Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2750
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: 130699
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
File 1 of 2
Found at i:2477 original size:28 final size:27
Alignment explanation
Indices: 2410--2482 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
2400 CTTCACAATC
* *
2410 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
2437 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
2465 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
2483 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:2527 original size:51 final size:51
Alignment explanation
Indices: 2465--2635 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
2455 TTATTTCTGA
* * *
2465 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
2516 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
2569 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
2621 GAGGATACTCCAACC
1 GGGGATACTCCAACC
2636 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.19
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:2654 original size:28 final size:28
Alignment explanation
Indices: 2618--2699 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
2608 ATTTTTCACA
*
2618 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
2646 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
2674 --CGAGGGAACACTCCAACCTTGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
2700 ATCTCCAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 40 0.89
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:4268 original size:51 final size:51
Alignment explanation
Indices: 4144--4269 Score: 173
Period size: 50 Copynumber: 2.5 Consensus size: 51
4134 AAAAGTTACA
* * * *
4144 TTTTTCCCCAGATGTATCGATACATTTTTCAATGCATCGATACATTCTATC
1 TTTTTACCCAGATGTATCGATACATGTATCAATACATCGATACATTCTATC
* * *
4195 -TTTTACCTAGATGTATCGATACATGTATGAATATATCGATACATTCTATC
1 TTTTTACCCAGATGTATCGATACATGTATCAATACATCGATACATTCTATC
*
4245 TTTTTACCCAGATGTATTGATACAT
1 TTTTTACCCAGATGTATCGATACAT
4270 CTAGTTAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
50 43 0.66
51 22 0.34
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (51 bp):
TTTTTACCCAGATGTATCGATACATGTATCAATACATCGATACATTCTATC
Found at i:6363 original size:13 final size:13
Alignment explanation
Indices: 6345--6369 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6335 CATAAAGTGT
6345 TGTATCGATACAA
1 TGTATCGATACAA
6358 TGTATCGATACA
1 TGTATCGATACA
6370 TATTTTTTTG
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:6367 original size:33 final size:33
Alignment explanation
Indices: 6325--6391 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
6315 TTCAACGATT
6325 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
6358 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
6391 T
1 T
6392 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:6508 original size:52 final size:51
Alignment explanation
Indices: 6445--6593 Score: 217
Period size: 52 Copynumber: 2.9 Consensus size: 51
6435 ATCGATATCT
**
6445 TGTATCGATACACTGATCTTTGTATTGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATCAATGTATTGATACATGCAGGCAAATTTGCCCAGA
* *
6497 TGTATCGATACATTATAAAATGTATTGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT-CAATGTATTGATACATGCAGGCAAATTTGCCCAGA
* *
6549 TGTATCGATACACTATTCAATGTATCGATACATGCAGACAAATTT
1 TGTATCGATACACTA-TCAATGTATTGATACATGCAGGCAAATTT
6594 TCATATTTCG
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.97
53 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (51 bp):
TGTATCGATACACTATCAATGTATTGATACATGCAGGCAAATTTGCCCAGA
Found at i:9801 original size:48 final size:48
Alignment explanation
Indices: 9730--9825 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
9720 TGGTTTCGTC
9730 GATTTCGGTCATTATTTGGCTATGATCCCTTTTCTACTTGTTTACTAA
1 GATTTCGGTCATTATTTGGCTATGATCCCTTTTCTACTTGTTTACTAA
*
9778 GATTTCGGTCATTATTTGGCTATGATCCCTTTTCTATTTGTTTACTAA
1 GATTTCGGTCATTATTTGGCTATGATCCCTTTTCTACTTGTTTACTAA
9826 TTTCTTTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.49
Consensus pattern (48 bp):
GATTTCGGTCATTATTTGGCTATGATCCCTTTTCTACTTGTTTACTAA
Found at i:20490 original size:1 final size:1
Alignment explanation
Indices: 20484--20549 Score: 60
Period size: 1 Copynumber: 66.0 Consensus size: 1
20474 CGTCCTCCAC
* * * * * * * *
20484 AAAAAAAGAAAAAAAAAACAAAACAAAAAAAAAGAACAACAAAAAACAAAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
20549 A
1 A
20550 GGGGTCCGGA
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:20499 original size:10 final size:10
Alignment explanation
Indices: 20482--20549 Score: 79
Period size: 10 Copynumber: 7.1 Consensus size: 10
20472 GACGTCCTCC
*
20482 ACAAAAAAAG
1 ACAAAAAAAA
20492 A-AAAAAAAA
1 ACAAAAAAAA
*
20501 AC-AAAACAA
1 ACAAAAAAAA
*
20510 A-AAAAAAGA
1 ACAAAAAAAA
*
20519 ACAACAAAAA
1 ACAAAAAAAA
20529 ACAAAAAAAA
1 ACAAAAAAAA
20539 ACAAAAAAAA
1 ACAAAAAAAA
20549 A
1 A
20550 GGGGTCCGGA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
9 21 0.44
10 27 0.56
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (10 bp):
ACAAAAAAAA
Found at i:22036 original size:29 final size:30
Alignment explanation
Indices: 21989--22045 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
21979 TCACCCTTCA
*
21989 AAAGCCCACAAGTCGGTGGCA-TCTTTTCC
1 AAAGCCCACAACTCGGTGGCACTCTTTTCC
* *
22018 AAAGTCCACAACTCTGTGGCACTCTTTT
1 AAAGCCCACAACTCGGTGGCACTCTTTT
22046 TCTTTTGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (30 bp):
AAAGCCCACAACTCGGTGGCACTCTTTTCC
Found at i:22114 original size:34 final size:36
Alignment explanation
Indices: 22023--22114 Score: 120
Period size: 35 Copynumber: 2.7 Consensus size: 36
22013 TTTCCAAAGT
22023 CCACAACTCT-GTGGCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGC
* *
22058 TCACAACTCTA-TAGCACTCTTTTTCTTTT-TAAGC
1 CCACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGC
* *
22092 CCACAAGT-TAGTGGCACCCTTTT
1 CCACAACTCTAGTGGCACTCTTTT
22115 CAAAAGCCCA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
33 2 0.04
34 21 0.43
35 26 0.53
ACGTcount: A:0.21, C:0.28, G:0.12, T:0.39
Consensus pattern (36 bp):
CCACAACTCTAGTGGCACTCTTTTTCTTTTGTAAGC
Found at i:22156 original size:28 final size:29
Alignment explanation
Indices: 22088--22211 Score: 157
Period size: 28 Copynumber: 4.3 Consensus size: 29
22078 TTTTCTTTTT
* *
22088 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC-TTTCAA
22118 AAGCCCACAAGTCAGTGGCAACCTTT-AA
1 AAGCCCACAAGTCAGTGGCAACCTTTCAA
22146 AAGCCCACAAGTCAGTGGCAACC-TTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTCAA
* *
22174 AAGCACACAAGT-TGAT-GCAAACCTTTCAA
1 AAGCCCACAAGTCAG-TGGC-AACCTTTCAA
22203 AAGCCCACA
1 AAGCCCACA
22212 CAAGTTGGTG
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
27 5 0.06
28 43 0.51
29 16 0.19
30 21 0.25
ACGTcount: A:0.36, C:0.30, G:0.16, T:0.18
Consensus pattern (29 bp):
AAGCCCACAAGTCAGTGGCAACCTTTCAA
Found at i:22388 original size:43 final size:43
Alignment explanation
Indices: 22327--22416 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
22317 GCACCTTCAT
*
22327 CTTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
* *
22370 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
22413 CTTT
1 CTTT
22417 TCCATCTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCAC
Found at i:22411 original size:92 final size:94
Alignment explanation
Indices: 22277--22458 Score: 305
Period size: 92 Copynumber: 1.9 Consensus size: 94
22267 TGGCACCTTG
*
22277 CCTTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACC-TT-CATCTTTAAGTCCAAT
1 CCTTTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACCTTTCCATCTTTAAGTCCAAT
22340 GTAGCTGACCTTGAATCAGCACATTGGCA
66 GTAGCTGACCTTGAATCAGCACATTGGCA
* *
22369 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACC-TTTCCATCTTTAAGTCCAA
*
22434 TGTAGCTGGCCTTGAATCAGCACAT
65 TGTAGCTGACCTTGAATCAGCACAT
22459 CGACATCCTT
Statistics
Matches: 83, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
92 43 0.52
94 2 0.02
95 38 0.46
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.32
Consensus pattern (94 bp):
CCTTTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACCTTTCCATCTTTAAGTCCAAT
GTAGCTGACCTTGAATCAGCACATTGGCA
Found at i:22448 original size:52 final size:53
Alignment explanation
Indices: 22370--22523 Score: 168
Period size: 52 Copynumber: 2.9 Consensus size: 53
22360 ACATTGGCAC
*
22370 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * *
22422 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATCGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * * *
22477 CTTTAAGCCCAA-GATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATG-TAGCTGGCCTTGAATCAGCATATTGGCACCTTT
22524 ATCACTTTTC
Statistics
Matches: 83, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
52 37 0.45
53 5 0.06
54 7 0.08
55 34 0.41
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (53 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:22792 original size:52 final size:55
Alignment explanation
Indices: 22714--22835 Score: 162
Period size: 52 Copynumber: 2.3 Consensus size: 55
22704 TCCTCATCAC
* * *
22714 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
*
22766 CTTTAAGTTCC-ATGTAGCTAGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAG-TCCAATATAGCTAGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
*
22821 CTTTAAGCCCAATAT
1 CTTTAAGTCCAATAT
22836 CGTTGGCTGT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
52 34 0.58
53 5 0.08
54 7 0.12
55 13 0.22
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.36
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
Found at i:22917 original size:174 final size:174
Alignment explanation
Indices: 22370--22934 Score: 693
Period size: 174 Copynumber: 3.3 Consensus size: 174
22360 ACATTGGCAC
* *
22370 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTTAAGTTCCAT
* * *
22435 GTAGCTGGCCTTGAATCAGCACATCGACATCCTTTTTCTCATCTTTAAGCCCAAGATCGTTGGCC
66 GTAGCTAGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
22500 GTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
131 GTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
* * **
22544 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTT--ATCTTCGAG--CCTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTTAAGTTCC--
* * ** * * * * * * * *
22604 ATATCGCTAGCC--GCATATTGGCTCCTT--TATCCCTTTTCTTATCTCTAAACCCAATATTGTT
64 ATGTAGCTAGCCTTG-A-ATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTT
** * * * * * *
22665 GGCCGTGAATCAATGTATTGGTCCT-TTTATCACTCTCCATCCTCATCAC
127 GGCCGTGAATCAACATATTGG-CATCTTTATCACTTTTC-TCATCTTCAT
*
22714 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTTAAGTTCCAT
*
22779 GTAGCTAGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCT
66 GTAGCTAGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
22844 GTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
131 GTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
* *
22888 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACA-TGGTCACCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG-CACCTTT
22935 ATCTTTGAGC
Statistics
Matches: 316, Mismatches: 58, Indels: 34
0.77 0.14 0.08
Matches are distributed among these distances:
169 59 0.19
170 51 0.16
171 25 0.08
173 30 0.09
174 91 0.29
175 60 0.19
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.36
Consensus pattern (174 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTTAAGTTCCAT
GTAGCTAGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
GTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
Found at i:23040 original size:169 final size:170
Alignment explanation
Indices: 22463--23100 Score: 720
Period size: 169 Copynumber: 3.7 Consensus size: 170
22453 GCACATCGAC
* * * *
22463 ATCCTTTTTCTCATCTTTAAGCCCAAGATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA
1 ATCCCTTTTCTCATCTCTAAACCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA
* *
22528 CTTTTC-TCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
66 CTTTTCATCATCATCACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
*
22592 TCTTCGAGCCTAATATCGCTAGCCGCATATTGGCTCCTTT
131 TCTTTGAGCCTAATATCGCTAGCCGCATATTGGCTCCTTT
* * ** *
22632 ATCCCTTTTCTTATCTCTAAACCCAATATTGTTGGCCGTGAATCAATGTATTGGTCCT-TTTATC
1 ATCCCTTTTCTCATCTCTAAACCCAATATCGTTGGCCGTGAATCAACATATTGG-CATCTTTATC
* * * * * *
22696 ACTCTCCATCCTCATCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
65 ACTTTTCATCATCATCACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TT
* * * ** * * *
22761 TCCATCTTTAAGTTCC--ATGTAGCTAGCCTTG-A-ATCAGCACATTGAC
129 T--ATCTTTGAG--CCTAATATCGCTAGCC--GCATATTGGCTCCTT--T
* * * *
22807 ATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCTGTGAATCAACATATTGGCATCTTTATCA
1 ATCCCTTTTCTCATCTCTAAACCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA
* *
22872 CTTTTC-TCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACA-TGGTCACCTTT
66 CTTTTCATCATCATCACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG-CACCTTT
22935 ATCTTTGAGCCTAATATCGCTAGCCGCATATTGGCTCCTTT
130 ATCTTTGAGCCTAATATCGCTAGCCGCATATTGGCTCCTTT
* * *
22976 ATCCCTTTTCTCATCTCTAAACCCAATATCGTTGGCCGAGAATCAACGTATTGGTCCT-TTTATC
1 ATCCCTTTTCTCATCTCTAAACCCAATATCGTTGGCCGTGAATCAACATATTGG-CATCTTTATC
* * * * * *
23040 ACTATTCATCCTCATCACCTTTAAGTCCAGTGT-GACAGGCCTTGAATCTGCACAGTGGCAC
65 ACTTTTCATCATCATCACCTTTAAGTCCAATGTCG-CTGGCCTTGAATCAGCACATTGGCAC
23101 ATTGCAACAC
Statistics
Matches: 383, Mismatches: 65, Indels: 41
0.78 0.13 0.08
Matches are distributed among these distances:
169 121 0.32
170 94 0.25
171 31 0.08
173 30 0.08
174 47 0.12
175 60 0.16
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (170 bp):
ATCCCTTTTCTCATCTCTAAACCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA
CTTTTCATCATCATCACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
TCTTTGAGCCTAATATCGCTAGCCGCATATTGGCTCCTTT
Found at i:23087 original size:344 final size:344
Alignment explanation
Indices: 22367--23068 Score: 1280
Period size: 344 Copynumber: 2.0 Consensus size: 344
22357 AGCACATTGG
22367 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTC
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTC
*
22432 AATGTAGCTGGCCTTGAATCAGCACATCGACATCCTTTTTCTCATCTTTAAGCCCAAGATCGTTG
66 AATGTAGCTAGCCTTGAATCAGCACATCGACATCCTTTTTCTCATCTTTAAGCCCAAGATCGTTG
22497 GCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGC
131 GCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGC
22562 TGGCCTTGAATCAGCACATTGGCACCTTTATCTTCGAGCCTAATATCGCTAGCCGCATATTGGCT
196 TGGCCTTGAATCAGCACATTGGCACCTTTATCTTCGAGCCTAATATCGCTAGCCGCATATTGGCT
* * * *
22627 CCTTTATCCCTTTTCTTATCTCTAAACCCAATATTGTTGGCCGTGAATCAATGTATTGGTCCTTT
261 CCTTTATCCCTTTTCTCATCTCTAAACCCAATATCGTTGGCCGAGAATCAACGTATTGGTCCTTT
*
22692 TATCACTCTCCATCCTCAT
326 TATCACTATCCATCCTCAT
22711 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTC
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTC
* * *
22776 CATGTAGCTAGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTG
66 AATGTAGCTAGCCTTGAATCAGCACATCGACATCCTTTTTCTCATCTTTAAGCCCAAGATCGTTG
*
22841 GCTGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGC
131 GCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGC
*
22906 TGGCCTTGAATCAGCACA-TGGTCACCTTTATCTTTGAGCCTAATATCGCTAGCCGCATATTGGC
196 TGGCCTTGAATCAGCACATTGG-CACCTTTATCTTCGAGCCTAATATCGCTAGCCGCATATTGGC
22970 TCCTTTATCCCTTTTCTCATCTCTAAACCCAATATCGTTGGCCGAGAATCAACGTATTGGTCCTT
260 TCCTTTATCCCTTTTCTCATCTCTAAACCCAATATCGTTGGCCGAGAATCAACGTATTGGTCCTT
*
23035 TTATCACTATTCATCCTCAT
325 TTATCACTATCCATCCTCAT
23055 CACCTTTAAGTCCA
1 CACCTTTAAGTCCA
23069 GTGTGACAGG
Statistics
Matches: 345, Mismatches: 12, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
343 3 0.01
344 342 0.99
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (344 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTC
AATGTAGCTAGCCTTGAATCAGCACATCGACATCCTTTTTCTCATCTTTAAGCCCAAGATCGTTG
GCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGC
TGGCCTTGAATCAGCACATTGGCACCTTTATCTTCGAGCCTAATATCGCTAGCCGCATATTGGCT
CCTTTATCCCTTTTCTCATCTCTAAACCCAATATCGTTGGCCGAGAATCAACGTATTGGTCCTTT
TATCACTATCCATCCTCAT
Found at i:23805 original size:13 final size:13
Alignment explanation
Indices: 23787--23811 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23777 ATTACGCAAA
23787 TGTATCGATACAT
1 TGTATCGATACAT
23800 TGTATCGATACA
1 TGTATCGATACA
23812 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:29754 original size:48 final size:48
Alignment explanation
Indices: 29680--29811 Score: 201
Period size: 48 Copynumber: 2.8 Consensus size: 48
29670 AGAGGAGTGC
** * * *
29680 CAATGTGCCAATTCAAGGCCAACGACATCGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAAAGGAAAAATGGA
*
29728 CAATGTGCTGATTCAAGGCCATCGACATTGAGCTAAAGGAAAAATGGA
1 CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAAAGGAAAAATGGA
*
29776 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA
1 CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAA
29812 TAAAGGTGCC
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 77 1.00
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.19
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAAAGGAAAAATGGA
Found at i:29958 original size:58 final size:53
Alignment explanation
Indices: 29889--30055 Score: 140
Period size: 56 Copynumber: 3.0 Consensus size: 53
29879 GAAAAGGGTT
* * *
29889 GCCATCGACTTGCGTGAGCTTTTAAAAAAAGATGCTACTAACTTATGTGGGCTTTGAA
1 GCCACCGACTTGAGTGAGC-TTT--AAAAAGATGCCACTAAC-T-TGTGGGCTTTGAA
* *
29947 GCCACCGACTTGAGTGAGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGA
1 GCCACCGACTTGAGTGAGCTTTAAAAAGATGCCACTAACTTGTGGGCTTTG--A--A
* * * * *
30004 TGCCACTGACTT--GTGGGCATTGAAAGGATGCCACTAACTTGTGGGCTTTGAA
1 -GCCACCGACTTGAGTGAGCTTTAAAAAGATGCCACTAACTTGTGGGCTTTGAA
30056 AAGATGCCAC
Statistics
Matches: 96, Mismatches: 8, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
52 1 0.01
53 11 0.11
54 2 0.02
55 15 0.16
56 36 0.38
57 4 0.04
58 27 0.28
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (53 bp):
GCCACCGACTTGAGTGAGCTTTAAAAAGATGCCACTAACTTGTGGGCTTTGAA
Found at i:30143 original size:32 final size:28
Alignment explanation
Indices: 29964--30273 Score: 314
Period size: 28 Copynumber: 10.6 Consensus size: 28
29954 ACTTGAGTGA
*
29964 GCTTTGAAAGGATGCCACTAACTTGTGG
1 GCTTTGAAAGGATGCCACTGACTTGTGG
29992 GCTTTGAAAGGATGCCACTGACTTGTGG
1 GCTTTGAAAGGATGCCACTGACTTGTGG
* *
30020 GCATTGAAAGGATGCCACTAACTTGTGG
1 GCTTTGAAAGGATGCCACTGACTTGTGG
* * *
30048 GCTTTGAAAAGATGCCACTAATTTGTGTGG
1 GCTTTGAAAGGATGCCACTGA-CT-TGTGG
30078 GCTTTGAGAAGGATGCCACTGACTTGTGG
1 GCTTTGA-AAGGATGCCACTGACTTGTGG
* *
30107 GCTTTGAAATGGGTTGCCACCGACTTGTGTGG
1 GCTTTGAAA--GGATGCCACTGAC-T-TGTGG
* * *
30139 GCTTTCAAATGAGTTGCCACCGACTTGTGTGG
1 GCTTTGAAA-G-GATGCCACTGAC-T-TGTGG
** *
30171 GCTTTGAAATAATGCCACTAACTTGTGG
1 GCTTTGAAAGGATGCCACTGACTTGTGG
** * *
30199 GCTTAAAAAGGGGTACCACTGACTTGTGG
1 GCTTTGAAA-GGATGCCACTGACTTGTGG
* *
30228 GCTTTGGAAGGGTGCCACTGACTTGTGG
1 GCTTTGAAAGGATGCCACTGACTTGTGG
**
30256 GCTTAAAAAGGATGCCAC
1 GCTTTGAAAGGATGCCAC
30274 GAAGCTGTGG
Statistics
Matches: 239, Mismatches: 34, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
28 118 0.49
29 34 0.14
30 32 0.13
31 14 0.06
32 41 0.17
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (28 bp):
GCTTTGAAAGGATGCCACTGACTTGTGG
Found at i:30220 original size:121 final size:117
Alignment explanation
Indices: 29970--30254 Score: 321
Period size: 121 Copynumber: 2.4 Consensus size: 117
29960 GTGAGCTTTG
* * * *
29970 AAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGAC-T-TGTGGGCATTGAAAGGAT
1 AAAGGATACCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGTGGGCATTCAAAGGAT
* * *
30033 GCCACTAACTTGTGGGCTTTGAAAAGATGCCACTAATTTGTGTGGGCTTTGA
66 GCCACCAACTTGTGGGCTTTGAAAAGATGCCACTAATCTGTGTGGGCTTTAA
* * * *
30085 GAAGGATGCCACTGACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTCAAATG
1 AAAGGATACCACTGACTTGTGGGCTTTGAAA-GGG-TGCCACTGACTTGTGTGGGCATTCAAA-G
* *
30150 AGTTGCCACCGACTTGTGTGGGCTTTGAAATA-ATGCCACTAA-CT-TGTGGGC-TTAA
63 -GATGCCACCAAC-T-TGTGGGCTTTGAAA-AGATGCCACTAATCTGTGTGGGCTTTAA
* *
30205 AAAGGGGTACCACTGACTTGTGGGCTTTGGAAGGGTGCCACTGACTTGTG
1 AAA-GGATACCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTG
30255 GGCTTAAAAA
Statistics
Matches: 144, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
115 29 0.20
116 2 0.01
117 9 0.06
118 1 0.01
119 26 0.18
120 9 0.06
121 41 0.28
122 2 0.01
123 24 0.17
124 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (117 bp):
AAAGGATACCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGTGGGCATTCAAAGGAT
GCCACCAACTTGTGGGCTTTGAAAAGATGCCACTAATCTGTGTGGGCTTTAA
Found at i:30299 original size:27 final size:27
Alignment explanation
Indices: 30250--30615 Score: 323
Period size: 27 Copynumber: 13.4 Consensus size: 27
30240 TGCCACTGAC
*
30250 TTGTGGGCTTAAAAAGGATGCCACGAAG
1 TTGTGGACTTAAAAAGG-TGCCACGAAG
* *
30278 CTGTGGACTTAAAAAAGTGCCACGAAG
1 TTGTGGACTTAAAAAGGTGCCACGAAG
* * * *
30305 TTATGGACGTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAAGGTGCCACGAAG
* ** *
30332 TTGTGGACTTTAAAAGAACGCCACGGAG
1 TTGTGGACTTAAAAAG-GTGCCACGAAG
* * * *
30360 TTGTGGACTTGAAACGAATGCCACGGAG
1 TTGTGGACTTAAAAAG-GTGCCACGAAG
*
30388 TTGTGGACTTAAAAAGGTGCCACGGAG
1 TTGTGGACTTAAAAAGGTGCCACGAAG
*
30415 TTGTGGACTT-AAAAGGATGCCA-TAGAG
1 TTGTGGACTTAAAAAGG-TGCCACGA-AG
* *
30442 TTGTGAACTTAAAAGGGTGCCAC-ATAG
1 TTGTGGACTTAAAAAGGTGCCACGA-AG
* * * *
30469 TGGTAGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAAGGTGCCACGAAG
* *
30497 TTGTGGACTTCAAAGGGTGCCACGAAG
1 TTGTGGACTTAAAAAGGTGCCACGAAG
30524 TTGTGGACTT-AAAAGGATGCCAC-AGAG
1 TTGTGGACTTAAAAAGG-TGCCACGA-AG
30551 TTGTGGACTT-AAAAGGATGCCAC-AGAG
1 TTGTGGACTTAAAAAGG-TGCCACGA-AG
* **
30578 TTGTGAACTTCAAAAAGGTGCCACGGCG
1 TTGTGGACTT-AAAAAGGTGCCACGAAG
30606 TTGTGGACTT
1 TTGTGGACTT
30616 TGAAAAGAAA
Statistics
Matches: 287, Mismatches: 39, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
26 12 0.04
27 163 0.57
28 106 0.37
29 6 0.02
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.23
Consensus pattern (27 bp):
TTGTGGACTTAAAAAGGTGCCACGAAG
Found at i:30347 original size:82 final size:82
Alignment explanation
Indices: 30235--30615 Score: 389
Period size: 82 Copynumber: 4.6 Consensus size: 82
30225 TGGGCTTTGG
* * * * *
30235 AAGGGTGCCACTGACTTGTGGGCTTAAAAAGGATGCCACGAAGCTGTGGACTTAAAAAAGTGCCA
1 AAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGAAGTTGTGGACTTAAAAAAGTGCCA
* *
30300 C-GAAGTTATGGACGTAA
66 CAG-AGTTGTGGACTTAA
* * * *
30317 AAGGGTGCCACGGAGTTGTGGACTTTAAAAGAACGCCACGGAGTTGTGGACTTGAAACGAA-TGC
1 AAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGAAGTTGTGGACTT-AAA-AAAGTGC
*
30381 CACGGAGTTGTGGACTTAA
64 CACAGAGTTGTGGACTTAA
* * * **
30400 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCA-TAGAGTTGTGAACTTAAAAGGGTGCC
1 AAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGA-AGTTGTGGACTTAAAAAAGTGCC
* * *
30463 ACATAGTGGTAGACTTTAA
65 ACAGAGTTGTGGAC-TTAA
* * *
30482 AAGGGTGCCACGGAGTTGTGGAC-TTCAAAGGGTGCCACGAAGTTGTGGACTT-AAAAGGATGCC
1 AAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGAAGTTGTGGACTTAAAAAAG-TGCC
30545 ACAGAGTTGTGGACTTAA
65 ACAGAGTTGTGGACTTAA
* * * * **
30563 AAGGATGCCACAGAGTTGTGAACTTCAAAAAGG-TGCCACGGCGTTGTGGACTT
1 AAGGGTGCCACGGAGTTGTGGACTT-TAAAAGGATGCCACGAAGTTGTGGACTT
30616 TGAAAAGAAA
Statistics
Matches: 249, Mismatches: 40, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
81 46 0.18
82 151 0.61
83 49 0.20
84 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.22
Consensus pattern (82 bp):
AAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGAAGTTGTGGACTTAAAAAAGTGCCA
CAGAGTTGTGGACTTAA
Found at i:30506 original size:109 final size:108
Alignment explanation
Indices: 30261--30615 Score: 442
Period size: 109 Copynumber: 3.2 Consensus size: 108
30251 TGTGGGCTTA
* * * * * *
30261 AAAAGGATGCCACGAAGCTGTGGACTTAAAAAAGTGCCACGAAGTTATGGACGTAAAAGGGTGCC
1 AAAAGGATGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGATGCC
* * * * *
30326 ACGGAGTTGTGGACTTTAAAAGAACGCCACGGAGTTGTGGACTTG
66 ACAGAGTTGTGGAC-TTAAAAGGATGCCACAGAGTTGT-GACTTC
* * *
30371 AAACGAATGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGATGCC
1 AAAAGGATGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGATGCC
* * * * * *
30436 ATAGAGTTGTGAACTTAAAAGGGTGCCACATAGTGGTAGACTTT
66 ACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGT-GACTTC
* * *
30480 AAAAGGGTGCCACGGAGTTGTGGACTTCAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGATGCC
1 AAAAGGATGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGATGCC
30545 ACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGAACTTC
66 ACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTG-ACTTC
*
30589 AAAAAGG-TGCCACGGCGTTGTGGACTT
1 -AAAAGGATGCCACGGAGTTGTGGACTT
30616 TGAAAAGAAA
Statistics
Matches: 210, Mismatches: 33, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
108 1 0.00
109 136 0.65
110 73 0.35
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (108 bp):
AAAAGGATGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGATGCC
ACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGACTTC
Found at i:31969 original size:45 final size:43
Alignment explanation
Indices: 31894--31982 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 43
31884 TTTTTTGGGA
*
31894 TTTTTGTTGTTCATTTTTTATTTTGCTTTTG-CACTTCTTTTTG
1 TTTTTCTTGTTCATTTTTTATTTTGCTTTTGAC-CTTCTTTTTG
*
31937 TTTTTCTT-TTCATATTTTATACTTTTGCTTTTGACCTTGTTTTTG
1 TTTTTCTTGTTCAT-TTTT-TA-TTTTGCTTTTGACCTTCTTTTTG
31982 T
1 T
31983 CATTTTGAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
42 5 0.12
43 11 0.28
44 2 0.05
45 21 0.52
46 1 0.03
ACGTcount: A:0.09, C:0.12, G:0.10, T:0.69
Consensus pattern (43 bp):
TTTTTCTTGTTCATTTTTTATTTTGCTTTTGACCTTCTTTTTG
Found at i:37628 original size:21 final size:21
Alignment explanation
Indices: 37593--37634 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
37583 TAGCCTTTGA
37593 CCATGCATTTTTTTAACTATGTT
1 CCATGCA-TTTTTTAAC-ATGTT
37616 CCATGCA-TTTTTAACATGT
1 CCATGCATTTTTTAACATGT
37635 CTAGCATCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 8 0.42
23 7 0.37
ACGTcount: A:0.24, C:0.19, G:0.10, T:0.48
Consensus pattern (21 bp):
CCATGCATTTTTTAACATGTT
Found at i:39953 original size:2 final size:2
Alignment explanation
Indices: 39941--40094 Score: 130
Period size: 2 Copynumber: 85.0 Consensus size: 2
39931 TATTATGTTA
* *
39941 AT AT A- AT AT AT AT AT AT AT AT A- AT AT AT GT A- AC AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39979 AT AT AT -T AT AT -T AT AT -T AT AT -T AT AT -T AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
40015 -T AT AT -T AT AT AT ACT AT AT AT AGT AT -T AT AT AT AT AT ACT
1 AT AT AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT A-T
40055 AT AT AT AT -T AT -T AT AT AT -T AT AT AT -T AT -T AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
40091 AT AT
1 AT AT
40095 TTTTAATATT
Statistics
Matches: 127, Mismatches: 3, Indels: 44
0.73 0.02 0.25
Matches are distributed among these distances:
1 19 0.15
2 102 0.80
3 6 0.05
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (2 bp):
AT
Found at i:39954 original size:31 final size:33
Alignment explanation
Indices: 39916--40095 Score: 110
Period size: 32 Copynumber: 5.5 Consensus size: 33
39906 TTTTGTTAAT
*
39916 TATATATATTAATATTAT-TATGTTA-ATATAA
1 TATATATATTAATATTATATATGTAACATATAA
*
39947 TATATATA-TATATATAATATATGTAACATATAA
1 TATATATATTA-ATATTATATATGTAACATATAA
* ** *
39980 TATATTATATT-ATATTATAT-TATATTATATTA
1 TATA-TATATTAATATTATATATGTAACATATAA
**
40012 TAT-TATATTATATATACTATATATAGTATTATATATA
1 TATATATATTA-ATAT--TATATAT-GTAACATATA-A
* * *
40049 TATACTATATATATTATTATATAT-T-ATATATTA
1 TATA-TATAT-TAATATTATATATGTAACATATAA
40082 T-TATATATT-ATATT
1 TATATATATTAATATT
40096 TTTAATATTT
Statistics
Matches: 121, Mismatches: 13, Indels: 32
0.73 0.08 0.19
Matches are distributed among these distances:
29 4 0.03
30 9 0.07
31 19 0.16
32 23 0.19
33 20 0.17
34 14 0.12
35 3 0.02
36 8 0.07
37 11 0.09
39 8 0.07
40 2 0.02
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (33 bp):
TATATATATTAATATTATATATGTAACATATAA
Found at i:39961 original size:10 final size:10
Alignment explanation
Indices: 39941--40094 Score: 130
Period size: 9 Copynumber: 17.0 Consensus size: 10
39931 TATTATGTTA
39941 ATATA-ATAT
1 ATATATATAT
39950 ATATATATAT
1 ATATATATAT
39960 ATA-ATATAT
1 ATATATATAT
* *
39969 GTA-ACATAT
1 ATATATATAT
39978 A-ATATAT-T
1 ATATATATAT
39986 ATAT-TATAT
1 ATATATATAT
39995 -TATAT-TAT
1 ATATATATAT
40003 AT-TATAT-T
1 ATATATATAT
40011 ATAT-TATAT
1 ATATATATAT
40020 -TATATATACT
1 ATATATATA-T
40030 ATATATAGTAT
1 ATATATA-TAT
40041 -TATATATAT
1 ATATATATAT
40050 ATACTATATAT
1 ATA-TATATAT
40061 AT-TAT-TAT
1 ATATATATAT
40069 ATAT-TATAT
1 ATATATATAT
40078 AT-TAT-TAT
1 ATATATATAT
40086 ATAT-TATAT
1 ATATATATAT
40095 TTTTAATATT
Statistics
Matches: 121, Mismatches: 4, Indels: 40
0.73 0.02 0.24
Matches are distributed among these distances:
8 37 0.31
9 50 0.41
10 16 0.13
11 16 0.13
12 2 0.02
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (10 bp):
ATATATATAT
Found at i:40095 original size:5 final size:5
Alignment explanation
Indices: 39914--40087 Score: 123
Period size: 5 Copynumber: 34.4 Consensus size: 5
39904 TTTTTTGTTA
* *
39914 ATTAT A-TAT ATTAAT ATTATT ATGT-T AATAT AATAT ATATAT ATATAT
1 ATTAT ATTAT ATT-AT ATTA-T AT-TAT ATTAT ATTAT AT-TAT AT-TAT
* * *
39962 AATAT ATGTA- ACATAT AATAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT AT-TAT A-TTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
* *
40013 ATTAT ATTAT A-TAT ACTAT ATATAGT ATTAT A-TAT A-TAT ACTAT A-TAT
1 ATTAT ATTAT ATTAT ATTAT AT-TA-T ATTAT ATTAT ATTAT ATTAT ATTAT
40061 ATTAT -TATAT ATTAT A-TATT ATTAT AT
1 ATTAT AT-TAT ATTAT ATTA-T ATTAT AT
40088 ATTATATTTT
Statistics
Matches: 144, Mismatches: 7, Indels: 36
0.77 0.04 0.19
Matches are distributed among these distances:
4 24 0.17
5 88 0.61
6 28 0.19
7 4 0.03
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (5 bp):
ATTAT
Found at i:40783 original size:15 final size:15
Alignment explanation
Indices: 40763--40792 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
40753 ATATGTTTCC
40763 CTCCCCCTCAATAAT
1 CTCCCCCTCAATAAT
40778 CTCCCCCTCAATAAT
1 CTCCCCCTCAATAAT
40793 AAGGGTCACG
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:0.27, C:0.47, G:0.00, T:0.27
Consensus pattern (15 bp):
CTCCCCCTCAATAAT
Found at i:41814 original size:22 final size:21
Alignment explanation
Indices: 41789--41831 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
41779 AAAAAAAAAT
41789 AAATCATGATTTAAAAATTAAA
1 AAATCATGA-TTAAAAATTAAA
* * *
41811 AAATGATTATTAAAATTTAAA
1 AAATCATGATTAAAAATTAAA
41832 TTAAACTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (21 bp):
AAATCATGATTAAAAATTAAA
Found at i:42611 original size:2 final size:2
Alignment explanation
Indices: 42606--42647 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
42596 AAAAATGAAA
*
42606 AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
42648 TAAGAAAGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45137 original size:2 final size:2
Alignment explanation
Indices: 45130--45158 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
45120 GCAACATCAC
45130 AT AT 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 AT AT A
45159 GCATATACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45574 original size:21 final size:21
Alignment explanation
Indices: 45550--45594 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
45540 TTCAATTAAT
45550 TTTTAATTTTTTATT-TTATTA
1 TTTTAATTTTTTATTATTA-TA
*
45571 TTTTTATTTTTTATTATTATA
1 TTTTAATTTTTTATTATTATA
45592 TTT
1 TTT
45595 AAAATAGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTAATTTTTTATTATTATA
Found at i:45584 original size:7 final size:7
Alignment explanation
Indices: 45548--45585 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
45538 TTTTCAATTA
*
45548 ATTTTTA
1 ATTTTTT
45555 ATTTTTT
1 ATTTTTT
45562 ATTTTATT
1 ATTTT-TT
45570 A-TTTTT
1 ATTTTTT
45576 ATTTTTT
1 ATTTTTT
45583 ATT
1 ATT
45586 ATTATATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
6 3 0.11
7 22 0.79
8 3 0.11
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (7 bp):
ATTTTTT
Found at i:45584 original size:13 final size:14
Alignment explanation
Indices: 45557--45595 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
45547 AATTTTTAAT
45557 TTTTTATTTTATTA
1 TTTTTATTTTATTA
45571 TTTTTATTTT-TTA
1 TTTTTATTTTATTA
*
45584 TTATTATATTTA
1 TTTTTAT-TTTA
45596 AAATAGAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTATTTTATTA
Found at i:45707 original size:15 final size:14
Alignment explanation
Indices: 45689--45735 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
45679 TATTTATTTG
45689 TTTAATATCTAAAAT
1 TTTAATAT-TAAAAT
45704 TTTAAATATTAAATAT
1 TTT-AATATTAAA-AT
45720 TTATAAT-TTAAAAT
1 TT-TAATATTAAAAT
45734 TT
1 TT
45736 ATGTTTACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.14
15 12 0.41
16 12 0.41
17 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (14 bp):
TTTAATATTAAAAT
Found at i:45735 original size:14 final size:16
Alignment explanation
Indices: 45692--45737 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
45682 TTATTTGTTT
45692 AATATCTAAAATTT-TA
1 AATAT-TAAAATTTATA
45708 AATATTAAATATTTAT-
1 AATATTAAA-ATTTATA
45724 AAT-TTAAAATTTAT
1 AATATTAAAATTTAT
45738 GTTTACTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.21
15 9 0.32
16 12 0.43
17 1 0.04
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
AATATTAAAATTTATA
Found at i:46056 original size:12 final size:11
Alignment explanation
Indices: 46045--46116 Score: 52
Period size: 10 Copynumber: 7.2 Consensus size: 11
46035 GAAAAAAATA
46045 ATTAAAATAAT
1 ATTAAAATAAT
46056 ATT--AA-AAT
1 ATTAAAATAAT
46064 ATTAAAAT-AT
1 ATTAAAATAAT
46074 ATTAAAA-AAT
1 ATTAAAATAAT
*
46084 AATATAAAT-AT
1 ATTA-AAATAAT
*
46095 A-T-AAATATT
1 ATTAAAATAAT
*
46104 ATTAAAATTAT
1 ATTAAAATAAT
46115 AT
1 AT
46117 AATATAAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 18
0.69 0.06 0.26
Matches are distributed among these distances:
8 10 0.21
9 4 0.08
10 18 0.38
11 16 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
ATTAAAATAAT
Found at i:46070 original size:29 final size:31
Alignment explanation
Indices: 46038--46126 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 31
46028 TCTAGAAGAA
46038 AAAAATAATTAAAATAATATTA-AAATAT-T
1 AAAAATAATTAAAATAATATTATAAATATAT
*
46067 -AAAATATATTAAAA-AATAATATAAATATAT
1 AAAAATA-ATTAAAATAATATTATAAATATAT
* * *
46097 AAATATTATTAAAATTATATAATATAAATA
1 AAAAATAATTAAAA-TA-ATATTATAAATA
46127 ATTAAATTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
28 12 0.24
29 13 0.26
30 8 0.16
31 4 0.08
32 1 0.02
33 12 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (31 bp):
AAAAATAATTAAAATAATATTATAAATATAT
Found at i:46086 original size:31 final size:30
Alignment explanation
Indices: 46048--46139 Score: 93
Period size: 31 Copynumber: 3.0 Consensus size: 30
46038 AAAAATAATT
46048 AAAATAATATTAAA-ATATTAAA-ATATATTAA
1 AAAATAATA-TAAATATA-TAAATAT-TATTAA
46079 AAAATAATATAAATATATAAATATTATTAA
1 AAAATAATATAAATATATAAATATTATTAA
*
46109 AATTATATAATATAAATA-ATTAA-ATTATTAA
1 AA--A-ATAATATAAATATATAAATATTATTAA
46140 TTTTATATAA
Statistics
Matches: 55, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
30 16 0.29
31 22 0.40
32 5 0.09
33 12 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (30 bp):
AAAATAATATAAATATATAAATATTATTAA
Found at i:46093 original size:40 final size:39
Alignment explanation
Indices: 46037--46150 Score: 110
Period size: 40 Copynumber: 2.8 Consensus size: 39
46027 ATCTAGAAGA
46037 AAAAAATAATTAAAATAATATTAAA-A-TATTAAAA-TATATT
1 AAAAAATAATT-AAAT-ATA-TAAATATTATTAAAATTATA-T
46077 AAAAAATAATATAAATATATAAATATTATTAAAATTATAT
1 AAAAAATAAT-TAAATATATAAATATTATTAAAATTATAT
* *
46117 AATATAAATAATTAAAT-TATTAATTTTATATAAA
1 AA-A-AAATAATTAAATATATAAATATTAT-TAAA
46151 TACATAATTT
Statistics
Matches: 65, Mismatches: 2, Indels: 13
0.81 0.03 0.16
Matches are distributed among these distances:
38 4 0.06
39 4 0.06
40 35 0.54
41 15 0.23
42 7 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (39 bp):
AAAAAATAATTAAATATATAAATATTATTAAAATTATAT
Found at i:46146 original size:31 final size:32
Alignment explanation
Indices: 46082--46159 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 32
46072 ATATTAAAAA
*
46082 ATAATATAAATATATAAATATTATTAAAATTAT
1 ATAATATAAATA-ATTAATATTATTAAAATTAT
**
46115 ATAATATAAATAATTAA-ATTATTAATTTTAT
1 ATAATATAAATAATTAATATTATTAAAATTAT
*
46146 ATAA-ATACATAATT
1 ATAATATAAATAATT
46160 TTTAAATATT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
30 9 0.22
31 16 0.39
32 4 0.10
33 12 0.29
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (32 bp):
ATAATATAAATAATTAATATTATTAAAATTAT
Found at i:57079 original size:22 final size:21
Alignment explanation
Indices: 57027--57076 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 21
57017 ATTTATAATT
*
57027 ATTTATTAAATTATT-ATAAA
1 ATTTATTTAATTATTAATAAA
57047 A-TT-TTT-ATTATTAATAAA
1 ATTTATTTAATTATTAATAAA
57065 ATTTATTTAATT
1 ATTTATTTAATT
57077 TATAAGTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 6 0.24
18 8 0.32
19 4 0.16
20 4 0.16
21 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTATTTAATTATTAATAAA
Found at i:57081 original size:18 final size:18
Alignment explanation
Indices: 57017--57081 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 18
57007 TGATAAAAAT
* *
57017 ATTTATAATTATTTATTAA
1 ATTTATAA-AATTTATTTA
*
57036 ATTATTATAAAATTT-TTATT
1 A-T-TTATAAAATTTATT-TA
*
57056 ATTAATAAAATTTATTTA
1 ATTTATAAAATTTATTTA
57074 ATTTATAA
1 ATTTATAA
57082 GTAAAAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
18 18 0.50
19 6 0.17
20 6 0.17
21 6 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTATAAAATTTATTTA
Found at i:57318 original size:20 final size:22
Alignment explanation
Indices: 57293--57338 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
57283 ATTTTATATC
57293 ATATTAAAATAATA-AATTT-T
1 ATATTAAAATAATATAATTTGT
**
57313 ATATTAATTTAATATAATTTGT
1 ATATTAAAATAATATAATTTGT
57335 ATAT
1 ATAT
57339 GTAACAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 5 0.23
22 5 0.23
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
ATATTAAAATAATATAATTTGT
Found at i:57324 original size:25 final size:25
Alignment explanation
Indices: 57282--57330 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
57272 TCATACTTTT
*
57282 AATTTTATATCATATTAAAATAATA
1 AATTTTATATAATATTAAAATAATA
*
57307 AATTTTATATTAAT-TTAATATAAT
1 AATTTTATA-TAATATTAAAATAAT
57331 TTGTATATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
AATTTTATATAATATTAAAATAATA
Found at i:58380 original size:2 final size:2
Alignment explanation
Indices: 58373--58398 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
58363 AAGATGAAAC
58373 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
58399 GTATGTATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62838 original size:13 final size:15
Alignment explanation
Indices: 62804--62840 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
62794 AATTTTTTTT
*
62804 ATTGATTTTGTGTTG
1 ATTGTTTTTGTGTTG
62819 ATTGTTTTTGTG-TG
1 ATTGTTTTTGTGTTG
62833 -TTGTTTTT
1 ATTGTTTTT
62841 TTTTTCTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.38
14 2 0.10
15 11 0.52
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (15 bp):
ATTGTTTTTGTGTTG
Found at i:63469 original size:40 final size:41
Alignment explanation
Indices: 63414--63499 Score: 147
Period size: 40 Copynumber: 2.1 Consensus size: 41
63404 AAATTAAAAA
*
63414 TATAATATTAAATTTAATAATCAATTT-TTAAAATATTAAT
1 TATATTATTAAATTTAATAATCAATTTATTAAAATATTAAT
*
63454 TATATTATTAAATTTAATAATTAATTTATTAAAATATTAAT
1 TATATTATTAAATTTAATAATCAATTTATTAAAATATTAAT
63495 TATAT
1 TATAT
63500 AAAAAATTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
40 25 0.58
41 18 0.42
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (41 bp):
TATATTATTAAATTTAATAATCAATTTATTAAAATATTAAT
Found at i:64333 original size:13 final size:13
Alignment explanation
Indices: 64311--64345 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
64301 AAAAAATATT
64311 TAAAAT-TAATTA
1 TAAAATATAATTA
64323 TAAAATATAATTA
1 TAAAATATAATTA
*
64336 TGAAATATAA
1 TAAAATATAA
64346 AAATATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
TAAAATATAATTA
Found at i:64363 original size:9 final size:9
Alignment explanation
Indices: 64338--64426 Score: 56
Period size: 9 Copynumber: 9.7 Consensus size: 9
64328 TATAATTATG
64338 AAATA-TAA
1 AAATATTAA
64346 AAATA-TAA
1 AAATATTAA
64354 AAATATTAA
1 AAATATTAA
**
64363 ATTTATATAA
1 AAATAT-TAA
*
64373 AAATAATAA
1 AAATATTAA
*
64382 ATATATTAA
1 AAATATTAA
64391 AATTTATATTAA
1 AA---ATATTAA
* *
64403 ATATATTTA
1 AAATATTAA
* *
64412 TATTATTAA
1 AAATATTAA
64421 AAATAT
1 AAATAT
64427 ATGTAATATG
Statistics
Matches: 60, Mismatches: 16, Indels: 9
0.71 0.19 0.11
Matches are distributed among these distances:
8 13 0.22
9 33 0.55
10 6 0.10
12 8 0.13
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AAATATTAA
Found at i:64372 original size:19 final size:19
Alignment explanation
Indices: 64348--64392 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
64338 AAATATAAAA
* *
64348 ATATAAAAATATTAAATTT
1 ATATAAAAATAATAAATAT
64367 ATATAAAAATAATAAATAT
1 ATATAAAAATAATAAATAT
64386 AT-TAAAA
1 ATATAAAA
64393 TTTATATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
ATATAAAAATAATAAATAT
Found at i:64375 original size:28 final size:28
Alignment explanation
Indices: 64340--64408 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 28
64330 TAATTATGAA
64340 ATATAAAAATATAAAAATATT-AAATTT
1 ATATAAAAATATAAAAATATTAAAATTT
*
64367 ATATAAAAATAATAAATATATTAAAATTT
1 ATATAAAAAT-ATAAAAATATTAAAATTT
*
64396 ATATTAAATATAT
1 ATA-TAAAAATAT
64409 TTATATTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
27 10 0.27
28 10 0.27
29 11 0.30
30 6 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (28 bp):
ATATAAAAATATAAAAATATTAAAATTT
Found at i:64386 original size:17 final size:17
Alignment explanation
Indices: 64338--64393 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 17
64328 TATAATTATG
*
64338 AAAT-ATAAAAATATAA
1 AAATAATAAATATATAA
*
64354 AAATATTAAATTTATATAA
1 AAATAATAAA--TATATAA
*
64373 AAATAATAAATATATTA
1 AAATAATAAATATATAA
64390 AAAT
1 AAAT
64394 TTATATTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
16 4 0.12
17 14 0.42
19 15 0.45
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATAATAAATATATAA
Found at i:64414 original size:29 final size:29
Alignment explanation
Indices: 64340--64399 Score: 97
Period size: 27 Copynumber: 2.1 Consensus size: 29
64330 TAATTATGAA
*
64340 ATATAAAAAT-ATAAAAATATT-AAATTT
1 ATATAAAAATAATAAATATATTAAAATTT
64367 ATATAAAAATAATAAATATATTAAAATTT
1 ATATAAAAATAATAAATATATTAAAATTT
64396 ATAT
1 ATAT
64400 TAAATATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 10 0.33
28 10 0.33
29 10 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (29 bp):
ATATAAAAATAATAAATATATTAAAATTT
Found at i:68500 original size:6 final size:6
Alignment explanation
Indices: 68477--68514 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
68467 AAACATATCT
*
68477 TCTTTG TCTGTT- TCTTTG TCTTTG TCTTTG TCTATG TC
1 TCTTTG TCT-TTG TCTTTG TCTTTG TCTTTG TCTTTG TC
68515 CAACAAAGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
5 2 0.07
6 25 0.86
7 2 0.07
ACGTcount: A:0.03, C:0.18, G:0.16, T:0.63
Consensus pattern (6 bp):
TCTTTG
Found at i:68958 original size:24 final size:24
Alignment explanation
Indices: 68931--68985 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
68921 CAACTCAATC
68931 ATTAAAAT-AATAAA-AAATTAATAT
1 ATTAAAATAAATAAATAAA--AATAT
* *
68955 ATTAATATAAATAAATGAAAATAT
1 ATTAAAATAAATAAATAAAAATAT
68979 ATTAAAA
1 ATTAAAA
68986 ATGTAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 18 0.69
25 6 0.23
26 2 0.08
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
ATTAAAATAAATAAATAAAAATAT
Found at i:69573 original size:27 final size:26
Alignment explanation
Indices: 69539--69597 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
69529 TTTTAATTTT
69539 AAAAAACTACTCA-TCTTTTTATTTGA
1 AAAAAACTACTCACT-TTTTTATTTGA
**
69565 AAAATAACTTTTCACTTTTTTATTTGA
1 AAAA-AACTACTCACTTTTTTATTTGA
69592 AAAAAA
1 AAAAAA
69598 TCAAATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.21
27 22 0.76
28 1 0.03
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (26 bp):
AAAAAACTACTCACTTTTTTATTTGA
Found at i:72329 original size:20 final size:20
Alignment explanation
Indices: 72301--72341 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
72291 CATTTTTTAA
* *
72301 AAAAATTAATATAAAAAATT
1 AAAAATTAAAAAAAAAAATT
*
72321 AAAATTTAAAAAAAAAAATT
1 AAAAATTAAAAAAAAAAATT
72341 A
1 A
72342 TGATGACTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAAATTAAAAAAAAAAATT
Found at i:75541 original size:16 final size:16
Alignment explanation
Indices: 75520--75557 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
75510 TTGACATCAT
75520 TTTTGAAATAT-ATATA
1 TTTTGAAATATGA-ATA
*
75536 TTTTGAAATTTGAATA
1 TTTTGAAATATGAATA
75552 TTTTGA
1 TTTTGA
75558 TGAGATAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 19 0.95
17 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (16 bp):
TTTTGAAATATGAATA
Found at i:76522 original size:10 final size:10
Alignment explanation
Indices: 76509--76535 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
76499 AAGAAAAACA
76509 AAAAAAAATG
1 AAAAAAAATG
76519 AAAAAAAATG
1 AAAAAAAATG
76529 AAAAAAA
1 AAAAAAA
76536 GGTGTAGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (10 bp):
AAAAAAAATG
Found at i:78833 original size:44 final size:44
Alignment explanation
Indices: 78784--79383 Score: 343
Period size: 44 Copynumber: 13.6 Consensus size: 44
78774 CCTCTTTCCT
* * *
78784 ATTTGACGTATGGTTATCACCCTGATTAGATTCTTTTCATTTTG
1 ATTTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTTG
* * * * * *
78828 ATTTGACGTATGGCTACCACCTTGGTCAAATCTACCTCTC-TCTTG
1 ATTTGACGTATGGTTACCACCCTGGTCAGAT-T-CTTTTCATTTTG
* * * ***
78873 -TCTGGCGTATGGTTACCACCTTGGTCAGATTCTTTTCATTCCA
1 ATTTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTTG
* * * * **
78916 ATTTGATGTATGGTTACCACCCTGGTTAAATCCGCCTTC-TTCTTG
1 ATTTGACGTATGGTTACCACCCTGGTCAGATTC-TTTTCATT-TTG
* * * *
78961 -TCTGATGTATGGTTATCACCCTGGTCAGATTCTTTTCATTTCG
1 ATTTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTTG
* * * *
79004 ATTTAACATATGGTTACCACCCTGGTCAAATCTGCCTTTT--TCTTG
1 ATTTGACGTATGGTTACCACCCTGGTCAGAT-T--CTTTTCATTTTG
* * * * *
79049 -TCTGACGTATAGTTACCACCTTGGTTAGATTCTTTTTATTTTG
1 ATTTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTTG
* * * * ** * *
79092 ATTTGACATATGGTTACCATCTTGGTCA-AATCAGCTTCCTTCCT-
1 ATTTGACGTATGGTTACCACCCTGGTCAGATTC-TTTTCATT-TTG
* * ** * *
79136 ATCTGATGTATGGTTACCACCCTCATCAGATTCTTTCCATTTCG
1 ATTTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTTG
* * * * *
79180 ATTTAACATATGGTTACCACCCTAGTCA-A--GTTTGCATCCTTCCT-
1 ATTTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCAT--TT--TG
* * * *
79224 ATCTAACGTATGGTTACCA-CCTAGGTTAGATTTTTTTCATTTTG
1 ATTTGACGTATGGTTACCACCCT-GGTCAGATTCTTTTCATTTTG
* * *
79268 ATTTGAAGTATGCTTACCACCCTGGTCAGATTCTTTTCATTTCG
1 ATTTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTTG
* *
79312 ATTTGACGTATGGTTACCACCATGGTCA-AATCTGCTTT-ATTCTTG
1 ATTTGACGTATGGTTACCACCCTGGTCAGATTCT--TTTCATT-TTG
* * *
79357 A-TTAATGTATGGTTACCACCCTAGTCA
1 ATTTGACGTATGGTTACCACCCTGGTCA
79384 AATGATTTGC
Statistics
Matches: 414, Mismatches: 111, Indels: 62
0.71 0.19 0.11
Matches are distributed among these distances:
41 11 0.03
42 4 0.01
43 26 0.06
44 330 0.80
45 28 0.07
46 4 0.01
47 11 0.03
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.41
Consensus pattern (44 bp):
ATTTGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTTG
Found at i:78920 original size:88 final size:87
Alignment explanation
Indices: 78787--79295 Score: 502
Period size: 88 Copynumber: 5.8 Consensus size: 87
78777 CTTTCCTATT
* * * * * * *
78787 TGACGTATGGTTATCACCCTGATTAGATTCTTTTCATTTTGATTTGACGTATGGCTACCACCTTG
1 TGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTCGATTTGACATATGGTTACCACCCTG
*
78852 GTCAAATCTACCTCTCTCTTGTC
66 GTCAAATCTGCCT-TCTCTTGTC
* * * * **
78875 TGGCGTATGGTTACCACCTTGGTCAGATTCTTTTCATTCCAATTTGATGTATGGTTACCACCCTG
1 TGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTCGATTTGACATATGGTTACCACCCTG
* *
78940 GTTAAATCCGCCTTCTTCTTGTC
66 GTCAAATCTGCCTTC-TCTTGTC
* * *
78963 TGATGTATGGTTATCACCCTGGTCAGATTCTTTTCATTTCGATTTAACATATGGTTACCACCCTG
1 TGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTCGATTTGACATATGGTTACCACCCTG
*
79028 GTCAAATCTGCCTTTTTCTTGTC
66 GTCAAATCTGCC-TTCTCTTGTC
* * * * * * *
79051 TGACGTATAGTTACCACCTTGGTTAGATTCTTTTTATTTTGATTTGACATATGGTTACCATCTTG
1 TGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTCGATTTGACATATGGTTACCACCCTG
* * *
79116 GTCAAATCAG-CTTCCTTCCTATC
66 GTCAAATCTGCCTT-C-TCTTGTC
* ** * * *
79139 TGATGTATGGTTACCACCCTCATCAGATTCTTTCCATTTCGATTTAACATATGGTTACCACCCTA
1 TGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTCGATTTGACATATGGTTACCACCCTG
* * * * * *
79204 GTCAAGTTTGCATCCTTCCTATC
66 GTCAAATCTGCCTTC-TCTTGTC
* * * * *
79227 TAACGTATGGTTACCA-CCTAGGTTAGATTTTTTTCATTTTGATTTGA-AGTATGCTTACCACCC
1 TGACGTATGGTTACCACCCT-GGTCAGATTCTTTTCATTTCGATTTGACA-TATGGTTACCACCC
79290 TGGTCA
64 TGGTCA
79296 GATTCTTTTC
Statistics
Matches: 345, Mismatches: 69, Indels: 14
0.81 0.16 0.03
Matches are distributed among these distances:
86 2 0.01
87 7 0.02
88 333 0.97
89 3 0.01
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (87 bp):
TGACGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTCGATTTGACATATGGTTACCACCCTG
GTCAAATCTGCCTTCTCTTGTC
Found at i:79106 original size:176 final size:175
Alignment explanation
Indices: 78779--79295 Score: 624
Period size: 176 Copynumber: 2.9 Consensus size: 175
78769 ACTATCCTCT
* * * * * * *
78779 TTCCTATTTGACGTATGGTTATCACCCTGATTAGATTCTTTTCATTTTGATTTGACGTATGGCTA
1 TTCCTATCTGATGTATGGTTATCACCCTGATCAGATTCTTTTCATTTCGATTTAACATATGGTTA
* * * * *
78844 CCACCTTGGTCAAATCTACCTCTCTCTTGTCTGGCGTATGGTTACCACCTTGGTCAGATTCTTTT
66 CCACCCTGGTCAAATCTGCCTCTTTCTTGTCTGACGTATGGTTACCACCTTGGTTAGATTCTTTT
* *** * * *
78909 CATTCCAATTTGATGTATGGTTACCACCCTGGTTAAATCCGCCTT-C
131 TATTTTGATTTGA-ATATGGTTACCACCCTGGTCAAATCAG-CTTCC
* * *
78955 TTCTTGTCTGATGTATGGTTATCACCCTGGTCAGATTCTTTTCATTTCGATTTAACATATGGTTA
1 TTCCTATCTGATGTATGGTTATCACCCTGATCAGATTCTTTTCATTTCGATTTAACATATGGTTA
* *
79020 CCACCCTGGTCAAATCTGCCTTTTTCTTGTCTGACGTATAGTTACCACCTTGGTTAGATTCTTTT
66 CCACCCTGGTCAAATCTGCCTCTTTCTTGTCTGACGTATGGTTACCACCTTGGTTAGATTCTTTT
* *
79085 TATTTTGATTTGACATATGGTTACCATCTTGGTCAAATCAGCTTCC
131 TATTTTGATTTGA-ATATGGTTACCACCCTGGTCAAATCAGCTTCC
* * *
79131 TTCCTATCTGATGTATGGTTACCACCCTCATCAGATTCTTTCCATTTCGATTTAACATATGGTTA
1 TTCCTATCTGATGTATGGTTATCACCCTGATCAGATTCTTTTCATTTCGATTTAACATATGGTTA
* * * * * * * * *
79196 CCACCCTAGTCAAGTTTGCATCCTTCCTATCTAACGTATGGTTACCACCTAGGTTAGATT-TTTT
66 CCACCCTGGTCAAATCTGCCTCTTTCTTGTCTGACGTATGGTTACCACCTTGGTTAGATTCTTTT
*
79260 TCATTTTGATTTGAAGTATGCTTACCACCCTGGTCA
131 T-ATTTTGATTTGAA-TATGGTTACCACCCTGGTCA
79296 GATTCTTTTC
Statistics
Matches: 291, Mismatches: 47, Indels: 6
0.85 0.14 0.02
Matches are distributed among these distances:
175 9 0.03
176 282 0.97
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.41
Consensus pattern (175 bp):
TTCCTATCTGATGTATGGTTATCACCCTGATCAGATTCTTTTCATTTCGATTTAACATATGGTTA
CCACCCTGGTCAAATCTGCCTCTTTCTTGTCTGACGTATGGTTACCACCTTGGTTAGATTCTTTT
TATTTTGATTTGAATATGGTTACCACCCTGGTCAAATCAGCTTCC
Found at i:79321 original size:88 final size:87
Alignment explanation
Indices: 78787--79386 Score: 392
Period size: 88 Copynumber: 6.8 Consensus size: 87
78777 CTTTCCTATT
* * * * * * *
78787 TGACGTATGGTTATCACCCTGATTAGATTCTTTTCATTTTGATTTGACGTATGGCTACCACCTTG
1 TGACGTATGGTTACCA-CCTGGTCAGATTCTTTTCATTTCGATTTGAAGTATGGTTACCACCCTG
* *
78852 GTCAAATCTACCTCTCTCTT-G-TC
65 GTCAAAT-T-CTTTTCTCTTCGATC
* * * *
78875 TGGCGTATGGTTACCACCTTGGTCAGATTCTTTTCATTCCAATTTGATGTATGGTTACCACCCTG
1 TGACGTATGGTTACCACC-TGGTCAGATTCTTTTCATTTCGATTTGAAGTATGGTTACCACCCTG
* * **
78940 GTTAAATCCGCCTTCTTCTT-G-TC
65 GTCAAATTC-TTTTC-TCTTCGATC
* * *
78963 TGATGTATGGTTATCACCCTGGTCAGATTCTTTTCATTTCGATTT-AACATATGGTTACCACCCT
1 TGACGTATGGTTACCA-CCTGGTCAGATTCTTTTCATTTCGATTTGAA-GTATGGTTACCACCCT
79027 GGTCAAATCTGCCTTTT-TCTT-G-TC
64 GGTCAAAT-T--CTTTTCTCTTCGATC
* * * * * *
79051 TGACGTATAGTTACCACCTTGGTTAGATTCTTTTTATTTTGATTTGACA-TATGGTTACCATCTT
1 TGACGTATGGTTACCACC-TGGTCAGATTCTTTTCATTTCGATTTGA-AGTATGGTTACCACCCT
** *
79115 GGTCAAA-TCAGCTTC-CTTCCTATC
64 GGTCAAATTC-TTTTCTCTT-CGATC
* ** * *
79139 TGATGTATGGTTACCACCCTCATCAGATTCTTTCCATTTCGATTT-AACATATGGTTACCACCCT
1 TGACGTATGGTTACCA-CCTGGTCAGATTCTTTTCATTTCGATTTGAA-GTATGGTTACCACCCT
* * ** *
79203 AGTCAAGTT-TGCATC-CTTCCTATC
64 GGTCAAATTCT-TTTCTCTT-CGATC
* * * * *
79227 TAACGTATGGTTACCACCTAGGTTAGATTTTTTTCATTTTGATTTGAAGTATGCTTACCACCCTG
1 TGACGTATGGTTACCACCT-GGTCAGATTCTTTTCATTTCGATTTGAAGTATGGTTACCACCCTG
* *
79292 GTCAGATTCTTTTCAT-TTCGATT
65 GTCAAATTCTTTTC-TCTTCGATC
* *
79315 TGACGTATGGTTACCACCATGGTCA-AATCTGCTTT-ATTCTTGA-TT-AATGTATGGTTACCAC
1 TGACGTATGGTTACCACC-TGGTCAGATTCT--TTTCATT-TCGATTTGAA-GTATGGTTACCAC
*
79376 CCTAGTCAAAT
61 CCTGGTCAAAT
79387 GATTTGCATT
Statistics
Matches: 407, Mismatches: 74, Indels: 62
0.75 0.14 0.11
Matches are distributed among these distances:
84 1 0.00
85 5 0.01
86 3 0.01
87 17 0.04
88 358 0.88
89 19 0.05
90 3 0.01
91 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.41
Consensus pattern (87 bp):
TGACGTATGGTTACCACCTGGTCAGATTCTTTTCATTTCGATTTGAAGTATGGTTACCACCCTGG
TCAAATTCTTTTCTCTTCGATC
Found at i:79398 original size:44 final size:42
Alignment explanation
Indices: 79319--79414 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 42
79309 TCGATTTGAC
* * *
79319 GTATGGTTACCACCATGGTCAAATCTGCTTTATTCTTGATTAAT
1 GTATGGTTACCACCATAGTCAAA-CTGATTTATTCTTG-TCAAT
*
79363 GTATGGTTACCACCCTAGTCAAA-TGATTTGCATTCTTGTCAAT
1 GTATGGTTACCACCATAGTCAAACTGATTT--ATTCTTGTCAAT
79406 GTAATGGTT
1 GT-ATGGTT
79415 TAGCCTTGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
42 5 0.11
43 6 0.13
44 34 0.76
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.40
Consensus pattern (42 bp):
GTATGGTTACCACCATAGTCAAACTGATTTATTCTTGTCAAT
Found at i:79545 original size:43 final size:43
Alignment explanation
Indices: 79497--79764 Score: 197
Period size: 43 Copynumber: 6.2 Consensus size: 43
79487 CCCAAGAAGC
*
79497 TTCTTTATCTTTTATCTATCC-GTCGGTTTAGACCCGAGAGACT
1 TTCTTTATCTTTTATCT-TCCTGTCGGCTTAGACCCGAGAGACT
* * *
79540 TTCTTTATCTTTT-TGTTTGCCTGTTGGCTTAGACCCGAGAGATT
1 TTCTTTATCTTTTAT-CTT-CCTGTCGGCTTAGACCCGAGAGACT
* *
79584 TTCTTTATCTTTTATCTGCCTGTCGGCTCAGACCCGAGAGACT
1 TTCTTTATCTTTTATCTTCCTGTCGGCTTAGACCCGAGAGACT
* * * * * *
79627 TTCTTTATCTTTTGT-TTGCCTATCAGCTCAGACCCAAAAGACT
1 TTCTTTATCTTTTATCTT-CCTGTCGGCTTAGACCCGAGAGACT
* * * * * *
79670 TTCTTCATCCTTTGTC-TGCTCATCGG-TTCAGACCCGGGAGACT
1 TTCTTTATCTTTTATCTTCCT-GTCGGCTT-AGACCCGAGAGACT
* * * * * ** *
79713 TT-TTTCATCTTTTGTCTGCCCGTCAGCTCAGACTTGAGAAACT
1 TTCTTT-ATCTTTTATCTTCCTGTCGGCTTAGACCCGAGAGACT
79756 TTCTTTATC
1 TTCTTTATC
79765 CTTTGTCTAC
Statistics
Matches: 178, Mismatches: 35, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
42 8 0.04
43 131 0.74
44 38 0.21
45 1 0.01
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.41
Consensus pattern (43 bp):
TTCTTTATCTTTTATCTTCCTGTCGGCTTAGACCCGAGAGACT
Found at i:79580 original size:44 final size:43
Alignment explanation
Indices: 79526--80080 Score: 267
Period size: 43 Copynumber: 12.7 Consensus size: 43
79516 CCGTCGGTTT
* *
79526 AGACCCGAGAGACTTTCTTTATCTTTTTGTTTGCCTGTTGGCTT
1 AGACCCGAGAGACTTTCTTTATC-TTTTGTTTGCCTGTCGGCTC
* * *
79570 AGACCCGAGAGATTTTCTTTATCTTTTATCTGCCTGTCGGCTC
1 AGACCCGAGAGACTTTCTTTATCTTTTGTTTGCCTGTCGGCTC
* *
79613 AGACCCGAGAGACTTTCTTTATCTTTTGTTTGCCTATCAGCTC
1 AGACCCGAGAGACTTTCTTTATCTTTTGTTTGCCTGTCGGCTC
* * * * * * *
79656 AGACCCAAAAGACTTTCTTCATCCTTTGTCTG-CTCATCGGTTC
1 AGACCCGAGAGACTTTCTTTATCTTTTGTTTGCCT-GTCGGCTC
* * * *
79699 AGACCCGGGAGACTTT-TTTCATCTTTTGTCTGCCCGTCAGCTC
1 AGACCCGAGAGACTTTCTTT-ATCTTTTGTTTGCCTGTCGGCTC
** * * * * ** *
79742 AGACTTGAGAAACTTTCTTTATCCTTTGTCTACCCATCGACTC
1 AGACCCGAGAGACTTTCTTTATCTTTTGTTTGCCTGTCGGCTC
* * * *
79785 AGA-CCGGGAGATTTCTTCATCTTTCCTCATCTTTTATTTGCGC-ATCAGC-C
1 AGACCCGAGAGA---CTT--TC-TT--T-ATCTTTTGTTTGC-CTGTCGGCTC
* * * * * * *
79835 TAGACCCAAAAAACTTTCTTCAT-TTTTGTCTTTG--TATCAGCTT
1 -AGACCCGAGAGACTTTCTTTATCTTTTG--TTTGCCTGTCGGCTC
* * **
79878 AGACCC-AGGAAACCTTT-TTTACCTTTTGTTTGCCTGTCAACTC
1 AGACCCGA-GAGA-CTTTCTTTATCTTTTGTTTGCCTGTCGGCTC
* * * *
79921 A-ATCCTGGGAGACTTTTTTTTATCTTTTGTTTG-CTCATCGGCTC
1 AGA-CCCGAGAGAC-TTTCTTTATCTTTTGTTTGCCT-GTCGGCTC
* * * * *
79965 AGACCTGAGAGAC-TTCTTTATCCTTTGTCTGCCCGTCAGCTC
1 AGACCCGAGAGACTTTCTTTATCTTTTGTTTGCCTGTCGGCTC
* * * * *
80007 AGACCC-AGGAGACTTTCTGTATCTTTTGTCTACTTGTCGACTC
1 AGACCCGA-GAGACTTTCTTTATCTTTTGTTTGCCTGTCGGCTC
* * *
80050 AGGCCGGGGAGACTTT-TTTATCTTTTTGTTT
1 AGACCCGAGAGACTTTCTTTATC-TTTTGTTT
80081 ACTCGTCAGC
Statistics
Matches: 390, Mismatches: 85, Indels: 73
0.71 0.16 0.13
Matches are distributed among these distances:
41 6 0.02
42 68 0.17
43 219 0.56
44 59 0.15
45 4 0.01
46 2 0.01
47 4 0.01
48 2 0.01
49 3 0.01
50 2 0.01
51 16 0.04
52 5 0.01
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (43 bp):
AGACCCGAGAGACTTTCTTTATCTTTTGTTTGCCTGTCGGCTC
Found at i:79701 original size:86 final size:86
Alignment explanation
Indices: 79526--80080 Score: 346
Period size: 86 Copynumber: 6.4 Consensus size: 86
79516 CCGTCGGTTT
** * * * *
79526 AGACCCGAGAGACTTTCTTTATCTTTTTGTTTGCCTGTTGGCTTAGACCCGAGAGATTTTCTTTA
1 AGACCCGAGAGACTTTCTTTATC-TTTTGTTTGCCTGTCAGCTCAGACCCAAAAGACTTTCTTTA
* *
79591 TCTTTTATCTGC-CTGTCGGCTC
65 TCTTTTGTCTGCTC-ATCGGCTC
* *
79613 AGACCCGAGAGACTTTCTTTATCTTTTGTTTGCCTATCAGCTCAGACCCAAAAGACTTTCTTCAT
1 AGACCCGAGAGACTTTCTTTATCTTTTGTTTGCCTGTCAGCTCAGACCCAAAAGACTTTCTTTAT
* *
79678 CCTTTGTCTGCTCATCGGTTC
66 CTTTTGTCTGCTCATCGGCTC
* * * ** *
79699 AGACCCGGGAGACTTT-TTTCATCTTTTGTCTGCCCGTCAGCTCAGACTTGAGAA-ACTTTCTTT
1 AGACCCGAGAGACTTTCTTT-ATCTTTTGTTTGCCTGTCAGCTCAGAC-CCAAAAGACTTTCTTT
* * * *
79762 ATCCTTTGTCTACCCATCGACTC
64 ATCTTTTGTCTGCTCATCGGCTC
* * * *
79785 AGA-CCGGGAGATTTCTTCATCTTTCCTCATCTTTTATTTGCGC-ATCAGC-CTAGACCCAAAAA
1 AGACCCGAGAGA---CTT--TC-TT--T-ATCTTTTGTTTGC-CTGTCAGCTC-AGACCCAAAAG
* * *
79847 ACTTTCTTCAT-TTTTGTCTTTG-T-ATCAGCTT
55 ACTTTCTTTATCTTTTGTC--TGCTCATCGGCTC
* * * **** *
79878 AGACCC-AGGAAACCTTT-TTTACCTTTTGTTTGCCTGTCAACTCA-ATCCTGGGAGACTTTTTT
1 AGACCCGA-GAGA-CTTTCTTTATCTTTTGTTTGCCTGTCAGCTCAGA-CCCAAAAGAC-TTTCT
*
79940 TTATCTTTTGTTTGCTCATCGGCTC
62 TTATCTTTTGTCTGCTCATCGGCTC
* * * * ** *
79965 AGACCTGAGAGAC-TTCTTTATCCTTTGTCTGCCCGTCAGCTCAGACCCAGGAGACTTTCTGTAT
1 AGACCCGAGAGACTTTCTTTATCTTTTGTTTGCCTGTCAGCTCAGACCCAAAAGACTTTCTTTAT
* ** *
80029 CTTTTGTCTACTTGTCGACTC
66 CTTTTGTCTGCTCATCGGCTC
* * *
80050 AGGCCGGGGAGACTTT-TTTATCTTTTTGTTT
1 AGACCCGAGAGACTTTCTTTATC-TTTTGTTT
80081 ACTCGTCAGC
Statistics
Matches: 362, Mismatches: 75, Indels: 63
0.72 0.15 0.13
Matches are distributed among these distances:
84 2 0.01
85 75 0.21
86 167 0.46
87 48 0.13
88 6 0.02
90 2 0.01
92 5 0.01
93 18 0.05
94 37 0.10
95 2 0.01
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (86 bp):
AGACCCGAGAGACTTTCTTTATCTTTTGTTTGCCTGTCAGCTCAGACCCAAAAGACTTTCTTTAT
CTTTTGTCTGCTCATCGGCTC
Found at i:80241 original size:42 final size:42
Alignment explanation
Indices: 80195--80310 Score: 94
Period size: 41 Copynumber: 2.8 Consensus size: 42
80185 CAGTCAACCC
* *
80195 TTTATTCTTTGTTTACTTGTCGGCTTAGTCTCAGGTAAATTT
1 TTTATTCTTTGTTTACTTGTCGGCTTAGTCTCAGATAAACTT
* * * * * * * *
80237 TTTATCCTCTATTGACTAGTCGG-TTCGATCT-TGATCAACTT
1 TTTATTCTTTGTTTACTTGTCGGCTTAG-TCTCAGATAAACTT
*
80278 TCTA-TCTCTTGTTTACTTGTCGGCTTAGTCTCA
1 TTTATTCT-TTGTTTACTTGTCGGCTTAGTCTCA
80311 AGAAAATATT
Statistics
Matches: 52, Mismatches: 18, Indels: 8
0.67 0.23 0.10
Matches are distributed among these distances:
40 2 0.04
41 26 0.50
42 24 0.46
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.48
Consensus pattern (42 bp):
TTTATTCTTTGTTTACTTGTCGGCTTAGTCTCAGATAAACTT
Found at i:80345 original size:83 final size:82
Alignment explanation
Indices: 80203--80375 Score: 190
Period size: 83 Copynumber: 2.1 Consensus size: 82
80193 CCTTTATTCT
* * * * * *
80203 TTGTTTACTTGTCGGCTTAGTCTCAGGTAAATTTTTTATCCTCTATTGACTAGTCGGTTCGATCT
1 TTGTTTACTTGTCGGCTTAGTCTCAAGAAAATATTGTATCCTCTATTGACTAGTCGGTTCAATCC
* *
80268 TGATCAA-CTTTCTATCTC
66 AG-TCAATCTTTC-ATCCC
* * *
80286 TTGTTTACTTGTCGGCTTAGTCTCAAGAAAATATTGTATCCGT-TGTTGATTCA-TTGGTTCAAT
1 TTGTTTACTTGTCGGCTTAGTCTCAAGAAAATATTGTATCC-TCTATTGACT-AGTCGGTTCAAT
80349 CCAGTCAATCTTTCATCCC
64 CCAGTCAATCTTTCATCCC
80368 TTGTTTAC
1 TTGTTTAC
80376 CTATCGGTTT
Statistics
Matches: 76, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
82 16 0.21
83 58 0.76
84 2 0.03
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.45
Consensus pattern (82 bp):
TTGTTTACTTGTCGGCTTAGTCTCAAGAAAATATTGTATCCTCTATTGACTAGTCGGTTCAATCC
AGTCAATCTTTCATCCC
Found at i:81971 original size:14 final size:15
Alignment explanation
Indices: 81952--81980 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
81942 AAATTTTATC
81952 TTAATTTTTA-AATT
1 TTAATTTTTATAATT
81966 TTAATTTTTATAATT
1 TTAATTTTTATAATT
81981 AATTCTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTAATTTTTATAATT
Found at i:82515 original size:11 final size:11
Alignment explanation
Indices: 82497--82525 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
82487 ATTGTTATGT
82497 TTAA-TTTATC
1 TTAATTTTATC
82507 TTAATTTTATC
1 TTAATTTTATC
82518 TTAATTTT
1 TTAATTTT
82526 CTTCATGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (11 bp):
TTAATTTTATC
Found at i:84195 original size:311 final size:313
Alignment explanation
Indices: 83745--84420 Score: 743
Period size: 311 Copynumber: 2.2 Consensus size: 313
83735 GTCCTTTAGG
** * * *
83745 GGTA-TCGGGTACTTCTTTGTCGAAGGTAT-CTCTAGGGGTATTTTGGT-ATTTTTTAAGAACCG
1 GGTATTCGGGTACTTCTACGTCGAAGGTATCCCCTAGGGGCATTTTGGTAATTTTTTAAGAACCA
* * *
83807 AGTCTTTGGTTGTCACAAGGTCCACTTTTATGCAAAAGACGGGTATTTAGGATAGTTTCGTCCCA
66 AGTCTATGGTTGTCACAAGGTCCACGTTTATGCAAAAGACGAGTATTTAGGATAGTTTCGTCCCA
* * ** * **
83872 TTGTGTAATCCTTTTCAAGT-CTATTAGGGATATCGGGCACTTCTACGTCGAAGATATCTTTTAA
131 TTGTGAAATCCTTTTCAAGTCCT-TAAAAGATATCAGGCACTTCTACGTCGAAGATATCCCTTAA
* * *
83936 -AGGCATTTTGGTAA-TTTTAAAGAA-TCGAGTCTTAGGTTATCACCGAGCTC-GCTTTTATGCT
195 GA-GCATTTTGATAATTTTTAAA-AACT-GAGTCCTAGGTTATCACCGAGC-CAACTTTTATGC-
* * **
83997 GAAA-ATGGGTTTTTAGGATAGGTTAATCCCATCTATAATCCTTTTTAAA-TCTTTTAAA
255 CAAAGATGAGAATTTAGGATAGGTTAATCCCATCTATAATCC-TTTTAAAGTCTTTTAAA
* *
84055 GGT-TTCGGGTACTTCTACGTCGAAGATATCCCCTAGGGGCATTTTGGTAATTTTTT-AGAATCA
1 GGTATTCGGGTACTTCTACGTCGAAGGTATCCCCTAGGGGCATTTTGGTAATTTTTTAAGAACCA
** ** **
84118 AGTCCTAT-GTTGTCACTGGGTCCACGTTTATGCTGAAGGTGAGTATTTAGGATAAG-TTCGTCC
66 AGT-CTATGGTTGTCACAAGGTCCACGTTTATGCAAAAGACGAGTATTTAGGAT-AGTTTCGTCC
* * *
84181 CATTGTGAAATCCTTTTTAAGTCCTTAAAAGATATCAGGCACTTCTATGTTGAAGATATCCCTTA
129 CATTGTGAAATCCTTTTCAAGTCCTTAAAAGATATCAGGCACTTCTACGTCGAAGATATCCCTTA
* * ** *
84246 GGAGCATTTTGATAATTTTTTAAAACTGAGTCCTAGGTTATCATTGGGCCAACTTTTATGCCAAA
194 AGAGCATTTTGATAATTTTTAAAAACTGAGTCCTAGGTTATCACCGAGCCAACTTTTATGCCAAA
* * * *
84311 GGTGAGAATTTAGGATAGGTTCATCTCATCTATAATTCTTTTAAAGTCTTTTAAA
259 GATGAGAATTTAGGATAGGTTAATCCCATCTATAATCCTTTTAAAGTCTTTTAAA
* * * **
84366 GGTATT-AGGTACTTCTACGTTGAAGGTATCCCTTAGGGGCATTTTTATAATTTTT
1 GGTATTCGGGTACTTCTACGTCGAAGGTATCCCCTAGGGGCATTTTGGTAATTTTT
84421 CTTAAACTTA
Statistics
Matches: 305, Mismatches: 48, Indels: 25
0.81 0.13 0.07
Matches are distributed among these distances:
310 36 0.12
311 245 0.80
312 24 0.08
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.38
Consensus pattern (313 bp):
GGTATTCGGGTACTTCTACGTCGAAGGTATCCCCTAGGGGCATTTTGGTAATTTTTTAAGAACCA
AGTCTATGGTTGTCACAAGGTCCACGTTTATGCAAAAGACGAGTATTTAGGATAGTTTCGTCCCA
TTGTGAAATCCTTTTCAAGTCCTTAAAAGATATCAGGCACTTCTACGTCGAAGATATCCCTTAAG
AGCATTTTGATAATTTTTAAAAACTGAGTCCTAGGTTATCACCGAGCCAACTTTTATGCCAAAGA
TGAGAATTTAGGATAGGTTAATCCCATCTATAATCCTTTTAAAGTCTTTTAAA
Found at i:84266 original size:156 final size:154
Alignment explanation
Indices: 83618--84420 Score: 623
Period size: 155 Copynumber: 5.2 Consensus size: 154
83608 ACGTTAAAGG
* * * ** * * *
83618 TATCCCCTAGGAGCATTTTGGTAATTTTCTAGAACCGAGTCCTAGATTGTTGCCGAGTCCGCTAT
1 TATCCCTTAGGAGCATTTTGGTAATTTTTTAGAACCGAGTCCTAGGTTGTCACCGGGTCCACTTT
* * * ** **
83683 TATGCTGAAGGTGAATATTTAGGATAGGTTCAT-CCATATAAATCTTTTTTGGGTCCTTTAGGGG
66 TATGCTGAAGGTGAGTATTTAGGATAGGTTCATCCCATCTAAATCCTTTTTAAGTCCTTTAAAGG
** *
83747 TATCGGGTACTTCTTTGTCGAAGG
131 TATCGGGTACTTCTACGTCGAAGA
* * * * * **
83771 TATCTC-TAGGGGTATTTTGGT-ATTTTTTAAGAACCGAGTCTTTGGTTGTCACAAGGTCCACTT
1 TATCCCTTAGGAGCATTTTGGTAATTTTTT-AGAACCGAGTCCTAGGTTGTCACCGGGTCCACTT
** ** * * * * * *
83834 TTATGCAAAAGACGGGTATTTAGGATAGTTTCGTCCCATTGTGTAATCCTTTTCAAGT-CTATT-
65 TTATGCTGAAGGTGAGTATTTAGGATAGGTTCATCCCA-TCT-AAATCCTTTTTAAGTCCT-TTA
* *
83897 AGGGATATCGGGCACTTCTACGTCGAAGA
127 AAGG-TATCGGGTACTTCTACGTCGAAGA
** * ** * * * * *
83926 TATCTTTTA-AAGGCATTTTGGTAATTTTAAAGAATCGAGTCTTAGGTTATCACCGAG-CTCGCT
1 TATCCCTTAGGA-GCATTTTGGTAATTTTTTAGAACCGAGTCCTAGGTTGTCACCGGGTC-CACT
** * * * * *
83989 TTTATGCTGAAAATGGGTTTTTAGGATAGGTTAATCCCATCTATAATCCTTTTTAAATCTTTTAA
64 TTTATGCTGAAGGTGAGTATTTAGGATAGGTTCATCCCATCTA-AATCCTTTTTAAGTCCTTTAA
*
84054 AGGTTTCGGGTACTTCTACGTCGAAGA
128 AGGTATCGGGTACTTCTACGTCGAAGA
* * * * * * *
84081 TATCCCCTAGGGGCATTTTGGTAATTTTTTAGAATCAAGTCCTATGTTGTCACTGGGTCCACGTT
1 TATCCCTTAGGAGCATTTTGGTAATTTTTTAGAACCGAGTCCTAGGTTGTCACCGGGTCCACTTT
* * * *
84146 TATGCTGAAGGTGAGTATTTAGGATAAGTTCGTCCCATTGTGAAATCCTTTTTAAGTCCTTAAAA
66 TATGCTGAAGGTGAGTATTTAGGATAGGTTCATCCCA-TCT-AAATCCTTTTTAAGTCCTTTAAA
* * * * *
84211 GATATCAGGCACTTCTATGTTGAAGA
129 GGTATCGGGTACTTCTACGTCGAAGA
* * * * **
84237 TATCCCTTAGGAGCATTTTGATAATTTTTTAAAACTGAGTCCTAGGTTATCATTGGG-CCAACTT
1 TATCCCTTAGGAGCATTTTGGTAATTTTTTAGAACCGAGTCCTAGGTTGTCACCGGGTCC-ACTT
** * * * * *
84301 TTATGCCAAAGGTGAGAATTTAGGATAGGTTCATCTCATCTATAATTCTTTTAAAGTCTTTTAAA
65 TTATGCTGAAGGTGAGTATTTAGGATAGGTTCATCCCATCTA-AATCCTTTTTAAGTCCTTTAAA
** * *
84366 GGTATTAGGTACTTCTACGTTGAAGG
129 GGTATCGGGTACTTCTACGTCGAAGA
* **
84392 TATCCCTTAGGGGCATTTTTATAATTTTT
1 TATCCCTTAGGAGCATTTTGGTAATTTTT
84421 CTTAAACTTA
Statistics
Matches: 508, Mismatches: 123, Indels: 36
0.76 0.18 0.05
Matches are distributed among these distances:
151 6 0.01
152 63 0.12
153 8 0.02
154 8 0.02
155 223 0.44
156 194 0.38
157 6 0.01
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (154 bp):
TATCCCTTAGGAGCATTTTGGTAATTTTTTAGAACCGAGTCCTAGGTTGTCACCGGGTCCACTTT
TATGCTGAAGGTGAGTATTTAGGATAGGTTCATCCCATCTAAATCCTTTTTAAGTCCTTTAAAGG
TATCGGGTACTTCTACGTCGAAGA
Found at i:84416 original size:155 final size:155
Alignment explanation
Indices: 84008--84420 Score: 476
Period size: 156 Copynumber: 2.7 Consensus size: 155
83998 AAAATGGGTT
* *
84008 TTTAGGATAGGTTAATCCCATCTATAATCCTTTTTAAA-TCTTTTAAAGGT-TTCGGGTACTTCT
1 TTTAGGATAGGTTCATCCCATCTATAATCC-TTTTAAAGTCTTTTAAAGGTATT-AGGTACTTCT
* * * * * *
84071 ACGTCGAAGATATCCCCTAGGGGCATTTTGGTAATTTTTTAGAATCAAGTCCTATGTTGTCACTG
64 ACGTTGAAGATATCCCTTAGGGGCATTTTGATAATTTTTTAAAATCAAGTCCTAGGTTATCACTG
** *
84136 GGTCCACGTTTATGCTGAAGGTGAGTA
129 GGTCCACGTTTATGCCAAAGGTGAGAA
* * * * * * * * *
84163 TTTAGGATAAGTTCGTCCCAT-TGTGAAATCCTTTTTAAGTCCTTAAAAGATATCAGGCACTTCT
1 TTTAGGATAGGTTCATCCCATCTAT--AATCCTTTTAAAGTCTTTTAAAGGTATTAGGTACTTCT
* * * *
84227 ATGTTGAAGATATCCCTTAGGAGCATTTTGATAATTTTTTAAAA-CTGAGTCCTAGGTTATCATT
64 ACGTTGAAGATATCCCTTAGGGGCATTTTGATAATTTTTTAAAATC-AAGTCCTAGGTTATCACT
*
84291 GGG-CCAACTTTTATGCCAAAGGTGAGAA
128 GGGTCC-ACGTTTATGCCAAAGGTGAGAA
* *
84319 TTTAGGATAGGTTCATCTCATCTATAATTCTTTTAAAGTCTTTTAAAGGTATTAGGTACTTCTAC
1 TTTAGGATAGGTTCATCCCATCTATAATCCTTTTAAAGTCTTTTAAAGGTATTAGGTACTTCTAC
* *
84384 GTTGAAGGTATCCCTTAGGGGCATTTTTATAATTTTT
66 GTTGAAGATATCCCTTAGGGGCATTTTGATAATTTTT
84421 CTTAAACTTA
Statistics
Matches: 211, Mismatches: 40, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
154 2 0.01
155 93 0.44
156 113 0.54
157 3 0.01
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (155 bp):
TTTAGGATAGGTTCATCCCATCTATAATCCTTTTAAAGTCTTTTAAAGGTATTAGGTACTTCTAC
GTTGAAGATATCCCTTAGGGGCATTTTGATAATTTTTTAAAATCAAGTCCTAGGTTATCACTGGG
TCCACGTTTATGCCAAAGGTGAGAA
Found at i:89693 original size:22 final size:22
Alignment explanation
Indices: 89652--89713 Score: 108
Period size: 22 Copynumber: 2.9 Consensus size: 22
89642 ACTATGAAAA
89652 ATGTATCGATACA-TTACTAGC
1 ATGTATCGATACATTTACTAGC
89673 ATGTATCGATACATTTACTAGC
1 ATGTATCGATACATTTACTAGC
*
89695 ATGTATCAATACATTTACT
1 ATGTATCGATACATTTACT
89714 TATGTATCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
21 13 0.33
22 26 0.67
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (22 bp):
ATGTATCGATACATTTACTAGC
Found at i:89720 original size:20 final size:21
Alignment explanation
Indices: 89652--89724 Score: 87
Period size: 22 Copynumber: 3.5 Consensus size: 21
89642 ACTATGAAAA
*
89652 ATGTATCGATACA-TTACTAGC
1 ATGTATCAATACATTTACTA-C
*
89673 ATGTATCGATACATTTACTAGC
1 ATGTATCAATACATTTACTA-C
*
89695 ATGTATCAATACATTTACT-T
1 ATGTATCAATACATTTACTAC
89715 ATGTATCAAT
1 ATGTATCAAT
89725 GCAATTTTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
20 10 0.20
21 13 0.27
22 26 0.53
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (21 bp):
ATGTATCAATACATTTACTAC
Found at i:92177 original size:165 final size:166
Alignment explanation
Indices: 91901--92240 Score: 499
Period size: 165 Copynumber: 2.1 Consensus size: 166
91891 ACAAGGACTA
* * ** * * *
91901 ATTTGTAAATATTGGAAATTTTGTTCCAAGGCCAAAGTTACTTGGGCGAATCTTTCTTGTGACTT
1 ATTTGTAAATATTGAAAAATTCATTCCAAGGCCAAAGTTACTTGGCCGAATCTTTCTTATGACTC
* *
91966 TTGTATGTGATTTTTGGTTCTGATTTTTATATGTTTGATGTTTAA-TTTGTGTTTTAATTATATA
66 TTGTATGTGATTTTTGGTTCTGATTTTAATATGTTTGATGTTTAATTTTGTATTTTAATTATATA
* *
92030 AGGACCAATTTGTAATTTTTAAAAGTTTAAGGGTTT
131 AAGACCAATTTGTAATTTTAAAAAGTTTAAGGGTTT
*
92066 GA-TTGTAAATATTGAAAAATTCATTCCAAGGCCAAA-TTAACTTGGCCGAATCTTTTTTATGAC
1 -ATTTGTAAATATTGAAAAATTCATTCCAAGGCCAAAGTT-ACTTGGCCGAATCTTTCTTATGAC
* *
92129 TCTTGTATGTGATTTTTGGTAT-TGATTTTAATATGTTTGATTTTTAATTTTTTATTTTAATTAT
64 TCTTGTATGTGATTTTTGGT-TCTGATTTTAATATGTTTGATGTTTAATTTTGTATTTTAATTAT
92193 ATAAAGACCAATTTGTAATTTTAAAAAGTTTAAGGGTTT
128 ATAAAGACCAATTTGTAATTTTAAAAAGTTTAAGGGTTT
92232 ATTTGTAAA
1 ATTTGTAAA
92241 CATAAAAGTT
Statistics
Matches: 156, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
164 2 0.01
165 94 0.60
166 60 0.38
ACGTcount: A:0.29, C:0.07, G:0.16, T:0.48
Consensus pattern (166 bp):
ATTTGTAAATATTGAAAAATTCATTCCAAGGCCAAAGTTACTTGGCCGAATCTTTCTTATGACTC
TTGTATGTGATTTTTGGTTCTGATTTTAATATGTTTGATGTTTAATTTTGTATTTTAATTATATA
AAGACCAATTTGTAATTTTAAAAAGTTTAAGGGTTT
Found at i:92238 original size:29 final size:28
Alignment explanation
Indices: 92203--92277 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
92193 ATAAAGACCA
*
92203 ATTTGTAATTTTAAAAAGTTTA-AGGGTTT
1 ATTTGTAATTAT-AAAAGTTTAGA-GGTTT
**
92232 ATTTGTAAACATAAAAGTTTAGAGGTTT
1 ATTTGTAATTATAAAAGTTTAGAGGTTT
92260 ATTTGTAATTATATAAAG
1 ATTTGTAATTATA-AAAG
92278 ACCTTTAGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
28 25 0.64
29 14 0.36
ACGTcount: A:0.39, C:0.01, G:0.16, T:0.44
Consensus pattern (28 bp):
ATTTGTAATTATAAAAGTTTAGAGGTTT
Found at i:93080 original size:155 final size:154
Alignment explanation
Indices: 92826--93114 Score: 334
Period size: 155 Copynumber: 1.9 Consensus size: 154
92816 TATACTCAAA
*** *
92826 GGTATTTTGGTAATTTTTTTGGAACTAAGTCCGATGTAGTCAGCGAATGCTTTTATGTCGAAGGT
1 GGTATTTTGGTAATTTTTTACAAACTAAGTCCGATGTAGTCACCGAATGCTTTTATGTCGAAGGT
* * ** *
92891 GTCAATTTTGGATAAATTTACTCTTTGATGATCATTTTAGAGTCCTTTAAGGTTATTAGGATGCT
66 GTCAATTTTGGATAAATTCACCCTTTGACAATCATTTTAGAGTCCTTTAAGGTTATTAGGATACT
92956 TTCAAGACAAAAGTAGTCTTTAAG
131 TTCAAGACAAAAGTAGTCTTTAAG
** *
92980 GGTATTTTGGTAATATTTTTACAAACT-AGTCTTATGTAGTCACCGAGATGCTTTTATG-CTAAT
1 GGTATTTTGGTAAT-TTTTTACAAACTAAGTCCGATGTAGTCACCGA-ATGCTTTTATGTCGAA-
** * * * * *
93043 GGTGTGC-ATTTTGGATAGGTTCACCCTTCT-ACAATCATTTTCGTGTCTTTTAGGGTTATTGGG
63 GGTGT-CAATTTTGGATAAATTCACCCTT-TGACAATCATTTTAGAGTCCTTTAAGGTTATTAGG
93106 ATACTTTCA
126 ATACTTTCA
93115 TGTCGAAGGT
Statistics
Matches: 111, Mismatches: 19, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
154 33 0.30
155 76 0.68
156 2 0.02
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.42
Consensus pattern (154 bp):
GGTATTTTGGTAATTTTTTACAAACTAAGTCCGATGTAGTCACCGAATGCTTTTATGTCGAAGGT
GTCAATTTTGGATAAATTCACCCTTTGACAATCATTTTAGAGTCCTTTAAGGTTATTAGGATACT
TTCAAGACAAAAGTAGTCTTTAAG
Found at i:93236 original size:153 final size:154
Alignment explanation
Indices: 93005--93281 Score: 358
Period size: 153 Copynumber: 1.8 Consensus size: 154
92995 TTTTTACAAA
* ** * **
93005 CTAGTCTTATGTAGTCACCGAGATGCTTTTATGCTAATGGTGTGCATTTTGGATAGGTTCACCCT
1 CTAGTCTTATGTAGTCACCGAGATGCTTTTATGCCAAAAGTATGCATTGAGGATAGGTTCACCCT
* * * * *
93070 TCTACAATCATTTTCGTGTCTTTTAGGGTTATTGGGATACTTTCATGTCGAAGGTATACCTAGAG
66 TCTACAATCATTTTCGAGTCTTTTAGGATTATCGAGATACTTTCATGTCGAAGGCATACCTAGAG
93135 GCATTTTGATAATTTCCCTAAAGC
131 GCATTTTGATAATTTCCCTAAAGC
* *
93159 CTAGTTTTATGTAGTTACCG-GATGCTTTTATGCCAAAAGTATGCATTGAGGATAGGTTCACCCT
1 CTAGTCTTATGTAGTCACCGAGATGCTTTTATGCCAAAAGTATGCATTGAGGATAGGTTCACCCT
* ** * * * * *
93223 TTTATGATTATTTTTGAGTTTTTTAGGATTATCGAGATACTTTGATGTTGAAGGCATAC
66 TCTACAATCATTTTCGAGTCTTTTAGGATTATCGAGATACTTTCATGTCGAAGGCATAC
93282 TTGAAAGGAA
Statistics
Matches: 102, Mismatches: 21, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
153 84 0.82
154 18 0.18
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (154 bp):
CTAGTCTTATGTAGTCACCGAGATGCTTTTATGCCAAAAGTATGCATTGAGGATAGGTTCACCCT
TCTACAATCATTTTCGAGTCTTTTAGGATTATCGAGATACTTTCATGTCGAAGGCATACCTAGAG
GCATTTTGATAATTTCCCTAAAGC
Found at i:95856 original size:13 final size:13
Alignment explanation
Indices: 95838--95862 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95828 AACTCATTCA
95838 GTATCGATACATT
1 GTATCGATACATT
95851 GTATCGATACAT
1 GTATCGATACAT
95863 GGTGAAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:97155 original size:52 final size:52
Alignment explanation
Indices: 97090--97209 Score: 159
Period size: 52 Copynumber: 2.3 Consensus size: 52
97080 TCTGGGAAAA
* *
97090 AAATGTATTGATACATTTTTCACTGTATCGATATATTTTGAGTTTTAGACCC
1 AAATGTATTGATACATTTTTCACTGTATCGATACATTCTGAGTTTTAGACCC
* * * * *
97142 AAATGTATTGATACATTTTTTATTGTATCGATACATTCTGGGTTTTTGACCT
1 AAATGTATTGATACATTTTTCACTGTATCGATACATTCTGAGTTTTAGACCC
* *
97194 AACTGTATCGATACAT
1 AAATGTATTGATACAT
97210 GCAGGCAATT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 59 1.00
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.44
Consensus pattern (52 bp):
AAATGTATTGATACATTTTTCACTGTATCGATACATTCTGAGTTTTAGACCC
Found at i:104832 original size:16 final size:16
Alignment explanation
Indices: 104780--104836 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 16
104770 TTTAAACATA
104780 AGCTATTCTGAATAAG
1 AGCTATTCTGAATAAG
*
104796 AACTATTCTGAATACA-
1 AGCTATTCTGAATA-AG
*
104812 AGCTATTTTGAATAAG
1 AGCTATTCTGAATAAG
*
104828 GGCTATTCT
1 AGCTATTCT
104837 TGAAGTAGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 1 0.03
16 32 0.94
17 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (16 bp):
AGCTATTCTGAATAAG
Found at i:108908 original size:51 final size:51
Alignment explanation
Indices: 108843--108961 Score: 148
Period size: 51 Copynumber: 2.3 Consensus size: 51
108833 TGAAAATTAT
*
108843 GGGGTTGGAGTATCCCCAATTATAAGAAATCAATATTTCAAAAATAAGGTC
1 GGGGTTGGAGTATCCCCAATTATAAGAAATCAATATTTCAAAAATAAAGTC
* *** * * ***
108894 GGGGTTGAAGTATCCTTGATTGTGAGAAATCAATATTTTGGAAATAAAGTC
1 GGGGTTGGAGTATCCCCAATTATAAGAAATCAATATTTCAAAAATAAAGTC
108945 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
108962 TCGGAAATAA
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCAATTATAAGAAATCAATATTTCAAAAATAAAGTC
Found at i:108981 original size:28 final size:28
Alignment explanation
Indices: 108946--109016 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
108936 AATAAAGTCG
**
108946 GGGTTGGAGTATCCCCTCGGAAATAACA
1 GGGTTGGAGTATCCCCGAGGAAATAACA
* *
108974 GGGTTGGAGTATCCCCGATGAAATAACG
1 GGGTTGGAGTATCCCCGAGGAAATAACA
*
109002 GGGTTGAAGTATCCC
1 GGGTTGGAGTATCCC
109017 TGATTGTGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGAGGAAATAACA
Found at i:109073 original size:51 final size:51
Alignment explanation
Indices: 109004--109233 Score: 277
Period size: 51 Copynumber: 4.5 Consensus size: 51
108994 AAATAACGGG
* * * * *
109004 GTTGAAGTATCCCTGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAATCGGA
* * * *
109055 GTTGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAATCGGA
* *
109106 GTTGGAGTATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAATCGGA
* * * *
109157 GTTGGAGTATCCCCTATTAAGATAAATTGATGTTTT-GAAAATAAAATCGG-
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAG-AAATAAAATCGGA
*
109207 GATTGGAGTATCCCCGA-GATGAAAAAT
1 G-TTGGAGTATCCCCGATTATGAAAAAT
109234 ATAGAAATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
50 9 0.06
51 147 0.94
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAATCGGA
Found at i:111524 original size:20 final size:18
Alignment explanation
Indices: 111499--111606 Score: 75
Period size: 20 Copynumber: 5.8 Consensus size: 18
111489 AAAATGCCTG
111499 AATGTATCGATACATTGTAA
1 AATGTATCGATACA-TG-AA
*
111519 AATGTATCGACACAAT-AA
1 AATGTATCGATAC-ATGAA
111537 GCAATGTATCGATAC-----
1 --AATGTATCGATACATGAA
*
111552 AATGTATCGATACAATGAGC
1 AATGTATCGATAC-ATGA-A
111572 AATGTATCGATACAATGCAA
1 AATGTATCGATAC-ATG-AA
111592 AATGTATCGATACAT
1 AATGTATCGATACAT
111607 CTGGGTAAAC
Statistics
Matches: 74, Mismatches: 3, Indels: 23
0.74 0.03 0.23
Matches are distributed among these distances:
13 13 0.18
18 2 0.03
19 2 0.03
20 55 0.74
21 2 0.03
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.28
Consensus pattern (18 bp):
AATGTATCGATACATGAA
Found at i:111561 original size:33 final size:33
Alignment explanation
Indices: 111519--111588 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
111509 TACATTGTAA
111519 AATGTATCGACACAATAAGCAATGTATCGATAC
1 AATGTATCGACACAATAAGCAATGTATCGATAC
* *
111552 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGACACAATAAGCAATGTATCGATAC
111585 AATG
1 AATG
111589 CAAAATGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (33 bp):
AATGTATCGACACAATAAGCAATGTATCGATAC
Found at i:111561 original size:53 final size:52
Alignment explanation
Indices: 111499--111605 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 52
111489 AAAATGCCTG
*
111499 AATGTATCGATACATTGTA-AAATGTATCGACACAATAAGC-AATGTATCGATAC
1 AATGTATCGATACAATG-AGAAATGTATCGACACAAT--GCAAATGTATCGATAC
* *
111552 AATGTATCGATACAATGAGCAATGTATCGATACAATGCAAAATGTATCGATAC
1 AATGTATCGATACAATGAGAAATGTATCGACACAATGC-AAATGTATCGATAC
111605 A
1 A
111606 TCTGGGTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
51 2 0.04
52 1 0.02
53 45 0.94
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (52 bp):
AATGTATCGATACAATGAGAAATGTATCGACACAATGCAAATGTATCGATAC
Found at i:111587 original size:13 final size:13
Alignment explanation
Indices: 111538--111568 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
111528 ACACAATAAG
111538 CAATGTATCGATA
1 CAATGTATCGATA
111551 CAATGTATCGATA
1 CAATGTATCGATA
111564 CAATG
1 CAATG
111569 AGCAATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:111642 original size:13 final size:13
Alignment explanation
Indices: 111624--111649 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
111614 AACTTCCTAG
111624 ATGTATCGATACA
1 ATGTATCGATACA
111637 ATGTATCGATACA
1 ATGTATCGATACA
111650 TTGAATAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:111815 original size:20 final size:20
Alignment explanation
Indices: 111790--111843 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
111780 GTTGGGACCT
111790 TGTATCGATACATTCTAGAA
1 TGTATCGATACATTCTAGAA
111810 TGTATCGATACATTCTAGAA
1 TGTATCGATACATTCTAGAA
111830 TGTATCGATACATT
1 TGTATCGATACATT
111844 TGGACAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATTCTAGAA
Found at i:112520 original size:42 final size:43
Alignment explanation
Indices: 112474--112575 Score: 138
Period size: 42 Copynumber: 2.4 Consensus size: 43
112464 CTCATTTTTC
*
112474 GAGGACAAAGGAAAAAGGGAAACG-AAA-TACGTCCTGCTCTCT
1 GAGGACAAAAGAAAAAGGGAAA-GTAAAGTACGTCCTGCTCTCT
* *
112516 GAGGACAAAAGAAAAA-GGAAAGTAAAGTGCGTCCTGCTCTTT
1 GAGGACAAAAGAAAAAGGGAAAGTAAAGTACGTCCTGCTCTCT
112558 GAGGACAAAAGAGAAAAG
1 GAGGACAAAAGA-AAAAG
112576 AAGGGAAGGA
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
40 1 0.02
41 8 0.15
42 40 0.75
43 4 0.08
ACGTcount: A:0.44, C:0.15, G:0.27, T:0.14
Consensus pattern (43 bp):
GAGGACAAAAGAAAAAGGGAAAGTAAAGTACGTCCTGCTCTCT
Found at i:112687 original size:61 final size:58
Alignment explanation
Indices: 112592--112784 Score: 241
Period size: 61 Copynumber: 3.3 Consensus size: 58
112582 AGGAAGTGTG
*
112592 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGCAAAAAGAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT--AAAAAG-AAGCA
*
112653 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA--AGAA-GCA
* * * * *
112714 TCCTGCTCTTTGTGGACT-AAAGGTGCCACTAGCTTGGGTGGGCTTT-AAAAG--GCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAGCA
112768 TCCTGCTCTTTGAGGAC
1 TCCTGCTCTTTGAGGAC
112785 AAAAAGGCGA
Statistics
Matches: 120, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
54 18 0.15
57 2 0.02
59 7 0.06
60 26 0.22
61 67 0.56
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (58 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAGCA
Found at i:112879 original size:215 final size:215
Alignment explanation
Indices: 112591--113006 Score: 568
Period size: 215 Copynumber: 1.9 Consensus size: 215
112581 AAGGAAGTGT
* * *
112591 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGCAAAAAGAAAGCATCC
1 GTCCTACTCTTTAAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAAAGAAAGCATCC
* * * *
112656 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCT
66 TACTCTTTGAGGACTG-AAAGTGCCACCAACTTATGTGGGCTTTAAAAGAAAAAGGCGTCCTGCT
* * * *
112721 CTTTGTGGACT-AAAGGTGCCACTAGCTTGGGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGAC
130 CTTTGAGGACTGAAAGGTGCCACCAACTCGGGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGAC
112785 AAAAAGGCGAAAGGAGAGAGC
195 AAAAAGGCGAAAGGAGAGAGC
* * * *
112806 GTCCTACTCTTTAAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAGAAGGCGT
1 GTCCTACTCTTTAAGGACTGA-AAAGTGCCACCAACTCGTGTGGGCTTTGAAAA-AAGAAAGCAT
* *
112869 CCTACTCTTTGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGAAAAAGGCGTCCTGC
64 CCTACTCTTTGAGGACTGAAAGTGCCACCAACTTATGTGGGCTTTAAAAGAAAAAGGCGTCCTGC
* * * * * *
112934 TCTTTGAGGATTGGAGGGTGCTACCAACTCGTGTGGGCTTTAAAATGCATCCTGCTCTTTGAGGA
129 TCTTTGAGGACTGAAAGGTGCCACCAACTCGGGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGA
*
112999 CTAAAAGG
194 CAAAAAGG
113007 TGCCACCAAC
Statistics
Matches: 174, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
214 56 0.32
215 118 0.68
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (215 bp):
GTCCTACTCTTTAAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAAAGAAAGCATCC
TACTCTTTGAGGACTGAAAGTGCCACCAACTTATGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTC
TTTGAGGACTGAAAGGTGCCACCAACTCGGGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACA
AAAAGGCGAAAGGAGAGAGC
Found at i:112914 original size:60 final size:61
Alignment explanation
Indices: 112804--113055 Score: 262
Period size: 55 Copynumber: 4.3 Consensus size: 61
112794 AAAGGAGAGA
* *
112804 GCGTCCTACTCTTTAAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAGAAG
1 GCGTCCTACTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
* *
112865 GCGTCCTACTCTTTGAGGACT-GAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGAAAAAG
1 GCGTCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
* * * * * *
112925 GCGTCCTGCTCTTTGAGGATTGGAGGGTGCTACCAACTCGTGTGGGCTTT------AAAAT
1 GCGTCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
* * **
112980 GCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT----G--AAAG
1 GCGTCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
*
113035 GCGTCCTGCTCTTTGAGGACT
1 GCGTCCTACTCTTTGAGGACT
113056 AAAGGGTGAA
Statistics
Matches: 167, Mismatches: 21, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
55 70 0.42
59 3 0.02
60 51 0.31
61 43 0.26
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (61 bp):
GCGTCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
Found at i:114145 original size:9 final size:8
Alignment explanation
Indices: 114131--114191 Score: 63
Period size: 8 Copynumber: 7.5 Consensus size: 8
114121 CTTTTCTCCC
*
114131 TTTTTTCT
1 TTTTTTGT
114139 TTGTTTTGT
1 TT-TTTTGT
114148 TTCTTTTGT
1 TT-TTTTGT
114157 TTTTGTT-T
1 TTTT-TTGT
114165 TTTTTTGT
1 TTTTTTGT
*
114173 TTTTGT-T
1 TTTTTTGT
114180 TTTTTTGT
1 TTTTTTGT
114188 TTTT
1 TTTT
114192 GTTTTTGTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
7 8 0.18
8 20 0.44
9 17 0.38
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.85
Consensus pattern (8 bp):
TTTTTTGT
Found at i:114162 original size:6 final size:6
Alignment explanation
Indices: 114151--114203 Score: 71
Period size: 6 Copynumber: 9.7 Consensus size: 6
114141 GTTTTGTTTC
114151 TTTTGT TTTTG- TTTT-T TTTTGT TTTTG- -TTT-T TTTTGT TTTTGT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT
114194 TTTTGT TTTT
1 TTTTGT TTTT
114204 TTAGAAGAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
4 3 0.07
5 11 0.26
6 28 0.67
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (6 bp):
TTTTGT
Found at i:114166 original size:1 final size:1
Alignment explanation
Indices: 114131--114205 Score: 51
Period size: 1 Copynumber: 75.0 Consensus size: 1
114121 CTTTTCTCCC
* * * * * * * * * *
114131 TTTTTTCTTTGTTTTGTTTCTTTTGTTTTTGTTTTTTTTTGTTTTTGTTTTTTTTGTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
114196 TTGTTTTTTT
1 TTTTTTTTTT
114206 AGAAGAGAAA
Statistics
Matches: 52, Mismatches: 22, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (1 bp):
T
Found at i:114177 original size:31 final size:30
Alignment explanation
Indices: 114131--114202 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 30
114121 CTTTTCTCCC
114131 TTTTTTCTTTGTTTTGTTTCTTTTGTTTTTG
1 TTTTTT-TTTGTTTTGTTTCTTTTGTTTTTG
*
114162 TTTTTTTTTGTTTTTGTTTTTTTTGTTTTTG
1 TTTTTTTTTG-TTTTGTTTCTTTTGTTTTTG
114193 TTTTTGTTTT
1 TTTTT-TTTT
114203 TTTAGAAGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
30 4 0.11
31 30 0.79
32 4 0.11
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (30 bp):
TTTTTTTTTGTTTTGTTTCTTTTGTTTTTG
Found at i:114205 original size:15 final size:15
Alignment explanation
Indices: 114132--114197 Score: 98
Period size: 15 Copynumber: 4.3 Consensus size: 15
114122 TTTTCTCCCT
114132 TTTTTCTTTG-TTTTG
1 TTTTT-TTTGTTTTTG
*
114147 TTTCTTTTGTTTTTG
1 TTTTTTTTGTTTTTG
114162 TTTTTTTTTGTTTTTG
1 -TTTTTTTTGTTTTTG
114178 TTTTTTTTGTTTTTG
1 TTTTTTTTGTTTTTG
114193 TTTTT
1 TTTTT
114198 GTTTTTTTAG
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
14 4 0.09
15 29 0.62
16 14 0.30
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (15 bp):
TTTTTTTTGTTTTTG
Found at i:118601 original size:14 final size:14
Alignment explanation
Indices: 118584--118616 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
118574 AAAAATCAAA
118584 AAAAATA-ATTAATT
1 AAAAATATATT-ATT
118598 AAAAATATATTATT
1 AAAAATATATTATT
118612 AAAAA
1 AAAAA
118617 ATTAATAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 15 0.83
15 3 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAAATATATTATT
Found at i:118998 original size:15 final size:14
Alignment explanation
Indices: 118974--119003 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
118964 TTAAAATTCC
118974 ACAAATATATACAT
1 ACAAATATATACAT
118988 ACAATATATATACAT
1 ACAA-ATATATACAT
119003 A
1 A
119004 TATAGCCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATATATACAT
Found at i:121391 original size:10 final size:10
Alignment explanation
Indices: 121373--121412 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
121363 GCCTTCCCTT
121373 CTCCCTCTTC
1 CTCCCTCTTC
*
121383 CTCCATCTTC
1 CTCCCTCTTC
121393 CTCCCTCTTTCC
1 CTCCCTC-TT-C
121405 CTCCCTCT
1 CTCCCTCT
121413 CCCCCTTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.03, C:0.57, G:0.00, T:0.40
Consensus pattern (10 bp):
CTCCCTCTTC
Found at i:121647 original size:27 final size:24
Alignment explanation
Indices: 121608--121659 Score: 59
Period size: 27 Copynumber: 2.0 Consensus size: 24
121598 TTCCCCGGTC
121608 CTCTCCCCCTCCTCCAATCCCTCCCCT
1 CTCTCCCCCTCCT-C-ATCCC-CCCCT
* *
121635 CTCTCCTCTTCCTCATCCCCCCCT
1 CTCTCCCCCTCCTCATCCCCCCCT
121659 C
1 C
121660 CCTTTTACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 6 0.26
25 5 0.22
26 1 0.04
27 11 0.48
ACGTcount: A:0.06, C:0.65, G:0.00, T:0.29
Consensus pattern (24 bp):
CTCTCCCCCTCCTCATCCCCCCCT
Found at i:122405 original size:24 final size:23
Alignment explanation
Indices: 122361--122405 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
122351 CCTCGTCCAT
*
122361 CTCCCCTTCCCCCTTCCTCCCTG
1 CTCCCCTTCCCCCTTCATCCCTG
122384 CTCCCACTTCCGCCC-TCATCCC
1 CTCCC-CTTCC-CCCTTCATCCC
122406 CTCTCTCTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 11 0.58
25 3 0.16
ACGTcount: A:0.04, C:0.64, G:0.04, T:0.27
Consensus pattern (23 bp):
CTCCCCTTCCCCCTTCATCCCTG
Found at i:123255 original size:10 final size:10
Alignment explanation
Indices: 123235--124237 Score: 139
Period size: 10 Copynumber: 97.2 Consensus size: 10
123225 TCCTCCTTCT
*
123235 CCTCTTCCCC
1 CCTCCTCCCC
*
123245 CCTTCTCCCC
1 CCTCCTCCCC
123255 CCATCCCTCCCC
1 CC-T-CCTCCCC
*
123267 CCACC-CCCC
1 CCTCCTCCCC
123276 CTCTTCC-CCCC
1 C-C-TCCTCCCC
123287 CCTCCTCCCC
1 CCTCCTCCCC
123297 CCTCCCTCCCC
1 CCT-CCTCCCC
*
123308 CCACCCTCTCCC
1 CC-TCCTC-CCC
123320 CCTCC-CCCC
1 CCTCCTCCCC
*
123329 CC-CCGCCTCC
1 CCTCCTCC-CC
*
123339 CCTCCACCCCC
1 CCTCC-TCCCC
123350 CCTCCTCCCC
1 CCTCCTCCCC
* *
123360 CCCCCGCCCTC
1 CCTCCTCCC-C
* *
123371 TACTCTATCCCTTC
1 -CCTC-CTCCC--C
* *
123385 CC-CTTCCAC
1 CCTCCTCCCC
*
123394 ACTACC-CCCC
1 CCT-CCTCCCC
* **
123404 ACATCCATCGCTT
1 -CCTCC-TC-CCC
*
123417 CCACCTCCCCC
1 CCTCCT-CCCC
*
123428 CCACCTCCCC
1 CCTCCTCCCC
* * * *
123438 CCGCTTCTCT
1 CCTCCTCCCC
*
123448 CCTTCTCCCC
1 CCTCCTCCCC
*
123458 CCACCTTCCCC
1 CCTCC-TCCCC
123469 CCT-CT-CCC
1 CCTCCTCCCC
123477 CCTCCTCCCC
1 CCTCCTCCCC
123487 GCCTCCGGTCCCC
1 -CCTCC--TCCCC
*
123500 CC-GC-CCCC
1 CCTCCTCCCC
* **
123508 TCTCCCTCTTC
1 CCT-CCTCCCC
*
123519 CCTCGCCCCCC
1 CCTC-CTCCCC
*
123530 CCT-CTCCCT
1 CCTCCTCCCC
123539 CCTCCTCCCC
1 CCTCCTCCCC
*
123549 ACCACC-CCCC
1 -CCTCCTCCCC
*
123559 CCTCATCCCC
1 CCTCCTCCCC
123569 CCTCCCCTCCAACC
1 CCT--CCTCC--CC
*
123583 CTCCCCTCCCC
1 C-CTCCTCCCC
123594 CC-CC-CCACC
1 CCTCCTCC-CC
123603 CCTCCTCCCC
1 CCTCCTCCCC
* * **
123613 CCCCCACTATC
1 CCTCCTC-CCC
123624 CCTGAACCTACCCTC
1 CCT---CCT-CCC-C
123639 CC-CCTACCCCC
1 CCTCCT--CCCC
*
123650 CCTCCCCCCTC
1 CCTCCTCCC-C
123661 CCTCCTCCTCC
1 CCTCCTCC-CC
*
123672 CCTCCCCCCC
1 CCTCCTCCCC
*
123682 CCGTCCCACCCTC
1 CC-T-CCTCCC-C
*
123695 CCTTCTCCCC
1 CCTCCTCCCC
123705 CC-CCTCCCC
1 CCTCCTCCCC
* * *
123714 CAT-CACCCG
1 CCTCCTCCCC
*
123723 CCT--TCCCT
1 CCTCCTCCCC
*
123731 ACTCCTCCCC
1 CCTCCTCCCC
123741 CC-CCATCGCTCC
1 CCTCC-TC-C-CC
123753 CCTCC-CCCATGC
1 CCTCCTCCC---C
*
123765 AGCTCCTCCCGTCC
1 -CCTCCT-CC--CC
* *
123779 CCACCGCTCCC
1 CCTCCTC-CCC
*
123790 CCTCC-CTCC
1 CCTCCTCCCC
123799 CCTCC-CCTCC
1 CCTCCTCC-CC
123809 CCTCC-CCCC
1 CCTCCTCCCC
* * *
123818 CCTCTTTCTC
1 CCTCCTCCCC
* *
123828 TCTCC-CCCT
1 CCTCCTCCCC
*
123837 CCTCCCCCCC
1 CCTCCTCCCC
123847 CCT-CTCCCC
1 CCTCCTCCCC
*
123856 CCCCCTCCCC
1 CCTCCTCCCC
*
123866 CC-CCCCCCC
1 CCTCCTCCCC
*
123875 GCCCCCTCCCC
1 -CCTCCTCCCC
123886 CC-CC-CCCTC
1 CCTCCTCCC-C
123895 TCC-CCTCACCC
1 -CCTCCTC-CCC
*
123906 CC-CCTCCAC
1 CCTCCTCCCC
123915 CCTCC-CCCC
1 CCTCCTCCCC
*
123924 CTCCCCTACCCTC
1 C-CTCCT-CCC-C
123937 CC-CC-CCCGC
1 CCTCCTCCC-C
*
123946 CCCCCTCCCC
1 CCTCCTCCCC
* *
123956 CATCC-CCTC
1 CCTCCTCCCC
123965 CCTCCTCCCC
1 CCTCCTCCCC
*
123975 TCTCCT-CCC
1 CCTCCTCCCC
123984 CCTCC-CCCC
1 CCTCCTCCCC
123993 CCTCCTCCCC
1 CCTCCTCCCC
124003 TCC-CC-CCCC
1 -CCTCCTCCCC
*
124012 ACCCCCTCCCC
1 -CCTCCTCCCC
* *
124023 CC-CCACCCTT
1 CCTCCTCCC-C
124033 CCTCCCTCCCTC
1 CCT-CCTCCC-C
*
124045 CCCCCT-CCC
1 CCTCCTCCCC
*
124054 GCTCC-CTCCC
1 CCTCCTC-CCC
*
124064 CCTCCTCCTC
1 CCTCCTCCCC
124074 CCTCCTCCATCC
1 CCTCCTCC--CC
124086 CTCTCCCTCCCTC
1 C-CT-CCTCCC-C
*
124099 CCCCCTCCGCC
1 CCTCCTCC-CC
*
124110 CCACC-CCCC
1 CCTCCTCCCC
* *
124119 CCACCGCCCC
1 CCTCCTCCCC
124129 CC-CC-CCCC
1 CCTCCTCCCC
* *
124137 CCCCACACCCC
1 CCTC-CTCCCC
* *
124148 CCTCCACAACC
1 CCTCCTC-CCC
*
124159 CC-CC-CCTC
1 CCTCCTCCCC
124167 CCTCC-CCCC
1 CCTCCTCCCC
*
124176 CTCTCATCCCCC
1 C-CTCCT-CCCC
* *
124188 CCCCCCCCCC
1 CCTCCTCCCC
*
124198 CCTCATCCCC
1 CCTCCTCCCC
124208 AACCTCC-CCCC
1 --CCTCCTCCCC
124219 CC-CC-CCCC
1 CCTCCTCCCC
124227 CC-CCTCCCC
1 CCTCCTCCCC
124236 CC
1 CC
124238 CCCATAACCA
Statistics
Matches: 732, Mismatches: 141, Indels: 241
0.66 0.13 0.22
Matches are distributed among these distances:
8 42 0.06
9 163 0.22
10 231 0.32
11 166 0.23
12 75 0.10
13 34 0.05
14 13 0.02
15 7 0.01
17 1 0.00
ACGTcount: A:0.05, C:0.75, G:0.02, T:0.17
Consensus pattern (10 bp):
CCTCCTCCCC
Found at i:123264 original size:12 final size:11
Alignment explanation
Indices: 123240--124240 Score: 186
Period size: 11 Copynumber: 89.6 Consensus size: 11
123230 CTTCTCCTCT
*
123240 TCCCCCCT-TC
1 TCCCCCCTCCC
123250 TCCCCCCATCCC
1 TCCCCCC-TCCC
*
123262 TCCCCCCACCC
1 TCCCCCCTCCC
* *
123273 -CCCCTCTTCC
1 TCCCCCCTCCC
123283 -CCCCCCT-CC
1 TCCCCCCTCCC
123292 TCCCCCCTCCC
1 TCCCCCCTCCC
*
123303 TCCCCCCACCC
1 TCCCCCCTCCC
123314 TCTCCCCCTCCC
1 TC-CCCCCTCCC
123326 -CCCCCC-CGCC
1 TCCCCCCTC-CC
*
123336 TCCCCTCCACCC
1 TCCCC-CCTCCC
123348 -CCCCTCCTCCC
1 TCCCC-CCTCCC
*
123359 -CCCCCCGCCC
1 TCCCCCCTCCC
* **
123369 TCTACTCTATCCC
1 TC--CCCCCTCCC
* *
123382 TTCCCCTTCCAC
1 TCCCCCCTCC-C
* **
123394 ACTACCC-CCC
1 TCCCCCCTCCC
* ** * *
123404 ACATCCATCGC
1 TCCCCCCTCCC
* *
123415 TTCCACCTCCC
1 TCCCCCCTCCC
123426 -CCCCACCTCCC
1 TCCCC-CCTCCC
123437 -CCCGCTTCTCTCCTTC
1 TCCC-C--C-CTCC--C
* *
123453 TCCCCCCACCT
1 TCCCCCCTCCC
123464 TCCCCCCT--C
1 TCCCCCCTCCC
123473 T-CCCCCT-CC
1 TCCCCCCTCCC
*
123482 TCCCCGCCTCCGG
1 TCCCC-CCTCC-C
*
123495 TCCCCCCGCCCCC
1 T-CCCCC-CTCCC
*
123508 TCTCCCTCTTCCC
1 TC-CCC-CCTCCC
123521 TCGCCCCC-CCC
1 TC-CCCCCTCCC
123532 TCTCCCTCCT-CC
1 TC-CCC-CCTCCC
*
123544 TCCCCACC-ACC
1 TCCCC-CCTCCC
*
123555 -CCCCCCT-CA
1 TCCCCCCTCCC
123564 TCCCCCCTCCCC
1 TCCCCCCT-CCC
*
123576 TCCAACCCTCCCC
1 TCC-CCCCT-CCC
*
123589 TCCCCCCCCCC
1 TCCCCCCTCCC
*
123600 ACCCCTCCTCCC
1 TCCCC-CCTCCC
*
123612 CCCCCCACTATCCC
1 TCCCCC-C--TCCC
*
123626 TGAACCTACCCTCCC
1 T---CC-CCCCTCCC
123641 -CCTACCCC-CCC
1 TCC--CCCCTCCC
123652 TCCCCCCTCCC
1 TCCCCCCTCCC
*
123663 T-CCTCCTCCCC
1 TCCCCCCT-CCC
123674 TCCCCCC-CCC
1 TCCCCCCTCCC
123684 GTCCCACCCTCCC
1 -TCCC-CCCTCCC
123697 TTCTCCCCC-CCC
1 -TC-CCCCCTCCC
* *
123709 TCCCCCATCAC
1 TCCCCCCTCCC
* *
123720 -CCGCCTTCCC
1 TCCCCCCTCCC
* *
123730 T-ACTCCTCCC
1 TCCCCCCTCCC
* *
123740 -CCCCCATCGC
1 TCCCCCCTCCC
123750 TCCCCTCC-CCC
1 TCCCC-CCTCCC
* *
123761 ATGCAGCTCCTCCC
1 -T-C-CCCCCTCCC
* *
123775 GTCCCCAC-CGC
1 -TCCCCCCTCCC
123786 T-CCCCCTCCC
1 TCCCCCCTCCC
123796 T--CCCCTCCC
1 TCCCCCCTCCC
*
123805 -CTCCCCTCCC
1 TCCCCCCTCCC
*
123815 -CCCCCTCTTTCTC
1 TCCCCC-C--TCCC
123828 TCTCCCCCT-CC
1 TC-CCCCCTCCC
123839 TCCCCCC-CCC
1 TCCCCCCTCCC
*
123849 TCTCCCCCCCCC
1 TC-CCCCCTCCC
123861 TCCCCCC-CCC
1 TCCCCCCTCCC
123871 -CCCCGCC-CCC
1 TCCCC-CCTCCC
*
123881 TCCCCCCCCCCC
1 T-CCCCCCTCCC
* *
123893 TCTCCCCTCAC
1 TCCCCCCTCCC
123904 -CCCCCCTCCAC
1 TCCCCCCTCC-C
123915 -CCTCCCC-CCC
1 TCC-CCCCTCCC
123925 T--CCCCTACCC
1 TCCCCCCT-CCC
123935 T-CCCCC-CCC
1 TCCCCCCTCCC
*
123944 GCCCCCCTCCC
1 TCCCCCCTCCC
123955 -CCATCCCCTCCC
1 TCC--CCCCTCCC
123967 TCCTCCCCTCTCC
1 TCC-CCCCTC-CC
123980 T-CCCCCTCCC
1 TCCCCCCTCCC
*
123990 CCCCCTCCTCCC
1 TCCCC-CCTCCC
124002 -CTCCCCC-CCC
1 TC-CCCCCTCCC
*
124012 -ACCCCCTCCC
1 TCCCCCCTCCC
*
124022 -CCCCCAC-CCT
1 TCCCCC-CTCCC
*
124032 TCCTCCCTCCC
1 TCCCCCCTCCC
124043 TCCCCCCTCCCGC
1 TCCCCCCT-CC-C
*
124056 TCCCTCC-CCC
1 TCCCCCCTCCC
*
124066 T-CCTCCTCCC
1 TCCCCCCTCCC
* *
124076 TCCTCCATCCC
1 TCCCCCCTCCC
*
124087 T-CTCCCTCCC
1 TCCCCCCTCCC
124097 TCCCCCCTCCGC
1 TCCCCCCTCC-C
* *
124109 CCCACCCCCCCC
1 TCC-CCCCTCCC
*
124121 ACCGCCCC-CCC
1 TCC-CCCCTCCC
*
124132 -CCCCCCCCCAC
1 TCCCCCCTCC-C
*
124143 ACCCCCCTCCACAAC
1 TCCCCCCT-C-C--C
*
124158 CCCCCCCTCCC
1 TCCCCCCTCCC
*
124169 TCCCCCCCTCTCA
1 T-CCCCCCTC-CC
*
124182 TCCCCCCCCCC
1 TCCCCCCTCCC
* *
124193 CCCCCCCT-CA
1 TCCCCCCTCCC
124203 TCCCCAACCTCCC
1 TCCCC--CCTCCC
124216 -CCCCCC-CCC
1 TCCCCCCTCCC
124225 -CCCCCCTCCC
1 TCCCCCCTCCC
124235 -CCCCCC
1 TCCCCCC
124241 ATAACCACCG
Statistics
Matches: 748, Mismatches: 126, Indels: 234
0.68 0.11 0.21
Matches are distributed among these distances:
8 10 0.01
9 51 0.07
10 195 0.26
11 211 0.28
12 152 0.20
13 74 0.10
14 28 0.04
15 17 0.02
16 2 0.00
17 6 0.01
18 2 0.00
ACGTcount: A:0.05, C:0.76, G:0.02, T:0.17
Consensus pattern (11 bp):
TCCCCCCTCCC
Found at i:123275 original size:19 final size:19
Alignment explanation
Indices: 123251--123364 Score: 85
Period size: 19 Copynumber: 5.9 Consensus size: 19
123241 CCCCCCTTCT
*
123251 CCCCCCATCCCTCCCCCCA
1 CCCCCCCTCCCTCCCCCCA
*
123270 CCCCCCCTCTTCC-CCCCCCTC
1 CCCCCCCTC--CCTCCCCCC-A
123291 CTCCCCCCTCCCTCCCCCCA
1 C-CCCCCCTCCCTCCCCCCA
*
123311 CCCTCTCC-CCCTCCCCCC-
1 CCC-CCCCTCCCTCCCCCCA
* *
123329 CCCCGCCTCCCCTCCACCC-
1 CCCCCCCT-CCCTCCCCCCA
*
123348 CCCCTCCTCCC-CCCCCC
1 CCCCCCCTCCCTCCCCCC
123365 GCCCTCTACT
Statistics
Matches: 79, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
17 8 0.10
18 6 0.08
19 36 0.46
20 12 0.15
21 9 0.11
22 8 0.10
ACGTcount: A:0.04, C:0.82, G:0.01, T:0.14
Consensus pattern (19 bp):
CCCCCCCTCCCTCCCCCCA
Found at i:123277 original size:30 final size:27
Alignment explanation
Indices: 123241--123363 Score: 87
Period size: 27 Copynumber: 4.6 Consensus size: 27
123231 TTCTCCTCTT
*
123241 CCCCCCTTCTCCCCCCATCCCTCCCCCC
1 CCCCCCCTCTCCCCCCA-CCCTCCCCCC
* *
123269 ACCCCCCCTCTTCCCCC-CCCT-CCTCC
1 -CCCCCCCTCTCCCCCCACCCTCCCCCC
*
123295 CCCCTCC-CTCCCCCCACCCTCTCCCCC
1 CCCCCCCTCTCCCCCCACCCTC-CCCCC
* *
123322 TCCCCCCC-C-CCGCCTC-CCCTCCACCC
1 -CCCCCCCTCTCC-CCCCACCCTCCCCCC
* *
123348 CCCCTCCTCCCCCCCC
1 CCCCCCCTCTCCCCCC
123364 CGCCCTCTAC
Statistics
Matches: 76, Mismatches: 11, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
24 7 0.09
25 16 0.21
26 12 0.16
27 17 0.22
28 10 0.13
29 14 0.18
ACGTcount: A:0.03, C:0.80, G:0.01, T:0.15
Consensus pattern (27 bp):
CCCCCCCTCTCCCCCCACCCTCCCCCC
Found at i:123286 original size:41 final size:40
Alignment explanation
Indices: 123235--123362 Score: 130
Period size: 42 Copynumber: 3.3 Consensus size: 40
123225 TCCTCCTTCT
*
123235 CCTCTT-CCCCCCTTCTCCCCCCATCCCTCCCCCCACCCCC
1 CCTCTTCCCCCCCTCCTCCCCCC-TCCCTCCCCCCACCCCC
123275 CCTCTTCCCCCCCCTCCTCCCCCCTCCCTCCCCCCA----C
1 CCTCTT-CCCCCCCTCCTCCCCCCTCCCTCCCCCCACCCCC
*
123312 CCTC-TCCCCCTCC-CC-CCCCCC-GCCTCCCCTCCACCCCC
1 CCTCTTCCCCC-CCTCCTCCCCCCTCCCTCCCC-CCACCCCC
*
123350 CCTCCTCCCCCCC
1 CCTCTTCCCCCCC
123363 CCGCCCTCTA
Statistics
Matches: 77, Mismatches: 2, Indels: 20
0.78 0.02 0.20
Matches are distributed among these distances:
33 7 0.09
34 9 0.12
35 7 0.09
36 3 0.04
37 5 0.06
38 7 0.09
39 6 0.08
40 6 0.08
41 12 0.16
42 15 0.19
ACGTcount: A:0.03, C:0.79, G:0.01, T:0.17
Consensus pattern (40 bp):
CCTCTTCCCCCCCTCCTCCCCCCTCCCTCCCCCCACCCCC
Found at i:123499 original size:31 final size:29
Alignment explanation
Indices: 123464--123614 Score: 74
Period size: 31 Copynumber: 4.9 Consensus size: 29
123454 CCCCCCACCT
*
123464 TCCCCCCTCTCCCCCTCCTCCCCGCCTCCGG
1 TCCCCCCTCTCCCCCTCCTCCCC-CCT-CGC
* **
123495 TCCCCCCGC-CCCCTCTCCCTCTTCCCTCGC
1 TCCCCCCTCTCCCC-CT-CCTCCCCCCTCGC
* *
123525 CCCCCCCTCTCCCTCCTCCTCCCCACCAC-C
1 TCCCCCCTCTCCC-CCTCCTCCCC-CCTCGC
* *
123555 -CCCCCCTCATCCCCCCTCCCCTCCAACCCTCCCC
1 TCCCCCCTC-T-CCCCCT--CCTCC-CCCCT-CGC
* *
123589 TCCCCCCCCCCACCCCTCCTCCCCCC
1 TCCCCCCTCTC-CCCCTCCTCCCCCC
123615 CCCACTATCC
Statistics
Matches: 92, Mismatches: 14, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
29 8 0.09
30 23 0.25
31 27 0.29
32 18 0.20
33 3 0.03
34 6 0.07
35 7 0.08
ACGTcount: A:0.04, C:0.75, G:0.03, T:0.17
Consensus pattern (29 bp):
TCCCCCCTCTCCCCCTCCTCCCCCCTCGC
Done.