Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 192 of 284
Found at i:64818667 original size:43 final size:44
Alignment explanation
Indices: 64818558--64818672 Score: 119
Period size: 43 Copynumber: 2.6 Consensus size: 44
64818548 AACCACTAAG
* * * *
64818558 CTTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGTTTATAGA
1 CTTTAAACCCCTAAGCAGTAGGGTAACAAGCTCAAATTTATAAA
*** *
64818602 -TATTATTGCCCTAAGCAATAGGGTAACAAGC-CAAATTT-TCAAA
1 CT-TTAAACCCCTAAGCAGTAGGGTAACAAGCTCAAATTTAT-AAA
64818645 CTTTAAACCCCTAAGCAGTAGGGTAACA
1 CTTTAAACCCCTAAGCAGTAGGGTAACA
64818673 GGTTGAGTTT
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
42 1 0.02
43 30 0.53
44 26 0.46
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (44 bp):
CTTTAAACCCCTAAGCAGTAGGGTAACAAGCTCAAATTTATAAA
Found at i:64818704 original size:42 final size:44
Alignment explanation
Indices: 64818647--64818764 Score: 125
Period size: 44 Copynumber: 2.7 Consensus size: 44
64818637 TTTTCAAACT
* * *
64818647 TTAAACCCCTAAGCAGTAGGGTAACAGGTTGA-GTTTAC-AG-A
1 TTAAACCCCTAAGCAGTAGGGTAACAGGTTGATGATGACAAGCC
* * * **
64818688 TCTAAACCCCTAAGCAGTAAGGAAACAGATCAATGATGACAAGCC
1 T-TAAACCCCTAAGCAGTAGGGTAACAGGTTGATGATGACAAGCC
*
64818733 TTAACCCCCTAAGCAGTAGGGTAACAGGTTGA
1 TTAAACCCCTAAGCAGTAGGGTAACAGGTTGA
64818765 AAATCAAATA
Statistics
Matches: 59, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
41 1 0.02
42 26 0.44
43 4 0.07
44 27 0.46
45 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (44 bp):
TTAAACCCCTAAGCAGTAGGGTAACAGGTTGATGATGACAAGCC
Found at i:64818875 original size:42 final size:42
Alignment explanation
Indices: 64818807--64818934 Score: 204
Period size: 42 Copynumber: 3.1 Consensus size: 42
64818797 GAGAAGCTAA
*
64818807 AAGCCACAACAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
1 AAGCTACAACAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
* * *
64818849 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGG-ATTAAGCG
1 AAGCTACAACAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
*
64818890 AAGCTACAACAGATCTCCTTGAAGTTTCAGTGGAATTGATTG
1 AAGCTACAACAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
64818932 AAG
1 AAG
64818935 TCACGTGTCT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 38 0.49
42 39 0.51
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (42 bp):
AAGCTACAACAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
Found at i:64818904 original size:41 final size:41
Alignment explanation
Indices: 64818807--64818923 Score: 189
Period size: 41 Copynumber: 2.8 Consensus size: 41
64818797 GAGAAGCTAA
* * *
64818807 AAGCCACAACAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
1 AAGCTACAACAGATCTCCTTGAAGTTTCAGTGG-ATTAAGCG
*
64818849 AAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGATTAAGCG
1 AAGCTACAACAGATCTCCTTGAAGTTTCAGTGGATTAAGCG
64818890 AAGCTACAACAGATCTCCTTGAAGTTTCAGTGGA
1 AAGCTACAACAGATCTCCTTGAAGTTTCAGTGGA
64818924 ATTGATTGAA
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
41 39 0.56
42 31 0.44
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (41 bp):
AAGCTACAACAGATCTCCTTGAAGTTTCAGTGGATTAAGCG
Found at i:64820399 original size:20 final size:22
Alignment explanation
Indices: 64820360--64820400 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
64820350 TAATATTACA
*
64820360 TATATATATTTTATAGTTGTTT
1 TATATATATTATATAGTTGTTT
64820382 TATATATATTAT-TA-TTGTT
1 TATATATATTATATAGTTGTT
64820401 CCTAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (22 bp):
TATATATATTATATAGTTGTTT
Found at i:64831563 original size:573 final size:571
Alignment explanation
Indices: 64830413--64831554 Score: 2207
Period size: 573 Copynumber: 2.0 Consensus size: 571
64830403 GAGAACTAGA
64830413 ACTCAAGTTCTGTCTTGCCTTACCCCCAGGCCCCAATAGTTGCTTCTAGTTTTTTTTCCAACAAG
1 ACTCAAGTTCTGTCTTGCCTTACCCCCAGGCCCCAATAGTTGCTTCTAGTTTTTTTTCCAACAAG
64830478 AAAATAAAAAAATCCTGATCTAAACAAAGGCTTAAATTCCTACTTAGGAAGTTGGTAGACTATGA
66 AAAATAAAAAAATCCTGATCTAAACAAAGGCTTAAATTCCTACTTAGGAAGTTGGTAGACTATGA
64830543 CAATGTTTCTGCCTAAAATATCAGAGCGAGGTCATTACCTATAGGCAAGTGAAGATTTAGTAAAA
131 CAATGTTTCTGCCTAAAATATCAGAGCGAGGTCATTACCTATAGGCAAGTGAAGATTTAGTAAAA
64830608 TGATGTCCTTTTGTCAGTGATGGATACCACACGTAAAAATGCCATTATTGATAAGGATTATAATA
196 TGATGTCCTTTTGTCAGTGATGGATACCACACGTAAAAATGCCATTATTGATAAGGATTATAATA
64830673 ACCTGGAACAATAAGTAAACAAAGTAAAGCTTGACTGCCAGTTAAATAAAATTAGAAAAAGAAAT
261 ACCTGGAACAATAAGTAAACAAAGTAAAGCTTGACTGCCAGTTAAATAAAATTAGAAAAAGAAAT
64830738 TGGGTGGGTTGTGTTGTGTTGGGCCAAGAATGGCTCGCTTTTGGTAATTAGGGTTGGTTCTAGTC
326 TGGGTGGGTTGTGTTGTGTTGGGCCAAGAATGGCTCGCTTTTGGTAATTAGGGTTGGTTCTAGTC
64830803 GAATGATATTGCCCATATTTTGTGCTGGGTCAGGGGCCTAGCCAAACGTGAAAGATGTTAGTATC
391 GAATGATATTGCCCATATTTTGTGCTGGGTCAGGGGCCTAGCCAAACGTGAAAGATGTTAGTATC
*
64830868 CTGTCTAGGCTCGACTTGTGAGCAGGCCTACCTATGACCAAACTATTACTTAGGTTGTAACTTCT
456 CTGTCTAGGCTCGACTTGTGAGCAGGCCTACCTATGACCAAACTATTACTTAGGTTATAACTTCT
*
64830933 ACTTGACTTCCATCCCCCCCCCCAAAATTACTTTCAATAATCTCCGTCTCTCT
521 ACTTGACTTCCAT--CCCCCCCCAAAATTACTTTCAATAACCTCCGTCTCTCT
64830986 ACTCAAGTTCTGTCTTGCCTTACCCCCAGGCCCCAATAGTTGCTTCTAGTTTTTTTTCCAACAAG
1 ACTCAAGTTCTGTCTTGCCTTACCCCCAGGCCCCAATAGTTGCTTCTAGTTTTTTTTCCAACAAG
64831051 AAAATAAAAAAATCCTGATCTAAACAAAGGCTTAAATTCCTACTTAGGAAGTTGGTAGACTATGA
66 AAAATAAAAAAATCCTGATCTAAACAAAGGCTTAAATTCCTACTTAGGAAGTTGGTAGACTATGA
64831116 CAATGTTTCTGCCTAAAATATCAGAGCGAGGTCATTACCTATAGGCAAGTGAAGATTTAGTAAAA
131 CAATGTTTCTGCCTAAAATATCAGAGCGAGGTCATTACCTATAGGCAAGTGAAGATTTAGTAAAA
64831181 TGATGTCCTTTTGTCAGTGATGGATACCACACGTAAAAATGCCATTATTGATAAGGATTATAATA
196 TGATGTCCTTTTGTCAGTGATGGATACCACACGTAAAAATGCCATTATTGATAAGGATTATAATA
64831246 ACCTGGAACAATAAGTAAACAAAGTAAAGCTTGACTGCCAGTTAAATAAAATTAGAAAAAGAAAT
261 ACCTGGAACAATAAGTAAACAAAGTAAAGCTTGACTGCCAGTTAAATAAAATTAGAAAAAGAAAT
64831311 TGGGTGGGTTGTGTTGTGTTGGGCCAAGAATGGCTCGCTTTTGGTAATTAGGGTTGGTTCTAGTC
326 TGGGTGGGTTGTGTTGTGTTGGGCCAAGAATGGCTCGCTTTTGGTAATTAGGGTTGGTTCTAGTC
*
64831376 GAATGATATTGCCCATATTTTGTGCTGGGTCAGGGGCCTAGCCAAACGTGAAAGGTGTTAGTATC
391 GAATGATATTGCCCATATTTTGTGCTGGGTCAGGGGCCTAGCCAAACGTGAAAGATGTTAGTATC
64831441 CTGTCTAGGCTCGACTTGTGAGCAGGCCTACCTATGACCAAACTATTACTTAGGTTATAACTTCT
456 CTGTCTAGGCTCGACTTGTGAGCAGGCCTACCTATGACCAAACTATTACTTAGGTTATAACTTCT
**
64831506 ACTTGACTTCCAT-CCCCCCC-AAATTACTTTTGATAACCTCCGTCTCTCT
521 ACTTGACTTCCATCCCCCCCCAAAATTACTTTCAATAACCTCCGTCTCTCT
64831555 CACTACTCAT
Statistics
Matches: 564, Mismatches: 5, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
569 26 0.05
570 7 0.01
573 531 0.94
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (571 bp):
ACTCAAGTTCTGTCTTGCCTTACCCCCAGGCCCCAATAGTTGCTTCTAGTTTTTTTTCCAACAAG
AAAATAAAAAAATCCTGATCTAAACAAAGGCTTAAATTCCTACTTAGGAAGTTGGTAGACTATGA
CAATGTTTCTGCCTAAAATATCAGAGCGAGGTCATTACCTATAGGCAAGTGAAGATTTAGTAAAA
TGATGTCCTTTTGTCAGTGATGGATACCACACGTAAAAATGCCATTATTGATAAGGATTATAATA
ACCTGGAACAATAAGTAAACAAAGTAAAGCTTGACTGCCAGTTAAATAAAATTAGAAAAAGAAAT
TGGGTGGGTTGTGTTGTGTTGGGCCAAGAATGGCTCGCTTTTGGTAATTAGGGTTGGTTCTAGTC
GAATGATATTGCCCATATTTTGTGCTGGGTCAGGGGCCTAGCCAAACGTGAAAGATGTTAGTATC
CTGTCTAGGCTCGACTTGTGAGCAGGCCTACCTATGACCAAACTATTACTTAGGTTATAACTTCT
ACTTGACTTCCATCCCCCCCCAAAATTACTTTCAATAACCTCCGTCTCTCT
Found at i:64832192 original size:3 final size:3
Alignment explanation
Indices: 64832184--64832219 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
64832174 TAAGAAGGTT
64832184 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
64832220 ACAATGTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:64841575 original size:3 final size:3
Alignment explanation
Indices: 64841567--64841602 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
64841557 TAAGAAGGTT
64841567 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
64841603 ACAATGTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:64851105 original size:15 final size:15
Alignment explanation
Indices: 64851087--64851122 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
64851077 AGATTCTTTA
64851087 TTTATTACTTCTATG
1 TTTATTACTTCTATG
*
64851102 TTTATTACTTTTATG
1 TTTATTACTTCTATG
64851117 TTTATT
1 TTTATT
64851123 TATCTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.19, C:0.08, G:0.06, T:0.67
Consensus pattern (15 bp):
TTTATTACTTCTATG
Found at i:64852186 original size:131 final size:131
Alignment explanation
Indices: 64851942--64852430 Score: 651
Period size: 131 Copynumber: 3.7 Consensus size: 131
64851932 TAGAAAACAC
* * *
64851942 GAGTGAAATT-TCAAAGGAATATTTGATTATTTTGAACAAACGGGAAATCGAAACCCAGCACGAT
1 GAGTGAAATTCT-AAAGGAATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAGCACGAT
* * * * *
64852006 AGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTCGCTTTAAAGAGTTTTTAAAGAC
65 AGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTAAAGAGTTTTTAAAGAC
64852071 AT
130 AT
** * * *
64852073 GAGCAAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAATCCAGCACGATA
1 GAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAGCACGATA
* * * *
64852138 GGGCACGACTCCCCGAATTGTCAAACATCGAACATTTCCTTCGTTTTAAAGAGTTTTTAGAAAAC
66 GGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTAAAGAGTTTTTA-AAGAC
64852203 AT
130 AT
* * * * * *
64852205 GAATGAAATTCTAAATGAATATTAGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTA
1 GAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAGCACGATA
* * * * *
64852270 GGGCACGATTCCGCGAATTGCCAAATATCGAACATCACCTTCGTTTTAAATAATTTTTAAAGACA
66 GGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTAAAGAGTTTTTAAAGACA
64852335 T
131 T
* * *
64852336 GAGTGAAATTCCATAGGAATATTCGATTGTTTTGAACAAAC-AGGAAATCGCAACCCAGCACGAT
1 GAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGA-GAAATCGCAACCCAGCACGAT
64852400 AGGGCACGATT-CCCGAATTGCCAAACATCGA
65 AGGGCACGATTCCCCGAATTGCCAAACATCGA
64852431 GTATCGCCTT
Statistics
Matches: 310, Mismatches: 45, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
130 19 0.06
131 177 0.57
132 114 0.37
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (131 bp):
GAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAGCACGATA
GGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTAAAGAGTTTTTAAAGACA
T
Found at i:64852398 original size:263 final size:262
Alignment explanation
Indices: 64851931--64852430 Score: 698
Period size: 263 Copynumber: 1.9 Consensus size: 262
64851921 TTGCCTCGCC
* * *
64851931 TTAGAAAACACGAGTGAAATTTCAAAGGAATATTTGATTATTTTGAACAAACGGGAAATCGAAAC
1 TTAGAAAACACGAATGAAATTTCAAAGGAATATTAGATTATTTTGAACAAACGAGAAATCGAAAC
* * * ** *
64851996 CCAGCACGATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTCGCTTTAAAGAGT
66 CCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATCACCTTCGCTTTAAAGAAT
* * *
64852061 TTTTAAAGACATGAGCAAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAA
131 TTTTAAAGACATGAGCAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATCGCAA
* *
64852126 TCCAGCACGATAGGGCACGACTCCCCGAATTGTCAAACATCGAACATTTCCTTCGTTTTAAAGAG
196 CCCAGCACGATAGGGCACGA-TCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAGAG
64852191 TTT
260 TTT
* * * * *
64852194 TTAGAAAACATGAATGAAA-TTCTAAATGAATATTAGATTATTTTGAGCAAACGAGAAATTGCAA
1 TTAGAAAACACGAATGAAATTTC-AAAGGAATATTAGATTATTTTGAACAAACGAGAAATCGAAA
* * * * *
64852258 CCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCACCTTCGTTTTAAATAA
65 CCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATCACCTTCGCTTTAAAGAA
** * *
64852323 TTTTTAAAGACATGAGTGAAATTCCATAGGAATATTCGATTGTTTTGAACAAAC-AGGAAATCGC
130 TTTTTAAAGACATGAGCAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGA-GAAATCGC
*
64852387 AACCCAGCACGATAGGGCACGATTCCCGAATTGCCAAACATCGA
194 AACCCAGCACGATAGGGCACGATCCCCGAATTGCCAAACATCGA
64852431 GTATCGCCTT
Statistics
Matches: 206, Mismatches: 29, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
262 24 0.12
263 182 0.88
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (262 bp):
TTAGAAAACACGAATGAAATTTCAAAGGAATATTAGATTATTTTGAACAAACGAGAAATCGAAAC
CCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATCACCTTCGCTTTAAAGAAT
TTTTAAAGACATGAGCAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATCGCAA
CCCAGCACGATAGGGCACGATCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAGAGT
TT
Found at i:64862288 original size:5 final size:5
Alignment explanation
Indices: 64862275--64862345 Score: 133
Period size: 5 Copynumber: 14.2 Consensus size: 5
64862265 TGCTATTTTA
*
64862275 AATAA AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC
1 AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC
64862325 AATAC AATAC AATAC AATAC A
1 AATAC AATAC AATAC AATAC A
64862346 CATTGTATCA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 65 1.00
ACGTcount: A:0.62, C:0.18, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAC
Found at i:64862444 original size:22 final size:25
Alignment explanation
Indices: 64862418--64862472 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
64862408 TTTATAAATT
64862418 TAATTTAAAAG-ATA-TAAT-ACAA
1 TAATTTAAAAGTATATTAATAACAA
*
64862440 TAATTT-CAAGTATATTTAATAACAA
1 TAATTTAAAAGTATA-TTAATAACAA
64862465 TAATTTAA
1 TAATTTAA
64862473 TCATAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.12
22 9 0.35
24 4 0.15
25 10 0.38
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (25 bp):
TAATTTAAAAGTATATTAATAACAA
Found at i:64868890 original size:7 final size:7
Alignment explanation
Indices: 64868878--64868909 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
64868868 AAATAAATGG
64868878 TTTTAAA
1 TTTTAAA
64868885 TTTTAAA
1 TTTTAAA
64868892 TTTTAAA
1 TTTTAAA
64868899 TTTTAAA
1 TTTTAAA
64868906 TTTT
1 TTTT
64868910 TTAATAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTTTAAA
Found at i:64881005 original size:4 final size:4
Alignment explanation
Indices: 64880996--64881030 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
64880986 AAGAAGATAA
64880996 AAAT AAAT AAAT AAAT AAAT AAAT -AA- AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
64881031 TATATAGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 4 0.14
4 25 0.86
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:64883759 original size:17 final size:19
Alignment explanation
Indices: 64883732--64883767 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
64883722 GGTTCACTCG
64883732 TGTGTGCCCACAC-GCCCA
1 TGTGTGCCCACACGGCCCA
64883750 TGTG-GCCCACACGGCCCA
1 TGTGTGCCCACACGGCCCA
64883768 ATTGGTCGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.17, C:0.44, G:0.25, T:0.14
Consensus pattern (19 bp):
TGTGTGCCCACACGGCCCA
Found at i:64895163 original size:25 final size:25
Alignment explanation
Indices: 64895128--64895186 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
64895118 ACAGTTCTCT
**
64895128 TGAGCTTCCCGATATTTGGCTTGCAA
1 TGAGCTTCCCGATATACGGCTTG-AA
64895154 -GAGCTTCCCGATATACGGCTTGAA
1 TGAGCTTCCCGATATACGGCTTGAA
64895178 TGAGCTTCC
1 TGAGCTTCC
64895187 TGTTTACATG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 2 0.07
25 28 0.93
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (25 bp):
TGAGCTTCCCGATATACGGCTTGAA
Found at i:64903496 original size:56 final size:56
Alignment explanation
Indices: 64903377--64903496 Score: 123
Period size: 56 Copynumber: 2.1 Consensus size: 56
64903367 GCTCAAATTG
* * * *
64903377 TTCACACGGCCTAGTACACGGGCATGTAGTTTGGCCGTATGACCTAAGTCAATATA
1 TTCACACGGCCTAGCACACGGACATGTAGCTTGGCCGTATGACCCAAGTCAATATA
* * * * * * * * *
64903433 CTAACACGGCCTAGCACACGGACGTGTGGCTTGGCCTTTTGTCCCAAGTTAGTATA
1 TTCACACGGCCTAGCACACGGACATGTAGCTTGGCCGTATGACCCAAGTCAATATA
64903489 TTCACACG
1 TTCACACG
64903497 AGCATAGACA
Statistics
Matches: 49, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (56 bp):
TTCACACGGCCTAGCACACGGACATGTAGCTTGGCCGTATGACCCAAGTCAATATA
Found at i:64906375 original size:88 final size:88
Alignment explanation
Indices: 64906226--64906499 Score: 530
Period size: 88 Copynumber: 3.1 Consensus size: 88
64906216 ATGTTATAAA
64906226 TACATGAAATGGTTACATGATTGCAAAAGTCATTAAATTGTAAATTCTGTTGGAATAATGAAAAT
1 TACATGAAATGGTTACATGATTGCAAAAGTCATTAAATTGTAAATTCTGTTGGAATAATGAAAAT
64906291 CGATAGATACATGTGATTTCCTG
66 CGATAGATACATGTGATTTCCTG
64906314 TACATGAAATGGTTACATGATTGCAAAAGTCATTAAATTGTAAATTCTGTTGGAATAATGAAAAT
1 TACATGAAATGGTTACATGATTGCAAAAGTCATTAAATTGTAAATTCTGTTGGAATAATGAAAAT
64906379 CGATAGATACATGTGATTTCCTG
66 CGATAGATACATGTGATTTCCTG
*
64906402 TACATGAAATGGTTACAGGATTGCAAAAGTCATTAAATTGTAAATTCTGTTGGAATAATGAAAAT
1 TACATGAAATGGTTACATGATTGCAAAAGTCATTAAATTGTAAATTCTGTTGGAATAATGAAAAT
*
64906467 CGATAGATACATGTGATTTCCTA
66 CGATAGATACATGTGATTTCCTG
64906490 TACATGAAAT
1 TACATGAAAT
64906500 ATGATTCTAC
Statistics
Matches: 184, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 184 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (88 bp):
TACATGAAATGGTTACATGATTGCAAAAGTCATTAAATTGTAAATTCTGTTGGAATAATGAAAAT
CGATAGATACATGTGATTTCCTG
Found at i:64907450 original size:53 final size:53
Alignment explanation
Indices: 64907389--64907493 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 53
64907379 TTTGGTATAA
64907389 TGGCATGTATAGGTAACTTGGCCTTTGATGGCATATGAATGTAGTTTGTAAAT
1 TGGCATGTATAGGTAACTTGGCCTTTGATGGCATATGAATGTAGTTTGTAAAT
*
64907442 TGGCATGTATAGGTAACTTGGCCTTTGATGGCATATGAATGTGGTTTGTAAA
1 TGGCATGTATAGGTAACTTGGCCTTTGATGGCATATGAATGTAGTTTGTAAA
64907494 CTAGCTATTA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.26, C:0.10, G:0.28, T:0.37
Consensus pattern (53 bp):
TGGCATGTATAGGTAACTTGGCCTTTGATGGCATATGAATGTAGTTTGTAAAT
Found at i:64910180 original size:20 final size:20
Alignment explanation
Indices: 64910129--64910182 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
64910119 GAAAACATAT
*
64910129 AAAAAATCATAAAATTATTA
1 AAAAAATCATAAAATTATGA
*
64910149 AAAATTAT-ATAAAATTATGA
1 AAAA-AATCATAAAATTATGA
64910169 AAAAAATCATAAAA
1 AAAAAATCATAAAA
64910183 ACATGAACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 2 0.07
20 25 0.86
21 2 0.07
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (20 bp):
AAAAAATCATAAAATTATGA
Found at i:64910188 original size:20 final size:20
Alignment explanation
Indices: 64910120--64910189 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
64910110 AACTTTTATG
64910120 AAAACAT-ATAAAAAATCATA
1 AAAACATGA-AAAAAATCATA
** * *
64910140 AAATTATTAAAAATTAT-ATA
1 AAAACATGAAAAA-AATCATA
**
64910160 AAATTATGAAAAAAATCATA
1 AAAACATGAAAAAAATCATA
64910180 AAAACATGAA
1 AAAACATGAA
64910190 CTGGACCAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
19 2 0.05
20 35 0.88
21 3 0.08
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.26
Consensus pattern (20 bp):
AAAACATGAAAAAAATCATA
Found at i:64910803 original size:21 final size:21
Alignment explanation
Indices: 64910779--64910825 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
64910769 TTTGTATACA
64910779 TTTTAATAAAATTTTA-AATAT
1 TTTTAAT-AAATTTTATAATAT
* * *
64910800 TTTTTATTAATTTTATAATTT
1 TTTTAATAAATTTTATAATAT
64910821 TTTTA
1 TTTTA
64910826 TAATTTGTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTAATAAATTTTATAATAT
Found at i:64910811 original size:20 final size:19
Alignment explanation
Indices: 64910788--64910876 Score: 69
Period size: 20 Copynumber: 4.5 Consensus size: 19
64910778 ATTTTAATAA
64910788 AATTTTA-AATATTTTTTATT
1 AATTTTATAAT-TTTTTTA-T
64910808 AATTTTATAATTTTTTTAT
1 AATTTTATAATTTTTTTAT
*
64910827 AATTTGT-TAAATTTTGTTAT
1 AATTT-TAT-AATTTTTTTAT
*
64910847 -ATTTAATTAGA-TTTTTTAT
1 AATTTTA-TA-ATTTTTTTAT
64910866 AATATTTATAA
1 AAT-TTTATAA
64910877 GTTTATATTA
Statistics
Matches: 57, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
19 20 0.35
20 31 0.54
21 6 0.11
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
AATTTTATAATTTTTTTAT
Found at i:64910822 original size:19 final size:19
Alignment explanation
Indices: 64910788--64910892 Score: 58
Period size: 19 Copynumber: 5.4 Consensus size: 19
64910778 ATTTTAATAA
*
64910788 AATTTTAAATATTTTTTATT
1 AATTTTATA-ATTTTTTATT
64910808 AATTTTATAATTTTTT-TAT
1 AATTTTATAATTTTTTAT-T
64910827 AATTTGT-TAAATTTTGTTA-T
1 AATTT-TAT-AATTTT-TTATT
*
64910847 -ATTTAATTAGATTTTTTA-T
1 AATTTTA-TA-ATTTTTTATT
* *
64910866 AATATTTATAAGTTTATATT
1 AAT-TTTATAATTTTTTATT
*
64910886 ACTTTTA
1 AATTTTA
64910893 ATAAATTCTA
Statistics
Matches: 68, Mismatches: 6, Indels: 23
0.70 0.06 0.24
Matches are distributed among these distances:
18 1 0.01
19 33 0.49
20 29 0.43
21 5 0.07
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (19 bp):
AATTTTATAATTTTTTATT
Found at i:64911810 original size:113 final size:113
Alignment explanation
Indices: 64911612--64911836 Score: 387
Period size: 113 Copynumber: 2.0 Consensus size: 113
64911602 TAACATCACA
* * * * *
64911612 ATCAATCATTACAAGTATTGACCAACCTAAACGATCCTACTCACTCATGGTTTACATTGGTGGGA
1 ATCAATCATTACAAGTACTGACCAACCTAAACGATCCTACCCACTCATGGTTTACACTAGTGGAA
64911677 GCTAAGGACGATATTGAAGAAGGGTTTTGCTCACCTTAATCCAATCTG
66 GCTAAGGACGATATTGAAGAAGGGTTTTGCTCACCTTAATCCAATCTG
* *
64911725 ATCAATCATTACAAGTACTGACCAACTTAAACGATCTTACCCACTCATGGTTTACACTAGTGGAA
1 ATCAATCATTACAAGTACTGACCAACCTAAACGATCCTACCCACTCATGGTTTACACTAGTGGAA
64911790 GCTAAGGACGATATTGAAGAAGGGTTTTGCTCACCTTAATCCAATCT
66 GCTAAGGACGATATTGAAGAAGGGTTTTGCTCACCTTAATCCAATCT
64911837 AATTTTTATA
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
113 105 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (113 bp):
ATCAATCATTACAAGTACTGACCAACCTAAACGATCCTACCCACTCATGGTTTACACTAGTGGAA
GCTAAGGACGATATTGAAGAAGGGTTTTGCTCACCTTAATCCAATCTG
Found at i:64917438 original size:16 final size:16
Alignment explanation
Indices: 64917417--64917451 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
64917407 TAAAACTATT
64917417 AATACATATAGATAAC
1 AATACATATAGATAAC
64917433 AATACATATAGATAAC
1 AATACATATAGATAAC
64917449 AAT
1 AAT
64917452 CATCACATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (16 bp):
AATACATATAGATAAC
Found at i:64919776 original size:6 final size:6
Alignment explanation
Indices: 64919765--64919789 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
64919755 TATTGTTGAT
64919765 AATGGG AATGGG AATGGG AATGGG A
1 AATGGG AATGGG AATGGG AATGGG A
64919790 GGAGGGAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.48, T:0.16
Consensus pattern (6 bp):
AATGGG
Found at i:64919994 original size:30 final size:29
Alignment explanation
Indices: 64919954--64920049 Score: 138
Period size: 30 Copynumber: 3.2 Consensus size: 29
64919944 TGTATTTAAA
*
64919954 ATTTTAAAAATAAAAAAATACATGTAGTGT
1 ATTTT-AAAATAAAAAAATATATGTAGTGT
*
64919984 ATTTTCAAAATAAAAATATATATGTAGTGT
1 ATTTT-AAAATAAAAAAATATATGTAGTGT
*
64920014 ATTCTAGAAATAAAAAAATATATGTAGTGT
1 ATTTTA-AAATAAAAAAATATATGTAGTGT
64920044 ATTTTA
1 ATTTTA
64920050 TTAAATGAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
29 1 0.02
30 58 0.98
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (29 bp):
ATTTTAAAATAAAAAAATATATGTAGTGT
Found at i:64920245 original size:21 final size:21
Alignment explanation
Indices: 64920221--64920273 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
64920211 CATTGTTTCT
*
64920221 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
64920242 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
64920263 AATCTCACCGC
1 AATCTCACCGC
64920274 CACTGCTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:64924570 original size:35 final size:35
Alignment explanation
Indices: 64924520--64924589 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
64924510 AAAAAAGTCG
*
64924520 GGACCTGGGAAATCTAGGGTTATTTGCTATGATGA
1 GGACCAGGGAAATCTAGGGTTATTTGCTATGATGA
*
64924555 GGACCAGGGAGATCTAGGGTTATTTGCTATGATGA
1 GGACCAGGGAAATCTAGGGTTATTTGCTATGATGA
64924590 TACAAGTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.26, C:0.11, G:0.33, T:0.30
Consensus pattern (35 bp):
GGACCAGGGAAATCTAGGGTTATTTGCTATGATGA
Found at i:64925947 original size:20 final size:22
Alignment explanation
Indices: 64925922--64925963 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
64925912 TATTTTATTA
64925922 AGTGAAAAT-AATAT-TCAATT
1 AGTGAAAATAAATATATCAATT
*
64925942 AGTGAAATTAAATATATCAATT
1 AGTGAAAATAAATATATCAATT
64925964 TAATAAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 5 0.26
22 6 0.32
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.36
Consensus pattern (22 bp):
AGTGAAAATAAATATATCAATT
Found at i:64926204 original size:15 final size:15
Alignment explanation
Indices: 64926184--64926213 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
64926174 CAAAGTTTGC
64926184 ACTTTATGCAATTTA
1 ACTTTATGCAATTTA
64926199 ACTTTATGCAATTTA
1 ACTTTATGCAATTTA
64926214 GAGTTTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (15 bp):
ACTTTATGCAATTTA
Found at i:64926329 original size:13 final size:13
Alignment explanation
Indices: 64926307--64926337 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
64926297 TCCTAAACAG
64926307 TTTG-ATTATCAA
1 TTTGAATTATCAA
64926319 TTTGAATTATCAA
1 TTTGAATTATCAA
64926332 TTTGAA
1 TTTGAA
64926338 AGTAAGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (13 bp):
TTTGAATTATCAA
Found at i:64932818 original size:37 final size:37
Alignment explanation
Indices: 64932762--64933079 Score: 278
Period size: 37 Copynumber: 8.5 Consensus size: 37
64932752 GAAAAATGGA
* * *
64932762 ATACTGAATGAGCTTAAACGAGCAATGTCTACTGATT
1 ATACTGAATGTGCTCAAACGAGCAATATCTACTGATT
* *
64932799 GTACTGAATGTGTTCAAACGAGCAATATCTACTGAATT
1 ATACTGAATGTGCTCAAACGAGCAATATCTACTG-ATT
* * * *
64932837 -TACTGAATGTGCTCAAAAGAGAAATGTCTATTGATT
1 ATACTGAATGTGCTCAAACGAGCAATATCTACTGATT
* *
64932873 ATACTGAAAGTTGCTCAAACGAGCAATATCCACTGATT
1 ATACTGAATG-TGCTCAAACGAGCAATATCTACTGATT
* * * *
64932911 ATACTGAATGGGCTCAAATGAGCAATCTCTACTGAAT
1 ATACTGAATGTGCTCAAACGAGCAATATCTACTGATT
** ** *
64932948 ATACTGAACATGCTCAAAATAGCAATGTCTACTGATT
1 ATACTGAATGTGCTCAAACGAGCAATATCTACTGATT
* ** * * *
64932985 ATACTGAAAGTTGCTCAAATAAGCGATATCCACTGGTT
1 ATACTGAATG-TGCTCAAACGAGCAATATCTACTGATT
* * * * * *
64933023 CTGCTGAATGGGTTCAAACGAGCGATATCCACTGATT
1 ATACTGAATGTGCTCAAACGAGCAATATCTACTGATT
* *
64933060 GTACGGAATGCATGCTCAAA
1 ATACTGAATG--TGCTCAAA
64933080 TGAGTATTAT
Statistics
Matches: 225, Mismatches: 50, Indels: 10
0.79 0.18 0.04
Matches are distributed among these distances:
36 3 0.01
37 154 0.68
38 62 0.28
39 6 0.03
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (37 bp):
ATACTGAATGTGCTCAAACGAGCAATATCTACTGATT
Found at i:64932975 original size:112 final size:112
Alignment explanation
Indices: 64932777--64933057 Score: 373
Period size: 112 Copynumber: 2.5 Consensus size: 112
64932767 GAATGAGCTT
* * * * *
64932777 AAACGAGCAATGTCTACTGATTGTACTGAATGTGTTCAAACGAGCAATATCTACTGAATTTACTG
1 AAACGAGCAATATCCACTGATTATACTGAATGGGTTCAAACGAGCAATATCTACTGAATATACTG
** *
64932842 AATGTGCTCAAAAGAGAAATGTCTATTGATTATACTGAAAGTTGCTC
66 AACATGCTCAAAAGAGAAATGTCTACTGATTATACTGAAAGTTGCTC
* * *
64932889 AAACGAGCAATATCCACTGATTATACTGAATGGGCTCAAATGAGCAATCTCTACTGAATATACTG
1 AAACGAGCAATATCCACTGATTATACTGAATGGGTTCAAACGAGCAATATCTACTGAATATACTG
* *
64932954 AACATGCTCAAAATAGCAATGTCTACTGATTATACTGAAAGTTGCTC
66 AACATGCTCAAAAGAGAAATGTCTACTGATTATACTGAAAGTTGCTC
** * * * * * *
64933001 AAATAAGCGATATCCACTGGTTCTGCTGAATGGGTTCAAACGAGCGATATCCACTGA
1 AAACGAGCAATATCCACTGATTATACTGAATGGGTTCAAACGAGCAATATCTACTGA
64933058 TTGTACGGAA
Statistics
Matches: 145, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
112 145 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (112 bp):
AAACGAGCAATATCCACTGATTATACTGAATGGGTTCAAACGAGCAATATCTACTGAATATACTG
AACATGCTCAAAAGAGAAATGTCTACTGATTATACTGAAAGTTGCTC
Found at i:64934170 original size:54 final size:54
Alignment explanation
Indices: 64934058--64934170 Score: 120
Period size: 54 Copynumber: 2.1 Consensus size: 54
64934048 GTGCAGTTTT
** * * *
64934058 TACACGGGCTAACACATGGCCTACGACACGACTGTGTGAGGGTATTTCAAATGT
1 TACACGGGCTAACACACAGCCTACGACACGACTGTGTGAGAGTATTTCAAAAGG
* * * * *
64934112 TACACGGGCTAGCACACAGCCTGCGACATGACTGTGTG-GAATTGTTTCAAAAGG
1 TACACGGGCTAACACACAGCCTACGACACGACTGTGTGAG-AGTATTTCAAAAGG
64934166 TACAC
1 TACAC
64934171 AGTCAGCCAC
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
53 1 0.02
54 47 0.98
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (54 bp):
TACACGGGCTAACACACAGCCTACGACACGACTGTGTGAGAGTATTTCAAAAGG
Found at i:64941226 original size:16 final size:16
Alignment explanation
Indices: 64941207--64941276 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
64941197 TTTGGTTCGC
* *
64941207 TGTATTGGATTAGAGC
1 TGTAATGGATTAGAGG
*
64941223 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
64941239 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
*
64941255 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
64941271 TGTAAT
1 TGTAAT
64941277 AGCAAATCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.30, C:0.01, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:64941360 original size:39 final size:43
Alignment explanation
Indices: 64941255--64941364 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
64941245 GGATTAGAGG
64941255 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
64941300 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
64941340 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
64941365 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:64941527 original size:16 final size:16
Alignment explanation
Indices: 64941490--64941531 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
64941480 TTAATCATAT
*
64941490 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
64941506 TT-AAATATATTATAA
1 TTAAAATATATTATAA
64941521 TTAAAATATAT
1 TTAAAATATAT
64941532 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:64941538 original size:14 final size:15
Alignment explanation
Indices: 64941499--64941540 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
64941489 TTTAAACATA
*
64941499 ATTATTATTAAATAT
1 ATTATAATTAAATAT
64941514 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
64941528 A-TATAATTTAATA
1 ATTATAATTAAATA
64941541 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:64941590 original size:61 final size:61
Alignment explanation
Indices: 64941525--64941712 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
64941515 TTATAATTAA
*
64941525 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * *
64941586 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTATTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
*
64941645 AATATATAATTTAATAATATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
64941706 AATATAT
1 AATATAT
64941713 GACTGTTATT
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 29 0.30
60 25 0.26
61 37 0.38
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:64941637 original size:15 final size:15
Alignment explanation
Indices: 64941609--64941667 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
64941599 ATAAAATATA
64941609 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
64941624 TATTAAATATATTAT
1 AATTAAATATATTAT
64941639 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
64941652 AATTTAATAATATTAT
1 AATTAAAT-ATATTAT
64941668 TAATAATCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 9 0.24
14 6 0.16
15 19 0.51
16 3 0.08
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:64941637 original size:120 final size:120
Alignment explanation
Indices: 64941493--64941714 Score: 426
Period size: 120 Copynumber: 1.9 Consensus size: 120
64941483 ATCATATTTA
*
64941493 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAA
64941558 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
64941613 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAATATTATTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAA
64941678 TATTCTTATATGAATTTACTCAAATCATAATATATGA
66 TATTCTTATATGAATTTACTCAAATCATAATATATGA
64941715 CTGTTATTGC
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:64941668 original size:44 final size:43
Alignment explanation
Indices: 64941586--64941670 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
64941576 CTCAAATCAT
* *
64941586 AATATATGATACTATAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATATAAAATATAAATTAAAATAATTATTATTA
* *
64941629 AATATATTATAAT-TAAAATATATAATT-TAATAA-TATTATTA
1 AATATATGATAATATAAAATATA-AATTAAAATAATTATTATTA
64941670 A
1 A
64941671 TAATCAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 9 0.24
42 13 0.35
43 15 0.41
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (43 bp):
AATATATGATAATATAAAATATAAATTAAAATAATTATTATTA
Found at i:64946334 original size:132 final size:131
Alignment explanation
Indices: 64946060--64946400 Score: 387
Period size: 132 Copynumber: 2.6 Consensus size: 131
64946050 GAGATCCGAT
* *
64946060 ATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCACGTTTGCTCAAAATAA
1 ATTTGGCAATTCG-GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAA
* * * ** *
64946125 TCGAATATCCCTTCAAAATTTCACTCAAGCCTTTTAAGAACTCTTTAAAACGAAGGCAAGGTTTG
65 TCGAATATCCCTTCAAAATTCCACTCAAGCCTTCTAAGAAATCTTTAAAACGAAGGCAAGACTCG
64946190 AC
130 AC
* * *
64946192 ATTTGGCAATTCGTAGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTTAAAATGA
1 ATTTGGCAATTCG-GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAA
* * * * * *
64946257 TCGAATATCCCTTCAAAATTCCATTCATGTCTTCTAA-AAATCATTTAAAATGAAGGTAATACTC
65 TCGAATATCCCTTCAAAATTCCACTCAAGCCTTCTAAGAAATC-TTTAAAACGAAGGCAAGACTC
**
64946321 GGT
129 GAC
* * * * ** * * *
64946324 GTTTGACAATTCGGGAATCATGCCCTATCGTGCTGGGTTGTGATCTCTCATTTGCTCAAAACAAT
1 ATTTGGCAATTCGGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAAT
*
64946389 CGAATATTCCTT
66 CGAATATCCCTT
64946401 TAGGTTTACA
Statistics
Matches: 175, Mismatches: 33, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
131 57 0.33
132 118 0.67
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (131 bp):
ATTTGGCAATTCGGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAAT
CGAATATCCCTTCAAAATTCCACTCAAGCCTTCTAAGAAATCTTTAAAACGAAGGCAAGACTCGA
C
Found at i:64946416 original size:131 final size:134
Alignment explanation
Indices: 64946061--64946446 Score: 350
Period size: 132 Copynumber: 2.9 Consensus size: 134
64946051 AGATCCGATA
* ** * * * * * *
64946061 TTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCACGTTTGCTCAAAATAAT
1 TTTGACAATTCGTAGAATCATGCCCTAACGTGCTGGGTTGCAATCTCTCATTTGCTCAAAACAAT
* * * * * * *** *
64946126 CGAATATCCCTTCAAAATTTCACTCAAGCCTTTTAAG--AACTCTTTAAAACGAAGGCAAGGTTT
66 CGAATATCCCTTCAAAATTACACTCATGTCTTCTAAGAAAACACTTTAAAACGAAGGTAATACTC
***
64946189 GACA
131 GGTG
* * * * * **
64946193 TTTGGCAATTCGTAGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTTAAAATGAT
1 TTTGACAATTCGTAGAATCATGCCCTAACGTGCTGGGTTGCAATCTCTCATTTGCTCAAAACAAT
* * * *
64946258 CGAATATCCCTTCAAAATTCCATTCATGTCTTCTAA-AAATCA-TTTAAAATGAAGGTAATACTC
66 CGAATATCCCTTCAAAATTACACTCATGTCTTCTAAGAAAACACTTTAAAACGAAGGTAATACTC
64946321 GGTG
131 GGTG
* * **
64946325 TTTGACAATTCG-GGAATCATGCCCTATCGTGCTGGGTTGTGATCTCTCATTTGCTCAAAACAAT
1 TTTGACAATTCGTAGAATCATGCCCTAACGTGCTGGGTTGCAATCTCTCATTTGCTCAAAACAAT
* * *** *
64946389 CGAATATTCCTTTAGGTTTACACTCATGTCTTTTAAGAAAACACTTTAAAACGAAGGT
66 CGAATATCCCTTCAAAATTACACTCATGTCTTCTAAGAAAACACTTTAAAACGAAGGT
64946447 GATGTTCAAT
Statistics
Matches: 207, Mismatches: 43, Indels: 7
0.81 0.17 0.03
Matches are distributed among these distances:
131 70 0.34
132 122 0.59
133 15 0.07
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (134 bp):
TTTGACAATTCGTAGAATCATGCCCTAACGTGCTGGGTTGCAATCTCTCATTTGCTCAAAACAAT
CGAATATCCCTTCAAAATTACACTCATGTCTTCTAAGAAAACACTTTAAAACGAAGGTAATACTC
GGTG
Found at i:64947132 original size:16 final size:16
Alignment explanation
Indices: 64947111--64947141 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64947101 GATATTTTAA
64947111 TATATTATATTAATAT
1 TATATTATATTAATAT
*
64947127 TATATTATGTTAATA
1 TATATTATATTAATA
64947142 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:64947238 original size:12 final size:12
Alignment explanation
Indices: 64947221--64947251 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
64947211 GAAGCAGGGG
64947221 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
64947233 AGAAAAAGGGAA
1 AGAAAAAGAGAA
64947245 AGAAAAA
1 AGAAAAA
64947252 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:64950500 original size:18 final size:19
Alignment explanation
Indices: 64950466--64950505 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
64950456 ACCTAAATAA
*
64950466 TTTTCTACTTTGTTTTTAT
1 TTTTCTACTCTGTTTTTAT
64950485 TTTTCTACTCTGTTTTTAT
1 TTTTCTACTCTGTTTTTAT
64950504 TT
1 TT
64950506 GTTTAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.12, G:0.05, T:0.72
Consensus pattern (19 bp):
TTTTCTACTCTGTTTTTAT
Found at i:64950703 original size:23 final size:23
Alignment explanation
Indices: 64950666--64950716 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
64950656 TTTTCATATT
64950666 ATTTTATATAA-ATATTTTCTTTCAA
1 ATTTTATATAATATA-TTT-TTT-AA
64950691 ATTTTATAT-ATATATTTTTTAA
1 ATTTTATATAATATATTTTTTAA
64950713 ATTT
1 ATTT
64950717 ATTTATGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 6 0.24
23 3 0.12
24 4 0.16
25 12 0.48
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTTATATAATATATTTTTTAA
Found at i:64958767 original size:20 final size:20
Alignment explanation
Indices: 64958742--64958782 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
64958732 CAAGTTCAAT
64958742 TCTCAACTTAACTAACTAAA
1 TCTCAACTTAACTAACTAAA
64958762 TCTCAACTTAACTAACTAAA
1 TCTCAACTTAACTAACTAAA
64958782 T
1 T
64958783 TTTCTTACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (20 bp):
TCTCAACTTAACTAACTAAA
Found at i:64961226 original size:21 final size:21
Alignment explanation
Indices: 64961196--64961237 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
64961186 TATCATGCAC
*
64961196 ACATATCACTTTTACACTTTT
1 ACATAACACTTTTACACTTTT
*
64961217 ACATAACACTTTTACATTTTT
1 ACATAACACTTTTACACTTTT
64961238 TTTACAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48
Consensus pattern (21 bp):
ACATAACACTTTTACACTTTT
Found at i:64961227 original size:13 final size:13
Alignment explanation
Indices: 64961209--64961233 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64961199 TATCACTTTT
64961209 ACACTTTTACATA
1 ACACTTTTACATA
64961222 ACACTTTTACAT
1 ACACTTTTACAT
64961234 TTTTTTTACA
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:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (13 bp):
ACACTTTTACATA
Found at i:64963345 original size:22 final size:23
Alignment explanation
Indices: 64963320--64963365 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
64963310 CAACCAAACC
64963320 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
64963342 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
64963365 A
1 A
64963366 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:64963371 original size:23 final size:23
Alignment explanation
Indices: 64963327--64963371 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
64963317 ACCAATTCAA
*
64963327 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
64963350 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
64963372 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:64967525 original size:33 final size:33
Alignment explanation
Indices: 64967488--64967638 Score: 189
Period size: 32 Copynumber: 4.6 Consensus size: 33
64967478 CTATCGAATG
64967488 TGAAAAGGAAAGGTATACTTTGTGTATACCATT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATT
*
64967521 TGAAAAGGAAAGGTATACTTTGTGTAT-TCATT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATT
* ** * * * *
64967553 GGAAAAGGTGATGTACACTTTGTGTGTA-CACT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATT
* **
64967585 TGGAAAGGTTAGGTATACTTTGTGTATACCATT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATT
64967618 TGAAAAGGAAAGGTATACTTT
1 TGAAAAGGAAAGGTATACTTT
64967639 ATATGTACCA
Statistics
Matches: 98, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
32 50 0.51
33 48 0.49
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.34
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCATT
Found at i:64967648 original size:33 final size:33
Alignment explanation
Indices: 64967488--64967648 Score: 173
Period size: 33 Copynumber: 4.9 Consensus size: 33
64967478 CTATCGAATG
*
64967488 TGAAAAGGAAAGGTATACTTTGTGTATACCATT
1 TGAAAAGGAAAGGTATACTTTGTGTGTACCATT
* *
64967521 TGAAAAGGAAAGGTATACTTTGTGTAT-TCATT
1 TGAAAAGGAAAGGTATACTTTGTGTGTACCATT
* ** * * *
64967553 GGAAAAGGTGATGTACACTTTGTGTGTA-CACT
1 TGAAAAGGAAAGGTATACTTTGTGTGTACCATT
* ** *
64967585 TGGAAAGGTTAGGTATACTTTGTGTATACCATT
1 TGAAAAGGAAAGGTATACTTTGTGTGTACCATT
* *
64967618 TGAAAAGGAAAGGTATACTTTATATGTACCA
1 TGAAAAGGAAAGGTATACTTTGTGTGTACCA
64967649 CTCGGAAAGA
Statistics
Matches: 105, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
32 50 0.48
33 55 0.52
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTTGTGTGTACCATT
Found at i:64967677 original size:97 final size:97
Alignment explanation
Indices: 64967498--64967682 Score: 223
Period size: 97 Copynumber: 1.9 Consensus size: 97
64967488 TGAAAAGGAA
* * * **
64967498 AGGTATACTTTGTGTATACCATTTGAAAAGGAAAGGTATACTTTGTGTATTCATTGGAAAAGGTG
1 AGGTATACTTTGTGTATACCATTTGAAAAGGAAAGGTATACTTTATGTATCCATCGGAAAAGGAA
* * ***
64967563 ATGTACACTTTGTGTGTACACTTGGAAAGGTT
66 ACGTACACCTCAAGTGTACACTTGGAAAGGTT
64967595 AGGTATACTTTGTGTATACCATTTGAAAAGGAAAGGTATACTTTATATGTA-CCACTCGG-AAA-
1 AGGTATACTTTGTGTATACCATTTGAAAAGGAAAGGTATAC-TT-TATGTATCCA-TCGGAAAAG
*
64967657 GAAACGTACACCTCAAGTGTATACTT
63 GAAACGTACACCTCAAGTGTACACTT
64967683 TTTGTATACC
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
97 59 0.80
98 7 0.09
99 8 0.11
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (97 bp):
AGGTATACTTTGTGTATACCATTTGAAAAGGAAAGGTATACTTTATGTATCCATCGGAAAAGGAA
ACGTACACCTCAAGTGTACACTTGGAAAGGTT
Found at i:64967692 original size:78 final size:78
Alignment explanation
Indices: 64967597--64967755 Score: 282
Period size: 78 Copynumber: 2.0 Consensus size: 78
64967587 GAAAGGTTAG
64967597 GTATACTTTGTGTATACCATTTGAAAAGGAAAGGTATACTTTATATGTACCACTCGGAAAGAAAC
1 GTATACTTTGTGTATACCATTTGAAAAGGAAAGGTATACTTTATATGTACCACTCGGAAAGAAAC
64967662 GTACACCTCAAGT
66 GTACACCTCAAGT
* *
64967675 GTATACTTTTTGTATACCATTTGAAAAGGAAAGGTATACTTTATGTGTACCACTCGGAAAGAAAC
1 GTATACTTTGTGTATACCATTTGAAAAGGAAAGGTATACTTTATATGTACCACTCGGAAAGAAAC
* *
64967740 GTACACTTCGAGT
66 GTACACCTCAAGT
64967753 GTA
1 GTA
64967756 CAACTGGAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.31
Consensus pattern (78 bp):
GTATACTTTGTGTATACCATTTGAAAAGGAAAGGTATACTTTATATGTACCACTCGGAAAGAAAC
GTACACCTCAAGT
Found at i:64968926 original size:78 final size:78
Alignment explanation
Indices: 64968699--64968936 Score: 352
Period size: 78 Copynumber: 3.0 Consensus size: 78
64968689 CTCTCTTGAG
* *
64968699 TCATATCTCATGTAACTGTAGTGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAG
1 TCATATATCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAG
*
64968764 TTATCATAA-GAAA
66 TTACCATAATG-AA
* * * * *
64968777 TCATATATCGTGTAACCGTAACGAATCAAGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAG
1 TCATATATCATGTAACTGTAGCGAATCAGGATTA-CCTTTTCAGGTCAAATCCTATCCACCTTAA
64968842 GTTACCATAATGAA
65 GTTACCATAATGAA
* *
64968856 TCATATATTATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCGCCTTAAG
1 TCATATATCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAG
*
64968921 TTACCATAGTGAA
66 TTACCATAATGAA
64968934 TCA
1 TCA
64968937 GGAATAAATC
Statistics
Matches: 142, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
78 72 0.51
79 69 0.49
80 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.32
Consensus pattern (78 bp):
TCATATATCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAG
TTACCATAATGAA
Found at i:64968996 original size:40 final size:40
Alignment explanation
Indices: 64968901--64969003 Score: 125
Period size: 40 Copynumber: 2.6 Consensus size: 40
64968891 CTTTTCAGGT
* * *
64968901 CAAATCCTATCCGCCTTAAGTTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* * *
64968941 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAGGAG
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* * *
64968981 CGAATCTTATCCACTTTATATTA
1 CAAATCCTATCCACTTTAAATTA
64969004 TCGAGAAGGC
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
Found at i:64970685 original size:11 final size:13
Alignment explanation
Indices: 64970665--64970696 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
64970655 AATAAAATAA
64970665 TAAAATATC-ATT
1 TAAAATATCAATT
64970677 TAAAA-ATCAATT
1 TAAAATATCAATT
64970689 TAAAATAT
1 TAAAATAT
64970697 TAATAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 13 0.72
13 2 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATCAATT
Found at i:64972353 original size:56 final size:56
Alignment explanation
Indices: 64972226--64972337 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
64972216 CGCCATCCAT
* *
64972226 TAATACTTCAGTCATAACTAATTAAACATCCAGTATATGTACATTTAAGTTTACTC
1 TAATACTTCAATCATAACTAATTAAACATCCAGTATATGTACATTTAAGTCTACTC
64972282 TAATACTTCAATCATAACTAATTAAACATCCAGTATATGTACATTTAAGTCTACTC
1 TAATACTTCAATCATAACTAATTAAACATCCAGTATATGTACATTTAAGTCTACTC
64972338 AGTCACTATG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (56 bp):
TAATACTTCAATCATAACTAATTAAACATCCAGTATATGTACATTTAAGTCTACTC
Found at i:64973729 original size:3 final size:3
Alignment explanation
Indices: 64973721--64973774 Score: 81
Period size: 3 Copynumber: 18.0 Consensus size: 3
64973711 CCCTTTCTAG
* * *
64973721 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATT GTC ATC ATA ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
64973769 ATC ATC
1 ATC ATC
64973775 TTTTTATGTC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:64974323 original size:2 final size:2
Alignment explanation
Indices: 64974316--64974346 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
64974306 GGAGTAGCTT
64974316 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
64974347 CTCCCCTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:64979987 original size:875 final size:875
Alignment explanation
Indices: 64978297--64980046 Score: 3500
Period size: 875 Copynumber: 2.0 Consensus size: 875
64978287 AATTGATCTT
64978297 CGATATAACCTTAAAACATGCCTATAATGTATATGTCGAGAAAACTTGGAAAATGGACATCTGCA
1 CGATATAACCTTAAAACATGCCTATAATGTATATGTCGAGAAAACTTGGAAAATGGACATCTGCA
64978362 CTTACTAATTACAAAATCTCATGTTTTTATCATTAGTACTTATTAGAATTGACAAATTCCTTACT
66 CTTACTAATTACAAAATCTCATGTTTTTATCATTAGTACTTATTAGAATTGACAAATTCCTTACT
64978427 TTGGAGAAATTTGAAATATATTTTAAATATTTTAAATAGAAAAAAAGTTAAAAGATAATTAATGT
131 TTGGAGAAATTTGAAATATATTTTAAATATTTTAAATAGAAAAAAAGTTAAAAGATAATTAATGT
64978492 AACATTCAATTACTTTACCCGATCATCAAATTCGAGTTATAAGATGCCATATTCGTTGTTGGGAT
196 AACATTCAATTACTTTACCCGATCATCAAATTCGAGTTATAAGATGCCATATTCGTTGTTGGGAT
64978557 TCATTCAAATTCACATTACTATATATCCGCATTTAGATACATTACCATTTTTATTAACATACCAT
261 TCATTCAAATTCACATTACTATATATCCGCATTTAGATACATTACCATTTTTATTAACATACCAT
64978622 AAGTTATACCTAACCAAATGTTATAACATTCTCCATTTCATATATATATATATATATATATAAAC
326 AAGTTATACCTAACCAAATGTTATAACATTCTCCATTTCATATATATATATATATATATATAAAC
64978687 ATATGTTCAATTGAAAAATGCTTACCAACTTTCTTAAGAACATAATTTCAAAAAGAAAAATTACT
391 ATATGTTCAATTGAAAAATGCTTACCAACTTTCTTAAGAACATAATTTCAAAAAGAAAAATTACT
64978752 ATGATGACTTTAAATAAGTGTTTCTTTTATTATTTGTGTAAGCATTTTTTTAATGCCATTTCTTT
456 ATGATGACTTTAAATAAGTGTTTCTTTTATTATTTGTGTAAGCATTTTTTTAATGCCATTTCTTT
64978817 GTCACAAGATTACCACATGAATTTTTTTTAAATAATTTCAAAATATCACACCACTGAATTTAATA
521 GTCACAAGATTACCACATGAATTTTTTTTAAATAATTTCAAAATATCACACCACTGAATTTAATA
64978882 AAAAAAAAATTAACGAGTAACAATTAGACCTGAATTTTTAAATTCGAAAAGTATAAAGACTAAAT
586 AAAAAAAAATTAACGAGTAACAATTAGACCTGAATTTTTAAATTCGAAAAGTATAAAGACTAAAT
64978947 TCTTGAAAGTAAACATTTCAAATATACAAAATGCATAGGGACTTGGAACATAATTTAACCTTTAA
651 TCTTGAAAGTAAACATTTCAAATATACAAAATGCATAGGGACTTGGAACATAATTTAACCTTTAA
64979012 ATTTTTTACTCTATAATTTATATATTTTTAAATTTAAAAAAAATATATTTTTAATTTTTTTTAGA
716 ATTTTTTACTCTATAATTTATATATTTTTAAATTTAAAAAAAATATATTTTTAATTTTTTTTAGA
64979077 TGATGATATAATCATTATCATGGGTCACTATTGTTAAAGTGTGTATATTAGAGTGAGACACTTAA
781 TGATGATATAATCATTATCATGGGTCACTATTGTTAAAGTGTGTATATTAGAGTGAGACACTTAA
64979142 AGCAATTTTTTTTATTACCTGGGATATGTA
846 AGCAATTTTTTTTATTACCTGGGATATGTA
64979172 CGATATAACCTTAAAACATGCCTATAATGTATATGTCGAGAAAACTTGGAAAATGGACATCTGCA
1 CGATATAACCTTAAAACATGCCTATAATGTATATGTCGAGAAAACTTGGAAAATGGACATCTGCA
64979237 CTTACTAATTACAAAATCTCATGTTTTTATCATTAGTACTTATTAGAATTGACAAATTCCTTACT
66 CTTACTAATTACAAAATCTCATGTTTTTATCATTAGTACTTATTAGAATTGACAAATTCCTTACT
64979302 TTGGAGAAATTTGAAATATATTTTAAATATTTTAAATAGAAAAAAAGTTAAAAGATAATTAATGT
131 TTGGAGAAATTTGAAATATATTTTAAATATTTTAAATAGAAAAAAAGTTAAAAGATAATTAATGT
64979367 AACATTCAATTACTTTACCCGATCATCAAATTCGAGTTATAAGATGCCATATTCGTTGTTGGGAT
196 AACATTCAATTACTTTACCCGATCATCAAATTCGAGTTATAAGATGCCATATTCGTTGTTGGGAT
64979432 TCATTCAAATTCACATTACTATATATCCGCATTTAGATACATTACCATTTTTATTAACATACCAT
261 TCATTCAAATTCACATTACTATATATCCGCATTTAGATACATTACCATTTTTATTAACATACCAT
64979497 AAGTTATACCTAACCAAATGTTATAACATTCTCCATTTCATATATATATATATATATATATAAAC
326 AAGTTATACCTAACCAAATGTTATAACATTCTCCATTTCATATATATATATATATATATATAAAC
64979562 ATATGTTCAATTGAAAAATGCTTACCAACTTTCTTAAGAACATAATTTCAAAAAGAAAAATTACT
391 ATATGTTCAATTGAAAAATGCTTACCAACTTTCTTAAGAACATAATTTCAAAAAGAAAAATTACT
64979627 ATGATGACTTTAAATAAGTGTTTCTTTTATTATTTGTGTAAGCATTTTTTTAATGCCATTTCTTT
456 ATGATGACTTTAAATAAGTGTTTCTTTTATTATTTGTGTAAGCATTTTTTTAATGCCATTTCTTT
64979692 GTCACAAGATTACCACATGAATTTTTTTTAAATAATTTCAAAATATCACACCACTGAATTTAATA
521 GTCACAAGATTACCACATGAATTTTTTTTAAATAATTTCAAAATATCACACCACTGAATTTAATA
64979757 AAAAAAAAATTAACGAGTAACAATTAGACCTGAATTTTTAAATTCGAAAAGTATAAAGACTAAAT
586 AAAAAAAAATTAACGAGTAACAATTAGACCTGAATTTTTAAATTCGAAAAGTATAAAGACTAAAT
64979822 TCTTGAAAGTAAACATTTCAAATATACAAAATGCATAGGGACTTGGAACATAATTTAACCTTTAA
651 TCTTGAAAGTAAACATTTCAAATATACAAAATGCATAGGGACTTGGAACATAATTTAACCTTTAA
64979887 ATTTTTTACTCTATAATTTATATATTTTTAAATTTAAAAAAAATATATTTTTAATTTTTTTTAGA
716 ATTTTTTACTCTATAATTTATATATTTTTAAATTTAAAAAAAATATATTTTTAATTTTTTTTAGA
64979952 TGATGATATAATCATTATCATGGGTCACTATTGTTAAAGTGTGTATATTAGAGTGAGACACTTAA
781 TGATGATATAATCATTATCATGGGTCACTATTGTTAAAGTGTGTATATTAGAGTGAGACACTTAA
64980017 AGCAATTTTTTTTATTACCTGGGATATGTA
846 AGCAATTTTTTTTATTACCTGGGATATGTA
64980047 GAAAACTAAA
Statistics
Matches: 875, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
875 875 1.00
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (875 bp):
CGATATAACCTTAAAACATGCCTATAATGTATATGTCGAGAAAACTTGGAAAATGGACATCTGCA
CTTACTAATTACAAAATCTCATGTTTTTATCATTAGTACTTATTAGAATTGACAAATTCCTTACT
TTGGAGAAATTTGAAATATATTTTAAATATTTTAAATAGAAAAAAAGTTAAAAGATAATTAATGT
AACATTCAATTACTTTACCCGATCATCAAATTCGAGTTATAAGATGCCATATTCGTTGTTGGGAT
TCATTCAAATTCACATTACTATATATCCGCATTTAGATACATTACCATTTTTATTAACATACCAT
AAGTTATACCTAACCAAATGTTATAACATTCTCCATTTCATATATATATATATATATATATAAAC
ATATGTTCAATTGAAAAATGCTTACCAACTTTCTTAAGAACATAATTTCAAAAAGAAAAATTACT
ATGATGACTTTAAATAAGTGTTTCTTTTATTATTTGTGTAAGCATTTTTTTAATGCCATTTCTTT
GTCACAAGATTACCACATGAATTTTTTTTAAATAATTTCAAAATATCACACCACTGAATTTAATA
AAAAAAAAATTAACGAGTAACAATTAGACCTGAATTTTTAAATTCGAAAAGTATAAAGACTAAAT
TCTTGAAAGTAAACATTTCAAATATACAAAATGCATAGGGACTTGGAACATAATTTAACCTTTAA
ATTTTTTACTCTATAATTTATATATTTTTAAATTTAAAAAAAATATATTTTTAATTTTTTTTAGA
TGATGATATAATCATTATCATGGGTCACTATTGTTAAAGTGTGTATATTAGAGTGAGACACTTAA
AGCAATTTTTTTTATTACCTGGGATATGTA
Found at i:64981218 original size:17 final size:17
Alignment explanation
Indices: 64981198--64981236 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
64981188 ATCGAGAGAT
*
64981198 AAACGATATGAATCTAG
1 AAACAATATGAATCTAG
* *
64981215 AAACAATTTGTATCTAG
1 AAACAATATGAATCTAG
64981232 AAACA
1 AAACA
64981237 TGGATAATAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.26
Consensus pattern (17 bp):
AAACAATATGAATCTAG
Found at i:65000818 original size:129 final size:127
Alignment explanation
Indices: 65000678--65000927 Score: 455
Period size: 129 Copynumber: 2.0 Consensus size: 127
65000668 AGTGTGTGAA
*
65000678 CAACTCGAGTTGGATTTTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCACGTTA
1 CAACTCCAGTTGGATTTTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCACGTTA
65000743 GGACACGATATTTTAAGCCTCCAAAAAAACTGAGATCACCTCATGATTTCCAAAACACACGAAG
66 GGACACGATATTTTAAGCCTCC--AAAAACTGAGATCACCTCATGATTTCCAAAACACACGAAG
* *
65000807 CAACTCCAGTTGGATTTTGAGATTCACTTGTTCCAAAGGAATAAAATACCACATCCAGCACGTTA
1 CAACTCCAGTTGGATTTTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCACGTTA
65000872 GGACACGATATTTTAAGCCTCCAAAAACTGAGATCACCTCATGATTTCCAAAACAC
66 GGACACGATATTTTAAGCCTCCAAAAACTGAGATCACCTCATGATTTCCAAAACAC
65000928 GCGACGAAAA
Statistics
Matches: 118, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
127 34 0.29
129 84 0.71
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.24
Consensus pattern (127 bp):
CAACTCCAGTTGGATTTTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCACGTTA
GGACACGATATTTTAAGCCTCCAAAAACTGAGATCACCTCATGATTTCCAAAACACACGAAG
Found at i:65001592 original size:30 final size:29
Alignment explanation
Indices: 65001554--65001622 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
65001544 AGAAAGCCAA
*
65001554 ATTATACATAAATAAATTTTAAAGAAAAT
1 ATTATACATAAATAAATTTAAAAGAAAAT
65001583 ATATATACAT-AATAAATTTAAAAGAAAAT
1 AT-TATACATAAATAAATTTAAAAGAAAAT
65001612 ATT-TACATAAA
1 ATTATACATAAA
65001623 ATAATATGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 5 0.14
28 3 0.08
29 22 0.59
30 7 0.19
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.33
Consensus pattern (29 bp):
ATTATACATAAATAAATTTAAAAGAAAAT
Found at i:65001634 original size:29 final size:29
Alignment explanation
Indices: 65001556--65001648 Score: 82
Period size: 29 Copynumber: 3.1 Consensus size: 29
65001546 AAAGCCAAAT
**
65001556 TATACATAAATAAATTTTAAAGAAAATATA
1 TATACATAAA-AAATTGAAAAGAAAATATA
* *
65001586 TATACATAATAAATTTAAAAGAAAATAT-
1 TATACATAAAAAATTGAAAAGAAAATATA
* *
65001614 T-TACATAAAATAATATGAAAACAATAATGTA
1 TATACATAAAA-AAT-TGAAAAGAA-AATATA
65001645 TATA
1 TATA
65001649 GAATGGAGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
27 8 0.15
28 4 0.08
29 24 0.46
30 13 0.25
31 1 0.02
32 2 0.04
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (29 bp):
TATACATAAAAAATTGAAAAGAAAATATA
Found at i:65001920 original size:19 final size:19
Alignment explanation
Indices: 65001898--65001936 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
65001888 GAATTATACA
65001898 TATTGAAATGGAAACAAAC
1 TATTGAAATGGAAACAAAC
65001917 TATTGAAATGGAAACAAAC
1 TATTGAAATGGAAACAAAC
65001936 T
1 T
65001937 TAACAGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.23
Consensus pattern (19 bp):
TATTGAAATGGAAACAAAC
Found at i:65002819 original size:17 final size:18
Alignment explanation
Indices: 65002786--65002820 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
65002776 AGCCAGGGAT
65002786 CGTGTGTGGGCGTGCTGA
1 CGTGTGTGGGCGTGCTGA
65002804 CGTGTGTGGG-GTGCTGA
1 CGTGTGTGGGCGTGCTGA
65002821 TCATGGGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.06, C:0.14, G:0.51, T:0.29
Consensus pattern (18 bp):
CGTGTGTGGGCGTGCTGA
Found at i:65005135 original size:26 final size:25
Alignment explanation
Indices: 65005079--65005144 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
65005069 AAAGAATCAT
* *
65005079 TAATCAGGAAGCTCACAAAAGCCTT
1 TAATCGGGAAGCTCACAAAAGCCTA
*
65005104 TAATCGGGAAGCTCACGAAGAGCC-A
1 TAATCGGGAAGCTCAC-AAAAGCCTA
*
65005129 TATATCGGGACGCTCA
1 TA-ATCGGGAAGCTCA
65005145 TAAGAGCTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 17 0.49
26 18 0.51
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (25 bp):
TAATCGGGAAGCTCACAAAAGCCTA
Found at i:65009863 original size:3 final size:3
Alignment explanation
Indices: 65009855--65009899 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
65009845 CCTAAATTTA
65009855 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
65009900 TCAAATGAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:65014866 original size:23 final size:23
Alignment explanation
Indices: 65014840--65014889 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
65014830 AAGTATTTTC
* * *
65014840 ATATATATCATTTATATATATAT
1 ATATATATCAATTACATACATAT
*
65014863 ATATATCTCAATTACATACATAT
1 ATATATATCAATTACATACATAT
65014886 ATAT
1 ATAT
65014890 TTATATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (23 bp):
ATATATATCAATTACATACATAT
Found at i:65014989 original size:14 final size:15
Alignment explanation
Indices: 65014964--65014997 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
65014954 ATTAATTATA
*
65014964 AAAATAAAAATATTT
1 AAAATAAAAATATGT
65014979 AAAAT-AAAATATGT
1 AAAATAAAAATATGT
65014993 AAAAT
1 AAAAT
65014998 CAATTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (15 bp):
AAAATAAAAATATGT
Found at i:65015410 original size:17 final size:17
Alignment explanation
Indices: 65015372--65015424 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
65015362 CTTTGCCAGT
* *
65015372 TTTTTTAAATT-TATAA
1 TTTTTTATATTATGTAA
* *
65015388 TATTTTATATTATGTTA
1 TTTTTTATATTATGTAA
65015405 TTTTTTATATTATGTAA
1 TTTTTTATATTATGTAA
65015422 TTT
1 TTT
65015425 ATAACACATA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 9 0.30
17 21 0.70
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (17 bp):
TTTTTTATATTATGTAA
Found at i:65016742 original size:28 final size:28
Alignment explanation
Indices: 65016710--65016769 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
65016700 AAAAAACTAA
*
65016710 AAAATT-AGAAAAATCATTA-AATTTTATT
1 AAAATTAAGAAAAAT-ATTAGAA-TTAATT
*
65016738 AAAATTAATAAAAATATTAGAATTAATT
1 AAAATTAAGAAAAATATTAGAATTAATT
65016766 AAAA
1 AAAA
65016770 AACATAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (28 bp):
AAAATTAAGAAAAATATTAGAATTAATT
Found at i:65016761 original size:18 final size:19
Alignment explanation
Indices: 65016734--65016770 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
65016724 CATTAAATTT
65016734 TATTAAAATTAA-TAAAAA
1 TATTAAAATTAATTAAAAA
*
65016752 TATTAGAATTAATTAAAAA
1 TATTAAAATTAATTAAAAA
65016771 ACATAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
TATTAAAATTAATTAAAAA
Found at i:65016786 original size:37 final size:35
Alignment explanation
Indices: 65016737--65016819 Score: 96
Period size: 35 Copynumber: 2.3 Consensus size: 35
65016727 TAAATTTTAT
*
65016737 TAAAATTAATAAAAATATTAGAATTAATTAAAAAACA
1 TAAAATTAATAAAAATA--ACAATTAATTAAAAAACA
* * *
65016774 TAAAATTTATAAAAATAACAATTTATTAAAAACCA
1 TAAAATTAATAAAAATAACAATTAATTAAAAAACA
65016809 TACAAA-TAATA
1 TA-AAATTAATA
65016820 TATATTTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
35 21 0.52
36 3 0.08
37 16 0.40
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.30
Consensus pattern (35 bp):
TAAAATTAATAAAAATAACAATTAATTAAAAAACA
Found at i:65016796 original size:16 final size:16
Alignment explanation
Indices: 65016768--65016805 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
65016758 AATTAATTAA
65016768 AAAACATAAAATTTA-T
1 AAAA-ATAAAATTTATT
65016784 AAAAATAACAATTTATT
1 AAAAATAA-AATTTATT
65016801 AAAAA
1 AAAAA
65016806 CCATACAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 10 0.50
17 6 0.30
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATAAAATTTATT
Found at i:65016993 original size:8 final size:9
Alignment explanation
Indices: 65016960--65017028 Score: 52
Period size: 9 Copynumber: 7.4 Consensus size: 9
65016950 ATTTTATCAC
65016960 TTTTAATTAA
1 TTTTAA-TAA
65016970 TTTATAATAA
1 TTT-TAATAA
65016980 TTTTTTAAT-A
1 --TTTTAATAA
*
65016990 TTTTTATAA
1 TTTTAATAA
*
65016999 TTTTAATGA
1 TTTTAATAA
*
65017008 TTTTTA-AA
1 TTTTAATAA
*
65017016 TTTTTATAA
1 TTTTAATAA
65017025 TTTT
1 TTTT
65017029 TTATAATTCC
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
8 13 0.27
9 19 0.39
10 7 0.14
11 7 0.14
12 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTTAATAA
Found at i:65016995 original size:9 final size:9
Alignment explanation
Indices: 65016977--65017021 Score: 51
Period size: 8 Copynumber: 5.2 Consensus size: 9
65016967 TAATTTATAA
65016977 TAAT-TTTT
1 TAATATTTT
65016985 TAATATTTT
1 TAATATTTT
*
65016994 T-ATAATTT
1 TAATATTTT
65017002 TAATGATTTT
1 TAAT-ATTTT
65017012 TAA-ATTTT
1 TAATATTTT
65017020 TA
1 TA
65017022 TAATTTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 18 0.56
9 7 0.22
10 7 0.22
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (9 bp):
TAATATTTT
Found at i:65017004 original size:17 final size:18
Alignment explanation
Indices: 65016982--65017036 Score: 69
Period size: 17 Copynumber: 3.1 Consensus size: 18
65016972 TATAATAATT
65016982 TTTTAAT-ATTTTTATAA
1 TTTTAATAATTTTTATAA
*
65016999 TTTTAATGATTTTTA-AA
1 TTTTAATAATTTTTATAA
*
65017016 TTTTTATAATTTTTTATAA
1 TTTTAATAA-TTTTTATAA
65017035 TT
1 TT
65017037 CCATAATGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 16 0.48
18 13 0.39
19 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTAATAATTTTTATAA
Found at i:65017029 original size:10 final size:10
Alignment explanation
Indices: 65016970--65017036 Score: 54
Period size: 10 Copynumber: 6.9 Consensus size: 10
65016960 TTTTAATTAA
65016970 TTTATAATAATT
1 TTTATAAT--TT
65016982 TTT-TAATATT
1 TTTATAAT-TT
65016992 TTTATAA-TT
1 TTTATAATTT
* *
65017001 TTAATGA-TT
1 TTTATAATTT
65017010 TTTA-AA-TT
1 TTTATAATTT
65017018 TTTATAATTT
1 TTTATAATTT
65017028 TTTATAATT
1 TTTATAATT
65017037 CCATAATGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
8 7 0.15
9 14 0.29
10 17 0.35
11 7 0.15
12 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTATAATTT
Found at i:65020780 original size:21 final size:21
Alignment explanation
Indices: 65020754--65020794 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65020744 ATCTGCTCAA
* *
65020754 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
65020775 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
65020795 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:65025976 original size:14 final size:15
Alignment explanation
Indices: 65025947--65025981 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
65025937 AAAATAACCC
*
65025947 TTTCCTTTCTTTTCT
1 TTTCCTTTCTTCTCT
65025962 TTTCCTTTC-TCTCT
1 TTTCCTTTCTTCTCT
65025976 TTTCCT
1 TTTCCT
65025982 CTTCCAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTCCTTTCTTCTCT
Found at i:65033467 original size:46 final size:46
Alignment explanation
Indices: 65033405--65033583 Score: 252
Period size: 46 Copynumber: 3.9 Consensus size: 46
65033395 TTATCTTCGA
* * * *
65033405 CATGATGCCATAGTATCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGT
* * *
65033451 CATGTTGCCAGGGTATCTTTCAACCATAGTCTTATTCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGT
* *
65033497 CATGTTGCCATGGTATCTTTCAACCATGATCTTA-TACATTTCCTAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCCTGT
*
65033543 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTT
65033584 GAATCGCAAT
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
45 1 0.01
46 117 0.99
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGT
Found at i:65033617 original size:45 final size:45
Alignment explanation
Indices: 65033548--65033673 Score: 153
Period size: 45 Copynumber: 2.8 Consensus size: 45
65033538 CCTATCATGT
* * * *
65033548 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTGAATCGCAA
1 TGCCATAGCATCTTTCAACTATGGTCTTACTCATTTGAATCGCAA
* * * **
65033593 TGCCATAGCGTCTTTCAACTATGGTCTTACTCGTCTGAATCGTGA
1 TGCCATAGCATCTTTCAACTATGGTCTTACTCATTTGAATCGCAA
* *
65033638 TGCCATAGCATCTTTTAGCTATGGTCTTACTCATTT
1 TGCCATAGCATCTTTCAACTATGGTCTTACTCATTT
65033674 CTGGTATGAT
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 67 1.00
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (45 bp):
TGCCATAGCATCTTTCAACTATGGTCTTACTCATTTGAATCGCAA
Found at i:65033768 original size:33 final size:33
Alignment explanation
Indices: 65033731--65033808 Score: 79
Period size: 33 Copynumber: 2.4 Consensus size: 33
65033721 TGGCCCGGTC
* * *
65033731 ATGGTCTTACACTC-GTGGTGCCATATCCTAGAT
1 ATGGTCATACACTCAG-GATGCCATAGCCTAGAT
*
65033764 ATGGTCATATCA-TCAGGATGCCATAGCCTAGCT
1 ATGGTCATA-CACTCAGGATGCCATAGCCTAGAT
*
65033797 ATGGTCCTACAC
1 ATGGTCATACAC
65033809 ATATAATGCC
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
32 2 0.05
33 32 0.86
34 3 0.08
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (33 bp):
ATGGTCATACACTCAGGATGCCATAGCCTAGAT
Found at i:65039486 original size:148 final size:151
Alignment explanation
Indices: 65039134--65039506 Score: 567
Period size: 148 Copynumber: 2.5 Consensus size: 151
65039124 GCGACAACAA
65039134 GCCCGTCTAGCTCAGTCGGTAGAGCGCAAGGCTCTTAACCTTGTGGTCGTGGGTTCGAGCCCCAC
1 GCCCGTCTAGCTCAGTCGGTAGAGCGCAAGGCTCTTAACCTTGTGGTCGTGGGTTCGAGCCCCAC
* * *
65039199 GGTGGGCGACTTTTTTGCTTTTAGTTCCAAGCAACTGGAAACTATAAGTTTTGGTTTGTAAAAAA
66 GGTGGGCGACTATTTTACTTTTA-TTCCAAGCAACTGGAAACTATAAGTTTTGATTTGTAAAAAA
* * *
65039264 TTTACACAATCAACATCAATTG
130 GTTACACAATCAAAATCAACTG
65039286 GCCCGTCTAGCTCAGTCGGTAGAGCGCAAGGCTCTTAACCTTGTGGTCGTGGGTTCGAGCCCCAC
1 GCCCGTCTAGCTCAGTCGGTAGAGCGCAAGGCTCTTAACCTTGTGGTCGTGGGTTCGAGCCCCAC
* * * *
65039351 GGTGGGCGAC-ATTTTAC-TTT-TTCCGAGCAACT-GTAACTATTAGTTTTGAATTTGTAAGAAA
66 GGTGGGCGACTATTTTACTTTTATTCCAAGCAACTGGAAACTATAAGTTTTG-ATTTGTAAAAAA
*
65039412 GTTACAC-ATCTAAAATTAACTG
130 GTTACACAATC-AAAATCAACTG
* *
65039434 GCCCGTCTAGTTCAGTCGGTAGAGCGCAAGGCTCTTTACCTTGTGGTCGTGGGTTCGAGCCCCAC
1 GCCCGTCTAGCTCAGTCGGTAGAGCGCAAGGCTCTTAACCTTGTGGTCGTGGGTTCGAGCCCCAC
65039499 GGTGGGCG
66 GGTGGGCG
65039507 CATATTTGGT
Statistics
Matches: 206, Mismatches: 13, Indels: 8
0.91 0.06 0.04
Matches are distributed among these distances:
147 17 0.08
148 106 0.51
150 3 0.01
151 5 0.02
152 75 0.36
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (151 bp):
GCCCGTCTAGCTCAGTCGGTAGAGCGCAAGGCTCTTAACCTTGTGGTCGTGGGTTCGAGCCCCAC
GGTGGGCGACTATTTTACTTTTATTCCAAGCAACTGGAAACTATAAGTTTTGATTTGTAAAAAAG
TTACACAATCAAAATCAACTG
Found at i:65041174 original size:23 final size:24
Alignment explanation
Indices: 65041148--65041192 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
65041138 TGCCTCCGGA
65041148 AATTTAAAAATAA-AAATAAAAAT
1 AATTTAAAAATAATAAATAAAAAT
*
65041171 AATTTAAAAATAATTAATAAAA
1 AATTTAAAAATAATAAATAAAA
65041193 TTCGAAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (24 bp):
AATTTAAAAATAATAAATAAAAAT
Found at i:65052501 original size:27 final size:27
Alignment explanation
Indices: 65052471--65052524 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
65052461 TCATCAAGAA
65052471 AATGGCGCTCTCTCTCTCATTTGTAGT
1 AATGGCGCTCTCTCTCTCATTTGTAGT
65052498 AATGGCGCTCTCTCTCTCATTTGTAGT
1 AATGGCGCTCTCTCTCTCATTTGTAGT
65052525 CTTCTTTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.41
Consensus pattern (27 bp):
AATGGCGCTCTCTCTCTCATTTGTAGT
Found at i:65062240 original size:22 final size:22
Alignment explanation
Indices: 65062201--65062254 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
65062191 GTTTTAAGAA
*
65062201 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
65062222 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
65062244 TT-TTTAAATAT
1 TTGTTTTAATAT
65062255 ATTTGATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:65062288 original size:25 final size:25
Alignment explanation
Indices: 65062233--65062289 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
65062223 TGTTTTAATA
65062233 TTTATTT-TTATTTTTTAAATATAT
1 TTTATTTATTATTTTTTAAATATAT
* *
65062257 TTGATTTATTATATTTTTAAAT-TTT
1 TTTATTTATTAT-TTTTTAAATATAT
65062282 TTTATTTA
1 TTTATTTA
65062290 ATAAAATAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 6 0.21
25 13 0.46
26 9 0.32
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (25 bp):
TTTATTTATTATTTTTTAAATATAT
Found at i:65064690 original size:140 final size:137
Alignment explanation
Indices: 65064538--65064797 Score: 310
Period size: 140 Copynumber: 1.9 Consensus size: 137
65064528 AATAAGGATG
* * * * *
65064538 ATAATAATAATATTAAAGTAAAGTAAACAAAAGTAATCCCGTATATCAATATATATATATAC-AT
1 ATAATAAAAATATTAAA-T-AA-T-AA-AAAAGCAATCCCATATATAAAAATATATATATACGAT
* * *
65064602 GTA-ATGAAAATACACACTACTATATAATAATAAT-GATAATAATTATAATAATAATATAGAAAT
61 GTACATAAAAATACACACTAATATATAATAATAATAG-TAATAATAATAATAATAATATAGAAAT
65064665 ACAAAGAGCAAAT
125 ACAAAGAGCAAAT
* *
65064678 ATAATAAAAATATTAAATAATGAAAAAGCAATGCCATATATAAAAATATATATATACGTGTATGT
1 ATAATAAAAATATTAAATAATAAAAAAGCAATCCCATATATAAAAATATATATATAC--G-ATGT
* *
65064743 ACATAAAAATATACACTAATATATAATAATAATAGTAATAGTAATAATAATAATA
63 ACATAAAAATACACACTAATATATAATAATAATAGTAATAATAATAATAATAATA
65064798 ATATTAAAAG
Statistics
Matches: 102, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
135 29 0.28
136 1 0.01
137 1 0.01
138 2 0.02
139 6 0.06
140 62 0.61
141 1 0.01
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (137 bp):
ATAATAAAAATATTAAATAATAAAAAAGCAATCCCATATATAAAAATATATATATACGATGTACA
TAAAAATACACACTAATATATAATAATAATAGTAATAATAATAATAATAATATAGAAATACAAAG
AGCAAAT
Found at i:65064773 original size:3 final size:3
Alignment explanation
Indices: 65064759--65064869 Score: 61
Period size: 3 Copynumber: 36.7 Consensus size: 3
65064749 AAATATACAC
* * *
65064759 TAA TATA TAA TAA TAA TAG TAA TAG TAA TAA TAA TAA TAA TAT TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * **
65064805 -AA GCTAT TAA TAA TAC TATA TAA T-A TAA T-A TATA TATA TAA GCA
1 TAA --TAA TAA TAA TAA TA-A TAA TAA TAA TAA TA-A TA-A TAA TAA
*
65064849 TCA -AA TAA -AA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
65064870 GAACACTAAT
Statistics
Matches: 84, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
2 9 0.11
3 62 0.74
4 12 0.14
5 1 0.01
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:65069138 original size:15 final size:15
Alignment explanation
Indices: 65069118--65069146 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
65069108 TTTCCCCAAA
65069118 TTTTGTTCTCTTATG
1 TTTTGTTCTCTTATG
65069133 TTTTGTTCTCTTAT
1 TTTTGTTCTCTTAT
65069147 CTTTCTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.14, G:0.10, T:0.69
Consensus pattern (15 bp):
TTTTGTTCTCTTATG
Found at i:65084202 original size:15 final size:15
Alignment explanation
Indices: 65084184--65084227 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 15
65084174 TGTAAAAACT
65084184 TTTTTTTAATTTATA
1 TTTTTTTAATTTATA
65084199 TTTTTTTAAATTTTATA
1 TTTTTTT-AA-TTTATA
*
65084216 TATTTTTAATTT
1 TTTTTTTAATTT
65084228 CAAAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 10 0.38
16 4 0.15
17 12 0.46
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTTTAATTTATA
Found at i:65084203 original size:17 final size:15
Alignment explanation
Indices: 65084183--65084227 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
65084173 ATGTAAAAAC
65084183 TTTTTTTTAATTTATA
1 TTTTTTTTAATTT-TA
*
65084199 TTTTTTTAAATTTTA
1 TTTTTTTTAATTTTA
*
65084214 TATATTTTTAATTT
1 T-TTTTTTTAATTT
65084228 CAAAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 3 0.12
16 22 0.88
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTTTTAATTTTA
Found at i:65086242 original size:15 final size:15
Alignment explanation
Indices: 65086222--65086250 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
65086212 TTTCCCCAAA
65086222 TTTTATTCTCTTATG
1 TTTTATTCTCTTATG
65086237 TTTTATTCTCTTAT
1 TTTTATTCTCTTAT
65086251 CTTTCTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTTATTCTCTTATG
Found at i:65090279 original size:25 final size:25
Alignment explanation
Indices: 65090245--65090295 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
65090235 ACTACAAACA
65090245 GGAGATGTGGAAAAATGGATTCAGT
1 GGAGATGTGGAAAAATGGATTCAGT
65090270 GGAGATGTGGAAAAATGGATTCAGT
1 GGAGATGTGGAAAAATGGATTCAGT
65090295 G
1 G
65090296 ATGTAACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.37, T:0.24
Consensus pattern (25 bp):
GGAGATGTGGAAAAATGGATTCAGT
Found at i:65092559 original size:27 final size:26
Alignment explanation
Indices: 65092496--65092561 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
65092486 TGATATTAAT
** *
65092496 TTTTTTTAATTTGGTATTTAAATTTC
1 TTTTTTTAATTTGGTATCAAAATTTA
* *
65092522 TTTTATCTAATTTGTTATCAAAATTTGA
1 TTTT-TTTAATTTGGTATCAAAATTT-A
65092550 TTTTTTTAATTT
1 TTTTTTTAATTT
65092562 AGAATTTAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
26 4 0.12
27 24 0.75
28 4 0.12
ACGTcount: A:0.26, C:0.05, G:0.06, T:0.64
Consensus pattern (26 bp):
TTTTTTTAATTTGGTATCAAAATTTA
Found at i:65092986 original size:22 final size:21
Alignment explanation
Indices: 65092968--65093037 Score: 81
Period size: 22 Copynumber: 3.3 Consensus size: 21
65092958 TCCAAAAGAC
65092968 TTAAATACTAAATT-AAAAAA
1 TTAAATACTAAATTAAAAAAA
*
65092988 TTAAATACCAAA-TAGAAAAAA
1 TTAAATACTAAATTA-AAAAAA
*
65093009 TTTTAATACTAAATTAAAAAAAA
1 -TTAAATACTAAATT-AAAAAAA
65093032 TTAAAT
1 TTAAAT
65093038 TCAAATACCA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 1 0.02
20 11 0.27
21 6 0.15
22 15 0.37
23 7 0.17
24 1 0.02
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.30
Consensus pattern (21 bp):
TTAAATACTAAATTAAAAAAA
Found at i:65092993 original size:20 final size:21
Alignment explanation
Indices: 65092968--65093029 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 21
65092958 TCCAAAAGAC
65092968 TTAAATACTAAATTAAAAAA-
1 TTAAATACTAAATTAAAAAAT
* *
65092988 TTAAATACCAAATAGAAAAAAT
1 TTAAATACTAAAT-TAAAAAAT
*
65093010 TTTAATACTAAATTAAAAAA
1 TTAAATACTAAATTAAAAAA
65093030 AATTAAATTC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 12 0.34
21 12 0.34
22 11 0.31
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (21 bp):
TTAAATACTAAATTAAAAAAT
Found at i:65102080 original size:11 final size:11
Alignment explanation
Indices: 65102064--65102138 Score: 105
Period size: 11 Copynumber: 6.8 Consensus size: 11
65102054 TATAAAAAAA
65102064 TATTATTATTT
1 TATTATTATTT
65102075 TATTATTATTT
1 TATTATTATTT
*
65102086 TGTTATTATTT
1 TATTATTATTT
*
65102097 TATTGTTATTT
1 TATTATTATTT
* *
65102108 CATTATTATAT
1 TATTATTATTT
*
65102119 TACTATTATTT
1 TATTATTATTT
65102130 TATTATTAT
1 TATTATTAT
65102139 CGTTTAGATA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 54 1.00
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (11 bp):
TATTATTATTT
Found at i:65102083 original size:14 final size:14
Alignment explanation
Indices: 65102064--65102138 Score: 84
Period size: 14 Copynumber: 5.4 Consensus size: 14
65102054 TATAAAAAAA
65102064 TATTATTATTTTAT
1 TATTATTATTTTAT
65102078 TATTATT-TTGTTAT
1 TATTATTATT-TTAT
65102092 TATT-TTATTGTTAT
1 TATTATTATT-TTAT
* *
65102106 T-TCATTATTATAT
1 TATTATTATTTTAT
*
65102119 TACTATTATTTTAT
1 TATTATTATTTTAT
65102133 TATTAT
1 TATTAT
65102139 CGTTTAGATA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
13 9 0.18
14 42 0.82
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (14 bp):
TATTATTATTTTAT
Found at i:65103144 original size:16 final size:16
Alignment explanation
Indices: 65103122--65103190 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
65103112 TTTGGTTCGC
65103122 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
65103138 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
65103154 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
65103171 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
65103187 TGTA
1 TGTA
65103191 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:65103168 original size:33 final size:32
Alignment explanation
Indices: 65103122--65103190 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
65103112 TTTGGTTCGC
65103122 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
65103154 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
65103187 TGTA
1 TGTA
65103191 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:65103255 original size:44 final size:45
Alignment explanation
Indices: 65103171--65103261 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
65103161 GGATTAGAGG
* * *
65103171 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
65103216 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
65103260 TG
1 TG
65103262 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:65103447 original size:18 final size:17
Alignment explanation
Indices: 65103426--65103460 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
65103416 TTATTATTAA
*
65103426 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
65103444 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
65103461 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:65111870 original size:37 final size:37
Alignment explanation
Indices: 65111811--65111891 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
65111801 ATAATCACAT
* * * *
65111811 ATTTACATGTCACTTTTTAATATATTAAGTAAATACC
1 ATTTCCATGTCACGTTTCAATATATCAAGTAAATACC
* *
65111848 ATTTCCATGTCACGTTTCAATATATCATGTAAATATC
1 ATTTCCATGTCACGTTTCAATATATCAAGTAAATACC
65111885 ATTTCCA
1 ATTTCCA
65111892 AGTATTTCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.42
Consensus pattern (37 bp):
ATTTCCATGTCACGTTTCAATATATCAAGTAAATACC
Found at i:65123281 original size:11 final size:10
Alignment explanation
Indices: 65123260--65123285 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
65123250 GCTCTCTCTC
65123260 TTTTCTTTTT
1 TTTTCTTTTT
65123270 TTTTCTTTTT
1 TTTTCTTTTT
65123280 TTTTCT
1 TTTTCT
65123286 GAAATGGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:65125818 original size:17 final size:18
Alignment explanation
Indices: 65125798--65125832 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
65125788 AAAATTAATT
65125798 ATGTT-TCAAAGAGTTCA
1 ATGTTCTCAAAGAGTTCA
*
65125815 ATGTTCTTAAAGAGTTCA
1 ATGTTCTCAAAGAGTTCA
65125833 TCTAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.37
Consensus pattern (18 bp):
ATGTTCTCAAAGAGTTCA
Found at i:65146259 original size:83 final size:85
Alignment explanation
Indices: 65146163--65146346 Score: 221
Period size: 83 Copynumber: 2.2 Consensus size: 85
65146153 ATTAATAACG
* * * * *
65146163 TGCAGGGGTCACACGGCC-AAGCCACACGCCCGTGTGCTAGGCCGTGTGAATAATTTGAGCATTC
1 TGCAGGGGACACACGGCCAAAG-CACACACCCGTGTGCTAGGCCGTGTGAAAAATTTAAGCATAC
*
65146227 TG-TTTTGC-AATTTATAAGA
65 TGATTGTGCAAATTTATAAGA
* * *
65146246 TGCAGGGGACACACAGCCAAAGCACACACCTGTGTGCTAGGCCGTGTGAAAAATTTAAGTATACT
1 TGCAGGGGACACACGGCCAAAGCACACACCCGTGTGCTAGGCCGTGTGAAAAATTTAAGCATACT
*
65146311 GACTTGTGCAAATTTTTAAGA
66 GA-TTGTGCAAATTTATAAGA
* *
65146332 TACAGGGGATACACG
1 TGCAGGGGACACACG
65146347 ACCGTGTCAC
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
83 54 0.64
84 3 0.04
85 5 0.06
86 22 0.26
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (85 bp):
TGCAGGGGACACACGGCCAAAGCACACACCCGTGTGCTAGGCCGTGTGAAAAATTTAAGCATACT
GATTGTGCAAATTTATAAGA
Found at i:65148127 original size:44 final size:44
Alignment explanation
Indices: 65148037--65148253 Score: 294
Period size: 44 Copynumber: 5.0 Consensus size: 44
65148027 ATACTCAGGA
* * * * *
65148037 ATCTCGCTCACTAATTGCCAATAT-ATAG-CCTAAGCTACCTCG
1 ATCTCGCACACTAAGTGCCAATATCATAGCCCGAAGCCAACTCG
* * *
65148079 ATCTCGCACACTAAGTGCCAATATCATAGCCCAAAGCTAGCTCG
1 ATCTCGCACACTAAGTGCCAATATCATAGCCCGAAGCCAACTCG
* *
65148123 ATCTCCCACACTAAGTGCCAATATCATGGCCCGAAGCCAACTCG
1 ATCTCGCACACTAAGTGCCAATATCATAGCCCGAAGCCAACTCG
* *
65148167 ATCTCGCACACTAAGTGCCAATATCATGGCCTGAAGCCAACTCG
1 ATCTCGCACACTAAGTGCCAATATCATAGCCCGAAGCCAACTCG
* *
65148211 ATCTCGCACACTAAGTGCCAATATCATCGCTCGAAGCCAACTC
1 ATCTCGCACACTAAGTGCCAATATCATAGCCCGAAGCCAACTC
65148254 AATGTAACCC
Statistics
Matches: 159, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
42 22 0.14
43 4 0.03
44 133 0.84
ACGTcount: A:0.30, C:0.33, G:0.15, T:0.22
Consensus pattern (44 bp):
ATCTCGCACACTAAGTGCCAATATCATAGCCCGAAGCCAACTCG
Found at i:65150101 original size:47 final size:47
Alignment explanation
Indices: 65150032--65150126 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
65150022 CCAATATAAC
65150032 AGAGTTCTTTAATTATGAACATATAAAACTTTATACGGTGCCATCTT
1 AGAGTTCTTTAATTATGAACATATAAAACTTTATACGGTGCCATCTT
65150079 AGAGTTCTTTAATTATGAACATATAAAACTTTATACGGTGCCATCTT
1 AGAGTTCTTTAATTATGAACATATAAAACTTTATACGGTGCCATCTT
65150126 A
1 A
65150127 TACTCGACTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (47 bp):
AGAGTTCTTTAATTATGAACATATAAAACTTTATACGGTGCCATCTT
Found at i:65154866 original size:98 final size:98
Alignment explanation
Indices: 65154688--65154880 Score: 305
Period size: 98 Copynumber: 2.0 Consensus size: 98
65154678 GTGTTGATTT
* * ** ** *
65154688 CCCACGTCAGCCCATTTTTTCCGTTTTTGGCCCGTTTCTTGTTCTTTTCACTCTCCCATGCTCAT
1 CCCACGTCAGCCCATTTTCTCCATTTTCAGCCCGTTTCTCATTCTTTTCACTCTCCCATGCTCAC
65154753 CTAAGTATAAAATATGAATTTAGAGGATTAGAA
66 CTAAGTATAAAATATGAATTTAGAGGATTAGAA
* *
65154786 CCCATGTCGGCCCATTTTCTCCATTTTCAGCCCGTTTCTCATTCTTTTCACTCTCCCATGCTCAC
1 CCCACGTCAGCCCATTTTCTCCATTTTCAGCCCGTTTCTCATTCTTTTCACTCTCCCATGCTCAC
65154851 CTAAGTATAAAATATGAATTTAGAGGATTA
66 CTAAGTATAAAATATGAATTTAGAGGATTA
65154881 AGAGCATCAA
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 86 1.00
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (98 bp):
CCCACGTCAGCCCATTTTCTCCATTTTCAGCCCGTTTCTCATTCTTTTCACTCTCCCATGCTCAC
CTAAGTATAAAATATGAATTTAGAGGATTAGAA
Found at i:65157026 original size:21 final size:21
Alignment explanation
Indices: 65156978--65157027 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
65156968 CAATCAAAGC
*
65156978 GTTGAGCGGAGATGTTGAATT
1 GTTGAGTGGAGATGTTGAATT
65156999 GTTGAGTGGAGATGTTGAATT
1 GTTGAGTGGAGATGTTGAATT
65157020 GTTGAGTG
1 GTTGAGTG
65157028 CAATAGTCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.02, G:0.40, T:0.36
Consensus pattern (21 bp):
GTTGAGTGGAGATGTTGAATT
Done.