Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 153 of 335
Found at i:44934738 original size:12 final size:13
Alignment explanation
Indices: 44934716--44934744 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
44934706 GATATTATTA
44934716 TATAGAGAGATAT
1 TATAGAGAGATAT
44934729 TATA-AGAGATAT
1 TATAGAGAGATAT
44934741 TATA
1 TATA
44934745 CCAAAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.34
Consensus pattern (13 bp):
TATAGAGAGATAT
Found at i:44935967 original size:16 final size:16
Alignment explanation
Indices: 44935948--44935989 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
44935938 TAATTGATCG
44935948 AATTAATAATAAATTT
1 AATTAATAATAAATTT
*
44935964 AATTTAATTA-AAATTT
1 AA-TTAATAATAAATTT
44935980 AATTAATAAT
1 AATTAATAAT
44935990 TTTTTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 6 0.27
16 10 0.45
17 6 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTAATAATAAATTT
Found at i:44935978 original size:11 final size:11
Alignment explanation
Indices: 44935964--44936007 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
44935954 TAATAAATTT
44935964 AATTTAATTAA
1 AATTTAATTAA
44935975 AATTTAATTAA
1 AATTTAATTAA
*
44935986 TAATTT-TTTAA
1 -AATTTAATTAA
44935997 AATTTTAATTA
1 AA-TTTAATTA
44936008 TCAATTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
10 2 0.07
11 18 0.64
12 8 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AATTTAATTAA
Found at i:44937073 original size:33 final size:31
Alignment explanation
Indices: 44937034--44937142 Score: 100
Period size: 33 Copynumber: 3.4 Consensus size: 31
44937024 AGAAAGTGGT
44937034 AAGAGAACAAGTTGATTGAGAGATATAGAAAG
1 AAGAGAACAAGTTGA-TGAGAGATATAGAAAG
* *
44937066 AGAGAGAACAAGTTTAGATGCG-GA-A-AG-GAG
1 A-AGAGAACAAG-TT-GATGAGAGATATAGAAAG
44937096 CAAGAGAACAAGTTGACTGAGAGATATAGAAAG
1 -AAGAGAACAAGTTGA-TGAGAGATATAGAAAG
*
44937129 AACGAGCACAAGTT
1 AA-GAGAACAAGTT
44937143 TGCTTAGAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
28 2 0.03
29 5 0.08
30 14 0.23
31 4 0.06
32 6 0.10
33 24 0.39
34 5 0.08
35 2 0.03
ACGTcount: A:0.47, C:0.08, G:0.29, T:0.16
Consensus pattern (31 bp):
AAGAGAACAAGTTGATGAGAGATATAGAAAG
Found at i:44939926 original size:18 final size:17
Alignment explanation
Indices: 44939905--44939947 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
44939895 TCATATACAT
44939905 TATAAAAA-AAGTATATAA
1 TATAAAAACAA-TA-ATAA
*
44939923 TATAAAAACAATACTAA
1 TATAAAAACAATAATAA
44939940 TATAAAAA
1 TATAAAAA
44939948 TGATATAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 11 0.48
18 10 0.43
19 2 0.09
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (17 bp):
TATAAAAACAATAATAA
Found at i:44940045 original size:1 final size:1
Alignment explanation
Indices: 44940039--44940064 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
44940029 TTTAATGAAC
44940039 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
44940065 CAGAGGAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:44941492 original size:28 final size:28
Alignment explanation
Indices: 44941461--44941572 Score: 70
Period size: 28 Copynumber: 3.9 Consensus size: 28
44941451 TAATATAATT
44941461 ATATTTATAAAAATATTTAAATAATTTA
1 ATATTTATAAAAATATTTAAATAATTTA
* * *
44941489 ATATAATGATAGATAAA-ATATGAATTAATTTA
1 ATAT--TTATA-A-AAATAT-TTAAATAATTTA
*
44941521 A-ATTTTTAAATACAT-TTTAAATAA-TTA
1 ATATTTATAAA-A-ATATTTAAATAATTTA
** *
44941548 ATATAAATAAAAATATTTTAATAAT
1 ATATTTATAAAAATATTTAAATAAT
44941573 CTATACTTTA
Statistics
Matches: 62, Mismatches: 11, Indels: 22
0.65 0.12 0.23
Matches are distributed among these distances:
26 2 0.03
27 14 0.23
28 18 0.29
29 5 0.08
30 4 0.06
31 5 0.08
32 14 0.23
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.43
Consensus pattern (28 bp):
ATATTTATAAAAATATTTAAATAATTTA
Found at i:44943684 original size:30 final size:30
Alignment explanation
Indices: 44943633--44943689 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
44943623 AAATAGATAA
* *
44943633 ATATAAATAAATATTTATATATATAATGAC
1 ATATAAATAAAAAATTATATATATAATGAC
*
44943663 ATATAAATAGAAAAATT-TATATTTAAT
1 ATATAAATA-AAAAATTATATATATAAT
44943690 TTGCAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 18 0.78
31 5 0.22
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (30 bp):
ATATAAATAAAAAATTATATATATAATGAC
Found at i:44945545 original size:36 final size:36
Alignment explanation
Indices: 44945491--44945562 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
44945481 GTGCAGGAGT
*
44945491 TTGAGAAGACTCGATATCTCATTCAAGATCTTGGGA
1 TTGAGAAGACTCGATATCTCATTCAAGAGCTTGGGA
* * *
44945527 TTGAGAAGAC-CTGGTATCTCGTTGAAGAGCTTGGGA
1 TTGAGAAGACTC-GATATCTCATTCAAGAGCTTGGGA
44945563 ATATATGATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 1 0.03
36 30 0.97
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (36 bp):
TTGAGAAGACTCGATATCTCATTCAAGAGCTTGGGA
Found at i:44947194 original size:3 final size:3
Alignment explanation
Indices: 44947186--44947234 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
44947176 AAGTTTTCTT
*
44947186 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
44947234 T
1 T
44947235 CATCTGTGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:44955919 original size:21 final size:20
Alignment explanation
Indices: 44955885--44955923 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
44955875 AAACATAAAC
44955885 AACTTCACATTTTTTAAAGT
1 AACTTCACATTTTTTAAAGT
*
44955905 AACTTTACAATTTTTTAAA
1 AACTTCAC-ATTTTTTAAA
44955924 ATTTATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.46
Consensus pattern (20 bp):
AACTTCACATTTTTTAAAGT
Found at i:44965245 original size:27 final size:28
Alignment explanation
Indices: 44965188--44965256 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
44965178 AAACTTGTAC
*
44965188 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
44965216 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
44965243 AGCACT-AGTGTGCG
1 AGCACTAAGTGTGCG
44965257 GACTCACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
26 8 0.21
27 14 0.36
28 17 0.44
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:44968915 original size:2 final size:2
Alignment explanation
Indices: 44968908--44968934 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
44968898 AATCATATTT
44968908 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
44968935 TAAATATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44969670 original size:29 final size:29
Alignment explanation
Indices: 44969615--44969675 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
44969605 TTCCCTTTCC
* ** *
44969615 TTTTTCTTTTTTTCTTTTTTTTCTTTCAT
1 TTTTTCTTTCTTTCTTTCCTCTCTTTCAT
* *
44969644 TTTTTCTTTCTTTCTTTCCTCTGTTTCGT
1 TTTTTCTTTCTTTCTTTCCTCTCTTTCAT
44969673 TTT
1 TTT
44969676 GCTATTCTGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.02, C:0.18, G:0.03, T:0.77
Consensus pattern (29 bp):
TTTTTCTTTCTTTCTTTCCTCTCTTTCAT
Found at i:44973823 original size:37 final size:37
Alignment explanation
Indices: 44973767--44973913 Score: 206
Period size: 37 Copynumber: 4.0 Consensus size: 37
44973757 TCAGATGAAA
* * *
44973767 TCTCCATACGAAGTTATCGGGTCTTACCCGGACATAT
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACATAT
* *
44973804 TCTCCACACGTAGTCATCGGGTCTTACCCAGATATAT
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACATAT
* * *
44973841 TCTCCACATGTAGTCATCGGGTCTTACCCGGACGTAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACATAT
*
44973878 TCTCCACACGTAGTCATCGGGTCTCACCCGGA-ATAT
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACATAT
44973914 ATTTCCAAGT
Statistics
Matches: 96, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
36 2 0.02
37 94 0.98
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (37 bp):
TCTCCACACGTAGTCATCGGGTCTTACCCGGACATAT
Found at i:44974025 original size:48 final size:48
Alignment explanation
Indices: 44973954--44974385 Score: 720
Period size: 48 Copynumber: 9.0 Consensus size: 48
44973944 TGTTACAACA
* * *
44973954 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* *
44974002 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
*
44974050 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
*
44974098 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
*
44974146 TTCACATTAGCCATTCGACTTTACCACATATACATATCTCACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* *
44974194 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* *
44974242 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* *
44974290 TTCACATTAGCCATTCGGCTTTACCGCATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* *
44974338 TTCACATTAGCCATTCGGCTTTATCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
44974386 ATATTTATCT
Statistics
Matches: 361, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 361 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
Found at i:44977184 original size:40 final size:40
Alignment explanation
Indices: 44977076--44977285 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
44977066 CGGGATTTAA
* * * * *
44977076 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
44977116 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44977156 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44977196 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44977236 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44977276 CCGGATATAT
1 CCGGATATAT
44977286 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:44984664 original size:28 final size:29
Alignment explanation
Indices: 44984574--44984704 Score: 156
Period size: 29 Copynumber: 4.6 Consensus size: 29
44984564 CCTTCGAGCT
** * * *
44984574 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * * *
44984603 TGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
44984632 TGCACACTTAGTGCCTTATA-TTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
44984660 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
44984689 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
44984705 ATCTCGTCAC
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 26 0.29
29 63 0.71
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:44984665 original size:57 final size:57
Alignment explanation
Indices: 44984595--44984703 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
44984585 TGCCGTATTT
** * * *
44984595 TTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCTTATA
1 TTCCAGCACGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCTTATA
*
44984652 TTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 TTCCAGCACGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
44984704 AATCTCGTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 46 1.00
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (57 bp):
TTCCAGCACGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCTTATA
Found at i:44985535 original size:143 final size:141
Alignment explanation
Indices: 44985345--44985639 Score: 563
Period size: 143 Copynumber: 2.1 Consensus size: 141
44985335 AAATTCTATA
44985345 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
1 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
44985410 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
66 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
*
44985475 GAAGACAACAT
131 GAAAACAACAT
44985486 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATG--CACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
44985551 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
64 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
44985616 AGGAAAACAACAT
129 AGGAAAACAACAT
44985629 GCATGGCCGAA
1 GCATGGCCGAA
44985640 ATTTAACTCA
Statistics
Matches: 151, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 19 0.13
143 132 0.87
ACGTcount: A:0.39, C:0.29, G:0.11, T:0.21
Consensus pattern (141 bp):
GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
GAAAACAACAT
Found at i:44992548 original size:29 final size:28
Alignment explanation
Indices: 44992516--44992648 Score: 135
Period size: 29 Copynumber: 4.7 Consensus size: 28
44992506 ATACCCTTCG
** *
44992516 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCC-TATATTTCC
* * * *
44992545 AGCTTGCACACATAGT-TCTATTTTTCC
1 AGCTCGCACACTTAGTGCCTATATTTCC
44992572 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCC-TATATTTCC
*
44992601 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCC-TATATTTCC
*
44992630 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
44992649 AATCTCGTCA
Statistics
Matches: 91, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
27 22 0.24
28 3 0.03
29 66 0.73
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.30
Consensus pattern (28 bp):
AGCTCGCACACTTAGTGCCTATATTTCC
Found at i:44992589 original size:56 final size:58
Alignment explanation
Indices: 44992491--44992648 Score: 158
Period size: 56 Copynumber: 2.8 Consensus size: 58
44992481 AATTTAAGCC
* *** * * ** * *
44992491 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * * *
44992549 TGCACACATAGT-TC-TATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
44992605 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
44992649 AATCTCGTCA
Statistics
Matches: 79, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
56 41 0.52
57 2 0.03
58 36 0.46
ACGTcount: A:0.23, C:0.34, G:0.15, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:44992649 original size:29 final size:29
Alignment explanation
Indices: 44992567--44992649 Score: 148
Period size: 29 Copynumber: 2.9 Consensus size: 29
44992557 TAGTTCTATT
* *
44992567 TTTCCAGCATGCACACTTAGTGCCTTATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
44992596 TTTCCAGCACGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
44992625 TTTCCAGCACGCACACTTAGTGCCA
1 TTTCCAGCACGCACACTTAGTGCCA
44992650 ATCTCGTCAC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.29
Consensus pattern (29 bp):
TTTCCAGCACGCACACTTAGTGCCATATA
Found at i:44993483 original size:143 final size:141
Alignment explanation
Indices: 44993293--44993587 Score: 563
Period size: 143 Copynumber: 2.1 Consensus size: 141
44993283 AAATTCTATA
44993293 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
1 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
44993358 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
66 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
*
44993423 GAAGACAACAT
131 GAAAACAACAT
44993434 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATG--CACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
44993499 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
64 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
44993564 AGGAAAACAACAT
129 AGGAAAACAACAT
44993577 GCATGGCCGAA
1 GCATGGCCGAA
44993588 ATTTAACTCA
Statistics
Matches: 151, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 19 0.13
143 132 0.87
ACGTcount: A:0.39, C:0.29, G:0.11, T:0.21
Consensus pattern (141 bp):
GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
GAAAACAACAT
Found at i:44994980 original size:38 final size:39
Alignment explanation
Indices: 44994888--44995030 Score: 216
Period size: 39 Copynumber: 3.7 Consensus size: 39
44994878 GAATGTTCGA
44994888 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
44994927 GTGATATCCGGGCTAAGCCCGAAGGCAATT-TGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
44994965 ATGATATCCGAGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
44995004 GTGATATTCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
44995031 CTTTGTGCGG
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
38 34 0.37
39 49 0.53
40 9 0.10
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:44996489 original size:61 final size:62
Alignment explanation
Indices: 44996330--44996525 Score: 245
Period size: 62 Copynumber: 3.2 Consensus size: 62
44996320 AAGTACAAAA
* * * * *
44996330 AGTGAGTCACACGGCCTGGGCACACAG-CCATGTCCCTGGCCATATGGTTTTTATACTATGAAT
1 AGTGAGTTACACGGCCTGGGCACAC-GCCCGTGTCCCTGGCCATGTGG-TTTTATACAATGAAC
* * * * * *
44996393 AATGAGTTTCAC-GCCTGGCCACATGCCCGTGTCCCTGGTCGTGTGG-TTTATACAATGAAC
1 AGTGAGTTACACGGCCTGGGCACACGCCCGTGTCCCTGGCCATGTGGTTTTATACAATGAAC
*
44996453 AGTGAGTTACACGGCCTGGGCACACGCCCGTGTCCCTGGCCATGTGGTTTTATATAATGAAC
1 AGTGAGTTACACGGCCTGGGCACACGCCCGTGTCCCTGGCCATGTGGTTTTATACAATGAAC
44996515 AGTGAGTTACA
1 AGTGAGTTACA
44996526 GGGTCGTTCA
Statistics
Matches: 112, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
60 22 0.20
61 31 0.28
62 50 0.45
63 9 0.08
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.27
Consensus pattern (62 bp):
AGTGAGTTACACGGCCTGGGCACACGCCCGTGTCCCTGGCCATGTGGTTTTATACAATGAAC
Found at i:44997095 original size:6 final size:7
Alignment explanation
Indices: 44997078--44997103 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
44997068 TATGACAATT
44997078 AAAAAGG
1 AAAAAGG
44997085 AAAAAGG
1 AAAAAGG
44997092 AAAAAGG
1 AAAAAGG
44997099 AAAAA
1 AAAAA
44997104 AAGAAGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (7 bp):
AAAAAGG
Found at i:45000978 original size:143 final size:141
Alignment explanation
Indices: 45000770--45001064 Score: 563
Period size: 143 Copynumber: 2.1 Consensus size: 141
45000760 TGAGTTAAAT
*
45000770 TTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
45000835 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTA--TGTGT
45000900 GTGTGCATGAGTA
129 GTGTGCATGAGTA
45000913 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
45000978 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
45001043 GTGCATGAGTA
131 GTGCATGAGTA
45001054 TTCGGCCATGC
1 TTCGGCCATGC
45001065 TATAGAATTT
Statistics
Matches: 151, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 29 0.19
143 122 0.81
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (141 bp):
TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
GTGCATGAGTA
Found at i:45001801 original size:29 final size:29
Alignment explanation
Indices: 45001708--45001829 Score: 154
Period size: 29 Copynumber: 4.2 Consensus size: 29
45001698 TGACGAGATT
* * *
45001708 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
* * *
45001737 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
45001766 GGCACTAAGTGTGCATGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
** * *
45001795 GATACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
45001824 GGCACT
1 GGCACT
45001830 GGGTGTGCGA
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 83 1.00
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAC
Found at i:45008937 original size:143 final size:141
Alignment explanation
Indices: 45008729--45009023 Score: 563
Period size: 143 Copynumber: 2.1 Consensus size: 141
45008719 TGAGTTAAAT
*
45008729 TTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
45008794 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTA--TGTGT
45008859 GTGTGCATGAGTA
129 GTGTGCATGAGTA
45008872 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
45008937 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
45009002 GTGCATGAGTA
131 GTGCATGAGTA
45009013 TTCGGCCATGC
1 TTCGGCCATGC
45009024 TATAGAATTT
Statistics
Matches: 151, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 29 0.19
143 122 0.81
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (141 bp):
TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
GTGCATGAGTA
Found at i:45009761 original size:29 final size:29
Alignment explanation
Indices: 45009668--45009789 Score: 154
Period size: 29 Copynumber: 4.2 Consensus size: 29
45009658 TGACGAGATT
* * *
45009668 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
* * *
45009697 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
45009726 GGCACTAAGTGTGCATGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
** * *
45009755 GATACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
45009784 GGCACT
1 GGCACT
45009790 GGGTGTGCGA
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 83 1.00
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAC
Found at i:45013163 original size:18 final size:18
Alignment explanation
Indices: 45013140--45013175 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
45013130 TTTAGCAATA
45013140 TTTTTTATCTCAAAAGTG
1 TTTTTTATCTCAAAAGTG
*
45013158 TTTTTTGTCTCAAAAGTG
1 TTTTTTATCTCAAAAGTG
45013176 CTTCTAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.50
Consensus pattern (18 bp):
TTTTTTATCTCAAAAGTG
Found at i:45013546 original size:2 final size:2
Alignment explanation
Indices: 45013491--45013527 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
45013481 TTAGCATGCC
45013491 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45013528 TAATAAATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:45017084 original size:20 final size:20
Alignment explanation
Indices: 45017040--45017087 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
45017030 GGAAAAATCC
*
45017040 ATATTTTTATACTTTCTAATA
1 ATATTTTTATAATTTCTAA-A
*
45017061 AT-TTTTCATAATTT-TAAA
1 ATATTTTTATAATTTCTAAA
45017079 ATATTTTTA
1 ATATTTTTA
45017088 CAGTTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 3 0.13
19 8 0.35
20 10 0.43
21 2 0.09
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (20 bp):
ATATTTTTATAATTTCTAAA
Found at i:45020152 original size:10 final size:10
Alignment explanation
Indices: 45020137--45020188 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
45020127 GATTTTTAGA
45020137 ATTTATTTTT
1 ATTTATTTTT
*
45020147 ATTTATCTTT
1 ATTTATTTTT
*
45020157 ATTTATATTT
1 ATTTATTTTT
* *
45020167 AATTATTTGT
1 ATTTATTTTT
45020177 ATTTATCTTTT
1 ATTTAT-TTTT
45020188 A
1 A
45020189 GAATTTAAGT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
10 30 0.88
11 4 0.12
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:45020931 original size:40 final size:39
Alignment explanation
Indices: 45020868--45020948 Score: 119
Period size: 39 Copynumber: 2.1 Consensus size: 39
45020858 CGAAATCTCA
45020868 ATCAAAACTTTTAATTC-TGTTTTTATTTTCTTTTTCCAG
1 ATCAAAACTTTTAATTCTTGTTTTTATTTT-TTTTTCCAG
* *
45020907 ATCAAAACTTTTAATTCTATTTTTTTATTTTTTTTTTCAG
1 ATCAAAACTTTTAATTCT-TGTTTTTATTTTTTTTTCCAG
45020947 AT
1 AT
45020949 ACGCAAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
39 17 0.45
40 10 0.26
41 11 0.29
ACGTcount: A:0.25, C:0.12, G:0.04, T:0.59
Consensus pattern (39 bp):
ATCAAAACTTTTAATTCTTGTTTTTATTTTTTTTTCCAG
Found at i:45022338 original size:25 final size:26
Alignment explanation
Indices: 45022288--45022340 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
45022278 ATCTTTCTAG
45022288 TTATATTATTATAAAAATATAATTTT
1 TTATATTATTATAAAAATATAATTTT
45022314 TTATATT-TTATATAAAATAT--TTTT
1 TTATATTATTATA-AAAATATAATTTT
45022338 TTA
1 TTA
45022341 ATATATAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 7 0.27
25 5 0.19
26 14 0.54
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
TTATATTATTATAAAAATATAATTTT
Found at i:45022345 original size:27 final size:27
Alignment explanation
Indices: 45022267--45022346 Score: 69
Period size: 26 Copynumber: 3.0 Consensus size: 27
45022257 TCTATAAAAA
* *
45022267 ATTA-ATAAAATATCTTTCTAGTTATATT
1 ATTATATAAAATATATTTTTA--TATATT
45022295 ATTATA-AAAATATAATTTTT-TATATT
1 ATTATATAAAATAT-ATTTTTATATATT
*
45022321 -TTATATAAAATATTTTTTTAATATAT
1 ATTATATAAAATATATTTTT-ATATAT
45022347 AAAGTAAATC
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
25 10 0.23
26 13 0.30
27 5 0.11
28 11 0.25
29 5 0.11
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (27 bp):
ATTATATAAAATATATTTTTATATATT
Found at i:45025444 original size:3 final size:3
Alignment explanation
Indices: 45025436--45025464 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
45025426 TGGAGTGAAT
45025436 AAG AAG AAG AAG -AG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
45025465 GAAAAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:45025455 original size:14 final size:14
Alignment explanation
Indices: 45025436--45025462 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45025426 TGGAGTGAAT
45025436 AAGAAGAAGAAGAG
1 AAGAAGAAGAAGAG
45025450 AAGAAGAAGAAGA
1 AAGAAGAAGAAGA
45025463 AGGAAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
AAGAAGAAGAAGAG
Found at i:45026336 original size:25 final size:25
Alignment explanation
Indices: 45026291--45026338 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
45026281 TATTATATTT
* *
45026291 TAAAAAAAATTATAAATGGTTTTAA
1 TAAAAAAAATTAAAAAGGGTTTTAA
45026316 TAAAAATAAA-TAAAAAGGGTTTT
1 TAAAAA-AAATTAAAAAGGGTTTT
45026339 TTAATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.33
Consensus pattern (25 bp):
TAAAAAAAATTAAAAAGGGTTTTAA
Found at i:45028093 original size:26 final size:26
Alignment explanation
Indices: 45028063--45028112 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
45028053 TTAACATTGT
45028063 TTTTGA-AAAGTAATTTTAAAAAGTGA
1 TTTTGAGAAA-TAATTTTAAAAAGTGA
* *
45028089 TTTTGAGAAATACTTTTGAAAAGT
1 TTTTGAGAAATAATTTTAAAAAGT
45028113 TTGATTTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.86
27 3 0.14
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.40
Consensus pattern (26 bp):
TTTTGAGAAATAATTTTAAAAAGTGA
Found at i:45028666 original size:15 final size:15
Alignment explanation
Indices: 45028626--45028667 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
45028616 ATATATATTT
*
45028626 AAAAATT-ATGTAAA
1 AAAAATTAATATAAA
45028640 AAATAATATAATATAAA
1 AAA-AAT-TAATATAAA
45028657 AAAAATTAATA
1 AAAAATTAATA
45028668 AGGGTGGGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 3 0.12
15 8 0.33
16 4 0.17
17 9 0.38
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (15 bp):
AAAAATTAATATAAA
Found at i:45029152 original size:17 final size:17
Alignment explanation
Indices: 45029116--45029222 Score: 51
Period size: 17 Copynumber: 6.4 Consensus size: 17
45029106 AATACAATTA
*
45029116 AATAAAATAATATATAT
1 AATATAATAATATATAT
* * *
45029133 AATTTAATAATATTTTT
1 AATATAATAATATATAT
* *
45029150 AATATAATTAT-TATTAA
1 AATATAATAATATA-TAT
*
45029167 AATATAA-ATTA-ATA-
1 AATATAATAATATATAT
* *
45029181 AAAATCATAATATATAAT
1 AATATAATAATATAT-AT
* * *
45029199 ATTATAAAAATAATACAT
1 AATATAATAAT-ATATAT
45029217 AATATA
1 AATATA
45029223 CTTTGTTATT
Statistics
Matches: 63, Mismatches: 20, Indels: 13
0.66 0.21 0.14
Matches are distributed among these distances:
14 5 0.08
15 5 0.08
16 5 0.08
17 31 0.49
18 14 0.22
19 3 0.05
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
AATATAATAATATATAT
Found at i:45032289 original size:25 final size:26
Alignment explanation
Indices: 45032246--45032403 Score: 114
Period size: 25 Copynumber: 6.3 Consensus size: 26
45032236 TGGCTCTCAC
* * *
45032246 GAGCTT-CCAATTATTTAGCTCTCAA
1 GAGCTTCCCGATTATATAGCTCGCAA
* **
45032271 GAGCTTCCCGATTA-ATAGCTCTCTT
1 GAGCTTCCCGATTATATAGCTCGCAA
* * *
45032296 GAGCTTCTCGA-TATTTGGCTCGCAA
1 GAGCTTCCCGATTATATAGCTCGCAA
*
45032321 GAGCTTCCCGATGT-T-TGGCTCGCAA
1 GAGCTTCCCGAT-TATATAGCTCGCAA
* * *
45032346 GAGCTTCCCG-TTATACAGCTCACAT
1 GAGCTTCCCGATTATATAGCTCGCAA
* * *
45032371 TAGCTTCCC-ATTATATGGCTCGAAA
1 GAGCTTCCCGATTATATAGCTCGCAA
45032396 GAGCTTCC
1 GAGCTTCC
45032404 TATTTACATG
Statistics
Matches: 104, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
23 1 0.01
24 4 0.04
25 91 0.88
26 7 0.07
27 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (26 bp):
GAGCTTCCCGATTATATAGCTCGCAA
Found at i:45032292 original size:50 final size:50
Alignment explanation
Indices: 45032238--45032332 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
45032228 CCGATACTTG
*
45032238 GCTCTCACGAGCTTC-CAATTATTTAGCTCTCAAGAGCTTCCCGATTAATA
1 GCTCTCACGAGCTTCTCAA-TATTTAGCTCGCAAGAGCTTCCCGATTAATA
** * *
45032288 GCTCTCTTGAGCTTCTCGATATTTGGCTCGCAAGAGCTTCCCGAT
1 GCTCTCACGAGCTTCTCAATATTTAGCTCGCAAGAGCTTCCCGAT
45032333 GTTTGGCTCG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 37 0.95
51 2 0.05
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (50 bp):
GCTCTCACGAGCTTCTCAATATTTAGCTCGCAAGAGCTTCCCGATTAATA
Found at i:45032347 original size:75 final size:75
Alignment explanation
Indices: 45032263--45032403 Score: 180
Period size: 75 Copynumber: 1.9 Consensus size: 75
45032253 CAATTATTTA
* * * * * *
45032263 GCTCTCAAGAGCTTCCCGATTA-ATAGCTCTC-TTGAGCTTCTCGA-TATTTGGCTCGCAAGAGC
1 GCTCGCAAGAGCTTCCCG-TTATACAGCTCACATT-AGCTTC-CCATTATATGGCTCGAAAGAGC
45032325 TTCCCGATGTTTG
63 TTCCCGATGTTTG
45032338 GCTCGCAAGAGCTTCCCGTTATACAGCTCACATTAGCTTCCCATTATATGGCTCGAAAGAGCTTC
1 GCTCGCAAGAGCTTCCCGTTATACAGCTCACATTAGCTTCCCATTATATGGCTCGAAAGAGCTTC
45032403 C
66 C
45032404 TATTTACATG
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
74 5 0.09
75 50 0.88
76 2 0.04
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.30
Consensus pattern (75 bp):
GCTCGCAAGAGCTTCCCGTTATACAGCTCACATTAGCTTCCCATTATATGGCTCGAAAGAGCTTC
CCGATGTTTG
Found at i:45032350 original size:50 final size:49
Alignment explanation
Indices: 45032226--45032353 Score: 123
Period size: 50 Copynumber: 2.6 Consensus size: 49
45032216 CTTATAAGCG
* * *
45032226 TCCCGATACTTGGCTCTCACGAGCTTCCAATTATTTAGCTCTCAAGAGCT
1 TCCCGAT-TTTGGCTCTCAAGAGCTTCCAATTATTTAGCTCGCAAGAGCT
* * ** * *
45032276 TCCCGATTAATAGCTCTCTTGAGCTTCTCGA-TATTTGGCTCGCAAGAGCT
1 TCCCGATT-TTGGCTCTCAAGAGCTTC-CAATTATTTAGCTCGCAAGAGCT
*
45032326 TCCCGATGTTTGGCTCGCAAGAGCTTCC
1 TCCCGAT-TTTGGCTCTCAAGAGCTTCC
45032354 CGTTATACAG
Statistics
Matches: 62, Mismatches: 13, Indels: 7
0.76 0.16 0.09
Matches are distributed among these distances:
49 1 0.02
50 58 0.94
51 3 0.05
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.32
Consensus pattern (49 bp):
TCCCGATTTTGGCTCTCAAGAGCTTCCAATTATTTAGCTCGCAAGAGCT
Found at i:45035592 original size:33 final size:33
Alignment explanation
Indices: 45035557--45035670 Score: 133
Period size: 33 Copynumber: 3.5 Consensus size: 33
45035547 GGTGTACATT
**
45035557 CCTTTTCAAGTGGTACACACAAAGTATACCTTT
1 CCTTTTCAAGTGGTACACACAAAGTATACCTAA
* *
45035590 CCTTTTCATA-TGGTATACACTAAGTATACCTAA
1 CCTTTTCA-AGTGGTACACACAAAGTATACCTAA
* * *
45035623 CCTTTCCAAGT-GTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGGTACACACAAAGTATACCTAA
*
45035655 CCTTTTCAAGTTGTAC
1 CCTTTTCAAGTGGTAC
45035671 CATTTGGGTA
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
32 28 0.41
33 39 0.57
34 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (33 bp):
CCTTTTCAAGTGGTACACACAAAGTATACCTAA
Found at i:45038875 original size:14 final size:15
Alignment explanation
Indices: 45038842--45038875 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
45038832 GGAAGAAAGA
*
45038842 GAAAATATTTTTATC
1 GAAAATATTTTTAAC
45038857 GAAAATATTTTTAAC
1 GAAAATATTTTTAAC
45038872 -AAAA
1 GAAAA
45038876 GATAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (15 bp):
GAAAATATTTTTAAC
Found at i:45039741 original size:13 final size:13
Alignment explanation
Indices: 45039723--45039758 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
45039713 GTCAATCAGA
45039723 CAGTCAAATATTC
1 CAGTCAAATATTC
*
45039736 CAGTCAAATATTT
1 CAGTCAAATATTC
45039749 CAGTCAAATA
1 CAGTCAAATA
45039759 GTCAACCAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (13 bp):
CAGTCAAATATTC
Found at i:45040418 original size:14 final size:14
Alignment explanation
Indices: 45040399--45040433 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
45040389 CCAAGAGCTT
*
45040399 TGTATGCAGATGTA
1 TGTATGCAAATGTA
45040413 TGTATGCAAATGTA
1 TGTATGCAAATGTA
*
45040427 TGCATGC
1 TGTATGC
45040434 GGATACCCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (14 bp):
TGTATGCAAATGTA
Found at i:45041693 original size:99 final size:99
Alignment explanation
Indices: 45041522--45041721 Score: 400
Period size: 99 Copynumber: 2.0 Consensus size: 99
45041512 GTTTTTCCAA
45041522 AATGCCCATACAGAGACTCGAACTCAGAACCTTGAGGTATGCTAACACTCACTCAACCACTAGAC
1 AATGCCCATACAGAGACTCGAACTCAGAACCTTGAGGTATGCTAACACTCACTCAACCACTAGAC
45041587 CAGCAGGCCTATTCTGCCACTTAAATGTGTAGCC
66 CAGCAGGCCTATTCTGCCACTTAAATGTGTAGCC
45041621 AATGCCCATACAGAGACTCGAACTCAGAACCTTGAGGTATGCTAACACTCACTCAACCACTAGAC
1 AATGCCCATACAGAGACTCGAACTCAGAACCTTGAGGTATGCTAACACTCACTCAACCACTAGAC
45041686 CAGCAGGCCTATTCTGCCACTTAAATGTGTAGCC
66 CAGCAGGCCTATTCTGCCACTTAAATGTGTAGCC
45041720 AA
1 AA
45041722 ACTCATACGT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 101 1.00
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (99 bp):
AATGCCCATACAGAGACTCGAACTCAGAACCTTGAGGTATGCTAACACTCACTCAACCACTAGAC
CAGCAGGCCTATTCTGCCACTTAAATGTGTAGCC
Found at i:45043746 original size:82 final size:82
Alignment explanation
Indices: 45043643--45043845 Score: 363
Period size: 82 Copynumber: 2.5 Consensus size: 82
45043633 TGGTATACAT
45043643 ATTTCAA-AAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAATAG
1 ATTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAATAG
45043707 TAAGATGTTAACTAACC
66 TAAGATGTTAACTAACC
* *
45043724 ATTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATGCTAACAAAATGATCCTATAGTAG
1 ATTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAATAG
45043789 TAAGATGTTAACTAACC
66 TAAGATGTTAACTAACC
* *
45043806 ATTTCAACGAATCATTTCAAAAAATAAACAAAATATGTTA
1 ATTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTA
45043846 ATCATCTCAA
Statistics
Matches: 117, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
81 7 0.06
82 110 0.94
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.29
Consensus pattern (82 bp):
ATTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAATAG
TAAGATGTTAACTAACC
Found at i:45044242 original size:158 final size:157
Alignment explanation
Indices: 45043922--45044325 Score: 449
Period size: 159 Copynumber: 2.5 Consensus size: 157
45043912 CATGCCATCC
* * * *
45043922 TTTTTTGGCTTCTAGTTTTCATACTCGTACCAGACTGAGAAAAAAAATCAGAACCCCAAATTAGA
1 TTTTTTGGCTTCTAGTTTT-GTACTCGTACCAGACTAAGAAAAAAAATTAGAAACCCAAATTAGA
* * ** * * * ** *
45043987 TTTAATTAATTTGGAATAAACATTAAAAAAAGTGTTTACGATATACTTGTGATCTGGTTATGTTA
65 TTTAAATATTTTGGAATTGACATTAAAAAAAGTGTTCACGATATACCTGGGATCCAGTTATATTA
* * *
45044052 GGCTGAATGCATAGTGTTCTATTGTTCT
130 GGCTGAATGAATAGTGTTATATTGTTCA
45044080 TTTTTTGGCTTCTAGTTTGTGTACTCGTACCAGACTAAGACCAAAAAAATTAGAAACCCAAATTA
1 TTTTTTGGCTTCTAGTTT-TGTACTCGTACCAGACTAAGA--AAAAAAATTAGAAACCCAAATTA
* * * *
45044145 GATTAAAATATTTTTGAATTGACATT-AAAATAGT-TTACACGATATACCTGGGATCCAGTTGTA
63 GATTTAAATATTTTGGAATTGACATTAAAAAAAGTGTT-CACGATATACCTGGGATCCAGTTATA
* * *
45044208 TTAGGTTGGATGAAT-GATGTTATGTTGTT-A
127 TTAGGCTGAATGAATAG-TGTTATATTGTTCA
45044238 TTTTTTGGGCTTCTAGTTCTTGTACTCGTACCAGACTAAGATAAAAAAAATTCA-AAACCCAAAT
1 TTTTTT-GGCTTCTAGTT-TTGTACTCGTACCAGACTAAG--AAAAAAAATT-AGAAACCCAAAT
*
45044302 TAGATTTTAATATTTTGGAATTGA
61 TAGATTTAAATATTTTGGAATTGA
45044326 TAATGAAAAA
Statistics
Matches: 209, Mismatches: 27, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
158 45 0.22
159 120 0.57
160 43 0.21
161 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (157 bp):
TTTTTTGGCTTCTAGTTTTGTACTCGTACCAGACTAAGAAAAAAAATTAGAAACCCAAATTAGAT
TTAAATATTTTGGAATTGACATTAAAAAAAGTGTTCACGATATACCTGGGATCCAGTTATATTAG
GCTGAATGAATAGTGTTATATTGTTCA
Found at i:45044384 original size:159 final size:156
Alignment explanation
Indices: 45043922--45044394 Score: 446
Period size: 159 Copynumber: 3.0 Consensus size: 156
45043912 CATGCCATCC
* * *
45043922 TTTTTTGGCTTCTAGTTTTCATACTCGTACCAGACT--GAGAAAAAAAA-TCAGAACCCCAAATT
1 TTTTTTGGCTTCTAGTTTT-GTACTCGTACCAGACTAAGACAAAAAAAATTCAGAAACCCAAATT
* * * * * *
45043984 AGA-TTTAATTAATTTGGAA-TAAACATTAAAAAAAGTGTTTACGATATACTTGTGAT-CTGGTT
65 AGATTTTAA-TATTTTGGAATTGAA-A-T--AAAAAGTATTTACAATATACCTGTGATCCT-ATT
* * * * *
45044046 ATGTTAGGCTGAATGCAT-AGTGTTCTATTGTTCT
124 GTGTTAGGTTGAATGCATGA-TGTTATGTTGTT-A
*
45044080 TTTTTTGGCTTCTAGTTTGTGTACTCGTACCAGACTAAGACCAAAAAAATT-AGAAACCCAAATT
1 TTTTTTGGCTTCTAGTTT-TGTACTCGTACCAGACTAAGACAAAAAAAATTCAGAAACCCAAATT
** * * * *
45044144 AGATTAAAATATTTTTGAATTGACATTAAAA-TAGTTTACACGATATACCTGGGATCC-AGTTGT
65 AGATTTTAATATTTTGGAATTGAAATAAAAAGTA-TTTACA--ATATACCTGTGATCCTA-TTGT
* * *
45044207 ATTAGGTTGGATGAATGATGTTATGTTGTTA
126 GTTAGGTTGAATGCATGATGTTATGTTGTTA
*
45044238 TTTTTTGGGCTTCTAGTTCTTGTACTCGTACCAGACTAAGATAAAAAAAATTCA-AAACCCAAAT
1 TTTTTT-GGCTTCTAGTT-TTGTACTCGTACCAGACTAAGACAAAAAAAATTCAGAAACCCAAAT
*
45044302 TAGATTTTAATATTTTGGAATTGATAATGAAAAAGTATTTACAATATACCTGTGTTCCTATTGTG
64 TAGATTTTAATATTTTGGAATTGA-AAT-AAAAAGTATTTACAATATACCTGTGATCCTATTGTG
* * *
45044367 TTAGGTTAAATGCATGATCTTTTGTTGT
127 TTAGGTTGAATGCATGATGTTATGTTGT
45044395 GACCCACACC
Statistics
Matches: 257, Mismatches: 39, Indels: 37
0.77 0.12 0.11
Matches are distributed among these distances:
156 1 0.00
157 9 0.04
158 39 0.15
159 150 0.58
160 40 0.16
161 16 0.06
162 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.38
Consensus pattern (156 bp):
TTTTTTGGCTTCTAGTTTTGTACTCGTACCAGACTAAGACAAAAAAAATTCAGAAACCCAAATTA
GATTTTAATATTTTGGAATTGAAATAAAAAGTATTTACAATATACCTGTGATCCTATTGTGTTAG
GTTGAATGCATGATGTTATGTTGTTA
Found at i:45046735 original size:39 final size:39
Alignment explanation
Indices: 45046677--45046762 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
45046667 ACCACCCTCT
* * * *
45046677 CCCTCAACCTCACTGCATTTACTGCCAACAACCTTACCA
1 CCCTCACCCCCACTACATTTACTGCCAACAACCTCACCA
45046716 CCCTCACCCCCACTACATTTACTGCCAACAACCTCACCA
1 CCCTCACCCCCACTACATTTACTGCCAACAACCTCACCA
45046755 CCCTCACC
1 CCCTCACC
45046763 ATCTTCATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.27, C:0.50, G:0.03, T:0.20
Consensus pattern (39 bp):
CCCTCACCCCCACTACATTTACTGCCAACAACCTCACCA
Found at i:45049232 original size:19 final size:19
Alignment explanation
Indices: 45049194--45049237 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
45049184 TTTTTCTAAA
**
45049194 TATTTTTTTAAATTTTAAT
1 TATTTTTTTAAATTGAAAT
*
45049213 TATTTTTTTAAGTTGAAAT
1 TATTTTTTTAAATTGAAAT
45049232 TCATTT
1 T-ATTT
45049238 GCTGATGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (19 bp):
TATTTTTTTAAATTGAAAT
Found at i:45051083 original size:18 final size:20
Alignment explanation
Indices: 45051056--45051098 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
45051046 ATATTATTTA
45051056 TTTTATTTC-TTTA-TTTCTT
1 TTTTATTTCTTTTACTTT-TT
45051075 TTTTA-TTCTTTTACTTTTT
1 TTTTATTTCTTTTACTTTTT
45051094 TTTTA
1 TTTTA
45051099 AATACTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.14
19 16 0.73
20 3 0.14
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTATTTCTTTTACTTTTT
Found at i:45051207 original size:58 final size:58
Alignment explanation
Indices: 45051075--45051208 Score: 130
Period size: 58 Copynumber: 2.3 Consensus size: 58
45051065 TTTATTTCTT
* * * *
45051075 TTTTATTCTTTTACTTTTTTTTTAAATACTTAAATTTAATATTATTTGTTTTGCCTATTTA
1 TTTTATT-TTTTA-TTTTTTTTT-AATACTTAAATTTAATATGACTTATTTTCCCTATTTA
* * *
45051136 -TTTATTTAGTTATTTATTTTTT-ATATTTAAATTTGATATGACTTATATTTCCCT-TTTA
1 TTTTATTT-TTTATTT-TTTTTTAATACTTAAATTTAATATGACTTAT-TTTCCCTATTTA
45051194 TTTTATTTTTTATTT
1 TTTTATTTTTTATTT
45051209 GTTTACTTTA
Statistics
Matches: 61, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
58 29 0.48
59 17 0.28
60 15 0.25
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.66
Consensus pattern (58 bp):
TTTTATTTTTTATTTTTTTTTAATACTTAAATTTAATATGACTTATTTTCCCTATTTA
Found at i:45054810 original size:19 final size:19
Alignment explanation
Indices: 45054786--45054832 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
45054776 AATGTCTCTT
*
45054786 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
45054805 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
45054824 TATGCATTA
1 TTTGCATTA
45054833 AATTTCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:45063308 original size:44 final size:44
Alignment explanation
Indices: 45063216--45063885 Score: 284
Period size: 44 Copynumber: 14.6 Consensus size: 44
45063206 CATCGTGATG
* * ** *
45063216 AATCTTATC-TCTCTGAAGTTGCAGTGGAGAAGATTAAAGCCACA
1 AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTGAAGATACT
**
45063260 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATGTT
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATACT
* ** * * *
45063304 AATCTTAT-TTCCCTAAAGTCACAGTGGAACAGATTAAAGCTACAAGCT
1 AATCTTATCTT-CCTGAAGTTGCAGTGGAGCAGATTGAAG--A-TA-CT
* * *
45063352 AAAAATCTTATCTTCCTAAAGTTGCA-TAGAGCAGATTGAAGATGCT
1 ---AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATACT
* * ** * * * *
45063398 AGTCTTATTTTCCTGAAGTCACAGTGAAACAGATTAAAGCTACAAGCTAT
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAG--A-TA-C--T
* * * * *
45063448 AAATCTTATCTCCCTGAAGCTGTAGTAGAGCAGATTGAAGATGCT
1 -AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATACT
* * * * *
45063493 AATCTTAT-TTCCCTTAAGTTGCAGTGGAGCAGGTTAAAAATAACA
1 AATCTTATCTT-CCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACT
* * * ** * * *
45063538 AATCTTATC-TCTCTAAAGATGCAGTAGAATAGATTAAAGTTACA
1 AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTGAAGATACT
* * * *
45063582 AATCTCATAC-CCCTGAAGTTGTAGTGG-GACAGATTGAAGTTATTATAACG
1 AATCTTAT-CTTCCTGAAGTTGCAGTGGAG-CAGATTGAAG-----AT-ACT
* **
45063632 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATACT
* * *
45063676 AACCTTATC-TCTCTGAAGTTGCAGTGGAGCAGGTTGAAGATAACG
1 AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACT
* * *
45063721 AATCTTAT-TTCCCTGAAATTGCAGTGGAACAGATT-AAAACTACAAATT
1 AATCTTATCTT-CCTGAAGTTGCAGTGGAGCAGATTGAAGA-TAC----T
* * * * * *
45063769 ACAAGTCTTATC-TCTCTGAAGTTGTAGTGGAGAAAATTAAAAATAAT
1 --AA-TCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTGAAGATACT
* * * *
45063816 GAATTTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACT
1 -AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATACT
* *
45063861 AACCTTATC-TCTCTAAAGTTGCAGT
1 AATCTTATCTTC-CTGAAGTTGCAGT
45063886 AAGTTAGAAC
Statistics
Matches: 466, Mismatches: 111, Indels: 98
0.69 0.16 0.15
Matches are distributed among these distances:
43 23 0.05
44 197 0.42
45 99 0.21
46 8 0.02
47 2 0.00
48 3 0.01
49 3 0.01
50 51 0.11
51 74 0.16
52 6 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATACT
Found at i:45063410 original size:95 final size:95
Alignment explanation
Indices: 45063259--45063530 Score: 393
Period size: 94 Copynumber: 2.9 Consensus size: 95
45063249 TTAAAGCCAC
* *
45063259 AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGATGTTAATCTTATTTCCCTAAAGTC
1 AAATCTTATCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGATGCTAATCTTATTTCCCTAAAGTC
45063324 ACAGTGGAACAGATTAAAGCTACAAGCTAA
66 ACAGTGGAACAGATTAAAGCTACAAGCTAA
* * * *
45063354 AAATCTTATCTTCCTAAAGTTGCA-TAGAGCAGATTGAAGATGCTAGTCTTATTTTCCTGAAGTC
1 AAATCTTATCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGATGCTAATCTTATTTCCCTAAAGTC
* *
45063418 ACAGTGAAACAGATTAAAGCTACAAGCTAT
66 ACAGTGGAACAGATTAAAGCTACAAGCTAA
* * * * *
45063448 AAATCTTATCTCCCTGAAGCTGTAGTAGAGCAGATTGAAGATGCTAATCTTATTTCCCTTAAGTT
1 AAATCTTATCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGATGCTAATCTTATTTCCCTAAAGTC
* * *
45063513 GCAGTGGAGCAGGTTAAA
66 ACAGTGGAACAGATTAAA
45063531 AATAACAAAT
Statistics
Matches: 156, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
94 83 0.53
95 73 0.47
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (95 bp):
AAATCTTATCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGATGCTAATCTTATTTCCCTAAAGTC
ACAGTGGAACAGATTAAAGCTACAAGCTAA
Found at i:45063666 original size:183 final size:183
Alignment explanation
Indices: 45063449--45063885 Score: 492
Period size: 183 Copynumber: 2.4 Consensus size: 183
45063439 ACAAGCTATA
* * * * * * * * *
45063449 AATCTTATCTCCCTGAAGCTGTAGTAGAGCAGATTGAAGATGCTAATCTTATTTCCCTTAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAACCTTATCTCTCTAAAGTTG
* * **
45063514 CAGTGGAGCAGGTTAAAAATAACAAATCTTATCTCTCT-AAAGATGCAGTAGAATAGATTAAAGT
66 CAGTGGAGCAGGTTAAAAATAACAAATCTTATCTCCCTGAAA-ATGCAGTAGAACAGATTAAAAC
* *
45063578 TACAAA-T-C-TCATA-C-CCCTGAAGTTGTAGTGG-GACAGATTGAAGTTATTATAACG
130 TACAAATTACATCATATCTCCCTGAAGTTGTAGTGGAGA-AAATT-AA---A-AATAACG
* *
45063632 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAACCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAACCTTATCTCTCTAAAGTTG
* * * * * *
45063697 CAGTGGAGCAGGTTGAAGATAACGAATCTTATTTCCCTGAAATTGCAGTGGAACAGATTAAAACT
66 CAGTGGAGCAGGTTAAAAATAACAAATCTTATCTCCCTGAAAATGCAGTAGAACAGATTAAAACT
* * *
45063762 ACAAATTACAAGTCTTATCTCTCTGAAGTTGTAGTGGAGAAAATTAAAAATAATG
131 ACAAATTAC-A-TCATATCTCCCTGAAGTTGTAGTGGAGAAAATTAAAAATAACG
* *
45063817 AATTTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACTAACCTTATCTCTCTAAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAACCTTATCTCTCTAAAGTTG
45063882 CAGT
66 CAGT
45063886 AAGTTAGAAC
Statistics
Matches: 216, Mismatches: 29, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
183 111 0.51
184 4 0.02
185 71 0.33
186 1 0.00
188 4 0.02
189 3 0.01
190 20 0.09
191 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (183 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAACCTTATCTCTCTAAAGTTG
CAGTGGAGCAGGTTAAAAATAACAAATCTTATCTCCCTGAAAATGCAGTAGAACAGATTAAAACT
ACAAATTACATCATATCTCCCTGAAGTTGTAGTGGAGAAAATTAAAAATAACG
Found at i:45063747 original size:89 final size:89
Alignment explanation
Indices: 45063449--45063885 Score: 311
Period size: 89 Copynumber: 4.8 Consensus size: 89
45063439 ACAAGCTATA
* * * * *** * * * *
45063449 AATCTTATCTCCCTGAAGCTGTAGTAGAGCAGATTGAAGATGCTAATCTTATTTCCCTTAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACTAACCTTATCTCTCTGAAGTTG
* ** *
45063514 CAGTGGAGCAGGTTAAAAATAACA
66 CAGTGGAGAAAATTAAAAATAACG
* * * * ** ** * * * *
45063538 AATCTTATCTCTCTAAAGATGCAGTAGAATAGATTAAAGTTACAAATCTCATAC-CCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACTAACCTTAT-CTCTCTGAAGTT
* * *
45063602 GTAGTGG-GACAGATTGAAGTTATTATAACG
65 GCAGTGGAGA-AAATT-AA---A-AATAACG
*
45063632 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAACCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACTAACCTTATCTCTCTGAAGTTG
* ** * *
45063697 CAGTGGAGCAGGTTGAAGATAACG
66 CAGTGGAGAAAATTAAAAATAACG
* * * * * *
45063721 AATCTTATTTCCCTGAAATTGCAGTGGAACAGATTAAAACTACAAATTACAAGTCTTATCTCTCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC--C--ACT--AA-CCTTATCTCTCT
* *
45063786 GAAGTTGTAGTGGAGAAAATTAAAAATAATG
59 GAAGTTGCAGTGGAGAAAATTAAAAATAACG
* * *
45063817 AATTTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACTAACCTTATCTCTCTAAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACTAACCTTATCTCTCTGAAGTTG
45063882 CAGT
66 CAGT
45063886 AAGTTAGAAC
Statistics
Matches: 272, Mismatches: 60, Indels: 32
0.75 0.16 0.09
Matches are distributed among these distances:
88 1 0.00
89 121 0.44
90 5 0.02
91 1 0.00
92 2 0.01
93 5 0.02
94 64 0.24
95 3 0.01
96 70 0.26
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (89 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACTAACCTTATCTCTCTGAAGTTG
CAGTGGAGAAAATTAAAAATAACG
Found at i:45063830 original size:96 final size:96
Alignment explanation
Indices: 45063626--45063859 Score: 257
Period size: 96 Copynumber: 2.5 Consensus size: 96
45063616 TGAAGTTATT
* * * * * *
45063626 ATAACGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC--C--ACT--AA-CCTTAT
1 ATAACGAATCTTATCTCCCTGAAATTGCAGTGGAACAGATTAAAACTACAAATTACAAGTCTTAT
* ** * *
45063684 CTCTCTGAAGTTGCAGTGGAGCAGGTTGAAG
66 CTCTCTGAAGTTGCAGTGGAGAAAATTAAAA
*
45063715 ATAACGAATCTTATTTCCCTGAAATTGCAGTGGAACAGATTAAAACTACAAATTACAAGTCTTAT
1 ATAACGAATCTTATCTCCCTGAAATTGCAGTGGAACAGATTAAAACTACAAATTACAAGTCTTAT
*
45063780 CTCTCTGAAGTTGTAGTGGAGAAAATTAAAA
66 CTCTCTGAAGTTGCAGTGGAGAAAATTAAAA
* * * * *
45063811 ATAATGAATTTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
1 ATAACGAATCTTATCTCCCTGAAATTGCAGTGGAACAGATTAAAACTAC
45063860 TAACCTTATC
Statistics
Matches: 119, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
89 41 0.34
91 1 0.01
93 2 0.02
95 2 0.02
96 73 0.61
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (96 bp):
ATAACGAATCTTATCTCCCTGAAATTGCAGTGGAACAGATTAAAACTACAAATTACAAGTCTTAT
CTCTCTGAAGTTGCAGTGGAGAAAATTAAAA
Found at i:45071594 original size:19 final size:19
Alignment explanation
Indices: 45071570--45071607 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
45071560 TACCTATAAT
45071570 TTTTTTACAATTTTTCCAA
1 TTTTTTACAATTTTTCCAA
45071589 TTTTTTACAATTTTTCCAA
1 TTTTTTACAATTTTTCCAA
45071608 ATGAAACACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTTTACAATTTTTCCAA
Found at i:45071649 original size:32 final size:32
Alignment explanation
Indices: 45071613--45071677 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
45071603 TCCAAATGAA
*
45071613 ACACTTACCTACTATTTCAAGTTAACTTATGC
1 ACACTTACCTACAATTTCAAGTTAACTTATGC
45071645 ACACTTACCTACAATTTCAAGTTAACTTATGC
1 ACACTTACCTACAATTTCAAGTTAACTTATGC
45071677 A
1 A
45071678 TGAATTCTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.35
Consensus pattern (32 bp):
ACACTTACCTACAATTTCAAGTTAACTTATGC
Found at i:45072889 original size:19 final size:20
Alignment explanation
Indices: 45072865--45072902 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
45072855 CCATCATCTT
45072865 TTCCTTTTT-CAAAATTTCG
1 TTCCTTTTTCCAAAATTTCG
45072884 TTCCTTTTTCCAAAATTTC
1 TTCCTTTTTCCAAAATTTC
45072903 TGAATTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.21, C:0.24, G:0.03, T:0.53
Consensus pattern (20 bp):
TTCCTTTTTCCAAAATTTCG
Found at i:45076493 original size:8 final size:8
Alignment explanation
Indices: 45076482--45076509 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
45076472 TAAAAATATA
45076482 AATTTTGT
1 AATTTTGT
45076490 AATTTTGT
1 AATTTTGT
45076498 AATTTTGT
1 AATTTTGT
45076506 AATT
1 AATT
45076510 ACTACTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.61
Consensus pattern (8 bp):
AATTTTGT
Found at i:45077014 original size:21 final size:20
Alignment explanation
Indices: 45076990--45077033 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
45076980 ATTTATCTCC
*
45076990 AATCTTAATGAATATAAAGAA
1 AATCATAATGAATA-AAAGAA
* *
45077011 AATCATAATTAATAAAATAA
1 AATCATAATGAATAAAAGAA
45077031 AAT
1 AAT
45077034 ACATTTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.30
Consensus pattern (20 bp):
AATCATAATGAATAAAAGAA
Found at i:45089123 original size:25 final size:25
Alignment explanation
Indices: 45089085--45089218 Score: 207
Period size: 25 Copynumber: 5.4 Consensus size: 25
45089075 AGTTAAGCTT
45089085 GTTAAA-TTGTTCTTAATAATTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
45089109 GTTAAATTTGTTCTTAATAATTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
45089134 GTTAAATTTGTTCTTAATAATTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
* *
45089159 GTTAAATTTGCTCTTAATATTTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
* * *
45089184 ATTAAATTTGCTCTTAATATTTCCG
1 GTTAAATTTGTTCTTAATAATTCCG
*
45089209 ATTAAATTTG
1 GTTAAATTTG
45089219 CCCTTATTAT
Statistics
Matches: 106, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
24 6 0.06
25 100 0.94
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.48
Consensus pattern (25 bp):
GTTAAATTTGTTCTTAATAATTCCG
Found at i:45089192 original size:12 final size:13
Alignment explanation
Indices: 45089172--45089217 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 13
45089162 AAATTTGCTC
45089172 TTAATATTTCCGA
1 TTAATATTTCCGA
* **
45089185 TTAA-ATTTGCTC
1 TTAATATTTCCGA
45089197 TTAATATTTCCGA
1 TTAATATTTCCGA
45089210 TTAA-ATTT
1 TTAATATTT
45089218 GCCCTTATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
12 13 0.50
13 13 0.50
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (13 bp):
TTAATATTTCCGA
Found at i:45089219 original size:25 final size:25
Alignment explanation
Indices: 45089086--45089234 Score: 192
Period size: 25 Copynumber: 6.0 Consensus size: 25
45089076 GTTAAGCTTG
* *
45089086 TTAAA-TTGTTCTTAATAATTCCGG
1 TTAAATTTGCTCTTAATAATTCCGA
* *
45089110 TTAAATTTGTTCTTAATAATTCCGG
1 TTAAATTTGCTCTTAATAATTCCGA
* *
45089135 TTAAATTTGTTCTTAATAATTCCGG
1 TTAAATTTGCTCTTAATAATTCCGA
*
45089160 TTAAATTTGCTCTTAATATTTCCGA
1 TTAAATTTGCTCTTAATAATTCCGA
*
45089185 TTAAATTTGCTCTTAATATTTCCGA
1 TTAAATTTGCTCTTAATAATTCCGA
* * *
45089210 TTAAATTTGCCCTTATTATTTCCGA
1 TTAAATTTGCTCTTAATAATTCCGA
45089235 ATAAGTTACT
Statistics
Matches: 119, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
24 5 0.04
25 114 0.96
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.48
Consensus pattern (25 bp):
TTAAATTTGCTCTTAATAATTCCGA
Found at i:45089234 original size:50 final size:50
Alignment explanation
Indices: 45089086--45089234 Score: 219
Period size: 50 Copynumber: 3.0 Consensus size: 50
45089076 GTTAAGCTTG
* * *
45089086 TTAAA-TTGTTCTTAATAATTCCGGTTAAATTTGTTCTTAATAATTCCGG
1 TTAAATTTGTTCTTAATAATTCCGGTTAAATTTGCTCTTAATATTTCCGA
45089135 TTAAATTTGTTCTTAATAATTCCGGTTAAATTTGCTCTTAATATTTCCGA
1 TTAAATTTGTTCTTAATAATTCCGGTTAAATTTGCTCTTAATATTTCCGA
* * * * *
45089185 TTAAATTTGCTCTTAATATTTCCGATTAAATTTGCCCTTATTATTTCCGA
1 TTAAATTTGTTCTTAATAATTCCGGTTAAATTTGCTCTTAATATTTCCGA
45089235 ATAAGTTACT
Statistics
Matches: 91, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 5 0.05
50 86 0.95
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.48
Consensus pattern (50 bp):
TTAAATTTGTTCTTAATAATTCCGGTTAAATTTGCTCTTAATATTTCCGA
Found at i:45089505 original size:2 final size:2
Alignment explanation
Indices: 45089494--45089523 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
45089484 ATTGATGAGC
45089494 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45089524 GAAAATATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45090107 original size:45 final size:45
Alignment explanation
Indices: 45090043--45090263 Score: 308
Period size: 45 Copynumber: 5.0 Consensus size: 45
45090033 ATATCGTACA
* *
45090043 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGAT
1 ATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAT
*
45090088 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAT
1 ATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAT
* * *
45090133 ATACTATTCGGGCCTTCGAGCCTAGTAGGTTATAATGCCAGTGAT
1 ATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAT
*
45090178 ATACTATTCGGGCCTTCGAGCCTAGTAGGCTATAATGCCGGTGA-
1 ATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAT
* *
45090222 AT--TGATATCGGG-CTTCGAGCCTAGCAGGCGA-AATGCTGGTGA
1 ATACT-AT-TCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
45090264 ATGAATTCGG
Statistics
Matches: 164, Mismatches: 10, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
42 11 0.07
43 19 0.12
44 7 0.04
45 127 0.77
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (45 bp):
ATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAT
Found at i:45095696 original size:30 final size:30
Alignment explanation
Indices: 45095662--45095724 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
45095652 ATTTATTTTA
45095662 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
*
45095692 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
45095722 TTG
1 TTG
45095725 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:45096896 original size:28 final size:28
Alignment explanation
Indices: 45096856--45096912 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
45096846 GAAGTGTGAG
45096856 CCCAACTTCAACTATATGACAATGCTTT
1 CCCAACTTCAACTATATGACAATGCTTT
*
45096884 CCCAACTTCAACTATATGACGATGCTTT
1 CCCAACTTCAACTATATGACAATGCTTT
45096912 C
1 C
45096913 TTTCAACAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (28 bp):
CCCAACTTCAACTATATGACAATGCTTT
Found at i:45099806 original size:29 final size:29
Alignment explanation
Indices: 45099745--45099809 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
45099735 CCTTATGGCA
* *
45099745 CAATGTTATACATGAACTTTGATTTTGTG
1 CAATTTTATACATGAACTTTGAATTTGTG
* *
45099774 CAATTTTATACATGAA-TTTTAATTTGATT
1 CAATTTTATACATGAACTTTGAATTTG-TG
45099803 CAATTTT
1 CAATTTT
45099810 CACAAACTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 8 0.26
29 23 0.74
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (29 bp):
CAATTTTATACATGAACTTTGAATTTGTG
Found at i:45115598 original size:46 final size:45
Alignment explanation
Indices: 45115545--45115717 Score: 188
Period size: 46 Copynumber: 3.8 Consensus size: 45
45115535 TGGTTGAGCA
45115545 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAA-G
* * * * *
45115591 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGAGATGTA-ACTAAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGAAG
*
45115636 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAA-G
* * * *
45115684 CCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
45115718 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
45 2 0.02
46 66 0.63
47 35 0.33
48 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAAG
Found at i:45115700 original size:93 final size:93
Alignment explanation
Indices: 45115541--45115712 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
45115531 AGGATGGTTG
* * *
45115541 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGTCCGAACTCGTTGAG
1 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTGAG
45115606 TTGAGTCTGAGTTCGTGAGATGTAACTA
66 TTGAGTCTGAGTTCGTGAGATGTAACTA
* *
45115634 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTGAG
45115699 TTGAGTCTGAGTTC
66 TTGAGTCTGAGTTC
45115713 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTGAG
TTGAGTCTGAGTTCGTGAGATGTAACTA
Found at i:45119336 original size:19 final size:20
Alignment explanation
Indices: 45119298--45119338 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
45119288 ATTTTAAACC
*
45119298 TACCTAGTTCAATCAACATT
1 TACCTAATTCAATCAACATT
*
45119318 TACCTAATT-AATGAACATT
1 TACCTAATTCAATCAACATT
45119337 TA
1 TA
45119339 TGCACTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.37
Consensus pattern (20 bp):
TACCTAATTCAATCAACATT
Found at i:45120872 original size:15 final size:16
Alignment explanation
Indices: 45120854--45120899 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
45120844 CATCCCTAGC
*
45120854 TTTTCTCTTTTTTTTT
1 TTTTCTCTTTTTCTTT
45120870 TTTTCTCTTTTTCTTT
1 TTTTCTCTTTTTCTTT
*
45120886 TCTT-TCTTTTTCTT
1 TTTTCTCTTTTTCTT
45120900 CTCTGTTTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTCTCTTTTTCTTT
Found at i:45120879 original size:23 final size:23
Alignment explanation
Indices: 45120853--45120898 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
45120843 ACATCCCTAG
*
45120853 CTTTTCTCTTTT-TTTTTTTTTCT
1 CTTTT-TCTTTTCTTTCTTTTTCT
45120876 CTTTTTCTTTTCTTTCTTTTTCT
1 CTTTTTCTTTTCTTTCTTTTTCT
45120899 TCTCTGTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (23 bp):
CTTTTTCTTTTCTTTCTTTTTCT
Found at i:45121059 original size:19 final size:21
Alignment explanation
Indices: 45121024--45121065 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
45121014 GTATTTCATA
*
45121024 TATTATTATTTTATACATATG
1 TATTATTATTTTATACACATG
45121045 TATT-TTATTTT-TACACATG
1 TATTATTATTTTATACACATG
45121064 TA
1 TA
45121066 CACACAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 7 0.35
21 4 0.20
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (21 bp):
TATTATTATTTTATACACATG
Found at i:45126222 original size:18 final size:17
Alignment explanation
Indices: 45126195--45126233 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
45126185 TTTCAAATCA
45126195 AATATAAACATTACATAT
1 AATATAAACATT-CATAT
* *
45126213 AATATTAACATTTATAT
1 AATATAAACATTCATAT
45126230 AATA
1 AATA
45126234 AATTAATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (17 bp):
AATATAAACATTCATAT
Found at i:45128274 original size:17 final size:18
Alignment explanation
Indices: 45128247--45128290 Score: 72
Period size: 17 Copynumber: 2.5 Consensus size: 18
45128237 AATCCCTAGC
*
45128247 TTTTCTCCTTTTCTTTCT
1 TTTTCTTCTTTTCTTTCT
45128265 TTTT-TTCTTTTCTTTCT
1 TTTTCTTCTTTTCTTTCT
45128282 TTTTCTTCT
1 TTTTCTTCT
45128291 CTGTTTCGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTCTTCTTTTCTTTCT
Found at i:45128280 original size:9 final size:9
Alignment explanation
Indices: 45128254--45128284 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
45128244 AGCTTTTCTC
45128254 CTTTTCTTT
1 CTTTTCTTT
45128263 CTTTT-TTT
1 CTTTTCTTT
45128271 CTTTTCTTT
1 CTTTTCTTT
45128280 CTTTT
1 CTTTT
45128285 TCTTCTCTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
CTTTTCTTT
Found at i:45130011 original size:26 final size:26
Alignment explanation
Indices: 45129982--45130055 Score: 105
Period size: 26 Copynumber: 2.9 Consensus size: 26
45129972 CTCAATATAT
45129982 GGCTCTTCGTGAGCTTCCCGATAAAA
1 GGCTCTTCGTGAGCTTCCCGATAAAA
* * *
45130008 GGCTCTTCGTGAGCTTCCTGATTAAT
1 GGCTCTTCGTGAGCTTCCCGATAAAA
*
45130034 GGCTCTTC-AGAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
45130056 TGGCTCCCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
25 11 0.26
26 31 0.74
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.31
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCCGATAAAA
Found at i:45130218 original size:25 final size:25
Alignment explanation
Indices: 45130162--45130221 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
45130152 TATGGATCTT
* *
45130162 ATGAGCTTCCCGTTATGTAGCCCAG
1 ATGAGCTTCCCGTTATGAAGCCCAC
* *
45130187 ATAAGCTTCCCGTTAT-AAGGCTCAC
1 ATGAGCTTCCCGTTATGAA-GCCCAC
45130212 ATGAGCTTCC
1 ATGAGCTTCC
45130222 TATTATATGG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 1 0.03
25 28 0.97
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATGAAGCCCAC
Found at i:45132772 original size:20 final size:20
Alignment explanation
Indices: 45132749--45132794 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
45132739 TAAGCTCGGT
45132749 TGAGCTCAAACGAGCTGAAA
1 TGAGCTCAAACGAGCTGAAA
* * *
45132769 TGAGCTTAAATGAGCTGAAT
1 TGAGCTCAAACGAGCTGAAA
45132789 TGAGCT
1 TGAGCT
45132795 GGACGAAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (20 bp):
TGAGCTCAAACGAGCTGAAA
Found at i:45132795 original size:10 final size:10
Alignment explanation
Indices: 45132749--45132795 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
45132739 TAAGCTCGGT
*
45132749 TGAGCTCAAA
1 TGAGCTGAAA
*
45132759 CGAGCTGAAA
1 TGAGCTGAAA
*
45132769 TGAGCTTAAA
1 TGAGCTGAAA
*
45132779 TGAGCTGAAT
1 TGAGCTGAAA
45132789 TGAGCTG
1 TGAGCTG
45132796 GACGAAGCTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (10 bp):
TGAGCTGAAA
Found at i:45134923 original size:30 final size:31
Alignment explanation
Indices: 45134841--45134923 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 31
45134831 CTATTGTTTC
* *
45134841 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCATTTTCTTTTTCAATCTCA
** * *
45134872 AATTTC-TTTTCGCTCTATTTTTCAATCTC-
1 AATTTCTTTTTCATTTTCTTTTTCAATCTCA
*
45134901 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTCATTTTCTTTTT
45134924 GCTTTTCAAA
Statistics
Matches: 40, Mismatches: 11, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
29 5 0.12
30 29 0.73
31 6 0.15
ACGTcount: A:0.14, C:0.22, G:0.01, T:0.63
Consensus pattern (31 bp):
AATTTCTTTTTCATTTTCTTTTTCAATCTCA
Found at i:45134930 original size:12 final size:12
Alignment explanation
Indices: 45134899--45134923 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45134889 TTTTTCAATC
45134899 TCATTTTCTTTT
1 TCATTTTCTTTT
45134911 TCATTTTCTTTT
1 TCATTTTCTTTT
45134923 T
1 T
45134924 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:45135002 original size:5 final size:5
Alignment explanation
Indices: 45134992--45135048 Score: 53
Period size: 5 Copynumber: 11.0 Consensus size: 5
45134982 CTCTTGCCTC
* * *
45134992 TCTTT TCTTTT TATTT TGTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TC-TTT TCTTT TCTTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
45135039 TCTTT TCTTT
1 TCTTT TCTTT
45135049 GTTTTCTCTT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
4 3 0.07
5 30 0.70
6 6 0.14
7 4 0.09
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:45135024 original size:25 final size:25
Alignment explanation
Indices: 45134996--45135044 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
45134986 TGCCTCTCTT
*
45134996 TTCTTTT-TATTTTGTTTTCTTTTTC
1 TTCTTTTCT-TTTTCTTTTCTTTTTC
45135021 TTCTTTTGCTTTTTCTTTTCTTTT
1 TTCTTTT-CTTTTTCTTTTCTTTT
45135045 CTTTGTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 13 0.62
27 1 0.05
ACGTcount: A:0.02, C:0.14, G:0.04, T:0.80
Consensus pattern (25 bp):
TTCTTTTCTTTTTCTTTTCTTTTTC
Found at i:45135049 original size:21 final size:20
Alignment explanation
Indices: 45135005--45135059 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
45134995 TTTCTTTTTA
45135005 TTTTG-TTTTCTTTTTCTTC
1 TTTTGTTTTTCTTTTTCTTC
*
45135024 TTTTGCTTTTTC-TTTTCTTT
1 TTTTG-TTTTTCTTTTTCTTC
45135044 TCTTTGTTTTCTCTTT
1 T-TTTGTTTT-TCTTT
45135060 ACAAGAATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 5 0.17
20 12 0.40
21 11 0.37
22 2 0.07
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTTGTTTTTCTTTTTCTTC
Found at i:45135984 original size:12 final size:11
Alignment explanation
Indices: 45135967--45136018 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
45135957 ATAAAACACC
45135967 TTTTTTTTCAGA
1 TTTTTTTTC-GA
45135979 TTTTTTTTCGA
1 TTTTTTTTCGA
*
45135990 ATTTTTTT-GA
1 TTTTTTTTCGA
* *
45136000 ATTTTTTTCAA
1 TTTTTTTTCGA
45136011 TTTTTTTT
1 TTTTTTTT
45136019 AAAACTTGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
10 10 0.28
11 17 0.47
12 9 0.25
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.73
Consensus pattern (11 bp):
TTTTTTTTCGA
Found at i:45136017 original size:10 final size:10
Alignment explanation
Indices: 45135968--45136017 Score: 64
Period size: 10 Copynumber: 4.7 Consensus size: 10
45135958 TAAAACACCT
45135968 TTTTTTTCAGA
1 TTTTTTTCA-A
45135979 TTTTTTTTCGAA
1 -TTTTTTTC-AA
*
45135991 TTTTTTTGAA
1 TTTTTTTCAA
45136001 TTTTTTTCAA
1 TTTTTTTCAA
45136011 TTTTTTT
1 TTTTTTT
45136018 TAAAACTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 18 0.51
11 7 0.20
12 9 0.26
13 1 0.03
ACGTcount: A:0.16, C:0.06, G:0.06, T:0.72
Consensus pattern (10 bp):
TTTTTTTCAA
Found at i:45137650 original size:10 final size:10
Alignment explanation
Indices: 45137626--45137672 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
45137616 TAAGGTCGGT
*
45137626 TGAGCTCAAA
1 TGAGCTGAAA
*
45137636 CGAGCTGAAA
1 TGAGCTGAAA
*
45137646 TGAGCTCAAA
1 TGAGCTGAAA
*
45137656 TGAGCTGAAT
1 TGAGCTGAAA
45137666 TGAGCTG
1 TGAGCTG
45137673 GACGGAGCTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (10 bp):
TGAGCTGAAA
Found at i:45137651 original size:20 final size:20
Alignment explanation
Indices: 45137626--45137671 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
45137616 TAAGGTCGGT
45137626 TGAGCTCAAACGAGCTGAAA
1 TGAGCTCAAACGAGCTGAAA
* *
45137646 TGAGCTCAAATGAGCTGAAT
1 TGAGCTCAAACGAGCTGAAA
45137666 TGAGCT
1 TGAGCT
45137672 GGACGGAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (20 bp):
TGAGCTCAAACGAGCTGAAA
Found at i:45145903 original size:23 final size:23
Alignment explanation
Indices: 45145856--45145898 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
45145846 CATTTCAACC
45145856 TACTAAATATTAACTAAATTATA
1 TACTAAATATTAACTAAATTATA
*
45145879 TACTACATATT-A-TAAATTAT
1 TACTAAATATTAACTAAATTAT
45145899 TTATATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 1 0.05
23 10 0.53
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (23 bp):
TACTAAATATTAACTAAATTATA
Found at i:45151419 original size:93 final size:93
Alignment explanation
Indices: 45151260--45151430 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
45151250 GGATGGTTGA
* *
45151260 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
45151325 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
45151353 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
45151418 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
45151431 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45151433 original size:46 final size:46
Alignment explanation
Indices: 45151264--45151435 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
45151254 GGTTGAGCAT
* * *
45151264 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
45151310 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
45151355 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
45151403 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
45151436 GGGGCAGGTT
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 60 0.56
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:45156156 original size:71 final size:71
Alignment explanation
Indices: 45156072--45156235 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
45156062 CGATTTGTCT
45156072 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
45156137 CTTTCA
66 CTTTCA
* *
45156143 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
45156208 CTTTCA
66 CTTTCA
45156214 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
45156236 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:45156273 original size:71 final size:70
Alignment explanation
Indices: 45156072--45156269 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
45156062 CGATTTGTCT
* * * * *
45156072 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
45156137 CTTTCA
65 CTTTCA
* * * *
45156143 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
45156208 CTTTCA
65 CTTTCA
* *
45156214 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
45156270 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:45158248 original size:40 final size:40
Alignment explanation
Indices: 45158163--45158313 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
45158153 AATTGAATGA
* ** * *
45158163 TATCCGGGCTAAGCCCCGAAGATAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
45158203 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
45158244 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
45158283 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
45158314 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:45158327 original size:40 final size:40
Alignment explanation
Indices: 45158200--45158329 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
45158190 ATGCTGGAAA
* * * *
45158200 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
45158240 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
45158280 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
45158320 TTATATCCGG
1 TTATATCCGG
45158330 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:45160734 original size:196 final size:196
Alignment explanation
Indices: 45160400--45160790 Score: 719
Period size: 196 Copynumber: 2.0 Consensus size: 196
45160390 TTTTTACTAC
*
45160400 CATTCCATCTTCAATCATTCAAGCATCATAAGCCATGATATCAACCATTTTAAGGCCAAATATAT
1 CATTCCATCTTCAATCATTCAAGCATCATAAGCCACGATATCAACCATTTTAAGGCCAAATATAT
45160465 ACACGCCAAAATTAGCACCATTTCACCATCCAAAATGCCATAAACACAAGTAAAAAACAAATGGC
66 ACACGCCAAAATTAGCACCATTTCACCATCCAAAATGCCATAAACACAAGTAAAAAACAAATGGC
* *
45160530 TAAAACATCAAACAAAAACACCTATACATGGCATTATAACCAAAATTTAGAAACACCAAAATCTA
131 TAAAACATCAAACAAAAACACCTATACATGCCATTATAACCAAAACTTAGAAACACCAAAATCTA
45160595 T
196 T
*
45160596 CATTCCATCTTCAATCATTCAAGCATCATAAGCTACGATATCAACCATTTTAAGGCCAAATATAT
1 CATTCCATCTTCAATCATTCAAGCATCATAAGCCACGATATCAACCATTTTAAGGCCAAATATAT
* *
45160661 ACATGCCAAAATTAGCACCATTTCACCATGCAAAATGCCATAAACACAAGTAAAAAACAAATGGC
66 ACACGCCAAAATTAGCACCATTTCACCATCCAAAATGCCATAAACACAAGTAAAAAACAAATGGC
*
45160726 TAAAACATCAAACAAAAACACCTATACATGCCATTATAAGCAAAACTTAGAAACACCAAAATCTA
131 TAAAACATCAAACAAAAACACCTATACATGCCATTATAACCAAAACTTAGAAACACCAAAATCTA
45160791 CCGATTTGGC
Statistics
Matches: 188, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
196 188 1.00
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.22
Consensus pattern (196 bp):
CATTCCATCTTCAATCATTCAAGCATCATAAGCCACGATATCAACCATTTTAAGGCCAAATATAT
ACACGCCAAAATTAGCACCATTTCACCATCCAAAATGCCATAAACACAAGTAAAAAACAAATGGC
TAAAACATCAAACAAAAACACCTATACATGCCATTATAACCAAAACTTAGAAACACCAAAATCTA
T
Found at i:45164436 original size:29 final size:29
Alignment explanation
Indices: 45164396--45164498 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
45164386 GTTGAGAGAC
*
45164396 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
45164425 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
45164454 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
45164483 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
45164499 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:45180763 original size:20 final size:20
Alignment explanation
Indices: 45180738--45180783 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
45180728 AACGTTCGAC
45180738 ATCACTTTCTCATACACAAT
1 ATCACTTTCTCATACACAAT
45180758 ATCACTTTCTCATACACAAT
1 ATCACTTTCTCATACACAAT
45180778 ATCACT
1 ATCACT
45180784 CAATTCAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.30, G:0.00, T:0.35
Consensus pattern (20 bp):
ATCACTTTCTCATACACAAT
Found at i:45198181 original size:15 final size:15
Alignment explanation
Indices: 45198157--45198200 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
45198147 TATGATATCG
45198157 TATCTTGGATTTCTC
1 TATCTTGGATTTCTC
* *
45198172 TATTTTGGATTCCTC
1 TATCTTGGATTTCTC
*
45198187 TATCTTGGTTTTCT
1 TATCTTGGATTTCT
45198201 TGTCATCTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.11, C:0.18, G:0.14, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:45201313 original size:45 final size:44
Alignment explanation
Indices: 45201228--45201313 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 44
45201218 TATGTAATCT
* *
45201228 GAACTTATTGAGTTGTGTCTGAGTTCATGATATATGTGACATTC
1 GAACTCATTGAGTTGTGTCTGAGTTCATGATATATATGACATTC
*
45201272 GAACTCATTGAGTTGTGGTCTGAGTTCGTGATATGA-ATGACA
1 GAACTCATTGAGTTGT-GTCTGAGTTCATGATAT-ATATGACA
45201314 CATATTTTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 15 0.41
45 21 0.57
46 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.37
Consensus pattern (44 bp):
GAACTCATTGAGTTGTGTCTGAGTTCATGATATATATGACATTC
Found at i:45204854 original size:30 final size:30
Alignment explanation
Indices: 45204799--45204855 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
45204789 CTTCTGAAAA
*
45204799 TATTTACAAAAAGAGGTACCTAATTTTTAT
1 TATTTACAAAAAGAGGTACCAAATTTTTAT
*
45204829 TATTTACGAAAAGA-GTAACCAAATTTT
1 TATTTACAAAAAGAGGT-ACCAAATTTT
45204856 AAAAATAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (30 bp):
TATTTACAAAAAGAGGTACCAAATTTTTAT
Found at i:45205575 original size:90 final size:90
Alignment explanation
Indices: 45205458--45205632 Score: 305
Period size: 90 Copynumber: 1.9 Consensus size: 90
45205448 CGGAATTCCT
*
45205458 CTAGCTCATTGAATTGGAGCATCTGTTTCTCTTTAGCGAGCTTAAGATCCACGTTGAGTTGTCGA
1 CTAGCTCATTGAATTGGAGCATCTGTTTCTCTTTAGCGAGCTTAAGATCCACGTTGAGTTGTCAA
45205523 AAGGCCTAGTAAACTTTGTGATCTA
66 AAGGCCTAGTAAACTTTGTGATCTA
* * * *
45205548 CTAGCTCTTTGAGTTGGAGCATCTGTTTCTCTTTAGTGAGTTTAAGATCCACGTTGAGTTGTCAA
1 CTAGCTCATTGAATTGGAGCATCTGTTTCTCTTTAGCGAGCTTAAGATCCACGTTGAGTTGTCAA
45205613 AAGGCCTAGTAAACTTTGTG
66 AAGGCCTAGTAAACTTTGTG
45205633 CTCAACTCCA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 80 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (90 bp):
CTAGCTCATTGAATTGGAGCATCTGTTTCTCTTTAGCGAGCTTAAGATCCACGTTGAGTTGTCAA
AAGGCCTAGTAAACTTTGTGATCTA
Found at i:45211887 original size:44 final size:44
Alignment explanation
Indices: 45211824--45211977 Score: 151
Period size: 42 Copynumber: 3.6 Consensus size: 44
45211814 TGTATTATTG
* *
45211824 TGTAAGACCATGTTTGGGACGTTGGCATTGATTTGTGATTTACA
1 TGTAAGACCATGTCTGGGACGTTGGCATTGATTTGTGATTTATA
* * * *
45211868 TGTAAGACCATGTCTGGGACATTGGCATCGTATATG-G-TTT-TG
1 TGTAAGACCATGTCTGGGACGTTGGCATTG-ATTTGTGATTTATA
45211910 TGTAAGAGCC-TGTCTGGGACAG-TGGCATTGATATT-TGA-TTATA
1 TGTAAGA-CCATGTCTGGGAC-GTTGGCATTGAT-TTGTGATTTATA
**
45211953 TGTAAGACCACATCTGGGACGTTGG
1 TGTAAGACCATGTCTGGGACGTTGG
45211978 TGTTGTATGA
Statistics
Matches: 89, Mismatches: 12, Indels: 19
0.74 0.10 0.16
Matches are distributed among these distances:
41 2 0.02
42 31 0.35
43 24 0.27
44 28 0.31
45 4 0.04
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.34
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGACGTTGGCATTGATTTGTGATTTATA
Found at i:45211949 original size:86 final size:85
Alignment explanation
Indices: 45211821--45211977 Score: 212
Period size: 86 Copynumber: 1.8 Consensus size: 85
45211811 ATATGTATTA
* **
45211821 TTGTGTAAGACCATGTTTGGGACGTTGGCATTGATTTGTGATTTACATGTAAGACCATGTCTGGG
1 TTGTGTAAGACCATGTCTGGGACGTTGGCATTGATTTGTGA-TTACATGTAAGACCACATCTGGG
45211886 ACATTGGCATCGTATATGGTT
65 ACATTGGCATCGTATATGGTT
*
45211907 TTGTGTAAGAGCC-TGTCTGGGACAG-TGGCATTGATATT-TGATTATATGTAAGACCACATCTG
1 TTGTGTAAGA-CCATGTCTGGGAC-GTTGGCATTGAT-TTGTGATTACATGTAAGACCACATCTG
*
45211969 GGACGTTGG
63 GGACATTGG
45211978 TGTTGTATGA
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
85 26 0.41
86 32 0.51
87 5 0.08
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.35
Consensus pattern (85 bp):
TTGTGTAAGACCATGTCTGGGACGTTGGCATTGATTTGTGATTACATGTAAGACCACATCTGGGA
CATTGGCATCGTATATGGTT
Found at i:45222224 original size:42 final size:42
Alignment explanation
Indices: 45222174--45222258 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
45222164 TTTAATTTGC
45222174 AAGTTTTGCACCGTTTACAATTTAGTCATTTTTCTTTAATTA
1 AAGTTTTGCACCGTTTACAATTTAGTCATTTTTCTTTAATTA
*
45222216 AAGTTTTGCACCTTTTACAATTTAGTCATTTTTCTTTAATTA
1 AAGTTTTGCACCGTTTACAATTTAGTCATTTTTCTTTAATTA
45222258 A
1 A
45222259 CTATCTATAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.27, C:0.14, G:0.08, T:0.51
Consensus pattern (42 bp):
AAGTTTTGCACCGTTTACAATTTAGTCATTTTTCTTTAATTA
Found at i:45225052 original size:68 final size:68
Alignment explanation
Indices: 45224976--45225112 Score: 265
Period size: 68 Copynumber: 2.0 Consensus size: 68
45224966 ATCAATACAT
45224976 GGCAAAGGGTTTTTATTTTTGATCTTGACTCCGTTCAACTGTCTGTAGTCTATACACAGTCTCAA
1 GGCAAAGGGTTTTTATTTTTGATCTTGACTCCGTTCAACTGTCTGTAGTCTATACACAGTCTCAA
45225041 AGA
66 AGA
*
45225044 GGCAAAGGGTTTTTATTTTTGATCTTGACTCTGTTCAACTGTCTGTAGTCTATACACAGTCTCAA
1 GGCAAAGGGTTTTTATTTTTGATCTTGACTCCGTTCAACTGTCTGTAGTCTATACACAGTCTCAA
45225109 AGA
66 AGA
45225112 G
1 G
45225113 CCATATTTCT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (68 bp):
GGCAAAGGGTTTTTATTTTTGATCTTGACTCCGTTCAACTGTCTGTAGTCTATACACAGTCTCAA
AGA
Done.