Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 130 of 136
Found at i:44860943 original size:31 final size:31
Alignment explanation
Indices: 44860806--44860943 Score: 92
Period size: 31 Copynumber: 4.6 Consensus size: 31
44860796 ACGGTAAATT
* *
44860806 TTTTAAAAAATTTTATT-AGCCTTTCAAAAA
1 TTTTAAAAAATTTTATTAAGCCTTCCAAAAG
* ** **
44860836 TTTTAGAATTTTTTATTAAGCC--CCTCAA-
1 TTTTAAAAAATTTTATTAAGCCTTCCAAAAG
* * *
44860864 -TTTAAAAAATTTAATTAAATCCCT-CAAAAG
1 TTTTAAAAAATTTTATT-AAGCCTTCCAAAAG
* *
44860894 TTTT-GATAATTCTTATTAAGCCTTCCAAAAG
1 TTTTAAAAAATT-TTATTAAGCCTTCCAAAAG
*
44860925 TTTTAAAAAATTTAATTAA
1 TTTTAAAAAATTTTATTAA
44860944 ACCCTAAAAA
Statistics
Matches: 78, Mismatches: 21, Indels: 17
0.67 0.18 0.15
Matches are distributed among these distances:
27 12 0.15
28 4 0.05
29 6 0.08
30 24 0.31
31 27 0.35
32 5 0.06
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.42
Consensus pattern (31 bp):
TTTTAAAAAATTTTATTAAGCCTTCCAAAAG
Found at i:44862445 original size:17 final size:17
Alignment explanation
Indices: 44862411--44862445 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
44862401 TATTTTTTAG
*
44862411 ATTAATTTTTATTTAAA
1 ATTAATTTTTATTAAAA
44862428 ATTAATTTTTATTAAAA
1 ATTAATTTTTATTAAAA
44862445 A
1 A
44862446 AATATATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTAATTTTTATTAAAA
Found at i:44862948 original size:14 final size:14
Alignment explanation
Indices: 44862929--44862957 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44862919 TTAACAATAA
44862929 AACAACAAAATAGT
1 AACAACAAAATAGT
44862943 AACAACAAAATAGT
1 AACAACAAAATAGT
44862957 A
1 A
44862958 GTAATATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.14, G:0.07, T:0.14
Consensus pattern (14 bp):
AACAACAAAATAGT
Found at i:44863000 original size:11 final size:11
Alignment explanation
Indices: 44862984--44863032 Score: 80
Period size: 11 Copynumber: 4.5 Consensus size: 11
44862974 ATGGTAGCAA
44862984 AACAACAACAT
1 AACAACAACAT
44862995 AACAACAACAT
1 AACAACAACAT
* *
44863006 AACAATAACAA
1 AACAACAACAT
44863017 AACAACAACAT
1 AACAACAACAT
44863028 AACAA
1 AACAA
44863033 TAGTAAACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.67, C:0.24, G:0.00, T:0.08
Consensus pattern (11 bp):
AACAACAACAT
Found at i:44869762 original size:25 final size:24
Alignment explanation
Indices: 44869726--44869774 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
44869716 TTAAAAATAA
44869726 AAATGAACATGT-GAATTAAGTGTT
1 AAATGAACATGTAG-ATTAAGTGTT
*
44869750 AAATGATATATGTAGATTAAGTGTT
1 AAATGA-ACATGTAGATTAAGTGTT
44869775 TATGTTATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 6 0.27
25 15 0.68
26 1 0.05
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.37
Consensus pattern (24 bp):
AAATGAACATGTAGATTAAGTGTT
Found at i:44872474 original size:15 final size:15
Alignment explanation
Indices: 44872446--44872487 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
44872436 ATATATGCAT
* *
44872446 ACATACACATATATA
1 ACATACATACATATA
*
44872461 ATATACATACATATA
1 ACATACATACATATA
44872476 ACATACATACAT
1 ACATACATACAT
44872488 TTTTTATGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (15 bp):
ACATACATACATATA
Found at i:44877911 original size:6 final size:6
Alignment explanation
Indices: 44877902--44877934 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
44877892 AGGAGGAGGT
*
44877902 GGTGAC GGTGAC GGTGAC GGTGAC GGTGGC GGT
1 GGTGAC GGTGAC GGTGAC GGTGAC GGTGAC GGT
44877935 TCGGTATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.12, C:0.15, G:0.55, T:0.18
Consensus pattern (6 bp):
GGTGAC
Found at i:44879439 original size:6 final size:7
Alignment explanation
Indices: 44879422--44879446 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
44879412 GATACTTCCA
44879422 AAAAAAT
1 AAAAAAT
44879429 AAAAAAT
1 AAAAAAT
44879436 AAAAAAT
1 AAAAAAT
44879443 AAAA
1 AAAA
44879447 TTTTAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:44880115 original size:34 final size:35
Alignment explanation
Indices: 44880049--44880115 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
44880039 TTTACAATAA
* *
44880049 TTTTTATTTTATTTTAATTCTTGTTTTTTTTTTTG
1 TTTTTATTTCATTTTAATTCTTGTTTTATTTTTTG
44880084 TTTTT-TTTCATTTTAATT-TTGTTTCTATTTTT
1 TTTTTATTTCATTTTAATTCTTGTTT-TATTTTT
44880116 AATATTTGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 6 0.21
34 18 0.62
35 5 0.17
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.79
Consensus pattern (35 bp):
TTTTTATTTCATTTTAATTCTTGTTTTATTTTTTG
Found at i:44880863 original size:32 final size:32
Alignment explanation
Indices: 44880827--44880890 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
44880817 GAGAAAGTTA
*
44880827 ATTGGATACATATAAAATTACTTGCTAAATTT
1 ATTGGATACATATAAAATTACTTCCTAAATTT
* *
44880859 ATTGGTTACGTATAAAATTACTTCCTAAATTT
1 ATTGGATACATATAAAATTACTTCCTAAATTT
44880891 TACTGAAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (32 bp):
ATTGGATACATATAAAATTACTTCCTAAATTT
Found at i:44881559 original size:20 final size:20
Alignment explanation
Indices: 44881536--44881573 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
44881526 GGTCTTTAGT
* *
44881536 GGCCTTTGTCTATACTTGAG
1 GGCCTTTGCCTAGACTTGAG
44881556 GGCCTTTGCCTAGACTTG
1 GGCCTTTGCCTAGACTTG
44881574 GGTGGTCTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.24, G:0.26, T:0.37
Consensus pattern (20 bp):
GGCCTTTGCCTAGACTTGAG
Found at i:44889927 original size:31 final size:31
Alignment explanation
Indices: 44889855--44889933 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 31
44889845 ATTTAATTCA
* * *
44889855 TTTTTAAAATTTAAAA-TTCTTTTATATATT
1 TTTTTGAATTTTAAAATTTATTTTATATATT
* *
44889885 TTTAATG-ATTTTAAAATTTATTTTCTATATT
1 TTT-TTGAATTTTAAAATTTATTTTATATATT
*
44889916 TTTTTGAATTTTTAAATT
1 TTTTTGAATTTTAAAATT
44889934 AATTAAATAC
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
30 13 0.33
31 26 0.67
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (31 bp):
TTTTTGAATTTTAAAATTTATTTTATATATT
Found at i:44896128 original size:20 final size:20
Alignment explanation
Indices: 44896101--44896156 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
44896091 CAAAATCTTG
44896101 AACC-TGAACCCTAAACCCA
1 AACCTTGAACCCTAAACCCA
* * * *
44896120 AACCTTGAACTCGAACCCCG
1 AACCTTGAACCCTAAACCCA
*
44896140 AACCTTAAACCCTAAAC
1 AACCTTGAACCCTAAAC
44896157 TTGAATTCGA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.39, C:0.39, G:0.07, T:0.14
Consensus pattern (20 bp):
AACCTTGAACCCTAAACCCA
Found at i:44896143 original size:26 final size:27
Alignment explanation
Indices: 44896066--44896137 Score: 85
Period size: 26 Copynumber: 2.7 Consensus size: 27
44896056 CTGAATCCTG
*
44896066 AACCTTGAACTCCAAACCCAAAACCCAA
1 AACCTTGAACT-CGAACCCAAAACCCAA
* *
44896094 AATCTTGAAC-CTGAACCCTAAACCC-A
1 AACCTTGAACTC-GAACCCAAAACCCAA
44896120 AACCTTGAACTCGAACCC
1 AACCTTGAACTCGAACCC
44896138 CGAACCTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
26 17 0.45
27 12 0.32
28 9 0.24
ACGTcount: A:0.40, C:0.38, G:0.07, T:0.15
Consensus pattern (27 bp):
AACCTTGAACTCGAACCCAAAACCCAA
Found at i:44897600 original size:157 final size:158
Alignment explanation
Indices: 44897414--44897730 Score: 627
Period size: 157 Copynumber: 2.0 Consensus size: 158
44897404 ATTCGTTTAT
44897414 AAAATCATAAAATATTGTTAAAATATTAACTTTATTTTATAATAAATAATAATTTTTTTTGATGA
1 AAAATCATAAAATATTGTTAAAATATTAACTTTATTTTATAATAAATAATAATTTTTTTTGATGA
44897479 ATTATAATAAAAGACAAAACCCTAATAACAACACAATTAACGCTATTTAAACTCAAATTATACCT
66 ATTATAATAAAAGACAAAACCCTAATAACAACACAATTAACGCTATTTAAACTCAAATTATACCT
44897544 AAGACTGTGACCGCTGCCAATACACAAC
131 AAGACTGTGACCGCTGCCAATACACAAC
44897572 AAAATCATAAAA-ATTGTTAAAATATTAACTTTATTTTATAATAAATAATAATTTTTTTTGATGA
1 AAAATCATAAAATATTGTTAAAATATTAACTTTATTTTATAATAAATAATAATTTTTTTTGATGA
44897636 ATTATAATAAAAGACAAAACCCTAATAACAACACAATTAACGCTATTTAAACTCAAATTATACCT
66 ATTATAATAAAAGACAAAACCCTAATAACAACACAATTAACGCTATTTAAACTCAAATTATACCT
44897701 AAGACTGTGACCGCTGCCAATACACAAC
131 AAGACTGTGACCGCTGCCAATACACAAC
44897729 AA
1 AA
44897731 TGATTTATAT
Statistics
Matches: 159, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
157 147 0.92
158 12 0.08
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (158 bp):
AAAATCATAAAATATTGTTAAAATATTAACTTTATTTTATAATAAATAATAATTTTTTTTGATGA
ATTATAATAAAAGACAAAACCCTAATAACAACACAATTAACGCTATTTAAACTCAAATTATACCT
AAGACTGTGACCGCTGCCAATACACAAC
Found at i:44900612 original size:3 final size:3
Alignment explanation
Indices: 44900604--44900642 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
44900594 AGATGACCGA
44900604 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
44900643 TGGGTGAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:44900620 original size:29 final size:29
Alignment explanation
Indices: 44900560--44900621 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
44900550 AAAATTCAAT
*
44900560 TAATTGAGTGACCAAAATAAGAAAAATGA
1 TAATTGAGTGACCAAAATAAGAAAAATAA
* * *
44900589 TAATT-AGATGACCGAAATAATAATAATAA
1 TAATTGAG-TGACCAAAATAAGAAAAATAA
44900618 TAAT
1 TAAT
44900622 AATAATAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.55, C:0.06, G:0.13, T:0.26
Consensus pattern (29 bp):
TAATTGAGTGACCAAAATAAGAAAAATAA
Found at i:44911406 original size:16 final size:16
Alignment explanation
Indices: 44911385--44911438 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
44911375 TTTGGTTCAG
*
44911385 TGTAATAGAATATAGC
1 TGTAATAGAATAAAGC
* *
44911401 TGTAATTGAATAGAGC
1 TGTAATAGAATAAAGC
* *
44911417 TGTAATGGAATAAAAC
1 TGTAATAGAATAAAGC
44911433 TGTAAT
1 TGTAAT
44911439 TAGTAATTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (16 bp):
TGTAATAGAATAAAGC
Found at i:44911694 original size:58 final size:58
Alignment explanation
Indices: 44911615--44911738 Score: 187
Period size: 58 Copynumber: 2.1 Consensus size: 58
44911605 TTTTAATAAG
*
44911615 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAACCAAATTCTTAACATA
* * * *
44911673 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATCAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACCAAATTCTTAACATA
44911731 ATTATTAT
1 ATTATTAT
44911739 ATGAATTAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
57 23 0.38
58 37 0.62
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACCAAATTCTTAACATA
Found at i:44913867 original size:36 final size:35
Alignment explanation
Indices: 44913798--44913929 Score: 147
Period size: 36 Copynumber: 3.6 Consensus size: 35
44913788 CTACCTTCAT
**
44913798 CCGATTTGCTTCCTTGTTTCTTTGCTTTTCTTTTCTG
1 CCGATTTGC-TCCCAGTTTCTTT-CTTTTCTTTTCTG
44913835 CCGATTTGCTCCCAGTTTACTTTCTTTTCTTTTCTG
1 CCGATTTGCTCCCAGTTT-CTTTCTTTTCTTTTCTG
* *
44913871 CCGATTTGCTCCCCCCGTTTCTTTTCTTTTCTTTTTCGG
1 CCGATTTGCT--CCCAGTTTC-TTTCTTTTC-TTTTCTG
* *
44913910 CTGATTTGCTCACAGTTTCT
1 CCGATTTGCTCCCAGTTTCT
44913930 GCCGATTTGC
Statistics
Matches: 83, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
36 31 0.37
37 21 0.25
38 16 0.19
39 15 0.18
ACGTcount: A:0.06, C:0.28, G:0.13, T:0.53
Consensus pattern (35 bp):
CCGATTTGCTCCCAGTTTCTTTCTTTTCTTTTCTG
Found at i:44915081 original size:69 final size:71
Alignment explanation
Indices: 44914955--44915085 Score: 185
Period size: 69 Copynumber: 1.9 Consensus size: 71
44914945 GTTCTGGACA
* * *
44914955 TTGTTTTGATAGTCTGCTGGAAAATGTTATTTTAGTTTGTTAGTGAGTAGAAGATGAAACTGTTG
1 TTGTTTTGATAGTCTGCTGGAAAATGTTACTTGAGTTTGTTAGTCAGTAGAAGATGAAACTGTTG
44915020 TGGCAG
66 TGGCAG
* ** *
44915026 TTGTTTTGATTGTCTGCTGGAACTTGTT-CTTGA-TTTGTTAGTCAGTAGAATATGAAACTG
1 TTGTTTTGATAGTCTGCTGGAAAATGTTACTTGAGTTTGTTAGTCAGTAGAAGATGAAACTG
44915086 GAACTTTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
69 25 0.47
70 3 0.06
71 25 0.47
ACGTcount: A:0.24, C:0.08, G:0.26, T:0.43
Consensus pattern (71 bp):
TTGTTTTGATAGTCTGCTGGAAAATGTTACTTGAGTTTGTTAGTCAGTAGAAGATGAAACTGTTG
TGGCAG
Found at i:44916248 original size:37 final size:36
Alignment explanation
Indices: 44916205--44916288 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 36
44916195 ATCATAAATA
44916205 AATAAACTAATCAATGTTCA-AACTTTGAACATGCTTT
1 AATAAACTAATCAATG-TCAGAA-TTTGAACATGCTTT
* *
44916242 ATTAAACTAATCAATGTGAGGAATTTGAACATGCTTT
1 AATAAACTAATCAATGTCA-GAATTTGAACATGCTTT
*
44916279 AATGAACTAA
1 AATAAACTAA
44916289 CTGTTAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
36 2 0.05
37 37 0.90
38 2 0.05
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (36 bp):
AATAAACTAATCAATGTCAGAATTTGAACATGCTTT
Found at i:44916413 original size:22 final size:18
Alignment explanation
Indices: 44916369--44916410 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
44916359 AATTTTAGGT
44916369 CAATTATACATACACCAA
1 CAATTATACATACACCAA
44916387 CAATTATACATACACCAA
1 CAATTATACATACACCAA
44916405 CAATTA
1 CAATTA
44916411 ATTTTAGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (18 bp):
CAATTATACATACACCAA
Found at i:44921368 original size:16 final size:16
Alignment explanation
Indices: 44921347--44921381 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
44921337 ATTTGCTATA
44921347 ACACCTCTAATCCAAT
1 ACACCTCTAATCCAAT
44921363 ACACCTCTAATCCAAT
1 ACACCTCTAATCCAAT
44921379 ACA
1 ACA
44921382 GCGAACCGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (16 bp):
ACACCTCTAATCCAAT
Found at i:44922588 original size:24 final size:25
Alignment explanation
Indices: 44922543--44922590 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
44922533 GAAGAAAAGA
*
44922543 GTTAACAGAAAAAATGGCAATAAAT
1 GTTAACAGAAAAAATGGAAATAAAT
44922568 GTTAA-AGAAAAAA-GGAAAATAAA
1 GTTAACAGAAAAAATGG-AAATAAA
44922591 GACACAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 14 0.67
25 5 0.24
ACGTcount: A:0.62, C:0.04, G:0.17, T:0.17
Consensus pattern (25 bp):
GTTAACAGAAAAAATGGAAATAAAT
Found at i:44922738 original size:23 final size:25
Alignment explanation
Indices: 44922689--44922749 Score: 81
Period size: 23 Copynumber: 2.4 Consensus size: 25
44922679 AAATGTTGAG
44922689 GAAGAAATCTGCTGAAGTGAAAAAGTT
1 GAAGAAATCTGCT--AGTGAAAAAGTT
*
44922716 GAAGAAATCTGCT-G-GAAAGAGTT
1 GAAGAAATCTGCTAGTGAAAAAGTT
44922739 GAAGAAATCTG
1 GAAGAAATCTG
44922750 AGGGAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
23 19 0.58
24 1 0.03
27 13 0.39
ACGTcount: A:0.43, C:0.08, G:0.28, T:0.21
Consensus pattern (25 bp):
GAAGAAATCTGCTAGTGAAAAAGTT
Found at i:44922755 original size:23 final size:23
Alignment explanation
Indices: 44922707--44922755 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
44922697 CTGCTGAAGT
**
44922707 GAAAAAGTTGAAGAAATCTGCTG
1 GAAAAAGTTGAAGAAATCTGAGG
*
44922730 GAAAGAGTTGAAGAAATCTGAGG
1 GAAAAAGTTGAAGAAATCTGAGG
44922753 GAA
1 GAA
44922756 TAAACATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.06, G:0.31, T:0.18
Consensus pattern (23 bp):
GAAAAAGTTGAAGAAATCTGAGG
Found at i:44946298 original size:21 final size:21
Alignment explanation
Indices: 44946274--44946314 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
44946264 TATATATGTT
*
44946274 TAATTAAGC-TTTAGTTAATCG
1 TAATTAA-CTTTTAATTAATCG
44946295 TAATTAACTTTTAATTAATC
1 TAATTAACTTTTAATTAATC
44946315 TTTTCTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (21 bp):
TAATTAACTTTTAATTAATCG
Found at i:44949346 original size:14 final size:14
Alignment explanation
Indices: 44949323--44949353 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
44949313 TGCCGCATTC
*
44949323 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
44949337 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
44949351 TTA
1 TTA
44949354 AAACAATTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:44953820 original size:2 final size:2
Alignment explanation
Indices: 44953813--44953912 Score: 128
Period size: 2 Copynumber: 49.0 Consensus size: 2
44953803 TTAATAAAAG
*
44953813 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA CTA TCA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA T-A
* * * * *
44953857 TA TA TA TA GA GA TA AA TA AA AA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44953899 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
44953913 AACTATGACA
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
2 85 0.97
3 3 0.03
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (2 bp):
TA
Found at i:44954974 original size:26 final size:26
Alignment explanation
Indices: 44954932--44954987 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
44954922 GACTATATAA
* **
44954932 AAAATTTCTATAAATAAAAATTGTAT
1 AAAATTACTATAAATAAAAATAATAT
44954958 AAAATTACTA-AATATAAAAATAATAT
1 AAAATTACTATAA-ATAAAAATAATAT
44954984 AAAA
1 AAAA
44954988 AAAATATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (26 bp):
AAAATTACTATAAATAAAAATAATAT
Found at i:44959983 original size:31 final size:31
Alignment explanation
Indices: 44959939--44960019 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
44959929 GGGGGATGAG
* *
44959939 TAAATTTACAATTT-AGTCATTTAATTATTAA
1 TAAATTTATAATTTGA-TCACTTAATTATTAA
*
44959970 TAATTTTATAATTTGATCACTTAATTATTAA
1 TAAATTTATAATTTGATCACTTAATTATTAA
*
44960001 TAAATTTGTAATTTGATCA
1 TAAATTTATAATTTGATCA
44960020 TGCTTAGTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 43 0.98
32 1 0.02
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.49
Consensus pattern (31 bp):
TAAATTTATAATTTGATCACTTAATTATTAA
Found at i:44965120 original size:23 final size:23
Alignment explanation
Indices: 44965093--44965147 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
44965083 AGCTTTGCCG
44965093 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* *
44965116 ATCAGACACTTTATGTGTTGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* *
44965139 TTTAGGCAC
1 ATCAGGCAC
44965148 CTCGTGTGTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:44968974 original size:21 final size:21
Alignment explanation
Indices: 44968939--44968979 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
44968929 CACGAGCTTC
*
44968939 TGTTTAACTCATATGAGTTTT
1 TGTTTAACCCATATGAGTTTT
* *
44968960 TGTTTAACCCTTATGGGTTT
1 TGTTTAACCCATATGAGTTT
44968980 CCGTTCAGCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (21 bp):
TGTTTAACCCATATGAGTTTT
Found at i:44977984 original size:2 final size:2
Alignment explanation
Indices: 44977979--44978005 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
44977969 AGCAGTGTTT
44977979 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
44978006 TGATTGGAGA
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:44980112 original size:48 final size:47
Alignment explanation
Indices: 44980060--44981147 Score: 907
Period size: 48 Copynumber: 22.7 Consensus size: 47
44980050 GGATGGAGGA
* * * *
44980060 GGTGGGGACTTGTAATAGTAGGGTGGTGGTGGAGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGA-TGGACTGGTGGT
* * * * *
44980108 GGTGGAGATTTGTAGTAGTAGGGAGGAGGTGGAGATGGTGA-TGGGGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAT-G-GACTGGTGGT
* * *
44980156 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATGGA-CTGGTGGT
* * * * * *
44980204 GGTGGAGATTTGTAGTAGTAAGGAGGAGGAGGAGATGG-CGATGGGGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATGGAC--TGGTGGT
* * * * *
44980252 GGAGGAGATTTGTAGTAGTATGGTGGTGGTGGTGATGGAGATGGGGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATGGA-CTGGTGGT
* * * *
44980300 GGTGGGGACTTGTAATAGTAGGGTGGTGGTGGAGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGA-TGGACTGGTGGT
* * *
44980348 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATGGA-CTGGTGGT
* * * * * *
44980396 GGTGGAGATTTGTAGTAGTAGGGAGGAGGAGGAGATGG-CGATGGGGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATGGAC--TGGTGGT
* * * * * * *
44980444 GGAGGAGACTTGTAGTAATATGGTGGTGGTGGTGATGGAGATGGAGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATGGA-CTGGTGGT
* *
44980492 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGATGGTGA-TGGTGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAT-G-GACTGGTGGT
* * * * * * * * ** *
44980540 GGAGGGGAGTTGTAGTGGTAAGTTGGTGCTGGAGCCTTCACTGGAGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAG-ATGGACTGGTGGT
* * * * * * *
44980588 GGTGGTGATTTGTAATAGTATGGTGGTGGAGGGGAATGAATTGGTGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAG-ATGGACTGGTGGT
* * * *
44980636 GGTGGGGATTTGTAATGGTATGGCGGTGGTGGAGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGA-TGGACTGGTGGT
44980684 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTAGG-CTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGA-T-GGACTGGTGGT
44980732 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTAGG-CTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGA-T-GGACTGGTGGT
44980780 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGA-TGGACTGGTGGT
* * * * * * * *
44980828 GGTGGGGACTTGTAGTAGTAAGGAGGAGGCGGAGATGAAGAC-GGGGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATG--GACTGGTGGT
* * * * * *
44980876 GGAGGGGATTTGTAGTAGTATGGAGGTGGTGGTGATGGAGATGGAGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATGGA-CTGGTGGT
* * * * * *
44980924 GGTGGGGATTTGTAGTAGTAAGGAGGAGGAGGAGATGGTGA-TGGTGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAT-G-GACTGGTGGT
* * * * * * * ** *
44980972 GGCGGGGAGTTGTAGTGGTA-GGTTGGTGCTGGGGCCTTCACTGGAGGT
1 GGTGGAGATTTGTAGTAGTATGG-TGGTGGTGGAG-ATGGACTGGTGGT
* *
44981020 GGTGGTGATTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGA-TGGACTGGTGGT
* * * *
44981068 GGTGGAGACTTGTAGTAATATGGTGGGGGTGGAGAGTGGACTGGTGGG
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGA-TGGACTGGTGGT
44981116 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGG
1 GGTGGAGATTTGTAGTAGTATGGTGGTGGTGG
44981148 TGGTGACTTA
Statistics
Matches: 845, Mismatches: 163, Indels: 64
0.79 0.15 0.06
Matches are distributed among these distances:
46 4 0.00
47 15 0.02
48 805 0.95
49 17 0.02
50 4 0.00
ACGTcount: A:0.19, C:0.03, G:0.51, T:0.27
Consensus pattern (47 bp):
GGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGATGGACTGGTGGT
Found at i:44980707 original size:24 final size:24
Alignment explanation
Indices: 44980680--44980808 Score: 94
Period size: 24 Copynumber: 5.4 Consensus size: 24
44980670 AGTGGACTGG
44980680 TGGTGGTGGAGATTTGTAGTAGTA
1 TGGTGGTGGAGATTTGTAGTAGTA
* *
44980704 TGGTGGTGGTGGA---G-AGTAGGCTGG
1 TGGTGGTGG-AGATTTGTAGTA-G-T-A
44980728 TGGTGGTGGAGATTTGTAGTAGTA
1 TGGTGGTGGAGATTTGTAGTAGTA
* *
44980752 TGGTGGTGGTGGA---G-AGTAGGCTGG
1 TGGTGGTGG-AGATTTGTAGTA-G-T-A
44980776 TGGTGGTGGAGATTTGTAGTAGTA
1 TGGTGGTGGAGATTTGTAGTAGTA
44980800 TGGTGGTGG
1 TGGTGGTGG
44980809 TGGAGAGTGG
Statistics
Matches: 81, Mismatches: 8, Indels: 32
0.67 0.07 0.26
Matches are distributed among these distances:
21 8 0.10
22 4 0.05
23 6 0.07
24 45 0.56
25 6 0.07
26 4 0.05
27 8 0.10
ACGTcount: A:0.16, C:0.02, G:0.50, T:0.33
Consensus pattern (24 bp):
TGGTGGTGGAGATTTGTAGTAGTA
Found at i:44981064 original size:21 final size:21
Alignment explanation
Indices: 44981040--44981123 Score: 87
Period size: 21 Copynumber: 3.7 Consensus size: 21
44981030 TGTAGTAGTA
44981040 TGGTGGGGGTGGAGAGTGGAC
1 TGGTGGGGGTGGAGAGTGGAC
* * *
44981061 TGGTGGTGGTGGAGACTTGTAGTAATA
1 TGGTGGGGGTGGAGA---GT-G-GA-C
44981088 TGGTGGGGGTGGAGAGTGGAC
1 TGGTGGGGGTGGAGAGTGGAC
44981109 TGGTGGGGGTGGAGA
1 TGGTGGGGGTGGAGA
44981124 TTTGTAGTAG
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
21 29 0.57
22 1 0.02
23 1 0.02
24 4 0.08
25 1 0.02
26 1 0.02
27 14 0.27
ACGTcount: A:0.17, C:0.04, G:0.56, T:0.24
Consensus pattern (21 bp):
TGGTGGGGGTGGAGAGTGGAC
Found at i:44981136 original size:240 final size:236
Alignment explanation
Indices: 44980053--44981149 Score: 1079
Period size: 240 Copynumber: 4.6 Consensus size: 236
44980043 GTGAAGGGGA
*
44980053 TGGAGGAGGTGGGGACTTGTAATAGTAGGGTGGTGGTGGAGAGTGGACTGGTGGTGGTGGAGATT
1 TGGAGGAGGTGGGGACTTGTAGTAGTAGGGTGGTGGTGGAGAGTGGACTGGTGGTGGTGGAGATT
* * *
44980118 TGTAGTAGTAGGGAGGAGGTGGAGATGGTGA-TGGGGGAGGTGGAGATTTGTAGTAGTATGGTGG
66 TGTAGTAGTATGGTGGAGGTGGAGAT-G-GACTGGGGG-GGTGGAGATTTGTAGTAGTATGGAGG
44980182 TGGTGGTGATGGAGATGGAGGTGGTGGAGATTTGTAGTAGTAAGGAGGAGGAGGAGATGGCGATG
128 TGGTGGTGATGGAGATGGAGGTGGTGGAGATTTGTAGTAGTAAGGAGGAGGAGGAGATGG-GATG
* * * *
44980247 GGGGAGGAGGAGATTTGTAGTAGTATGGTGGTGGTGGTGATGGAGA
192 GTGGAGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGATTGA-C
* *
44980293 TGGGGGAGGTGGGGACTTGTAATAGTAGGGTGGTGGTGGAGAGTGGACTGGTGGTGGTGGAGATT
1 TGGAGGAGGTGGGGACTTGTAGTAGTAGGGTGGTGGTGGAGAGTGGACTGGTGGTGGTGGAGATT
* * * * * *
44980358 TGTAGTAGTATGGTGGTGGTGGTGATGGAGATGGAGGTGGTGGAGATTTGTAGTAGTAGGGAGGA
66 TGTAGTAGTATGGTGGAGGTGGAGATGGA-CTGG-GGGGGTGGAGATTTGTAGTAGTATGGAGGT
* * * * * * * * * * * * *
44980423 GGAGGAGATGGCGATGGGGGAGGAGGAGACTTGTAGTAATATGGTGGTGGTGGTGATGGAGATGG
129 GGTGGTGATGGAGATGGAGGTGGTGGAGATTTGTAGTAGTAAGGAGGAGGAGGAGATGG-GATGG
*
44980488 AGGAGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGATGGTGA-
193 TGGAGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGAT--TGAC
* * * * * * * ** ** * *
44980533 TGGTGGAGGAGGGGAGTTGTAGTGGTAAGTTGGTGCTGGAGCCTTCACTGGAGGTGGTGGTGATT
1 TGGAGGAGGTGGGGACTTGTAGTAGTAGGGTGGTGGTGGAGAGTGGACTGGTGGTGGTGGAGATT
* * * * * * * * * * *
44980598 TGTAATAGTATGGTGGTGGAGGGGAATGAATTGGTGGAGGTGGGGATTTGTAATGGTATGGCGGT
66 TGTAGTAGTATGGTGGAGGTGGAG-ATGGACTGG-GGGGGTGGAGATTTGTAGTAGTATGGAGGT
* * * * * * * * *
44980663 GGTGGAGAGTGGA-CTGGTGGTGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTAGGCTG
129 GGTGGTGA-TGGAGATGGAGGTGGTGGAGATTTGTAGTAGTAAGGAGGAGGAGGAGA-TGGGATG
* * * *
44980727 GTGGTGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTAGGC
192 GTGGAGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGA-TTGAC
* * * * * * *
44980773 TGGTGGTGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGAGAGTGGACTGGTGGTGGTGGGGACT
1 TGGAGGAGGTGGGGACTTGTAGTAGTAGGGTGGTGGTGGAGAGTGGACTGGTGGTGGTGGAGATT
* * * * *
44980838 TGTAGTAGTAAGGAGGAGGCGGAGATGAAGAC-GGGGGAGGAGGGGATTTGTAGTAGTATGGAGG
66 TGTAGTAGTATGGTGGAGGTGGAGATG--GACTGGGGG-GGTGGAGATTTGTAGTAGTATGGAGG
*
44980902 TGGTGGTGATGGAGATGGAGGTGGTGGGGATTTGTAGTAGTAAGGAGGAGGAGGAGATGGTGATG
128 TGGTGGTGATGGAGATGGAGGTGGTGGAGATTTGTAGTAGTAAGGAGGAGGAGGAGATGG-GATG
* * * * * * * *
44980967 GTGGAGGCGGGGAGTTGTAGTGGTA-GGTTGGTGCTGGGGCCTTCAC
192 GTGGAGGTGGAGATTTGTAGTAGTATGG-TGGTGGTGGTG-ATTGAC
* * * * * *
44981013 TGGAGGTGGTGGTGATTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGGTGGTGGAGACT
1 TGGAGGAGGTGGGGACTTGTAGTAGTAGGGTGGTGGTGGAGAGTGGACTGGTGGTGGTGGAGATT
* * *
44981078 TGTAGTAATATGGTGGGGGTGGAGAGTGGACTGGTGGGGGTGGAGATTTGTAGTAGTATGGTGGT
66 TGTAGTAGTATGGTGGAGGTGGAGA-TGGACTGG-GGGGGTGGAGATTTGTAGTAGTATGGAGGT
44981143 GGTGGTG
129 GGTGGTG
44981150 GTGACTTATA
Statistics
Matches: 707, Mismatches: 130, Indels: 40
0.81 0.15 0.05
Matches are distributed among these distances:
238 2 0.00
239 18 0.03
240 667 0.94
241 18 0.03
242 2 0.00
ACGTcount: A:0.19, C:0.03, G:0.51, T:0.27
Consensus pattern (236 bp):
TGGAGGAGGTGGGGACTTGTAGTAGTAGGGTGGTGGTGGAGAGTGGACTGGTGGTGGTGGAGATT
TGTAGTAGTATGGTGGAGGTGGAGATGGACTGGGGGGGTGGAGATTTGTAGTAGTATGGAGGTGG
TGGTGATGGAGATGGAGGTGGTGGAGATTTGTAGTAGTAAGGAGGAGGAGGAGATGGGATGGTGG
AGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGATTGAC
Found at i:44981245 original size:66 final size:66
Alignment explanation
Indices: 44981109--44981267 Score: 176
Period size: 66 Copynumber: 2.4 Consensus size: 66
44981099 GAGAGTGGAC
* * * * * * *
44981109 TGGTGGGGGTGGAGATTTGTAGTAGTATGGTGGTGGTGGTGGTGACTTATAAACATAGGTAGGGC
1 TGGTGGTGGCGGAGACTTGTAATAGTATGGTGGAGGAGGTGGTGACTTATAAACATAAGTAGGGC
*
44981174 T
66 A
* * *
44981175 TGGTGGTGGCGGGGACTTGTAATAGTATGGTGGAGGAGGTGGTGACTTGTAAGCATAAGTA-GGC
1 TGGTGGTGGCGGAGACTTGTAATAGTATGGTGGAGGAGGTGGTGACTTATAAACATAAGTAGGGC
44981239 GA
66 -A
* **
44981241 TGGTGGTGGTGGAGAGGTGTAATAGTA
1 TGGTGGTGGCGGAGACTTGTAATAGTA
44981268 AGGAGATGGA
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
65 3 0.04
66 74 0.96
ACGTcount: A:0.21, C:0.05, G:0.45, T:0.29
Consensus pattern (66 bp):
TGGTGGTGGCGGAGACTTGTAATAGTATGGTGGAGGAGGTGGTGACTTATAAACATAAGTAGGGC
A
Found at i:44981252 original size:36 final size:33
Alignment explanation
Indices: 44981132--44981252 Score: 95
Period size: 36 Copynumber: 3.6 Consensus size: 33
44981122 GATTTGTAGT
* *
44981132 AGTATGGTGGTGGTGGTGGTGACTTATAAACATA
1 AGTAGGGTGGTGGTGGTGGTGACTTGT-AACATA
* * *
44981166 GGTAGGGCTTGGTGGTGGCGGGGACTTGT-A-AT-
1 AGTAGGG--TGGTGGTGGTGGTGACTTGTAACATA
* * *
44981198 AGTATGGTGGAGGAGGTGGTGACTTGTAAGCATA
1 AGTAGGGTGGTGGTGGTGGTGACTTGTAA-CATA
44981232 AGTAGGCGATGGTGGTGGTGG
1 AGTAGG-G-TGGTGGTGGTGG
44981253 AGAGGTGTAA
Statistics
Matches: 65, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
30 16 0.25
31 1 0.02
32 5 0.08
33 4 0.06
34 11 0.17
35 1 0.02
36 27 0.42
ACGTcount: A:0.21, C:0.07, G:0.45, T:0.28
Consensus pattern (33 bp):
AGTAGGGTGGTGGTGGTGGTGACTTGTAACATA
Found at i:44982445 original size:27 final size:27
Alignment explanation
Indices: 44982415--44982500 Score: 76
Period size: 27 Copynumber: 3.4 Consensus size: 27
44982405 ATGCGGAGGA
*
44982415 GGTGGCGGAGACGTATAGTAGTAAGGT
1 GGTGGTGGAGACGTATAGTAGTAAGGT
* *
44982442 GGTGG-AG-GA-G-ATGGT-G-AAGGT
1 GGTGGTGGAGACGTATAGTAGTAAGGT
* * *
44982463 GGTGGTGGAGACTTGTAGTAGTAAGGA
1 GGTGGTGGAGACGTATAGTAGTAAGGT
44982490 GGTGGTGGAGA
1 GGTGGTGGAGA
44982501 TGGTGATGGT
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
21 10 0.22
22 2 0.04
23 6 0.13
24 1 0.02
25 5 0.11
26 2 0.04
27 20 0.43
ACGTcount: A:0.24, C:0.03, G:0.50, T:0.22
Consensus pattern (27 bp):
GGTGGTGGAGACGTATAGTAGTAAGGT
Found at i:44982562 original size:24 final size:27
Alignment explanation
Indices: 44982505--44982568 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
44982495 TGGAGATGGT
*
44982505 GATGGTGGTGGGGGAGACTTATAATAG
1 GATGGTGGTGGGGGAGACTTACAATAG
* *
44982532 TATGGTGGTGGGGGAGACTT-CACT-G
1 GATGGTGGTGGGGGAGACTTACAATAG
44982557 GA-GGTGGTGGGG
1 GATGGTGGTGGGG
44982569 ACTTGTAGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 10 0.30
25 2 0.06
26 2 0.06
27 19 0.58
ACGTcount: A:0.19, C:0.06, G:0.50, T:0.25
Consensus pattern (27 bp):
GATGGTGGTGGGGGAGACTTACAATAG
Found at i:44982845 original size:21 final size:21
Alignment explanation
Indices: 44982821--44982906 Score: 91
Period size: 21 Copynumber: 3.8 Consensus size: 21
44982811 TTGTAGTAAT
*
44982821 ATGGAGGAGGTGGAGATGGAG
1 ATGGAGGAGGTGGGGATGGAG
44982842 ATGGAGGAGGTGGGGACTTGTAGTAG
1 ATGGAGGAGGTGGGGA--TG--G-AG
*
44982868 TATGGAGGAGGTGGGGAAGGAG
1 -ATGGAGGAGGTGGGGATGGAG
*
44982890 ATGGAGGTGGTGGGGAT
1 ATGGAGGAGGTGGGGAT
44982907 TTGTAGTAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
21 30 0.55
22 2 0.04
23 3 0.05
25 2 0.04
26 2 0.04
27 16 0.29
ACGTcount: A:0.24, C:0.01, G:0.56, T:0.19
Consensus pattern (21 bp):
ATGGAGGAGGTGGGGATGGAG
Found at i:44983139 original size:144 final size:144
Alignment explanation
Indices: 44982412--44983145 Score: 763
Period size: 144 Copynumber: 5.1 Consensus size: 144
44982402 GTAATGCGGA
* * * * * * *
44982412 GGAGGTGGCGGAGACGTATAGTAGTAAGGTGGTGGAGGAGATGGTGAAGGTGGTGGTGGAGACTT
1 GGAGGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGAGATGGTGGTGGTGGAGATTT
* * * * * *
44982477 GTAGTAGTAAGGAGGTGGTGGAGATGGTGATGGTGGTGGGGGAGACTTATAATAGTATGGTGGTG
66 GTAGTAGTAAGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTATAATAGTATGGAGGAG
* **
44982542 GGGGAGACT--TCAC
131 GAGGAGA-TGGAGAC
* * *
44982555 TGGAGGTGGTGGGGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGTGAGGGTGGTGGTGGAGATT
1 -GGAGGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGAGATGGTGGTGGTGGAGATT
* * * * * *
44982620 TGTAGTAGTAAGGAGGTGGTGGAGATGGTGATGGTGGTGGTGGAGACTTATAATAGTAAGGTGGG
65 TGTAGTAGTAAGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTATAATAGTATGGAGGA
* * * *
44982685 GGTGGTGAAGGAGAA
130 GGAGGAGATGGAGAC
* * * * * * * *
44982700 GGTGGGGGGGGAGACTTGTAGTAGTAAGGTGGTGGTGGGGAAGGAGATGGAGGTGGCGGGGATTT
1 GGAGGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGAGATGGTGGTGGTGGAGATTT
* * * * *
44982765 GTAGTAGTAAGGAGGAGGTGGTGATGGGGACGGTGGTGGTGGAGATTTGTAGTAATATGGAGGAG
66 GTAGTAGTAAGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTATAATAGTATGGAGGAG
* *
44982830 GTGGAGATGGAGAT
131 GAGGAGATGGAGAC
* * * * * * * * *
44982844 GGAGGAGGTGGGGACTTGTAGTAGTATGGAGGAGGTGGGGAAGGAGATGGAGGTGGTGGGGATTT
1 GGAGGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGAGATGGTGGTGGTGGAGATTT
* * * * * *
44982909 GTAGTAATAAGGAGGAGGTGGTGACGGGGACGGAGGTGGTGGAGACTTATAGTAATATGGAGGAG
66 GTAGTAGTAAGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTATAATAGTATGGAGGAG
* *
44982974 GTAGG-GATGGGGAT
131 G-AGGAGATGGAGAC
* * * * * * *
44982988 GGAGGTGGTGGAGACTTGTAGTAGTACGGGGGAGGTGGTGATGGGGATGGTGGCGGTGGAGACTT
1 GGAGGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGAGATGGTGGTGGTGGAGATTT
* * *
44983053 GTAGTAGTATGGAGGAGGTGGTGACGGGGATGGTGGTGGAGGAGACTTATAATAGTATGGAGGAG
66 GTAGTAGTAAGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTATAATAGTATGGAGGAG
*
44983118 GAGGTGATGGAGAC
131 GAGGAGATGGAGAC
*
44983132 GGTGGTGGTGGAGA
1 GGAGGTGGTGGAGA
44983146 TTTATAGTGG
Statistics
Matches: 509, Mismatches: 77, Indels: 8
0.86 0.13 0.01
Matches are distributed among these distances:
143 3 0.01
144 503 0.99
145 3 0.01
ACGTcount: A:0.23, C:0.03, G:0.51, T:0.23
Consensus pattern (144 bp):
GGAGGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGAGATGGTGGTGGTGGAGATTT
GTAGTAGTAAGGAGGAGGTGGTGATGGGGATGGTGGTGGTGGAGACTTATAATAGTATGGAGGAG
GAGGAGATGGAGAC
Found at i:44983151 original size:48 final size:48
Alignment explanation
Indices: 44982415--44983163 Score: 629
Period size: 48 Copynumber: 15.6 Consensus size: 48
44982405 ATGCGGAGGA
* * * * * * * * * *
44982415 GGTGGCGGAGACGTATAGTAGTAAGGTGGTGGAGGAGATGGTGAAGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * * *
44982463 GGTGGTGGAGACTTGTAGTAGTAAGGAGGTGGTGGAGATGGTGATGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * * * * * * ** * *
44982511 GGTGGGGGAGACTTATAATAGTATGGTGGTGGGGGAGACTTCA-CTGGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGA-TGGAGATGGT
* * * * * * *
44982559 GGTGGTGGGGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGTGAGGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * * * *
44982607 GGTGGTGGAGATTTGTAGTAGTAAGGAGGTGGTGGAGATGGTGATGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * * * * * *
44982655 GGTGGTGGAGACTTATAATAGTAAGGTGGGGGTGGTGAAGGAGAAGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * * * * * * *
44982703 GGGGGGGGAGACTTGTAGTAGTAAGGTGGTGGTGGGGAAGGAGATGGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * * * * *
44982751 GGTGGCGGGGATTTGTAGTAGTAAGGAGGAGGTGGTGATGGGGACGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * * *
44982799 GGTGGTGGAGATTTGTAGTAATATGGAGGAGGTGGAGATGGAGATGGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * * * *
44982847 GGAGGTGGGGACTTGTAGTAGTATGGAGGAGGTGGGGAAGGAGATGGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * * * * * * *
44982895 GGTGGTGGGGATTTGTAGTAATAAGGAGGAGGTGGTGACGGGGACGGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * * *
44982943 GGTGGTGGAGACTTATAGTAATATGGAGGAGGTAGG-GATGGGGATGGA
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGT-GGTGATGGAGATGGT
* * *
44982991 GGTGGTGGAGACTTGTAGTAGTACGGGGGAGGTGGTGATGGGGATGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * *
44983039 GGCGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGACGGGGATGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * * * *
44983087 GGTGGAGGAGACTTATAATAGTATGGAGGAGGAGGTGATGGAGACGGT
1 GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
* * *
44983135 GGTGGTGGAGATTTATAGTGGTATGGAGG
1 GGTGGTGGAGACTTGTAGTAGTATGGAGG
44983164 GTTCACTTCA
Statistics
Matches: 587, Mismatches: 110, Indels: 8
0.83 0.16 0.01
Matches are distributed among these distances:
47 3 0.01
48 581 0.99
49 3 0.01
ACGTcount: A:0.23, C:0.03, G:0.51, T:0.24
Consensus pattern (48 bp):
GGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGTGATGGAGATGGT
Found at i:44983235 original size:48 final size:48
Alignment explanation
Indices: 44983183--44983318 Score: 164
Period size: 48 Copynumber: 2.8 Consensus size: 48
44983173 ATGTTTCGGT
* * *
44983183 GGAGGTGGTGGTGACTTGTACTCATAAGGTGGTGGTGGAGAAGGTGAA
1 GGAGGTGGTGGTGACTTATACTCATAAGGTGGTGGAGGAGAAGGAGAA
* * * * * * *
44983231 GGAGGTGGTGGAGATTTATACACGTATGGTGGTGGGGGAGATGGAGAA
1 GGAGGTGGTGGTGACTTATACTCATAAGGTGGTGGAGGAGAAGGAGAA
* *
44983279 GGTGGTGGAGGTGACTTATACTCATAAGGTGGTGGAGGAG
1 GGAGGTGGTGGTGACTTATACTCATAAGGTGGTGGAGGAG
44983319 GTGAAGAGTA
Statistics
Matches: 71, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.24, C:0.06, G:0.46, T:0.24
Consensus pattern (48 bp):
GGAGGTGGTGGTGACTTATACTCATAAGGTGGTGGAGGAGAAGGAGAA
Found at i:44984387 original size:277 final size:278
Alignment explanation
Indices: 44983882--44984437 Score: 1105
Period size: 277 Copynumber: 2.0 Consensus size: 278
44983872 TAAATTATTA
44983882 TTTTAAATATAATTTTCTTTTATTTCACAATCTATTTAAAAGAATTGGTATGTAATATTTTCAAA
1 TTTTAAATATAATTTTCTTTTATTTCACAATCTATTTAAAAGAATTGGTATGTAATATTTTCAAA
44983947 TATTTATTATATTTTTATAAAACACTCATCCAATTTCTAACCCTACTTATAAAATCTGAAAACTA
66 TATTTATTATATTTTTATAAAACACTCATCCAATTTCTAACCCTACTTATAAAATCTGAAAACTA
44984012 CCTTAATAAAATAACAAATGACTTCTCTTAATATAATTATATAATCTTTTATTACTTCACATTAT
131 CCTTAATAAAATAACAAATGACTTCTCTTAATATAATTATATAATCTTTTATTACTTCACATTAT
44984077 GGAAAAATTCAACACTGCTTCTAAGAAGAAAGAAAACAAGAGAGAGGCTGCCGCTTTGCTGGAAA
196 GGAAAAATTCAACACTGCTTCTAAGAAGAAAGAAAACAAGAGAGAGGCTGCCGCTTTGCTGGAAA
44984142 AAGTATTTAAGTCTCTTC
261 AAGTATTTAAGTCTCTTC
44984160 TTTTAAATAT-ATTTTCTTTTATTTCACAATCTATTTAAAAGAATTGGTATGTAATATTTTCAAA
1 TTTTAAATATAATTTTCTTTTATTTCACAATCTATTTAAAAGAATTGGTATGTAATATTTTCAAA
44984224 TATTTATTATATTTTTATAAAACACTCATCCAATTTCTAACCCTACTTATAAAATCTGAAAACTA
66 TATTTATTATATTTTTATAAAACACTCATCCAATTTCTAACCCTACTTATAAAATCTGAAAACTA
44984289 CCTTAATAAAATAACAAATGACTTCTCTTAATATAATTATATAATCTTTTATTACTTCACATTAT
131 CCTTAATAAAATAACAAATGACTTCTCTTAATATAATTATATAATCTTTTATTACTTCACATTAT
44984354 GGAAAAATTCAACACTGCTTCTAAGAAGAAAGAAAACAAGAGAGAGGCTGCCGCTTTGCTGGAAA
196 GGAAAAATTCAACACTGCTTCTAAGAAGAAAGAAAACAAGAGAGAGGCTGCCGCTTTGCTGGAAA
44984419 AAGTATTTAAGTCTCTTC
261 AAGTATTTAAGTCTCTTC
44984437 T
1 T
44984438 AAAGTTTATT
Statistics
Matches: 278, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
277 268 0.96
278 10 0.04
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.38
Consensus pattern (278 bp):
TTTTAAATATAATTTTCTTTTATTTCACAATCTATTTAAAAGAATTGGTATGTAATATTTTCAAA
TATTTATTATATTTTTATAAAACACTCATCCAATTTCTAACCCTACTTATAAAATCTGAAAACTA
CCTTAATAAAATAACAAATGACTTCTCTTAATATAATTATATAATCTTTTATTACTTCACATTAT
GGAAAAATTCAACACTGCTTCTAAGAAGAAAGAAAACAAGAGAGAGGCTGCCGCTTTGCTGGAAA
AAGTATTTAAGTCTCTTC
Found at i:44993628 original size:20 final size:20
Alignment explanation
Indices: 44993605--44993663 Score: 57
Period size: 21 Copynumber: 3.0 Consensus size: 20
44993595 CGATTATAAT
*
44993605 TATTTAAATATATTATTTTC
1 TATTTAAATATATTATTTAC
* * *
44993625 TATTGTAATTATATTAATAAC
1 TATT-TAAATATATTATTTAC
*
44993646 TTTTTAAATATA-TATTTA
1 TATTTAAATATATTATTTA
44993664 TTTTATGAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
19 4 0.13
20 11 0.37
21 15 0.50
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (20 bp):
TATTTAAATATATTATTTAC
Found at i:45002464 original size:15 final size:16
Alignment explanation
Indices: 45002444--45002476 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45002434 GGTGATATAA
*
45002444 ACCTTC-ATTTTTCTT
1 ACCTTCAATTTTTATT
45002459 ACCTTCAATTTTTATT
1 ACCTTCAATTTTTATT
45002475 AC
1 AC
45002477 ATCTTGCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (16 bp):
ACCTTCAATTTTTATT
Found at i:45009381 original size:89 final size:90
Alignment explanation
Indices: 45009265--45009443 Score: 351
Period size: 89 Copynumber: 2.0 Consensus size: 90
45009255 AAAAATTAAT
45009265 TTATAATGTTAATTGAAAGCAAATTTGTTTCAAATTTATCCTACATATATTTTGTAAATATAATA
1 TTATAATGTTAATTGAAAGCAAATTTGTTTCAAATTTATCCTACATATATTTTGTAAATATAATA
45009330 ATGCATATATAAAGCTTGTTTTTGA
66 ATGCATATATAAAGCTTGTTTTTGA
45009355 TTATAATGTT-ATTGAAAGCAAATTTGTTTCAAATTTATCCTACATATATTTTGTAAATATAATA
1 TTATAATGTTAATTGAAAGCAAATTTGTTTCAAATTTATCCTACATATATTTTGTAAATATAATA
45009419 ATGCATATATAAAGCTTGTTTTTGA
66 ATGCATATATAAAGCTTGTTTTTGA
45009444 ATAAATTTTT
Statistics
Matches: 89, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
89 79 0.89
90 10 0.11
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (90 bp):
TTATAATGTTAATTGAAAGCAAATTTGTTTCAAATTTATCCTACATATATTTTGTAAATATAATA
ATGCATATATAAAGCTTGTTTTTGA
Found at i:45009880 original size:29 final size:29
Alignment explanation
Indices: 45009834--45009945 Score: 138
Period size: 29 Copynumber: 3.9 Consensus size: 29
45009824 AAAAAATAAA
45009834 AAATTACA-TTTAACCCCTAAACTTTTTG
1 AAATTACATTTTAACCCCTAAACTTTTTG
* * *
45009862 AAATTTCATTTTAACCCCTAAA-TTTCATA
1 AAATTACATTTTAACCCCTAAACTTT-TTG
* *
45009891 AAATTACATTTTGACCCATAAACTTTTTG
1 AAATTACATTTTAACCCCTAAACTTTTTG
* *
45009920 AAATTACGTTTTGACCCCTAAACTTT
1 AAATTACATTTTAACCCCTAAACTTT
45009946 CTCAGAATTT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
28 10 0.14
29 58 0.82
30 3 0.04
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (29 bp):
AAATTACATTTTAACCCCTAAACTTTTTG
Found at i:45009920 original size:58 final size:58
Alignment explanation
Indices: 45009833--45009946 Score: 167
Period size: 58 Copynumber: 2.0 Consensus size: 58
45009823 CAAAAAATAA
* *
45009833 AAAATTACATTTAACCCCTAAACTTTTTGAAATTTCATTTTAACCCCTAAA-TTTCAT
1 AAAATTACATTTAACCCATAAACTTTTTGAAATTACATTTTAACCCCTAAACTTTCAT
* * *
45009890 AAAATTACATTTTGACCCATAAACTTTTTGAAATTACGTTTTGACCCCTAAACTTTC
1 AAAATTACA-TTTAACCCATAAACTTTTTGAAATTACATTTTAACCCCTAAACTTTC
45009947 TCAGAATTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
57 9 0.18
58 37 0.74
59 4 0.08
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.39
Consensus pattern (58 bp):
AAAATTACATTTAACCCATAAACTTTTTGAAATTACATTTTAACCCCTAAACTTTCAT
Found at i:45010310 original size:13 final size:13
Alignment explanation
Indices: 45010288--45010374 Score: 64
Period size: 13 Copynumber: 7.0 Consensus size: 13
45010278 GAGGCCGAAC
45010288 GGAG-AAGAAGAA
1 GGAGAAAGAAGAA
45010300 GGAGAAAGAAGAA
1 GGAGAAAGAAGAA
*
45010313 -GAAAAAG-AGAA
1 GGAGAAAGAAGAA
*
45010324 --AGAAGGAAGGAA
1 GGAGAAAGAA-GAA
45010336 GGA-AGAAGAAGAA
1 GGAGA-AAGAAGAA
45010349 GGA-AGAAGAAGAA
1 GGAGA-AAGAAGAA
45010362 GGAAGAAA-AAGAA
1 GG-AGAAAGAAGAA
45010375 AAAAGAAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
10 4 0.06
11 5 0.08
12 13 0.21
13 32 0.51
14 8 0.13
15 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (13 bp):
GGAGAAAGAAGAA
Found at i:45010332 original size:4 final size:3
Alignment explanation
Indices: 45010290--45010374 Score: 73
Period size: 3 Copynumber: 26.3 Consensus size: 3
45010280 GGCCGAACGG
* *
45010290 AGA AGA AGA AGG AGAA AGA AGA AGA AAA AG- AGAA AGA AGGA AGGA AGGA
1 AGA AGA AGA AGA AG-A AGA AGA AGA AGA AGA AG-A AGA A-GA A-GA A-GA
*
45010339 AGA AGA AGA AGGA AGA AGA AGA AGGA AGA AAA AGA A
1 AGA AGA AGA A-GA AGA AGA AGA A-GA AGA AGA AGA A
45010375 AAAAGAAAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 12
0.80 0.07 0.14
Matches are distributed among these distances:
2 2 0.03
3 47 0.67
4 21 0.30
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:45010515 original size:27 final size:27
Alignment explanation
Indices: 45010479--45010535 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
45010469 CCAGCAGCCC
*
45010479 AAAGAAAAAAAAACAAA-AAAAAGGGCA
1 AAAGAAAAAAAAA-AAAGAAAAAGGCCA
* *
45010506 AAAGCAAAAAAAAAAAGAAACAGGCCA
1 AAAGAAAAAAAAAAAAGAAAAAGGCCA
45010533 AAA
1 AAA
45010536 ACAGCCCAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 3 0.12
27 23 0.88
ACGTcount: A:0.75, C:0.11, G:0.14, T:0.00
Consensus pattern (27 bp):
AAAGAAAAAAAAAAAAGAAAAAGGCCA
Found at i:45010609 original size:15 final size:15
Alignment explanation
Indices: 45010589--45010635 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
45010579 GGCCTATCAG
45010589 GCCAGCCAGCCCAAC
1 GCCAGCCAGCCCAAC
*
45010604 GCCAG-CAG--C-AG
1 GCCAGCCAGCCCAAC
45010615 GCCAGCCAGCCCAAC
1 GCCAGCCAGCCCAAC
45010630 GCCAGC
1 GCCAGC
45010636 AGCAGGCCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
11 6 0.23
12 4 0.15
14 4 0.15
15 12 0.46
ACGTcount: A:0.26, C:0.49, G:0.26, T:0.00
Consensus pattern (15 bp):
GCCAGCCAGCCCAAC
Found at i:45010615 original size:26 final size:26
Alignment explanation
Indices: 45010586--45010643 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
45010576 GCAGGCCTAT
45010586 CAGGCCAGCCAGCCCAACGCCAGCAG
1 CAGGCCAGCCAGCCCAACGCCAGCAG
45010612 CAGGCCAGCCAGCCCAACGCCAGCAG
1 CAGGCCAGCCAGCCCAACGCCAGCAG
45010638 CAGGCC
1 CAGGCC
45010644 CAAAAGGCAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.26, C:0.47, G:0.28, T:0.00
Consensus pattern (26 bp):
CAGGCCAGCCAGCCCAACGCCAGCAG
Found at i:45010664 original size:16 final size:16
Alignment explanation
Indices: 45010634--45010664 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45010624 CCCAACGCCA
*
45010634 GCAGCAGGCCCAAAAG
1 GCAGCAGGCCAAAAAG
45010650 GCAGCAGGCCAAAAA
1 GCAGCAGGCCAAAAA
45010665 AAAGAAGAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.29, G:0.29, T:0.00
Consensus pattern (16 bp):
GCAGCAGGCCAAAAAG
Found at i:45010679 original size:12 final size:12
Alignment explanation
Indices: 45010662--45010701 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
45010652 AGCAGGCCAA
45010662 AAAAAAGAAGAG
1 AAAAAAGAAGAG
45010674 AAAAAAG-AGA-
1 AAAAAAGAAGAG
*
45010684 AAAAAAAAAG-G
1 AAAAAAGAAGAG
45010695 AAAAAAG
1 AAAAAAG
45010702 GGTTCAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
10 6 0.25
11 11 0.46
12 7 0.29
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAGAG
Found at i:45010688 original size:21 final size:21
Alignment explanation
Indices: 45010660--45010701 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 21
45010650 GCAGCAGGCC
45010660 AAAAAAAAGAAGAGAAAAAAGAG
1 AAAAAAAA-AAG-GAAAAAAGAG
45010683 AAAAAAAAAAGGAAAAAAG
1 AAAAAAAAAAGGAAAAAAG
45010702 GGTTCAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
22 3 0.16
23 8 0.42
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAGGAAAAAAGAG
Found at i:45010878 original size:22 final size:23
Alignment explanation
Indices: 45010848--45010893 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
45010838 ATATTTTTGT
45010848 ATTTATATTTTTAATTT-AATTTA
1 ATTTATA-TTTTAATTTGAATTTA
*
45010871 ATTT-TATTTTATTTTGAATTTA
1 ATTTATATTTTAATTTGAATTTA
45010893 A
1 A
45010894 ATAATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 8 0.38
22 9 0.43
23 4 0.19
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
ATTTATATTTTAATTTGAATTTA
Found at i:45011057 original size:16 final size:16
Alignment explanation
Indices: 45011025--45011059 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
45011015 GAAAATATTC
*
45011025 TAAAATTCTCATTTTT
1 TAAAATTCTCATGTTT
*
45011041 TAAAATTCTCGTGTTT
1 TAAAATTCTCATGTTT
45011057 TAA
1 TAA
45011060 TAGAATCATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.51
Consensus pattern (16 bp):
TAAAATTCTCATGTTT
Found at i:45011201 original size:18 final size:18
Alignment explanation
Indices: 45011175--45011310 Score: 116
Period size: 18 Copynumber: 7.4 Consensus size: 18
45011165 TTAAAAAAAA
45011175 TCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
*
45011192 TCGTGTTTTCAAAAAAAATT
1 TCGTGTTTTC--AAAAATTT
* *
45011212 TCTTGTGTTTCAAAAACTT
1 TCGTGT-TTTCAAAAATTT
* * *
45011231 CCGTGTTTTAAAAAAAATT
1 TCGTGTTTT-CAAAAATTT
*
45011250 TCGTGTTTTCAAAAATTC
1 TCGTGTTTTCAAAAATTT
* *
45011268 TCATG-TTTCAAAAATCT
1 TCGTGTTTTCAAAAATTT
*
45011285 TCGTGTCTTC-AAAATTT
1 TCGTGTTTTCAAAAATTT
45011302 CTCGTGTTT
1 -TCGTGTTT
45011311 GAAAATAATA
Statistics
Matches: 94, Mismatches: 18, Indels: 13
0.75 0.14 0.10
Matches are distributed among these distances:
17 25 0.27
18 27 0.29
19 26 0.28
20 12 0.13
21 4 0.04
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTT
Found at i:45011224 original size:39 final size:39
Alignment explanation
Indices: 45011177--45011281 Score: 144
Period size: 39 Copynumber: 2.8 Consensus size: 39
45011167 AAAAAAAATC
*
45011177 GTGTTTCAAAAATTTTCGTGTTTTCAAAAAAAATTTCTT
1 GTGTTTCAAAAATTTTCGTGTTTTCAAAAAAAATTTCGT
* *
45011216 GTGTTTCAAAAACTTCCGTGTTTT-AAAAAAAATTTCGT
1 GTGTTTCAAAAATTTTCGTGTTTTCAAAAAAAATTTCGT
* *
45011254 GT-TTTCAAAAATTCTCATG-TTTCAAAAA
1 GTGTTTCAAAAATTTTCGTGTTTTCAAAAA
45011282 TCTTCGTGTC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
36 3 0.05
37 18 0.31
38 15 0.26
39 22 0.38
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (39 bp):
GTGTTTCAAAAATTTTCGTGTTTTCAAAAAAAATTTCGT
Found at i:45011327 original size:28 final size:28
Alignment explanation
Indices: 45011295--45011348 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
45011285 TCGTGTCTTC
* * *
45011295 AAAATTTCTCGTGTTTGAAAATAATAAT
1 AAAATTTCCCGTGTTTCAAAAAAATAAT
45011323 AAAATTTCCCGTGTTTCAAAAAAATA
1 AAAATTTCCCGTGTTTCAAAAAAATA
45011349 TATTCCTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.35
Consensus pattern (28 bp):
AAAATTTCCCGTGTTTCAAAAAAATAAT
Found at i:45011421 original size:36 final size:35
Alignment explanation
Indices: 45011375--45011511 Score: 131
Period size: 37 Copynumber: 3.8 Consensus size: 35
45011365 TTAAAAAGTT
*
45011375 TTTCAAAAATTTTCGT-TTTTAAAAAAATTGACCGTG
1 TTTCATAAATTTTCGTATTTTAAAAAAATT--CCGTG
*
45011411 TTTCATAAATTTTCGTATTTCAAAAAAA-TCTCGTG
1 TTTCATAAATTTTCGTATTTTAAAAAAATTC-CGTG
*
45011446 TTTCA-AAATTTTCGGGTTTTTTTAAAAACAATT-CGTG
1 TTTCATAAATTTTC--G-TATTTTAAAAA-AATTCCGTG
*
45011483 TTTC-TAAAATTCTCGTATTTTAAAAAAAT
1 TTTCAT-AAATTTTCGTATTTTAAAAAAAT
45011512 CATGTTTTCA
Statistics
Matches: 86, Mismatches: 6, Indels: 20
0.77 0.05 0.18
Matches are distributed among these distances:
34 12 0.14
35 19 0.22
36 18 0.21
37 27 0.31
38 9 0.10
39 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (35 bp):
TTTCATAAATTTTCGTATTTTAAAAAAATTCCGTG
Found at i:45011483 original size:72 final size:71
Alignment explanation
Indices: 45011390--45011524 Score: 177
Period size: 72 Copynumber: 1.9 Consensus size: 71
45011380 AAAATTTTCG
*
45011390 TTTTTAAAAAAATTGACCGTGTTTC-ATAAATTTTCGTATTTCAAAAAAATC-TCGTGTTTCAAA
1 TTTTTAAAAAAATT-A-CGTGTTTCTA-AAATTCTCGTATTTCAAAAAAATCAT-GT-TTTCAAA
45011453 ATTTTCGGGTT
61 ATTTTCGGGTT
*
45011464 TTTTTAAAAACAATT-CGTGTTTCTAAAATTCTCGTATTTTAAAAAAATCATGTTTTCAAAA
1 TTTTTAAAAA-AATTACGTGTTTCTAAAATTCTCGTATTTCAAAAAAATCATGTTTTCAAAA
45011525 AAAGAAAAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
71 8 0.14
72 32 0.57
73 2 0.04
74 10 0.18
75 4 0.07
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.43
Consensus pattern (71 bp):
TTTTTAAAAAAATTACGTGTTTCTAAAATTCTCGTATTTCAAAAAAATCATGTTTTCAAAATTTT
CGGGTT
Found at i:45016053 original size:10 final size:9
Alignment explanation
Indices: 45016015--45016056 Score: 52
Period size: 8 Copynumber: 4.8 Consensus size: 9
45016005 AGGCTAGGAT
*
45016015 AAAGTAAAA
1 AAAGAAAAA
45016024 AAA-AAAAA
1 AAAGAAAAA
45016032 AAA-AAAAA
1 AAAGAAAAA
45016040 AAAGAAAAA
1 AAAGAAAAA
45016049 GAAAGAAA
1 -AAAGAAA
45016057 GAAGAAGAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 15 0.50
9 8 0.27
10 7 0.23
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.02
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:45016057 original size:14 final size:12
Alignment explanation
Indices: 45016015--45016059 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 12
45016005 AGGCTAGGAT
45016015 AAAGTAAAAAAAA
1 AAAG-AAAAAAAA
*
45016028 AAAAAAAAAAAA
1 AAAGAAAAAAAA
45016040 AAAGAAAAAGAAA
1 AAAGAAAAA-AAA
45016053 GAAAGAA
1 -AAAGAA
45016060 GAAGAAGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 16 0.57
13 6 0.21
14 6 0.21
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.02
Consensus pattern (12 bp):
AAAGAAAAAAAA
Found at i:45016061 original size:17 final size:17
Alignment explanation
Indices: 45016020--45016062 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
45016010 AGGATAAAGT
45016020 AAAAAAA-AAAAAAAAA
1 AAAAAAAGAAAAAAAAA
*
45016036 AAAAAAAGAAAAAGAAA
1 AAAAAAAGAAAAAAAAA
* *
45016053 GAAAGAAGAA
1 AAAAAAAGAA
45016063 GAAGCAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAAAAAAAA
Found at i:45018596 original size:218 final size:218
Alignment explanation
Indices: 45018216--45018657 Score: 805
Period size: 218 Copynumber: 2.0 Consensus size: 218
45018206 TACTAGTGCA
* *
45018216 TTTCTTTTGGAGTTTTGAGGAAAAATCATTTACTAAATATATCAACAAAACTACTCATACTACAG
1 TTTCTTTTGGAGTTTCGAGGAAAAATCATTTACCAAATATATCAACAAAACTACTCATACTACAG
45018281 TGTTTTTATGTCAACTACAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
66 TGTTTTTATGTCAACTACAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
*
45018346 GCCATCTTTGGCTTACTGTCTATATATTGCAGTTGGAGATTCCAAAACAGTTACTTGATCCAAAT
131 GCCATCTTTGGCTTACTGTCTATATATTGCAGTTGGAGATTCCAAAACAATTACTTGATCCAAAT
*
45018411 TTGTTCAATGCTTGGATGATGCT
196 TTGTTCAATGCTTGGATGATGCC
* *
45018434 TTTCTTTTGGAGTTTCGAGGAAAAATCATTTACCAAATATATCGACAAAATTACTCATACTACAG
1 TTTCTTTTGGAGTTTCGAGGAAAAATCATTTACCAAATATATCAACAAAACTACTCATACTACAG
*
45018499 TGTTTTTATGTCAACTGCAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
66 TGTTTTTATGTCAACTACAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
45018564 GCCATCTTTGGCTTACTGTCTATACT-TTGCAGTTGGAGATTCCAAAACAATTACTTGATCCAAA
131 GCCATCTTTGGCTTACTGTCTATA-TATTGCAGTTGGAGATTCCAAAACAATTACTTGATCCAAA
45018628 TTTGTTCAATGCTTGGATGATGCC
195 TTTGTTCAATGCTTGGATGATGCC
45018652 TTTCTT
1 TTTCTT
45018658 AAATGTTTTG
Statistics
Matches: 216, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
218 215 1.00
219 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.40
Consensus pattern (218 bp):
TTTCTTTTGGAGTTTCGAGGAAAAATCATTTACCAAATATATCAACAAAACTACTCATACTACAG
TGTTTTTATGTCAACTACAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
GCCATCTTTGGCTTACTGTCTATATATTGCAGTTGGAGATTCCAAAACAATTACTTGATCCAAAT
TTGTTCAATGCTTGGATGATGCC
Found at i:45039119 original size:31 final size:31
Alignment explanation
Indices: 45039039--45039119 Score: 76
Period size: 31 Copynumber: 2.6 Consensus size: 31
45039029 TTTGATACAT
* *
45039039 AAACTTTAA-TTTGATGTAATTATATATATG
1 AAACTTTAATTTTGATTTAAATATATATATG
* * * * *
45039069 AAATTTTGATTGTGGTTTAAATGTATACT-TG
1 AAACTTTAATTTTGATTTAAATATATA-TATG
45039100 AAACTTTAATTTTGATTTAA
1 AAACTTTAATTTTGATTTAA
45039120 TCATACACAT
Statistics
Matches: 38, Mismatches: 11, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
30 7 0.18
31 30 0.79
32 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (31 bp):
AAACTTTAATTTTGATTTAAATATATATATG
Found at i:45040321 original size:22 final size:21
Alignment explanation
Indices: 45040286--45040336 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
45040276 AAAATGGTAA
*
45040286 AATTAAA-AAATAT-TTTTAT
1 AATTAAATTAATATATTTTAT
45040305 -ATTAATATTAATATATTTTAT
1 AATTAA-ATTAATATATTTTAT
45040326 AATTAAATTAA
1 AATTAAATTAA
45040337 ATAAATAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 5 0.19
19 1 0.04
20 5 0.19
21 11 0.41
22 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATTAAATTAATATATTTTAT
Found at i:45041144 original size:15 final size:16
Alignment explanation
Indices: 45041114--45041149 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
45041104 TTAGTGTTAT
*
45041114 ATATATATATTTTTTA
1 ATATAAATATTTTTTA
45041130 ATATAAATA-TTTTTA
1 ATATAAATATTTTTTA
45041145 ATATA
1 ATATA
45041150 TTTTTAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATATAAATATTTTTTA
Found at i:45055210 original size:19 final size:18
Alignment explanation
Indices: 45055186--45055222 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
45055176 AGACATATGT
45055186 TTTTTAGTATTTTTATATA
1 TTTTTAGT-TTTTTATATA
*
45055205 TTTTTAGTTTTTTTTATA
1 TTTTTAGTTTTTTATATA
45055223 ACAAATCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (18 bp):
TTTTTAGTTTTTTATATA
Found at i:45057201 original size:12 final size:12
Alignment explanation
Indices: 45057184--45057209 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45057174 TTAATTTAAA
45057184 ATTAAAATAATT
1 ATTAAAATAATT
45057196 ATTAAAATAATT
1 ATTAAAATAATT
45057208 AT
1 AT
45057210 GTGTTTGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATTAAAATAATT
Found at i:45062307 original size:15 final size:15
Alignment explanation
Indices: 45062287--45062317 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
45062277 TAAAATTATG
45062287 TACTTAAATTTTCAA
1 TACTTAAATTTTCAA
*
45062302 TACTTAATTTTTCAA
1 TACTTAAATTTTCAA
45062317 T
1 T
45062318 TTATCAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (15 bp):
TACTTAAATTTTCAA
Found at i:45062382 original size:12 final size:13
Alignment explanation
Indices: 45062355--45062387 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
45062345 GTTTAAACTA
*
45062355 ATAATTGTAGATT
1 ATAATTATAGATT
45062368 ATAATTATA-ATT
1 ATAATTATAGATT
45062380 ATAATTAT
1 ATAATTAT
45062388 CACAACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (13 bp):
ATAATTATAGATT
Found at i:45065416 original size:22 final size:22
Alignment explanation
Indices: 45065371--45065412 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
45065361 ATGTGTTTCT
*
45065371 AAAAAGTTTGATTTATCTAATAA
1 AAAAAGTTTGATTTA-CAAATAA
45065394 AAAAAGTTTGATTTA-AAAT
1 AAAAAGTTTGATTTACAAAT
45065413 TAAATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
23 15 0.83
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (22 bp):
AAAAAGTTTGATTTACAAATAA
Found at i:45071762 original size:41 final size:41
Alignment explanation
Indices: 45071697--45071777 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
45071687 ATTATTATAT
* *
45071697 TTTTGAGAAATCTTGCATAATTTAATATTATAATTGATTTG
1 TTTTGAGAAATCTTACATAATTTAATACTATAATTGATTTG
* * *
45071738 TTTTGA-AATATCTTACATATTTTAATGCTGTAATTGATTT
1 TTTTGAGAA-ATCTTACATAATTTAATACTATAATTGATTT
45071778 ATTAAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 2 0.06
41 32 0.94
ACGTcount: A:0.32, C:0.06, G:0.11, T:0.51
Consensus pattern (41 bp):
TTTTGAGAAATCTTACATAATTTAATACTATAATTGATTTG
Found at i:45083681 original size:8 final size:8
Alignment explanation
Indices: 45083670--45083698 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
45083660 TTGCTCCTTA
45083670 TAAATTAT
1 TAAATTAT
45083678 TAAATTAT
1 TAAATTAT
45083686 TAAATTA-
1 TAAATTAT
45083693 TAAATT
1 TAAATT
45083699 TCCATATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
TAAATTAT
Found at i:45092270 original size:58 final size:58
Alignment explanation
Indices: 45092143--45092331 Score: 281
Period size: 58 Copynumber: 3.3 Consensus size: 58
45092133 AACTACACTA
* * *
45092143 GTTTCCAGTTAAAACATTGTCTCATAGTGATCTCTGCCA-CACATCTTTATAGAAACG
1 GTTTCAAGTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATCTTTATAGAAACG
** * *
45092200 GTTTTGAGTTAAATCATAGTCTCATAGTGATCTCCGCCACCACATCTTTATCGAAACG
1 GTTTCAAGTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATCTTTATAGAAACG
* * *
45092258 GTTTCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCTTTATTGAAACG
1 GTTTCAAGTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATCTTTATAGAAACG
45092316 GTTTCAAGTTAAAACA
1 GTTTCAAGTTAAAACA
45092332 CATCTTTTTC
Statistics
Matches: 118, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
57 34 0.29
58 84 0.71
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (58 bp):
GTTTCAAGTTAAAACATAGTCTCATAGTGATCTCCGCCACCACATCTTTATAGAAACG
Found at i:45092346 original size:32 final size:32
Alignment explanation
Indices: 45092298--45092363 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
45092288 TCTCCGCCAC
45092298 CACATCTTTATTGAAACGGTTTCAAGTTAAAA
1 CACATCTTTATTGAAACGGTTTCAAGTTAAAA
*
45092330 CACATCTTT-TTCGAAACGGTTTCAATTTAAAA
1 CACATCTTTATT-GAAACGGTTTCAAGTTAAAA
45092362 CA
1 CA
45092364 TACTCATAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 2 0.06
32 30 0.94
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (32 bp):
CACATCTTTATTGAAACGGTTTCAAGTTAAAA
Found at i:45092389 original size:146 final size:147
Alignment explanation
Indices: 45092181--45092477 Score: 443
Period size: 146 Copynumber: 2.0 Consensus size: 147
45092171 GATCTCTGCC
** *
45092181 ACACATCTTTATAGAAACGGTTTTGAGTTAAATCATAGTCTCATAGTGATCTCCGCCACCACATC
1 ACACATCTTTATAGAAACGGTTTCAAGTTAAAACATAG-CTCATAGTGATCTCCGCCACCACATC
* * * **
45092246 TTTATCGAAACGGTTTCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCTTTATTG
65 TTTATCAAAACGGTTTCAAGTTAAAACATAATCTCATAGTGATATCCGCCACCACATCTTTAGCG
45092311 AAACGGTTTCAAGTTAAA
130 AAACGGTTTCAAGTTAAA
* * *
45092329 ACACATCTTTTTCGAAACGGTTTCAATTTAAAACATA-CTCATAGTGATCTCCGCCACCACATCT
1 ACACATCTTTATAGAAACGGTTTCAAGTTAAAACATAGCTCATAGTGATCTCCGCCACCACATCT
* **
45092393 TTATCAAAATGGTTTCAAGTTAAAACATGGTCTCATAGTGATATCCGCCACCACATCTTTAGCGA
66 TTATCAAAACGGTTTCAAGTTAAAACATAATCTCATAGTGATATCCGCCACCACATCTTTAGCGA
*
45092458 AACGGTTTCAATTTAAA
131 AACGGTTTCAAGTTAAA
45092475 ACA
1 ACA
45092478 TACTCATAGT
Statistics
Matches: 134, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
146 103 0.77
148 31 0.23
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (147 bp):
ACACATCTTTATAGAAACGGTTTCAAGTTAAAACATAGCTCATAGTGATCTCCGCCACCACATCT
TTATCAAAACGGTTTCAAGTTAAAACATAATCTCATAGTGATATCCGCCACCACATCTTTAGCGA
AACGGTTTCAAGTTAAA
Found at i:45092407 original size:88 final size:90
Alignment explanation
Indices: 45092240--45092419 Score: 310
Period size: 88 Copynumber: 2.0 Consensus size: 90
45092230 TCTCCGCCAC
45092240 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCT
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCT
**
45092305 TTATTGAAACGGTTTCAAGTTAAAA
66 TTATCAAAACGGTTTCAAGTTAAAA
*
45092330 CACATCTTTTTCGAAACGGTTTCAATTTAAAACAT-A-CTCATAGTGATCTCCGCCACCACATCT
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCT
*
45092393 TTATCAAAATGGTTTCAAGTTAAAA
66 TTATCAAAACGGTTTCAAGTTAAAA
45092418 CA
1 CA
45092420 TGGTCTCATA
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
88 51 0.59
89 1 0.01
90 34 0.40
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (90 bp):
CACATCTTTATCGAAACGGTTTCAATTTAAAACATAATCTCATAGTGATCTCCGCCACCACATCT
TTATCAAAACGGTTTCAAGTTAAAA
Found at i:45092450 original size:58 final size:58
Alignment explanation
Indices: 45092330--45092812 Score: 569
Period size: 58 Copynumber: 8.4 Consensus size: 58
45092320 CAAGTTAAAA
*
45092330 CACATCTTTTTCGAAACGGTTTCAATTTAAAACATA--CTCATAGTGATCTCCGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
* * * * *
45092386 CACATCTTTATCAAAATGGTTTCAAGTTAAAACATGGTCTCATAGTGATATCCGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
*
45092444 CACATCTTTAGCGAAACGGTTTCAATTTAAAACATA--CTCATAGTGATCTCCGGCTCCGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGA--T----CTCCGCCAC
* ** * * * ** *
45092506 CGCATCTTTAAAGAAACGGTTCCAAGTTAAAACAT-GGCTTCA-A-T--T-T---AAAA
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTC-TCATAGTGATCTCCGCCAC
*
45092556 CAAATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
*
45092614 CACATCTTTATCGAAACAGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
*
45092672 CACATCTTTATCGAAACAGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
* * * * * *
45092730 CATATCTTTATCAAAACGGTTTCAGTTTAAAATATAGTCTCATTGTGATCTCTGCCAC
1 CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
* *
45092788 CACATCTTTATCAAAATGGTTTCAA
1 CACATCTTTATCGAAACGGTTTCAA
45092813 CCAGACGACA
Statistics
Matches: 365, Mismatches: 42, Indels: 38
0.82 0.09 0.09
Matches are distributed among these distances:
50 33 0.09
51 3 0.01
52 1 0.00
53 1 0.00
54 1 0.00
55 1 0.00
56 41 0.11
58 240 0.66
62 39 0.11
63 2 0.01
64 3 0.01
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (58 bp):
CACATCTTTATCGAAACGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
Found at i:45099935 original size:32 final size:31
Alignment explanation
Indices: 45099899--45100007 Score: 96
Period size: 32 Copynumber: 3.4 Consensus size: 31
45099889 TAGAGGAATA
45099899 TTGTTATCATTTAACAAAATGCTAGTTGATAT
1 TTGTTATCATTTAACAAAATG-TAGTTGATAT
*
45099931 TTGTTATCATTTTACAAAAT-TAACGTTG-TAAT
1 TTGTTATCATTTAACAAAATGT-A-GTTGAT-AT
* * * * *
45099963 TTGTTATAATTTCACAAAATGAAAAGCTAATAT
1 TTGTTATCATTTAACAAAATG--TAGTTGATAT
45099996 TTGTTATCATTT
1 TTGTTATCATTT
45100008 CACAGAACCG
Statistics
Matches: 63, Mismatches: 7, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
30 1 0.02
31 2 0.03
32 43 0.68
33 15 0.24
34 2 0.03
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (31 bp):
TTGTTATCATTTAACAAAATGTAGTTGATAT
Found at i:45113236 original size:19 final size:19
Alignment explanation
Indices: 45113212--45113252 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
45113202 ATCATATTGC
45113212 ATCTAGTTGGTGTGGAACT
1 ATCTAGTTGGTGTGGAACT
*
45113231 ATCTAGTTGGTGTGGAGCT
1 ATCTAGTTGGTGTGGAACT
45113250 ATC
1 ATC
45113253 CTTGAGATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.12, G:0.32, T:0.37
Consensus pattern (19 bp):
ATCTAGTTGGTGTGGAACT
Found at i:45130333 original size:24 final size:24
Alignment explanation
Indices: 45130301--45130347 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
45130291 ATGAGACACT
*
45130301 GACCTTTTCATTGCTATCCTTTTC
1 GACCTTTTCATTGATATCCTTTTC
*
45130325 GACCTTTTCATTGATATCTTTTT
1 GACCTTTTCATTGATATCCTTTT
45130348 TAGATAAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.15, C:0.23, G:0.09, T:0.53
Consensus pattern (24 bp):
GACCTTTTCATTGATATCCTTTTC
Found at i:45130395 original size:41 final size:39
Alignment explanation
Indices: 45130316--45130497 Score: 168
Period size: 41 Copynumber: 4.5 Consensus size: 39
45130306 TTTCATTGCT
* * **
45130316 ATCCTTTTCGACCTTTTCA-TTGATATCTTTTTTAGATA
1 ATCCTTTTCAACCTTTTCATTTGATATCCTTTTCGGATA
*
45130354 AGGTCATTTTCAACCTTTTCATTTGATATCCTTTTCGGATAA
1 A--TCCTTTTCAACCTTTTCATTTGATATCCTTTTCGGAT-A
* * *
45130396 CACCCTTTTCAACCTTTTCATTTAATATCCCTTTTCGAATA
1 -ATCCTTTTCAACCTTTTCATTTGATAT-CCTTTTCGGATA
* * * * *
45130437 TATCCTTTTCAACATTTTCATGTGTTATCCCTTTCGGGTA
1 -ATCCTTTTCAACCTTTTCATTTGATATCCTTTTCGGATA
45130477 ACTCTCTTTTCAACCTTTTCA
1 A-TC-CTTTTCAACCTTTTCA
45130498 AGGATTCGGG
Statistics
Matches: 117, Mismatches: 19, Indels: 13
0.79 0.13 0.09
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 27 0.23
41 76 0.65
42 11 0.09
43 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.08, T:0.47
Consensus pattern (39 bp):
ATCCTTTTCAACCTTTTCATTTGATATCCTTTTCGGATA
Found at i:45143974 original size:681 final size:675
Alignment explanation
Indices: 45142511--45143746 Score: 2058
Period size: 681 Copynumber: 1.8 Consensus size: 675
45142501 TCAAGCGACG
* * ** * * *
45142511 ATTCGGCGATCAATATACATTGATCAATACCCATCAACGAGTAGAAGAACATATTTTAGATCCAA
1 ATTCGGCGACCAATAGACACGGACCAATACCCA-CAACCAGTAGAACAACATATTTTAGATCCAA
* *
45142576 GTTGATCTGATGGTCAATGTTGAAGATTGGAGAAAAAAATTGTTTAAATTTTGGTTTGTAGATTC
65 GTTGAACT-AT-GTCAATGTTGAAGATAGGAGAAAAAAATTGTTTAAATTTTGGTTTGTAGATTC
45142641 ATTACGTCTAAAGCTGTTTCATGAAAAAAATTAAAATTGAACTGTAGAAGAGAAGGGGAAAAAGA
128 ATTACGTCTAAAGCTGTTTCATGAAAAAAATTAAAATTGAACTGTAGAAGAGAAGGGGAAAAAGA
45142706 GCTTTCAACCGGTGCAAAGTGCAAACAGTGTGAATAGAGAAAATCATACAATATTGATTTTAAAA
193 GCTTTCAACCGGTGCAAAGTGCAAACAGTGTGAATAGAGAAAATCATACAATATTGATTTTAAAA
45142771 AGTCTAGTGACTTAAATGAATACTTTCGAATAGTTCAACGACCAAATTGTAATTTTTTTAGTTAA
258 AGTCTAGTGACTTAAATGAATACTTTCGAATAGTTCAACGACCAAATTGTAATTTTTTTAGTTAA
45142836 GTGACCAAAACGAAAACTTACCCATAATTTAATGACTAATGGTGTAGTTTACCCATTTTTTTAAT
323 GTGACCAAAACGAAAACTTACCCATAATTTAATGACTAATGGTGTAGTTTACCCATTTTTTTAAT
45142901 TATAATTTTTTGGATAAATTATTAAATTATTAATAAATTTACATTTTGGTCACTTACTTTAAAGT
388 TATAATTTTTTGGATAAATTATTAAATTATTAATAAATTTACATTTTGGTCACTTACTTTAAAGT
45142966 AGAGGTGATCATGGGCTGGATTCGGGCTGGGCACAGACAAAATTTTAGGCTCGTTTTCTAGGCCT
453 AGAGGTGATCATGGGCTGGATTCGGGCTGGGCACAGACAAAATTTTAGGCTCGTTTTCTAGGCCT
*** ** *
45143031 GGGCCTAGCCCGGCCCAAAATATGGGCCTAAAAATATATATTTGATTAAAAATAAAAAATATAAA
518 GGGCCTAGCCCGGCCCAAAATATGGGCCTAAAAATATATATCCAAGCAAAAAT-AAAAATAGAAA
** * * * * *** * * *
45143096 ATATATAATTCGGGCCTGGCCCGGGCCAAAAAAGTTTTACTCGAGCCCAGCTCGTTTTCTAAACG
582 ATATATAAGCCGGGCCTGGCCCGGCCCAAAAAAATTTTAATAGAGAAAAGATCATTTTCTAAAAG
*
45143161 GGCCTCGTTTTTTTGCTCAAACCCATATT
647 GGCCTCATTTTTTTGCTCAAACCCATATT
* * ** * * *
45143190 CGATTCGGCGATCAATATACATTGATCAATACCCATCAACGAGTAGAAGAACATATTTTAGATCC
1 --ATTCGGCGACCAATAGACACGGACCAATACCCA-CAACCAGTAGAACAACATATTTTAGATCC
* *
45143255 AAGTTGATCTGATGGTCAATGTTGAAGATTGGAGAAAAAAATTGTTTAAATTTTGGTTTGTAGAT
63 AAGTTGAACT-AT-GTCAATGTTGAAGATAGGAGAAAAAAATTGTTTAAATTTTGGTTTGTAGAT
45143320 TCATTACGTCTAAAGCTGTTTCATGAAAAAAATTAAAATTGAACTGTAGAAGAGAAGGGGAAAAA
126 TCATTACGTCTAAAGCTGTTTCATGAAAAAAATTAAAATTGAACTGTAGAAGAGAAGGGGAAAAA
45143385 GAGCTTTCAACCGGTGCAAAGTGCAAACAGTGTGAATAGAGAAAATCATACAATATTGATTTTAA
191 GAGCTTTCAACCGGTGCAAAGTGCAAACAGTGTGAATAGAGAAAATCATACAATATTGATTTTAA
45143450 AAAGTCTAGTGACTTAAATGAATACTTTCGAATAGTTCAACGACCAAATTGTAATTTTTTTAGTT
256 AAAGTCTAGTGACTTAAATGAATACTTTCGAATAGTTCAACGACCAAATTGTAATTTTTTTAGTT
45143515 AAGTGACCAAAACGAAAACTTACCCATAATTTAATGACTAATGGTGTAGTTTACCCATTTTTTTA
321 AAGTGACCAAAACGAAAACTTACCCATAATTTAATGACTAATGGTGTAGTTTACCCATTTTTTTA
45143580 ATTATAATTTTTTGGATAAATTATTAAATTATTAATAAATTTACATTTTGGTCACTTACTTTAAA
386 ATTATAATTTTTTGGATAAATTATTAAATTATTAATAAATTTACATTTTGGTCACTTACTTTAAA
45143645 GTAGAGGTGATCATGGGCTGGATTCGGGCTGGGCACAGACAAAATTTTAGGCTCGTTTTCTAGGC
451 GTAGAGGTGATCATGGGCTGGATTCGGGCTGGGCACAGACAAAATTTTAGGCTCGTTTTCTAGGC
45143710 CTGGGCCTAGCCCGGCCCAAAATATGGGCCTAAAAAT
516 CTGGGCCTAGCCCGGCCCAAAATATGGGCCTAAAAAT
45143747 TTGTCCAAGC
Statistics
Matches: 555, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
681 555 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (675 bp):
ATTCGGCGACCAATAGACACGGACCAATACCCACAACCAGTAGAACAACATATTTTAGATCCAAG
TTGAACTATGTCAATGTTGAAGATAGGAGAAAAAAATTGTTTAAATTTTGGTTTGTAGATTCATT
ACGTCTAAAGCTGTTTCATGAAAAAAATTAAAATTGAACTGTAGAAGAGAAGGGGAAAAAGAGCT
TTCAACCGGTGCAAAGTGCAAACAGTGTGAATAGAGAAAATCATACAATATTGATTTTAAAAAGT
CTAGTGACTTAAATGAATACTTTCGAATAGTTCAACGACCAAATTGTAATTTTTTTAGTTAAGTG
ACCAAAACGAAAACTTACCCATAATTTAATGACTAATGGTGTAGTTTACCCATTTTTTTAATTAT
AATTTTTTGGATAAATTATTAAATTATTAATAAATTTACATTTTGGTCACTTACTTTAAAGTAGA
GGTGATCATGGGCTGGATTCGGGCTGGGCACAGACAAAATTTTAGGCTCGTTTTCTAGGCCTGGG
CCTAGCCCGGCCCAAAATATGGGCCTAAAAATATATATCCAAGCAAAAATAAAAATAGAAAATAT
ATAAGCCGGGCCTGGCCCGGCCCAAAAAAATTTTAATAGAGAAAAGATCATTTTCTAAAAGGGCC
TCATTTTTTTGCTCAAACCCATATT
Found at i:45145185 original size:11 final size:11
Alignment explanation
Indices: 45145171--45145213 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
45145161 TACAATATCT
*
45145171 AAATAACAACA
1 AAATAATAACA
*
45145182 AAATAATAACG
1 AAATAATAACA
*
45145193 ATATAATAACA
1 AAATAATAACA
*
45145204 AAATCATAAC
1 AAATAATAAC
45145214 CACAAAACAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.65, C:0.14, G:0.02, T:0.19
Consensus pattern (11 bp):
AAATAATAACA
Found at i:45145189 original size:22 final size:22
Alignment explanation
Indices: 45145171--45145213 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
45145161 TACAATATCT
45145171 AAATAACAACAAAATAATAACG
1 AAATAACAACAAAATAATAACG
* * *
45145193 ATATAATAACAAAATCATAAC
1 AAATAACAACAAAATAATAAC
45145214 CACAAAACAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.65, C:0.14, G:0.02, T:0.19
Consensus pattern (22 bp):
AAATAACAACAAAATAATAACG
Found at i:45149786 original size:29 final size:29
Alignment explanation
Indices: 45149744--45149800 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
45149734 TTTAATTCTT
* * *
45149744 TTTATTAATGAAGGGATTAAATTGATCCG
1 TTTAATAATCAAGGGACTAAATTGATCCG
*
45149773 TTTAATAATCAAGGGACTAACTTGATCC
1 TTTAATAATCAAGGGACTAAATTGATCC
45149801 AACTTCAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (29 bp):
TTTAATAATCAAGGGACTAAATTGATCCG
Found at i:45149863 original size:31 final size:30
Alignment explanation
Indices: 45149814--45149892 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 30
45149804 TTCAACATTT
*
45149814 TAAAATTTTAAAATATTTTAATTAAAACCTA
1 TAAAATTTTGAAA-ATTTTAATTAAAACCTA
* *
45149845 TAAAAGTTTTGAAAATTTTAATTAAACCCTT
1 TAAAA-TTTTGAAAATTTTAATTAAAACCTA
*
45149876 TAAAACTTATGAAAATT
1 TAAAA-TTTTGAAAATT
45149893 CTCATTAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 35 0.83
32 7 0.17
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.41
Consensus pattern (30 bp):
TAAAATTTTGAAAATTTTAATTAAAACCTA
Found at i:45149900 original size:31 final size:31
Alignment explanation
Indices: 45149832--45149900 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
45149822 TAAAATATTT
* * *
45149832 TAATTAAAACCTATAAAAGTTTTGAAAATTT
1 TAATTAAAACCTATAAAACTTATGAAAATTC
* *
45149863 TAATTAAACCCTTTAAAACTTATGAAAATTC
1 TAATTAAAACCTATAAAACTTATGAAAATTC
*
45149894 TCATTAA
1 TAATTAA
45149901 TTTCGTCAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (31 bp):
TAATTAAAACCTATAAAACTTATGAAAATTC
Found at i:45152660 original size:27 final size:27
Alignment explanation
Indices: 45152622--45152675 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
45152612 TTGTATAAAA
45152622 CCTAGACCATGTATGATAAACCAAATT
1 CCTAGACCATGTATGATAAACCAAATT
*
45152649 CCTAGGCCATGTATGATAAACCAAATT
1 CCTAGACCATGTATGATAAACCAAATT
45152676 ATCTTATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (27 bp):
CCTAGACCATGTATGATAAACCAAATT
Found at i:45157573 original size:44 final size:45
Alignment explanation
Indices: 45157488--45157581 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 45
45157478 TTGTTCACGA
* *
45157488 ATTTTGTTAAATTAAATTTTATAATACTGTAAATTAGTTCGAGCT
1 ATTTTGTTAAATTAAATTTTATAACACTGTAAATTAATTCGAGCT
* * *
45157533 GTTTTGTTAAATTAAA-TTTATAACATTGTAATTTAATTCGAGCT
1 ATTTTGTTAAATTAAATTTTATAACACTGTAAATTAATTCGAGCT
45157577 ATTTT
1 ATTTT
45157582 AAGATCATTG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 28 0.65
45 15 0.35
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (45 bp):
ATTTTGTTAAATTAAATTTTATAACACTGTAAATTAATTCGAGCT
Found at i:45159691 original size:28 final size:28
Alignment explanation
Indices: 45159659--45159715 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
45159649 ACTTAATATT
* * * *
45159659 AGAGGTTTTGATGTAAAATTATATTTTA
1 AGAGGATTTGACGAAAAATTACATTTTA
45159687 AGAGGATTTGACGAAAAATTACATTTTA
1 AGAGGATTTGACGAAAAATTACATTTTA
45159715 A
1 A
45159716 AAATTCAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.39
Consensus pattern (28 bp):
AGAGGATTTGACGAAAAATTACATTTTA
Found at i:45166560 original size:18 final size:18
Alignment explanation
Indices: 45166516--45166563 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
45166506 AAATTCCAAA
*
45166516 AAAATTATAAAAATTATTT
1 AAAATTA-AAAAAATATTT
45166535 AAACATTAAAAAAATA-TT
1 AAA-ATTAAAAAAATATTT
45166553 ATAAATTAAAA
1 A-AAATTAAAA
45166564 TTTTTAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 10 0.38
19 12 0.46
20 4 0.15
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATTAAAAAAATATTT
Found at i:45169908 original size:28 final size:30
Alignment explanation
Indices: 45169876--45169931 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
45169866 TAACATTTAA
45169876 AAGATG-AATTTT-TTTTTC-TGTAAGACTG
1 AAGATGTAATTTTCTTTTTCAT-TAAGACTG
*
45169904 AAGATGTGATTTTCTTTTTCATTAAGAC
1 AAGATGTAATTTTCTTTTTCATTAAGAC
45169932 AGAATGCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 6 0.25
29 5 0.21
30 12 0.50
31 1 0.04
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (30 bp):
AAGATGTAATTTTCTTTTTCATTAAGACTG
Found at i:45176646 original size:77 final size:77
Alignment explanation
Indices: 45176555--45176700 Score: 247
Period size: 77 Copynumber: 1.9 Consensus size: 77
45176545 TCCCATCAGT
* * *
45176555 ACTACATGCACATAAGTGCATTCACTATTCCATGCAATATCTCATTTGTCACATGCATTACGAAC
1 ACTACATGCACATAAATGCATTCACTATTCCATGCAATATCTCATATGTCACAGGCATTACGAAC
45176620 CTGGTCCCCATC
66 CTGGTCCCCATC
* *
45176632 ACTACATGCACATAAATGCATTCATTATTCCATGCAATATCTCATATGTCACAGGCGTTACGAAC
1 ACTACATGCACATAAATGCATTCACTATTCCATGCAATATCTCATATGTCACAGGCATTACGAAC
45176697 CTGG
66 CTGG
45176701 ACCATCATCT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
77 64 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.29
Consensus pattern (77 bp):
ACTACATGCACATAAATGCATTCACTATTCCATGCAATATCTCATATGTCACAGGCATTACGAAC
CTGGTCCCCATC
Found at i:45183428 original size:56 final size:51
Alignment explanation
Indices: 45183367--45183531 Score: 172
Period size: 50 Copynumber: 3.2 Consensus size: 51
45183357 AGATCTCATA
** *
45183367 TAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGGTCCCACG
1 TAAGACCATGTCTGGGACATGGCATTGGCA--ACCGA-G--ATAAGAGGTCCCACG
* *
45183423 TAAGACCATGTCTGGGACATGGCGTTGGC-ACCGAGATAAGAGGTCCCCCG
1 TAAGACCATGTCTGGGACATGGCATTGGCAACCGAGATAAGAGGTCCCACG
* * * ** *
45183473 TAAGACCATGTCTGGGACATGGCATCGGC-ACCGATATGAGAACTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCAACCGAGATAAGAGGTCCCACG
45183523 TAAGACCAT
1 TAAGACCAT
45183532 ACCATGAGAA
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
50 64 0.67
52 1 0.01
53 3 0.03
56 28 0.29
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (51 bp):
TAAGACCATGTCTGGGACATGGCATTGGCAACCGAGATAAGAGGTCCCACG
Found at i:45185245 original size:16 final size:16
Alignment explanation
Indices: 45185224--45185261 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
45185214 TTTGGTTCGC
45185224 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
45185240 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
45185256 CGTAAT
1 TGTAAT
45185262 AGGTAATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.03, G:0.34, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:45185330 original size:44 final size:46
Alignment explanation
Indices: 45185243--45185335 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 46
45185233 ATAGAGGTGT
*
45185243 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
*
45185289 AATGGAATAGAGGTGTAATA-GT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
45185333 AAT
1 AAT
45185336 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 24 0.53
45 2 0.04
46 19 0.42
ACGTcount: A:0.29, C:0.03, G:0.30, T:0.38
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
Found at i:45185331 original size:39 final size:43
Alignment explanation
Indices: 45185243--45185348 Score: 139
Period size: 39 Copynumber: 2.5 Consensus size: 43
45185233 ATAGAGGTGT
* *
45185243 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGTGTAATA-GTAATTCTTGTGTTTGGTT--ATGG
45185289 AATGGAATAGAGGTGTAATAGT-ATTCTTGTGTTTGG-T-T-G
1 AATGGAATAGAGGTGTAATAGTAATTCTTGTGTTTGGTTATGG
45185328 AATGGAATAGAGGTGTAATAG
1 AATGGAATAGAGGTGTAATAG
45185349 CATAAGGAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
39 22 0.38
40 1 0.02
43 1 0.02
44 13 0.22
45 2 0.03
46 19 0.33
ACGTcount: A:0.30, C:0.03, G:0.31, T:0.36
Consensus pattern (43 bp):
AATGGAATAGAGGTGTAATAGTAATTCTTGTGTTTGGTTATGG
Found at i:45185583 original size:21 final size:21
Alignment explanation
Indices: 45185559--45185599 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
45185549 TATATGAATT
*
45185559 TACTAAAATCATAATGTATAA
1 TACTAAAATCATAATATATAA
45185580 TACTAAAATCATAATATATA
1 TACTAAAATCATAATATATA
45185600 TAATTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (21 bp):
TACTAAAATCATAATATATAA
Found at i:45195391 original size:17 final size:19
Alignment explanation
Indices: 45195363--45195397 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
45195353 AGGGTATTTT
45195363 ATAAAAATAATA-TAAAAA
1 ATAAAAATAATATTAAAAA
45195381 ATAAAAA-AATATTAAAA
1 ATAAAAATAATATTAAAA
45195398 TAGTATAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (19 bp):
ATAAAAATAATATTAAAAA
Found at i:45195824 original size:151 final size:152
Alignment explanation
Indices: 45195652--45195932 Score: 438
Period size: 153 Copynumber: 1.8 Consensus size: 152
45195642 TTTTTTATTG
* * * *
45195652 AAAGTAATAAAATCCGAAAAAAAATACAAATAAATGGTCGAAATAAGGATTTTTT-TAAATTTAT
1 AAAGTAATAAAATCCGAAAAAAAATACAAACAAAGGGCCGAAATAAAGATTTTTTATAAATTTAT
* * *
45195716 TTAAAACACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
66 TTAAAAAACACAATAAATGAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAA
45195781 TTAGAAAGTAGTAAATTTTTTA
131 TTAGAAAGTAGTAAATTTTTTA
* *
45195803 AAAGTAATAAAATCCGGAAAAAAATACGAACAAAGGGCCGAAATAAAGATTTTTTACTAAATTTA
1 AAAGTAATAAAATCCGAAAAAAAATACAAACAAAGGGCCGAAATAAAGATTTTTTA-TAAATTTA
* * *
45195868 TTTAAAAAACACAATTAATTAATACATTTCAAATATAATGTACTAAAATAATATAAAATAATAAA
65 TTTAAAAAACACAATAAATGAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAA
45195933 TTTAATTTAT
Statistics
Matches: 116, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
151 49 0.42
153 67 0.58
ACGTcount: A:0.54, C:0.09, G:0.08, T:0.29
Consensus pattern (152 bp):
AAAGTAATAAAATCCGAAAAAAAATACAAACAAAGGGCCGAAATAAAGATTTTTTATAAATTTAT
TTAAAAAACACAATAAATGAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAA
TTAGAAAGTAGTAAATTTTTTA
Found at i:45195967 original size:75 final size:74
Alignment explanation
Indices: 45195862--45196007 Score: 238
Period size: 75 Copynumber: 2.0 Consensus size: 74
45195852 TTTTTTACTA
* * *
45195862 AATTTATTTAAAAAACACAATTAATTAATACATTTCAAATATAATGTACTAAAATAATATAAAAT
1 AATTTATTTAAAAAACACAATAAATGAATACATTTCAAACATAATGTACTAAAATAATATAAAAT
45195927 AATAAATTT
66 AATAAATTT
* *
45195936 AATTTATTTAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
1 AATTTATTT-AAAAAACACAATAAATGAATACATTTCAAACATAATGTACTAAAATAATATAAAA
45196001 TAATAAA
65 TAATAAA
45196008 ATACGAAAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
74 9 0.14
75 57 0.86
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (74 bp):
AATTTATTTAAAAAACACAATAAATGAATACATTTCAAACATAATGTACTAAAATAATATAAAAT
AATAAATTT
Found at i:45196114 original size:154 final size:151
Alignment explanation
Indices: 45195933--45196534 Score: 849
Period size: 154 Copynumber: 3.9 Consensus size: 151
45195923 AAATAATAAA
45195933 TTTAATTTATTTAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
1 TTTAATTTATTTAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
45195998 AAATAATAAAATACGAAAATAATATATTTTTAATTGAAAGT-ATAAAATCCGGGAAAAAATACGA
66 AAATAATAAAATA-GAAAATAATATATTTTT--TTGAAAGTAATAAAATCCGGGAAAAAATACGA
45196062 ACAAATGGCCGAAATAAGAGTTTTT
128 ACAAA-GGCCGAAATAAGAGTTTTT
45196087 TTTAATTTATTTAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
1 TTTAATTTATTTAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
* * *
45196152 AAATAATAAAATTAGAAAATAGTATATTTTTTT-AAAGTAATAAACTCTTTGGGAAAAAATACGA
66 AAATAATAAAA-TAGAAAATAATATATTTTTTTGAAAGTAATAAAATC--CGGGAAAAAATACGA
45196216 ACAAAGGGCCGAAATAATG-GTTTTT
128 ACAAA-GGCCGAAATAA-GAGTTTTT
* * * *
45196241 TTAAAATTTATTTAAAAAAACACAGTAAATTAATACATTTCAAACATAATGTAATAAAATAATGT
1 TT-TAATTTATTTAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGT
* *
45196306 AAAATAATAAAATACGAAAATAATATATTTTTATTGAAAATAATAAAATCTGGGAAAAAATACGA
65 AAAATAATAAAATA-GAAAATAATATATTTTT-TTGAAAGTAATAAAATCCGGGAAAAAATACGA
*
45196371 ACAAAGTGCCGAAATAAGA-ATTTT
128 ACAAAG-GCCGAAATAAGAGTTTTT
* * *
45196395 TTTAATTTATTT--AAAAACACACTAAATTAGTATATTTCAAACATAATGTACTAAAATAATGTA
1 TTTAATTTATTTAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
* * * * * * *
45196458 AAATAAAAAAATAGAAAATAGTACA-TTTTTTAAAAGTAATCAAATCCGAGAAAAAATACGAAAA
66 AAATAATAAAATAGAAAATAATATATTTTTTTGAAAGTAATAAAATCCGGGAAAAAATACG-AAC
45196522 AAAGGCCGAAATA
130 AAAGGCCGAAATA
45196535 GGAACAATTG
Statistics
Matches: 410, Mismatches: 26, Indels: 30
0.88 0.06 0.06
Matches are distributed among these distances:
148 35 0.09
149 10 0.02
150 10 0.02
151 64 0.16
152 9 0.02
153 9 0.02
154 140 0.34
155 119 0.29
156 2 0.00
157 12 0.03
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.30
Consensus pattern (151 bp):
TTTAATTTATTTAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
AAATAATAAAATAGAAAATAATATATTTTTTTGAAAGTAATAAAATCCGGGAAAAAATACGAACA
AAGGCCGAAATAAGAGTTTTT
Found at i:45196306 original size:155 final size:153
Alignment explanation
Indices: 45195933--45196534 Score: 864
Period size: 155 Copynumber: 3.9 Consensus size: 153
45195923 AAATAATAAA
45195933 TTTAATTTATTTAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
1 TTTAATTTATTTAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
45195998 AAATAATAAAATACGAAAATAATATATTTTTAATTGAAAGT-ATAAAATCCGGGAAAAAATACGA
66 AAATAATAAAATACGAAAATAATATATTTTT-ATTGAAAGTAATAAAATCCGGGAAAAAATACGA
*
45196062 ACAAATGGCCGAAATAAGAGTTTTT
130 ACAAAGGGCCGAAATAAGAG-TTTT
45196087 TTTAATTTATTTAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
1 TTTAATTTATTTAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
* * *
45196152 AAATAATAAAATTA-GAAAATAGTATATTTTT-TT-AAAGTAATAAACTCTTTGGGAAAAAATAC
66 AAATAATAAAA-TACGAAAATAATATATTTTTATTGAAAGTAATAAAATC--CGGGAAAAAATAC
45196214 GAACAAAGGGCCGAAATAATG-GTTTT
128 GAACAAAGGGCCGAAATAA-GAGTTTT
* * *
45196240 TTTAAAATTTATTTAAAAAAACACAGTAAATTAATACATTTCAAACATAATGTAATAAAATAATG
1 TTT--AATTTATTTAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATG
* *
45196305 TAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAATAATAAAATCTGGGAAAAAATACG
64 TAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGGAAAAAATACG
* *
45196370 AACAAAGTGCCGAAATAAGAATTTT
129 AACAAAGGGCCGAAATAAGAGTTTT
* * *
45196395 TTTAATTTATTT--AAAAACACACTAAATTAGTATATTTCAAACATAATGTACTAAAATAATGTA
1 TTTAATTTATTTAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
* * * * * *
45196458 AAATAAAAAAATA-GAAAATAGTACA-TTTT-TTAAAAGTAATCAAATCCGAGAAAAAATACGAA
66 AAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGGAAAAAATACGAA
* *
45196520 AAAAAGGCCGAAATA
131 CAAAGGGCCGAAATA
45196535 GGAACAATTG
Statistics
Matches: 410, Mismatches: 27, Indels: 28
0.88 0.06 0.06
Matches are distributed among these distances:
148 40 0.10
149 4 0.01
150 10 0.02
151 64 0.16
152 9 0.02
153 16 0.04
154 126 0.31
155 127 0.31
156 2 0.00
157 12 0.03
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.30
Consensus pattern (153 bp):
TTTAATTTATTTAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
AAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGGAAAAAATACGAA
CAAAGGGCCGAAATAAGAGTTTT
Found at i:45198037 original size:16 final size:17
Alignment explanation
Indices: 45198005--45198037 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
45197995 AACATAGCAA
*
45198005 ATAATATGTTATTATTG
1 ATAATATGTTATCATTG
45198022 ATAATAT-TTATCATTG
1 ATAATATGTTATCATTG
45198038 CAACATCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (17 bp):
ATAATATGTTATCATTG
Found at i:45207898 original size:36 final size:36
Alignment explanation
Indices: 45207858--45207930 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
45207848 GGTAGCTTTA
45207858 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
45207894 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
45207930 G
1 G
45207931 GTAGCCTAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.27
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
Found at i:45211330 original size:24 final size:24
Alignment explanation
Indices: 45211295--45211369 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 24
45211285 ATAATTACGC
*
45211295 TTATTT-TCTTTTAACTTCATGAA
1 TTATTTATTTTTTAACTTCATGAA
45211318 TTATTTATTTTTT-A----AT-AA
1 TTATTTATTTTTTAACTTCATGAA
*
45211336 -TAGTTATTTTTTAACTTCATGAA
1 TTATTTATTTTTTAACTTCATGAA
45211359 TTATTTATTTT
1 TTATTTATTTT
45211370 ATTATTTTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 15
0.69 0.05 0.25
Matches are distributed among these distances:
17 11 0.27
18 3 0.07
19 2 0.05
22 2 0.05
23 9 0.22
24 14 0.34
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (24 bp):
TTATTTATTTTTTAACTTCATGAA
Found at i:45211686 original size:26 final size:26
Alignment explanation
Indices: 45211653--45211722 Score: 97
Period size: 28 Copynumber: 2.7 Consensus size: 26
45211643 AGTAACATTT
*
45211653 AAAA-TTATATATAATAGATGTTGAA
1 AAAACTTATATATAATAGATGTTCAA
*
45211678 AAAACTTATATATATAATAGTTGTTCAA
1 AAAAC-T-TATATATAATAGATGTTCAA
45211706 AAAACTTATATATAATA
1 AAAACTTATATATAATA
45211723 AATGAATATT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
25 4 0.10
26 11 0.28
27 2 0.05
28 23 0.57
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.37
Consensus pattern (26 bp):
AAAACTTATATATAATAGATGTTCAA
Found at i:45211694 original size:28 final size:28
Alignment explanation
Indices: 45211658--45211719 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
45211648 CATTTAAAAT
*
45211658 TATATATAATAGATGTTGAAAAAACTTA
1 TATATATAATAGATGTTCAAAAAACTTA
*
45211686 TATATATAATAGTTGTTCAAAAAACTTA
1 TATATATAATAGATGTTCAAAAAACTTA
45211714 TATATA
1 TATATA
45211720 ATAAATGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (28 bp):
TATATATAATAGATGTTCAAAAAACTTA
Found at i:45211745 original size:16 final size:18
Alignment explanation
Indices: 45211714--45211747 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
45211704 AAAAAACTTA
45211714 TATATAATAAATGAATAT
1 TATATAATAAATGAATAT
45211732 TATAT-ATAAA-GAATAT
1 TATATAATAAATGAATAT
45211748 CTTTTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
TATATAATAAATGAATAT
Found at i:45222174 original size:27 final size:26
Alignment explanation
Indices: 45222144--45222202 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
45222134 TGTCTTACCG
45222144 TTTTAATGAT-TTTTTATATTTTTAAAT
1 TTTTAA-GATATTTTTATATTTTT-AAT
* * *
45222171 TTTTTAGATATTTTTCTATTTTTATT
1 TTTTAAGATATTTTTATATTTTTAAT
45222197 TTTTAA
1 TTTTAA
45222203 ATTATAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.69
Consensus pattern (26 bp):
TTTTAAGATATTTTTATATTTTTAAT
Done.