Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 99 of 128
Found at i:32852255 original size:18 final size:18
Alignment explanation
Indices: 32852245--32852286 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
32852235 GAACAAAAAG
32852245 AAAAGATAGAAAAATAAA
1 AAAAGATAGAAAAATAAA
32852263 AAAAGAGT-GAAAAA-ACAA
1 AAAAGA-TAGAAAAATA-AA
32852281 AAAAGA
1 AAAAGA
32852287 AAAAGTGAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.07
Consensus pattern (18 bp):
AAAAGATAGAAAAATAAA
Found at i:32855555 original size:28 final size:28
Alignment explanation
Indices: 32855502--32855555 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
32855492 ATTTTTTTTA
* *
32855502 AATGCATGTTCTTAATTTGTCTAAGTTT
1 AATGCATGTTCTTAATTGGTCCAAGTTT
32855530 AATGCATG-TCTTAATGTGGTCCAAGT
1 AATGCATGTTCTTAAT-TGGTCCAAGT
32855556 CCAGCCGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.43
Consensus pattern (28 bp):
AATGCATGTTCTTAATTGGTCCAAGTTT
Found at i:32857670 original size:25 final size:23
Alignment explanation
Indices: 32857642--32857776 Score: 90
Period size: 25 Copynumber: 5.4 Consensus size: 23
32857632 ATCCTGTACA
32857642 TGTATGCTCATACAAGATGTAAACC
1 TGTATGCTC-TACAAGATGTAAA-C
* *
32857667 TGTATGCTCTATCAAGCTGTAAAT
1 TGTATGCTCTA-CAAGATGTAAAC
*
32857691 TGGTATGCTCTCACGAGATGTAAATC
1 T-GTATGCTCT-ACAAGATGTAAA-C
* * * *
32857717 GGTATGCTCTCACGAGCTGTAAAT
1 TGTATGCTCT-ACAAGATGTAAAC
* *
32857741 TGGTATGCTCTTACGAGCTGTAAATC
1 T-GTATGCTC-TACAAGATGTAAA-C
*
32857767 GGTATGCTCT
1 TGTATGCTCT
32857777 CACGAGCTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
24 4 0.04
25 86 0.93
26 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (23 bp):
TGTATGCTCTACAAGATGTAAAC
Found at i:32857697 original size:50 final size:50
Alignment explanation
Indices: 32857643--32857816 Score: 208
Period size: 50 Copynumber: 3.5 Consensus size: 50
32857633 TCCTGTACAT
* * *
32857643 GTATGCTCATACAAGATGTAAACCTGTATGCTCT-ATCAAGCTGTAAATTG
1 GTATGCTCATACAAGATGTAAATCGGTATGCTCTCA-CGAGCTGTAAATTG
*
32857693 GTATGCTC-TCACGAGATGTAAATCGGTATGCTCTCACGAGCTGTAAATTG
1 GTATGCTCAT-ACAAGATGTAAATCGGTATGCTCTCACGAGCTGTAAATTG
* * * * *
32857743 GTATGCTCTTACGAGCTGTAAATCGGTATGCTCTCACGAGCTATAAATCG
1 GTATGCTCATACAAGATGTAAATCGGTATGCTCTCACGAGCTGTAAATTG
* * *
32857793 GTAAGCTCATACAAGTTGTGAATC
1 GTATGCTCATACAAGATGTAAATC
32857817 AGCAAGCTCA
Statistics
Matches: 109, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 106 0.97
51 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (50 bp):
GTATGCTCATACAAGATGTAAATCGGTATGCTCTCACGAGCTGTAAATTG
Found at i:32857781 original size:25 final size:25
Alignment explanation
Indices: 32857659--32857800 Score: 187
Period size: 25 Copynumber: 5.7 Consensus size: 25
32857649 TCATACAAGA
* * *
32857659 TGTAAACCTGTATGCTCT-ATCAAGC
1 TGTAAATCGGTATGCTCTCA-CGAGC
* *
32857684 TGTAAATTGGTATGCTCTCACGAGA
1 TGTAAATCGGTATGCTCTCACGAGC
32857709 TGTAAATCGGTATGCTCTCACGAGC
1 TGTAAATCGGTATGCTCTCACGAGC
* *
32857734 TGTAAATTGGTATGCTCTTACGAGC
1 TGTAAATCGGTATGCTCTCACGAGC
32857759 TGTAAATCGGTATGCTCTCACGAGC
1 TGTAAATCGGTATGCTCTCACGAGC
* *
32857784 TATAAATCGGTAAGCTC
1 TGTAAATCGGTATGCTC
32857801 ATACAAGTTG
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
25 102 0.99
26 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (25 bp):
TGTAAATCGGTATGCTCTCACGAGC
Found at i:32857834 original size:75 final size:75
Alignment explanation
Indices: 32857681--32857834 Score: 175
Period size: 75 Copynumber: 2.1 Consensus size: 75
32857671 TGCTCTATCA
* * * * ** *
32857681 AGCTGTAAATTGGTATGCTCTCACGAGATGTAAATCGGTATGCTCTCACGAGCTGTAAATTGGTA
1 AGCTGTAAATCGGTATGCTCTCACGAGATATAAATCGGTAAGCTCTCACAAGCTGTAAATCAGCA
* *
32857746 TGCTCTTACG
66 AGCTCATACG
* * *
32857756 AGCTGTAAATCGGTATGCTCTCACGAGCTATAAATCGGTAAGCTCAT-ACAAGTTGTGAATCAGC
1 AGCTGTAAATCGGTATGCTCTCACGAGATATAAATCGGTAAGCTC-TCACAAGCTGTAAATCAGC
*
32857820 AAGCTCATATG
65 AAGCTCATACG
32857831 AGCT
1 AGCT
32857835 ATGAGGCGGT
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
75 64 0.98
76 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (75 bp):
AGCTGTAAATCGGTATGCTCTCACGAGATATAAATCGGTAAGCTCTCACAAGCTGTAAATCAGCA
AGCTCATACG
Found at i:32862534 original size:18 final size:20
Alignment explanation
Indices: 32862513--32862560 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
32862503 AAAGGAAGAC
32862513 AGAAAAAGA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
*
32862531 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
32862551 AGCAAAAAGA
1 AG-AAAAAGA
32862561 TATTGAGAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 9 0.35
19 8 0.31
20 2 0.08
21 7 0.27
ACGTcount: A:0.73, C:0.04, G:0.19, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:32867675 original size:102 final size:102
Alignment explanation
Indices: 32867483--32867777 Score: 448
Period size: 102 Copynumber: 2.9 Consensus size: 102
32867473 ACTTTTATCA
* * * * ** *
32867483 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCATGTTTTA-CGGTTCACGTAG
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGATCATCATTTATCGATTCACGTAG
* *
32867547 TAGCCTTCAAATAGAACTACACACGTGACCAAAGCTT
66 TAGCCTTCAAACAGTACTACACACGTGACCAAAGCTT
*
32867584 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGATCATCATTTATCGATTCACGTAG
*
32867649 TAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
66 TAGCCTTCAAACAGTACTACACACGTGACCAAAGCTT
* * *
32867686 ATCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGATCATCATTTATCGATACACGTAG
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGATCATCATTTATCGATTCACGTAG
*
32867751 TAGCCTTCAAACAGTACTAAACACGTG
66 TAGCCTTCAAACAGTACTACACACGTG
32867778 TTCATCGATA
Statistics
Matches: 176, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
101 45 0.26
102 131 0.74
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (102 bp):
TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGATCATCATTTATCGATTCACGTAG
TAGCCTTCAAACAGTACTACACACGTGACCAAAGCTT
Found at i:32867783 original size:51 final size:51
Alignment explanation
Indices: 32867484--32867777 Score: 308
Period size: 51 Copynumber: 5.8 Consensus size: 51
32867474 CTTTTATCAT
* **
32867484 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCATGTTTTA
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATCATTTA
* * * * *
32867535 -CGGTTCACGTAGTAGCCTTCAAATAGAACTACACACGTGACCA-AAGCTTT-
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATCA--TTTA
* * * *
32867585 TCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATCATTTA
* * * *
32867636 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCA-AAGCTTA
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATCA-TTTA
* * * * * *
32867687 TCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGATCATCATTTA
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATCATTTA
* * *
32867738 TCGATACACGTAGTAGCCTTCAAACAGTACTAAACACGTG
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
32867778 TTCATCGATA
Statistics
Matches: 196, Mismatches: 40, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
50 42 0.21
51 152 0.78
52 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (51 bp):
TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATCATTTA
Found at i:32877116 original size:24 final size:23
Alignment explanation
Indices: 32877089--32877137 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
32877079 TTAAAACTAC
32877089 TTCTAA-AGAAAACTCAAGAGAGAA
1 TTCTAAGAG-AAACTCAA-AGAGAA
**
32877113 TTCTTGGAGAAACTCAAAGAGAA
1 TTCTAAGAGAAACTCAAAGAGAA
32877136 TT
1 TT
32877138 TTCACTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 8 0.36
24 12 0.55
25 2 0.09
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.22
Consensus pattern (23 bp):
TTCTAAGAGAAACTCAAAGAGAA
Found at i:32882246 original size:27 final size:25
Alignment explanation
Indices: 32882204--32882262 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
32882194 GCAGTCAACC
32882204 TATAAA-TAGTTCATTTGTAAACATTT
1 TATAAATTAGTTCATTT-T-AACATTT
* *
32882230 TATAAATTAGTTGATTTTGACATTT
1 TATAAATTAGTTCATTTTAACATTT
32882255 TATGAAAT
1 TAT-AAAT
32882263 ATATAGACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 9 0.31
26 11 0.38
27 9 0.31
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.47
Consensus pattern (25 bp):
TATAAATTAGTTCATTTTAACATTT
Found at i:32882274 original size:26 final size:25
Alignment explanation
Indices: 32882224--32882274 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
32882214 TCATTTGTAA
* *
32882224 ACATTTTATAAATTAGTTGATTTTG
1 ACATTTTATAAATTAGTAGACTTTG
32882249 ACATTTTATGAAATATA-TAGACTTTG
1 ACATTTTAT-AAAT-TAGTAGACTTTG
32882275 TGAGTTGTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 9 0.41
26 11 0.50
27 2 0.09
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (25 bp):
ACATTTTATAAATTAGTAGACTTTG
Found at i:32883432 original size:15 final size:14
Alignment explanation
Indices: 32883414--32883461 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 14
32883404 AAGTGAAGTG
32883414 AAAAAA-TGAGAAGA
1 AAAAAATTGA-AAGA
32883428 AAAAAATTGAAAAGGA
1 AAAAAATTG-AAA-GA
32883444 AAAGAAATTGAAAGA
1 AAA-AAATTGAAAGA
32883459 AAA
1 AAA
32883462 GAGAAAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.20
15 9 0.30
16 9 0.30
17 6 0.20
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (14 bp):
AAAAAATTGAAAGA
Found at i:32883462 original size:15 final size:16
Alignment explanation
Indices: 32883424--32883463 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
32883414 AAAAAATGAG
32883424 AAGAAAA-AAATTGAA
1 AAGAAAAGAAATTGAA
32883439 AAGGAAAAGAAATTG-A
1 AA-GAAAAGAAATTGAA
32883455 AAGAAAAGA
1 AAGAAAAGA
32883464 GAAAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 9 0.39
16 8 0.35
17 6 0.26
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.10
Consensus pattern (16 bp):
AAGAAAAGAAATTGAA
Found at i:32883466 original size:17 final size:17
Alignment explanation
Indices: 32883427--32883467 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
32883417 AAATGAGAAG
*
32883427 AAAA-AAATTGAAAAGG
1 AAAAGAAATTGAAAAGA
32883443 AAAAGAAATTG-AAAGA
1 AAAAGAAATTGAAAAGA
32883459 AAAGAGAAA
1 AAA-AGAAA
32883468 GAAAAAGAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.10
Consensus pattern (17 bp):
AAAAGAAATTGAAAAGA
Found at i:32885727 original size:26 final size:27
Alignment explanation
Indices: 32885698--32885750 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
32885688 ATGACCGTAG
*
32885698 TGCCCCTAGAAGGTAAATGACT-ATTT
1 TGCCCCTAGAAGGTAAATAACTGATTT
* *
32885724 TGCCCCTCGAGGGTAAATAACTGATTT
1 TGCCCCTAGAAGGTAAATAACTGATTT
32885751 GTGTTATAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (27 bp):
TGCCCCTAGAAGGTAAATAACTGATTT
Found at i:32890854 original size:16 final size:16
Alignment explanation
Indices: 32890833--32890865 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32890823 GGAAGATTTG
32890833 AAAATGA-TTGAGAAAA
1 AAAATGAGTTG-GAAAA
32890849 AAAATGAGTTGGAAAA
1 AAAATGAGTTGGAAAA
32890865 A
1 A
32890866 GAAAAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.61, C:0.00, G:0.21, T:0.18
Consensus pattern (16 bp):
AAAATGAGTTGGAAAA
Found at i:32893217 original size:5 final size:5
Alignment explanation
Indices: 32893207--32893231 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
32893197 CATTGGAACT
32893207 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
32893232 CTTAGTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:32904183 original size:183 final size:183
Alignment explanation
Indices: 32903875--32904231 Score: 597
Period size: 183 Copynumber: 2.0 Consensus size: 183
32903865 AGTCTTGGGC
*
32903875 TGTGTAATGGAGTATTTATTTTAATGTTTGAGCTATGCACGTAGTGGAGTTGGACTGAAATATAG
1 TGTGTAATGGAGTATTTATTTTAATGCTTGAGCTATGCACGTAGTGGAGTTGGACTGAAATATAG
*
32903940 CTATAGGGAGTTTGATTTGAATTTGAATGGAGTTGTGGAGGGAGTTGAGGAGAAATTGGTGGAGT
66 CTATAGGGAGTTTGATTTGAATTTGAATGGAGTTGTGGAGGGAGTTGAAGAGAAATTGGTGGAGT
*
32904005 AATCCAAGGAGGGATAAGGGGAGAGATTTTAGGAGAAAATCGTGGGAGTGTGT
131 AATCCAAGGAGGGATAAAGGGAGAGATTTTAGGAGAAAATCGTGGGAGTGTGT
** * * * *
32904058 TGTGTAATGGAGTATTTATTTTGCTGCTTGAGTTGTGTAGGTAGTGGAGTTGGACTGAAATATAG
1 TGTGTAATGGAGTATTTATTTTAATGCTTGAGCTATGCACGTAGTGGAGTTGGACTGAAATATAG
* *
32904123 CTATGGGGAGTTTGATTTGAATTTGAATGGAGTTGTTGAGGGAGTTGAAGAGAAATTGGTGGAGT
66 CTATAGGGAGTTTGATTTGAATTTGAATGGAGTTGTGGAGGGAGTTGAAGAGAAATTGGTGGAGT
* *
32904188 ACTCCAAGGAGTGATAAAGGGAGAGATTTTAGGAGAAAATCGTG
131 AATCCAAGGAGGGATAAAGGGAGAGATTTTAGGAGAAAATCGTG
32904232 AAAGTGGGGT
Statistics
Matches: 161, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
183 161 1.00
ACGTcount: A:0.29, C:0.04, G:0.35, T:0.32
Consensus pattern (183 bp):
TGTGTAATGGAGTATTTATTTTAATGCTTGAGCTATGCACGTAGTGGAGTTGGACTGAAATATAG
CTATAGGGAGTTTGATTTGAATTTGAATGGAGTTGTGGAGGGAGTTGAAGAGAAATTGGTGGAGT
AATCCAAGGAGGGATAAAGGGAGAGATTTTAGGAGAAAATCGTGGGAGTGTGT
Found at i:32905332 original size:27 final size:28
Alignment explanation
Indices: 32905280--32905393 Score: 130
Period size: 27 Copynumber: 4.2 Consensus size: 28
32905270 GGAGGTCAAC
*
32905280 AAATGACCGACAT-CCCTCTATA-GGTA
1 AAATGACCGAAATACCCTCTATAGGGTA
32905306 AAATGACCGAAATACCCTC-ATAGGGTA
1 AAATGACCGAAATACCCTCTATAGGGTA
* *
32905333 AAATGATCGAAATACCC-CCATAGGGTA
1 AAATGACCGAAATACCCTCTATAGGGTA
* * **
32905360 AAATAACCCAAATA-CCTCTATTCGGTA
1 AAATGACCGAAATACCCTCTATAGGGTA
32905387 AAATGAC
1 AAATGAC
32905394 TGTTATACTC
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 18 0.24
27 57 0.76
ACGTcount: A:0.40, C:0.24, G:0.15, T:0.21
Consensus pattern (28 bp):
AAATGACCGAAATACCCTCTATAGGGTA
Found at i:32905636 original size:26 final size:26
Alignment explanation
Indices: 32905561--32905663 Score: 98
Period size: 26 Copynumber: 4.0 Consensus size: 26
32905551 GGAAGTATAT
* * * *
32905561 TGTTACTGGCAGCTTTGGTGTGAGAC
1 TGTTACTGGCAGCTCTGCTGCGATAC
* * *
32905587 TGTTATTGGAAGCTCTGCTGCGATCC
1 TGTTACTGGCAGCTCTGCTGCGATAC
*
32905613 TGTTACTGGCAGCTCTGCTGCGATAT
1 TGTTACTGGCAGCTCTGCTGCGATAC
* * * *
32905639 TATTACTGACAGCTTTGCTACGATA
1 TGTTACTGGCAGCTCTGCTGCGATA
32905664 TTGGTGTGTT
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 62 1.00
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.35
Consensus pattern (26 bp):
TGTTACTGGCAGCTCTGCTGCGATAC
Found at i:32915653 original size:16 final size:15
Alignment explanation
Indices: 32915613--32915654 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
32915603 AGATGATAAT
32915613 TATTAATATATAAATA
1 TATTAAT-TATAAATA
32915629 TATCT-ATTATAATATA
1 TAT-TAATTATAA-ATA
32915645 TATTAATTAT
1 TATTAATTAT
32915655 TATCAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 6 0.26
16 16 0.70
17 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTAATTATAAATA
Found at i:32916233 original size:20 final size:20
Alignment explanation
Indices: 32916205--32916243 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
32916195 AATTTTTCTC
32916205 CTAAATTTT-AATTTTATTAT
1 CTAAATTTTCAA-TTTATTAT
*
32916225 CTAATTTTTCAATTTATTA
1 CTAAATTTTCAATTTATTA
32916244 AATTATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (20 bp):
CTAAATTTTCAATTTATTAT
Found at i:32919338 original size:22 final size:22
Alignment explanation
Indices: 32919312--32919356 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
32919302 ATTATATGTA
*
32919312 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATACAATTTAATT
*
32919334 TTAATTTATATACAATTTAATT
1 TTAATTCATATACAATTTAATT
32919356 T
1 T
32919357 GGGTTGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (22 bp):
TTAATTCATATACAATTTAATT
Found at i:32930576 original size:23 final size:23
Alignment explanation
Indices: 32930545--32930595 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
32930535 ACATACTTCC
* *
32930545 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
*
32930568 TTACAGTAGTAATTTTTGGGATA
1 TTACAGTAGTAATTTTCGGGATA
32930591 TTACA
1 TTACA
32930596 CCATAGCTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:32931873 original size:53 final size:53
Alignment explanation
Indices: 32931807--32931921 Score: 149
Period size: 53 Copynumber: 2.2 Consensus size: 53
32931797 CGTGTGACTT
* * * *
32931807 GGCCGTGTAACCCAAGTCAAAGAGTTACAGGACATAGACACGGGCTGGGACAC
1 GGCCGTGTGACCCAAGCCAAAGAGTTACAGGACACAGACACAGGCTGGGACAC
** * *
32931860 GGCCGTGTGACCCAAGCCAAAGAGTTTTAGGGCACAGACACATGCTGGGACAC
1 GGCCGTGTGACCCAAGCCAAAGAGTTACAGGACACAGACACAGGCTGGGACAC
*
32931913 GGCTGTGTG
1 GGCCGTGTG
32931922 TCCCTGCTTC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.28, C:0.24, G:0.32, T:0.16
Consensus pattern (53 bp):
GGCCGTGTGACCCAAGCCAAAGAGTTACAGGACACAGACACAGGCTGGGACAC
Found at i:32936030 original size:8 final size:8
Alignment explanation
Indices: 32936017--32936042 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
32936007 AATTTCAATT
32936017 TTATTTAA
1 TTATTTAA
32936025 TTATTTAA
1 TTATTTAA
32936033 TTATTTAA
1 TTATTTAA
32936041 TT
1 TT
32936043 TATTGAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTATTTAA
Found at i:32943854 original size:23 final size:24
Alignment explanation
Indices: 32943801--32943854 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
32943791 TATCTTTGTT
** *
32943801 TTAATTATTTTACTATATTAATCC
1 TTAATTAAATTACTAAATTAATCC
*
32943825 -TATTTAAATTACTAAATTAA-CC
1 TTAATTAAATTACTAAATTAATCC
32943847 TTAATTAA
1 TTAATTAA
32943855 TAGCCTTGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (24 bp):
TTAATTAAATTACTAAATTAATCC
Found at i:32944102 original size:11 final size:11
Alignment explanation
Indices: 32944086--32944110 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32944076 TGACTTTGAG
32944086 TAATAATAAAA
1 TAATAATAAAA
32944097 TAATAATAAAA
1 TAATAATAAAA
32944108 TAA
1 TAA
32944111 ATTTTTTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:32946611 original size:26 final size:27
Alignment explanation
Indices: 32946577--32946638 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
32946567 AGGGGTAAAA
*
32946577 CGGTAATTTTACCC-CCAAGGGTATTT
1 CGGTCATTTTACCCTCCAAGGGTATTT
* * *
32946603 TGGTCATTTTACCCTTCGAGGGTATTT
1 CGGTCATTTTACCCTCCAAGGGTATTT
32946630 CGGTCATTT
1 CGGTCATTT
32946639 AACAACCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 12 0.40
27 18 0.60
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (27 bp):
CGGTCATTTTACCCTCCAAGGGTATTT
Found at i:32955045 original size:22 final size:22
Alignment explanation
Indices: 32955020--32955064 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
32955010 ATTATGATGA
32955020 TTGATAAGT-TGAGATTAATATT
1 TTGATAAGTATGAGATT-ATATT
* *
32955042 TTGATATGTATGCGATTATATT
1 TTGATAAGTATGAGATTATATT
32955064 T
1 T
32955065 GTGTTGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.49
Consensus pattern (22 bp):
TTGATAAGTATGAGATTATATT
Found at i:32958178 original size:99 final size:100
Alignment explanation
Indices: 32958055--32958253 Score: 330
Period size: 99 Copynumber: 2.0 Consensus size: 100
32958045 TATAAAATGC
* * * *
32958055 AACTTTGAACAATTTGGTGTTGAAAGCAAATTTTGATATTAAAAAGTGTTATGAAAACTAAAAGT
1 AACTTTGAACAATTTGGTGTTGAAAACAAATGTTAATATTAAAAAGTGTTATGAAAACTAAAACT
*
32958120 TAACTAAATAATTTAACTAA-AAAAATTGTTCCAA
66 TAACTAAATAATTTAACTAAGAAAAAATGTTCCAA
32958154 AACTTT-AAGCAATTTGGTGTTGAAAACAAATGTTAATATTAAAAAGTGTTATGAAAACTAAAAC
1 AACTTTGAA-CAATTTGGTGTTGAAAACAAATGTTAATATTAAAAAGTGTTATGAAAACTAAAAC
32958218 TTAACTAAATAATTTAACTAAGAAAAAATGTTCCAA
65 TTAACTAAATAATTTAACTAAGAAAAAATGTTCCAA
32958254 TGCATGATTT
Statistics
Matches: 93, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
98 2 0.02
99 78 0.84
100 13 0.14
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.32
Consensus pattern (100 bp):
AACTTTGAACAATTTGGTGTTGAAAACAAATGTTAATATTAAAAAGTGTTATGAAAACTAAAACT
TAACTAAATAATTTAACTAAGAAAAAATGTTCCAA
Found at i:32962080 original size:20 final size:20
Alignment explanation
Indices: 32962057--32962095 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
32962047 GTGTCCCTAT
32962057 TTGCAC-TACGGTGCCCCTGC
1 TTGCACATAC-GTGCCCCTGC
*
32962077 TTGCACATTCGTGCCCCTG
1 TTGCACATACGTGCCCCTG
32962096 TTCGCACTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.10, C:0.38, G:0.23, T:0.28
Consensus pattern (20 bp):
TTGCACATACGTGCCCCTGC
Found at i:32962743 original size:34 final size:34
Alignment explanation
Indices: 32962700--32962765 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
32962690 CTAAATAGAA
32962700 TTACTCATAGTTGAATAATTTTTTTTACAACTGG
1 TTACTCATAGTTGAATAATTTTTTTTACAACTGG
*
32962734 TTACTCATAGTTGATTAATTTTTTTTACAACT
1 TTACTCATAGTTGAATAATTTTTTTTACAACT
32962766 AGTGAGTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (34 bp):
TTACTCATAGTTGAATAATTTTTTTTACAACTGG
Found at i:32963611 original size:16 final size:16
Alignment explanation
Indices: 32963569--32963612 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
32963559 TGCTAAGGTG
32963569 AACTGATGAGCTAGCA
1 AACTGATGAGCTAGCA
* * *
32963585 AAATAATGAGCTTGCA
1 AACTGATGAGCTAGCA
*
32963601 AACTGACGAGCT
1 AACTGATGAGCT
32963613 CGCACAGCGA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (16 bp):
AACTGATGAGCTAGCA
Found at i:32966146 original size:20 final size:21
Alignment explanation
Indices: 32966107--32966149 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
32966097 CGATGCTTAC
*
32966107 TATTATTCGCACTTCAGTTCT
1 TATTATTCGCACTCCAGTTCT
*
32966128 TATTATT-GCACTCCGGTTCT
1 TATTATTCGCACTCCAGTTCT
32966148 TA
1 TA
32966150 ATGCTACTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.19, C:0.23, G:0.12, T:0.47
Consensus pattern (21 bp):
TATTATTCGCACTCCAGTTCT
Found at i:32966850 original size:12 final size:12
Alignment explanation
Indices: 32966833--32966860 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
32966823 CAGCAACACA
32966833 ACCAAGATGCTT
1 ACCAAGATGCTT
32966845 ACCAAGATGCTT
1 ACCAAGATGCTT
32966857 ACCA
1 ACCA
32966861 GGTATGGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (12 bp):
ACCAAGATGCTT
Found at i:32970972 original size:107 final size:108
Alignment explanation
Indices: 32970690--32971013 Score: 472
Period size: 107 Copynumber: 3.0 Consensus size: 108
32970680 GGAACTTATT
* *
32970690 AACAACATTGATGCAAAACTTAATTCAATGTAATTAAGGATGATGGTTCAAACTAACACA-AATG
1 AACAACATTGATGCAAAACTTAATTCAATATAATTAAGGATGATGGTTCAAACTAACA-AGAAAG
* *
32970754 AAAGATTCAAAAGTTATTTGCCCAGCTAGCTCTAGCATTTGGCA
65 AAAGATTCAAAAGTTATTTGCTCAGCTTGCTCTAGCATTTGGCA
* ** *
32970798 AGCAACATTGATGCAAAACTTAATTCAATATAATTAAGGATGACAGTTCAAACTAATAAGAAAGA
1 AACAACATTGATGCAAAACTTAATTCAATATAATTAAGGATGATGGTTCAAACTAACAAGAAAGA
* * *
32970863 AAGTTTCAAGAGTTATTTGCTCAGCTTGCCCTAGCATTTGG-A
66 AAGATTCAAAAGTTATTTGCTCAGCTTGCTCTAGCATTTGGCA
* * * * *
32970905 AACAAAATTGATGCAAATCTTAATTCAATATAATTATGGATGATGGTTCAAACTAACATGAACGA
1 AACAACATTGATGCAAAACTTAATTCAATATAATTAAGGATGATGGTTCAAACTAACAAGAAAGA
*
32970970 AAGCTTCAAAAGTTATTTGCTCAGCTTGCTCTAGCATTTGGCA
66 AAGATTCAAAAGTTATTTGCTCAGCTTGCTCTAGCATTTGGCA
32971013 A
1 A
32971014 TTTCTAATTT
Statistics
Matches: 191, Mismatches: 23, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
107 96 0.50
108 95 0.50
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (108 bp):
AACAACATTGATGCAAAACTTAATTCAATATAATTAAGGATGATGGTTCAAACTAACAAGAAAGA
AAGATTCAAAAGTTATTTGCTCAGCTTGCTCTAGCATTTGGCA
Found at i:32994287 original size:49 final size:44
Alignment explanation
Indices: 32994091--32994750 Score: 350
Period size: 44 Copynumber: 14.7 Consensus size: 44
32994081 TTTTAATCCA
* *
32994091 CTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
* * * * * * * *
32994135 CTCCATTGTAACTTCAGAGATATAAGATTGGTATCTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
* * * * *
32994179 CTCCACTGCAACTTCAGGAAAATAAGGTTTGTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
*
32994223 CTCCACTGCAGCTTCAGGGAGATAAGATTTGTAGCCCGTCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTA----G-CTTCAATCTG
*
32994272 CTCCACTGCAACTTCAGGGAGATGAAG-TTTG-A--TAT-GATCTG
1 CTCCACTGCAACTTCAGGGAGAT-AAGATTTGTAGCT-TCAATCTG
* * ** *
32994313 CTCTACTGCAACTTTAAAGAGATAAGATTTGTAATTTATAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-------TAGCTTCAATCTG
* * * * * * * * *
32994364 TTCCACTACAACTTCAGGGAAATACGATTCGCTATCTTCAGTTTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTG
* * *
32994409 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
* * * *
32994453 CCCCACTACAACTTCAAGGG-GATAAG-GTT-T-GCTAT-GATCTG
1 CTCCACTGCAACTTC-AGGGAGATAAGATTTGTAGCT-TCAATCTG
* * *
32994494 CTCTACTGCAACTTCAGAGAGATAAGATTTGCAATTTATAACTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-------TAGCTTCAATCTG
* * * * * *
32994545 TTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTG
* * * * * * * *
32994590 TTCCACTACAACCTCAGGGAGATAAAACTCGTAACTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
* * * * * * * * *
32994634 TTCCACTACAACTTTAAGGAGATAAGACTCGTAACTTCAACCTC
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
* * * ** * * * *
32994678 CCCCATTGCAACTTCAGGGGGATCTGAATTGTGGCTTTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
* *
32994722 CTCTACTGTAACTTCAGGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
32994751 CGTCATGATG
Statistics
Matches: 465, Mismatches: 118, Indels: 66
0.72 0.18 0.10
Matches are distributed among these distances:
40 6 0.01
41 53 0.11
42 5 0.01
43 2 0.00
44 221 0.48
45 73 0.16
48 2 0.00
49 36 0.08
50 6 0.01
51 61 0.13
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
Found at i:32994441 original size:96 final size:95
Alignment explanation
Indices: 32994092--32994623 Score: 295
Period size: 92 Copynumber: 5.8 Consensus size: 95
32994082 TTTAATCCAC
* * * * * * * * *
32994092 TCCACTGCAACTTCAGGGAGATAGGATTAG-TAGCTTCAATCTGCTCCATTGTAACTTCAGAGAT
1 TCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGAGAG
* * * *
32994156 ATAAGA-TTG----GTAT-CTTTAACCTGC
66 ATAAGACTTGTAATTTATACTTCAATCTGT
* * * * ** * * * *
32994180 TCCACTGCAACTTCAGGAAAATAAGGTTTG-TGGCTTTAATCTGCTCCACTGCAGCTTCAGGGAG
1 TCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGAGAG
* ***** *
32994244 ATAAGATTTGTAGCCCGT-CTTCAATCTGC
66 ATAAGACTTGTAATTTATACTTCAATCTGT
* * * * * * * *
32994273 TCCACTGCAACTTCAGGGAGATGAAG-TTTG--AT-ATGA-TCTGCTCTACTGCAACTTTAAAGA
1 TCCACTACAACTTCAGGGAAAT-AAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGAGA
* *
32994333 GATAAGATTTGTAATTTATAGCTTTAATCTGT
65 GATAAGACTTGTAATTTATA-CTTCAATCTGT
* * * *
32994365 TCCACTACAACTTCAGGGAAATACGATTCGCTATCTTCAGTTTACTCCACTGCAACTTCAGGGAG
1 TCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGAGAG
* *
32994430 ATAAGACTTG-----TA-ACTTCAACCTGC
66 ATAAGACTTGTAATTTATACTTCAATCTGT
* * * * * *
32994454 CCCACTACAACTTCAAGGG-GATAAGGTTTGCTA---TGA-TCTGCTCTACTGCAACTTCAGAGA
1 TCCACTACAACTTC-AGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGAGA
* *
32994514 GATAAGATTTGCAATTTATAACTTCAATCTGT
65 GATAAGACTTGTAATTTAT-ACTTCAATCTGT
* * * * * *
32994546 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTTAGTCTGTTCCACTACAACCTCAGGGAG
1 TCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGAGAG
* *
32994611 ATAAAACTCGTAA
66 ATAAGACTTGTAA
32994624 CTTCAACCTG
Statistics
Matches: 339, Mismatches: 79, Indels: 44
0.73 0.17 0.10
Matches are distributed among these distances:
85 30 0.09
86 2 0.01
88 58 0.17
89 34 0.10
90 40 0.12
91 10 0.03
92 65 0.19
93 34 0.10
94 5 0.01
95 4 0.01
96 57 0.17
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (95 bp):
TCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGAGAG
ATAAGACTTGTAATTTATACTTCAATCTGT
Found at i:32994467 original size:181 final size:181
Alignment explanation
Indices: 32994223--32994659 Score: 572
Period size: 181 Copynumber: 2.4 Consensus size: 181
32994213 CTTTAATCTG
* * * * *
32994223 CTCCACTGCAGCTTCAGGGAGATAAGATTTGTAGCCCGTCTTCAATCTGCTCCACTGCAACTTCA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTA-----ACTTCAACCTGCTCCACTACAACTTCA
* *
32994288 GGGAGATGAA-GTTTGATATGATCTGCTCTACTGCAACTTTAAAGAGATAAGATTTGTAATTTAT
61 GGGAGAT-AAGGTTTGATATGATCTGCTCTACTGCAACTTCAAAGAGATAAGATTTGCAATTTAT
* * * *
32994352 AGCTTTAATCTGTTCCACTACAACTTCAGGGAAATACGATTCGCTATCTTCAGTTTA
125 AACTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTA
*
32994409 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCCCCACTACAACTTCAAGGG-
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTACAACTTC-AGGGA
* *
32994473 GATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCAATTTATAACTT
65 GATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAAAGAGATAAGATTTGCAATTTATAACTT
* * *
32994538 CAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTTAGTCTG
130 CAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTA
* * * * * * * *
32994590 TTCCACTACAACCTCAGGGAGATAAAACTCGTAACTTCAACCTGTTCCACTACAACTTTAAGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTACAACTTCAGGGAG
32994655 ATAAG
66 ATAAG
32994660 ACTCGTAACT
Statistics
Matches: 222, Mismatches: 26, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
180 5 0.02
181 182 0.82
182 4 0.02
186 31 0.14
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (181 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTACAACTTCAGGGAG
ATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAAAGAGATAAGATTTGCAATTTATAACTTC
AATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTA
Found at i:32994646 original size:89 final size:89
Alignment explanation
Indices: 32994361--32994696 Score: 279
Period size: 89 Copynumber: 3.8 Consensus size: 89
32994351 TAGCTTTAAT
* * *
32994361 CTGTTCCACTACAACTTCAGGGAAATACGATTCGCTATCTTCAGTTTACTCCACTGCAACTTCAG
1 CTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAG
*
32994426 GGAGATAAGACTTGTAACTTCAAC
66 GGAGATAAAACTTGTAACTTCAAC
** * * * * *
32994450 CTGCCCCACTACAACTTCAAGGG-GATAAGGTTTGCTA---TGA-TCTGCTCTACTGCAACTTCA
1 CTGTTCCACTACAACTTC-AGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCA
* * * *
32994510 GAGAGATAAGATTTGCAATTTATAACTTCAAT
65 GGGAGAT-A-A-----AACTTGTAACTTCAAC
* * * * *
32994542 CTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTTAGTCTGTTCCACTACAACCTCAG
1 CTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAG
*
32994607 GGAGATAAAACTCGTAACTTCAAC
66 GGAGATAAAACTTGTAACTTCAAC
* * * * * ** * * *
32994631 CTGTTCCACTACAACTTTAAGGAGATAAGACTCG-TAACTTCAACCTCCCCCATTGCAACTTCAG
1 CTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAG
32994695 GG
66 GG
32994697 GGATCTGAAT
Statistics
Matches: 188, Mismatches: 46, Indels: 27
0.72 0.18 0.10
Matches are distributed among these distances:
85 23 0.12
86 3 0.02
87 1 0.01
88 22 0.12
89 67 0.36
90 4 0.02
91 4 0.02
92 38 0.20
94 1 0.01
95 3 0.02
96 22 0.12
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (89 bp):
CTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAG
GGAGATAAAACTTGTAACTTCAAC
Found at i:33000752 original size:27 final size:27
Alignment explanation
Indices: 33000722--33000780 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
33000712 AATTAATAAT
33000722 CAAAGACAAATGAAA-TAAAATAATATA
1 CAAAGACAAATGAAAGT-AAATAATATA
* * *
33000749 CAAAAACAATTTAAAGTAAATAATATA
1 CAAAGACAAATGAAAGTAAATAATATA
*
33000776 AAAAG
1 CAAAG
33000781 GTTTAAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.20
Consensus pattern (27 bp):
CAAAGACAAATGAAAGTAAATAATATA
Found at i:33000778 original size:24 final size:24
Alignment explanation
Indices: 33000734--33000799 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 24
33000724 AAGACAAATG
*
33000734 AAATAAAATAATATACAAAAACAATTTA
1 AAAT-AAATAATAT--AAAAA-GATTTA
* *
33000762 AAGTAAATAATATAAAAAGGTTTA
1 AAATAAATAATATAAAAAGATTTA
33000786 AAATAAATAATATA
1 AAATAAATAATATA
33000800 TGAAAAGAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 17 0.50
25 5 0.15
27 9 0.26
28 3 0.09
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (24 bp):
AAATAAATAATATAAAAAGATTTA
Found at i:33000925 original size:27 final size:27
Alignment explanation
Indices: 33000874--33000941 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
33000864 TTTTTTTAAC
* **
33000874 ATAAATAAAATAT-AAAACCGTTAAAA
1 ATAAATAATATATAAAAACAATTAAAA
33000900 ATAAATAATATATAAAAACAATTAAAA
1 ATAAATAATATATAAAAACAATTAAAA
* * *
33000927 AGAAAAAATAAATAA
1 ATAAATAATATATAA
33000942 CAAATTAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
26 12 0.34
27 23 0.66
ACGTcount: A:0.71, C:0.04, G:0.03, T:0.22
Consensus pattern (27 bp):
ATAAATAATATATAAAAACAATTAAAA
Found at i:33000926 original size:26 final size:26
Alignment explanation
Indices: 33000734--33000926 Score: 70
Period size: 26 Copynumber: 7.1 Consensus size: 26
33000724 AAGACAAATG
*
33000734 AAATAAAATAATATACAAAAACAATTTA
1 AAAT-AAATAATATATAAAAACAA-TTA
* ***
33000762 AAGTAAAT-A-ATATAAAAAGGTTTA
1 AAATAAATAATATATAAAAACAATTA
*
33000786 AAATAAATAATATATGAAAAGAACAAAAATTT
1 AAATAAATAATATAT--AAA-AAC---AATTA
* ***
33000818 AAATAAATAATACA-AAAAATTGTTCA
1 AAATAAATAATATATAAAAACAATT-A
* * ****
33000844 AAATAAACAATATGTGAAAATTTTTTTA
1 AAATAAATAATATAT-AAAA-ACAATTA
* * **
33000872 ACATAAATAAAATAT-AAAACCGTTAA
1 AAATAAATAATATATAAAAACAATT-A
33000898 AAATAAATAATATATAAAAACAATTA
1 AAATAAATAATATATAAAAACAATTA
33000924 AAA
1 AAA
33000927 AGAAAAAATA
Statistics
Matches: 119, Mismatches: 32, Indels: 30
0.66 0.18 0.17
Matches are distributed among these distances:
24 10 0.08
25 13 0.11
26 37 0.31
27 11 0.09
28 24 0.20
29 9 0.08
32 15 0.13
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (26 bp):
AAATAAATAATATATAAAAACAATTA
Found at i:33009532 original size:23 final size:22
Alignment explanation
Indices: 33009506--33009560 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
33009496 CCATTTCTTG
*
33009506 TTTAGTTT-TATTTCTAATTGTAA
1 TTTAGTTTCT-TTTC-AATTATAA
33009529 TTTATGTTTCTTTTCAATTATAA
1 TTTA-GTTTCTTTTCAATTATAA
33009552 TTCTAGTTT
1 TT-TAGTTT
33009561 AGTTTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
23 17 0.61
24 10 0.36
25 1 0.04
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.62
Consensus pattern (22 bp):
TTTAGTTTCTTTTCAATTATAA
Found at i:33013367 original size:67 final size:67
Alignment explanation
Indices: 33013281--33013415 Score: 252
Period size: 67 Copynumber: 2.0 Consensus size: 67
33013271 TCATTTGTTT
*
33013281 CTTGTTCTGAATGGAGGGAGATTGGCGAGGTTTTGAAGGTATTCGTCGCTTTCTCCAACCTGCAT
1 CTTGTTCTGAATGGAGGGAGATTGGCGAGGCTTTGAAGGTATTCGTCGCTTTCTCCAACCTGCAT
33013346 TG
66 TG
*
33013348 CTTGTTCTGAATGGGGGGAGATTGGCGAGGCTTTGAAGGTATTCGTCGCTTTCTCCAACCTGCAT
1 CTTGTTCTGAATGGAGGGAGATTGGCGAGGCTTTGAAGGTATTCGTCGCTTTCTCCAACCTGCAT
33013413 TG
66 TG
33013415 C
1 C
33013416 GTCTATTCTT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.17, C:0.19, G:0.30, T:0.33
Consensus pattern (67 bp):
CTTGTTCTGAATGGAGGGAGATTGGCGAGGCTTTGAAGGTATTCGTCGCTTTCTCCAACCTGCAT
TG
Found at i:33014025 original size:27 final size:27
Alignment explanation
Indices: 33013968--33014069 Score: 111
Period size: 27 Copynumber: 3.8 Consensus size: 27
33013958 AAAATCATTC
33013968 AAATACCCTCGAA-GGTAAAATTATCG
1 AAATACCCTCGAAGGGTAAAATTATCG
33013994 AAATACCCTCGAAGGGTAAAATTA-CTG
1 AAATACCCTCGAAGGGTAAAATTATC-G
* * *
33014021 GAATACTCTCGAAGGGTAAAATGATCG
1 AAATACCCTCGAAGGGTAAAATTATCG
* * *
33014048 CAATTCCC-CTGTAGGGTAAAAT
1 AAATACCCTC-GAAGGGTAAAAT
33014070 GACTGTAATG
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
26 15 0.23
27 49 0.75
28 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
AAATACCCTCGAAGGGTAAAATTATCG
Found at i:33014067 original size:54 final size:54
Alignment explanation
Indices: 33014006--33014260 Score: 280
Period size: 54 Copynumber: 4.7 Consensus size: 54
33013996 ATACCCTCGA
* * * * * *
33014006 AGGGTAAAATTACTGGAATA-CTCTCGAAGGGTAAAATGATCGCAATTCCCCTGT
1 AGGGTAAAATGACTGTAATACCCCT-GAAGGGTAAAATGATCGTAATGCCCCTAT
* * * *
33014060 AGGGTAAAATGACTGTAATGCCCCTGTAGGGTAAAATGACCGTAATGCCCCAAT
1 AGGGTAAAATGACTGTAATACCCCTGAAGGGTAAAATGATCGTAATGCCCCTAT
* *
33014114 AGGGTAAAATGACTGTAATGCCCCTGTAGGGTAAAATGATCGTAATGCCCCTAT
1 AGGGTAAAATGACTGTAATACCCCTGAAGGGTAAAATGATCGTAATGCCCCTAT
* * * * * * *
33014168 AGGGTAAAATGACCGTAATGCCCCAGTAGGGTAAAATGGTCGTAATACTCCTAT
1 AGGGTAAAATGACTGTAATACCCCTGAAGGGTAAAATGATCGTAATGCCCCTAT
* * *
33014222 AGGGTTAAATGA-TCGTAATGCCCCTGTAGGGTAAAATGA
1 AGGGTAAAATGACT-GTAATACCCCTGAAGGGTAAAATGA
33014261 CTATTTTGCC
Statistics
Matches: 178, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
54 175 0.98
55 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (54 bp):
AGGGTAAAATGACTGTAATACCCCTGAAGGGTAAAATGATCGTAATGCCCCTAT
Found at i:33014071 original size:27 final size:27
Alignment explanation
Indices: 33014033--33014260 Score: 307
Period size: 27 Copynumber: 8.4 Consensus size: 27
33014023 ATACTCTCGA
* *
33014033 AGGGTAAAATGATCGCAATTCCCCTGT
1 AGGGTAAAATGATCGTAATGCCCCTGT
33014060 AGGGTAAAATGA-CTGTAATGCCCCTGT
1 AGGGTAAAATGATC-GTAATGCCCCTGT
* **
33014087 AGGGTAAAATGACCGTAATGCCCCAAT
1 AGGGTAAAATGATCGTAATGCCCCTGT
33014114 AGGGTAAAATGA-CTGTAATGCCCCTGT
1 AGGGTAAAATGATC-GTAATGCCCCTGT
*
33014141 AGGGTAAAATGATCGTAATGCCCCTAT
1 AGGGTAAAATGATCGTAATGCCCCTGT
* *
33014168 AGGGTAAAATGACCGTAATGCCCCAGT
1 AGGGTAAAATGATCGTAATGCCCCTGT
* * * *
33014195 AGGGTAAAATGGTCGTAATACTCCTAT
1 AGGGTAAAATGATCGTAATGCCCCTGT
*
33014222 AGGGTTAAATGATCGTAATGCCCCTGT
1 AGGGTAAAATGATCGTAATGCCCCTGT
33014249 AGGGTAAAATGA
1 AGGGTAAAATGA
33014261 CTATTTTGCC
Statistics
Matches: 175, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
26 2 0.01
27 171 0.98
28 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (27 bp):
AGGGTAAAATGATCGTAATGCCCCTGT
Found at i:33014118 original size:81 final size:81
Alignment explanation
Indices: 33014033--33014261 Score: 345
Period size: 81 Copynumber: 2.8 Consensus size: 81
33014023 ATACTCTCGA
* *
33014033 AGGGTAAAATGATCGCAATTCCCCTGTAGGGTAAAATGA-CTGTAATGCCCCTGTAGGGTAAAAT
1 AGGGTAAAATGATCGTAATACCCCTGTAGGGTAAAATGATC-GTAATGCCCCTGTAGGGTAAAAT
33014097 GACCGTAATGCCCCAAT
65 GACCGTAATGCCCCAAT
* *
33014114 AGGGTAAAATGA-CTGTAATGCCCCTGTAGGGTAAAATGATCGTAATGCCCCTATAGGGTAAAAT
1 AGGGTAAAATGATC-GTAATACCCCTGTAGGGTAAAATGATCGTAATGCCCCTGTAGGGTAAAAT
*
33014178 GACCGTAATGCCCCAGT
65 GACCGTAATGCCCCAAT
* * * *
33014195 AGGGTAAAATGGTCGTAATACTCCTATAGGGTTAAATGATCGTAATGCCCCTGTAGGGTAAAATG
1 AGGGTAAAATGATCGTAATACCCCTGTAGGGTAAAATGATCGTAATGCCCCTGTAGGGTAAAATG
33014260 AC
66 AC
33014262 TATTTTGCCC
Statistics
Matches: 135, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
80 1 0.01
81 132 0.98
82 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (81 bp):
AGGGTAAAATGATCGTAATACCCCTGTAGGGTAAAATGATCGTAATGCCCCTGTAGGGTAAAATG
ACCGTAATGCCCCAAT
Found at i:33014382 original size:24 final size:24
Alignment explanation
Indices: 33014279--33014369 Score: 137
Period size: 24 Copynumber: 3.8 Consensus size: 24
33014269 CCCCTCGGGG
33014279 TTAAATGACTGATTTGTCTGTAAT
1 TTAAATGACTGATTTGTCTGTAAT
*
33014303 TTAAATGGCTGATTTGTCTGTAAT
1 TTAAATGACTGATTTGTCTGTAAT
* * **
33014327 TTAAATGACTGATTTATTTGTGGT
1 TTAAATGACTGATTTGTCTGTAAT
33014351 TTAAATGACTGATTTGTCT
1 TTAAATGACTGATTTGTCT
33014370 ATGATTTGTA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.26, C:0.08, G:0.19, T:0.47
Consensus pattern (24 bp):
TTAAATGACTGATTTGTCTGTAAT
Found at i:33014491 original size:27 final size:27
Alignment explanation
Indices: 33014453--33014517 Score: 91
Period size: 27 Copynumber: 2.4 Consensus size: 27
33014443 ATTGAGGAAG
33014453 TACTG-TACTGGTGGCTCT-GCCACA-A
1 TACTGTTACTGGTGGCT-TGGCCACATA
33014478 TCACTGTTACTGGTGGCTTGGCCACATA
1 T-ACTGTTACTGGTGGCTTGGCCACATA
33014506 TACTGTTACTGG
1 TACTGTTACTGG
33014518 CAGCTTTGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
25 1 0.03
26 5 0.14
27 28 0.78
28 2 0.06
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.32
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTGGCCACATA
Found at i:33014523 original size:27 final size:27
Alignment explanation
Indices: 33014471--33014523 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
33014461 TGGTGGCTCT
**
33014471 GCCACAATCACTGTTACTGGTGGCTTG
1 GCCACAATCACTGTTACTGGCAGCTTG
33014498 GCCACATAT-ACTGTTACTGGCAGCTT
1 GCCACA-ATCACTGTTACTGGCAGCTT
33014524 TGCTGCGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (27 bp):
GCCACAATCACTGTTACTGGCAGCTTG
Found at i:33014609 original size:32 final size:32
Alignment explanation
Indices: 33014564--33014731 Score: 196
Period size: 32 Copynumber: 5.3 Consensus size: 32
33014554 ATGATGCTAT
* *
33014564 TGATGGCTTTGTGCCGATCATATTACCATTAC
1 TGATGGCTTTGTGCCGATCATATTACTACTAC
*
33014596 TGATGG-TTGTGTGCCGATCATATTACTACTAT
1 TGATGGCTT-TGTGCCGATCATATTACTACTAC
* * * *
33014628 TGATGGCTTTGTACTGATCATACTACTATTAC
1 TGATGGCTTTGTGCCGATCATATTACTACTAC
* * *
33014660 TAATGGCTGTGTGCCGATCATATTATTACTAC
1 TGATGGCTTTGTGCCGATCATATTACTACTAC
* *
33014692 TGATGGCTTTGTGCCAATCATATTAATA-TAC
1 TGATGGCTTTGTGCCGATCATATTACTACTAC
*
33014723 TTATGGCTT
1 TGATGGCTT
33014732 GTAACCATTC
Statistics
Matches: 114, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
31 13 0.11
32 99 0.87
33 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (32 bp):
TGATGGCTTTGTGCCGATCATATTACTACTAC
Found at i:33014639 original size:64 final size:64
Alignment explanation
Indices: 33014560--33014716 Score: 233
Period size: 64 Copynumber: 2.5 Consensus size: 64
33014550 TGCTATGATG
* *
33014560 CTATTGATGGCTTTGTGCCGATCATATTACCATTACTGATGGTTGTGTGCCGATCATATTACTA
1 CTATTGATGGCTTTGTGCCGATCATATTACCATTACTAATGGCTGTGTGCCGATCATATTACTA
* * * * *
33014624 CTATTGATGGCTTTGTACTGATCATACTACTATTACTAATGGCTGTGTGCCGATCATATTATTA
1 CTATTGATGGCTTTGTGCCGATCATATTACCATTACTAATGGCTGTGTGCCGATCATATTACTA
* *
33014688 CTACTGATGGCTTTGTGCCAATCATATTA
1 CTATTGATGGCTTTGTGCCGATCATATTA
33014717 ATATACTTAT
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 81 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (64 bp):
CTATTGATGGCTTTGTGCCGATCATATTACCATTACTAATGGCTGTGTGCCGATCATATTACTA
Found at i:33034525 original size:18 final size:17
Alignment explanation
Indices: 33034502--33034540 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
33034492 ATATTTTTAT
33034502 ATTAATCAAATCATAATA
1 ATTAATCAAAT-ATAATA
**
33034520 ATTAATTGAATATAATA
1 ATTAATCAAATATAATA
33034537 ATTA
1 ATTA
33034541 TAATTACCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (17 bp):
ATTAATCAAATATAATA
Found at i:33034580 original size:40 final size:38
Alignment explanation
Indices: 33034536--33034636 Score: 116
Period size: 40 Copynumber: 2.6 Consensus size: 38
33034526 TGAATATAAT
*
33034536 AATTATAATTACCATAATTATAATAATGTTTGA-CCAAAA
1 AATTATAATTACCATAATTATAATAATATTTGATCC--AA
* *
33034575 CAATTATAATTA-CAGTAATTATAATAATATTTTATCCTA
1 -AATTATAATTACCA-TAATTATAATAATATTTGATCCAA
*
33034614 AATTATAATTACAATAATTATAA
1 AATTATAATTACCATAATTATAA
33034637 CAAGGATTTC
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
38 20 0.37
39 4 0.07
40 28 0.52
41 2 0.04
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.40
Consensus pattern (38 bp):
AATTATAATTACCATAATTATAATAATATTTGATCCAA
Found at i:33036293 original size:27 final size:25
Alignment explanation
Indices: 33036257--33036306 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
33036247 ATTTTTGATA
* *
33036257 ATTTTACCCTCGATAAAATTTTGACG
1 ATTTTACCCT-AATAAAAATTTGACG
33036283 ATTTTACCCCTAATAAAAATTTGA
1 ATTTTA-CCCTAATAAAAATTTGA
33036307 GAAATTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (25 bp):
ATTTTACCCTAATAAAAATTTGACG
Found at i:33036573 original size:9 final size:10
Alignment explanation
Indices: 33036545--33036582 Score: 55
Period size: 9 Copynumber: 4.1 Consensus size: 10
33036535 AATGTTTCTT
33036545 ATTTCTATT-
1 ATTTCTATTC
33036554 -TTTCTATTC
1 ATTTCTATTC
33036563 ATTTC-ATTC
1 ATTTCTATTC
33036572 ATTTCTATTC
1 ATTTCTATTC
33036582 A
1 A
33036583 AACACGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.31
9 9 0.35
10 9 0.35
ACGTcount: A:0.21, C:0.18, G:0.00, T:0.61
Consensus pattern (10 bp):
ATTTCTATTC
Found at i:33047824 original size:50 final size:50
Alignment explanation
Indices: 33047765--33047945 Score: 281
Period size: 50 Copynumber: 3.6 Consensus size: 50
33047755 GGGTAAAGAG
*
33047765 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGACACCGAGATGAGAC
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAC
*
33047815 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAC
** * * *
33047865 GTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG-AC
*
33047916 ATCCCATGTAAGACCATGTCTGGGACATGG
1 GTCCCATGTAAGACCATGTCTGGGACATGG
33047946 ATTTGGCATG
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 91 0.76
51 28 0.24
ACGTcount: A:0.25, C:0.24, G:0.30, T:0.20
Consensus pattern (50 bp):
GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAC
Found at i:33050848 original size:4 final size:4
Alignment explanation
Indices: 33050841--33050867 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
33050831 TTGAATGATG
33050841 AATA AATA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AAT
33050868 TTAATTTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:33052451 original size:258 final size:259
Alignment explanation
Indices: 33051983--33052503 Score: 1028
Period size: 258 Copynumber: 2.0 Consensus size: 259
33051973 TTTAATTAAG
33051983 TAATTTTTAGTAAAAATGCCTATTTAGGATTAAATTGTGAATTTCAAAAATGTAAGGGTCAAAAT
1 TAATTTTTAGTAAAAATGCCTATTTAGGATTAAATTGTGAATTTCAAAAATGTAAGGGTCAAAAT
33052048 GCAAAATAAATGAAAGGAATGGGCTGCTAGAGACCTTAGTGAAATTTTTCCAAGCTTGGGTATGG
66 GCAAAATAAATGAAAGGAATGGGCTGCTAGAGACCTTAGTGAAATTTTTCCAAGCTTGGGTATGG
33052113 TGAAATTTTGAATATTTTGTGTTTTGTGAAATAGAGACTAAATTGTGAAAAATGTGAAATGCTAG
131 TGAAATTTTGAATATTTTGTGTTTTGTGAAATAGAGACTAAATTGTGAAAAATGTGAAATGCTAG
33052178 GGCTAAAATGCAATTTGCCCATTTATGTGTTTTTGAATAAATTTGAATAAATATATTATTAAAC
196 GGCTAAAATGCAATTTGCCCATTTATGTGTTTTTGAATAAATTTGAATAAATATATTATTAAAC
33052242 TAATTTTTAG-AAAAATGCCTATTTAGGATTAAATTGTGAATTTCAAAAATGTAAGGGTCAAAAT
1 TAATTTTTAGTAAAAATGCCTATTTAGGATTAAATTGTGAATTTCAAAAATGTAAGGGTCAAAAT
33052306 GCAAAATAAATGAAAGGAATGGGCTGCTAGAGACCTTAGTGAAATTTTTCCAAGCTTGGGTATGG
66 GCAAAATAAATGAAAGGAATGGGCTGCTAGAGACCTTAGTGAAATTTTTCCAAGCTTGGGTATGG
33052371 TGAAATTTTGAATATTTTGTGTTTTGTGAAATAGAGACTAAATTGTGAAAAATGTGAAATGCTAG
131 TGAAATTTTGAATATTTTGTGTTTTGTGAAATAGAGACTAAATTGTGAAAAATGTGAAATGCTAG
33052436 GGCTAAAATGCAATTTGCCCATTTATGTGTTTTTGAATAAATTTGAATAAATATATTATTAAAC
196 GGCTAAAATGCAATTTGCCCATTTATGTGTTTTTGAATAAATTTGAATAAATATATTATTAAAC
33052500 -AATT
1 TAATT
33052504 CAAATTTGTA
Statistics
Matches: 262, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
257 4 0.02
258 248 0.95
259 10 0.04
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.36
Consensus pattern (259 bp):
TAATTTTTAGTAAAAATGCCTATTTAGGATTAAATTGTGAATTTCAAAAATGTAAGGGTCAAAAT
GCAAAATAAATGAAAGGAATGGGCTGCTAGAGACCTTAGTGAAATTTTTCCAAGCTTGGGTATGG
TGAAATTTTGAATATTTTGTGTTTTGTGAAATAGAGACTAAATTGTGAAAAATGTGAAATGCTAG
GGCTAAAATGCAATTTGCCCATTTATGTGTTTTTGAATAAATTTGAATAAATATATTATTAAAC
Found at i:33052903 original size:44 final size:43
Alignment explanation
Indices: 33052826--33052940 Score: 112
Period size: 44 Copynumber: 2.7 Consensus size: 43
33052816 CCCGATATGT
*
33052826 GATTTCGTGTAAGACTGCGTCTAGGACGTTGGCATCGATTTGA
1 GATTTCGTGTAAGACTCCGTCTAGGACGTTGGCATCGATTTGA
* *
33052869 GATTTACGTGTAAGAC-CCTGTCTGGGACAG-TGGCATCGATATT-T
1 GATTT-CGTGTAAGACTCC-GTCTAGGAC-GTTGGCATCGAT-TTGA
* *
33052913 GATTACATGTAAGAC-CACGTCTAGGACG
1 GATTTCGTGTAAGACTC-CGTCTAGGACG
33052941 ACGAGCTGTT
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
42 1 0.02
43 24 0.39
44 33 0.54
45 3 0.05
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
GATTTCGTGTAAGACTCCGTCTAGGACGTTGGCATCGATTTGA
Found at i:33058959 original size:25 final size:25
Alignment explanation
Indices: 33058931--33058983 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
33058921 TATAAGGGAG
*
33058931 AAAGCAAAACGAGGTAAGCTTATGT
1 AAAGCAAAACGAGGTAAGCTTACGT
**
33058956 AAAGCTTAACGAGGTAAGCTTACGT
1 AAAGCAAAACGAGGTAAGCTTACGT
33058981 AAA
1 AAA
33058984 ACTTAGTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (25 bp):
AAAGCAAAACGAGGTAAGCTTACGT
Found at i:33058988 original size:25 final size:25
Alignment explanation
Indices: 33058938--33058988 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
33058928 GAGAAAGCAA
* *
33058938 AACGAGGTAAGCTTATGTAAAGCTT
1 AACGAGGTAAGCTTACGTAAAACTT
33058963 AACGAGGTAAGCTTACGTAAAACTT
1 AACGAGGTAAGCTTACGTAAAACTT
33058988 A
1 A
33058989 GTAAGTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (25 bp):
AACGAGGTAAGCTTACGTAAAACTT
Found at i:33062528 original size:36 final size:36
Alignment explanation
Indices: 33062452--33062533 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
33062442 CTCTCTATTT
* * *
33062452 TGGTGTGTTTCGGATGGATGATGTCTTCTGAACATT
1 TGGTGTGTTTCAGATGGATGATGTCTTATGAACATC
*
33062488 TGGTGTGTTTCAGATGGACT-A-GCTCTTATGAGCATC
1 TGGTGTGTTTCAGATGGA-TGATG-TCTTATGAACATC
33062524 TGGTGTGTTT
1 TGGTGTGTTT
33062534 TGGTAGGATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
35 1 0.03
36 38 0.95
37 1 0.03
ACGTcount: A:0.16, C:0.12, G:0.30, T:0.41
Consensus pattern (36 bp):
TGGTGTGTTTCAGATGGATGATGTCTTATGAACATC
Found at i:33072483 original size:23 final size:23
Alignment explanation
Indices: 33072457--33072500 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
33072447 CAAGTAAAAT
33072457 AGATTTCAAAGTATATAAGCTAG
1 AGATTTCAAAGTATATAAGCTAG
*
33072480 AGATTTCAAAGTATGTAAGCT
1 AGATTTCAAAGTATATAAGCT
33072501 CTTCTATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (23 bp):
AGATTTCAAAGTATATAAGCTAG
Found at i:33077402 original size:12 final size:12
Alignment explanation
Indices: 33077385--33077417 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
33077375 CAGCCCGCCC
33077385 ATATTAATTTTT
1 ATATTAATTTTT
33077397 ATATT-ATTTTT
1 ATATTAATTTTT
33077408 ATA-TAATTTT
1 ATATTAATTTT
33077418 AAATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:33078882 original size:30 final size:30
Alignment explanation
Indices: 33078838--33078900 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
33078828 ACTTAACAAG
*
33078838 CAAATGCCTCTAAAATAATAACAAAAATAA
1 CAAATGCCTCTAAAATAAAAACAAAAATAA
* * * *
33078868 CAAATGTCTTTAAAATAAAAACAATATTAA
1 CAAATGCCTCTAAAATAAAAACAAAAATAA
33078898 CAA
1 CAA
33078901 TAAAATAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.59, C:0.14, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAAAAACAAAAATAA
Found at i:33078955 original size:22 final size:22
Alignment explanation
Indices: 33078930--33078972 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
33078920 TATTCAAACA
33078930 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
33078952 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
33078973 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:33078976 original size:11 final size:11
Alignment explanation
Indices: 33078937--33078977 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
33078927 ACAATAACAA
33078937 CAAAATAGTAG
1 CAAAATAGTAG
* *
33078948 CAACATAATAG
1 CAAAATAGTAG
*
33078959 TAAAATAGTAG
1 CAAAATAGTAG
33078970 CAAAATAG
1 CAAAATAG
33078978 GGAGAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:33081920 original size:21 final size:21
Alignment explanation
Indices: 33081895--33081960 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
33081885 AAGGTGCAAT
33081895 TGGTATATAAGTGGCCTTAAA
1 TGGTATATAAGTGGCCTTAAA
* * * *
33081916 TGGTA-AT--TTGACCAGTAAT
1 TGGTATATAAGTGGCC-TTAAA
33081935 TGGTATATAAGTGGCCTTAAA
1 TGGTATATAAGTGGCCTTAAA
33081956 TGGTA
1 TGGTA
33081961 ATTAGACCAG
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
18 4 0.12
19 8 0.24
20 4 0.12
21 13 0.39
22 4 0.12
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (21 bp):
TGGTATATAAGTGGCCTTAAA
Found at i:33081936 original size:40 final size:40
Alignment explanation
Indices: 33081892--33081974 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 40
33081882 CATAAGGTGC
*
33081892 AATTGGTATATAAGTGGCCTTAAATGGTAATTTGACCAGT
1 AATTGGTATATAAGTGGCCTTAAATGGTAATTAGACCAGT
33081932 AATTGGTATATAAGTGGCCTTAAATGGTAATTAGACCAGT
1 AATTGGTATATAAGTGGCCTTAAATGGTAATTAGACCAGT
33081972 AAT
1 AAT
33081975 ATTAATAGTG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.34
Consensus pattern (40 bp):
AATTGGTATATAAGTGGCCTTAAATGGTAATTAGACCAGT
Found at i:33082072 original size:15 final size:15
Alignment explanation
Indices: 33082048--33082082 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
33082038 TAAGTAATTT
* *
33082048 AATAATTAAAACCAA
1 AATAAGTAAAAACAA
33082063 AATAAGTAAAAACAA
1 AATAAGTAAAAACAA
33082078 AATAA
1 AATAA
33082083 TTATTCTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.71, C:0.09, G:0.03, T:0.17
Consensus pattern (15 bp):
AATAAGTAAAAACAA
Found at i:33084464 original size:44 final size:44
Alignment explanation
Indices: 33084396--33084483 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
33084386 TGGACGTGCA
*
33084396 TCCCTACTTCGAATGTCCACATGGCCTAGCCACATGGCCATGTG
1 TCCCTACTTCGAATATCCACATGGCCTAGCCACATGGCCATGTG
* *
33084440 TCCCTACTTCGAATATTCAGATGGCCTAGCCACATGGCCATGTG
1 TCCCTACTTCGAATATCCACATGGCCTAGCCACATGGCCATGTG
33084484 ACCCCTGCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (44 bp):
TCCCTACTTCGAATATCCACATGGCCTAGCCACATGGCCATGTG
Found at i:33085523 original size:21 final size:22
Alignment explanation
Indices: 33085497--33085538 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
33085487 GAAATTGTAT
33085497 TAAAAATAAAGAG-AATAAAAA
1 TAAAAATAAAGAGAAATAAAAA
*
33085518 TAAAAATAAAGGGAAATAAAA
1 TAAAAATAAAGAGAAATAAAA
33085539 TGGAAAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (22 bp):
TAAAAATAAAGAGAAATAAAAA
Found at i:33098988 original size:26 final size:29
Alignment explanation
Indices: 33098947--33098999 Score: 85
Period size: 26 Copynumber: 1.9 Consensus size: 29
33098937 TTGTTAAAAC
33098947 TCTTGTAAAAGAAAAA-TC-AAGAGAAAT
1 TCTTGTAAAAGAAAAACTCAAAGAGAAAT
33098974 TCTTG-AAAAGAAAAACTCAAAGAGAA
1 TCTTGTAAAAGAAAAACTCAAAGAGAA
33099000 TTTATGAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 10 0.42
27 7 0.29
28 7 0.29
ACGTcount: A:0.57, C:0.09, G:0.15, T:0.19
Consensus pattern (29 bp):
TCTTGTAAAAGAAAAACTCAAAGAGAAAT
Found at i:33099017 original size:20 final size:20
Alignment explanation
Indices: 33098987--33099024 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33098977 TGAAAAGAAA
33098987 AACTCAAAGAGAA-TTTATG
1 AACTCAAAGAGAAGTTTATG
33099006 AACTCAAAAGAGAAGTTTA
1 AACTC-AAAGAGAAGTTTA
33099025 ATAATAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.50, C:0.11, G:0.16, T:0.24
Consensus pattern (20 bp):
AACTCAAAGAGAAGTTTATG
Found at i:33099180 original size:8 final size:8
Alignment explanation
Indices: 33099139--33099163 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
33099129 TTGGAATAAG
33099139 AAATAATA
1 AAATAATA
33099147 AAATAATA
1 AAATAATA
33099155 AAATAATA
1 AAATAATA
33099163 A
1 A
33099164 GAGCTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:33105146 original size:20 final size:20
Alignment explanation
Indices: 33105123--33105187 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
33105113 AAGCTCAAAC
33105123 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGTAAGCTAAATT
*
33105143 GAGCTTAAA-CAAGCTAAATT
1 GAGC-TAAAGTAAGCTAAATT
* * * * *
33105163 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGTAAGCTAAATT
33105183 GAGCT
1 GAGCT
33105188 GGGAAAAACT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
19 2 0.06
20 29 0.83
21 4 0.11
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (20 bp):
GAGCTAAAGTAAGCTAAATT
Found at i:33106766 original size:17 final size:19
Alignment explanation
Indices: 33106736--33106773 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
33106726 TTTATTGTCT
33106736 AAATTAATATATTTA-ATG
1 AAATTAATATATTTAGATG
*
33106754 AAATTATTA-ATTTAGATG
1 AAATTAATATATTTAGATG
33106772 AA
1 AA
33106774 GATCGAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (19 bp):
AAATTAATATATTTAGATG
Found at i:33107215 original size:27 final size:26
Alignment explanation
Indices: 33107163--33107232 Score: 79
Period size: 27 Copynumber: 2.7 Consensus size: 26
33107153 CGTTTCGACC
*
33107163 CACAGCTCGTGTGAGCAGGCCCATTTT
1 CACAGCTCGTGTGAGCATGCCCA-TTT
* **
33107190 CACAGCTCGTGTGAGCATTCTTATTT
1 CACAGCTCGTGTGAGCATGCCCATTT
*
33107216 -AGAGCTCGTGTGAGCAT
1 CACAGCTCGTGTGAGCAT
33107233 ACATGTGCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
25 16 0.42
26 3 0.08
27 19 0.50
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.30
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCATGCCCATTT
Found at i:33112372 original size:37 final size:37
Alignment explanation
Indices: 33112331--33112425 Score: 181
Period size: 37 Copynumber: 2.6 Consensus size: 37
33112321 CATCTACTAT
33112331 CATGCCAAATTTATTGTAAATATAATCAACCTATATA
1 CATGCCAAATTTATTGTAAATATAATCAACCTATATA
33112368 CATGCCAAATTTATTGTAAATATAATCAACCTATATA
1 CATGCCAAATTTATTGTAAATATAATCAACCTATATA
*
33112405 CATGCCAAATTTATAGTAAAT
1 CATGCCAAATTTATTGTAAAT
33112426 GCCCTTACTG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (37 bp):
CATGCCAAATTTATTGTAAATATAATCAACCTATATA
Found at i:33113930 original size:30 final size:30
Alignment explanation
Indices: 33113896--33113952 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
33113886 ATTATTCACA
33113896 TTTTC-ATATATTTAATTTCCTTTTTTTTTC
1 TTTTCTATAT-TTTAATTTCCTTTTTTTTTC
* **
33113926 TTTTCTTTATTTTCTTTTCCTTTTTTT
1 TTTTCTATATTTTAATTTCCTTTTTTT
33113953 CCTTTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 20 0.87
31 3 0.13
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (30 bp):
TTTTCTATATTTTAATTTCCTTTTTTTTTC
Found at i:33113940 original size:14 final size:14
Alignment explanation
Indices: 33113921--33113962 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
33113911 TTTCCTTTTT
33113921 TTTTCTTTTCTTTA
1 TTTTCTTTTCTTTA
33113935 TTTTCTTTTCCTTT-
1 TTTTCTTTT-CTTTA
33113949 TTTTCCTTTT-TTTA
1 TTTT-CTTTTCTTTA
33113963 ATGGAAACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.12
14 13 0.52
15 9 0.36
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTCTTTTCTTTA
Found at i:33128088 original size:33 final size:34
Alignment explanation
Indices: 33128037--33128105 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 34
33128027 AAATTTAAAC
33128037 AAATTAATTACTAACACTTATTTAAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
33128071 AAATTAATT-CTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
33128104 AA
1 AA
33128106 TATAATAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 25 0.74
34 9 0.26
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.35
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACTA
Found at i:33137447 original size:22 final size:22
Alignment explanation
Indices: 33137419--33137462 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
33137409 TTTTGAACCA
33137419 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
33137441 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
33137463 AAATACCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:33159842 original size:19 final size:19
Alignment explanation
Indices: 33159812--33159849 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
33159802 TTACTAATTA
33159812 ATTCTTTATTTTTTATTTT
1 ATTCTTTATTTTTTATTTT
*
33159831 ATTCTTTATTTTTTGTTTT
1 ATTCTTTATTTTTTATTTT
33159850 TGATTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (19 bp):
ATTCTTTATTTTTTATTTT
Found at i:33161477 original size:34 final size:34
Alignment explanation
Indices: 33161421--33161486 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
33161411 TTAATTAATT
* *
33161421 AGCTTGACAATTGAAGTCCCCGAATAGTCATTGA
1 AGCTTGACAATTAAAGTCCCCGAACAGTCATTGA
* *
33161455 AGCTTGACACTTAAAGTTCCCGAACAGTCATT
1 AGCTTGACAATTAAAGTCCCCGAACAGTCATT
33161487 AGAGTGGACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (34 bp):
AGCTTGACAATTAAAGTCCCCGAACAGTCATTGA
Found at i:33164717 original size:13 final size:13
Alignment explanation
Indices: 33164699--33164725 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33164689 GATGTAAATG
33164699 AAAAGGAAAAGGA
1 AAAAGGAAAAGGA
33164712 AAAAGGAAAAGGA
1 AAAAGGAAAAGGA
33164725 A
1 A
33164726 TGGTTTCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (13 bp):
AAAAGGAAAAGGA
Found at i:33171725 original size:19 final size:21
Alignment explanation
Indices: 33171701--33171742 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
33171691 TTTAAAACTC
33171701 ATTTTC-AAAAAT-TAATTTA
1 ATTTTCTAAAAATATAATTTA
33171720 ATTTTCTAAAAATCATAATTTA
1 ATTTTCTAAAAAT-ATAATTTA
33171742 A
1 A
33171743 AACATTACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 6 0.30
22 8 0.40
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTTTCTAAAAATATAATTTA
Found at i:33172020 original size:26 final size:26
Alignment explanation
Indices: 33171991--33172137 Score: 181
Period size: 26 Copynumber: 5.7 Consensus size: 26
33171981 ACAGAATTTT
* *
33171991 CCACAAAATCATTCTTTCATATTACA
1 CCACAAAAGCTTTCTTTCATATTACA
** *
33172017 CCACAATGGCTTTCTTTCATATTACG
1 CCACAAAAGCTTTCTTTCATATTACA
33172043 CCACAAAAGCTTTCTTTCATATTACA
1 CCACAAAAGCTTTCTTTCATATTACA
*
33172069 CCAC-AAAGACTTT-TTTCATATTACT
1 CCACAAAAG-CTTTCTTTCATATTACA
* **
33172094 CCACAAAGGCTTTCTTTCATATTATG
1 CCACAAAAGCTTTCTTTCATATTACA
*
33172120 CCACAAAGGCTTTCTTTC
1 CCACAAAAGCTTTCTTTC
33172138 TAGACGTGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
25 23 0.22
26 83 0.78
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (26 bp):
CCACAAAAGCTTTCTTTCATATTACA
Found at i:33172081 original size:22 final size:22
Alignment explanation
Indices: 33172056--33172107 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 22
33172046 CAAAAGCTTT
33172056 CTTTCATATTACACCACAAAGA
1 CTTTCATATTACACCACAAAGA
* *
33172078 CTTTTTTCATATTACTCCACAAAGG
1 C---TTTCATATTACACCACAAAGA
33172103 CTTTC
1 CTTTC
33172108 TTTCATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 5 0.20
25 20 0.80
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.37
Consensus pattern (22 bp):
CTTTCATATTACACCACAAAGA
Found at i:33172106 original size:51 final size:52
Alignment explanation
Indices: 33171991--33172137 Score: 215
Period size: 51 Copynumber: 2.8 Consensus size: 52
33171981 ACAGAATTTT
* * *
33171991 CCACAAAATCATTCTTTCATATTACACCACAATGGCTTTCTTTCATATTACG
1 CCACAAAAGCTTTCTTTCATATTACACCACAAAGGCTTTCTTTCATATTACG
* *
33172043 CCACAAAAGCTTTCTTTCATATTACACCACAAAGACTTT-TTTCATATTACT
1 CCACAAAAGCTTTCTTTCATATTACACCACAAAGGCTTTCTTTCATATTACG
* **
33172094 CCACAAAGGCTTTCTTTCATATTATGCCACAAAGGCTTTCTTTC
1 CCACAAAAGCTTTCTTTCATATTACACCACAAAGGCTTTCTTTC
33172138 TAGACGTGTT
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
51 46 0.54
52 39 0.46
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (52 bp):
CCACAAAAGCTTTCTTTCATATTACACCACAAAGGCTTTCTTTCATATTACG
Found at i:33176577 original size:12 final size:12
Alignment explanation
Indices: 33176560--33176587 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
33176550 CCCCAAATGG
33176560 CACAGCTCTCCT
1 CACAGCTCTCCT
33176572 CACAGCTCTCCT
1 CACAGCTCTCCT
33176584 CACA
1 CACA
33176588 TAACAACTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.50, G:0.07, T:0.21
Consensus pattern (12 bp):
CACAGCTCTCCT
Found at i:33183445 original size:25 final size:24
Alignment explanation
Indices: 33183396--33183449 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
33183386 GTCATTAGGG
* * *
33183396 TTACCGATTCCAGCTCTTATGAGC
1 TTACCGATACCAACTCGTATGAGC
33183420 TTACCGATACTCAACTCGTATGAGC
1 TTACCGATAC-CAACTCGTATGAGC
33183445 TTACC
1 TTACC
33183450 ATTATTCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (24 bp):
TTACCGATACCAACTCGTATGAGC
Found at i:33183458 original size:25 final size:25
Alignment explanation
Indices: 33183413--33183492 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
33183403 TTCCAGCTCT
*
33183413 TATGAGCTTACCGA-TACTCAACTCG
1 TATGAGCTTACC-ATTATTCAACTCG
*
33183438 TATGAGCTTACCATTATTCAATTCAG
1 TATGAGCTTACCATTATTCAACTC-G
* * *
33183464 -AGGAGCTTATCATTATT--GCTCG
1 TATGAGCTTACCATTATTCAACTCG
33183486 TATGAGC
1 TATGAGC
33183493 ATACATGTAC
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
22 1 0.02
23 7 0.16
24 1 0.02
25 35 0.78
26 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (25 bp):
TATGAGCTTACCATTATTCAACTCG
Found at i:33194904 original size:19 final size:19
Alignment explanation
Indices: 33194875--33194917 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
33194865 CGTTATAGGC
33194875 CTCGT-TGGGCTGAAATGGG
1 CTCGTGTGGGCT-AAATGGG
*
33194894 -TCGTGTGGGCTCAATGGG
1 CTCGTGTGGGCTAAATGGG
33194912 CTCGTG
1 CTCGTG
33194918 GGCCTCACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.12, C:0.19, G:0.42, T:0.28
Consensus pattern (19 bp):
CTCGTGTGGGCTAAATGGG
Found at i:33195164 original size:27 final size:27
Alignment explanation
Indices: 33195128--33195387 Score: 394
Period size: 27 Copynumber: 9.6 Consensus size: 27
33195118 AAAGGTTGTT
33195128 AAATGACCGTAATACCCCTGTAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
33195155 AAATGACCGTAATACCCCTGTAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
33195182 AAATGACCGTAATACCCCTGTAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
* * *
33195209 AAATGACCATAATGCCCTTGTAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
* *
33195236 AAATTACCGTAATACCCCTATAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
*
33195263 AAATGACCGTAATACCCCGGTAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
* * *
33195290 AAATGATCATAATGCCCCTGTAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
* *
33195317 AAATGACCATAATACCCCTATAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
* * *
33195344 GAATGACCATAATGCCCCTGTAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
33195371 AAATGACCGTAATACCC
1 AAATGACCGTAATACCC
33195388 TCGAGGTCAA
Statistics
Matches: 209, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 209 1.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.23
Consensus pattern (27 bp):
AAATGACCGTAATACCCCTGTAGGGTA
Found at i:33195453 original size:24 final size:24
Alignment explanation
Indices: 33195397--33195478 Score: 96
Period size: 24 Copynumber: 3.5 Consensus size: 24
33195387 CTCGAGGTCA
* * * *
33195397 AATGATTGAATTGTCTGTG-GTTA
1 AATGACTGATTTGTCTGTGATTTG
33195420 AATGACTGATTTGTCTGTG-TTTGG
1 AATGACTGATTTGTCTGTGATTT-G
*
33195444 TATGACTGATTTGTCTGTGATTTG
1 AATGACTGATTTGTCTGTGATTTG
33195468 AATGACTGATT
1 AATGACTGATT
33195479 CTGAGCATGG
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
23 19 0.37
24 29 0.57
25 3 0.06
ACGTcount: A:0.22, C:0.07, G:0.26, T:0.45
Consensus pattern (24 bp):
AATGACTGATTTGTCTGTGATTTG
Found at i:33195590 original size:27 final size:26
Alignment explanation
Indices: 33195547--33195605 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 26
33195537 GGAAGTACGG
33195547 TACTGGTGGCTCTGCCACA-ATCACTA
1 TACTGGTGGCTCTGCCACATAT-ACTA
33195573 TTACTGGTGGCT-TGGCCACATATACTA
1 -TACTGGTGGCTCT-GCCACATATACTA
33195600 TACTGG
1 TACTGG
33195606 CAACTTTACT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
26 7 0.23
27 21 0.70
28 2 0.07
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (26 bp):
TACTGGTGGCTCTGCCACATATACTA
Found at i:33195690 original size:32 final size:32
Alignment explanation
Indices: 33195649--33195851 Score: 275
Period size: 32 Copynumber: 6.4 Consensus size: 32
33195639 GCTGCGATGC
* *
33195649 TACTGATGGCTTTGTGTCGGTCATATTACAGT
1 TACTGATGGCTTTGTGCCGATCATATTACAGT
*
33195681 TACTGATGGCTTTGTGCCGATCATATTACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACAGT
*
33195713 TACTGATGGTTTTGTGCCGATCATATTACCA-T
1 TACTGATGGCTTTGTGCCGATCATATTA-CAGT
* *
33195745 TATTGATGGCTTTGTGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACAGT
*
33195777 TACTGATGGCTTTGTGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACAGT
* * * *
33195809 TATTGATGGCTTTGTGCCAAACATATTACTG-
1 TACTGATGGCTTTGTGCCGATCATATTACAGT
*
33195840 TACTTATGGCTT
1 TACTGATGGCTT
33195852 GTAGCCATTC
Statistics
Matches: 154, Mismatches: 15, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
31 11 0.07
32 142 0.92
33 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.40
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACAGT
Found at i:33195868 original size:22 final size:21
Alignment explanation
Indices: 33195843--33195906 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 21
33195833 ATTACTGTAC
33195843 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTT-TAGCCATTCTGT
* *
33195865 TTATAGCTTATAGCTA-TCTTGT
1 TTATGGCTT-TAGCCATTC-TGT
*
33195887 TTACGGCTCTTAGCCATTCT
1 TTATGGCT-TTAGCCATTCT
33195907 AACTACTAGC
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
21 2 0.06
22 28 0.85
23 3 0.09
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.45
Consensus pattern (21 bp):
TTATGGCTTTAGCCATTCTGT
Found at i:33205857 original size:30 final size:30
Alignment explanation
Indices: 33205823--33205954 Score: 183
Period size: 30 Copynumber: 4.4 Consensus size: 30
33205813 CTATCGAATT
* * *
33205823 ATGAAAAGGGATGGTGACAACAATCAAACA
1 ATGAAAAGGGATGCTGACGACCATCAAACA
* * * *
33205853 ATGAAAAGGGATGGTGATGACCGTCGAACA
1 ATGAAAAGGGATGCTGACGACCATCAAACA
*
33205883 ATGAAAAGGGATGCTGACGACCATCGAACA
1 ATGAAAAGGGATGCTGACGACCATCAAACA
*
33205913 ATGAAAAGGGATGCTGACGACCATCAAACT
1 ATGAAAAGGGATGCTGACGACCATCAAACA
33205943 ATGAAAAGGGAT
1 ATGAAAAGGGAT
33205955 AGCTTCGGCT
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 92 1.00
ACGTcount: A:0.42, C:0.15, G:0.27, T:0.15
Consensus pattern (30 bp):
ATGAAAAGGGATGCTGACGACCATCAAACA
Found at i:33208833 original size:2 final size:2
Alignment explanation
Indices: 33208826--33208850 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33208816 CTAACTTAAG
33208826 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
33208851 CTCAAGATTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33209398 original size:3 final size:3
Alignment explanation
Indices: 33209390--33209432 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
33209380 TGTTGCTGAA
* * *
33209390 TAT TAT TAT TAT CAT TAT TAT TAC TAC TAT TAT TAT T-T TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
33209433 ATTACTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:33210580 original size:6 final size:6
Alignment explanation
Indices: 33210569--33210599 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
33210559 AGGTGAGTTT
*
33210569 CTCGAC CTCGAC CTCGAC CTTGAC CTCGAC C
1 CTCGAC CTCGAC CTCGAC CTCGAC CTCGAC C
33210600 CTTACCCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.48, G:0.16, T:0.19
Consensus pattern (6 bp):
CTCGAC
Found at i:33212405 original size:27 final size:27
Alignment explanation
Indices: 33212375--33212668 Score: 319
Period size: 27 Copynumber: 10.9 Consensus size: 27
33212365 TTTCATCTCT
**
33212375 TAGGGGTATAACAGTCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
**
33212402 TAGGGGTATTTTGGTCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
*
33212429 TAGGGGTATTTCAGTCATTTTACCTTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
* * * *
33212456 TAGGGGTATTCCAGTTATTTTGCACTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
* *
33212483 TAAGGGTATTTCGGTCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
* *
33212510 TATGGGTAATTC-GATCATTTTACCCTA
1 TAGGGGTATTTCAG-TCATTTTACCCTA
33212537 T-GGGGATATTTCAGTCATTTTACCCTA
1 TAGGGG-TATTTCAGTCATTTTACCCTA
* **
33212564 TGGGGGTATTTTGGTCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
* *
33212591 TGGGGGTATTTCGGTCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
*
33212618 T-GAGGGTATTTC-GATCATTTTACCTTA
1 TAG-GGGTATTTCAG-TCATTTTACCCTA
* *
33212645 T-GAGGGTATTTTAATCATTTTACC
1 TAG-GGGTATTTCAGTCATTTTACC
33212669 TATTTTAGGG
Statistics
Matches: 232, Mismatches: 28, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
26 6 0.03
27 221 0.95
28 5 0.02
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (27 bp):
TAGGGGTATTTCAGTCATTTTACCCTA
Found at i:33219701 original size:17 final size:17
Alignment explanation
Indices: 33219679--33219715 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
33219669 TTGAAAAACC
33219679 CTTCTTGAAATTTCAAA
1 CTTCTTGAAATTTCAAA
**
33219696 CTTCTTGCCATTTCAAA
1 CTTCTTGAAATTTCAAA
33219713 CTT
1 CTT
33219716 GTACAAAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.27, C:0.24, G:0.05, T:0.43
Consensus pattern (17 bp):
CTTCTTGAAATTTCAAA
Found at i:33220532 original size:22 final size:22
Alignment explanation
Indices: 33220507--33220553 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
33220497 CTAAGAGTCG
* * *
33220507 TAAACAGGATAGCTATAAGCTA
1 TAAACAGAATAGCTACAAGCCA
*
33220529 TAAACAGAATGGCTACAAGCCA
1 TAAACAGAATAGCTACAAGCCA
33220551 TAA
1 TAA
33220554 GTACAGTAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (22 bp):
TAAACAGAATAGCTACAAGCCA
Found at i:33220642 original size:26 final size:26
Alignment explanation
Indices: 33220594--33220643 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
33220584 AGTAGCATCG
33220594 CAGCAAAGCTGCCAGCAACAGTATCA
1 CAGCAAAGCTGCCAGCAACAGTATCA
* *
33220620 CAGCAAAGCTGCCAGTAATAGTAT
1 CAGCAAAGCTGCCAGCAACAGTAT
33220644 ATGTGGCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.38, C:0.26, G:0.20, T:0.16
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGCAACAGTATCA
Found at i:33220661 original size:27 final size:27
Alignment explanation
Indices: 33220631--33220694 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
33220621 AGCAAAGCTG
*
33220631 CCAGTAATAGT-ATATGTGGCCA-AGCCA
1 CCAGTAACAGTGAT-TGTGG-CAGAGCCA
33220658 CCAGTAACAGTGATTGTGGCAGAGCCA
1 CCAGTAACAGTGATTGTGGCAGAGCCA
33220685 CCAGT-ACAGT
1 CCAGTAACAGT
33220695 ACTTCCTCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
26 7 0.21
27 25 0.74
28 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTGATTGTGGCAGAGCCA
Found at i:33220844 original size:24 final size:24
Alignment explanation
Indices: 33220780--33220845 Score: 105
Period size: 24 Copynumber: 2.8 Consensus size: 24
33220770 CCATTCATAG
*
33220780 ACAAATCAATCATTTAAATCACAA
1 ACAAATCAATCATTTACATCACAA
* *
33220804 ACAAATCAGTCATTTACATCACGA
1 ACAAATCAATCATTTACATCACAA
33220828 ACAAATCAATCATTTACA
1 ACAAATCAATCATTTACA
33220846 CTCGAGGGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.48, C:0.23, G:0.03, T:0.26
Consensus pattern (24 bp):
ACAAATCAATCATTTACATCACAA
Found at i:33220919 original size:27 final size:27
Alignment explanation
Indices: 33220886--33221460 Score: 697
Period size: 27 Copynumber: 21.3 Consensus size: 27
33220876 AGGGGCATTA
*
33220886 CGGTCATTTAACCCTATGAGGGTATTT
1 CGGTCATTTTACCCTATGAGGGTATTT
* *
33220913 CGATCATTTTACCCTATGGGGGTATTT
1 CGGTCATTTTACCCTATGAGGGTATTT
* *
33220940 CGGTCATTTTACCCTATGGGGGTACTT
1 CGGTCATTTTACCCTATGAGGGTATTT
*
33220967 CAGTCATTTTACCCTATGAGGGTATTT
1 CGGTCATTTTACCCTATGAGGGTATTT
33220994 -GAGTCA-TTTAGCCCTATGAGGGTATTT
1 CG-GTCATTTTA-CCCTATGAGGGTATTT
* * *
33221021 CGATCATTTTACCTTATGGGGGTATTT
1 CGGTCATTTTACCCTATGAGGGTATTT
* *
33221048 -GGTTATTTTACCCTATGGGGGTATTT
1 CGGTCATTTTACCCTATGAGGGTATTT
33221074 CGGTCATTTTACCCTATGAGGGTATTT
1 CGGTCATTTTACCCTATGAGGGTATTT
* * * *
33221101 CGGTCATTCTATCTTATGGGGGTATTT
1 CGGTCATTTTACCCTATGAGGGTATTT
* * * * *
33221128 TGGTCATTTAAACTTATGGGGGTATTT
1 CGGTCATTTTACCCTATGAGGGTATTT
* *
33221155 TGGTCATTTTACCCTATGGGGGTATTT
1 CGGTCATTTTACCCTATGAGGGTATTT
* * * * *
33221182 TGATCATTCTACCTTATGAAGGTATTT
1 CGGTCATTTTACCCTATGAGGGTATTT
* *
33221209 CGGTCATTCTACCCTAAGAGGGTATTT
1 CGGTCATTTTACCCTATGAGGGTATTT
*
33221236 CGGTCATTCTACCCTATGAGGGTATTT
1 CGGTCATTTTACCCTATGAGGGTATTT
* * *
33221263 CAGTCATTCTACCCTATGAGAGTATTT
1 CGGTCATTTTACCCTATGAGGGTATTT
*
33221290 CGGTCATTTAACCCTATGAGGGTATTT
1 CGGTCATTTTACCCTATGAGGGTATTT
* *
33221317 CGATCATTCTACCCTATGAGGGTATTT
1 CGGTCATTTTACCCTATGAGGGTATTT
* *
33221344 CGATCATTTTACCCTATGGGGGTATTT
1 CGGTCATTTTACCCTATGAGGGTATTT
* * *
33221371 CGATCATTCTACCCTATGAGAGTATTT
1 CGGTCATTTTACCCTATGAGGGTATTT
* * *
33221398 CAGTCATTCTACCCTATGTGGGTATTT
1 CGGTCATTTTACCCTATGAGGGTATTT
* *
33221425 CGGTAATTTTACCCTTTGAGGGTATTT
1 CGGTCATTTTACCCTATGAGGGTATTT
33221452 CGGTCATTT
1 CGGTCATTT
33221461 AAAAACCTTT
Statistics
Matches: 480, Mismatches: 63, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
26 27 0.06
27 448 0.93
28 5 0.01
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (27 bp):
CGGTCATTTTACCCTATGAGGGTATTT
Found at i:33223456 original size:13 final size:13
Alignment explanation
Indices: 33223438--33223513 Score: 98
Period size: 13 Copynumber: 5.8 Consensus size: 13
33223428 AGTTCTTCAT
33223438 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
33223451 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
* *
33223464 TGCTGTAGAAAAG
1 TGCTTTTGAAAAG
* *
33223477 TGCTGTAGAAAAG
1 TGCTTTTGAAAAG
*
33223490 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
33223503 TGCTTTTGAAA
1 TGCTTTTGAAA
33223514 GGTTTGGTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 55 1.00
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:33226507 original size:19 final size:19
Alignment explanation
Indices: 33226465--33226509 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
33226455 ATATCTGTCA
*
33226465 ATTTCATTATTTAAATTAT
1 ATTTTATTATTTAAATTAT
* *
33226484 GTTTTATTATTTAAATTTT
1 ATTTTATTATTTAAATTAT
33226503 ATTTTAT
1 ATTTTAT
33226510 CCATATTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTTATTATTTAAATTAT
Found at i:33229615 original size:13 final size:13
Alignment explanation
Indices: 33229597--33229656 Score: 86
Period size: 13 Copynumber: 4.6 Consensus size: 13
33229587 TTAACAATAT
33229597 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
33229610 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
33229623 TTTTGAAAAGTG-
1 TTTTGAAAAGTGC
* *
33229635 TTGTGGAAAAGTAC
1 TT-TTGAAAAGTGC
33229649 TTTTGAAA
1 TTTTGAAA
33229657 TGTTTGGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
12 2 0.05
13 38 0.90
14 2 0.05
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.38
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:33230569 original size:15 final size:15
Alignment explanation
Indices: 33230551--33230599 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
33230541 AATCATTATT
33230551 AATAAAATTTATTCA
1 AATAAAATTTATTCA
33230566 AATAAAA--TATT-A
1 AATAAAATTTATTCA
* *
33230578 TATAAGATTTTATTCA
1 AATAA-AATTTATTCA
33230594 AATAAA
1 AATAAA
33230600 TATATATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
12 5 0.19
13 5 0.19
15 12 0.44
16 5 0.19
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (15 bp):
AATAAAATTTATTCA
Done.