGTTCGACTACGCTCAGCTCCA
AGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGA
TTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAG
CA
Found at i:2112405 original size:38 final size:36
Alignment explanation
Indices: 2112363--2112577 Score: 179
Period size: 38 Copynumber: 6.1 Consensus size: 36
2112353 TAGTTAATGT
2112363 TTTTGAAAACTTATATACAATATATAAGTTTT-AAAACA
1 TTTTGAAAACTTATAT--AATATAT-AGTTTTAAAAACA
* * *
2112401 TTTTG-AAAGTTATAT-ATATAT--TTTTGAAATCA
1 TTTTGAAAACTTATATAATATATAGTTTTAAAAACA
*
2112433 TTTTG-AAA---ATATAATGTATAGTTTTTAAAAAACA
1 TTTTGAAAACTTATATAATATATAG-TTTT-AAAAACA
*
2112467 TTTTGAAAAATTTATATAATATATAGTTTTAAAAAACA
1 TTTTG-AAAACTTATATAATATATAGTTTT-AAAAACA
*
2112505 TTTTGAAAAACTTATAT--TATAT--TTTTAAAATCA
1 TTTTG-AAAACTTATATAATATATAGTTTTAAAAACA
* *
2112538 TTTTTGAAAAC-TATATAATATATAGCTTTGAAAACA
1 -TTTTGAAAACTTATATAATATATAGTTTTAAAAACA
2112574 TTTT
1 TTTT
2112578 TAAGTATAAT
Statistics
Matches: 150, Mismatches: 11, Indels: 35
0.77 0.06 0.18
Matches are distributed among these distances:
29 4 0.03
30 5 0.03
31 4 0.03
32 18 0.12
33 15 0.10
34 30 0.20
35 4 0.03
36 16 0.11
37 9 0.06
38 33 0.22
39 12 0.08
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (36 bp):
TTTTGAAAACTTATATAATATATAGTTTTAAAAACA
Found at i:2112420 original size:34 final size:33
Alignment explanation
Indices: 2112363--2112601 Score: 165
Period size: 38 Copynumber: 6.9 Consensus size: 33
2112353 TAGTTAATGT
2112363 TTTTGAAAACTTATATACAATATATAAGTTTTAAAACA
1 TTTTGAAAA-TTATAT---ATATAT-AGTTTTAAAACA
* *
2112401 TTTTGAAAGTTATATATATAT--TTTTGAAATCA
1 TTTTGAAAATTATATATATATAGTTTT-AAAACA
*
2112433 TTTTGAAAA-TATA-ATGTATAGTTTTTAAAAAACA
1 TTTTGAAAATTATATATATATAG-TTTT--AAAACA
2112467 TTTTGAAAAATTTATATAATATATAGTTTTAAAAAACA
1 TTTTG-AAAA-TTATAT-ATATATAGTTTT--AAAACA
2112505 TTTTGAAAAACTTATAT-TATAT--TTTTAAAATCA
1 TTTTG-AAAA-TTATATATATATAGTTTTAAAA-CA
* *
2112538 TTTTTGAAAACTATATAATATATAGCTTTGAAAACA
1 -TTTTGAAAATTATAT-ATATATAG-TTTTAAAACA
* *
2112574 TTTT--TAAGTATA-ATATATAGTTTTAAAA
1 TTTTGAAAATTATATATATATAGTTTTAAAA
2112602 AATATTTTTT
Statistics
Matches: 171, Mismatches: 13, Indels: 42
0.76 0.06 0.19
Matches are distributed among these distances:
30 12 0.07
31 16 0.09
32 22 0.13
33 16 0.09
34 30 0.18
35 8 0.05
36 7 0.04
37 17 0.10
38 36 0.21
39 7 0.04
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.44
Consensus pattern (33 bp):
TTTTGAAAATTATATATATATAGTTTTAAAACA
Found at i:2112534 original size:72 final size:68
Alignment explanation
Indices: 2112391--2112609 Score: 211
Period size: 72 Copynumber: 3.2 Consensus size: 68
2112381 AATATATAAG
* *
2112391 TTTT-AAAACATTTTGAAAGTTATAT-ATATAT--TTTTGAAATCATTTTGAAAATATAATGTAT
1 TTTTAAAAACATTTTGAAAATTATATAATATATAGTTTTGAAAACATTTTGAAAATATAATGTAT
2112452 AGT
66 AGT
*
2112455 TTTTAAAAAACATTTTGAAAAATTTATATAATATATAGTTTTAAAAAACATTTTGAAAA-ACTTA
1 TTTT-AAAAACATTTTG-AAAA-TTATATAATATATAGTTTT-GAAAACATTTTGAAAATA--TA
2112519 TAT-TATA-T
60 -ATGTATAGT
* * * * * *
2112527 TTTTAAAATCATTTTTGAAAACTATATAATATATAGCTTTGAAAACATTTT-TAAGTATAATATA
1 TTTTAAAAACA-TTTTGAAAATTATATAATATATAGTTTTGAAAACATTTTGAAAATATAATGTA
2112591 TAGT
65 TAGT
* *
2112595 TTTAAAAAATATTTT
1 TTTTAAAAACATTTT
2112610 TTATATATTA
Statistics
Matches: 128, Mismatches: 12, Indels: 27
0.77 0.07 0.16
Matches are distributed among these distances:
64 4 0.03
66 13 0.10
67 13 0.10
68 17 0.13
69 17 0.13
70 17 0.13
71 15 0.12
72 24 0.19
73 6 0.05
74 2 0.02
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.45
Consensus pattern (68 bp):
TTTTAAAAACATTTTGAAAATTATATAATATATAGTTTTGAAAACATTTTGAAAATATAATGTAT
AGT
Found at i:2112538 original size:105 final size:106
Alignment explanation
Indices: 2112363--2112552 Score: 273
Period size: 104 Copynumber: 1.8 Consensus size: 106
2112353 TAGTTAATGT
* * *
2112363 TTTTGAAAACTTATATACAATATATAAGTTTTAAAACATTTTGAAAGTTATATATATATTTTTGA
1 TTTTGAAAAATTATATACAATATATAAGTTTTAAAACATTTTGAAACTTATATATATATTTTTAA
2112428 AATCA-TTTTGAAAA-TATAATGTATAGTTTTTAAAAAACA
66 AATCATTTTTGAAAACTATAATGTATAGTTTTTAAAAAACA
*
2112467 TTTTGAAAAATT-TATATAATATAT-AGTTTTAAAAAACATTTTGAAAAACTTATAT-TATATTT
1 TTTTGAAAAATTATATACAATATATAAGTTTT--AAAACATTTTG--AAACTTATATATATATTT
2112529 TTAAAATCATTTTTGAAAACTATA
62 TTAAAATCATTTTTGAAAACTATA
2112553 TAATATATAG
Statistics
Matches: 76, Mismatches: 4, Indels: 9
0.85 0.04 0.10
Matches are distributed among these distances:
102 6 0.08
103 11 0.14
104 22 0.29
105 15 0.20
106 18 0.24
107 4 0.05
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (106 bp):
TTTTGAAAAATTATATACAATATATAAGTTTTAAAACATTTTGAAACTTATATATATATTTTTAA
AATCATTTTTGAAAACTATAATGTATAGTTTTTAAAAAACA
Found at i:2112622 original size:31 final size:30
Alignment explanation
Indices: 2112549--2112623 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 30
2112539 TTTTGAAAAC
*
2112549 TATATAATATATAGCTTTGAAAACATTTTT
1 TATATAATATATAGCTTTAAAAACATTTTT
* * *
2112579 AAGTATAATATATAGTTTTAAAAAATATTTTT
1 TA-TATAATATATAGCTTT-AAAAACATTTTT
*
2112611 TATATATTATATA
1 TATATAATATATA
2112624 CGCTATATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
30 1 0.03
31 25 0.68
32 11 0.30
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (30 bp):
TATATAATATATAGCTTTAAAAACATTTTT
Found at i:2112649 original size:13 final size:13
Alignment explanation
Indices: 2112631--2112658 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2112621 ATACGCTATA
2112631 TTATTATTATTAT
1 TTATTATTATTAT
2112644 TTATTATTATTAT
1 TTATTATTATTAT
2112657 TT
1 TT
2112659 CTTTTCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:2113891 original size:3 final size:3
Alignment explanation
Indices: 2113883--2113908 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2113873 TTATTTACTT
2113883 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
2113909 TTTTTTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2115002 original size:20 final size:20
Alignment explanation
Indices: 2114977--2115021 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
2114967 TAGTTTATTT
2114977 TTATTCAATGGTTTAATTGA
1 TTATTCAATGGTTTAATTGA
2114997 TTATTCAATGGTTTAATTGA
1 TTATTCAATGGTTTAATTGA
2115017 TTATT
1 TTATT
2115022 TTTATGAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.29, C:0.04, G:0.13, T:0.53
Consensus pattern (20 bp):
TTATTCAATGGTTTAATTGA
Found at i:2122197 original size:20 final size:20
Alignment explanation
Indices: 2122172--2122264 Score: 80
Period size: 20 Copynumber: 4.5 Consensus size: 20
2122162 TGTGCACTTG
2122172 GTATCGATACTACTCGCATA
1 GTATCGATACTACTCGCATA
* *
2122192 GTATCGATATTATTCTTGC-TA
1 GTATCGATACTA--CTCGCATA
* *
2122213 GGTATCGATACTACTAGCCTA
1 -GTATCGATACTACTCGCATA
* *
2122234 GTATCGATACTGCTCTCATCGA
1 GTATCGATACTACTCGCAT--A
2122256 GTATCGATA
1 GTATCGATA
2122265 TTGTTCATAC
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
20 30 0.51
21 4 0.07
22 25 0.42
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (20 bp):
GTATCGATACTACTCGCATA
Found at i:2124536 original size:15 final size:15
Alignment explanation
Indices: 2124516--2124545 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2124506 GAGAGAGAAA
2124516 TCTTAAAGTAAGGGG
1 TCTTAAAGTAAGGGG
2124531 TCTTAAAGTAAGGGG
1 TCTTAAAGTAAGGGG
2124546 GATTAAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.27
Consensus pattern (15 bp):
TCTTAAAGTAAGGGG
Found at i:2124551 original size:15 final size:15
Alignment explanation
Indices: 2124518--2124551 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2124508 GAGAGAAATC
**
2124518 TTAAAGTAAGGGGTC
1 TTAAAGTAAGGGGGA
2124533 TTAAAGTAAGGGGGA
1 TTAAAGTAAGGGGGA
2124548 TTAA
1 TTAA
2124552 GTGATTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.32, T:0.26
Consensus pattern (15 bp):
TTAAAGTAAGGGGGA
Found at i:2124568 original size:13 final size:14
Alignment explanation
Indices: 2124550--2124578 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2124540 AAGGGGGATT
2124550 AAGTGA-TTTTTCA
1 AAGTGATTTTTTCA
2124563 AAGTGATTTTTTCA
1 AAGTGATTTTTTCA
2124577 AA
1 AA
2124579 AGAAAATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (14 bp):
AAGTGATTTTTTCA
Found at i:2125046 original size:24 final size:24
Alignment explanation
Indices: 2125019--2125093 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 24
2125009 CCATGTTTAG
2125019 GTATCGATACTATTATACATAGTA
1 GTATCGATACTATTATACATAGTA
* *
2125043 GTATCGATACTCCTT-GA-A-AG--
1 GTATCGATACT-ATTATACATAGTA
*
2125063 GTATCGATACTACTATACATAGTA
1 GTATCGATACTATTATACATAGTA
2125087 GTATCGA
1 GTATCGA
2125094 CACTCCATGA
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
19 1 0.03
20 12 0.30
21 1 0.03
22 4 0.10
23 1 0.03
24 19 0.47
25 2 0.05
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (24 bp):
GTATCGATACTATTATACATAGTA
Found at i:2125066 original size:44 final size:44
Alignment explanation
Indices: 2125017--2125110 Score: 152
Period size: 44 Copynumber: 2.1 Consensus size: 44
2125007 TACCATGTTT
* * *
2125017 AGGTATCGATACTATTATACATAGTAGTATCGATACTCCTTGAA
1 AGGTATCGATACTACTATACATAGTAGTATCGACACTCCATGAA
2125061 AGGTATCGATACTACTATACATAGTAGTATCGACACTCCATGAA
1 AGGTATCGATACTACTATACATAGTAGTATCGACACTCCATGAA
*
2125105 CGGTAT
1 AGGTAT
2125111 TGATTTCGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (44 bp):
AGGTATCGATACTACTATACATAGTAGTATCGACACTCCATGAA
Found at i:2125580 original size:16 final size:16
Alignment explanation
Indices: 2125559--2125591 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2125549 AAGAATTTGA
2125559 GGTATAATTCTTAAGG
1 GGTATAATTCTTAAGG
2125575 GGTATAATTCTTAAGG
1 GGTATAATTCTTAAGG
2125591 G
1 G
2125592 AGTTATAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.36
Consensus pattern (16 bp):
GGTATAATTCTTAAGG
Found at i:2126277 original size:20 final size:20
Alignment explanation
Indices: 2126266--2126423 Score: 237
Period size: 20 Copynumber: 8.0 Consensus size: 20
2126256 AATGCGAATA
2126266 TGACTATCGCAACGCGATTC
1 TGACTATCGCAACGCGATTC
2126286 TGACTATCGCAACGCGATTC
1 TGACTATCGCAACGCGATTC
2126306 TGACTATCGCAACGCGATTC
1 TGACTATCGCAACGCGATTC
*
2126326 TGA-TATCGCAACGAGATTC
1 TGACTATCGCAACGCGATTC
* *
2126345 TGACTATCGCAATGAGATTC
1 TGACTATCGCAACGCGATTC
* *
2126365 GGACTATCGCAACACGATTC
1 TGACTATCGCAACGCGATTC
* *
2126385 TGACTGTCGCAACGCGATGC
1 TGACTATCGCAACGCGATTC
*
2126405 TGACTATCGCAATGCGATT
1 TGACTATCGCAACGCGATT
2126424 TTCAAAGTGC
Statistics
Matches: 124, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
19 18 0.15
20 106 0.85
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (20 bp):
TGACTATCGCAACGCGATTC
Found at i:2126364 original size:79 final size:80
Alignment explanation
Indices: 2126266--2126416 Score: 241
Period size: 79 Copynumber: 1.9 Consensus size: 80
2126256 AATGCGAATA
* * * *
2126266 TGACTATCGCAACGCGATTCTGACTATCGCAACGCGATTCTGACTATCGCAACGCGATTCTGA-T
1 TGACTATCGCAACGAGATTCGGACTATCGCAACACGATTCTGACTATCGCAACGCGATGCTGACT
2126330 ATCGCAACGAGATTC
66 ATCGCAACGAGATTC
* *
2126345 TGACTATCGCAATGAGATTCGGACTATCGCAACACGATTCTGACTGTCGCAACGCGATGCTGACT
1 TGACTATCGCAACGAGATTCGGACTATCGCAACACGATTCTGACTATCGCAACGCGATGCTGACT
2126410 ATCGCAA
66 ATCGCAA
2126417 TGCGATTTTC
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
79 57 0.88
80 8 0.12
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
TGACTATCGCAACGAGATTCGGACTATCGCAACACGATTCTGACTATCGCAACGCGATGCTGACT
ATCGCAACGAGATTC
Found at i:2127076 original size:20 final size:20
Alignment explanation
Indices: 2127053--2127091 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2127043 TGCAATAGTT
* *
2127053 ATTTTCGTGTTGCGGTTTTC
1 ATTTTCGAGTTGCGATTTTC
2127073 ATTTTCGAGTTGCGATTTT
1 ATTTTCGAGTTGCGATTTT
2127092 AAGTTTCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.13, G:0.23, T:0.54
Consensus pattern (20 bp):
ATTTTCGAGTTGCGATTTTC
Found at i:2127098 original size:20 final size:20
Alignment explanation
Indices: 2127055--2127098 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
2127045 CAATAGTTAT
* * * *
2127055 TTTCGTGTTGCGGTTTTCAT
1 TTTCGAGTTGCGATTTTAAG
2127075 TTTCGAGTTGCGATTTTAAG
1 TTTCGAGTTGCGATTTTAAG
2127095 TTTC
1 TTTC
2127099 ATAAACTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.11, C:0.14, G:0.23, T:0.52
Consensus pattern (20 bp):
TTTCGAGTTGCGATTTTAAG
Found at i:2129021 original size:20 final size:20
Alignment explanation
Indices: 2128996--2129083 Score: 158
Period size: 20 Copynumber: 4.4 Consensus size: 20
2128986 TAGTTTACTT
2128996 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
2129016 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
2129036 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
**
2129056 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAAAATGACTA
2129076 TCGCAACG
1 TCGCAACG
2129084 AAAGAATCGC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.17
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:2129093 original size:34 final size:38
Alignment explanation
Indices: 2128996--2129102 Score: 123
Period size: 40 Copynumber: 2.8 Consensus size: 38
2128986 TAGTTTACTT
2128996 TCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTA
1 TCGCAAC-CGAAAATGAC-ATCGCAACGCGAAAATGACTA
**
2129036 TCGCAACGCGAAAATGACTATCGCAACGCGAATTTGACTA
1 TCGCAAC-CGAAAATGAC-ATCGCAACGCGAAAATGACTA
*
2129076 TCGCAA-CG-AAA-GA-ATCGCAATGCGAAA
1 TCGCAACCGAAAATGACATCGCAACGCGAAA
2129103 TGAAAATCGT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
34 12 0.19
36 2 0.03
37 3 0.05
38 2 0.03
40 44 0.70
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (38 bp):
TCGCAACCGAAAATGACATCGCAACGCGAAAATGACTA
Found at i:2129151 original size:20 final size:20
Alignment explanation
Indices: 2129126--2129212 Score: 115
Period size: 20 Copynumber: 4.5 Consensus size: 20
2129116 GCGATTCTCT
*
2129126 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATATTCG
*
2129146 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATATTCG
*
2129166 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATATTCG
*
2129186 CATTGCGATAGTC--ATTCG
1 CGTTGCGATAGTCATATTCG
*
2129204 TGTTGCGAT
1 CGTTGCGAT
2129213 TTTAAGTTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
18 11 0.18
20 50 0.82
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATATTCG
Found at i:2129538 original size:27 final size:29
Alignment explanation
Indices: 2129487--2129543 Score: 68
Period size: 28 Copynumber: 2.0 Consensus size: 29
2129477 GCAAGTTTGA
2129487 AATATCATTGTCTTTGTTTTCACTG-TTT
1 AATATCATTGTCTTTGTTTTCACTGATTT
2129515 AATATCA-TGTCTATT-TATTT-ACTGATTT
1 AATATCATTGTCT-TTGT-TTTCACTGATTT
2129543 A
1 A
2129544 TGTATTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
27 10 0.38
28 16 0.62
ACGTcount: A:0.25, C:0.12, G:0.09, T:0.54
Consensus pattern (29 bp):
AATATCATTGTCTTTGTTTTCACTGATTT
Found at i:2129932 original size:18 final size:18
Alignment explanation
Indices: 2129909--2129943 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2129899 AAGCCGGTTG
*
2129909 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
2129927 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
2129944 GCCTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:2130933 original size:20 final size:20
Alignment explanation
Indices: 2130910--2130969 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
2130900 GTGTTGCAAC
2130910 AGTCAGAATCGCGTTGCGAT
1 AGTCAGAATCGCGTTGCGAT
*
2130930 AGTCAGAATCTCGTTGCGAT
1 AGTCAGAATCGCGTTGCGAT
* *
2130950 AGTCATAATCGCATTGCGAT
1 AGTCAGAATCGCGTTGCGAT
2130970 TTACATATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (20 bp):
AGTCAGAATCGCGTTGCGAT
Found at i:2132119 original size:25 final size:25
Alignment explanation
Indices: 2132091--2132169 Score: 63
Period size: 25 Copynumber: 3.1 Consensus size: 25
2132081 TAATGTTTAT
*
2132091 TTTTAATATCTCTATATTTTAATAA
1 TTTTAATATCTATATATTTTAATAA
* * *
2132116 TTTTTTTATATTTATAATATTCTAA-AA
1 --TTTTAATATCTAT-ATATTTTAATAA
*
2132143 TTTTAATATCTTTA-ATTTTTAATAA
1 TTTTAATATCTATATA-TTTTAATAA
2132168 TT
1 TT
2132170 ACATAAAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
23 1 0.02
24 6 0.15
25 14 0.34
27 12 0.29
28 8 0.20
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (25 bp):
TTTTAATATCTATATATTTTAATAA
Found at i:2132120 original size:27 final size:27
Alignment explanation
Indices: 2132090--2132169 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
2132080 TTAATGTTTA
*
2132090 TTTTTAATATCTCTATATTTTAATAAT
1 TTTTTAATATCTATATATTTTAATAAT
* * *
2132117 TTTTTTATATTTATAATATTCTAA-AA-
1 TTTTTAATATCTAT-ATATTTTAATAAT
*
2132143 -TTTTAATATCTTTA-ATTTTTAATAAT
1 TTTTTAATATCTATATA-TTTTAATAAT
2132169 T
1 T
2132170 ACATAAAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
23 1 0.03
24 6 0.15
25 12 0.30
27 13 0.32
28 8 0.20
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTTTAATATCTATATATTTTAATAAT
Found at i:2132162 original size:16 final size:17
Alignment explanation
Indices: 2132088--2132166 Score: 63
Period size: 16 Copynumber: 4.6 Consensus size: 17
2132078 TATTAATGTT
*
2132088 TATTTTTAATATCTCTA
1 TATTTTTAATATCTTTA
* *
2132105 TATTTTAATAATTTTTTTA
1 TATTTT--TAATATCTTTA
* *
2132124 TATTTATAATAT-TCTA
1 TATTTTTAATATCTTTA
* *
2132140 AAATTTTAATATCTTTA
1 TATTTTTAATATCTTTA
2132157 -ATTTTTAATA
1 TATTTTTAATA
2132167 ATTACATAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 7
0.73 0.17 0.11
Matches are distributed among these distances:
16 21 0.44
17 14 0.29
19 13 0.27
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTTTTAATATCTTTA
Found at i:2132307 original size:21 final size:21
Alignment explanation
Indices: 2132283--2132328 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
2132273 TTATTCCATG
* * *
2132283 AATACAATGAGTTATCATATT
1 AATACAATAAATTATCATACT
*
2132304 AATACATTAAATTATCATACT
1 AATACAATAAATTATCATACT
2132325 AATA
1 AATA
2132329 TCATTAATCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (21 bp):
AATACAATAAATTATCATACT
Found at i:2132341 original size:21 final size:21
Alignment explanation
Indices: 2132296--2132342 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
2132286 ACAATGAGTT
* *
2132296 ATCATATTAATACATTAAATT
1 ATCATACTAATACATTAAATC
2132317 ATCATACTAATATCATT-AATC
1 ATCATACTAATA-CATTAAATC
2132338 ATCAT
1 ATCAT
2132343 GTCAGTATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (21 bp):
ATCATACTAATACATTAAATC
Found at i:2132837 original size:2 final size:2
Alignment explanation
Indices: 2132830--2132860 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2132820 TATTTTATTT
2132830 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2132861 GTTTGAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2132974 original size:36 final size:36
Alignment explanation
Indices: 2132884--2133118 Score: 303
Period size: 36 Copynumber: 6.4 Consensus size: 36
2132874 TTTAAAATAT
*
2132884 ATATATATAATATATAGTTTTGAAAACATGTTTGAAAA
1 ATATATATAATATATAGTTTTTAAAACAT-TTTG-AAA
* *
2132922 CATTTATATATTATATAGTTTTTAAAACATTTTGAAA
1 -ATATATATAATATATAGTTTTTAAAACATTTTGAAA
*
2132959 ATAAATATAATATATAGTTTTTAAAACATTTTG--A
1 ATATATATAATATATAGTTTTTAAAACATTTTGAAA
* *
2132993 ATATATATATTATATAGATTTTAAAACATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTGAAA
* *
2133029 ATAAATATAATATATAGTTTTTGAAACATTTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACA-TTTTGAAA
* *
2133066 ATATGTATATTATATAGTTTTTAAAACATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTGAAA
* *
2133102 ACACATATATATATATA
1 ATATATATA-ATATATA
2133119 TATATATATT
Statistics
Matches: 171, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
34 31 0.18
36 69 0.40
37 41 0.24
38 4 0.02
39 26 0.15
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.44
Consensus pattern (36 bp):
ATATATATAATATATAGTTTTTAAAACATTTTGAAA
Found at i:2133015 original size:70 final size:71
Alignment explanation
Indices: 2132845--2133118 Score: 345
Period size: 70 Copynumber: 3.7 Consensus size: 71
2132835 ATATATATAT
* * * *
2132845 ATATATATATTATATAG-TTTGAAAATATTTTTAAAATATATATATATAATATATAGTTTTGAAA
1 ATATATATATTATATAGTTTTTAAAACA-TTTTGAAA-ATA-A-ATATAATATATAGTTTTTAAA
2132909 ACATGTTTGAAAA
62 ACAT-TTTG--AA
*
2132922 CATTTATATATTATATAGTTTTTAAAACATTTTGAAAATAAATATAATATATAGTTTTTAAAACA
1 -ATATATATATTATATAGTTTTTAAAACATTTTGAAAATAAATATAATATATAGTTTTTAAAACA
2132987 TTTTG-A
65 TTTTGAA
* *
2132993 ATATATATATTATATAGATTTTAAAACATTTTGAAAATAAATATAATATATAGTTTTTGAAACAT
1 ATATATATATTATATAGTTTTTAAAACATTTTGAAAATAAATATAATATATAGTTTTTAAAACA-
2133058 TTTTGAAA
65 TTTTG-AA
* * *
2133066 ATATGTATATTATATAGTTTTTAAAACATTTTGAAAACACATATATATATATA
1 ATATATATATTATATAGTTTTTAAAACATTTTGAAAATAAATATA-ATATATA
2133119 TATATATATT
Statistics
Matches: 179, Mismatches: 12, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
70 61 0.34
71 6 0.03
73 42 0.23
74 11 0.06
75 24 0.13
76 1 0.01
77 3 0.02
78 23 0.13
79 8 0.04
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.45
Consensus pattern (71 bp):
ATATATATATTATATAGTTTTTAAAACATTTTGAAAATAAATATAATATATAGTTTTTAAAACAT
TTTGAA
Found at i:2133085 original size:107 final size:109
Alignment explanation
Indices: 2132884--2133100 Score: 316
Period size: 107 Copynumber: 2.0 Consensus size: 109
2132874 TTTAAAATAT
** *
2132884 ATATATATAATATATAGTTTTGAAAACATGTTTGAAAACATTTATATATTATATAGTTTTTAAAA
1 ATATATATAATATATAGTTTTGAAAACATGTTTGAAAACATAAATATAATATATAGTTTTTAAAA
2132949 CATTTTGAAAATAAATATAATATATAGTTTTTAAAACATTTTGA
66 CATTTTGAAAATAAATATAATATATAGTTTTTAAAACATTTTGA
* *
2132993 ATATATATATTATATAGATTTT-AAAACAT-TTTG-AAA-ATAAATATAATATATAGTTTTTGAA
1 ATATATATAATATATAG-TTTTGAAAACATGTTTGAAAACATAAATATAATATATAGTTTTTAAA
** *
2133054 ACATTTTTGAAAATATGTATATTATATAGTTTTTAAAACATTTTGA
65 ACA-TTTTGAAAATAAATATAATATATAGTTTTTAAAACATTTTGA
2133100 A
1 A
2133101 AACACATATA
Statistics
Matches: 98, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
106 24 0.24
107 43 0.44
108 4 0.04
109 23 0.23
110 4 0.04
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (109 bp):
ATATATATAATATATAGTTTTGAAAACATGTTTGAAAACATAAATATAATATATAGTTTTTAAAA
CATTTTGAAAATAAATATAATATATAGTTTTTAAAACATTTTGA
Found at i:2133135 original size:52 final size:49
Alignment explanation
Indices: 2133066--2133169 Score: 145
Period size: 52 Copynumber: 2.1 Consensus size: 49
2133056 ATTTTTGAAA
* *
2133066 ATATGTATATTATATAGTTTTTAAAACATTTTGAAAACACATATATATATAT
1 ATATATATATTATATAGTTTTGAAAACATTTTGAAAA-A-ATATATA-ATAT
* *
2133118 ATATATATATTATATAGTTTTGAAATCATTTTGAAAAATTATATAATAT
1 ATATATATATTATATAGTTTTGAAAACATTTTGAAAAAATATATAATAT
2133167 ATA
1 ATA
2133170 GTTTTAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
49 7 0.15
50 6 0.12
51 1 0.02
52 34 0.71
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (49 bp):
ATATATATATTATATAGTTTTGAAAACATTTTGAAAAAATATATAATAT
Found at i:2133168 original size:36 final size:36
Alignment explanation
Indices: 2133121--2133200 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
2133111 TATATATATA
* * * *
2133121 TATATATTATATAGTTTTGAAATC-ATTTTGAAAAAT
1 TATATAATATATAGTTTTAAAAACTATTTTG-AAAAC
*
2133157 TATATAATATATAGTTTTAAAAACTTTTTTGAAAAC
1 TATATAATATATAGTTTTAAAAACTATTTTGAAAAC
2133193 TATATAAT
1 TATATAAT
2133201 TTTAAAAACA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
36 33 0.87
37 5 0.13
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (36 bp):
TATATAATATATAGTTTTAAAAACTATTTTGAAAAC
Found at i:2133206 original size:29 final size:29
Alignment explanation
Indices: 2133162--2133230 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 29
2133152 AAAATTATAT
*
2133162 AATATATAGTTTTAAAAAC-TTTTTTGAA
1 AATATATAATTTTAAAAACATTTTTTGAA
*
2133190 AACTATATAATTTTAAAAACATTTTTTTTAA
1 AA-TATATAATTTTAAAAACA-TTTTTTGAA
2133221 AATATATAAT
1 AATATATAAT
2133231 ATATAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
28 2 0.06
29 16 0.44
30 8 0.22
31 10 0.28
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (29 bp):
AATATATAATTTTAAAAACATTTTTTGAA
Found at i:2133363 original size:17 final size:17
Alignment explanation
Indices: 2133328--2133379 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
2133318 ATCGTTGTTA
*
2133328 TTTATTTTTATTTATTT
1 TTTATTTTTATTTAATT
2133345 TTTATCTTTTA-TTAA-T
1 TTTAT-TTTTATTTAATT
* *
2133361 TTTATTTTCATTTTATT
1 TTTATTTTTATTTAATT
2133378 TT
1 TT
2133380 CAGGTCCGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 4 0.14
16 9 0.31
17 11 0.38
18 5 0.17
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTATTTTTATTTAATT
Found at i:2134575 original size:12 final size:13
Alignment explanation
Indices: 2134558--2134586 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2134548 CGAATCGAGT
2134558 ATTTAAA-TTCTA
1 ATTTAAATTTCTA
2134570 ATTTAAATTTCTA
1 ATTTAAATTTCTA
2134583 ATTT
1 ATTT
2134587 TTCATAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTTAAATTTCTA
Found at i:2138192 original size:95 final size:94
Alignment explanation
Indices: 2138024--2138267 Score: 296
Period size: 95 Copynumber: 2.7 Consensus size: 94
2138014 AACCAATATA
* *
2138024 TATATATACAATAAAGCTTGATTTATCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGA
1 TATATATACAATAAAGCTTGAGTTATCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGA
* * *
2138089 TTATATTCAGCTAGCCTGATAAAGGTGAT
66 TAAGATTCAGCTAACCTGATAAAGGTGAT
*
2138118 TATACTATACAATAAAGCTTGAGTTGTCCCTCTA-AGGCAATTGGTTAAACGCCCCGACTTTATG
1 TATA-TATACAATAAAGCTTGAGTTATCCCTCTAGA-GCAATTGGTTAAACGCCCCGACTTTATG
2138182 GATAAGATTCAGCTAACCTGATAAAGGTG--
64 GATAAGATTCAGCTAACCTGATAAAGGTGAT
* * * *
2138211 --T-T-TAC-AT--A--TTGAGCTGTCCCTCTAGAGCAATTGGTTAAACGCCCTGGCTTTATGGA
1 TATATATACAATAAAGCTTGAGTTATCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGA
2138267 T
66 T
2138268 TCAACTAGCC
Statistics
Matches: 138, Mismatches: 9, Indels: 17
0.84 0.05 0.10
Matches are distributed among these distances:
83 44 0.32
84 1 0.01
85 1 0.01
87 2 0.01
88 3 0.02
89 1 0.01
91 1 0.01
94 5 0.04
95 80 0.58
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (94 bp):
TATATATACAATAAAGCTTGAGTTATCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTATGGA
TAAGATTCAGCTAACCTGATAAAGGTGAT
Found at i:2139496 original size:84 final size:83
Alignment explanation
Indices: 2139400--2140422 Score: 1095
Period size: 84 Copynumber: 12.4 Consensus size: 83
2139390 TGTGTCAGCC
* * *
2139400 AAGACCTTCGAGTTAGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAATTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
2139465 AAGGGTTATCTGCCAACCA
66 AAGGGTTATCTGCC-ACCA
* *
2139484 AAGACCTTCGAGTTCGACTACGCTCAGCTCGAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
2139549 AAGGGTTATCTTCCA--A
66 AAGGGTTATCTGCCACCA
* * * * * * * * * *
2139565 AA-ACCATCGAGTTCGATTACACTCAACTTCAAGGGCACATCATTTACAACATAACTCAAGGCTA
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCGA
*
2139629 GAAGGGTTATCTGTCACCAA
65 GAAGGGTTATCTGCCACC-A
* * * *
2139649 AAGACCTTCGAGTTCGTCTACGCTCAGCTCTAAGGCATATCATTTGTAGCATAACTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
2139714 AAGGGTTATCTGCCAACTA
66 AAGGGTTATCTGCC-ACCA
* * * * * **
2139733 AATACCTTCGAGTTCGACTATGCTCAGCTTCAAGGGACATCATTTGCAGCGTAGTTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
2139798 AAGGGTTATCTG---CCA
66 AAGGGTTATCTGCCACCA
* * * * * * * * * * *
2139813 AAGACCCTCGAGTTCGATTACACTTAGCTTCGAGGGCACATAATTTACAGCATAACTCAAGGCTA
1 AAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
**
2139878 GAAGGGTTATCTATCACCAA
65 GAAGGGTTATCTGCCACC-A
* * * * *
2139898 AAAACCTTCGACTTCGACTACGCTCATCTCCAAGGCATATCATTTACAGCATAACTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
2139963 AAGGGTTATCTACCAACCA
66 AAGGGTTATCTGCC-ACCA
* * * * *
2139982 AAGACCTTCGAGTTTGACTATGCTCAGCTCGAATGCACATCATTTGCAGTATAACTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
2140047 AAGGGCTATCTG---CCA
66 AAGGGTTATCTGCCACCA
* * * * * * * * *
2140062 AAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGT-T
1 AAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAA-GTCG
*
2140126 AGAAGGGTTATCTGTCACCAA
64 AGAAGGGTTATCTGCCACC-A
* * *
2140147 AATACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
2140212 AAGGGTTATATGCCAACCA
66 AAGGGTTATCTGCC-ACCA
* * *
2140231 AAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGTACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
* **
2140296 AAGGGCTATCT---TTCA
66 AAGGGTTATCTGCCACCA
* * *
2140311 AAGACCCTCGAGTTCGACTACGCTCAGCTCCAAGG--CATCATTTGCAGCATAGCTCAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
* *
2140374 AAGGGTTATCTACCAACCG
66 AAGGGTTATCTGCC-ACCA
* * *
2140393 AAGACCTTCGAGCTCGATTACACTCAGCTC
1 AAGACCTTCGAGTTCGACTACGCTCAGCTC
2140423 AGAGGCAAAC
Statistics
Matches: 775, Mismatches: 140, Indels: 50
0.80 0.15 0.05
Matches are distributed among these distances:
78 37 0.05
80 109 0.14
81 118 0.15
82 29 0.04
83 3 0.00
84 402 0.52
85 77 0.10
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (83 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
AAGGGTTATCTGCCACCA
Found at i:2139851 original size:249 final size:249
Alignment explanation
Indices: 2139400--2140422 Score: 1489
Period size: 249 Copynumber: 4.1 Consensus size: 249
2139390 TGTGTCAGCC
* *
2139400 AAGACCTTCGAGTTAGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAATTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAG
2139465 AAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCGAAGGCACATCATTTG
66 AAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCGAAGGCACATCATTTG
* * * * *
2139530 CAGCATAGCTTAAGTCGAGAAGGGTTATCTTCCAAAAACCATCGAGTTCGATTACACTCAACTTC
131 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTC
* *
2139595 AAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAA
196 GAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAA
* * *
2139649 AAGACCTTCGAGTTCGTCTACGCTCAGCTCTAAGGCATATCATTTGTAGCATAACTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAG
* * * *
2139714 AAGGGTTATCTGCCAACTAAATACCTTCGAGTTCGACTATGCTCAGCTTC-AAGGGACATCATTT
66 AAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCGAAGGCACATCATTT
* * * *
2139778 GCAGCGTAGTTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTTAGCTT
130 GCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTT
* *
2139843 CGAGGGCACATAATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTATCACCAA
195 CGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAA
* * * *
2139898 AAAACCTTCGACTTCGACTACGCTCATCTCCAAGGCATATCATTTACAGCATAACTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAG
* * * *
2139963 AAGGGTTATCTACCAACCAAAGACCTTCGAGTTTGACTATGCTCAGCTCGAATGCACATCATTTG
66 AAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCGAAGGCACATCATTTG
* *
2140028 CAGTATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTC
131 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTC
* *
2140093 GAGGGCACATCATTTACAGTATAACTCAAGGTTAGAAGGGTTATCTGTCACCAA
196 GAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAA
* *
2140147 AATACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAG
* * * *
2140212 AAGGGTTATATGCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGTACATCATTTG
66 AAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCGAAGGCACATCATTTG
** * *
2140277 CAGCATAGCTTAAGTCGAGAAGGGCTATCTTTCAAAGACCCTCGAGTTCGACTACGCTCAGC-TC
131 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTC
* * * * * * ** *
2140341 CAAGG--CATCATTTGCAGCATAGCTCAAGTCGAGAAGGGTTATCTACCAACC-G
196 GAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAA
* * *
2140393 AAGACCTTCGAGCTCGATTACACTCAGCTC
1 AAGACCTTCGAGTTCGACTACGCTCAGCTC
2140423 AGAGGCAAAC
Statistics
Matches: 695, Mismatches: 76, Indels: 9
0.89 0.10 0.01
Matches are distributed among these distances:
246 59 0.08
247 3 0.00
248 7 0.01
249 624 0.90
250 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (249 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAG
AAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCGAAGGCACATCATTTG
CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTC
GAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAA
Found at i:2141157 original size:36 final size:36
Alignment explanation
Indices: 2141031--2141366 Score: 394
Period size: 36 Copynumber: 9.2 Consensus size: 36
2141021 ACATATATAT
* * *
2141031 ATATATATATATATTATAG-TTTGAAAACATTTTTAAT
1 ATATATATA-ATA-TATAGTTTTTAAAACATTTTGAAA
*
2141068 ATATATAT-ATAATATAGTTTTGAAAACATGTTTGAAA
1 ATATATATAAT-ATATAGTTTTTAAAACAT-TTTGAAA
* *
2141105 ATATTTATATATTATATAGTTTTTAAAAAATTTTGAAA
1 ATA--TATATAATATATAGTTTTTAAAACATTTTGAAA
*
2141143 ATAAATATAATATATAGTTTTTAAAACATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTGAAA
2141179 ATATATAT--TATATAGTTTTTAAAACATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTGAAA
* *
2141213 ATAAATATAATATATAGTTTTTGAAACATTTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACA-TTTTGAAA
* *
2141250 ATATATATATTATATAGTTTTTAAATCATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTGAAA
* * * * *
2141286 ACATATATATTATGTAGTTTTGAAATCATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTGAAA
*
2141322 ACT-TATATAATATATAGTTTTAAAAACATTTTTGAAA
1 A-TATATATAATATATAGTTTTTAAAACA-TTTTGAAA
2141359 ACTATATA
1 A-TATATA
2141367 ATTTTGAAAA
Statistics
Matches: 264, Mismatches: 23, Indels: 23
0.85 0.07 0.07
Matches are distributed among these distances:
34 33 0.12
35 7 0.03
36 129 0.49
37 59 0.22
38 14 0.05
39 21 0.08
40 1 0.00
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (36 bp):
ATATATATAATATATAGTTTTTAAAACATTTTGAAA
Found at i:2141265 original size:109 final size:109
Alignment explanation
Indices: 2141029--2141366 Score: 402
Period size: 109 Copynumber: 3.1 Consensus size: 109
2141019 ATACATATAT
* * * *
2141029 ATATATATATATATATTATAG-TTTGAAAACATTTTTAATATATATATATAATATAGTTTTGAAA
1 ATATATATAT-TATA-TATAGTTTTTAAAACATTTTGAA-ACATATATATTATATAGTTTTGAAA
* * *
2141093 ACATGTTTGAAAATATTTATATATTATATAGTTTTTAAAAAATTTTGAAA
63 ACAT-TTTGAAAATA--TATATAATATATAGTTTTTAAACATTTTTGAAA
* *
2141143 ATA-A-ATATAATATATAGTTTTTAAAACATTTTGAAA-ATATATATTATATAGTTTTTAAAACA
1 ATATATATATTATATATAGTTTTTAAAACATTTTGAAACATATATATTATATAGTTTTGAAAACA
*
2141205 TTTTGAAAATAAATATAATATATAGTTTTTGAAACATTTTTGAAA
66 TTTTGAAAATATATATAATATATAGTTTTT-AAACATTTTTGAAA
* * *
2141250 ATATATATA-T-TATATAGTTTTTAAATCATTTTGAAAACATATATATTATGTAGTTTTGAAATC
1 ATATATATATTATATATAGTTTTTAAAACATTTTG-AAACATATATATTATATAGTTTTGAAAAC
*
2141313 ATTTTGAAAACT-TATATAATATATAGTTTTAAAAACATTTTTGAAA
65 ATTTTGAAAA-TATATATAATATATAGTTTT-TAAACATTTTTGAAA
2141359 ACTATATA
1 A-TATATA
2141367 ATTTTGAAAA
Statistics
Matches: 199, Mismatches: 16, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
106 17 0.09
107 37 0.19
108 14 0.07
109 92 0.46
110 13 0.07
111 18 0.09
112 4 0.02
113 1 0.01
114 3 0.02
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (109 bp):
ATATATATATTATATATAGTTTTTAAAACATTTTGAAACATATATATTATATAGTTTTGAAAACA
TTTTGAAAATATATATAATATATAGTTTTTAAACATTTTTGAAA
Found at i:2141366 original size:145 final size:144
Alignment explanation
Indices: 2141033--2141368 Score: 423
Period size: 145 Copynumber: 2.3 Consensus size: 144
2141023 ATATATATAT
* *
2141033 ATATATATATATTATAG-TTTGAAAACATTTTT-AATATATATATATAATATAGTTTTGAAAACA
1 ATATATA-ATA-TATAGTTTTAAAAACATTTTTGAAAATATATA-ATAATATAGTTTTGAAAACA
*
2141096 TGTTTGAAAATATTTATATATTATATAGTTTTTAAAAAATTTTGAAAATAAATATAATATATAGT
63 TGTTTGAAAATA-TTATATATTATATAGTTTTTAAAAAATTTTGAAAACAAATATAATATATAGT
*
2141161 TTTTAAAACATTTTGAAA
127 TTTGAAAACATTTTGAAA
* *
2141179 ATATATATTATATAGTTTTTAAAACA-TTTTGAAAATAAATATAAT-ATATAGTTTTTG-AAACA
1 ATATATAATATATAGTTTTAAAAACATTTTTGAAAAT--ATATAATAATATAG-TTTTGAAAACA
* ** * * *
2141241 TTTTTGAAAATA-TATATATTATATAGTTTTTAAATCATTTTGAAAACATATATATTATGTAGTT
63 TGTTTGAAAATATTATATATTATATAGTTTTTAAAAAATTTTGAAAACAAATATAATATATAGTT
*
2141305 TTGAAATCATTTTGAAA
128 TTGAAAACATTTTGAAA
2141322 ACTTATATAATATATAGTTTTAAAAACATTTTTGAAAACTATATAAT
1 A--TATATAATATATAGTTTTAAAAACATTTTTGAAAA-TATATAAT
2141369 TTTGAAAACA
Statistics
Matches: 167, Mismatches: 14, Indels: 19
0.83 0.07 0.09
Matches are distributed among these distances:
143 62 0.37
144 9 0.05
145 67 0.40
146 23 0.14
147 6 0.04
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (144 bp):
ATATATAATATATAGTTTTAAAAACATTTTTGAAAATATATAATAATATAGTTTTGAAAACATGT
TTGAAAATATTATATATTATATAGTTTTTAAAAAATTTTGAAAACAAATATAATATATAGTTTTG
AAAACATTTTGAAA
Found at i:2141367 original size:36 final size:34
Alignment explanation
Indices: 2141033--2141443 Score: 361
Period size: 36 Copynumber: 11.6 Consensus size: 34
2141023 ATATATATAT
* * *
2141033 ATATATATATATTATAG-TTTGAAAACATTTTTAAT
1 ATATATA-ATA-TATAGTTTTTAAAACATTTTGAAA
*
2141068 ATATATATATAATATAGTTTTGAAAACATGTTTGAAA
1 ATATATA-AT-ATATAGTTTTTAAAACAT-TTTGAAA
*
2141105 ATATTTATATATTATATAGTTTTTAAAAAATTTTGAAA
1 ATA--TATA-A-TATATAGTTTTTAAAACATTTTGAAA
2141143 ATAAATATAATATATAGTTTTTAAAACATTTTGAAA
1 AT--ATATAATATATAGTTTTTAAAACATTTTGAAA
*
2141179 ATATATATTATATAGTTTTTAAAACATTTTGAAA
1 ATATATAATATATAGTTTTTAAAACATTTTGAAA
*
2141213 ATAAATATAATATATAGTTTTTGAAACATTTTTGAAA
1 AT--ATATAATATATAGTTTTTAAAACA-TTTTGAAA
*
2141250 ATATATATATTATATAGTTTTTAAATCATTTTGAAAA
1 ATATATA-A-TATATAGTTTTTAAAACATTTTG-AAA
* * * *
2141287 CATATATATTATGTAGTTTTGAAATCATTTTGAAA
1 -ATATATAATATATAGTTTTTAAAACATTTTGAAA
*
2141322 ACTTATATAATATATAGTTTTAAAAACATTTTTG-AA
1 A--TATATAATATATAGTTTTTAAAACA-TTTTGAAA
* * **
2141358 A-A-CT-ATATA-A-TTTTGAAAACATTTTTTTTAA
1 ATATATAATATATAGTTTTTAAAACA--TTTTGAAA
* *
2141389 ATATATAATATATA-ATTTTAAAATACTTTTGAAA
1 ATATATAATATATAGTTTTTAAAACA-TTTTGAAA
*
2141423 ATATATATTATATAGGTTTTT
1 ATATATAATATATA-GTTTTT
2141444 GGAAAATATT
Statistics
Matches: 321, Mismatches: 29, Indels: 51
0.80 0.07 0.13
Matches are distributed among these distances:
29 10 0.03
30 6 0.02
31 8 0.02
32 2 0.01
33 2 0.01
34 58 0.18
35 32 0.10
36 116 0.36
37 43 0.13
38 20 0.06
39 22 0.07
40 2 0.01
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (34 bp):
ATATATAATATATAGTTTTTAAAACATTTTGAAA
Found at i:2141375 original size:65 final size:62
Alignment explanation
Indices: 2141303--2141429 Score: 150
Period size: 65 Copynumber: 2.0 Consensus size: 62
2141293 TATTATGTAG
* *
2141303 TTTTGAAATCA-TTTTGAAAACTTATATAATATATAGTTTTAAAA-ACATTTTTGAAAACTATAT
1 TTTTGAAAACATTTTTGAAAA--TATATAATATATAATTTTAAAATAC--TTTTGAAAA-TATAT
2141366 AA
61 AA
**
2141368 TTTTGAAAACATTTTTTTTAAATATATAATATATAATTTTAAAATACTTTTGAAAATATATA
1 TTTTGAAAACA-TTTTTGAAAATATATAATATATAATTTTAAAATACTTTTGAAAATATATA
2141430 TTATATAGGT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
63 6 0.11
64 9 0.16
65 31 0.56
66 2 0.04
67 7 0.13
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.46
Consensus pattern (62 bp):
TTTTGAAAACATTTTTGAAAATATATAATATATAATTTTAAAATACTTTTGAAAATATATAA
Found at i:2141393 original size:29 final size:28
Alignment explanation
Indices: 2141330--2141397 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 28
2141320 AAACTTATAT
*
2141330 AATATATAGTTTTAAAAACATTTTTGAA
1 AATATATAATTTTAAAAACATTTTTGAA
* **
2141358 AACTATATAATTTTGAAAACATTTTTTTTA
1 AA-TATATAATTTTAAAAACA-TTTTTGAA
2141388 AATATATAAT
1 AATATATAAT
2141398 ATATAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.06
29 24 0.71
30 8 0.24
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (28 bp):
AATATATAATTTTAAAAACATTTTTGAA
Found at i:2141533 original size:17 final size:17
Alignment explanation
Indices: 2141498--2141549 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
2141488 ATCGTTGTTA
*
2141498 TTTATTTTTATTTATTT
1 TTTATTTTTATTTAATT
2141515 TTTATCTTTTA-TTAA-T
1 TTTAT-TTTTATTTAATT
* *
2141531 TTTATTTTCATTTTATT
1 TTTATTTTTATTTAATT
2141548 TT
1 TT
2141550 CAGGTCCGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 4 0.14
16 9 0.31
17 11 0.38
18 5 0.17
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTATTTTTATTTAATT
Found at i:2142430 original size:2 final size:2
Alignment explanation
Indices: 2142423--2142455 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2142413 ATACTACTCT
2142423 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2142456 TATTTCTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2154151 original size:27 final size:29
Alignment explanation
Indices: 2154107--2154176 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 29
2154097 GAAAGAATTG
* *
2154107 AAATACCCTTGAACTGTAAAATGA-CC-A
1 AAATACCCCTAAACTGTAAAATGACCCAA
*
2154134 AAATACCCCTAAAGTGTAAAATGACCCAA
1 AAATACCCCTAAACTGTAAAATGACCCAA
*
2154163 AAATACCCCCAAAC
1 AAATACCCCTAAAC
2154177 CCTAGAATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
27 21 0.58
28 2 0.06
29 13 0.36
ACGTcount: A:0.47, C:0.27, G:0.09, T:0.17
Consensus pattern (29 bp):
AAATACCCCTAAACTGTAAAATGACCCAA
Found at i:2155350 original size:32 final size:32
Alignment explanation
Indices: 2155222--2155351 Score: 156
Period size: 32 Copynumber: 4.1 Consensus size: 32
2155212 TAAGATGACA
* * *
2155222 TTGGGTAGGCTCTAAGGTCCCAAGGTATTTCC
1 TTGGGTACGCTCTAAGGCCCCAAGGTATTCCC
*
2155254 TTGGGTAGGCTCTAAGGCCCCAAGGTACTT-CC
1 TTGGGTACGCTCTAAGGCCCCAAGGTA-TTCCC
* * *
2155286 TTGGGTACGCTCTTAGGCCCTAAGGTACTCCC
1 TTGGGTACGCTCTAAGGCCCCAAGGTATTCCC
*
2155318 TTGGGTACGCTCTCAA-GCCCCAAGATATTCCC
1 TTGGGTACGCTCT-AAGGCCCCAAGGTATTCCC
2155350 TT
1 TT
2155352 AGGTTGGCAC
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
31 1 0.01
32 82 0.95
33 3 0.03
ACGTcount: A:0.18, C:0.28, G:0.25, T:0.28
Consensus pattern (32 bp):
TTGGGTACGCTCTAAGGCCCCAAGGTATTCCC
Found at i:2155460 original size:80 final size:80
Alignment explanation
Indices: 2155326--2155484 Score: 255
Period size: 80 Copynumber: 2.0 Consensus size: 80
2155316 CCTTGGGTAC
* * *
2155326 GCTCTCAAGCCCCAAGATATTCCCTTAGGTTGGCACCTACGCTCAATGGACCTAGGGTAAGTTCT
1 GCTCTCAAGCCCCAACATATTCCCTTAGGTTGGCACCTACGCCCAATGGACCTAGGGTAAGTCCT
2155391 TATGGATGCAGTTAG
66 TATGGATGCAGTTAG
* * *
2155406 GCTCTCAAGCCCCAACATATTCTCTTAGGTTGGTACCTACGCCCAATGGGCCTAGGGTAAGTCCT
1 GCTCTCAAGCCCCAACATATTCCCTTAGGTTGGCACCTACGCCCAATGGACCTAGGGTAAGTCCT
*
2155471 TATGGATGTAGTTA
66 TATGGATGCAGTTA
2155485 TGGGAAACTG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 72 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (80 bp):
GCTCTCAAGCCCCAACATATTCCCTTAGGTTGGCACCTACGCCCAATGGACCTAGGGTAAGTCCT
TATGGATGCAGTTAG
Found at i:2158811 original size:15 final size:15
Alignment explanation
Indices: 2158791--2158820 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2158781 ATTTTTTTTT
*
2158791 AAATTTTAACTATAA
1 AAATTTTAAATATAA
2158806 AAATTTTAAATATAA
1 AAATTTTAAATATAA
2158821 TTTTTATGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
AAATTTTAAATATAA
Found at i:2158914 original size:23 final size:24
Alignment explanation
Indices: 2158871--2158915 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
2158861 TTTTAATATA
*
2158871 TTTATATTTTTATTAAGAATAAAT
1 TTTATATTTTTATTAAAAATAAAT
2158895 TTTA-ATTTTTGA-TAAAAATAA
1 TTTATATTTTT-ATTAAAAATAA
2158916 TAACATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (24 bp):
TTTATATTTTTATTAAAAATAAAT
Found at i:2159952 original size:16 final size:16
Alignment explanation
Indices: 2159931--2159966 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
2159921 TAAAATTCAA
2159931 AAGTTCCTCGTTGCTT
1 AAGTTCCTCGTTGCTT
2159947 AAGTTCCTCGTTGCTT
1 AAGTTCCTCGTTGCTT
2159963 AAGT
1 AAGT
2159967 GTACACATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.42
Consensus pattern (16 bp):
AAGTTCCTCGTTGCTT
Found at i:2176447 original size:20 final size:20
Alignment explanation
Indices: 2176422--2176481 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
2176412 AATCTCTACT
2176422 TTCTTCCATTACT-TTCCATA
1 TTCTTCCA-TACTCTTCCATA
2176442 TTCTTCCATACTCTTCCATA
1 TTCTTCCATACTCTTCCATA
*** *
2176462 AGATTCCACACTCTTCCATA
1 TTCTTCCATACTCTTCCATA
2176482 AGGTTCCACA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.11
20 31 0.89
ACGTcount: A:0.23, C:0.33, G:0.02, T:0.42
Consensus pattern (20 bp):
TTCTTCCATACTCTTCCATA
Found at i:2176499 original size:20 final size:20
Alignment explanation
Indices: 2176445--2176492 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
2176435 TTCCATATTC
*
2176445 TTCCATACTCTTCCATAAGA
1 TTCCACACTCTTCCATAAGA
*
2176465 TTCCACACTCTTCCATAAGG
1 TTCCACACTCTTCCATAAGA
2176485 TTCCACAC
1 TTCCACAC
2176493 ATCTCCAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.27, C:0.35, G:0.06, T:0.31
Consensus pattern (20 bp):
TTCCACACTCTTCCATAAGA
Found at i:2176609 original size:30 final size:30
Alignment explanation
Indices: 2176531--2176602 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
2176521 ATTCTTCCAC
* *
2176531 AAGCTTCTAGAGAATTCTACACTTCTCCGGA
1 AAGC-TCTAGAAAATTCTACACTTCTCCAGA
* *
2176562 ATGCTCTAGAAAATTCTACTCTTCTCCAGA
1 AAGCTCTAGAAAATTCTACACTTCTCCAGA
2176592 AAGCTCTAGAA
1 AAGCTCTAGAA
2176603 TTTTCTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 33 0.92
31 3 0.08
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (30 bp):
AAGCTCTAGAAAATTCTACACTTCTCCAGA
Found at i:2183697 original size:14 final size:14
Alignment explanation
Indices: 2183678--2183708 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2183668 ACTAAATAAG
2183678 AAATCAAATAATCA
1 AAATCAAATAATCA
*
2183692 AAATCAAATAATTA
1 AAATCAAATAATCA
2183706 AAA
1 AAA
2183709 GCATGCTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATCAAATAATCA
Found at i:2186405 original size:21 final size:21
Alignment explanation
Indices: 2186356--2186398 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
2186346 AGTAGGTGCC
2186356 GGAGGTTGAAGCCATTTCTTT
1 GGAGGTTGAAGCCATTTCTTT
2186377 GGAGGTTGAAGCCATTTCTTT
1 GGAGGTTGAAGCCATTTCTTT
2186398 G
1 G
2186399 TCGGTTGCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.14, G:0.30, T:0.37
Consensus pattern (21 bp):
GGAGGTTGAAGCCATTTCTTT
Found at i:2188677 original size:14 final size:14
Alignment explanation
Indices: 2188658--2188715 Score: 80
Period size: 14 Copynumber: 4.1 Consensus size: 14
2188648 GTAATTAGTT
2188658 TTCTGGAAATTGAA
1 TTCTGGAAATTGAA
2188672 TTCTGGAAATTGAA
1 TTCTGGAAATTGAA
* *
2188686 TTCTGAAAAATGAA
1 TTCTGGAAATTGAA
*
2188700 TTATTGGAAATTGAA
1 TT-CTGGAAATTGAA
2188715 T
1 T
2188716 CTTGAAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
14 28 0.74
15 10 0.26
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.36
Consensus pattern (14 bp):
TTCTGGAAATTGAA
Found at i:2188696 original size:29 final size:29
Alignment explanation
Indices: 2188668--2188729 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
2188658 TTCTGGAAAT
2188668 TGAATT-CTGGAAATTGAAT-TCTGAAAAA
1 TGAATTACTGGAAATTGAATCT-TGAAAAA
*
2188696 TGAATTATTGGAAATTGAATCTTGAAAAA
1 TGAATTACTGGAAATTGAATCTTGAAAAA
2188725 TGAAT
1 TGAAT
2188730 AACATTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
28 6 0.19
29 24 0.77
30 1 0.03
ACGTcount: A:0.44, C:0.05, G:0.18, T:0.34
Consensus pattern (29 bp):
TGAATTACTGGAAATTGAATCTTGAAAAA
Found at i:2188773 original size:13 final size:14
Alignment explanation
Indices: 2188740--2188766 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2188730 AACATTTATA
2188740 GAAAATGTTTTCCG
1 GAAAATGTTTTCCG
2188754 GAAAATGTTTTCC
1 GAAAATGTTTTCC
2188767 TAAAATGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (14 bp):
GAAAATGTTTTCCG
Found at i:2188956 original size:20 final size:21
Alignment explanation
Indices: 2188930--2188982 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
2188920 AACTTAATAT
2188930 TATTATTTTTAAAATATTAAA
1 TATTATTTTTAAAATATTAAA
** *
2188951 -ATTATTTTATTTATTATTAAA
1 TATTATTTT-TAAAATATTAAA
2188972 TATTATTTTTA
1 TATTATTTTTA
2188983 TAATTTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 8 0.31
21 10 0.38
22 8 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTATTTTTAAAATATTAAA
Found at i:2188998 original size:27 final size:28
Alignment explanation
Indices: 2188960--2189037 Score: 74
Period size: 27 Copynumber: 2.8 Consensus size: 28
2188950 AATTATTTTA
*
2188960 TTTATT-ATTAAATATTATT-TT-TATAAT
1 TTTATTAATAAAATA-TATTATTGTAT-AT
2188987 TTTATTAATAAAATATATTATTGGTATAT
1 TTTATTAATAAAATATATTATT-GTATAT
2189016 TTTATTAAAATAAAA-ATATTAT
1 TTTATT--AATAAAATATATTAT
2189038 AAATTAAATT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
27 10 0.23
28 9 0.20
29 8 0.18
30 10 0.23
31 7 0.16
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (28 bp):
TTTATTAATAAAATATATTATTGTATAT
Found at i:2189007 original size:30 final size:29
Alignment explanation
Indices: 2188969--2189037 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 29
2188959 ATTTATTATT
**
2188969 AAATATTATTTTTATAATTTTATT-AATAA
1 AAATATTATTGGTAT-ATTTTATTAAATAA
2188998 AATATATTATTGGTATATTTTATTAAAATAA
1 AA-ATATTATTGGTATATTTTATT-AAATAA
2189029 AAATATTAT
1 AAATATTAT
2189038 AAATTAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 10 0.29
30 18 0.51
31 7 0.20
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (29 bp):
AAATATTATTGGTATATTTTATTAAATAA
Found at i:2189171 original size:30 final size:32
Alignment explanation
Indices: 2189131--2189189 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 32
2189121 TGTATAATTG
* *
2189131 ATTATTTTATTA-TAATATTAA-AAATATAAT
1 ATTATGTTATTAGAAATATTAATAAATATAAT
2189161 ATTATGTTATTAGAAATATTAATAAATAT
1 ATTATGTTATTAGAAATATTAATAAATAT
2189190 TTTAAATAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 11 0.44
31 8 0.32
32 6 0.24
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (32 bp):
ATTATGTTATTAGAAATATTAATAAATATAAT
Found at i:2193093 original size:15 final size:15
Alignment explanation
Indices: 2193060--2193093 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2193050 TAGTCCGCGG
*
2193060 GTTTTGACGGTGTGA
1 GTTTTGACGGTGCGA
*
2193075 GTTTTGACGGTGCGT
1 GTTTTGACGGTGCGA
2193090 GTTT
1 GTTT
2193094 AAACGGAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.09, G:0.38, T:0.44
Consensus pattern (15 bp):
GTTTTGACGGTGCGA
Found at i:2194346 original size:14 final size:14
Alignment explanation
Indices: 2194327--2194360 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2194317 AGATATATTA
2194327 ATATATTTTATTTG
1 ATATATTTTATTTG
*
2194341 ATATATGTTATTTG
1 ATATATTTTATTTG
2194355 A-ATATT
1 ATATATT
2194361 ACTCGTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (14 bp):
ATATATTTTATTTG
Found at i:2196805 original size:22 final size:21
Alignment explanation
Indices: 2196779--2196846 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
2196769 ATTTAATTTT
*
2196779 TTTAAAATAAAAATATTTTAAA
1 TTTAAAATAAAAATATATT-AA
2196801 TTTAAAATATAAAA-ATATTAA
1 TTTAAAATA-AAAATATATTAA
* *
2196822 GTTAAATATAAAAATAAAATTAA
1 TTTAAA-ATAAAAAT-ATATTAA
2196845 TT
1 TT
2196847 ATTAGTATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
21 11 0.29
22 16 0.42
23 11 0.29
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (21 bp):
TTTAAAATAAAAATATATTAA
Found at i:2196847 original size:27 final size:27
Alignment explanation
Indices: 2196785--2196840 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 27
2196775 TTTTTTTAAA
*
2196785 ATAAAAATATT---TTAAATTTAAAAT
1 ATAAAAATATTAAGTTAAATATAAAAT
2196809 ATAAAAATATTAAGTTAAATATAAAA-
1 ATAAAAATATTAAGTTAAATATAAAAT
2196835 ATAAAA
1 ATAAAA
2196841 TTAATTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 11 0.39
26 6 0.21
27 11 0.39
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (27 bp):
ATAAAAATATTAAGTTAAATATAAAAT
Found at i:2201370 original size:32 final size:32
Alignment explanation
Indices: 2201303--2201363 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
2201293 TACTAGCGGT
**
2201303 GTGTTATATTCAGATAATACACAACGGTGATA
1 GTGTTATATTCAGATAATACACAACAATGATA
* * *
2201335 GTGTTGTATTCAGATAATGCATAACAATG
1 GTGTTATATTCAGATAATACACAACAATG
2201364 TCAGTGTCAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (32 bp):
GTGTTATATTCAGATAATACACAACAATGATA
Found at i:2202049 original size:65 final size:64
Alignment explanation
Indices: 2201979--2202112 Score: 216
Period size: 65 Copynumber: 2.1 Consensus size: 64
2201969 CATCCATTTT
*
2201979 GAATGCATTTTGTGTACCGATGCACA-AGCTATGCATCGATGCACTCTTGAATATTTTGAAACAT
1 GAATGCATTTTGTGTACCGATGCACAGA-CCATGCATCGATGCACTCTTGAATA-TTTGAAACAT
2202043 C
64 C
**
2202044 GAATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTCTTGGCTATTTGAAACATC
1 GAATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTCTTGAATATTTGAAACATC
2202108 GAATG
1 GAATG
2202113 TAATAAGTGT
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
64 16 0.25
65 48 0.74
66 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (64 bp):
GAATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTCTTGAATATTTGAAACATC
Found at i:2206908 original size:30 final size:30
Alignment explanation
Indices: 2206874--2207032 Score: 275
Period size: 30 Copynumber: 5.3 Consensus size: 30
2206864 GGTTCTTCGG
*
2206874 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
2206904 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
2206934 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
2206964 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* * *
2206994 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
2207023 GACCTCTGGA
1 GACCTCTGGA
2207033 TAGGTCCTTC
Statistics
Matches: 125, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
29 18 0.14
30 107 0.86
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (30 bp):
GACCTCTGGACAGTTACCGAGGATCTTTAT
Found at i:2207258 original size:2 final size:2
Alignment explanation
Indices: 2207246--2207321 Score: 134
Period size: 2 Copynumber: 38.0 Consensus size: 2
2207236 ATAGATAATG
* *
2207246 AT AT GT AT AT AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2207288 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2207322 GAAAGGTGCA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2210649 original size:23 final size:22
Alignment explanation
Indices: 2210582--2210645 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
2210572 CTAATGCATC
*
2210582 CCTTGAATGTGCATCGAT-ACA
1 CCTTGAATGTGCATCGATGACT
* *
2210603 CCATGAA-GTTGTATCGATGCACT
1 CCTTGAATG-TGCATCGATG-ACT
2210626 CCTTGAATGTGCATCGATGA
1 CCTTGAATGTGCATCGATGA
2210646 ACTCTGTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
20 1 0.03
21 14 0.41
22 1 0.03
23 17 0.50
24 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (22 bp):
CCTTGAATGTGCATCGATGACT
Found at i:2213434 original size:78 final size:79
Alignment explanation
Indices: 2213287--2213435 Score: 203
Period size: 78 Copynumber: 1.9 Consensus size: 79
2213277 TTGTGTACCG
* * * * *
2213287 ATGCACAACCTATGCATCGATGCACTCTTGAATATTTTGAAACATTGAATGCATTTTGTGTACCA
1 ATGCACAACCTATGCATCGATGCACTCCTGAATACTTTGAAACATCGAATGCAATTAGTGTACCA
2213352 ATGCACAAACCATA
66 ATGCACAAACCATA
* *
2213366 ATGCACAGACC-ATGCATCGATGCACTCCTGACT-CTTTGAAACATCGAATGTAATTAGTGTACC
1 ATGCACA-ACCTATGCATCGATGCACTCCTGAATACTTTGAAACATCGAATGCAATTAGTGTACC
*
2213429 GATGCAC
65 AATGCAC
2213436 TAAGTCTTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
78 31 0.51
79 27 0.44
80 3 0.05
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (79 bp):
ATGCACAACCTATGCATCGATGCACTCCTGAATACTTTGAAACATCGAATGCAATTAGTGTACCA
ATGCACAAACCATA
Found at i:2224350 original size:21 final size:20
Alignment explanation
Indices: 2224325--2224381 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 20
2224315 TATATTTTTA
2224325 ATATATTTTTTATTTTATTT
1 ATATATTTTTTATTTTATTT
*
2224345 ACTATATTCCTTT-TTTTATTT
1 A-TATATT-TTTTATTTTATTT
2224366 ATATATATTATTTATT
1 ATATAT-TT-TTTATT
2224382 ATATATATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
20 6 0.20
21 19 0.63
22 5 0.17
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (20 bp):
ATATATTTTTTATTTTATTT
Found at i:2224401 original size:16 final size:14
Alignment explanation
Indices: 2224361--2224405 Score: 58
Period size: 13 Copynumber: 3.2 Consensus size: 14
2224351 TTCCTTTTTT
2224361 TATTTATATATAT-
1 TATTTATATATATA
2224374 TATTTAT-TATATA
1 TATTTATATATATA
2224387 TATCTTATATCATATA
1 TAT-TTATAT-ATATA
2224403 TAT
1 TAT
2224406 GTATGTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.18
13 10 0.36
14 4 0.14
15 1 0.04
16 8 0.29
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (14 bp):
TATTTATATATATA
Found at i:2224471 original size:17 final size:17
Alignment explanation
Indices: 2224451--2224510 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 17
2224441 TTTACTATGT
2224451 ATATATATTTTTTCTTA
1 ATATATATTTTTTCTTA
* *
2224468 ATATTATATTTTATACGTTTTT
1 ATA-TATATTTT-T---TCTTA
2224490 ATATATATTTTTTCTTA
1 ATATATATTTTTTCTTA
2224507 ATAT
1 ATAT
2224511 TCTATTTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 10 0.29
18 8 0.24
19 1 0.03
20 1 0.03
21 8 0.24
22 6 0.18
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (17 bp):
ATATATATTTTTTCTTA
Found at i:2224533 original size:36 final size:38
Alignment explanation
Indices: 2224450--2224533 Score: 127
Period size: 39 Copynumber: 2.2 Consensus size: 38
2224440 ATTTACTATG
2224450 TATATATATTTTTTCTTAATATTATATTTTATACGTTTT
1 TATATATATTTTTTCTTAATATTATATTTTATA-GTTTT
*
2224489 TATATATATTTTTTCTTAATATTCTATTTT-T-GTTTT
1 TATATATATTTTTTCTTAATATTATATTTTATAGTTTT
*
2224525 TATTTATAT
1 TATATATAT
2224534 ATATTATATT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 13 0.30
38 1 0.02
39 29 0.67
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (38 bp):
TATATATATTTTTTCTTAATATTATATTTTATAGTTTT
Found at i:2224552 original size:22 final size:22
Alignment explanation
Indices: 2224468--2224553 Score: 63
Period size: 21 Copynumber: 3.9 Consensus size: 22
2224458 TTTTTTCTTA
2224468 ATATTATATTTTATACGTTT-T-T
1 ATATTATATTTT-TAC-TTTATAT
* *
2224490 ATA-TATATTTTTTCTTAATATT
1 ATATTATATTTTTACTTTATA-T
* * *
2224512 CTATTTTTGTTTTTA-TTTATAT
1 ATA-TTATATTTTTACTTTATAT
2224534 ATATTATATTTTTACTTTAT
1 ATATTATATTTTTACTTTAT
2224554 TTTATTTTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
19 2 0.04
20 3 0.06
21 17 0.35
22 14 0.29
23 5 0.10
24 7 0.15
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (22 bp):
ATATTATATTTTTACTTTATAT
Found at i:2226909 original size:195 final size:197
Alignment explanation
Indices: 2226574--2226966 Score: 731
Period size: 195 Copynumber: 2.0 Consensus size: 197
2226564 ACACATCTTC
2226574 AGGATCGGGATATTACCTGGAGAGCCCCCTGGTTGTTCCTCGGTGACGTTCTTTTCTGGTGTGGG
1 AGGATCGGGATATTACCTGGAGAGCCCCCTGGTTGTT-CTCGGTGACGTTCTTTTCTGGTGTGGG
2226639 GATTGATACTATGACCTTACTTGGACTTTGGGGTGCAGTTGGGTATGCTCCGTTGTTAGCACTTA
65 GATTGATACTATGACCTTACTTGGACTTTGGGGTGCAGTTGGGTATGCTCCGTTGTTAGCACTTA
2226704 GACAGTATGGGGCACATCAAATTGTCCCGGTAATATGCGGGCTAACTAGATCAGAGTTTGTGTAT
130 GACAGTATGGGGCACATCAAATTGTCCCGGTAATATGCGGGCTAACTAGATCAGAGTTTGTGTAT
2226769 AAT
195 AAT
2226772 AGGATCGGGATATTACCTGGAGAGCCCCCTGGTTG-T-TCGGTGACGTTCTTTTCTGGTGT-GGG
1 AGGATCGGGATATTACCTGGAGAGCCCCCTGGTTGTTCTCGGTGACGTTCTTTTCTGGTGTGGGG
2226834 ATTCTGATACTATGACC-TACTTGGACTTTGGGGTGCAGTTGGGTATGCTCCGTTGTTAGCACTT
66 A-T-TGATACTATGACCTTACTTGGACTTTGGGGTGCAGTTGGGTATGCTCCGTTGTTAGCACTT
2226898 AGACAGTATGGGGCACATCAAATTGTCCCGGTAATATGCGGGCTAACTAGATCAGAGTTTGTGTA
129 AGACAGTATGGGGCACATCAAATTGTCCCGGTAATATGCGGGCTAACTAGATCAGAGTTTGTGTA
2226963 TAAT
194 TAAT
2226967 GGTGACAGTT
Statistics
Matches: 193, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
194 4 0.02
195 140 0.73
196 13 0.07
197 1 0.01
198 35 0.18
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.32
Consensus pattern (197 bp):
AGGATCGGGATATTACCTGGAGAGCCCCCTGGTTGTTCTCGGTGACGTTCTTTTCTGGTGTGGGG
ATTGATACTATGACCTTACTTGGACTTTGGGGTGCAGTTGGGTATGCTCCGTTGTTAGCACTTAG
ACAGTATGGGGCACATCAAATTGTCCCGGTAATATGCGGGCTAACTAGATCAGAGTTTGTGTATA
AT
Found at i:2236458 original size:110 final size:106
Alignment explanation
Indices: 2236247--2236480 Score: 292
Period size: 110 Copynumber: 2.2 Consensus size: 106
2236237 CCAATTTCAA
* *
2236247 AGCCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAACG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCACAACG
* * * *
2236312 AAGGGGCGACTGATTGTCAACAAATAACTTTTCAGTTTCATTCAG
66 AAGGGGCGACTGACTATCAACAAACAACTTTCCAG-TTC--T-AG
* * * * *
2236357 AGTCAATTTCAACTTCACAGCGAATGATATTGAACTCGAGACAACACAAGCTCAACTTCATATCG
1 AGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCACAACG
*
2236422 AAGGGGCGGA-TGGCTATCAACAAACAA-TTTCCCAGTTCTAG
66 AAGGGGC-GACTGACTATCAACAAACAACTTT-CCAGTTCTAG
2236463 AGCCAATTTCAACTTCAC
1 AGCCAATTTCAACTTCAC
2236481 GATGGAGAAT
Statistics
Matches: 109, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
106 19 0.17
107 1 0.01
109 6 0.06
110 81 0.74
111 2 0.02
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (106 bp):
AGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCACAACG
AAGGGGCGACTGACTATCAACAAACAACTTTCCAGTTCTAG
Found at i:2237856 original size:25 final size:27
Alignment explanation
Indices: 2237828--2237877 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
2237818 TAATTATATT
2237828 TTTTTTATTT-TATT-TACTATATTCC
1 TTTTTTATTTATATTATACTATATTCC
*
2237853 TTTTTTATTTATATTATATTATATT
1 TTTTTTATTTATATTATACTATATT
2237878 TATTATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 4 0.18
27 8 0.36
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTTTTATTTATATTATACTATATTCC
Found at i:2237877 original size:16 final size:15
Alignment explanation
Indices: 2237858--2237908 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 15
2237848 ATTCCTTTTT
2237858 TATTTATATTATATTA
1 TATTTATATTATA-TA
2237874 TATTTAT-TATATATA
1 TATTTATAT-TATATA
*
2237889 TCTTATATCATTATATA
1 TATT-TAT-ATTATATA
2237906 TAT
1 TAT
2237909 ATGTGTGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
15 6 0.21
16 14 0.48
17 8 0.28
18 1 0.03
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (15 bp):
TATTTATATTATATA
Found at i:2237879 original size:20 final size:20
Alignment explanation
Indices: 2237856--2237910 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
2237846 ATATTCCTTT
2237856 TTTATT-TATATTATATTATA
1 TTTATTATATA-TATATTATA
*
2237876 TTTATTATATATATCTTATA
1 TTTATTATATATATATTATA
*
2237896 -TCATTATATATATAT
1 TTTATTATATATATAT
2237911 GTGTGTGTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.42
20 14 0.45
21 4 0.13
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTATTATATATATATTATA
Found at i:2238120 original size:37 final size:35
Alignment explanation
Indices: 2238079--2238162 Score: 89
Period size: 36 Copynumber: 2.3 Consensus size: 35
2238069 TTTTTTTCTA
*
2238079 TTATTTTTTTTCTTAATATCATGTATATTT-TTATTTT
1 TTATTTTTTTTCTTAATAT--TATATATTTATTA-TTT
* *
2238116 TTATTTGTTTTACTTAGTATTATATATTTATTATTT
1 TTATTT-TTTTTCTTAATATTATATATTTATTATTT
*
2238152 TTATTTGTTTT
1 TTATTTTTTTT
2238163 AGTAAATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
35 3 0.08
36 17 0.43
37 9 0.22
38 11 0.28
ACGTcount: A:0.21, C:0.04, G:0.05, T:0.70
Consensus pattern (35 bp):
TTATTTTTTTTCTTAATATTATATATTTATTATTT
Found at i:2238173 original size:36 final size:36
Alignment explanation
Indices: 2238102--2238173 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
2238092 TAATATCATG
* *
2238102 TATATTTTTATTTTTTATTTGTTTTACTTAGTATTA
1 TATATTTTTATTTTTTATTTGTTTTACTAAATATTA
*
2238138 TATATTTATTA-TTTTTATTTGTTTTAGTAAATATTA
1 TATATTT-TTATTTTTTATTTGTTTTACTAAATATTA
2238174 CTTTATATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 29 0.91
37 3 0.09
ACGTcount: A:0.26, C:0.01, G:0.06, T:0.67
Consensus pattern (36 bp):
TATATTTTTATTTTTTATTTGTTTTACTAAATATTA
Found at i:2238300 original size:19 final size:17
Alignment explanation
Indices: 2238278--2238314 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
2238268 TTTTTTAACA
2238278 TTTTATTCATTTTGTTTAT
1 TTTTATT-ATTTT-TTTAT
2238297 TTTTATTATTTTTTTAT
1 TTTTATTATTTTTTTAT
2238314 T
1 T
2238315 ATTTTTTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 5 0.28
19 7 0.39
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTATTATTTTTTTAT
Found at i:2238312 original size:11 final size:11
Alignment explanation
Indices: 2238296--2238321 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2238286 ATTTTGTTTA
2238296 TTTTTATTATT
1 TTTTTATTATT
2238307 TTTTTATTATT
1 TTTTTATTATT
2238318 TTTT
1 TTTT
2238322 ACGTGTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTATTATT
Found at i:2238330 original size:22 final size:23
Alignment explanation
Indices: 2238305--2238365 Score: 61
Period size: 25 Copynumber: 2.6 Consensus size: 23
2238295 ATTTTTATTA
2238305 TTTT-TTTATTATTTTTTACGTG
1 TTTTATTTATTATTTTTTACGTG
* * * *
2238327 TTTTGTTATTTTATATTTTTTCTTG
1 TTTTATT-TATTAT-TTTTTACGTG
2238352 TTTTATTTATTATT
1 TTTTATTTATTATT
2238366 CTCACATTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 4 0.13
23 3 0.10
24 10 0.32
25 14 0.45
ACGTcount: A:0.15, C:0.03, G:0.07, T:0.75
Consensus pattern (23 bp):
TTTTATTTATTATTTTTTACGTG
Found at i:2238361 original size:26 final size:28
Alignment explanation
Indices: 2238302--2238362 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 28
2238292 TTTATTTTTA
2238302 TTATTT-TTTTATTATTTTTTACGTGTT
1 TTATTTATTTTATTATTTTTTACGTGTT
* *
2238329 TT-GTTATTTTA-TATTTTTT-CTTGTT
1 TTATTTATTTTATTATTTTTTACGTGTT
2238354 TTATTTATT
1 TTATTTATT
2238363 ATTCTCACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 7 0.24
26 15 0.52
27 7 0.24
ACGTcount: A:0.15, C:0.03, G:0.07, T:0.75
Consensus pattern (28 bp):
TTATTTATTTTATTATTTTTTACGTGTT
Found at i:2245707 original size:18 final size:18
Alignment explanation
Indices: 2245676--2245712 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2245666 AAATTATTTA
2245676 ATATAATATAAAATAAAT
1 ATATAATATAAAATAAAT
* *
2245694 ATATATTATTAAATAAAT
1 ATATAATATAAAATAAAT
2245712 A
1 A
2245713 AAATTTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATAATATAAAATAAAT
Found at i:2245716 original size:23 final size:22
Alignment explanation
Indices: 2245686--2245731 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
2245676 ATATAATATA
*
2245686 AAATAAATATATATTATTAAAT
1 AAATAAATATAAATTATTAAAT
* *
2245708 AAATAAAATTTAAATTATTTAAT
1 AAAT-AAATATAAATTATTAAAT
2245731 A
1 A
2245732 GTTACCTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAATAAATATAAATTATTAAAT
Found at i:2247111 original size:21 final size:21
Alignment explanation
Indices: 2247087--2247127 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
2247077 CAGAGACAGT
*
2247087 TACCAAGGTACTTCATCTACA
1 TACCAAGGTACTTAATCTACA
2247108 TACCAAGGTACTTAATCTAC
1 TACCAAGGTACTTAATCTAC
2247128 TTCCACTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.27, G:0.10, T:0.29
Consensus pattern (21 bp):
TACCAAGGTACTTAATCTACA
Found at i:2253494 original size:15 final size:16
Alignment explanation
Indices: 2253460--2253494 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2253450 CTTTTAAATT
*
2253460 TTTTTTGAGTTCAAGC
1 TTTTTCGAGTTCAAGC
2253476 TTTTTCGAGTTCAAG-
1 TTTTTCGAGTTCAAGC
2253491 TTTT
1 TTTT
2253495 AATATTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.17, C:0.11, G:0.17, T:0.54
Consensus pattern (16 bp):
TTTTTCGAGTTCAAGC
Found at i:2268824 original size:65 final size:64
Alignment explanation
Indices: 2268711--2268831 Score: 208
Period size: 65 Copynumber: 1.9 Consensus size: 64
2268701 GAACGGATCA
*
2268711 ATAAATGTAAGGGATCAAAACTATTTTTTTTAAATTGATGATCAAAACCGAACAGAACATATCG
1 ATAAATGTAAGGGATCAAAACTATTTTTTTTAAACTGATGATCAAAACCGAACAGAACATATCG
2268775 ATAAATGTAAGGAGATCAAAACTACTTTTTTTTAAACTGATGATC-AAACCGAACAGA
1 ATAAATGTAAGG-GATCAAAACTA-TTTTTTTTAAACTGATGATCAAAACCGAACAGA
2268832 TCGAAAATAC
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
64 12 0.22
65 23 0.43
66 19 0.35
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (64 bp):
ATAAATGTAAGGGATCAAAACTATTTTTTTTAAACTGATGATCAAAACCGAACAGAACATATCG
Found at i:2269857 original size:115 final size:114
Alignment explanation
Indices: 2269700--2269909 Score: 323
Period size: 115 Copynumber: 1.8 Consensus size: 114
2269690 TATACATAAA
* * * *
2269700 TAAGATATTTACTTATTTAGAAATACCAGAAAAGGACTTCTAGGTGCTTTAAGACAGCTCTTTTC
1 TAAGATATTTACTTATTCAAAAATACCAGAAAAGGACTTCTAGGTACCTTAAGACAGCTCTTTTC
*
2269765 TTTGATATTTAAAAATAAATAAATATCAAAAACATTTTATTTTAATATAG
66 TTCGATA-TTAAAAATAAATAAATATCAAAAACATTTTATTTTAATATAG
* * *
2269815 TAAGATATTTATTTATTCAAAAATATCATAAAA-GAGCTTCTAGGTACCTTAAGACAGCTCTTTT
1 TAAGATATTTACTTATTCAAAAATACCAGAAAAGGA-CTTCTAGGTACCTTAAGACAGCTCTTTT
2269879 CTTCGATATTAAAAATAAATAAATATCAAAA
65 CTTCGATATTAAAAATAAATAAATATCAAAA
2269910 TATGATTATT
Statistics
Matches: 86, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
114 25 0.29
115 61 0.71
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (114 bp):
TAAGATATTTACTTATTCAAAAATACCAGAAAAGGACTTCTAGGTACCTTAAGACAGCTCTTTTC
TTCGATATTAAAAATAAATAAATATCAAAAACATTTTATTTTAATATAG
Found at i:2271416 original size:3 final size:3
Alignment explanation
Indices: 2271410--2271478 Score: 79
Period size: 3 Copynumber: 22.7 Consensus size: 3
2271400 ATTATTTTTT
* *
2271410 TAA TAA TAA TAA TATA TAA TAA T-A TATA TAA TAA TAA TTA TAA TTA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
2271456 TAA TAA TAA TAA T-A TAAA TAA TA
1 TAA TAA TAA TAA TAA T-AA TAA TA
2271479 TTCAAATGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
2 4 0.07
3 45 0.79
4 8 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:2271933 original size:123 final size:121
Alignment explanation
Indices: 2271714--2272026 Score: 472
Period size: 123 Copynumber: 2.6 Consensus size: 121
2271704 TTGAACAAAT
*
2271714 TCTTCTCATTATGAACTTCTTCTT--T-TTCAGATGAGTTCTTCTCATTATGAACATTT-TGGAA
1 TCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAAC-TTTCTGGAA
* * * *
2271775 ATGTTGATGTTGATCTATCTGCTTCTGTGATAGAGTTAAACAAAAGGTTAAATAAGC
65 ATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCAAACAAAAGGTTAAACAAGC
2271832 TCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGA
1 TCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAAC-TT-TCTGGA
* * ** *
2271897 AAAGTTGATGCTGATTTATCTCCTTCTGTGATAGAGTCATGCAAAAGGTTGAACAAGC
64 AATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCAAACAAAAGGTTAAACAAGC
*
2271955 TCTTCTCATTATGAACTTCTTCTTCCTCTTTAGATAAGTTCTTCTCATTATGAACTTTCTGGAAA
1 TCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTGGAAA
2272020 TGTTGAT
66 TGTTGAT
2272027 CCATTGATCA
Statistics
Matches: 177, Mismatches: 13, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
118 24 0.14
120 1 0.01
121 42 0.24
122 3 0.02
123 107 0.60
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.42
Consensus pattern (121 bp):
TCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTGGAAA
TGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCAAACAAAAGGTTAAACAAGC
Found at i:2272142 original size:103 final size:103
Alignment explanation
Indices: 2271947--2272957 Score: 1812
Period size: 103 Copynumber: 9.8 Consensus size: 103
2271937 GCAAAAGGTT
* * *
2271947 GAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTTAGATAAGTTCTTCTCATTATGAAC-
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
*
2272010 TT-TCTGGAAATGTTGATCCATTGATCAAACTAAAGTC
66 TTCTCTGGAAATGTTGATCCATCGATCAAACTAAAGTC
*
2272047 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
2272112 TTCTCTGGAAATGTTGATCCATCGATCAAACTAAAGTC
66 TTCTCTGGAAATGTTGATCCATCGATCAAACTAAAGTC
* * *
2272150 GAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGCTCTTCTCATTATGAATT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
2272215 TTCTCTGGAAATGTTGATCCATCGATCAAACTAAAGTC
66 TTCTCTGGAAATGTTGATCCATCGATCAAACTAAAGTC
2272253 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
2272318 TTCTCTGGAAATGTTGATCCATCGATCAAACTAAAGTC
66 TTCTCTGGAAATGTTGATCCATCGATCAAACTAAAGTC
* * *
2272356 GAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGCTCTTCTCATTATAAACT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
2272421 TTCTCTGGAAATGTTGATCCATCGATCAAACTAAAGTC
66 TTCTCTGGAAATGTTGATCCATCGATCAAACTAAAGTC
*
2272459 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
* *
2272524 TTCTATGTAAATGTTGATCCATCGATCAAACTAAAGTC
66 TTCTCTGGAAATGTTGATCCATCGATCAAACTAAAGTC
* *
2272562 GAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGCTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
2272627 TTCTCTGGAAATGTTGATCCATCGATCAAACTAAAGTC
66 TTCTCTGGAAATGTTGATCCATCGATCAAACTAAAGTC
*
2272665 AAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
*
2272730 TTCTCTGAAAATGTTGATCCATCGATCAAACTAAAGTC
66 TTCTCTGGAAATGTTGATCCATCGATCAAACTAAAGTC
* *
2272768 GAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGCTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
2272833 TTCTCTGGAAATGTTGATCCATCGATCAAACTAAAGTC
66 TTCTCTGGAAATGTTGATCCATCGATCAAACTAAAGTC
*
2272871 AAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
2272936 TTCTCTGGAAATGTTGATCCAT
66 TTCTCTGGAAATGTTGATCCAT
2272958 TGAGTGATGA
Statistics
Matches: 873, Mismatches: 35, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
100 33 0.04
101 28 0.03
102 2 0.00
103 810 0.93
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.40
Consensus pattern (103 bp):
GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
TTCTCTGGAAATGTTGATCCATCGATCAAACTAAAGTC
Found at i:2273036 original size:73 final size:73
Alignment explanation
Indices: 2272916--2273081 Score: 314
Period size: 73 Copynumber: 2.3 Consensus size: 73
2272906 TCTTCAGATG
* *
2272916 AGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTGATCCATTGAGTGATGAATTCAAGCAAAAA
1 AGTTCTTCTTATTATGAACTTTCTCTGGAAATGTTGATCCATCGAGTGATGAATTCAAGCAAAAA
2272981 GTTAAACA
66 GTTAAACA
2272989 AGTTCTTCTTATTATGAACTTTCTCTGGAAATGTTGATCCATCGAGTGATGAATTCAAGCAAAAA
1 AGTTCTTCTTATTATGAACTTTCTCTGGAAATGTTGATCCATCGAGTGATGAATTCAAGCAAAAA
2273054 GTTAAACA
66 GTTAAACA
2273062 AGTTCTTCTTATTATGAACT
1 AGTTCTTCTTATTATGAACT
2273082 ACTTCTTCCT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 91 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (73 bp):
AGTTCTTCTTATTATGAACTTTCTCTGGAAATGTTGATCCATCGAGTGATGAATTCAAGCAAAAA
GTTAAACA
Found at i:2273108 original size:113 final size:112
Alignment explanation
Indices: 2272989--2273265 Score: 412
Period size: 113 Copynumber: 2.4 Consensus size: 112
2272979 AAGTTAAACA
* * *
2272989 AGTTCTTCTTATTATGAACTTTCTCTGGAAATGTTGATCCATCGAGTGATGAATTCAAGCAAAAA
1 AGTTCTTCTCATTATGAACTTTC-CTGGTAATGTTGATCCATCGAATGATGAATTCAAGCAAAAA
*
2273054 GTTAAACAAGTTCTTCTTATTATGAACTACTTCTTCCTTCTTCAGATG
65 GTTAAACAAGTTCTTCTCATTATGAACTACTTCTTCCTTCTTCAGATG
* *
2273102 AGTTCTTCTCATTATGAA-TTTGACCTGGTAATGTTGGTCCATCGAATGATGAATTCAAGCGAAA
1 AGTTCTTCTCATTATGAACTTT--CCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCAAAA
* *
2273166 AGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
64 AGTTAAACAAGTTCTTCTCATTATGAACTACTTCTTCCTTCTTCAGATG
* * *
2273215 AGTTCTTCTCATTATGAACTTTAACTGGTACTGTTGATCCATTGAATGATG
1 AGTTCTTCTCATTATGAACTTT-CCTGGTAATGTTGATCCATCGAATGATG
2273266 GATTTAAATC
Statistics
Matches: 149, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
112 3 0.02
113 142 0.95
114 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (112 bp):
AGTTCTTCTCATTATGAACTTTCCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCAAAAAG
TTAAACAAGTTCTTCTCATTATGAACTACTTCTTCCTTCTTCAGATG
Found at i:2273701 original size:22 final size:22
Alignment explanation
Indices: 2273673--2273727 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
2273663 CATAAAGCTT
*
2273673 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
2273695 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
2273717 TCATCTTTGAA
1 TCATCTTTGAA
2273728 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:2274175 original size:54 final size:54
Alignment explanation
Indices: 2274093--2274250 Score: 289
Period size: 54 Copynumber: 2.9 Consensus size: 54
2274083 TCAGAATAGC
* *
2274093 ATGTTCGTAAAACATTTGACAGCGCATTCATCCTTTCCTGTGGCTTCTGCTCAG
1 ATGTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAG
2274147 ATGTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAG
1 ATGTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAG
*
2274201 ATGTTCGTAAAATATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGC
1 ATGTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGC
2274251 CAAGATTCCT
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 101 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
ATGTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAG
Found at i:2275292 original size:75 final size:74
Alignment explanation
Indices: 2275121--2275293 Score: 211
Period size: 75 Copynumber: 2.3 Consensus size: 74
2275111 GATATGGACC
* * * *
2275121 TTCAGCATGCCCCAACAATTGCTAATACGAACGTTCAAAATACATCAACATTCTTCATTCTGATT
1 TTCAGCATGCCCCAACATTTGCTAATACAAACATTCAAAATACATCAACATTCCTCATTCTGATT
2275186 GAAAAGGCT
66 GAAAAGGCT
* * * ** * *
2275195 TTCAGCATGCCTCAACATTTTGCTGATATAAACATTCAGGATACATCATCATTCCTGATTCTGAT
1 TTCAGCATGCCCCAACA-TTTGCTAATACAAACATTCAAAATACATCAACATTCCTCATTCTGAT
*
2275260 TGAAAAGGGTT
65 TGAAAA-GGCT
*
2275271 TTTAGCATGCCCCAACATTTGCT
1 TTCAGCATGCCCCAACATTTGCT
2275294 TCTTGTTAAT
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
74 16 0.19
75 49 0.59
76 18 0.22
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (74 bp):
TTCAGCATGCCCCAACATTTGCTAATACAAACATTCAAAATACATCAACATTCCTCATTCTGATT
GAAAAGGCT
Found at i:2276707 original size:115 final size:114
Alignment explanation
Indices: 2276396--2276733 Score: 586
Period size: 114 Copynumber: 3.0 Consensus size: 114
2276386 CATGCAGTTT
* * * *
2276396 ATCTTTTAATTCCAATGATTGGTTCTGGGGTTCCTACCGAATCAGATCAGATAACTCAAAGAACA
1 ATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGAACA
* *
2276461 CTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAATTC
66 CTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAATTC
* *
2276510 ATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGAACA
1 ATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGAACA
2276575 CTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAATTC
66 CTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAATTC
*
2276624 ATCTTTTAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAAC
1 ATCTTTTAAATCCAATGATTGG-TTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGAAC
2276689 ACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
65 ACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
2276734 CATGGCACTT
Statistics
Matches: 212, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
114 126 0.59
115 86 0.41
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.34
Consensus pattern (114 bp):
ATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGAACA
CTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAATTC
Found at i:2278868 original size:10 final size:10
Alignment explanation
Indices: 2278853--2278913 Score: 74
Period size: 10 Copynumber: 6.2 Consensus size: 10
2278843 CTTGATTCAA
2278853 TTTCTTCTTT
1 TTTCTTCTTT
2278863 TTTCTTCTTT
1 TTTCTTCTTT
*
2278873 TTTTTTC-TT
1 TTTCTTCTTT
2278882 TTT-TTCTTTT
1 TTTCTTC-TTT
2278892 TTTCTTTCTTT
1 TTTC-TTCTTT
2278903 TTTCTT-TTT
1 TTTCTTCTTT
2278912 TT
1 TT
2278914 GTTGTTTTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
8 3 0.07
9 10 0.22
10 23 0.50
11 7 0.15
12 3 0.07
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTCTTCTTT
Found at i:2278870 original size:13 final size:13
Alignment explanation
Indices: 2278854--2278908 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
2278844 TTGATTCAAT
2278854 TTCTTCTTTTTTC
1 TTCTTCTTTTTTC
*
2278867 TTCTTTTTTTTTC
1 TTCTTCTTTTTTC
* *
2278880 TT-TTTTTCTTTTT
1 TTCTTCTT-TTTTC
2278893 TTCTTTCTTTTTTC
1 TTC-TTCTTTTTTC
2278907 TT
1 TT
2278909 TTTTTGTTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 5 0.14
13 20 0.57
14 6 0.17
15 4 0.11
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTCTTCTTTTTTC
Done.