Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 160 of 345
Found at i:44452402 original size:47 final size:44
Alignment explanation
Indices: 44452324--44452538 Score: 129
Period size: 47 Copynumber: 4.7 Consensus size: 44
44452314 GGTATAATGC
* *
44452324 CGATACCATG-CCTCAGACATGGTCTTTCACTGGCTCTCACGTTAAG
1 CGATGCCATGTCC-CAGACAT-GTCTTACACTGGCT-TCACGTTAAG
* * *
44452370 TCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATCATGT-AG
1 -CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTCA-CGT-TAAG
* *
44452416 CTGATG-CATGTCCCAAACATGTCTTACACTGGCTTACATC-TTGAGG
1 C-GATGCCATGTCCCAGACATGTCTTACACTGGCTT-CA-CGTT-AAG
* * *
44452462 CAAATG-CATGTCCCAGACATGTCTTACACTAG-TTCTCGTCTCAATG
1 C-GATGCCATGTCCCAGACATGTCTTACACTGGCTTCACGT-T-AA-G
* *
44452508 CCAATGCCATGTCCCAGACATGTCTTCCACT
1 -CGATGCCATGTCCCAGACATGTCTTACACT
44452539 AGCACGCAAA
Statistics
Matches: 138, Mismatches: 17, Indels: 26
0.76 0.09 0.14
Matches are distributed among these distances:
43 1 0.01
44 15 0.11
45 21 0.15
46 46 0.33
47 53 0.38
48 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (44 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTTCACGTTAAG
Found at i:44452472 original size:46 final size:44
Alignment explanation
Indices: 44452377--44452491 Score: 142
Period size: 46 Copynumber: 2.5 Consensus size: 44
44452367 AAGTCGATGC
**
44452377 CATGTCCCAGACATGGTCTTACACTGACACATCATGTAGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGACACATCATGTAGCAAATG
* * *
44452422 CATGTCCCAAACATGTCTTACACTGGCTTACATCTTG-AGGCAAATG
1 CATGTCCCAGACATGTCTTACACTGAC--ACATCATGTA-GCAAATG
44452468 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
44452492 AGTTCTCGTC
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
44 12 0.20
45 14 0.23
46 35 0.57
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGACACATCATGTAGCAAATG
Found at i:44452514 original size:46 final size:46
Alignment explanation
Indices: 44452419--44452541 Score: 140
Period size: 46 Copynumber: 2.7 Consensus size: 46
44452409 CATGTAGCTG
* * **
44452419 ATGCATGTCCCAAACATGTCTTACACTGGCTTACATCTTGAGGCAA
1 ATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCAAGGCAA
* * * *
44452465 ATGCATGTCCCAGACATGTCTTACACTAG-TTCTCGTCTCAATGCCA
1 ATGCATGTCCCAGACATGTCTTACACTAGCTT-ACATCTCAAGGCAA
*
44452511 ATGCCATGTCCCAGACATGTCTTCCACTAGC
1 ATG-CATGTCCCAGACATGTCTTACACTAGC
44452542 ACGCAAATAT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
45 2 0.03
46 38 0.58
47 25 0.38
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.28
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCAAGGCAA
Found at i:44459634 original size:17 final size:18
Alignment explanation
Indices: 44459607--44459640 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
44459597 AATTAAATAT
44459607 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
44459625 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
44459641 TAAAAAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:44462362 original size:8 final size:8
Alignment explanation
Indices: 44462348--44462387 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
44462338 TCACAAATGC
44462348 CGGCTTTT
1 CGGCTTTT
*
44462356 TGGCTTTT
1 CGGCTTTT
*
44462364 CGACTTTT
1 CGGCTTTT
*
44462372 TGGCTTTT
1 CGGCTTTT
44462380 CGGCTTTT
1 CGGCTTTT
44462388 ACCGATCTAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.55
Consensus pattern (8 bp):
CGGCTTTT
Found at i:44462372 original size:16 final size:16
Alignment explanation
Indices: 44462351--44462387 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
44462341 CAAATGCCGG
44462351 CTTTTTGGCTTTTCGA
1 CTTTTTGGCTTTTCGA
*
44462367 CTTTTTGGCTTTTCGG
1 CTTTTTGGCTTTTCGA
44462383 CTTTT
1 CTTTT
44462388 ACCGATCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.03, C:0.19, G:0.19, T:0.59
Consensus pattern (16 bp):
CTTTTTGGCTTTTCGA
Found at i:44463231 original size:42 final size:41
Alignment explanation
Indices: 44463168--44463254 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 41
44463158 TATAGAGGAA
* * *
44463168 AAAAGAAAAAGAAGAGGAGAAAGTAGATGGAGAGAAAA-AT
1 AAAAGAAAAAGAAGAGGAGAAAATAGAAGAAGAGAAAATAT
*
44463208 AAAAG-AAAAGAAGAAGGAAAGAAAATGGAAGAAGAGAAAATAT
1 AAAAGAAAAAGAAG-AGG--AGAAAATAGAAGAAGAGAAAATAT
44463251 AAAA
1 AAAA
44463255 ACCCAAAGGA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
39 8 0.21
40 8 0.21
42 17 0.44
43 6 0.15
ACGTcount: A:0.67, C:0.00, G:0.26, T:0.07
Consensus pattern (41 bp):
AAAAGAAAAAGAAGAGGAGAAAATAGAAGAAGAGAAAATAT
Found at i:44468371 original size:40 final size:39
Alignment explanation
Indices: 44468327--44468508 Score: 229
Period size: 39 Copynumber: 4.6 Consensus size: 39
44468317 GTTCAAAACA
* * ** * *
44468327 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* * *
44468367 CCTTCGGGACTTAACCCGGATATCACAACTCGCACCATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* * *
44468407 CCTTCGAGCTTAGCCCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
*
44468446 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
44468485 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
44468509 CTCGAACATT
Statistics
Matches: 125, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 87 0.70
40 38 0.30
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:44468438 original size:39 final size:39
Alignment explanation
Indices: 44468357--44468508 Score: 232
Period size: 39 Copynumber: 3.9 Consensus size: 39
44468347 TATGGTAACC
* * * *
44468357 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
* * *
44468397 CGCACCATTGCCTTCGAGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
44468436 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
44468475 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
44468509 CTCGAACATT
Statistics
Matches: 102, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 87 0.85
40 15 0.15
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:44471447 original size:39 final size:39
Alignment explanation
Indices: 44471393--44471555 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
44471383 TGTGTATGAA
*
44471393 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
44471432 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * * * *
44471471 GGTGCAAGCTATGATATCCGGGCTAAGCCCGTAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
44471510 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
44471550 TGTGCG
1 TGTGCG
44471556 GGTTACCATA
Statistics
Matches: 110, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 94 0.85
40 16 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:44489375 original size:100 final size:100
Alignment explanation
Indices: 44489202--44489384 Score: 321
Period size: 100 Copynumber: 1.8 Consensus size: 100
44489192 TATCTGGTCT
*
44489202 GCATAGTAGCCTGCACTTAGTACTACACATGCAACCAAGTATCCGGTACACGTAGTAGCCTACAC
1 GCATAGTAGCCTGCACTTAGTACTACACATGCAACCAAGTATCCGATACACGTAGTAGCCTACAC
44489267 TTAGTACTACACACGTGATCGAAGTTATCGGGTAC
66 TTAGTACTACACACGTGATCGAAGTTATCGGGTAC
** * *
44489302 GCATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGATACACGTAGTAGCCTGCAC
1 GCATAGTAGCCTGCACTTAGTACTACACATGCAACCAAGTATCCGATACACGTAGTAGCCTACAC
44489367 TTAGTACTACACACGTGA
66 TTAGTACTACACACGTGA
44489385 CCTCACAATA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 78 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (100 bp):
GCATAGTAGCCTGCACTTAGTACTACACATGCAACCAAGTATCCGATACACGTAGTAGCCTACAC
TTAGTACTACACACGTGATCGAAGTTATCGGGTAC
Found at i:44489385 original size:49 final size:49
Alignment explanation
Indices: 44489205--44489386 Score: 247
Period size: 49 Copynumber: 3.7 Consensus size: 49
44489195 CTGGTCTGCA
* ** *
44489205 TAGTAGCCTGCACTTAGTACTACACATGCAACCAAGTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* * * * *
44489254 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
* *
44489305 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
44489354 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
44489387 TCACAATAGA
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 69 0.61
50 6 0.05
51 39 0.34
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:44489652 original size:27 final size:27
Alignment explanation
Indices: 44489612--44489665 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
44489602 AGGTACAACC
* * *
44489612 CATGTAATAGTAATTTTACATTCAATT
1 CATGTAACAATAATTTGACATTCAATT
*
44489639 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTGACATTCAATT
44489666 TCATATGACA
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:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTGACATTCAATT
Found at i:44494836 original size:29 final size:29
Alignment explanation
Indices: 44494735--44494828 Score: 179
Period size: 29 Copynumber: 3.2 Consensus size: 29
44494725 GTGACGAGAT
44494735 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
44494764 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
44494793 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
44494822 CGGCACT
1 TGGCACT
44494829 GGGTGTGCGA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:44494853 original size:58 final size:58
Alignment explanation
Indices: 44494731--44494865 Score: 175
Period size: 58 Copynumber: 2.3 Consensus size: 58
44494721 TACGGTGACG
* *
44494731 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAA
* **
44494788 ATATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGC-ATGCTCGAA
* * *
44494846 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
44494866 GGGCTTAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 3 0.04
58 63 0.94
59 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.26
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAA
Found at i:44502601 original size:29 final size:29
Alignment explanation
Indices: 44502568--44502632 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
44502558 GTGACGAGAT
*
44502568 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGAAAATATA
44502597 TGGCACTAAGTGTGCATGCTGAAAATATA
1 TGGCACTAAGTGTGCATGCTGAAAATATA
*
44502626 CGGCACT
1 TGGCACT
44502633 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGAAAATATA
Found at i:44504600 original size:49 final size:49
Alignment explanation
Indices: 44504528--44504759 Score: 284
Period size: 49 Copynumber: 4.7 Consensus size: 49
44504518 CTGGTAGGAA
* *
44504528 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
** *
44504577 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGATACACG
* * * * * * *
44504627 TAGTAGCCTGCACTTAGCACTACACAAGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGATACACG
* * *
44504678 TAGTAGCCTGCACTTAGTACTACCCATGCGACCAATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
* *
44504727 TAGTAGCATGCACTTAGTACTATACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
44504760 TCACAATAGA
Statistics
Matches: 152, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 70 0.46
50 46 0.30
51 36 0.24
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
Found at i:44504697 original size:101 final size:98
Alignment explanation
Indices: 44504528--44504759 Score: 302
Period size: 100 Copynumber: 2.3 Consensus size: 98
44504518 CTGGTAGGAA
* *
44504528 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACAAGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
* *
44504593 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACC-AACCATCCGATACACG
* * * *
44504627 TAGTAGCCTGCACTTAGCACTACACAAGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACAAGTGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
* * **
44504692 TAGTACTACCCATGCGACCAATTATCCGATACACG
64 TAGTACTACACACGCGACCAACCATCCGATACACG
* * *
44504727 TAGTAGCATGCACTTAGTACTATACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACAAGTGACC
44504760 TCACAATAGA
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
99 30 0.26
100 43 0.38
101 41 0.36
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACAAGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCCGATACACG
Found at i:44510575 original size:16 final size:17
Alignment explanation
Indices: 44510556--44510588 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44510546 TGAATGCAAA
44510556 TAAAAC-TAAAGAAAAT
1 TAAAACATAAAGAAAAT
*
44510572 TAAAACATAATGAAAAT
1 TAAAACATAAAGAAAAT
44510589 GCTTGTATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (17 bp):
TAAAACATAAAGAAAAT
Found at i:44514559 original size:22 final size:23
Alignment explanation
Indices: 44514511--44514559 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
44514501 AAAAAATTCT
* *
44514511 GCCAGTAAAAATGCAGACAAGTT
1 GCCAGTAAAAATGCAGACAAATC
*
44514534 GCCAGTAAAAATGC-GATAAATC
1 GCCAGTAAAAATGCAGACAAATC
44514556 GCCA
1 GCCA
44514560 TTCCCCTCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.16
Consensus pattern (23 bp):
GCCAGTAAAAATGCAGACAAATC
Found at i:44514774 original size:17 final size:17
Alignment explanation
Indices: 44514752--44514785 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
44514742 GTTTGAACTC
44514752 TTTTATGATCTTACCTA
1 TTTTATGATCTTACCTA
44514769 TTTTATGATCTTACCTA
1 TTTTATGATCTTACCTA
44514786 AGCTAGTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.53
Consensus pattern (17 bp):
TTTTATGATCTTACCTA
Found at i:44517693 original size:20 final size:20
Alignment explanation
Indices: 44517660--44517719 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
44517650 CAAAACACAC
* *
44517660 CAGAGAGCATCAAAATGCTAA
1 CAGAG-GCACCAAAATGCAAA
*
44517681 CAGAGGCACCAAAGTGCAAA
1 CAGAGGCACCAAAATGCAAA
* * *
44517701 TAAAGGCACCAAAGTGCAA
1 CAGAGGCACCAAAATGCAA
44517720 TCTCGTACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 29 0.85
21 5 0.15
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.10
Consensus pattern (20 bp):
CAGAGGCACCAAAATGCAAA
Found at i:44521524 original size:28 final size:28
Alignment explanation
Indices: 44521482--44521545 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
44521472 GGATGAAGCG
* *
44521482 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCCCTGCCACAAATATCTAT
*
44521510 TTCTGGTGGCCCTGCCACAATTATCTAT
1 TTCTGGTGGCCCTGCCACAAATATCTAT
*
44521538 ATCTGGTG
1 TTCTGGTG
44521546 ACTCTATCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (28 bp):
TTCTGGTGGCCCTGCCACAAATATCTAT
Found at i:44525856 original size:5 final size:5
Alignment explanation
Indices: 44525846--44525881 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
44525836 AAGATGACAA
44525846 TATTT TATTT TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT T
44525882 TACTTAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:44534970 original size:24 final size:26
Alignment explanation
Indices: 44534930--44534977 Score: 82
Period size: 24 Copynumber: 1.9 Consensus size: 26
44534920 TGTTGTTTGA
44534930 TAAAATGAAATTTTAAGTTATAAATT
1 TAAAATGAAATTTTAAGTTATAAATT
44534956 TAAAAT-AAA-TTTAAGTTATAAA
1 TAAAATGAAATTTTAAGTTATAAA
44534978 AAATAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 13 0.59
25 3 0.14
26 6 0.27
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (26 bp):
TAAAATGAAATTTTAAGTTATAAATT
Found at i:44534976 original size:13 final size:13
Alignment explanation
Indices: 44534941--44534977 Score: 51
Period size: 11 Copynumber: 3.0 Consensus size: 13
44534931 AAAATGAAAT
44534941 TTTAAGTTATAAA
1 TTTAAGTTATAAA
*
44534954 TTTAA--AATAAA
1 TTTAAGTTATAAA
44534965 TTTAAGTTATAAA
1 TTTAAGTTATAAA
44534978 AAATAAGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
11 10 0.50
13 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.43
Consensus pattern (13 bp):
TTTAAGTTATAAA
Found at i:44542768 original size:40 final size:40
Alignment explanation
Indices: 44542641--44542770 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
44542631 ATGCTGGAAA
* *
44542641 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
44542681 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
44542721 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
44542761 TTATATCCGG
1 TTATATCCGG
44542771 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:44553370 original size:40 final size:41
Alignment explanation
Indices: 44553325--44553435 Score: 149
Period size: 40 Copynumber: 2.8 Consensus size: 41
44553315 CTGGAAATTA
* * *
44553325 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCG-TAC
*
44553366 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCGTTC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCGTAC
44553405 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGC
44553436 ACGTGGTTAT
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
39 5 0.08
40 59 0.92
ACGTcount: A:0.23, C:0.26, G:0.30, T:0.22
Consensus pattern (41 bp):
TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCGTAC
Found at i:44561192 original size:37 final size:36
Alignment explanation
Indices: 44561150--44561226 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 36
44561140 TTTAATCTTG
*
44561150 TTCTGTAGCTTATAGCACTCAGATTTAATATGTCCT
1 TTCTGTAGCTTATAGCACTCAGATTTAATATGCCCT
44561186 ATTCTGTAGCTTATAGCACTCAGATTTAATATGCCCT
1 -TTCTGTAGCTTATAGCACTCAGATTTAATATGCCCT
44561223 TTCT
1 TTCT
44561227 TCTTACAGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
36 4 0.10
37 35 0.90
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.42
Consensus pattern (36 bp):
TTCTGTAGCTTATAGCACTCAGATTTAATATGCCCT
Found at i:44564436 original size:41 final size:41
Alignment explanation
Indices: 44564390--44564535 Score: 168
Period size: 41 Copynumber: 3.6 Consensus size: 41
44564380 CAGTGATATT
* * * *
44564390 CAGGCTTTATGTCGATGAATTATATCAGGCTTATTGCCTCG
1 CAGGCTTTATGCCGATGTATTATTTCAGGCTTATTGCCTAG
*
44564431 CAGGC-TTATTGCCGATGTATTATTTCAAGCTTATTGCCTAG
1 CAGGCTTTA-TGCCGATGTATTATTTCAGGCTTATTGCCTAG
* * * *
44564472 CAGGCTTTACGCCGGTGTATTATTTCAGGCCTATTGCATAG
1 CAGGCTTTATGCCGATGTATTATTTCAGGCTTATTGCCTAG
* * *
44564513 CAGGCTCTGTGCCGGTGTATTAT
1 CAGGCTTTATGCCGATGTATTAT
44564536 ACTAGGCTTT
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
40 3 0.03
41 84 0.93
42 3 0.03
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (41 bp):
CAGGCTTTATGCCGATGTATTATTTCAGGCTTATTGCCTAG
Found at i:44564940 original size:2 final size:2
Alignment explanation
Indices: 44564933--44564957 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44564923 TGGAAATGTC
44564933 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 T
44564958 GAAATTGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44567721 original size:24 final size:25
Alignment explanation
Indices: 44567673--44567725 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
44567663 TGGGAAAGAA
44567673 AAAAAATAAGTTAGGGATTTGGGGG
1 AAAAAATAAGTTAGGGATTTGGGGG
*
44567698 AAAAACTAAGTTAGGGATTT-GGGG
1 AAAAAATAAGTTAGGGATTTGGGGG
44567722 AAAA
1 AAAA
44567726 CGATTTGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 8 0.30
25 19 0.70
ACGTcount: A:0.43, C:0.02, G:0.32, T:0.23
Consensus pattern (25 bp):
AAAAAATAAGTTAGGGATTTGGGGG
Found at i:44570184 original size:62 final size:59
Alignment explanation
Indices: 44570075--44570188 Score: 156
Period size: 62 Copynumber: 1.9 Consensus size: 59
44570065 AATCACTTTA
* * * *
44570075 TTATTAAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATACAAAATC
1 TTATTAAATTAATAAAATATTTATCAAGAGAAACATTAAATTAAATTTAATACAAAATC
*
44570134 TTATTAAATTAATAAAATATTTATCTACAAGAGAAGCATTAAATTAAATTTAATA
1 TTATTAAATTAATAAAATATTTA--T-CAAGAGAAACATTAAATTAAATTTAATA
44570189 TAAATAATCA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
59 22 0.47
61 1 0.02
62 24 0.51
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.39
Consensus pattern (59 bp):
TTATTAAATTAATAAAATATTTATCAAGAGAAACATTAAATTAAATTTAATACAAAATC
Found at i:44571743 original size:46 final size:46
Alignment explanation
Indices: 44571693--44571868 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
44571683 TGGTTGAGCA
*
44571693 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
44571739 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
*
44571784 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
44571832 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44571869 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 63 0.57
47 29 0.26
48 4 0.04
50 6 0.05
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:44571849 original size:93 final size:93
Alignment explanation
Indices: 44571690--44571861 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
44571680 GGATGGTTGA
* * *
44571690 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
44571755 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
44571783 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
44571848 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
44571862 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44576362 original size:43 final size:43
Alignment explanation
Indices: 44576226--44576389 Score: 177
Period size: 43 Copynumber: 3.8 Consensus size: 43
44576216 AACATGCTAA
** * * * * * **
44576226 ATAGAACATGACCTTTAGATGCACTTCTACCATAAACGCAACT
1 ATAGAACATGACCTTTAGCGGCGCTTTTACTAAAAATGCCGCT
* * ** * *
44576269 ATAGAACATGACCTTTAGTGGCG-ATTCCCTACAAATGTCGCT
1 ATAGAACATGACCTTTAGCGGCGCTTTTACTAAAAATGCCGCT
44576311 ATAGAACATGACCTTTAGCGGCGCTTTTACTAAAAATGCCGCT
1 ATAGAACATGACCTTTAGCGGCGCTTTTACTAAAAATGCCGCT
*
44576354 ATAGAACATGACATTTAGCGGCGCTTTTACTAAAAA
1 ATAGAACATGACCTTTAGCGGCGCTTTTACTAAAAA
44576390 CGCTACTATA
Statistics
Matches: 100, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 31 0.31
43 69 0.69
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (43 bp):
ATAGAACATGACCTTTAGCGGCGCTTTTACTAAAAATGCCGCT
Found at i:44576456 original size:43 final size:43
Alignment explanation
Indices: 44576409--44576507 Score: 112
Period size: 42 Copynumber: 2.3 Consensus size: 43
44576399 AGAATGTGAG
*
44576409 CTTTAGTGGCATTTTTGCTGAAAACG-CTGCTAAATGTCATGTT
1 CTTTAGTGGCATTTTTGCTGAAAACGTC-ACTAAATGTCATGTT
* * * ** *
44576452 CTTTAGCGGC-GTTTTGGTGAAAGTGTCACTAAATGTCTTGTT
1 CTTTAGTGGCATTTTTGCTGAAAACGTCACTAAATGTCATGTT
44576494 CTTTAGTGGCATTT
1 CTTTAGTGGCATTT
44576508 GTGAAAAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
42 33 0.73
43 12 0.27
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.41
Consensus pattern (43 bp):
CTTTAGTGGCATTTTTGCTGAAAACGTCACTAAATGTCATGTT
Found at i:44580379 original size:49 final size:48
Alignment explanation
Indices: 44580307--44580531 Score: 247
Period size: 50 Copynumber: 4.5 Consensus size: 48
44580297 CTGATACGCA
44580307 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATT-GGTACACG
* * * *
44580356 TAGTAGCCTGCACTTAGTACTACACAGGTGACCTCACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AACAAT-TGGTACACG
* * * *
44580406 TAGTAG-CTGCACTTAGTACTACACACGTGATCGAAGTC-ATTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA--CAATTG-GTACACG
* * * *
44580456 TAGTAGCCTGCATTTAGTACTACACATGCGACTGAACAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGAC-CAACAAT-TGGTACACG
44580506 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
44580532 CGTGTACTTA
Statistics
Matches: 149, Mismatches: 17, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
49 59 0.40
50 62 0.42
51 28 0.19
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATTGGTACACG
Found at i:44580475 original size:100 final size:98
Alignment explanation
Indices: 44580295--44580535 Score: 290
Period size: 100 Copynumber: 2.4 Consensus size: 98
44580285 AGTCGAAGCT
* * * *
44580295 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATTCGGTACACGTAGT
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATTCGGTACACATAGT
* *
44580360 AGCCTGCACTTAGTACTACACAGGTGACCTCACC
66 AGCCTGCACTTAGTACTACACAGGCGA-CTCAAC
* *
44580394 ATCTGATACACGTAGTAG-CTGCACTTAGTACTACACACGTGATCGAAGTC-ATT-GAGTACGCA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA--CAATTCG-GTACACA
* * *
44580456 TAGTAGCCTGCATTTAGTACTACACATGCGACTGAAC
62 TAGTAGCCTGCACTTAGTACTACACAGGCGACTCAAC
* *
44580493 AGTATGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
44580536 TACTTACAAT
Statistics
Matches: 123, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
98 23 0.19
99 25 0.20
100 51 0.41
101 24 0.20
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (98 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATTCGGTACACATAGT
AGCCTGCACTTAGTACTACACAGGCGACTCAAC
Found at i:44582495 original size:42 final size:42
Alignment explanation
Indices: 44582436--44582522 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
44582426 TACACTCATA
*
44582436 TGTGAATCCGTGTGACACACAT-GACCAATAGACACGCCCGTG
1 TGTGAATCCGTGTGACACACATAG-CCAATAGACACACCCGTG
44582478 TGTGAATCCGTGTGACACACATAGCCAATAGACACACCCGTG
1 TGTGAATCCGTGTGACACACATAGCCAATAGACACACCCGTG
44582520 TGT
1 TGT
44582523 CTAAGCCGTG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.21
Consensus pattern (42 bp):
TGTGAATCCGTGTGACACACATAGCCAATAGACACACCCGTG
Found at i:44583621 original size:23 final size:23
Alignment explanation
Indices: 44583555--44583623 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
44583545 CTATTGAGCA
* *
44583555 AAACAATAAGCTCTTTCGAGCTG
1 AAACAGTAAGCTCTTACGAGCTG
* ** *
44583578 AATC-GATAAGCTCCAATGAGCTG
1 AAACAG-TAAGCTCTTACGAGCTG
44583601 AAACAGTAAGCTCTTACGAGCTG
1 AAACAGTAAGCTCTTACGAGCTG
44583624 TGGTGAGTTC
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
23 33 0.97
24 1 0.03
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (23 bp):
AAACAGTAAGCTCTTACGAGCTG
Found at i:44587860 original size:9 final size:9
Alignment explanation
Indices: 44587846--44588054 Score: 139
Period size: 9 Copynumber: 23.3 Consensus size: 9
44587836 TAAGTATAAT
44587846 TAAGTTATG
1 TAAGTTATG
44587855 TAAGTTATG
1 TAAGTTATG
44587864 TAAGTTATG
1 TAAGTTATG
44587873 TAAGTTATG
1 TAAGTTATG
* * *
44587882 ATATGATATA
1 -TAAGTTATG
* *
44587892 T-ATTTATA
1 TAAGTTATG
44587900 TAAGTTATG
1 TAAGTTATG
*
44587909 TAAGTAATG
1 TAAGTTATG
*
44587918 -ACATTTATG
1 TA-AGTTATG
44587927 ATATTTA-TTATG
1 -TA---AGTTATG
*
44587939 CAAGTTATG
1 TAAGTTATG
44587948 TAAGTTATG
1 TAAGTTATG
* * *
44587957 ATATGATATA
1 -TAAGTTATG
*
44587967 T-ATTTATG
1 TAAGTTATG
44587975 TAAGTTATG
1 TAAGTTATG
44587984 TAAGTTATG
1 TAAGTTATG
*
44587993 TATGTTATG
1 TAAGTTATG
*
44588002 TGAGTTATG
1 TAAGTTATG
44588011 TAAGTTATG
1 TAAGTTATG
*
44588020 ATAA-TT-TA
1 -TAAGTTATG
*
44588028 T-A--TATT
1 TAAGTTATG
44588034 TAAGTTATG
1 TAAGTTATG
44588043 TAAGTTATG
1 TAAGTTATG
44588052 TAA
1 TAA
44588055 TTTTAAAGAA
Statistics
Matches: 156, Mismatches: 29, Indels: 30
0.73 0.13 0.14
Matches are distributed among these distances:
5 1 0.01
6 3 0.02
7 2 0.01
8 12 0.08
9 115 0.74
10 15 0.10
11 2 0.01
12 5 0.03
13 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:44587904 original size:36 final size:36
Alignment explanation
Indices: 44587859--44588054 Score: 208
Period size: 36 Copynumber: 5.5 Consensus size: 36
44587849 GTTATGTAAG
44587859 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
* * *
44587895 TTATATAAGTTATGTAAGTAATGACATTTATGATATTTA-
1 TTATGTAAGTTATGTAAGTTATG--A--TATGATATATAT
*
44587934 TTATGCAAGTTATGTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
* * *
44587970 TTATGTAAGTTATGTAAGTTATG-TATGTTATGTGAG
1 TTATGTAAGTTATGTAAGTTATGATATGATATAT-AT
* *
44588006 TTATGTAAGTTATGATAA-TT-T-ATAT-ATTTA-AG
1 TTATGTAAGTTATG-TAAGTTATGATATGATATATAT
44588038 TTATGTAAGTTATGTAA
1 TTATGTAAGTTATGTAA
44588055 TTTTAAAGAA
Statistics
Matches: 138, Mismatches: 14, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
31 3 0.02
32 16 0.12
34 2 0.01
35 22 0.16
36 60 0.43
37 4 0.03
38 1 0.01
39 20 0.14
40 10 0.07
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.47
Consensus pattern (36 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATAT
Found at i:44589813 original size:19 final size:19
Alignment explanation
Indices: 44589786--44589825 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
44589776 TTGGGATTTT
* *
44589786 GATTTGGGGAAAATTTAGG
1 GATTAGGGGAAAATTGAGG
*
44589805 GATTAGGGGAGAATTGAGG
1 GATTAGGGGAAAATTGAGG
44589824 GA
1 GA
44589826 AATGGGGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.42, T:0.25
Consensus pattern (19 bp):
GATTAGGGGAAAATTGAGG
Found at i:44590112 original size:122 final size:121
Alignment explanation
Indices: 44589934--44590287 Score: 395
Period size: 122 Copynumber: 2.9 Consensus size: 121
44589924 TGACCGTTGT
* * * * * *
44589934 AGTGTTTTTTAAAAAGTGACGCTAGTGCTGATATATTGTGGCATTTATAAGCTAGCGCCGCTAAT
1 AGTGTTTTTTAAAAAGTGCCGCTAATACTGATCTATTGAGGCGTTTATAAGCTAGCGCCGCTAAT
* * * * *
44589999 TCCACTAAAGGGTCATCTAAAACAATGACGTTTTGATTCAATTAAAA-ATTTTTTTGC
66 TCCACTAAAGAGACA-CTAAAACGACGACGTTTTAATTCAATTAAAACA-TTTTTTGC
* * * * * *
44590056 GGTGTTTTTAAAAAAGTGCCACTAATACTGATCTATTGCGGTGTTTATAAGCTAGCGCCTCTAAT
1 AGTGTTTTTTAAAAAGTGCCGCTAATACTGATCTATTGAGGCGTTTATAAGCTAGCGCCGCTAAT
* *
44590121 TCCACTAAAGAGCCACTTAAAACGACGACGTTTTCATTCAATTAAAACATTTTTTGC
66 TCCACTAAAGAGACAC-TAAAACGACGACGTTTTAATTCAATTAAAACATTTTTTGC
** * * * * *
44590178 AGCATTTTTTAGAAAGCGCTGCTAATTCTGATCTATTGAGGCGTTTATATGCTAGCGCCGCTAAT
1 AGTGTTTTTTAAAAAGTGCCGCTAATACTGATCTATTGAGGCGTTTATAAGCTAGCGCCGCTAAT
* * * *
44590243 TTCTCTAAAGCGACACCTAAAACGACGACGTTTAAATTCAATTAA
66 TCCACTAAAGAGACA-CTAAAACGACGACGTTTTAATTCAATTAA
44590288 TTTTTTTTTG
Statistics
Matches: 194, Mismatches: 35, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
121 1 0.01
122 191 0.98
123 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (121 bp):
AGTGTTTTTTAAAAAGTGCCGCTAATACTGATCTATTGAGGCGTTTATAAGCTAGCGCCGCTAAT
TCCACTAAAGAGACACTAAAACGACGACGTTTTAATTCAATTAAAACATTTTTTGC
Found at i:44590801 original size:2 final size:2
Alignment explanation
Indices: 44590794--44590827 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
44590784 ACCCTAAACC
44590794 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
44590828 TACAAGGTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44590946 original size:12 final size:13
Alignment explanation
Indices: 44590916--44590948 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
44590906 ATCAAAATCT
44590916 CTAACCCTAAACC
1 CTAACCCTAAACC
*
44590929 CCAACCCT-AACC
1 CTAACCCTAAACC
44590941 CTAACCCT
1 CTAACCCT
44590949 TAAAACCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.33, C:0.52, G:0.00, T:0.15
Consensus pattern (13 bp):
CTAACCCTAAACC
Found at i:44591002 original size:22 final size:22
Alignment explanation
Indices: 44590952--44591013 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
44590942 TAACCCTTAA
*
44590952 AACCAT-AAACACTAAGA-CCCT
1 AACCATAAAACACTAA-ACCCCC
*
44590973 AACTATAAAACACTAAACCCCC
1 AACCATAAAACACTAAACCCCC
* *
44590995 AACCATAAAATAATAAACC
1 AACCATAAAACACTAAACC
44591014 ATAACCCTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 6 0.18
22 28 0.82
ACGTcount: A:0.53, C:0.31, G:0.02, T:0.15
Consensus pattern (22 bp):
AACCATAAAACACTAAACCCCC
Found at i:44591083 original size:15 final size:15
Alignment explanation
Indices: 44591050--44591088 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
44591040 ACTCAAATTA
*
44591050 CTAAA-CATTAAGCC
1 CTAAACCATAAAGCC
*
44591064 ATAAACCATAAAGCC
1 CTAAACCATAAAGCC
44591079 CTAAACCATA
1 CTAAACCATA
44591089 GACTTAACAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.49, C:0.28, G:0.05, T:0.18
Consensus pattern (15 bp):
CTAAACCATAAAGCC
Found at i:44591245 original size:41 final size:41
Alignment explanation
Indices: 44591151--44591262 Score: 140
Period size: 41 Copynumber: 2.8 Consensus size: 41
44591141 GTATTTTTAT
** *
44591151 AACGCCGCTACTGCTTGACCTTTTGCGACG---TTATCTTA
1 AACGCCGCTACTGCTTGACCTTTTGCGGTGTTTTTATCATA
*
44591189 AATGCCGCTACTGCTTGACCTTTTGCGGTGTTTTTATCATA
1 AACGCCGCTACTGCTTGACCTTTTGCGGTGTTTTTATCATA
* * *
44591230 AACGCTGCTAATGCTTAACCTTTTGCGGTGTTT
1 AACGCCGCTACTGCTTGACCTTTTGCGGTGTTT
44591263 ATGACTGCTT
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 27 0.43
41 36 0.57
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (41 bp):
AACGCCGCTACTGCTTGACCTTTTGCGGTGTTTTTATCATA
Found at i:44599447 original size:2 final size:2
Alignment explanation
Indices: 44599440--44599468 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
44599430 GGTATCTTTT
44599440 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 T
44599469 GATACATTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44600737 original size:104 final size:104
Alignment explanation
Indices: 44600582--44601050 Score: 555
Period size: 104 Copynumber: 4.5 Consensus size: 104
44600572 AAAAGAACTT
* * * * ** * * *
44600582 AGGTTGCGAGCGTAAATCAACTAACCTTTAATCATTAGATCAGAACATAGGTCAGTGAATTGTTT
1 AGGTTGCGAGCTTAACTCAACTAACCTTTAATCATCAGTTGGGAACGTAGGTCAGTGAACTATTT
* *
44600647 CGAAGTTGCGAGCTTAACTCGGTTAACTCAAATAACTGG
66 CGAAGTTGCGAGCTTAACTCAGCTAACTCAAATAACTGG
* * * * *
44600686 AGGTTACGAGCTTAACTCAACCAACCTTTAATCATCAGTTGGGAACGTAGGTCTGTGAGCTACTT
1 AGGTTGCGAGCTTAACTCAACTAACCTTTAATCATCAGTTGGGAACGTAGGTCAGTGAACTATTT
* * * *
44600751 GGAAGTTGTGAGCTTAACTCGGCTAACTTAAATAACTGG
66 CGAAGTTGCGAGCTTAACTCAGCTAACTCAAATAACTGG
* ** * * *
44600790 AGGTTGCGAGCTTAACTCAGCTAACCTTTAATCATCAACTGGGAACGTAGGTCCGCGAGCTATTT
1 AGGTTGCGAGCTTAACTCAACTAACCTTTAATCATCAGTTGGGAACGTAGGTCAGTGAACTATTT
* * *
44600855 CGGAGTTGTGAGCTTAACTCAGTTAACTCAAATAACTGG
66 CGAAGTTGCGAGCTTAACTCAGCTAACTCAAATAACTGG
* * *
44600894 AGGTTGCAAGCTTAACTCAACTAACCTTTAATCATCAATTGGGAACGTAGGTCCA--CAAGCTAT
1 AGGTTGCGAGCTTAACTCAACTAACCTTTAATCATCAGTTGGGAACGTAGGT-CAGTGAA-CTAT
* *
44600957 TTCGGAGTTGCGAGCTTAACTCAGCTAACTCAAAATAATTGG
64 TTCGAAGTTGCGAGCTTAACTCAGCTAACTC-AAATAACTGG
* * * *
44600999 AGGTTACAAGCTTAACTTATCTAACCTTTAATCATCAGTTGGGAACGTAGGT
1 AGGTTGCGAGCTTAACTCAACTAACCTTTAATCATCAGTTGGGAACGTAGGT
44601051 GTAATGCCCC
Statistics
Matches: 318, Mismatches: 44, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
103 1 0.00
104 259 0.81
105 58 0.18
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (104 bp):
AGGTTGCGAGCTTAACTCAACTAACCTTTAATCATCAGTTGGGAACGTAGGTCAGTGAACTATTT
CGAAGTTGCGAGCTTAACTCAGCTAACTCAAATAACTGG
Found at i:44600908 original size:208 final size:207
Alignment explanation
Indices: 44600533--44601050 Score: 617
Period size: 208 Copynumber: 2.5 Consensus size: 207
44600523 TTTAAATCAG
* * * * * * *
44600533 CGAGCTATTTGGAAGTTGTGATCTTAAATCAGTTAAGTTAAAAGAACT-TAGGTTGCGAGCGTAA
1 CGAGCTATTTGGAAGTTGTGAGCTTAACTCAGCTAACTT-AAATAACTGGAGGTTGCGAGCTTAA
* * ** * * * *
44600597 ATCAACTAACCTTTAATCATTAGATCAGAACATAGGTCAGTGAATTGTTTCGAAGTTGCGAGCTT
65 CTCAACTAACCTTTAATCATCA-ATGGGAACGTAGGTCAGCGAACTATTTCGAAGTTGCGAGCTT
* * *
44600662 AACTCGGTTAACTCAAATAACTGGAGGTTACGAGCTTAACTCAACCAACCTTTAATCATCAGTTG
129 AACTCAGTTAACTCAAATAACTGGAGGTTACAAGCTTAACTCAACCAACCTTTAATCATCAATTG
**
44600727 GGAACGTAGGTCTG
194 GGAACGTAGGTCCA
* * *
44600741 TGAGCTACTTGGAAGTTGTGAGCTTAACTCGGCTAACTTAAATAACTGGAGGTTGCGAGCTTAAC
1 CGAGCTATTTGGAAGTTGTGAGCTTAACTCAGCTAACTTAAATAACTGGAGGTTGCGAGCTTAAC
* * * * *
44600806 TCAGCTAACCTTTAATCATCAACTGGGAACGTAGGTCCGCGAGCTATTTCGGAGTTGTGAGCTTA
66 TCAACTAACCTTTAATCATCAA-TGGGAACGTAGGTCAGCGAACTATTTCGAAGTTGCGAGCTTA
* *
44600871 ACTCAGTTAACTCAAATAACTGGAGGTTGCAAGCTTAACTCAACTAACCTTTAATCATCAATTGG
130 ACTCAGTTAACTCAAATAACTGGAGGTTACAAGCTTAACTCAACCAACCTTTAATCATCAATTGG
44600936 GAACGTAGGTCCA
195 GAACGTAGGTCCA
* * * * * *
44600949 CAAGCTATTTCGG-AGTTGCGAGCTTAACTCAGCTAACTCAAAATAATTGGAGGTTACAAGCTTA
1 CGAGCTATTT-GGAAGTTGTGAGCTTAACTCAGCTAACT-TAAATAACTGGAGGTTGCGAGCTTA
* * *
44601013 ACTTATCTAACCTTTAATCATCAGTTGGGAACGTAGGT
64 ACTCAACTAACCTTTAATCATCA-ATGGGAACGTAGGT
44601051 GTAATGCCCC
Statistics
Matches: 263, Mismatches: 42, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
207 8 0.03
208 198 0.75
209 57 0.22
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (207 bp):
CGAGCTATTTGGAAGTTGTGAGCTTAACTCAGCTAACTTAAATAACTGGAGGTTGCGAGCTTAAC
TCAACTAACCTTTAATCATCAATGGGAACGTAGGTCAGCGAACTATTTCGAAGTTGCGAGCTTAA
CTCAGTTAACTCAAATAACTGGAGGTTACAAGCTTAACTCAACCAACCTTTAATCATCAATTGGG
AACGTAGGTCCA
Found at i:44602713 original size:43 final size:43
Alignment explanation
Indices: 44602647--44602813 Score: 185
Period size: 43 Copynumber: 3.9 Consensus size: 43
44602637 AGCTCATACT
* * * * *
44602647 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATAGTCTTACATGTAATCACATATCA
* * * * * *
44602689 GTGCCAATGTCCCAGCCATAGTCTTACACGAAATCATATAACA
1 ATGCCAATGTCCCAGACATAGTCTTACATGTAATCACATATCA
*
44602732 ATGCCAATGTCCCAAACATAGTCTTACATGTAATCACA-ATACA
1 ATGCCAATGTCCCAGACATAGTCTTACATGTAATCACATAT-CA
* *
44602775 ATGCCAATGTCCTAGACATGGTCTTACATGTAATCACAT
1 ATGCCAATGTCCCAGACATAGTCTTACATGTAATCACAT
44602814 CTCGGTAATT
Statistics
Matches: 101, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
42 5 0.05
43 96 0.95
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATAGTCTTACATGTAATCACATATCA
Found at i:44605540 original size:85 final size:86
Alignment explanation
Indices: 44605396--44605579 Score: 273
Period size: 85 Copynumber: 2.2 Consensus size: 86
44605386 AAACTGTCGT
* * *
44605396 TAAAGAACATGACCATTAGCGGCGCTTTTACCACAAACGCTGCTAAAGAACATGGCCTTTAGCGG
1 TAAAGAACATGACCATTAGCGGCGCTTATACCACAAACGCCGCTAAAGAACATGACCTTTAGCGG
*
44605461 CGGTTTTCCCACAAACGCCGC
66 CGCTTTTCCCACAAACGCCGC
* * * *
44605482 TAAAGAACATGATCTTTAGCGGCGC-TATCCCACAAACGCCGCTAAAGAACATGACCTTTAGTGG
1 TAAAGAACATGACCATTAGCGGCGCTTATACCACAAACGCCGCTAAAGAACATGACCTTTAGCGG
44605546 CGCTTTTCCCACAAACGCCGC
66 CGCTTTTCCCACAAACGCCGC
*
44605567 TATAGAACA-GACC
1 TAAAGAACATGACC
44605580 TGGAAAAAAC
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
84 3 0.03
85 62 0.70
86 23 0.26
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (86 bp):
TAAAGAACATGACCATTAGCGGCGCTTATACCACAAACGCCGCTAAAGAACATGACCTTTAGCGG
CGCTTTTCCCACAAACGCCGC
Found at i:44605580 original size:42 final size:43
Alignment explanation
Indices: 44605396--44605580 Score: 275
Period size: 43 Copynumber: 4.3 Consensus size: 43
44605386 AAACTGTCGT
* * *
44605396 TAAAGAACATGACCATTAGCGGCGCTTTTACCACAAACGCTGC
1 TAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGC
* *
44605439 TAAAGAACATGGCCTTTAGCGGCGGTTTTCCCACAAACGCCGC
1 TAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGC
* *
44605482 TAAAGAACATGATCTTTAGCGGCGC-TATCCCACAAACGCCGC
1 TAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGC
*
44605524 TAAAGAACATGACCTTTAGTGGCGCTTTTCCCACAAACGCCGC
1 TAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGC
*
44605567 TATAGAACA-GACCT
1 TAAAGAACATGACCT
44605581 GGAAAAAACG
Statistics
Matches: 128, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
42 44 0.34
43 84 0.66
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (43 bp):
TAAAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGC
Found at i:44610806 original size:7 final size:7
Alignment explanation
Indices: 44610794--44611049 Score: 72
Period size: 7 Copynumber: 35.9 Consensus size: 7
44610784 ACTAATTAAT
44610794 CTAAACC
1 CTAAACC
44610801 CTAAACC
1 CTAAACC
*
44610808 CTTAACC
1 CTAAACC
*
44610815 CTTAACCC
1 C-TAAACC
**
44610823 CTATCCC
1 CTAAACC
44610830 CTAAACC
1 CTAAACC
* *
44610837 ATAAAAC
1 CTAAACC
*
44610844 AT-AACAC
1 CTAAAC-C
* *
44610851 TTAACCC
1 CTAAACC
*
44610858 CTTAATCC
1 C-TAAACC
*
44610866 CTAAACT
1 CTAAACC
*
44610873 CTTAACC
1 CTAAACC
44610880 CGT-AACC
1 C-TAAACC
* * *
44610887 TTTAACTA
1 CTAAAC-C
* *
44610895 CTAATCA
1 CTAAACC
*
44610902 CTAACCC
1 CTAAACC
44610909 CTAAACC
1 CTAAACC
*
44610916 TTAAACC
1 CTAAACC
*
44610923 C-CAACC
1 CTAAACC
44610929 CTTAAACC
1 C-TAAACC
*
44610937 ATAAACC
1 CTAAACC
*
44610944 GTAAACC
1 CTAAACC
*
44610951 GTAAACC
1 CTAAACC
*
44610958 ATAAACC
1 CTAAACC
* *
44610965 ATAATCC
1 CTAAACC
44610972 CTAAACTC
1 CTAAAC-C
* *
44610980 ATAATCC
1 CTAAACC
*
44610987 ATAAACC
1 CTAAACC
*
44610994 TTAAA--
1 CTAAACC
*
44610999 ATAGCAACTC
1 CTA--AAC-C
44611009 CTAAACC
1 CTAAACC
*
44611016 TTAAACC
1 CTAAACC
44611023 CTAAACC
1 CTAAACC
* *
44611030 ATATACC
1 CTAAACC
44611037 CTAAACC
1 CTAAACC
*
44611044 ATAAAC
1 CTAAAC
44611050 AGAAAACGAT
Statistics
Matches: 186, Mismatches: 48, Indels: 30
0.70 0.18 0.11
Matches are distributed among these distances:
5 2 0.01
6 8 0.04
7 145 0.78
8 29 0.16
10 2 0.01
ACGTcount: A:0.41, C:0.35, G:0.02, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:44610976 original size:14 final size:14
Alignment explanation
Indices: 44610931--44611049 Score: 89
Period size: 14 Copynumber: 8.4 Consensus size: 14
44610921 CCCCAACCCT
*
44610931 TAAACCATAAACCG
1 TAAACCATAAACCA
*
44610945 TAAACCGTAAACCA
1 TAAACCATAAACCA
* *
44610959 TAAACCATAATCCC
1 TAAACCATAAACCA
*
44610973 TAAACTCATAATCCA
1 TAAAC-CATAAACCA
*
44610988 TAAACCTTAAA--A
1 TAAACCATAAACCA
* *
44611000 TAGCAACTCCTAAACCT
1 TA--AAC-CATAAACCA
*
44611017 TAAACCCTAAACCA
1 TAAACCATAAACCA
* *
44611031 TATACCCTAAACCA
1 TAAACCATAAACCA
44611045 TAAAC
1 TAAAC
44611050 AGAAAACGAT
Statistics
Matches: 86, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
12 3 0.03
14 60 0.70
15 21 0.24
17 2 0.02
ACGTcount: A:0.47, C:0.30, G:0.03, T:0.20
Consensus pattern (14 bp):
TAAACCATAAACCA
Found at i:44611436 original size:40 final size:40
Alignment explanation
Indices: 44611364--44611465 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 40
44611354 AATGTTTTTT
* * * *
44611364 GCGGCGTTTTTGACAAAGTGCCACTAAAGCTCGATTTATA
1 GCGGCGTTTTTCAAAAAGCGCCACTAAAGCTCGATCTATA
* * *
44611404 GCGGCGTTTTTCAGAAAGCGCCATTAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCACTAAAGCTCGATCTATA
* **
44611444 GTGGAATTTTTCAAAAAGCGCC
1 GCGGCGTTTTTCAAAAAGCGCC
44611466 GATAATAACA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (40 bp):
GCGGCGTTTTTCAAAAAGCGCCACTAAAGCTCGATCTATA
Found at i:44611636 original size:40 final size:40
Alignment explanation
Indices: 44611523--44611639 Score: 119
Period size: 40 Copynumber: 2.9 Consensus size: 40
44611513 TTTTTTGTGA
* * * * *
44611523 CGTTTTTTAAAAAGCGA-CGGTAATGGTCGACCTACAGCGG
1 CGTTTTTAAAAAAGC-ACCGCTAATGCTCGATCTATAGCGG
* * *
44611563 CTTTTTTAAAAAAGCGCCGCTAATGCTCAATCTATAGCGG
1 CGTTTTTAAAAAAGCACCGCTAATGCTCGATCTATAGCGG
* * *
44611603 CGTTTTTCAGAAAGCACCGTTAATGCTCGATCTATAG
1 CGTTTTTAAAAAAGCACCGCTAATGCTCGATCTATAG
44611640 AAAAACGCCG
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (40 bp):
CGTTTTTAAAAAAGCACCGCTAATGCTCGATCTATAGCGG
Found at i:44615186 original size:17 final size:17
Alignment explanation
Indices: 44615164--44615198 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
44615154 AGGAGGAGTA
44615164 CACACAGAATATCAATC
1 CACACAGAATATCAATC
44615181 CACACAGAATATCAATC
1 CACACAGAATATCAATC
44615198 C
1 C
44615199 TTCAACCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.31, G:0.06, T:0.17
Consensus pattern (17 bp):
CACACAGAATATCAATC
Found at i:44619202 original size:20 final size:19
Alignment explanation
Indices: 44619174--44619211 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
44619164 TTTTAAAGAC
*
44619174 TTTACTTTATTTTTATTTG
1 TTTACTTTATCTTTATTTG
44619193 TTTACTTTTATCTTTATTT
1 TTTAC-TTTATCTTTATTT
44619212 ACATTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTACTTTATCTTTATTTG
Found at i:44619254 original size:24 final size:24
Alignment explanation
Indices: 44619205--44619255 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
44619195 TACTTTTATC
*
44619205 TTTATTTACATTTTTAAATTACTT
1 TTTATTTACATTTTTAAACTACTT
*
44619229 TTTATTT-TATTTTTAAAACTA-TT
1 TTTATTTACATTTTT-AAACTACTT
44619252 TTTA
1 TTTA
44619256 CTTCATCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTATTTACATTTTTAAACTACTT
Found at i:44626440 original size:43 final size:43
Alignment explanation
Indices: 44626379--44626537 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 43
44626369 CAATGCCATA
* * * *
44626379 TCCCAGATATGGTCTTACATGTTATCACATATCGATACCAATG
1 TCCCAGACATGATCTTACACGTAATCACATATCGATACCAATG
* * * * *
44626422 TCCCAGACATGGTCTTACACGAAATCATATAACGATGCCAATG
1 TCCCAGACATGATCTTACACGTAATCACATATCGATACCAATG
* * *
44626465 TCCCAAACATGATCTTACACGTAATCACA-ATACAATTCCAATG
1 TCCCAGACATGATCTTACACGTAATCACATAT-CGATACCAATG
* *
44626508 TCCCAGACATGACCTTACATGTAATCACAT
1 TCCCAGACATGATCTTACACGTAATCACAT
44626538 CTCGGTAATT
Statistics
Matches: 97, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
42 1 0.01
43 96 0.99
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (43 bp):
TCCCAGACATGATCTTACACGTAATCACATATCGATACCAATG
Found at i:44630015 original size:13 final size:13
Alignment explanation
Indices: 44629997--44630021 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44629987 TTTGAATAAT
44629997 TATTGATGATATG
1 TATTGATGATATG
44630010 TATTGATGATAT
1 TATTGATGATAT
44630022 AAATGTGGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TATTGATGATATG
Found at i:44636669 original size:39 final size:39
Alignment explanation
Indices: 44636615--44636758 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
44636605 GAATGTTCGA
44636615 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
** *
44636654 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGTGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
44636693 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
44636732 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
44636759 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 86 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:44638611 original size:22 final size:20
Alignment explanation
Indices: 44638585--44638624 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
44638575 TAGAAAGAAT
44638585 AGAATAATGAAAGAAAAAAAAA
1 AGAAT-ATG-AAGAAAAAAAAA
*
44638607 AGAATATGATGAAAAAAA
1 AGAATATGAAGAAAAAAA
44638625 GGAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 3 0.18
22 5 0.29
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.12
Consensus pattern (20 bp):
AGAATATGAAGAAAAAAAAA
Found at i:44639253 original size:2 final size:2
Alignment explanation
Indices: 44639246--44639277 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
44639236 GCACATTCGG
44639246 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
44639278 GCATGTGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44639766 original size:29 final size:29
Alignment explanation
Indices: 44639731--44639802 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
44639721 GTTGTGAGAT
* *
44639731 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
44639760 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
44639789 TGGCACTAAGTGTG
1 TGGCACTAAGTGTG
44639803 TGTGGTTGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:44645615 original size:19 final size:20
Alignment explanation
Indices: 44645591--44645628 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
44645581 GGTACCACCA
44645591 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
44645610 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
44645629 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:44645922 original size:46 final size:46
Alignment explanation
Indices: 44645855--44646025 Score: 202
Period size: 46 Copynumber: 3.7 Consensus size: 46
44645845 CGCCCCTAAG
* * *
44645855 TGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATTAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCATTAA
* * * *
44645901 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATG-TTAGCATCCAT-TAA
* ** *
44645948 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA-TAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCATTAA
44645993 GTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 -TGAACTCGGACTCAACTCAACGAGTTCGGATG
44646026 CTCAACCATC
Statistics
Matches: 103, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
45 2 0.02
46 65 0.63
47 36 0.35
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCATTAA
Found at i:44646015 original size:93 final size:93
Alignment explanation
Indices: 44645856--44646026 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
44645846 GCCCCTAAGT
***
44645856 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATTAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATTAATGAACTCGGACTCAACTCAA
44645921 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
44645949 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA-TAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATTAA-TGAACTCGGACTCAACTCA
44646013 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
44646027 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 3 0.04
93 69 0.96
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATTAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:44649708 original size:17 final size:17
Alignment explanation
Indices: 44649686--44649718 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
44649676 TTTTGAGTAA
44649686 GACATTAAGTTCTTTGT
1 GACATTAAGTTCTTTGT
44649703 GACATTAAGTTCTTTG
1 GACATTAAGTTCTTTG
44649719 CTTAATCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.45
Consensus pattern (17 bp):
GACATTAAGTTCTTTGT
Found at i:44650644 original size:27 final size:28
Alignment explanation
Indices: 44650588--44650657 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
44650578 AAACTTGTAC
44650588 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
44650616 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
44650643 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
44650658 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:44650668 original size:27 final size:27
Alignment explanation
Indices: 44650588--44650669 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
44650578 AAACTTGTAC
* *
44650588 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
44650616 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
44650643 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
44650670 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:44658847 original size:48 final size:48
Alignment explanation
Indices: 44658795--44659686 Score: 1309
Period size: 48 Copynumber: 19.0 Consensus size: 48
44658785 CAAGATAAAT
* * *
44658795 ATATATATGTGTGGTAAAGCCGAATGGCCAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
44658843 ATATATTTATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
44658891 ATATGTATATGTGGT--A---GAATGGCTAATGTG-AA-A--TAT-A-
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
44658928 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
44658976 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
44659024 ACATGTATATGTGGTAAAGCGGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
44659072 ATATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 --ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
44659122 ACATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT--G
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
44659168 --A-G-ATA-----T-AAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
44659206 ACATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
44659254 ATATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 --ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
44659304 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
44659352 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
44659400 ATA--TATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
44659446 ATA--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGT-TGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
44659491 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
44659539 ATATGTATTTGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
44659587 ATATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 --ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * ** * *
44659637 AGATGTATATTTGGTAAAGCCGAATGGCTAATAAGCAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
44659685 AT
1 AT
44659687 GTGTGTATAT
Statistics
Matches: 778, Mismatches: 34, Indels: 64
0.89 0.04 0.07
Matches are distributed among these distances:
36 29 0.04
37 16 0.02
38 2 0.00
39 4 0.01
40 1 0.00
41 2 0.00
42 22 0.03
43 16 0.02
44 2 0.00
45 7 0.01
46 85 0.11
47 39 0.05
48 417 0.54
50 136 0.17
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:44659094 original size:146 final size:144
Alignment explanation
Indices: 44658795--44659686 Score: 1309
Period size: 146 Copynumber: 6.3 Consensus size: 144
44658785 CAAGATAAAT
* * * * *
44658795 ATATATATGTGTGGTAAAGCCGAATGGCCAATGTGAAATATGTATGAGATATATTTATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
*
44658860 AGCCGAATGGCTAATATGAAATATGTATGAGATATGTATATGTGGT--A---GAATGGCTAATGT
66 AGCCGAATGGCTAATATGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAATGT
44658920 G-AA-A--TAT-A-
131 GAAATATGTATGAG
44658928 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
* * * *
44658993 AGCCGAATGGCTAATGTGAAATATGTATGAGACATGTATATGTGGTAAAGCGGAATGGCTAATGT
66 AGCCGAATGGCTAATATGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAATGT
44659058 GAAATATGTATGAG
131 GAAATATGTATGAG
*
44659072 ATATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGACATGTATATGTGGT
1 --ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
*
44659137 AAAGCCGAATGGCTAATGTGAAATATGTATGAG------ATA-----T-AAGCCGAATGGCTAAT
64 AAAGCCGAATGGCTAATATGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAAT
44659190 GTGAAATATGTATGAG
129 GTGAAATATGTATGAG
* *
44659206 ACATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATATATGTGGT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG--ATATGTATATGTGGT
*
44659271 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAAT
64 AAAGCCGAATGGCTAATATGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAAT
44659336 GTGAAATATGTATGAG
129 GTGAAATATGTATGAG
44659352 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATA--TATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
*
44659415 AGCCAAATGGCTAATATGAAATATGTATGAG--ATATATATGTGGTAAAGCCGAATGGCTAATGT
66 AGCCGAATGGCTAATATGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAATGT
44659478 GAAATATGT-TGAG
131 GAAATATGTATGAG
* *
44659491 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATATGTATTTGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
*
44659556 AGCCGAATGGCTAATATGAAATATGTATGAGATATATATATATGTGGTAAATCCGAATGGCTAAT
66 AGCCGAATGGCTAATATGAAATATGTATGAG--ATATATATATGTGGTAAAGCCGAATGGCTAAT
44659621 GTGAAATATGTATGAG
129 GTGAAATATGTATGAG
* * ** * *
44659637 AGATGTATATTTGGTAAAGCCGAATGGCTAATAAGCAATATGTAGGAGAT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
44659687 GTGTGTATAT
Statistics
Matches: 701, Mismatches: 24, Indels: 55
0.90 0.03 0.07
Matches are distributed among these distances:
132 47 0.07
133 104 0.15
134 77 0.11
135 2 0.00
138 14 0.02
139 56 0.08
140 48 0.07
141 41 0.06
142 44 0.06
143 1 0.00
144 3 0.00
145 41 0.06
146 223 0.32
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.31
Consensus pattern (144 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
AGCCGAATGGCTAATATGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAATGT
GAAATATGTATGAG
Found at i:44659122 original size:98 final size:96
Alignment explanation
Indices: 44658795--44659686 Score: 1309
Period size: 98 Copynumber: 9.5 Consensus size: 96
44658785 CAAGATAAAT
* * * * *
44658795 ATATATATGTGTGGTAAAGCCGAATGGCCAATGTGAAATATGTATGAGATATATTTATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
*
44658860 AGCCGAATGGCTAATATGAAATATGTATGAG
66 AGCCGAATGGCTAATGTGAAATATGTATGAG
44658891 ATATGTATATGTGGT--A---GAATGGCTAATGTG-AA-A--TAT-A-ATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
44658945 AGCCGAATGGCTAATGTGAAATATGTATGAG
66 AGCCGAATGGCTAATGTGAAATATGTATGAG
*
44658976 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGACATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
*
44659041 AGCGGAATGGCTAATGTGAAATATGTATGAG
66 AGCCGAATGGCTAATGTGAAATATGTATGAG
*
44659072 ATATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGACATGTATATGTGGT
1 --ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
44659137 AAAGCCGAATGGCTAATGTGAAATATGTAT--G
64 AAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
44659168 --A-G-ATA-----T-AAGCCGAATGGCTAATGTGAAATATGTATGAGACATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
44659223 AGCCGAATGGCTAATGTGAAATATGTATGAG
66 AGCCGAATGGCTAATGTGAAATATGTATGAG
* *
44659254 ATATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATATGTGGT
1 --ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
44659319 AAAGCCGAATGGCTAATGTGAAATATGTATGAG
64 AAAGCCGAATGGCTAATGTGAAATATGTATGAG
44659352 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATA--TATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
* *
44659415 AGCCAAATGGCTAATATGAAATATGTATGAG
66 AGCCGAATGGCTAATGTGAAATATGTATGAG
44659446 ATA--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGT-TGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
*
44659508 AGCCGAATGGCTAATATGAAATATGTATGAG
66 AGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
44659539 ATATGTATTTGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATATATATATATGTGGT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG--ATATGTATATGTGGT
*
44659604 AAATCCGAATGGCTAATGTGAAATATGTATGAG
64 AAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * ** * *
44659637 AGATGTATATTTGGTAAAGCCGAATGGCTAATAAGCAATATGTAGGAGAT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
44659687 GTGTGTATAT
Statistics
Matches: 735, Mismatches: 27, Indels: 68
0.89 0.03 0.08
Matches are distributed among these distances:
84 77 0.10
85 61 0.08
86 2 0.00
87 4 0.01
89 1 0.00
90 20 0.03
91 23 0.03
92 43 0.06
93 45 0.06
94 48 0.07
95 37 0.05
96 116 0.16
97 1 0.00
98 257 0.35
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.31
Consensus pattern (96 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
AGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:44659179 original size:36 final size:36
Alignment explanation
Indices: 44659138--44659206 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
44659128 ATATGTGGTA
44659138 AAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
1 AAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
44659174 AAGCCGAATGGCTAATGTGAAATATGTATGAGA
1 AAGCCGAATGGCTAATGTGAAATATGTATGAGA
44659207 CATGTATATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.39, C:0.09, G:0.26, T:0.26
Consensus pattern (36 bp):
AAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
Found at i:44659184 original size:84 final size:84
Alignment explanation
Indices: 44659090--44659258 Score: 338
Period size: 84 Copynumber: 2.0 Consensus size: 84
44659080 ATATGTGGTA
44659090 AAGCCGAATGGCTAATGTGAAATATGTATGAGACATGTATATGTGGTAAAGCCGAATGGCTAATG
1 AAGCCGAATGGCTAATGTGAAATATGTATGAGACATGTATATGTGGTAAAGCCGAATGGCTAATG
44659155 TGAAATATGTATGAGATAT
66 TGAAATATGTATGAGATAT
44659174 AAGCCGAATGGCTAATGTGAAATATGTATGAGACATGTATATGTGGTAAAGCCGAATGGCTAATG
1 AAGCCGAATGGCTAATGTGAAATATGTATGAGACATGTATATGTGGTAAAGCCGAATGGCTAATG
44659239 TGAAATATGTATGAGATAT
66 TGAAATATGTATGAGATAT
44659258 A
1 A
44659259 TATATATGTG
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.28
Consensus pattern (84 bp):
AAGCCGAATGGCTAATGTGAAATATGTATGAGACATGTATATGTGGTAAAGCCGAATGGCTAATG
TGAAATATGTATGAGATAT
Found at i:44660382 original size:19 final size:20
Alignment explanation
Indices: 44660358--44660395 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
44660348 GGTACCACCA
44660358 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
44660377 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
44660396 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:44660691 original size:46 final size:45
Alignment explanation
Indices: 44660624--44660791 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 45
44660614 CGCCCCTAAG
*
44660624 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCATAAA
* *
44660670 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCATAAA
* * * * *
44660717 CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCATAAA
44660763 TGAACTCGGACTCAACTCAACGAGTTCGG
1 TGAACTCGGACTCAACTCAACGAGTTCGG
44660792 ATGCTCAACC
Statistics
Matches: 102, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 1 0.01
46 55 0.54
47 28 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCATAAA
Found at i:44660735 original size:93 final size:93
Alignment explanation
Indices: 44660625--44660795 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
44660615 GCCCCTAAGT
* * *
44660625 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
44660690 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
44660718 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
44660783 CGAGTTCGGATGC
66 CGAGTTCGGATGC
44660796 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:44666269 original size:14 final size:14
Alignment explanation
Indices: 44666250--44666277 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
44666240 ATACAACAAA
44666250 ACCAATTTACACAT
1 ACCAATTTACACAT
44666264 ACCAATTTACACAT
1 ACCAATTTACACAT
44666278 GTTTCGTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (14 bp):
ACCAATTTACACAT
Found at i:44667780 original size:15 final size:15
Alignment explanation
Indices: 44667762--44667792 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44667752 AAACTCGCAC
44667762 AAACCAAATTCACAT
1 AAACCAAATTCACAT
*
44667777 AAACCAAATTCGCAT
1 AAACCAAATTCACAT
44667792 A
1 A
44667793 CTTGAATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.26, G:0.03, T:0.19
Consensus pattern (15 bp):
AAACCAAATTCACAT
Found at i:44669795 original size:30 final size:30
Alignment explanation
Indices: 44669750--44669809 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
44669740 ATTTAATACG
*
44669750 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
44669780 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
44669810 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:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:44671181 original size:56 final size:56
Alignment explanation
Indices: 44671098--44671203 Score: 167
Period size: 56 Copynumber: 1.9 Consensus size: 56
44671088 GTAACCACAT
* *
44671098 ATATTGATGCCAACGTACTAGACGTGGTCTTACTCGCACACATATATCGAAATCAC
1 ATATCGATGCCAACGTACTAAACGTGGTCTTACTCGCACACATATATCGAAATCAC
* * *
44671154 ATATCGATGCCAATGTATTAAACGTGGTCTTACTCGCAGACATATATCGA
1 ATATCGATGCCAACGTACTAAACGTGGTCTTACTCGCACACATATATCGA
44671204 TGCCATGGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 45 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (56 bp):
ATATCGATGCCAACGTACTAAACGTGGTCTTACTCGCACACATATATCGAAATCAC
Found at i:44675360 original size:40 final size:40
Alignment explanation
Indices: 44675315--44675482 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
44675305 CGGAATATAA
44675315 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
44675355 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
44675395 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
44675435 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
44675475 CCGGATAT
1 CCGGATAT
44675483 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:44677877 original size:40 final size:41
Alignment explanation
Indices: 44677794--44677985 Score: 166
Period size: 40 Copynumber: 4.8 Consensus size: 41
44677784 TTGAATGATG
* * * *
44677794 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGATCCCGAAGGCATTTGTGC-GAGTTAATAAA
* * *
44677834 TCCGGACTAAGAT-CCGAAGGCGTTCGTGCGAGTTAATAAA
1 TCCGGGCTAAGATCCCGAAGGCATTTGTGCGAGTTAATAAA
* *
44677874 TCCGGGC-CA-ATCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGATCCCGAAGGCATTTGTGCGAGTTAATAAA
* * *
44677913 CCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGATCCCGAAGGCATTTGTGCGAGTTAATA-AA
** * *
44677954 -CCGGGCTTTG-TCCCGAAGACATTTGAGCGAGT
1 TCCGGGCTAAGATCCCGAAGGCATTTGTGCGAGT
44677986 CGTTATATCC
Statistics
Matches: 127, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.02
39 30 0.24
40 86 0.68
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGATCCCGAAGGCATTTGTGCGAGTTAATAAA
Found at i:44677959 original size:79 final size:80
Alignment explanation
Indices: 44677794--44677947 Score: 188
Period size: 79 Copynumber: 1.9 Consensus size: 80
44677784 TTGAATGATG
* * * *
44677794 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCGTTC
1 TCCGGGCCAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
44677859 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* * **
44677874 TCCGGGCCAA-TCCCGAAGGCATTTGTGC-GAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCCAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
44677936 TTGTGCGAGTTA
64 TCGTGCGAGTTA
44677948 CTATAACCGG
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
78 1 0.02
79 46 0.73
80 16 0.25
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCCAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:44686113 original size:93 final size:93
Alignment explanation
Indices: 44686001--44686172 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44685991 GCCCATAAGT
* *
44686001 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44686066 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
44686094 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44686159 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
44686173 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:44686168 original size:46 final size:46
Alignment explanation
Indices: 44685993--44686168 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
44685983 TGTAACCCGC
* * *
44685993 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
44686039 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
44686089 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
44686132 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
44686169 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:44688597 original size:30 final size:30
Alignment explanation
Indices: 44688553--44688641 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
44688543 CAAAGATAAC
44688553 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
44688582 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
44688612 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
44688642 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:44688601 original size:15 final size:15
Alignment explanation
Indices: 44688553--44688632 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
44688543 CAAAGATAAC
*
44688553 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
44688567 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
44688582 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
44688597 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
44688612 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
44688627 AAGAAA
1 AAGAAA
44688633 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:44688641 original size:15 final size:15
Alignment explanation
Indices: 44688564--44688641 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
44688554 AGAAAACCGA
44688564 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
44688579 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
44688593 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
44688608 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
44688624 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
44688639 ATA
1 ATA
44688642 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:44691704 original size:93 final size:93
Alignment explanation
Indices: 44691592--44691763 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44691582 GCCCATAAGT
* *
44691592 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44691657 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
44691685 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44691750 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
44691764 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:44691759 original size:46 final size:46
Alignment explanation
Indices: 44691584--44691759 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
44691574 TGTAACCCGC
* * *
44691584 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
44691630 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
44691680 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
44691723 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
44691760 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:44694345 original size:39 final size:40
Alignment explanation
Indices: 44694288--44694385 Score: 117
Period size: 39 Copynumber: 2.5 Consensus size: 40
44694278 CTAAGATCCG
* *
44694288 AAGGCGTTCGTGCGAGTTAATAAATCCGGGCCAAG-CCCA
1 AAGGCATTCGTGCGAGTTAATAAACCCGGGCCAAGTCCCA
* * * ** *
44694327 AAGGCATTTGTGCCAGTTACTAAACCCGGGTTAAGTCCCG
1 AAGGCATTCGTGCGAGTTAATAAACCCGGGCCAAGTCCCA
44694367 AAGGCATTCGTGCGAGTTA
1 AAGGCATTCGTGCGAGTTA
44694386 CTATAACCGG
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
39 28 0.58
40 20 0.42
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (40 bp):
AAGGCATTCGTGCGAGTTAATAAACCCGGGCCAAGTCCCA
Found at i:44694385 original size:40 final size:39
Alignment explanation
Indices: 44694285--44694423 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 39
44694275 GTACTAAGAT
* * **
44694285 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGCCAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGTTAAGTC
* * *
44694324 CCAAAGGCATTTGTGCCAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGTTAAGTC
*
44694364 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGCTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCGGG-TTAAGTC
* * *
44694404 CTGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
44694424 CATTATATCC
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
39 30 0.37
40 48 0.59
41 4 0.05
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCGGGTTAAGTC
Found at i:44697328 original size:29 final size:27
Alignment explanation
Indices: 44697296--44697373 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 27
44697286 TGCATGTGAT
44697296 TTGGGTCTAATGGGCCATATGAAT-ATGAA
1 TTGGG-CTAATGGGCCATATGAATGA-G-A
*
44697325 TTGGGCCTGATGGGCCATATGAATGAGA
1 TTGGG-CTAATGGGCCATATGAATGAGA
*
44697353 TTGGGCCAAGTGGGCCATATG
1 TTGGGCTAA-TGGGCCATATG
44697374 CACATATGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
27 2 0.05
28 17 0.40
29 23 0.53
30 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.33, T:0.27
Consensus pattern (27 bp):
TTGGGCTAATGGGCCATATGAATGAGA
Found at i:44697366 original size:28 final size:29
Alignment explanation
Indices: 44697305--44697373 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 29
44697295 TTTGGGTCTA
*
44697305 ATGGGCCATATGAATATGAATTGGGCCTG
1 ATGGGCCATATGAATATGAATTGGGCCAG
44697334 ATGGGCCATATG-A-ATGAGATTGGGCCA-
1 ATGGGCCATATGAATATGA-ATTGGGCCAG
44697361 AGTGGGCCATATG
1 A-TGGGCCATATG
44697374 CACATATGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 5 0.14
28 20 0.54
29 12 0.32
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.25
Consensus pattern (29 bp):
ATGGGCCATATGAATATGAATTGGGCCAG
Found at i:44701183 original size:17 final size:17
Alignment explanation
Indices: 44701161--44701200 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
44701151 AGTTGTAACG
*
44701161 CCCCAAAAATCCTGAAA
1 CCCCAAAAATCCCGAAA
44701178 CCCC-AAAATCCCGAAA
1 CCCCAAAAATCCCGAAA
*
44701194 TCCCAAA
1 CCCCAAA
44701201 CTTTCTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.45, C:0.40, G:0.05, T:0.10
Consensus pattern (17 bp):
CCCCAAAAATCCCGAAA
Found at i:44704509 original size:47 final size:47
Alignment explanation
Indices: 44704458--44704568 Score: 195
Period size: 47 Copynumber: 2.4 Consensus size: 47
44704448 TAGTATTAAT
*
44704458 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
44704505 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* *
44704552 AATGTGATAAGTCCGAA
1 TATGTGATAAGGCCGAA
44704569 GGGCATTTGT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 61 1.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:44706643 original size:40 final size:40
Alignment explanation
Indices: 44706582--44706737 Score: 267
Period size: 40 Copynumber: 3.9 Consensus size: 40
44706572 CTCGACGATG
*
44706582 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
*
44706622 ATCCGGGCTAAATCCCAAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
* *
44706662 ATCCGGGCTAAATCCCGAAGGGTATTCGTGCCGATGTTAT
1 ATCCGGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
*
44706702 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTG
1 ATCCGGGCTAAATCCCGAAGGGCATTCGTGCCGGTG
44706738 ATGTGTATTC
Statistics
Matches: 108, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 108 1.00
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
Found at i:44711170 original size:47 final size:47
Alignment explanation
Indices: 44711119--44711229 Score: 195
Period size: 47 Copynumber: 2.4 Consensus size: 47
44711109 TAGTATTAAT
*
44711119 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
44711166 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* *
44711213 AATGTGATAAGTCCGAA
1 TATGTGATAAGGCCGAA
44711230 GGGCATTTGT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 61 1.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:44713876 original size:29 final size:29
Alignment explanation
Indices: 44713781--44713876 Score: 120
Period size: 29 Copynumber: 3.3 Consensus size: 29
44713771 GCGAGCATGA
* * * *
44713781 ATATGCATGTGATTTGGGTCTAATGGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
* * *
44713810 ATATGAATATGAATTGGGCTTGATGGGCT
1 ATATGAATGTGAATTGGGCCTGATGGGCC
*
44713839 ATATGAATGTGAATTGGGCCTGATGGGCG
1 ATATGAATGTGAATTGGGCCTGATGGGCC
44713868 ATATGAATG
1 ATATGAATG
44713877 AGATTGGACC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.26, C:0.09, G:0.32, T:0.32
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCTGATGGGCC
Found at i:44726208 original size:15 final size:17
Alignment explanation
Indices: 44726183--44726215 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
44726173 TTGAATGGAA
44726183 TTATATTTGAAT-TATT
1 TTATATTTGAATATATT
44726199 TTAT-TTTGAATATATT
1 TTATATTTGAATATATT
44726215 T
1 T
44726216 AGATCAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (17 bp):
TTATATTTGAATATATT
Found at i:44726588 original size:43 final size:43
Alignment explanation
Indices: 44726517--44726636 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 43
44726507 TAGGATTTAT
*
44726517 GATATGTGATTGCATGTAAGACCATGTCTGGGACA-TCGGCATC
1 GATATGTGATTGCATGTAAGACCATGTCTGGGACAGT-GACATC
* * *
44726560 GTATATGTGATT-CGTGTAAGACCTTGTCTGGGATAGTGACATC
1 G-ATATGTGATTGCATGTAAGACCATGTCTGGGACAGTGACATC
* * * *
44726603 GATATGTGATTACAAGTAAGACCACGTTTGGGAC
1 GATATGTGATTGCATGTAAGACCATGTCTGGGAC
44726637 GTTGGCATTG
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
42 10 0.16
43 43 0.67
44 11 0.17
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (43 bp):
GATATGTGATTGCATGTAAGACCATGTCTGGGACAGTGACATC
Found at i:44727037 original size:19 final size:19
Alignment explanation
Indices: 44727013--44727054 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
44727003 TCAGCTATGT
* *
44727013 TAAGTTGTTTATGAAAGTA
1 TAAGTTATTTATAAAAGTA
*
44727032 TAAGTTATTTATAAAATTA
1 TAAGTTATTTATAAAAGTA
44727051 TAAG
1 TAAG
44727055 CTTGAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (19 bp):
TAAGTTATTTATAAAAGTA
Found at i:44730272 original size:2 final size:2
Alignment explanation
Indices: 44730265--44730301 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
44730255 TGCAATTACG
44730265 TA TA 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 TA TA T
44730302 CTGTGTGTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:44731177 original size:40 final size:40
Alignment explanation
Indices: 44731123--44731207 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 40
44731113 CTTGATATAT
* **
44731123 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATATCCAGGTTAAATCCCGCAGGCTTAATGCTGGTAA
*
44731163 TATATATCCAGGTTAAATCCCGCAGGCTTAATGCTGGTAC
1 TATATATCCAGGTTAAATCCCGCAGGCTTAATGCTGGTAA
44731203 TATAT
1 TATAT
44731208 CGGGGCTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (40 bp):
TATATATCCAGGTTAAATCCCGCAGGCTTAATGCTGGTAA
Found at i:44740971 original size:2 final size:2
Alignment explanation
Indices: 44740964--44740998 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
44740954 TGCAATTACG
44740964 TA 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 TA T
44740999 GTGCATTCGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:44741861 original size:40 final size:40
Alignment explanation
Indices: 44741811--44741895 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 40
44741801 CTTGATATAT
* * *
44741811 TATATATCCGGGTTAAATCCCGCATGCTTCGTGCTGGTAA
1 TATATATCCGGGTTAAATCCCGCAGGCTTAGTGATGGTAA
* *
44741851 TATATATCCGGGTTAAATCCTGCAGGCTTAGTGATGGTAC
1 TATATATCCGGGTTAAATCCCGCAGGCTTAGTGATGGTAA
44741891 TATAT
1 TATAT
44741896 TGGGGCTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (40 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTAGTGATGGTAA
Found at i:44743493 original size:46 final size:46
Alignment explanation
Indices: 44743347--44743660 Score: 200
Period size: 46 Copynumber: 6.7 Consensus size: 46
44743337 TGTGTGCTAT
* ** *
44743347 TGTAAGACATGTCTAGGACATGCATCGGCCA-CATTATGAGAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGG-CATCAAGATGAGAGCCAG
* * * *
44743393 TGTAAGACCATGTCTGGGACATGTCATCGGCAAT-GAGACGATAGCTAG
1 TGTAAGA-CATGTCTGGGACATG-CATCGGC-ATCAAGATGAGAGCCAG
* *
44743441 TGTAAGACATGTCTGGGACATACATCGGCCTCAAGATGTA-AGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCATCAAGATG-AGAGCCAG
* * *
44743487 CGTAAGACATGTCTGGGACATGCATCGG-ATACAAGAT--GTGTCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCAT-CAAGATGAGAGCCAG
* * * * *
44743531 TGTAAGACCATTTCTGGGACATGGCTTCGGCA-CGGATATGTCAGAGTCAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCATC-AAGATG--AGAGCCAG
* *
44743581 TGTAAGACCATGTCTGGGACATGGCAAT-GAC-TTAATGGAT-A-AGCCAG
1 TGTAAGA-CATGTCTGGGACAT-GC-ATCGGCATCAA--GATGAGAGCCAG
*
44743628 TGTAAGACCATGTCTGGGACATGGCATCAGCAT
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCAT
44743661 TATACCCTGT
Statistics
Matches: 215, Mismatches: 31, Indels: 42
0.75 0.11 0.15
Matches are distributed among these distances:
44 10 0.05
45 16 0.07
46 66 0.31
47 62 0.29
48 25 0.12
49 1 0.00
50 32 0.15
51 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCATCAAGATGAGAGCCAG
Found at i:44744841 original size:21 final size:20
Alignment explanation
Indices: 44744816--44744855 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
44744806 GTCATAAAGA
44744816 CCACACGGGCATGTTACCCTT
1 CCACACGGGCATGTT-CCCTT
*
44744837 CCACACGGGCGTGTTCCCT
1 CCACACGGGCATGTTCCCT
44744856 ATTTCCAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.15, C:0.40, G:0.23, T:0.23
Consensus pattern (20 bp):
CCACACGGGCATGTTCCCTT
Found at i:44746160 original size:27 final size:26
Alignment explanation
Indices: 44746118--44746219 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
44746108 GCTCAGTTAT
* *
44746118 CAGATATTGTGACAGAGTCACCAAATA
1 CAGATATTGTGGCAGAGCCACCAAA-A
*
44746145 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAAAA
*
44746171 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCA-AAA
* *
44746199 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
44746220 TTAATAGAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.77
28 8 0.12
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAAAA
Found at i:44746412 original size:22 final size:22
Alignment explanation
Indices: 44746382--44746442 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
44746372 ATACGTTTTG
* *
44746382 CACACAGCCATAATCAGGTTGG
1 CACAAAGCCATAATCAGGTTGA
* * *
44746404 TACAGAGCCAT-ATGTAGGTTGA
1 CACAAAGCCATAAT-CAGGTTGA
44746426 CACAAAGCCATAATCAG
1 CACAAAGCCATAATCAG
44746443 AAGGCTTTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
21 2 0.07
22 26 0.87
23 2 0.07
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (22 bp):
CACAAAGCCATAATCAGGTTGA
Found at i:44746925 original size:27 final size:27
Alignment explanation
Indices: 44746869--44747063 Score: 275
Period size: 27 Copynumber: 7.3 Consensus size: 27
44746859 GGATCAAAAT
* * * *
44746869 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
44746895 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
44746922 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
44746949 GGTAATTTTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
44746976 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
44747003 GGTAGTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
44747030 GGCATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
44747057 GGTAATT
1 GGTAATT
44747064 TTGTAAATCG
Statistics
Matches: 150, Mismatches: 18, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
26 14 0.09
27 136 0.91
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:44747077 original size:27 final size:26
Alignment explanation
Indices: 44747047--44747396 Score: 146
Period size: 27 Copynumber: 12.9 Consensus size: 26
44747037 CTACCCTACA
*
44747047 AGGGTATTTCGGTAATTTTGTAAATCG
1 AGGGTATTT-GGTAATTTTATAAATCG
** * * * *
44747074 AGGGTAAAATGATAATTCTGTAAATCA
1 AGGGT-ATTTGGTAATTTTATAAATCG
* * *
44747101 ATGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTA-TTTGGTAATTTTATAAATCG
** * **
44747128 AGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTATTT-GGTAATTTTATAAATCG
** *
44747155 AGGGTATTTCAATAATTTTCACAAATC-
1 AGGGTATTT-GGTAATTTT-ATAAATCG
* *
44747182 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTA-TTTGGTAATTTTATAAATCG
* *
44747209 AGGGGTATTTTGGTAATTTTATAAACCA
1 A-GGGTA-TTTGGTAATTTTATAAATCG
* * * *
44747237 AGGGTATTTTAGTAATTTTACAAACCA
1 AGGGTA-TTTGGTAATTTTATAAATCG
* * * *
44747264 AGAGTATTTTGGTAATTTTGTAAACCA
1 AGGGTA-TTTGGTAATTTTATAAATCG
*** * * *
44747291 AGGGTAAAACGATAATTCTGTAAATCG
1 AGGGT-ATTTGGTAATTTTATAAATCG
**
44747318 AGGGTAAAATGGTAATTTTATAAATCG
1 AGGGT-ATTTGGTAATTTTATAAATCG
** *
44747345 AGGGTAAAATGGTAATTTTATAAATTG
1 AGGGT-ATTTGGTAATTTTATAAATCG
** *
44747372 AGGGTAAAATGGCAATTTTATAAAT
1 AGGGT-ATTTGGTAATTTTATAAAT
44747397 TGAAGGTAAA
Statistics
Matches: 270, Mismatches: 44, Indels: 18
0.81 0.13 0.05
Matches are distributed among these distances:
26 5 0.02
27 240 0.89
28 22 0.08
29 3 0.01
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.36
Consensus pattern (26 bp):
AGGGTATTTGGTAATTTTATAAATCG
Found at i:44747218 original size:82 final size:81
Alignment explanation
Indices: 44747103--44747282 Score: 191
Period size: 82 Copynumber: 2.2 Consensus size: 81
44747093 GTAAATCAAT
* * * *** *
44747103 GGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCAAT
1 GGTATTTTGGTAATTTTACAACTAGAGGGTATTTCAATAATTTTACAAACCAAGGGTATTTCAAT
* *
44747168 AATTTTCACAAATCAGG
66 AATTTT-ACAAACCAAG
*** * * *
44747185 GGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAG
1 GGTATTTTGGTAATTTTAC-AACTAGAGGGTATTTCAATAATTTTACAAACCAAGGGTATTTCAA
44747249 TAATTTTACAAACCAAG
65 TAATTTTACAAACCAAG
*
44747266 AGTATTTTGGTAATTTT
1 GGTATTTTGGTAATTTT
44747283 GTAAACCAAG
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 24 0.30
82 53 0.65
83 4 0.05
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAACTAGAGGGTATTTCAATAATTTTACAAACCAAGGGTATTTCAAT
AATTTTACAAACCAAG
Done.