Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 396 of 410
Found at i:120172061 original size:16 final size:16
Alignment explanation
Indices: 120172040--120172074 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
120172030 ATTATTTTAA
*
120172040 TTATTTATTTTATTTT
1 TTATTTATTTTAATTT
*
120172056 TTATTTTTTTTAATTT
1 TTATTTATTTTAATTT
120172072 TTA
1 TTA
120172075 AATTTATATT
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTATTTATTTTAATTT
Found at i:120172895 original size:17 final size:17
Alignment explanation
Indices: 120172873--120172907 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
120172863 CAATTTATCC
120172873 TAAAAA-AATTATAAATA
1 TAAAAATAATT-TAAATA
120172890 TAAAAATAATTTAAATA
1 TAAAAATAATTTAAATA
120172907 T
1 T
120172908 GATTATAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAAATAATTTAAATA
Found at i:120173240 original size:19 final size:20
Alignment explanation
Indices: 120173216--120173254 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
120173206 CCATTAAATC
*
120173216 AATCTTAAATAA-GAAAAAA
1 AATCTTAAAAAAGGAAAAAA
120173235 AATCTTAAAAAAGGAAAAAA
1 AATCTTAAAAAAGGAAAAAA
120173255 GGAAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.69, C:0.05, G:0.08, T:0.18
Consensus pattern (20 bp):
AATCTTAAAAAAGGAAAAAA
Found at i:120175636 original size:3 final size:3
Alignment explanation
Indices: 120175628--120175653 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
120175618 TTGGAACACC
120175628 CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CT
120175654 ATCACTATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:120179469 original size:34 final size:34
Alignment explanation
Indices: 120179428--120179495 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
120179418 TACTCGAAAA
120179428 TTTTTTACTTAAATATCACATTTAAAATCGTAAT
1 TTTTTTACTTAAATATCACATTTAAAATCGTAAT
120179462 TTTTTTACTTAAATATCACATTTAAAATCGTAAT
1 TTTTTTACTTAAATATCACATTTAAAATCGTAAT
120179496 CTTTCTTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (34 bp):
TTTTTTACTTAAATATCACATTTAAAATCGTAAT
Found at i:120180802 original size:3 final size:3
Alignment explanation
Indices: 120180794--120180829 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
120180784 ATTTATTTAT
*
120180794 TTA TTA TTA TTA TTA TTA TTA -CA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
120180830 CAAGAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 1 0.03
3 29 0.97
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:120192667 original size:29 final size:30
Alignment explanation
Indices: 120192625--120192683 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
120192615 AAATCGAATT
*
120192625 AAATCAATGTTTCATGTATAAAATTACATA
1 AAATCAATATTTCATGTATAAAATTACATA
*
120192655 AAATCAA-ATTTCATGTATAACATTACATA
1 AAATCAATATTTCATGTATAAAATTACATA
120192684 TTGGCTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.36
Consensus pattern (30 bp):
AAATCAATATTTCATGTATAAAATTACATA
Found at i:120192965 original size:15 final size:16
Alignment explanation
Indices: 120192925--120192971 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
120192915 TTTTATATTT
*
120192925 AAAAGATGTTTTTATA
1 AAAATATGTTTTTATA
* *
120192941 AGAATTTGTTTTT-TA
1 AAAATATGTTTTTATA
*
120192956 AAAATATGTTGTTATA
1 AAAATATGTTTTTATA
120192972 CCTTATTGTT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (16 bp):
AAAATATGTTTTTATA
Found at i:120201031 original size:71 final size:70
Alignment explanation
Indices: 120200928--120201069 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 70
120200918 TCTATTATCA
120200928 ACGATGCACATTTTTCCCCCTAAACTATTACTGACTAGGGTGCTTTCCCTCGTTGCTTAATATGT
1 ACGATGCACATTTTTCCCCCTAAACTATTACTGACTAGGGTGCTTTCCCTCGTTGCTTAATATGT
120200993 TGCAG
66 TGCAG
120200998 ACGATGCACATTTTTTCCCCCTAAACTATTACTGACTAGGGTGCTTTCCCTCGTTGCTTAATATG
1 ACGATGCACA-TTTTTCCCCCTAAACTATTACTGACTAGGGTGCTTTCCCTCGTTGCTTAATATG
120201063 TTGCAG
65 TTGCAG
120201069 A
1 A
120201070 GTCATGAAAT
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 10 0.14
71 61 0.86
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (70 bp):
ACGATGCACATTTTTCCCCCTAAACTATTACTGACTAGGGTGCTTTCCCTCGTTGCTTAATATGT
TGCAG
Found at i:120204671 original size:27 final size:27
Alignment explanation
Indices: 120204641--120204694 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
120204631 TTTCTTTGGG
120204641 ATGGTTGCTCTGATCCAAAGAAGATGC
1 ATGGTTGCTCTGATCCAAAGAAGATGC
120204668 ATGGTTGCTCTGATCCAAAGAAGATGC
1 ATGGTTGCTCTGATCCAAAGAAGATGC
120204695 TTGAAGTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (27 bp):
ATGGTTGCTCTGATCCAAAGAAGATGC
Found at i:120210262 original size:27 final size:29
Alignment explanation
Indices: 120210239--120210293 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
120210229 TAGTTGAAGG
* *
120210239 AAAAAAGTT-TGGGTACTAATTTGAGACA
1 AAAAAAGTTATGAGTACCAATTTGAGACA
120210267 AAAAAAGTTATGAGTACCAATTTGAGA
1 AAAAAAGTTATGAGTACCAATTTGAGA
120210294 GAAGTGGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.27
Consensus pattern (29 bp):
AAAAAAGTTATGAGTACCAATTTGAGACA
Found at i:120216065 original size:2 final size:2
Alignment explanation
Indices: 120216058--120216088 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
120216048 AACTTAAATT
120216058 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
120216089 CTAATATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:120222273 original size:21 final size:21
Alignment explanation
Indices: 120222247--120222287 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
120222237 CCGGACCAAA
120222247 TCCTGATCCAGACACGACAAG
1 TCCTGATCCAGACACGACAAG
120222268 TCCTGATCCAGACACGACAA
1 TCCTGATCCAGACACGACAA
120222288 ATCAACAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.17, T:0.15
Consensus pattern (21 bp):
TCCTGATCCAGACACGACAAG
Found at i:120222446 original size:14 final size:14
Alignment explanation
Indices: 120222427--120222456 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
120222417 AAGATACTGA
120222427 TTCCAGTAAAGGAG
1 TTCCAGTAAAGGAG
*
120222441 TTCCAGTAATGGAG
1 TTCCAGTAAAGGAG
120222455 TT
1 TT
120222457 AACCAAGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (14 bp):
TTCCAGTAAAGGAG
Found at i:120225006 original size:15 final size:17
Alignment explanation
Indices: 120224975--120225009 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
120224965 GGACCGACTC
120224975 AATTAAGAAATTATTAA
1 AATTAAGAAATTATTAA
120224992 AATTAA-AAA-TATTAA
1 AATTAAGAAATTATTAA
120225007 AAT
1 AAT
120225010 CTAGTTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 3 0.17
17 6 0.33
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AATTAAGAAATTATTAA
Found at i:120227702 original size:16 final size:16
Alignment explanation
Indices: 120227680--120227721 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
120227670 CTATAGTCAA
*
120227680 ATTTTAAATTA-ATTT
1 ATTTTTAATTATATTT
120227695 ATTTTTAATTATATTT
1 ATTTTTAATTATATTT
*
120227711 ATTTATAATTA
1 ATTTTTAATTA
120227722 AAAAAGAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTTAATTATATTT
Found at i:120235774 original size:19 final size:19
Alignment explanation
Indices: 120235738--120235778 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
120235728 AGTCCCTTTA
*
120235738 TTATTCTAAAATTTACAAAT
1 TTATACTAAAATTTAC-AAT
120235758 TTATACTAAAA-TTACAAT
1 TTATACTAAAATTTACAAT
120235776 TTA
1 TTA
120235779 ATTCCATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 4 0.20
20 10 0.50
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (19 bp):
TTATACTAAAATTTACAAT
Found at i:120238117 original size:18 final size:20
Alignment explanation
Indices: 120238096--120238134 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
120238086 AATTTCTTTT
*
120238096 AAAAATT-TA-ATTTTTAAA
1 AAAAATTATATATTTGTAAA
120238114 AAAAATTATATATTTGTAAA
1 AAAAATTATATATTTGTAAA
120238134 A
1 A
120238135 CGTCATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (20 bp):
AAAAATTATATATTTGTAAA
Found at i:120241445 original size:49 final size:49
Alignment explanation
Indices: 120241379--120241475 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 49
120241369 TTTTAAAAAA
* * *
120241379 ATGTTTGATTGAATTAATATTATGAATTAATCAAATATAAACTTAATTG
1 ATGTTTAATTGAATTAATATTATGAATTAATCAAACATAAACTCAATTG
120241428 ATGTTTAATT-AAGTTAATATTATGAATTAATCAAACATAAACTCAATT
1 ATGTTTAATTGAA-TTAATATTATGAATTAATCAAACATAAACTCAATT
120241476 AAAAAAATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 2 0.05
49 42 0.95
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.41
Consensus pattern (49 bp):
ATGTTTAATTGAATTAATATTATGAATTAATCAAACATAAACTCAATTG
Found at i:120244012 original size:2 final size:2
Alignment explanation
Indices: 120244005--120244054 Score: 50
Period size: 2 Copynumber: 25.5 Consensus size: 2
120243995 TAAAGTGTTT
* *
120244005 TA TA TA TA TA TA TA TA TCA TA TA TA TA TT TA -A AA TA T- TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
*
120244046 TA TC TA TA T
1 TA TA TA TA T
120244055 TATTATTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
1 2 0.05
2 36 0.90
3 2 0.05
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:120244061 original size:28 final size:28
Alignment explanation
Indices: 120244010--120244065 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
120244000 TGTTTTATAT
120244010 ATATATATATATCATATATATATTTAAA
1 ATATATATATATCATATATATATTTAAA
120244038 ATAT-TATATATC-TATATTATTATTTAAA
1 ATATATATATATCATATA-TA-TATTTAAA
120244066 CTCCTGACTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 4 0.15
27 10 0.38
28 12 0.46
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (28 bp):
ATATATATATATCATATATATATTTAAA
Found at i:120245885 original size:2 final size:2
Alignment explanation
Indices: 120245878--120245909 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
120245868 TAAGGTAAGG
120245878 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
120245910 TGGATGTGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:120252539 original size:42 final size:42
Alignment explanation
Indices: 120252480--120252588 Score: 182
Period size: 42 Copynumber: 2.6 Consensus size: 42
120252470 CCAAAGTGCT
** *
120252480 TTTTGTTTTCTCCGAAACGTGTTGAGTTGAATGAAATTAGCA
1 TTTTGTTTTCTCCGAAACACGTTAAGTTGAATGAAATTAGCA
*
120252522 TTTTGTTTTCTCCGAAACACGTTAAGTTGAATTAAATTAGCA
1 TTTTGTTTTCTCCGAAACACGTTAAGTTGAATGAAATTAGCA
120252564 TTTTGTTTTCTCCGAAACACGTTAA
1 TTTTGTTTTCTCCGAAACACGTTAA
120252589 CATTTTGTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.41
Consensus pattern (42 bp):
TTTTGTTTTCTCCGAAACACGTTAAGTTGAATGAAATTAGCA
Found at i:120252600 original size:27 final size:27
Alignment explanation
Indices: 120252562--120252615 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
120252552 ATTAAATTAG
120252562 CATTTTGTTTTCTCCGAAACACGTTAA
1 CATTTTGTTTTCTCCGAAACACGTTAA
*
120252589 CATTTTGTTTTCTCCGAAACATGTTAA
1 CATTTTGTTTTCTCCGAAACACGTTAA
120252616 GTTTAATTAA
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:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (27 bp):
CATTTTGTTTTCTCCGAAACACGTTAA
Found at i:120252643 original size:16 final size:16
Alignment explanation
Indices: 120252622--120252655 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
120252612 TTAAGTTTAA
120252622 TTAAATTAGCATTTTG
1 TTAAATTAGCATTTTG
120252638 TTAAATTAGCATTTTG
1 TTAAATTAGCATTTTG
120252654 TT
1 TT
120252656 TTCTCCGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (16 bp):
TTAAATTAGCATTTTG
Found at i:120254828 original size:20 final size:21
Alignment explanation
Indices: 120254803--120254859 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 21
120254793 TTTTTAGAAT
120254803 TTTTATATTTTAAAT-ATAAA
1 TTTTATATTTTAAATAATAAA
* *
120254823 TTTTATTTTGACTTAATTAATAAA
1 TTTTATATT---TTAAATAATAAA
120254847 TTTTA-ATTTTAAA
1 TTTTATATTTTAAA
120254860 ATATTAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
20 12 0.41
23 7 0.24
24 10 0.34
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTTATATTTTAAATAATAAA
Found at i:120255300 original size:20 final size:20
Alignment explanation
Indices: 120255271--120255311 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
120255261 TTAGTAAAAT
*
120255271 AATTTTAAATATAAAAATTA
1 AATTTCAAATATAAAAATTA
* *
120255291 AATTTCAAATTTATAAATTA
1 AATTTCAAATATAAAAATTA
120255311 A
1 A
120255312 TGGAATAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AATTTCAAATATAAAAATTA
Found at i:120255571 original size:3 final size:3
Alignment explanation
Indices: 120255565--120255590 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
120255555 AACTACTATG
120255565 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
120255591 ATTTGTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:120258271 original size:2 final size:2
Alignment explanation
Indices: 120258264--120258300 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
120258254 AAGGTGTAGG
*
120258264 AT AT AT AT AT AT AT AT AT GT AT AT -T AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
120258301 GACGACAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:120265516 original size:16 final size:16
Alignment explanation
Indices: 120265495--120265525 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
120265485 AATGCCACAC
120265495 ACACACATATATATAT
1 ACACACATATATATAT
*
120265511 ACACACATGTATATA
1 ACACACATATATATA
120265526 CATATATGTT
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:0.48, C:0.19, G:0.03, T:0.29
Consensus pattern (16 bp):
ACACACATATATATAT
Found at i:120270296 original size:5 final size:5
Alignment explanation
Indices: 120270283--120270361 Score: 61
Period size: 5 Copynumber: 14.8 Consensus size: 5
120270273 TCTGACACCT
* * *
120270283 TTTTG TTTTC TTTTTC TTTTA TTTTC ATATTTC TTTTA TTTT- TTTTC
1 TTTTC TTTTC -TTTTC TTTTC TTTTC -T-TTTC TTTTC TTTTC TTTTC
*
120270330 TTTTC TTTTC ATATTTC TTTTT TTTTAC TTTT
1 TTTTC TTTTC -T-TTTC TTTTC TTTT-C TTTT
120270362 TTATTTTGTT
Statistics
Matches: 61, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
4 4 0.07
5 36 0.59
6 13 0.21
7 8 0.13
ACGTcount: A:0.09, C:0.11, G:0.01, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:120270331 original size:31 final size:30
Alignment explanation
Indices: 120270288--120270368 Score: 110
Period size: 31 Copynumber: 2.7 Consensus size: 30
120270278 CACCTTTTTG
*
120270288 TTTTCTTTTTCTTTTATTTTCATATTTCTT
1 TTTTTTTTTTCTTTTATTTTCATATTTCTT
*
120270318 TTATTTTTTTTCTTTTCTTTTCATATTTCTT
1 TT-TTTTTTTTCTTTTATTTTCATATTTCTT
*
120270349 TTTTTTTACTT-TTTTATTTT
1 TTTTTTT-TTTCTTTTATTTT
120270369 GTTCCTTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
30 15 0.33
31 30 0.67
ACGTcount: A:0.10, C:0.11, G:0.00, T:0.79
Consensus pattern (30 bp):
TTTTTTTTTTCTTTTATTTTCATATTTCTT
Found at i:120270344 original size:22 final size:23
Alignment explanation
Indices: 120270319--120270361 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
120270309 ATATTTCTTT
120270319 TATTT-TTTTTCTTTT-CTTTTCA
1 TATTTCTTTTT-TTTTACTTTTCA
120270341 TATTTCTTTTTTTTTACTTTT
1 TATTTCTTTTTTTTTACTTTT
120270362 TTATTTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (23 bp):
TATTTCTTTTTTTTTACTTTTCA
Found at i:120270355 original size:17 final size:16
Alignment explanation
Indices: 120270283--120270368 Score: 83
Period size: 17 Copynumber: 5.6 Consensus size: 16
120270273 TCTGACACCT
* *
120270283 TTTTGTTTTCTTTTTC
1 TTTTATTTTCTATTTC
120270299 TTTTATTTTCATATTTC
1 TTTTATTTTC-TATTTC
120270316 TTTTATTTT-T-TTTC
1 TTTTATTTTCTATTTC
*
120270330 TTTTCTTTTCATATTTC
1 TTTTATTTTC-TATTTC
*
120270347 TTTT-TTTT-TACTT-
1 TTTTATTTTCTATTTC
120270360 TTTTATTTT
1 TTTTATTTT
120270369 GTTCCTTAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
13 4 0.07
14 20 0.33
15 1 0.02
16 14 0.23
17 22 0.36
ACGTcount: A:0.09, C:0.10, G:0.01, T:0.79
Consensus pattern (16 bp):
TTTTATTTTCTATTTC
Found at i:120270366 original size:22 final size:21
Alignment explanation
Indices: 120270282--120270368 Score: 65
Period size: 21 Copynumber: 4.0 Consensus size: 21
120270272 GTCTGACACC
*
120270282 TTTTTGTTTTCTTTTTCT-TTT
1 TTTTTCTTTTCTTTTT-TATTT
*
120270303 ATTTTCATATTTC--TTTTATTT
1 TTTTTC-T-TTTCTTTTTTATTT
*
120270324 TTTTTCTTTTCTTTTCATATTT
1 TTTTTCTTTTCTTTT-TTATTT
120270346 CTTTTT-TTTTACTTTTTTATTT
1 -TTTTTCTTTT-CTTTTTTATTT
120270368 T
1 T
120270369 GTTCCTTAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
19 4 0.08
20 2 0.04
21 18 0.34
22 15 0.28
23 14 0.26
ACGTcount: A:0.09, C:0.10, G:0.01, T:0.79
Consensus pattern (21 bp):
TTTTTCTTTTCTTTTTTATTT
Found at i:120270402 original size:17 final size:17
Alignment explanation
Indices: 120270382--120270459 Score: 61
Period size: 16 Copynumber: 4.4 Consensus size: 17
120270372 CCTTAATAAA
120270382 TTTTATCTTTTTATTTT
1 TTTTATCTTTTTATTTT
120270399 TTTTA-CTTTTT-TTATT
1 TTTTATCTTTTTATT-TT
*
120270415 TTTTTTCTTATTTCATTTT
1 TTTTATCTT-TTT-ATTTT
* *
120270434 GTTTATTTTGTTTTATTTT
1 TTTTA-TCT-TTTTATTTT
120270453 TTATTAT
1 TT-TTAT
120270460 TAACTTTAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
15 2 0.04
16 12 0.25
17 8 0.17
18 3 0.06
19 12 0.25
20 10 0.21
21 1 0.02
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTATCTTTTTATTTT
Found at i:120270418 original size:26 final size:26
Alignment explanation
Indices: 120270382--120270454 Score: 69
Period size: 26 Copynumber: 2.7 Consensus size: 26
120270372 CCTTAATAAA
*
120270382 TTTTATCTTTTTATTTTTTTT-ACTTT
1 TTTTATTTTTTTATTTTTTTTCA-TTT
* *
120270408 TTTTATTTTTTT-TCTTATTTCATTT
1 TTTTATTTTTTTATTTTTTTTCATTT
120270433 TGTTTATTTTGTTTTATTTTTT
1 T-TTTA-TTT-TTTTATTTTTT
120270455 ATTATTAACT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
25 10 0.27
26 16 0.43
27 3 0.08
28 4 0.11
29 4 0.11
ACGTcount: A:0.11, C:0.05, G:0.03, T:0.81
Consensus pattern (26 bp):
TTTTATTTTTTTATTTTTTTTCATTT
Found at i:120270450 original size:10 final size:9
Alignment explanation
Indices: 120270389--120270460 Score: 74
Period size: 9 Copynumber: 7.9 Consensus size: 9
120270379 AAATTTTATC
120270389 TTTTTATTT
1 TTTTTATTT
*
120270398 TTTTTACTT
1 TTTTTATTT
120270407 TTTTTATTT
1 TTTTTATTT
*
120270416 TTTTT-CTT
1 TTTTTATTT
* *
120270424 ATTTCATTT
1 TTTTTATTT
*
120270433 TGTTTATTT
1 TTTTTATTT
120270442 TGTTTTATTT
1 T-TTTTATTT
120270452 TTTATTATT
1 TTT-TTATT
120270461 AACTTTAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
8 5 0.10
9 32 0.64
10 13 0.26
ACGTcount: A:0.12, C:0.04, G:0.03, T:0.81
Consensus pattern (9 bp):
TTTTTATTT
Found at i:120270453 original size:35 final size:33
Alignment explanation
Indices: 120270382--120270454 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 33
120270372 CCTTAATAAA
* *
120270382 TTTTATCTTTTTATTTTTTTTACTTTTTTTATT
1 TTTTTTCTTTTTATTTTGTTTACTTTTTTTATT
*
120270415 TTTTTTCTTATTTCATTTTGTTTATTTTGTTTTATT
1 TTTTTTCTT-TTT-ATTTTGTTTACTTT-TTTTATT
120270451 TTTT
1 TTTT
120270455 ATTATTAACT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 8 0.24
34 3 0.09
35 12 0.35
36 11 0.32
ACGTcount: A:0.11, C:0.05, G:0.03, T:0.81
Consensus pattern (33 bp):
TTTTTTCTTTTTATTTTGTTTACTTTTTTTATT
Found at i:120270506 original size:28 final size:29
Alignment explanation
Indices: 120270474--120270531 Score: 109
Period size: 28 Copynumber: 2.0 Consensus size: 29
120270464 TTTAAAATGG
120270474 TATAATATAATATATTTTTT-AATTATGA
1 TATAATATAATATATTTTTTAAATTATGA
120270502 TATAATATAATATATTTTTTAAATTATGA
1 TATAATATAATATATTTTTTAAATTATGA
120270531 T
1 T
120270532 TGGTTTATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 20 0.69
29 9 0.31
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (29 bp):
TATAATATAATATATTTTTTAAATTATGA
Found at i:120271388 original size:29 final size:29
Alignment explanation
Indices: 120271261--120271375 Score: 102
Period size: 29 Copynumber: 4.2 Consensus size: 29
120271251 TTAAAATCCA
120271261 ATCATAATTAAAAAAATATATTATATTAT
1 ATCATAATTAAAAAAATATATTATATTAT
* *
120271290 ATCAT-ATTAAATAAAA-A-ATAAAATTAT
1 ATCATAATTAAA-AAAATATATTATATTAT
* ** *
120271317 AT--TAGA--CACCACATA-ATTATATTAT
1 ATCATA-ATTAAAAAAATATATTATATTAT
120271342 ATCATAATTAAAAAAATATATTATATTAT
1 ATCATAATTAAAAAAATATATTATATTAT
120271371 ATCAT
1 ATCAT
120271376 TTTAAAGTTA
Statistics
Matches: 65, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
24 2 0.03
25 13 0.20
26 1 0.02
27 13 0.20
28 12 0.18
29 24 0.37
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.38
Consensus pattern (29 bp):
ATCATAATTAAAAAAATATATTATATTAT
Found at i:120271413 original size:22 final size:22
Alignment explanation
Indices: 120271388--120271446 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 22
120271378 TAAAGTTAAT
*
120271388 AATAAAAAATAAAA-CAAAATGA
1 AATAAAAAATAAAAGCAAAA-AA
*
120271410 AATAAGAAAA-AAAAGTAAAAAA
1 AATAA-AAAATAAAAGCAAAAAA
120271432 AATAAAAAGATAAAA
1 AATAAAAA-ATAAAA
120271447 TTTATTAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
21 3 0.10
22 16 0.52
23 12 0.39
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.12
Consensus pattern (22 bp):
AATAAAAAATAAAAGCAAAAAA
Found at i:120271433 original size:27 final size:25
Alignment explanation
Indices: 120271391--120271537 Score: 71
Period size: 29 Copynumber: 5.2 Consensus size: 25
120271381 AGTTAATAAT
120271391 AAAAAATAAAACAAAATGAAATAAGAA
1 AAAAAATAAAACAAAAT-AAA-AAGAA
120271418 AAAAAAGTAAAA-AAAATAAAAAGATA
1 AAAAAA-TAAAACAAAATAAAAAGA-A
* *
120271444 AAATTTATTAAGGAACAAAATAAAAAAGTAAA
1 AAA--AAATAA--AACAAAAT-AAAAAG--AA
* * *
120271476 AAAAAATGAAAATAAAAGAAAAAACAA
1 AAAAAAT-AAAACAAAA-TAAAAAGAA
* *
120271503 AAGAAATATGAAAATAAAAGAAAAAGAA
1 AA-AAA-AT-AAAACAAAATAAAAAGAA
120271531 AACAAAA
1 AA-AAAA
120271538 AGAAAAGTGA
Statistics
Matches: 96, Mismatches: 10, Indels: 28
0.72 0.07 0.21
Matches are distributed among these distances:
25 4 0.04
26 7 0.07
27 19 0.20
28 21 0.22
29 25 0.26
30 7 0.07
31 8 0.08
32 4 0.04
33 1 0.01
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (25 bp):
AAAAAATAAAACAAAATAAAAAGAA
Found at i:120271481 original size:11 final size:10
Alignment explanation
Indices: 120271465--120271543 Score: 59
Period size: 11 Copynumber: 7.1 Consensus size: 10
120271455 GGAACAAAAT
120271465 AAAAAAGTAAA
1 AAAAAAG-AAA
120271476 AAAAAATGAAA
1 AAAAAA-GAAA
*
120271487 ATAAAAGAAAA
1 AAAAAAG-AAA
120271498 AACAAAAGAAA
1 AA-AAAAGAAA
* *
120271509 TATGAAAATAAA
1 -A-AAAAAGAAA
120271521 AGAAAAAGAAA
1 A-AAAAAGAAA
120271532 ACAAAAAGAAA
1 A-AAAAAGAAA
120271543 A
1 A
120271544 GTGATGGCGC
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
10 1 0.02
11 40 0.73
12 14 0.25
ACGTcount: A:0.80, C:0.03, G:0.10, T:0.08
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:120271499 original size:29 final size:29
Alignment explanation
Indices: 120271460--120271543 Score: 102
Period size: 29 Copynumber: 3.0 Consensus size: 29
120271450 ATTAAGGAAC
*
120271460 AAAATAAAAAAGTAAAA-AAAAATGAAAAT
1 AAAAGAAAAAAG-AAAACAAAAATGAAAAT
* * *
120271489 AAAAGAAAAAACAAAAGAAATATGAAAAT
1 AAAAGAAAAAAGAAAACAAAAATGAAAAT
120271518 AAAAG-AAAAAGAAAACAAAAA-GAAAA
1 AAAAGAAAAAAGAAAACAAAAATGAAAA
120271544 GTGATGGCGC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.10
28 17 0.35
29 26 0.54
ACGTcount: A:0.80, C:0.02, G:0.10, T:0.08
Consensus pattern (29 bp):
AAAAGAAAAAAGAAAACAAAAATGAAAAT
Found at i:120271516 original size:17 final size:16
Alignment explanation
Indices: 120271496--120271543 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
120271486 AATAAAAGAA
*
120271496 AAAACAAAAGAAATATG
1 AAAACAAAAGAAA-AAG
*
120271513 AAAATAAAAGAAAAAG
1 AAAACAAAAGAAAAAG
120271529 AAAACAAAAAGAAAA
1 AAAAC-AAAAGAAAA
120271544 GTGATGGCGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 6 0.22
17 21 0.78
ACGTcount: A:0.79, C:0.04, G:0.10, T:0.06
Consensus pattern (16 bp):
AAAACAAAAGAAAAAG
Found at i:120273036 original size:14 final size:16
Alignment explanation
Indices: 120273016--120273055 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
120273006 CTTAATATCT
120273016 ATAAATTTTTAT-AAC
1 ATAAATTTTTATAAAC
*
120273031 -TAAA-TTTAATAAAC
1 ATAAATTTTTATAAAC
120273045 ATAAATTTTTA
1 ATAAATTTTTA
120273056 AAAAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 5
0.74 0.07 0.19
Matches are distributed among these distances:
13 5 0.25
14 7 0.35
15 4 0.20
16 4 0.20
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAAATTTTTATAAAC
Found at i:120277848 original size:15 final size:16
Alignment explanation
Indices: 120277811--120277851 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
120277801 ATAATAAAAA
120277811 TATAATTTTATTATTT
1 TATAATTTTATTATTT
120277827 TAGTAA-TTTA-TATTTT
1 TA-TAATTTTATTA-TTT
120277843 TATAATTTT
1 TATAATTTT
120277852 TAAAAGATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 5 0.23
16 14 0.64
17 3 0.14
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (16 bp):
TATAATTTTATTATTT
Found at i:120278942 original size:2 final size:2
Alignment explanation
Indices: 120278929--120278967 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
120278919 ATTTAGCACC
*
120278929 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
120278968 CGAGTGAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:120284581 original size:18 final size:18
Alignment explanation
Indices: 120284541--120284583 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
120284531 GAATAGGTTT
120284541 TTAATTAAATAAATTTAA
1 TTAATTAAATAAATTTAA
* *
120284559 GTAATTAAA-AATTTTAAA
1 TTAATTAAATAAATTT-AA
120284577 TTAATTA
1 TTAATTA
120284584 CATCTTGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
TTAATTAAATAAATTTAA
Found at i:120286668 original size:96 final size:96
Alignment explanation
Indices: 120286502--120286681 Score: 261
Period size: 96 Copynumber: 1.9 Consensus size: 96
120286492 TTATGTCAAA
* * * * *
120286502 TAAAAATATAAAGATTAAATCATAATTTTGAGTTTAATAGAGGAACCAAAACTGCAAGTTTACCA
1 TAAAAATATAAAGATTAAATCATAAATTTGAGTTTAACAAAGGAACCAAAACTGAAAATTTACCA
120286567 CTATAATTGAAATGGCAAACAAAAGCTGACG
66 CTATAATTGAAATGGCAAACAAAAGCTGACG
* * * *
120286598 TAAAAATTTAAAGATTATATCTTAAATTTGAGTTTAACAAAGGGACCAAAACTGAAAATTTACCA
1 TAAAAATATAAAGATTAAATCATAAATTTGAGTTTAACAAAGGAACCAAAACTGAAAATTTACCA
* *
120286663 TTATAATTTAAATGGCAAA
66 CTATAATTGAAATGGCAAA
120286682 AAGAGTGGCC
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 73 1.00
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (96 bp):
TAAAAATATAAAGATTAAATCATAAATTTGAGTTTAACAAAGGAACCAAAACTGAAAATTTACCA
CTATAATTGAAATGGCAAACAAAAGCTGACG
Found at i:120295040 original size:6 final size:6
Alignment explanation
Indices: 120294933--120295032 Score: 159
Period size: 6 Copynumber: 16.7 Consensus size: 6
120294923 TGATTCTTGA
120294933 GTATAT GTATAT GTATAT GTATAT G--TAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
*
120294979 GTATAT GTATAT GTATAT GAATAT GTATAT GTATAT GTATAT GCGTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT --GTATAT
120295029 GTAT
1 GTAT
120295033 GTTTATGTGC
Statistics
Matches: 88, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
4 4 0.05
6 78 0.89
8 6 0.07
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.48
Consensus pattern (6 bp):
GTATAT
Found at i:120295047 original size:20 final size:20
Alignment explanation
Indices: 120294934--120295047 Score: 113
Period size: 18 Copynumber: 6.2 Consensus size: 20
120294924 GATTCTTGAG
120294934 TATATGTATATGTATATG--
1 TATATGTATATGTATATGCA
120294952 TATATG--TATGTATATG--
1 TATATGTATATGTATATGCA
120294968 TATATGTATATGTATATG--
1 TATATGTATATGTATATGCA
*
120294986 TATATGTATATGAATATG--
1 TATATGTATATGTATATGCA
*
120295004 TATATGTATATGTATATGCG
1 TATATGTATATGTATATGCA
* * *
120295024 TATATGTATGTTTATGTGCA
1 TATATGTATATGTATATGCA
120295044 TATA
1 TATA
120295048 CATGTAGTGT
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
16 16 0.19
18 50 0.58
20 20 0.23
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (20 bp):
TATATGTATATGTATATGCA
Found at i:120298465 original size:41 final size:39
Alignment explanation
Indices: 120298423--120298498 Score: 102
Period size: 39 Copynumber: 1.9 Consensus size: 39
120298413 AAATGTTATA
120298423 AAAATA-T-TTTAAATTTGTACAGAAAATTATTAAAAATAAT
1 AAAATATTATTTAAATTT-T-CA-AAAATTATTAAAAATAAT
*
120298463 AAAATATTATTTAAATTTTTAAAAATTATTAAAAAT
1 AAAATATTATTTAAATTTTCAAAAATTATTAAAAAT
120298499 TGTAAATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
39 15 0.45
40 7 0.21
41 2 0.06
42 9 0.27
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (39 bp):
AAAATATTATTTAAATTTTCAAAAATTATTAAAAATAAT
Found at i:120298494 original size:10 final size:10
Alignment explanation
Indices: 120298445--120298499 Score: 60
Period size: 10 Copynumber: 5.6 Consensus size: 10
120298435 ATTTGTACAG
120298445 AAAATTATTA
1 AAAATTATTA
*
120298455 AAAA-TAATA
1 AAAATTATTA
120298464 AAATATTATT-
1 AAA-ATTATTA
* *
120298474 TAAATTTTTA
1 AAAATTATTA
120298484 AAAATTATTA
1 AAAATTATTA
120298494 AAAATT
1 AAAATT
120298500 GTAAATAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
9 12 0.33
10 21 0.58
11 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
AAAATTATTA
Found at i:120298504 original size:19 final size:19
Alignment explanation
Indices: 120298316--120298510 Score: 80
Period size: 19 Copynumber: 10.2 Consensus size: 19
120298306 TGTAATTTTT
*
120298316 TTATTAAAAATCGTATAAAA
1 TTATTAAAAATTGTA-AAAA
*
120298336 -TATTTAAAAATGGT-AAAA
1 TTA-TTAAAAATTGTAAAAA
* *
120298354 TTATT-TAAATTATTAAAAA
1 TTATTAAAAATT-GTAAAAA
** *
120298373 AAACTAAAAATTGTAAAAA
1 TTATTAAAAATTGTAAAAA
* * *
120298392 --CTTAAATATTG-AATAA
1 TTATTAAAAATTGTAAAAA
** *
120298408 TTATTAAATGTTATAAAAA
1 TTATTAAAAATTGTAAAAA
* *
120298427 -TATTTTAAATTTGTACAGAAAA
1 TTA-TTAAAAATTGT--A-AAAA
**
120298449 TTATTAAAAATAATAAAATA
1 TTATTAAAAATTGTAAAA-A
* * *
120298469 TTATTTAAATTTTTAAAAA
1 TTATTAAAAATTGTAAAAA
120298488 TTATTAAAAATTGTAAATAA
1 TTATTAAAAATTGTAAA-AA
120298508 TTA
1 TTA
120298511 ACGAATCAAA
Statistics
Matches: 128, Mismatches: 32, Indels: 30
0.67 0.17 0.16
Matches are distributed among these distances:
16 4 0.03
17 12 0.09
18 17 0.13
19 45 0.35
20 36 0.28
21 1 0.01
22 11 0.09
23 2 0.02
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (19 bp):
TTATTAAAAATTGTAAAAA
Found at i:120298509 original size:20 final size:19
Alignment explanation
Indices: 120298445--120298510 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 19
120298435 ATTTGTACAG
*
120298445 AAAATTATTAAAAATAATA
1 AAAATTATTAAAAATTATA
* * *
120298464 AAATATTATTTAAATTTTTA
1 AAA-ATTATTAAAAATTATA
*
120298484 AAAATTATTAAAAATTGTA
1 AAAATTATTAAAAATTATA
120298503 AATAATTA
1 AA-AATTA
120298511 ACGAATCAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
19 18 0.47
20 20 0.53
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
AAAATTATTAAAAATTATA
Found at i:120298788 original size:19 final size:19
Alignment explanation
Indices: 120298746--120298789 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
120298736 TTTTACAATT
**
120298746 TTTTAATAATTTTTCCAAA
1 TTTTAATAATTTTAACAAA
* *
120298765 ATTTAATAATTTTAATAAA
1 TTTTAATAATTTTAACAAA
120298784 TTTTAA
1 TTTTAA
120298790 ACTAAAGTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (19 bp):
TTTTAATAATTTTAACAAA
Found at i:120313611 original size:24 final size:24
Alignment explanation
Indices: 120313582--120313637 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
120313572 TTCTAATTAA
*
120313582 ATTTTATAAATAATTAATATTTAT
1 ATTTTATAAATAATTAAAATTTAT
* *
120313606 -TGTTTAAAAATATTTAAAATTTAT
1 AT-TTTATAAATAATTAAAATTTAT
120313630 ATTTTATA
1 ATTTTATA
120313638 TATTAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.04
24 24 0.92
25 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTTTATAAATAATTAAAATTTAT
Found at i:120316050 original size:69 final size:68
Alignment explanation
Indices: 120315865--120316050 Score: 212
Period size: 69 Copynumber: 2.7 Consensus size: 68
120315855 TCATAAAATA
* * * * *
120315865 AGATATATCTCCAGAAAATTTATTCGAACG-GAGATCTAAATACTCGAGCAACTTTAAATTTTTA
1 AGATATATCTCCAGAAAAATTATT-GAA-GAGATATCTAAATACTTGAGCAACCTTAAATTCTTA
*
120315929 AGCAT
64 AACAT
* * * *
120315934 AGATATATCTCCAAAAAAATTGTTGGAAGAGATATCTAAATACTTGAGTAACCTTAGATTCTTAA
1 AGATATATCTCCAGAAAAATTATT-GAAGAGATATCTAAATACTTGAGCAACCTTAAATTCTTAA
120315999 ACAT
65 ACAT
* * *
120316003 GGATATATTTCCAGAAAAATTATTGTAAGAGATATCTAAATATTTGAG
1 AGATATATCTCCAGAAAAATTATTG-AAGAGATATCTAAATACTTGAG
120316051 GGATGTGAGT
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
68 2 0.02
69 97 0.98
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (68 bp):
AGATATATCTCCAGAAAAATTATTGAAGAGATATCTAAATACTTGAGCAACCTTAAATTCTTAAA
CAT
Found at i:120318236 original size:32 final size:32
Alignment explanation
Indices: 120318200--120318266 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
120318190 CAGATATGAG
120318200 TATGTTCTGAAATACAAAAATGCAAAATCAAA
1 TATGTTCTGAAATACAAAAATGCAAAATCAAA
120318232 TATGTTCTGAAATACAAAAATGCAAAATCAAA
1 TATGTTCTGAAATACAAAAATGCAAAATCAAA
120318264 TAT
1 TAT
120318267 TTCAGGTAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.27
Consensus pattern (32 bp):
TATGTTCTGAAATACAAAAATGCAAAATCAAA
Found at i:120319104 original size:21 final size:20
Alignment explanation
Indices: 120319067--120319105 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
120319057 AGCAAAAATA
*
120319067 AAAAATAAAAAATATCAAAC
1 AAAAATAAAAAAAATCAAAC
120319087 AAAAATAAAAATAAATCAA
1 AAAAATAAAAA-AAATCAA
120319106 TGTCCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (20 bp):
AAAAATAAAAAAAATCAAAC
Found at i:120323327 original size:21 final size:21
Alignment explanation
Indices: 120323301--120323341 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
120323291 AGACGAGCGA
* *
120323301 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
120323322 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
120323342 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:120326339 original size:36 final size:38
Alignment explanation
Indices: 120326292--120326364 Score: 123
Period size: 36 Copynumber: 2.0 Consensus size: 38
120326282 GTACTTTCCT
*
120326292 GCAAATCTTTCTTTGTGG-AAA-TACAGTCGAATTTCA
1 GCAAATCTTTCTTTGTGGAAAATTACAGTCAAATTTCA
120326328 GCAAATCTTTCTTTGTGGAAAATTACAGTCAAATTTC
1 GCAAATCTTTCTTTGTGGAAAATTACAGTCAAATTTC
120326365 TTATTACTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 18 0.53
37 3 0.09
38 13 0.38
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (38 bp):
GCAAATCTTTCTTTGTGGAAAATTACAGTCAAATTTCA
Found at i:120331451 original size:24 final size:24
Alignment explanation
Indices: 120331424--120331470 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
120331414 TGATTAGTTT
* *
120331424 TAAATAAATATATTTGT-GTTTAAA
1 TAAAAAAAT-TATTGGTGGTTTAAA
120331448 TAAAAAAATTATTGGTGGTTTAA
1 TAAAAAAATTATTGGTGGTTTAA
120331471 TTGTTCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.43
Consensus pattern (24 bp):
TAAAAAAATTATTGGTGGTTTAAA
Found at i:120334235 original size:18 final size:18
Alignment explanation
Indices: 120334212--120334248 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
120334202 TTTATATAAT
*
120334212 ATTATAGATAGATTATAG
1 ATTATAGAGAGATTATAG
120334230 ATTATAGAGAGATTATAG
1 ATTATAGAGAGATTATAG
120334248 A
1 A
120334249 GAGAATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (18 bp):
ATTATAGAGAGATTATAG
Found at i:120334242 original size:11 final size:11
Alignment explanation
Indices: 120334228--120334257 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
120334218 GATAGATTAT
120334228 AGATTATAGAG
1 AGATTATAGAG
120334239 AGATTATAGAG
1 AGATTATAGAG
*
120334250 AGAATATA
1 AGATTATA
120334258 AATATATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (11 bp):
AGATTATAGAG
Found at i:120334534 original size:23 final size:27
Alignment explanation
Indices: 120334498--120334560 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
120334488 TTGGCTGTAT
120334498 CTCTCTCTTCCTTCAGTTTTCTTCTGC
1 CTCTCTCTTCCTTCAGTTTTCTTCTGC
120334525 CTCTCTCTTCCTTCAGTTTTCTTCTGC
1 CTCTCTCTTCCTTCAGTTTTCTTCTGC
120334552 CTCTCTCTT
1 CTCTCTCTT
120334561 TCATTCGAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.03, C:0.38, G:0.06, T:0.52
Consensus pattern (27 bp):
CTCTCTCTTCCTTCAGTTTTCTTCTGC
Found at i:120348815 original size:16 final size:16
Alignment explanation
Indices: 120348782--120348815 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
120348772 AAAAAAATTC
* *
120348782 AAATATATATACACAT
1 AAATATATATAAAAAT
120348798 AAATATATATAAAAAT
1 AAATATATATAAAAAT
120348814 AA
1 AA
120348816 GTAAATTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATATATATAAAAAT
Found at i:120349330 original size:21 final size:22
Alignment explanation
Indices: 120349306--120349349 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
120349296 AAACACCATT
120349306 TTAAAAAAAAAATTTAA-ATCG
1 TTAAAAAAAAAATTTAATATCG
* *
120349327 TTAAATAATAAATTTAATATCG
1 TTAAAAAAAAAATTTAATATCG
120349349 T
1 T
120349350 GTTTTGAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (22 bp):
TTAAAAAAAAAATTTAATATCG
Found at i:120349484 original size:24 final size:24
Alignment explanation
Indices: 120349457--120349503 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
120349447 AAATTTAATA
120349457 TCGTGCTTTGAGAAAAATAAACTC
1 TCGTGCTTTGAGAAAAATAAACTC
120349481 TCGTGCTTTGAGAAAAATAAACT
1 TCGTGCTTTGAGAAAAATAAACT
120349504 ATGTATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (24 bp):
TCGTGCTTTGAGAAAAATAAACTC
Found at i:120353823 original size:16 final size:17
Alignment explanation
Indices: 120353792--120353834 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
120353782 ATCAATTGAA
120353792 ATAATTTTTTATTTTTT
1 ATAATTTTTTATTTTTT
120353809 A-AATATTTTTA-TTTTT
1 ATAAT-TTTTTATTTTTT
120353825 ATAATTTTTT
1 ATAATTTTTT
120353835 GAATGATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
ATAATTTTTTATTTTTT
Found at i:120353834 original size:17 final size:17
Alignment explanation
Indices: 120353792--120353834 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
120353782 ATCAATTGAA
120353792 ATAA-TTTTTTATTTTT
1 ATAATTTTTTTATTTTT
*
120353808 -TAAATATTTTTATTTTT
1 AT-AATTTTTTTATTTTT
120353825 ATAATTTTTT
1 ATAATTTTTT
120353835 GAATGATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
15 1 0.05
16 2 0.09
17 18 0.82
18 1 0.05
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
ATAATTTTTTTATTTTT
Found at i:120357579 original size:23 final size:23
Alignment explanation
Indices: 120357536--120357582 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
120357526 AACTTTTGTC
*
120357536 AAAATACAAATATTAAATTAAAA
1 AAAATACAAATATCAAATTAAAA
**
120357559 AAAATACAAATATCACTTTAAAA
1 AAAATACAAATATCAAATTAAAA
120357582 A
1 A
120357583 TTTATATCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.26
Consensus pattern (23 bp):
AAAATACAAATATCAAATTAAAA
Found at i:120358246 original size:22 final size:22
Alignment explanation
Indices: 120358210--120358266 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
120358200 TTAAAAATAT
* * *
120358210 TAATTTTGTTAAACATTAGATG
1 TAATTTTATTAAACACTAAATG
120358232 ATAATTTT-TTAAACACTAAATG
1 -TAATTTTATTAAACACTAAATG
120358254 TAATTTTATTAAA
1 TAATTTTATTAAA
120358267 ATTTAATCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 7 0.23
22 17 0.55
23 7 0.23
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (22 bp):
TAATTTTATTAAACACTAAATG
Found at i:120358524 original size:2 final size:2
Alignment explanation
Indices: 120358517--120358556 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
120358507 ATGTGATGTG
120358517 TA TA TA TA TA TA TA TA TA TA 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
120358557 CTCTTTTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:120359268 original size:18 final size:18
Alignment explanation
Indices: 120359238--120359272 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
120359228 ATAAAATATG
120359238 TATAATAAAATTAAAATT
1 TATAATAAAATTAAAATT
120359256 TATAA-AAATATTAAAAT
1 TATAATAAA-ATTAAAAT
120359273 AAAATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TATAATAAAATTAAAATT
Found at i:120364641 original size:12 final size:12
Alignment explanation
Indices: 120364621--120364651 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
120364611 TATTGTCATC
120364621 TCTAA-TCGAAT
1 TCTAATTCGAAT
120364632 TCTAATTCGAAT
1 TCTAATTCGAAT
120364644 TCTAATTC
1 TCTAATTC
120364652 TGAAATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (12 bp):
TCTAATTCGAAT
Found at i:120370181 original size:22 final size:20
Alignment explanation
Indices: 120370134--120370182 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
120370124 ATATTTTTAA
*
120370134 ATATATTTATAAAAATATGT
1 ATATATTAATAAAAATATGT
* *
120370154 AAATATTAATAAAAAATTATTT
1 ATATATTAAT-AAAAA-TATGT
120370176 ATATATT
1 ATATATT
120370183 TATTTATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 8 0.35
21 5 0.22
22 10 0.43
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
ATATATTAATAAAAATATGT
Found at i:120370630 original size:15 final size:14
Alignment explanation
Indices: 120370606--120370688 Score: 50
Period size: 14 Copynumber: 6.0 Consensus size: 14
120370596 ATTCTAAAAT
120370606 ATATATAATTAATTA
1 ATAT-TAATTAATTA
120370621 ATATTAAATTAA--A
1 ATATT-AATTAATTA
*
120370634 AT-TT-ATTAAATCA
1 ATATTAATT-AATTA
* *
120370647 ATATTATTTAATTT
1 ATATTAATTAATTA
*
120370661 TTATTAATT-ATTA
1 ATATTAATTAATTA
*
120370674 AAATTAAATTAATTA
1 ATATT-AATTAATTA
120370689 TAATTATTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 16
0.68 0.11 0.21
Matches are distributed among these distances:
10 3 0.06
11 2 0.04
12 2 0.04
13 12 0.23
14 17 0.33
15 16 0.31
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATTAATTAATTA
Found at i:120370641 original size:25 final size:24
Alignment explanation
Indices: 120370613--120370670 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
120370603 AATATATATA
120370613 ATTAATTAATATTAAATTAAAATTT
1 ATTAATTAATATT-AATTAAAATTT
* * **
120370638 ATTAAATCAATATTATTTAATTTTT
1 ATT-AATTAATATTAATTAAAATTT
120370663 ATTAATTA
1 ATTAATTA
120370671 TTAAAATTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
24 4 0.15
25 14 0.52
26 9 0.33
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
ATTAATTAATATTAATTAAAATTT
Found at i:120375507 original size:2 final size:2
Alignment explanation
Indices: 120375500--120375537 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
120375490 GGTTGATGAT
* *
120375500 TA TA TA TA GA TA TA TA 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
120375538 AAGCAAGCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:120386959 original size:52 final size:52
Alignment explanation
Indices: 120386902--120387010 Score: 191
Period size: 52 Copynumber: 2.1 Consensus size: 52
120386892 GCAGACCCTG
**
120386902 AAATTTAAGTTTTAGGAGTTCGGTGAAAATTTTTAAAAAAAAATTGAGGGTC
1 AAATTTAAGTTTTAGGAGTTCGGTGAAAATTTAAAAAAAAAAATTGAGGGTC
120386954 AAATTTAAGTTTTAGGAGTTCGGTGAAAATTTAAAAAAAAAAATTGAGGGTC
1 AAATTTAAGTTTTAGGAGTTCGGTGAAAATTTAAAAAAAAAAATTGAGGGTC
*
120387006 TAATT
1 AAATT
120387011 GAGATTTTCA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.34
Consensus pattern (52 bp):
AAATTTAAGTTTTAGGAGTTCGGTGAAAATTTAAAAAAAAAAATTGAGGGTC
Found at i:120395666 original size:21 final size:19
Alignment explanation
Indices: 120395642--120395680 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
120395632 CATATATCGA
120395642 AGTCATTATGAAATATTTTGG
1 AGTCATTAT--AATATTTTGG
*
120395663 AGTCTTTATAATATTTTG
1 AGTCATTATAATATTTTG
120395681 ATTTTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
21 8 0.47
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (19 bp):
AGTCATTATAATATTTTGG
Found at i:120426760 original size:25 final size:25
Alignment explanation
Indices: 120426731--120426806 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
120426721 TACAACTAAT
120426731 TAAACTAAAACAAAGGGATTATATG
1 TAAACTAAAACAAAGGGATTATATG
* ***
120426756 TAAAC-AATTAC--AGTCTTTA-AT-
1 TAAACTAA-AACAAAGGGATTATATG
120426777 TAAACTAAAACAAAGGGATTATATG
1 TAAACTAAAACAAAGGGATTATATG
120426802 TAAAC
1 TAAAC
120426807 AATTACAGTC
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
21 7 0.19
22 4 0.11
23 10 0.27
24 4 0.11
25 12 0.32
ACGTcount: A:0.50, C:0.11, G:0.12, T:0.28
Consensus pattern (25 bp):
TAAACTAAAACAAAGGGATTATATG
Found at i:120426794 original size:46 final size:46
Alignment explanation
Indices: 120426727--120426819 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
120426717 AAGATACAAC
120426727 TAATTAAACTAAAACAAAGGGATTATATGTAAACAATTACAGTCTT
1 TAATTAAACTAAAACAAAGGGATTATATGTAAACAATTACAGTCTT
120426773 TAATTAAACTAAAACAAAGGGATTATATGTAAACAATTACAGTCTT
1 TAATTAAACTAAAACAAAGGGATTATATGTAAACAATTACAGTCTT
120426819 T
1 T
120426820 CCCTTCTATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (46 bp):
TAATTAAACTAAAACAAAGGGATTATATGTAAACAATTACAGTCTT
Found at i:120430496 original size:3 final size:3
Alignment explanation
Indices: 120430488--120430527 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
120430478 TAATTTTCCA
120430488 ATT ATT ATT ATT ATT ATT ATT A-T ATT -TT -TT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
120430528 AAATCCTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 8 0.24
3 26 0.76
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
ATT
Found at i:120431346 original size:11 final size:11
Alignment explanation
Indices: 120431319--120431361 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
120431309 TGACCTTTCC
120431319 AAGGTATGGG-
1 AAGGTATGGGA
*
120431329 TAGGTATGGGA
1 AAGGTATGGGA
*
120431340 AAGGTATGGGC
1 AAGGTATGGGA
120431351 AAGGTATGGGA
1 AAGGTATGGGA
120431362 TATATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:120431358 original size:22 final size:21
Alignment explanation
Indices: 120431319--120431361 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
120431309 TGACCTTTCC
*
120431319 AAGGTATGGGTAGGTATGGGA
1 AAGGTATGGGAAGGTATGGGA
120431340 AAGGTATGGGCAAGGTATGGGA
1 AAGGTATGGG-AAGGTATGGGA
120431362 TATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (21 bp):
AAGGTATGGGAAGGTATGGGA
Found at i:120435453 original size:36 final size:36
Alignment explanation
Indices: 120435397--120435466 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
120435387 CCCAGCTACT
* * *
120435397 GTATACGTGAACAGTACCGTATATGTGAATAGTACA
1 GTATACATGAACAGTACCGTATACGAGAATAGTACA
* *
120435433 GTATACATGAATAGTGCCGTATACGAGAATAGTA
1 GTATACATGAACAGTACCGTATACGAGAATAGTA
120435467 TCGTAAAATG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (36 bp):
GTATACATGAACAGTACCGTATACGAGAATAGTACA
Found at i:120435462 original size:18 final size:18
Alignment explanation
Indices: 120435397--120435471 Score: 71
Period size: 18 Copynumber: 4.2 Consensus size: 18
120435387 CCCAGCTACT
* *
120435397 GTATACGTGAACAGTACC
1 GTATACGAGAATAGTACC
* * *
120435415 GTATATGTGAATAGTACA
1 GTATACGAGAATAGTACC
*
120435433 GTATAC-ATGAATAGTGCC
1 GTATACGA-GAATAGTACC
*
120435451 GTATACGAGAATAGTATC
1 GTATACGAGAATAGTACC
120435469 GTA
1 GTA
120435472 AAATGGTCGT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
18 45 0.98
19 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (18 bp):
GTATACGAGAATAGTACC
Found at i:120436031 original size:11 final size:11
Alignment explanation
Indices: 120436004--120436046 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
120435994 TGACCTTTCC
120436004 AAGGTATGGG-
1 AAGGTATGGGA
*
120436014 TAGGTATGGGA
1 AAGGTATGGGA
*
120436025 AAGGTATGGGC
1 AAGGTATGGGA
120436036 AAGGTATGGGA
1 AAGGTATGGGA
120436047 TATATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:120436043 original size:22 final size:21
Alignment explanation
Indices: 120436004--120436046 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
120435994 TGACCTTTCC
*
120436004 AAGGTATGGGTAGGTATGGGA
1 AAGGTATGGGAAGGTATGGGA
120436025 AAGGTATGGGCAAGGTATGGGA
1 AAGGTATGGG-AAGGTATGGGA
120436047 TATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (21 bp):
AAGGTATGGGAAGGTATGGGA
Found at i:120437038 original size:24 final size:25
Alignment explanation
Indices: 120437006--120437052 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
120436996 CATTGACTAT
*
120437006 AAAGAAAAACTAAAGGAA-AAAGAA
1 AAAGAAAAACAAAAGGAAGAAAGAA
*
120437030 AAAGAAAAAGAAAAGGAAGAAAG
1 AAAGAAAAACAAAAGGAAGAAAG
120437053 GAAGATGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.02
Consensus pattern (25 bp):
AAAGAAAAACAAAAGGAAGAAAGAA
Found at i:120438313 original size:2 final size:2
Alignment explanation
Indices: 120438306--120438342 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
120438296 GCAAGTTATT
*
120438306 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
120438343 CTTATTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:120438913 original size:23 final size:25
Alignment explanation
Indices: 120438887--120438934 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
120438877 TTTTTTTATA
* *
120438887 TATTTTT-TGAAATTTGAA-TATTT
1 TATTTTTATAAAATTTAAATTATTT
120438910 TATTTTTATAAAATTTAAATTATTT
1 TATTTTTATAAAATTTAAATTATTT
120438935 GTTGATGTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 9 0.43
25 5 0.24
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (25 bp):
TATTTTTATAAAATTTAAATTATTT
Found at i:120439079 original size:25 final size:23
Alignment explanation
Indices: 120439051--120439109 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 23
120439041 AACATTTTCA
* *
120439051 TTAAAGAAAAATAATTTAACTTTTT
1 TTAAA-AAAAATAA-TTAAATTTAT
120439076 TTAAAAAATAAATAATTAAATTTAT
1 TT-AAAAA-AAATAATTAAATTTAT
120439101 TTAAAAAAA
1 TTAAAAAAA
120439110 GAAAAAGAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 2 0.07
24 5 0.17
25 14 0.47
26 9 0.30
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
TTAAAAAAAATAATTAAATTTAT
Found at i:120439107 original size:26 final size:26
Alignment explanation
Indices: 120439059--120439109 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
120439049 CATTAAAGAA
* *
120439059 AAATAATTTAACTTTTTTTAAAAAAT
1 AAATAATTTAAATTTTTTAAAAAAAT
120439085 AAATAA-TTAAATTTATTTAAAAAAA
1 AAATAATTTAAATTT-TTTAAAAAAA
120439110 GAAAAAGAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (26 bp):
AAATAATTTAAATTTTTTAAAAAAAT
Found at i:120441122 original size:25 final size:26
Alignment explanation
Indices: 120441085--120441136 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
120441075 TCAAACATGC
120441085 ATTTAGGTCAATTTA-ACCCTAGGGGT
1 ATTTAGGTCAATTTACA-CCTAGGGGT
* *
120441111 ATTTCGGT-AATTTTCACCTAGGGGT
1 ATTTAGGTCAATTTACACCTAGGGGT
120441136 A
1 A
120441137 AACAGTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (26 bp):
ATTTAGGTCAATTTACACCTAGGGGT
Found at i:120442648 original size:26 final size:26
Alignment explanation
Indices: 120442612--120442747 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
120442602 ACATGAATTC
120442612 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
120442638 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
120442664 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
120442690 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
120442716 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
120442742 TTATCA
1 TTATCA
120442748 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:120443386 original size:17 final size:16
Alignment explanation
Indices: 120443362--120443408 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
120443352 GTAAAATTTG
120443362 ATATAATATAAAAATA
1 ATATAATATAAAAATA
* *
120443378 ATATCAATATAATTAGTA
1 ATAT-AATATAA-AAATA
120443396 ATATAATATAAAA
1 ATATAATATAAAA
120443409 TAAAGGGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 5 0.19
17 14 0.54
18 7 0.27
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (16 bp):
ATATAATATAAAAATA
Found at i:120444905 original size:23 final size:24
Alignment explanation
Indices: 120444862--120444907 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
120444852 AATAAAGACT
120444862 AATGAAATAAAAATCTATTTAAAC
1 AATGAAATAAAAATCTATTTAAAC
120444886 AATGAAATAAAAATCT-TTTAAA
1 AATGAAATAAAAATCTATTTAAA
120444908 AGGTAATGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.30
Consensus pattern (24 bp):
AATGAAATAAAAATCTATTTAAAC
Found at i:120445538 original size:2 final size:2
Alignment explanation
Indices: 120445531--120445561 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
120445521 TTTTAAAAGA
*
120445531 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
120445562 CATAAATAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:120446667 original size:136 final size:136
Alignment explanation
Indices: 120446423--120446844 Score: 772
Period size: 136 Copynumber: 3.1 Consensus size: 136
120446413 CATTGGGCCT
** * *
120446423 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
120446488 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
120446553 ATATGC
131 ATATGC
*
120446559 AAGCCTATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
120446624 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
120446689 ATATGC
131 ATATGC
*
120446695 AAGCCCATTTAGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
120446760 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
120446825 CATATGC
130 CATATGC
120446832 AAGCCCATTTGGG
1 AAGCCCATTTGGG
120446845 GAGACTACTC
Statistics
Matches: 276, Mismatches: 9, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
136 255 0.92
137 21 0.08
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:120447153 original size:26 final size:27
Alignment explanation
Indices: 120447109--120447184 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
120447099 TCAATTTAAC
* * *
120447109 CCTAGGGGTATTTCGGTAATTTTGC-A
1 CCTAGGGGTATTACAGTAATTTTCCAA
*
120447135 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTACAGTAATTTTCCA-A
* *
120447163 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTACAGTAATTT
120447185 AGCTGCTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTACAGTAATTTTCCAA
Found at i:120448663 original size:26 final size:26
Alignment explanation
Indices: 120448627--120448736 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
120448617 CATGAATTTC
*
120448627 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
120448653 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
120448679 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
120448705 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
120448731 TTATCA
1 TTATCA
120448737 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:120452285 original size:50 final size:50
Alignment explanation
Indices: 120452186--120452279 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
120452176 GTTTGGCTGG
* *
120452186 GACAAAAGATCGATCAGTTGACATACATAATGATTTGTTAGATTTAAATT
1 GACAAAAGATCAATCAGTTGACATACATAATGATTTGTGAGATTTAAATT
* *
120452236 GACAAAATATCAATCAGTTGACATATATAATGATTT-TGA-ATTTA
1 GACAAAAGATCAATCAGTTGACATACATAATGATTTGTGAGATTTA
120452280 GAAATTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 5 0.12
49 2 0.05
50 33 0.82
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (50 bp):
GACAAAAGATCAATCAGTTGACATACATAATGATTTGTGAGATTTAAATT
Found at i:120458206 original size:26 final size:28
Alignment explanation
Indices: 120458177--120458228 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
120458167 TCAAATTCAA
120458177 AAAAATT-CAAAAAAT-TATTTAAAAAT
1 AAAAATTACAAAAAATATATTTAAAAAT
* *
120458203 AAAAATTATAAAAAATATTTTTAAAA
1 AAAAATTACAAAAAATATATTTAAAA
120458229 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 7 0.32
28 8 0.36
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (28 bp):
AAAAATTACAAAAAATATATTTAAAAAT
Found at i:120458206 original size:27 final size:30
Alignment explanation
Indices: 120458176--120458238 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 30
120458166 TTCAAATTCA
120458176 AAAAAATT-CAAAAAAT-TATTTAAAA-AT
1 AAAAAATTACAAAAAATATATTTAAAATAT
* * *
120458203 -AAAAATTATAAAAAATATTTTTAAAATTT
1 AAAAAATTACAAAAAATATATTTAAAATAT
120458232 AAAAAAT
1 AAAAAAT
120458239 CAATTAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 7 0.24
27 7 0.24
28 8 0.28
29 1 0.03
30 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (30 bp):
AAAAAATTACAAAAAATATATTTAAAATAT
Found at i:120458216 original size:16 final size:17
Alignment explanation
Indices: 120458186--120458219 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
120458176 AAAAAATTCA
*
120458186 AAAAATTATTTAAAAAT
1 AAAAATTATTAAAAAAT
120458203 AAAAATTA-TAAAAAAT
1 AAAAATTATTAAAAAAT
120458219 A
1 A
120458220 TTTTTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAATTATTAAAAAAT
Found at i:120459682 original size:15 final size:15
Alignment explanation
Indices: 120459658--120459687 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
120459648 TGAAATAACT
*
120459658 TTTTTTGTTTGTTTA
1 TTTTTGGTTTGTTTA
120459673 TTTTTGGTTTGTTTA
1 TTTTTGGTTTGTTTA
120459688 ATTGTAAGGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.00, G:0.17, T:0.77
Consensus pattern (15 bp):
TTTTTGGTTTGTTTA
Found at i:120459743 original size:9 final size:10
Alignment explanation
Indices: 120459724--120459761 Score: 53
Period size: 9 Copynumber: 4.0 Consensus size: 10
120459714 CTTATACCAA
120459724 AAACTAAAAT
1 AAACTAAAAT
120459734 AAAC-AAAAT
1 AAACTAAAAT
120459743 AAACTAAAA-
1 AAACTAAAAT
*
120459752 AAACCAAAAT
1 AAACTAAAAT
120459762 TAAAGTCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (10 bp):
AAACTAAAAT
Found at i:120459748 original size:19 final size:19
Alignment explanation
Indices: 120459724--120459761 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
120459714 CTTATACCAA
120459724 AAACTAAAATAAA-CAAAAT
1 AAACTAAAA-AAACCAAAAT
120459743 AAACTAAAAAAACCAAAAT
1 AAACTAAAAAAACCAAAAT
120459762 TAAAGTCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (19 bp):
AAACTAAAAAAACCAAAAT
Found at i:120459838 original size:21 final size:22
Alignment explanation
Indices: 120459791--120459847 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 22
120459781 TAATATCCAA
*
120459791 ACCCAAAATTCAAAATAACAAG
1 ACCCAAAATACAAAATAACAAG
* * *
120459813 GCCCAAAATACAAATTAA-ATG
1 ACCCAAAATACAAAATAACAAG
*
120459834 ACCCAATA-ACAAAA
1 ACCCAAAATACAAAA
120459848 AAAACTAGCC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
20 5 0.18
21 8 0.29
22 15 0.54
ACGTcount: A:0.58, C:0.23, G:0.05, T:0.14
Consensus pattern (22 bp):
ACCCAAAATACAAAATAACAAG
Found at i:120460104 original size:13 final size:13
Alignment explanation
Indices: 120460086--120460116 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
120460076 TACAACAAAG
*
120460086 ATTTTATTTATTT
1 ATTTTATTTACTT
120460099 ATTTTATTTACTT
1 ATTTTATTTACTT
120460112 ATTTT
1 ATTTT
120460117 TCGACTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (13 bp):
ATTTTATTTACTT
Found at i:120461387 original size:2 final size:2
Alignment explanation
Indices: 120461380--120461424 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
120461370 TTATTACCTT
120461380 TA TA TA TA TA TA TA TA TA TA TA 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
120461422 TA T
1 TA T
120461425 TGTATGTTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:120461682 original size:25 final size:24
Alignment explanation
Indices: 120461636--120461686 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
120461626 CTTATTTTTC
120461636 ATATTATTTTATACATTATTATTGT
1 ATATTATTTTATACATTATTA-TGT
* *
120461661 ATATTA-TTTATTCATTTTTTATGT
1 ATATTATTTTATACA-TTATTATGT
120461685 AT
1 AT
120461687 TATCAAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (24 bp):
ATATTATTTTATACATTATTATGT
Found at i:120469435 original size:93 final size:93
Alignment explanation
Indices: 120469322--120469492 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
120469312 GCCCATAAGC
* *
120469322 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
120469387 CGAGTTCGGATGCCTAGTTACATCTCAT
66 CGAGTTCGGATGCCTAGTTACATCTCAT
* *
120469415 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
120469480 CGAGTTCGGATGC
66 CGAGTTCGGATGC
120469493 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAT
Found at i:120469489 original size:46 final size:46
Alignment explanation
Indices: 120469314--120469489 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
120469304 TGTAACCCGC
* * * *
120469314 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
120469360 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
120469410 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
120469453 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
120469490 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:120472984 original size:93 final size:93
Alignment explanation
Indices: 120472872--120473043 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
120472862 GCCCATAAGT
* *
120472872 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
120472937 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
120472965 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTTAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
120473030 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
120473044 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Done.