Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 135 of 186
Found at i:44434899 original size:95 final size:95
Alignment explanation
Indices: 44434718--44434947 Score: 367
Period size: 95 Copynumber: 2.4 Consensus size: 95
44434708 TTTATTATTG
*
44434718 AGTCTCAAAGCACCCTTTGCGGGTTTTCACTTTGGCCTTTTTTTTTGAAAGTCTCAAAGCGTCCT
1 AGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGG-C-TTTTTTTTGAAAGTCTCAAAGCGTCCT
44434783 TTGCGGTTTTTCACTTTGGTCTTTTTTTTTGAA
64 TTGCGGTTTTTCACTTTGGTCTTTTTTTTT-AA
*
44434816 AGTCTTAAAGCGCCCTTTGCGGGTTTTCACTTTGG-TTTTTTTTGAAAGTCTCAAAGCG-CTCTT
1 AGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGCTTTTTTTTGAAAGTCTCAAAGCGTC-CTT
44434879 TGCAGG-TTTTCACTTTGGTCTTTTTTTTTAA
65 TGC-GGTTTTTCACTTTGGTCTTTTTTTTTAA
*
44434910 AGTCTCAAAGCGCCCTTTGCGGGTTTTTACTTTGGCTT
1 AGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGCTT
44434948 CCTTCCCTTG
Statistics
Matches: 125, Mismatches: 4, Indels: 9
0.91 0.03 0.07
Matches are distributed among these distances:
94 36 0.29
95 54 0.43
96 2 0.02
98 33 0.26
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.45
Consensus pattern (95 bp):
AGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGCTTTTTTTTGAAAGTCTCAAAGCGTCCTTT
GCGGTTTTTCACTTTGGTCTTTTTTTTTAA
Found at i:44446112 original size:18 final size:18
Alignment explanation
Indices: 44446091--44446141 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
44446081 CATGATGGCT
44446091 TAAATAATATATAAAACA
1 TAAATAATATATAAAACA
*
44446109 TAAAAGAATA-ATAAAACA
1 T-AAATAATATATAAAACA
* *
44446127 CATAATAAGATATAA
1 TA-AATAATATATAA
44446142 TGTATATGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 1 0.04
18 14 0.54
19 11 0.42
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.24
Consensus pattern (18 bp):
TAAATAATATATAAAACA
Found at i:44448611 original size:6 final size:6
Alignment explanation
Indices: 44448600--44448627 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
44448590 TAGTAAGGTA
44448600 ATTGGT ATTGGT ATTGGT ATTGGT ATTG
1 ATTGGT ATTGGT ATTGGT ATTGGT ATTG
44448628 TTAAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (6 bp):
ATTGGT
Found at i:44449038 original size:20 final size:20
Alignment explanation
Indices: 44449013--44449055 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
44449003 AAAATCAGAC
*
44449013 CAGGGTTAGTTTTGATTTGA
1 CAGGGTTACTTTTGATTTGA
44449033 CAGGGTTACTTTTGATTTGA
1 CAGGGTTACTTTTGATTTGA
44449053 CAG
1 CAG
44449056 TGTACAAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.09, G:0.28, T:0.42
Consensus pattern (20 bp):
CAGGGTTACTTTTGATTTGA
Found at i:44450552 original size:12 final size:12
Alignment explanation
Indices: 44450537--44450569 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
44450527 TTTAGAAGCA
44450537 ATTTTCTTCTTG
1 ATTTTCTTCTTG
44450549 ATTTTCTTCTTG
1 ATTTTCTTCTTG
44450561 ATTTTCTTC
1 ATTTTCTTC
44450570 AAGGAGTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.09, C:0.18, G:0.06, T:0.67
Consensus pattern (12 bp):
ATTTTCTTCTTG
Found at i:44450795 original size:19 final size:20
Alignment explanation
Indices: 44450752--44450807 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
44450742 ATATTTTCTT
*
44450752 TATTTAGTTA-TTATTTTTAA
1 TATTTA-TTATTTATTCTTAA
44450772 TATTTATTATTTATTCTTAA
1 TATTTATTATTTATTCTTAA
44450792 -ATTTATTATTT-TTCTT
1 TATTTATTATTTATTCTT
44450808 TTTTTTGTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
18 5 0.15
19 14 0.41
20 15 0.44
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.68
Consensus pattern (20 bp):
TATTTATTATTTATTCTTAA
Found at i:44451670 original size:28 final size:22
Alignment explanation
Indices: 44451617--44451659 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
44451607 TTTACTTTAA
44451617 ATTGAAATATTTTATTTTCTTC
1 ATTGAAATATTTTATTTTCTTC
44451639 ATTGAAATATTTTATTTTCTT
1 ATTGAAATATTTTATTTTCTT
44451660 ATTCACTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (22 bp):
ATTGAAATATTTTATTTTCTTC
Found at i:44452045 original size:26 final size:23
Alignment explanation
Indices: 44452002--44452076 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
44451992 ATTCTTTTAT
* *
44452002 TAGAGTTAA-TTTTGTCTTAATC
1 TAGAATTAATTTTTTTCTTAATC
*
44452024 TGAGCATTTATATTTTTTTCTT-ATC
1 T-AG-AATTA-ATTTTTTTCTTAATC
44452049 TAGAATTAATTTTTTT-TTAATCC
1 TAGAATTAATTTTTTTCTTAAT-C
44452072 TAGAA
1 TAGAA
44452077 CTTAGGTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
21 2 0.05
22 11 0.25
23 12 0.27
24 6 0.14
25 5 0.11
26 8 0.18
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.53
Consensus pattern (23 bp):
TAGAATTAATTTTTTTCTTAATC
Found at i:44454300 original size:110 final size:110
Alignment explanation
Indices: 44453871--44454300 Score: 452
Period size: 110 Copynumber: 3.9 Consensus size: 110
44453861 CGGCGATCAT
* * * * * *
44453871 TTAGCAGGTACTATGTACCGATGATATAGATCGTAACGATGGCTTGAGATCCTGCTTATGTTGCG
1 TTAGTAGGTACTATGTACTGGTGATACAGACCGTAACGATGGCTTGAGATCCTGCATATGTTGCG
** * * ****
44453936 GATTCTCCGC-GACTTGTGTGAGCAGCATTGTGAATAGGGGATTAA
66 GATTCTCTACAG-CTTGTATGAGCAGCATCGTGAGCCTGGGATTAA
* * * * * *
44453981 TT-TTAGGTATTATGTACCGGTGATACAGATCGTAATGATGGCTTGAGATCCGGCATATGTTGCG
1 TTAGTAGGTACTATGTACTGGTGATACAGACCGTAACGATGGCTTGAGATCCTGCATATGTTGCG
* * *
44454045 GATTCTCTGCAGCTTCTATGAGCAGCATCGTGAG-CTGAGAATTAA
66 GATTCTCTACAGCTTGTATGAGCAGCATCGTGAGCCTG-GGATTAA
* * * * * * * *
44454090 TTAGTAGGTACAATGTACTAGTGATACAGTCTGTGACAATGGCTTGGGATCCTGCATGTGTTGCG
1 TTAGTAGGTACTATGTACTGGTGATACAGACCGTAACGATGGCTTGAGATCCTGCATATGTTGCG
* * *
44454155 GATTGTCTACAACTTGTATGAGCAGCATCATGAGCCTGGGATTAA
66 GATTCTCTACAGCTTGTATGAGCAGCATCGTGAGCCTGGGATTAA
* * * * *
44454200 TTAGTATGTACTATGTACTGGTGATACAGGCCATAACGATGGCTTGAGATCCTGCATGTGTTACG
1 TTAGTAGGTACTATGTACTGGTGATACAGACCGTAACGATGGCTTGAGATCCTGCATATGTTGCG
* *
44454265 GATTCTCTACAGCTTGTGTGAACAGCATCGTGAGCC
66 GATTCTCTACAGCTTGTATGAGCAGCATCGTGAGCC
44454301 GGTTAAAGTT
Statistics
Matches: 265, Mismatches: 51, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
108 1 0.00
109 89 0.34
110 172 0.65
111 3 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (110 bp):
TTAGTAGGTACTATGTACTGGTGATACAGACCGTAACGATGGCTTGAGATCCTGCATATGTTGCG
GATTCTCTACAGCTTGTATGAGCAGCATCGTGAGCCTGGGATTAA
Found at i:44454563 original size:13 final size:13
Alignment explanation
Indices: 44454535--44454573 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
44454525 ACAGGAATTC
*
44454535 TGATAATAACCTTG
1 TGATAAGAA-CTTG
44454549 TGATAAGAACTTG
1 TGATAAGAACTTG
44454562 TGATAAGAACTT
1 TGATAAGAACTT
44454574 TGTTCTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 16 0.67
14 8 0.33
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.33
Consensus pattern (13 bp):
TGATAAGAACTTG
Found at i:44455555 original size:21 final size:21
Alignment explanation
Indices: 44455531--44455582 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
44455521 CTGTCTTCCG
44455531 TGTCATGACAGAAGCCTTGCA
1 TGTCATGACAGAAGCCTTGCA
44455552 TGTCATGACAGAAGCCTTGCA
1 TGTCATGACAGAAGCCTTGCA
*
44455573 TGTCACGACA
1 TGTCATGACA
44455583 CTGAACAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (21 bp):
TGTCATGACAGAAGCCTTGCA
Found at i:44457727 original size:39 final size:39
Alignment explanation
Indices: 44457672--44457747 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
44457662 AAATGAATTG
*
44457672 TTGTTGGAATTATAATATTGAACTGGATATTCGGTTTTA
1 TTGTTGGAATTATAATACTGAACTGGATATTCGGTTTTA
* * *
44457711 TTGTTGGAATTGTAATACTGAATTGGATATTCTGTTT
1 TTGTTGGAATTATAATACTGAACTGGATATTCGGTTT
44457748 GAATTGAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.47
Consensus pattern (39 bp):
TTGTTGGAATTATAATACTGAACTGGATATTCGGTTTTA
Found at i:44459426 original size:15 final size:15
Alignment explanation
Indices: 44459406--44459441 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
44459396 TGGCACTCTA
44459406 AAGACCATATAATGT
1 AAGACCATATAATGT
*
44459421 AAGACCATATAGTGT
1 AAGACCATATAATGT
44459436 AAGACC
1 AAGACC
44459442 TTGGTTGGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (15 bp):
AAGACCATATAATGT
Found at i:44459657 original size:29 final size:29
Alignment explanation
Indices: 44459601--44459657 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
44459591 TAAATTGACA
* *
44459601 CCTTTATGGCGATCCCTGTTATATGGAAG
1 CCTTTATGGCGATCCCTGTTAAAAGGAAG
* * *
44459630 CCTTTGTGGCTATCTCTGTTAAAAGGAA
1 CCTTTATGGCGATCCCTGTTAAAAGGAA
44459658 TGCTCTATGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (29 bp):
CCTTTATGGCGATCCCTGTTAAAAGGAAG
Found at i:44463804 original size:21 final size:21
Alignment explanation
Indices: 44463742--44463805 Score: 110
Period size: 21 Copynumber: 3.0 Consensus size: 21
44463732 TACCTGGTAA
* *
44463742 AAGGTATCGATACTTTTTGTA
1 AAGGTATTGATACTTTTTGTG
44463763 AAGGTATTGATACTTTTTGTG
1 AAGGTATTGATACTTTTTGTG
44463784 AAGGTATTGATACTTTTTGTG
1 AAGGTATTGATACTTTTTGTG
44463805 A
1 A
44463806 TTGTTTGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.27, C:0.06, G:0.22, T:0.45
Consensus pattern (21 bp):
AAGGTATTGATACTTTTTGTG
Found at i:44465249 original size:14 final size:14
Alignment explanation
Indices: 44465230--44465261 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
44465220 TCAAATCACC
44465230 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
44465244 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
44465258 GGGC
1 GGGC
44465262 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:44469461 original size:14 final size:14
Alignment explanation
Indices: 44469442--44469473 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
44469432 TCCAATCACC
44469442 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
44469456 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
44469470 GGGC
1 GGGC
44469474 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:44469595 original size:20 final size:20
Alignment explanation
Indices: 44469567--44469610 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
44469557 TACTGATTAT
*
44469567 AATTTTTTAT-ACAAATTTTA
1 AATTATTTATAAC-AATTTTA
*
44469587 AATTATTTATAACACTTTTA
1 AATTATTTATAACAATTTTA
44469607 AATT
1 AATT
44469611 CTATATTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (20 bp):
AATTATTTATAACAATTTTA
Found at i:44476821 original size:48 final size:45
Alignment explanation
Indices: 44476703--44476836 Score: 144
Period size: 48 Copynumber: 2.8 Consensus size: 45
44476693 AGTGATAATT
*
44476703 TTAAATTTTCAATACTATTCGATATTATTTTAATTTATGCAAATTTAA
1 TTAAA-TTTCAATACTATT-GATATT-TTTTCATTTATGCAAATTTAA
*
44476751 TTAAATTTGCAATACTATTTGATATTTTATTCATTTATG-TAATTATAA
1 TTAAATTT-CAATACTA-TTGATATTTT-TTCATTTATGCAAATT-TAA
* *
44476799 TTACAATTTCAATACTGCTTGATTTTTTTTCATTTATG
1 TTA-AATTTCAATACT-ATTGATATTTTTTCATTTATG
44476837 ATGTTTGCAT
Statistics
Matches: 76, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
47 19 0.25
48 50 0.66
49 7 0.09
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (45 bp):
TTAAATTTCAATACTATTGATATTTTTTCATTTATGCAAATTTAA
Found at i:44477838 original size:14 final size:14
Alignment explanation
Indices: 44477819--44477850 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
44477809 TAGTCGTTTC
*
44477819 GTATTTAGTATTTT
1 GTATTTAGTATTAT
44477833 GTATTTAGTATTAT
1 GTATTTAGTATTAT
44477847 GTAT
1 GTAT
44477851 ATAAGTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.16, T:0.59
Consensus pattern (14 bp):
GTATTTAGTATTAT
Found at i:44482189 original size:126 final size:126
Alignment explanation
Indices: 44481964--44482345 Score: 640
Period size: 126 Copynumber: 3.0 Consensus size: 126
44481954 TTATAGCCTC
*
44481964 ATTTTTCTACGAACTACTGCAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTA
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTA
44482029 ACAGTACATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTACATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
* ** *
44482090 ATTTTTCTACGAACTATTGTAGCAAAAGAGTATCTACGTGGGAGCTTTTTCCAGAAATTTTGCTA
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTA
44482155 ACAGTACATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTACATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
* *
44482216 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACCTGGGAGCTTTTTCCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTA
* * **
44482281 ACAGTGCATCCTGCTTGAAGCGTTTTCCGACACTATTT-TTCCAGAAACGTCTGGTCAGAATT
66 ACAGTACATCCTGCTTGAAGCGTTTT-CGGCACTATTTGTT-CAGAAACGTCTACTCAGAATT
44482343 ATT
1 ATT
44482346 CTTGCAGAAA
Statistics
Matches: 239, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
126 207 0.87
127 32 0.13
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTA
ACAGTACATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:44489471 original size:31 final size:31
Alignment explanation
Indices: 44489435--44489497 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
44489425 AAGAGTTTGG
44489435 TGGCCCTTCGCTGGCACCTGAAGAGGTCACC
1 TGGCCCTTCGCTGGCACCTGAAGAGGTCACC
44489466 TGGCCCTTCGCTGGCACCTGAAGAGGTCACC
1 TGGCCCTTCGCTGGCACCTGAAGAGGTCACC
44489497 T
1 T
44489498 TGCTTATAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.16, C:0.35, G:0.29, T:0.21
Consensus pattern (31 bp):
TGGCCCTTCGCTGGCACCTGAAGAGGTCACC
Found at i:44492171 original size:48 final size:48
Alignment explanation
Indices: 44492100--44492464 Score: 297
Period size: 48 Copynumber: 7.6 Consensus size: 48
44492090 TAAATTGCCT
* * *
44492100 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATGTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCCG
* * * * *
44492148 ATGCCATGTCCCAAACATGGTCTTATACTAGCTCTCATATCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCCG
* * * * *
44492196 TTTCCATGTCCCAGACATGGTCTTATACTGGCTCTCATAAT-GTGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCGAGGCCG
* * * * * * * *
44492244 ATGCCATGTCCTAGACTTGGTTTTACACTAGCACAT-ATATCAACGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATATCGAGGCCG
* * * * *
44492292 ATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCATAAT-GTGCCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCGAGGCCG
* * * * * * * * *
44492340 ATGCCATGTCCAAGATATGGTATTACATTAGCACACATATCAACGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCCG
** * * * *
44492388 ATGAAATGTCCCAGACATGGTCCTACATTGGCTCTCATAAT-GTGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCGAGGCCG
44492436 ATGCCATGTCCCAGACATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
44492465 AGTACACATA
Statistics
Matches: 241, Mismatches: 69, Indels: 14
0.74 0.21 0.04
Matches are distributed among these distances:
47 5 0.02
48 229 0.95
49 7 0.03
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGGCCG
Found at i:44492274 original size:96 final size:96
Alignment explanation
Indices: 44492100--44492477 Score: 436
Period size: 96 Copynumber: 3.9 Consensus size: 96
44492090 TAAATTGCCT
* * * * *
44492100 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCACAT-GTCGAGGCCGATGCCATGTCCCAAAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCCATGTCCCAGAC
* * *
44492164 ATGGTCTTATACTAGCTCTCATATCAATGCCG
65 ATGGTCTTACACTAGCACTCATATCAACGCCG
* * * * * *
44492196 TTTCCATGTCCCAGACATGGTCTTATACTGGCTCTCATAATGTGGCTGATGCCATGTCCTAGACT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGACA
* *
44492261 TGGTTTTACACTAGCACAT-ATATCAACGCTG
66 TGGTCTTACACTAGCAC-TCATATCAACGCCG
* * * * * *
44492292 ATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCATAATGTGCCCAATGCCATGTCCAAGATA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGACA
* * *
44492357 TGGTATTACATTAGCACACATATCAACGCCG
66 TGGTCTTACACTAGCACTCATATCAACGCCG
** * * *
44492388 ATGAAATGTCCCAGACATGGTCCTACATTGGCTCTCATAATGTGGCTGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGACA
* *
44492453 TGGTCTTACACTAGTACACATATCA
66 TGGTCTTACACTAGCACTCATATCA
44492478 CCAAATTGTC
Statistics
Matches: 236, Mismatches: 43, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
96 234 0.99
97 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGACA
TGGTCTTACACTAGCACTCATATCAACGCCG
Found at i:44495430 original size:27 final size:27
Alignment explanation
Indices: 44495400--44495577 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44495390 ATATTGAGTC
* * * *
44495400 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
44495427 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44495454 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
44495482 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
44495509 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
44495536 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44495563 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44495578 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:44495539 original size:82 final size:81
Alignment explanation
Indices: 44495421--44495576 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44495411 TGCTATATAA
* *
44495421 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
44495486 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
44495503 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
44495567 CACTTAGTGC
65 CACTTAGTGC
44495577 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:44497499 original size:21 final size:20
Alignment explanation
Indices: 44497471--44497509 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
44497461 GGACTAAACC
44497471 GAGAACTTTA-AAAACTTTTG
1 GAGAAC-TTAGAAAACTTTTG
44497491 GAGAGACTTAGAAAACTTT
1 GAGA-ACTTAGAAAACTTT
44497510 CATCATGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
GAGAACTTAGAAAACTTTTG
Found at i:44498275 original size:16 final size:16
Alignment explanation
Indices: 44498254--44498292 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
44498244 ATACCCAACA
*
44498254 TGATAGCTTGATAGTG
1 TGATAGCTTGACAGTG
44498270 TGATAGCTTGACAGTG
1 TGATAGCTTGACAGTG
44498286 TGATAGC
1 TGATAGC
44498293 ATCTCCGGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.26, C:0.10, G:0.31, T:0.33
Consensus pattern (16 bp):
TGATAGCTTGACAGTG
Found at i:44499319 original size:50 final size:50
Alignment explanation
Indices: 44499233--44499355 Score: 169
Period size: 50 Copynumber: 2.5 Consensus size: 50
44499223 GCAATGTCCT
* *
44499233 AGACATGGTCTTACACGAAAT--CATATATCGATGCCAATGCCATATCCC
1 AGACATGGTCTTACATGAGATCACATATATCGATGCCAATGCCATATCCC
* * *
44499281 ATATATGGTCTTACATGAGATCACATATATCGATGCCAATGCCATGTCCC
1 AGACATGGTCTTACATGAGATCACATATATCGATGCCAATGCCATATCCC
* *
44499331 AGACATGGTTTTACATGGGATCACA
1 AGACATGGTCTTACATGAGATCACA
44499356 CATAACCCTA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 17 0.27
50 47 0.73
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (50 bp):
AGACATGGTCTTACATGAGATCACATATATCGATGCCAATGCCATATCCC
Found at i:44501091 original size:94 final size:94
Alignment explanation
Indices: 44500918--44501134 Score: 240
Period size: 94 Copynumber: 2.3 Consensus size: 94
44500908 CTGATTTATG
* * * * * * *
44500918 GACTTCACATGCTT-CCATAGCCGAACTATGGTCTTACACATGTAACCCTATATTTAATGTCTTA
1 GACTCCACATG-TTGCCATAGTCGAGCTAAGGGCTTACACATGTAACCCCATATTTAATGTCCTA
*
44500982 GTGAACTATCACATGTTTACTATCCT-GATA
65 GTGAACTACCACATGTTTACTATCCTGGA-A
* * * * *
44501012 GACTCTACATGTTGCCATAGTTGAGCTAAGGGCTTATACATGTAACCCCATGTTTAATGTCCTGG
1 GACTCCACATGTTGCCATAGTCGAGCTAAGGGCTTACACATGTAACCCCATATTTAATGTCCTAG
* * *
44501077 TGGACTACCCCATGTTTATTATCCTGGAA
66 TGAACTACCACATGTTTACTATCCTGGAA
* *
44501106 GACTCCAGATGTTGTCATAGTCGAGCTAA
1 GACTCCACATGTTGCCATAGTCGAGCTAA
44501135 AGTTTTACAA
Statistics
Matches: 101, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
93 2 0.02
94 97 0.96
95 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.33
Consensus pattern (94 bp):
GACTCCACATGTTGCCATAGTCGAGCTAAGGGCTTACACATGTAACCCCATATTTAATGTCCTAG
TGAACTACCACATGTTTACTATCCTGGAA
Found at i:44501109 original size:27 final size:27
Alignment explanation
Indices: 44501056--44501109 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
44501046 TATACATGTA
* **
44501056 ACCCCATGTTTAATGTCCTGGTGGACT
1 ACCCCATGTTTAATATCCTGGAAGACT
*
44501083 ACCCCATGTTTATTATCCTGGAAGACT
1 ACCCCATGTTTAATATCCTGGAAGACT
44501110 CCAGATGTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (27 bp):
ACCCCATGTTTAATATCCTGGAAGACT
Found at i:44504746 original size:49 final size:49
Alignment explanation
Indices: 44504674--44504774 Score: 157
Period size: 49 Copynumber: 2.1 Consensus size: 49
44504664 AAACATGGTA
* * *
44504674 GTTATAATTCTTTTTGGAAAGAATATAACGTTTTTAATACTTTCCATAT
1 GTTATAATTCTTTTTGGAAAGAATACAACGTGTTTAATACTTTACATAT
* *
44504723 GTTATAATTCTTTTTGGAAAGAATACAATGTGTTTAATGCTTTACATAT
1 GTTATAATTCTTTTTGGAAAGAATACAACGTGTTTAATACTTTACATAT
44504772 GTT
1 GTT
44504775 CTCTATAGGA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.47
Consensus pattern (49 bp):
GTTATAATTCTTTTTGGAAAGAATACAACGTGTTTAATACTTTACATAT
Found at i:44515302 original size:16 final size:16
Alignment explanation
Indices: 44515281--44515311 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44515271 ATTAATTTGA
44515281 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
44515297 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
44515312 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:44517025 original size:28 final size:28
Alignment explanation
Indices: 44516994--44517049 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
44516984 TCAAGTTTTT
44516994 TTAAAAAAACATATATATAAAATAATAA
1 TTAAAAAAACATATATATAAAATAATAA
44517022 TTAAAAAAACATATATATAAAATAATAA
1 TTAAAAAAACATATATATAAAATAATAA
44517050 ATAAGAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.29
Consensus pattern (28 bp):
TTAAAAAAACATATATATAAAATAATAA
Found at i:44517043 original size:14 final size:14
Alignment explanation
Indices: 44516998--44517043 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
44516988 GTTTTTTTAA
44516998 AAAAACATATATAT
1 AAAAACATATATAT
*
44517012 AAAATA-ATA-ATTAA
1 AAAA-ACATATA-TAT
44517026 AAAAACATATATAT
1 AAAAACATATATAT
44517040 AAAA
1 AAAA
44517044 TAATAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
13 2 0.08
14 22 0.85
15 2 0.08
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAAACATATATAT
Found at i:44518788 original size:42 final size:42
Alignment explanation
Indices: 44518742--44518831 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 42
44518732 ACTTATACGC
* *
44518742 CAATATAATCGCTTCGGTATATCTGATGGTGCATTTATGTGT
1 CAATATAATCGCTTCGGTATATCTGATGATGCACTTATGTGT
* * *
44518784 CAATATAATTGTTTCGGTTTATCTGATGATGCACTTATGTGT
1 CAATATAATCGCTTCGGTATATCTGATGATGCACTTATGTGT
44518826 -AATATA
1 CAATATA
44518832 TTTACTTCAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 6 0.14
42 37 0.86
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (42 bp):
CAATATAATCGCTTCGGTATATCTGATGATGCACTTATGTGT
Found at i:44522594 original size:36 final size:37
Alignment explanation
Indices: 44522554--44522633 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 37
44522544 GCCCTGCCAG
*
44522554 GGTCTTACACGT-ATCACCAAGCCATAGCCCAGCTAT
1 GGTCTTACACGTCATCACCAAGCCATAACCCAGCTAT
* * ** *
44522590 GGTCTTACATGTCATTATGATGCCATAACCCAGCTAT
1 GGTCTTACACGTCATCACCAAGCCATAACCCAGCTAT
44522627 GGTCTTA
1 GGTCTTA
44522634 TATGTTATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 11 0.30
37 26 0.70
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (37 bp):
GGTCTTACACGTCATCACCAAGCCATAACCCAGCTAT
Found at i:44522622 original size:37 final size:37
Alignment explanation
Indices: 44522574--44522672 Score: 137
Period size: 37 Copynumber: 2.7 Consensus size: 37
44522564 GTATCACCAA
*
44522574 GCCATAGCCCAGCTATGGTCTTACATGTCATTATGAT
1 GCCATAACCCAGCTATGGTCTTACATGTCATTATGAT
* *
44522611 GCCATAACCCAGCTATGGTCTTATATGTTATTATGAT
1 GCCATAACCCAGCTATGGTCTTACATGTCATTATGAT
* *
44522648 GCCA-AAGTCCAACTATGGTCTTACA
1 GCCATAA-CCCAGCTATGGTCTTACA
44522673 CGTACACACA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
36 2 0.04
37 53 0.96
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (37 bp):
GCCATAACCCAGCTATGGTCTTACATGTCATTATGAT
Found at i:44523727 original size:20 final size:20
Alignment explanation
Indices: 44523702--44523740 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
44523692 AACAGGAGTC
44523702 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
*
44523722 ACACGCCCGTGTGGTTTGG
1 ACACGCCCGTGTGGCTTGG
44523741 CCGTGTGGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.28, G:0.38, T:0.23
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTGGG
Found at i:44528199 original size:42 final size:42
Alignment explanation
Indices: 44528035--44528186 Score: 198
Period size: 42 Copynumber: 3.6 Consensus size: 42
44528025 TACTGTTCCA
* * ** *
44528035 ATGCCATATCCCAGATATAGTCTCACTTGGAA-TCGCATATCG
1 ATGCCATATCCCAGATATGGTCTTAC-ACGAAGTCTCATATCG
* * *
44528077 ACGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
44528120 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
*
44528162 ATACCATATCCCAGATATGGTCTTA
1 ATGCCATATCCCAGATATGGTCTTA
44528187 TTTGAAGTCT
Statistics
Matches: 96, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
42 66 0.69
43 30 0.31
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:44530172 original size:24 final size:24
Alignment explanation
Indices: 44530140--44530191 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
44530130 ATTTTCTTTC
44530140 AATTATTATTTAATTAAACAA-TTG
1 AATTATTATTTAATTAAA-AATTTG
44530164 AATTATTATTTAATTAAAAATTTG
1 AATTATTATTTAATTAAAAATTTG
44530188 AATT
1 AATT
44530192 TTGAAAATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 2 0.07
24 25 0.93
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (24 bp):
AATTATTATTTAATTAAAAATTTG
Found at i:44535860 original size:30 final size:29
Alignment explanation
Indices: 44535818--44535874 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
44535808 AAAGATAACA
44535818 AGAAAACCGAATAAAGAAATCCAAGATTG
1 AGAAAACCGAATAAAGAAATCCAAGATTG
*
44535847 AGAAACCCAGAATAAAGAAATCCAAGAT
1 AGAAAACC-GAATAAAGAAATCCAAGAT
44535875 ACGATACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.56, C:0.16, G:0.16, T:0.12
Consensus pattern (29 bp):
AGAAAACCGAATAAAGAAATCCAAGATTG
Found at i:44542816 original size:5 final size:5
Alignment explanation
Indices: 44542808--44542847 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
44542798 TTAGTTTAGG
* *
44542808 TTTTC TTTTC TTTTC TTTTC TATTC TTTTTC TATTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTT
44542848 TATTTTTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:44542823 original size:10 final size:10
Alignment explanation
Indices: 44542810--44542851 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
44542800 AGTTTAGGTT
*
44542810 TTCTTTTCTT
1 TTCTTTTCTA
44542820 TTCTTTTCTA
1 TTCTTTTCTA
44542830 TTCTTTTTCTA
1 TTC-TTTTCTA
44542841 TTCTTTT-TA
1 TTCTTTTCTA
44542850 TT
1 TT
44542852 TTTGTTGTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 4 0.13
10 16 0.53
11 10 0.33
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (10 bp):
TTCTTTTCTA
Found at i:44542839 original size:11 final size:11
Alignment explanation
Indices: 44542813--44542848 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
44542803 TTAGGTTTTC
*
44542813 TTTTCTTTTC-
1 TTTTCTATTCT
44542823 TTTTCTATTCT
1 TTTTCTATTCT
44542834 TTTTCTATTCT
1 TTTTCTATTCT
44542845 TTTT
1 TTTT
44542849 ATTTTTGTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTCTATTCT
Found at i:44543594 original size:19 final size:20
Alignment explanation
Indices: 44543571--44543630 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 20
44543561 ACAAAAAATA
44543571 CAAAATAATTTTCAAAATTT
1 CAAAATAATTTTCAAAATTT
*
44543591 -AAAAT-ATTTATAAAAATTT
1 CAAAATAATTT-TCAAAATTT
44543610 CAAAATTTATATTTTCAAAAT
1 CAAAA--TA-ATTTTCAAAAT
44543631 AATTATAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
18 4 0.12
19 13 0.41
20 4 0.12
22 1 0.03
23 6 0.19
24 4 0.12
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.42
Consensus pattern (20 bp):
CAAAATAATTTTCAAAATTT
Found at i:44550613 original size:33 final size:33
Alignment explanation
Indices: 44550571--44550636 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
44550561 TGTCATCATT
44550571 ATTTATTTTGAGGCACACGGACAAGGCACACAC
1 ATTTATTTTGAGGCACACGGACAAGGCACACAC
*
44550604 ATTTATTTTGAGGCACACGGCCAAGGCACACAC
1 ATTTATTTTGAGGCACACGGACAAGGCACACAC
44550637 CCGTGTGCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (33 bp):
ATTTATTTTGAGGCACACGGACAAGGCACACAC
Found at i:44556641 original size:46 final size:47
Alignment explanation
Indices: 44556499--44556757 Score: 228
Period size: 46 Copynumber: 5.5 Consensus size: 47
44556489 TTTGTGCGCC
* * ** *
44556499 AGTGTAAGACATGTCTGGAACATGCATCGGCCACATTACG-AGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAGAGCT
* ** *
44556545 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAT-AAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGATGTAGAGCT
*
44556593 AGTGTAAGACATGTCTGGGACATGTATCGGCCTCAAGATGTA-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAGAGCT
*
44556639 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGATGT---GTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAAGATGTAGAGCT
** ** * *
44556683 AGTACAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTGAGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCAAGATGT-AGAGCT
*
44556733 AGTGTAAGACCATGTCCGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
44556758 GCGTTGGCGT
Statistics
Matches: 175, Mismatches: 25, Indels: 23
0.78 0.11 0.10
Matches are distributed among these distances:
44 9 0.05
45 16 0.09
46 74 0.42
47 28 0.16
48 25 0.14
49 1 0.01
50 22 0.13
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAGAGCT
Found at i:44556803 original size:49 final size:50
Alignment explanation
Indices: 44556496--44556813 Score: 203
Period size: 46 Copynumber: 6.7 Consensus size: 50
44556486 TTATTTGTGC
* **
44556496 GCCAGTGTAAGA-CATGTCTGGAACAT-GCATCGGCCAC--AT-TACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGGATATGTGAGA
* ** * *
44556542 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA--TAAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGA
* * ** *
44556590 GCTAGTGTAAGA-CATGTCTGGGACAT-GTATCGGC-CTCAAGATGT-A-A
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTGAGA
* * *
44556636 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC-AAGATGT----
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGGATATGTGAGA
** **
44556680 GTTAGTACAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGA
* * * * *
44556730 GCCAGTGTAAGACCATGTCCGGGACATGGCGTTGGCGTC-GAT-TTTG-GTA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGGATATGTGAG-A
*
44556779 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
44556814 TATTATACCC
Statistics
Matches: 224, Mismatches: 29, Indels: 35
0.78 0.10 0.12
Matches are distributed among these distances:
44 9 0.04
45 16 0.07
46 75 0.33
47 30 0.13
48 25 0.11
49 36 0.16
50 32 0.14
51 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (50 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGA
Found at i:44560199 original size:40 final size:40
Alignment explanation
Indices: 44560143--44560279 Score: 181
Period size: 40 Copynumber: 3.5 Consensus size: 40
44560133 NNNNNNNNNN
44560143 CTTCGGGACTTAGCCCGGATATAGTACCTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTACCTCGCACAAATGC
* *
44560183 CTTCGGGACTTTGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTACCTCGCACAAATGC
** * *
44560223 CTTCGACACTT-GCCCGGA-ACTAGT-CACTAGCGCAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTAC-CTCGCACAAATGC
44560262 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
44560280 TTATCATCCA
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 31 0.36
40 53 0.62
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTACCTCGCACAAATGC
Found at i:44561348 original size:46 final size:47
Alignment explanation
Indices: 44561206--44561464 Score: 228
Period size: 46 Copynumber: 5.5 Consensus size: 47
44561196 TTTGTGCGCC
* * ** *
44561206 AGTGTAAGACATGTCTGGAACATGCATCGGCCACATTACG-AGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAGAGCT
* ** *
44561252 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAT-AAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGATGTAGAGCT
*
44561300 AGTGTAAGACATGTCTGGGACATGTATCGGCCTCAAGATGTA-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAGAGCT
*
44561346 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGATGT---GTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAAGATGTAGAGCT
** ** * *
44561390 AGTACAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTGAGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCAAGATGT-AGAGCT
*
44561440 AGTGTAAGACCATGTCCGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
44561465 GCGTTGGCGT
Statistics
Matches: 175, Mismatches: 25, Indels: 23
0.78 0.11 0.10
Matches are distributed among these distances:
44 9 0.05
45 16 0.09
46 74 0.42
47 28 0.16
48 25 0.14
49 1 0.01
50 22 0.13
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAGAGCT
Found at i:44561510 original size:49 final size:50
Alignment explanation
Indices: 44561203--44561520 Score: 203
Period size: 46 Copynumber: 6.7 Consensus size: 50
44561193 TTATTTGTGC
* **
44561203 GCCAGTGTAAGA-CATGTCTGGAACAT-GCATCGGCCAC--AT-TACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGGATATGTGAGA
* ** * *
44561249 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA--TAAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGA
* * ** *
44561297 GCTAGTGTAAGA-CATGTCTGGGACAT-GTATCGGC-CTCAAGATGT-A-A
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTGAGA
* * *
44561343 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC-AAGATGT----
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGGATATGTGAGA
** **
44561387 GTTAGTACAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGA
* * * * *
44561437 GCCAGTGTAAGACCATGTCCGGGACATGGCGTTGGCGTC-GAT-TTTG-GTA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGGATATGTGAG-A
*
44561486 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
44561521 TATTATACCC
Statistics
Matches: 224, Mismatches: 29, Indels: 35
0.78 0.10 0.12
Matches are distributed among these distances:
44 9 0.04
45 16 0.07
46 75 0.33
47 30 0.13
48 25 0.11
49 36 0.16
50 32 0.14
51 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (50 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGA
Found at i:44580607 original size:21 final size:21
Alignment explanation
Indices: 44580582--44580628 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
44580572 GGGTTAAGAC
44580582 ATCATATGGGAAAAAGACCAT
1 ATCATATGGGAAAAAGACCAT
44580603 ATCATATGGGAAAAAGACCAT
1 ATCATATGGGAAAAAGACCAT
44580624 ATCAT
1 ATCAT
44580629 GTAAGAACGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (21 bp):
ATCATATGGGAAAAAGACCAT
Found at i:44583977 original size:42 final size:41
Alignment explanation
Indices: 44583929--44584012 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 41
44583919 AATCGAGAGA
* * *
44583929 TTTACTACACTATTCTTTATTCTACATCAAATCCAAGTTTAT
1 TTTACTACAATATTCTTCATTCTACATAAAAT-CAAGTTTAT
*
44583971 TTTACTACAATGTTCTTCATTCTACATAAAATCAAGTTTAT
1 TTTACTACAATATTCTTCATTCTACATAAAATCAAGTTTAT
44584012 T
1 T
44584013 CTAATCTCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
41 10 0.26
42 28 0.74
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (41 bp):
TTTACTACAATATTCTTCATTCTACATAAAATCAAGTTTAT
Found at i:44584015 original size:21 final size:21
Alignment explanation
Indices: 44583944--44584015 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 21
44583934 TACACTATTC
*
44583944 TTTATTCTACATCAAATCCAAG
1 TTTATTCTACATAAAAT-CAAG
* * ****
44583966 TTTATTTTAC-TACAATGTTC
1 TTTATTCTACATAAAATCAAG
*
44583986 TTCATTCTACATAAAATCAAG
1 TTTATTCTACATAAAATCAAG
44584007 TTTATTCTA
1 TTTATTCTA
44584016 ATCTCTTTTC
Statistics
Matches: 34, Mismatches: 15, Indels: 3
0.65 0.29 0.06
Matches are distributed among these distances:
20 8 0.24
21 17 0.50
22 9 0.26
ACGTcount: A:0.33, C:0.18, G:0.04, T:0.44
Consensus pattern (21 bp):
TTTATTCTACATAAAATCAAG
Found at i:44593203 original size:26 final size:26
Alignment explanation
Indices: 44593135--44593204 Score: 90
Period size: 25 Copynumber: 2.7 Consensus size: 26
44593125 TGGTAATCAA
*
44593135 TAAAATGGAAGCCTTTATGCCATATC
1 TAAAATGGAAGCCTTTGTGCCATATC
**
44593161 TTGAAT-GAAGCCTTTGTAG-CATATC
1 TAAAATGGAAGCCTTTGT-GCCATATC
44593186 TAAAATGGAAGCCTTTGTG
1 TAAAATGGAAGCCTTTGTG
44593205 GCGTATTTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
25 21 0.57
26 16 0.43
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (26 bp):
TAAAATGGAAGCCTTTGTGCCATATC
Found at i:44593217 original size:26 final size:26
Alignment explanation
Indices: 44593137--44593219 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 26
44593127 GTAATCAATA
* *
44593137 AAATGGAAGCCTTTATGCCATATCTTG
1 AAATGGAAGCCTTTGTGGCATAT-TTG
* * *
44593164 -AAT-GAAGCCTTTGTAGCATATCTA
1 AAATGGAAGCCTTTGTGGCATATTTG
*
44593188 AAATGGAAGCCTTTGTGGCGTATTTG
1 AAATGGAAGCCTTTGTGGCATATTTG
44593214 AAATGG
1 AAATGG
44593220 GCGACCTCGT
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
24 1 0.02
25 18 0.40
26 26 0.58
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (26 bp):
AAATGGAAGCCTTTGTGGCATATTTG
Found at i:44611733 original size:24 final size:25
Alignment explanation
Indices: 44611701--44611753 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
44611691 TTGAAATTAA
*
44611701 AAAAGATATAGAATTCA-AAAAAT-T
1 AAAAGATATA-AATTAATAAAAATAT
*
44611725 AAAATATATAAATTAATAAAAATAT
1 AAAAGATATAAATTAATAAAAATAT
44611750 AAAA
1 AAAA
44611754 ATTCTTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.20
24 15 0.60
25 5 0.20
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (25 bp):
AAAAGATATAAATTAATAAAAATAT
Found at i:44615952 original size:22 final size:22
Alignment explanation
Indices: 44615922--44615965 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
44615912 TAGTCATATA
44615922 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
44615944 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
44615966 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:44616001 original size:13 final size:14
Alignment explanation
Indices: 44615985--44616026 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
44615975 TTTCAATTTT
44615985 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
44615998 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
44616013 ATTTTAAATAATAT
1 ATTTT-AATAATAT
44616027 TATTCTCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:44616011 original size:16 final size:16
Alignment explanation
Indices: 44615989--44616025 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
44615979 AATTTTATTT
44615989 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
44616006 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
44616021 TAATA
1 TAATA
44616026 TTATTCTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:44616078 original size:15 final size:15
Alignment explanation
Indices: 44616058--44616114 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
44616048 ATTCGATATT
44616058 AATATTTTAATAATA
1 AATATTTTAATAATA
*
44616073 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
44616092 AATATATTAATAATA
1 AATATTTTAATAATA
*
44616107 AATGTTTT
1 AATATTTT
44616115 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:44619650 original size:5 final size:4
Alignment explanation
Indices: 44619623--44619662 Score: 53
Period size: 4 Copynumber: 9.2 Consensus size: 4
44619613 TAGAGAATAA
44619623 ATTT ATTT ATTT ATTT ATTT ATTTT ATTCT ATTT CATTT A
1 ATTT ATTT ATTT ATTT ATTT A-TTT ATT-T ATTT -ATTT A
44619663 AGATTATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 21 0.64
5 12 0.36
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (4 bp):
ATTT
Found at i:44620690 original size:15 final size:15
Alignment explanation
Indices: 44620654--44620695 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
44620644 ACGTTAACGT
*
44620654 AATTAAATTATTAATA
1 AATTTAATT-TTAATA
44620670 AATTTATATTTTAAT-
1 AATTTA-ATTTTAATA
44620685 AATTTAATTTT
1 AATTTAATTTT
44620696 TAAAATGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 5 0.21
15 6 0.25
16 10 0.42
17 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTAATTTTAATA
Found at i:44620955 original size:29 final size:29
Alignment explanation
Indices: 44620906--44620968 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
44620896 GACAAGGGCG
*
44620906 ATAAAATTATACTTTGACA-TTAAAAAAT
1 ATAAAATTATACTTTAACATTTAAAAAAT
*
44620934 AATAAAATTTTA-TTTAATCATTTAAAAAAT
1 -ATAAAATTATACTTTAA-CATTTAAAAAAT
44620964 ATAAA
1 ATAAA
44620969 GATGTAAGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 4 0.13
29 17 0.57
30 9 0.30
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (29 bp):
ATAAAATTATACTTTAACATTTAAAAAAT
Found at i:44621940 original size:24 final size:24
Alignment explanation
Indices: 44621841--44621941 Score: 139
Period size: 24 Copynumber: 4.2 Consensus size: 24
44621831 AAGTCTGTCA
44621841 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGTTGATAAG
*
44621865 GGATAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGTTGATAAG
* * * *
44621889 AGATAGAATTTAGGAGTTCATAAG
1 GGAGAGGATTTAGGAGTTGATAAG
* *
44621913 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGTTGATAAG
44621937 GGAGA
1 GGAGA
44621942 ACAGTGTTGG
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.35, C:0.02, G:0.38, T:0.26
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGTTGATAAG
Found at i:44623395 original size:27 final size:26
Alignment explanation
Indices: 44623355--44623466 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
44623345 AGGAAGCGTC
*
44623355 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
44623382 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
44623409 CTGGTGGCTCTACCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
44623437 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
44623463 CTGG
1 CTGG
44623467 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.69
28 16 0.22
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:44623459 original size:54 final size:54
Alignment explanation
Indices: 44623355--44623466 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
44623345 AGGAAGCGTC
* *
44623355 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATACCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
44623409 CTGGTGGCTCTACCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATACCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
44623463 CTGG
1 CTGG
44623467 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATACCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:44643474 original size:8 final size:8
Alignment explanation
Indices: 44643461--44643491 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
44643451 TTAGATAGGC
44643461 AAAAGCCG
1 AAAAGCCG
44643469 AAAAGCCG
1 AAAAGCCG
*
44643477 AAATGCCG
1 AAAAGCCG
44643485 AAAAGCC
1 AAAAGCC
44643492 AGTATTTCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.48, C:0.26, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:44643950 original size:27 final size:26
Alignment explanation
Indices: 44643910--44644021 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
44643900 AGGAAGCGTC
*
44643910 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
44643937 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
44643964 CTGGTGGCTCTACCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
44643992 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
44644018 CTGG
1 CTGG
44644022 AAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.69
28 16 0.22
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:44644014 original size:54 final size:54
Alignment explanation
Indices: 44643910--44644021 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
44643900 AGGAAGCGTC
* *
44643910 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATACCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
44643964 CTGGTGGCTCTACCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATACCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
44644018 CTGG
1 CTGG
44644022 AAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATACCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:44658305 original size:28 final size:29
Alignment explanation
Indices: 44658263--44658377 Score: 146
Period size: 29 Copynumber: 4.0 Consensus size: 29
44658253 TACCTGTATC
* *
44658263 TGGCTCATTAAGCCCAA-TCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
44658291 TGGCCCATTAGGCCCAAATCACCTAT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
44658320 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
44658349 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
44658377 T
1 T
44658378 TCATGCTTAC
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
28 28 0.36
29 48 0.62
30 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:44658612 original size:16 final size:16
Alignment explanation
Indices: 44658587--44658638 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
44658577 GTAGCCAAAC
*
44658587 TTTCAGCTTTTCGGCA
1 TTTCAACTTTTCGGCA
*
44658603 TTTCAACTTTTCGGTA
1 TTTCAACTTTTCGGCA
* * *
44658619 TTTCCACATTTCGACA
1 TTTCAACTTTTCGGCA
44658635 TTTC
1 TTTC
44658639 GGTATTTCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.17, C:0.25, G:0.12, T:0.46
Consensus pattern (16 bp):
TTTCAACTTTTCGGCA
Found at i:44658622 original size:24 final size:24
Alignment explanation
Indices: 44658601--44658646 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
44658591 AGCTTTTCGG
*
44658601 CATTTCAACTTTTCGGTATTTCCA
1 CATTTCAACATTTCGGTATTTCCA
*
44658625 CATTTCGACATTTCGGTATTTC
1 CATTTCAACATTTCGGTATTTC
44658647 AACTTTTGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.20, C:0.24, G:0.11, T:0.46
Consensus pattern (24 bp):
CATTTCAACATTTCGGTATTTCCA
Found at i:44663928 original size:42 final size:42
Alignment explanation
Indices: 44663869--44663954 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
44663859 AATAAAAGGG
44663869 TTAATTTTGAAAACATATAGATCAAGAAAGGAGGAATTCAGA
1 TTAATTTTGAAAACATATAGATCAAGAAAGGAGGAATTCAGA
44663911 TTAATTTTGAAAACATATAGATCAAGAAAGGAGGAATTCAGA
1 TTAATTTTGAAAACATATAGATCAAGAAAGGAGGAATTCAGA
44663953 TT
1 TT
44663955 TAGATCGAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.28
Consensus pattern (42 bp):
TTAATTTTGAAAACATATAGATCAAGAAAGGAGGAATTCAGA
Found at i:44666672 original size:40 final size:40
Alignment explanation
Indices: 44666617--44666698 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
44666607 AAGATATGGT
*
44666617 TTTATTTTGTTCGCTACAATTTTATGCGTATCTCACATAG
1 TTTATTTTGTTCGCTACAATTTTATGCCTATCTCACATAG
* *
44666657 TTTATTTTGTTCGCTATAGTTTTATGCCTATCTCACATAG
1 TTTATTTTGTTCGCTACAATTTTATGCCTATCTCACATAG
44666697 TT
1 TT
44666699 CCACCATCTC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.50
Consensus pattern (40 bp):
TTTATTTTGTTCGCTACAATTTTATGCCTATCTCACATAG
Found at i:44676885 original size:27 final size:27
Alignment explanation
Indices: 44676844--44676897 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
44676834 TGTCATGTGA
* *
44676844 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
44676871 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
44676898 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:44677223 original size:49 final size:50
Alignment explanation
Indices: 44677151--44677375 Score: 262
Period size: 49 Copynumber: 4.5 Consensus size: 50
44677141 TGAGGTCACG
* *
44677151 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTAGGTCGCA
* * * * * *
44677200 TGTGTAGTACTAAGTGCAGGCTACTATGA-GTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTA-CATGTACCGGATAA-TTAGGTCGCA
* * * **
44677251 TGTGTAGTACTAAGTGAAGGCTACTACATGTATCAGATGGTTAGG-C-CA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTAGGTCGCA
44677299 TGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT-GGTCGCA
1 --TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTAGGTCGCA
44677350 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
44677376 TGCGTACCAG
Statistics
Matches: 147, Mismatches: 21, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
48 1 0.01
49 64 0.44
50 44 0.30
51 38 0.26
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTAGGTCGCA
Found at i:44677334 original size:101 final size:98
Alignment explanation
Indices: 44677146--44677375 Score: 277
Period size: 100 Copynumber: 2.3 Consensus size: 98
44677136 TATTGTGAGG
* * *
44677146 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGAAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACT
*
44677211 AAGTGCAGGCTACTATGAGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTATCAGTACCCGATAA-TT-GA
* **
44677246 TCACGTGTGTAGTACTAAGTGAAGGCTACTACATGTATCAGATGGTTAGG-C-CATGTGTGTAGT
1 TCACGTGTGTAGTACTAAGTGAAGGCTACTACATGTACCAGATAATT-GGTCGCA--TGTGTAGT
* *
44677309 ACTAAGTGCAGGCTACTA-CATGTACCGGATAATTGG
63 ACTAAGTGCAGGCTACTATCA-GTACCCGATAATTGA
* * *
44677345 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGAAGGCTACTA
44677376 TGCGTACCAG
Statistics
Matches: 114, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
99 31 0.27
100 45 0.39
101 38 0.33
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGAAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATCAGTACCCGATAATTGA
Found at i:44681054 original size:19 final size:19
Alignment explanation
Indices: 44681030--44681066 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
44681020 CAAATGGGAC
44681030 GAAATGGGCTAAACGGGCT
1 GAAATGGGCTAAACGGGCT
*
44681049 GAAATGGGCTAAATGGGC
1 GAAATGGGCTAAACGGGC
44681067 CCGATGGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.38, T:0.16
Consensus pattern (19 bp):
GAAATGGGCTAAACGGGCT
Found at i:44681062 original size:9 final size:9
Alignment explanation
Indices: 44681021--44681066 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
44681011 TGAATTGGCC
*
44681021 AAATGGGACG
1 AAATGGG-CT
44681031 AAATGGGCT
1 AAATGGGCT
*
44681040 AAACGGGCT
1 AAATGGGCT
44681049 GAAATGGGCT
1 -AAATGGGCT
44681059 AAATGGGC
1 AAATGGGC
44681067 CCGATGGACT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 17 0.53
10 15 0.47
ACGTcount: A:0.35, C:0.13, G:0.37, T:0.15
Consensus pattern (9 bp):
AAATGGGCT
Found at i:44681200 original size:29 final size:29
Alignment explanation
Indices: 44681158--44681240 Score: 89
Period size: 29 Copynumber: 2.9 Consensus size: 29
44681148 GCATGTGATC
* *
44681158 TGGGCCATATGAATATGAATTGGGCCTGA
1 TGGGCCATAAGAATATGAATTAGGCCTGA
* * *
44681187 TGGGCTATAAGAATGTGAATTAGGCTTGA
1 TGGGCCATAAGAATATGAATTAGGCCTGA
*
44681216 TGGGCCAT-ATAA-ATGAGATTAGGCC
1 TGGGCCATAAGAATATGA-ATTAGGCC
44681241 AAGTGGGCCA
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
27 3 0.07
28 10 0.23
29 31 0.70
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.28
Consensus pattern (29 bp):
TGGGCCATAAGAATATGAATTAGGCCTGA
Found at i:44687652 original size:30 final size:29
Alignment explanation
Indices: 44687608--44687672 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 29
44687598 TCAAGTAGCT
*
44687608 AAAGCTAGTTAAATCGCACACTTAGTGCA
1 AAAGCTAGTTAAATCGCACACTTAATGCA
*
44687637 AAAGCTAGTTTAAATCGCACACTTAATGCC
1 AAAGCTAG-TTAAATCGCACACTTAATGCA
44687667 AAAGCT
1 AAAGCT
44687673 TTCAATTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 8 0.24
30 25 0.76
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (29 bp):
AAAGCTAGTTAAATCGCACACTTAATGCA
Found at i:44692708 original size:51 final size:51
Alignment explanation
Indices: 44692642--44692769 Score: 238
Period size: 51 Copynumber: 2.5 Consensus size: 51
44692632 TGAGGTCGCA
44692642 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGAAAACTGTGATCACG
*
44692693 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGAAAACTGTGATCATG
1 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGAAAACTGTGATCACG
*
44692744 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGTAGGCTACTA
44692770 CTGTATCAGA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 75 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGAAAACTGTGATCACG
Found at i:44692810 original size:49 final size:49
Alignment explanation
Indices: 44692642--44692857 Score: 193
Period size: 51 Copynumber: 4.3 Consensus size: 49
44692632 TGAGGTCGCA
* * * ** * *
44692642 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAA-T-TGGTCACG
* * * ** * * *
44692693 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGAAAACTGTGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAA-T-TGGTCACG
**
44692744 TGTGTAGTACTAAGTGCAGGCTACTAC-TGTA-TCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAATT-GGTCACG
* *
44692793 TGTGTAGTACTAAGTGCAGGCTATTACGTGTACTGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCACG
44692842 TGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTG
44692858 GTACTAAGTG
Statistics
Matches: 146, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
48 1 0.01
49 55 0.38
50 14 0.10
51 76 0.52
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCACG
Found at i:44692891 original size:59 final size:59
Alignment explanation
Indices: 44692799--44692912 Score: 176
Period size: 59 Copynumber: 1.9 Consensus size: 59
44692789 CACGTGTGTA
* *
44692799 GTACTAAGTGCAGGCTATTACGTGTACTGGATAATTGGTCACGTGTGTAGTACTAAGTG
1 GTACTAAGTGCAAGCTATTACGTGTACTGGATAATTGGTCACATGTGTAGTACTAAGTG
* *
44692858 GTACTAAGTGCAAGCTACTT-CGTGTTCTGGATAATTGGTCGCATGTGTAGTACTA
1 GTACTAAGTGCAAGCTA-TTACGTGTACTGGATAATTGGTCACATGTGTAGTACTA
44692913 TGTGCAGGCT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
59 48 0.96
60 2 0.04
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (59 bp):
GTACTAAGTGCAAGCTATTACGTGTACTGGATAATTGGTCACATGTGTAGTACTAAGTG
Found at i:44696058 original size:46 final size:46
Alignment explanation
Indices: 44695957--44696044 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
44695947 TGTAACCCGC
* * * *
44695957 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
44696003 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
44696045 AACCATCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:44702575 original size:9 final size:10
Alignment explanation
Indices: 44702563--44702616 Score: 51
Period size: 9 Copynumber: 5.5 Consensus size: 10
44702553 TACGTGGGAT
44702563 ATGATAT-AC
1 ATGATATGAC
*
44702572 ATGAT-TGAT
1 ATGATATGAC
44702581 ATGATATGCAC
1 ATGATATG-AC
*
44702592 ATGATATG-T
1 ATGATATGAC
44702601 ATGATATGCAC
1 ATGATATG-AC
44702612 ATGAT
1 ATGAT
44702617 GTATTCAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
8 1 0.03
9 19 0.53
10 2 0.06
11 14 0.39
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (10 bp):
ATGATATGAC
Found at i:44702585 original size:5 final size:5
Alignment explanation
Indices: 44702560--44702608 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
44702550 TGATACGTGG
* *
44702560 GATAT GATAT -ACAT GAT-T GATAT GATAT GCACAT GATAT G-TAT GATAT
1 GATAT GATAT GATAT GATAT GATAT GATAT G-ATAT GATAT GATAT GATAT
44702608 G
1 G
44702609 CACATGATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
4 11 0.31
5 21 0.58
6 4 0.11
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (5 bp):
GATAT
Found at i:44702595 original size:20 final size:21
Alignment explanation
Indices: 44702560--44702616 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
44702550 TGATACGTGG
44702560 GATATGATAT--ACATGAT-T
1 GATATGATATGCACATGATAT
44702578 GATATGATATGCACATGATAT
1 GATATGATATGCACATGATAT
44702599 G-TATGATATGCACATGAT
1 GATATGATATGCACATGAT
44702617 GTATTCAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.28
20 24 0.67
21 2 0.06
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (21 bp):
GATATGATATGCACATGATAT
Found at i:44702695 original size:26 final size:26
Alignment explanation
Indices: 44702666--44702802 Score: 145
Period size: 26 Copynumber: 5.3 Consensus size: 26
44702656 GAGGAAGTGC
*
44702666 AAAAGGGCTTATGCCCCGGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
44702692 AAAAGGGCTTATGCCCTAGTTTTTTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
44702718 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * **
44702744 AAAAGGGCTTATGCCCTAGATTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
44702770 -AAAGGGCTTCTGCCCTAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
44702793 AAAAGAGGCT
1 AAAAG-GGCT
44702803 AGGCCTCCAG
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
24 7 0.07
25 21 0.22
26 69 0.71
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:44704361 original size:364 final size:364
Alignment explanation
Indices: 44703692--44704419 Score: 1456
Period size: 364 Copynumber: 2.0 Consensus size: 364
44703682 TAACTTCAAT
44703692 ATGGCACGTCAGATTTGGCCATAACGTCTGGGCCAGGTTTGGGGTGTTACATTTAGTGGTATCAG
1 ATGGCACGTCAGATTTGGCCATAACGTCTGGGCCAGGTTTGGGGTGTTACATTTAGTGGTATCAG
44703757 AGCCCGGTTGCAACAACTCGACTGTGGATCGGGTCCGAAAAATTTTTCGCAAAAAAAGAAAAACA
66 AGCCCGGTTGCAACAACTCGACTGTGGATCGGGTCCGAAAAATTTTTCGCAAAAAAAGAAAAACA
44703822 ATTTGACCAAGAAGGGTATTTTTGGAAATGGTTTTGGAAAGATCTTCTCAAAGATATTTTACAAA
131 ATTTGACCAAGAAGGGTATTTTTGGAAATGGTTTTGGAAAGATCTTCTCAAAGATATTTTACAAA
44703887 GGTATACATGATAAAATGGTTTAAGTTTTTCTGGTTTTTTTAAACGGGTCTAAAATCGAGAATTT
196 GGTATACATGATAAAATGGTTTAAGTTTTTCTGGTTTTTTTAAACGGGTCTAAAATCGAGAATTT
44703952 CAAAACAAAGGTATTTTTTTCAAATTTTAAGAAATTTTATTTTTTTGTGATTAAATACATGGTTT
261 CAAAACAAAGGTATTTTTTTCAAATTTTAAGAAATTTTATTTTTTTGTGATTAAATACATGGTTT
44704017 GTGGTTTTTGGATTGGAGAATGAAGTGGCACTGAATCCC
326 GTGGTTTTTGGATTGGAGAATGAAGTGGCACTGAATCCC
44704056 ATGGCACGTCAGATTTGGCCATAACGTCTGGGCCAGGTTTGGGGTGTTACATTTAGTGGTATCAG
1 ATGGCACGTCAGATTTGGCCATAACGTCTGGGCCAGGTTTGGGGTGTTACATTTAGTGGTATCAG
44704121 AGCCCGGTTGCAACAACTCGACTGTGGATCGGGTCCGAAAAATTTTTCGCAAAAAAAGAAAAACA
66 AGCCCGGTTGCAACAACTCGACTGTGGATCGGGTCCGAAAAATTTTTCGCAAAAAAAGAAAAACA
44704186 ATTTGACCAAGAAGGGTATTTTTGGAAATGGTTTTGGAAAGATCTTCTCAAAGATATTTTACAAA
131 ATTTGACCAAGAAGGGTATTTTTGGAAATGGTTTTGGAAAGATCTTCTCAAAGATATTTTACAAA
44704251 GGTATACATGATAAAATGGTTTAAGTTTTTCTGGTTTTTTTAAACGGGTCTAAAATCGAGAATTT
196 GGTATACATGATAAAATGGTTTAAGTTTTTCTGGTTTTTTTAAACGGGTCTAAAATCGAGAATTT
44704316 CAAAACAAAGGTATTTTTTTCAAATTTTAAGAAATTTTATTTTTTTGTGATTAAATACATGGTTT
261 CAAAACAAAGGTATTTTTTTCAAATTTTAAGAAATTTTATTTTTTTGTGATTAAATACATGGTTT
44704381 GTGGTTTTTGGATTGGAGAATGAAGTGGCACTGAATCCC
326 GTGGTTTTTGGATTGGAGAATGAAGTGGCACTGAATCCC
44704420 CGGCACCAAG
Statistics
Matches: 364, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
364 364 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.34
Consensus pattern (364 bp):
ATGGCACGTCAGATTTGGCCATAACGTCTGGGCCAGGTTTGGGGTGTTACATTTAGTGGTATCAG
AGCCCGGTTGCAACAACTCGACTGTGGATCGGGTCCGAAAAATTTTTCGCAAAAAAAGAAAAACA
ATTTGACCAAGAAGGGTATTTTTGGAAATGGTTTTGGAAAGATCTTCTCAAAGATATTTTACAAA
GGTATACATGATAAAATGGTTTAAGTTTTTCTGGTTTTTTTAAACGGGTCTAAAATCGAGAATTT
CAAAACAAAGGTATTTTTTTCAAATTTTAAGAAATTTTATTTTTTTGTGATTAAATACATGGTTT
GTGGTTTTTGGATTGGAGAATGAAGTGGCACTGAATCCC
Found at i:44710948 original size:25 final size:25
Alignment explanation
Indices: 44710919--44710966 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
44710909 TTATAGTATG
* * *
44710919 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
44710944 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
44710967 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:44711007 original size:9 final size:10
Alignment explanation
Indices: 44710995--44711051 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
44710985 TACGTGGGAT
44710995 ATGATAT-AC
1 ATGATATGAC
*
44711004 ATGAT-TGAT
1 ATGATATGAC
44711013 ATGATATGCAC
1 ATGATATG-AC
*
44711024 ATGATATG-T
1 ATGATATGAC
44711033 ATGATATGCAC
1 ATGATATG-AC
44711044 ATGATATG
1 ATGATATG
44711052 TATGAAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (10 bp):
ATGATATGAC
Found at i:44711027 original size:20 final size:20
Alignment explanation
Indices: 44710994--44711068 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
44710984 ATACGTGGGA
44710994 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
44711011 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
44711032 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
44711052 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
44711069 GTATTCATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:44711029 original size:11 final size:11
Alignment explanation
Indices: 44711013--44711068 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
44711003 CATGATTGAT
44711013 ATGATATGCAC
1 ATGATATGCAC
*
44711024 ATGATATG--T
1 ATGATATGCAC
44711033 ATGATATGCAC
1 ATGATATGCAC
*
44711044 ATGATATG--T
1 ATGATATGCAC
*
44711053 ATGAAATGCAC
1 ATGATATGCAC
44711064 ATGAT
1 ATGAT
44711069 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:44711147 original size:26 final size:26
Alignment explanation
Indices: 44711118--44711358 Score: 319
Period size: 26 Copynumber: 9.3 Consensus size: 26
44711108 GAGGAAGTGC
**
44711118 AAAAGGGCTTAT-CCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCC-AGTTTATTG
44711144 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
44711170 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
44711196 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * * **
44711222 AAAAGGGTTTACGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
44711248 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
44711274 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * **
44711300 AAAAGGGCTTATGCCCTAGATTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
44711326 -AAAGGGCTTCTGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
44711349 AAAAGAGGCT
1 AAAAG-GGCT
44711359 AGGCCTCCAG
Statistics
Matches: 192, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
24 7 0.04
25 20 0.10
26 161 0.84
27 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:44711251 original size:78 final size:78
Alignment explanation
Indices: 44711118--44711358 Score: 353
Period size: 78 Copynumber: 3.1 Consensus size: 78
44711108 GAGGAAGTGC
* ** * **
44711118 AAAAGGGCTTATCCCCTAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTATG
44711183 CCCCAGTTTATTG
66 CCCCAGTTTATTG
* *
44711196 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGTTTACGCCCTAGTTTACCGAAAAGGGCTTATG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTATG
44711261 CCCCAGTTTATTG
66 CCCCAGTTTATTG
* * *
44711274 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCTAGATTACCG-AAAGGGCTTCTG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTATG
44711338 CCCCAG-TTATT-
66 CCCCAGTTTATTG
44711349 AAAAGAGGCT
1 AAAAG-GGCT
44711359 AGGCCTCCAG
Statistics
Matches: 149, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
75 5 0.03
76 9 0.06
77 17 0.11
78 118 0.79
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (78 bp):
AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTATG
CCCCAGTTTATTG
Found at i:44711950 original size:18 final size:18
Alignment explanation
Indices: 44711927--44711961 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44711917 ACTTAAGACG
*
44711927 TGTTTTCAAAACGACACT
1 TGTTTTCAAAACAACACT
*
44711945 TGTTTTCCAAACAACAC
1 TGTTTTCAAAACAACAC
44711962 AATGTTACGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (18 bp):
TGTTTTCAAAACAACACT
Found at i:44719573 original size:425 final size:425
Alignment explanation
Indices: 44718783--44719630 Score: 1615
Period size: 425 Copynumber: 2.0 Consensus size: 425
44718773 TCCTCGATCA
* ** *
44718783 CACATCTTTGCCATCTTCCACGGAATATCGAAACCGATACTCGGTAGCAATTCATATTTAACAAG
1 CACATCTTCGCCATCTTCCACAAAATATCAAAACCGATACTCGGTAGCAATTCATATTTAACAAG
44718848 TAGCACACATAATTTGCATATTACTCAATAATAACCACAAAGCATAATATTTCATGATATTAATC
66 TAGCACACATAATTTGCATATTACTCAATAATAACCACAAAGCATAATATTTCATGATATTAATC
44718913 ATCATATCATATAAATAACATTAAATTACTTAAAATGACAATTATGTTACTACATTTACACCTGA
131 ATCATATCATATAAATAACATTAAATTACTTAAAATGACAATTATGTTACTACATTTACACCTGA
* *
44718978 ACTTACTTCGGTACAAAATAAAGAAATTTTGCAATTTAGTCCACAATCTTTTCCTTTCCCCGATC
196 ACTTACCTCGGTACAAAATAAAGAAAGTTTGCAATTTAGTCCACAATCTTTTCCTTTCCCCGATC
44719043 AAGGTCGATTCCACGTCTTTCTTGGTCTAAAATAACACATTTAGCTGATTTAATACTCACATTTA
261 AAGGTCGATTCCACGTCTTTCTTGGTCTAAAATAACACATTTAGCTGATTTAATACTCACATTTA
44719108 TCAAAATAGTCCTTAACTCTAACTTTGGCAAAATTGTGATTTTACCCTTAAACTTTTGCATATTT
326 TCAAAATAGTCCTTAACTCTAACTTTGGCAAAATTGTGATTTTACCCTTAAACTTTTGCATATTT
44719173 ACACTTTTGCCCCAAAGCTCAAAAATTAAATTTCG
391 ACACTTTTGCCCCAAAGCTCAAAAATTAAATTTCG
*
44719208 CACATCTTCGCCATCTTCCACAAAATATCAAAATCGATACTCGGTAGCAATTCATATTTAACAAG
1 CACATCTTCGCCATCTTCCACAAAATATCAAAACCGATACTCGGTAGCAATTCATATTTAACAAG
*
44719273 TAGTACACATAATTTGCATATTACTCAATAATAACCACAAAGCATAATATTTCATGATATTAATC
66 TAGCACACATAATTTGCATATTACTCAATAATAACCACAAAGCATAATATTTCATGATATTAATC
44719338 ATCATATCATATAAATAACATTAAATTACTTAAAATGACAATTATGTTACTACATTTACACCTGA
131 ATCATATCATATAAATAACATTAAATTACTTAAAATGACAATTATGTTACTACATTTACACCTGA
*
44719403 ACTTACCTCGGTACAAAATAAAGAAAGTTTGCAATTTAGTCCATAATCTTTTCCTTTCCCCGATC
196 ACTTACCTCGGTACAAAATAAAGAAAGTTTGCAATTTAGTCCACAATCTTTTCCTTTCCCCGATC
44719468 AAGGTCGATTCCACGTCTTTCTTGGTCTAAAATAACACATTTAGCTGATTTAATACTCACATTTA
261 AAGGTCGATTCCACGTCTTTCTTGGTCTAAAATAACACATTTAGCTGATTTAATACTCACATTTA
44719533 TCAAAATAGTCCTTAACTCTAACTTTGGCAAAATTGTGATTTTACCCTTAAACTTTTGCATATTT
326 TCAAAATAGTCCTTAACTCTAACTTTGGCAAAATTGTGATTTTACCCTTAAACTTTTGCATATTT
44719598 ACACTTTTGCCCCAAAGCTCAAAAATTAAATTT
391 ACACTTTTGCCCCAAAGCTCAAAAATTAAATTT
44719631 TTTTCCAAAG
Statistics
Matches: 414, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
425 414 1.00
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (425 bp):
CACATCTTCGCCATCTTCCACAAAATATCAAAACCGATACTCGGTAGCAATTCATATTTAACAAG
TAGCACACATAATTTGCATATTACTCAATAATAACCACAAAGCATAATATTTCATGATATTAATC
ATCATATCATATAAATAACATTAAATTACTTAAAATGACAATTATGTTACTACATTTACACCTGA
ACTTACCTCGGTACAAAATAAAGAAAGTTTGCAATTTAGTCCACAATCTTTTCCTTTCCCCGATC
AAGGTCGATTCCACGTCTTTCTTGGTCTAAAATAACACATTTAGCTGATTTAATACTCACATTTA
TCAAAATAGTCCTTAACTCTAACTTTGGCAAAATTGTGATTTTACCCTTAAACTTTTGCATATTT
ACACTTTTGCCCCAAAGCTCAAAAATTAAATTTCG
Found at i:44723923 original size:27 final size:27
Alignment explanation
Indices: 44723867--44723923 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
44723857 CTCAACCGTA
* *
44723867 TGTGCTACAAGGCTCAGAACACGCGTG
1 TGTGCTACAAGGCTCAAAACACGCGCG
*
44723894 TGTGCTACAAGGC-CTAAAACACGGGCG
1 TGTGCTACAAGGCTC-AAAACACGCGCG
44723921 TGT
1 TGT
44723924 ATCTTGGCCG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.26, C:0.25, G:0.30, T:0.19
Consensus pattern (27 bp):
TGTGCTACAAGGCTCAAAACACGCGCG
Found at i:44724072 original size:21 final size:21
Alignment explanation
Indices: 44724048--44724117 Score: 104
Period size: 21 Copynumber: 3.3 Consensus size: 21
44724038 CGACATGAAG
*
44724048 CACGGGCGTCTCCCTTGATCA
1 CACGGGCGTGTCCCTTGATCA
44724069 CACGGGCGTGTCCCTTGATCA
1 CACGGGCGTGTCCCTTGATCA
** *
44724090 CAAAGGCGTGTCCCTTTATCA
1 CACGGGCGTGTCCCTTGATCA
44724111 CACGGGC
1 CACGGGC
44724118 ATGTGCACCG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.17, C:0.34, G:0.26, T:0.23
Consensus pattern (21 bp):
CACGGGCGTGTCCCTTGATCA
Found at i:44730574 original size:52 final size:51
Alignment explanation
Indices: 44730478--44730655 Score: 195
Period size: 52 Copynumber: 3.5 Consensus size: 51
44730468 AGATGCCTGG
* * * *
44730478 TGGCCTGCACATAGTACCACCCCTTGTAGT-CAAAGCTA-CCTTCTTCACAAA
1 TGGCCTTCACATAGTA-CAACACTTGT-GTCCAAAGCTATCTTTCTTCACAAA
*
44730529 TTGGCCTTCCCATAGTACAACACTTGTGTCCAAAGCTATCTTTCTTCACAAA
1 -TGGCCTTCACATAGTACAACACTTGTGTCCAAAGCTATCTTTCTTCACAAA
* *
44730581 GTGGCCTTCACATAGTACCACACTTGTGACC-AAGCTATCTCTTC-TCA-AAA
1 -TGGCCTTCACATAGTACAACACTTGTGTCCAAAGCTATCT-TTCTTCACAAA
* *
44730631 TGGCCTTCACAAAGTACTACACTTG
1 TGGCCTTCACATAGTACAACACTTG
44730656 AGTCACTAGC
Statistics
Matches: 112, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
49 23 0.21
50 5 0.04
51 28 0.25
52 56 0.50
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.29
Consensus pattern (51 bp):
TGGCCTTCACATAGTACAACACTTGTGTCCAAAGCTATCTTTCTTCACAAA
Found at i:44762023 original size:48 final size:48
Alignment explanation
Indices: 44761819--44762026 Score: 208
Period size: 48 Copynumber: 4.3 Consensus size: 48
44761809 ATCCGAGATG
* * * * * *
44761819 TGTGCC-ATTGTAAGAACATGTCTGGGACATTGCAGCGGTGATGATATA
1 TGTGCCTA-TGTAAGACCATGTCTGAGACATGGCATCGGCGATTATATA
* * *
44761867 TGTGTCTATGTAAGACCATGTCTAAGACATGGCATCAGC-ATTGATATA
1 TGTGCCTATGTAAGACCATGTCTGAGACATGGCATCGGCGATT-ATATA
* * *
44761915 TGTGCCTATGTAAGACCATGTTTGAGAGATGGCATTGGCGATGT-TATA
1 TGTGCCTATGTAAGACCATGTCTGAGACATGGCATCGGCGAT-TATATA
* * * *
44761963 TGTTCCTGTGTAAGACCATGTATGGGACATGGCATCGGCGATTATATA
1 TGTGCCTATGTAAGACCATGTCTGAGACATGGCATCGGCGATTATATA
44762011 TGTGCC-ATTGTAAGAC
1 TGTGCCTA-TGTAAGAC
44762027 ATGGCATTGG
Statistics
Matches: 131, Mismatches: 23, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
47 3 0.02
48 124 0.95
49 3 0.02
50 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.31
Consensus pattern (48 bp):
TGTGCCTATGTAAGACCATGTCTGAGACATGGCATCGGCGATTATATA
Found at i:44764107 original size:46 final size:46
Alignment explanation
Indices: 44764040--44764211 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
44764030 AACCCGCCCC
*
44764040 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
44764086 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
44764134 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
44764179 TAGGTGAACTCGGACTGAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
44764212 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 59 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:44764152 original size:93 final size:93
Alignment explanation
Indices: 44764045--44764215 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
44764035 GCCCCTAAGT
* *
44764045 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44764110 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
44764138 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTGAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44764203 CGAGTTCGGATGC
66 CGAGTTCGGATGC
44764216 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:44764669 original size:30 final size:30
Alignment explanation
Indices: 44764635--44764694 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
44764625 ATTTAATACG
44764635 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
44764665 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
44764695 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:44780670 original size:46 final size:46
Alignment explanation
Indices: 44780603--44780820 Score: 375
Period size: 46 Copynumber: 4.7 Consensus size: 46
44780593 AACCCGCCCC
* *
44780603 TAAGTGAACTCGGACTCAACTCAACGAGCTTAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCA
* * *
44780649 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
44780695 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
44780741 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
44780787 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
44780821 TGCTCAACCA
Statistics
Matches: 166, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
45 3 0.02
46 163 0.98
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:44785950 original size:15 final size:15
Alignment explanation
Indices: 44785930--44785974 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
44785920 GTCGAAAATC
44785930 CATAAACCAAATTTG
1 CATAAACCAAATTTG
**
44785945 CATAAACCAAATTCA
1 CATAAACCAAATTTG
44785960 CATAAACCAAATTTG
1 CATAAACCAAATTTG
44785975 TATACTTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.24
Consensus pattern (15 bp):
CATAAACCAAATTTG
Found at i:44792829 original size:48 final size:48
Alignment explanation
Indices: 44792735--44792967 Score: 218
Period size: 48 Copynumber: 4.8 Consensus size: 48
44792725 ATGAGATTTC
* * * *
44792735 GTGTAAAACCATGTTTGGGACATGGAATTGGC-ATCCGAGT-TATGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGAT--GA-TATATGTGCCA
** * * * *
44792784 GTGTAAGACCACATCTGGCATATGGCATCGGTGATGATATATGTGCCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCA
* * * * * *
44792832 GTGTAAGACTATGTTTGGGGCATGGCATCGACGTTGATATATGTGCCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCA
* *
44792880 GTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATATGTACCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCA
* * * * *
44792928 TTGTAAAACCATGTCTGGGACATGGAATTGGTGATGATAT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
44792968 GTGGATTCAT
Statistics
Matches: 148, Mismatches: 34, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
47 1 0.01
48 122 0.82
49 23 0.16
50 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCA
Found at i:44792966 original size:96 final size:95
Alignment explanation
Indices: 44792735--44792967 Score: 247
Period size: 96 Copynumber: 2.4 Consensus size: 95
44792725 ATGAGATTTC
*
44792735 GTGTAAAACCATGTTTGGGACATGGAATTGGCATCCGAGT-TATGTGCCAGTGTAAGACCACATC
1 GTGTAAAACCATGTTTGGGACATGGAATTGGGAT--GA-TATATGTGCCAGTGTAAGACCACATC
* * *
44792799 TGGCATATGGCATCGGTGATGATATATGTGCCT
63 TGGCACATGGCATCGGCGATGATATATGTACCT
* * * * * * * * **
44792832 GTGTAAGACTATGTTTGGGGCATGGCATCGACGTTGATATATGTGCCTGTGTAAGACCATGTCTA
1 GTGTAAAACCATGTTTGGGACATGGAATTG-GGATGATATATGTGCCAGTGTAAGACCACATCT-
44792897 GG-ACATGGCATCGGCGATGATATATGTACCAT
64 GGCACATGGCATCGGCGATGATATATGTACC-T
*
44792929 -TGTAAAACCATGTCTGGGACATGGAATTGGTGATGATAT
1 GTGTAAAACCATGTTTGGGACATGGAATTGG-GATGATAT
44792968 GTGGATTCAT
Statistics
Matches: 109, Mismatches: 22, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
95 1 0.01
96 79 0.72
97 28 0.26
98 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (95 bp):
GTGTAAAACCATGTTTGGGACATGGAATTGGGATGATATATGTGCCAGTGTAAGACCACATCTGG
CACATGGCATCGGCGATGATATATGTACCT
Found at i:44792981 original size:48 final size:48
Alignment explanation
Indices: 44792805--44792998 Score: 137
Period size: 48 Copynumber: 4.0 Consensus size: 48
44792795 CATCTGGCAT
* * * * * *
44792805 ATGGCATCGGTGATGATATATGTG-CC-TGTGTAAGACTATGTTTGGGGC
1 ATGGAATCGGCGATGATATATG-GACCAT-TGTAAGACCATGTCTAGGAC
* * *
44792853 ATGGCATCGACGTTGATATATGTG-CC-TGTGTAAGACCATGTCTAGGAC
1 ATGGAATCGGCGATGATATATG-GACCAT-TGTAAGACCATGTCTAGGAC
* * * *
44792901 ATGGCATCGGCGATGATATATGTACCATTGTAAAACCATGTCTGGGAC
1 ATGGAATCGGCGATGATATATGGACCATTGTAAGACCATGTCTAGGAC
* * * * * *
44792949 ATGGAATTGGTGATGATATGTGGATTCA-TGTAAGACCATCTCTTGGAC
1 ATGGAATCGGCGATGATATATGGA-CCATTGTAAGACCATGTCTAGGAC
44792997 AT
1 AT
44792999 AACATTGGTA
Statistics
Matches: 122, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
48 119 0.98
49 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (48 bp):
ATGGAATCGGCGATGATATATGGACCATTGTAAGACCATGTCTAGGAC
Found at i:44800932 original size:27 final size:27
Alignment explanation
Indices: 44800902--44801078 Score: 158
Period size: 27 Copynumber: 6.5 Consensus size: 27
44800892 AAATTGTACA
* *
44800902 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
** *
44800929 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGACTATG-TG
* * *
44800956 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * *
44800983 GCACTAAGAGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
* * *
44801011 GCACCAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * * *
44801038 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTG
*
44801065 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
44801079 GACTCAATAT
Statistics
Matches: 121, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 100 0.83
28 21 0.17
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:44801020 original size:82 final size:81
Alignment explanation
Indices: 44800902--44801057 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
44800892 AAATTGTACA
* * * * *
44800902 GCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGAGTGCGATCTGACTATGTAGCACCAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
44800966 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
44800983 GCACTAAGAGTGCGAGTCTGACTATGTAGCACCAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGAGTGCGA-TCTGACTATGTAGCACCAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
44801048 TGCGAGTTGA
65 TGCGAATTGA
44801058 TTATATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.77
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (81 bp):
GCACTAAGAGTGCGATCTGACTATGTAGCACCAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44809840 original size:27 final size:27
Alignment explanation
Indices: 44809803--44810009 Score: 333
Period size: 27 Copynumber: 7.6 Consensus size: 27
44809793 TAAATTGTGC
* *
44809803 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
44809830 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
*
44809858 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
44809885 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
*
44809913 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
44809940 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
*
44809968 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
44809995 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44810010 GACTTAATAT
Statistics
Matches: 169, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
27 91 0.54
28 78 0.46
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:44809868 original size:55 final size:55
Alignment explanation
Indices: 44809803--44810009 Score: 378
Period size: 55 Copynumber: 3.8 Consensus size: 55
44809793 TAAATTGTGC
*
44809803 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
44809858 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
44809913 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
* * *
44809968 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
44810010 GACTTAATAT
Statistics
Matches: 148, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 148 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
Found at i:44822380 original size:47 final size:47
Alignment explanation
Indices: 44822316--44822445 Score: 161
Period size: 47 Copynumber: 2.8 Consensus size: 47
44822306 GTGCAAATAA
* * * * * *
44822316 TACCTAGATTTGGCTACGGGCCATGATATAAGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAAGTACTCTAAGAGAAGT
* * *
44822363 TACCTTGATTTAGCTACGGGCCATGGTATAGGTACTCTAAGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAAGTACTCTAAGAGAAGT
* *
44822410 TACCTTGATTTGGCTACAGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAAGTACT
44822446 TATCGATTGT
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAAGTACTCTAAGAGAAGT
Found at i:44826541 original size:40 final size:40
Alignment explanation
Indices: 44826473--44826656 Score: 266
Period size: 40 Copynumber: 4.6 Consensus size: 40
44826463 AACCCAAGTA
*
44826473 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
*
44826512 CCTTCGGGACTTAGCTCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
*
44826552 CCTTCGGGACTTAGCCCGGATATAGCAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* * *
44826592 CCTTCGGGACTTAGCCCGGATTTAGTC-ACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATG
*
44826632 CCTTC-GGATCTTAGTCCGGATATAG
1 CCTTCGGGA-CTTAGCCCGGATATAG
44826657 TCACTAACAC
Statistics
Matches: 133, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
39 16 0.12
40 116 0.87
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
Found at i:44828265 original size:29 final size:29
Alignment explanation
Indices: 44828202--44828269 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
44828192 TAATCAACCA
*
44828202 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
44828231 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
44828260 CGCACACTTA
1 CGCACACTTA
44828270 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:44828439 original size:29 final size:29
Alignment explanation
Indices: 44828376--44828443 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
44828366 TAATCAACCA
*
44828376 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
44828405 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
44828434 CGCACACTTA
1 CGCACACTTA
44828444 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Done.